Title: Structured Interface to Julia
Description: A Julia interface structured according to the general
form described in package 'XR' and in the book "Extending R".
Author: John M. Chambers
Maintainer: John Chambers <jmc@r-project.org>
Diff between XRJulia versions 0.9.0 dated 2019-05-05 and 0.9.0.1 dated 2024-04-20
DESCRIPTION | 6 - MD5 | 10 - build/vignette.rds |binary inst/doc/dataTransfer.R | 2 inst/doc/dataTransfer.html | 246 ++++++++++++++++++++++++++++++++++++++++++--- man/XRjulia-package.Rd | 4 6 files changed, 245 insertions(+), 23 deletions(-)
Title: Sampling Design for Spatially Explicit Capture-Recapture
Description: Tools for designing spatially explicit capture-recapture studies of animal populations. This is primarily a simulation manager for package 'secr'. Extensions in version 2.5.0 include costing and evaluation of detector spacing.
Author: Murray Efford [aut, cre] ,
Ian Durbach [ctb]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secrdesign versions 2.9.0 dated 2024-03-02 and 2.9.1 dated 2024-04-20
DESCRIPTION | 8 - MD5 | 25 ++--- NAMESPACE | 1 NEWS | 16 +++ R/estimateSummary.R | 10 +- R/run.scenarios.R | 175 +++++++++++++++++++------------------ R/scenarioSummary.R | 3 R/utility.R | 24 ++++- man/expand.arg.Rd |only man/run.scenarios.Rd | 10 +- man/scenarioSummary.Rd | 1 man/secrdesign-package.Rd | 4 src/secrdesign.h | 2 tests/testthat/test-dynamictraps.R | 2 14 files changed, 175 insertions(+), 106 deletions(-)
Title: Pam: Prediction Analysis for Microarrays
Description: Some functions for sample classification in microarrays.
Author: T. Hastie, R. Tibshirani, Balasubramanian Narasimhan, Gil Chu
Maintainer: Rob Tibshirani <tibs@stanford.edu>
Diff between pamr versions 1.56.1 dated 2019-04-22 and 1.56.2 dated 2024-04-20
pamr-1.56.1/pamr/INDEX |only pamr-1.56.2/pamr/DESCRIPTION | 6 +++--- pamr-1.56.2/pamr/MD5 | 7 +++---- pamr-1.56.2/pamr/data/khan.rda |binary pamr-1.56.2/pamr/man/pamr.internal.Rd | 4 ++-- 5 files changed, 8 insertions(+), 9 deletions(-)
Title: Gene Set Analysis
Description: Gene Set Analysis.
Author: Brad Efron and R. Tibshirani
Maintainer: Rob Tibshirani <tibs@stat.stanford.edu>
Diff between GSA versions 1.03.2 dated 2022-03-19 and 1.03.3 dated 2024-04-20
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- man/GSA.internal.Rd | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Perform Factorial Analysis from 'FactoMineR' with a Shiny
Application
Description: Perform factorial analysis with a menu and draw graphs interactively thanks to 'FactoMineR' and a Shiny application.
Author: Pauline Vaissie, Astrid Monge, Francois Husson
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between Factoshiny versions 2.5 dated 2023-11-20 and 2.6 dated 2024-04-20
Factoshiny-2.5/Factoshiny/build |only Factoshiny-2.5/Factoshiny/inst/doc/Factoshiny.R |only Factoshiny-2.5/Factoshiny/inst/doc/Factoshiny.Rnw |only Factoshiny-2.5/Factoshiny/inst/doc/Factoshiny.pdf |only Factoshiny-2.5/Factoshiny/vignettes |only Factoshiny-2.6/Factoshiny/DESCRIPTION | 6 +++--- Factoshiny-2.6/Factoshiny/MD5 | 12 ++++-------- Factoshiny-2.6/Factoshiny/inst/FactoPCAapp2/server.R | 5 +++-- Factoshiny-2.6/Factoshiny/inst/doc/vignettes |only 9 files changed, 10 insertions(+), 13 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining
Description: Exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical, Multiple Factor Analysis when variables are structured in groups, etc. and hierarchical cluster analysis. F. Husson, S. Le and J. Pages (2017).
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between FactoMineR versions 2.10 dated 2024-02-29 and 2.11 dated 2024-04-20
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/MCA.R | 3 +++ R/plot.CA.R | 7 ++++--- R/plot.PCA.R | 13 +++++-------- man/plot.CA.Rd | 4 ++-- 6 files changed, 22 insertions(+), 21 deletions(-)
Title: Drugs Databases Parser
Description: This tool is for parsing public drug databases such as 'DrugBank' XML database <https://go.drugbank.com/>.
The parsed data are then returned in a proper 'R' object called 'dvobject'.
Author: Mohammed Ali [aut, cre],
Ali Ezzat [aut],
Hao Zhu [rev],
Emma Mendelsohn [rev]
Maintainer: Mohammed Ali <moh_fcis@yahoo.com>
Diff between dbparser versions 2.0.2 dated 2024-02-16 and 2.0.3 dated 2024-04-20
DESCRIPTION | 6 MD5 | 18 NEWS.md | 12 R/drug_parsers.R | 4 README.md | 6 build/vignette.rds |binary inst/doc/dbparser.html | 35 inst/extdata/drugbank_record_biotech.xml | 4260 +++++++++++++------- inst/extdata/drugbank_record_small_molecule.xml | 4908 +++++++++++++++--------- tests/testthat/_snaps/drugbank-parser.md | 314 - 10 files changed, 6284 insertions(+), 3279 deletions(-)
Title: R Interface to 'Keras'
Description: Interface to 'Keras' <https://keras.io>, a high-level neural
networks 'API'. 'Keras' was developed with a focus on enabling fast experimentation,
supports both convolution based networks and recurrent networks (as well as
combinations of the two), and runs seamlessly on both 'CPU' and 'GPU' devices.
Author: Tomasz Kalinowski [ctb, cph, cre],
Daniel Falbel [ctb, cph],
JJ Allaire [aut, cph],
Francois Chollet [aut, cph],
RStudio [ctb, cph, fnd],
Google [ctb, cph, fnd],
Yuan Tang [ctb, cph] ,
Wouter Van Der Bijl [ctb, cph],
Martin Studer [ctb, cph],
Sigrid [...truncated...]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between keras versions 2.13.0 dated 2023-08-15 and 2.15.0 dated 2024-04-20
DESCRIPTION | 15 - MD5 | 306 ++++++++++++------------ NAMESPACE | 15 + NEWS.md | 11 R/backend.R | 2 R/callbacks.R | 2 R/datasets.R | 2 R/install.R | 2 R/layers-core.R | 2 R/layers-preprocessing.R | 2 R/metrics.R | 4 R/model.R | 12 R/optimizers.R | 14 - R/package.R | 18 + R/preprocessing.R | 2 R/utils.R | 22 - build/vignette.rds |binary inst/doc/applications.html | 2 inst/doc/custom_layers.html | 2 inst/doc/custom_models.html | 2 inst/doc/faq.R | 4 inst/doc/faq.html | 2 inst/doc/functional_api.R | 4 inst/doc/functional_api.html | 2 inst/doc/guide_keras.R | 6 inst/doc/guide_keras.html | 2 inst/doc/index.R | 10 inst/doc/index.html | 2 inst/doc/saving_serializing.html | 2 inst/doc/sequential_model.R | 4 inst/doc/sequential_model.html | 2 inst/doc/training_callbacks.html | 2 inst/doc/training_visualization.html | 2 man/adapt.Rd | 1 man/compile.keras.engine.training.Model.Rd | 2 man/custom_metric.Rd | 6 man/dataset_boston_housing.Rd | 2 man/dataset_fashion_mnist.Rd | 2 man/dataset_imdb.Rd | 5 man/dataset_mnist.Rd | 2 man/dataset_reuters.Rd | 2 man/evaluate.keras.engine.training.Model.Rd | 2 man/evaluate_generator.Rd | 2 man/fit.keras.engine.training.Model.Rd | 2 man/fit_generator.Rd | 2 man/fit_image_data_generator.Rd | 2 man/fit_text_tokenizer.Rd | 4 man/flow_images_from_directory.Rd | 2 man/get_config.Rd | 2 man/get_layer.Rd | 2 man/image_load.Rd | 4 man/image_to_array.Rd | 2 man/install_keras.Rd | 4 man/k_placeholder.Rd | 2 man/keras-package.Rd | 2 man/layer_activation.Rd | 2 man/layer_activation_elu.Rd | 4 man/layer_activation_leaky_relu.Rd | 4 man/layer_activation_parametric_relu.Rd | 4 man/layer_activation_relu.Rd | 4 man/layer_activation_selu.Rd | 4 man/layer_activation_softmax.Rd | 4 man/layer_activation_thresholded_relu.Rd | 4 man/layer_activity_regularization.Rd | 2 man/layer_attention.Rd | 2 man/layer_conv_1d.Rd | 4 man/layer_conv_1d_transpose.Rd | 4 man/layer_conv_2d.Rd | 4 man/layer_conv_2d_transpose.Rd | 4 man/layer_conv_3d.Rd | 4 man/layer_conv_3d_transpose.Rd | 4 man/layer_conv_lstm_2d.Rd | 6 man/layer_cropping_1d.Rd | 6 man/layer_cropping_2d.Rd | 6 man/layer_cropping_3d.Rd | 6 man/layer_depthwise_conv_1d.Rd | 6 man/layer_depthwise_conv_2d.Rd | 6 man/layer_dropout.Rd | 2 man/layer_flatten.Rd | 2 man/layer_input.Rd | 2 man/layer_lambda.Rd | 2 man/layer_masking.Rd | 2 man/layer_permute.Rd | 2 man/layer_repeat_vector.Rd | 2 man/layer_reshape.Rd | 2 man/layer_separable_conv_1d.Rd | 6 man/layer_separable_conv_2d.Rd | 6 man/layer_upsampling_1d.Rd | 6 man/layer_upsampling_2d.Rd | 6 man/layer_upsampling_3d.Rd | 6 man/layer_zero_padding_1d.Rd | 6 man/layer_zero_padding_2d.Rd | 6 man/layer_zero_padding_3d.Rd | 6 man/metric_accuracy.Rd | 6 man/metric_auc.Rd | 8 man/metric_binary_accuracy.Rd | 6 man/metric_binary_crossentropy.Rd | 6 man/metric_categorical_accuracy.Rd | 6 man/metric_categorical_crossentropy.Rd | 6 man/metric_categorical_hinge.Rd | 6 man/metric_cosine_similarity.Rd | 6 man/metric_false_negatives.Rd | 6 man/metric_false_positives.Rd | 6 man/metric_hinge.Rd | 6 man/metric_kullback_leibler_divergence.Rd | 6 man/metric_logcosh_error.Rd | 6 man/metric_mean.Rd | 4 man/metric_mean_absolute_error.Rd | 6 man/metric_mean_absolute_percentage_error.Rd | 6 man/metric_mean_iou.Rd | 6 man/metric_mean_relative_error.Rd | 6 man/metric_mean_squared_error.Rd | 8 man/metric_mean_squared_logarithmic_error.Rd | 6 man/metric_mean_tensor.Rd | 6 man/metric_mean_wrapper.Rd | 6 man/metric_poisson.Rd | 6 man/metric_precision.Rd | 4 man/metric_precision_at_recall.Rd | 4 man/metric_recall.Rd | 4 man/metric_recall_at_precision.Rd | 4 man/metric_root_mean_squared_error.Rd | 6 man/metric_sensitivity_at_specificity.Rd | 6 man/metric_sparse_categorical_accuracy.Rd | 6 man/metric_sparse_categorical_crossentropy.Rd | 6 man/metric_sparse_top_k_categorical_accuracy.Rd | 6 man/metric_specificity_at_sensitivity.Rd | 6 man/metric_squared_hinge.Rd | 6 man/metric_sum.Rd | 6 man/metric_top_k_categorical_accuracy.Rd | 6 man/metric_true_negatives.Rd | 6 man/metric_true_positives.Rd | 6 man/multi_gpu_model.Rd | 2 man/optimizer_adadelta.Rd | 4 man/optimizer_adagrad.Rd | 4 man/optimizer_adamax.Rd | 2 man/optimizer_ftrl.Rd | 4 man/optimizer_nadam.Rd | 4 man/optimizer_rmsprop.Rd | 4 man/optimizer_sgd.Rd | 4 man/pop_layer.Rd | 2 man/predict.keras.engine.training.Model.Rd | 2 man/predict_generator.Rd | 2 man/predict_on_batch.Rd | 2 man/predict_proba.Rd | 2 man/save_text_tokenizer.Rd | 4 man/sequences_to_matrix.Rd | 4 man/summary.keras.engine.training.Model.Rd | 2 man/text_tokenizer.Rd | 4 man/texts_to_matrix.Rd | 4 man/train_on_batch.Rd | 2 tests/testthat/digit2.jpeg |only tests/testthat/digit_resized.jpeg |only tests/testthat/test-layers-preprocessing.R | 4 tests/testthat/test-utils.R | 11 tools/find-api-diffs.R | 5 155 files changed, 529 insertions(+), 466 deletions(-)
Title: Generating Various Numerical Representation Schemes for Protein
Sequences
Description: Comprehensive toolkit for generating various numerical
features of protein sequences described in Xiao et al. (2015)
<DOI:10.1093/bioinformatics/btv042>. For full functionality,
the software 'ncbi-blast+' is needed, see
<https://blast.ncbi.nlm.nih.gov/doc/blast-help/downloadblastdata.html>
for more information.
Author: Nan Xiao [aut, cre] ,
Qing-Song Xu [aut],
Dong-Sheng Cao [aut],
Sebastian Mueller [ctb]
Maintainer: Nan Xiao <me@nanx.me>
Diff between protr versions 1.7-0 dated 2023-10-30 and 1.7-1 dated 2024-04-19
protr-1.7-0/protr/man/acc.Rd |only protr-1.7-1/protr/DESCRIPTION | 8 protr-1.7-1/protr/LICENSE | 2 protr-1.7-1/protr/MD5 | 37 - protr-1.7-1/protr/NAMESPACE | 1 protr-1.7-1/protr/NEWS.md | 84 ++-- protr-1.7-1/protr/R/misc-06-acc.R | 1 protr-1.7-1/protr/R/par-01-parSeqSim.R | 268 ++++++++++--- protr-1.7-1/protr/README.md | 2 protr-1.7-1/protr/build/partial.rdb |binary protr-1.7-1/protr/build/vignette.rds |binary protr-1.7-1/protr/inst/doc/protr.Rmd | 5 protr-1.7-1/protr/inst/doc/protr.html | 53 +- protr-1.7-1/protr/man/ACC.Rd |only protr-1.7-1/protr/man/crossSetSim.Rd | 21 - protr-1.7-1/protr/man/crossSetSimDisk.Rd |only protr-1.7-1/protr/man/figures/logo.png |binary protr-1.7-1/protr/man/parSeqSim.Rd | 17 protr-1.7-1/protr/man/parSeqSimDisk.Rd | 19 protr-1.7-1/protr/vignettes/protr.Rmd | 5 protr-1.7-1/protr/vignettes/protr.bib | 607 +++++++++++++++---------------- 21 files changed, 653 insertions(+), 477 deletions(-)
Title: Tour Methods for Multivariate Data Visualisation
Description: Implements geodesic interpolation and basis
generation functions that allow you to create new tour
methods from R.
Author: Hadley Wickham [aut, ctb] ,
Dianne Cook [aut, cre] ,
Nick Spyrison [ctb] ,
Ursula Laa [ctb] ,
H. Sherry Zhang [ctb] ,
Stuart Lee [ctb]
Maintainer: Dianne Cook <dicook@monash.edu>
Diff between tourr versions 1.1.0 dated 2023-08-24 and 1.2.0 dated 2024-04-19
DESCRIPTION | 10 +-- LICENSE | 2 MD5 | 62 +++++++++++++---------- NAMESPACE | 5 + NEWS.md | 12 ++++ R/anomaly-pursuit.r |only R/data.r | 7 +- R/display-faces.r | 12 ++-- R/display-groupxy.r | 6 +- R/display-xy.r | 119 +++++++++++++++++++++++++++++++++++++++++---- R/interesting-indices.r | 4 - R/linear-algebra.r | 22 ++++++++ R/tour-guided-anomaly.r |only R/tour-guided-section.r | 4 - R/tour-radial.r | 8 +-- R/util.r | 15 ++++- build/vignette.rds |binary data/flea.rda |binary data/flea_raw.rda |only inst/df.rda |only inst/doc/edges.R | 2 inst/doc/edges.html | 4 - inst/doc/tourr.R | 2 inst/vc.rda |only man/Flea-measurements.Rd | 8 ++- man/anomaly_index.Rd |only man/display_faces.Rd | 5 - man/display_groupxy.Rd | 4 + man/display_xy.Rd | 18 ++++++ man/draw_tour_axes.Rd | 17 ++++++ man/guided_anomaly_tour.Rd |only man/guided_section_tour.Rd | 4 - man/mahal_dist.Rd |only man/mapShapes.Rd | 4 + man/norm_bin.Rd | 4 - man/radial_tour.Rd | 8 +-- 36 files changed, 286 insertions(+), 82 deletions(-)
Title: Affinity Propagation Clustering
Description: Implements Affinity Propagation clustering introduced by Frey and
Dueck (2007) <DOI:10.1126/science.1136800>. The algorithms are largely
analogous to the 'Matlab' code published by Frey and Dueck.
The package further provides leveraged affinity propagation and an
algorithm for exemplar-based agglomerative clustering that can also be
used to join clusters obtained from affinity propagation. Various
plotting functions are available for analyzing clustering results.
Author: Ulrich Bodenhofer [aut, cre],
Johannes Palme [ctb],
Chrats Melkonian [ctb],
Andreas Kothmeier [aut],
Nikola Kostic [ctb]
Maintainer: Ulrich Bodenhofer <ulrich@bodenhofer.com>
Diff between apcluster versions 1.4.11 dated 2023-09-19 and 1.4.12 dated 2024-04-19
apcluster-1.4.11/apcluster/README.md |only apcluster-1.4.11/apcluster/TODO |only apcluster-1.4.11/apcluster/vignettes/JKU_EN_noName.pdf |only apcluster-1.4.11/apcluster/vignettes/bioinf-article.txi |only apcluster-1.4.11/apcluster/vignettes/bioinf-bar.png |only apcluster-1.4.11/apcluster/vignettes/bioinf.cls |only apcluster-1.4.12/apcluster/DESCRIPTION | 13 ++++----- apcluster-1.4.12/apcluster/MD5 | 21 ++++++---------- apcluster-1.4.12/apcluster/build/partial.rdb |binary apcluster-1.4.12/apcluster/build/vignette.rds |binary apcluster-1.4.12/apcluster/inst/NEWS | 4 +++ apcluster-1.4.12/apcluster/inst/doc/apcluster.Rnw | 14 ++++++---- apcluster-1.4.12/apcluster/inst/doc/apcluster.pdf |binary apcluster-1.4.12/apcluster/vignettes/apcluster.Rnw | 14 ++++++---- apcluster-1.4.12/apcluster/vignettes/ubmanual.cls |only 15 files changed, 34 insertions(+), 32 deletions(-)
Title: Nested Cross Validation for the Relaxed Lasso and Other Machine
Learning Models
Description: Cross validation informed Relaxed LASSO, Artificial Neural Network (ANN), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Recursive Partitioning ('RPART') or step wise regression models are fit. Nested cross validation (or analogous for the random forest) is used to estimate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (nested) cross validation.
For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients, making it difficult to get solutions from either glmnet() or cv.glmnet(). This may be remedied with the 'path=TRUE' options when calling glmnet() and cv.glmnet(). Within the glmnetr package the approach of path=TRUE is taken by default.
When fitting not a relaxed la [...truncated...]
Author: Walter K Kremers [aut, cre] ,
Nicholas B Larson [ctb]
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>
Diff between glmnetr versions 0.4-4 dated 2024-03-23 and 0.4-5 dated 2024-04-19
glmnetr-0.4-4/glmnetr/R/cv.glmnetr_240322.R |only glmnetr-0.4-4/glmnetr/R/nested.glmnetr_240322.R |only glmnetr-0.4-4/glmnetr/R/plot.cv.glmnetr_240322.R |only glmnetr-0.4-4/glmnetr/R/summary.nested.glmnetr_240322.R |only glmnetr-0.4-4/glmnetr/inst/doc/An_Overview_of_glmnetr_240322.pdf |only glmnetr-0.4-4/glmnetr/inst/doc/An_Overview_of_glmnetr_240322.pdf.asis |only glmnetr-0.4-4/glmnetr/inst/doc/Using_ann_tab_cv_240322.pdf |only glmnetr-0.4-4/glmnetr/inst/doc/Using_ann_tab_cv_240322.pdf.asis |only glmnetr-0.4-4/glmnetr/inst/doc/Using_stepreg_240322.pdf |only glmnetr-0.4-4/glmnetr/inst/doc/Using_stepreg_240322.pdf.asis |only glmnetr-0.4-4/glmnetr/vignettes/An_Overview_of_glmnetr_240322.Rmd |only glmnetr-0.4-4/glmnetr/vignettes/An_Overview_of_glmnetr_240322.pdf.asis |only glmnetr-0.4-4/glmnetr/vignettes/Using_ann_tab_cv_240322.Rmd |only glmnetr-0.4-4/glmnetr/vignettes/Using_ann_tab_cv_240322.pdf.asis |only glmnetr-0.4-4/glmnetr/vignettes/Using_stepreg_240322.Rmd |only glmnetr-0.4-4/glmnetr/vignettes/Using_stepreg_240322.pdf.asis |only glmnetr-0.4-5/glmnetr/DESCRIPTION | 12 - glmnetr-0.4-5/glmnetr/MD5 | 84 +++++----- glmnetr-0.4-5/glmnetr/NAMESPACE | 7 glmnetr-0.4-5/glmnetr/R/ann_tab_cv_240322.R | 3 glmnetr-0.4-5/glmnetr/R/calplot_240409.R |only glmnetr-0.4-5/glmnetr/R/cv.glmnetr_240412.R |only glmnetr-0.4-5/glmnetr/R/glmnetr_CIs_240410.R |only glmnetr-0.4-5/glmnetr/R/nested.glmnetr_240418.R |only glmnetr-0.4-5/glmnetr/R/plot.cv.glmnetr_240410.R |only glmnetr-0.4-5/glmnetr/R/summary.nested.glmnetr_240410.R |only glmnetr-0.4-5/glmnetr/build/vignette.rds |binary glmnetr-0.4-5/glmnetr/inst/doc/An_Overview_of_glmnetr_240420.pdf |only glmnetr-0.4-5/glmnetr/inst/doc/An_Overview_of_glmnetr_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/inst/doc/Calibration_240420.pdf |only glmnetr-0.4-5/glmnetr/inst/doc/Calibration_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/inst/doc/Ridge_and_Lasso_240322.pdf |only glmnetr-0.4-5/glmnetr/inst/doc/Ridge_and_Lasso_240322.pdf.asis |only glmnetr-0.4-5/glmnetr/inst/doc/Using_ann_tab_cv_240420.pdf |only glmnetr-0.4-5/glmnetr/inst/doc/Using_ann_tab_cv_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/inst/doc/Using_stepreg_240420.pdf |only glmnetr-0.4-5/glmnetr/inst/doc/Using_stepreg_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/man/calplot.Rd |only glmnetr-0.4-5/glmnetr/man/calplot0.Rd |only glmnetr-0.4-5/glmnetr/man/cv.glmnetr.Rd | 2 glmnetr-0.4-5/glmnetr/man/glmnetr.Rd | 2 glmnetr-0.4-5/glmnetr/man/glmnetr.cis.Rd |only glmnetr-0.4-5/glmnetr/man/glmnetr.cis0.Rd |only glmnetr-0.4-5/glmnetr/man/glmnetr.compcv.Rd | 4 glmnetr-0.4-5/glmnetr/man/glmnetr.compcv0.Rd | 2 glmnetr-0.4-5/glmnetr/man/glmnetr_devratio.Rd | 2 glmnetr-0.4-5/glmnetr/man/glmnetrll_1fold.Rd | 2 glmnetr-0.4-5/glmnetr/man/myaxis.Rd |only glmnetr-0.4-5/glmnetr/man/myrug.Rd |only glmnetr-0.4-5/glmnetr/man/nested.glmnetr.Rd | 4 glmnetr-0.4-5/glmnetr/man/plot.cv.glmnetr.Rd | 2 glmnetr-0.4-5/glmnetr/man/plot.glmnetr.Rd | 2 glmnetr-0.4-5/glmnetr/man/plot.nested.glmnetr.Rd | 4 glmnetr-0.4-5/glmnetr/man/predict.nested.glmnetr.Rd | 2 glmnetr-0.4-5/glmnetr/man/print.nested.glmnetr.Rd | 8 glmnetr-0.4-5/glmnetr/man/roundperf.Rd | 2 glmnetr-0.4-5/glmnetr/man/summary.nested.glmnetr.Rd | 5 glmnetr-0.4-5/glmnetr/vignettes/An_Overview_of_glmnetr_240420.Rmd |only glmnetr-0.4-5/glmnetr/vignettes/An_Overview_of_glmnetr_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/vignettes/Calibration_240420.Rmd |only glmnetr-0.4-5/glmnetr/vignettes/Calibration_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/vignettes/Ridge_and_Lasso_240322.Rmd |only glmnetr-0.4-5/glmnetr/vignettes/Ridge_and_Lasso_240322.pdf.asis |only glmnetr-0.4-5/glmnetr/vignettes/Using_ann_tab_cv_240420.Rmd |only glmnetr-0.4-5/glmnetr/vignettes/Using_ann_tab_cv_240420.pdf.asis |only glmnetr-0.4-5/glmnetr/vignettes/Using_stepreg_240420.Rmd |only glmnetr-0.4-5/glmnetr/vignettes/Using_stepreg_240420.pdf.asis |only 67 files changed, 87 insertions(+), 62 deletions(-)
Title: Functions for Estimating Centrographic Statistics
Description: A collection of functions for computing centrographic
statistics (e.g., standard distance, standard deviation
ellipse, standard deviation box) for observations taken at
point locations. Separate plotting functions have been
developed for each measure. Users interested in writing results
to ESRI shapefiles can do so by using results from 'aspace'
functions as inputs to the convert.to.shapefile() and
write.shapefile() functions in the 'shapefiles' library. We intend to
provide 'terra' integration for geographic data in a future release.
The 'aspace' package was originally conceived to aid in the analysis of
spatial patterns of travel behaviour (see Buliung and Remmel 2008
<doi:10.1007/s10109-008-0063-7>).
Author: Tarmo K. Remmel [aut, cre] ,
Randy Bui [aut],
Ron N. Buliung [aut]
Maintainer: Tarmo K. Remmel <remmelt@yorku.ca>
Diff between aspace versions 4.1.1 dated 2024-04-17 and 4.1.2 dated 2024-04-19
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/calc_sde.R | 12 +++++------- R/plot_centres.R | 4 ++-- 5 files changed, 20 insertions(+), 17 deletions(-)
Title: Propensity Score Methods for Assigning Treatment in Randomized
Trials
Description: Contains functions to run propensity-biased allocation to balance covariate distributions in sequential trials and propensity-constrained randomization to balance covariate distributions in trials with known baseline covariates at time of randomization. Currently only supports trials comparing two groups.
Author: Travis Loux
Maintainer: Travis Loux <travis.loux@slu.edu>
Diff between PropScrRand versions 1.1.1 dated 2022-04-23 and 1.1.2 dated 2024-04-19
PropScrRand-1.1.1/PropScrRand/man/PropScrRand-package.Rd |only PropScrRand-1.1.2/PropScrRand/DESCRIPTION | 8 ++++---- PropScrRand-1.1.2/PropScrRand/MD5 | 3 +-- 3 files changed, 5 insertions(+), 6 deletions(-)
Title: HMMs with Ordered Hidden States and Emission Densities
Description: Inference using a class of Hidden Markov models
(HMMs) called 'oHMMed'(ordered HMM with emission densities
<doi:10.1186/s12859-024-05751-4>): The 'oHMMed' algorithms identify
the number of comparably homogeneous regions within observed sequences
with autocorrelation patterns. These are modelled as discrete hidden
states; the observed data points are then realisations of continuous
probability distributions with state-specific means that enable
ordering of these distributions. The observed sequence is labelled
according to the hidden states, permitting only neighbouring states
that are also neighbours within the ordering of their associated
distributions. The parameters that characterise these state-specific
distributions are then inferred. Relevant for application to genomic
sequences, time series, or any other sequence data with serial
autocorrelation.
Author: Michal Majka [aut, cre] ,
Lynette Caitlin Mikula [aut] ,
Claus Vogl [aut]
Maintainer: Michal Majka <michalmajka@hotmail.com>
Diff between oHMMed versions 1.0.1 dated 2023-11-19 and 1.0.2 dated 2024-04-19
DESCRIPTION | 8 ++++---- MD5 | 19 ++++++++++--------- R/MCMC_normal.R | 10 +++++----- R/MCMC_poisson.R | 10 +++++----- R/additional_documentation.R | 6 +++--- R/zzz.R |only man/hmm_mcmc_gamma_poisson.Rd | 8 ++++---- man/hmm_mcmc_normal.Rd | 8 ++++---- man/oHMMed-package.Rd | 8 ++++---- man/posterior_prob_gamma_poisson.Rd | 2 +- man/posterior_prob_normal.Rd | 2 +- 11 files changed, 41 insertions(+), 40 deletions(-)
Title: The R WINS Package
Description: Calculate the win statistics (win ratio, net benefit and win odds) for prioritized multiple endpoints, plot the win statistics and win proportions over study time if at least one time-to-event endpoint is analyzed, and simulate datasets with dependent endpoints. The package can handle any type of outcomes (continuous, ordinal, binary, time-to-event) and allow users to perform stratified analysis, inverse probability of censoring weighting (IPCW) and inverse probability of treatment weighting (IPTW) analysis.
Author: Ying Cui [aut, cre],
Bo Huang [aut]
Maintainer: Ying Cui <cuiyingbeicheng@gmail.com>
Diff between WINS versions 1.4 dated 2024-04-07 and 1.4.1 dated 2024-04-19
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/win.stat.R | 8 ++++---- inst/doc/vignette.pdf |binary 4 files changed, 10 insertions(+), 10 deletions(-)
Title: Training Run Tools for 'TensorFlow'
Description: Create and manage unique directories for each 'TensorFlow'
training run. Provides a unique, time stamped directory for each run
along with functions to retrieve the directory of the latest run or
latest several runs.
Author: Tomasz Kalinowski [ctb, cre],
Daniel Falbel [ctb],
JJ Allaire [aut],
RStudio [cph, fnd],
Mike Bostock [cph] ,
Masayuki Tanaka [cph] ,
jQuery Foundation [cph] ,
jQuery contributors [cph] ,
Shaun Bowe [cph] ,
Materialize [cph] ,
Yuxi You [cph] ,
Kevin [...truncated...]
Maintainer: Tomasz Kalinowski <tomasz@rstudio.com>
Diff between tfruns versions 1.5.2 dated 2024-01-26 and 1.5.3 dated 2024-04-19
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/training_run.R | 4 ++-- build/vignette.rds |binary 5 files changed, 13 insertions(+), 9 deletions(-)
Title: Interface to 'REDCap'
Description: Access data stored in 'REDCap' databases using the Application
Programming Interface (API). 'REDCap' (Research Electronic Data CAPture;
<https://projectredcap.org>, Harris, et al. (2009) <doi:10.1016/j.jbi.2008.08.010>,
Harris, et al. (2019) <doi:10.1016/j.jbi.2019.103208>) is
a web application for building and managing online surveys and databases
developed at Vanderbilt University. The API allows users to access data
and project meta data (such as the data dictionary) from the web
programmatically. The 'redcapAPI' package facilitates the process of
accessing data with options to prepare an analysis-ready data set
consistent with the definitions in a database's data dictionary.
Author: Benjamin Nutter [ctb, aut],
Shawn Garbett [cre, ctb] ,
Savannah Obregon [ctb],
Thomas Obadia [ctb],
Marcus Lehr [ctb],
Brian High [ctb],
Stephen Lane [ctb],
Will Beasley [ctb],
Will Gray [ctb],
Nick Kennedy [ctb],
Tan Hsi-Nien [ctb],
Jeffrey Horner [ [...truncated...]
Maintainer: Shawn Garbett <shawn.garbett@vumc.org>
Diff between redcapAPI versions 2.8.4 dated 2024-01-31 and 2.9.0 dated 2024-04-19
DESCRIPTION | 8 MD5 | 232 +++++----- NAMESPACE | 1 NEWS | 13 R/constants.R | 12 R/createFileRepositoryFolder.R | 16 R/deleteArms.R | 20 R/deleteDags.R | 15 R/deleteEvents.R | 18 R/deleteFileRepository.R | 12 R/deleteFromFileRepository.R | 11 R/deleteUserRoles.R | 12 R/deleteUsers.R | 12 R/docsArmsMethods.R | 5 R/docsDagMethods.R | 3 R/docsEventMethods.R | 3 R/docsFileMethods.R | 3 R/docsFileRepositoryMethods.R | 3 R/docsFromFileRepository.R | 5 R/docsMappingMethods.R | 3 R/docsMetaDataMethods.R | 5 R/docsProjectInformationMethods.R | 5 R/docsRepeatingInstrumentEventMethods.R | 6 R/docsUserMethods.R | 5 R/docsUserRoleAssignmentMethods.R | 5 R/docsUserRoleMethods.R | 3 R/exportFiles.R | 8 R/exportRecordsTyped.R | 9 R/exportReportsTyped.R | 3 R/fieldCastingFunctions.R | 25 + R/fieldValidationAndCasting.R | 2 R/filterEmptyRow.R | 54 +- R/importArms.R | 22 R/importDags.R | 15 R/importEvents.R | 19 R/importFileRepository.R | 17 R/importFileToRecord.R |only R/importMappings.R | 17 R/importMetaData.R | 24 - R/importProjectInformation.R | 21 R/importRecords.R | 30 - R/importRepeatingInstrumentsEvents.R | 15 R/importToFileRepository.R | 11 R/importUserRoleAssignments.R | 15 R/importUserRoles.R | 21 R/importUsers.R | 12 R/makeApiCall.R | 27 - R/missingSummary.R | 74 --- R/reviewInvalidRecords.R | 2 R/switchDag.R | 18 R/unlockREDCap.R | 55 ++ README.md | 6 build/vignette.rds |binary inst/doc/redcapAPI-best-practices.pdf |binary inst/doc/redcapAPI-casting-data.pdf |binary inst/doc/redcapAPI-data-validation.pdf |binary inst/doc/redcapAPI-faq.pdf |binary inst/doc/redcapAPI-getting-started-connecting.pdf |binary inst/doc/redcapAPI-missing-data-detection.pdf |binary inst/doc/redcapAPI-offline-connection.pdf |binary inst/vignette-source/UsingOfflineConnections.Rmd | 2 man/armsMethods.Rd | 5 man/createFileRepositoryFolder.Rd | 4 man/dagMethods.Rd | 5 man/eventsMethods.Rd | 5 man/fileMethods.Rd | 15 man/fileRepositoryMethods.Rd | 5 man/fromFileRepositoryMethods.Rd | 5 man/importFileToRecord.Rd |only man/mappingMethods.Rd | 6 man/metaDataMethods.Rd | 4 man/missingSummary.Rd | 50 -- man/projectInformationMethods.Rd | 4 man/redcapAPI.Rd | 2 man/repeatingInstrumentMethods.Rd | 5 man/reviewInvalidRecords.Rd | 2 man/switchDag.Rd | 4 man/unlockREDCap.Rd | 4 man/userMethods.Rd | 5 man/userRoleAssignmentMethods.Rd | 4 man/userRoleMethods.Rd | 5 tests/testthat/helper-00-REDCapQACredentials.R | 38 + tests/testthat/helper-01-QASystemValues.R | 2 tests/testthat/test-002-projectSetup.R | 12 tests/testthat/test-024-unlockREDCap.R | 97 +++- tests/testthat/test-050-makeApiCall.R | 80 +++ tests/testthat/test-061-regularExpressions.R |only tests/testthat/test-100-projectInfo-ArgumentValidation.R | 17 tests/testthat/test-101-userMethods-ArgumentValidation.R | 28 - tests/testthat/test-101-userMethods-Functionality.R | 13 tests/testthat/test-102-userRoleMethods-ArgumentValidation.R | 14 tests/testthat/test-102-userRoleMethods-Functionality.R | 4 tests/testthat/test-103-userRoleAssignmentMethods-ArgumentValidation.R | 1 tests/testthat/test-103-userRoleAssignmentMethods-Functionality.R | 1 tests/testthat/test-106-armsMethods-ArgumentValidation.R | 33 - tests/testthat/test-106-armsMethods-Functionality.R | 45 - tests/testthat/test-107-eventsMethods-ArgumentValidation.R | 32 - tests/testthat/test-107-eventsMethods-Functionality.R | 23 tests/testthat/test-108-metadataMethods-ArgumentValidation.R | 17 tests/testthat/test-108-metadataMethods-Functionality.R | 28 - tests/testthat/test-109-instrumentMethods-ArgumentValidation.R | 18 tests/testthat/test-109-instrumentMethods-Functionality.R | 44 - tests/testthat/test-110-repeatingInstruments-ArgumentValidation.R | 16 tests/testthat/test-110-repeatingInstruments-Functionality.R | 10 tests/testthat/test-111-switchDag-ArgumentValidation.R | 15 tests/testthat/test-150-importDeleteRecords-ArgumentValidation.R | 11 tests/testthat/test-150-importDeleteRecords-Functionality.R | 55 +- tests/testthat/test-200-exportTypedRecords-Functionality.R | 33 - tests/testthat/test-201-exportTypedRecords-withDAGs.R | 5 tests/testthat/test-202-exportTypedRecords-withEvents.R | 25 + tests/testthat/test-204-exportTypedRecords-withRepeatingInstruments.R | 6 tests/testthat/test-251-castForImport.R | 15 tests/testthat/test-301-fileMethods-Functionality.R | 1 tests/testthat/test-302-createFileRepository-ArgumentValidation.R | 16 tests/testthat/test-303-fileRepository-SingleFileMethods-ArgumentValidation.R | 32 - tests/testthat/test-304-fileRepository-BulkFileMethods-ArgumentValidation.R | 30 - tests/testthat/test-308-importFileToRecord.R |only tests/testthat/test-354-getProjectIdFields.R | 4 tests/testthat/test-356-missingSummary.R | 76 --- 119 files changed, 765 insertions(+), 1231 deletions(-)
Title: Interpretable Neural Network Based on Generalized Additive
Models
Description: Neural network framework based on Generalized Additive Models from Hastie & Tibshirani (1990, ISBN:9780412343902), which trains a different neural network to estimate the contribution of each feature to the response variable. The networks are trained independently leveraging the local scoring and backfitting algorithms to ensure that the Generalized Additive Model converges and it is additive. The resultant Neural Network is a highly accurate and interpretable deep learning model, which can be used for high-risk AI practices where decision-making should be based on accountable and interpretable algorithms.
Author: Ines Ortega-Fernandez [aut, cre, cph]
,
Marta Sestelo [aut, cph]
Maintainer: Ines Ortega-Fernandez <iortega@gradiant.org>
Diff between neuralGAM versions 1.1.0 dated 2023-09-20 and 1.1.1 dated 2024-04-19
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS.md | 7 +++++++ R/NeuralGAM.R | 6 ++++-- R/install.R | 11 +++++++---- README.md | 1 + man/install_neuralGAM.Rd | 8 +++----- 8 files changed, 34 insertions(+), 22 deletions(-)
Title: 'parsnip' Engines for Survival Models
Description: Engines for survival models from the 'parsnip' package. These
include parametric models (e.g., Jackson (2016)
<doi:10.18637/jss.v070.i08>), semi-parametric (e.g., Simon et al
(2011) <doi:10.18637/jss.v039.i05>), and tree-based models (e.g.,
Buehlmann and Hothorn (2007) <doi:10.1214/07-STS242>).
Author: Emil Hvitfeldt [aut] ,
Hannah Frick [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hannah Frick <hannah@posit.co>
Diff between censored versions 0.3.0 dated 2024-01-31 and 0.3.1 dated 2024-04-19
DESCRIPTION | 13 +-- MD5 | 25 +++---- NEWS.md | 5 + R/decision_tree-data.R | 8 -- R/partykit.R | 2 R/proportional_hazards-glmnet.R | 16 +--- R/survival_reg-data.R | 64 +------------------ R/survival_reg-flexsurv.R |only README.md | 4 - man/survival_prob_partykit.Rd | 2 tests/testthat/_snaps/proportional_hazards-glmnet.md | 1 tests/testthat/test-proportional_hazards.R | 7 ++ tests/testthat/test-survival_reg-flexsurvspline.R | 30 +++++--- tests/testthat/test-survival_reg.R | 7 ++ 14 files changed, 68 insertions(+), 116 deletions(-)
Title: T Loux Doing R: Functions to Simplify Data Analysis and
Reporting
Description: Gives a number of functions to aid common data
analysis processes and reporting statistical results in an 'RMarkdown' file.
Data analysis functions combine multiple base R functions used to describe
simple bivariate relationships into a single, easy to use function.
Reporting functions will return character strings to report p-values,
confidence intervals, and hypothesis test and regression results. Strings
will be LaTeX-formatted as necessary and will knit pretty in an 'RMarkdown'
document. The package also provides wrappers function in the 'tableone'
package to make the results knit-able.
Author: Travis Loux [aut, cre]
Maintainer: Travis Loux <travis.loux@slu.edu>
Diff between tldr versions 0.3.0 dated 2023-05-24 and 0.4.0 dated 2024-04-19
DESCRIPTION | 15 +++++++-------- MD5 | 6 +++--- NAMESPACE | 2 ++ R/KreateTableOne.R | 2 ++ 4 files changed, 14 insertions(+), 11 deletions(-)
Title: Analysis of Check-All-that-Apply (CATA) Data
Description: Functions for analyzing check-all-that-apply (CATA) data from consumer and sensory tests. Cochran's Q test, McNemar's test, and Penalty-Lift analysis provided, as described in for CATA data analysis by Meyners, Castura & Carr (2013) <doi:10.1016/j.foodqual.2013.06.010>. Cluster analysis can be performed using b-cluster analysis. The quality of cluster analysis solutions can be evaluated using various measures. The methods related to b-cluster analysis are described in a manuscript by Castura, Meyners, Varela & Næs (2022) <doi:10.1016/j.foodqual.2022.104564>. Methods are adapted to product-related hedonic responses by Castura, Meyners, Pohjanheimo, Varela & Næs (2023) <doi:10.1111/joss.12860>.
Author: J.C. Castura [aut, cre, ctb]
Maintainer: J.C. Castura <jcastura@compusense.com>
Diff between cata versions 0.1.0.5 dated 2024-03-04 and 0.1.0.6 dated 2024-04-19
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ R/cata-internal.R | 2 +- R/cata.R | 30 +++++++++++++++++++----------- build/partial.rdb |binary man/bcluster.Rd | 1 + man/inspect.Rd | 14 ++++++++------ 7 files changed, 40 insertions(+), 28 deletions(-)
Title: Download Data from Bundesbank
Description: Download data from the time-series
databases of the Bundesbank, the German central
bank. See the overview at the Bundesbank website
(<https://www.bundesbank.de/en/statistics/time-series-databases>)
for available series. The package provides only a
single function, getSeries(), which supports both
traditional and real-time datasets; it will also
download meta data if available. Downloaded data
can automatically be arranged in various formats,
such as data frames or 'zoo' series. The data
may optionally be cached, so as to avoid repeated
downloads of the same series.
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between bundesbank versions 0.1-11 dated 2023-10-09 and 0.1-12 dated 2024-04-19
bundesbank-0.1-11/bundesbank/ChangeLog |only bundesbank-0.1-12/bundesbank/DESCRIPTION | 8 +-- bundesbank-0.1-12/bundesbank/MD5 | 9 +-- bundesbank-0.1-12/bundesbank/NEWS | 11 ++++ bundesbank-0.1-12/bundesbank/R/getSeries.R | 65 +++++++++++++++++++------- bundesbank-0.1-12/bundesbank/man/getSeries.Rd | 32 +++++++----- 6 files changed, 87 insertions(+), 38 deletions(-)
Title: A Toolbox for Working with R Arrays in a Functional Programming
Style
Description: A toolbox for R arrays. Flexibly split, bind, reshape, modify,
subset and name arrays.
Author: Tomasz Kalinowski [aut, cre]
Maintainer: Tomasz Kalinowski <kalinowskit@gmail.com>
Diff between listarrays versions 0.3.1 dated 2020-03-08 and 0.4.0 dated 2024-04-19
listarrays-0.3.1/listarrays/man/t.array.Rd |only listarrays-0.4.0/listarrays/DESCRIPTION | 9 - listarrays-0.4.0/listarrays/MD5 | 14 - listarrays-0.4.0/listarrays/NAMESPACE | 1 listarrays-0.4.0/listarrays/NEWS.md |only listarrays-0.4.0/listarrays/R/dim2.R | 24 ++ listarrays-0.4.0/listarrays/R/split.R | 31 --- listarrays-0.4.0/listarrays/README.md | 139 +++++++--------- listarrays-0.4.0/listarrays/tests/testthat/test-split.R | 6 9 files changed, 109 insertions(+), 115 deletions(-)
Title: An Implementation of 'Interactive Brokers' API
Description: Allows interaction with 'Interactive Brokers' 'Trader Workstation'
<https://interactivebrokers.github.io/tws-api/>.
Handles the connection over the network and the exchange of messages.
Data is encoded and decoded between user and wire formats.
Data structures and functionality closely mirror the official implementations.
Author: Luca Billi [aut, cre]
Maintainer: Luca Billi <noreply.section+dev@gmail.com>
Diff between rib versions 0.19.3 dated 2023-10-20 and 0.20.0 dated 2024-04-19
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 4 R/Decoder.R | 36 ++- R/IBClient.R | 406 ++++++++++++++++++++--------------------- R/constants.R | 13 - R/structs.R | 5 inst/data-raw/codes_struct.txt | 4 8 files changed, 258 insertions(+), 230 deletions(-)
Title: Manage R Environments Better
Description: Provides a small set of functions for managing R environments, with defaults designed to encourage usage patterns that scale well to larger code bases. It provides: import_from(), a flexible way to assign bindings that defaults to the current environment; include(), a vectorized alternative to base::source() that also default to the current environment; and attach_eval() and attach_source(), a way to evaluate expressions in attached environments. Together, these (and other) functions pair to provide a robust alternative to base::library() and base::source().
Author: Tomasz Kalinowski [aut, cre]
Maintainer: Tomasz Kalinowski <kalinowskit@gmail.com>
Diff between envir versions 0.2.2 dated 2022-09-22 and 0.3.0 dated 2024-04-19
DESCRIPTION | 8 +-- MD5 | 10 ++-- NEWS.md | 19 ++++++++ R/attach_source.R | 113 ++++++++++++++++++++++++++++++--------------------- README.md | 2 man/attach_source.Rd | 58 ++++++++------------------ 6 files changed, 114 insertions(+), 96 deletions(-)
Title: Call Functions Without Commas Between Arguments
Description: Provides the "comma-free call" operator: '%(%'. Use it to call a
function without commas between the arguments. Just replace the '('
with '%(%' in a function call, supply your arguments as standard R
expressions enclosed by '{ }', and be free of commas (for that call).
Author: Tomasz Kalinowski [aut, cre]
Maintainer: Tomasz Kalinowski <kalinowskit@gmail.com>
Diff between commafree versions 0.1.0 dated 2022-11-11 and 0.2.0 dated 2024-04-19
DESCRIPTION | 6 +++--- MD5 | 5 +++-- NEWS.md |only R/comma-free-call.R | 4 +++- 4 files changed, 9 insertions(+), 6 deletions(-)
Title: Quantum Walk-Based Data Analysis and Prediction
Description: The modeling and prediction of graph-associated time series(GATS) based on continuous time quantum walk. This software is mainly used for feature extraction, modeling, prediction and result evaluation of GATS, including continuous time quantum walk simulation, feature selection, regression analysis, time series prediction, and series fit calculation.
Author: Binghuang Pan [aut, cre],
Zhaoyuan Yu [aut],
Xu Hu [ctb],
Yuhao Teng [ctb]
Maintainer: Binghuang Pan <bright1up@163.com>
Diff between QWDAP versions 1.1.17 dated 2022-04-01 and 1.1.18 dated 2024-04-19
DESCRIPTION | 9 MD5 | 22 R/RcppExports.R | 22 R/pcr.r | 126 ++--- R/plsr.r | 130 ++--- R/ppr.r | 90 +-- R/predict.r | 278 +++++------ R/rrelieff.r | 104 ++-- R/swr.r | 114 ++-- R/sws.r | 1142 +++++++++++++++++++++++----------------------- R/var.r | 600 ++++++++++++------------ src/Rcpp_baseStepwise.cpp | 8 12 files changed, 1322 insertions(+), 1323 deletions(-)
Title: Tagging and Validating Epidemiological Data
Description: Provides tools to help storing and handling case line list data. The 'linelist' class adds a tagging system to classical 'data.frame' objects to identify key epidemiological data such as dates of symptom onset, epidemiological case definition, age, gender or disease outcome. Once tagged, these variables can be seamlessly used in downstream analyses, making data pipelines more robust and reliable.
Author: Hugo Gruson [aut, cre] ,
Thibaut Jombart [aut, ccp],
Tim Taylor [ctb],
Chris Hartgerink [rev]
Maintainer: Hugo Gruson <hugo@data.org>
Diff between linelist versions 1.1.0 dated 2024-02-28 and 1.1.2 dated 2024-04-19
linelist-1.1.0/linelist/tests/testthat/test_set_tags.R |only linelist-1.1.2/linelist/DESCRIPTION | 6 +-- linelist-1.1.2/linelist/MD5 | 23 +++++++------ linelist-1.1.2/linelist/NEWS.md | 13 +++++++ linelist-1.1.2/linelist/build/vignette.rds |binary linelist-1.1.2/linelist/inst/CITATION |only linelist-1.1.2/linelist/inst/WORDLIST | 1 linelist-1.1.2/linelist/inst/doc/compat-dplyr.html | 22 ++++++------ linelist-1.1.2/linelist/inst/doc/linelist.html | 2 - linelist-1.1.2/linelist/inst/doc/software-permissions.R |only linelist-1.1.2/linelist/inst/doc/software-permissions.Rmd |only linelist-1.1.2/linelist/inst/doc/software-permissions.html |only linelist-1.1.2/linelist/man/sub_linelist.Rd | 2 - linelist-1.1.2/linelist/tests/testthat.R | 4 +- linelist-1.1.2/linelist/tests/testthat/test-set_tags.R |only linelist-1.1.2/linelist/vignettes/software-permissions.Rmd |only 16 files changed, 46 insertions(+), 27 deletions(-)
Title: Edit an 'Antares' Simulation
Description: Edit an 'Antares' simulation before running it : create new areas, links, thermal
clusters or binding constraints or edit existing ones. Update 'Antares' general & optimization settings.
'Antares' is an open source power system generator, more information available here : <https://antares-simulator.org/>.
Author: Tatiana Vargas [aut, cre],
Frederic Breant [aut],
Victor Perrier [aut],
Baptiste Seguinot [ctb],
Benoit Thieurmel [ctb],
Titouan Robert [ctb],
Jalal-Edine Zawam [ctb],
Etienne Sanchez [ctb],
Janus De Bondt [ctb],
Assil Mansouri [ctb],
Abdallah Mahoud [...truncated...]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresEditObject versions 0.6.1 dated 2023-12-12 and 0.6.2 dated 2024-04-19
DESCRIPTION | 13 +- MD5 | 92 +++++++------- NAMESPACE | 2 NEWS.md | 30 ++++ R/API.R | 35 ++++- R/createArea.R | 9 - R/createBindingConstraint.R | 27 +++- R/createCluster.R | 85 ++++++------- R/createClusterST.R | 2 R/createDSR.R | 7 - R/createLink.R | 14 +- R/createStudy.R | 71 +++++++--- R/editArea.R | 5 R/editCluster.R | 44 +++--- R/editLink.R | 10 - R/importStudyAPI.R | 62 +++++---- R/playlist.R | 119 +++++++++++++----- R/updateGeneralSettings.R | 10 - R/utils.R | 25 +++ build/vignette.rds |binary inst/doc/Antares_new_features_v860.R | 2 inst/doc/antaresEditObject.R | 2 inst/doc/antaresEditObject.Rmd | 56 ++++++++ inst/doc/antaresEditObject.html | 53 ++++++++ inst/doc/api-variant-management.R | 4 inst/doc/api-variant-management.html | 168 +++++++++++++------------- inst/doc/renewables-energy-sources.R | 2 inst/doc/scenario-builder.R | 4 man/create-binding-constraint.Rd | 2 man/createCluster.Rd | 2 man/deleteStudy.Rd | 8 - man/editArea.Rd | 5 man/editBindingConstraint.Rd | 2 man/editLink.Rd | 8 - man/filteringOptions.Rd | 9 - man/importZipStudyWeb.Rd |only man/propertiesLinkOptions.Rd | 12 + man/storage_values_default.Rd | 4 man/updateGeneralSettings.Rd | 3 tests/testthat/test-createBindingConstraint.R | 17 ++ tests/testthat/test-createCluster.R | 26 +++- tests/testthat/test-createDSR.R | 5 tests/testthat/test-createStudy.R | 14 ++ tests/testthat/test-editCluster.R | 10 + tests/testthat/test-editLink.R |only tests/testthat/test-playlist.R | 56 ++++++++ tests/testthat/test-updateGeneralSettings.R | 7 - vignettes/antaresEditObject.Rmd | 56 ++++++++ 48 files changed, 858 insertions(+), 341 deletions(-)
More information about antaresEditObject at CRAN
Permanent link
Title: Regression Models with Break-Points / Change-Points Estimation
(with Possibly Random Effects)
Description: Fitting regression models where, in addition to possible linear terms, one or more covariates have segmented (i.e., broken-line
or piece-wise linear) or stepmented (i.e. piece-wise constant) effects.
Multiple breakpoints for the same variable are allowed. The estimation method is discussed in Muggeo (2003, <doi:10.1002/sim.1545>) and
illustrated in Muggeo (2008, <https://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf>). An approach for hypothesis testing is presented
in Muggeo (2016, <doi:10.1080/00949655.2016.1149855>), and interval estimation for the breakpoint is discussed in Muggeo (2017, <doi:10.1111/anzs.12200>).
Segmented mixed models, i.e. random effects in the change point, are discussed in Muggeo (2014, <doi:10.1177/1471082X13504721>).
Estimation of piecewise-constant relationships and changepoints (mean-shift models) is
discussed in Fasola et al. (2018, <doi:10.1007/s00180-017-0740-4>).
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between segmented versions 2.0-3 dated 2024-02-16 and 2.0-4 dated 2024-04-19
segmented-2.0-3/segmented/R/predict.stepmented.R |only segmented-2.0-4/segmented/DESCRIPTION | 8 segmented-2.0-4/segmented/MD5 | 122 - segmented-2.0-4/segmented/NAMESPACE | 6 segmented-2.0-4/segmented/NEWS | 14 segmented-2.0-4/segmented/R/coef.stepmented.r |only segmented-2.0-4/segmented/R/confint.stepmented.R | 20 segmented-2.0-4/segmented/R/draw.history.R | 186 +- segmented-2.0-4/segmented/R/model.matrix.stepmented.r | 165 +- segmented-2.0-4/segmented/R/plot.segmented.r | 4 segmented-2.0-4/segmented/R/plot.stepmented.r | 744 ++++------ segmented-2.0-4/segmented/R/predict.segmented.r | 2 segmented-2.0-4/segmented/R/print.stepmented.r | 9 segmented-2.0-4/segmented/R/print.summary.stepmented.R | 165 +- segmented-2.0-4/segmented/R/seg.Ar.fit.boot.r | 83 - segmented-2.0-4/segmented/R/seg.Ar.fit.r | 102 - segmented-2.0-4/segmented/R/seg.control.R | 9 segmented-2.0-4/segmented/R/seg.def.fit.boot.r | 56 segmented-2.0-4/segmented/R/seg.def.fit.r | 7 segmented-2.0-4/segmented/R/seg.glm.fit.boot.r | 119 + segmented-2.0-4/segmented/R/seg.glm.fit.r | 205 +- segmented-2.0-4/segmented/R/seg.lm.fit.boot.r | 156 +- segmented-2.0-4/segmented/R/seg.lm.fit.r | 266 ++- segmented-2.0-4/segmented/R/seg.num.fit.boot.r | 108 + segmented-2.0-4/segmented/R/seg.num.fit.r | 165 +- segmented-2.0-4/segmented/R/seg.r | 29 segmented-2.0-4/segmented/R/segConstr.glm.fit.boot.r | 109 + segmented-2.0-4/segmented/R/segConstr.glm.fit.r | 89 - segmented-2.0-4/segmented/R/segConstr.lm.fit.boot.r | 105 + segmented-2.0-4/segmented/R/segConstr.lm.fit.r | 797 +++++----- segmented-2.0-4/segmented/R/segmented.Arima.r | 4 segmented-2.0-4/segmented/R/segmented.default.r | 7 segmented-2.0-4/segmented/R/segmented.glm.R | 46 segmented-2.0-4/segmented/R/segmented.lm.R | 46 segmented-2.0-4/segmented/R/segmented.numeric.R | 2 segmented-2.0-4/segmented/R/segreg.r | 54 segmented-2.0-4/segmented/R/selgmented.R | 21 segmented-2.0-4/segmented/R/step.glm.fit.boot.r | 428 +++-- segmented-2.0-4/segmented/R/step.glm.fit.r | 80 - segmented-2.0-4/segmented/R/step.lm.fit.boot.r | 71 segmented-2.0-4/segmented/R/step.lm.fit.r | 610 ++++---- segmented-2.0-4/segmented/R/step.num.fit.boot.r | 417 ++--- segmented-2.0-4/segmented/R/step.num.fit.r | 562 ++++--- segmented-2.0-4/segmented/R/step.ts.fit.boot.r | 424 ++--- segmented-2.0-4/segmented/R/step.ts.fit.r | 53 segmented-2.0-4/segmented/R/stepmented.glm.R | 1108 +++++++-------- segmented-2.0-4/segmented/R/stepmented.lm.R | 1026 ++++++------- segmented-2.0-4/segmented/R/stepmented.numeric.r | 1050 +++++++------- segmented-2.0-4/segmented/R/stepmented.ts.R | 774 +++++----- segmented-2.0-4/segmented/R/summary.stepmented.R | 210 +- segmented-2.0-4/segmented/R/vcov.stepmented.R | 341 ++-- segmented-2.0-4/segmented/man/confint.stepmented.Rd | 14 segmented-2.0-4/segmented/man/draw.history.Rd | 86 - segmented-2.0-4/segmented/man/globTempAnom.Rd | 10 segmented-2.0-4/segmented/man/model.matrix.stepmented.Rd | 114 - segmented-2.0-4/segmented/man/plot.segmented.Rd | 10 segmented-2.0-4/segmented/man/plot.stepmented.Rd | 15 segmented-2.0-4/segmented/man/seg.control.Rd | 27 segmented-2.0-4/segmented/man/seg.lm.fit.Rd | 8 segmented-2.0-4/segmented/man/segmented-package.Rd | 4 segmented-2.0-4/segmented/man/segmented.Rd | 10 segmented-2.0-4/segmented/man/summary.stepmented.Rd | 160 +- segmented-2.0-4/segmented/man/vcov.stepmented.Rd | 28 63 files changed, 6260 insertions(+), 5410 deletions(-)
Title: Easy Study of Patient DICOM Data in Oncology
Description: Exploitation, processing and 2D-3D visualization of DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, in a patient-oriented perspective.
Author: Cathy Fontbonne [aut, cre] ,
Jean-Marc Fontbonne [aut] ,
Nathan Azemar [ctb]
Maintainer: Cathy Fontbonne <contact.espadon@lpccaen.in2p3.fr>
Diff between espadon versions 1.6.0 dated 2024-03-07 and 1.7.0 dated 2024-04-19
espadon-1.6.0/espadon/R/contour.R |only espadon-1.7.0/espadon/DESCRIPTION | 12 espadon-1.7.0/espadon/MD5 | 91 espadon-1.7.0/espadon/NAMESPACE | 3 espadon-1.7.0/espadon/R/RcppExports.R | 10 espadon-1.7.0/espadon/R/add_margin.R | 4 espadon-1.7.0/espadon/R/bin_from_roi.R | 163 espadon-1.7.0/espadon/R/dicom_patient_anonymiser.R |only espadon-1.7.0/espadon/R/dicom_raw_data_anonymizer.R | 2 espadon-1.7.0/espadon/R/dicom_raw_data_loader.R | 2 espadon-1.7.0/espadon/R/dicom_set_tag_value.R | 5 espadon-1.7.0/espadon/R/dicom_to_Rdcm_converter.R | 4 espadon-1.7.0/espadon/R/display_3D_stack.R | 8 espadon-1.7.0/espadon/R/display_plane.R | 21 espadon-1.7.0/espadon/R/espadon-package.R | 1 espadon-1.7.0/espadon/R/espadon_class.R | 3 espadon-1.7.0/espadon/R/espadon_hidden.R | 154 espadon-1.7.0/espadon/R/export.R |only espadon-1.7.0/espadon/R/load_patient_from_Rdcm.R | 8 espadon-1.7.0/espadon/R/load_patient_from_dicom.R | 12 espadon-1.7.0/espadon/R/polyg.R | 221 espadon-1.7.0/espadon/R/ref_cutplane_add.R | 2 espadon-1.7.0/espadon/R/roidata.R |only espadon-1.7.0/espadon/R/rt_indices_from_bin.R | 6 espadon-1.7.0/espadon/R/save_T_MAT.R | 2 espadon-1.7.0/espadon/R/struct_from_mesh.R | 3 espadon-1.7.0/espadon/R/struct_oversampling.R |only espadon-1.7.0/espadon/R/toy_load_patient.R | 20 espadon-1.7.0/espadon/build/espadon.pdf |22170 +++++++++--------- espadon-1.7.0/espadon/build/partial.rdb |binary espadon-1.7.0/espadon/build/stage23.rdb |binary espadon-1.7.0/espadon/build/vignette.rds |binary espadon-1.7.0/espadon/inst/doc/espadon_overview.R | 34 espadon-1.7.0/espadon/inst/doc/espadon_overview.html | 4 espadon-1.7.0/espadon/man/add.margin.Rd | 4 espadon-1.7.0/espadon/man/bin.from.roi.Rd | 5 espadon-1.7.0/espadon/man/dicom.patient.anonymiser.Rd |only espadon-1.7.0/espadon/man/dicom.raw.data.loader.Rd | 2 espadon-1.7.0/espadon/man/dicom.to.Rdcm.converter.Rd | 4 espadon-1.7.0/espadon/man/display.3D.stack.Rd | 8 espadon-1.7.0/espadon/man/espadon-package.Rd | 2 espadon-1.7.0/espadon/man/espadon.class.Rd | 3 espadon-1.7.0/espadon/man/export.Rd |only espadon-1.7.0/espadon/man/load.patient.from.dicom.Rd | 5 espadon-1.7.0/espadon/man/ref.cutplane.add.Rd | 2 espadon-1.7.0/espadon/man/rt.indices.from.bin.Rd | 6 espadon-1.7.0/espadon/src/RcppExports.cpp | 40 espadon-1.7.0/espadon/src/addcommonptC.cpp |only espadon-1.7.0/espadon/src/fantovoxelC.cpp | 1 espadon-1.7.0/espadon/src/ptnearestC.cpp |only espadon-1.7.0/espadon/src/roiinterC.cpp | 18 51 files changed, 11909 insertions(+), 11156 deletions(-)
Title: Comparison of Bioregionalisation Methods
Description: The main purpose of this package is to propose a transparent methodological framework to compare bioregionalisation methods based on hierarchical and non-hierarchical clustering algorithms (Kreft & Jetz (2010) <doi:10.1111/j.1365-2699.2010.02375.x>) and network algorithms (Lenormand et al. (2019) <doi:10.1002/ece3.4718> and Leroy et al. (2019) <doi:10.1111/jbi.13674>).
Author: Maxime Lenormand [aut, cre] ,
Boris Leroy [aut] ,
Pierre Denelle [aut]
Maintainer: Maxime Lenormand <maxime.lenormand@inrae.fr>
Diff between bioregion versions 1.1.0 dated 2024-03-19 and 1.1.1 dated 2024-04-19
DESCRIPTION | 6 MD5 | 114 ++++---- NEWS.md | 33 ++ R/cut_tree.R | 4 R/dissimilarity.R | 19 - R/find_optimal_n.R | 53 +++- R/generic_functions.R | 10 R/hclu_diana.R | 126 +++------ R/hclu_hierarclust.R | 173 +++++-------- R/hclu_optics.R | 160 ++++++------ R/install_binaries.R | 6 R/mat_to_net.R | 18 - R/net_to_mat.R | 24 - R/netclu_beckett.R | 97 ++++--- R/netclu_greedy.R | 45 ++- R/netclu_infomap.R | 118 +++++---- R/netclu_labelprop.R | 64 +++- R/netclu_leadingeigen.R | 46 ++- R/netclu_leiden.R | 114 +++++--- R/netclu_louvain.R | 132 +++++++--- R/netclu_oslom.R | 179 ++++++++----- R/netclu_walktrap.R | 48 ++- R/nhclu_clara.R | 185 +++++++------- R/nhclu_clarans.R | 150 ++++++----- R/nhclu_dbscan.R | 118 +++++---- R/nhclu_kmeans.R | 167 ++++++------ R/nhclu_pam.R | 187 +++++++------- R/similarity.R | 97 +++---- R/similarity_dissimilarity_conversion.R | 26 -- R/utils.R | 415 ++++++++++++++++++++------------ README.md | 17 - build/bioregion.pdf |binary build/partial.rdb |binary build/stage23.rdb |binary inst/doc/bioregion.Rmd | 11 inst/doc/bioregion.html | 13 - man/dissimilarity.Rd | 15 - man/dissimilarity_to_similarity.Rd | 8 man/hclu_diana.Rd | 15 - man/hclu_hierarclust.Rd | 33 +- man/hclu_optics.Rd | 32 +- man/netclu_beckett.Rd | 37 +- man/netclu_greedy.Rd | 18 - man/netclu_infomap.Rd | 19 - man/netclu_labelprop.Rd | 21 + man/netclu_leadingeigen.Rd | 19 - man/netclu_leiden.Rd | 30 +- man/netclu_louvain.Rd | 33 +- man/netclu_oslom.Rd | 37 +- man/netclu_walktrap.Rd | 18 - man/nhclu_clara.Rd | 41 ++- man/nhclu_clarans.Rd | 26 +- man/nhclu_dbscan.Rd | 23 + man/nhclu_kmeans.Rd | 34 +- man/nhclu_pam.Rd | 34 +- man/similarity.Rd | 10 man/similarity_to_dissimilarity.Rd | 8 vignettes/bioregion.Rmd | 11 58 files changed, 2030 insertions(+), 1467 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization, Stochastic dominance and Advanced Monte Carlo sampling. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre],
Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 10.7 dated 2024-03-06 and 10.8 dated 2024-04-19
DESCRIPTION | 12 +- MD5 | 78 +++++++++---------- NAMESPACE | 5 - R/ARMA.R | 2 R/ARMA_optim.R | 2 R/Boost.R | 6 - R/Internal_Functions.R | 73 +++++++++++++++++ R/NNS_term_matrix.R | 4 R/Nowcast.R | 1 R/Stack.R | 6 - R/gvload.R | 5 - inst/doc/NNSvignette_Classification.R | 1 inst/doc/NNSvignette_Classification.Rmd | 1 inst/doc/NNSvignette_Classification.html | 3 inst/doc/NNSvignette_Clustering_and_Regression.R | 1 inst/doc/NNSvignette_Clustering_and_Regression.Rmd | 1 inst/doc/NNSvignette_Clustering_and_Regression.html | 3 inst/doc/NNSvignette_Comparing_Distributions.R | 1 inst/doc/NNSvignette_Comparing_Distributions.Rmd | 1 inst/doc/NNSvignette_Comparing_Distributions.html | 3 inst/doc/NNSvignette_Correlation_and_Dependence.R | 1 inst/doc/NNSvignette_Correlation_and_Dependence.Rmd | 1 inst/doc/NNSvignette_Correlation_and_Dependence.html | 3 inst/doc/NNSvignette_Forecasting.R | 1 inst/doc/NNSvignette_Forecasting.Rmd | 1 inst/doc/NNSvignette_Forecasting.html | 3 inst/doc/NNSvignette_Sampling.R | 1 inst/doc/NNSvignette_Sampling.Rmd | 1 inst/doc/NNSvignette_Sampling.html | 3 man/NNS.ARMA.Rd | 2 man/NNS.ARMA.optim.Rd | 2 man/NNS.boost.Rd | 2 man/NNS.nowcast.Rd | 1 man/NNS.stack.Rd | 2 vignettes/NNSvignette_Classification.Rmd | 1 vignettes/NNSvignette_Clustering_and_Regression.Rmd | 1 vignettes/NNSvignette_Comparing_Distributions.Rmd | 1 vignettes/NNSvignette_Correlation_and_Dependence.Rmd | 1 vignettes/NNSvignette_Forecasting.Rmd | 1 vignettes/NNSvignette_Sampling.Rmd | 1 40 files changed, 142 insertions(+), 97 deletions(-)
Title: A Flexible Class for Messy Dates
Description: Contains a set of tools for constructing and coercing
into and from the "mdate" class.
This date class implements ISO 8601-2:2019(E) and
allows regular dates to be annotated
to express unspecified date components,
approximate or uncertain date components,
date ranges, and sets of dates.
