Title: Mathematical Modeling of Infectious Disease Dynamics
Description: Tools for simulating mathematical models of infectious disease dynamics.
Epidemic model classes include deterministic compartmental models, stochastic
individual-contact models, and stochastic network models. Network models use the
robust statistical methods of exponential-family random graph models (ERGMs)
from the Statnet suite of software packages in R. Standard templates for epidemic
modeling include SI, SIR, and SIS disease types. EpiModel features an API for
extending these templates to address novel scientific research aims. Full
methods for EpiModel are detailed in Jenness et al. (2018, <doi:10.18637/jss.v084.i08>).
Author: Samuel Jenness [cre, aut],
Steven M. Goodreau [aut],
Martina Morris [aut],
Adrien Le Guillou [aut],
Chad Klumb [aut],
Skye Bender-deMoll [ctb]
Maintainer: Samuel Jenness <samuel.m.jenness@emory.edu>
Diff between EpiModel versions 2.6.0 dated 2026-03-19 and 2.6.1 dated 2026-05-12
DESCRIPTION | 10 MD5 | 203 ++--- NEWS.md | 35 R/EpiModel-package.R | 13 R/as.data.frame.R | 19 R/dcm.R | 2 R/dcm.inputs.R | 58 - R/dendo.R | 2 R/edgelists.R | 112 +++ R/geom_bands.R | 2 R/get.R | 166 +++- R/icm.R | 8 R/icm.inputs.R | 218 +---- R/merge.R | 11 R/modules.icm.R | 15 R/net.fn.accessor.R | 50 + R/net.fn.utils.R | 53 + R/net.inputs.R | 130 +-- R/net.mod.init.R | 27 R/net.mod.nwupdate.R | 26 R/net.mod.simnet.R | 11 R/netdx.R | 11 R/netest.R | 18 R/netsim.R | 2 R/plot.R | 2 R/plot.comp_plot.R | 33 R/plot.dcm.R | 14 R/plot.epi.data.frame.R | 3 R/plot.icm.R | 111 +-- R/plot.netdx.R | 32 R/plot.netsim.R | 142 +-- R/plot.stat_table.R | 26 R/print.R | 7 R/saveout.R | 200 +---- R/shiny.R | 18 R/summary.R | 2 R/update.R | 28 R/utils.R | 12 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Intro.R | 84 ++ inst/doc/Intro.Rmd | 202 +++++ inst/doc/Intro.html | 337 +++++++-- inst/doc/attributes-and-summary-statistics.R | 140 ++- inst/doc/attributes-and-summary-statistics.Rmd | 366 ++++++---- inst/doc/attributes-and-summary-statistics.html | 873 +++++++++++++----------- inst/doc/model-parameters.R | 32 inst/doc/model-parameters.Rmd | 195 ++--- inst/doc/model-parameters.html | 556 +++++++-------- inst/doc/network-objects.R | 96 ++ inst/doc/network-objects.Rmd | 279 ++++++- inst/doc/network-objects.html | 423 ++++++++--- man/EpiModel-package.Rd | 5 man/as.data.frame.netdx.Rd | 2 man/as.phylo.transmat.Rd | 4 man/brewer_ramp.Rd | 4 man