This is useful for describing and analysing temporal information,
whether historical or recent, where date precision may vary.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb] ,
Jael Tan [ctb] ,
Nathan Werth [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between messydates versions 0.3.5 dated 2023-01-20 and 0.4.1 dated 2024-04-19
messydates-0.3.5/messydates/man/logical-class.Rd |only messydates-0.3.5/messydates/man/logical.Rd |only messydates-0.4.1/messydates/DESCRIPTION | 23 messydates-0.4.1/messydates/MD5 | 73 +- messydates-0.4.1/messydates/NAMESPACE | 38 + messydates-0.4.1/messydates/NEWS.md | 25 messydates-0.4.1/messydates/R/class.R | 76 +- messydates-0.4.1/messydates/R/coerce_from_messydate.R | 10 messydates-0.4.1/messydates/R/coerce_to_messydate.R | 121 +++- messydates-0.4.1/messydates/R/duration.R |only messydates-0.4.1/messydates/R/expand.R | 36 - messydates-0.4.1/messydates/R/logical.R | 154 +++++ messydates-0.4.1/messydates/R/messydates-defunct.R |only messydates-0.4.1/messydates/R/operate.R | 116 ++-- messydates-0.4.1/messydates/R/proportional.R |only messydates-0.4.1/messydates/R/resolve.R | 1 messydates-0.4.1/messydates/R/set.R | 49 + messydates-0.4.1/messydates/README.md | 6 messydates-0.4.1/messydates/build/vignette.rds |binary messydates-0.4.1/messydates/inst/CITATION | 4 messydates-0.4.1/messydates/inst/doc/messydates.R | 19 messydates-0.4.1/messydates/inst/doc/messydates.Rmd | 26 messydates-0.4.1/messydates/inst/doc/messydates.html | 269 +++++----- messydates-0.4.1/messydates/man/class.Rd | 8 messydates-0.4.1/messydates/man/defunct.Rd |only messydates-0.4.1/messydates/man/duration_class.Rd |only messydates-0.4.1/messydates/man/expand.Rd | 2 messydates-0.4.1/messydates/man/logical_tests.Rd |only messydates-0.4.1/messydates/man/messydate.Rd | 23 messydates-0.4.1/messydates/man/operate.Rd | 10 messydates-0.4.1/messydates/man/proportional.Rd |only messydates-0.4.1/messydates/man/set.Rd | 28 - messydates-0.4.1/messydates/tests/testthat/test-class.R | 50 + messydates-0.4.1/messydates/tests/testthat/test-coerce-from.R | 11 messydates-0.4.1/messydates/tests/testthat/test-coerce-to.R | 38 + messydates-0.4.1/messydates/tests/testthat/test-logical.R | 71 ++ messydates-0.4.1/messydates/tests/testthat/test-messydate-make.R | 4 messydates-0.4.1/messydates/tests/testthat/test-operate.R | 13 messydates-0.4.1/messydates/tests/testthat/test-proportional.R |only messydates-0.4.1/messydates/tests/testthat/test-resolve.R | 14 messydates-0.4.1/messydates/tests/testthat/test-set.R | 11 messydates-0.4.1/messydates/tests/testthat/test_duration.R |only messydates-0.4.1/messydates/vignettes/messydates.Rmd | 26 43 files changed, 988 insertions(+), 367 deletions(-)
Title: Extensions for 'HDF5' R Interfaces
Description: Some methods to manipulate 'HDF5' files, extending the 'hdf5r' package. Reading and writing R objects to 'HDF5' formats follow the specification of 'AnnData' <https://anndata.readthedocs.io/en/latest/fileformat-prose.html>.
Author: Yuchen Li [aut, cre]
Maintainer: Yuchen Li <ycli1995@outlook.com>
Diff between hdf5r.Extra versions 0.0.5 dated 2024-01-29 and 0.0.6 dated 2024-04-19
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS.md | 6 +++++- R/hdf5-functions.R | 48 ++++++++++++++++++++---------------------------- R/hdf5-internal.R | 29 +++++++++++------------------ R/hdf5-methods.R | 2 +- R/zzz.R | 1 + 8 files changed, 50 insertions(+), 59 deletions(-)
Title: Wrapper Functions Collection Used in Data Pipelines
Description: The goal of this package is to provide wrapper functions in the
data cleaning and cleansing processes. These function helps in messages and
interaction with the user, keep track of information in pipelines, help in
the wrangling, munging, assessment and visualization of data frame-like
material.
Author: Guillaume Fabre [aut, cre],
Maelstrom-Research [fnd]
Maintainer: Guillaume Fabre <guijoseph.fabre@gmail.com>
Diff between fabR versions 2.0.1 dated 2023-11-02 and 2.1.0 dated 2024-04-19
fabR-2.0.1/fabR/man/fabR_help.Rd |only fabR-2.1.0/fabR/DESCRIPTION | 12 - fabR-2.1.0/fabR/MD5 | 54 ++--- fabR-2.1.0/fabR/NAMESPACE | 103 +++++----- fabR-2.1.0/fabR/NEWS.md | 47 ++++ fabR-2.1.0/fabR/R/00-utils.R | 162 +++------------- fabR-2.1.0/fabR/R/02-dates.R | 258 ++++++++++++++++++--------- fabR-2.1.0/fabR/R/03-viz.R | 12 - fabR-2.1.0/fabR/R/04-check_table_values.R | 120 ++++-------- fabR-2.1.0/fabR/R/05-as_any.R |only fabR-2.1.0/fabR/R/deprecated.R | 24 ++ fabR-2.1.0/fabR/README.md | 2 fabR-2.1.0/fabR/build/vignette.rds |binary fabR-2.1.0/fabR/inst/WORDLIST | 4 fabR-2.1.0/fabR/inst/doc/fabR-vignette.R | 2 fabR-2.1.0/fabR/inst/doc/fabR-vignette.Rmd | 2 fabR-2.1.0/fabR/inst/doc/fabR-vignette.html | 2 fabR-2.1.0/fabR/man/as_any_boolean.Rd | 2 fabR-2.1.0/fabR/man/as_any_date.Rd | 9 fabR-2.1.0/fabR/man/as_any_integer.Rd |only fabR-2.1.0/fabR/man/as_any_symbol.Rd | 2 fabR-2.1.0/fabR/man/bookdown_open.Rd | 12 - fabR-2.1.0/fabR/man/deprecated.Rd | 7 fabR-2.1.0/fabR/man/fabR_website.Rd |only fabR-2.1.0/fabR/man/guess_date_format.Rd | 28 +- fabR-2.1.0/fabR/man/read_csv_any_formats.Rd | 3 fabR-2.1.0/fabR/man/read_excel_allsheets.Rd | 19 + fabR-2.1.0/fabR/man/which_any_date.Rd | 14 - fabR-2.1.0/fabR/man/write_excel_allsheets.Rd | 22 ++ fabR-2.1.0/fabR/vignettes/fabR-vignette.Rmd | 2 30 files changed, 498 insertions(+), 426 deletions(-)
Title: Bayesian Preference Learning with the Mallows Rank Model
Description: An implementation of the Bayesian version of the Mallows rank model
(Vitelli et al., Journal of Machine Learning Research, 2018 <https://jmlr.org/papers/v18/15-481.html>;
Crispino et al., Annals of Applied Statistics, 2019 <doi:10.1214/18-AOAS1203>;
Sorensen et al., R Journal, 2020 <doi:10.32614/RJ-2020-026>;
Stein, PhD Thesis, 2023 <https://eprints.lancs.ac.uk/id/eprint/195759>). Both Metropolis-Hastings
and sequential Monte Carlo algorithms for estimating the models are available. Cayley, footrule,
Hamming, Kendall, Spearman, and Ulam distances are supported in the models. The rank data to be
analyzed can be in the form of complete rankings, top-k rankings, partially missing rankings, as well
as consistent and inconsistent pairwise preferences. Several functions for plotting and studying the
posterior distributions of parameters are provided. The package also provides functions for estimating
the partition function (normalizing constant) of the Mallows rank mo [...truncated...]
Author: Oystein Sorensen [aut, cre] ,
Waldir Leoncio [aut],
Valeria Vitelli [aut] ,
Marta Crispino [aut],
Qinghua Liu [aut],
Cristina Mollica [aut],
Luca Tardella [aut],
Anja Stein [aut]
Maintainer: Oystein Sorensen <oystein.sorensen.1985@gmail.com>
Diff between BayesMallows versions 2.1.1 dated 2024-03-15 and 2.2.0 dated 2024-04-19
BayesMallows-2.1.1/BayesMallows/R/all_topological_sorts.R |only BayesMallows-2.1.1/BayesMallows/src/subset.cpp |only BayesMallows-2.2.0/BayesMallows/DESCRIPTION | 11 BayesMallows-2.2.0/BayesMallows/MD5 | 121 +++++----- BayesMallows-2.2.0/BayesMallows/NAMESPACE | 2 BayesMallows-2.2.0/BayesMallows/NEWS.md | 36 ++ BayesMallows-2.2.0/BayesMallows/R/RcppExports.R | 8 BayesMallows-2.2.0/BayesMallows/R/compute_exact_partition_function.R |only BayesMallows-2.2.0/BayesMallows/R/compute_mallows.R | 15 - BayesMallows-2.2.0/BayesMallows/R/compute_mallows_mixtures.R | 9 BayesMallows-2.2.0/BayesMallows/R/compute_mallows_sequentially.R | 8 BayesMallows-2.2.0/BayesMallows/R/estimate_partition_function.R | 4 BayesMallows-2.2.0/BayesMallows/R/generate_initial_ranking.R | 77 +----- BayesMallows-2.2.0/BayesMallows/R/generate_transitive_closure.R | 6 BayesMallows-2.2.0/BayesMallows/R/get_cardinalities.R | 2 BayesMallows-2.2.0/BayesMallows/R/set_progress_report.R |only BayesMallows-2.2.0/BayesMallows/R/set_smc_options.R | 11 BayesMallows-2.2.0/BayesMallows/R/setup_rank_data.R | 43 +-- BayesMallows-2.2.0/BayesMallows/R/smc_misc.R | 10 BayesMallows-2.2.0/BayesMallows/R/update_mallows.R | 15 - BayesMallows-2.2.0/BayesMallows/R/validation_functions.R | 2 BayesMallows-2.2.0/BayesMallows/build/partial.rdb |binary BayesMallows-2.2.0/BayesMallows/inst/examples/compute_exact_partition_function_example.R |only BayesMallows-2.2.0/BayesMallows/inst/examples/compute_mallows_example.R | 4 BayesMallows-2.2.0/BayesMallows/inst/examples/label_switching_example.R | 6 BayesMallows-2.2.0/BayesMallows/inst/examples/update_mallows_example.R | 11 BayesMallows-2.2.0/BayesMallows/man/compute_exact_partition_function.Rd |only BayesMallows-2.2.0/BayesMallows/man/compute_mallows.Rd | 21 - BayesMallows-2.2.0/BayesMallows/man/compute_mallows_mixtures.Rd | 7 BayesMallows-2.2.0/BayesMallows/man/estimate_partition_function.Rd | 3 BayesMallows-2.2.0/BayesMallows/man/get_cardinalities.Rd | 3 BayesMallows-2.2.0/BayesMallows/man/get_transitive_closure.Rd | 1 BayesMallows-2.2.0/BayesMallows/man/plot.SMCMallows.Rd | 11 BayesMallows-2.2.0/BayesMallows/man/set_compute_options.Rd | 1 BayesMallows-2.2.0/BayesMallows/man/set_initial_values.Rd | 1 BayesMallows-2.2.0/BayesMallows/man/set_model_options.Rd | 1 BayesMallows-2.2.0/BayesMallows/man/set_priors.Rd | 1 BayesMallows-2.2.0/BayesMallows/man/set_progress_report.Rd |only BayesMallows-2.2.0/BayesMallows/man/set_smc_options.Rd | 13 - BayesMallows-2.2.0/BayesMallows/man/setup_rank_data.Rd | 41 +-- BayesMallows-2.2.0/BayesMallows/man/update_mallows.Rd | 11 BayesMallows-2.2.0/BayesMallows/src/RcppExports.cpp | 23 + BayesMallows-2.2.0/BayesMallows/src/all_topological_sorts.cpp |only BayesMallows-2.2.0/BayesMallows/src/all_topological_sorts.h |only BayesMallows-2.2.0/BayesMallows/src/distances.cpp | 81 +++--- BayesMallows-2.2.0/BayesMallows/src/distances.h | 4 BayesMallows-2.2.0/BayesMallows/src/missing_data.h | 3 BayesMallows-2.2.0/BayesMallows/src/missing_data_functions.cpp | 24 + BayesMallows-2.2.0/BayesMallows/src/particles.cpp | 61 ++++- BayesMallows-2.2.0/BayesMallows/src/particles.h | 3 BayesMallows-2.2.0/BayesMallows/src/progress_reporter.cpp | 5 BayesMallows-2.2.0/BayesMallows/src/progress_reporter.h | 2 BayesMallows-2.2.0/BayesMallows/src/rank_proposal.cpp | 3 BayesMallows-2.2.0/BayesMallows/src/rank_proposal.h | 8 BayesMallows-2.2.0/BayesMallows/src/run_mcmc.cpp | 4 BayesMallows-2.2.0/BayesMallows/src/run_smc.cpp | 2 BayesMallows-2.2.0/BayesMallows/src/smc_augmentation_class.cpp | 1 BayesMallows-2.2.0/BayesMallows/src/smc_classes.h | 3 BayesMallows-2.2.0/BayesMallows/src/smc_data_class.cpp | 14 + BayesMallows-2.2.0/BayesMallows/tests/testthat/test-compute_exact_partition_function.R |only BayesMallows-2.2.0/BayesMallows/tests/testthat/test-compute_rank_distance.R | 16 + BayesMallows-2.2.0/BayesMallows/tests/testthat/test-mcmc_correctness.R | 4 BayesMallows-2.2.0/BayesMallows/tests/testthat/test-plot_top_k.R | 2 BayesMallows-2.2.0/BayesMallows/tests/testthat/test-set_progress_report.R |only BayesMallows-2.2.0/BayesMallows/tests/testthat/test-setup_rank_data.R | 23 - BayesMallows-2.2.0/BayesMallows/tests/testthat/test-smc_pairwise.R | 97 +++++++- BayesMallows-2.2.0/BayesMallows/tests/testthat/test-smc_update_correctness.R | 38 +-- 67 files changed, 591 insertions(+), 346 deletions(-)
Title: Make Static HTML Documentation for a Package
Description: Generate an attractive and useful website from a source
package. 'pkgdown' converts your documentation, vignettes, 'README',
and more to 'HTML' making it easy to share information about your
package online.
Author: Hadley Wickham [aut, cre] ,
Jay Hesselberth [aut] ,
Maelle Salmon [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between pkgdown versions 2.0.8 dated 2024-04-10 and 2.0.9 dated 2024-04-18
pkgdown-2.0.8/pkgdown/tests/testthat/setup.R |only pkgdown-2.0.9/pkgdown/DESCRIPTION | 8 pkgdown-2.0.9/pkgdown/MD5 | 144 ++++---- pkgdown-2.0.9/pkgdown/NEWS.md | 52 ++ pkgdown-2.0.9/pkgdown/R/build-articles.R | 14 pkgdown-2.0.9/pkgdown/R/build-home-index.R | 4 pkgdown-2.0.9/pkgdown/R/build-home-md.R | 25 + pkgdown-2.0.9/pkgdown/R/build-news.R | 10 pkgdown-2.0.9/pkgdown/R/build-reference-index.R | 62 ++- pkgdown-2.0.9/pkgdown/R/build-reference.R | 14 pkgdown-2.0.9/pkgdown/R/build-tutorials.R | 2 pkgdown-2.0.9/pkgdown/R/build.R | 38 +- pkgdown-2.0.9/pkgdown/R/check.R | 9 pkgdown-2.0.9/pkgdown/R/import-standalone-obj-type.R |only pkgdown-2.0.9/pkgdown/R/import-standalone-types-check.R |only pkgdown-2.0.9/pkgdown/R/init.R | 5 pkgdown-2.0.9/pkgdown/R/markdown.R | 4 pkgdown-2.0.9/pkgdown/R/navbar.R | 16 pkgdown-2.0.9/pkgdown/R/package.R | 57 ++- pkgdown-2.0.9/pkgdown/R/pkgdown.R | 23 + pkgdown-2.0.9/pkgdown/R/rd-html.R | 6 pkgdown-2.0.9/pkgdown/R/rmarkdown.R | 83 ++-- pkgdown-2.0.9/pkgdown/R/sitrep.R | 2 pkgdown-2.0.9/pkgdown/R/topics-external.R | 9 pkgdown-2.0.9/pkgdown/R/topics.R | 31 + pkgdown-2.0.9/pkgdown/R/tweak-tags.R | 6 pkgdown-2.0.9/pkgdown/R/utils-fs.R | 9 pkgdown-2.0.9/pkgdown/R/utils.R | 12 pkgdown-2.0.9/pkgdown/build/pkgdown.pdf |binary pkgdown-2.0.9/pkgdown/build/stage23.rdb |binary pkgdown-2.0.9/pkgdown/inst/BS5/assets/pkgdown.js | 8 pkgdown-2.0.9/pkgdown/inst/BS5/assets/pkgdown.scss | 11 pkgdown-2.0.9/pkgdown/inst/BS5/templates/content-article-index.html | 2 pkgdown-2.0.9/pkgdown/inst/BS5/templates/content-reference-index.html | 2 pkgdown-2.0.9/pkgdown/inst/BS5/templates/footer.html | 4 pkgdown-2.0.9/pkgdown/inst/BS5/templates/head.html | 2 pkgdown-2.0.9/pkgdown/inst/doc/customise.Rmd | 23 - pkgdown-2.0.9/pkgdown/inst/doc/customise.html | 35 + pkgdown-2.0.9/pkgdown/inst/doc/how-to-update-released-site.Rmd | 93 ++--- pkgdown-2.0.9/pkgdown/inst/doc/how-to-update-released-site.html | 180 ++++------ pkgdown-2.0.9/pkgdown/man/build_articles.Rd | 8 pkgdown-2.0.9/pkgdown/man/build_home.Rd | 10 pkgdown-2.0.9/pkgdown/man/build_site.Rd | 28 - pkgdown-2.0.9/pkgdown/man/check_pkgdown.Rd | 8 pkgdown-2.0.9/pkgdown/man/rmd-fragments/home-configuration.Rmd | 10 pkgdown-2.0.9/pkgdown/man/rmd-fragments/navbar-configuration.Rmd | 2 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-articles.md | 4 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-favicons.md | 3 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-github.md | 1 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-home-citation.md | 1 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-home-index.md | 10 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-home.md | 5 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-news.md | 10 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-reference-index.md | 36 -- pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/build-reference.md | 11 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/figure.md | 2 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/navbar.md | 14 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/rd-html.md | 20 - pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/rmarkdown.md | 44 ++ pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/sitrep.md | 2 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/templates.md |only pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/topics-external.md | 4 pkgdown-2.0.9/pkgdown/tests/testthat/_snaps/topics.md | 48 +- pkgdown-2.0.9/pkgdown/tests/testthat/assets/r-fail.Rmd |only pkgdown-2.0.9/pkgdown/tests/testthat/test-build-home-md.R |only pkgdown-2.0.9/pkgdown/tests/testthat/test-build-news.R | 17 pkgdown-2.0.9/pkgdown/tests/testthat/test-build-reference-index.R | 9 pkgdown-2.0.9/pkgdown/tests/testthat/test-markdown.R | 4 pkgdown-2.0.9/pkgdown/tests/testthat/test-navbar.R | 17 pkgdown-2.0.9/pkgdown/tests/testthat/test-rmarkdown.R | 31 + pkgdown-2.0.9/pkgdown/tests/testthat/test-templates.R | 54 +++ pkgdown-2.0.9/pkgdown/tests/testthat/test-topics.R | 13 pkgdown-2.0.9/pkgdown/tests/testthat/test-tweak-tags.R | 4 pkgdown-2.0.9/pkgdown/vignettes/customise.Rmd | 23 - pkgdown-2.0.9/pkgdown/vignettes/how-to-update-released-site.Rmd | 93 ++--- pkgdown-2.0.9/pkgdown/vignettes/test/jss.log | 2 76 files changed, 964 insertions(+), 589 deletions(-)
Title: Fast Change Point Detection via Sequential Gradient Descent
Description: Implements fast change point detection algorithm based on the
paper "Sequential Gradient Descent and Quasi-Newton's Method for
Change-Point Analysis" by Xianyang Zhang, Trisha Dawn
<https://proceedings.mlr.press/v206/zhang23b.html>. The algorithm is
based on dynamic programming with pruning and sequential gradient
descent. It is able to detect change points a magnitude faster than
the vanilla Pruned Exact Linear Time(PELT). The package includes
examples of linear regression, logistic regression, Poisson
regression, penalized linear regression data, and whole lot more
examples with custom cost function in case the user wants to use their
own cost function.
Author: Xingchi Li [aut, cre, cph] ,
Xianyang Zhang [aut, cph]
Maintainer: Xingchi Li <anthony.li@stat.tamu.edu>
Diff between fastcpd versions 0.14.0 dated 2024-04-16 and 0.14.1 dated 2024-04-18
DESCRIPTION | 6 MD5 | 14 NEWS.md | 4 README.md | 2 inst/doc/comparison-packages.R | 126 ++--- inst/doc/comparison-packages.Rmd | 69 +-- inst/doc/comparison-packages.html | 811 +++++++++++++++++++------------------- vignettes/comparison-packages.Rmd | 69 +-- 8 files changed, 559 insertions(+), 542 deletions(-)
Title: Climate Change Metrics
Description: A framework that facilitates spatio-temporal analysis of climate dynamics through exploring and measuring different dimensions of climate change in space and time.
Author: Shirin Taheri [cre, aut] ,
Babak Naimi [aut] ,
Miguel Araujo [aut]
Maintainer: Shirin Taheri <taheri.shi@gmail.com>
Diff between climetrics versions 1.0-12 dated 2023-10-04 and 1.0-15 dated 2024-04-18
DESCRIPTION | 10 +++++----- MD5 | 14 ++++++++++---- R/ccm.R | 31 +++++++++++++------------------ R/velocity.R | 12 ++++++------ build/vignette.rds |binary inst/tinytest |only tests |only 7 files changed, 34 insertions(+), 33 deletions(-)
Title: Tidy Tuning Tools
Description: The ability to tune models is important. 'tune' contains
functions and classes to be used in conjunction with other
'tidymodels' packages for finding reasonable values of
hyper-parameters in models, pre-processing methods, and
post-processing steps.
Author: Max Kuhn [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between tune versions 1.2.0 dated 2024-03-20 and 1.2.1 dated 2024-04-18
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/grid_code_paths.R | 8 ++++++-- R/int_pctl.R | 8 +++++++- README.md | 2 +- tests/testthat/Rplots.pdf |binary 7 files changed, 29 insertions(+), 13 deletions(-)
Title: Partitioned Local Depth for Community Structure in Data
Description: Implementation of the Partitioned Local Depth (PaLD)
approach which provides a measure of local depth and the cohesion of a point
to another which (together with a universal threshold for distinguishing
strong and weak ties) may be used to reveal local and global structure in
data, based on methods described in Berenhaut, Moore, and Melvin (2022)
<doi:10.1073/pnas.2003634119>. No extraneous inputs, distributional
assumptions, iterative procedures nor optimization criteria are employed.
This package includes functions for computing local depths and cohesion as
well as flexible functions for plotting community networks and displays of
cohesion against distance.
Author: Katherine Moore [aut] ,
Kenneth Berenhaut [aut],
Lucy D'Agostino McGowan [aut, cre]
Maintainer: Lucy D'Agostino McGowan <lucydagostino@gmail.com>
Diff between pald versions 0.0.3 dated 2023-09-28 and 0.0.4 dated 2024-04-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/pald_functions.R | 8 +++++--- man/pald.Rd | 6 ++++-- 5 files changed, 20 insertions(+), 12 deletions(-)
Title: Penalized Quantile Regression
Description: Performs penalized quantile regression with LASSO, elastic net, SCAD and MCP penalty functions including group penalties. In addition, offers a group penalty that provides consistent variable selection across quantiles. Provides a function that automatically generates lambdas and evaluates different models with cross validation or BIC, including a large p version of BIC. Below URL provides a link to a work in progress vignette.
Author: Ben Sherwood [aut, cre], Adam Maidman [aut], Shaobo Li [aut]
Maintainer: Ben Sherwood <ben.sherwood@ku.edu>
Diff between rqPen versions 3.2.2 dated 2024-03-14 and 4.0 dated 2024-04-18
rqPen-3.2.2/rqPen/R/QICD_functions.R |only rqPen-3.2.2/rqPen/man/QICD.Rd |only rqPen-3.2.2/rqPen/man/QICD.nonpen.Rd |only rqPen-3.2.2/rqPen/man/cv.rq.pen.Rd |only rqPen-3.2.2/rqPen/man/print.cv.rq.pen.Rd |only rqPen-3.2.2/rqPen/man/print.rq.pen.Rd |only rqPen-3.2.2/rqPen/src/Makevars |only rqPen-3.2.2/rqPen/src/QCD.cpp |only rqPen-3.2.2/rqPen/src/rqPen_init.c |only rqPen-3.2.2/rqPen/src/rqbr.f |only rqPen-3.2.2/rqPen/src/rqfnb.f |only rqPen-3.2.2/rqPen/src/xssort.f |only rqPen-4.0/rqPen/DESCRIPTION | 15 rqPen-4.0/rqPen/MD5 | 62 rqPen-4.0/rqPen/NAMESPACE | 8 rqPen-4.0/rqPen/NEWS | 319 +- rqPen-4.0/rqPen/R/RcppExports.R |only rqPen-4.0/rqPen/R/gqCvPen.R |only rqPen-4.0/rqPen/R/gqPen.R |only rqPen-4.0/rqPen/R/mainFunctions.R | 584 ---- rqPen-4.0/rqPen/R/rqPen.R | 54 rqPen-4.0/rqPen/R/utils.R |only rqPen-4.0/rqPen/R/workHorse.R | 2879 +++++++++++------------- rqPen-4.0/rqPen/build/partial.rdb |binary rqPen-4.0/rqPen/inst/REFERENCES.bib | 40 rqPen-4.0/rqPen/man/bytau.plot.rq.pen.seq.cv.Rd | 2 rqPen-4.0/rqPen/man/coef.rq.pen.seq.cv.Rd | 9 rqPen-4.0/rqPen/man/cv.rq.group.pen.Rd | 4 rqPen-4.0/rqPen/man/plot.rq.pen.seq.cv.Rd | 9 rqPen-4.0/rqPen/man/predict.rq.pen.seq.cv.Rd | 2 rqPen-4.0/rqPen/man/qic.select.rq.pen.seq.Rd | 2 rqPen-4.0/rqPen/man/qic.select.rq.pen.seq.cv.Rd | 2 rqPen-4.0/rqPen/man/rq.gq.pen.Rd |only rqPen-4.0/rqPen/man/rq.gq.pen.cv.Rd |only rqPen-4.0/rqPen/man/rq.group.fit.Rd | 6 rqPen-4.0/rqPen/man/rq.group.pen.Rd | 4 rqPen-4.0/rqPen/man/rq.group.pen.cv.Rd | 1 rqPen-4.0/rqPen/man/rq.nc.fit.Rd | 4 rqPen-4.0/rqPen/man/rq.pen.Rd | 3 rqPen-4.0/rqPen/man/rq.pen.cv.Rd | 1 rqPen-4.0/rqPen/src/RcppExports.cpp |only rqPen-4.0/rqPen/src/solvebetaRcpp.cpp |only 42 files changed, 1772 insertions(+), 2238 deletions(-)
Title: Algorithms for Quantitative Pedology
Description: The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks <doi:10.1016/j.cageo.2012.10.020>. These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb <https://casoilresource.lawr.ucdavis.edu/soilweb-apps>. Components of the AQP project (aqp, soilD [...truncated...]
Author: Dylan Beaudette [aut, cre],
Pierre Roudier [aut, ctb],
Andrew Brown [aut, ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between aqp versions 2.0.2 dated 2023-11-28 and 2.0.3 dated 2024-04-18
aqp-2.0.2/aqp/R/soiltexture.R |only aqp-2.0.3/aqp/DESCRIPTION | 12 aqp-2.0.3/aqp/MD5 | 180 +++++----- aqp-2.0.3/aqp/NAMESPACE | 2 aqp-2.0.3/aqp/NEWS.md | 10 aqp-2.0.3/aqp/R/Class-SoilProfileCollection.R | 9 aqp-2.0.3/aqp/R/L1_profiles.R | 6 aqp-2.0.3/aqp/R/SoilProfileCollection-integrity.R | 33 - aqp-2.0.3/aqp/R/SoilProfileCollection-metadata.R | 2 aqp-2.0.3/aqp/R/SoilProfileCollection-methods.R | 2 aqp-2.0.3/aqp/R/SoilProfileCollection-setters.R | 72 ++-- aqp-2.0.3/aqp/R/aggregateSoilDepth.R | 4 aqp-2.0.3/aqp/R/aqp-label-placement-solvers.R | 5 aqp-2.0.3/aqp/R/aqp-package.R | 20 - aqp-2.0.3/aqp/R/bootstrapSoilTexture.R | 2 aqp-2.0.3/aqp/R/checkSPC.R | 9 aqp-2.0.3/aqp/R/combine.R | 20 - aqp-2.0.3/aqp/R/data-documentation.R | 66 ++- aqp-2.0.3/aqp/R/estimatePSCS.R | 9 aqp-2.0.3/aqp/R/estimateSoilColor.R | 3 aqp-2.0.3/aqp/R/estimateSoilDepth.R | 4 aqp-2.0.3/aqp/R/flagOverlappingHz.R | 70 +-- aqp-2.0.3/aqp/R/generalize.hz.R | 2 aqp-2.0.3/aqp/R/get.increase.matrix.R | 15 aqp-2.0.3/aqp/R/harmonize.R | 30 - aqp-2.0.3/aqp/R/huePositionCircle.R | 35 + aqp-2.0.3/aqp/R/hzTransitionProbabilities.R | 2 aqp-2.0.3/aqp/R/munsell2rgb.R | 8 aqp-2.0.3/aqp/R/mutate_profile.R | 33 + aqp-2.0.3/aqp/R/plot_distance_graph.R | 2 aqp-2.0.3/aqp/R/profileInformationIndex.R | 61 ++- aqp-2.0.3/aqp/R/reduce.R | 6 aqp-2.0.3/aqp/R/simulateColor.R | 104 ++++- aqp-2.0.3/aqp/R/soilColorIndices.R | 24 - aqp-2.0.3/aqp/R/splitLogicErrors.R | 8 aqp-2.0.3/aqp/R/summarize.R | 6 aqp-2.0.3/aqp/R/texture.R | 5 aqp-2.0.3/aqp/R/thicknessOf.R |only aqp-2.0.3/aqp/R/unroll.R | 2 aqp-2.0.3/aqp/R/zzz.R | 4 aqp-2.0.3/aqp/build/vignette.rds |binary aqp-2.0.3/aqp/inst/WORDLIST | 94 +++-- aqp-2.0.3/aqp/inst/doc/Introduction-to-SoilProfileCollection-Objects.R | 25 + aqp-2.0.3/aqp/inst/doc/Introduction-to-SoilProfileCollection-Objects.Rmd | 29 + aqp-2.0.3/aqp/inst/doc/Introduction-to-SoilProfileCollection-Objects.html | 111 +++--- aqp-2.0.3/aqp/inst/doc/Munsell-color-conversion.R |only aqp-2.0.3/aqp/inst/doc/Munsell-color-conversion.Rmd |only aqp-2.0.3/aqp/inst/doc/Munsell-color-conversion.html |only aqp-2.0.3/aqp/inst/doc/aqp-overview.R |only aqp-2.0.3/aqp/inst/doc/aqp-overview.Rmd |only aqp-2.0.3/aqp/inst/doc/aqp-overview.html |only aqp-2.0.3/aqp/inst/doc/label-placement.html | 12 aqp-2.0.3/aqp/inst/doc/missing-data.R | 4 aqp-2.0.3/aqp/inst/doc/missing-data.Rmd | 4 aqp-2.0.3/aqp/inst/doc/missing-data.html | 8 aqp-2.0.3/aqp/inst/doc/new-in-aqp-2.Rmd | 12 aqp-2.0.3/aqp/inst/doc/new-in-aqp-2.html | 18 - aqp-2.0.3/aqp/man/aggregateSoilDepth.Rd | 2 aqp-2.0.3/aqp/man/barron.torrent.redness.LAB.Rd | 2 aqp-2.0.3/aqp/man/checkSPC.Rd | 4 aqp-2.0.3/aqp/man/estimateSoilColor.Rd | 3 aqp-2.0.3/aqp/man/estimateSoilDepth.Rd | 4 aqp-2.0.3/aqp/man/flagOverlappingHz.Rd | 86 ++-- aqp-2.0.3/aqp/man/generalize.hz.Rd | 2 aqp-2.0.3/aqp/man/get.increase.matrix.Rd | 6 aqp-2.0.3/aqp/man/grepSPC.Rd | 2 aqp-2.0.3/aqp/man/harmonize-SoilProfileCollection-method.Rd | 30 - aqp-2.0.3/aqp/man/horizonColorIndices.Rd | 12 aqp-2.0.3/aqp/man/huePositionCircle.Rd | 14 aqp-2.0.3/aqp/man/hzTransitionProbabilities.Rd | 2 aqp-2.0.3/aqp/man/jacobs2000.Rd | 2 aqp-2.0.3/aqp/man/munsell.Rd | 41 +- aqp-2.0.3/aqp/man/munsell2rgb.Rd | 9 aqp-2.0.3/aqp/man/plot_distance_graph.Rd | 2 aqp-2.0.3/aqp/man/reduceSPC.Rd | 6 aqp-2.0.3/aqp/man/sierraTransect.Rd | 2 aqp-2.0.3/aqp/man/simulateColor.Rd | 21 - aqp-2.0.3/aqp/man/soiltexture.Rd | 28 - aqp-2.0.3/aqp/man/sp1.Rd | 2 aqp-2.0.3/aqp/man/sp2.Rd | 2 aqp-2.0.3/aqp/man/sp3.Rd | 2 aqp-2.0.3/aqp/man/sp4.Rd | 2 aqp-2.0.3/aqp/man/splitLogicErrors.Rd | 8 aqp-2.0.3/aqp/man/summarizeSPC.Rd | 6 aqp-2.0.3/aqp/man/texture.Rd | 2 aqp-2.0.3/aqp/man/thicknessOf.Rd |only aqp-2.0.3/aqp/man/unroll.Rd | 2 aqp-2.0.3/aqp/tests/testthat/Rplots.pdf |binary aqp-2.0.3/aqp/tests/testthat/test-SPC-objects.R | 8 aqp-2.0.3/aqp/tests/testthat/test-estimatePSCS.R | 24 + aqp-2.0.3/aqp/tests/testthat/test-flagOverlappingHz.R | 89 ++++ aqp-2.0.3/aqp/tests/testthat/test-thicknessOf.R |only aqp-2.0.3/aqp/vignettes/Introduction-to-SoilProfileCollection-Objects.Rmd | 29 + aqp-2.0.3/aqp/vignettes/Munsell-color-conversion.Rmd |only aqp-2.0.3/aqp/vignettes/aqp-overview.Rmd |only aqp-2.0.3/aqp/vignettes/missing-data.Rmd | 4 aqp-2.0.3/aqp/vignettes/new-in-aqp-2.Rmd | 12 97 files changed, 1027 insertions(+), 649 deletions(-)
Title: Multi-Armed Qini
Description: Evaluate treatment rules for costly and mutually exclusive treatment arms with Qini curves as proposed in Sverdrup, Wu, Athey, and Wager (2023) <doi:10.48550/arXiv.2306.11979>.
Author: Erik Sverdrup [aut, cre],
Han Wu [aut],
Susan Athey [aut],
Stefan Wager [aut]
Maintainer: Erik Sverdrup <erik.sverdrup@monash.edu>
Diff between maq versions 0.3.1 dated 2023-10-07 and 0.4.0 dated 2024-04-18
DESCRIPTION | 12 ++++++------ MD5 | 16 +++++++++------- NAMESPACE | 1 + R/get_aipw_scores.R |only R/get_ipw_scores.R | 17 +++++++++++++---- R/maq.R | 9 ++++++--- R/plot.R | 24 ++++++++++++++++++------ man/get_aipw_scores.Rd |only man/get_ipw_scores.Rd | 2 +- man/plot.maq.Rd | 5 +++-- 10 files changed, 57 insertions(+), 29 deletions(-)
Title: Iteratively Reweighted Boosting for Robust Analysis
Description: Fit a predictive model using iteratively reweighted boosting (IRBoost) to minimize robust loss functions within the CC-family (concave-convex). This constitutes an application of iteratively reweighted convex optimization (IRCO), where convex optimization is performed using the functional descent boosting algorithm. IRBoost assigns weights to facilitate outlier identification. Applications include robust generalized linear models and robust accelerated failure time models. Wang (2021) <doi:10.48550/arXiv.2101.07718>.
Author: Zhu Wang [aut, cre]
Maintainer: Zhu Wang <zhuwang@gmail.com>
Diff between irboost versions 0.1-1.3 dated 2023-06-24 and 0.1-1.5 dated 2024-04-18
irboost-0.1-1.3/irboost/R/irboost_aft.R |only irboost-0.1-1.3/irboost/man/irboost_aft.Rd |only irboost-0.1-1.3/irboost/vignettes/irbst.pdf |only irboost-0.1-1.5/irboost/DESCRIPTION | 12 - irboost-0.1-1.5/irboost/MD5 | 32 +-- irboost-0.1-1.5/irboost/NAMESPACE | 3 irboost-0.1-1.5/irboost/NEWS | 42 ++++ irboost-0.1-1.5/irboost/R/irb.train.R |only irboost-0.1-1.5/irboost/R/irb.train_aft.R |only irboost-0.1-1.5/irboost/R/irboost.R | 115 ++++++------ irboost-0.1-1.5/irboost/README.md | 2 irboost-0.1-1.5/irboost/build/vignette.rds |binary irboost-0.1-1.5/irboost/inst/CITATION | 2 irboost-0.1-1.5/irboost/inst/doc/static_irbst.pdf |binary irboost-0.1-1.5/irboost/inst/doc/static_irbst.pdf.asis | 2 irboost-0.1-1.5/irboost/man/irb.train.Rd |only irboost-0.1-1.5/irboost/man/irb.train_aft.Rd |only irboost-0.1-1.5/irboost/man/irboost.Rd | 105 +++++------ irboost-0.1-1.5/irboost/vignettes/irbst.bib | 148 ++++++++++++---- irboost-0.1-1.5/irboost/vignettes/irbst_code.pdf |only irboost-0.1-1.5/irboost/vignettes/static_irbst.pdf.asis | 2 21 files changed, 303 insertions(+), 162 deletions(-)
Title: Generalized Linear Models Adjusting for Misrepresentation
Description: Fit Generalized Linear Models to continuous and count outcomes, as well as estimate the prevalence of misrepresentation of an important binary predictor. Misrepresentation typically arises when there is an incentive for the binary factor to be misclassified in one direction (e.g., in insurance settings where policy holders may purposely deny a risk status in order to lower the insurance premium). This is accomplished by treating a subset of the response variable as resulting from a mixture distribution. Model parameters are estimated via the Expectation Maximization algorithm and standard errors of the estimates are obtained from closed forms of the Observed Fisher Information. For an introduction to the models and the misrepresentation framework, see Xia et. al., (2023) <https://variancejournal.org/article/73151-maximum-likelihood-approaches-to-misrepresentation-models-in-glm-ratemaking-model-comparisons>.
Author: Patrick Rafael [cre, aut],
Xia Michelle [aut],
Rexford Akakpo [aut]
Maintainer: Patrick Rafael <pbr2608@vt.edu>
Diff between glmMisrep versions 0.1.0 dated 2024-03-26 and 0.1.1 dated 2024-04-18
DESCRIPTION | 6 +++--- MD5 | 25 +++++++++++++------------ NEWS |only man/LnRegMisrepEM.Rd | 4 ++-- man/NormRegMisrepEM.Rd | 4 ++-- man/gammaRegMisrepEM.Rd | 4 ++-- man/nbRegMisrepEM.Rd | 4 ++-- man/poisRegMisrepEM.Rd | 4 ++-- man/predict.misrepEM.Rd | 3 +-- tests/LN-testing.R | 6 +++--- tests/NB-testing.R | 6 +++--- tests/Norm-testing.R | 2 +- tests/Pois-testing.R | 31 ++++++++++++++----------------- tests/gamma-testing.R | 6 +++--- 14 files changed, 51 insertions(+), 54 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil as 'sf' objects
in R. The package includes a wide range of geospatial data available
at various geographic scales and for various years with harmonized
attributes, projection and fixed topology.
Author: Rafael H. M. Pereira [aut, cre]
,
Caio Nogueira Goncalves [aut],
Paulo Henrique Fernandes de Araujo [ctb],
Guilherme Duarte Carvalho [ctb],
Rodrigo Almeida de Arruda [ctb],
Igor Nascimento [ctb],
Barbara Santiago Pedreira da Costa [ctb],
Welligtton S [...truncated...]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 1.8.2 dated 2024-01-09 and 1.9.0 dated 2024-04-18
geobr-1.8.2/geobr/vignettes/pandoc32e043bebd3.html |only geobr-1.8.2/geobr/vignettes/pandoc3d64491379ea.html |only geobr-1.9.0/geobr/DESCRIPTION | 16 - geobr-1.9.0/geobr/MD5 | 39 +-- geobr-1.9.0/geobr/R/read_health_facilities.R | 9 geobr-1.9.0/geobr/R/read_metro_area.R | 14 - geobr-1.9.0/geobr/R/read_urban_area.R | 11 geobr-1.9.0/geobr/R/utils.R | 66 +++++ geobr-1.9.0/geobr/inst/doc/intro_to_geobr.R | 1 geobr-1.9.0/geobr/inst/doc/intro_to_geobr.Rmd | 1 geobr-1.9.0/geobr/inst/doc/intro_to_geobr.html | 19 + geobr-1.9.0/geobr/man/filter_state.Rd |only geobr-1.9.0/geobr/man/geobr.Rd | 1 geobr-1.9.0/geobr/man/numbers_only.Rd |only geobr-1.9.0/geobr/man/read_capitals.Rd | 124 +++++----- geobr-1.9.0/geobr/man/read_health_facilities.Rd | 7 geobr-1.9.0/geobr/man/read_metro_area.Rd | 11 geobr-1.9.0/geobr/man/read_urban_area.Rd | 11 geobr-1.9.0/geobr/tests/tests_rafa/long_term_cache.R |only geobr-1.9.0/geobr/tests/testthat/test-read_health_facilities.R | 26 +- geobr-1.9.0/geobr/tests/testthat/test-read_metro_area.R | 23 + geobr-1.9.0/geobr/tests/testthat/test-read_urban_area.R | 22 + geobr-1.9.0/geobr/vignettes/intro_to_geobr.Rmd | 1 23 files changed, 288 insertions(+), 114 deletions(-)
Title: Access the 'City of Vancouver' Open Data API
Description: Wrapper around the 'City of Vancouver' Open Data API <https://opendata.vancouver.ca/api/v2/console> to simplify and standardize access to 'City of Vancouver' open data.
Functionality to list the data catalogue and access data and geographic records.
Author: Jens von Bergmann
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Diff between VancouvR versions 0.1.7 dated 2021-10-21 and 0.1.8 dated 2024-04-18
DESCRIPTION | 11 - MD5 | 28 +- NEWS.md | 5 R/datasets.R | 33 ++- README.md | 21 +- build/vignette.rds |binary inst/doc/Demo.R | 13 - inst/doc/Demo.Rmd | 17 + inst/doc/Demo.html | 480 ++++++++++++++++++++++++++++++++++--------------- inst/doc/Isolines.R | 4 inst/doc/Isolines.Rmd | 2 inst/doc/Isolines.html | 349 ++++++++++++++++++++++++++++------- man/get_cov_data.Rd | 10 - vignettes/Demo.Rmd | 17 + vignettes/Isolines.Rmd | 2 15 files changed, 729 insertions(+), 263 deletions(-)
Title: Query, Pivot, Patch, and Validate 'JSON' and 'NDJSON'
Description: Functions to query (filter or transform), pivot (convert
from array-of-objects to object-of-arrays, for easy import as 'R'
data frame), search, patch (edit), and validate (against 'JSON Schema')
'JSON' and 'NDJSON' strings, files, or URLs. Query and
pivot support 'JSONpointer', 'JSONpath' or 'JMESpath'
expressions. The implementation uses the 'jsoncons'
<https://danielaparker.github.io/jsoncons/> header-only library;
the library is easily linked to other packages for direct access
to 'C++' functionality not implemented here.
Author: Martin Morgan [aut, cre] ,
Marcel Ramos [aut] ,
Daniel Parker [aut, cph]
Maintainer: Martin Morgan <mtmorgan.xyz@gmail.com>
Diff between rjsoncons versions 1.2.0 dated 2024-01-26 and 1.3.0 dated 2024-04-18
rjsoncons-1.2.0/rjsoncons/R/j_query.R |only rjsoncons-1.2.0/rjsoncons/R/json.R |only rjsoncons-1.2.0/rjsoncons/R/ndjson.R |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons/item_event_reader.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/keyword_validator.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/keywords.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/schema_location.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/schema_parser.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft7/schema_parser_impl.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/schema_factory.hpp |only rjsoncons-1.2.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/schema_version.hpp |only rjsoncons-1.2.0/rjsoncons/inst/tinytest/test_j_query.R |only rjsoncons-1.2.0/rjsoncons/man/j_query.Rd |only rjsoncons-1.2.0/rjsoncons/man/paths_and_pointer.Rd |only rjsoncons-1.2.0/rjsoncons/src/r_json.h |only rjsoncons-1.2.0/rjsoncons/src/raw_buffer.h |only rjsoncons-1.2.0/rjsoncons/src/utilities.h |only rjsoncons-1.3.0/rjsoncons/DESCRIPTION | 35 rjsoncons-1.3.0/rjsoncons/MD5 | 370 ++--- rjsoncons-1.3.0/rjsoncons/NAMESPACE | 17 rjsoncons-1.3.0/rjsoncons/NEWS.md | 60 rjsoncons-1.3.0/rjsoncons/R/as_r.R | 41 rjsoncons-1.3.0/rjsoncons/R/cpp11.R | 52 rjsoncons-1.3.0/rjsoncons/R/do_cpp.R |only rjsoncons-1.3.0/rjsoncons/R/flatten.R |only rjsoncons-1.3.0/rjsoncons/R/j_data_type.R | 6 rjsoncons-1.3.0/rjsoncons/R/patch.R |only rjsoncons-1.3.0/rjsoncons/R/paths_and_pointer.R | 12 rjsoncons-1.3.0/rjsoncons/R/progressbar.R |only rjsoncons-1.3.0/rjsoncons/R/rquerypivot.R |only rjsoncons-1.3.0/rjsoncons/R/schema.R |only rjsoncons-1.3.0/rjsoncons/R/utilities.R | 24 rjsoncons-1.3.0/rjsoncons/R/version.R | 7 rjsoncons-1.3.0/rjsoncons/README.md | 30 rjsoncons-1.3.0/rjsoncons/build/vignette.rds |binary rjsoncons-1.3.0/rjsoncons/inst/doc/a_rjsoncons.R | 137 + rjsoncons-1.3.0/rjsoncons/inst/doc/a_rjsoncons.Rmd | 349 ++++ rjsoncons-1.3.0/rjsoncons/inst/doc/a_rjsoncons.html | 459 +++++- rjsoncons-1.3.0/rjsoncons/inst/extdata/flatten_data.json |only rjsoncons-1.3.0/rjsoncons/inst/extdata/json-patch.json |only rjsoncons-1.3.0/rjsoncons/inst/extdata/patch_data.json |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/allocator_holder.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/allocator_set.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/basic_json.hpp | 146 +- rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/byte_string.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/config/compiler_support.hpp | 26 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/config/jsoncons_config.hpp | 13 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/config/version.hpp | 4 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/conv_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/decode_json.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/decode_traits.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/detail/endian.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/detail/heap_string.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/detail/optional.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/detail/parse_number.hpp | 47 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/detail/string_view.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/detail/write_number.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/encode_json.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/encode_traits.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/extension_traits.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/item_event_visitor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_array.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_content_handler.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_cursor.hpp | 19 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_decoder.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_encoder.hpp | 139 + rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_exception.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_filter.hpp | 9 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_fwd.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_object.hpp | 79 - rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_options.hpp | 31 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_reader.hpp | 11 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_traits_macros.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_traits_macros_deprecated.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_type.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_type_traits.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/json_visitor.hpp | 6 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/pretty_print.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/ser_context.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/sink.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/source.hpp | 6 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/source_adaptor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/staj_cursor.hpp | 492 ------ rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/staj_event.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/staj_event_reader.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/staj_iterator.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/tag_type.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/text_source_adaptor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/typed_array_view.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/unicode_traits.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/uri.hpp | 723 ++++++++-- rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons/value_converter.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_cursor.hpp | 4 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_encoder.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_options.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_reader.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/bson_type.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/decode_bson.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/bson/encode_bson.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_cursor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_detail.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_encoder.hpp | 10 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_error.hpp | 3 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_event_reader.hpp | 8 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_options.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/cbor_reader.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/decode_cbor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/cbor/encode_cbor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_cursor.hpp | 10 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_encoder.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_options.hpp | 6 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_reader.hpp | 12 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/csv_serializer.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/decode_csv.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/csv/encode_csv.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jmespath/jmespath.hpp | 4 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jmespath/jmespath_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpatch/jsonpatch.hpp | 10 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpatch/jsonpatch_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/expression.hpp | 7 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/flatten.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/json_location.hpp | 74 + rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/json_location_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/json_query.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/jsonpath.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/jsonpath_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/jsonpath_expression.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/jsonpath_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/jsonpath_selector.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/jsonpath_utilities.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpath/path_node.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpointer/jsonpointer.hpp | 132 - rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonpointer/jsonpointer_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/compilation_context.hpp | 174 -- rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/evaluation_context.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/format_validator.hpp | 241 ++- rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/keyword_validators.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/schema_builder.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/schema_validators.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/uri_wrapper.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/common/validator.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft201909 |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft202012 |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft4 |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft6 |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft7/schema_builder_7.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/draft7/schema_draft7.hpp | 8 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/evaluation_options.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/json_schema.hpp | 154 +- rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/json_schema_factory.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/json_validator.hpp | 108 + rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/jsonschema.hpp | 5 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/jsonschema_error.hpp | 62 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/jsonschema/validation_message.hpp |only rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/mergepatch/mergepatch.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/decode_msgpack.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/encode_msgpack.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_cursor.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_encoder.hpp | 4 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_event_reader.hpp | 8 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_options.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_parser.hpp | 4 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_reader.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/msgpack/msgpack_type.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/decode_ubjson.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/encode_ubjson.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_cursor.hpp | 4 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_encoder.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_error.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_options.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_parser.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_reader.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/include/jsoncons_ext/ubjson/ubjson_type.hpp | 2 rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_as_r.R | 32 rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_flatten.R |only rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_jsoncons.R | 2 rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_patch.R |only rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_rquerypivot.R |only rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_schema.R |only rjsoncons-1.3.0/rjsoncons/inst/tinytest/test_utilities.R | 6 rjsoncons-1.3.0/rjsoncons/man/as_r.Rd | 35 rjsoncons-1.3.0/rjsoncons/man/flatten.Rd |only rjsoncons-1.3.0/rjsoncons/man/j_data_type.Rd | 5 rjsoncons-1.3.0/rjsoncons/man/patch.Rd |only rjsoncons-1.3.0/rjsoncons/man/rquerypivot.Rd |only rjsoncons-1.3.0/rjsoncons/man/schema.Rd |only rjsoncons-1.3.0/rjsoncons/man/version.Rd | 3 rjsoncons-1.3.0/rjsoncons/man/zzz_paths_and_pointer.Rd |only rjsoncons-1.3.0/rjsoncons/src/cpp11.cpp | 110 + rjsoncons-1.3.0/rjsoncons/src/enum_index.h |only rjsoncons-1.3.0/rjsoncons/src/flatten.cpp |only rjsoncons-1.3.0/rjsoncons/src/j_as.h | 55 rjsoncons-1.3.0/rjsoncons/src/patch.cpp |only rjsoncons-1.3.0/rjsoncons/src/progressbar.h |only rjsoncons-1.3.0/rjsoncons/src/readbinbuf.h |only rjsoncons-1.3.0/rjsoncons/src/rjsoncons.cpp | 208 +- rjsoncons-1.3.0/rjsoncons/src/rquerypivot.h |only rjsoncons-1.3.0/rjsoncons/src/schema.cpp |only rjsoncons-1.3.0/rjsoncons/vignettes/a_rjsoncons.Rmd | 349 ++++ 213 files changed, 3470 insertions(+), 1921 deletions(-)
Title: Statistical Methodology for Graphical Extreme Value Models
Description: Statistical methodology for sparse multivariate extreme value models. Methods are
provided for exact simulation and statistical inference for multivariate Pareto distributions
on graphical structures as described in the paper 'Graphical Models for Extremes' by
Engelke and Hitz (2020) <doi:10.1111/rssb.12355>.
Author: Sebastian Engelke [aut, cre],
Adrien S. Hitz [aut],
Nicola Gnecco [aut],
Manuel Hentschel [aut]
Maintainer: Sebastian Engelke <sebastian.engelke@unige.ch>
Diff between graphicalExtremes versions 0.3.1 dated 2024-02-22 and 0.3.2 dated 2024-04-18
DESCRIPTION | 8 MD5 | 43 - NAMESPACE | 2 R/data_danube.R | 2 R/data_flights.R | 106 +- R/eglatent.R |only build/partial.rdb |binary build/vignette.rds |binary data/flights.rda |binary inst/REFERENCES.bib | 11 inst/doc/applicationDanube.R | 532 ++++++------- inst/doc/applicationDanube.html | 1191 ++++++++++++++++--------------- inst/doc/applicationFlights.R | 412 +++++----- inst/doc/applicationFlights.html | 740 ++++++++++--------- man/data2mpareto.Rd | 1 man/eglatent.Rd |only man/eglearn.Rd | 1 man/emst.Rd | 1 man/fit_graph_to_Theta.Rd | 1 man/flightCountMatrixToConnectionList.Rd | 1 man/flights.Rd | 1 man/getFlightDelayData.Rd | 1 man/getFlightGraph.Rd |only man/plotFlights.Rd | 3 24 files changed, 1636 insertions(+), 1421 deletions(-)
More information about graphicalExtremes at CRAN
Permanent link
Title: Nearest Neighbor Descent Method for Approximate Nearest
Neighbors
Description: The Nearest Neighbor Descent method for finding approximate
nearest neighbors by Dong and co-workers (2010)
<doi:10.1145/1963405.1963487>. Based on the 'Python' package
'PyNNDescent' <https://github.com/lmcinnes/pynndescent>.
Author: James Melville [aut, cre, cph],
Vitalie Spinu [ctb],
Ralf Stubner [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between rnndescent versions 0.1.4 dated 2024-03-18 and 0.1.5 dated 2024-04-18
DESCRIPTION | 12 +++++++----- MD5 | 8 ++++---- NEWS.md | 6 ++++++ inst/include/rnndescent/random.h | 30 ++++++++++++++---------------- man/rnndescent-package.Rd | 1 + 5 files changed, 32 insertions(+), 25 deletions(-)
Title: Functional Help for Functions, Objects, and Packages
Description: Enhance R help system by fuzzy search and preview interface, pseudo-postfix operators, and more.
The `?.` pseudo-postfix operator and the `?` prefix operator displays documents and contents (source or structure) of objects simultaneously to help understanding the objects.
The `?p` pseudo-postfix operator displays package documents, and is shorter than help(package = foo).
Author: Atsushi Yasumoto [aut, cph, cre]
Maintainer: Atsushi Yasumoto <atusy.rpkg@gmail.com>
Diff between felp versions 0.4.0 dated 2024-03-29 and 0.5.0 dated 2024-04-18
DESCRIPTION | 6 +- MD5 | 10 ++-- NEWS.md | 6 ++ R/fuzzyhelp.R | 131 +++++++++++++++++++++++++++++++++++++++-------------- inst/doc/felp.html | 6 +- man/fuzzyhelp.Rd | 6 +- 6 files changed, 119 insertions(+), 46 deletions(-)
Title: Semi-Supervised Bayesian Mixture Models Incorporating Batch
Correction
Description: Semi-supervised and unsupervised Bayesian mixture models that
simultaneously infer the cluster/class structure and a batch correction.
Densities available are the multivariate normal and the multivariate t.
The model sampler is implemented in C++. This package is aimed at analysis of
low-dimensional data generated across several batches. See Coleman et al.
(2022) <doi:10.1101/2022.01.14.476352> for details of the model.
Author: Stephen Coleman [aut, cre],
Paul Kirk [aut],
Chris Wallace [aut]
Maintainer: Stephen Coleman <stcolema@tcd.ie>
Diff between batchmix versions 2.1.0 dated 2024-02-24 and 2.2.0 dated 2024-04-18
batchmix-2.1.0/batchmix/src/test-example.cpp |only batchmix-2.1.0/batchmix/src/test-mvnKernels.cpp |only batchmix-2.1.0/batchmix/src/test-mvtKernels.cpp |only batchmix-2.1.0/batchmix/src/test-pdfs.cpp |only batchmix-2.1.0/batchmix/src/test-runner.cpp |only batchmix-2.1.0/batchmix/tests |only batchmix-2.2.0/batchmix/DESCRIPTION | 10 batchmix-2.2.0/batchmix/MD5 | 21 - batchmix-2.2.0/batchmix/R/batchmix-package.R | 4 batchmix-2.2.0/batchmix/R/catch-routine-registration.R | 2 batchmix-2.2.0/batchmix/R/predictFromMultipleChains.R | 5 batchmix-2.2.0/batchmix/inst/doc/batchmix_workflow.html | 235 ++++++++-------- batchmix-2.2.0/batchmix/man/VI.lb.Rd | 88 ++--- batchmix-2.2.0/batchmix/man/minVI.Rd | 140 ++++----- 14 files changed, 250 insertions(+), 255 deletions(-)
Title: Auxiliary Routines for Influx Software
Description: Contains auxiliary routines for influx software. This packages is not intended to be used directly. Influx was published here: Sokol et al. (2012) <doi:10.1093/bioinformatics/btr716>.
Author: Serguei Sokol
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between multbxxc versions 1.0.1 dated 2019-11-15 and 1.0.2 dated 2024-04-18
DESCRIPTION | 10 ++++---- MD5 | 14 ++++++------ NEWS | 6 +++++ README.md | 2 - src/Makevars | 2 - src/RcppExports.cpp | 5 ++++ src/multbxxc.cpp | 47 +++++++++++++++++++++++++++++++++++++++-- tests/testthat/test_multbxxc.R | 21 ++++++++++++++++-- 8 files changed, 88 insertions(+), 19 deletions(-)
Title: R Interface to 'Keras'
Description: Interface to 'Keras' <https://keras.io>, a high-level neural
networks API. 'Keras' was developed with a focus on enabling fast experimentation,
supports both convolution based networks and recurrent networks (as well as
combinations of the two), and runs seamlessly on both CPU and GPU devices.
Author: Tomasz Kalinowski [aut, cph, cre],
Daniel Falbel [ctb, cph],
JJ Allaire [aut, cph],
Francois Chollet [aut, cph],
Posit Software, PBC [cph, fnd],
Google [cph, fnd],
Yuan Tang [ctb, cph] ,
Wouter Van Der Bijl [ctb, cph],
Martin Studer [ctb, cph],
Sigri [...truncated...]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between keras3 versions 0.1.0 dated 2024-02-17 and 0.2.0 dated 2024-04-18
keras3-0.1.0/keras3/R/layers-torch-wrapper.R |only keras3-0.1.0/keras3/inst/doc/custom_train_step_in_jax.Rmd |only keras3-0.1.0/keras3/inst/doc/custom_train_step_in_jax.html |only keras3-0.1.0/keras3/inst/doc/custom_train_step_in_torch.Rmd |only keras3-0.1.0/keras3/inst/doc/custom_train_step_in_torch.html |only keras3-0.1.0/keras3/inst/doc/customizing_saving_and_serialization.Rmd |only keras3-0.1.0/keras3/inst/doc/customizing_saving_and_serialization.html |only keras3-0.1.0/keras3/inst/doc/distributed_training_with_jax.Rmd |only keras3-0.1.0/keras3/inst/doc/distributed_training_with_jax.html |only keras3-0.1.0/keras3/inst/doc/distributed_training_with_torch.Rmd |only keras3-0.1.0/keras3/inst/doc/distributed_training_with_torch.html |only keras3-0.1.0/keras3/inst/doc/writing_a_custom_training_loop_in_jax.Rmd |only keras3-0.1.0/keras3/inst/doc/writing_a_custom_training_loop_in_jax.html |only keras3-0.1.0/keras3/inst/doc/writing_a_custom_training_loop_in_torch.Rmd |only keras3-0.1.0/keras3/inst/doc/writing_a_custom_training_loop_in_torch.html |only keras3-0.1.0/keras3/inst/doc/writing_a_training_loop_from_scratch.Rmd |only keras3-0.1.0/keras3/inst/doc/writing_a_training_loop_from_scratch.html |only keras3-0.1.0/keras3/tools/compare.R |only keras3-0.1.0/keras3/tools/make.R |only keras3-0.1.0/keras3/tools/make2.R |only keras3-0.1.0/keras3/tools/patch.R |only keras3-0.1.0/keras3/tools/translate-tools.R |only keras3-0.1.0/keras3/tools/translate.R |only keras3-0.1.0/keras3/vignettes/custom_train_step_in_jax.Rmd |only keras3-0.1.0/keras3/vignettes/custom_train_step_in_torch.Rmd |only keras3-0.1.0/keras3/vignettes/customizing_saving_and_serialization.Rmd |only keras3-0.1.0/keras3/vignettes/distributed_training_with_jax.Rmd |only keras3-0.1.0/keras3/vignettes/distributed_training_with_torch.Rmd |only keras3-0.1.0/keras3/vignettes/writing_a_custom_training_loop_in_jax.Rmd |only keras3-0.1.0/keras3/vignettes/writing_a_custom_training_loop_in_torch.Rmd |only keras3-0.1.0/keras3/vignettes/writing_a_training_loop_from_scratch.Rmd |only keras3-0.2.0/keras3/DESCRIPTION | 12 keras3-0.2.0/keras3/MD5 | 1099 +++++----- keras3-0.2.0/keras3/NAMESPACE | 33 keras3-0.2.0/keras3/NEWS.md | 67 keras3-0.2.0/keras3/R/Callback.R | 15 keras3-0.2.0/keras3/R/Constraint.R | 10 keras3-0.2.0/keras3/R/Layer.R | 125 - keras3-0.2.0/keras3/R/Loss.R | 4 keras3-0.2.0/keras3/R/Metric.R | 5 keras3-0.2.0/keras3/R/Model.R | 2 keras3-0.2.0/keras3/R/activations.R | 6 keras3-0.2.0/keras3/R/applications.R | 83 keras3-0.2.0/keras3/R/callbacks.R | 9 keras3-0.2.0/keras3/R/config.R | 76 keras3-0.2.0/keras3/R/dataset-utils.R | 52 keras3-0.2.0/keras3/R/image-utils.R | 9 keras3-0.2.0/keras3/R/install.R | 94 keras3-0.2.0/keras3/R/jax-methods.R |only keras3-0.2.0/keras3/R/layer-custom.R | 2 keras3-0.2.0/keras3/R/layer-methods.R | 27 keras3-0.2.0/keras3/R/layer-r-helpers.R | 10 keras3-0.2.0/keras3/R/layers-backend-wrappers.R |only keras3-0.2.0/keras3/R/layers-convolutional.R | 20 keras3-0.2.0/keras3/R/layers-core.R | 19 keras3-0.2.0/keras3/R/layers-merging.R | 1 keras3-0.2.0/keras3/R/layers-normalization.R | 2 keras3-0.2.0/keras3/R/layers-pooling.R | 4 keras3-0.2.0/keras3/R/layers-preprocessing.R | 148 + keras3-0.2.0/keras3/R/layers-reshaping.R | 29 keras3-0.2.0/keras3/R/layers-rnn.R | 16 keras3-0.2.0/keras3/R/losses.R | 119 - keras3-0.2.0/keras3/R/metrics.R | 92 keras3-0.2.0/keras3/R/model-persistence.R | 9 keras3-0.2.0/keras3/R/model-training.R | 150 + keras3-0.2.0/keras3/R/module-tethers.R | 31 keras3-0.2.0/keras3/R/ops-image.R | 65 keras3-0.2.0/keras3/R/ops-linalg.R |only keras3-0.2.0/keras3/R/ops-math.R |only keras3-0.2.0/keras3/R/ops-nn.R |only keras3-0.2.0/keras3/R/ops-numpy.R |only keras3-0.2.0/keras3/R/ops.R | 490 +++- keras3-0.2.0/keras3/R/optimizers-schedules.R | 2 keras3-0.2.0/keras3/R/optimizers.R | 36 keras3-0.2.0/keras3/R/package.R | 30 keras3-0.2.0/keras3/R/py-classes.R | 14 keras3-0.2.0/keras3/R/r-utils.R | 39 keras3-0.2.0/keras3/R/random.R | 92 keras3-0.2.0/keras3/R/s3-methods.R | 27 keras3-0.2.0/keras3/R/shape.R | 24 keras3-0.2.0/keras3/R/utils.R | 18 keras3-0.2.0/keras3/build/vignette.rds |binary keras3-0.2.0/keras3/inst/doc/custom_train_step_in_tensorflow.Rmd | 10 keras3-0.2.0/keras3/inst/doc/custom_train_step_in_tensorflow.html | 10 keras3-0.2.0/keras3/inst/doc/distributed_training_with_tensorflow.Rmd | 16 keras3-0.2.0/keras3/inst/doc/distributed_training_with_tensorflow.html | 18 keras3-0.2.0/keras3/inst/doc/distribution.Rmd |only keras3-0.2.0/keras3/inst/doc/distribution.html |only keras3-0.2.0/keras3/inst/doc/functional_api.Rmd | 320 +- keras3-0.2.0/keras3/inst/doc/functional_api.html | 316 +- keras3-0.2.0/keras3/inst/doc/getting_started.Rmd | 34 keras3-0.2.0/keras3/inst/doc/getting_started.html | 36 keras3-0.2.0/keras3/inst/doc/intro_to_keras_for_engineers.Rmd | 74 keras3-0.2.0/keras3/inst/doc/intro_to_keras_for_engineers.html | 74 keras3-0.2.0/keras3/inst/doc/making_new_layers_and_models_via_subclassing.Rmd | 21 keras3-0.2.0/keras3/inst/doc/making_new_layers_and_models_via_subclassing.html | 167 - keras3-0.2.0/keras3/inst/doc/sequential_model.Rmd | 123 - keras3-0.2.0/keras3/inst/doc/sequential_model.html | 124 - keras3-0.2.0/keras3/inst/doc/serialization_and_saving.Rmd | 22 keras3-0.2.0/keras3/inst/doc/serialization_and_saving.html | 22 keras3-0.2.0/keras3/inst/doc/training_with_built_in_methods.Rmd | 147 - keras3-0.2.0/keras3/inst/doc/training_with_built_in_methods.html | 143 - keras3-0.2.0/keras3/inst/doc/transfer_learning.Rmd | 76 keras3-0.2.0/keras3/inst/doc/transfer_learning.html | 76 keras3-0.2.0/keras3/inst/doc/understanding_masking_and_padding.Rmd | 8 keras3-0.2.0/keras3/inst/doc/understanding_masking_and_padding.html | 8 keras3-0.2.0/keras3/inst/doc/writing_a_custom_training_loop_in_tensorflow.Rmd | 371 +-- keras3-0.2.0/keras3/inst/doc/writing_a_custom_training_loop_in_tensorflow.html | 717 +++--- keras3-0.2.0/keras3/inst/doc/writing_your_own_callbacks.Rmd | 115 - keras3-0.2.0/keras3/inst/doc/writing_your_own_callbacks.html | 159 - keras3-0.2.0/keras3/man/Layer.Rd | 133 - keras3-0.2.0/keras3/man/Loss.Rd | 5 keras3-0.2.0/keras3/man/Metric.Rd | 6 keras3-0.2.0/keras3/man/Model.Rd | 2 keras3-0.2.0/keras3/man/activation_hard_sigmoid.Rd | 6 keras3-0.2.0/keras3/man/adapt.Rd | 2 keras3-0.2.0/keras3/man/audio_dataset_from_directory.Rd | 7 keras3-0.2.0/keras3/man/callback_learning_rate_scheduler.Rd | 4 keras3-0.2.0/keras3/man/callback_model_checkpoint.Rd | 10 keras3-0.2.0/keras3/man/callback_remote_monitor.Rd | 2 keras3-0.2.0/keras3/man/callback_tensorboard.Rd | 2 keras3-0.2.0/keras3/man/clear_session.Rd | 1 keras3-0.2.0/keras3/man/config_backend.Rd | 1 keras3-0.2.0/keras3/man/config_disable_interactive_logging.Rd | 2 keras3-0.2.0/keras3/man/config_disable_traceback_filtering.Rd | 2 keras3-0.2.0/keras3/man/config_dtype_policy.Rd |only keras3-0.2.0/keras3/man/config_enable_interactive_logging.Rd | 2 keras3-0.2.0/keras3/man/config_enable_traceback_filtering.Rd | 2 keras3-0.2.0/keras3/man/config_enable_unsafe_deserialization.Rd | 1 keras3-0.2.0/keras3/man/config_epsilon.Rd | 1 keras3-0.2.0/keras3/man/config_floatx.Rd | 1 keras3-0.2.0/keras3/man/config_image_data_format.Rd | 1 keras3-0.2.0/keras3/man/config_is_interactive_logging_enabled.Rd | 2 keras3-0.2.0/keras3/man/config_is_traceback_filtering_enabled.Rd | 2 keras3-0.2.0/keras3/man/config_set_backend.Rd |only keras3-0.2.0/keras3/man/config_set_dtype_policy.Rd |only keras3-0.2.0/keras3/man/config_set_epsilon.Rd | 1 keras3-0.2.0/keras3/man/config_set_floatx.Rd | 1 keras3-0.2.0/keras3/man/config_set_image_data_format.Rd | 1 keras3-0.2.0/keras3/man/count_params.Rd | 1 keras3-0.2.0/keras3/man/custom_metric.Rd | 4 keras3-0.2.0/keras3/man/export_savedmodel.keras.src.models.model.Model.Rd | 5 keras3-0.2.0/keras3/man/freeze_weights.Rd | 570 ++--- keras3-0.2.0/keras3/man/get_config.Rd | 1 keras3-0.2.0/keras3/man/get_custom_objects.Rd | 2 keras3-0.2.0/keras3/man/get_file.Rd | 1 keras3-0.2.0/keras3/man/get_source_inputs.Rd | 1 keras3-0.2.0/keras3/man/get_weights.Rd | 1 keras3-0.2.0/keras3/man/image_array_save.Rd | 2 keras3-0.2.0/keras3/man/image_dataset_from_directory.Rd | 22 keras3-0.2.0/keras3/man/image_from_array.Rd | 4 keras3-0.2.0/keras3/man/image_load.Rd | 4 keras3-0.2.0/keras3/man/image_smart_resize.Rd | 2 keras3-0.2.0/keras3/man/image_to_array.Rd | 4 keras3-0.2.0/keras3/man/imagenet_decode_predictions.Rd |only keras3-0.2.0/keras3/man/imagenet_preprocess_input.Rd |only keras3-0.2.0/keras3/man/install_keras.Rd | 2 keras3-0.2.0/keras3/man/keras_model_sequential.Rd | 22 keras3-0.2.0/keras3/man/layer_activation.Rd | 3 keras3-0.2.0/keras3/man/layer_activation_elu.Rd | 3 keras3-0.2.0/keras3/man/layer_activation_leaky_relu.Rd | 3 keras3-0.2.0/keras3/man/layer_activation_parametric_relu.Rd | 3 keras3-0.2.0/keras3/man/layer_activation_relu.Rd | 3 keras3-0.2.0/keras3/man/layer_activation_softmax.Rd | 3 keras3-0.2.0/keras3/man/layer_activity_regularization.Rd | 3 keras3-0.2.0/keras3/man/layer_add.Rd | 3 keras3-0.2.0/keras3/man/layer_additive_attention.Rd | 3 keras3-0.2.0/keras3/man/layer_alpha_dropout.Rd | 3 keras3-0.2.0/keras3/man/layer_attention.Rd | 3 keras3-0.2.0/keras3/man/layer_average.Rd | 3 keras3-0.2.0/keras3/man/layer_average_pooling_1d.Rd | 3 keras3-0.2.0/keras3/man/layer_average_pooling_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_average_pooling_3d.Rd | 5 keras3-0.2.0/keras3/man/layer_batch_normalization.Rd | 3 keras3-0.2.0/keras3/man/layer_bidirectional.Rd | 3 keras3-0.2.0/keras3/man/layer_category_encoding.Rd | 8 keras3-0.2.0/keras3/man/layer_center_crop.Rd | 4 keras3-0.2.0/keras3/man/layer_concatenate.Rd | 3 keras3-0.2.0/keras3/man/layer_conv_1d.Rd | 5 keras3-0.2.0/keras3/man/layer_conv_1d_transpose.Rd | 5 keras3-0.2.0/keras3/man/layer_conv_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_conv_2d_transpose.Rd | 5 keras3-0.2.0/keras3/man/layer_conv_3d.Rd | 5 keras3-0.2.0/keras3/man/layer_conv_3d_transpose.Rd | 5 keras3-0.2.0/keras3/man/layer_conv_lstm_1d.Rd | 3 keras3-0.2.0/keras3/man/layer_conv_lstm_2d.Rd | 3 keras3-0.2.0/keras3/man/layer_conv_lstm_3d.Rd | 3 keras3-0.2.0/keras3/man/layer_cropping_1d.Rd | 5 keras3-0.2.0/keras3/man/layer_cropping_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_cropping_3d.Rd | 5 keras3-0.2.0/keras3/man/layer_dense.Rd | 3 keras3-0.2.0/keras3/man/layer_depthwise_conv_1d.Rd | 5 keras3-0.2.0/keras3/man/layer_depthwise_conv_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_discretization.Rd | 4 keras3-0.2.0/keras3/man/layer_dot.Rd | 3 keras3-0.2.0/keras3/man/layer_dropout.Rd | 3 keras3-0.2.0/keras3/man/layer_einsum_dense.Rd | 7 keras3-0.2.0/keras3/man/layer_embedding.Rd | 17 keras3-0.2.0/keras3/man/layer_feature_space.Rd | 5 keras3-0.2.0/keras3/man/layer_flatten.Rd | 5 keras3-0.2.0/keras3/man/layer_flax_module_wrapper.Rd |only keras3-0.2.0/keras3/man/layer_gaussian_dropout.Rd | 3 keras3-0.2.0/keras3/man/layer_gaussian_noise.Rd | 3 keras3-0.2.0/keras3/man/layer_global_average_pooling_1d.Rd | 3 keras3-0.2.0/keras3/man/layer_global_average_pooling_2d.Rd | 3 keras3-0.2.0/keras3/man/layer_global_average_pooling_3d.Rd | 3 keras3-0.2.0/keras3/man/layer_global_max_pooling_1d.Rd | 3 keras3-0.2.0/keras3/man/layer_global_max_pooling_2d.Rd | 3 keras3-0.2.0/keras3/man/layer_global_max_pooling_3d.Rd | 3 keras3-0.2.0/keras3/man/layer_group_normalization.Rd | 3 keras3-0.2.0/keras3/man/layer_group_query_attention.Rd | 3 keras3-0.2.0/keras3/man/layer_gru.Rd | 8 keras3-0.2.0/keras3/man/layer_hashed_crossing.Rd | 4 keras3-0.2.0/keras3/man/layer_hashing.Rd | 4 keras3-0.2.0/keras3/man/layer_identity.Rd | 3 keras3-0.2.0/keras3/man/layer_integer_lookup.Rd | 6 keras3-0.2.0/keras3/man/layer_jax_model_wrapper.Rd |only keras3-0.2.0/keras3/man/layer_lambda.Rd | 3 keras3-0.2.0/keras3/man/layer_layer_normalization.Rd | 3 keras3-0.2.0/keras3/man/layer_lstm.Rd | 8 keras3-0.2.0/keras3/man/layer_masking.Rd | 3 keras3-0.2.0/keras3/man/layer_max_pooling_1d.Rd | 3 keras3-0.2.0/keras3/man/layer_max_pooling_2d.Rd | 3 keras3-0.2.0/keras3/man/layer_max_pooling_3d.Rd | 3 keras3-0.2.0/keras3/man/layer_maximum.Rd | 3 keras3-0.2.0/keras3/man/layer_mel_spectrogram.Rd |only keras3-0.2.0/keras3/man/layer_minimum.Rd | 3 keras3-0.2.0/keras3/man/layer_multi_head_attention.Rd | 3 keras3-0.2.0/keras3/man/layer_multiply.Rd | 3 keras3-0.2.0/keras3/man/layer_normalization.Rd | 4 keras3-0.2.0/keras3/man/layer_permute.Rd | 5 keras3-0.2.0/keras3/man/layer_random_brightness.Rd | 8 keras3-0.2.0/keras3/man/layer_random_contrast.Rd | 4 keras3-0.2.0/keras3/man/layer_random_crop.Rd | 4 keras3-0.2.0/keras3/man/layer_random_flip.Rd | 4 keras3-0.2.0/keras3/man/layer_random_rotation.Rd | 6 keras3-0.2.0/keras3/man/layer_random_translation.Rd | 4 keras3-0.2.0/keras3/man/layer_random_zoom.Rd | 4 keras3-0.2.0/keras3/man/layer_repeat_vector.Rd | 5 keras3-0.2.0/keras3/man/layer_rescaling.Rd | 4 keras3-0.2.0/keras3/man/layer_reshape.Rd | 3 keras3-0.2.0/keras3/man/layer_resizing.Rd | 4 keras3-0.2.0/keras3/man/layer_rnn.Rd | 3 keras3-0.2.0/keras3/man/layer_separable_conv_1d.Rd | 5 keras3-0.2.0/keras3/man/layer_separable_conv_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_simple_rnn.Rd | 3 keras3-0.2.0/keras3/man/layer_spatial_dropout_1d.Rd | 3 keras3-0.2.0/keras3/man/layer_spatial_dropout_2d.Rd | 3 keras3-0.2.0/keras3/man/layer_spatial_dropout_3d.Rd | 3 keras3-0.2.0/keras3/man/layer_spectral_normalization.Rd | 3 keras3-0.2.0/keras3/man/layer_string_lookup.Rd | 6 keras3-0.2.0/keras3/man/layer_subtract.Rd | 3 keras3-0.2.0/keras3/man/layer_text_vectorization.Rd | 6 keras3-0.2.0/keras3/man/layer_tfsm.Rd | 7 keras3-0.2.0/keras3/man/layer_time_distributed.Rd | 3 keras3-0.2.0/keras3/man/layer_torch_module_wrapper.Rd | 40 keras3-0.2.0/keras3/man/layer_unit_normalization.Rd | 5 keras3-0.2.0/keras3/man/layer_upsampling_1d.Rd | 10 keras3-0.2.0/keras3/man/layer_upsampling_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_upsampling_3d.Rd | 5 keras3-0.2.0/keras3/man/layer_zero_padding_1d.Rd | 5 keras3-0.2.0/keras3/man/layer_zero_padding_2d.Rd | 5 keras3-0.2.0/keras3/man/layer_zero_padding_3d.Rd | 5 keras3-0.2.0/keras3/man/learning_rate_schedule_cosine_decay_restarts.Rd | 6 keras3-0.2.0/keras3/man/loss_binary_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/loss_binary_focal_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/loss_categorical_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/loss_categorical_focal_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/loss_categorical_hinge.Rd | 1 keras3-0.2.0/keras3/man/loss_cosine_similarity.Rd | 1 keras3-0.2.0/keras3/man/loss_dice.Rd |only keras3-0.2.0/keras3/man/loss_hinge.Rd | 1 keras3-0.2.0/keras3/man/loss_huber.Rd | 1 keras3-0.2.0/keras3/man/loss_kl_divergence.Rd | 1 keras3-0.2.0/keras3/man/loss_log_cosh.Rd | 1 keras3-0.2.0/keras3/man/loss_mean_absolute_error.Rd | 1 keras3-0.2.0/keras3/man/loss_mean_absolute_percentage_error.Rd | 1 keras3-0.2.0/keras3/man/loss_mean_squared_error.Rd | 1 keras3-0.2.0/keras3/man/loss_mean_squared_logarithmic_error.Rd | 1 keras3-0.2.0/keras3/man/loss_poisson.Rd | 1 keras3-0.2.0/keras3/man/loss_sparse_categorical_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/loss_squared_hinge.Rd | 1 keras3-0.2.0/keras3/man/metric_auc.Rd | 2 keras3-0.2.0/keras3/man/metric_binary_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/metric_binary_focal_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/metric_categorical_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/metric_categorical_focal_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/metric_categorical_hinge.Rd | 1 keras3-0.2.0/keras3/man/metric_hinge.Rd | 1 keras3-0.2.0/keras3/man/metric_huber.Rd | 1 keras3-0.2.0/keras3/man/metric_kl_divergence.Rd | 1 keras3-0.2.0/keras3/man/metric_log_cosh.Rd | 1 keras3-0.2.0/keras3/man/metric_mean_absolute_error.Rd | 1 keras3-0.2.0/keras3/man/metric_mean_absolute_percentage_error.Rd | 1 keras3-0.2.0/keras3/man/metric_mean_squared_error.Rd | 1 keras3-0.2.0/keras3/man/metric_mean_squared_logarithmic_error.Rd | 1 keras3-0.2.0/keras3/man/metric_mean_wrapper.Rd | 2 keras3-0.2.0/keras3/man/metric_poisson.Rd | 1 keras3-0.2.0/keras3/man/metric_recall.Rd | 2 keras3-0.2.0/keras3/man/metric_recall_at_precision.Rd | 2 keras3-0.2.0/keras3/man/metric_sparse_categorical_crossentropy.Rd | 1 keras3-0.2.0/keras3/man/metric_squared_hinge.Rd | 1 keras3-0.2.0/keras3/man/normalize.Rd | 1 keras3-0.2.0/keras3/man/op_abs.Rd | 17 keras3-0.2.0/keras3/man/op_add.Rd | 34 keras3-0.2.0/keras3/man/op_all.Rd | 17 keras3-0.2.0/keras3/man/op_any.Rd | 20 keras3-0.2.0/keras3/man/op_append.Rd | 17 keras3-0.2.0/keras3/man/op_arange.Rd | 21 keras3-0.2.0/keras3/man/op_arccos.Rd | 17 keras3-0.2.0/keras3/man/op_arccosh.Rd | 17 keras3-0.2.0/keras3/man/op_arcsin.Rd | 17 keras3-0.2.0/keras3/man/op_arcsinh.Rd | 17 keras3-0.2.0/keras3/man/op_arctan.Rd | 17 keras3-0.2.0/keras3/man/op_arctan2.Rd | 17 keras3-0.2.0/keras3/man/op_arctanh.Rd | 17 keras3-0.2.0/keras3/man/op_argmax.Rd | 21 keras3-0.2.0/keras3/man/op_argmin.Rd | 21 keras3-0.2.0/keras3/man/op_argsort.Rd | 17 keras3-0.2.0/keras3/man/op_array.Rd | 24 keras3-0.2.0/keras3/man/op_average.Rd | 17 keras3-0.2.0/keras3/man/op_average_pool.Rd | 17 keras3-0.2.0/keras3/man/op_batch_normalization.Rd |only keras3-0.2.0/keras3/man/op_binary_crossentropy.Rd | 17 keras3-0.2.0/keras3/man/op_bincount.Rd | 22 keras3-0.2.0/keras3/man/op_broadcast_to.Rd | 17 keras3-0.2.0/keras3/man/op_cast.Rd | 16 keras3-0.2.0/keras3/man/op_categorical_crossentropy.Rd | 17 keras3-0.2.0/keras3/man/op_ceil.Rd | 17 keras3-0.2.0/keras3/man/op_cholesky.Rd |only keras3-0.2.0/keras3/man/op_clip.Rd | 17 keras3-0.2.0/keras3/man/op_concatenate.Rd | 17 keras3-0.2.0/keras3/man/op_cond.Rd | 16 keras3-0.2.0/keras3/man/op_conj.Rd | 17 keras3-0.2.0/keras3/man/op_conv.Rd | 17 keras3-0.2.0/keras3/man/op_conv_transpose.Rd | 17 keras3-0.2.0/keras3/man/op_convert_to_numpy.Rd | 16 keras3-0.2.0/keras3/man/op_convert_to_tensor.Rd | 23 keras3-0.2.0/keras3/man/op_copy.Rd | 17 keras3-0.2.0/keras3/man/op_correlate.Rd |only keras3-0.2.0/keras3/man/op_cos.Rd | 17 keras3-0.2.0/keras3/man/op_cosh.Rd | 17 keras3-0.2.0/keras3/man/op_count_nonzero.Rd | 17 keras3-0.2.0/keras3/man/op_cross.Rd | 17 keras3-0.2.0/keras3/man/op_ctc_loss.Rd | 17 keras3-0.2.0/keras3/man/op_cumprod.Rd | 17 keras3-0.2.0/keras3/man/op_cumsum.Rd | 17 keras3-0.2.0/keras3/man/op_custom_gradient.Rd |only keras3-0.2.0/keras3/man/op_depthwise_conv.Rd | 17 keras3-0.2.0/keras3/man/op_det.Rd |only keras3-0.2.0/keras3/man/op_diag.Rd | 17 keras3-0.2.0/keras3/man/op_diagonal.Rd | 17 keras3-0.2.0/keras3/man/op_diff.Rd | 17 keras3-0.2.0/keras3/man/op_digitize.Rd | 17 keras3-0.2.0/keras3/man/op_divide.Rd | 40 keras3-0.2.0/keras3/man/op_divide_no_nan.Rd |only keras3-0.2.0/keras3/man/op_dot.Rd | 17 keras3-0.2.0/keras3/man/op_eig.Rd |only keras3-0.2.0/keras3/man/op_einsum.Rd | 35 keras3-0.2.0/keras3/man/op_elu.Rd | 17 keras3-0.2.0/keras3/man/op_empty.Rd | 17 keras3-0.2.0/keras3/man/op_equal.Rd | 40 keras3-0.2.0/keras3/man/op_erf.Rd | 16 keras3-0.2.0/keras3/man/op_erfinv.Rd |only keras3-0.2.0/keras3/man/op_exp.Rd | 17 keras3-0.2.0/keras3/man/op_expand_dims.Rd | 17 keras3-0.2.0/keras3/man/op_expm1.Rd | 17 keras3-0.2.0/keras3/man/op_extract_sequences.Rd | 16 keras3-0.2.0/keras3/man/op_eye.Rd | 17 keras3-0.2.0/keras3/man/op_fft.Rd | 16 keras3-0.2.0/keras3/man/op_fft2.Rd | 16 keras3-0.2.0/keras3/man/op_flip.Rd | 17 keras3-0.2.0/keras3/man/op_floor.Rd | 17 keras3-0.2.0/keras3/man/op_floor_divide.Rd | 40 keras3-0.2.0/keras3/man/op_fori_loop.Rd | 16 keras3-0.2.0/keras3/man/op_full.Rd | 17 keras3-0.2.0/keras3/man/op_full_like.Rd | 17 keras3-0.2.0/keras3/man/op_gelu.Rd | 17 keras3-0.2.0/keras3/man/op_get_item.Rd | 17 keras3-0.2.0/keras3/man/op_greater.Rd | 40 keras3-0.2.0/keras3/man/op_greater_equal.Rd | 40 keras3-0.2.0/keras3/man/op_hard_sigmoid.Rd | 17 keras3-0.2.0/keras3/man/op_hard_silu.Rd | 17 keras3-0.2.0/keras3/man/op_hstack.Rd | 17 keras3-0.2.0/keras3/man/op_identity.Rd | 17 keras3-0.2.0/keras3/man/op_imag.Rd | 17 keras3-0.2.0/keras3/man/op_image_affine_transform.Rd | 17 keras3-0.2.0/keras3/man/op_image_crop.Rd |only keras3-0.2.0/keras3/man/op_image_extract_patches.Rd | 17 keras3-0.2.0/keras3/man/op_image_map_coordinates.Rd | 17 keras3-0.2.0/keras3/man/op_image_pad.Rd | 17 keras3-0.2.0/keras3/man/op_image_resize.Rd | 17 keras3-0.2.0/keras3/man/op_in_top_k.Rd | 16 keras3-0.2.0/keras3/man/op_inv.Rd |only keras3-0.2.0/keras3/man/op_irfft.Rd | 16 keras3-0.2.0/keras3/man/op_is_tensor.Rd | 16 keras3-0.2.0/keras3/man/op_isclose.Rd | 17 keras3-0.2.0/keras3/man/op_isfinite.Rd | 17 keras3-0.2.0/keras3/man/op_isinf.Rd | 17 keras3-0.2.0/keras3/man/op_isnan.Rd | 17 keras3-0.2.0/keras3/man/op_istft.Rd | 16 keras3-0.2.0/keras3/man/op_leaky_relu.Rd | 17 keras3-0.2.0/keras3/man/op_less.Rd | 40 keras3-0.2.0/keras3/man/op_less_equal.Rd | 40 keras3-0.2.0/keras3/man/op_linspace.Rd | 17 keras3-0.2.0/keras3/man/op_log.Rd | 17 keras3-0.2.0/keras3/man/op_log10.Rd | 17 keras3-0.2.0/keras3/man/op_log1p.Rd | 17 keras3-0.2.0/keras3/man/op_log2.Rd | 17 keras3-0.2.0/keras3/man/op_log_sigmoid.Rd | 17 keras3-0.2.0/keras3/man/op_log_softmax.Rd | 17 keras3-0.2.0/keras3/man/op_logaddexp.Rd | 17 keras3-0.2.0/keras3/man/op_logical_and.Rd | 20 keras3-0.2.0/keras3/man/op_logical_not.Rd | 19 keras3-0.2.0/keras3/man/op_logical_or.Rd | 19 keras3-0.2.0/keras3/man/op_logical_xor.Rd | 17 keras3-0.2.0/keras3/man/op_logspace.Rd | 17 keras3-0.2.0/keras3/man/op_logsumexp.Rd | 16 keras3-0.2.0/keras3/man/op_lu_factor.Rd |only keras3-0.2.0/keras3/man/op_matmul.Rd | 17 keras3-0.2.0/keras3/man/op_max.Rd | 17 keras3-0.2.0/keras3/man/op_max_pool.Rd | 17 keras3-0.2.0/keras3/man/op_maximum.Rd | 17 keras3-0.2.0/keras3/man/op_mean.Rd | 17 keras3-0.2.0/keras3/man/op_median.Rd | 17 keras3-0.2.0/keras3/man/op_meshgrid.Rd | 21 keras3-0.2.0/keras3/man/op_min.Rd | 17 keras3-0.2.0/keras3/man/op_minimum.Rd | 17 keras3-0.2.0/keras3/man/op_mod.Rd | 40 keras3-0.2.0/keras3/man/op_moments.Rd | 17 keras3-0.2.0/keras3/man/op_moveaxis.Rd | 17 keras3-0.2.0/keras3/man/op_multi_hot.Rd | 29 keras3-0.2.0/keras3/man/op_multiply.Rd | 40 keras3-0.2.0/keras3/man/op_nan_to_num.Rd | 17 keras3-0.2.0/keras3/man/op_ndim.Rd | 17 keras3-0.2.0/keras3/man/op_negative.Rd | 40 keras3-0.2.0/keras3/man/op_nonzero.Rd | 17 keras3-0.2.0/keras3/man/op_norm.Rd |only keras3-0.2.0/keras3/man/op_normalize.Rd |only keras3-0.2.0/keras3/man/op_not_equal.Rd | 40 keras3-0.2.0/keras3/man/op_one_hot.Rd | 26 keras3-0.2.0/keras3/man/op_ones.Rd | 17 keras3-0.2.0/keras3/man/op_ones_like.Rd | 17 keras3-0.2.0/keras3/man/op_outer.Rd | 17 keras3-0.2.0/keras3/man/op_pad.Rd | 17 keras3-0.2.0/keras3/man/op_power.Rd | 40 keras3-0.2.0/keras3/man/op_prod.Rd | 17 keras3-0.2.0/keras3/man/op_qr.Rd | 38 keras3-0.2.0/keras3/man/op_quantile.Rd | 17 keras3-0.2.0/keras3/man/op_ravel.Rd | 17 keras3-0.2.0/keras3/man/op_real.Rd | 17 keras3-0.2.0/keras3/man/op_reciprocal.Rd | 17 keras3-0.2.0/keras3/man/op_relu.Rd | 17 keras3-0.2.0/keras3/man/op_relu6.Rd | 17 keras3-0.2.0/keras3/man/op_repeat.Rd | 17 keras3-0.2.0/keras3/man/op_reshape.Rd | 25 keras3-0.2.0/keras3/man/op_rfft.Rd | 16 keras3-0.2.0/keras3/man/op_roll.Rd | 17 keras3-0.2.0/keras3/man/op_round.Rd | 17 keras3-0.2.0/keras3/man/op_rsqrt.Rd | 16 keras3-0.2.0/keras3/man/op_scatter.Rd | 16 keras3-0.2.0/keras3/man/op_scatter_update.Rd | 36 keras3-0.2.0/keras3/man/op_segment_max.Rd | 16 keras3-0.2.0/keras3/man/op_segment_sum.Rd | 16 keras3-0.2.0/keras3/man/op_selu.Rd | 17 keras3-0.2.0/keras3/man/op_separable_conv.Rd | 17 keras3-0.2.0/keras3/man/op_shape.Rd | 16 keras3-0.2.0/keras3/man/op_sigmoid.Rd | 17 keras3-0.2.0/keras3/man/op_sign.Rd | 17 keras3-0.2.0/keras3/man/op_silu.Rd | 17 keras3-0.2.0/keras3/man/op_sin.Rd | 21 keras3-0.2.0/keras3/man/op_sinh.Rd | 17 keras3-0.2.0/keras3/man/op_size.Rd | 17 keras3-0.2.0/keras3/man/op_slice.Rd | 16 keras3-0.2.0/keras3/man/op_slice_update.Rd | 16 keras3-0.2.0/keras3/man/op_softmax.Rd | 17 keras3-0.2.0/keras3/man/op_softplus.Rd | 17 keras3-0.2.0/keras3/man/op_softsign.Rd | 17 keras3-0.2.0/keras3/man/op_solve.Rd | 26 keras3-0.2.0/keras3/man/op_solve_triangular.Rd |only keras3-0.2.0/keras3/man/op_sort.Rd | 17 keras3-0.2.0/keras3/man/op_sparse_categorical_crossentropy.Rd | 17 keras3-0.2.0/keras3/man/op_split.Rd | 17 keras3-0.2.0/keras3/man/op_sqrt.Rd | 17 keras3-0.2.0/keras3/man/op_square.Rd | 17 keras3-0.2.0/keras3/man/op_squeeze.Rd | 17 keras3-0.2.0/keras3/man/op_stack.Rd | 17 keras3-0.2.0/keras3/man/op_std.Rd | 17 keras3-0.2.0/keras3/man/op_stft.Rd | 16 keras3-0.2.0/keras3/man/op_stop_gradient.Rd | 16 keras3-0.2.0/keras3/man/op_subtract.Rd | 34 keras3-0.2.0/keras3/man/op_sum.Rd | 17 keras3-0.2.0/keras3/man/op_svd.Rd |only keras3-0.2.0/keras3/man/op_swapaxes.Rd | 17 keras3-0.2.0/keras3/man/op_take.Rd | 17 keras3-0.2.0/keras3/man/op_take_along_axis.Rd | 17 keras3-0.2.0/keras3/man/op_tan.Rd | 17 keras3-0.2.0/keras3/man/op_tanh.Rd | 17 keras3-0.2.0/keras3/man/op_tensordot.Rd | 17 keras3-0.2.0/keras3/man/op_tile.Rd | 17 keras3-0.2.0/keras3/man/op_top_k.Rd | 16 keras3-0.2.0/keras3/man/op_trace.Rd | 17 keras3-0.2.0/keras3/man/op_transpose.Rd | 17 keras3-0.2.0/keras3/man/op_tri.Rd | 17 keras3-0.2.0/keras3/man/op_tril.Rd | 17 keras3-0.2.0/keras3/man/op_triu.Rd | 17 keras3-0.2.0/keras3/man/op_unstack.Rd | 16 keras3-0.2.0/keras3/man/op_var.Rd | 17 keras3-0.2.0/keras3/man/op_vdot.Rd | 17 keras3-0.2.0/keras3/man/op_vectorized_map.Rd | 238 +- keras3-0.2.0/keras3/man/op_vstack.Rd | 17 keras3-0.2.0/keras3/man/op_where.Rd | 17 keras3-0.2.0/keras3/man/op_while_loop.Rd | 46 keras3-0.2.0/keras3/man/op_zeros.Rd | 17 keras3-0.2.0/keras3/man/op_zeros_like.Rd | 17 keras3-0.2.0/keras3/man/optimizer_adadelta.Rd | 3 keras3-0.2.0/keras3/man/optimizer_adafactor.Rd | 3 keras3-0.2.0/keras3/man/optimizer_adagrad.Rd | 3 keras3-0.2.0/keras3/man/optimizer_adam.Rd | 3 keras3-0.2.0/keras3/man/optimizer_adam_w.Rd | 3 keras3-0.2.0/keras3/man/optimizer_adamax.Rd | 3 keras3-0.2.0/keras3/man/optimizer_ftrl.Rd | 3 keras3-0.2.0/keras3/man/optimizer_lion.Rd | 3 keras3-0.2.0/keras3/man/optimizer_loss_scale.Rd | 3 keras3-0.2.0/keras3/man/optimizer_nadam.Rd | 3 keras3-0.2.0/keras3/man/optimizer_rmsprop.Rd | 3 keras3-0.2.0/keras3/man/optimizer_sgd.Rd | 3 keras3-0.2.0/keras3/man/pack_x_y_sample_weight.Rd | 5 keras3-0.2.0/keras3/man/pad_sequences.Rd | 1 keras3-0.2.0/keras3/man/quantize_weights.Rd |only keras3-0.2.0/keras3/man/random_beta.Rd |only keras3-0.2.0/keras3/man/random_binomial.Rd |only keras3-0.2.0/keras3/man/random_categorical.Rd | 2 keras3-0.2.0/keras3/man/random_dropout.Rd | 2 keras3-0.2.0/keras3/man/random_gamma.Rd | 2 keras3-0.2.0/keras3/man/random_integer.Rd | 2 keras3-0.2.0/keras3/man/random_normal.Rd | 2 keras3-0.2.0/keras3/man/random_seed_generator.Rd | 2 keras3-0.2.0/keras3/man/random_shuffle.Rd | 2 keras3-0.2.0/keras3/man/random_truncated_normal.Rd | 2 keras3-0.2.0/keras3/man/random_uniform.Rd | 2 keras3-0.2.0/keras3/man/reset_state.Rd | 1 keras3-0.2.0/keras3/man/rnn_cell_gru.Rd | 3 keras3-0.2.0/keras3/man/rnn_cell_lstm.Rd | 3 keras3-0.2.0/keras3/man/rnn_cell_simple.Rd | 3 keras3-0.2.0/keras3/man/rnn_cells_stack.Rd | 5 keras3-0.2.0/keras3/man/save_model_config.Rd | 4 keras3-0.2.0/keras3/man/set_random_seed.Rd | 8 keras3-0.2.0/keras3/man/split_dataset.Rd | 1 keras3-0.2.0/keras3/man/summary.keras.src.models.model.Model.Rd | 15 keras3-0.2.0/keras3/man/text_dataset_from_directory.Rd | 7 keras3-0.2.0/keras3/man/timeseries_dataset_from_array.Rd | 1 keras3-0.2.0/keras3/man/to_categorical.Rd | 5 keras3-0.2.0/keras3/man/unpack_x_y_sample_weight.Rd | 10 keras3-0.2.0/keras3/man/use_backend.Rd | 5 keras3-0.2.0/keras3/man/zip_lists.Rd | 1 keras3-0.2.0/keras3/tests/testthat/helper-utils.R | 10 keras3-0.2.0/keras3/tests/testthat/setup.R | 48 keras3-0.2.0/keras3/tests/testthat/test-layers-preprocessing.R | 4 keras3-0.2.0/keras3/tools/archive |only keras3-0.2.0/keras3/tools/knit-examples.R | 3 keras3-0.2.0/keras3/tools/knit-vignettes.R | 6 keras3-0.2.0/keras3/tools/knit.R | 37 keras3-0.2.0/keras3/tools/make-cran-pkg.R | 16 keras3-0.2.0/keras3/tools/make-distribute-wrappers.R |only keras3-0.2.0/keras3/tools/make-init-example.R |only keras3-0.2.0/keras3/tools/make-website.R | 18 keras3-0.2.0/keras3/tools/retether.R | 64 keras3-0.2.0/keras3/tools/utils.R | 46 keras3-0.2.0/keras3/vignettes/custom_train_step_in_tensorflow.Rmd | 10 keras3-0.2.0/keras3/vignettes/distributed_training_with_tensorflow.Rmd | 16 keras3-0.2.0/keras3/vignettes/distribution.Rmd |only keras3-0.2.0/keras3/vignettes/functional_api.Rmd | 320 +- keras3-0.2.0/keras3/vignettes/getting_started.Rmd | 34 keras3-0.2.0/keras3/vignettes/getting_started/unnamed-chunk-12-1.png |binary keras3-0.2.0/keras3/vignettes/intro_to_keras_for_engineers.Rmd | 74 keras3-0.2.0/keras3/vignettes/making_new_layers_and_models_via_subclassing.Rmd | 21 keras3-0.2.0/keras3/vignettes/sequential_model.Rmd | 123 - keras3-0.2.0/keras3/vignettes/serialization_and_saving.Rmd | 22 keras3-0.2.0/keras3/vignettes/training_with_built_in_methods.Rmd | 147 - keras3-0.2.0/keras3/vignettes/transfer_learning.Rmd | 76 keras3-0.2.0/keras3/vignettes/understanding_masking_and_padding.Rmd | 8 keras3-0.2.0/keras3/vignettes/writing_a_custom_training_loop_in_tensorflow.Rmd | 371 +-- keras3-0.2.0/keras3/vignettes/writing_your_own_callbacks.Rmd | 115 - 584 files changed, 9664 insertions(+), 3871 deletions(-)
Title: Interact with the 'Databrary.org' API
Description: 'Databrary.org' is a restricted access repository for
research data, especially video and audio. This package provides
commands to interact with the data stored on 'Databrary.org'.
Author: Rick O. Gilmore [aut, cre, cph],
Jeffrey Spies [aut],
National Science Foundation OAC-2032713 [fnd],
National Institutes of Health R01HD094830 [fnd]
Maintainer: Rick O. Gilmore <rog1@psu.edu>
Diff between databraryr versions 0.6.3 dated 2024-03-26 and 0.6.4 dated 2024-04-18
databraryr-0.6.3/databraryr/R/download_session_asset_fr_df.R |only databraryr-0.6.3/databraryr/man/download_session_asset_fr_df.Rd |only databraryr-0.6.4/databraryr/DESCRIPTION | 44 ++--- databraryr-0.6.4/databraryr/MD5 | 34 ++-- databraryr-0.6.4/databraryr/NAMESPACE | 2 databraryr-0.6.4/databraryr/NEWS.md | 6 databraryr-0.6.4/databraryr/R/download_session_asset.R | 14 + databraryr-0.6.4/databraryr/R/download_session_assets_fr_df.R | 60 ++++--- databraryr-0.6.4/databraryr/R/download_single_session_asset_fr_df.R |only databraryr-0.6.4/databraryr/R/get_db_stats.R | 21 +- databraryr-0.6.4/databraryr/R/list_volume_assets.R | 9 + databraryr-0.6.4/databraryr/R/utils.R | 37 ++++ databraryr-0.6.4/databraryr/README.md | 3 databraryr-0.6.4/databraryr/inst/doc/accessing-data.html | 4 databraryr-0.6.4/databraryr/inst/doc/databrary.html | 81 +++------- databraryr-0.6.4/databraryr/man/download_session_assets_fr_df.Rd | 17 +- databraryr-0.6.4/databraryr/man/download_single_session_asset_fr_df.Rd |only databraryr-0.6.4/databraryr/man/make_fn_portable.Rd |only databraryr-0.6.4/databraryr/tests/testthat/test-download_session_assets_fr_df.R | 67 +++----- databraryr-0.6.4/databraryr/tests/testthat/test-download_single_session_asset_fr_df.R |only databraryr-0.6.4/databraryr/tests/testthat/test-utils.R | 40 +++- 21 files changed, 260 insertions(+), 179 deletions(-)
Title: Bayesian Regions of Evidence
Description: Computation and visualization of Bayesian Regions of Evidence
to systematically evaluate the sensitivity of a superiority or
non-inferiority claim against any prior assumption of its assessors.
Methodological details are elaborated by Hoefler and Miller
(<https://osf.io/jxnsv>). Besides generic functions, the package also
provides an intuitive 'Shiny' application, that can be run in local R
environments.
Author: Robert Miller [cre, aut]
Maintainer: Robert Miller <robert.miller@tu-dresden.de>
Diff between bayesROE versions 0.1 dated 2023-03-09 and 0.2 dated 2024-04-18
DESCRIPTION | 19 +- MD5 | 34 ++--- R/app_server.R | 10 + R/app_ui.R | 1 R/fct_ribbonROE.R | 49 +++++-- R/run_app.R | 2 R/utils_helpers.R | 2 README.md | 21 +-- build/partial.rdb |binary inst/golem-config.yml | 4 man/figures/README-HM23.3-1.png |binary man/rasterROE.Rd | 198 ++++++++++++++--------------- man/ribbonROE.Rd | 214 ++++++++++++++++---------------- man/run_app.Rd | 3 man/shinyROE.Rd | 63 ++++----- tests/testthat.R | 24 +-- tests/testthat/test-golem-recommended.R | 148 +++++++++++----------- tests/testthat/test-utils_helpers.R | 6 18 files changed, 415 insertions(+), 383 deletions(-)
Title: Social Mixing Matrices for Infectious Disease Modelling
Description: Provides methods for sampling contact matrices from diary
data for use in infectious disease modelling, as discussed in Mossong
et al. (2008) <doi:10.1371/journal.pmed.0050074>.
Author: Sebastian Funk [aut, cre],
Lander Willem [aut],
Hugo Gruson [aut],
Maria Bekker-Nielsen Dunbar [ctb],
Carl A. B. Pearson [ctb],
Sam Clifford [ctb],
Christopher Jarvis [ctb],
Alexis Robert [ctb],
Niel Hens [ctb],
Pietro Coletti [col, dtm]
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Diff between socialmixr versions 0.3.1 dated 2023-10-26 and 0.3.2 dated 2024-04-18
DESCRIPTION | 10 - MD5 | 25 +-- NAMESPACE | 1 NEWS.md | 15 ++ R/clean.r | 5 R/contact_matrix.r | 51 ++++--- R/download_survey.r | 24 ++- R/globals.R | 1 R/lists.r | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/socialmixr.html | 305 +++++++++++++++++++++---------------------- man/is_doi.Rd |only tests/testthat/test-matrix.r | 16 +- 14 files changed, 254 insertions(+), 203 deletions(-)
Title: Dose-Response MBNMA Models
Description: Fits Bayesian dose-response model-based network meta-analysis (MBNMA)
that incorporate multiple doses within an agent by modelling different dose-response functions, as
described by Mawdsley et al. (2016) <doi:10.1002/psp4.12091>.
By modelling dose-response relationships this can connect networks of evidence that might
otherwise be disconnected, and can improve precision on treatment estimates. Several common
dose-response functions are provided; others may be added by the user. Various characteristics
and assumptions can be flexibly added to the models, such as shared class effects. The consistency
of direct and indirect evidence in the network can be assessed using unrelated mean effects models
and/or by node-splitting at the treatment level.
Author: Hugo Pedder [aut, cre] ,
Adil Karim [ctb]
Maintainer: Hugo Pedder <hugopedder@gmail.com>
Diff between MBNMAdose versions 0.4.2 dated 2023-08-08 and 0.4.3 dated 2024-04-18
DESCRIPTION | 12 MD5 | 52 - NEWS.md | 6 R/globals.R | 1 R/run.functions.R | 19 R/write.functions.R | 7 build/partial.rdb |binary build/vignette.rds |binary inst/doc/consistencychecking-3.R | 12 inst/doc/consistencychecking-3.html | 413 +------------- inst/doc/dataexploration-1.R | 6 inst/doc/dataexploration-1.html | 620 +++++---------------- inst/doc/mbnmadose-overview.R | 12 inst/doc/mbnmadose-overview.html | 353 ------------ inst/doc/metaregression-6.R | 8 inst/doc/metaregression-6.html | 847 +++++++++-------------------- inst/doc/nma_in_mbnmadose.R | 14 inst/doc/nma_in_mbnmadose.Rmd | 2 inst/doc/nma_in_mbnmadose.html | 111 +-- inst/doc/outputs-4.R | 6 inst/doc/outputs-4.html | 644 +++++----------------- inst/doc/predictions-5.R | 8 inst/doc/predictions-5.html | 460 ++-------------- inst/doc/runmbnmadose-2.R | 28 inst/doc/runmbnmadose-2.html | 1017 ++++++++++++------------------------ tests/testthat/test_fullset.R | 1 vignettes/nma_in_mbnmadose.Rmd | 2 27 files changed, 1173 insertions(+), 3488 deletions(-)
Title: Kernel Regression Smoothing with Local or Global Plug-in
Bandwidth
Description: Kernel regression smoothing with adaptive local or global plug-in
bandwidth selection.
Author: Eva Herrmann <eherrmann@mathematik.tu-darmstadt.de> ;
Packaged for R and enhanced by Martin Maechler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between lokern versions 1.1-10.1 dated 2023-12-07 and 1.1-11 dated 2024-04-18
ChangeLog | 7 ++++++- DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ build/partial.rdb |binary man/glkerns.Rd | 6 +++--- man/varNPreg.Rd | 40 ++++++++++++++++++++++++++++++++-------- src/auxkerns.f | 8 +++++--- 7 files changed, 56 insertions(+), 25 deletions(-)
Title: Comprehensive Science Mapping Analysis
Description: Tool for quantitative research in scientometrics and bibliometrics.
It provides various routines for importing bibliographic data from 'SCOPUS',
'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions'
(<https://www.dimensions.ai/>), 'OpenAlex' (<https://openalex.org/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>),
and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis
and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut, cph] ,
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 4.1.4 dated 2023-11-28 and 4.2.0 dated 2024-04-18
DESCRIPTION | 12 MD5 | 122 - NAMESPACE | 5 NEWS | 14 R/Hindex.R | 35 R/authorProdOverTime.R | 42 R/bib2df.R | 24 R/biblioAnalysis.R | 10 R/bradford.R | 7 R/cocMatrix.R | 7 R/cochrane2df.R | 9 R/collabByRegionPlot.R | 9 R/conceptualStructure.R | 216 +-- R/convert2df.R | 69 - R/couplingMap.R | 76 - R/csvLens2df.R | 7 R/csvOA2df.R |only R/csvScopus2df.R | 10 R/fieldByYear.R | 33 R/histNetwork.R | 220 +-- R/histPlot.R | 53 R/isi2df.R | 9 R/lotka.R | 2 R/metaTagExtraction.R | 2 R/net2Pajek.R |only R/net2VOSviewer.R | 2 R/networkPlot.R | 7 R/normalizeCItationScore.R | 48 R/plot.bibliodendrogram.R | 2 R/plot.bibliometrix.R | 33 R/plotThematicEvolution.R | 3 R/pubmed2df.R | 9 R/rpys.R | 47 R/splitCommunities.R | 9 R/summary.bibliometrix.R | 7 R/sysdata.rda |binary R/termExtraction.R | 28 R/thematicEvolution.R | 42 R/thematicMap.R | 140 +- R/threeFieldsPlot.R | 5 R/zzz.R | 7 build/partial.rdb |binary data/bibtag.rda |binary data/countries.rda |binary data/customTheme.rda |binary data/logo.rda |binary data/stopwords.rda |binary inst/biblioshiny/libraries.R | 2 inst/biblioshiny/server.R | 2117 ++++++++----------------------- inst/biblioshiny/ui.R | 221 ++- inst/biblioshiny/utils.R | 546 +++++-- inst/biblioshiny/www/table_DBformats.jpg |only man/bibliometrix-package.Rd | 2 man/collabByRegionPlot.Rd | 2 man/conceptualStructure.Rd | 2 man/convert2df.Rd | 16 man/histNetwork.Rd | 4 man/lotka.Rd | 2 man/net2Pajek.Rd |only man/net2VOSviewer.Rd | 2 man/networkPlot.Rd | 2 man/plot.bibliodendrogram.Rd | 2 man/splitCommunities.Rd | 2 man/thematicMap.Rd | 2 64 files changed, 1879 insertions(+), 2427 deletions(-)
Title: Spatio-Temporal Point Pattern Methods, Model Fitting,
Diagnostics, Simulation, Local Tests
Description: Toolbox for different kinds of spatio-temporal analyses to be performed on observed point patterns, following the growing stream of literature on point process theory. This R package implements functions to perform different kinds of analyses on point processes, proposed in the papers (Siino, Adelfio, and Mateu 2018<doi:10.1007/s00477-018-1579-0>; Siino et al. 2018<doi:10.1002/env.2463>; Adelfio et al. 2020<doi:10.1007/s00477-019-01748-1>; D’Angelo, Adelfio, and Mateu 2021<doi:10.1016/j.spasta.2021.100534>; D’Angelo, Adelfio, and Mateu 2022<doi:10.1007/s00362-022-01338-4>; D’Angelo, Adelfio, and Mateu 2023<doi:10.1016/j.csda.2022.107679>). The main topics include modeling, statistical inference, and simulation issues on spatio-temporal point processes on Euclidean space and linear networks.
Author: Nicoletta D'Angelo [aut, cre] ,
Giada Adelfio [aut]
Maintainer: Nicoletta D'Angelo <nicoletta.dangelo@unipa.it>
Diff between stopp versions 0.2.2 dated 2024-04-16 and 0.2.3 dated 2024-04-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/plot.locstppm.R | 4 ++-- R/plot.stlgcppm.R | 8 ++++---- R/plot.stppm.R | 4 ++-- 5 files changed, 16 insertions(+), 16 deletions(-)
Title: Tools for Reading and Writing ISO/OGC Geographic Metadata
Description: Provides facilities to read, write and validate geographic metadata
defined with ISO TC211 / OGC ISO geographic information metadata standards, and
encoded using the ISO 19139 (XML) standard technical specification. This includes
ISO 19110 (Feature cataloguing), 19115 (dataset metadata), 19119 (service metadata)
and 19136 (GML). Other interoperable schemas from the OGC are progressively supported
as well, such as the Sensor Web Enablement (SWE) Common Data Model, the OGC GML
Coverage Implementation Schema (GMLCOV), or the OGC GML Referenceable Grid (GMLRGRID).
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geometa versions 0.7-1 dated 2022-10-27 and 0.8-0 dated 2024-04-18
DESCRIPTION | 22 MD5 | 165 +-- NAMESPACE | 1 R/GMLGeneralGridAxis.R | 11 R/GMLGrid.R | 8 R/GMLVerticalCRS.R | 2 R/ISOAbstractCatalogue.R | 69 + R/ISOAbstractObject.R | 260 ++---- R/ISOCitation.R | 10 R/ISODataIdentification.R | 4 R/ISOLegalConstraints.R | 8 R/ISOMetadata.R | 2 R/ISOMimeFileType.R | 6 R/ISOProcessStep.R | 12 R/SWECategory.R | 6 R/SWECategoryRange.R | 6 R/SWECount.R | 8 R/SWECountRange.R | 4 R/SWEQuantity.R | 4 R/SWEQuantityRange.R | 4 R/SWEText.R | 8 R/SWETime.R | 4 R/SWETimeRange.R | 4 R/geometa.R | 28 R/geometa_options.R | 17 R/profile.R | 1 README.md | 9 inst/extdata/schemas/gmi/contentInformation.xsd | 286 +++--- inst/extdata/schemas/gmi/dataQualityInformation.xsd | 420 +++++----- inst/extdata/schemas/gmi/gmi.xsd | 32 inst/extdata/schemas/gmi/metadataEntitySet.xsd | 76 - inst/extdata/schemas/gmi/spatialRepresentationInformation.xsd | 266 +++--- man/GMLCodeType.Rd | 238 ++--- man/GMLGeneralGridAxis.Rd | 19 man/GMLGridEnvelope.Rd | 242 ++--- man/GMLVerticalCRS.Rd | 2 man/ISOAbstractCatalogue.Rd | 130 +++ man/ISOAbstractObject.Rd | 117 -- man/ISOCitation.Rd | 4 man/ISOFeatureCatalogue.Rd | 6 man/ISOLegalConstraints.Rd | 8 man/ISOProcessStep.Rd | 4 man/SWEAbstractDataComponent.Rd | 340 ++++---- man/SWEAbstractEncoding.Rd | 206 ++-- man/SWEAbstractObject.Rd | 240 ++--- man/SWEAbstractSWE.Rd | 240 ++--- man/SWEAbstractSWEIdentifiable.Rd | 370 ++++---- man/SWEAbstractSimpleComponent.Rd | 294 +++---- man/SWECategory.Rd | 384 ++++----- man/SWECategoryRange.Rd | 384 ++++----- man/SWECount.Rd | 340 ++++---- man/SWECountRange.Rd | 340 ++++---- man/SWEDataRecord.Rd | 336 ++++---- man/SWEElement.Rd | 294 +++---- man/SWENilValues.Rd | 260 +++--- man/SWEQuantity.Rd | 386 ++++----- man/SWEQuantityRange.Rd | 386 ++++----- man/SWEText.Rd | 340 ++++---- man/SWETextEncoding.Rd | 238 ++--- man/SWETime.Rd | 386 ++++----- man/SWETimeRange.Rd | 396 ++++----- man/SWEXMLEncoding.Rd | 206 ++-- man/geometa.Rd | 25 man/getGeometaOptions.Rd |only tests/testthat/test_GMLElement.R | 6 tests/testthat/test_GMLGeneralGridAxis.R | 17 tests/testthat/test_ISOAssociationRole.R | 2 tests/testthat/test_ISOBinding.R | 4 tests/testthat/test_ISOBoundAssociationRole.R | 4 tests/testthat/test_ISOBoundFeatureAttribute.R | 4 tests/testthat/test_ISOFeatureAssociation.R | 2 tests/testthat/test_ISOFeatureAttribute.R | 4 tests/testthat/test_ISOFeatureCatalogue.R | 4 tests/testthat/test_ISOFeatureOperation.R | 4 tests/testthat/test_ISOFeatureType.R | 4 tests/testthat/test_ISOFreeText.R | 23 tests/testthat/test_ISOInheritanceRelation.R | 2 tests/testthat/test_ISOKeywords.R | 35 tests/testthat/test_ISOLegalConstraints.R | 12 tests/testthat/test_ISOMetadata.R | 10 tests/testthat/test_ISOMultiplicity.R | 2 tests/testthat/test_ISOMultiplicityRange.R | 20 tests/testthat/test_ISOPropertyType.R | 4 tests/testthat/test_SWECount.R | 2 84 files changed, 4640 insertions(+), 4449 deletions(-)
Title: Modeling of Revealed Preferences Matchings
Description: Statistical estimation of revealed preference models from data collected on bipartite matchings. The models are for matchings within a bipartite population where individuals have utility for people based on known and unknown characteristics. People can form a partnership or remain unpartnered. The model represents both the availability of potential partners of different types and preferences of individuals for such people. The software estimates preference parameters based on sample survey data on partnerships and population composition. The simulation of matchings and goodness-of-fit are considered. See Goyal, Handcock, Jackson, Rendall and Yeung (2022) <doi:10.1093/jrsssa/qnad031>.
Author: Mark S. Handcock [aut, cre] ,
Ryan M. Admiraal [ctb],
Fiona C. Yeung [ctb],
Heide M. Jackson [ctb],
Michael S. Rendall [ctb],
Shuchi Goyal [ctb]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between rpm versions 0.7 dated 2023-04-21 and 0.7-3 dated 2024-04-18
rpm-0.7-3/rpm/DESCRIPTION | 13 - rpm-0.7-3/rpm/MD5 | 99 +++++------ rpm-0.7-3/rpm/NAMESPACE | 9 - rpm-0.7-3/rpm/R/Gale_Shapley.R | 20 +- rpm-0.7-3/rpm/R/RcppExports.R | 21 +- rpm-0.7-3/rpm/R/control.rpm.R | 7 rpm-0.7-3/rpm/R/data.R | 22 +- rpm-0.7-3/rpm/R/gof.rpm.R | 16 + rpm-0.7-3/rpm/R/logLik.rpm.R | 4 rpm-0.7-3/rpm/R/microsimulate.rpm.R | 75 ++++---- rpm-0.7-3/rpm/R/rpm-internal.R | 2 rpm-0.7-3/rpm/R/rpm-package.R | 12 - rpm-0.7-3/rpm/R/rpm-terms.R | 16 + rpm-0.7-3/rpm/R/rpm.R | 24 +- rpm-0.7-3/rpm/R/rpm.bootstrap.large.R | 16 - rpm-0.7-3/rpm/R/rpm.bootstrap.small.R | 169 ++++--------------- rpm-0.7-3/rpm/R/rpm.loglik.R | 35 +++- rpm-0.7-3/rpm/R/rpm.model.functions.R | 14 + rpm-0.7-3/rpm/R/rpm.model.matrix.R | 25 +- rpm-0.7-3/rpm/R/rpm.utilities.R | 31 +-- rpm-0.7-3/rpm/R/rpm_MLPLE.R | 264 +++++++++++++++++++++---------- rpm-0.7-3/rpm/R/rpm_make_counts.R | 33 ++- rpm-0.7-3/rpm/R/rpmpopulationpmf.R | 24 +- rpm-0.7-3/rpm/R/simulate.rpm.R | 14 + rpm-0.7-3/rpm/R/summary.rpm.R | 8 rpm-0.7-3/rpm/R/summary_rpm.R | 22 +- rpm-0.7-3/rpm/build/partial.rdb |binary rpm-0.7-3/rpm/inst/CITATION | 2 rpm-0.7-3/rpm/man/Gale_Shapley.Rd | 12 - rpm-0.7-3/rpm/man/control.rpm.Rd | 4 rpm-0.7-3/rpm/man/fauxmatching.Rd | 22 +- rpm-0.7-3/rpm/man/gof.Rd | 14 + rpm-0.7-3/rpm/man/microsimulate.Rd | 4 rpm-0.7-3/rpm/man/rpm-internal.Rd | 11 - rpm-0.7-3/rpm/man/rpm-package.Rd | 16 + rpm-0.7-3/rpm/man/rpm-terms.Rd | 14 + rpm-0.7-3/rpm/man/rpm.Rd | 20 +- rpm-0.7-3/rpm/man/rpm.model.functions.Rd | 12 - rpm-0.7-3/rpm/man/rpm.model.matrix.Rd | 12 - rpm-0.7-3/rpm/man/rpm_MLPLE.Rd | 28 ++- rpm-0.7-3/rpm/man/rpmpopulationpmf.Rd | 14 + rpm-0.7-3/rpm/man/simulate.rpm.Rd | 6 rpm-0.7-3/rpm/man/summary_rpm.Rd | 20 +- rpm-0.7-3/rpm/src/RcppExports.cpp | 61 ++++--- rpm-0.7-3/rpm/src/auxGamma.cpp |only rpm-0.7-3/rpm/src/eqcond.cpp | 68 +++++++ rpm-0.7-3/rpm/src/gloglik.cpp |only rpm-0.7-3/rpm/src/hloglik.cpp |only rpm-0.7-3/rpm/src/jeqcond.cpp |only rpm-0.7-3/rpm/src/loglik.cpp | 10 + rpm-0.7-3/rpm/src/logpmfest.cpp |only rpm-0.7/rpm/src/augpmfnew.cpp |only rpm-0.7/rpm/src/gloglik_nog.cpp |only rpm-0.7/rpm/src/hloglik_nog.cpp |only rpm-0.7/rpm/src/jeqcond_nog.cpp |only 55 files changed, 825 insertions(+), 520 deletions(-)
Title: Working with Files from 'LexisNexis'
Description: My PhD supervisor once told me that everyone doing newspaper
analysis starts by writing code to read in files from the 'LexisNexis' newspaper
archive (retrieved e.g., from <https://www.lexisnexis.com/> or any of the partner
sites). However, while this is a nice exercise I do recommend, not everyone has
the time. This package takes files downloaded from the newspaper archive of
'LexisNexis', reads them into R and offers functions for further processing.
Author: Johannes B. Gruber [aut, cre]
Maintainer: Johannes B. Gruber <JohannesB.Gruber@gmail.com>
Diff between LexisNexisTools versions 0.3.7 dated 2023-07-05 and 1.0.0 dated 2024-04-18
DESCRIPTION | 22 +++++++++++++--------- MD5 | 22 +++++++++++----------- NEWS.md | 6 ++++++ R/LexisNexisTools.R | 21 +++++++++++++++++++-- build/vignette.rds |binary inst/CITATION | 4 ++-- inst/doc/demo.R | 28 ++++++++++++++-------------- inst/doc/demo.html | 12 ++++++------ man/lnt_read.Rd | 4 ++++ tests/files/LNToutput.RDS |binary tests/testthat/test-lnt_read.R | 4 ++++ tests/testthat/test-lnt_read_uni.R | 6 +++++- 12 files changed, 84 insertions(+), 45 deletions(-)
More information about LexisNexisTools at CRAN
Permanent link
Title: Machine Learning Model Explainer
Description: It enables detailed interpretation of complex classification and regression models through Shapley analysis including data-driven characterization of subgroups of individuals. Furthermore, it facilitates multi-measure model evaluation, model fairness, and decision curve analysis. Additionally, it offers enhanced visualizations with interactive elements.
Author: Ramtin Zargari Marandi [aut, cre]
Maintainer: Ramtin Zargari Marandi <ramtin.zargari.marandi@regionh.dk>
Diff between explainer versions 1.0.0 dated 2023-12-15 and 1.0.1 dated 2024-04-18
DESCRIPTION | 6 +- MD5 | 21 +++---- R/SHAPclust.R | 159 ++++++++++++++++++++++------------------------------- R/eCM_plot.R | 21 ++----- R/eSHAP_plot.R | 103 +++++++++++++++++++++------------- R/eSHAP_plot_reg.R | 37 ++++++------ R/range01.R | 2 README.md | 48 +++++++--------- inst |only man/SHAPclust.Rd | 8 +- man/eSHAP_plot.Rd | 2 man/range01.Rd | 2 12 files changed, 202 insertions(+), 207 deletions(-)
Title: Bayesian Functional Linear Regression with Sparse Step Functions
Description: A method for the Bayesian functional linear regression model (scalar-on-function),
including two estimators of the coefficient function and an estimator of its support.
A representation of the posterior distribution is also available. Grollemund P-M., Abraham C.,
Baragatti M., Pudlo P. (2019) <doi:10.1214/18-BA1095>.
Author: Paul-Marie Grollemund [aut, cre],
Isabelle Sanchez [ctr],
Meili Baragatti [ctr]
Maintainer: Paul-Marie Grollemund <paul.marie.grollemund@gmail.com>
Diff between bliss versions 1.0.4 dated 2022-02-16 and 1.0.5 dated 2024-04-18
DESCRIPTION | 8 MD5 | 109 +- NAMESPACE | 124 +-- NEWS.md | 36 R/Auxiliary_and_graphics_functions.R | 868 ++++++++++----------- R/Bliss_Gibbs_Sampler.R | 326 ++++---- R/Bliss_Simulated_Annealing.R | 312 +++---- R/Bliss_method.R | 502 ++++++------ R/Bliss_method_prior.R |only R/RcppExports.R | 158 +-- R/Simulate_Data.R | 1204 ++++++++++++++--------------- R/basic_functions.R | 1050 +++++++++++++------------- R/bliss.R | 26 R/data.R | 130 +-- README.md | 82 +- build/vignette.rds |binary inst/CITATION | 52 - inst/doc/BlissIntro.R | 276 +++--- inst/doc/BlissIntro.Rmd | 602 +++++++------- inst/doc/BlissIntro.html | 1367 ++++++++++++++++++++-------------- man/BIC_model_choice.Rd | 86 +- man/Bliss_Gibbs_Sampler.Rd | 124 +-- man/Bliss_Simulated_Annealing.Rd | 152 +-- man/bliss.Rd | 22 man/build_Fourier_basis.Rd | 58 - man/change_grid.Rd | 56 - man/choose_beta.Rd | 126 +-- man/compute_beta_posterior_density.Rd | 126 +-- man/compute_beta_sample.Rd | 94 +- man/compute_chains_info.Rd | 120 +- man/compute_random_walk.Rd | 66 - man/compute_starting_point_sann.Rd | 48 - man/corr_matrix.Rd | 62 - man/data1.Rd | 46 - man/determine_intervals.Rd | 62 - man/dposterior.Rd | 78 - man/figures |only man/fit_Bliss.Rd | 220 ++--- man/grapes-between-grapes.Rd | 48 - man/image_Bliss.Rd | 116 +- man/integrate_trapeze.Rd | 50 - man/interpretation_plot.Rd | 76 - man/lines_bliss.Rd | 74 - man/param1.Rd | 50 - man/pdexp.Rd | 52 - man/plot_bliss.Rd | 80 - man/printbliss.Rd | 38 man/prior_Bliss.Rd |only man/res_bliss1.Rd | 94 +- man/sigmoid.Rd | 76 - man/sigmoid_sharp.Rd | 76 - man/sim.Rd | 128 +-- man/sim_x.Rd | 144 +-- man/support_estimation.Rd | 96 +- src/Makevars | 2 src/Makevars.win | 2 vignettes/BlissIntro.Rmd | 602 +++++++------- 57 files changed, 5425 insertions(+), 5157 deletions(-)
Title: A Simple HTTP Database Interface to 'ClickHouse'
Description: 'ClickHouse' (<https://clickhouse.com/>)
is an open-source, high performance columnar
OLAP (online analytical processing of queries) database management system
for real-time analytics using SQL. This 'DBI' backend
relies on the 'ClickHouse' HTTP interface and support HTTPS protocol.
Author: Patrice Godard [aut, cre, cph],
Eusebiu Marcu [ctb]
Maintainer: Patrice Godard <patrice.godard@gmail.com>
Diff between ClickHouseHTTP versions 0.3.2 dated 2023-07-04 and 0.3.3 dated 2024-04-18
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/result.R | 25 ++++++++++++++++++++++--- 3 files changed, 28 insertions(+), 9 deletions(-)
More information about ClickHouseHTTP at CRAN
Permanent link
Title: Using the Theory of Belief Functions
Description: Using the Theory of Belief Functions for evidence calculus. Basic probability assignments, or mass functions, can be defined on the subsets of a set of possible values and combined. A mass function can be extended to a larger frame. Marginalization, i.e. reduction to a smaller frame can also be done. These features can be combined to analyze small belief networks and take into account situations where information cannot be satisfactorily described by probability distributions.
Author: Claude Boivin <webapp.cb@gmail.com> Peiyuan Zhu <garyzhubc@gmail.com>
Maintainer: Claude Boivin <webapp.cb@gmail.com>
Diff between dst versions 1.5.2 dated 2023-11-16 and 1.6.0 dated 2024-04-17
DESCRIPTION | 18 MD5 | 169 ++++- NAMESPACE | 37 + NEWS.md | 129 ++++ R/DoSSnames.R |only R/addTobca.R | 66 +- R/bca.R | 92 +-- R/bcaNorm.R |only R/bcaPrintLarge.R |only R/bcaRel.R | 4 R/bcaTrunc.R | 209 ++++++- R/belplau.R | 101 ++- R/belplauEval.R |only R/belplauH.R |only R/belplauHLogsumexp.R |only R/belplauLogsumexp.R |only R/belplauPlot.R |only R/data.R | 9 R/dotprod.R | 7 R/dsrwon.R | 434 ++++++++++----- R/dsrwonLogsumexp.R |only R/extFrame.R |only R/extmin.R | 30 - R/inters.R | 57 + R/intersBySSName.R |only R/logsum.R |only R/mFromMarginal.R |only R/nameRows.R | 5 R/nzdsr.R | 58 +- R/nzdsrLogsumexp.R |only R/plautrans.R | 8 R/tabresul.R | 2 R/ttmatrix.R |only R/ttmatrixFromMarginal.R |only R/ttmatrixPartition.R |only build/vignette.rds |binary data/captain_result.rda |only inst/doc/Bayes_Rule.R |only inst/doc/Bayes_Rule.Rmd |only inst/doc/Bayes_Rule.html |only inst/doc/Captain_Example.R | 352 ------------ inst/doc/Captain_Example.Rmd | 373 ------------ inst/doc/Captain_Example.html | 722 ++++++++----------------- inst/doc/Crime_Scene.R |only inst/doc/Crime_Scene.Rmd |only inst/doc/Crime_Scene.html |only inst/doc/Introduction_to_Belief_Functions.R | 14 inst/doc/Introduction_to_Belief_Functions.Rmd | 16 inst/doc/Introduction_to_Belief_Functions.html | 218 +++---- inst/doc/The_Monty_Hall_Game.R | 16 inst/doc/The_Monty_Hall_Game.Rmd | 16 inst/doc/The_Monty_Hall_Game.html | 108 +-- inst/doc/The_PJM_example.R |only inst/doc/The_PJM_example.Rmd |only inst/doc/The_PJM_example.html |only inst/doc/Zadeh_Example.R | 2 inst/doc/Zadeh_Example.Rmd | 2 inst/doc/Zadeh_Example.html | 28 inst/dst.pdf |binary man/DoSSnames.Rd |only man/addTobca.Rd | 3 man/bca.Rd | 25 man/bcaNorm.Rd |only man/bcaPrintLarge.Rd |only man/bcaRel.Rd | 2 man/bcaTrunc.Rd | 4 man/belplau.Rd | 16 man/belplauEval.Rd |only man/belplauH.Rd |only man/belplauHLogsumexp.Rd |only man/belplauLogsumexp.Rd |only man/belplauPlot.Rd |only man/captain_result.Rd |only man/dsrwon.Rd | 35 - man/dsrwonLogsumpexp.Rd |only man/extFrame.Rd |only man/inters.Rd | 18 man/intersBySSName.Rd |only man/logsum.Rd |only man/mFromMarginal.Rd |only man/nzdsr.Rd | 22 man/nzdsrLogsumexp.Rd |only man/plautrans.Rd | 2 man/ttmatrix.Rd |only man/ttmatrixFromMarginal.Rd |only man/ttmatrixPartition.Rd |only tests/testthat/test_DoSSnames.R |only tests/testthat/test_bca.R | 27 tests/testthat/test_bcaNorm.R |only tests/testthat/test_bcaPrintLarge.R |only tests/testthat/test_bcaTrunc.R | 17 tests/testthat/test_belplau.R | 8 tests/testthat/test_belplauEval.R |only tests/testthat/test_belplauH.R |only tests/testthat/test_belplauHLogsumexp.R |only tests/testthat/test_belplauLogsumexp.R |only tests/testthat/test_belplauPlot.R |only tests/testthat/test_dsrwon.R | 33 - tests/testthat/test_dsrwonLogsumexp.R |only tests/testthat/test_extFrame.R |only tests/testthat/test_extmin.R | 4 tests/testthat/test_inters.R | 7 tests/testthat/test_intersBySSName.R |only tests/testthat/test_logsum.R |only tests/testthat/test_mFromMarginal.R |only tests/testthat/test_nameRows.R | 2 tests/testthat/test_nzdsr.R | 12 tests/testthat/test_nzdsrLogsumexp.R |only tests/testthat/test_ttmatrix.R |only tests/testthat/test_ttmatrixPartition.R |only tests/testthat/ttmatrixFromMarginal.R |only vignettes/Bayes_Rule.Rmd |only vignettes/Captain_Example.Rmd | 373 ------------ vignettes/Crime_Scene.Rmd |only vignettes/Introduction_to_Belief_Functions.Rmd | 16 vignettes/The_Monty_Hall_Game.Rmd | 16 vignettes/The_PJM_example.Rmd |only vignettes/Zadeh_Example.Rmd | 2 118 files changed, 1769 insertions(+), 2177 deletions(-)
Title: Phylogeny-Guided OTU-Specific Association Test for Microbiome
Data
Description: Implements the Phylogeny-Guided Microbiome OTU-Specific Association
Test method, which boosts the testing power by adaptively borrowing
information from phylogenetically close OTUs (operational taxonomic units)
of the target OTU. This method
is built on a kernel machine regression framework and allows for flexible
modeling of complex microbiome effects, adjustments for covariates, and
can accommodate both continuous and binary outcomes.
Author: Caizhi Huang [aut],
Jung-Ying Tzeng [aut],
Shannon T. Holloway [aut, cre]
Maintainer: Shannon T. Holloway <shannon.t.holloway@gmail.com>
Diff between POSTm versions 1.3 dated 2023-12-13 and 1.4 dated 2024-04-17
DESCRIPTION | 10 MD5 | 21 - NEWS | 4 R/glmFit.R | 85 ++--- R/lmFit.R | 46 +- R/post.R | 726 +++++++++++++++++++++---------------------- build/vignette.rds |binary inst/doc/POSTm_vignette.Rmd | 658 +++++++++++++++++++------------------- inst/doc/POSTm_vignette.pdf |binary tests |only vignettes/POSTm_vignette.Rmd | 658 +++++++++++++++++++------------------- 11 files changed, 1115 insertions(+), 1093 deletions(-)
Title: Fast Fixed-Effects Estimations
Description: Fast and user-friendly estimation of econometric models with multiple fixed-effects. Includes ordinary least squares (OLS), generalized linear models (GLM) and the negative binomial.
The core of the package is based on optimized parallel C++ code, scaling especially well for large data sets. The method to obtain the fixed-effects coefficients is based on Berge (2018) <https://github.com/lrberge/fixest/blob/master/_DOCS/FENmlm_paper.pdf>.
Further provides tools to export and view the results of several estimations with intuitive design to cluster the standard-errors.
Author: Laurent Berge [aut, cre],
Sebastian Krantz [ctb],
Grant McDermott [ctb] ,
Russell Lenth [ctb]
Maintainer: Laurent Berge <laurent.berge@u-bordeaux.fr>
Diff between fixest versions 0.11.2 dated 2023-11-24 and 0.12.0 dated 2024-04-17
fixest-0.11.2/fixest/R/Deprecated_funs.R |only fixest-0.11.2/fixest/R/ESTIMATION_FUNS.R |only fixest-0.11.2/fixest/R/Lagging.R |only fixest-0.11.2/fixest/R/Methods.R |only fixest-0.11.2/fixest/R/MiscFuns.R |only fixest-0.11.2/fixest/R/VCOV_aliases.R |only fixest-0.11.2/fixest/R/etable_aliases.R |only fixest-0.11.2/fixest/R/xaxis.R |only fixest-0.12.0/fixest/DESCRIPTION | 21 fixest-0.12.0/fixest/MD5 | 289 fixest-0.12.0/fixest/NAMESPACE | 25 fixest-0.12.0/fixest/NEWS.md | 85 fixest-0.12.0/fixest/R/ML_Families.R | 32 fixest-0.12.0/fixest/R/RcppExports.R | 100 fixest-0.12.0/fixest/R/VCOV.R | 3359 ++--- fixest-0.12.0/fixest/R/alias_VCOV.R |only fixest-0.12.0/fixest/R/alias_etable.R |only fixest-0.12.0/fixest/R/alias_generator.R | 22 fixest-0.12.0/fixest/R/coefplot.R | 3442 ++--- fixest-0.12.0/fixest/R/ctb_emmeans.R |only fixest-0.12.0/fixest/R/data_tools.R | 1778 +- fixest-0.12.0/fixest/R/deprecated.R |only fixest-0.12.0/fixest/R/did.R | 769 - fixest-0.12.0/fixest/R/estimation.R |only fixest-0.12.0/fixest/R/etable.R |10139 ++++++++-------- fixest-0.12.0/fixest/R/femlm.R | 223 fixest-0.12.0/fixest/R/fitstats.R | 2398 ++- fixest-0.12.0/fixest/R/fixest_env.R | 7119 +++++------ fixest-0.12.0/fixest/R/fixest_multi.R | 1716 +- fixest-0.12.0/fixest/R/graph_xaxis.R |only fixest-0.12.0/fixest/R/index.R | 32 fixest-0.12.0/fixest/R/methods.R |only fixest-0.12.0/fixest/R/miscfuns.R |only fixest-0.12.0/fixest/R/onLoad.R | 7 fixest-0.12.0/fixest/R/panel.R |only fixest-0.12.0/fixest/R/startup.R | 641 - fixest-0.12.0/fixest/R/test_fun.R | 793 - fixest-0.12.0/fixest/build/vignette.rds |binary fixest-0.12.0/fixest/inst/doc/exporting_tables.R | 20 fixest-0.12.0/fixest/inst/doc/exporting_tables.html | 4 fixest-0.12.0/fixest/inst/doc/fixest_walkthrough.R | 36 fixest-0.12.0/fixest/inst/doc/fixest_walkthrough.Rmd | 2 fixest-0.12.0/fixest/inst/doc/fixest_walkthrough.html | 805 - fixest-0.12.0/fixest/inst/doc/multiple_estimations.html | 4 fixest-0.12.0/fixest/inst/doc/standard_errors.R | 10 fixest-0.12.0/fixest/inst/doc/standard_errors.html | 8 fixest-0.12.0/fixest/man/AIC.fixest.Rd | 8 fixest-0.12.0/fixest/man/BIC.fixest.Rd | 2 fixest-0.12.0/fixest/man/aggregate.fixest.Rd | 37 fixest-0.12.0/fixest/man/as.dict.Rd | 13 fixest-0.12.0/fixest/man/as.list.fixest_multi.Rd | 8 fixest-0.12.0/fixest/man/base_did.Rd | 8 fixest-0.12.0/fixest/man/base_stagg.Rd | 2 fixest-0.12.0/fixest/man/bin.Rd | 71 fixest-0.12.0/fixest/man/bread.fixest.Rd | 2 fixest-0.12.0/fixest/man/check_conv_feols.Rd | 13 fixest-0.12.0/fixest/man/coef.fixest.Rd | 35 fixest-0.12.0/fixest/man/coef.fixest_multi.Rd | 36 fixest-0.12.0/fixest/man/coefplot.Rd | 84 fixest-0.12.0/fixest/man/coeftable.Rd | 2 fixest-0.12.0/fixest/man/coeftable.default.Rd | 45 fixest-0.12.0/fixest/man/coeftable.fixest.Rd | 74 fixest-0.12.0/fixest/man/coeftable.fixest_multi.Rd | 62 fixest-0.12.0/fixest/man/collinearity.Rd | 16 fixest-0.12.0/fixest/man/confint.fixest.Rd | 54 fixest-0.12.0/fixest/man/confint.fixest_multi.Rd | 50 fixest-0.12.0/fixest/man/degrees_freedom.Rd | 60 fixest-0.12.0/fixest/man/demean.Rd | 94 fixest-0.12.0/fixest/man/demeaning_algo.Rd |only fixest-0.12.0/fixest/man/deviance.fixest.Rd | 2 fixest-0.12.0/fixest/man/df.residual.fixest.Rd |only fixest-0.12.0/fixest/man/did_means.Rd | 51 fixest-0.12.0/fixest/man/emmeans_support.Rd |only fixest-0.12.0/fixest/man/est_env.Rd | 71 fixest-0.12.0/fixest/man/estfun.fixest.Rd | 5 fixest-0.12.0/fixest/man/etable.Rd | 899 + fixest-0.12.0/fixest/man/extralines_register.Rd | 6 fixest-0.12.0/fixest/man/feNmlm.Rd | 588 fixest-0.12.0/fixest/man/feglm.Rd | 536 fixest-0.12.0/fixest/man/femlm.Rd | 497 fixest-0.12.0/fixest/man/feols.Rd | 517 fixest-0.12.0/fixest/man/fitstat.Rd | 94 fixest-0.12.0/fixest/man/fitstat_register.Rd | 23 fixest-0.12.0/fixest/man/fitted.fixest.Rd | 28 fixest-0.12.0/fixest/man/fixef.fixest.Rd | 43 fixest-0.12.0/fixest/man/fixef_reexported.Rd | 8 fixest-0.12.0/fixest/man/fixest-package.Rd | 33 fixest-0.12.0/fixest/man/fixest_data.Rd |only fixest-0.12.0/fixest/man/fixest_startup_msg.Rd | 7 fixest-0.12.0/fixest/man/formula.fixest.Rd | 18 fixest-0.12.0/fixest/man/hatvalues.fixest.Rd | 13 fixest-0.12.0/fixest/man/i.Rd | 95 fixest-0.12.0/fixest/man/l.Rd | 30 fixest-0.12.0/fixest/man/lag.formula.Rd | 39 fixest-0.12.0/fixest/man/logLik.fixest.Rd | 8 fixest-0.12.0/fixest/man/model.matrix.fixest.Rd | 27 fixest-0.12.0/fixest/man/models.Rd | 14 fixest-0.12.0/fixest/man/n_models.Rd |only fixest-0.12.0/fixest/man/n_unik.Rd | 63 fixest-0.12.0/fixest/man/nobs.fixest.Rd | 10 fixest-0.12.0/fixest/man/obs.Rd | 2 fixest-0.12.0/fixest/man/panel.Rd | 51 fixest-0.12.0/fixest/man/plot.fixest.fixef.Rd | 18 fixest-0.12.0/fixest/man/predict.fixest.Rd | 80 fixest-0.12.0/fixest/man/print.fixest.Rd | 11 fixest-0.12.0/fixest/man/print.fixest_fitstat.Rd | 3 fixest-0.12.0/fixest/man/print.fixest_multi.Rd | 8 fixest-0.12.0/fixest/man/r2.Rd | 30 fixest-0.12.0/fixest/man/ref.Rd | 78 fixest-0.12.0/fixest/man/rep.fixest.Rd | 18 fixest-0.12.0/fixest/man/resid.fixest.Rd | 16 fixest-0.12.0/fixest/man/resid.fixest_multi.Rd | 10 fixest-0.12.0/fixest/man/sample_df.Rd | 3 fixest-0.12.0/fixest/man/sandwich_reexported.Rd | 9 fixest-0.12.0/fixest/man/setFixest_coefplot.Rd | 20 fixest-0.12.0/fixest/man/setFixest_dict.Rd | 29 fixest-0.12.0/fixest/man/setFixest_estimation.Rd | 95 fixest-0.12.0/fixest/man/setFixest_fml.Rd | 31 fixest-0.12.0/fixest/man/setFixest_multi.Rd |only fixest-0.12.0/fixest/man/setFixest_notes.Rd | 2 fixest-0.12.0/fixest/man/setFixest_nthreads.Rd | 14 fixest-0.12.0/fixest/man/setFixest_vcov.Rd | 25 fixest-0.12.0/fixest/man/sigma.fixest.Rd | 2 fixest-0.12.0/fixest/man/ssc.Rd | 52 fixest-0.12.0/fixest/man/stepwise.Rd | 36 fixest-0.12.0/fixest/man/style.df.Rd | 64 fixest-0.12.0/fixest/man/style.tex.Rd | 194 fixest-0.12.0/fixest/man/sub-.fixest_multi.Rd | 69 fixest-0.12.0/fixest/man/sub-.fixest_panel.Rd | 27 fixest-0.12.0/fixest/man/sub-sub-.fixest_multi.Rd | 8 fixest-0.12.0/fixest/man/summary.fixest.Rd | 126 fixest-0.12.0/fixest/man/summary.fixest.fixef.Rd | 14 fixest-0.12.0/fixest/man/summary.fixest_multi.Rd | 81 fixest-0.12.0/fixest/man/sunab.Rd | 114 fixest-0.12.0/fixest/man/terms.fixest.Rd | 5 fixest-0.12.0/fixest/man/to_integer.Rd | 27 fixest-0.12.0/fixest/man/trade.Rd | 2 fixest-0.12.0/fixest/man/unpanel.Rd | 7 fixest-0.12.0/fixest/man/update.fixest.Rd | 20 fixest-0.12.0/fixest/man/vcov.fixest.Rd | 93 fixest-0.12.0/fixest/man/vcov_cluster.Rd | 20 fixest-0.12.0/fixest/man/vcov_conley.Rd | 54 fixest-0.12.0/fixest/man/vcov_hac.Rd | 60 fixest-0.12.0/fixest/man/wald.Rd | 67 fixest-0.12.0/fixest/man/weights.fixest.Rd | 5 fixest-0.12.0/fixest/man/xpd.Rd | 127 fixest-0.12.0/fixest/src/RcppExports.cpp | 260 fixest-0.12.0/fixest/src/convergence.cpp | 48 fixest-0.12.0/fixest/src/demeaning.cpp | 3101 ++-- fixest-0.12.0/fixest/src/dsb.cpp | 668 - fixest-0.12.0/fixest/src/lm_related.cpp | 1568 +- fixest-0.12.0/fixest/src/misc_funs.cpp | 2302 +-- fixest-0.12.0/fixest/src/parallel_funs.cpp | 912 - fixest-0.12.0/fixest/src/quf.cpp | 1836 +- fixest-0.12.0/fixest/src/vcov_related.cpp | 1007 - fixest-0.12.0/fixest/tests/fixest_tests.R | 1073 + fixest-0.12.0/fixest/vignettes/fixest_walkthrough.Rmd | 2 157 files changed, 28890 insertions(+), 24094 deletions(-)
Title: Bayesian Seemingly Unrelated Regression
Description: Bayesian seemingly unrelated regression with general variable selection and dense/sparse covariance matrix. The sparse seemingly unrelated regression is described in Bottolo et al. (2021) <doi:10.1111/rssc.12490>, the software paper is in Zhao et al. (2021) <doi:10.18637/jss.v100.i11>, and the model with random effects is described in Zhao et al. (2024) <doi:10.1093/jrsssc/qlad102>.
Author: Marco Banterle [aut],
Zhi Zhao [aut, cre],
Leonardo Bottolo [ctb],
Sylvia Richardson [ctb],
Waldir Leoncio [ctb],
Alex Lewin [aut],
Manuela Zucknick [aut]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>
Diff between BayesSUR versions 2.1-6 dated 2024-01-09 and 2.1-7 dated 2024-04-17
DESCRIPTION | 14 ++--- MD5 | 40 +++++++------- NEWS.md | 5 + R/BayesSUR.R | 6 +- R/RcppExports.R | 4 - README.md | 13 +++- build/vignette.rds |binary data/exampleGDSC.rda |binary inst/CITATION | 124 +++++++++++++++++++++++++++------------------- inst/doc/BayesSUR-RE.html | 2 man/BayesSUR.Rd | 4 + src/BayesSUR.cpp | 4 - src/ESS_Sampler.h | 9 ++- src/HRR_Chain.cpp | 55 +++++++++++++------- src/HRR_Chain.h | 5 + src/RcppExports.cpp | 9 +-- src/SUR_Chain.cpp | 30 +++++++---- src/SUR_Chain.h | 5 + src/drive.cpp | 25 +++++---- src/drive.h | 2 src/utils.h | 1 21 files changed, 217 insertions(+), 140 deletions(-)
Title: Infrastructure for Ordering Objects Using Seriation
Description: Infrastructure for ordering objects with an implementation of several
seriation/sequencing/ordination techniques to reorder matrices, dissimilarity
matrices, and dendrograms. Also provides (optimally) reordered heatmaps,
color images and clustering visualizations like dissimilarity plots, and
visual assessment of cluster tendency plots (VAT and iVAT). Hahsler et al (2008) <doi:10.18637/jss.v025.i03>.
Author: Michael Hahsler [aut, cre, cph]
,
Christian Buchta [aut, cph],
Kurt Hornik [aut, cph] ,
David Barnett [ctb],
Michael Brusco [ctb, cph],
Michael Friendly [ctb],
Hans-Friedrich Koehn [ctb, cph],
Fionn Murtagh [ctb, cph],
Stephanie Stahl [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between seriation versions 1.5.4 dated 2023-12-12 and 1.5.5 dated 2024-04-17
DESCRIPTION | 10 +- MD5 | 120 +++++++++++++++++----------------- NEWS.md | 4 + R/AAA_color_palette.R | 4 - R/AAA_registry_criterion.R | 24 ++++-- R/AAA_registry_seriate.R | 2 R/AAA_seriation-package.R | 25 ++++--- R/Chameleon.R | 1 R/Irish.R | 9 +- R/Munsingen.R | 11 +-- R/Psych24.R | 6 - R/SupremeCourt.R | 5 - R/Townships.R | 1 R/Wood.R | 7 - R/Zoo.R | 3 R/criterion.R | 47 ++++++------- R/criterion.dist.R | 61 ++++++++++++----- R/criterion.matrix.R | 11 +-- R/lines_and_ordered_data.R | 27 +++---- R/register_DendSer.R | 7 + R/register_GA.R | 14 +-- R/register_optics.R | 10 +- R/register_smacof.R | 22 +++++- R/register_tsne.R | 7 + R/robinson.R | 10 +- R/ser_dist.R | 12 +-- R/seriate.R | 88 ++++++++++++------------ R/seriate_best.R | 11 +-- R/uniscale.R | 29 +++++--- README.md | 10 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/seriation.pdf |binary man/Chameleon.Rd | 12 +++ man/Irish.Rd | 20 ++++- man/Munsingen.Rd | 20 ++++- man/Psych24.Rd | 6 - man/SupremeCourt.Rd | 16 +++- man/Townships.Rd | 12 +++ man/Wood.Rd | 18 +++-- man/Zoo.Rd | 14 +++ man/create_lines_data.Rd | 36 ++++++---- man/criterion.Rd | 29 +++----- man/get_order.Rd | 4 - man/is.robinson.Rd | 16 +++- man/palette.Rd | 4 - man/permutation_vector2matrix.Rd | 4 - man/permute.Rd | 4 - man/register_DendSer.Rd | 10 +- man/register_GA.Rd | 8 +- man/register_optics.Rd | 12 +-- man/register_smacof.Rd | 10 +- man/register_tsne.Rd | 11 +-- man/register_umap.Rd | 4 - man/registry_for_criterion_methods.Rd | 7 + man/registry_for_seriaiton_methods.Rd | 6 - man/ser_dist.Rd | 16 ++-- man/seriate.Rd | 52 +++++++------- man/seriate_best.Rd | 11 +-- man/seriation-package.Rd | 49 +++++++++++++ man/uniscale.Rd | 15 ++-- 61 files changed, 626 insertions(+), 398 deletions(-)
Title: Statistical Tolerance Intervals and Regions
Description: Statistical tolerance limits provide the limits between which we can expect to find a specified proportion of a sampled population with a given level of confidence. This package provides functions for estimating tolerance limits (intervals) for various univariate distributions (binomial, Cauchy, discrete Pareto, exponential, two-parameter exponential, extreme value, hypergeometric, Laplace, logistic, negative binomial, negative hypergeometric, normal, Pareto, Poisson-Lindley, Poisson, uniform, and Zipf-Mandelbrot), Bayesian normal tolerance limits, multivariate normal tolerance regions, nonparametric tolerance intervals, tolerance bands for regression settings (linear regression, nonlinear regression, nonparametric regression, and multivariate regression), and analysis of variance tolerance intervals. Visualizations are also available for most of these settings.
Author: Derek S. Young [aut, cre] ,
Kedai Cheng [aut]
Maintainer: Derek S. Young <derek.young@uky.edu>
Diff between tolerance versions 2.0.0 dated 2020-02-05 and 3.0.0 dated 2024-04-17
tolerance-2.0.0/tolerance/R/regtolint.R |only tolerance-3.0.0/tolerance/DESCRIPTION | 18 tolerance-3.0.0/tolerance/MD5 | 88 +- tolerance-3.0.0/tolerance/NAMESPACE | 14 tolerance-3.0.0/tolerance/NEWS | 409 +++++++----- tolerance-3.0.0/tolerance/R/Kfactor.R | 7 tolerance-3.0.0/tolerance/R/accsamp.R | 68 +- tolerance-3.0.0/tolerance/R/bonftolint.R | 50 - tolerance-3.0.0/tolerance/R/diffprop.R | 130 ++- tolerance-3.0.0/tolerance/R/dparetoll.R | 2 tolerance-3.0.0/tolerance/R/gammatolint.R | 2 tolerance-3.0.0/tolerance/R/logistolint.R | 2 tolerance-3.0.0/tolerance/R/negbintolint.R | 12 tolerance-3.0.0/tolerance/R/nonlinregtolint.R | 195 +++-- tolerance-3.0.0/tolerance/R/nonparregtolint.R | 98 +- tolerance-3.0.0/tolerance/R/normss.R | 10 tolerance-3.0.0/tolerance/R/npbetolint.R | 32 tolerance-3.0.0/tolerance/R/nporder.R | 48 - tolerance-3.0.0/tolerance/R/plotly_anovatol.R |only tolerance-3.0.0/tolerance/R/plotly_controltol.R |only tolerance-3.0.0/tolerance/R/plotly_histtol.R |only tolerance-3.0.0/tolerance/R/plotly_multitol.R |only tolerance-3.0.0/tolerance/R/plotly_normOC.R |only tolerance-3.0.0/tolerance/R/plotly_npmvtol.R |only tolerance-3.0.0/tolerance/R/plotly_regtol.R |only tolerance-3.0.0/tolerance/R/plottol.R | 710 +++++++++++---------- tolerance-3.0.0/tolerance/R/poislindll.R | 6 tolerance-3.0.0/tolerance/R/poislindtolint.R | 2 tolerance-3.0.0/tolerance/R/regtol.int.R |only tolerance-3.0.0/tolerance/R/semiconttolint.R |only tolerance-3.0.0/tolerance/R/simnormtolint.R | 2 tolerance-3.0.0/tolerance/R/zipftolint.R | 178 ++--- tolerance-3.0.0/tolerance/R/zmll.R | 62 - tolerance-3.0.0/tolerance/R/zzz.R |only tolerance-3.0.0/tolerance/README.md |only tolerance-3.0.0/tolerance/inst/CITATION | 38 - tolerance-3.0.0/tolerance/man/Kfactor.Rd | 144 ++-- tolerance-3.0.0/tolerance/man/Kfactorsim.Rd | 2 tolerance-3.0.0/tolerance/man/bayesnormtolint.Rd | 4 tolerance-3.0.0/tolerance/man/gammatolint.Rd | 11 tolerance-3.0.0/tolerance/man/nonlinregtolint.Rd | 153 ++-- tolerance-3.0.0/tolerance/man/nonparregtolint.Rd | 146 ++-- tolerance-3.0.0/tolerance/man/nonpartolint.Rd | 4 tolerance-3.0.0/tolerance/man/npbetolint.Rd | 2 tolerance-3.0.0/tolerance/man/npmvtolregion.Rd | 10 tolerance-3.0.0/tolerance/man/plotly_anovatol.Rd |only tolerance-3.0.0/tolerance/man/plotly_controltol.Rd |only tolerance-3.0.0/tolerance/man/plotly_histtol.Rd |only tolerance-3.0.0/tolerance/man/plotly_multitol.Rd |only tolerance-3.0.0/tolerance/man/plotly_normOC.Rd |only tolerance-3.0.0/tolerance/man/plotly_npmvtol.Rd |only tolerance-3.0.0/tolerance/man/plotly_regtol.Rd |only tolerance-3.0.0/tolerance/man/regtolint.Rd | 3 tolerance-3.0.0/tolerance/man/semiconttolint.Rd |only tolerance-3.0.0/tolerance/man/simnormtolint.Rd | 8 55 files changed, 1494 insertions(+), 1176 deletions(-)
Title: Tau-Leaping Stochastic Simulation
Description: Implements adaptive tau leaping to approximate the
trajectory of a continuous-time stochastic process as
described by Cao et al. (2007) The Journal of Chemical Physics
<doi:10.1063/1.2745299> (aka. the Gillespie stochastic
simulation algorithm). This package is based upon work
supported by NSF DBI-0906041 and NIH K99-GM104158 to Philip
Johnson and NIH R01-AI049334 to Rustom Antia.
Author: Philip Johnson
Maintainer: Philip Johnson <plfj@umd.edu>
Diff between adaptivetau versions 2.3 dated 2023-11-28 and 2.3-1 dated 2024-04-17
DESCRIPTION | 10 +- MD5 | 12 +- NEWS | 10 ++ build/vignette.rds |binary inst/doc/adaptivetau.pdf |binary man/ssa.adaptivetau.Rd | 18 ++-- src/adaptivetau.cpp | 205 +++++++++++++++++++++++------------------------ 7 files changed, 134 insertions(+), 121 deletions(-)
Title: Latent Interaction (and Moderation) Analysis in Structural
Equation Models (SEM)
Description: Estimation of interaction (i.e., moderation) effects between latent variables
in structural equation models (SEM).
The supported methods are:
The constrained approach (Algina & Moulder, 2001).
The unconstrained approach (Marsh et al., 2004).
The residual centering approach (Little et al., 2006).
The double centering approach (Lin et al., 2010).
The latent moderated structural equations (LMS) approach (Klein & Moosbrugger, 2000).
The quasi-maximum likelihood (QML) approach (Klein & Muthén, 2007) (temporarily unavailable)
The constrained- unconstrained, residual- and double centering- approaches
are estimated via 'lavaan' (Rosseel, 2012), whilst the LMS- and QML- approaches
are estimated via by ModSEM it self. Alternatively model can be
estimated via 'Mplus' (Muthén & Muthén, 1998-2017).
References:
Algina, J., & Moulder, B. C. (2001).
<doi:10.1207/S15328007SEM0801_3>.
"A note on estimating the Jöreskog-Yang model for latent variable interaction using 'LISREL' 8 [...truncated...]
Author: Kjell Solem Slupphaug [aut, cre]
Maintainer: Kjell Solem Slupphaug <slupphaugkjell@gmail.com>
Diff between modsem versions 0.1.1 dated 2024-04-15 and 0.1.2 dated 2024-04-17
DESCRIPTION | 6 +- MD5 | 22 ++++----- R/emLms.R | 31 ++++--------- R/equationsLms.R | 35 ++++++++------- R/equationsQml.R | 23 --------- R/modelLmsQml.R | 78 +++++++++------------------------ R/modsem.R | 25 ++++++++++ R/utilsLms.R | 70 +++++------------------------- R/utilsQml.R | 20 ++++---- man/modsem.Rd | 25 ++++++++++ tests/testthat/mplusResults.out | 8 +-- tests/testthat/testingLMS.R | 93 ++++++++++++++++++++-------------------- 12 files changed, 192 insertions(+), 244 deletions(-)
Title: Targets for JAGS Pipelines
Description: Bayesian data analysis usually incurs long runtimes
and cumbersome custom code.
A pipeline toolkit tailored to Bayesian statisticians,
the 'jagstargets' R package is leverages
'targets' and 'R2jags' to ease this burden.
'jagstargets' makes it super easy to set up scalable
JAGS pipelines that automatically parallelize the computation
and skip expensive steps when the results are already up to date.
Minimal custom code is required, and there is no need to manually
configure branching, so usage is much easier than 'targets' alone.
For the underlying methodology, please refer
to the documentation of 'targets' <doi:10.21105/joss.02959> and 'JAGS'
(Plummer 2003) <https://www.r-project.org/conferences/DSC-2003/Proceedings/Plummer.pdf>.
Author: William Michael Landau [aut, cre]
,
David Lawrence Miller [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between jagstargets versions 1.1.0 dated 2023-01-06 and 1.2.0 dated 2024-04-17
DESCRIPTION | 22 MD5 | 48 - NAMESPACE | 5 NEWS.md | 11 R/tar_jags.R | 27 - R/tar_jags_package.R | 6 R/tar_jags_rep.R | 26 - R/tar_jags_rep_dic.R | 6 R/tar_jags_rep_draws.R | 6 R/tar_jags_rep_summary.R | 6 R/utils_data.R | 2 build/vignette.rds |binary inst/CITATION | 20 inst/doc/introduction.R | 22 inst/doc/introduction.html | 600 ++++++++++++----------- inst/doc/simulation.R | 18 inst/doc/simulation.html | 735 +++++++++++++++-------------- man/jagstargets-package.Rd | 1 man/tar_jags.Rd | 29 - man/tar_jags_rep.Rd | 29 - man/tar_jags_rep_dic.Rd | 29 - man/tar_jags_rep_draws.Rd | 29 - man/tar_jags_rep_summary.Rd | 29 - tests/testthat/test-tar_jags.R | 2 tests/testthat/test-tar_jags_rep_summary.R | 2 25 files changed, 956 insertions(+), 754 deletions(-)
Title: Interpolation and Extrapolation with Beta Diversity for Three
Dimensions of Biodiversity
Description: As a sequel to 'iNEXT', the 'iNEXT.beta3D' package provides functions to compute
standardized taxonomic, phylogenetic, and functional diversity (3D) estimates
with a common sample size (for alpha and gamma diversity) or sample coverage
(for alpha, beta, gamma diversity as well as dissimilarity or turnover indices).
Hill numbers and their generalizations are used to quantify 3D and to make
multiplicative decomposition (gamma = alpha x beta). The package also features
size- and coverage-based rarefaction and extrapolation sampling curves to
facilitate rigorous comparison of beta diversity across datasets.
See Chao et al. (2023) <doi:10.1002/ecm.1588> for more details.
Author: Anne Chao [aut, cre],
KaiHsiang Hu [ctb]
Maintainer: Anne Chao <chao@stat.nthu.edu.tw>
Diff between iNEXT.beta3D versions 1.0.1 dated 2024-03-25 and 1.0.2 dated 2024-04-17
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 6 ++++-- R/MainFun.r | 16 ++++++++-------- inst/doc/Introduction.pdf |binary 5 files changed, 19 insertions(+), 17 deletions(-)
Title: Analysis of Ecological Dynamic Regimes
Description: A toolbox for implementing the Ecological Dynamic Regime framework
(Sánchez-Pinillos et al., 2023 <doi:10.1002/ecm.1589>) to characterize and
compare groups of ecological trajectories in multidimensional spaces defined
by state variables. The package includes the RETRA-EDR algorithm to identify
representative trajectories, functions to generate, summarize, and visualize
representative trajectories, and several metrics to quantify the distribution
and heterogeneity of trajectories in an ecological dynamic regime and quantify
the dissimilarity between two or more ecological dynamic regimes. The package
also includes a set of functions to assess ecological resilience based on
ecological dynamic regimes (Sánchez-Pinillos et al., 2024 <doi:10.1016/j.biocon.2023.110409>).
Author: Martina Sanchez-Pinillos [aut, cre, cph]
Maintainer: Martina Sanchez-Pinillos <martina.sanchez.pinillos@gmail.com>
Diff between ecoregime versions 0.1.3 dated 2023-09-10 and 0.2.0 dated 2024-04-17
DESCRIPTION | 33 ++-- MD5 | 58 ++++--- NAMESPACE | 5 NEWS.md | 24 +++ R/EDR_data.R | 29 ++- R/EDR_metrics.R | 2 R/define_retra.R | 5 R/deviation_metrics.R |only R/dist_edr.R | 10 - R/retra_edr.R | 3 R/state_to_trajectory.R |only README.md | 101 +++++++++++-- build/partial.rdb |binary build/vignette.rds |binary data/EDR_data.rda |binary inst/CITATION | 18 ++ inst/doc/EDR_framework.R | 8 - inst/doc/EDR_framework.Rmd | 6 inst/doc/EDR_framework.html | 223 ++++++++++++++---------------- inst/doc/Resilience.R |only inst/doc/Resilience.Rmd |only inst/doc/Resilience.html |only man/EDR_data.Rd | 29 ++- man/deviation_metrics.Rd |only man/dist_edr.Rd | 10 - man/ecoregime-package.Rd | 2 man/figures/README-plotEDR-1.png |binary man/state_to_trajectory.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test-EDR_metrics.R | 27 +++ tests/testthat/test-deviation_metrics.R |only tests/testthat/test-plot.R | 15 ++ tests/testthat/test-state_to_trajectory.R |only vignettes/EDR_framework.Rmd | 6 vignettes/Resilience.Rmd |only 35 files changed, 396 insertions(+), 218 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') 'SQLite' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database
Connectivity ('ADBC') 'SQLite' driver for the purposes of building high-level
database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is
an API standard for database access libraries that uses 'Arrow' for result
sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between adbcsqlite versions 0.10.0 dated 2024-02-22 and 0.11.0.1 dated 2024-04-17
adbcsqlite-0.10.0/adbcsqlite/NEWS.md |only adbcsqlite-0.10.0/adbcsqlite/src/init.c |only adbcsqlite-0.10.0/adbcsqlite/src/nanoarrow |only adbcsqlite-0.10.0/adbcsqlite/src/sqlite.c |only adbcsqlite-0.10.0/adbcsqlite/src/statement_reader.c |only adbcsqlite-0.10.0/adbcsqlite/src/statement_reader.h |only adbcsqlite-0.10.0/adbcsqlite/src/types.h |only adbcsqlite-0.11.0.1/adbcsqlite/DESCRIPTION | 6 +- adbcsqlite-0.11.0.1/adbcsqlite/MD5 | 53 +++++++++++++++----- adbcsqlite-0.11.0.1/adbcsqlite/cleanup | 3 - adbcsqlite-0.11.0.1/adbcsqlite/src/Makevars.in | 15 +++-- adbcsqlite-0.11.0.1/adbcsqlite/src/c |only adbcsqlite-0.11.0.1/adbcsqlite/src/init.cc |only 13 files changed, 57 insertions(+), 20 deletions(-)
Title: Robust Trimmed Clustering
Description: Provides functions for robust trimmed clustering. The methods are
described in Garcia-Escudero (2008) <doi:10.1214/07-AOS515>,
Fritz et al. (2012) <doi:10.18637/jss.v047.i12>,
Garcia-Escudero et al. (2011) <doi:10.1007/s11222-010-9194-z> and others.
Author: Valentin Todorov [aut, cre] ,
Luis Angel Garcia Escudero [aut],
Agustin Mayo Iscar [aut],
Javier Crespo Guerrero [aut],
Heinrich Fritz [aut]
Maintainer: Valentin Todorov <valentin.todorov@chello.at>
Diff between tclust versions 1.5-6 dated 2024-02-09 and 2.0-3 dated 2024-04-17
tclust-1.5-6/tclust/R/ScaleAdv.R |only tclust-1.5-6/tclust/R/plot.DiscrFact.R |only tclust-1.5-6/tclust/R/plot_DiscrFact_p2.R |only tclust-1.5-6/tclust/R/plot_DiscrFact_p3.R |only tclust-1.5-6/tclust/R/print.DiscrFact.R |only tclust-1.5-6/tclust/R/summary.DiscrFact.R |only tclust-1.5-6/tclust/R/tclust.opt.restr.R |only tclust-1.5-6/tclust/R/tkmeans.C.R |only tclust-1.5-6/tclust/inst/work/clust.cpp |only tclust-1.5-6/tclust/inst/work/clust.h |only tclust-1.5-6/tclust/inst/work/tclust-notes.txt |only tclust-1.5-6/tclust/man/discr_coords.Rd |only tclust-1.5-6/tclust/src/ML_meal.cpp |only tclust-1.5-6/tclust/src/ML_meal.h |only tclust-1.5-6/tclust/src/ML_package.cpp |only tclust-1.5-6/tclust/src/ML_package.h |only tclust-1.5-6/tclust/src/ML_passrng.cpp |only tclust-1.5-6/tclust/src/ML_passrng.h |only tclust-1.5-6/tclust/src/R.Inc.h |only tclust-1.5-6/tclust/src/R_meal.cpp |only tclust-1.5-6/tclust/src/R_meal.h |only tclust-1.5-6/tclust/src/R_meal_BLAS.cpp |only tclust-1.5-6/tclust/src/R_package.cpp |only tclust-1.5-6/tclust/src/R_package.h |only tclust-1.5-6/tclust/src/clust.cpp |only tclust-1.5-6/tclust/src/clust.h |only tclust-1.5-6/tclust/src/perftimer.h |only tclust-1.5-6/tclust/src/restr.cpp |only tclust-1.5-6/tclust/src/restr_eigen.cpp |only tclust-1.5-6/tclust/src/smat.base.h |only tclust-1.5-6/tclust/src/smat.cpp |only tclust-1.5-6/tclust/src/smat.def.h |only tclust-1.5-6/tclust/src/smat.elop.h |only tclust-1.5-6/tclust/src/smat.h |only tclust-1.5-6/tclust/src/smat.math.h |only tclust-1.5-6/tclust/src/smat.matop.h |only tclust-1.5-6/tclust/src/smat.meal.h |only tclust-1.5-6/tclust/src/smat.mem.h |only tclust-1.5-6/tclust/src/smat.misc.h |only tclust-1.5-6/tclust/src/smat.random.h |only tclust-1.5-6/tclust/src/smat.sort.h |only tclust-1.5-6/tclust/src/smat.stat.h |only tclust-1.5-6/tclust/src/smat_meal_passrng.h |only tclust-1.5-6/tclust/src/smat_meal_passrng_hpp.h |only tclust-1.5-6/tclust/src/tclust.h |only tclust-1.5-6/tclust/src/tclust_init.c |only tclust-1.5-6/tclust/src/tkmeans.h |only tclust-2.0-3/tclust/ChangeLog | 9 tclust-2.0-3/tclust/DESCRIPTION | 35 tclust-2.0-3/tclust/MD5 | 139 - tclust-2.0-3/tclust/NAMESPACE | 57 tclust-2.0-3/tclust/R/DiscrFact.R | 347 ++++ tclust-2.0-3/tclust/R/R_restr.eigen.R | 187 +- tclust-2.0-3/tclust/R/R_tclust.R | 18 tclust-2.0-3/tclust/R/RcppExports.R |only tclust-2.0-3/tclust/R/ctlcurves.R | 358 ++-- tclust-2.0-3/tclust/R/data.R |only tclust-2.0-3/tclust/R/discr_coords.R | 91 - tclust-2.0-3/tclust/R/myscale.r |only tclust-2.0-3/tclust/R/plot.rlg.R |only tclust-2.0-3/tclust/R/plot.tclust.R | 88 + tclust-2.0-3/tclust/R/print.tclust.R | 18 tclust-2.0-3/tclust/R/rlg.R |only tclust-2.0-3/tclust/R/simul_rlg.R |only tclust-2.0-3/tclust/R/simul_tclust.R |only tclust-2.0-3/tclust/R/tclust-internal.R | 89 - tclust-2.0-3/tclust/R/tclust.R | 876 ++++++----- tclust-2.0-3/tclust/R/tkmeans.R | 324 ++++ tclust-2.0-3/tclust/R/zzz.R |only tclust-2.0-3/tclust/README.md | 8 tclust-2.0-3/tclust/data/LG5data.RData |only tclust-2.0-3/tclust/data/M5data.RData |only tclust-2.0-3/tclust/data/pine.rda |only tclust-2.0-3/tclust/data/wholesale.rda |only tclust-2.0-3/tclust/inst/doc/tclust.R | 279 +-- tclust-2.0-3/tclust/inst/doc/tclust.pdf |binary tclust-2.0-3/tclust/inst/doc/tclust.rnw | 348 ++-- tclust-2.0-3/tclust/inst/work/dmnorm-old.R |only tclust-2.0-3/tclust/man/DiscrFact.Rd | 109 - tclust-2.0-3/tclust/man/LG5data.Rd |only tclust-2.0-3/tclust/man/M5data.Rd | 47 tclust-2.0-3/tclust/man/ctlcurves.Rd | 207 +- tclust-2.0-3/tclust/man/geyser2.Rd | 68 tclust-2.0-3/tclust/man/pine.Rd |only tclust-2.0-3/tclust/man/plot.DiscrFact.Rd | 147 - tclust-2.0-3/tclust/man/plot.ctlcurves.Rd | 172 +- tclust-2.0-3/tclust/man/plot.rlg.Rd |only tclust-2.0-3/tclust/man/plot.tclust.Rd | 209 +- tclust-2.0-3/tclust/man/rlg.Rd |only tclust-2.0-3/tclust/man/simula.rlg.Rd |only tclust-2.0-3/tclust/man/simula.tclust.Rd |only tclust-2.0-3/tclust/man/summary.DiscrFact.Rd | 97 - tclust-2.0-3/tclust/man/swissbank.Rd | 53 tclust-2.0-3/tclust/man/tclust.Rd | 647 ++++---- tclust-2.0-3/tclust/man/tkmeans.Rd | 313 +--- tclust-2.0-3/tclust/man/wholesale.Rd |only tclust-2.0-3/tclust/src/Makevars | 16 tclust-2.0-3/tclust/src/Makevars.win |only tclust-2.0-3/tclust/src/RcppExports.cpp |only tclust-2.0-3/tclust/src/rlg.cpp |only tclust-2.0-3/tclust/src/tclust.cpp | 1787 ++++++++++-------------- tclust-2.0-3/tclust/src/tclust_types.h |only tclust-2.0-3/tclust/src/tkmeans.cpp | 346 +++- tclust-2.0-3/tclust/tests/ttclust.R | 78 - tclust-2.0-3/tclust/tests/ttclust.Rout.save | 589 ++++--- tclust-2.0-3/tclust/vignettes/tclust.rnw | 348 ++-- 106 files changed, 4563 insertions(+), 3941 deletions(-)
Title: Automated Estimation of Sigmoidal and Piecewise Linear Mixed
Models
Description: Estimation of relatively complex nonlinear mixed-effects models, including the Sigmoidal Mixed Model and the Piecewise Linear Mixed Model with abrupt or smooth transition, through a single intuitive line of code and with automated generation of starting values.
Author: Maude Wagner [aut, cre] ,
Emmanuelle Comets [ctb],
Ana W. Capuano [aut]
Maintainer: Maude Wagner <maude_wagner@rush.edu>
Diff between nlive versions 0.2.0 dated 2023-10-30 and 0.3.0 dated 2024-04-17
DESCRIPTION | 22 ++-- MD5 | 26 ++--- NAMESPACE | 1 R/globals.R | 4 R/nlive.R | 150 ++++++++++++++++++++++++++++--- R/nlive.inspect.R | 1 R/nlive.pmma.R | 241 ++++++++++++++++++++++++++++++++------------------- R/nlive.pmms.R | 144 ++++++++++++++++++++++-------- R/nlive.smm.R | 142 +++++++++++++++++++++--------- man/nlive.Rd | 9 + man/nlive.inspect.Rd | 1 man/nlive.pmma.Rd | 5 - man/nlive.pmms.Rd | 5 - man/nlive.smm.Rd | 5 - 14 files changed, 545 insertions(+), 211 deletions(-)
Title: Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
Description: Pipeline tools coordinate the pieces of computationally
demanding analysis projects.
The 'targets' package is a 'Make'-like pipeline tool for statistics and
data science in R. The package skips costly runtime for tasks
that are already up to date,
orchestrates the necessary computation with implicit parallel computing,
and abstracts files as R objects. If all the current output matches
the current upstream code and data, then the whole pipeline is up
to date, and the results are more trustworthy than otherwise.
The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre]
,
Matthew T. Warkentin [ctb],
Mark Edmondson [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between targets versions 1.6.0 dated 2024-03-13 and 1.7.0 dated 2024-04-17
targets-1.6.0/targets/R/utils_digest.R |only targets-1.6.0/targets/tests/testthat/test-utils_digest.R |only targets-1.7.0/targets/DESCRIPTION | 15 - targets-1.7.0/targets/MD5 | 130 +++++----- targets-1.7.0/targets/NAMESPACE | 17 - targets-1.7.0/targets/NEWS.md | 14 + targets-1.7.0/targets/R/class_aws.R | 2 targets-1.7.0/targets/R/class_builder.R | 11 targets-1.7.0/targets/R/class_clustermq.R | 1 targets-1.7.0/targets/R/class_command.R | 2 targets-1.7.0/targets/R/class_crew.R | 5 targets-1.7.0/targets/R/class_database.R | 74 +++++ targets-1.7.0/targets/R/class_database_aws.R | 6 targets-1.7.0/targets/R/class_database_gcp.R | 6 targets-1.7.0/targets/R/class_database_local.R | 6 targets-1.7.0/targets/R/class_file.R | 8 targets-1.7.0/targets/R/class_future.R | 1 targets-1.7.0/targets/R/class_gcp.R | 2 targets-1.7.0/targets/R/class_inventory_aws.R | 2 targets-1.7.0/targets/R/class_inventory_gcp.R | 2 targets-1.7.0/targets/R/class_mermaid.R | 2 targets-1.7.0/targets/R/class_meta.R | 4 targets-1.7.0/targets/R/class_pattern.R | 16 + targets-1.7.0/targets/R/class_pipeline.R | 3 targets-1.7.0/targets/R/class_progress.R | 1 targets-1.7.0/targets/R/class_resources_custom_format.R |only targets-1.7.0/targets/R/class_store_custom.R | 15 + targets-1.7.0/targets/R/class_target.R | 10 targets-1.7.0/targets/R/class_value.R | 2 targets-1.7.0/targets/R/tar_cue.R | 2 targets-1.7.0/targets/R/tar_package.R | 7 targets-1.7.0/targets/R/tar_resources.R | 7 targets-1.7.0/targets/R/tar_resources_custom_format.R |only targets-1.7.0/targets/R/utils_assert.R | 42 +++ targets-1.7.0/targets/R/utils_callr.R | 14 + targets-1.7.0/targets/R/utils_hash.R |only targets-1.7.0/targets/R/utils_imports.R | 18 - targets-1.7.0/targets/R/utils_time.R | 2 targets-1.7.0/targets/R/utils_url.R | 2 targets-1.7.0/targets/man/tar_cue.Rd | 2 targets-1.7.0/targets/man/tar_resources.Rd | 9 targets-1.7.0/targets/man/tar_resources_aws.Rd | 1 targets-1.7.0/targets/man/tar_resources_clustermq.Rd | 1 targets-1.7.0/targets/man/tar_resources_crew.Rd | 1 targets-1.7.0/targets/man/tar_resources_custom_format.Rd |only targets-1.7.0/targets/man/tar_resources_feather.Rd | 1 targets-1.7.0/targets/man/tar_resources_fst.Rd | 1 targets-1.7.0/targets/man/tar_resources_future.Rd | 1 targets-1.7.0/targets/man/tar_resources_gcp.Rd | 1 targets-1.7.0/targets/man/tar_resources_network.Rd | 1 targets-1.7.0/targets/man/tar_resources_parquet.Rd | 1 targets-1.7.0/targets/man/tar_resources_qs.Rd | 1 targets-1.7.0/targets/man/tar_resources_url.Rd | 1 targets-1.7.0/targets/tests/aws/test-class_inventory_aws.R | 2 targets-1.7.0/targets/tests/gcp/test-class_inventory_gcp.R | 2 targets-1.7.0/targets/tests/hpc/sge_batchtools.tmpl | 2 targets-1.7.0/targets/tests/hpc/sge_clustermq.tmpl | 2 targets-1.7.0/targets/tests/interactive/test-tar_assert_store_noninvalidating.R |only targets-1.7.0/targets/tests/testthat/helper-aws.R | 2 targets-1.7.0/targets/tests/testthat/test-class_database.R | 80 +++--- targets-1.7.0/targets/tests/testthat/test-class_group.R | 4 targets-1.7.0/targets/tests/testthat/test-class_imports.R | 10 targets-1.7.0/targets/tests/testthat/test-class_list.R | 6 targets-1.7.0/targets/tests/testthat/test-class_meta.R | 2 targets-1.7.0/targets/tests/testthat/test-class_resources_custom_format.R |only targets-1.7.0/targets/tests/testthat/test-class_vector.R | 4 targets-1.7.0/targets/tests/testthat/test-tar_format.R | 57 ++++ targets-1.7.0/targets/tests/testthat/test-tar_resources_custom_format.R |only targets-1.7.0/targets/tests/testthat/test-utils_hash.R |only targets-1.7.0/targets/tests/testthat/test-utils_packages.R | 2 targets-1.7.0/targets/tests/testthat/test-utils_time.R | 1 71 files changed, 478 insertions(+), 171 deletions(-)
Title: Archetypes for Targets
Description: Function-oriented Make-like declarative pipelines for
Statistics and data science are supported in the 'targets' R package.
As an extension to 'targets', the 'tarchetypes' package provides
convenient user-side functions to make 'targets' easier to use.
By establishing reusable archetypes for common kinds of
targets and pipelines, these functions help express complicated
reproducible pipelines concisely and compactly.
The methods in this package were influenced by the 'drake' R package
by Will Landau (2018) <doi:10.21105/joss.00550>.
Author: William Michael Landau [aut, cre]
,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between tarchetypes versions 0.8.0 dated 2024-03-18 and 0.9.0 dated 2024-04-17
tarchetypes-0.8.0/tarchetypes/R/utils_data.R |only tarchetypes-0.9.0/tarchetypes/DESCRIPTION | 10 +-- tarchetypes-0.9.0/tarchetypes/MD5 | 20 +++--- tarchetypes-0.9.0/tarchetypes/NAMESPACE | 2 tarchetypes-0.9.0/tarchetypes/NEWS.md | 6 ++ tarchetypes-0.9.0/tarchetypes/R/tar_map.R | 8 -- tarchetypes-0.9.0/tarchetypes/R/tar_package.R | 2 tarchetypes-0.9.0/tarchetypes/R/tar_render_rep_raw.R | 4 - tarchetypes-0.9.0/tarchetypes/R/utils_hash.R |only tarchetypes-0.9.0/tarchetypes/tests/testthat/test-tar_map_rep.R | 12 ++-- tarchetypes-0.9.0/tarchetypes/tests/testthat/test-tar_rep.R | 30 +++++++--- tarchetypes-0.9.0/tarchetypes/tests/testthat/test-tar_rep2.R | 24 ++++---- 12 files changed, 64 insertions(+), 54 deletions(-)
Title: Read and Write QOI Images
Description: The new QOI file format offers a very simple but efficient image compression algorithm. This package provides an easy and simple way to read, write and display bitmap images stored in the QOI (Quite Ok Image) format. It can read and write both files and in-memory raw vectors.
Author: Johannes Friedrich [aut, trl, cre],
Dominic Szablewski [cph]
Maintainer: Johannes Friedrich <Johannes.Friedrich@posteo.de>
Diff between qoi versions 0.0.4 dated 2023-02-07 and 0.1.0 dated 2024-04-17
DESCRIPTION | 14 ++++++++------ LICENSE |only MD5 | 10 +++++++--- src/qoi.h | 31 ++++++++----------------------- src/write.c | 8 ++++---- tests |only 6 files changed, 27 insertions(+), 36 deletions(-)
Title: Functions for Estimating Centrographic Statistics
Description: A collection of functions for computing centrographic
statistics (e.g., standard distance, standard deviation
ellipse, standard deviation box) for observations taken at
point locations. Separate plotting functions have been
developed for each measure. Users interested in writing results
to ESRI shapefiles can do so by using results from 'aspace'
functions as inputs to the convert.to.shapefile() and
write.shapefile() functions in the 'shapefiles' library. We intend to
provide 'terra' integration for geographic data in a future release.
The 'aspace' package was originally conceived to aid in the analysis of
spatial patterns of travel behaviour (see Buliung and Remmel 2008
<doi:10.1007/s10109-008-0063-7>).
Author: Tarmo K. Remmel [aut, cre] ,
Randy Bui [aut],
Ron N. Buliung [aut]
Maintainer: Tarmo K. Remmel <remmelt@yorku.ca>
Diff between aspace versions 4.1.0 dated 2023-09-05 and 4.1.1 dated 2024-04-17
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 4 ++++ R/plot_centres.R | 4 ++-- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Relative Quantification of Gene Expression using Delta Ct
Methods
Description: The commonly used methods for relative quantification of gene expression levels obtained in real-time PCR (Polymerase Chain Reaction) experiments are the delta Ct methods, encompassing 2^-dCt and 2^-ddCt methods, originally proposed by Kenneth J. Livak and Thomas D. Schmittgen (2001) <doi:10.1006/meth.2001.1262>. The main idea is to normalise gene expression values using endogenous control gene, present gene expression levels in linear form by using the 2^-(value)^ transformation, and calculate differences in gene expression levels between groups of samples (or technical replicates of a single sample). The 'RQdeltaCT' package offers functions that cover both methods for comparison of either independent groups of samples or groups with paired samples, together with importing expression datasets, performing multi-step quality control of data, enabling numerous data visualisations, enrichment of the standard workflow with additional useful analyses (correlation analysis, Receiver Op [...truncated...]
Author: Daniel Zalewski [aut, cre]
Maintainer: Daniel Zalewski <daniel.piotr.zalewski@gmail.com>
Diff between RQdeltaCT versions 1.2.1 dated 2024-04-02 and 1.3.0 dated 2024-04-17
RQdeltaCT-1.2.1/RQdeltaCT/man/RQ_exp_Ct_dCt.Rd |only RQdeltaCT-1.2.1/RQdeltaCT/man/RQ_plot.Rd |only RQdeltaCT-1.2.1/RQdeltaCT/man/RQ_volcano.Rd |only RQdeltaCT-1.2.1/RQdeltaCT/man/exp_Ct_dCt.Rd |only RQdeltaCT-1.3.0/RQdeltaCT/DESCRIPTION | 8 RQdeltaCT-1.3.0/RQdeltaCT/MD5 | 65 RQdeltaCT-1.3.0/RQdeltaCT/NAMESPACE | 7 RQdeltaCT-1.3.0/RQdeltaCT/R/RQdeltaCT.R | 664 +-- RQdeltaCT-1.3.0/RQdeltaCT/build/vignette.rds |binary RQdeltaCT-1.3.0/RQdeltaCT/inst/doc/my-vignette.R | 151 RQdeltaCT-1.3.0/RQdeltaCT/inst/doc/my-vignette.Rmd | 402 -- RQdeltaCT-1.3.0/RQdeltaCT/inst/doc/my-vignette.html | 2825 +++++++-------- RQdeltaCT-1.3.0/RQdeltaCT/man/FCh_plot.Rd |only RQdeltaCT-1.3.0/RQdeltaCT/man/ROCh.Rd | 7 RQdeltaCT-1.3.0/RQdeltaCT/man/RQ_dCt.Rd |only RQdeltaCT-1.3.0/RQdeltaCT/man/RQ_ddCt.Rd | 11 RQdeltaCT-1.3.0/RQdeltaCT/man/control_boxplot_gene.Rd | 5 RQdeltaCT-1.3.0/RQdeltaCT/man/control_boxplot_sample.Rd | 5 RQdeltaCT-1.3.0/RQdeltaCT/man/control_cluster_gene.Rd | 5 RQdeltaCT-1.3.0/RQdeltaCT/man/control_cluster_sample.Rd | 6 RQdeltaCT-1.3.0/RQdeltaCT/man/control_pca_gene.Rd | 6 RQdeltaCT-1.3.0/RQdeltaCT/man/control_pca_sample.Rd | 6 RQdeltaCT-1.3.0/RQdeltaCT/man/corr_gene.Rd | 5 RQdeltaCT-1.3.0/RQdeltaCT/man/corr_sample.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/man/delta_Ct.Rd | 22 RQdeltaCT-1.3.0/RQdeltaCT/man/filter_transformed_data.Rd | 12 RQdeltaCT-1.3.0/RQdeltaCT/man/log_reg.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/man/parallel_plot.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/man/pca_kmeans.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/man/results_barplot.Rd | 9 RQdeltaCT-1.3.0/RQdeltaCT/man/results_boxplot.Rd | 15 RQdeltaCT-1.3.0/RQdeltaCT/man/results_heatmap.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/man/results_volcano.Rd |only RQdeltaCT-1.3.0/RQdeltaCT/man/single_pair_gene.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/man/single_pair_sample.Rd | 2 RQdeltaCT-1.3.0/RQdeltaCT/vignettes/figure1ok.png |binary RQdeltaCT-1.3.0/RQdeltaCT/vignettes/my-vignette.Rmd | 402 -- 37 files changed, 2200 insertions(+), 2452 deletions(-)
Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut],
Martin Studer [cre],
The Apache Software Foundation [ctb, cph] ,
Graph Builder [ctb, cph] ,
Brett Woolridge [ctb, cph]
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>
Diff between XLConnect versions 1.0.8 dated 2024-01-30 and 1.0.9 dated 2024-04-17
XLConnect-1.0.8/XLConnect/inst/java/XLConnect-2.0.0-SNAPSHOT.jar |only XLConnect-1.0.9/XLConnect/DESCRIPTION | 6 +-- XLConnect-1.0.9/XLConnect/MD5 | 16 +++++----- XLConnect-1.0.9/XLConnect/NEWS | 4 ++ XLConnect-1.0.9/XLConnect/build/vignette.rds |binary XLConnect-1.0.9/XLConnect/inst/doc/XLConnect.pdf |binary XLConnect-1.0.9/XLConnect/inst/doc/XLConnectImpatient.pdf |binary XLConnect-1.0.9/XLConnect/inst/java/XLConnect-2.0.1.jar |only XLConnect-1.0.9/XLConnect/inst/unitTests/runit.loadWorkbook.R | 5 +++ XLConnect-1.0.9/XLConnect/tests/run_tests.R | 16 +++++++--- 10 files changed, 32 insertions(+), 15 deletions(-)
Title: Transformation Boosting Machines
Description: Boosting the likelihood of conditional and shift transformation models as introduced in \doi{10.1007/s11222-019-09870-4}.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tbm versions 0.3-5 dated 2022-01-14 and 0.3-6 dated 2024-04-17
tbm-0.3-5/tbm/tests/Rplots.pdf |only tbm-0.3-6/tbm/DESCRIPTION | 8 ++++---- tbm-0.3-6/tbm/MD5 | 15 +++++++-------- tbm-0.3-6/tbm/build/vignette.rds |binary tbm-0.3-6/tbm/inst/CITATION | 13 +++---------- tbm-0.3-6/tbm/inst/NEWS.Rd | 6 ++++++ tbm-0.3-6/tbm/inst/doc/tbm_supplement.pdf |binary tbm-0.3-6/tbm/man/ctmboost.Rd | 2 +- tbm-0.3-6/tbm/man/stmboost.Rd | 2 +- 9 files changed, 22 insertions(+), 24 deletions(-)
Title: Spatiotemporal Resampling Methods for 'mlr3'
Description: Extends the mlr3 ML framework with spatio-temporal resampling
methods to account for the presence of spatiotemporal autocorrelation
(STAC) in predictor variables. STAC may cause highly biased
performance estimates in cross-validation if ignored.
Author: Patrick Schratz [aut, cre] ,
Marc Becker [aut] ,
Jannes Muenchow [ctb] ,
Michel Lang [ctb]
Maintainer: Patrick Schratz <patrick.schratz@gmail.com>
Diff between mlr3spatiotempcv versions 2.3.0 dated 2024-01-22 and 2.3.1 dated 2024-04-17
DESCRIPTION | 8 MD5 | 196 +++++----- NEWS.md | 7 R/ResamplingRepeatedSpCVBlock.R | 28 - R/ResamplingRepeatedSpCVCoords.R | 8 R/ResamplingRepeatedSpCVDisc.R | 16 R/ResamplingRepeatedSpCVEnv.R | 10 R/ResamplingRepeatedSpCVTiles.R | 26 - R/ResamplingRepeatedSpCVknndm.R | 44 +- R/ResamplingRepeatedSptCVCstf.R | 10 R/ResamplingSpCVBlock.R | 24 - R/ResamplingSpCVBuffer.R | 10 R/ResamplingSpCVCoords.R | 6 R/ResamplingSpCVDisc.R | 14 R/ResamplingSpCVEnv.R | 8 R/ResamplingSpCVKnndm.R | 38 - R/ResamplingSpCVTiles.R | 24 - R/ResamplingSptCVCstf.R | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/mlr3spatiotempcv.html | 55 +- inst/doc/spatiotemp-viz.html | 2 man/mlr_resamplings_repeated_spcv_knndm.Rd | 26 - man/mlr_resamplings_spcv_knndm.Rd | 24 - tests/testthat/_snaps/1-autoplot/autoplot-show-blocks-true-show-labels-true.svg | 4 tests/testthat/_snaps/1-autoplot/custom-cv-fold-1-2-sample-fold-n.svg | 8 tests/testthat/_snaps/1-autoplot/custom-cv-fold-1-2.svg | 8 tests/testthat/_snaps/1-autoplot/custom-cv-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/custom-cv-fold-1.svg | 4 tests/testthat/_snaps/1-autoplot/cv-fold-1-2-groups-col-role.svg | 8 tests/testthat/_snaps/1-autoplot/cv-fold-1-2-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/cv-fold-1-2.svg | 4 tests/testthat/_snaps/1-autoplot/cv-fold-1-groups-col-role.svg | 4 tests/testthat/_snaps/1-autoplot/cv-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/cv-fold-1.svg | 4 tests/testthat/_snaps/1-autoplot/repcv-fold-1-2-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repcv-fold-1-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repcv-fold-1-rep-2.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvblock-fold-1-2-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvblock-fold-1-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvblock-fold-1-rep-2.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvcoords-fold-1-2-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvcoords-fold-1-2-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvcoords-fold-1-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvcoords-fold-1-rep-2.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvcoords-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvenv-fold-1-2-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvenv-fold-1-rep-1.svg | 4 tests/testthat/_snaps/1-autoplot/repspcvenv-fold-1-rep-2.svg | 4 tests/testthat/_snaps/1-autoplot/spcvblock-fold-1-2-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/spcvblock-fold-1-2.svg | 4 tests/testthat/_snaps/1-autoplot/spcvblock-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/spcvblock-fold-1.svg | 4 tests/testthat/_snaps/1-autoplot/spcvcoords-fold-1-2.svg | 4 tests/testthat/_snaps/1-autoplot/spcvcoords-fold-1.svg | 4 tests/testthat/_snaps/1-autoplot/spcvenv-fold-1-2-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/spcvenv-fold-1-2.svg | 4 tests/testthat/_snaps/1-autoplot/spcvenv-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/1-autoplot/spcvenv-fold-1.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvdisc-fold-1-2-rep-2.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvdisc-fold-1-2-sample-fold-n.svg | 8 tests/testthat/_snaps/2-autoplot/repspcvdisc-fold-1-rep-1-sample-n-fold.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvdisc-fold-1-rep-2.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvdisc-fold-1-sample-fold-n.svg | 8 tests/testthat/_snaps/2-autoplot/repspcvdisc-sample-fold-n.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvknndm-fold-1-2-sample-fold-n.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvknndm-fold-1-rep-2.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvknndm-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvtiles-fold-1-2-rep-2.svg | 8 tests/testthat/_snaps/2-autoplot/repspcvtiles-fold-1-2-sample-fold-n.svg | 8 tests/testthat/_snaps/2-autoplot/repspcvtiles-fold-1-2.svg | 8 tests/testthat/_snaps/2-autoplot/repspcvtiles-fold-1-rep-2.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvtiles-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvtiles-fold-1.svg | 4 tests/testthat/_snaps/2-autoplot/repspcvtiles-show-omitted.svg | 6 tests/testthat/_snaps/2-autoplot/repsptcvcstf-2d-space-var-fold-1-rep-2.svg | 8 tests/testthat/_snaps/2-autoplot/spcvdisc-all-test-sets.svg | 4 tests/testthat/_snaps/2-autoplot/spcvdisc-fold-1-2.svg | 8 tests/testthat/_snaps/2-autoplot/spcvdisc-fold-1.svg | 4 tests/testthat/_snaps/2-autoplot/spcvdisc-show-omitted.svg | 6 tests/testthat/_snaps/2-autoplot/spcvknndm-fold-1-2.svg | 8 tests/testthat/_snaps/2-autoplot/spcvknndm-fold-1.svg | 4 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-space-var-all-test-sets.svg | 4 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-space-var-fold-1-2.svg | 8 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-space-var-fold-1.svg | 4 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-all-test-sets.svg | 4 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-fold-1-2-sample-fold-n.svg | 8 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-fold-1-2.svg | 8 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-fold-1-rep-2.svg | 8 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-fold-1-sample-fold-n.svg | 4 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-fold-1.svg | 4 tests/testthat/_snaps/2-autoplot/sptcvcstf-2d-time-var-sample-fold-n.svg | 4 tests/testthat/_snaps/autoplot_buffer/spcvbuffer-fold-1-2.svg | 4 tests/testthat/_snaps/autoplot_buffer/spcvbuffer-fold-1.svg | 4 tests/testthat/helper.R | 6 tests/testthat/test-2-autoplot.R | 2 tests/testthat/test-ResamplingRepeatedSpCVKnndm.R | 6 tests/testthat/test-ResamplingSpCVKnndm.R | 6 tests/testthat/test-autotuner.R | 8 99 files changed, 493 insertions(+), 471 deletions(-)
More information about mlr3spatiotempcv at CRAN
Permanent link
Title: Custom Inputs Widgets for Shiny
Description: Collection of custom input controls and user interface components for 'Shiny' applications.
Give your applications a unique and colorful style !
Author: Victor Perrier [aut, cre, cph],
Fanny Meyer [aut],
David Granjon [aut],
Ian Fellows [ctb] ,
Wil Davis [ctb] ,
Spencer Matthews [ctb] ,
JavaScript and CSS libraries authors [ctb, cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between shinyWidgets versions 0.8.4 dated 2024-04-04 and 0.8.5 dated 2024-04-17
DESCRIPTION | 6 +-- MD5 | 19 +++++----- NAMESPACE | 1 NEWS.md | 7 +++ R/WinBox.R | 20 +++++++++-- R/input-noUiSlider.R | 2 - inst/examples/WinBox/apply-method.R |only inst/packer/WinBox.js | 2 - man/WinBox.Rd | 65 ++++++++++++++++++++++++++++++++++++ man/noUiSliderInput.Rd | 2 - man/wbOptions.Rd | 2 - 11 files changed, 108 insertions(+), 18 deletions(-)
Title: Thurstonian IRT Models
Description: Fit Thurstonian Item Response Theory (IRT) models in R. This
package supports fitting Thurstonian IRT models and its extensions using
'Stan', 'lavaan', or 'Mplus' for the model estimation. Functionality for
extracting results, making predictions, and simulating data is provided as
well. References:
Brown & Maydeu-Olivares (2011) <doi:10.1177/0013164410375112>;
Bürkner et al. (2019) <doi:10.1177/0013164419832063>.
Author: Paul-Christian Buerkner [aut, cre],
Angus Hughes [ctb],
Trustees of Columbia University [cph]
Maintainer: Paul-Christian Buerkner <paul.buerkner@gmail.com>
Diff between thurstonianIRT versions 0.12.4 dated 2023-12-19 and 0.12.5 dated 2024-04-17
DESCRIPTION | 10 MD5 | 24 NEWS.md | 7 R/data-helpers.R | 12 R/datasets.R | 14 inst/doc/TIRT_sim_tests.Rmd | 399 +-- inst/doc/TIRT_sim_tests.html | 14 man/set_block.Rd | 12 man/thurstonianIRT-package.Rd | 18 man/triplets.Rd | 14 src/stanExports_thurstonian_irt_model.h | 2743 +++++++++++------------- src/stanExports_thurstonian_irt_model_newdata.h | 1810 +++++++-------- vignettes/TIRT_sim_tests.Rmd | 399 +-- 13 files changed, 2673 insertions(+), 2803 deletions(-)
More information about thurstonianIRT at CRAN
Permanent link
Title: Chacko Test for Order-Restriction with Permutation
Description: Implements an extension of the Chacko chi-square test for
ordered vectors (Chacko, 1966, <https://www.jstor.org/stable/25051572>).
Our extension brings the Chacko test to the computer age by implementing
a permutation test to offer a numeric estimate of the p-value, which is
particularly useful when the analytic solution is not available.
Author: Waldir Leoncio [aut, cre] ,
Graeme Ruxton [aut],
Morten Wang Fagerland [aut]
Maintainer: Waldir Leoncio <w.l.netto@medisin.uio.no>
Diff between permChacko versions 0.2.0 dated 2023-11-07 and 1.0.0 dated 2024-04-17
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/permChacko.R | 7 ++++++- R/print.R | 25 +++++++++++++++++++++---- inst/doc/improving_chacko.html | 10 ++++++---- man/permChacko-package.Rd | 1 - tests/testthat/test-print-and-summary.R | 6 +++++- 8 files changed, 55 insertions(+), 23 deletions(-)
Title: k-Nearest Neighbor Join for Spatial Data
Description: K-nearest neighbor search for projected and non-projected 'sf' spatial layers. Nearest neighbor search uses (1) C code from 'GeographicLib' for lon-lat point layers, (2) function knn() from package 'nabor' for projected point layers, or (3) function st_distance() from package 'sf' for line or polygon layers. The package also includes several other utility functions for spatial analysis.
Author: Michael Dorman [aut, cre],
Johnathan Rush [ctb],
Ian Hough [ctb],
Dominic Russel [ctb],
Luigi Ranghetti [ctb],
Attilio Benini [ctb],
Arnaud Tarroux [ctb],
Felipe Matas [ctb],
Charles F.F Karney [ctb, cph]
Maintainer: Michael Dorman <dorman@post.bgu.ac.il>
Diff between nngeo versions 0.4.7 dated 2023-04-24 and 0.4.8 dated 2024-04-17
DESCRIPTION | 8 +++++--- MD5 | 16 ++++++++-------- NEWS.md | 19 +++---------------- R/st_nn.R | 2 +- R/st_nn_pnt_proj.R | 30 ++---------------------------- build/vignette.rds |binary inst/doc/intro.pdf |binary man/nngeo-package.Rd | 1 + man/st_nn.Rd | 2 +- 9 files changed, 21 insertions(+), 57 deletions(-)
Title: Inferring Cell-Specific Gene Regulatory Network
Description: A method for inferring cell-specific gene regulatory network from single-cell sequencing data.
Author: Meng Xu [aut, cre]
Maintainer: Meng Xu <mengxu98@qq.com>
Diff between inferCSN versions 1.0.1 dated 2024-03-15 and 1.0.3 dated 2024-04-17
inferCSN-1.0.1/inferCSN/man/filter.sort.matrix.Rd |only inferCSN-1.0.3/inferCSN/DESCRIPTION | 8 inferCSN-1.0.3/inferCSN/MD5 | 43 ++-- inferCSN-1.0.3/inferCSN/NAMESPACE | 6 inferCSN-1.0.3/inferCSN/R/calculate.gene.rank.R | 36 ++-- inferCSN-1.0.3/inferCSN/R/crossweight.R |only inferCSN-1.0.3/inferCSN/R/data.R | 8 inferCSN-1.0.3/inferCSN/R/import.R |only inferCSN-1.0.3/inferCSN/R/inferCSN.R | 2 inferCSN-1.0.3/inferCSN/R/network.visualization.R | 157 ++++++++++++++++-- inferCSN-1.0.3/inferCSN/R/performance.calculate.R | 20 +- inferCSN-1.0.3/inferCSN/R/sparse.regression.R | 7 inferCSN-1.0.3/inferCSN/R/utils.R | 50 +++-- inferCSN-1.0.3/inferCSN/R/weight_filter.R |only inferCSN-1.0.3/inferCSN/README.md | 7 inferCSN-1.0.3/inferCSN/data/example_ground_truth.rda |binary inferCSN-1.0.3/inferCSN/data/example_matrix.rda |binary inferCSN-1.0.3/inferCSN/data/example_meta_data.rda |only inferCSN-1.0.3/inferCSN/man/acc.calculate.Rd | 3 inferCSN-1.0.3/inferCSN/man/auc.calculate.Rd | 3 inferCSN-1.0.3/inferCSN/man/calculate.gene.rank.Rd | 19 +- inferCSN-1.0.3/inferCSN/man/crossweight.Rd |only inferCSN-1.0.3/inferCSN/man/crossweight_params.Rd |only inferCSN-1.0.3/inferCSN/man/example_meta_data.Rd |only inferCSN-1.0.3/inferCSN/man/filter_sort_matrix.Rd |only inferCSN-1.0.3/inferCSN/man/network.heatmap.Rd | 37 +++- inferCSN-1.0.3/inferCSN/man/normalization.Rd |only inferCSN-1.0.3/inferCSN/man/weight_filter.Rd |only 28 files changed, 302 insertions(+), 104 deletions(-)
Title: Create Common TLGs Used in Clinical Trials
Description: Table, Listings, and Graphs (TLG) library for common outputs
used in clinical trials.
Author: Joe Zhu [aut, cre],
Daniel Sabanes Bove [aut],
Jana Stoilova [aut],
Davide Garolini [aut],
Emily de la Rua [aut],
Abinaya Yogasekaram [aut],
Heng Wang [aut],
Francois Collin [aut],
Adrian Waddell [aut],
Pawel Rucki [aut],
Chendi Liao [aut],
Jennifer [...truncated...]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between tern versions 0.9.3 dated 2023-12-08 and 0.9.4 dated 2024-04-17
tern-0.9.3/tern/R/individual_patient_plot.R |only tern-0.9.3/tern/R/kaplan_meier_plot.R |only tern-0.9.3/tern/man/create_afun_compare.Rd |only tern-0.9.3/tern/man/create_afun_summary.Rd |only tern-0.9.3/tern/man/individual_patient_plot.Rd |only tern-0.9.3/tern/tests/testthat/_snaps/decorate_grob/deco-grob-text-wrap.svg |only tern-0.9.3/tern/tests/testthat/_snaps/formats.md |only tern-0.9.3/tern/tests/testthat/_snaps/g_forest/g-forest-custom.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_forest/g-forest.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/g-km-at-risk-title.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/g-km-crop-ylim-failure.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/g-km-crop-ylim.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/g-km-custom-ylim.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/g-km-ref-group-coxph.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/grob-tmp-ci.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_km/grob-tmp.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_lineplot/g-lineplot-cohorts.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_lineplot/g-lineplot-w-stats.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_lineplot/g-lineplot.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_step/g-step-custom.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_step/g-step.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_waterfall/g-waterfall-decorated.svg |only tern-0.9.3/tern/tests/testthat/_snaps/g_waterfall/g-waterfall.svg |only tern-0.9.3/tern/tests/testthat/_snaps/kaplan_meier_plot.md |only tern-0.9.3/tern/tests/testthat/test-formats.R |only tern-0.9.3/tern/tests/testthat/test-kaplan_meier_plot.R |only tern-0.9.4/tern/DESCRIPTION | 56 tern-0.9.4/tern/MD5 | 806 +++++----- tern-0.9.4/tern/NAMESPACE | 14 tern-0.9.4/tern/NEWS.md | 68 tern-0.9.4/tern/R/abnormal.R | 2 tern-0.9.4/tern/R/abnormal_by_baseline.R | 12 tern-0.9.4/tern/R/abnormal_by_marked.R | 4 tern-0.9.4/tern/R/abnormal_by_worst_grade.R | 18 tern-0.9.4/tern/R/abnormal_by_worst_grade_worsen.R | 25 tern-0.9.4/tern/R/analyze_colvars_functions.R | 2 tern-0.9.4/tern/R/analyze_functions.R | 5 tern-0.9.4/tern/R/analyze_variables.R | 98 - tern-0.9.4/tern/R/analyze_vars_in_cols.R | 21 tern-0.9.4/tern/R/argument_convention.R | 38 tern-0.9.4/tern/R/bland_altman.R |only tern-0.9.4/tern/R/combination_function.R | 11 tern-0.9.4/tern/R/compare_variables.R | 103 - tern-0.9.4/tern/R/control_incidence_rate.R | 21 tern-0.9.4/tern/R/control_logistic.R | 2 tern-0.9.4/tern/R/control_step.R | 8 tern-0.9.4/tern/R/control_survival.R | 20 tern-0.9.4/tern/R/count_cumulative.R | 16 tern-0.9.4/tern/R/count_missed_doses.R | 6 tern-0.9.4/tern/R/count_occurrences.R | 4 tern-0.9.4/tern/R/count_occurrences_by_grade.R | 39 tern-0.9.4/tern/R/count_patients_events_in_cols.R | 4 tern-0.9.4/tern/R/count_patients_with_event.R | 4 tern-0.9.4/tern/R/count_patients_with_flags.R | 8 tern-0.9.4/tern/R/count_values.R | 2 tern-0.9.4/tern/R/cox_regression.R | 14 tern-0.9.4/tern/R/cox_regression_inter.R | 4 tern-0.9.4/tern/R/coxph.R | 43 tern-0.9.4/tern/R/d_pkparam.R | 2 tern-0.9.4/tern/R/data.R | 16 tern-0.9.4/tern/R/decorate_grob.R | 108 - tern-0.9.4/tern/R/desctools_binom_diff.R | 14 tern-0.9.4/tern/R/df_explicit_na.R | 4 tern-0.9.4/tern/R/estimate_multinomial_rsp.R | 6 tern-0.9.4/tern/R/estimate_proportion.R | 29 tern-0.9.4/tern/R/fit_rsp_step.R | 8 tern-0.9.4/tern/R/fit_survival_step.R | 4 tern-0.9.4/tern/R/formatting_functions.R | 66 tern-0.9.4/tern/R/g_forest.R | 468 ++++- tern-0.9.4/tern/R/g_ipp.R |only tern-0.9.4/tern/R/g_km.R |only tern-0.9.4/tern/R/g_lineplot.R | 151 + tern-0.9.4/tern/R/g_step.R | 10 tern-0.9.4/tern/R/g_waterfall.R | 22 tern-0.9.4/tern/R/h_adsl_adlb_merge_using_worst_flag.R | 15 tern-0.9.4/tern/R/h_biomarkers_subgroups.R | 4 tern-0.9.4/tern/R/h_cox_regression.R | 2 tern-0.9.4/tern/R/h_km.R |only tern-0.9.4/tern/R/h_logistic_regression.R | 15 tern-0.9.4/tern/R/h_map_for_count_abnormal.R | 10 tern-0.9.4/tern/R/h_pkparam_sort.R | 10 tern-0.9.4/tern/R/h_response_biomarkers_subgroups.R | 28 tern-0.9.4/tern/R/h_response_subgroups.R | 35 tern-0.9.4/tern/R/h_stack_by_baskets.R | 22 tern-0.9.4/tern/R/h_step.R | 20 tern-0.9.4/tern/R/h_survival_biomarkers_subgroups.R | 19 tern-0.9.4/tern/R/h_survival_duration_subgroups.R | 39 tern-0.9.4/tern/R/imputation_rule.R | 10 tern-0.9.4/tern/R/incidence_rate.R | 16 tern-0.9.4/tern/R/logistic_regression.R | 16 tern-0.9.4/tern/R/missing_data.R | 12 tern-0.9.4/tern/R/odds_ratio.R | 6 tern-0.9.4/tern/R/package.R | 4 tern-0.9.4/tern/R/prop_diff.R | 28 tern-0.9.4/tern/R/prop_diff_test.R | 20 tern-0.9.4/tern/R/prune_occurrences.R | 6 tern-0.9.4/tern/R/response_biomarkers_subgroups.R | 21 tern-0.9.4/tern/R/response_subgroups.R | 19 tern-0.9.4/tern/R/riskdiff.R | 14 tern-0.9.4/tern/R/rtables_access.R | 4 tern-0.9.4/tern/R/score_occurrences.R | 4 tern-0.9.4/tern/R/split_cols_by_groups.R | 12 tern-0.9.4/tern/R/stat.R | 26 tern-0.9.4/tern/R/summarize_ancova.R | 21 tern-0.9.4/tern/R/summarize_change.R | 2 tern-0.9.4/tern/R/summarize_colvars.R | 8 tern-0.9.4/tern/R/summarize_coxreg.R | 28 tern-0.9.4/tern/R/summarize_functions.R | 4 tern-0.9.4/tern/R/summarize_glm_count.R | 76 tern-0.9.4/tern/R/summarize_num_patients.R | 18 tern-0.9.4/tern/R/summarize_patients_exposure_in_cols.R | 8 tern-0.9.4/tern/R/survival_biomarkers_subgroups.R | 15 tern-0.9.4/tern/R/survival_coxph_pairwise.R | 23 tern-0.9.4/tern/R/survival_duration_subgroups.R | 23 tern-0.9.4/tern/R/survival_time.R | 4 tern-0.9.4/tern/R/survival_timepoint.R | 12 tern-0.9.4/tern/R/utils.R | 95 - tern-0.9.4/tern/R/utils_checkmate.R | 10 tern-0.9.4/tern/R/utils_default_stats_formats_labels.R | 87 - tern-0.9.4/tern/R/utils_factor.R | 44 tern-0.9.4/tern/R/utils_ggplot.R | 120 + tern-0.9.4/tern/R/utils_grid.R | 56 tern-0.9.4/tern/R/utils_rtables.R | 48 tern-0.9.4/tern/R/utils_split_funs.R | 17 tern-0.9.4/tern/README.md | 16 tern-0.9.4/tern/build/partial.rdb |binary tern-0.9.4/tern/build/vignette.rds |binary tern-0.9.4/tern/inst/REFERENCES.bib | 20 tern-0.9.4/tern/inst/WORDLIST | 26 tern-0.9.4/tern/inst/doc/missing_values.R | 4 tern-0.9.4/tern/inst/doc/tables.R | 10 tern-0.9.4/tern/inst/doc/tables.Rmd | 50 tern-0.9.4/tern/inst/doc/tables.html | 47 tern-0.9.4/tern/inst/doc/tern.R | 12 tern-0.9.4/tern/inst/doc/tern.Rmd | 30 tern-0.9.4/tern/inst/doc/tern.html | 41 tern-0.9.4/tern/inst/doc/tern_formats.R | 4 tern-0.9.4/tern/man/abnormal.Rd | 12 tern-0.9.4/tern/man/abnormal_by_baseline.Rd | 18 tern-0.9.4/tern/man/abnormal_by_marked.Rd | 10 tern-0.9.4/tern/man/abnormal_by_worst_grade.Rd | 10 tern-0.9.4/tern/man/abnormal_by_worst_grade_worsen.Rd | 12 tern-0.9.4/tern/man/add_riskdiff.Rd | 8 tern-0.9.4/tern/man/add_rowcounts.Rd | 4 tern-0.9.4/tern/man/aesi_label.Rd | 10 tern-0.9.4/tern/man/afun_riskdiff.Rd | 14 tern-0.9.4/tern/man/afun_selected_stats.Rd | 2 tern-0.9.4/tern/man/analyze_colvars_functions.Rd | 2 tern-0.9.4/tern/man/analyze_functions.Rd | 5 tern-0.9.4/tern/man/analyze_variables.Rd | 47 tern-0.9.4/tern/man/analyze_vars_in_cols.Rd | 27 tern-0.9.4/tern/man/append_varlabels.Rd | 8 tern-0.9.4/tern/man/apply_auto_formatting.Rd | 2 tern-0.9.4/tern/man/argument_convention.Rd | 40 tern-0.9.4/tern/man/arrange_grobs.Rd | 22 tern-0.9.4/tern/man/as.rtable.Rd | 6 tern-0.9.4/tern/man/as_factor_keep_attributes.Rd | 6 tern-0.9.4/tern/man/assertions.Rd | 6 tern-0.9.4/tern/man/bins_percent_labels.Rd | 6 tern-0.9.4/tern/man/bland_altman.Rd |only tern-0.9.4/tern/man/c_label_n.Rd | 6 tern-0.9.4/tern/man/c_label_n_alt.Rd | 4 tern-0.9.4/tern/man/cfun_by_flag.Rd | 2 tern-0.9.4/tern/man/check_diff_prop_ci.Rd | 6 tern-0.9.4/tern/man/check_same_n.Rd | 6 tern-0.9.4/tern/man/combination_function.Rd | 4 tern-0.9.4/tern/man/combine_counts.Rd | 2 tern-0.9.4/tern/man/combine_groups.Rd | 4 tern-0.9.4/tern/man/combine_levels.Rd | 8 tern-0.9.4/tern/man/combine_vectors.Rd | 4 tern-0.9.4/tern/man/compare_variables.Rd | 60 tern-0.9.4/tern/man/control_analyze_vars.Rd | 15 tern-0.9.4/tern/man/control_annot.Rd |only tern-0.9.4/tern/man/control_coxph.Rd | 10 tern-0.9.4/tern/man/control_coxreg.Rd | 2 tern-0.9.4/tern/man/control_incidence_rate.Rd | 10 tern-0.9.4/tern/man/control_lineplot_vars.Rd | 21 tern-0.9.4/tern/man/control_logistic.Rd | 2 tern-0.9.4/tern/man/control_step.Rd | 8 tern-0.9.4/tern/man/control_surv_time.Rd | 6 tern-0.9.4/tern/man/control_surv_timepoint.Rd | 4 tern-0.9.4/tern/man/count_cumulative.Rd | 24 tern-0.9.4/tern/man/count_missed_doses.Rd | 18 tern-0.9.4/tern/man/count_occurrences.Rd | 20 tern-0.9.4/tern/man/count_occurrences_by_grade.Rd | 36 tern-0.9.4/tern/man/count_patients_events_in_cols.Rd | 8 tern-0.9.4/tern/man/count_patients_with_event.Rd | 18 tern-0.9.4/tern/man/count_patients_with_flags.Rd | 24 tern-0.9.4/tern/man/count_values_funs.Rd | 16 tern-0.9.4/tern/man/cox_regression.Rd | 24 tern-0.9.4/tern/man/cox_regression_inter.Rd | 4 tern-0.9.4/tern/man/cut_quantile_bins.Rd | 6 tern-0.9.4/tern/man/d_count_abnormal_by_baseline.Rd | 4 tern-0.9.4/tern/man/d_count_cumulative.Rd | 8 tern-0.9.4/tern/man/d_count_missed_doses.Rd | 4 tern-0.9.4/tern/man/d_onco_rsp_label.Rd | 4 tern-0.9.4/tern/man/d_pkparam.Rd | 2 tern-0.9.4/tern/man/d_proportion.Rd | 2 tern-0.9.4/tern/man/d_proportion_diff.Rd | 6 tern-0.9.4/tern/man/d_rsp_subgroups_colvars.Rd | 4 tern-0.9.4/tern/man/d_survival_subgroups_colvars.Rd | 6 tern-0.9.4/tern/man/d_test_proportion_diff.Rd | 4 tern-0.9.4/tern/man/day2month.Rd | 6 tern-0.9.4/tern/man/decorate_grob.Rd | 26 tern-0.9.4/tern/man/decorate_grob_factory.Rd | 6 tern-0.9.4/tern/man/decorate_grob_set.Rd | 4 tern-0.9.4/tern/man/default_na_str.Rd | 4 tern-0.9.4/tern/man/default_stats_formats_labels.Rd | 55 tern-0.9.4/tern/man/desctools_binom.Rd | 10 tern-0.9.4/tern/man/df2gg.Rd |only tern-0.9.4/tern/man/df_explicit_na.Rd | 4 tern-0.9.4/tern/man/dot-is_equal_float.Rd |only tern-0.9.4/tern/man/draw_grob.Rd | 8 tern-0.9.4/tern/man/estimate_coef.Rd | 18 tern-0.9.4/tern/man/estimate_multinomial_rsp.Rd | 14 tern-0.9.4/tern/man/estimate_proportions.Rd | 14 tern-0.9.4/tern/man/ex_data.Rd | 18 tern-0.9.4/tern/man/explicit_na.Rd | 6 tern-0.9.4/tern/man/extract_by_name.Rd | 2 tern-0.9.4/tern/man/extract_rsp_biomarkers.Rd | 10 tern-0.9.4/tern/man/extract_rsp_subgroups.Rd | 6 tern-0.9.4/tern/man/extract_survival_biomarkers.Rd | 4 tern-0.9.4/tern/man/extract_survival_subgroups.Rd | 4 tern-0.9.4/tern/man/extreme_format.Rd | 12 tern-0.9.4/tern/man/f_pval.Rd | 2 tern-0.9.4/tern/man/fct_collapse_only.Rd | 4 tern-0.9.4/tern/man/fct_discard.Rd | 4 tern-0.9.4/tern/man/fct_explicit_na_if.Rd | 8 tern-0.9.4/tern/man/fit_coxreg.Rd | 6 tern-0.9.4/tern/man/fit_logistic.Rd | 2 tern-0.9.4/tern/man/fit_rsp_step.Rd | 8 tern-0.9.4/tern/man/fit_survival_step.Rd | 4 tern-0.9.4/tern/man/forest_viewport.Rd | 18 tern-0.9.4/tern/man/format_auto.Rd | 14 tern-0.9.4/tern/man/format_count_fraction.Rd | 10 tern-0.9.4/tern/man/format_count_fraction_fixed_dp.Rd | 12 tern-0.9.4/tern/man/format_count_fraction_lt10.Rd | 12 tern-0.9.4/tern/man/format_extreme_values.Rd | 10 tern-0.9.4/tern/man/format_extreme_values_ci.Rd | 8 tern-0.9.4/tern/man/format_fraction.Rd | 10 tern-0.9.4/tern/man/format_fraction_fixed_dp.Rd | 12 tern-0.9.4/tern/man/format_fraction_threshold.Rd | 8 tern-0.9.4/tern/man/format_sigfig.Rd | 14 tern-0.9.4/tern/man/format_xx.Rd | 8 tern-0.9.4/tern/man/formatting_functions.Rd | 8 tern-0.9.4/tern/man/g_forest.Rd | 103 - tern-0.9.4/tern/man/g_ipp.Rd |only tern-0.9.4/tern/man/g_km.Rd | 239 +- tern-0.9.4/tern/man/g_lineplot.Rd | 74 tern-0.9.4/tern/man/g_step.Rd | 4 tern-0.9.4/tern/man/g_waterfall.Rd | 21 tern-0.9.4/tern/man/get_covariates.Rd | 4 tern-0.9.4/tern/man/get_smooths.Rd | 10 tern-0.9.4/tern/man/groups_list_to_df.Rd | 4 tern-0.9.4/tern/man/h_adlb_abnormal_by_worst_grade.Rd | 14 tern-0.9.4/tern/man/h_adlb_worsen.Rd | 16 tern-0.9.4/tern/man/h_adsl_adlb_merge_using_worst_flag.Rd | 15 tern-0.9.4/tern/man/h_ancova.Rd | 6 tern-0.9.4/tern/man/h_append_grade_groups.Rd | 22 tern-0.9.4/tern/man/h_col_indices.Rd | 4 tern-0.9.4/tern/man/h_count_cumulative.Rd | 10 tern-0.9.4/tern/man/h_cox_regression.Rd | 2 tern-0.9.4/tern/man/h_data_plot.Rd | 12 tern-0.9.4/tern/man/h_decompose_gg.Rd | 8 tern-0.9.4/tern/man/h_format_row.Rd | 2 tern-0.9.4/tern/man/h_g_ipp.Rd | 12 tern-0.9.4/tern/man/h_ggkm.Rd | 47 tern-0.9.4/tern/man/h_glm_count.Rd | 25 tern-0.9.4/tern/man/h_grob_coxph.Rd | 14 tern-0.9.4/tern/man/h_grob_median_surv.Rd | 14 tern-0.9.4/tern/man/h_grob_tbl_at_risk.Rd | 16 tern-0.9.4/tern/man/h_grob_y_annot.Rd | 10 tern-0.9.4/tern/man/h_incidence_rate.Rd | 12 tern-0.9.4/tern/man/h_km_layout.Rd | 12 tern-0.9.4/tern/man/h_logistic_regression.Rd | 15 tern-0.9.4/tern/man/h_map_for_count_abnormal.Rd | 7 tern-0.9.4/tern/man/h_odds_ratio.Rd | 4 tern-0.9.4/tern/man/h_pkparam_sort.Rd | 8 tern-0.9.4/tern/man/h_prop_diff.Rd | 18 tern-0.9.4/tern/man/h_prop_diff_test.Rd | 10 tern-0.9.4/tern/man/h_proportions.Rd | 10 tern-0.9.4/tern/man/h_response_biomarkers_subgroups.Rd | 10 tern-0.9.4/tern/man/h_response_subgroups.Rd | 20 tern-0.9.4/tern/man/h_split_by_subgroups.Rd | 4 tern-0.9.4/tern/man/h_split_param.Rd | 2 tern-0.9.4/tern/man/h_stack_by_baskets.Rd | 15 tern-0.9.4/tern/man/h_step.Rd | 16 tern-0.9.4/tern/man/h_survival_biomarkers_subgroups.Rd | 10 tern-0.9.4/tern/man/h_survival_duration_subgroups.Rd | 20 tern-0.9.4/tern/man/h_tab_one_biomarker.Rd | 4 tern-0.9.4/tern/man/h_tbl_coxph_pairwise.Rd | 16 tern-0.9.4/tern/man/h_tbl_median_surv.Rd | 8 tern-0.9.4/tern/man/h_worsen_counter.Rd | 10 tern-0.9.4/tern/man/h_xticks.Rd | 16 tern-0.9.4/tern/man/imputation_rule.Rd | 10 tern-0.9.4/tern/man/incidence_rate.Rd | 16 tern-0.9.4/tern/man/labels_or_names.Rd | 4 tern-0.9.4/tern/man/labels_use_control.Rd | 6 tern-0.9.4/tern/man/logistic_regression_cols.Rd | 4 tern-0.9.4/tern/man/logistic_summary_by_flag.Rd | 2 tern-0.9.4/tern/man/make_names.Rd | 4 tern-0.9.4/tern/man/month2day.Rd | 6 tern-0.9.4/tern/man/muffled_car_anova.Rd | 2 tern-0.9.4/tern/man/n_available.Rd | 4 tern-0.9.4/tern/man/odds_ratio.Rd | 14 tern-0.9.4/tern/man/prop_diff.Rd | 16 tern-0.9.4/tern/man/prop_diff_test.Rd | 20 tern-0.9.4/tern/man/prune_occurrences.Rd | 4 tern-0.9.4/tern/man/range_noinf.Rd | 6 tern-0.9.4/tern/man/reapply_varlabels.Rd | 2 tern-0.9.4/tern/man/response_biomarkers_subgroups.Rd | 2 tern-0.9.4/tern/man/response_subgroups.Rd | 6 tern-0.9.4/tern/man/rtable2gg.Rd | 14 tern-0.9.4/tern/man/rtables_access.Rd | 4 tern-0.9.4/tern/man/s_cox_multivariate.Rd | 12 tern-0.9.4/tern/man/sas_na.Rd | 8 tern-0.9.4/tern/man/score_occurrences.Rd | 4 tern-0.9.4/tern/man/split_cols_by_groups.Rd | 4 tern-0.9.4/tern/man/split_text_grob.Rd | 8 tern-0.9.4/tern/man/stack_grobs.Rd | 14 tern-0.9.4/tern/man/stat_mean_ci.Rd | 8 tern-0.9.4/tern/man/stat_mean_pval.Rd | 6 tern-0.9.4/tern/man/stat_median_ci.Rd | 6 tern-0.9.4/tern/man/stat_propdiff_ci.Rd | 6 tern-0.9.4/tern/man/strata_normal_quantile.Rd | 2 tern-0.9.4/tern/man/study_arm.Rd | 2 tern-0.9.4/tern/man/summarize_ancova.Rd | 26 tern-0.9.4/tern/man/summarize_change.Rd | 12 tern-0.9.4/tern/man/summarize_colvars.Rd | 7 tern-0.9.4/tern/man/summarize_functions.Rd | 4 tern-0.9.4/tern/man/summarize_glm_count.Rd | 28 tern-0.9.4/tern/man/summarize_logistic.Rd | 6 tern-0.9.4/tern/man/summarize_num_patients.Rd | 20 tern-0.9.4/tern/man/summarize_patients_exposure_in_cols.Rd | 12 tern-0.9.4/tern/man/survival_biomarkers_subgroups.Rd | 2 tern-0.9.4/tern/man/survival_coxph_pairwise.Rd | 32 tern-0.9.4/tern/man/survival_duration_subgroups.Rd | 8 tern-0.9.4/tern/man/survival_time.Rd | 20 tern-0.9.4/tern/man/survival_timepoint.Rd | 24 tern-0.9.4/tern/man/tern-package.Rd | 6 tern-0.9.4/tern/man/tidy.glm.Rd | 6 tern-0.9.4/tern/man/tidy.step.Rd | 6 tern-0.9.4/tern/man/tidy_coxreg.Rd | 4 tern-0.9.4/tern/man/to_n.Rd | 4 tern-0.9.4/tern/man/to_string_matrix.Rd | 32 tern-0.9.4/tern/man/try_car_anova.Rd | 2 tern-0.9.4/tern/man/ungroup_stats.Rd | 4 tern-0.9.4/tern/man/univariate.Rd | 4 tern-0.9.4/tern/man/unlist_and_blank_na.Rd | 2 tern-0.9.4/tern/man/update_weights_strat_wilson.Rd | 8 tern-0.9.4/tern/man/utils_split_funs.Rd | 15 tern-0.9.4/tern/tests/testthat/Rplots.pdf |only tern-0.9.4/tern/tests/testthat/_snaps/analyze_variables.md | 4 tern-0.9.4/tern/tests/testthat/_snaps/bland-altman |only tern-0.9.4/tern/tests/testthat/_snaps/bland-altman.md |only tern-0.9.4/tern/tests/testthat/_snaps/count_occurrences_by_grade.md | 29 tern-0.9.4/tern/tests/testthat/_snaps/decorate_grob/deco_grob_text_wrap.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/decorate_grob/deco_grob_text_wrap.svg |only tern-0.9.4/tern/tests/testthat/_snaps/formatting_functions.md |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_custom_1.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_custom_1.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_custom_2.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_custom_2.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_custom_3.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_custom_3.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_or.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_or.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_plot_only.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_plot_only.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_table_only.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_forest/g_forest_table_only.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_at_risk_title.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_ci_ribbon.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_crop_ylim.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_crop_ylim_failure.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_custom.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_custom_ylim.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_default.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_eq_lbls.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_plot_only.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_ref_group_coxph.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_table_only.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_km/g_km_title_footer.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot_cohorts.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot_cohorts.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot_facets.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot_w_stats.new.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_lineplot/g_lineplot_w_stats.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_step/g_step.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_step/g_step_custom.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_waterfall/g_waterfall.svg |only tern-0.9.4/tern/tests/testthat/_snaps/g_waterfall/g_waterfall_decorated.svg |only tern-0.9.4/tern/tests/testthat/_snaps/h_km.md |only tern-0.9.4/tern/tests/testthat/_snaps/summarize_ancova.md | 30 tern-0.9.4/tern/tests/testthat/_snaps/summarize_glm_count.md | 139 + tern-0.9.4/tern/tests/testthat/_snaps/utils_default_stats_formats_labels.md | 94 - tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/df2gg_cw.svg |only tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/df2gg_default.svg |only tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/df2gg_fs.svg |only tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/rtable2gg_colsplits.svg | 185 -- tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/rtable2gg_cw.svg | 123 - tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/rtable2gg_default.svg | 123 - tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/rtable2gg_fs.svg | 123 - tern-0.9.4/tern/tests/testthat/_snaps/utils_ggplot/rtable2gg_lblpad.svg | 123 - tern-0.9.4/tern/tests/testthat/setup-options.R |only tern-0.9.4/tern/tests/testthat/setup.R | 18 tern-0.9.4/tern/tests/testthat/test-analyze_variables.R | 30 tern-0.9.4/tern/tests/testthat/test-analyze_vars_in_cols.R | 4 tern-0.9.4/tern/tests/testthat/test-bland-altman.R |only tern-0.9.4/tern/tests/testthat/test-compare_variables.R | 23 tern-0.9.4/tern/tests/testthat/test-count_occurrences_by_grade.R | 31 tern-0.9.4/tern/tests/testthat/test-decorate_grob.R | 132 - tern-0.9.4/tern/tests/testthat/test-fit_rsp_step.R | 14 tern-0.9.4/tern/tests/testthat/test-formatting_functions.R |only tern-0.9.4/tern/tests/testthat/test-g_forest.R | 154 + tern-0.9.4/tern/tests/testthat/test-g_km.R | 253 ++- tern-0.9.4/tern/tests/testthat/test-g_lineplot.R | 72 tern-0.9.4/tern/tests/testthat/test-g_step.R | 10 tern-0.9.4/tern/tests/testthat/test-g_waterfall.R | 13 tern-0.9.4/tern/tests/testthat/test-h_km.R |only tern-0.9.4/tern/tests/testthat/test-h_logistic_regression.R | 36 tern-0.9.4/tern/tests/testthat/test-h_response_biomarkers_subgroups.R | 101 - tern-0.9.4/tern/tests/testthat/test-h_response_subgroups.R | 38 tern-0.9.4/tern/tests/testthat/test-h_step.R | 30 tern-0.9.4/tern/tests/testthat/test-h_survival_duration_subgroups.R | 2 tern-0.9.4/tern/tests/testthat/test-logistic_regression.R | 44 tern-0.9.4/tern/tests/testthat/test-odds_ratio.R | 65 tern-0.9.4/tern/tests/testthat/test-response_biomarkers_subgroups.R | 42 tern-0.9.4/tern/tests/testthat/test-response_subgroups.R | 16 tern-0.9.4/tern/tests/testthat/test-score_occurrences.R | 2 tern-0.9.4/tern/tests/testthat/test-summarize_ancova.R | 54 tern-0.9.4/tern/tests/testthat/test-summarize_coxreg.R | 17 tern-0.9.4/tern/tests/testthat/test-summarize_glm_count.R | 215 ++ tern-0.9.4/tern/tests/testthat/test-survival_coxph_pairwise.R | 18 tern-0.9.4/tern/tests/testthat/test-test_proportion_diff.R | 14 tern-0.9.4/tern/tests/testthat/test-utils.R | 7 tern-0.9.4/tern/tests/testthat/test-utils_checkmate.R | 12 tern-0.9.4/tern/tests/testthat/test-utils_default_stats_formats_labels.R | 14 tern-0.9.4/tern/tests/testthat/test-utils_ggplot.R | 64 tern-0.9.4/tern/tests/testthat/test-utils_grid.R | 20 tern-0.9.4/tern/tests/testthat/test-utils_rtables.R | 4 tern-0.9.4/tern/vignettes/tables.Rmd | 50 tern-0.9.4/tern/vignettes/tern.Rmd | 30 447 files changed, 4865 insertions(+), 4150 deletions(-)
Title: Prioritization of Candidate Cancer Subtype Specific Drugs
Description: A systematic biology tool was developed to prioritize cancer subtype-specific drugs by integrating genetic perturbation, drug action, biological pathway, and cancer subtype.
The capabilities of this tool include inferring patient-specific subpathway activity profiles in the context of gene expression profiles with subtype labels, calculating differentially
expressed subpathways based on cultured human cells treated with drugs in the 'cMap' (connectivity map) database, prioritizing cancer subtype specific drugs according to drug-disease
reverse association score based on subpathway, and visualization of results (Castelo (2013) <doi:10.1186/1471-2105-14-7>; Han et al (2019) <doi:10.1093/bioinformatics/btz894>; Lamb and Justin (2006) <doi:10.1126/science.1132939>). Please cite using <doi:10.1093/bioinformatics/btab011>.
Author: Xudong Han,
Junwei Han,
Chonghui Liu
Maintainer: Junwei Han <hanjunwei1981@163.com>
Diff between SubtypeDrug versions 0.1.8 dated 2024-03-18 and 0.1.9 dated 2024-04-17
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- data/UserGS.rda |binary data/UserGST.rda |binary inst/doc/vignette.html | 44 ++++++++++++++++++-------------------------- 5 files changed, 26 insertions(+), 34 deletions(-)
Title: Tools for Supply Chain Management, Demand and Supply Planning
Description: Perform flexible and quick calculations for Demand and Supply Planning, such as projected inventories and coverages, as well as replenishment plan. For any time bucket, daily, weekly or monthly, and any granularity level, product or group of products.
Author: Nicolas Nguyen [aut, cre]
Maintainer: Nicolas Nguyen <nikonguyen@yahoo.fr>
Diff between planr versions 0.3.0 dated 2024-01-21 and 0.4.0 dated 2024-04-17
DESCRIPTION | 10 MD5 | 42 NAMESPACE | 4 R/const_dmd.R | 572 +-- R/data.R | 59 R/drp.R | 2006 ++++++------- R/light_proj_inv.R | 948 +++--- R/month_to_week.R | 7 R/proj_git.R |only R/proj_inv.R | 1405 ++++----- R/ssl.R |only README.md | 252 + build/vignette.rds |binary data/demo_in_transit.rda |only data/slob.rda |only inst/doc/get_started.R | 2 inst/doc/get_started.html | 1787 ++++++------ inst/doc/user_cases.R | 2 inst/doc/user_cases.html | 6063 ++++++++++++++++++++--------------------- man/blueprint.Rd | 3 man/demo_in_transit.Rd |only man/month_to_week.Rd | 4 man/proj_git.Rd |only man/slob.Rd |only man/ssl.Rd |only tests/testthat/test-proj_git.R |only tests/testthat/test-ssl.R |only 27 files changed, 6627 insertions(+), 6539 deletions(-)
Title: Neutrosophic Distributions
Description: Computes the pdf, cdf, quantile function and generating random numbers for neutrosophic distributions. This family have been developed by different authors in the recent years. See Patro and Smarandache (2016) <doi:10.5281/zenodo.571153> and Rao et al (2023) <doi:10.5281/zenodo.7832786>.
Author: Danial Mazarei [aut, cre] ,
Mina Norouzirad [aut] ,
Amin Roshani [aut] ,
Gadde Srinivasa Rao [ctb] ,
Foad Esmaeili [ctb] ,
FCT, I.P. [fnd] )
Maintainer: Danial Mazarei <danial.mazarei@gmail.com>
Diff between ntsDists versions 2.1.0 dated 2024-04-14 and 2.1.1 dated 2024-04-17
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 12 +++++++----- README.md | 12 ++++-------- 4 files changed, 17 insertions(+), 19 deletions(-)
Title: Data Visualization Tools for Statistical Analysis Results
Description: Unified plotting tools for statistics commonly used, such as GLM,
time series, PCA families, clustering and survival analysis. The package offers
a single plotting interface for these analysis results and plots in a unified
style using 'ggplot2'.
Author: Masaaki Horikoshi [aut],
Yuan Tang [aut, cre] ,
Austin Dickey [ctb],
Matthias Grenie [ctb],
Ryan Thompson [ctb],
Luciano Selzer [ctb],
Dario Strbenac [ctb],
Kirill Voronin [ctb],
Damir Pulatov [ctb]
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
Diff between ggfortify versions 0.4.16 dated 2023-03-19 and 0.4.17 dated 2024-04-17
DESCRIPTION | 10 - MD5 | 46 ++--- NEWS.md | 4 R/fortify_surv.R | 6 R/ggfortify.R | 3 R/plotlib.R | 5 build/vignette.rds |binary inst/doc/basics.R | 36 ++-- inst/doc/basics.html | 329 +++++++++++++++++------------------------- inst/doc/plot_dist.R | 8 - inst/doc/plot_dist.html | 311 ++++++++++++++++----------------------- inst/doc/plot_lm.R | 14 - inst/doc/plot_lm.html | 315 ++++++++++++++++------------------------ inst/doc/plot_map.R | 14 - inst/doc/plot_map.html | 321 +++++++++++++++++------------------------ inst/doc/plot_pca.R | 40 ++--- inst/doc/plot_pca.html | 351 ++++++++++++++++++--------------------------- inst/doc/plot_surv.R | 6 inst/doc/plot_surv.html | 315 ++++++++++++++++------------------------ inst/doc/plot_ts.R | 54 +++--- inst/doc/plot_ts.html | 341 ++++++++++++++++++------------------------- man/ggbiplot.Rd | 3 man/ggfortify.Rd | 29 +++ tests/testthat/test-surv.R | 2 24 files changed, 1110 insertions(+), 1453 deletions(-)
Title: Spatial Statistical Modeling and Prediction
Description: Fit, summarize, and predict for a variety of spatial statistical models applied to point-referenced and areal (lattice) data. Parameters are estimated using various methods. Additional modeling features include anisotropy, non-spatial random effects, partition factors, big data approaches, and more. Model-fit statistics are used to summarize, visualize, and compare models. Predictions at unobserved locations are readily obtainable. For additional details, see Dumelle et al. (2023) <doi:10.1371/journal.pone.0282524>.
Author: Michael Dumelle [aut, cre] ,
Matt Higham [aut],
Jay M. Ver Hoef [aut]
Maintainer: Michael Dumelle <Dumelle.Michael@epa.gov>
Diff between spmodel versions 0.5.1 dated 2024-01-09 and 0.6.0 dated 2024-04-16
DESCRIPTION | 8 MD5 | 72 - NEWS.md | 292 ++-- R/cov_betahat_adjust.R | 2 R/cov_estimate_gloglik.R | 6 R/cov_estimate_sv.R | 98 - R/cov_initial_search.R | 2258 +++++++++++++++++----------------- R/cov_initial_search_glm.R | 2105 +++++++++++++++---------------- R/get_data_object.R | 28 R/get_data_object_glm.R | 28 R/get_fitted.R | 20 R/get_fitted_glm.R | 19 R/get_local_list.R | 7 R/get_loocv.R | 96 - R/get_model_stats.R | 103 + R/get_model_stats_glm.R | 1 R/get_randcov_list.R | 79 - R/laploglik_products.R | 3 R/partition_matrix.R | 52 R/predict.R | 4 R/predict_glm.R | 4 R/spautor.R | 7 R/spgautor.R | 740 +++++------ R/spglm.R | 946 +++++++------- R/splm.R | 14 R/sprnorm.R | 2 R/utils.R | 70 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/introduction.R | 6 inst/doc/introduction.html | 13 man/spautor.Rd | 4 man/spgautor.Rd | 4 man/splm.Rd | 2 tests/testthat/test-extras-spautor.R | 11 tests/testthat/test-extras-spgautor.R | 11 tests/testthat/test-extras-splm.R | 22 37 files changed, 3701 insertions(+), 3436 deletions(-)
Title: Gene Locus Plot with Gene Annotations
Description: Publication-ready regional gene locus plots similar to those produced by the web interface 'LocusZoom' <https://my.locuszoom.org>, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics, 'ggplot2' or 'plotly', allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the 'LDlink' API <https://ldlink.nih.gov/?tab=apiaccess> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots.
Author: Myles Lewis [aut, cre]
Maintainer: Myles Lewis <myles.lewis@qmul.ac.uk>
Diff between locuszoomr versions 0.2.1 dated 2024-02-17 and 0.3.0 dated 2024-04-16
DESCRIPTION | 6 - MD5 | 72 +++++++------- NAMESPACE | 9 + NEWS.md | 19 +++ R/genetrack_ly.R | 92 +++++++++++++----- R/genetracks.R | 69 ++++++++++++- R/genetracks_grob.R | 61 +++++++----- R/gg_genetracks.R | 35 +++++-- R/gg_scatter.R | 108 ++++++++++++++++----- R/link_LD.R | 57 ++++++++--- R/link_recomb.R | 38 ++++++- R/locus.R | 151 +++++++++++++++++------------- R/locus_ggplot.R | 15 ++- R/locus_plot.R | 16 ++- R/locus_plotly.R | 25 +++-- R/quick_peak.R | 27 +---- R/scatter_plot.R | 75 ++++++++++++--- R/scatter_plotly.R | 234 ++++++++++++++++++++++++++++++++++------------- README.md | 12 +- build/vignette.rds |binary inst/doc/locuszoomr.R | 8 + inst/doc/locuszoomr.Rmd | 41 +++++++- inst/doc/locuszoomr.html | 49 +++++++-- man/genetrack_ly.Rd | 31 +++++- man/genetracks.Rd | 25 ++++- man/genetracks_grob.Rd | 18 +++ man/gg_genetracks.Rd | 32 +++++- man/gg_scatter.Rd | 10 +- man/link_LD.Rd | 25 ++++- man/link_recomb.Rd | 26 +++-- man/locus.Rd | 29 ++++- man/locus_ggplot.Rd | 12 ++ man/locus_plot.Rd | 14 ++ man/locus_plotly.Rd | 21 +++- man/scatter_plot.Rd | 30 ++++-- man/scatter_plotly.Rd | 32 ++++-- vignettes/locuszoomr.Rmd | 41 +++++++- 37 files changed, 1150 insertions(+), 415 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Barbanti and Hothorn, 2022,
<DOI:10.1093/biostatistics/kxac048>). Multivariate conditional transformation models
(Klein et al, 2022, <DOI:10.1111/sjos.12501>) and shift-scale transformation models (Siegfried et al, 2023,
<DOI:10.1080/00031305.2023.2203177>) can be fitted as well.
Author: Torsten Hothorn [aut, cre] ,
Luisa Barbanti [aut] ,
Sandra Siegfried [aut] ,
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 1.0-2 dated 2024-01-30 and 1.0-3 dated 2024-04-16
DESCRIPTION | 10 ++-- MD5 | 26 +++++----- R/internal.R | 2 R/mmlt.R | 131 +++++++++++++++++++++++++++++++++++++++-------------- R/models.R | 3 - R/tram.R | 11 ++++ build/partial.rdb |binary build/vignette.rds |binary demo/survtram.R | 119 +++++++++++++++++++++++++++++++++--------------- inst/NEWS.Rd | 12 ++++ inst/doc/mtram.pdf |binary inst/doc/tram.pdf |binary man/mmlt.Rd | 23 ++++++--- tests/bugfixes.R | 7 ++ 14 files changed, 246 insertions(+), 98 deletions(-)
Title: Analyzing and Visualizing Symptom Checker Performance
Description: Easily analyze and visualize the performance of symptom
checkers. This package can be used to gain comprehensive insights into
the performance of single symptom checkers or the performance of
multiple symptom checkers. It can be used to easily compare these
symptom checkers across several metrics to gain an understanding of
their strengths and weaknesses. The metrics are developed in
Kopka et al. (2023) <doi:10.1177/20552076231194929>.
Author: Marvin Kopka [cre, aut] ,
Malte L. Schmieding [aut] ,
Markus A. Feufel [aut]
Maintainer: Marvin Kopka <marvin.kopka@tu-berlin.de>
Diff between symptomcheckR versions 0.1.1 dated 2024-01-12 and 0.1.3 dated 2024-04-16
DESCRIPTION | 13 +++--- MD5 | 34 +++++++++-------- NAMESPACE | 2 + NEWS.md | 8 +++- R/get_accuracy.R | 51 ++++++++++++++++++++++++- R/get_accuracy_by_triage.R | 66 +++++++++++++++++++++++++++++---- R/get_comprehensiveness.R | 70 +++++++++++++++++++++++++++++++++-- R/get_inclination_to_overtriage.R | 67 ++++++++++++++++++++++++++++++++- R/get_irr.R |only R/get_safety_of_advice.R | 67 ++++++++++++++++++++++++++++++++- R/plot_safety_of_advice.R | 4 +- README.md | 37 +++++++++++++++--- man/get_accuracy.Rd | 7 ++- man/get_accuracy_by_triage.Rd | 7 ++- man/get_comprehensiveness.Rd | 8 +++- man/get_inclination_to_overtriage.Rd | 8 +++- man/get_irr.Rd |only man/get_safety_of_advice.Rd | 10 +++-- man/plot_safety_of_advice.Rd | 4 +- 19 files changed, 397 insertions(+), 66 deletions(-)
Title: Statistical Methods for Graphs
Description: Contains statistical methods to analyze graphs, such as graph parameter estimation,
model selection based on the Graph Information Criterion, statistical tests to discriminate two or more populations of graphs,
correlation between graphs, and clustering of graphs.
References: Takahashi et al. (2012) <doi:10.1371/journal.pone.0049949>, Fujita et al. (2017) <doi:10.3389/fnins.2017.00066>,
Fujita et al. (2017) <doi:10.1016/j.csda.2016.11.016>, Fujita et al. (2019) <doi:10.1093/comnet/cnz028>.
Author: Grover E. Castro Guzman [aut],
Diogo R. da Costa [aut],
Taiane C. Ramos [aut],
Suzana S. Santos [aut],
Eduardo S. Lira [aut],
Andre Fujita [aut, cre]
Maintainer: Andre Fujita <andrefujita@usp.br>
Diff between statGraph versions 0.5.1 dated 2024-01-25 and 1.0.0 dated 2024-04-16
statGraph-0.5.1/statGraph/R/statGraph-package.R |only statGraph-0.5.1/statGraph/R/statGraph.R |only statGraph-0.5.1/statGraph/build |only statGraph-0.5.1/statGraph/man/cerqueira.test.Rd |only statGraph-0.5.1/statGraph/man/fast.eigenvalue.probability.Rd |only statGraph-0.5.1/statGraph/man/fast.graph.param.estimator.Rd |only statGraph-0.5.1/statGraph/man/fast.spectral.density.Rd |only statGraph-0.5.1/statGraph/man/fraiman.test.Rd |only statGraph-0.5.1/statGraph/man/ghoshdastidar.test.Rd |only statGraph-0.5.1/statGraph/man/statGraph-package.Rd |only statGraph-0.5.1/statGraph/man/takahashi.test.Rd |only statGraph-0.5.1/statGraph/man/tang.test.Rd |only statGraph-1.0.0/statGraph/DESCRIPTION | 23 +- statGraph-1.0.0/statGraph/MD5 | 63 ++++--- statGraph-1.0.0/statGraph/NAMESPACE | 14 - statGraph-1.0.0/statGraph/R/GIC.R |only statGraph-1.0.0/statGraph/R/anogva.R |only statGraph-1.0.0/statGraph/R/graph.acf.R |only statGraph-1.0.0/statGraph/R/graph.cem.R |only statGraph-1.0.0/statGraph/R/graph.cor.test.R |only statGraph-1.0.0/statGraph/R/graph.dist.R |only statGraph-1.0.0/statGraph/R/graph.entropy.R |only statGraph-1.0.0/statGraph/R/graph.hclust.R |only statGraph-1.0.0/statGraph/R/graph.kmeans.R |only statGraph-1.0.0/statGraph/R/graph.model.selection.R |only statGraph-1.0.0/statGraph/R/graph.models.R |only statGraph-1.0.0/statGraph/R/graph.mult.scaling.R |only statGraph-1.0.0/statGraph/R/graph.param.estimator.R |only statGraph-1.0.0/statGraph/R/graph.spectral.density.R |only statGraph-1.0.0/statGraph/R/graph.takahashi.test.R |only statGraph-1.0.0/statGraph/R/graph.tang.test.R |only statGraph-1.0.0/statGraph/R/showResults.R |only statGraph-1.0.0/statGraph/R/sp.anogva.R |only statGraph-1.0.0/statGraph/R/utils.R |only statGraph-1.0.0/statGraph/man/GIC.Rd | 75 +++----- statGraph-1.0.0/statGraph/man/anogva.Rd | 35 ++- statGraph-1.0.0/statGraph/man/graph.acf.Rd | 14 - statGraph-1.0.0/statGraph/man/graph.cem.Rd | 40 ++-- statGraph-1.0.0/statGraph/man/graph.cor.test.Rd | 29 +-- statGraph-1.0.0/statGraph/man/graph.dist.Rd |only statGraph-1.0.0/statGraph/man/graph.entropy.Rd | 43 +--- statGraph-1.0.0/statGraph/man/graph.hclust.Rd | 28 +-- statGraph-1.0.0/statGraph/man/graph.kmeans.Rd | 25 ++ statGraph-1.0.0/statGraph/man/graph.model.selection.Rd | 99 +++-------- statGraph-1.0.0/statGraph/man/graph.mult.scaling.Rd | 42 ++-- statGraph-1.0.0/statGraph/man/graph.param.estimator.Rd | 95 ++++------ statGraph-1.0.0/statGraph/man/graph.spectral.density.Rd |only statGraph-1.0.0/statGraph/man/graph.takahashi.test.Rd |only statGraph-1.0.0/statGraph/man/graph.tang.test.Rd |only statGraph-1.0.0/statGraph/man/sp.anogva.Rd | 63 ++----- 50 files changed, 293 insertions(+), 395 deletions(-)
Title: Extract 'REDCap' Databases into Tidy 'Tibble's
Description: Convert 'REDCap' exports into tidy tables for easy handling of 'REDCap' repeat instruments and event arms.
Author: Richard Hanna [aut, cre] ,
Stephan Kadauke [aut] ,
Ezra Porter [aut]
Maintainer: Richard Hanna <richardshanna91@gmail.com>
Diff between REDCapTidieR versions 1.1.0 dated 2024-03-28 and 1.1.1 dated 2024-04-16
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 12 ++++++++++-- R/checks.R | 6 +++--- R/utils.R | 26 ++++++++++++-------------- build/vignette.rds |binary tests/testthat/test-read_redcap.R | 1 - tests/testthat/test-utils.R | 6 ++---- 8 files changed, 37 insertions(+), 34 deletions(-)
Title: Graphical Elements of the University of Konstanz's Corporate
Design
Description: Define and use graphical elements of corporate design manuals in R. The 'unikn' package provides color functions (by defining dedicated colors and color palettes, and commands for finding, changing, viewing, and using them) and styled text elements (e.g., for marking, underlining, or plotting colored titles). The pre-defined range of colors and text decoration functions is based on the corporate design of the University of Konstanz <https://www.uni-konstanz.de/>, but can be adapted and extended for other purposes or institutions.
Author: Hansjoerg Neth [aut, cre] ,
Nico Gradwohl [aut]
Maintainer: Hansjoerg Neth <h.neth@uni.kn>
Diff between unikn versions 0.9.0 dated 2023-08-10 and 1.0.0 dated 2024-04-16
unikn-0.9.0/unikn/inst/doc/color_inst.R |only unikn-0.9.0/unikn/inst/doc/color_inst.Rmd |only unikn-0.9.0/unikn/inst/doc/color_inst.html |only unikn-0.9.0/unikn/inst/doc/colors.R |only unikn-0.9.0/unikn/inst/doc/colors.Rmd |only unikn-0.9.0/unikn/inst/doc/colors.html |only unikn-0.9.0/unikn/inst/doc/text.R |only unikn-0.9.0/unikn/inst/doc/text.Rmd |only unikn-0.9.0/unikn/inst/doc/text.html |only unikn-0.9.0/unikn/inst/pix/README-others-txt-demo-1.png |only unikn-0.9.0/unikn/inst/pix/README-seecol-add-pals-1.png |only unikn-0.9.0/unikn/inst/pix/logo.png |only unikn-0.9.0/unikn/inst/pix/logo_freiburg_2023.png |only unikn-0.9.0/unikn/vignettes/color_inst.Rmd |only unikn-0.9.0/unikn/vignettes/colors.Rmd |only unikn-0.9.0/unikn/vignettes/text.Rmd |only unikn-1.0.0/unikn/DESCRIPTION | 12 unikn-1.0.0/unikn/MD5 | 122 ++++----- unikn-1.0.0/unikn/NEWS.md | 81 +++--- unikn-1.0.0/unikn/R/color_fun_1.R | 193 +++++++-------- unikn-1.0.0/unikn/R/color_fun_2.R | 77 ++++- unikn-1.0.0/unikn/R/plot_demo.R | 65 ++++- unikn-1.0.0/unikn/R/plot_kn.R | 28 +- unikn-1.0.0/unikn/R/plot_text_calls.R | 11 unikn-1.0.0/unikn/R/util.R | 15 - unikn-1.0.0/unikn/R/util_color.R | 20 - unikn-1.0.0/unikn/R/util_plot.R | 15 - unikn-1.0.0/unikn/README.md | 170 +++++++------ unikn-1.0.0/unikn/build/vignette.rds |binary unikn-1.0.0/unikn/inst/CITATION | 10 unikn-1.0.0/unikn/inst/doc/color_functions.R |only unikn-1.0.0/unikn/inst/doc/color_functions.Rmd |only unikn-1.0.0/unikn/inst/doc/color_functions.html |only unikn-1.0.0/unikn/inst/doc/color_recipes.R | 13 + unikn-1.0.0/unikn/inst/doc/color_recipes.Rmd | 39 ++- unikn-1.0.0/unikn/inst/doc/color_recipes.html | 42 +-- unikn-1.0.0/unikn/inst/doc/inst_colors.R |only unikn-1.0.0/unikn/inst/doc/inst_colors.Rmd |only unikn-1.0.0/unikn/inst/doc/inst_colors.html |only unikn-1.0.0/unikn/inst/doc/text_decorations.R |only unikn-1.0.0/unikn/inst/doc/text_decorations.Rmd |only unikn-1.0.0/unikn/inst/doc/text_decorations.html |only unikn-1.0.0/unikn/inst/pix/README-grepal-example-1-1.png |binary unikn-1.0.0/unikn/inst/pix/README-newpal-google-1.png |binary unikn-1.0.0/unikn/inst/pix/README-pal-all-1.png |binary unikn-1.0.0/unikn/inst/pix/README-pal-unikn-1.png |binary unikn-1.0.0/unikn/inst/pix/README-pal-unikn-pref-1.png |binary unikn-1.0.0/unikn/inst/pix/README-seecol-pref-1.png |binary unikn-1.0.0/unikn/inst/pix/README-simcol-example-1.png |binary unikn-1.0.0/unikn/inst/pix/logo_unicol.png |only unikn-1.0.0/unikn/inst/pix/unikn.png |binary unikn-1.0.0/unikn/inst/pix/unikn_box.png |only unikn-1.0.0/unikn/man/mark.Rd | 3 unikn-1.0.0/unikn/man/newpal.Rd | 39 ++- unikn-1.0.0/unikn/man/pal_bordeaux.Rd | 4 unikn-1.0.0/unikn/man/pal_grau.Rd | 4 unikn-1.0.0/unikn/man/pal_karpfenblau.Rd | 4 unikn-1.0.0/unikn/man/pal_peach.Rd | 4 unikn-1.0.0/unikn/man/pal_petrol.Rd | 4 unikn-1.0.0/unikn/man/pal_pinky.Rd | 4 unikn-1.0.0/unikn/man/pal_seeblau.Rd | 4 unikn-1.0.0/unikn/man/pal_seegruen.Rd | 4 unikn-1.0.0/unikn/man/pal_signal.Rd | 4 unikn-1.0.0/unikn/man/pal_unikn_dark.Rd | 4 unikn-1.0.0/unikn/man/pal_unikn_light.Rd | 4 unikn-1.0.0/unikn/man/pal_unikn_pair.Rd | 4 unikn-1.0.0/unikn/man/pal_unikn_ppt.Rd | 4 unikn-1.0.0/unikn/man/pal_unikn_pref.Rd | 4 unikn-1.0.0/unikn/man/pal_unikn_web.Rd | 4 unikn-1.0.0/unikn/man/post.Rd | 2 unikn-1.0.0/unikn/man/seecol.Rd | 13 - unikn-1.0.0/unikn/man/uline.Rd | 4 unikn-1.0.0/unikn/man/url_unikn.Rd | 4 unikn-1.0.0/unikn/vignettes/color_functions.Rmd |only unikn-1.0.0/unikn/vignettes/color_recipes.Rmd | 39 ++- unikn-1.0.0/unikn/vignettes/inst_colors.Rmd |only unikn-1.0.0/unikn/vignettes/text_decorations.Rmd |only 77 files changed, 631 insertions(+), 446 deletions(-)
Title: Makes 'R' Easier for Everyone
Description: A meta-package that aims to make 'R' easier for everyone,
especially programmers who have a background in 'SAS®' software.
This set of packages brings many useful concepts to 'R', including
data libraries, data dictionaries, formats
and format catalogs, a data step, and a traceable log. The 'flagship'
package is a reporting package that can output in text, rich text, 'PDF',
'HTML', and 'DOCX' file formats.
Author: David J. Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between sassy versions 1.2.3 dated 2024-02-07 and 1.2.4 dated 2024-04-16
sassy-1.2.3/sassy/tests/testthat/IQ/log |only sassy-1.2.3/sassy/tests/testthat/IQ/output |only sassy-1.2.3/sassy/tests/testthat/IQ/sassyIQ-2023-09-06.pdf |only sassy-1.2.3/sassy/tests/testthat/OQ/log |only sassy-1.2.3/sassy/tests/testthat/OQ/output |only sassy-1.2.4/sassy/DESCRIPTION | 12 ++-- sassy-1.2.4/sassy/MD5 | 36 ++----------- sassy-1.2.4/sassy/NEWS.md | 6 ++ sassy-1.2.4/sassy/R/oq.R | 18 ++++++ sassy-1.2.4/sassy/inst/doc/sassy.Rmd | 3 - sassy-1.2.4/sassy/inst/doc/sassy.html | 3 - sassy-1.2.4/sassy/man/sassy.Rd | 1 sassy-1.2.4/sassy/tests/testthat/test-oq.R | 2 sassy-1.2.4/sassy/vignettes/sassy.Rmd | 3 - 14 files changed, 46 insertions(+), 38 deletions(-)
Title: Command Line Option Parser
Description: A command line parser inspired by Python's 'optparse' library to
be used with Rscript to write "#!" shebang scripts that accept short and
long flag/options.
Author: Trevor L. Davis [aut, cre] ,
Allen Day [ctb] ,
Python Software Foundation [ctb] ,
Steve Lianoglou [ctb],
Jim Nikelski [ctb],
Kirill Mueller [ctb],
Peter Humburg [ctb],
Rich FitzJohn [ctb],
Gyu Jin Choi [ctb]
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between optparse versions 1.7.4 dated 2024-01-16 and 1.7.5 dated 2024-04-16
DESCRIPTION | 14 +++++++------- MD5 | 18 +++++++++--------- NEWS.md | 7 +++++++ R/optparse-package.R | 5 ++--- R/optparse.R | 9 +++++++-- build/vignette.rds |binary inst/COPYRIGHTS | 4 ++-- inst/doc/optparse.html | 38 +++++++++++++++++++------------------- man/optparse-package.Rd | 2 +- tests/testthat/test-optparse.R | 20 ++++++++++++-------- 10 files changed, 66 insertions(+), 51 deletions(-)
Title: Forecast the Diffusion of New Products
Description: Various diffusion models to forecast new product growth. Currently
the package contains Bass, Gompertz, Gamma/Shifted Gompertz and Weibull curves. See
Meade and Islam (2006) <doi:10.1016/j.ijforecast.2006.01.005>.
Author: Oliver Schaer [aut, cre] ,
Nikolaos Kourentzes [aut] ,
Ivan Svetunkov [aut]
Maintainer: Oliver Schaer <info@oliverschaer.ch>
Diff between diffusion versions 0.2.7 dated 2018-01-05 and 0.4.0 dated 2024-04-16
diffusion-0.2.7/diffusion/data/tsbroadband.RData |only diffusion-0.2.7/diffusion/man/tsBroadband.Rd |only diffusion-0.4.0/diffusion/DESCRIPTION | 32 diffusion-0.4.0/diffusion/MD5 | 66 - diffusion-0.4.0/diffusion/NAMESPACE | 23 diffusion-0.4.0/diffusion/NEWS.md |only diffusion-0.4.0/diffusion/R/auxiliary.R | 486 +++++++++- diffusion-0.4.0/diffusion/R/bass.R | 83 - diffusion-0.4.0/diffusion/R/datasets.R | 58 - diffusion-0.4.0/diffusion/R/diffusion.R | 763 +++++++++------- diffusion-0.4.0/diffusion/R/gompertz.R | 106 -- diffusion-0.4.0/diffusion/R/gsgompertz.R | 85 - diffusion-0.4.0/diffusion/R/isFunctions.R |only diffusion-0.4.0/diffusion/R/nortonbass.R | 36 diffusion-0.4.0/diffusion/R/seqdiffusion.R | 242 +++-- diffusion-0.4.0/diffusion/R/weibull.R |only diffusion-0.4.0/diffusion/README.md | 25 diffusion-0.4.0/diffusion/data/tsCovid.RData |only diffusion-0.4.0/diffusion/data/tsmetal.RData |only diffusion-0.4.0/diffusion/man/Nortonbass.Rd | 225 ++-- diffusion-0.4.0/diffusion/man/Nortonbass_error.Rd | 62 - diffusion-0.4.0/diffusion/man/Nortonbass_startvalgen.Rd | 6 diffusion-0.4.0/diffusion/man/difcurve.Rd | 23 diffusion-0.4.0/diffusion/man/diffusion.Rd | 129 +- diffusion-0.4.0/diffusion/man/isFunctions.Rd |only diffusion-0.4.0/diffusion/man/plot.diffusion.Rd | 68 - diffusion-0.4.0/diffusion/man/plot.seqdiffusion.Rd | 70 - diffusion-0.4.0/diffusion/man/predict.diffusion.Rd | 4 diffusion-0.4.0/diffusion/man/print.diffusion.Rd | 64 - diffusion-0.4.0/diffusion/man/print.seqdiffusion.Rd | 66 - diffusion-0.4.0/diffusion/man/seqdiffusion.Rd | 109 +- diffusion-0.4.0/diffusion/man/tsAc.Rd | 6 diffusion-0.4.0/diffusion/man/tsCarstock.Rd | 6 diffusion-0.4.0/diffusion/man/tsChicken.Rd | 6 diffusion-0.4.0/diffusion/man/tsCovid.Rd |only diffusion-0.4.0/diffusion/man/tsIbm.Rd | 8 diffusion-0.4.0/diffusion/man/tsMetal.Rd |only diffusion-0.4.0/diffusion/man/tsSafari.Rd | 10 diffusion-0.4.0/diffusion/man/tsWindows.Rd | 6 39 files changed, 1772 insertions(+), 1101 deletions(-)
Title: Provides a 'PySpark' Back-End for the 'sparklyr' Package
Description: It enables 'sparklyr' to integrate with 'Spark Connect', and
'Databricks Connect' by providing a wrapper over the 'PySpark' 'python'
library.
Author: Edgar Ruiz [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Edgar Ruiz <edgar@posit.co>
Diff between pysparklyr versions 0.1.3 dated 2024-01-12 and 0.1.4 dated 2024-04-16
pysparklyr-0.1.3/pysparklyr/tests/testthat/requirements.txt |only pysparklyr-0.1.4/pysparklyr/DESCRIPTION | 10 - pysparklyr-0.1.4/pysparklyr/MD5 | 75 +++++----- pysparklyr-0.1.4/pysparklyr/NAMESPACE | 9 + pysparklyr-0.1.4/pysparklyr/NEWS.md | 23 ++- pysparklyr-0.1.4/pysparklyr/R/databricks-utils.R | 34 ++-- pysparklyr-0.1.4/pysparklyr/R/deploy.R | 9 - pysparklyr-0.1.4/pysparklyr/R/dplyr.R | 7 pysparklyr-0.1.4/pysparklyr/R/ide-snippet.R | 4 pysparklyr-0.1.4/pysparklyr/R/ml-connect-model.R | 1 pysparklyr-0.1.4/pysparklyr/R/ml-utils.R | 30 ---- pysparklyr-0.1.4/pysparklyr/R/package.R | 2 pysparklyr-0.1.4/pysparklyr/R/python-import-check.R | 6 pysparklyr-0.1.4/pysparklyr/R/python-install.R | 19 +- pysparklyr-0.1.4/pysparklyr/R/python-use-envname.R | 14 - pysparklyr-0.1.4/pysparklyr/R/sparklyr-sdf.R | 4 pysparklyr-0.1.4/pysparklyr/R/sparklyr-spark-apply.R |only pysparklyr-0.1.4/pysparklyr/R/sparklyr-spark-connect.R | 22 ++ pysparklyr-0.1.4/pysparklyr/R/utils.R | 29 +++ pysparklyr-0.1.4/pysparklyr/README.md | 2 pysparklyr-0.1.4/pysparklyr/inst/udf |only pysparklyr-0.1.4/pysparklyr/tests/testthat/_snaps/data-write.md | 18 +- pysparklyr-0.1.4/pysparklyr/tests/testthat/_snaps/dplyr.md | 14 + pysparklyr-0.1.4/pysparklyr/tests/testthat/_snaps/pivot-longer.md | 5 pysparklyr-0.1.4/pysparklyr/tests/testthat/_snaps/python-install.md | 11 - pysparklyr-0.1.4/pysparklyr/tests/testthat/test-connections-pane.R | 3 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-data-write.R | 2 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-databricks-utils.R | 13 + pysparklyr-0.1.4/pysparklyr/tests/testthat/test-deploy.R | 12 - pysparklyr-0.1.4/pysparklyr/tests/testthat/test-dplyr.R | 4 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-ide-snippet.R | 2 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-ml-utils.R | 20 +- pysparklyr-0.1.4/pysparklyr/tests/testthat/test-pivot-longer.R | 3 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-python-requirements.R | 3 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-sparklyr-sdf.R | 1 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-sparklyr-spark-apply.R |only pysparklyr-0.1.4/pysparklyr/tests/testthat/test-sparklyr-spark-connect.R | 4 pysparklyr-0.1.4/pysparklyr/tests/testthat/test-utils.R | 10 - pysparklyr-0.1.4/pysparklyr/tests/testthat/test-zzz-spark-connect.R | 2 39 files changed, 249 insertions(+), 178 deletions(-)
Title: Interacting with BibTeX Databases
Description: Reading and writing BibTeX files using data frames in R sessions.
Author: Miguel Alvarez [aut, cre]
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Diff between biblio versions 0.0.8 dated 2023-03-11 and 0.0.9 dated 2024-04-16
DESCRIPTION | 10 ++-- MD5 | 30 +++++++----- NAMESPACE | 6 ++ NEWS.md | 21 +++++++- R/bib2bibentry.R |only R/coerce-methods.R |only R/detect_keys.R | 7 -- R/imports.R | 6 +- R/print.R | 23 +++++---- R/read_bib.R | 119 ++++++++++++++++++++++++-------------------------- R/sysdata.rda |binary build/partial.rdb |binary data/synopsis.rda |binary man/bib2bibentry.Rd |only man/coerce-methods.Rd |only man/detect_keys.Rd | 9 +-- man/print.Rd | 14 ++++- man/read_bib.Rd | 4 + 18 files changed, 140 insertions(+), 109 deletions(-)
Title: Two One-Sided Tests (TOST) Equivalence Testing
Description: Two one-sided tests (TOST) procedure to test equivalence for t-tests, correlations, differences between proportions, and meta-analyses, including power analysis for t-tests and correlations. Allows you to specify equivalence bounds in raw scale units or in terms of effect sizes. See: Lakens (2017) <doi:10.1177/1948550617697177>.
Author: Daniel Lakens [aut],
Aaron Caldwell [aut, cre]
Maintainer: Aaron Caldwell <arcaldwell49@gmail.com>
Diff between TOSTER versions 0.8.1 dated 2024-03-21 and 0.8.2 dated 2024-04-16
TOSTER-0.8.1/TOSTER/tests/testthat/Rplots.pdf |only TOSTER-0.8.2/TOSTER/DESCRIPTION | 6 TOSTER-0.8.2/TOSTER/MD5 | 359 - TOSTER-0.8.2/TOSTER/NAMESPACE | 260 TOSTER-0.8.2/TOSTER/NEWS.md | 286 TOSTER-0.8.2/TOSTER/R/00jmv.R | 36 TOSTER-0.8.2/TOSTER/R/TOSTER-package.R | 14 TOSTER-0.8.2/TOSTER/R/TOSTmeta.R | 242 TOSTER-0.8.2/TOSTER/R/TOSTone.R | 474 - TOSTER-0.8.2/TOSTER/R/TOSTpaired.R | 938 +-- TOSTER-0.8.2/TOSTER/R/TOSTr.R | 238 TOSTER-0.8.2/TOSTER/R/TOSTtwo.R | 1070 +-- TOSTER-0.8.2/TOSTER/R/TOSTtwo.prop.R | 320 - TOSTER-0.8.2/TOSTER/R/anova_summary.R | 470 - TOSTER-0.8.2/TOSTER/R/boot_compare_cor.R | 434 - TOSTER-0.8.2/TOSTER/R/boot_compare_smd.R | 536 - TOSTER-0.8.2/TOSTER/R/boot_cor_test.R | 416 - TOSTER-0.8.2/TOSTER/R/boot_log_TOST.R | 936 +-- TOSTER-0.8.2/TOSTER/R/boot_ses_calc.R | 442 - TOSTER-0.8.2/TOSTER/R/boot_smd_calc.R | 436 - TOSTER-0.8.2/TOSTER/R/boot_t_TOST.R | 1146 +-- TOSTER-0.8.2/TOSTER/R/boot_t_test.R | 766 +- TOSTER-0.8.2/TOSTER/R/brunner_munzel.R | 898 +- TOSTER-0.8.2/TOSTER/R/cohend_calcs.R | 1488 ++-- TOSTER-0.8.2/TOSTER/R/compare_cor.R | 342 - TOSTER-0.8.2/TOSTER/R/compare_smd.R | 378 - TOSTER-0.8.2/TOSTER/R/compare_smd_functions.R | 76 TOSTER-0.8.2/TOSTER/R/cor_test.R | 372 - TOSTER-0.8.2/TOSTER/R/corr_calcs.R | 434 - TOSTER-0.8.2/TOSTER/R/corsum_test.R | 342 - TOSTER-0.8.2/TOSTER/R/data.R | 14 TOSTER-0.8.2/TOSTER/R/datatostone.b.R | 374 - TOSTER-0.8.2/TOSTER/R/datatostone.h.R | 992 +-- TOSTER-0.8.2/TOSTER/R/datatostpaired.b.R | 808 +- TOSTER-0.8.2/TOSTER/R/datatostpaired.h.R | 972 +-- TOSTER-0.8.2/TOSTER/R/datatostr.b.R | 382 - TOSTER-0.8.2/TOSTER/R/datatostr.h.R | 656 +- TOSTER-0.8.2/TOSTER/R/datatosttwo.b.R | 616 +- TOSTER-0.8.2/TOSTER/R/datatosttwo.h.R | 1152 +-- TOSTER-0.8.2/TOSTER/R/datatosttwoprop.b.R | 248 TOSTER-0.8.2/TOSTER/R/datatosttwoprop.h.R | 714 +- TOSTER-0.8.2/TOSTER/R/equ_anova.R | 188 TOSTER-0.8.2/TOSTER/R/equ_ftest.R | 206 TOSTER-0.8.2/TOSTER/R/extract_r_paired.R | 78 TOSTER-0.8.2/TOSTER/R/gg_curv_t.R | 390 - TOSTER-0.8.2/TOSTER/R/globals.R | 10 TOSTER-0.8.2/TOSTER/R/htest.R | 257 TOSTER-0.8.2/TOSTER/R/htest_helpers.R | 750 +- TOSTER-0.8.2/TOSTER/R/jamovi_functions.R | 928 +-- TOSTER-0.8.2/TOSTER/R/log_TOST.R | 798 +- TOSTER-0.8.2/TOSTER/R/log_pair.R | 462 - TOSTER-0.8.2/TOSTER/R/methods.TOSTnp.R | 186 TOSTER-0.8.2/TOSTER/R/methods.TOSTt.R | 1650 ++--- TOSTER-0.8.2/TOSTER/R/others.R | 276 TOSTER-0.8.2/TOSTER/R/pes_calc.R | 440 - TOSTER-0.8.2/TOSTER/R/plot.R | 28 TOSTER-0.8.2/TOSTER/R/plot_corr.R | 90 TOSTER-0.8.2/TOSTER/R/plot_pes.R | 98 TOSTER-0.8.2/TOSTER/R/plot_scripts.R | 214 TOSTER-0.8.2/TOSTER/R/plot_smd.R | 132 TOSTER-0.8.2/TOSTER/R/powerTOSTanova.R | 120 TOSTER-0.8.2/TOSTER/R/powerTOSTone.R | 240 TOSTER-0.8.2/TOSTER/R/powerTOSTpaired.R | 246 TOSTER-0.8.2/TOSTER/R/powerTOSTtwo.R | 230 TOSTER-0.8.2/TOSTER/R/power_TOST_functions.R | 596 - TOSTER-0.8.2/TOSTER/R/power_correlations.R | 518 - TOSTER-0.8.2/TOSTER/R/power_t_TOST.R | 228 TOSTER-0.8.2/TOSTER/R/power_two_proportions.R | 522 - TOSTER-0.8.2/TOSTER/R/rbs.R | 388 - TOSTER-0.8.2/TOSTER/R/rbs_calcs.R | 230 TOSTER-0.8.2/TOSTER/R/ses_calc.R | 256 TOSTER-0.8.2/TOSTER/R/simple_htest.R | 674 +- TOSTER-0.8.2/TOSTER/R/smd_calc.R | 444 - TOSTER-0.8.2/TOSTER/R/t_TOST.R | 936 +-- TOSTER-0.8.2/TOSTER/R/tsum_TOST.R | 748 +- TOSTER-0.8.2/TOSTER/R/tsum_funcs.R | 240 TOSTER-0.8.2/TOSTER/R/two_proportions.R | 1010 +-- TOSTER-0.8.2/TOSTER/R/wilcox_TOST.R | 682 +- TOSTER-0.8.2/TOSTER/README.md | 104 TOSTER-0.8.2/TOSTER/build/partial.rdb |binary TOSTER-0.8.2/TOSTER/build/vignette.rds |binary TOSTER-0.8.2/TOSTER/inst/CITATION | 40 TOSTER-0.8.2/TOSTER/inst/doc/IntroTOSTt.R | 542 - TOSTER-0.8.2/TOSTER/inst/doc/IntroTOSTt.Rmd | 770 +- TOSTER-0.8.2/TOSTER/inst/doc/IntroTOSTt.html | 1823 +++--- TOSTER-0.8.2/TOSTER/inst/doc/IntroductionToTOSTER.R | 112 TOSTER-0.8.2/TOSTER/inst/doc/IntroductionToTOSTER.Rmd | 390 - TOSTER-0.8.2/TOSTER/inst/doc/IntroductionToTOSTER.html | 1976 +++--- TOSTER-0.8.2/TOSTER/inst/doc/SMD_calcs.R | 154 TOSTER-0.8.2/TOSTER/inst/doc/SMD_calcs.Rmd | 1414 ++-- TOSTER-0.8.2/TOSTER/inst/doc/SMD_calcs.html | 2396 +++---- TOSTER-0.8.2/TOSTER/inst/doc/correlations.R | 202 TOSTER-0.8.2/TOSTER/inst/doc/correlations.Rmd | 346 - TOSTER-0.8.2/TOSTER/inst/doc/correlations.html | 1512 ++--- TOSTER-0.8.2/TOSTER/inst/doc/robustTOST.R | 202 TOSTER-0.8.2/TOSTER/inst/doc/robustTOST.Rmd | 660 +- TOSTER-0.8.2/TOSTER/inst/doc/robustTOST.html | 2006 +++--- TOSTER-0.8.2/TOSTER/inst/doc/the_ftestTOSTER.R | 66 TOSTER-0.8.2/TOSTER/inst/doc/the_ftestTOSTER.Rmd | 230 TOSTER-0.8.2/TOSTER/inst/doc/the_ftestTOSTER.html | 1172 +-- TOSTER-0.8.2/TOSTER/man/TOSTER-package.Rd | 54 TOSTER-0.8.2/TOSTER/man/TOSTmeta.Rd | 110 TOSTER-0.8.2/TOSTER/man/TOSTnp-methods.Rd | 82 TOSTER-0.8.2/TOSTER/man/TOSTone.Rd | 138 TOSTER-0.8.2/TOSTER/man/TOSTpaired.Rd | 166 TOSTER-0.8.2/TOSTER/man/TOSTr.Rd | 82 TOSTER-0.8.2/TOSTER/man/TOSTt-methods.Rd | 142 TOSTER-0.8.2/TOSTER/man/TOSTtwo.Rd | 202 TOSTER-0.8.2/TOSTER/man/TOSTtwo.prop.Rd | 126 TOSTER-0.8.2/TOSTER/man/as_htest.Rd | 76 TOSTER-0.8.2/TOSTER/man/boot_compare_cor.Rd | 128 TOSTER-0.8.2/TOSTER/man/boot_compare_smd.Rd | 136 TOSTER-0.8.2/TOSTER/man/boot_cor_test.Rd | 162 TOSTER-0.8.2/TOSTER/man/boot_log_TOST.Rd | 236 TOSTER-0.8.2/TOSTER/man/boot_ses_calc.Rd | 164 TOSTER-0.8.2/TOSTER/man/boot_smd_calc.Rd | 188 TOSTER-0.8.2/TOSTER/man/boot_t_TOST.Rd | 266 TOSTER-0.8.2/TOSTER/man/boot_t_test.Rd | 208 TOSTER-0.8.2/TOSTER/man/brunner_munzel.Rd | 232 TOSTER-0.8.2/TOSTER/man/compare_cor.Rd | 126 TOSTER-0.8.2/TOSTER/man/compare_smd.Rd | 128 TOSTER-0.8.2/TOSTER/man/corsum_test.Rd | 124 TOSTER-0.8.2/TOSTER/man/dataTOSTone.Rd | 166 TOSTER-0.8.2/TOSTER/man/dataTOSTpaired.Rd | 196 TOSTER-0.8.2/TOSTER/man/dataTOSTr.Rd | 126 TOSTER-0.8.2/TOSTER/man/dataTOSTtwo.Rd | 212 TOSTER-0.8.2/TOSTER/man/datatosttwoprop.Rd | 122 TOSTER-0.8.2/TOSTER/man/equ_anova.Rd | 104 TOSTER-0.8.2/TOSTER/man/equ_ftest.Rd | 108 TOSTER-0.8.2/TOSTER/man/extract_r_paired.Rd | 70 TOSTER-0.8.2/TOSTER/man/hawthorne.Rd | 38 TOSTER-0.8.2/TOSTER/man/htest-helpers.Rd | 90 TOSTER-0.8.2/TOSTER/man/log_TOST.Rd | 222 TOSTER-0.8.2/TOSTER/man/plot_cor.Rd | 100 TOSTER-0.8.2/TOSTER/man/plot_pes.Rd | 86 TOSTER-0.8.2/TOSTER/man/plot_smd.Rd | 108 TOSTER-0.8.2/TOSTER/man/powerTOSTone.Rd | 144 TOSTER-0.8.2/TOSTER/man/powerTOSTpaired.Rd | 148 TOSTER-0.8.2/TOSTER/man/powerTOSTtwo.Rd | 156 TOSTER-0.8.2/TOSTER/man/power_eq_f.Rd | 84 TOSTER-0.8.2/TOSTER/man/power_t_TOST.Rd | 120 TOSTER-0.8.2/TOSTER/man/power_twoprop.Rd | 216 TOSTER-0.8.2/TOSTER/man/power_z_cor.Rd | 158 TOSTER-0.8.2/TOSTER/man/rbs.Rd | 176 TOSTER-0.8.2/TOSTER/man/ses_calc.Rd | 146 TOSTER-0.8.2/TOSTER/man/simple_htest.Rd | 210 TOSTER-0.8.2/TOSTER/man/smd_calc.Rd | 180 TOSTER-0.8.2/TOSTER/man/t_TOST.Rd | 264 TOSTER-0.8.2/TOSTER/man/tsum_TOST.Rd | 230 TOSTER-0.8.2/TOSTER/man/twoprop_test.Rd | 222 TOSTER-0.8.2/TOSTER/man/wilcox_TOST.Rd | 266 TOSTER-0.8.2/TOSTER/man/z_cor_test.Rd | 140 TOSTER-0.8.2/TOSTER/tests/spelling.R | 6 TOSTER-0.8.2/TOSTER/tests/testthat.R | 8 TOSTER-0.8.2/TOSTER/tests/testthat/test-NCSS1.R | 162 TOSTER-0.8.2/TOSTER/tests/testthat/test-bootTOST.R | 602 +- TOSTER-0.8.2/TOSTER/tests/testthat/test-compare_smds.R | 388 - TOSTER-0.8.2/TOSTER/tests/testthat/test-corr.R | 1282 ++-- TOSTER-0.8.2/TOSTER/tests/testthat/test-data_summary_equivalent.R | 190 TOSTER-0.8.2/TOSTER/tests/testthat/test-ftests.R | 224 TOSTER-0.8.2/TOSTER/tests/testthat/test-htest.R | 1010 +-- TOSTER-0.8.2/TOSTER/tests/testthat/test-jamovi.R | 1286 ++-- TOSTER-0.8.2/TOSTER/tests/testthat/test-known_results.R | 570 - TOSTER-0.8.2/TOSTER/tests/testthat/test-log.R | 456 - TOSTER-0.8.2/TOSTER/tests/testthat/test-old_errors.R | 518 - TOSTER-0.8.2/TOSTER/tests/testthat/test-power_consistent.R | 308 - TOSTER-0.8.2/TOSTER/tests/testthat/test-power_correlation.R | 282 TOSTER-0.8.2/TOSTER/tests/testthat/test-power_t_TOST.R | 732 +- TOSTER-0.8.2/TOSTER/tests/testthat/test-powerraw.R | 102 TOSTER-0.8.2/TOSTER/tests/testthat/test-tTOST.R | 3000 +++++----- TOSTER-0.8.2/TOSTER/tests/testthat/test-twoprop.R | 752 +- TOSTER-0.8.2/TOSTER/tests/testthat/test-wilcox.R | 444 - TOSTER-0.8.2/TOSTER/vignettes/IntroTOSTt.Rmd | 770 +- TOSTER-0.8.2/TOSTER/vignettes/IntroductionToTOSTER.Rmd | 390 - TOSTER-0.8.2/TOSTER/vignettes/SMD_calcs.Rmd | 1414 ++-- TOSTER-0.8.2/TOSTER/vignettes/anovaTOSTER.R | 56 TOSTER-0.8.2/TOSTER/vignettes/anovaTOSTER.html | 976 +-- TOSTER-0.8.2/TOSTER/vignettes/correlations.Rmd | 346 - TOSTER-0.8.2/TOSTER/vignettes/references.bib | 586 - TOSTER-0.8.2/TOSTER/vignettes/robustTOST.Rmd | 660 +- TOSTER-0.8.2/TOSTER/vignettes/the_ftestTOSTER.Rmd | 230 181 files changed, 39164 insertions(+), 39159 deletions(-)
Title: Prepare and Explore Data for Palaeobiological Analyses
Description: Provides functionality to support data preparation and exploration for
palaeobiological analyses, improving code reproducibility and accessibility. The
wider aim of 'palaeoverse' is to bring the palaeobiological community together
to establish agreed standards. The package currently includes functionality for
data cleaning, binning (time and space), exploration, summarisation and
visualisation. Reference datasets (i.e. Geological Time Scales <https://stratigraphy.org/chart>)
and auxiliary functions are also provided. Details can be found in:
Jones et al., (2023) <doi: 10.1111/2041-210X.14099>.
Author: Lewis A. Jones [aut, cre] ,
William Gearty [aut] ,
Bethany J. Allen [aut] ,
Kilian Eichenseer [aut] ,
Christopher D. Dean [aut] ,
Sofia Galvan [ctb] ,
Miranta Kouvari [ctb] ,
Pedro L. Godoy [ctb] ,
Cecily Nicholl [ctb] ,
Lucas Buffan [ctb] ,
Erin M. [...truncated...]
Maintainer: Lewis A. Jones <LewisAlan.Jones@uvigo.es>
Diff between palaeoverse versions 1.2.1 dated 2023-08-17 and 1.3.0 dated 2024-04-16
DESCRIPTION | 12 - MD5 | 67 +++--- NAMESPACE | 4 NEWS.md | 11 + R/bin_time.R | 110 +++++------ R/data.R | 3 R/palaeorotate.R | 33 +-- R/tax_expand_time.R | 56 ++++- R/tax_range_strat.R |only R/tax_range_time.R | 112 +++++++---- README.md | 8 inst/doc/phanerozoic-reefs.Rmd | 64 ++++-- inst/doc/phanerozoic-reefs.html | 90 +++++---- inst/doc/structure-and-standards.Rmd | 14 - inst/doc/structure-and-standards.html | 33 +-- inst/doc/tetrapod-biodiversity.Rmd | 77 +++++-- inst/doc/tetrapod-biodiversity.html | 328 ++++++++++++++++++---------------- man/bin_time.Rd | 31 ++- man/palaeoverse-package.Rd | 4 man/tax_expand_time.Rd | 20 +- man/tax_range_strat.Rd |only man/tax_range_time.Rd | 58 ++++-- man/tetrapods.Rd | 3 tests/testthat/_snaps/tax_range_strat |only tests/testthat/test-palaeorotate.R | 23 ++ tests/testthat/test-tax_expand_time.R | 15 + tests/testthat/test-tax_range_strat.R |only tests/testthat/test-tax_range_time.R | 3 vignettes/alpha-div-plot-3-1.png |binary vignettes/phanerozoic-reefs.Rmd | 64 ++++-- vignettes/reefs-dist-1.png |binary vignettes/reefs-max-1.png |binary vignettes/reefs-max-multi-1.png |binary vignettes/structure-and-standards.Rmd | 14 - vignettes/tetrapod-biodiversity.Rmd | 77 +++++-- 35 files changed, 818 insertions(+), 516 deletions(-)
Title: Measuring Ecosystem Multi-Functionality and Its Decomposition
Description: Provide simple functions to (i) compute a class of
multi-functionality measures for a single ecosystem for given
function weights, (ii) decompose gamma multi-functionality
for multiple ecosystems into a within-ecosystem component
(alpha multi-functionality) and an among-ecosystem component
(beta multi-functionality). In each case, the correlation
between functions can be corrected for. Based on biodiversity
and ecosystem function data, this software also facilitates
graphics for assessing biodiversity-ecosystem functioning
relationships across scales.
Author: Anne Chao [aut, cre],
Chun-Yu Liu [ctb],
KaiHsiang Hu [ctb]
Maintainer: Anne Chao <chao@stat.nthu.edu.tw>
Diff between MF.beta4 versions 1.0.2 dated 2024-03-25 and 1.0.3 dated 2024-04-16
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 2 ++ R/Mainfun.R | 8 ++------ inst/doc/Introduction.pdf |binary 5 files changed, 11 insertions(+), 13 deletions(-)
Title: Analyzes Real-World Treatment Patterns of a Study Population of
Interest
Description: Computes treatment patterns within a given cohort using the Observational
Medical Outcomes Partnership (OMOP) common data model (CDM). As described
in Markus, Verhamme, Kors, and Rijnbeek (2022) <doi:10.1016/j.cmpb.2022.107081>.
Author: Aniek Markus [aut] ,
Maarten van Kessel [cre]
Maintainer: Maarten van Kessel <m.l.vankessel@erasmusmc.nl>
Diff between TreatmentPatterns versions 2.6.5 dated 2024-02-19 and 2.6.6 dated 2024-04-16
TreatmentPatterns-2.6.5/TreatmentPatterns/R/Module.R |only TreatmentPatterns-2.6.5/TreatmentPatterns/R/R6-CDMInterface.R |only TreatmentPatterns-2.6.5/TreatmentPatterns/R/R6-PathwayConstructor.R |only TreatmentPatterns-2.6.5/TreatmentPatterns/man/InteractivePlots.Rd |only TreatmentPatterns-2.6.5/TreatmentPatterns/man/Module.Rd |only TreatmentPatterns-2.6.5/TreatmentPatterns/tests/testthat/test-PathwayConstructor.R |only TreatmentPatterns-2.6.6/TreatmentPatterns/DESCRIPTION | 14 TreatmentPatterns-2.6.6/TreatmentPatterns/MD5 | 68 +- TreatmentPatterns-2.6.6/TreatmentPatterns/NAMESPACE | 5 TreatmentPatterns-2.6.6/TreatmentPatterns/NEWS.md | 6 TreatmentPatterns-2.6.6/TreatmentPatterns/R/CDMInterface.R |only TreatmentPatterns-2.6.6/TreatmentPatterns/R/CharacterizationPlots.R | 4 TreatmentPatterns-2.6.6/TreatmentPatterns/R/InputHandler.R | 43 + TreatmentPatterns-2.6.6/TreatmentPatterns/R/InteractivePlots.R | 201 ++----- TreatmentPatterns-2.6.6/TreatmentPatterns/R/SankeyDiagram.R |only TreatmentPatterns-2.6.6/TreatmentPatterns/R/ShinyApp.R | 25 TreatmentPatterns-2.6.6/TreatmentPatterns/R/ShinyModule.R |only TreatmentPatterns-2.6.6/TreatmentPatterns/R/SunburstPlot.R |only TreatmentPatterns-2.6.6/TreatmentPatterns/R/computePathways.R | 257 +++++++++- TreatmentPatterns-2.6.6/TreatmentPatterns/R/constructPathways.R | 33 - TreatmentPatterns-2.6.6/TreatmentPatterns/R/createSankeyDiagram.R | 94 ++- TreatmentPatterns-2.6.6/TreatmentPatterns/R/createSunburstPlot.R | 36 + TreatmentPatterns-2.6.6/TreatmentPatterns/R/export.R | 75 ++ TreatmentPatterns-2.6.6/TreatmentPatterns/build/partial.rdb |binary TreatmentPatterns-2.6.6/TreatmentPatterns/build/vignette.rds |binary TreatmentPatterns-2.6.6/TreatmentPatterns/inst/WORDLIST | 8 TreatmentPatterns-2.6.6/TreatmentPatterns/inst/doc/DefiningCohorts.html | 16 TreatmentPatterns-2.6.6/TreatmentPatterns/inst/sql/ageRefTable.sql |only TreatmentPatterns-2.6.6/TreatmentPatterns/man/CharacterizationPlots.Rd | 6 TreatmentPatterns-2.6.6/TreatmentPatterns/man/InputHandler.Rd | 6 TreatmentPatterns-2.6.6/TreatmentPatterns/man/SankeyDiagram.Rd |only TreatmentPatterns-2.6.6/TreatmentPatterns/man/ShinyModule.Rd |only TreatmentPatterns-2.6.6/TreatmentPatterns/man/SunburstPlot.Rd |only TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-CDMInterfaceCDMC.R | 4 TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-CDMInterfaceDBC.R | 13 TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-InputHandler.R | 55 ++ TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-InteracivePlots.R | 42 + TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-ShinyApp.R | 3 TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-computePathways.R | 2 TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-createSankeyDiagram.R | 57 ++ TreatmentPatterns-2.6.6/TreatmentPatterns/tests/testthat/test-export.R | 2 TreatmentPatterns-2.6.6/TreatmentPatterns/vignettes/articles/bestPractices.Rmd |only TreatmentPatterns-2.6.6/TreatmentPatterns/vignettes/articles/bestPractices.html |only 43 files changed, 763 insertions(+), 312 deletions(-)
More information about TreatmentPatterns at CRAN
Permanent link
Title: Spatio-Temporal Point Pattern Methods, Model Fitting,
Diagnostics, Simulation, Local Tests
Description: Toolbox for different kinds of spatio-temporal analyses to be performed on observed point patterns, following the growing stream of literature on point process theory. This R package implements functions to perform different kinds of analyses on point processes, proposed in the papers (Siino, Adelfio, and Mateu 2018<doi:10.1007/s00477-018-1579-0>; Siino et al. 2018<doi:10.1002/env.2463>; Adelfio et al. 2020<doi:10.1007/s00477-019-01748-1>; D’Angelo, Adelfio, and Mateu 2021<doi:10.1016/j.spasta.2021.100534>; D’Angelo, Adelfio, and Mateu 2022<doi:10.1007/s00362-022-01338-4>; D’Angelo, Adelfio, and Mateu 2023<doi:10.1016/j.csda.2022.107679>). The main topics include modeling, statistical inference, and simulation issues on spatio-temporal point processes on Euclidean space and linear networks.
Author: Nicoletta D'Angelo [aut, cre] ,
Giada Adelfio [aut]
Maintainer: Nicoletta D'Angelo <nicoletta.dangelo@unipa.it>
Diff between stopp versions 0.2.1 dated 2024-04-05 and 0.2.2 dated 2024-04-16
DESCRIPTION | 10 - MD5 | 248 +++++++++++++++++++++++----------------------- NAMESPACE | 12 -- R/globaldiag.R | 107 +++++++------------ R/infl.R | 12 +- R/internals.R | 106 +++++-------------- R/localSTLKinhom.R | 32 +++++ R/localSTLginhom.R | 32 +++++ R/localdiag.R | 69 +++++++----- R/localplot.R | 7 - R/localsummary.R | 10 - R/localtest.R | 24 +++- R/locstppm.R | 36 +++++- R/plot.globaldiag.R |only R/plot.lista.R | 4 R/plot.localdiag.R | 8 - R/plot.localtest.R | 10 - R/plot.locstppm.R | 8 - R/plot.sepstlppm.R | 4 R/plot.sepstppm.R | 4 R/plot.stcov.R | 9 - R/plot.stlgcppm.R | 4 R/plot.stlp.R | 3 R/plot.stlpm.R | 5 R/plot.stp.R | 3 R/plot.stpm.R | 15 +- R/plot.stppm.R | 7 - R/print.globaldiag.R |only R/print.lista.R | 5 R/print.localdiag.R | 8 - R/print.localtest.R | 10 - R/print.locstppm.R | 9 - R/print.sepstlppm.R | 5 R/print.sepstppm.R | 3 R/print.stcov.R | 5 R/print.stlgcppm.R | 5 R/print.stlp.R | 5 R/print.stlpm.R | 5 R/print.stp.R | 5 R/print.stpm.R | 5 R/print.stppm.R | 9 - R/rETASlp.R | 10 - R/rETASp.R | 12 -- R/rstlpp.R | 12 -- R/rstpp.R | 19 +-- R/sepstlppm.R | 2 R/sepstppm.R | 2 R/stcov.R | 44 ++++++-- R/stlgcppm.R | 47 +++++++- R/stp.R | 13 +- R/stpm.R | 12 +- R/stppm.R | 41 ++++++- R/summary.globaldiag.R |only R/summary.lista.R | 5 R/summary.localdiag.R | 8 - R/summary.localtest.R | 10 - R/summary.locstppm.R | 9 - R/summary.sepstlppm.R | 6 - R/summary.sepstppm.R | 5 R/summary.stcov.R | 3 R/summary.stlgcppm.R | 5 R/summary.stlp.R | 5 R/summary.stlpm.R | 6 - R/summary.stp.R | 4 R/summary.stpm.R | 4 R/summary.stppm.R | 9 - man/globaldiag.Rd | 40 +++---- man/infl.Rd | 6 - man/localSTLKinhom.Rd | 2 man/localSTLginhom.Rd | 2 man/localdiag.Rd | 13 +- man/localplot.Rd | 6 - man/localsummary.Rd | 7 - man/localtest.Rd | 8 - man/locstppm.Rd | 9 + man/plot.globaldiag.Rd |only man/plot.lista.Rd | 2 man/plot.localdiag.Rd | 6 - man/plot.localtest.Rd | 7 - man/plot.locstppm.Rd | 6 - man/plot.sepstlppm.Rd | 2 man/plot.sepstppm.Rd | 2 man/plot.stcov.Rd | 2 man/plot.stlgcppm.Rd | 2 man/plot.stlp.Rd | 2 man/plot.stlpm.Rd | 2 man/plot.stp.Rd | 2 man/plot.stpm.Rd | 2 man/plot.stppm.Rd | 5 man/print.globaldiag.Rd |only man/print.lista.Rd | 2 man/print.localdiag.Rd | 5 man/print.localtest.Rd | 7 - man/print.locstppm.Rd | 6 - man/print.sepstlppm.Rd | 2 man/print.sepstppm.Rd | 2 man/print.stcov.Rd | 2 man/print.stlgcppm.Rd | 2 man/print.stlp.Rd | 2 man/print.stlpm.Rd | 2 man/print.stp.Rd | 2 man/print.stpm.Rd | 2 man/print.stppm.Rd | 6 - man/rETASlp.Rd | 10 - man/rETASp.Rd | 11 -- man/rstlpp.Rd | 11 -- man/rstpp.Rd | 18 +-- man/sepstlppm.Rd | 2 man/sepstppm.Rd | 2 man/stcov.Rd | 14 ++ man/stlgcppm.Rd | 6 - man/stp.Rd | 4 man/stpm.Rd | 2 man/stppm.Rd | 14 +- man/summary.globaldiag.Rd |only man/summary.lista.Rd | 2 man/summary.localdiag.Rd | 5 man/summary.localtest.Rd | 7 - man/summary.locstppm.Rd | 6 - man/summary.sepstlppm.Rd | 2 man/summary.sepstppm.Rd | 2 man/summary.stcov.Rd | 2 man/summary.stlgcppm.Rd | 2 man/summary.stlp.Rd | 2 man/summary.stlpm.Rd | 5 man/summary.stp.Rd | 2 man/summary.stpm.Rd | 3 man/summary.stppm.Rd | 6 - 128 files changed, 715 insertions(+), 763 deletions(-)
Title: Fitting Bayesian Poisson Regression
Description: Posterior sampling and inference for Bayesian Poisson regression models. The model specification makes use of Gaussian (or conditionally Gaussian) prior distributions on the regression coefficients. Details on the algorithm are found in D'Angelo and Canale (2023) <doi:10.1080/10618600.2022.2123337>.
Author: Laura D'Angelo
Maintainer: Laura D'Angelo <laura.dangelo@live.com>
Diff between bpr versions 1.0.7 dated 2024-01-18 and 1.0.8 dated 2024-04-16
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/commonfunctions.cpp | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Optimized Integer Risk Score Models
Description: Implements an optimized approach to learning risk score models, where sparsity and integer constraints are integrated into the model-fitting process.
Author: Hannah Eglinton [aut, cre],
Alice Paul [aut, cph],
Oscar Yan [aut],
R Core Team [ctb, cph] ,
Robert Gentleman [ctb, cph] ,
Ross Ihaka [ctb, cph] ,
Simon Davies [ctb] ),
Thomas Lumley [ctb] )
Maintainer: Hannah Eglinton <eglintonh@gmail.com>
Diff between riskscores versions 1.0.2 dated 2023-12-14 and 1.1.0 dated 2024-04-16
DESCRIPTION | 6 MD5 | 36 ++-- NAMESPACE | 3 R/cv_risk_mod.R | 55 +++--- R/generic.R | 22 +- R/helpers.R | 327 +++++++++++++++++++++++++++++++++------- R/risk_mod.R | 51 +++++- R/utils.R | 69 ++++++++ README.md | 8 inst/doc/riskscores.R | 17 +- inst/doc/riskscores.Rmd | 31 ++- inst/doc/riskscores.html | 215 ++++++++++++++------------ man/cv_risk_mod.Rd | 13 + man/cv_risk_mod_random_start.Rd |only man/get_metrics.Rd | 24 ++ man/get_metrics_internal.Rd |only man/get_score.Rd |only man/risk_mod.Rd | 11 + man/risk_mod_random_start.Rd |only man/stratify_folds.Rd | 4 vignettes/riskscores.Rmd | 31 ++- 21 files changed, 672 insertions(+), 251 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291> and Hothorn (2020)
<DOI:10.18637/jss.v092.i01>.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 1.5-0 dated 2023-12-14 and 1.5-1 dated 2024-04-16
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/R.R | 8 +++----- build/partial.rdb |binary inst/NEWS.Rd | 8 ++++++++ tests/bugfixes.R | 8 ++++++++ tests/bugfixes.Rout.save | 15 ++++++++++++--- tests/glm-Ex.Rout.save | 9 +++------ 8 files changed, 45 insertions(+), 25 deletions(-)
Title: Linear Mixed Model Solver
Description: An efficient and flexible system to solve sparse mixed model
equations. Important applications are the use of splines to model spatial or temporal
trends as described in Boer (2023). (<doi:10.1177/1471082X231178591>).
Author: Martin Boer [aut] ,
Bart-Jan van Rossum [aut, cre]
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between LMMsolver versions 1.0.6 dated 2023-11-27 and 1.0.7 dated 2024-04-16
LMMsolver-1.0.6/LMMsolver/src/NodeList.cpp |only LMMsolver-1.0.6/LMMsolver/src/NodeList.h |only LMMsolver-1.0.7/LMMsolver/DESCRIPTION | 10 LMMsolver-1.0.7/LMMsolver/MD5 | 84 - LMMsolver-1.0.7/LMMsolver/NEWS.md | 10 LMMsolver-1.0.7/LMMsolver/R/LMMsolve-class.R | 9 LMMsolver-1.0.7/LMMsolver/R/LMMsolve.R | 58 - LMMsolver-1.0.7/LMMsolver/R/LMMsolver.R | 4 LMMsolver-1.0.7/LMMsolver/R/RcppExports.R | 36 LMMsolver-1.0.7/LMMsolver/R/constructRinv.R | 5 LMMsolver-1.0.7/LMMsolver/R/obtainSmoothTrend.R | 8 LMMsolver-1.0.7/LMMsolver/R/predictFunctions.R | 119 +- LMMsolver-1.0.7/LMMsolver/R/sparseMixedModels.R | 95 - LMMsolver-1.0.7/LMMsolver/R/spl1D.R | 11 LMMsolver-1.0.7/LMMsolver/R/spl2D.R | 20 LMMsolver-1.0.7/LMMsolver/R/spl3D.R | 20 LMMsolver-1.0.7/LMMsolver/R/utils.R | 38 LMMsolver-1.0.7/LMMsolver/build/partial.rdb |binary LMMsolver-1.0.7/LMMsolver/build/vignette.rds |binary LMMsolver-1.0.7/LMMsolver/inst/doc/Solving_Linear_Mixed_Models.html | 4 LMMsolver-1.0.7/LMMsolver/inst/tinytest/GLMMFull |only LMMsolver-1.0.7/LMMsolver/inst/tinytest/LMMsolve0 |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/LMMsolve1 |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/LMMsolve2 |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/LMMsolve3 |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/LMMsolve4 |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/LMMsolve5 |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/cfFull |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/gam1DFull |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/spl1DFull |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/spl2DFull |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/spl3DFull |binary LMMsolver-1.0.7/LMMsolver/inst/tinytest/test_GLMM.R |only LMMsolver-1.0.7/LMMsolver/inst/tinytest/test_spl1D.R | 5 LMMsolver-1.0.7/LMMsolver/inst/tinytest/test_spl2D.R | 4 LMMsolver-1.0.7/LMMsolver/inst/tinytest/test_spl3D.R | 6 LMMsolver-1.0.7/LMMsolver/man/LMMsolveObject.Rd | 3 LMMsolver-1.0.7/LMMsolver/man/LMMsolver.Rd | 10 LMMsolver-1.0.7/LMMsolver/man/spl1D.Rd | 6 LMMsolver-1.0.7/LMMsolver/src/ADcholesky.cpp | 564 +--------- LMMsolver-1.0.7/LMMsolver/src/AuxFun.cpp | 58 - LMMsolver-1.0.7/LMMsolver/src/AuxFun.h | 17 LMMsolver-1.0.7/LMMsolver/src/RcppExports.cpp | 98 - LMMsolver-1.0.7/LMMsolver/src/SparseMatrix.cpp | 170 --- LMMsolver-1.0.7/LMMsolver/src/cholesky.cpp |only LMMsolver-1.0.7/LMMsolver/src/cholesky.h |only 46 files changed, 543 insertions(+), 929 deletions(-)
Title: Analysis of Music and Speech
Description: Analyze music and speech, extract features like MFCCs, handle wave files and their representation in various ways, read mp3, read midi, perform steps of a transcription, ...
Also contains functions ported from the 'rastamat' 'Matlab' package.
Author: Uwe Ligges [aut, cre, cph] ,
Sebastian Krey [aut, cph],
Olaf Mersmann [aut, cph],
Sarah Schnackenberg [aut, cph],
Guillaume Guenard [aut, cph] ,
Daniel P. W. Ellis [aut, cph] ,
Underbit Technologies [aut, cph] ,
Andrea Preusser [ctb],
Anita Thieler [ [...truncated...]
Maintainer: Uwe Ligges <ligges@statistik.tu-dortmund.de>
Diff between tuneR versions 1.4.6 dated 2023-11-27 and 1.4.7 dated 2024-04-16
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/plot-Wspec.R | 11 ++++++++--- man/dolpc.Rd | 2 +- man/plot-Wspec.Rd | 2 +- man/plot-WspecMat.Rd | 4 ++-- 6 files changed, 21 insertions(+), 16 deletions(-)
Title: Bayesian Spatial Analysis
Description: For Bayesian inference with spatial data, provides exploratory spatial analysis tools, multiple spatial model specifications, spatial model diagnostics, and special methods for inference with small area survey data (e.g., the America Community Survey (ACS)) and censored population health surveillance data. Models are pre-specified using the Stan programming language, a platform for Bayesian inference using Markov chain Monte Carlo (MCMC). References: Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>; Donegan (2021) <doi:10.31219/osf.io/3ey65>; Donegan (2022) <doi:10.21105/joss.04716>; Donegan, Chun and Hughes (2020) <doi:10.1016/j.spasta.2020.100450>; Donegan, Chun and Griffith (2021) <doi:10.3390/ijerph18136856>; Morris et al. (2019) <doi:10.1016/j.sste.2019.100301>.
Author: Connor Donegan [aut, cre] ,
Mitzi Morris [ctb],
Amy Tims [ctb]
Maintainer: Connor Donegan <connor.donegan@gmail.com>
Diff between geostan versions 0.5.4 dated 2024-03-03 and 0.6.0 dated 2024-04-16
DESCRIPTION | 14 MD5 | 70 NEWS.md | 15 R/convenience-functions.R | 11 R/geostan_fit-methods.R | 4 R/internal-functions.R | 29 R/prep-censored-data.R | 21 R/stan_car.R | 41 R/stan_esf.R | 36 R/stan_glm.R | 52 R/stan_icar.R | 38 R/stan_sar.R | 42 README.md | 209 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/custom-spatial-models.Rmd | 5 inst/doc/custom-spatial-models.html | 4 inst/doc/measuring-sa.html | 18 inst/doc/raster-regression.html | 52 inst/doc/spatial-me-models.html | 16 inst/stan/parts/data.stan | 4 inst/stan/parts/gen_quants_declaration.stan | 2 inst/stan/parts/gen_quants_expression.stan | 10 inst/stan/parts/model.stan | 13 man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |only man/print_geostan_fit.Rd | 8 man/stan_car.Rd | 2 man/stan_esf.Rd | 2 man/stan_glm.Rd | 7 man/stan_icar.Rd | 2 man/stan_sar.Rd | 2 src/stanExports_foundation.h | 2057 ++++++++++++++-------------- tests/testthat/test-missing-y.R |only tests/testthat/test-stan-glm.R | 2 vignettes/custom-spatial-models.Rmd | 5 37 files changed, 1501 insertions(+), 1292 deletions(-)
Title: Flexible Odds Ratio Curves
Description: Provides flexible odds ratio curves that enable modeling non-linear relationships between continuous predictors and binary outcomes. This package facilitates a deeper understanding of the impact of each continuous predictor on the outcome by presenting results in terms of odds ratio (OR) curves based on splines. These curves allow for comparison against a specified reference value, aiding in the interpretation of the predictor's effect.
Author: Marta Azevedo [aut, cre] ,
Luis Meira-Machado [aut] ,
Artur Araujo [aut]
Maintainer: Marta Azevedo <marta.vasconcelos4@gmail.com>
Diff between flexOR versions 0.9.6 dated 2024-03-26 and 1.0.0 dated 2024-04-16
DESCRIPTION | 8 - MD5 | 20 ++-- NAMESPACE | 1 R/dfgam.R | 180 ++++++++++++++++++++------------------------ R/plot.OR.R | 20 +++- R/predict.OR.R | 2 inst/doc/main_vignette.html | 12 +- man/dfgam.Rd | 8 + man/flexOR-package.Rd | 2 man/plot.OR.Rd | 5 - man/predict.OR.Rd | 2 11 files changed, 128 insertions(+), 132 deletions(-)
Title: Classification Using Binary Procrustes Rotation
Description: Implements a classification method described by Grice (2011, ISBN:978-0-12-385194-9) using
binary procrustes rotation; a simplified version of procrustes rotation.
Author: Timothy Beechey [aut, cre]
Maintainer: Timothy Beechey <tim.beechey@proton.me>
Diff between clubpro versions 0.6.0 dated 2024-03-12 and 0.6.1 dated 2024-04-16
DESCRIPTION | 6 +-- MD5 | 25 +++++++------ NAMESPACE | 6 +++ NEWS.md | 7 ++- R/classify.R | 2 + R/clubpro-package.R | 5 ++ R/pcc.R | 2 - R/threshold.R |only inst/doc/clubpro.R | 14 +++++-- inst/doc/clubpro.Rmd | 32 ++++++++++++----- inst/doc/clubpro.html | 80 +++++++++++++++++++++++++++---------------- man/plot.clubprothreshold.Rd |only man/threshold.Rd |only src/cpp_functions.cpp | 2 - vignettes/clubpro.Rmd | 32 ++++++++++++----- 15 files changed, 145 insertions(+), 68 deletions(-)
Title: Classification Based on Association Rules
Description: Provides the infrastructure for association rule-based classification including the algorithms
CBA, CMAR, CPAR, C4.5, FOIL, PART, PRM, RCAR, and RIPPER to build associative classifiers.
Hahsler et al (2019) <doi:10.32614/RJ-2019-048>.
Author: Michael Hahsler [aut, cre, cph]
,
Ian Johnson [aut, cph],
Tyler Giallanza [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between arulesCBA versions 1.2.5 dated 2022-08-19 and 1.2.6 dated 2024-04-16
DESCRIPTION | 10 +-- MD5 | 72 ++++++++++++------------ NEWS.md | 6 ++ R/AAA_arulesCBA-package.R | 13 ---- R/CBA.R | 3 - R/CBA_helpers.R | 43 +++++++++++--- R/CBA_ruleset.R | 5 + R/FOIL.R | 1 R/LUCS_KDD_CBA.R | 6 +- R/RCAR.R | 108 +++++++++++++++++++++++++++--------- R/RWeka_CBA.R | 7 +- R/discretizeDF.supervised.R | 1 R/formula_helpers.R | 2 R/mineCARs.R | 10 ++- R/predict.R | 2 R/prepareTransactions.R | 56 ++++++++++++++----- R/transactions2DF.R | 4 + README.md | 100 +++++++++++++++++---------------- build/partial.rdb |binary data/Lymphography.rda |binary data/Mushroom.rda |binary inst/CITATION | 4 + man/CBA.Rd | 9 ++- man/CBA_helpers.Rd | 15 ++++- man/CBA_ruleset.Rd | 18 +++++- man/FOIL.Rd | 10 +++ man/LUCS_KDD_CBA.Rd | 13 +++- man/RCAR.Rd | 89 +++++++++++++++++++++++------- man/RWeka_CBA.Rd | 15 ++++- man/arulesCBA-package.Rd | 27 +++++++-- man/discretizeDF.supervised.Rd | 7 ++ man/mineCARs.Rd | 16 ++++- man/predict.CBA.Rd | 1 man/prepareTransactions.Rd | 32 +++++++++- man/transactions2DF.Rd | 10 +++ tests/testthat/test-CBA_helpers.R | 112 +++++++++++++++++++++++++++++++++++--- tests/testthat/test-RCAR.R | 11 ++- 37 files changed, 620 insertions(+), 218 deletions(-)
Title: Extract and Analyze Rivers from Elevation Data
Description: Seamless extraction of river networks from digital
elevation models data. The package allows analysis of digital
elevation models that can be either externally provided or
downloaded from open source repositories (thus interfacing
with the 'elevatr' package). Extraction is performed via the
'D8' flow direction algorithm of TauDEM (Terrain Analysis Using
Digital Elevation Models), thus interfacing with the 'traudem'
package. Resulting river networks are compatible with functions
from the 'OCNet' package. See Carraro (2023)
<doi:10.5194/hess-27-3733-2023> for a presentation of the package.
Author: Luca Carraro [cre, aut],
University of Zurich [cph, fnd]
Maintainer: Luca Carraro <luca.carraro@hotmail.it>
Diff between rivnet versions 0.4.0 dated 2024-01-09 and 0.4.1 dated 2024-04-16
DESCRIPTION | 7 ++++--- MD5 | 12 ++++++------ NEWS.md | 8 ++++++++ R/extract_river.R | 10 ++++++---- inst/doc/rivnet.R | 4 ++-- inst/doc/rivnet.html | 41 +++++++++++++++++++++-------------------- man/plot.Rd | 8 +++++--- 7 files changed, 52 insertions(+), 38 deletions(-)
Title: Adverse Events Analysis Using 'metalite'
Description: Analyzes adverse events in clinical trials using the 'metalite'
data structure. The package simplifies the workflow to create
production-ready tables, listings, and figures discussed in the
adverse events analysis chapters of
"R for Clinical Study Reports and Submission"
by Zhang et al. (2022) <https://r4csr.org/>.
Author: Yilong Zhang [aut],
Yujie Zhao [aut, cre],
Benjamin Wang [aut],
Nan Xiao [aut],
Sarad Nepal [aut],
Madhusudhan Ginnaram [aut],
Venkatesh Burla [ctb],
Ruchitbhai Patel [aut],
Brian Lang [aut],
Xuan Deng [aut],
Hiroaki Fukuda [aut],
Bing Liu [aut],
Mer [...truncated...]
Maintainer: Yujie Zhao <yujie.zhao@merck.com>
Diff between metalite.ae versions 0.1.1 dated 2023-02-24 and 0.1.2 dated 2024-04-16
metalite.ae-0.1.1/metalite.ae/R/n_subject.R |only metalite.ae-0.1.1/metalite.ae/R/rate_compare_sum.R |only metalite.ae-0.1.1/metalite.ae/R/rtf_output.R |only metalite.ae-0.1.1/metalite.ae/R/to_mock.R |only metalite.ae-0.1.1/metalite.ae/R/to_sentence.R |only metalite.ae-0.1.1/metalite.ae/tests/testthat/Rplots.pdf |only metalite.ae-0.1.2/metalite.ae/DESCRIPTION | 19 metalite.ae-0.1.2/metalite.ae/MD5 | 172 +-- metalite.ae-0.1.2/metalite.ae/NAMESPACE | 15 metalite.ae-0.1.2/metalite.ae/NEWS.md | 37 metalite.ae-0.1.2/metalite.ae/R/avg.R |only metalite.ae-0.1.2/metalite.ae/R/data.R |only metalite.ae-0.1.2/metalite.ae/R/extend_ae_specific.R | 63 - metalite.ae-0.1.2/metalite.ae/R/extend_ae_summary_eaer.R |only metalite.ae-0.1.2/metalite.ae/R/fmt.R | 31 metalite.ae-0.1.2/metalite.ae/R/format_ae_exp_adj.R |only metalite.ae-0.1.2/metalite.ae/R/format_ae_specific.R | 44 metalite.ae-0.1.2/metalite.ae/R/format_ae_specific_subgroup.R |only metalite.ae-0.1.2/metalite.ae/R/meta_ae_example.R | 30 metalite.ae-0.1.2/metalite.ae/R/outdata.R |only metalite.ae-0.1.2/metalite.ae/R/prepare_ae_listing.R | 7 metalite.ae-0.1.2/metalite.ae/R/prepare_ae_specific.R | 78 - metalite.ae-0.1.2/metalite.ae/R/prepare_ae_specific_subgroup.R | 124 -- metalite.ae-0.1.2/metalite.ae/R/prepare_ae_summary.R | 35 metalite.ae-0.1.2/metalite.ae/R/rate_compare.R | 261 ++++ metalite.ae-0.1.2/metalite.ae/R/tlf_ae_exp_adj.R |only metalite.ae-0.1.2/metalite.ae/R/tlf_ae_listing.R | 6 metalite.ae-0.1.2/metalite.ae/R/tlf_ae_specific.R | 19 metalite.ae-0.1.2/metalite.ae/R/tlf_ae_specific_subgroup.R |only metalite.ae-0.1.2/metalite.ae/R/tlf_ae_summary.R | 14 metalite.ae-0.1.2/metalite.ae/R/utility.R |only metalite.ae-0.1.2/metalite.ae/README.md | 93 + metalite.ae-0.1.2/metalite.ae/build/vignette.rds |binary metalite.ae-0.1.2/metalite.ae/data |only metalite.ae-0.1.2/metalite.ae/inst/doc/ae-listing.R | 13 metalite.ae-0.1.2/metalite.ae/inst/doc/ae-listing.Rmd | 44 metalite.ae-0.1.2/metalite.ae/inst/doc/ae-listing.html | 201 +-- metalite.ae-0.1.2/metalite.ae/inst/doc/ae-specific-subgroup.R |only metalite.ae-0.1.2/metalite.ae/inst/doc/ae-specific-subgroup.Rmd |only metalite.ae-0.1.2/metalite.ae/inst/doc/ae-specific-subgroup.html |only metalite.ae-0.1.2/metalite.ae/inst/doc/ae-specific.R | 17 metalite.ae-0.1.2/metalite.ae/inst/doc/ae-specific.Rmd | 90 - metalite.ae-0.1.2/metalite.ae/inst/doc/ae-specific.html | 550 +++++----- metalite.ae-0.1.2/metalite.ae/inst/doc/ae-summary.R | 15 metalite.ae-0.1.2/metalite.ae/inst/doc/ae-summary.Rmd | 82 - metalite.ae-0.1.2/metalite.ae/inst/doc/ae-summary.html | 441 ++++---- metalite.ae-0.1.2/metalite.ae/inst/doc/exposure-adjusted-event-rate.R |only metalite.ae-0.1.2/metalite.ae/inst/doc/exposure-adjusted-event-rate.Rmd |only metalite.ae-0.1.2/metalite.ae/inst/doc/exposure-adjusted-event-rate.html |only metalite.ae-0.1.2/metalite.ae/inst/doc/metalite-ae.R | 9 metalite.ae-0.1.2/metalite.ae/inst/doc/metalite-ae.Rmd | 69 - metalite.ae-0.1.2/metalite.ae/inst/doc/metalite-ae.html | 94 - metalite.ae-0.1.2/metalite.ae/inst/doc/rate-compare.R | 4 metalite.ae-0.1.2/metalite.ae/inst/doc/rate-compare.html | 48 metalite.ae-0.1.2/metalite.ae/man/extend_ae_specific_duration.Rd | 6 metalite.ae-0.1.2/metalite.ae/man/extend_ae_specific_events.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/extend_ae_specific_inference.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/extend_ae_specific_subgroup.Rd |only metalite.ae-0.1.2/metalite.ae/man/extend_ae_summary_eaer.Rd |only metalite.ae-0.1.2/metalite.ae/man/fmt_est.Rd | 13 metalite.ae-0.1.2/metalite.ae/man/fmt_pval.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/format_ae_exp_adj.Rd |only metalite.ae-0.1.2/metalite.ae/man/format_ae_specific.Rd | 14 metalite.ae-0.1.2/metalite.ae/man/format_ae_specific_subgroup.Rd |only metalite.ae-0.1.2/metalite.ae/man/format_ae_summary.Rd | 14 metalite.ae-0.1.2/metalite.ae/man/meta_ae_example.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/metalite.ae-package.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/metalite_ae_adex.Rd |only metalite.ae-0.1.2/metalite.ae/man/prepare_ae_listing.Rd | 6 metalite.ae-0.1.2/metalite.ae/man/prepare_ae_specific.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/prepare_ae_specific_subgroup.Rd | 27 metalite.ae-0.1.2/metalite.ae/man/prepare_ae_summary.Rd | 6 metalite.ae-0.1.2/metalite.ae/man/rate_compare.Rd | 6 metalite.ae-0.1.2/metalite.ae/man/rate_compare_sum.Rd | 2 metalite.ae-0.1.2/metalite.ae/man/tlf_ae_exp_adj.Rd |only metalite.ae-0.1.2/metalite.ae/man/tlf_ae_listing.Rd | 8 metalite.ae-0.1.2/metalite.ae/man/tlf_ae_specific.Rd | 9 metalite.ae-0.1.2/metalite.ae/man/tlf_ae_specific_subgroup.Rd |only metalite.ae-0.1.2/metalite.ae/man/tlf_ae_summary.Rd | 8 metalite.ae-0.1.2/metalite.ae/tests/testthat.R | 3 metalite.ae-0.1.2/metalite.ae/tests/testthat/helper-extend_ae_summary_eaer.R |only metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-avg_duration.R | 35 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-avg_event.R | 44 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-extend_ae_summary_eaer.R |only metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-fmt_pval.R | 22 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-format_ae-specific-subgroup.R |only metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-meta_ae_dummy.R | 2 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-n_subject.R | 20 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-prepare_ae_listing.R | 18 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-prepare_ae_specificr.R | 187 +-- metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-prepare_ae_summary.R | 528 ++++----- metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-tlf_ae_exp_adj.R |only metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-tlf_ae_specific.R | 157 -- metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-tlf_ae_specific_subgroup.R |only metalite.ae-0.1.2/metalite.ae/tests/testthat/test-independent-testing-tlf_ae_summary.R | 3 metalite.ae-0.1.2/metalite.ae/tests/testthat/test-test-independent-testing-fmt_est.R | 2 metalite.ae-0.1.2/metalite.ae/vignettes/ae-listing.Rmd | 44 metalite.ae-0.1.2/metalite.ae/vignettes/ae-specific-subgroup.Rmd |only metalite.ae-0.1.2/metalite.ae/vignettes/ae-specific.Rmd | 90 - metalite.ae-0.1.2/metalite.ae/vignettes/ae-summary.Rmd | 82 - metalite.ae-0.1.2/metalite.ae/vignettes/exposure-adjusted-event-rate.Rmd |only metalite.ae-0.1.2/metalite.ae/vignettes/metalite-ae.Rmd | 69 - metalite.ae-0.1.2/metalite.ae/vignettes/pdf/ae0specific0sub0gender1.pdf |only metalite.ae-0.1.2/metalite.ae/vignettes/rtf/ae0specific0sub0gender1.rtf |only metalite.ae-0.1.2/metalite.ae/vignettes/rtf/ae0specific1.rtf | 160 +- metalite.ae-0.1.2/metalite.ae/vignettes/rtf/ae0specific2.rtf | 366 +++--- 106 files changed, 2531 insertions(+), 2157 deletions(-)
Title: Libraries, Data Dictionaries, and a Data Step for R
Description: Contains a set of functions to create data libraries,
generate data dictionaries, and simulate a data step.
The libname() function will load a directory of data into
a library in one line of code. The dictionary() function
will generate data dictionaries for individual
data frames or an entire library. And the datestep() function
will perform row-by-row data processing.
Author: David J. Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between libr versions 1.3.1 dated 2024-03-07 and 1.3.2 dated 2024-04-16
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 3 +++ R/utilities.R | 2 +- tests/testthat/test-libname.R | 2 +- tests/testthat/test-utilities.R | 12 ++++++++++++ 6 files changed, 25 insertions(+), 10 deletions(-)
Title: Estimating the Age using Auricular Surface by DNE
Description: The age is estimated by calculating the Dirichlet Normal Energy (DNE) on the whole auricular surface and the apex of the auricular surface. It involves three estimation methods: principal component discriminant analysis (PCQDA), principal component regression analysis (PCR), and principal component logistic regression analysis (PCLR) methods. The package is created with the data from the Louis Lopes Collection in Lisbon, the 21st Century Identified Human Remains Collection in Coimbra, and the CAL Milano Cemetery Skeletal Collection in Milan.
Author: Jisun Jang [aut, cre]
Maintainer: Jisun Jang <jisun.jang.19@ucl.ac.uk>
Diff between JSDNE versions 4.2.2 dated 2024-02-29 and 4.3.2 dated 2024-04-16
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- R/PCLR_result.R | 7 ++++--- R/PCQDA_result.R | 5 +++-- R/PCR_result.R | 19 ++++++++----------- R/data_PCR.R | 4 ++-- data/data_PCLR.rda |binary data/data_PCQDA.rda |binary data/data_PCR.rda |binary man/data_PCLR.Rd | 2 +- man/data_PCQDA.Rd | 2 +- man/data_PCR.Rd | 4 ++-- 12 files changed, 35 insertions(+), 36 deletions(-)
Title: Multiscale Codependence Analysis
Description: Computation of Multiscale Codependence Analysis and spatial eigenvector maps.
Author: Guillaume Guenard and Pierre Legendre, Bertrand Pages
Maintainer: Guillaume Guenard <guillaume.guenard@gmail.com>
Diff between codep versions 0.9-1 dated 2018-05-16 and 1.2-3 dated 2024-04-16
codep-0.9-1/codep/R/Auxiliary.R |only codep-0.9-1/codep/R/gcd.R |only codep-0.9-1/codep/R/mca.R |only codep-0.9-1/codep/data/Mite.rda |only codep-0.9-1/codep/data/Salmon.rda |only codep-0.9-1/codep/man/Mite.Rd |only codep-0.9-1/codep/man/Salmon.Rd |only codep-0.9-1/codep/man/gcd.Rd |only codep-0.9-1/codep/man/mca.Rd |only codep-0.9-1/codep/src/registerDynamicSymbol.c |only codep-1.2-3/codep/DESCRIPTION | 17 - codep-1.2-3/codep/MD5 | 70 ++-- codep-1.2-3/codep/NAMESPACE | 80 +++- codep-1.2-3/codep/R/Doubs.R |only codep-1.2-3/codep/R/Euclid.R |only codep-1.2-3/codep/R/LGDat.R |only codep-1.2-3/codep/R/LGTransforms.R |only codep-1.2-3/codep/R/MCA.R |only codep-1.2-3/codep/R/cdp-class.R |only codep-1.2-3/codep/R/codep-package.R |only codep-1.2-3/codep/R/cthreshold.R |only codep-1.2-3/codep/R/eigenmap-class.R |only codep-1.2-3/codep/R/eigenmap.R | 418 +++++++++++++++++--------- codep-1.2-3/codep/R/geodesics.R |only codep-1.2-3/codep/R/minpermute.R |only codep-1.2-3/codep/R/mite.R |only codep-1.2-3/codep/R/product-distributions.R |only codep-1.2-3/codep/R/salmon.R |only codep-1.2-3/codep/R/weighting-functions.R |only codep-1.2-3/codep/README.md |only codep-1.2-3/codep/build/partial.rdb |binary codep-1.2-3/codep/data/LGDat.rda |only codep-1.2-3/codep/data/mite.rda |only codep-1.2-3/codep/data/salmon.rda |only codep-1.2-3/codep/man/Doubs.Rd | 94 +++-- codep-1.2-3/codep/man/Euclid.Rd |only codep-1.2-3/codep/man/LGDat.Rd |only codep-1.2-3/codep/man/LGTransforms.Rd |only codep-1.2-3/codep/man/MCA.Rd |only codep-1.2-3/codep/man/cdp-class.Rd | 239 ++++++++------ codep-1.2-3/codep/man/codep-package.Rd | 212 ++++++------- codep-1.2-3/codep/man/cthreshold.Rd | 68 ++-- codep-1.2-3/codep/man/eigenmap-class.Rd | 103 +++--- codep-1.2-3/codep/man/eigenmap.Rd | 390 +++++++++++------------- codep-1.2-3/codep/man/geodesics.Rd |only codep-1.2-3/codep/man/minpermute.Rd | 90 ++--- codep-1.2-3/codep/man/mite.Rd |only codep-1.2-3/codep/man/product-distribution.Rd | 173 +++++----- codep-1.2-3/codep/man/salmon.Rd |only codep-1.2-3/codep/man/weighting-functions.Rd |only codep-1.2-3/codep/src/LGTransforms.c |only codep-1.2-3/codep/src/LGTransforms.h |only codep-1.2-3/codep/src/codep.c | 42 +- codep-1.2-3/codep/src/codep.h | 46 ++ codep-1.2-3/codep/src/geodists.c |only codep-1.2-3/codep/src/geodists.h |only codep-1.2-3/codep/src/init.c |only 57 files changed, 1176 insertions(+), 866 deletions(-)
Title: Accessing Spatial Basemaps in R
Description: A lightweight package to access spatial basemaps from open sources such as 'OpenStreetMap', 'Carto', 'Mapbox' and others in R.
Author: Jakob Schwalb-Willmann [aut, cre]
Maintainer: Jakob Schwalb-Willmann <dev@schwalb-willmann.de>
Diff between basemaps versions 0.0.6 dated 2024-03-03 and 0.0.7 dated 2024-04-16
basemaps-0.0.6/basemaps/tests/testthat/Rplots.pdf |only basemaps-0.0.7/basemaps/DESCRIPTION | 10 +-- basemaps-0.0.7/basemaps/MD5 | 27 ++++----- basemaps-0.0.7/basemaps/NEWS.md | 13 ++++ basemaps-0.0.7/basemaps/R/basemap.R | 1 basemaps-0.0.7/basemaps/R/get_maptypes.R | 2 basemaps-0.0.7/basemaps/R/internal.R | 3 + basemaps-0.0.7/basemaps/R/plot.R | 20 +++++- basemaps-0.0.7/basemaps/README.md | 2 basemaps-0.0.7/basemaps/man/basemap.Rd | 1 basemaps-0.0.7/basemaps/man/get_maptypes.Rd | 2 basemaps-0.0.7/basemaps/man/plot.Rd | 2 basemaps-0.0.7/basemaps/tests/testthat/helper-vars.R | 9 ++- basemaps-0.0.7/basemaps/tests/testthat/test-basemap.R | 53 ++++++++++++------ basemaps-0.0.7/basemaps/tests/testthat/test-plot.R | 5 + 15 files changed, 103 insertions(+), 47 deletions(-)
Title: Optimal Channel Networks
Description: Generate and analyze Optimal Channel Networks (OCNs):
oriented spanning trees reproducing all scaling features characteristic
of real, natural river networks. As such, they can be used in a variety
of numerical experiments in the fields of hydrology, ecology and
epidemiology. See Carraro et al. (2020) <doi:10.1002/ece3.6479>
for a presentation of the package; Rinaldo et al. (2014)
<doi:10.1073/pnas.1322700111> for a theoretical overview on the OCN
concept; Furrer and Sain (2010) <doi:10.18637/jss.v036.i10> for the
construct used.
Author: Luca Carraro [aut, cre],
Florian Altermatt [ctb],
Emanuel A. Fronhofer [ctb],
Reinhard Furrer [ctb],
Isabelle Gounand [ctb],
Andrea Rinaldo [ctb],
Enrico Bertuzzo [aut]
Maintainer: Luca Carraro <luca.carraro@hotmail.it>
Diff between OCNet versions 1.2.1 dated 2023-11-23 and 1.2.2 dated 2024-04-16
DESCRIPTION | 7 MD5 | 20 +- NEWS.md | 9 + R/create_OCN.R | 2 R/draw_contour_OCN.R | 15 + R/draw_simple_OCN.R | 11 + inst/doc/OCNet.R | 22 +- inst/doc/OCNet.html | 404 ++++++++++++++++++++++++------------------------ man/draw_contour_OCN.Rd | 6 man/draw_simple_OCN.Rd | 4 man/plot.Rd | 8 11 files changed, 274 insertions(+), 234 deletions(-)
Title: Visualization of Clonal Expansion for Single Cell Immune
Profiles
Description: Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles. The method was originally implemented by Murray Christian and Ben Murrell in the following immunology study: Ma et al. (2021) <doi:10.1126/sciimmunol.abg6356>.
Author: Qile Yang [cre, aut, cph]
Maintainer: Qile Yang <qile.yang@berkeley.edu>
Diff between APackOfTheClones versions 1.1.0 dated 2024-04-05 and 1.2.0 dated 2024-04-16
APackOfTheClones-1.1.0/APackOfTheClones/data/mini_clonotype_data.rda |only APackOfTheClones-1.1.0/APackOfTheClones/data/mini_seurat_obj.rda |only APackOfTheClones-1.1.0/APackOfTheClones/man/mini_clonotype_data.Rd |only APackOfTheClones-1.1.0/APackOfTheClones/man/mini_seurat_obj.Rd |only APackOfTheClones-1.1.0/APackOfTheClones/src/exportedMathUtils.cpp |only APackOfTheClones-1.1.0/APackOfTheClones/tests/testthat/testdata/v0/SCIP.R |only APackOfTheClones-1.2.0/APackOfTheClones/DESCRIPTION | 8 APackOfTheClones-1.2.0/APackOfTheClones/MD5 | 128 +- APackOfTheClones-1.2.0/APackOfTheClones/NAMESPACE | 1 APackOfTheClones-1.2.0/APackOfTheClones/R/APOTCPlot.R | 37 APackOfTheClones-1.2.0/APackOfTheClones/R/AdjustAPOTC.R | 87 - APackOfTheClones-1.2.0/APackOfTheClones/R/ApotcClonalNetwork.R | 104 +- APackOfTheClones-1.2.0/APackOfTheClones/R/ApotcData.R | 280 ++++-- APackOfTheClones-1.2.0/APackOfTheClones/R/ApotcIndexing.R | 448 +++++----- APackOfTheClones-1.2.0/APackOfTheClones/R/Main_algo.R | 12 APackOfTheClones-1.2.0/APackOfTheClones/R/RcppExports.R | 8 APackOfTheClones-1.2.0/APackOfTheClones/R/Repulsion.R | 4 APackOfTheClones-1.2.0/APackOfTheClones/R/RunAPOTC.R | 56 - APackOfTheClones-1.2.0/APackOfTheClones/R/cluster_labels.R | 2 APackOfTheClones-1.2.0/APackOfTheClones/R/clusters.R | 60 - APackOfTheClones-1.2.0/APackOfTheClones/R/colors.R | 2 APackOfTheClones-1.2.0/APackOfTheClones/R/data.R | 64 - APackOfTheClones-1.2.0/APackOfTheClones/R/get_clone_sizes.R | 107 +- APackOfTheClones-1.2.0/APackOfTheClones/R/insert_legend.R | 16 APackOfTheClones-1.2.0/APackOfTheClones/R/plot_API.R | 280 +++--- APackOfTheClones-1.2.0/APackOfTheClones/R/showCloneHighlight.R | 15 APackOfTheClones-1.2.0/APackOfTheClones/R/typecheck.R | 61 + APackOfTheClones-1.2.0/APackOfTheClones/R/utils.R | 117 +- APackOfTheClones-1.2.0/APackOfTheClones/R/vizAPOTC.R | 16 APackOfTheClones-1.2.0/APackOfTheClones/inst/WORDLIST | 12 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-install.Rmd | 13 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-install.html | 28 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-runs.R | 2 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-runs.Rmd | 17 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-runs.html | 45 - APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-shared.Rmd | 8 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones-shared.html | 24 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones.R | 6 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones.Rmd | 8 APackOfTheClones-1.2.0/APackOfTheClones/inst/doc/APackOfTheClones.html | 10 APackOfTheClones-1.2.0/APackOfTheClones/man/APOTCPlot.Rd | 21 APackOfTheClones-1.2.0/APackOfTheClones/man/AdjustAPOTC.Rd | 24 APackOfTheClones-1.2.0/APackOfTheClones/man/RunAPOTC.Rd | 30 APackOfTheClones-1.2.0/APackOfTheClones/man/combined_pbmc.Rd | 2 APackOfTheClones-1.2.0/APackOfTheClones/man/countCloneSizes.Rd | 27 APackOfTheClones-1.2.0/APackOfTheClones/man/getSharedClones.Rd | 43 APackOfTheClones-1.2.0/APackOfTheClones/man/overlayLegend.Rd | 4 APackOfTheClones-1.2.0/APackOfTheClones/man/renameApotcRun.Rd |only APackOfTheClones-1.2.0/APackOfTheClones/man/showCloneHighlight.Rd | 5 APackOfTheClones-1.2.0/APackOfTheClones/man/vizAPOTC.Rd | 47 - APackOfTheClones-1.2.0/APackOfTheClones/src/APOTCPlotHelpers.cpp | 4 APackOfTheClones-1.2.0/APackOfTheClones/src/CirclePacker.h | 2 APackOfTheClones-1.2.0/APackOfTheClones/src/CloneLinkHelpers.cpp | 29 APackOfTheClones-1.2.0/APackOfTheClones/src/ClusterList.h | 10 APackOfTheClones-1.2.0/APackOfTheClones/src/RcppExports.cpp | 22 APackOfTheClones-1.2.0/APackOfTheClones/src/exportedUtils.cpp |only APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/helper-testFunctions.R | 10 APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-ApotcClonalNetwork.R | 68 + APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-ApotcData.R | 62 + APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-clusters.R | 7 APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-colors.R | 9 APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-get_clone_sizes.R | 69 + APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-typecheck.R | 16 APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/test-utils.R | 49 + APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/testdata/v0/mini_clonotype_data.rds |only APackOfTheClones-1.2.0/APackOfTheClones/tests/testthat/testdata/v0/mini_seurat_obj.rds |only APackOfTheClones-1.2.0/APackOfTheClones/vignettes/APackOfTheClones-install.Rmd | 13 APackOfTheClones-1.2.0/APackOfTheClones/vignettes/APackOfTheClones-runs.Rmd | 17 APackOfTheClones-1.2.0/APackOfTheClones/vignettes/APackOfTheClones-shared.Rmd | 8 APackOfTheClones-1.2.0/APackOfTheClones/vignettes/APackOfTheClones.Rmd | 8 70 files changed, 1701 insertions(+), 991 deletions(-)
More information about APackOfTheClones at CRAN
Permanent link
Title: Creation, Reading and Validation of 'mzqc' Files
Description: Reads, writes and validates 'mzQC' files. The 'mzQC' format is a
standardized file format for the exchange, transmission, and archiving of
quality metrics derived from biological mass spectrometry data, as defined
by the HUPO-PSI (Human Proteome Organisation - Proteomics Standards Initiative)
Quality Control working group.
See <https://hupo-psi.github.io/mzQC/> for details.
Author: Chris Bielow [aut, cre] ,
David Jimenez-Morales [rev, ctb]
Maintainer: Chris Bielow <chris.bielow@bsc.fu-berlin.de>
Diff between rmzqc versions 0.5.3 dated 2023-08-25 and 0.5.4 dated 2024-04-16
DESCRIPTION | 10 MD5 | 36 - NEWS.md | 4 R/mzQC.R | 1426 ++++++++++++++++++++-------------------- R/obo.R | 43 - R/validator.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/basic_guide.R | 4 inst/doc/basic_guide.html | 112 +-- inst/doc/using_a_custom_cv.R | 6 inst/doc/using_a_custom_cv.html | 120 +-- inst/doc/validation_guide.R | 6 inst/doc/validation_guide.html | 106 +- man/getCVDictionary.Rd | 5 man/getCVInfo.Rd | 6 man/getLatest_PSICV_URL.Rd | 3 man/validateFromString.Rd | 2 tests/testthat/test_obo.R | 10 19 files changed, 964 insertions(+), 939 deletions(-)
Title: Linear Mixed-Effects Models using 'Eigen' and S4
Description: Fit linear and generalized linear mixed-effects models.
The models and their components are represented using S4 classes and
methods. The core computational algorithms are implemented using the
'Eigen' C++ library for numerical linear algebra and 'RcppEigen' "glue".
Author: Douglas Bates [aut] ,
Martin Maechler [aut] ,
Ben Bolker [aut, cre] ,
Steven Walker [aut] ,
Rune Haubo Bojesen Christensen [ctb]
,
Henrik Singmann [ctb] ,
Bin Dai [ctb],
Fabian Scheipl [ctb] ,
Gabor Grothendieck [ctb],
Peter Green [ctb] ,
John Fox [c [...truncated...]
Maintainer: Ben Bolker <bbolker+lme4@gmail.com>
Diff between lme4 versions 1.1-35.2 dated 2024-03-28 and 1.1-35.3 dated 2024-04-16
lme4-1.1-35.2/lme4/tests/lmer-1.Rout.save |only lme4-1.1-35.2/lme4/tests/nlmer.Rout.save |only lme4-1.1-35.3/lme4/DESCRIPTION | 13 ++++--- lme4-1.1-35.3/lme4/MD5 | 18 ++++------- lme4-1.1-35.3/lme4/build/partial.rdb |binary lme4-1.1-35.3/lme4/build/vignette.rds |binary lme4-1.1-35.3/lme4/inst/NEWS.Rd | 12 ++++++- lme4-1.1-35.3/lme4/inst/doc/PLSvGLS.pdf |binary lme4-1.1-35.3/lme4/inst/doc/Theory.pdf |binary lme4-1.1-35.3/lme4/inst/doc/lmer.pdf |binary lme4-1.1-35.3/lme4/src/lme4CholmodDecomposition.h | 36 +--------------------- 11 files changed, 30 insertions(+), 49 deletions(-)
Title: Sparse Multiple Canonical Correlation Network Analysis Tool
Description: A canonical correlation based framework (SmCCNet) designed for the construction of phenotype-specific multi-omics networks. This framework adeptly integrates single or multiple omics data types along with a quantitative or binary phenotype of interest. It offers a streamlined setup process that can be tailored manually or configured automatically, ensuring a flexible and user-friendly experience.
Author: Weixuan Liu [aut, cre],
Yonghua Zhuang [aut, cre],
W. Jenny Shi [aut, cre],
Thao Vu [aut],
Iain Konigsberg [aut],
Katherine Pratte [aut],
Laura Saba [aut],
Katerina Kechris [aut]
Maintainer: Weixuan Liu <weixuan.liu@cuanschutz.edu>
Diff between SmCCNet versions 2.0.2 dated 2024-01-13 and 2.0.3 dated 2024-04-16
SmCCNet-2.0.2/SmCCNet/README.md |only SmCCNet-2.0.2/SmCCNet/vignettes/figures/example_network_continuous.png |only SmCCNet-2.0.3/SmCCNet/DESCRIPTION | 12 ++--- SmCCNet-2.0.3/SmCCNet/MD5 | 24 +++++----- SmCCNet-2.0.3/SmCCNet/R/AutoSmCCNet.R | 23 +++++++-- SmCCNet-2.0.3/SmCCNet/R/SmCCNet-source.R | 23 ++++++--- SmCCNet-2.0.3/SmCCNet/inst/doc/SmCCNet_Vignette_AutoSmCCNet.pdf |binary SmCCNet-2.0.3/SmCCNet/inst/doc/SmCCNet_Vignette_MultiOmics.Rmd | 2 SmCCNet-2.0.3/SmCCNet/inst/doc/SmCCNet_Vignette_MultiOmics.pdf |binary SmCCNet-2.0.3/SmCCNet/inst/doc/SmCCNet_Vignette_SingleOmics.Rmd | 4 - SmCCNet-2.0.3/SmCCNet/inst/doc/SmCCNet_Vignette_SingleOmics.pdf |binary SmCCNet-2.0.3/SmCCNet/vignettes/SmCCNet_Vignette_MultiOmics.Rmd | 2 SmCCNet-2.0.3/SmCCNet/vignettes/SmCCNet_Vignette_SingleOmics.Rmd | 4 - SmCCNet-2.0.3/SmCCNet/vignettes/figures/AutoSmCCNet.png |only SmCCNet-2.0.3/SmCCNet/vignettes/figures/example_network_continuous.jpg |only 15 files changed, 58 insertions(+), 36 deletions(-)
Title: Modern Database Engine for Complex Data Based on
Multi-Dimensional Arrays
Description: The modern database 'TileDB' introduces a powerful on-disk
format for storing and accessing any complex data based on multi-dimensional
arrays. It supports dense and sparse arrays, dataframes and key-values stores,
cloud storage ('S3', 'GCS', 'Azure'), chunked arrays, multiple compression,
encryption and checksum filters, uses a fully multi-threaded implementation,
supports parallel I/O, data versioning ('time travel'), metadata and groups.
It is implemented as an embeddable cross-platform C++ library with APIs from
several languages, and integrations. This package provides the R support.
Author: TileDB, Inc. [aut, cph],
Dirk Eddelbuettel [cre]
Maintainer: Dirk Eddelbuettel <dirk@tiledb.com>
Diff between tiledb versions 0.25.0 dated 2024-03-20 and 0.26.0 dated 2024-04-15
DESCRIPTION | 43 +-- LICENSE | 2 MD5 | 69 +++-- NAMESPACE | 1 NEWS.md | 45 +++ R/Array.R | 8 R/ArraySchema.R | 4 R/ArrowIO.R | 41 ++- R/Attribute.R | 2 R/Dim.R | 6 R/FragmentInfo.R | 30 +- R/Init.R | 4 R/Object.R | 12 - R/Query.R | 4 R/QueryCondition.R | 2 R/RcppExports.R | 38 --- R/VFS.R | 72 +++--- configure | 33 +- configure.ac | 17 - inst/include/tiledb.h | 4 inst/tinytest/test_arrowio.R | 52 ++-- inst/tinytest/test_vfs.R | 6 man/tiledb_arrow_array_ptr.Rd | 6 man/tiledb_attr.Rd | 4 man/tiledb_dim.Rd | 4 man/tiledb_object_rm.Rd | 2 man/tiledb_query_condition_create.Rd | 2 man/tiledb_query_export_buffer.Rd | 4 man/tiledb_query_import_buffer.Rd | 6 man/tiledb_vfs_ls_recursive.Rd |only src/RcppExports.cpp | 112 +++------ src/arrowio.cpp | 407 +++++------------------------------ src/deprecation.cpp | 11 src/libtiledb.cpp | 63 ++++- tools/fetchTileDB.sh | 2 tools/tiledbVersion.txt | 4 36 files changed, 462 insertions(+), 660 deletions(-)
Title: Preparing, Checking, and Submitting Articles to the 'R Journal'
Description: Create an 'R Journal' 'Rmarkdown' template article, that will
generate html and pdf versions of your paper. Check that the paper folder
has all the required components needed for submission.
Examples of 'R Journal' publications can be found at
<https://journal.r-project.org>.
Author: Mitchell O'Hara-Wild [aut],
Stephanie Kobakian [aut],
H. Sherry Zhang [aut],
Di Cook [aut, cre] ,
Simon Urbanek [aut],
Christophe Dervieux [aut]
Maintainer: Di Cook <dicook@monash.edu>
Diff between rjtools versions 1.0.12 dated 2023-10-07 and 1.0.13 dated 2024-04-15
rjtools-1.0.12/rjtools/inst/sample-article/motivation-letter.md |only rjtools-1.0.12/rjtools/inst/sample-article/penguins.png |only rjtools-1.0.13/rjtools/DESCRIPTION | 6 - rjtools-1.0.13/rjtools/MD5 | 54 +++++----- rjtools-1.0.13/rjtools/NEWS.md | 6 + rjtools-1.0.13/rjtools/R/check.R | 25 ++-- rjtools-1.0.13/rjtools/R/rj_article.R | 21 +++ rjtools-1.0.13/rjtools/R/rj_pdf_article.R | 13 ++ rjtools-1.0.13/rjtools/R/rj_web_issue.R | 20 ++- rjtools-1.0.13/rjtools/build/vignette.rds |binary rjtools-1.0.13/rjtools/inst/doc/article_template.R | 4 rjtools-1.0.13/rjtools/inst/doc/check_functions.R | 2 rjtools-1.0.13/rjtools/inst/doc/check_functions.Rmd | 8 - rjtools-1.0.13/rjtools/inst/doc/check_functions.html | 24 ++-- rjtools-1.0.13/rjtools/inst/doc/create_article.R | 2 rjtools-1.0.13/rjtools/inst/doc/create_article.Rmd | 2 rjtools-1.0.13/rjtools/inst/doc/create_article.html | 6 - rjtools-1.0.13/rjtools/inst/doc/format-details.R | 2 rjtools-1.0.13/rjtools/inst/doc/format-details.Rmd | 39 ++++++- rjtools-1.0.13/rjtools/inst/doc/format-details.html | 31 +++++ rjtools-1.0.13/rjtools/inst/rjdistill.html | 18 ++- rjtools-1.0.13/rjtools/inst/sample-article/article.Rmd | 2 rjtools-1.0.13/rjtools/inst/sample-article/data |only rjtools-1.0.13/rjtools/inst/sample-article/figures |only rjtools-1.0.13/rjtools/inst/sample-article/motivation-letter |only rjtools-1.0.13/rjtools/inst/sample-article/scripts |only rjtools-1.0.13/rjtools/inst/tex/RJournal.sty | 1 rjtools-1.0.13/rjtools/tests/testthat/test-check.R | 6 - rjtools-1.0.13/rjtools/vignettes/check_functions.Rmd | 8 - rjtools-1.0.13/rjtools/vignettes/create_article.Rmd | 2 rjtools-1.0.13/rjtools/vignettes/format-details.Rmd | 39 ++++++- 31 files changed, 236 insertions(+), 105 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates, Binxiang Ni, and Conrad Sanderson
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.12.8.2.0 dated 2024-04-05 and 0.12.8.2.1 dated 2024-04-15
ChangeLog | 10 ++++++++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ inst/NEWS.Rd | 7 +++++++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/tinytest/test_scipy2r.R | 2 +- 7 files changed, 28 insertions(+), 11 deletions(-)
Title: Optimal Distribution Preserving Down-Sampling of Bio-Medical
Data
Description: An optimized method for distribution-preserving class-proportional down-sampling of bio-medical data.
Author: Jorn Lotsch [aut,cre] ,
Sebastian Malkusch [aut] ,
Alfred Ultsch [aut]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between opdisDownsampling versions 1.0 dated 2024-04-14 and 1.0.1 dated 2024-04-15
opdisDownsampling-1.0.1/opdisDownsampling/DESCRIPTION | 6 +++--- opdisDownsampling-1.0.1/opdisDownsampling/MD5 | 3 +-- opdisDownsampling-1.0/opdisDownsampling/R/globals.R |only 3 files changed, 4 insertions(+), 5 deletions(-)
More information about opdisDownsampling at CRAN
Permanent link
Title: Bayesian Variable Selection Methods for Multivariate Data
Description: Bayesian variable selection methods for data with multivariate responses and multiple covariates. The package contains implementations of multivariate Bayesian variable selection methods for continuous data (Lee et al., Biometrics, 2017 <doi:10.1111/biom.12557>) and zero-inflated count data (Lee et al., Biostatistics, 2020 <doi:10.1093/biostatistics/kxy067>).
Author: Kyu Ha Lee, Mahlet G. Tadesse, Brent A. Coull, Jacqueline R. Starr
Maintainer: Kyu Ha Lee <klee15239@gmail.com>
Diff between mBvs versions 1.6 dated 2023-02-06 and 1.92 dated 2024-04-15
DESCRIPTION | 10 MD5 | 39 +-- NAMESPACE | 8 R/initiate_startValues.R |only R/methods.R | 337 +++++++++++++++++++++++++++ R/mmzipBvs.R |only man/initiate_startValues.Rd |only man/mBvs-package.Rd | 7 man/methods.Rd | 16 - man/mmzipBvs.Rd |only man/mzipBvs.Rd | 4 src/MBVSus.h | 77 +++--- src/MBVSus_Updates.c | 4 src/MMZIP.c |only src/MMZIP.h |only src/MMZIP_Updates.c |only src/Utilities.c | 496 ++++++++++++++++++++++++++++++++++++++++- src/mzipBVS_general.c | 3 src/mzipBVS_general.h | 6 src/mzipBVS_general_Updates.c | 171 +++++++------- src/mzip_restricted1.h | 213 ++++++++--------- src/mzip_restricted1_Updates.c | 162 ++++++------- src/mzip_restricted2.h | 233 +++++++++---------- src/mzip_restricted2_Updates.c | 165 ++++++------- 24 files changed, 1403 insertions(+), 548 deletions(-)
Title: An R Package for Factor Model Asset Pricing
Description: Functions for evaluating and testing asset pricing models, including
estimation and testing of factor risk premia, selection of "strong" risk
factors (factors having nonzero population correlation with test asset
returns), heteroskedasticity and autocorrelation robust covariance matrix
estimation and testing for model misspecification and identification.
The functions for estimating and testing factor risk
premia implement the Fama-MachBeth (1973) <doi:10.1086/260061> two-pass
approach, the misspecification-robust approaches of Kan-Robotti-Shanken (2013)
<doi:10.1111/jofi.12035>, and the approaches based on tradable factor risk
premia of Quaini-Trojani-Yuan (2023) <doi:10.2139/ssrn.4574683>. The
functions for selecting the "strong" risk factors are based on the Oracle
estimator of Quaini-Trojani-Yuan (2023) <doi:10.2139/ssrn.4574683> and the
factor screening procedure of Gospodinov-Kan-Robotti (2014) <doi:10.2139/ssrn.2579821>.
The functions for evaluating [...truncated...]
Author: Alberto Quaini [aut, cre, cph]
Maintainer: Alberto Quaini <alberto91quaini@gmail.com>
Diff between intrinsicFRP versions 2.0.1 dated 2024-01-08 and 2.1.0 dated 2024-04-15
DESCRIPTION | 12 +- MD5 | 52 +++++++----- NAMESPACE | 2 NEWS.md | 5 + R/RcppExports.R | 12 ++ R/data.R | 22 ++++- R/fgx_factors_test.R |only R/frp.R | 3 R/sdf_coefficients.R |only R/utils.R | 2 README.md | 143 ++++++++++++++++++++++++++++----- data/factors.rda |binary data/returns.rda |binary data/risk_free.rda |only man/FGXFactorsTest.Rd |only man/FRP.Rd | 3 man/SDFCoefficients.Rd |only man/factors.Rd | 4 man/returns.Rd | 4 man/risk_free.Rd |only src/RcppExports.cpp | 46 ++++++++++ src/fgx_three_pass_covariance.cpp |only src/fgx_three_pass_covariance.h |only src/frp.cpp | 114 ++++++++------------------ src/frp.h | 7 - src/gkr_factor_screening.cpp | 80 ------------------ src/gkr_factor_screening.h | 32 ------- src/sdf_coefficients.cpp |only src/sdf_coefficients.h |only tests/testthat/Rplots.pdf |binary tests/testthat/test-fgx_factors_test.R |only tests/testthat/test-frp.R | 10 ++ tests/testthat/test-sdf_coefficients.R |only 33 files changed, 303 insertions(+), 250 deletions(-)
Title: Tools for Choice Model Estimation and Application
Description: Choice models are a widely used technique across numerous scientific disciplines. The Apollo package is a very flexible tool for the estimation and application
of choice models in R. Users are able to write their own
model functions or use a mix of already available ones. Random heterogeneity,
both continuous and discrete and at the level of individuals and
choices, can be incorporated for all models. There is support for both standalone
models and hybrid model structures. Both classical
and Bayesian estimation is available, and multiple discrete
continuous models are covered in addition to discrete choice.
Multi-threading processing is supported for estimation and a large
number of pre and post-estimation routines, including for computing posterior
(individual-level) distributions are available.
For examples, a manual, and a support forum, visit
<http://www.ApolloChoiceModelling.com>. For more information on choice
models see Train, K. (2009) <isbn:978-0-521-74738-7> and [...truncated...]
Author: Stephane Hess [aut, cre],
David Palma [aut],
Thomas Hancock [ctb]
Maintainer: Stephane Hess <S.Hess@leeds.ac.uk>
Diff between apollo versions 0.3.1 dated 2023-10-12 and 0.3.2 dated 2024-04-15
DESCRIPTION | 10 MD5 | 30 - R/apollo_estimate.R | 7 R/apollo_initialise.R | 2 R/apollo_lcUnconditionals.R | 2 R/apollo_makeDraws.R | 8 R/apollo_mdcev.R | 3 R/apollo_prediction.R | 12 R/apollo_prepareProb.R | 2 R/apollo_saveOutput.R | 14 R/apollo_validateData.R | 3 R/apollo_varcov.R | 845 +++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/apollofirstexample.R | 2 inst/doc/apollofirstexample.html | 346 ++++++++------- man/apollo_saveOutput.Rd | 1 16 files changed, 651 insertions(+), 636 deletions(-)
Title: Consensus Pathway Analysis
Description: Provides a set of functions to perform pathway analysis and meta analysis from multiple gene expression datasets, as well as visualization of the results. The package is a wrapper of the following packages: Ritchie et al. (2015) <doi:10.1093/nar/gkv007>, Love et al. (2014) <doi:10.1186/s13059-014-0550-8>, Robinson et al. (2010) <doi:10.1093/bioinformatics/btp616>, Korotkevich et al. (2016) <arxiv:10.1101/060012>, Efron et al. (2015) <https://CRAN.R-project.org/package=GSA>, and Gu, Z. (2012) <https://CRAN.R-project.org/package=CePa>.
Author: Ha Nguyen [aut, cre],
Zeynab Maghsoudi [aut],
Phi Hung Bya [aut],
Tin Nguyen [fnd]
Maintainer: Ha Nguyen <hvn0006@auburn.edu>
Diff between RCPA versions 0.2.1 dated 2023-11-30 and 0.2.2 dated 2024-04-15
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/GEO-download.R | 2 +- R/annotation.R | 2 +- R/utils.R | 2 +- inst/doc/RCPA.html | 2 +- 6 files changed, 12 insertions(+), 12 deletions(-)
Title: Collection of Datasets for the USGS-INL Monitoring Networks
Description: A collection of analysis-ready datasets for the
U.S. Geological Survey - Idaho National Laboratory (USGS-INL)
groundwater and surface-water monitoring networks, administered by the
USGS-INL Project Office in cooperation with the U.S. Department of Energy.
The data collected from wells and surface-water stations at the
Idaho National Laboratory and surrounding areas have been used to describe
the effects of waste disposal on water contained in the
eastern Snake River Plain aquifer, located in the southeastern part of
Idaho, and the availability of water for long-term consumptive and
industrial use. The package includes long-term monitoring records dating
back to measurements from 1949. Geospatial data describing the areas from
which samples were collected or observations were made are also included in
the package. Bundling this data into a single package significantly reduces
the magnitude of data processing for researchers and provides a way to
distribute the data along with its docume [...truncated...]
Author: Jason C. Fisher [aut, cre] ,
Allison R. Trcka [aut] ,
Kerri C. Treinen [aut]
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Diff between inldata versions 1.1.4 dated 2024-02-06 and 1.1.5 dated 2024-04-15
inldata-1.1.4/inldata/R/mountains.R |only inldata-1.1.4/inldata/R/tabulate_parm_data.R |only inldata-1.1.4/inldata/R/tabulate_site_data.R |only inldata-1.1.4/inldata/data/mountains.rda |only inldata-1.1.4/inldata/man/mountains.Rd |only inldata-1.1.4/inldata/man/tabulate_parm_data.Rd |only inldata-1.1.4/inldata/man/tabulate_site_data.Rd |only inldata-1.1.5/inldata/DESCRIPTION | 21 inldata-1.1.5/inldata/MD5 | 161 ++-- inldata-1.1.5/inldata/NAMESPACE | 5 inldata-1.1.5/inldata/NEWS.md | 6 inldata-1.1.5/inldata/R/cities.R | 8 inldata-1.1.5/inldata/R/counties.R | 8 inldata-1.1.5/inldata/R/dem.R | 1 inldata-1.1.5/inldata/R/esrp.R | 1 inldata-1.1.5/inldata/R/facilities.R | 1 inldata-1.1.5/inldata/R/idaho.R | 5 inldata-1.1.5/inldata/R/inl.R | 1 inldata-1.1.5/inldata/R/iwd.R | 1 inldata-1.1.5/inldata/R/lakes.R | 1 inldata-1.1.5/inldata/R/make_data_release.R | 19 inldata-1.1.5/inldata/R/make_datasets.R | 331 +++++--- inldata-1.1.5/inldata/R/make_dm.R |only inldata-1.1.5/inldata/R/make_erd.R |only inldata-1.1.5/inldata/R/parameters.R | 10 inldata-1.1.5/inldata/R/percponds.R | 1 inldata-1.1.5/inldata/R/roads.R | 12 inldata-1.1.5/inldata/R/samples.R | 5 inldata-1.1.5/inldata/R/sites.R | 16 inldata-1.1.5/inldata/R/streams.R | 7 inldata-1.1.5/inldata/R/utils.R | 64 + inldata-1.1.5/inldata/R/write_datasets.R | 222 ++++- inldata-1.1.5/inldata/README.md | 92 +- inldata-1.1.5/inldata/build/inldata.pdf |binary inldata-1.1.5/inldata/build/stage23.rdb |binary inldata-1.1.5/inldata/data/background.rda |binary inldata-1.1.5/inldata/data/benchmarks.rda |binary inldata-1.1.5/inldata/data/cities.rda |binary inldata-1.1.5/inldata/data/counties.rda |binary inldata-1.1.5/inldata/data/crs.rda |binary inldata-1.1.5/inldata/data/dem.rda |binary inldata-1.1.5/inldata/data/dl.rda |binary inldata-1.1.5/inldata/data/esrp.rda |binary inldata-1.1.5/inldata/data/facilities.rda |binary inldata-1.1.5/inldata/data/gwl.rda |binary inldata-1.1.5/inldata/data/idaho.rda |binary inldata-1.1.5/inldata/data/inl.rda |binary inldata-1.1.5/inldata/data/iwd.rda |binary inldata-1.1.5/inldata/data/lakes.rda |binary inldata-1.1.5/inldata/data/parameters.rda |binary inldata-1.1.5/inldata/data/percponds.rda |binary inldata-1.1.5/inldata/data/roads.rda |binary inldata-1.1.5/inldata/data/samples.rda |binary inldata-1.1.5/inldata/data/sites.rda |binary inldata-1.1.5/inldata/data/streams.rda |binary inldata-1.1.5/inldata/data/swm.rda |binary inldata-1.1.5/inldata/data/units.rda |binary inldata-1.1.5/inldata/inst/CITATION | 4 inldata-1.1.5/inldata/inst/tinytest/test_functions.R | 2 inldata-1.1.5/inldata/man/check_package.Rd | 2 inldata-1.1.5/inldata/man/cities.Rd | 8 inldata-1.1.5/inldata/man/counties.Rd | 8 inldata-1.1.5/inldata/man/dem.Rd | 1 inldata-1.1.5/inldata/man/esrp.Rd | 1 inldata-1.1.5/inldata/man/facilities.Rd | 1 inldata-1.1.5/inldata/man/figures/erd.svg | 731 +++++++++---------- inldata-1.1.5/inldata/man/get_file_size.Rd |only inldata-1.1.5/inldata/man/idaho.Rd | 5 inldata-1.1.5/inldata/man/inl.Rd | 1 inldata-1.1.5/inldata/man/inldata-package.Rd | 4 inldata-1.1.5/inldata/man/iwd.Rd | 1 inldata-1.1.5/inldata/man/lakes.Rd | 1 inldata-1.1.5/inldata/man/make_data_release.Rd | 11 inldata-1.1.5/inldata/man/make_datasets.Rd | 13 inldata-1.1.5/inldata/man/make_dm.Rd |only inldata-1.1.5/inldata/man/make_erd.Rd |only inldata-1.1.5/inldata/man/parameters.Rd | 10 inldata-1.1.5/inldata/man/parse_station_nm.Rd | 2 inldata-1.1.5/inldata/man/paste_strings.Rd | 4 inldata-1.1.5/inldata/man/percponds.Rd | 1 inldata-1.1.5/inldata/man/rmd |only inldata-1.1.5/inldata/man/roads.Rd | 12 inldata-1.1.5/inldata/man/round_usgs.Rd | 2 inldata-1.1.5/inldata/man/samples.Rd | 5 inldata-1.1.5/inldata/man/sites.Rd | 16 inldata-1.1.5/inldata/man/streams.Rd | 7 inldata-1.1.5/inldata/man/trim_station_nm.Rd | 2 inldata-1.1.5/inldata/man/write_datasets.Rd | 33 88 files changed, 1080 insertions(+), 807 deletions(-)
Title: Access Formula 1 Data
Description: Obtain Formula 1 data via the 'Ergast API' <https://ergast.com/mrd/> and the unofficial API <https://www.formula1.com/en/f1-live.html> via the 'fastf1' 'Python' library <https://docs.fastf1.dev/>.
Author: Santiago Casanova [aut, cre, cph],
Philip Bulsink [aut]
Maintainer: Santiago Casanova <santiago.casanova@yahoo.com>
Diff between f1dataR versions 1.5.1 dated 2024-03-12 and 1.5.2 dated 2024-04-15
f1dataR-1.5.1/f1dataR/man/figures/Thumbs.db |only f1dataR-1.5.2/f1dataR/DESCRIPTION | 6 - f1dataR-1.5.2/f1dataR/MD5 | 48 +++++----- f1dataR-1.5.2/f1dataR/NEWS.md | 7 + f1dataR-1.5.2/f1dataR/R/utils.R | 2 f1dataR-1.5.2/f1dataR/build/vignette.rds |binary f1dataR-1.5.2/f1dataR/inst/doc/alonso-penalty-2024.Rmd |only f1dataR-1.5.2/f1dataR/inst/doc/alonso-penalty-2024.html |only f1dataR-1.5.2/f1dataR/inst/doc/plotting-turn-info.Rmd | 2 f1dataR-1.5.2/f1dataR/inst/doc/plotting-turn-info.html | 2 f1dataR-1.5.2/f1dataR/tests/testthat/setup.R | 19 +++ f1dataR-1.5.2/f1dataR/tests/testthat/test-load_circuits.R | 12 +- f1dataR-1.5.2/f1dataR/tests/testthat/test-load_constructors.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_drivers.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_laps.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_pitstops.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_quali.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_results.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_schedule.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_sprint.R | 4 f1dataR-1.5.2/f1dataR/tests/testthat/test-load_standings.R | 4 f1dataR-1.5.2/f1dataR/vignettes/alonso-penalty-2024.Rmd |only f1dataR-1.5.2/f1dataR/vignettes/alonso-penalty-2024.Rmd.orig |only f1dataR-1.5.2/f1dataR/vignettes/alonso-penalty-2024alo-plots-1.png |only f1dataR-1.5.2/f1dataR/vignettes/alonso-penalty-2024alo-throttle-1.png |only f1dataR-1.5.2/f1dataR/vignettes/alonso-penalty-2024rus-plots-1.png |only f1dataR-1.5.2/f1dataR/vignettes/plotting-turn-info.Rmd | 2 f1dataR-1.5.2/f1dataR/vignettes/plotting-turn-info.Rmd.orig | 2 f1dataR-1.5.2/f1dataR/vignettes/precompile.R | 3 29 files changed, 107 insertions(+), 34 deletions(-)
Title: API Wrapper for U.S. Energy Information Administration ('EIA')
Open Data
Description: Provides API access to data from the U.S. Energy Information Administration ('EIA') <https://www.eia.gov/>.
Use of the EIA's API and this package requires a free API key obtainable at <https://www.eia.gov/opendata/register.php>.
This package includes functions for searching the EIA data directory and returning time series and geoset time series datasets.
Datasets returned by these functions are provided by default in a tidy format, or alternatively, in more raw formats.
It also offers helper functions for working with EIA date strings and time formats and for inspecting different summaries of series metadata.
The package also provides control over API key storage and caching of API request results.
Author: Matthew Leonawicz [aut] ,
Matthew Hoff [aut, cre]
Maintainer: Matthew Hoff <matthew.g.hoff@gmail.com>
Diff between eia versions 0.4.1 dated 2023-11-17 and 0.4.2 dated 2024-04-15
eia-0.4.1/eia/man/eia_report.Rd |only eia-0.4.2/eia/DESCRIPTION | 26 +++--- eia-0.4.2/eia/MD5 | 21 ++-- eia-0.4.2/eia/NAMESPACE | 3 eia-0.4.2/eia/NEWS.md | 6 + eia-0.4.2/eia/R/data.R | 5 - eia-0.4.2/eia/R/eia.R | 3 eia-0.4.2/eia/R/reports.R | 120 ++++++++++++++-------------- eia-0.4.2/eia/inst/WORDLIST | 1 eia-0.4.2/eia/man/eia.Rd | 18 ++++ eia-0.4.2/eia/man/eia_data.Rd | 7 + eia-0.4.2/eia/tests/testthat/test-reports.R | 23 ++--- 12 files changed, 131 insertions(+), 102 deletions(-)
Title: Causal Decomposition of Group Disparities
Description: The framework of causal decomposition of group disparities developed by
Yu and Elwert (2023)
<doi:10.48550/arXiv.2306.16591>.
This package implements the decomposition estimators
that are based on efficient influence functions. For the
nuisance functions of the estimators, both parametric and
nonparametric options are provided, as well as manual options in case
the default models are not satisfying.
Author: Ang Yu [aut, cre, cph]
Maintainer: Ang Yu <ang_yu@outlook.com>
Diff between cdgd versions 0.3.4 dated 2024-01-08 and 0.3.5 dated 2024-04-15
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 6 +++++- R/cdgd0_ml.R | 7 +++++++ R/cdgd0_pa.R | 7 +++++++ R/cdgd1_ml.R | 7 +++++++ R/cdgd1_pa.R | 7 +++++++ 7 files changed, 43 insertions(+), 11 deletions(-)
Title: Angular Distance Weighting Interpolation
Description: The irregularly-spaced data are interpolated onto regular latitude-longitude grids by weighting each station according to its distance and angle from the center of a search radius. In addition to this, we also provide a simple way (Jones and Hulme, 1996) to grid the irregularly-spaced data points onto regular latitude-longitude grids by averaging all stations in grid-boxes.
Author: Panfeng Zhang [aut, cre] ,
Guoyu Ren [ctb],
Yun Qin [ctb],
Chenchen Ren [ctb],
Xiang Zheng [ctb]
Maintainer: Panfeng Zhang <zhangpanfeng@jlnu.edu.cn>
Diff between adw versions 0.3.1 dated 2023-05-22 and 0.4.0 dated 2024-04-15
adw-0.3.1/adw/R/data.R |only adw-0.3.1/adw/data |only adw-0.3.1/adw/man/adw_terra.Rd |only adw-0.3.1/adw/man/tavg.Rd |only adw-0.4.0/adw/DESCRIPTION | 17 -- adw-0.4.0/adw/MD5 | 36 ++-- adw-0.4.0/adw/NAMESPACE | 8 adw-0.4.0/adw/NEWS.md | 11 + adw-0.4.0/adw/R/adw.R | 259 ++++++++++++++++++++++++++++--- adw-0.4.0/adw/README.md | 138 ++++++++++++---- adw-0.4.0/adw/build/vignette.rds |binary adw-0.4.0/adw/inst/doc/Introduction.R | 48 ++++- adw-0.4.0/adw/inst/doc/Introduction.Rmd | 62 ++++++- adw-0.4.0/adw/inst/doc/Introduction.html | 139 ++++++++++------ adw-0.4.0/adw/man/adw.Rd | 16 - adw-0.4.0/adw/man/adw_sf.Rd | 5 adw-0.4.0/adw/man/adw_sv.Rd |only adw-0.4.0/adw/man/adw_vector.Rd | 7 adw-0.4.0/adw/man/awa.Rd |only adw-0.4.0/adw/man/points2grid.Rd |only adw-0.4.0/adw/man/points2grid_sf.Rd |only adw-0.4.0/adw/man/points2grid_sv.Rd |only adw-0.4.0/adw/man/points2grid_vector.Rd |only adw-0.4.0/adw/vignettes/Introduction.Rmd | 62 ++++++- 24 files changed, 630 insertions(+), 178 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') 'PostgreSQL' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database
Connectivity ('ADBC') 'PostgreSQL' driver for the purposes of building high-level
database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is
an API standard for database access libraries that uses 'Arrow' for result
sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between adbcpostgresql versions 0.11.0 dated 2024-04-02 and 0.11.0.1 dated 2024-04-15
DESCRIPTION | 6 MD5 | 31 src/Makevars.ucrt | 1 src/c/vendor/fmt/include/fmt/args.h | 2 src/c/vendor/fmt/include/fmt/base.h |only src/c/vendor/fmt/include/fmt/chrono.h | 329 ++- src/c/vendor/fmt/include/fmt/color.h | 91 src/c/vendor/fmt/include/fmt/compile.h | 10 src/c/vendor/fmt/include/fmt/core.h | 2972 ------------------------------ src/c/vendor/fmt/include/fmt/format-inl.h | 255 ++ src/c/vendor/fmt/include/fmt/format.h | 1045 ++++------ src/c/vendor/fmt/include/fmt/os.h | 37 src/c/vendor/fmt/include/fmt/ostream.h | 48 src/c/vendor/fmt/include/fmt/printf.h | 184 - src/c/vendor/fmt/include/fmt/ranges.h | 257 +- src/c/vendor/fmt/include/fmt/std.h | 142 + src/c/vendor/fmt/include/fmt/xchar.h | 130 - 17 files changed, 1543 insertions(+), 3997 deletions(-)
More information about adbcpostgresql at CRAN
Permanent link
Title: R Interface to 'TensorFlow'
Description: Interface to 'TensorFlow' <https://www.tensorflow.org/>,
an open source software library for numerical computation using data
flow graphs. Nodes in the graph represent mathematical operations,
while the graph edges represent the multidimensional data arrays
(tensors) communicated between them. The flexible architecture allows
you to deploy computation to one or more 'CPUs' or 'GPUs' in a desktop,
server, or mobile device with a single 'API'. 'TensorFlow' was originally
developed by researchers and engineers working on the Google Brain Team
within Google's Machine Intelligence research organization for the
purposes of conducting machine learning and deep neural networks research,
but the system is general enough to be applicable in a wide variety
of other domains as well.
Author: JJ Allaire [aut, cph],
Tomasz Kalinowski [ctb, cph, cre],
Daniel Falbel [ctb, cph],
Dirk Eddelbuettel [ctb, cph],
Yuan Tang [aut, cph] ,
Nick Golding [ctb, cph],
Google Inc. [ctb, cph] ,
Posit, PBC [cph, fnd]
Maintainer: Tomasz Kalinowski <tomasz.kalinowski@posit.co>
Diff between tensorflow versions 2.15.0 dated 2024-01-31 and 2.16.0 dated 2024-04-15
DESCRIPTION | 8 +- MD5 | 24 ++++---- NAMESPACE | 5 + NEWS.md | 8 ++ R/estimator-generics.R | 9 +-- R/generics.R | 28 +++++++++ R/install.R | 135 ++++++++++++++++++++++++++++++++++++++++----- R/package.R | 5 + man/evaluate.Rd | 4 - man/export_savedmodel.Rd | 4 - man/install_tensorflow.Rd | 16 ++--- man/train_and_evaluate.Rd | 1 tests/testthat/test-seed.R | 4 - 13 files changed, 201 insertions(+), 50 deletions(-)
Title: The Uniform Manifold Approximation and Projection (UMAP) Method
for Dimensionality Reduction
Description: An implementation of the Uniform Manifold Approximation and
Projection dimensionality reduction by McInnes et al. (2018)
<doi:10.48550/arXiv.1802.03426>. It also provides means to transform new data and
to carry out supervised dimensionality reduction. An implementation of
the related LargeVis method of Tang et al. (2016) <doi:10.48550/arXiv.1602.00370>
is also provided. This is a complete re-implementation in R (and C++,
via the 'Rcpp' package): no Python installation is required. See the
uwot website (<https://github.com/jlmelville/uwot>) for more
documentation and examples.
Author: James Melville [aut, cre, cph],
Aaron Lun [ctb],
Mohamed Nadhir Djekidel [ctb],
Yuhan Hao [ctb],
Dirk Eddelbuettel [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between uwot versions 0.1.16 dated 2023-06-29 and 0.2.1 dated 2024-04-15
DESCRIPTION | 52 - MD5 | 88 +- NAMESPACE | 1 NEWS.md | 56 + R/affinity.R | 62 - R/init.R | 65 - R/neighbors.R | 180 ++-- R/nn_hnsw.R |only R/nn_nndescent.R |only R/supervised.R | 15 R/transform.R | 265 +++--- R/umap2.R |only R/util.R | 30 R/uwot.R | 1428 +++++++++++++++++++++++++-------- build/partial.rdb |binary build/vignette.rds |only inst/doc |only inst/include/uwot/optimize.h | 43 inst/include/uwot/update.h | 25 man/figures |only man/lvish.Rd | 164 +++ man/optimize_graph_layout.Rd | 607 +++++++------- man/similarity_graph.Rd | 895 +++++++++++--------- man/simplicial_set_intersect.Rd | 94 +- man/simplicial_set_union.Rd | 80 - man/tumap.Rd | 242 +++++ man/umap.Rd | 143 +++ man/umap2.Rd |only man/unload_uwot.Rd | 124 +- src/r_uwot.cpp | 79 - tests/testthat/helper_data.R | 7 tests/testthat/helper_fuzzy_sets.R | 30 tests/testthat/test_errors.R | 37 tests/testthat/test_mixed_distances.R | 208 ++-- tests/testthat/test_neighbors.R | 623 +++++++++++++- tests/testthat/test_normlaplacian.R | 80 - tests/testthat/test_optonly.R | 79 + tests/testthat/test_output.R | 448 +++++----- tests/testthat/test_pca.R | 125 +- tests/testthat/test_perplexity.R | 20 tests/testthat/test_saveload.R | 232 +++++ tests/testthat/test_scale.R | 86 + tests/testthat/test_similarity_graph.R | 40 tests/testthat/test_smooth_knn_dists.R | 258 +++-- tests/testthat/test_supervised.R | 53 - tests/testthat/test_transform.R | 92 +- vignettes |only 47 files changed, 4865 insertions(+), 2291 deletions(-)
Title: Estimation of the Weights Attached to the Two-Way Fixed Effects
Regressions
Description: Estimates the weights and measure of robustness to treatment effect heterogeneity attached to two-way fixed effects regressions.
Clément de Chaisemartin, Xavier D'Haultfœuille (2020) <DOI: 10.1257/aer.20181169>.
Author: Diego Ciccia [aut, cre],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Shuo Zhang [aut],
Clement de Chaisemartin [aut],
Grant McDermott [ctb]
Maintainer: Diego Ciccia <diego.ciccia@sciencespo.fr>
Diff between TwoWayFEWeights versions 2.0.1 dated 2024-04-02 and 2.0.2 dated 2024-04-15
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/print.R | 6 +++--- R/twowayfeweights.R | 2 ++ R/twowayfeweights_calculate.R | 12 +++++++----- R/twowayfeweights_normalize_var.R | 3 ++- R/twowayfeweights_result.R | 3 ++- 7 files changed, 25 insertions(+), 19 deletions(-)
More information about TwoWayFEWeights at CRAN
Permanent link
Title: Agnostic, Idiomatic Data Filter Module for Shiny
Description: When added to an existing shiny app, users may subset any
developer-chosen R data.frame on the fly. That is, users are empowered to
slice & dice data by applying multiple (order specific) filters using the
AND (&) operator between each, and getting real-time updates on the number
of rows effected/available along the way. Thus, any downstream processes
that leverage this data source (like tables, plots, or statistical procedures)
will re-render after new filters are applied. The shiny module’s user interface has
a 'minimalist' aesthetic so that the focus can be on the data &
other visuals. In addition to returning a reactive (filtered) data.frame,
'IDEAFilter' as also returns 'dplyr' filter statements used to actually slice
the data.
Author: Aaron Clark [aut, cre] ,
Jeff Thompson [aut],
Doug Kelkhoff [ctb, cph] ,
Maya Gans [ctb],
SortableJS contributors [ctb] ,
Biogen [cph]
Maintainer: Aaron Clark <clark.aaronchris@gmail.com>
Diff between IDEAFilter versions 0.1.2 dated 2022-06-28 and 0.2.0 dated 2024-04-15
IDEAFilter-0.1.2/IDEAFilter/inst/examples/iris_app/adsl.xpt |only IDEAFilter-0.2.0/IDEAFilter/DESCRIPTION | 39 ++-- IDEAFilter-0.2.0/IDEAFilter/LICENSE |only IDEAFilter-0.2.0/IDEAFilter/LICENSE.note |only IDEAFilter-0.2.0/IDEAFilter/MD5 | 88 ++++++---- IDEAFilter-0.2.0/IDEAFilter/NAMESPACE | 8 IDEAFilter-0.2.0/IDEAFilter/NEWS.md | 18 ++ IDEAFilter-0.2.0/IDEAFilter/R/IDEAFilter.R |only IDEAFilter-0.2.0/IDEAFilter/R/IDEAFilter_item.R |only IDEAFilter-0.2.0/IDEAFilter/R/selectInput_column.R | 9 - IDEAFilter-0.2.0/IDEAFilter/R/selectInput_proportion.R | 2 IDEAFilter-0.2.0/IDEAFilter/R/shiny_data_filter.R | 41 +++- IDEAFilter-0.2.0/IDEAFilter/R/shiny_data_filter_item.R | 8 IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter.R | 10 - IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_NULL.R | 5 IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_character.R | 18 +- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_date.R | 21 +- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_datetime.R | 51 +++-- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_factor_few.R | 38 ++-- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_factor_many.R | 21 +- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_logical.R | 23 +- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_numeric_few.R | 42 ++-- IDEAFilter-0.2.0/IDEAFilter/R/shiny_vector_filter_numeric_many.R | 41 +++- IDEAFilter-0.2.0/IDEAFilter/R/sysdata.rda |only IDEAFilter-0.2.0/IDEAFilter/R/utils.R | 9 + IDEAFilter-0.2.0/IDEAFilter/README.md | 68 +++++-- IDEAFilter-0.2.0/IDEAFilter/build |only IDEAFilter-0.2.0/IDEAFilter/inst/WORDLIST | 3 IDEAFilter-0.2.0/IDEAFilter/inst/doc |only IDEAFilter-0.2.0/IDEAFilter/inst/examples/iris_app/app.R | 12 - IDEAFilter-0.2.0/IDEAFilter/inst/examples/starwars_app/app.R | 40 +++- IDEAFilter-0.2.0/IDEAFilter/man/IDEAFilter.Rd |only IDEAFilter-0.2.0/IDEAFilter/man/IDEAFilter_item.Rd |only IDEAFilter-0.2.0/IDEAFilter/man/IDEAFilter_item_ui.Rd |only IDEAFilter-0.2.0/IDEAFilter/man/IDEAFilter_ui.Rd |only IDEAFilter-0.2.0/IDEAFilter/man/columnSelectInput.Rd | 3 IDEAFilter-0.2.0/IDEAFilter/man/figures/demo_ideafilter_button.png |only IDEAFilter-0.2.0/IDEAFilter/man/shiny_vector_filter_factor_few.Rd | 9 - IDEAFilter-0.2.0/IDEAFilter/man/shiny_vector_filter_factor_many.Rd | 9 - IDEAFilter-0.2.0/IDEAFilter/man/shiny_vector_filter_numeric_few.Rd | 9 - IDEAFilter-0.2.0/IDEAFilter/man/shiny_vector_filter_numeric_many.Rd | 9 - IDEAFilter-0.2.0/IDEAFilter/tests/shinytest/shinytest_IDEAFilter |only IDEAFilter-0.2.0/IDEAFilter/tests/shinytest/shinytest_IDEAFilter_item |only IDEAFilter-0.2.0/IDEAFilter/tests/shinytest/shinytest_data_types |only IDEAFilter-0.2.0/IDEAFilter/tests/shinytest/shinytest_preselection |only IDEAFilter-0.2.0/IDEAFilter/tests/shinytest/shinytest_reactive_data |only IDEAFilter-0.2.0/IDEAFilter/tests/spelling.R | 2 IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_IDEAFilter.R |only IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_IDEAFilter_item.R |only IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_preselection.R |only IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_reactive_data.R |only IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_shiny_data_filter.R | 8 IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_shiny_data_filter_item.R | 4 IDEAFilter-0.2.0/IDEAFilter/tests/testthat/test_shiny_vector_filter_numeric.R | 6 IDEAFilter-0.2.0/IDEAFilter/vignettes |only 55 files changed, 466 insertions(+), 208 deletions(-)
Title: Simplifies Exploratory Data Analysis
Description: Interactive data exploration with one line of code, automated
reporting or use an easy to remember set of tidy functions for low
code exploratory data analysis.
Author: Roland Krasser [aut, cre]
Maintainer: Roland Krasser <roland.krasser@gmail.com>
Diff between explore versions 1.2.0 dated 2024-02-28 and 1.3.0 dated 2024-04-15
explore-1.2.0/explore/inst/doc/explore_mtcars.R |only explore-1.2.0/explore/inst/doc/explore_mtcars.Rmd |only explore-1.2.0/explore/inst/doc/explore_mtcars.html |only explore-1.2.0/explore/inst/doc/explore_penguins.R |only explore-1.2.0/explore/inst/doc/explore_penguins.Rmd |only explore-1.2.0/explore/inst/doc/explore_penguins.html |only explore-1.2.0/explore/inst/doc/explore_titanic.R |only explore-1.2.0/explore/inst/doc/explore_titanic.Rmd |only explore-1.2.0/explore/inst/doc/explore_titanic.html |only explore-1.2.0/explore/vignettes/explore_mtcars.Rmd |only explore-1.2.0/explore/vignettes/explore_penguins.Rmd |only explore-1.2.0/explore/vignettes/explore_titanic.Rmd |only explore-1.3.0/explore/DESCRIPTION | 10 explore-1.3.0/explore/MD5 | 140 ++-- explore-1.3.0/explore/NAMESPACE | 3 explore-1.3.0/explore/NEWS.md | 30 - explore-1.3.0/explore/R/abtest.R | 66 +- explore-1.3.0/explore/R/create-data.R | 53 + explore-1.3.0/explore/R/explain-xgboost.R | 5 explore-1.3.0/explore/R/explain.R | 2 explore-1.3.0/explore/R/explore.R | 268 +++++++-- explore-1.3.0/explore/R/report.R | 9 explore-1.3.0/explore/R/tools.R | 124 ++++ explore-1.3.0/explore/README.md | 297 ++-------- explore-1.3.0/explore/build/vignette.rds |binary explore-1.3.0/explore/inst/doc/abtest.html | 8 explore-1.3.0/explore/inst/doc/clean-drop.html | 4 explore-1.3.0/explore/inst/doc/data.R | 4 explore-1.3.0/explore/inst/doc/data.Rmd | 7 explore-1.3.0/explore/inst/doc/data.html | 294 +++++---- explore-1.3.0/explore/inst/doc/describe.html | 4 explore-1.3.0/explore/inst/doc/explain.html | 4 explore-1.3.0/explore/inst/doc/explore-mtcars.R |only explore-1.3.0/explore/inst/doc/explore-mtcars.Rmd |only explore-1.3.0/explore/inst/doc/explore-mtcars.html |only explore-1.3.0/explore/inst/doc/explore-penguins.R |only explore-1.3.0/explore/inst/doc/explore-penguins.Rmd |only explore-1.3.0/explore/inst/doc/explore-penguins.html |only explore-1.3.0/explore/inst/doc/explore-titanic.R |only explore-1.3.0/explore/inst/doc/explore-titanic.Rmd |only explore-1.3.0/explore/inst/doc/explore-titanic.html |only explore-1.3.0/explore/inst/doc/explore.R | 14 explore-1.3.0/explore/inst/doc/explore.Rmd | 19 explore-1.3.0/explore/inst/doc/explore.html | 50 - explore-1.3.0/explore/inst/doc/predict.html | 6 explore-1.3.0/explore/inst/doc/report-target.html | 8 explore-1.3.0/explore/inst/doc/report-targetpct.html | 8 explore-1.3.0/explore/inst/doc/report.html | 6 explore-1.3.0/explore/inst/doc/tips-tricks.R | 17 explore-1.3.0/explore/inst/doc/tips-tricks.Rmd | 26 explore-1.3.0/explore/inst/doc/tips-tricks.html | 68 +- explore-1.3.0/explore/inst/extdata/template_report_target_pct.Rmd | 7 explore-1.3.0/explore/inst/extdata/template_report_target_split.Rmd | 9 explore-1.3.0/explore/inst/extdata/template_report_target_split_n.Rmd | 5 explore-1.3.0/explore/inst/extdata/template_report_variable.Rmd | 2 explore-1.3.0/explore/inst/extdata/template_report_variable_n.Rmd | 2 explore-1.3.0/explore/man/abtest.Rd | 4 explore-1.3.0/explore/man/abtest_targetnum.Rd | 4 explore-1.3.0/explore/man/abtest_targetpct.Rd | 5 explore-1.3.0/explore/man/create_data_abtest.Rd |only explore-1.3.0/explore/man/cut_vec_num_avg.Rd |only explore-1.3.0/explore/man/explain_forest.Rd | 6 explore-1.3.0/explore/man/explain_xgboost.Rd | 89 +- explore-1.3.0/explore/man/explore_all.Rd | 12 explore-1.3.0/explore/man/explore_bar.Rd | 3 explore-1.3.0/explore/man/explore_count.Rd | 3 explore-1.3.0/explore/man/explore_density.Rd | 2 explore-1.3.0/explore/man/explore_shiny.Rd | 4 explore-1.3.0/explore/man/figures/explore-beer-interact.png |only explore-1.3.0/explore/man/figures/explore-beer-plots.png |only explore-1.3.0/explore/man/figures/explore-beer-target.png |only explore-1.3.0/explore/man/figures/explore-beer-tree.png |only explore-1.3.0/explore/man/get_color.Rd |only explore-1.3.0/explore/man/interact.Rd |only explore-1.3.0/explore/man/mix_color.Rd | 50 - explore-1.3.0/explore/man/plot_text.Rd | 4 explore-1.3.0/explore/man/report.Rd | 4 explore-1.3.0/explore/man/target_explore_cat.Rd | 5 explore-1.3.0/explore/man/target_explore_num.Rd | 8 explore-1.3.0/explore/tests/testthat/test-create-data.R | 31 + explore-1.3.0/explore/tests/testthat/test-tools.R | 2 explore-1.3.0/explore/vignettes/data.Rmd | 7 explore-1.3.0/explore/vignettes/explore-mtcars.Rmd |only explore-1.3.0/explore/vignettes/explore-penguins.Rmd |only explore-1.3.0/explore/vignettes/explore-titanic.Rmd |only explore-1.3.0/explore/vignettes/explore.Rmd | 19 explore-1.3.0/explore/vignettes/tips-tricks.Rmd | 26 87 files changed, 1168 insertions(+), 699 deletions(-)
Title: Small Area Estimation for Continuous Zero Inflated Data
Description: Provides functionality to fit a zero-inflated estimator for small area estimation.
This estimator is a combines a linear mixed effects regression model and a logistic
mixed effects regression model via a two-stage modeling approach. The estimator's mean
squared error is estimated via a parametric bootstrap method. Chandra and others
(2012, <doi:10.1080/03610918.2011.598991>) introduce and describe this estimator and mean
squared error estimator. White and others (2024+, <doi:10.48550/arXiv.2402.03263>) describe the
applicability of this estimator to estimation of forest attributes and further assess the
estimator's properties.
Author: Josh Yamamoto [aut, cre],
Dinan Elsyad [aut],
Grayson White [aut],
Julian Schmitt [aut],
Niels Korsgaard [aut],
Kelly McConville [aut],
Kate Hu [aut]
Maintainer: Josh Yamamoto <joshuayamamoto5@gmail.com>
Diff between saeczi versions 0.1.2 dated 2024-03-28 and 0.1.3 dated 2024-04-15
DESCRIPTION | 8 +- MD5 | 13 ++- R/saeczi.R | 134 ++++++++++++++++++++--------------------- R/utils.R | 7 -- README.md | 52 +++++++++++---- man/saeczi.Rd | 4 - tests/testthat/test-boot_rep.R |only tests/testthat/test-saeczi.R | 4 + 8 files changed, 125 insertions(+), 97 deletions(-)
Title: Latent Interaction (and Moderation) Analysis in Structural
Equation Models (SEM)
Description: Estimation of interaction (i.e., moderation) effects between latent variables
in structural equation models (SEM).
The supported methods are:
The constrained approach (Algina & Moulder, 2001).
The unconstrained approach (Marsh et al., 2004).
The residual centering approach (Little et al., 2006).
The double centering approach (Lin et al., 2010).
The latent moderated structural equations (LMS) approach (Klein & Moosbrugger, 2000).
The quasi-maximum likelihood (QML) approach (Klein & Muthén, 2007) (temporarily unavailable)
The constrained- unconstrained, residual- and double centering- approaches
are estimated via 'lavaan' (Rosseel, 2012), whilst the LMS- and QML- approaches
are estimated via by ModSEM it self. Alternatively model can be
estimated via 'Mplus' (Muthén & Muthén, 1998-2017).
References:
Algina, J., & Moulder, B. C. (2001).
<doi:10.1207/S15328007SEM0801_3>.
"A note on estimating the Jöreskog-Yang model for latent variable interaction using 'LISREL' 8 [...truncated...]
Author: Kjell Solem Slupphaug [aut, cre]
Maintainer: Kjell Solem Slupphaug <slupphaugkjell@gmail.com>
Diff between modsem versions 0.1.0 dated 2024-03-23 and 0.1.1 dated 2024-04-15
modsem-0.1.0/modsem/R/nlsem.R |only modsem-0.1.0/modsem/R/package.R |only modsem-0.1.0/modsem/tests/testthat/testingNlsem.R |only modsem-0.1.1/modsem/DESCRIPTION | 21 - modsem-0.1.1/modsem/MD5 | 54 +++- modsem-0.1.1/modsem/NAMESPACE | 5 modsem-0.1.1/modsem/R/RcppExports.R | 28 ++ modsem-0.1.1/modsem/R/callLmsQml.R |only modsem-0.1.1/modsem/R/emLms.R |only modsem-0.1.1/modsem/R/equationsLms.R |only modsem-0.1.1/modsem/R/equationsQml.R |only modsem-0.1.1/modsem/R/estQml.R |only modsem-0.1.1/modsem/R/getModelSpecification.R | 122 +++------- modsem-0.1.1/modsem/R/modelLmsQml.R |only modsem-0.1.1/modsem/R/modsem-package.R |only modsem-0.1.1/modsem/R/modsem.R | 57 +++- modsem-0.1.1/modsem/R/optimizeLmsQml.R |only modsem-0.1.1/modsem/R/summaryLmsQml.R |only modsem-0.1.1/modsem/R/utils.R | 4 modsem-0.1.1/modsem/R/utilsLms.R |only modsem-0.1.1/modsem/R/utilsQml.R |only modsem-0.1.1/modsem/README.md | 78 +++++- modsem-0.1.1/modsem/build |only modsem-0.1.1/modsem/data/oneInt.rda |binary modsem-0.1.1/modsem/man/modsem-package.Rd |only modsem-0.1.1/modsem/man/modsem.Rd | 54 +++- modsem-0.1.1/modsem/src/LMS.h |only modsem-0.1.1/modsem/src/Makevars |only modsem-0.1.1/modsem/src/Makevars.win |only modsem-0.1.1/modsem/src/QML.cpp |only modsem-0.1.1/modsem/src/QML.h |only modsem-0.1.1/modsem/src/RcppExports.cpp | 93 +++++++ modsem-0.1.1/modsem/src/equationsLMS.cpp |only modsem-0.1.1/modsem/tests/testthat/mplusResults.inp | 2 modsem-0.1.1/modsem/tests/testthat/mplusResults.out | 88 +++---- modsem-0.1.1/modsem/tests/testthat/mplusResults_2f55eb38256759e6ebc9b0699ecf1d13.dat |only modsem-0.1.1/modsem/tests/testthat/mplusResults_9ae1075d88813d2b05dddbfb8fa37861.dat |only modsem-0.1.1/modsem/tests/testthat/mplusResults_e489e24f2bf1ad6c94963f7e17f04900.dat |only modsem-0.1.1/modsem/tests/testthat/mplusResults_e9480bee59c66cd9a48f4c25fe540f12.dat |only modsem-0.1.1/modsem/tests/testthat/testAutoInteractions.R | 3 modsem-0.1.1/modsem/tests/testthat/testQML.R |only modsem-0.1.1/modsem/tests/testthat/testingLMS.R |only 42 files changed, 416 insertions(+), 193 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Hyunki Lee [aut],
Changwoo Lim [aut],
Jinhwan Kim [aut],
Yoonkyoung Jeon [aut],
Jaewoong Heo [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.5.2 dated 2024-03-27 and 1.5.3 dated 2024-04-15
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/bar.R | 13 +++++-------- R/box.R | 12 +++++------- R/line.R | 20 +++++++------------- inst/doc/jsmodule.html | 4 ++-- 7 files changed, 33 insertions(+), 40 deletions(-)
Title: Gaussian Processes for Estimating Causal Exposure Response
Curves
Description: Provides a non-parametric Bayesian framework based on Gaussian process priors for estimating causal effects of a continuous exposure and detecting change points in the causal exposure response curves using observational data. Ren, B., Wu, X., Braun, D., Pillai, N., & Dominici, F.(2021). "Bayesian modeling for exposure response curve via gaussian processes: Causal effects of exposure to air pollution on health outcomes." arXiv preprint <doi:10.48550/arXiv.2105.03454>.
Author: Naeem Khoshnevis [aut] ,
Boyu Ren [aut, cre] ,
Tanujit Dey [ctb] ,
Danielle Braun [aut]
Maintainer: Boyu Ren <bren@mgb.org>
Diff between GPCERF versions 0.2.3 dated 2024-03-02 and 0.2.4 dated 2024-04-15
DESCRIPTION | 21 MD5 | 202 +-- NAMESPACE | 60 - NEWS.md | 198 +-- R/RcppExports.R | 22 R/compute_deriv_nn.R | 216 ++-- R/compute_deriv_weights_gp.R | 134 +- R/compute_inverse.R | 68 - R/compute_m_sigma.R | 340 +++--- R/compute_posterior_m_nn.R | 182 +-- R/compute_posterior_sd_nn.R | 184 +-- R/compute_rl_deriv_gp.R | 156 +-- R/compute_rl_deriv_nn.R | 184 +-- R/compute_sd_gp.R | 138 +- R/compute_w_corr.R | 220 ++-- R/compute_weight_gp.R | 186 +-- R/estimate_cerf_gp.R | 590 +++++------ R/estimate_cerf_nngp.R | 576 +++++------ R/estimate_gps.R | 120 +- R/estimate_mean_sd_nn.R | 208 ++-- R/estimate_noise_gp.R | 50 R/estimate_noise_nn.R | 144 +- R/find_optimal_nn.R | 242 ++-- R/generate_synthetic_data.R | 214 ++-- R/gpcerf_package.R | 64 - R/plot.R | 466 ++++----- R/print.R | 206 ++-- R/set_logger.R | 166 +-- R/utils.R | 46 R/zzz.R | 36 README.md | 38 build/vignette.rds |binary inst/CITATION | 42 inst/doc/A-Note-on-Choosing-Hyperparameters.R | 12 inst/doc/A-Note-on-Choosing-Hyperparameters.Rmd | 62 - inst/doc/A-Note-on-Choosing-Hyperparameters.html | 834 ++++++++-------- inst/doc/Developers-Guide.R | 12 inst/doc/Developers-Guide.Rmd | 330 +++--- inst/doc/Developers-Guide.html | 1120 ++++++++++----------- inst/doc/GPCERF.R | 170 +-- inst/doc/GPCERF.Rmd | 336 +++--- inst/doc/GPCERF.html | 1133 +++++++++++----------- inst/doc/Nearest-neighbor-Gaussian-Processes.R | 212 ++-- inst/doc/Nearest-neighbor-Gaussian-Processes.Rmd | 282 ++--- inst/doc/Nearest-neighbor-Gaussian-Processes.html | 997 +++++++++---------- inst/doc/Standard-Gaussian-Processes.R | 204 +-- inst/doc/Standard-Gaussian-Processes.Rmd | 278 ++--- inst/doc/Standard-Gaussian-Processes.html | 980 +++++++++---------- man/GPCERF-package.Rd | 50 man/autoplot.cerf_gp.Rd | 40 man/autoplot.cerf_nngp.Rd | 40 man/compute_deriv_nn.Rd | 112 +- man/compute_deriv_weights_gp.Rd | 88 - man/compute_inverse.Rd | 36 man/compute_m_sigma.Rd | 124 +- man/compute_posterior_m_nn.Rd | 110 +- man/compute_posterior_sd_nn.Rd | 94 - man/compute_rl_deriv_gp.Rd | 128 +- man/compute_rl_deriv_nn.Rd | 154 +- man/compute_sd_gp.Rd | 104 +- man/compute_w_corr.Rd | 86 - man/compute_weight_gp.Rd | 122 +- man/estimate_cerf_gp.Rd | 224 ++-- man/estimate_cerf_nngp.Rd | 230 ++-- man/estimate_gps.Rd | 84 - man/estimate_mean_sd_nn.Rd | 116 +- man/estimate_noise_gp.Rd | 50 man/estimate_noise_nn.Rd | 80 - man/find_optimal_nn.Rd | 120 +- man/generate_synthetic_data.Rd | 74 - man/get_logger.Rd | 40 man/plot.cerf_gp.Rd | 40 man/plot.cerf_nngp.Rd | 40 man/print.cerf_gp.Rd | 38 man/print.cerf_nngp.Rd | 38 man/set_logger.Rd | 68 - man/summary.cerf_gp.Rd | 38 man/summary.cerf_nngp.Rd | 38 tests/testthat/test-compute_deriv_nn.R | 46 tests/testthat/test-compute_deriv_weights_gp.R | 36 tests/testthat/test-compute_inverse.R | 42 tests/testthat/test-compute_m_sigma.R | 90 - tests/testthat/test-compute_posterior_m_nn.R | 172 +-- tests/testthat/test-compute_posterior_sd_nn.R | 98 - tests/testthat/test-compute_rl_deriv_gp.R | 42 tests/testthat/test-compute_rl_deriv_nn.R | 44 tests/testthat/test-compute_sd_gp.R | 80 - tests/testthat/test-compute_w_corr.R | 62 - tests/testthat/test-compute_weight_gp.R | 100 - tests/testthat/test-estimate_cerf_gp.R | 404 +++---- tests/testthat/test-estimate_cerf_nngp.R | 236 ++-- tests/testthat/test-estimate_gps.R | 32 tests/testthat/test-estimate_mean_sd_nn.R | 76 - tests/testthat/test-estimate_noise_gp.R | 72 - tests/testthat/test-estimate_noise_nn.R | 82 - tests/testthat/test-find_optimal_nn.R | 84 - tests/testthat/test-generate_synthetic_data.R | 118 +- vignettes/A-Note-on-Choosing-Hyperparameters.Rmd | 62 - vignettes/Developers-Guide.Rmd | 330 +++--- vignettes/GPCERF.Rmd | 336 +++--- vignettes/Nearest-neighbor-Gaussian-Processes.Rmd | 282 ++--- vignettes/Standard-Gaussian-Processes.Rmd | 278 ++--- 102 files changed, 9263 insertions(+), 9228 deletions(-)
Title: Authoring Books and Technical Documents with R Markdown
Description: Output formats and utilities for authoring books and technical documents with R Markdown.
Author: Yihui Xie [aut, cre] ,
Christophe Dervieux [ctb] ,
JJ Allaire [ctb],
Albert Kim [ctb],
Alessandro Samuel-Rosa [ctb],
Andrzej Oles [ctb],
Atsushi Yasumoto [ctb] ,
Aust Frederik [ctb] ,
Bastiaan Quast [ctb],
Ben Marwick [ctb],
Chester Ismay [ctb],
Clif [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between bookdown versions 0.38 dated 2024-03-04 and 0.39 dated 2024-04-15
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/bs4_book.R | 2 +- R/html.R | 2 +- README.md | 2 +- build/vignette.rds |binary inst/resources/gitbook/css/plugin-highlight.css | 2 +- inst/rmarkdown/lua/custom-environment.lua | 2 +- inst/templates/default.html | 2 +- tests/testit/test-html.R | 2 +- tests/testit/test-utils.R | 4 ++-- 11 files changed, 23 insertions(+), 23 deletions(-)
Title: Convert Rd to 'Roxygen' Documentation
Description: Functions to convert Rd to 'roxygen' documentation. It can parse an
Rd file to a list, create the 'roxygen' documentation and update the original
R script (e.g. the one containing the definition of the function)
accordingly. This package also provides utilities that can help developers
build packages using 'roxygen' more easily. The 'formatR' package can be used
to reformat the R code in the examples sections so that the code will be
more readable.
Author: Hadley Wickham [aut],
Yihui Xie [aut, cre]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between Rd2roxygen versions 1.15 dated 2024-03-11 and 1.16 dated 2024-04-15
DESCRIPTION | 8 ++++---- MD5 | 16 +++++++++------- NEWS.md | 6 ++++++ R/rd2roxygen.R | 10 +++++++--- R/utils.R | 18 ++++++++++++------ build/vignette.rds |binary inst/doc/Rd2roxygen.html | 19 ++++++++++--------- inst/examples/pkgDemo/DESCRIPTION | 2 ++ inst/examples/pkgDemo/R/tests.R |only inst/examples/pkgDemo/man/testy.Rd |only 10 files changed, 50 insertions(+), 29 deletions(-)
Title: Meta-Analysis of Significance Values
Description: The canonical way to perform meta-analysis involves using effect sizes.
When they are not available this package provides a number of methods for
meta-analysis of significance values including the methods of Edgington, Fisher,
Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results;
and routines for graphical display.
Author: Michael Dewey [aut, cre]
Maintainer: Michael Dewey <lists@dewey.myzen.co.uk>
Diff between metap versions 1.9 dated 2023-10-09 and 1.10 dated 2024-04-15
DESCRIPTION | 8 ++++---- MD5 | 41 +++++++++++++++++++++-------------------- NAMESPACE | 7 +++---- NEWS | 4 ++++ R/docontours.R | 9 +++++++++ build/metap.pdf |binary build/partial.rdb |binary build/stage23.rdb |binary build/vignette.rds |binary inst/doc/compare.pdf |binary inst/doc/metap.pdf |binary inst/doc/plotmetap.pdf |binary man/albatros.Rd | 17 +++-------------- man/dat.metap.Rd | 19 ++++++++++--------- man/invchisq.Rd | 2 +- man/invt.Rd | 2 +- man/logitp.Rd | 4 +--- man/meanz.Rd | 7 +++++-- man/metap-internal.Rd |only man/metap-package.Rd | 5 ----- man/sumz.Rd | 3 +-- man/truncated.Rd | 4 ++-- 22 files changed, 65 insertions(+), 67 deletions(-)
Title: Fit Multivariate Diversity-Interactions Models with Repeated
Measures
Description: An add-on package to 'DImodels' for the fitting of biodiversity and ecosystem function relationship study data with multiple ecosystem function responses and/or time points. This package uses the multivariate and repeated measures Diversity-Interactions (DI) methods developed by Kirwan et al. (2009) <doi:10.1890/08-1684.1>, Finn et al. (2013) <doi:10.1111/1365-2664.12041>, and Dooley et al. (2015) <doi:10.1111/ele.12504>.
Author: Laura Byrne [aut, cre] ,
Rishabh Vishwakarma [aut],
Rafael de Andrade Moral [aut],
Caroline Brophy [aut]
Maintainer: Laura Byrne <ByrneL54@tcd.ie>
Diff between DImodelsMulti versions 1.0.1 dated 2024-03-16 and 1.1.0 dated 2024-04-15
DESCRIPTION | 6 MD5 | 56 ++-- R/DImodelsMulti_HelpFile.R | 5 R/DImulti_fit.R | 102 ++++--- R/DImulti_fittingFuncs.R | 10 R/DImulti_vcov.R | 14 - inst/doc/DImulti_commonErrors.R | 13 inst/doc/DImulti_commonErrors.Rmd | 30 -- inst/doc/DImulti_commonErrors.html | 188 +++++++------ inst/doc/DImulti_onTheta.R | 21 - inst/doc/DImulti_onTheta.Rmd | 45 --- inst/doc/DImulti_onTheta.html | 76 +---- inst/doc/DImulti_prediction.R | 3 inst/doc/DImulti_prediction.Rmd | 3 inst/doc/DImulti_prediction.html | 227 ++++++++-------- inst/doc/DImulti_workflow.R | 20 - inst/doc/DImulti_workflow.Rmd | 26 + inst/doc/DImulti_workflow.html | 514 ++++++++++++++++++------------------- man/DImodelsMulti.Rd | 5 man/DImulti.Rd | 13 man/dataBEL.Rd | 4 man/dataSWE.Rd | 5 man/simMV.Rd | 4 man/simMVRM.Rd | 4 man/simRM.Rd | 5 vignettes/DImulti_commonErrors.Rmd | 30 -- vignettes/DImulti_onTheta.Rmd | 45 --- vignettes/DImulti_prediction.Rmd | 3 vignettes/DImulti_workflow.Rmd | 26 + 29 files changed, 704 insertions(+), 799 deletions(-)
Title: Create Validation Tests for Automated Content Analysis
Description: Intended to create standard human-in-the-loop validity tests for typical automated content analysis such as topic modeling and dictionary-based methods. This package offers a standard workflow with functions to prepare, administer and evaluate a human-in-the-loop validity test. This package provides functions for validating topic models using word intrusion, topic intrusion (Chang et al. 2009, <https://papers.nips.cc/paper/3700-reading-tea-leaves-how-humans-interpret-topic-models>) and word set intrusion (Ying et al. 2021) <doi:10.1017/pan.2021.33> tests. This package also provides functions for generating gold-standard data which are useful for validating dictionary-based methods. The default settings of all generated tests match those suggested in Chang et al. (2009) and Song et al. (2020) <doi:10.1080/10584609.2020.1723752>.
Author: Chung-hong Chan [aut, cre] ,
Marius Saeltzer [aut]
Maintainer: Chung-hong Chan <chainsawtiney@gmail.com>
Diff between oolong versions 0.6.0 dated 2024-02-10 and 0.6.1 dated 2024-04-15
DESCRIPTION | 6 ++--- MD5 | 22 ++++++++++---------- NEWS.md | 4 +++ build/vignette.rds |binary inst/doc/btm.R | 4 +-- inst/doc/btm.Rmd | 4 +-- inst/doc/btm.html | 6 ++--- inst/doc/overview.R | 8 ++++--- inst/doc/overview.Rmd | 8 ++++--- inst/doc/overview.html | 52 +++++++++++++++++++++++-------------------------- vignettes/btm.Rmd | 4 +-- vignettes/overview.Rmd | 8 ++++--- 12 files changed, 67 insertions(+), 59 deletions(-)
Title: Reporting Tables
Description: Reporting tables often have structure that goes beyond simple
rectangular data. The 'rtables' package provides a framework for
declaring complex multi-level tabulations and then applying them to
data. This framework models both tabulation and the resulting tables
as hierarchical, tree-like objects which support sibling sub-tables,
arbitrary splitting or grouping of data in row and column dimensions,
cells containing multiple values, and the concept of contextual
summary computations. A convenient pipe-able interface is provided for
declaring table layouts and the corresponding computations, and then
applying them to data.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Daniel Sabanes Bove [ctb],
Maximilian Mordig [ctb],
Davide Garolini [ctb],
Emily de la Rua [ctb],
Abinaya Yogasekaram [ctb],
Joe Zhu [ctb, cre],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between rtables versions 0.6.6 dated 2023-12-08 and 0.6.7 dated 2024-04-15
rtables-0.6.6/rtables/R/deprecated.R |only rtables-0.6.6/rtables/man/figures/rtables-basics.png |only rtables-0.6.6/rtables/man/summarize_rows.Rd |only rtables-0.6.6/rtables/man/trim_zero_rows.Rd |only rtables-0.6.7/rtables/DESCRIPTION | 33 rtables-0.6.7/rtables/MD5 | 399 ++--- rtables-0.6.7/rtables/NAMESPACE | 4 rtables-0.6.7/rtables/NEWS.md | 69 rtables-0.6.7/rtables/R/00tabletrees.R | 263 +-- rtables-0.6.7/rtables/R/Viewer.R | 15 rtables-0.6.7/rtables/R/argument_conventions.R | 405 ++--- rtables-0.6.7/rtables/R/as_html.R | 39 rtables-0.6.7/rtables/R/colby_constructors.R | 636 +++------ rtables-0.6.7/rtables/R/compare_rtables.R | 44 rtables-0.6.7/rtables/R/format_rcell.R | 27 rtables-0.6.7/rtables/R/indent.R | 23 rtables-0.6.7/rtables/R/index_footnotes.R | 21 rtables-0.6.7/rtables/R/make_split_fun.R | 237 +-- rtables-0.6.7/rtables/R/make_subset_expr.R | 9 rtables-0.6.7/rtables/R/package.R |only rtables-0.6.7/rtables/R/simple_analysis.R | 29 rtables-0.6.7/rtables/R/split_funs.R | 276 +-- rtables-0.6.7/rtables/R/summary.R | 218 --- rtables-0.6.7/rtables/R/tree_accessors.R | 695 ++++++---- rtables-0.6.7/rtables/R/tt_afun_utils.R | 155 -- rtables-0.6.7/rtables/R/tt_compare_tables.R | 147 -- rtables-0.6.7/rtables/R/tt_compatibility.R | 169 +- rtables-0.6.7/rtables/R/tt_dotabulation.R | 212 +-- rtables-0.6.7/rtables/R/tt_export.R | 353 +++-- rtables-0.6.7/rtables/R/tt_from_df.R | 31 rtables-0.6.7/rtables/R/tt_paginate.R | 133 - rtables-0.6.7/rtables/R/tt_pos_and_access.R | 238 +-- rtables-0.6.7/rtables/R/tt_showmethods.R | 18 rtables-0.6.7/rtables/R/tt_sort.R | 146 +- rtables-0.6.7/rtables/R/tt_toString.R | 197 +- rtables-0.6.7/rtables/R/utils.R | 19 rtables-0.6.7/rtables/R/validate_table_struct.R | 93 - rtables-0.6.7/rtables/README.md | 59 rtables-0.6.7/rtables/build/vignette.rds |binary rtables-0.6.7/rtables/inst/WORDLIST | 72 - rtables-0.6.7/rtables/inst/doc/advanced_usage.R | 2 rtables-0.6.7/rtables/inst/doc/advanced_usage.html | 4 rtables-0.6.7/rtables/inst/doc/baseline.R | 4 rtables-0.6.7/rtables/inst/doc/baseline.html | 4 rtables-0.6.7/rtables/inst/doc/clinical_trials.R | 10 rtables-0.6.7/rtables/inst/doc/clinical_trials.html | 4 rtables-0.6.7/rtables/inst/doc/custom_appearance.R | 4 rtables-0.6.7/rtables/inst/doc/custom_appearance.Rmd | 18 rtables-0.6.7/rtables/inst/doc/custom_appearance.html | 14 rtables-0.6.7/rtables/inst/doc/example_analysis_coxreg.R | 2 rtables-0.6.7/rtables/inst/doc/example_analysis_coxreg.html | 4 rtables-0.6.7/rtables/inst/doc/exploratory_analysis.R | 6 rtables-0.6.7/rtables/inst/doc/exploratory_analysis.Rmd | 22 rtables-0.6.7/rtables/inst/doc/exploratory_analysis.html | 8 rtables-0.6.7/rtables/inst/doc/format_precedence.R | 4 rtables-0.6.7/rtables/inst/doc/format_precedence.html | 4 rtables-0.6.7/rtables/inst/doc/introduction.R | 8 rtables-0.6.7/rtables/inst/doc/introduction.Rmd | 20 rtables-0.6.7/rtables/inst/doc/introduction.html | 6 rtables-0.6.7/rtables/inst/doc/introspecting_tables.R | 10 rtables-0.6.7/rtables/inst/doc/introspecting_tables.Rmd | 14 rtables-0.6.7/rtables/inst/doc/introspecting_tables.html | 43 rtables-0.6.7/rtables/inst/doc/manual_table_construction.R | 4 rtables-0.6.7/rtables/inst/doc/manual_table_construction.html | 4 rtables-0.6.7/rtables/inst/doc/sorting_pruning.R | 4 rtables-0.6.7/rtables/inst/doc/sorting_pruning.html | 8 rtables-0.6.7/rtables/inst/doc/split_functions.R | 2 rtables-0.6.7/rtables/inst/doc/split_functions.html | 4 rtables-0.6.7/rtables/inst/doc/subsetting_tables.R | 4 rtables-0.6.7/rtables/inst/doc/subsetting_tables.html | 4 rtables-0.6.7/rtables/inst/doc/tabulation_concepts.R | 4 rtables-0.6.7/rtables/inst/doc/tabulation_dplyr.R | 4 rtables-0.6.7/rtables/inst/doc/tabulation_dplyr.html | 4 rtables-0.6.7/rtables/inst/doc/title_footer.R | 2 rtables-0.6.7/rtables/inst/doc/title_footer.html | 4 rtables-0.6.7/rtables/man/CellValue.Rd | 40 rtables-0.6.7/rtables/man/ManualSplit.Rd | 52 rtables-0.6.7/rtables/man/MultiVarSplit.Rd | 87 - rtables-0.6.7/rtables/man/VarLevelSplit.Rd | 104 - rtables-0.6.7/rtables/man/Viewer.Rd | 13 rtables-0.6.7/rtables/man/add_colcounts.Rd | 17 rtables-0.6.7/rtables/man/add_combo_facet.Rd | 25 rtables-0.6.7/rtables/man/add_combo_levels.Rd | 29 rtables-0.6.7/rtables/man/add_existing_table.Rd | 13 rtables-0.6.7/rtables/man/add_overall_col.Rd | 17 rtables-0.6.7/rtables/man/add_overall_level.Rd | 27 rtables-0.6.7/rtables/man/additional_fun_params.Rd | 78 - rtables-0.6.7/rtables/man/analyze.Rd | 117 - rtables-0.6.7/rtables/man/analyze_colvars.Rd | 59 rtables-0.6.7/rtables/man/append_topleft.Rd | 28 rtables-0.6.7/rtables/man/as_html.Rd | 32 rtables-0.6.7/rtables/man/asvec.Rd | 12 rtables-0.6.7/rtables/man/avarspl.Rd | 85 - rtables-0.6.7/rtables/man/basic_table.Rd | 86 - rtables-0.6.7/rtables/man/brackets.Rd | 60 rtables-0.6.7/rtables/man/build_table.Rd | 65 rtables-0.6.7/rtables/man/cbind_rtables.Rd | 11 rtables-0.6.7/rtables/man/cell_values.Rd | 36 rtables-0.6.7/rtables/man/cinfo.Rd | 28 rtables-0.6.7/rtables/man/clear_imods.Rd | 12 rtables-0.6.7/rtables/man/col_accessors.Rd | 16 rtables-0.6.7/rtables/man/collect_leaves.Rd | 13 rtables-0.6.7/rtables/man/compare_rtables.Rd | 22 rtables-0.6.7/rtables/man/compat_args.Rd | 30 rtables-0.6.7/rtables/man/constr_args.Rd | 119 - rtables-0.6.7/rtables/man/content_table.Rd | 12 rtables-0.6.7/rtables/man/counts_wpcts.Rd | 8 rtables-0.6.7/rtables/man/custom_split_funs.Rd | 62 rtables-0.6.7/rtables/man/cutsplits.Rd | 92 - rtables-0.6.7/rtables/man/data.frame_export.Rd | 55 rtables-0.6.7/rtables/man/df_to_tt.Rd | 18 rtables-0.6.7/rtables/man/dimensions.Rd | 8 rtables-0.6.7/rtables/man/do_base_split.Rd | 28 rtables-0.6.7/rtables/man/drop_facet_levels.Rd | 13 rtables-0.6.7/rtables/man/export_as_docx.Rd | 58 rtables-0.6.7/rtables/man/find_degen_struct.Rd | 23 rtables-0.6.7/rtables/man/format_rcell.Rd | 25 rtables-0.6.7/rtables/man/formatters_methods.Rd | 77 - rtables-0.6.7/rtables/man/gen_args.Rd | 99 - rtables-0.6.7/rtables/man/gfc.Rd | 14 rtables-0.6.7/rtables/man/head_tail.Rd | 14 rtables-0.6.7/rtables/man/horizontal_sep.Rd | 12 rtables-0.6.7/rtables/man/in_rows.Rd | 33 rtables-0.6.7/rtables/man/indent.Rd | 6 rtables-0.6.7/rtables/man/indent_string.Rd | 12 rtables-0.6.7/rtables/man/insert_row_at_path.Rd | 24 rtables-0.6.7/rtables/man/insert_rrow.Rd | 23 rtables-0.6.7/rtables/man/int_methods.Rd | 159 -- rtables-0.6.7/rtables/man/is_rtable.Rd | 5 rtables-0.6.7/rtables/man/label_at_path.Rd | 35 rtables-0.6.7/rtables/man/length-CellValue-method.Rd | 4 rtables-0.6.7/rtables/man/list_wrap.Rd | 23 rtables-0.6.7/rtables/man/lyt_args.Rd | 186 +- rtables-0.6.7/rtables/man/make_afun.Rd | 58 rtables-0.6.7/rtables/man/make_col_df.Rd | 17 rtables-0.6.7/rtables/man/make_col_row_df.Rd | 11 rtables-0.6.7/rtables/man/make_split_fun.Rd | 111 - rtables-0.6.7/rtables/man/make_split_result.Rd | 31 rtables-0.6.7/rtables/man/manual_cols.Rd | 12 rtables-0.6.7/rtables/man/matrix_form-VTableTree-method.Rd | 44 rtables-0.6.7/rtables/man/names.Rd | 4 rtables-0.6.7/rtables/man/no_info.Rd | 7 rtables-0.6.7/rtables/man/paginate.Rd | 164 +- rtables-0.6.7/rtables/man/prune_table.Rd | 19 rtables-0.6.7/rtables/man/qtable_layout.Rd | 99 - rtables-0.6.7/rtables/man/rbind.Rd | 21 rtables-0.6.7/rtables/man/rcell.Rd | 53 rtables-0.6.7/rtables/man/ref_fnotes.Rd | 23 rtables-0.6.7/rtables/man/rheader.Rd | 25 rtables-0.6.7/rtables/man/row_accessors.Rd | 6 rtables-0.6.7/rtables/man/row_paths_summary.Rd | 14 rtables-0.6.7/rtables/man/rowclasses.Rd | 60 rtables-0.6.7/rtables/man/rrow.Rd | 25 rtables-0.6.7/rtables/man/rrowl.Rd | 25 rtables-0.6.7/rtables/man/rtable.Rd | 48 rtables-0.6.7/rtables/man/rtables-package.Rd |only rtables-0.6.7/rtables/man/rtinner.Rd | 21 rtables-0.6.7/rtables/man/sanitize_table_struct.Rd | 32 rtables-0.6.7/rtables/man/score_funs.Rd | 13 rtables-0.6.7/rtables/man/section_div.Rd | 23 rtables-0.6.7/rtables/man/sf_args.Rd | 16 rtables-0.6.7/rtables/man/sort_at_path.Rd | 113 - rtables-0.6.7/rtables/man/spl_context.Rd | 74 - rtables-0.6.7/rtables/man/spl_context_to_disp_path.Rd | 9 rtables-0.6.7/rtables/man/spl_variable.Rd | 18 rtables-0.6.7/rtables/man/split_cols_by.Rd | 101 - rtables-0.6.7/rtables/man/split_cols_by_multivar.Rd | 42 rtables-0.6.7/rtables/man/split_funcs.Rd | 98 - rtables-0.6.7/rtables/man/split_rows_by.Rd | 152 -- rtables-0.6.7/rtables/man/split_rows_by_multivar.Rd | 63 rtables-0.6.7/rtables/man/summarize_row_groups.Rd | 75 - rtables-0.6.7/rtables/man/tabclasses.Rd | 105 - rtables-0.6.7/rtables/man/table_shell.Rd | 54 rtables-0.6.7/rtables/man/table_structure.Rd | 12 rtables-0.6.7/rtables/man/top_left.Rd | 16 rtables-0.6.7/rtables/man/tostring.Rd | 71 - rtables-0.6.7/rtables/man/tree_children.Rd | 10 rtables-0.6.7/rtables/man/trim_levels_in_facets.Rd | 12 rtables-0.6.7/rtables/man/trim_levels_to_map.Rd | 27 rtables-0.6.7/rtables/man/trim_prune_funs.Rd | 82 - rtables-0.6.7/rtables/man/trim_rows.Rd | 25 rtables-0.6.7/rtables/man/tsv_io.Rd | 39 rtables-0.6.7/rtables/man/tt_to_flextable.Rd | 96 - rtables-0.6.7/rtables/man/ttap.Rd | 18 rtables-0.6.7/rtables/man/update_ref_indexing.Rd | 17 rtables-0.6.7/rtables/man/validate_table_struct.Rd | 51 rtables-0.6.7/rtables/man/value_formats.Rd | 18 rtables-0.6.7/rtables/man/varcuts.Rd | 87 - rtables-0.6.7/rtables/man/vil.Rd | 34 rtables-0.6.7/rtables/tests/testthat/setup-fakedata.R | 13 rtables-0.6.7/rtables/tests/testthat/setup-options.R |only rtables-0.6.7/rtables/tests/testthat/test-accessors.R | 27 rtables-0.6.7/rtables/tests/testthat/test-deprecated.R | 7 rtables-0.6.7/rtables/tests/testthat/test-indent-mod.R | 6 rtables-0.6.7/rtables/tests/testthat/test-lyt-tabulation.R | 2 rtables-0.6.7/rtables/tests/testthat/test-matrix_form.R |only rtables-0.6.7/rtables/tests/testthat/test-pagination.R | 8 rtables-0.6.7/rtables/tests/testthat/test-printing.R | 63 rtables-0.6.7/rtables/tests/testthat/test-result_data_frame.R | 129 + rtables-0.6.7/rtables/tests/testthat/test-sort-prune.R | 58 rtables-0.6.7/rtables/vignettes/custom_appearance.Rmd | 18 rtables-0.6.7/rtables/vignettes/exploratory_analysis.Rmd | 22 rtables-0.6.7/rtables/vignettes/images |only rtables-0.6.7/rtables/vignettes/introduction.Rmd | 20 rtables-0.6.7/rtables/vignettes/introspecting_tables.Rmd | 14 205 files changed, 5203 insertions(+), 5897 deletions(-)
Title: Clinical Trial Style Data Readout Listings
Description: Listings are often part of the submission of clinical trial
data in regulatory settings. We provide a framework for the specific
formatting features often used when displaying large datasets in that
context.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Joe Zhu [aut, cre],
Davide Garolini [ctb],
Emily de la Rua [ctb],
Abinaya Yogasekaram [ctb],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between rlistings versions 0.2.7 dated 2023-12-06 and 0.2.8 dated 2024-04-15
rlistings-0.2.7/rlistings/man/defunct.Rd |only rlistings-0.2.8/rlistings/DESCRIPTION | 23 rlistings-0.2.8/rlistings/MD5 | 81 rlistings-0.2.8/rlistings/NAMESPACE | 2 rlistings-0.2.8/rlistings/NEWS.md | 28 rlistings-0.2.8/rlistings/R/listing_export.R | 5 rlistings-0.2.8/rlistings/R/paginate_listing.R | 94 rlistings-0.2.8/rlistings/R/rlistings.R | 190 - rlistings-0.2.8/rlistings/R/rlistings_methods.R | 76 rlistings-0.2.8/rlistings/build/vignette.rds |binary rlistings-0.2.8/rlistings/inst/WORDLIST | 6 rlistings-0.2.8/rlistings/inst/cheatsheet |only rlistings-0.2.8/rlistings/inst/doc/col_formatting.R | 4 rlistings-0.2.8/rlistings/inst/doc/col_formatting.html | 4 rlistings-0.2.8/rlistings/inst/doc/pagination.R | 34 rlistings-0.2.8/rlistings/inst/doc/pagination.Rmd | 43 rlistings-0.2.8/rlistings/inst/doc/pagination.html | 1371 ++++------ rlistings-0.2.8/rlistings/inst/doc/ref_footnotes.R | 4 rlistings-0.2.8/rlistings/inst/doc/ref_footnotes.html | 434 +-- rlistings-0.2.8/rlistings/inst/doc/rlistings.R | 2 rlistings-0.2.8/rlistings/inst/doc/rlistings.Rmd | 8 rlistings-0.2.8/rlistings/inst/doc/rlistings.html | 100 rlistings-0.2.8/rlistings/man/listing_methods.Rd | 43 rlistings-0.2.8/rlistings/man/listings.Rd | 89 rlistings-0.2.8/rlistings/man/make_row_df-listing_df-method.Rd | 33 rlistings-0.2.8/rlistings/man/matrix_form-listing_df-method.Rd | 21 rlistings-0.2.8/rlistings/man/paginate.Rd | 89 rlistings-0.2.8/rlistings/man/reexports.Rd | 3 rlistings-0.2.8/rlistings/man/rlistings-package.Rd | 3 rlistings-0.2.8/rlistings/man/split_into_pages_by_var.Rd |only rlistings-0.2.8/rlistings/man/vec_nlines.Rd | 16 rlistings-0.2.8/rlistings/tests/testthat/_snaps/export.md | 160 + rlistings-0.2.8/rlistings/tests/testthat/_snaps/paginate_listing.md | 137 rlistings-0.2.8/rlistings/tests/testthat/_snaps/print.md | 42 rlistings-0.2.8/rlistings/tests/testthat/setup-options.R |only rlistings-0.2.8/rlistings/tests/testthat/setup.R | 8 rlistings-0.2.8/rlistings/tests/testthat/test-export.R | 46 rlistings-0.2.8/rlistings/tests/testthat/test-listings.R | 44 rlistings-0.2.8/rlistings/tests/testthat/test-matrix_form.R |only rlistings-0.2.8/rlistings/tests/testthat/test-paginate_listing.R | 191 + rlistings-0.2.8/rlistings/tests/testthat/test-print.R | 8 rlistings-0.2.8/rlistings/vignettes/pagination.Rmd | 43 rlistings-0.2.8/rlistings/vignettes/rlistings.Rmd | 8 43 files changed, 1939 insertions(+), 1554 deletions(-)
Title: Create Tidy Data Frames of Marginal Effects for 'ggplot' from
Model Outputs
Description: Compute marginal effects and adjusted predictions from statistical
models and returns the result as tidy data frames. These data frames are
ready to use with the 'ggplot2'-package. Effects and predictions can be
calculated for many different models. Interaction terms, splines and
polynomial terms are also supported. The main functions are ggpredict(),
ggemmeans() and ggeffect(). There is a generic plot()-method to plot the
results using 'ggplot2'.
Author: Daniel Luedecke [aut, cre] ,
Frederik Aust [ctb] ,
Sam Crawley [ctb] ,
Mattan S. Ben-Shachar [ctb] ,
Sean C. Anderson [ctb]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between ggeffects versions 1.5.1 dated 2024-03-26 and 1.5.2 dated 2024-04-15
DESCRIPTION | 13 MD5 | 91 + NEWS.md | 25 R/coffee_data.R |only R/efc.R | 5 R/emmeans_prediction_data.R | 14 R/fish.R | 4 R/ggaverage.R | 23 R/ggeffect.R | 3 R/ggemmeans.R | 29 R/ggemmeans_zi_predictions.R | 13 R/ggpredict.R | 13 R/install_latest.R | 2 R/post_processing_labels.R | 2 R/predict_response.R | 10 R/predict_zero_inflation.R | 17 R/test_predictions.R | 440 ++++++--- R/test_predictions_emmeans.R |only R/utils.R | 13 R/utils_get_data_grid.R | 23 R/utils_get_representative_values.R | 2 R/utils_set_attr.R | 5 README.md | 14 data/coffee_data.rda |only inst/doc/content.html | 4 man/coffee_data.Rd |only man/efc.Rd | 5 man/figures/unnamed-chunk-6-1.png |binary man/fish.Rd | 4 man/ggpredict.Rd | 10 man/predict_response.Rd | 10 man/test_predictions.Rd | 40 tests/testthat/_snaps/polr.md | 260 ++--- tests/testthat/_snaps/print_test_predictions-ordinal.md | 278 ++--- tests/testthat/_snaps/print_test_predictions.md | 774 ++++++++-------- tests/testthat/_snaps/test_predictions-margin.md |only tests/testthat/_snaps/test_predictions-mixed.md |only tests/testthat/_snaps/test_predictions_emmeans.md |only tests/testthat/test-avg_predictions.R | 2 tests/testthat/test-brms-categ-cum.R | 16 tests/testthat/test-ggeffect.R |only tests/testthat/test-glmmTMB.R | 32 tests/testthat/test-interval_re.R | 4 tests/testthat/test-johnson_neyman.R | 10 tests/testthat/test-lmer.R | 7 tests/testthat/test-prediction_interval.R | 1 tests/testthat/test-rstanarm.R | 2 tests/testthat/test-test_predictions-margin.R |only tests/testthat/test-test_predictions-mixed.R |only tests/testthat/test-test_predictions.R | 12 tests/testthat/test-test_predictions_emmeans.R |only tests/testthat/test-zi_prob.R | 72 + 52 files changed, 1363 insertions(+), 941 deletions(-)
Title: Tidy Verbs for Fast Data Manipulation
Description: A toolkit of tidy data manipulation verbs with 'data.table' as the backend.
Combining the merits of syntax elegance from 'dplyr' and computing performance from 'data.table',
'tidyfst' intends to provide users with state-of-the-art data manipulation tools with least pain.
This package is an extension of 'data.table'. While enjoying a tidy syntax,
it also wraps combinations of efficient functions to facilitate frequently-used data operations.
Author: Tian-Yuan Huang [aut, cre]
Maintainer: Tian-Yuan Huang <huang.tian-yuan@qq.com>
Diff between tidyfst versions 1.7.7 dated 2023-07-17 and 1.7.8 dated 2024-04-15
DESCRIPTION | 8 MD5 | 58 NAMESPACE | 27 R/sample.R | 2 R/summarise_dt.R | 2 build/vignette.rds |binary inst/doc/benchmark.R | 4 inst/doc/benchmark.Rmd | 2 inst/doc/benchmark.html | 472 ++++--- inst/doc/chinese_tutorial.R | 2 inst/doc/chinese_tutorial.html | 674 +++++------ inst/doc/english_tutorial.R | 2 inst/doc/english_tutorial.html | 2426 ++++++++++++++++++++--------------------- inst/doc/example1_intro.R | 2 inst/doc/example1_intro.html | 388 +++--- inst/doc/example2_join.R | 2 inst/doc/example2_join.html | 413 +++--- inst/doc/example3_reshape.R | 2 inst/doc/example3_reshape.html | 430 +++---- inst/doc/example4_nest.R | 2 inst/doc/example4_nest.html | 152 +- inst/doc/example5_fst.R | 2 inst/doc/example5_fst.html | 72 - inst/doc/example6_dt.R | 2 inst/doc/example6_dt.html | 32 man/sample.Rd | 2 man/summarise_dt.Rd | 2 tests/testthat/test-count_dt.R | 2 tests/testthat/test-group_dt.R | 2 vignettes/benchmark.Rmd | 2 30 files changed, 2610 insertions(+), 2578 deletions(-)
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: Tomasz Kalinowski [ctb, cre],
Kevin Ushey [aut],
JJ Allaire [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] ,
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Sigrid Keydana [ctb],
Ryan Hafen [ctb, cph],
Marcus Geelnard [ctb, cph]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between reticulate versions 1.35.0 dated 2024-01-31 and 1.36.0 dated 2024-04-15
DESCRIPTION | 6 MD5 | 136 +- NAMESPACE | 8 NEWS.md | 97 + R/RcppExports.R | 131 ++ R/array.R | 3 R/class.R | 52 - R/conda.R | 28 R/config.R | 20 R/conversion.R | 180 +-- R/generator.R | 8 R/help.R | 6 R/import.R | 17 R/install-python.R | 22 R/knitr-engine.R | 52 - R/miniconda.R | 6 R/package.R | 34 R/pyenv.R | 14 R/python-dict.R | 23 R/python-item.R | 42 R/python-tools.R | 6 R/python.R | 397 ++------ R/source.R | 8 R/utils.R | 15 R/virtualenv.R | 2 build/vignette.rds |binary inst/config/config.py | 62 - inst/doc/package.Rmd | 2 inst/doc/package.html | 2 inst/doc/python_primer.html | 28 inst/doc/versions.Rmd | 5 inst/doc/versions.html | 9 inst/python/rpytools/generator.py | 6 inst/python/rpytools/help.py | 198 ++-- inst/python/rpytools/loader.py | 184 +-- inst/python/rpytools/output.py | 299 ++---- inst/python/rpytools/signals.py | 40 inst/python/rpytools/test.py | 129 +- inst/python/rpytools/thread.py | 35 man/conda-tools.Rd | 2 man/import.Rd | 8 man/install_python.Rd | 22 man/is_py_object.Rd |only man/iterate.Rd | 14 man/py_del_attr.Rd | 2 man/py_discover_config.Rd | 4 man/py_get_attr.Rd | 2 man/py_get_item.Rd | 8 man/py_has_attr.Rd | 2 man/py_last_error.Rd | 14 man/py_set_attr.Rd | 2 src/RcppExports.cpp | 253 +++-- src/libpython.cpp | 18 src/libpython.h | 1 src/python.cpp | 1627 ++++++++++++++++++++------------- src/reticulate_types.h | 136 ++ tests/testthat/resources/_snaps |only tests/testthat/script.py | 14 tests/testthat/test-delay-load.R | 12 tests/testthat/test-python-arrays.R | 71 + tests/testthat/test-python-classes.R | 2 tests/testthat/test-python-datetime.R | 2 tests/testthat/test-python-dict.R | 46 tests/testthat/test-python-iterators.R | 57 + tests/testthat/test-python-objects.R | 46 tests/testthat/test-python-output.R | 78 + tests/testthat/test-python-pandas.R | 106 ++ tests/testthat/test-python-source.R | 10 vignettes/package.Rmd | 2 vignettes/versions.Rmd | 5 70 files changed, 2976 insertions(+), 1902 deletions(-)
Title: ASCII Formatting for Values and Tables
Description: We provide a framework for rendering complex tables to ASCII,
and a set of formatters for transforming values or sets of values into
ASCII-ready display strings.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Davide Garolini [ctb],
Emily de la Rua [ctb],
Abinaya Yogasekaram [ctb],
Joe Zhu [ctb, cre],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between formatters versions 0.5.5 dated 2023-12-06 and 0.5.6 dated 2024-04-15
formatters-0.5.5/formatters/man/basic_matrix_form.Rd |only formatters-0.5.6/formatters/DESCRIPTION | 23 formatters-0.5.6/formatters/MD5 | 161 +- formatters-0.5.6/formatters/NAMESPACE | 4 formatters-0.5.6/formatters/NEWS.md | 19 formatters-0.5.6/formatters/R/data.R | 10 formatters-0.5.6/formatters/R/format_value.R | 147 - formatters-0.5.6/formatters/R/generics.R | 373 ++-- formatters-0.5.6/formatters/R/labels.R | 79 - formatters-0.5.6/formatters/R/matrix_form.R | 704 ++++++--- formatters-0.5.6/formatters/R/mpf_exporters.R | 290 ++- formatters-0.5.6/formatters/R/page_size.R | 79 - formatters-0.5.6/formatters/R/pagination.R | 750 ++++++---- formatters-0.5.6/formatters/R/tostring.R | 370 ++-- formatters-0.5.6/formatters/R/utils.R | 16 formatters-0.5.6/formatters/R/zzz.R |only formatters-0.5.6/formatters/README.md | 25 formatters-0.5.6/formatters/build/vignette.rds |binary formatters-0.5.6/formatters/inst/WORDLIST | 15 formatters-0.5.6/formatters/inst/doc/formatters.R | 4 formatters-0.5.6/formatters/inst/doc/formatters.Rmd | 2 formatters-0.5.6/formatters/inst/doc/formatters.html | 9 formatters-0.5.6/formatters/man/DM.Rd | 6 formatters-0.5.6/formatters/man/MatrixPrintForm.Rd | 189 +- formatters-0.5.6/formatters/man/MatrixPrintForm_class.Rd | 4 formatters-0.5.6/formatters/man/basemethods.Rd | 2 formatters-0.5.6/formatters/man/basic_pagdf.Rd | 30 formatters-0.5.6/formatters/man/cdisc_data.Rd | 6 formatters-0.5.6/formatters/man/check_formats.Rd | 15 formatters-0.5.6/formatters/man/decimal_align.Rd | 26 formatters-0.5.6/formatters/man/default_horizontal_sep.Rd | 19 formatters-0.5.6/formatters/man/default_page_number.Rd |only formatters-0.5.6/formatters/man/divider_height.Rd | 11 formatters-0.5.6/formatters/man/do_forced_paginate.Rd | 19 formatters-0.5.6/formatters/man/export_as_pdf.Rd | 112 - formatters-0.5.6/formatters/man/export_as_rtf.Rd | 59 formatters-0.5.6/formatters/man/export_as_txt.Rd | 131 - formatters-0.5.6/formatters/man/fmt_config.Rd | 10 formatters-0.5.6/formatters/man/font_lcpi.Rd | 23 formatters-0.5.6/formatters/man/format_value.Rd | 13 formatters-0.5.6/formatters/man/formatters-package.Rd | 3 formatters-0.5.6/formatters/man/ifnotlen0.Rd | 12 formatters-0.5.6/formatters/man/is.wholenumber.Rd | 11 formatters-0.5.6/formatters/man/lab_name.Rd | 10 formatters-0.5.6/formatters/man/list_formats.Rd | 10 formatters-0.5.6/formatters/man/make_row_df.Rd | 69 formatters-0.5.6/formatters/man/matrix_form.Rd | 42 formatters-0.5.6/formatters/man/mpf_accessors.Rd | 17 formatters-0.5.6/formatters/man/mpf_to_rtf.Rd | 43 formatters-0.5.6/formatters/man/nlines.Rd | 13 formatters-0.5.6/formatters/man/num_rep_cols.Rd | 21 formatters-0.5.6/formatters/man/padstr.Rd | 18 formatters-0.5.6/formatters/man/pag_indices_inner.Rd | 90 - formatters-0.5.6/formatters/man/pagdfrow.Rd | 51 formatters-0.5.6/formatters/man/page_lcpp.Rd | 38 formatters-0.5.6/formatters/man/page_types.Rd | 14 formatters-0.5.6/formatters/man/paginate_indices.Rd | 233 +-- formatters-0.5.6/formatters/man/pagination_algo.Rd | 40 formatters-0.5.6/formatters/man/propose_column_widths.Rd | 15 formatters-0.5.6/formatters/man/ref_df_row.Rd | 26 formatters-0.5.6/formatters/man/round_fmt.Rd | 52 formatters-0.5.6/formatters/man/spans_to_viscell.Rd | 29 formatters-0.5.6/formatters/man/spread_integer.Rd | 13 formatters-0.5.6/formatters/man/sprintf_format.Rd | 10 formatters-0.5.6/formatters/man/table_inset.Rd | 25 formatters-0.5.6/formatters/man/test_matrix_form.Rd |only formatters-0.5.6/formatters/man/title_footer.Rd | 12 formatters-0.5.6/formatters/man/tostring.Rd | 66 formatters-0.5.6/formatters/man/var_labels-set.Rd | 14 formatters-0.5.6/formatters/man/var_labels.Rd | 16 formatters-0.5.6/formatters/man/var_labels_remove.Rd | 9 formatters-0.5.6/formatters/man/var_relabel.Rd | 12 formatters-0.5.6/formatters/man/vert_pag_indices.Rd | 24 formatters-0.5.6/formatters/man/with_label.Rd | 9 formatters-0.5.6/formatters/man/wrap_string.Rd | 38 formatters-0.5.6/formatters/tests/testthat/setup-options.R |only formatters-0.5.6/formatters/tests/testthat/setup.R | 1 formatters-0.5.6/formatters/tests/testthat/test-exporters.R | 164 +- formatters-0.5.6/formatters/tests/testthat/test-formatters.R | 100 - formatters-0.5.6/formatters/tests/testthat/test-listings.R |only formatters-0.5.6/formatters/tests/testthat/test-matrix_form.R |only formatters-0.5.6/formatters/tests/testthat/test-pagination.R | 125 + formatters-0.5.6/formatters/tests/testthat/test-print.R |only formatters-0.5.6/formatters/tests/testthat/test-ref_fnotes.R |only formatters-0.5.6/formatters/tests/testthat/test-txt_wrap.R | 153 +- formatters-0.5.6/formatters/vignettes/formatters.Rmd | 2 86 files changed, 2964 insertions(+), 2441 deletions(-)
Title: Interface to 'D4Science' 'StorageHub' API
Description: Provides an interface to 'D4Science' 'StorageHub' API (<https://dev.d4science.org/>). Allows to get user profile, and perform
actions over the 'StorageHub' (workspace) including creation of folders, files management (upload/update/deletion/sharing), and listing of
stored resources.
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between d4storagehub4R versions 0.4-3 dated 2023-03-01 and 0.4-4 dated 2024-04-15
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 14 ++++++++++---- R/StoragehubManager.R | 8 +++++--- README.md | 2 +- man/d4storagehub4R.Rd | 30 +++++++++++++++--------------- 6 files changed, 41 insertions(+), 33 deletions(-)
More information about d4storagehub4R at CRAN
Permanent link
Title: A Framework for Building HTTP API
Description: Allows to easily create high-performance full featured HTTP APIs from R
functions. Provides high-level classes such as 'Request', 'Response',
'Application', 'Middleware' in order to streamline server side
application development. Out of the box allows to serve requests using
'Rserve' package, but flexible enough to integrate with other HTTP servers
such as 'httpuv'.
Author: Dmitry Selivanov [aut, cre] ,
Artem Klevtsov [aut] ,
David Zimmermann [ctb],
rexy.ai [cph, fnd]
Maintainer: Dmitry Selivanov <ds@rexy.ai>
Diff between RestRserve versions 1.2.1 dated 2022-09-12 and 1.2.2 dated 2024-04-15
DESCRIPTION | 9 MD5 | 56 +- NEWS.md | 6 R/Application.R | 1146 +++++++++++++++++++++--------------------- R/AuthBackendBasic.R | 2 R/AuthBackendBearer.R | 2 R/BackendRserve.R | 12 R/HTTPDate.R | 2 README.md | 4 build/vignette.rds |binary inst/doc/Authentication.R | 2 inst/doc/Authentication.Rmd | 2 inst/doc/Authentication.html | 333 ++++++------ inst/doc/ContentHandlers.R | 2 inst/doc/ContentHandlers.html | 425 +++++++-------- inst/doc/Logging.R | 2 inst/doc/Logging.html | 173 +++--- inst/doc/Middleware.R | 2 inst/doc/Middleware.html | 285 +++++----- inst/doc/RestRserve.R | 6 inst/doc/RestRserve.html | 239 ++++---- man/ApplicationProcess.Rd | 4 man/AuthBackendBasic.Rd | 4 man/AuthBackendBearer.Rd | 4 man/AuthMiddleware.Rd | 4 man/HTTPDate-class.Rd | 2 src/Makevars | 1 src/Makevars.win | 1 vignettes/Authentication.Rmd | 2 29 files changed, 1364 insertions(+), 1368 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.4.0 dated 2024-04-11 and 1.4.0.1 dated 2024-04-15
DESCRIPTION | 8 - MD5 | 10 - configure.ac | 2 src/include/GPBoost/likelihoods.h | 227 +++++++++----------------------- src/include/GPBoost/optim_utils.h | 21 +- src/include/GPBoost/re_model_template.h | 9 + 6 files changed, 94 insertions(+), 183 deletions(-)
Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory
factor analysis, structural equation models, and latent growth curve models. References: Merkle & Rosseel (2018) <doi:10.18637/jss.v085.i04>; Merkle et al. (2021) <doi:10.18637/jss.v100.i06>.
Author: Edgar Merkle [aut, cre] ,
Yves Rosseel [aut],
Ben Goodrich [aut],
Mauricio Garnier-Villarreal [ctb]
,
Terrence D. Jorgensen [ctb] ,
Huub Hoofs [ctb] ,
Rens van de Schoot [ctb] ,
Andrew Johnson [ctb] ,
Matthew Emery [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between blavaan versions 0.5-3 dated 2024-01-19 and 0.5-4 dated 2024-04-15
DESCRIPTION | 6 ++--- MD5 | 49 +++++++++++++++++++++---------------------- NAMESPACE | 4 +-- NEWS.md | 12 ++++++++++ R/blav_object_methods.R | 11 +++++---- R/blav_predict.R | 48 +++++++++++++++++++++++++++++++++++++++++- R/blavaan.R | 38 +++++++++++++++++++++++---------- R/lav_export_stanmarg.R | 32 ++++++++++++++-------------- R/lvgqs.R | 8 +++++-- R/margloglik.R | 20 +++++++++++++++-- R/postpred.R | 18 +++++++++++++++ README.md | 1 inst/stan/stanmarg.stan | 22 ++++++++++++++----- inst/testdata/sysdata.rda |binary man/bcfa.Rd | 4 ++- man/bgrowth.Rd | 4 ++- man/blavCompare.Rd | 6 +++-- man/blavFitIndices.Rd | 2 + man/blavInspect.Rd | 2 + man/blavPredict.Rd | 12 +++++----- man/blavaan.Rd | 8 ++++--- man/bsem.Rd | 6 +++-- man/plot.blavaan.Rd | 4 ++- man/ppmc.Rd | 2 + man/sampleData.Rd |only man/standardizedPosterior.Rd | 7 +++--- 26 files changed, 237 insertions(+), 89 deletions(-)
Title: Add Tests to Examples
Description: Add tests in-line in examples. Provides standalone functions for
facilitating easier test writing in Rd files. However, a more familiar
interface is provided using 'roxygen2' tags. Tools are also provided for
facilitating package configuration and use with 'testthat'.
Author: Doug Kelkhoff [aut, cre]
Maintainer: Doug Kelkhoff <doug.kelkhoff@gmail.com>
Diff between testex versions 0.1.0 dated 2024-04-04 and 0.2.0 dated 2024-04-14
DESCRIPTION | 7 - MD5 | 57 ++++++------ NAMESPACE | 2 NEWS.md | 45 +++++++++ R/opts.R | 88 +++++++++++++++---- R/roxygen2.R | 31 +++--- R/testex.R | 85 ++++++++++++++---- R/testthat.R | 127 ++++++++++++---------------- R/utils.R | 43 +++++++-- R/utils_srcref.R | 25 +++-- inst/pkg.example/DESCRIPTION | 3 inst/pkg.example/R/fn.R | 8 - inst/pkg.example/man/fn.Rd | 6 - inst/pkg.example/man/fn_roxygen.Rd | 18 ++- inst/pkg.example/man/fn_roxygen_multiple.Rd | 16 ++- inst/pkg.example/man/fn_roxygen_testthat.Rd | 26 +---- man/fallback_expect_no_error.Rd |only man/package-file-helpers.Rd | 2 man/test_examples_as_testthat.Rd | 10 +- man/testex-options.Rd | 6 - man/testex-testthat.Rd | 97 +-------------------- man/testex.Rd | 29 +++--- man/uses_roxygen2.Rd |only man/with_srcref.Rd |only tests/testthat/setup.R |only tests/testthat/test-options.R | 28 ++++-- tests/testthat/test-pkgexample.R |only tests/testthat/test-roxygen2-testthat.R | 2 tests/testthat/test-srcref-key.R | 9 + tests/testthat/test-testex.R | 7 + tests/testthat/test-testthat.R | 45 +-------- tests/testthat/test-use.R | 8 - 32 files changed, 469 insertions(+), 361 deletions(-)
Title: Creating and Annotating a Composite Plot in 'ggplot2'
Description: Provides functions for creating and annotating a composite plot in 'ggplot2'. Offers background themes and shortcut plotting functions that produce figures that are appropriate for the format of scientific journals. Some methods are described in Min and Zhou (2021) <doi:10.3389/fgene.2021.802894>.
Author: Seung Hyun Min [aut, cre]
Maintainer: Seung Hyun (Sam) Min <seung.min@mail.mcgill.ca>
Diff between smplot2 versions 0.1.0 dated 2024-04-12 and 0.2.0 dated 2024-04-14
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- NEWS.md | 12 +++++++----- R/sm_put_together.R | 9 +++++---- README.md | 15 +++++++++++++-- man/figures |only 6 files changed, 33 insertions(+), 18 deletions(-)
Title: R Bindings for 'ZeroMQ'
Description: Interface to the 'ZeroMQ' lightweight messaging kernel (see <https://zeromq.org/> for more information).
Author: Whit Armstrong [aut],
Michael Schubert [ctb],
Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between rzmq versions 0.9.12 dated 2023-12-04 and 0.9.13 dated 2024-04-14
DESCRIPTION | 6 +- MD5 | 8 +- NEWS | 3 + src/Makevars.in | 2 src/interface.cpp | 150 +++++++++++++++++++++++++++--------------------------- 5 files changed, 86 insertions(+), 83 deletions(-)
Title: Horn's Test of Principal Components/Factors
Description: An implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
Author: Alexis Dinno
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between paran versions 1.5.2 dated 2018-10-14 and 1.5.3 dated 2024-04-14
DESCRIPTION | 13 +++++++------ MD5 | 5 +++-- build |only man/paran.Rd | 10 +++++----- 4 files changed, 15 insertions(+), 13 deletions(-)
Title: Optimized Automated Gaussian Mixture Assessment
Description: Necessary functions for optimized automated evaluation of the number and parameters of Gaussian mixtures in one-dimensional data. Various methods are available for parameter estimation and for determining the number of modes in the mixture. A detailed description of the methods ca ben found in Lotsch, J., Malkusch, S. and A. Ultsch. (2022) <doi:10.1016/j.imu.2022.101113>.
Author: Jorn Lotsch [aut,cre] ,
Sebastian Malkusch [aut] ,
Martin Maechler [ctb],
Peter Rousseeuw [ctb],
Anja Struyf [ctb],
Mia Hubert [ctb],
Kurt Hornik [ctb]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between opGMMassessment versions 0.3.6 dated 2024-03-28 and 0.4 dated 2024-04-14
DESCRIPTION | 6 - MD5 | 14 +-- R/CreateGMM.R | 51 +++++++----- R/DetermineBestGMM.R | 170 ++++++++++++++++++------------------------ R/GMMplotGG.R | 176 ++++++++++++++++++++++++------------------- R/PerformGMMfit.R | 206 ++++++++++++++++++++++++++------------------------- R/clusGapP.R | 126 +++++++++++++++++-------------- R/opGMMassessment.R | 192 ++++++++++++++++++++++------------------------- 8 files changed, 483 insertions(+), 458 deletions(-)
More information about opGMMassessment at CRAN
Permanent link
Title: Neutrosophic Distributions
Description: Computes the pdf, cdf, quantile function and generating random numbers for neutrosophic distributions. This family have been developed by different authors in the recent years. See Patro and Smarandache (2016) <doi:10.5281/zenodo.571153> and Rao et al (2023) <doi:10.5281/zenodo.7832786>.
Author: Danial Mazarei [aut, cre] ,
Mina Norouzirad [aut] ,
Amin Roshani [aut] ,
Gadde Srinivasa Rao [ctb] ,
Foad Esmaeili [ctb] ,
FCT, I.P. [fnd] )
Maintainer: Danial Mazarei <danial.mazarei@gmail.com>
Diff between ntsDists versions 2.0.0 dated 2023-12-01 and 2.1.0 dated 2024-04-14
ntsDists-2.0.0/ntsDists/R/nsdunif.R |only ntsDists-2.0.0/ntsDists/R/nsgexp.R |only ntsDists-2.0.0/ntsDists/R/nsgpd.R |only ntsDists-2.0.0/ntsDists/R/nsgrayleigh.R |only ntsDists-2.0.0/ntsDists/R/nsnbinom.R |only ntsDists-2.1.0/ntsDists/DESCRIPTION | 15 ntsDists-2.1.0/ntsDists/MD5 | 80 +- ntsDists-2.1.0/ntsDists/NAMESPACE | 188 ++--- ntsDists-2.1.0/ntsDists/NEWS.md | 8 ntsDists-2.1.0/ntsDists/R/balls.R | 48 - ntsDists-2.1.0/ntsDists/R/nsDiscUnif.R |only ntsDists-2.1.0/ntsDists/R/nsGenExp.R |only ntsDists-2.1.0/ntsDists/R/nsGenPareto.R |only ntsDists-2.1.0/ntsDists/R/nsGenRayleigh.R |only ntsDists-2.1.0/ntsDists/R/nsKumaraswamy.R |only ntsDists-2.1.0/ntsDists/R/nsLaplace.R |only ntsDists-2.1.0/ntsDists/R/nsNegBinom.R |only ntsDists-2.1.0/ntsDists/R/nsbeta.R | 313 ++++----- ntsDists-2.1.0/ntsDists/R/nsbinom.R | 327 +++++----- ntsDists-2.1.0/ntsDists/R/nsexp.R | 306 ++++----- ntsDists-2.1.0/ntsDists/R/nsgamma.R | 300 ++++----- ntsDists-2.1.0/ntsDists/R/nsgeom.R | 298 ++++----- ntsDists-2.1.0/ntsDists/R/nsnorm.R | 309 ++++----- ntsDists-2.1.0/ntsDists/R/nspois.R | 314 ++++----- ntsDists-2.1.0/ntsDists/R/nsrayleigh.R | 290 ++++---- ntsDists-2.1.0/ntsDists/R/nsunif.R | 282 ++++---- ntsDists-2.1.0/ntsDists/R/nsweibull.R | 293 ++++---- ntsDists-2.1.0/ntsDists/R/remission.R | 44 - ntsDists-2.1.0/ntsDists/README.md | 114 +-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Beta.Rd | 161 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Binomial.Rd | 157 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Discrete-Uniform.Rd | 141 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Exponential.Rd | 160 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Gamma.Rd | 147 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Generalized-Exponential.Rd | 153 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Generalized-Pareto.Rd | 145 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Generalized-Rayleigh.Rd | 147 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Geometric.Rd | 141 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Kumaraswamy.Rd |only ntsDists-2.1.0/ntsDists/man/Neutrosophic-Laplace.Rd |only ntsDists-2.1.0/ntsDists/man/Neutrosophic-Negative-Binomial.Rd | 129 ++- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Normal.Rd | 144 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Poisson.Rd | 147 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Rayleigh.Rd | 139 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Uniform.Rd | 142 ++-- ntsDists-2.1.0/ntsDists/man/Neutrosophic-Weibull.Rd | 147 ++-- ntsDists-2.1.0/ntsDists/man/balls.Rd | 48 - ntsDists-2.1.0/ntsDists/man/remission.Rd | 46 - 48 files changed, 2956 insertions(+), 2867 deletions(-)
Title: Selection of Statistically Similar Research Groups
Description: Select statistically similar research groups by backward selection using various robust algorithms, including a heuristic based on linear discriminant analysis, multiple heuristics based on the test statistic, and parallelized exhaustive search.
Author: Kyle Gorman [aut, cre],
Geza Kiss [aut]
Maintainer: Kyle Gorman <kylebgorman@gmail.com>
Diff between ldamatch versions 1.0.2 dated 2021-05-23 and 1.0.3 dated 2024-04-14
ldamatch-1.0.2/ldamatch/man/ldamatch.Rd |only ldamatch-1.0.3/ldamatch/DESCRIPTION | 8 ldamatch-1.0.3/ldamatch/LICENSE | 4 ldamatch-1.0.3/ldamatch/MD5 | 56 ldamatch-1.0.3/ldamatch/NAMESPACE | 82 ldamatch-1.0.3/ldamatch/R/estimate_exhaustive.R | 388 +-- ldamatch-1.0.3/ldamatch/R/evaluation.R | 452 ++-- ldamatch-1.0.3/ldamatch/R/globals.R | 154 - ldamatch-1.0.3/ldamatch/R/halting_tests.R | 934 ++++---- ldamatch-1.0.3/ldamatch/R/helpers.R | 979 ++++---- ldamatch-1.0.3/ldamatch/R/ldamatch.R | 803 +++---- ldamatch-1.0.3/ldamatch/R/search_exhaustive.R | 586 ++--- ldamatch-1.0.3/ldamatch/R/search_heuristic2.R | 264 +- ldamatch-1.0.3/ldamatch/R/search_heuristic3.R | 262 +- ldamatch-1.0.3/ldamatch/R/search_heuristic4.R | 230 +- ldamatch-1.0.3/ldamatch/R/search_heuristic_with_lookahead.R | 540 ++-- ldamatch-1.0.3/ldamatch/R/search_random.R | 262 +- ldamatch-1.0.3/ldamatch/build/vignette.rds |binary ldamatch-1.0.3/ldamatch/inst/doc/ldamatch-demos.R | 154 - ldamatch-1.0.3/ldamatch/inst/doc/ldamatch-demos.Rmd | 262 +- ldamatch-1.0.3/ldamatch/inst/doc/ldamatch-demos.html | 1356 ++++++------ ldamatch-1.0.3/ldamatch/man/dot-choose_best_subjects.Rd | 42 ldamatch-1.0.3/ldamatch/man/dot-normalize_props.Rd | 2 ldamatch-1.0.3/ldamatch/man/ldamatch-package.Rd |only ldamatch-1.0.3/ldamatch/man/set_param.Rd | 18 ldamatch-1.0.3/ldamatch/tests/testthat.R | 8 ldamatch-1.0.3/ldamatch/tests/testthat/test-calc_metrics.R | 32 ldamatch-1.0.3/ldamatch/tests/testthat/test-calc_p_value.R | 30 ldamatch-1.0.3/ldamatch/tests/testthat/test-ldamatch.R | 372 +-- ldamatch-1.0.3/ldamatch/vignettes/ldamatch-demos.Rmd | 262 +- 30 files changed, 4314 insertions(+), 4228 deletions(-)
Title: Euclidean Distance-Optimized Data Transformation
Description: A data transformation method which takes into account the special property of scale non-invariance with a breakpoint at 1 of the Euclidean distance.
Author: Jorn Lotsch[aut,cre], Alfred Ultsch[aut]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between EDOtrans versions 0.2.2 dated 2022-12-18 and 0.2.5 dated 2024-04-14
EDOtrans-0.2.2/EDOtrans/inst |only EDOtrans-0.2.5/EDOtrans/DESCRIPTION | 6 +- EDOtrans-0.2.5/EDOtrans/MD5 | 12 ++--- EDOtrans-0.2.5/EDOtrans/NAMESPACE | 6 +- EDOtrans-0.2.5/EDOtrans/R/EDOtrans.R | 42 ++++++++++---------- EDOtrans-0.2.5/EDOtrans/R/combinedModesParameters.R | 10 ++++ EDOtrans-0.2.5/EDOtrans/R/get_seed.R |only EDOtrans-0.2.5/EDOtrans/man/EDOtrans.Rd | 4 - 8 files changed, 45 insertions(+), 35 deletions(-)
Title: Robust Confidence Intervals for Standardized Regression
Coefficients
Description: Generates robust confidence intervals for standardized regression coefficients
using heteroskedasticity-consistent standard errors for models fitted by lm()
as described in Dudgeon (2017) <doi:10.1007/s11336-017-9563-z>.
The package can also be used to generate confidence intervals for R-squared,
adjusted R-squared, and differences of standardized regression coefficients.
A description of the package and code examples
are presented in Pesigan, Sun, and Cheung (2023) <doi:10.1080/00273171.2023.2201277>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaSandwich versions 1.0.6 dated 2023-10-14 and 1.0.7 dated 2024-04-14
DESCRIPTION | 10 ++++++---- MD5 | 10 +++++----- NEWS.md | 6 ++++++ build/partial.rdb |binary data/nas1982.rda |binary man/betaSandwich-package.Rd | 4 ++-- 6 files changed, 19 insertions(+), 11 deletions(-)
Title: Bootstrap for Regression Effect Sizes
Description: Generates nonparametric bootstrap confidence intervals
(Efron & Tibshirani, 1993: <doi:10.1201/9780429246593>)
for standardized regression coefficients (beta) and other effect sizes,
including multiple correlation, semipartial correlations,
improvement in R-squared, squared partial correlations,
and differences in standardized regression coefficients,
for models fitted by lm().
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaNB versions 1.0.3 dated 2023-10-14 and 1.0.4 dated 2024-04-14
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 ++++++ build/partial.rdb |binary data/nas1982.rda |binary man/betaNB-package.Rd | 2 +- 6 files changed, 16 insertions(+), 10 deletions(-)
Title: Monte Carlo for Regression Effect Sizes
Description: Generates Monte Carlo confidence intervals
for standardized regression coefficients (beta) and other effect sizes,
including multiple correlation, semipartial correlations,
improvement in R-squared, squared partial correlations,
and differences in standardized regression coefficients,
for models fitted by lm().
'betaMC' combines ideas from Monte Carlo confidence intervals for the indirect effect
(Pesigan and Cheung, 2023 <doi:10.3758/s13428-023-02114-4>)
and the sampling covariance matrix of regression coefficients
(Dudgeon, 2017 <doi:10.1007/s11336-017-9563-z>)
to generate confidence intervals effect sizes in regression.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaMC versions 1.3.1 dated 2023-10-14 and 1.3.2 dated 2024-04-14
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 6 ++++++ R/semmcci-theta-hat-star-dot.R | 4 +--- build/partial.rdb |binary data/nas1982.rda |binary man/BetaMC.Rd | 2 +- man/DeltaRSqMC.Rd | 2 +- man/DiffBetaMC.Rd | 2 +- man/PCorMC.Rd | 2 +- man/RSqMC.Rd | 2 +- man/SCorMC.Rd | 2 +- man/betaMC-package.Rd | 2 +- 13 files changed, 30 insertions(+), 26 deletions(-)
Title: Confidence Intervals for Standardized Regression Coefficients
Description: Generates confidence intervals for standardized regression coefficients
using delta method standard errors for models fitted by lm()
as described in Yuan and Chan (2011) <doi:10.1007/s11336-011-9224-6>
and Jones and Waller (2015) <doi:10.1007/s11336-013-9380-y>.
The package can also be used to generate confidence intervals for
differences of standardized regression coefficients
and as a general approach to performing the delta method.
A description of the package and code examples
are presented in Pesigan, Sun, and Cheung (2023) <doi:10.1080/00273171.2023.2201277>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between betaDelta versions 1.0.4 dated 2023-11-03 and 1.0.5 dated 2024-04-14
DESCRIPTION | 11 +++++++---- MD5 | 10 +++++----- NEWS.md | 8 ++++++++ build/partial.rdb |binary data/nas1982.rda |binary man/betaDelta-package.Rd | 4 ++-- 6 files changed, 22 insertions(+), 11 deletions(-)
Title: Functions to Help in your Coding Etiquette
Description: Adds some functions to help in your coding etiquette.
'tinycodet' primarily focuses on 4 aspects.
1) Safer decimal (in)equality testing,
safer atomic typecasting,
standard-evaluated alternatives to with() and aes(),
and other functions for safer coding.
2) A new package import system,
that attempts to combine the benefits of using a package without attaching it,
with the benefits of attaching a package.
3) Extending the string manipulation capabilities of the 'stringi' R package.
4) Reducing repetitive code.
Besides linking to 'Rcpp', 'tinycodet' has only one other dependency, namely 'stringi'.
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tony_a_wilkes@outlook.com>
Diff between tinycodet versions 0.4.5 dated 2024-03-02 and 0.4.6 dated 2024-04-14
tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-atomic_conversions.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-constants.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-decimal-between.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-decimal-eq.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-decimal-is_wholenumber.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-form.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_LL.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_as.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_data.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_general.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_inops-alias.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_inops-pkgs.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_inops.control.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_int.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-import_lock.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-internal.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-pkgs.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-pro.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-pversion.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-s_pattern.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-str_arithmetic.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-str_search.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-str_search_at.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-str_subset_ops.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-strcut.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-strfind.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-stri_join_mat.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-stri_locate_ith.R |only tinycodet-0.4.5/tinycodet/inst/tinytest/regular/test-x.import.R |only tinycodet-0.4.6/tinycodet/DESCRIPTION | 13 tinycodet-0.4.6/tinycodet/MD5 | 146 ++-- tinycodet-0.4.6/tinycodet/NAMESPACE | 2 tinycodet-0.4.6/tinycodet/NEWS.md | 9 tinycodet-0.4.6/tinycodet/R/RcppExports.R | 14 tinycodet-0.4.6/tinycodet/R/atomic_conversions.R | 32 tinycodet-0.4.6/tinycodet/R/decimal_truth.R | 33 tinycodet-0.4.6/tinycodet/R/form.R | 1 tinycodet-0.4.6/tinycodet/R/import_as.R | 15 tinycodet-0.4.6/tinycodet/R/import_inops.R | 22 tinycodet-0.4.6/tinycodet/R/inplace.R | 2 tinycodet-0.4.6/tinycodet/R/s_pattern.R | 38 - tinycodet-0.4.6/tinycodet/R/str_arithmetic.R | 46 - tinycodet-0.4.6/tinycodet/R/str_search.R | 365 ++-------- tinycodet-0.4.6/tinycodet/R/str_subset_ops.R | 33 tinycodet-0.4.6/tinycodet/R/strcut.R | 32 tinycodet-0.4.6/tinycodet/R/strfind_internal.R |only tinycodet-0.4.6/tinycodet/R/stri_join_mat.R | 60 - tinycodet-0.4.6/tinycodet/R/stri_locate_ith.R | 238 +----- tinycodet-0.4.6/tinycodet/R/tinycodet_help.R | 5 tinycodet-0.4.6/tinycodet/R/tinycodet_strings.R | 2 tinycodet-0.4.6/tinycodet/R/transform_if.R | 6 tinycodet-0.4.6/tinycodet/build/partial.rdb |binary tinycodet-0.4.6/tinycodet/inst/examples |only tinycodet-0.4.6/tinycodet/inst/tinytest/count/count_number_of_tests.R | 50 + tinycodet-0.4.6/tinycodet/inst/tinytest/import |only tinycodet-0.4.6/tinycodet/inst/tinytest/safer |only tinycodet-0.4.6/tinycodet/inst/tinytest/strings |only tinycodet-0.4.6/tinycodet/man/aaa0_tinycodet_help.Rd | 5 tinycodet-0.4.6/tinycodet/man/aaa3_tinycodet_strings.Rd | 2 tinycodet-0.4.6/tinycodet/man/atomic_conversions.Rd | 13 tinycodet-0.4.6/tinycodet/man/form.Rd | 1 tinycodet-0.4.6/tinycodet/man/inplace.Rd | 2 tinycodet-0.4.6/tinycodet/man/s_pattern.Rd | 7 tinycodet-0.4.6/tinycodet/man/str_arithmetic.Rd | 3 tinycodet-0.4.6/tinycodet/man/str_search.Rd | 43 - tinycodet-0.4.6/tinycodet/man/str_subset_ops.Rd | 8 tinycodet-0.4.6/tinycodet/man/strcut.Rd | 4 tinycodet-0.4.6/tinycodet/man/stri_join_mat.Rd | 1 tinycodet-0.4.6/tinycodet/man/stri_locate_ith.Rd | 31 tinycodet-0.4.6/tinycodet/src/RcppExports.cpp | 38 - tinycodet-0.4.6/tinycodet/src/rcpp_stri_locate_ith.cpp | 79 +- tinycodet-0.4.6/tinycodet/tests/tinytest.R | 3 72 files changed, 534 insertions(+), 870 deletions(-)
Title: Calculation and Visualization of the Impact Effect Size Measure
Description: A non-parametric effect size measure capturing changes in central tendency or shape of data distributions. The package provides the necessary functions to calculate and plot the Impact effect size measure between two groups.
Author: Joern Loetsch [aut,cre] ,
Alfred Ultsch [aut]
Maintainer: Jorn Lotsch <j.loetsch@em.uni-frankfurt.de>
Diff between ImpactEffectsize versions 0.6.3 dated 2024-01-16 and 0.7 dated 2024-04-14
DESCRIPTION | 8 +- MD5 | 10 +- R/ClassGMD.R | 27 +++--- R/Impact.R | 51 +++++++------ R/ParetoDensityEstimationIE.R | 163 +++++++++++++++++++----------------------- R/plot2Densities.R | 42 ++++++---- 6 files changed, 152 insertions(+), 149 deletions(-)
More information about ImpactEffectsize at CRAN
Permanent link
Title: Optimal Distribution Preserving Down-Sampling of Bio-Medical
Data
Description: An optimized method for distribution-preserving class-proportional down-sampling of bio-medical data.
Author: Jorn Lotsch [aut,cre] ,
Sebastian Malkusch [aut] ,
Alfred Ultsch [aut]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between opdisDownsampling versions 0.8.3 dated 2023-12-13 and 1.0 dated 2024-04-14
DESCRIPTION | 8 - MD5 | 26 +++-- NAMESPACE | 8 - R/CompDistrib.R | 76 ++++++++-------- R/CompareReducedDataMat.R |only R/EucDist.R | 27 ++++- R/KullbLeiblKLD2.R | 92 ++++++++++--------- R/MakeReducedDataMat.R | 54 ++++++----- R/SmoothDensHist1dim.R | 218 ++++++++++++++++++++++++---------------------- R/amrdd.R | 37 +++++-- R/get_seed.R |only R/globals.R |only R/opdisDownsampling.R | 218 +++++++++++++++++----------------------------- R/relevant_PCAvariables.R | 47 ++++++--- R/sample_and_analyze.R |only man/opdisDownsampling.Rd | 4 16 files changed, 417 insertions(+), 398 deletions(-)
More information about opdisDownsampling at CRAN
Permanent link
Title: Streamline Access to Cancer Screening Data
Description: Retrieve cancer screening data for cervical, breast and colorectal
cancers from the Kenya Health Information System <https://hiskenya.org> in a
consistent way.
Author: David Kariuki [aut, cre, cph]
Maintainer: David Kariuki <hello@damurka.com>
Diff between cancerscreening versions 1.0.2 dated 2024-01-09 and 1.1.0 dated 2024-04-14
cancerscreening-1.0.2/cancerscreening/R/AuthCred-class.R |only cancerscreening-1.0.2/cancerscreening/R/api_get.R |only cancerscreening-1.0.2/cancerscreening/R/filter_organisation_units.R |only cancerscreening-1.0.2/cancerscreening/R/get_analytics.R |only cancerscreening-1.0.2/cancerscreening/R/get_category_options_metadata.R |only cancerscreening-1.0.2/cancerscreening/R/khis_cred.R |only cancerscreening-1.0.2/cancerscreening/R/utils-pipe.R |only cancerscreening-1.0.2/cancerscreening/R/zzz.R |only cancerscreening-1.0.2/cancerscreening/man/get_analytics.Rd |only cancerscreening-1.0.2/cancerscreening/man/get_category_options_metadata.Rd |only cancerscreening-1.0.2/cancerscreening/man/khis_cred.Rd |only cancerscreening-1.0.2/cancerscreening/man/khis_cred_clear.Rd |only cancerscreening-1.0.2/cancerscreening/man/khis_has_cred.Rd |only cancerscreening-1.0.2/cancerscreening/man/khis_username.Rd |only cancerscreening-1.0.2/cancerscreening/man/pipe.Rd |only cancerscreening-1.0.2/cancerscreening/tests/testthat/test-get_analytics.R |only cancerscreening-1.0.2/cancerscreening/tests/testthat/test-khis_cred.R |only cancerscreening-1.1.0/cancerscreening/DESCRIPTION | 12 cancerscreening-1.1.0/cancerscreening/MD5 | 119 ++--- cancerscreening-1.1.0/cancerscreening/NAMESPACE | 35 - cancerscreening-1.1.0/cancerscreening/NEWS.md | 31 + cancerscreening-1.1.0/cancerscreening/R/cancerscreening-package.R | 20 cancerscreening-1.1.0/cancerscreening/R/get_analytics_formatted.R |only cancerscreening-1.1.0/cancerscreening/R/get_breast_cbe.R | 22 cancerscreening-1.1.0/cancerscreening/R/get_breast_data.R | 35 - cancerscreening-1.1.0/cancerscreening/R/get_breast_mammogram.R | 17 cancerscreening-1.1.0/cancerscreening/R/get_breast_ultrasound.R | 17 cancerscreening-1.1.0/cancerscreening/R/get_cervical_data.R | 39 - cancerscreening-1.1.0/cancerscreening/R/get_cervical_hiv_screened.R | 16 cancerscreening-1.1.0/cancerscreening/R/get_cervical_positive.R | 24 - cancerscreening-1.1.0/cancerscreening/R/get_cervical_screened.R | 24 - cancerscreening-1.1.0/cancerscreening/R/get_cervical_treated.R | 24 - cancerscreening-1.1.0/cancerscreening/R/get_colorectal_colonoscopy.R | 15 cancerscreening-1.1.0/cancerscreening/R/get_colorectal_data.R | 36 - cancerscreening-1.1.0/cancerscreening/R/get_colorectal_fobt.R | 15 cancerscreening-1.1.0/cancerscreening/R/get_data_elements_metadata.R | 54 -- cancerscreening-1.1.0/cancerscreening/R/get_data_sets_formatted.R |only cancerscreening-1.1.0/cancerscreening/R/get_lab_bone_marrow.R |only cancerscreening-1.1.0/cancerscreening/R/get_lab_fluid_cytology.R |only cancerscreening-1.1.0/cancerscreening/R/get_lab_fna.R |only cancerscreening-1.1.0/cancerscreening/R/get_lab_smears.R |only cancerscreening-1.1.0/cancerscreening/R/get_lab_tissue_histology.R |only cancerscreening-1.1.0/cancerscreening/R/get_organisation_units_metadata.R | 117 ++-- cancerscreening-1.1.0/cancerscreening/R/reexport-khis_cred.R |only cancerscreening-1.1.0/cancerscreening/R/reexport-magrittr.R |only cancerscreening-1.1.0/cancerscreening/R/summary.R |only cancerscreening-1.1.0/cancerscreening/R/sysdata.R | 72 --- cancerscreening-1.1.0/cancerscreening/R/sysdata.rda |binary cancerscreening-1.1.0/cancerscreening/R/target_population.R | 22 cancerscreening-1.1.0/cancerscreening/README.md | 235 +++++----- cancerscreening-1.1.0/cancerscreening/build/vignette.rds |binary cancerscreening-1.1.0/cancerscreening/inst/doc/cancerscreening.R | 8 cancerscreening-1.1.0/cancerscreening/inst/doc/cancerscreening.Rmd | 29 - cancerscreening-1.1.0/cancerscreening/inst/doc/cancerscreening.html | 34 + cancerscreening-1.1.0/cancerscreening/inst/secret/secret.json | 10 cancerscreening-1.1.0/cancerscreening/man/get_analytics_formatted.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_breast_cbe.Rd | 25 - cancerscreening-1.1.0/cancerscreening/man/get_breast_mammogram.Rd | 21 cancerscreening-1.1.0/cancerscreening/man/get_breast_ultrasound.Rd | 21 cancerscreening-1.1.0/cancerscreening/man/get_cervical_hiv_screened.Rd | 22 cancerscreening-1.1.0/cancerscreening/man/get_cervical_positive.Rd | 21 cancerscreening-1.1.0/cancerscreening/man/get_cervical_screened.Rd | 19 cancerscreening-1.1.0/cancerscreening/man/get_cervical_treated.Rd | 21 cancerscreening-1.1.0/cancerscreening/man/get_colorectal_colonoscopy.Rd | 21 cancerscreening-1.1.0/cancerscreening/man/get_colorectal_fobt.Rd | 21 cancerscreening-1.1.0/cancerscreening/man/get_data_elements_metadata.Rd | 15 cancerscreening-1.1.0/cancerscreening/man/get_data_sets_formatted.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_filtered_population.Rd | 4 cancerscreening-1.1.0/cancerscreening/man/get_lab_bone_marrow.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_lab_fluid_cytology.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_lab_fna.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_lab_smears.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_lab_tissue_histology.Rd |only cancerscreening-1.1.0/cancerscreening/man/get_organisation_units_metadata.Rd | 19 cancerscreening-1.1.0/cancerscreening/man/reexports.Rd |only cancerscreening-1.1.0/cancerscreening/man/target_population.Rd | 13 cancerscreening-1.1.0/cancerscreening/tests/testthat/helper.R | 6 cancerscreening-1.1.0/cancerscreening/vignettes/cancerscreening.Rmd | 29 - 78 files changed, 618 insertions(+), 742 deletions(-)
More information about cancerscreening at CRAN
Permanent link
Title: The Q-Matrix Validation Methods Framework
Description: Provide a variety of Q-matrix validation methods for the generalized cognitive diagnosis models, including the method based on the generalized deterministic input, noisy, and gate model (G-DINA) by de la Torre (2011) <DOI:10.1007/s11336-011-9207-7> discrimination index (the GDI method) by de la Torre and Chiu (2016) <DOI:10.1007/s11336-015-9467-8>, the step-wise Wald test method (the Wald method) by Ma and de la Torre (2020) <DOI:10.1111/bmsp.12156>, the Hull method by Najera et al. (2021) <DOI:10.1111/bmsp.12228>, the multiple logistic regression‑based Q‑matrix validation method (the MLR-B method) by Tu et al. (2022) <DOI:10.3758/s13428-022-01880-x>. Different research methods during Q-matrix validating are available.
Author: Haijiang Qin [aut, cre, cph],
Lei Guo [aut, cph]
Maintainer: Haijiang Qin <haijiang133@outlook.com>
Diff between Qval versions 0.1.5 dated 2024-03-02 and 0.1.6 dated 2024-04-14
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/CDM.R | 6 +++--- R/GDI.R | 4 ++-- R/Hull.R | 4 ++-- R/MLR-B.R | 6 +++--- R/fit.R | 5 +++-- R/validation.R | 18 +++++++++++++----- man/CDM.Rd | 6 +++--- man/validation.Rd | 8 ++++++++ tests/demo.R | 1 + 11 files changed, 52 insertions(+), 34 deletions(-)
Title: Retrieve Data from Kenya Health Information System (KHIS)
Description: Simplify data retrieval from Kenya's health system with a powerful interface
for efficient data retrieval from the Kenya Health Information System
(KHIS) <https://hiskenya.org>. Empower researchers, analysts, and healthcare
professionals to access critical health data efficiently.
Author: David Kariuki [aut, cre, cph]
Maintainer: David Kariuki <hello@damurka.com>
Diff between khisr versions 1.0.1 dated 2024-02-05 and 1.0.2 dated 2024-04-14
DESCRIPTION | 8 MD5 | 20 - NEWS.md | 6 R/AuthCred-class.R | 209 ++++++++------- R/khis_cred.R | 631 ++++++++++++++++++++++++------------------------ R/zzz.R | 36 +- README.md | 10 inst/doc/khisr.R | 66 ----- inst/doc/khisr.html | 175 +++---------- inst/secret/secret.json | 15 - man/khisr-package.Rd | 2 11 files changed, 520 insertions(+), 658 deletions(-)
Title: Diet Mendelian Randomization
Description: Encodes several methods for performing Mendelian randomization analyses with summarized data. Similar to the 'MendelianRandomization' package, but with fewer bells and whistles, and less frequent updates. As described in Yavorska (2017) <doi:10.1093/ije/dyx034> and Broadbent (2020) <doi:10.12688/wellcomeopenres.16374.2>.
Author: Stephen Burgess [aut, cre] ,
Olena Yavorska [aut],
James Staley [ctb] ,
Fernando Hartwig [ctb] ,
Jim Broadbent [ctb] ,
Christopher Foley [ctb] ,
Andrew Grant [ctb],
Amy Mason [ctb] ,
Ting Ye [ctb] ,
Haoran Xue [ctb] ,
Zhaotong Lin [ctb] ,
Siqi Xu [ct [...truncated...]
Maintainer: Stephen Burgess <sb452@medschl.cam.ac.uk>
Diff between MRZero versions 0.1.0 dated 2023-08-16 and 0.2.0 dated 2024-04-14
DESCRIPTION | 28 +++++++++--- MD5 | 31 ++++++++----- NAMESPACE | 4 + NEWS | 7 +++ R/AllClasses.R | 80 +++++++++++++++++++++++++++++++++++ R/AllGenerics.R | 112 +++++++++++++++++++++++++++++++++++++++++++++++-- R/getter-methods.R | 10 ++++ R/mr_clr-methods.R |only R/mr_mvivwme-methods.R |only R/mr_mvpcgmm-methods.R | 4 - R/mr_pcgmm-methods.R | 4 - R/show-methods.R | 74 ++++++++++++++++++++++++++++++++ man/CLR-class.Rd |only man/MVIVWME-class.Rd |only man/getter.Rd | 6 ++ man/mr_clr.Rd |only man/mr_mvivwme.Rd |only man/mr_mvpcgmm.Rd | 6 +- man/mr_pcgmm.Rd | 6 +- man/mv_norm.Rd |only 20 files changed, 338 insertions(+), 34 deletions(-)
Title: Unit Testing for R
Description: Software testing is important, but, in part because it is
frustrating and boring, many of us avoid it. 'testthat' is a testing
framework for R that is easy to learn and use, and integrates with
your existing 'workflow'.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb] )
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between testthat versions 3.2.1 dated 2023-12-02 and 3.2.1.1 dated 2024-04-13
DESCRIPTION | 6 +++--- MD5 | 4 ++-- inst/include/testthat/testthat.h | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Translate Words or Sentences via Online Translators
Description: Useful functions to translate text for multiple languages using online translators.
For example, by translating error messages and descriptive analysis results into a language familiar
to the user, it enables a better understanding of the information, thereby reducing the barriers caused by language.
It offers several helper functions to query gene information to help interpretation of interested genes (e.g., marker genes, differential expression genes),
and provides utilities to translate 'ggplot' graphics. This package is not affiliated with any of the online translators.
The developers do not take responsibility for the invoice it incurs when using this package, especially for exceeding the free quota.
Author: Guangchuang Yu [aut, cre, cph]
,
Guannan Chen [ctb],
Difei Wang [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between fanyi versions 0.0.6 dated 2024-01-08 and 0.0.7 dated 2024-04-13
DESCRIPTION | 33 ++++++++++++++++++++++----------- MD5 | 21 ++++++++++++--------- NAMESPACE | 2 ++ NEWS.md | 7 +++++++ R/baidu.R | 2 ++ R/chatglm.r | 25 +++++++++++++++++-------- R/fanyi-package.R |only R/translate.r | 21 ++++++++++++++++++--- README.md | 30 ++++++++++++++++++++---------- man/fanyi-package.Rd |only man/fanyi_has_appkey.Rd |only man/set-translate-option.Rd | 2 +- man/translate.Rd | 3 +++ 13 files changed, 104 insertions(+), 42 deletions(-)
Title: Bayesian Optimization of Hyperparameters
Description: A Pure R implementation of Bayesian Global Optimization with Gaussian Processes.
Author: Yachen Yan [aut, cre]
Maintainer: Yachen Yan <yanyachen21@gmail.com>
Diff between rBayesianOptimization versions 1.2.0 dated 2021-06-17 and 1.2.1 dated 2024-04-13
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/Utils.R | 2 +- README.md | 4 +--- man/Min_Max_Inverse_Scale_Vec.Rd | 4 ++-- man/rBayesianOptimization.Rd | 13 +++++++++++++ 6 files changed, 26 insertions(+), 15 deletions(-)
More information about rBayesianOptimization at CRAN
Permanent link
Title: Machine Learning Evaluation Metrics
Description: A collection of evaluation metrics, including loss, score and
utility functions, that measure regression, classification and ranking performance.
Author: Yachen Yan [aut, cre]
Maintainer: Yachen Yan <yanyachen21@gmail.com>
Diff between MLmetrics versions 1.1.1 dated 2016-05-13 and 1.1.3 dated 2024-04-13
DESCRIPTION | 11 MD5 | 80 ++-- NAMESPACE | 78 ++-- R/Classification.R | 923 +++++++++++++++++++++++------------------------- R/Count.R | 118 +++--- R/MLmetrics.R | 14 R/Regression.R | 440 +++++++++++----------- R/Utils.R | 102 ++--- man/AUC.Rd | 52 +- man/Accuracy.Rd | 54 +- man/Area_Under_Curve.Rd | 60 +-- man/ConfusionDF.Rd | 56 +- man/ConfusionMatrix.Rd | 54 +- man/F1_Score.Rd | 62 +-- man/FBeta_Score.Rd | 66 +-- man/GainAUC.Rd | 52 +- man/Gini.Rd | 52 +- man/KS_Stat.Rd | 52 +- man/LiftAUC.Rd | 52 +- man/LogLoss.Rd | 52 +- man/MAE.Rd | 50 +- man/MAPE.Rd | 50 +- man/MLmetrics.Rd | 24 - man/MSE.Rd | 50 +- man/MedianAE.Rd | 50 +- man/MedianAPE.Rd | 50 +- man/MultiLogLoss.Rd | 54 +- man/NormalizedGini.Rd | 54 +- man/PRAUC.Rd | 52 +- man/Poisson_LogLoss.Rd | 54 +- man/Precision.Rd | 62 +-- man/R2_Score.Rd | 50 +- man/RAE.Rd | 50 +- man/RMSE.Rd | 50 +- man/RMSLE.Rd | 50 +- man/RMSPE.Rd | 50 +- man/RRSE.Rd | 50 +- man/Recall.Rd | 62 +-- man/Sensitivity.Rd | 62 +-- man/Specificity.Rd | 62 +-- man/ZeroOneLoss.Rd | 54 +- 41 files changed, 1756 insertions(+), 1764 deletions(-)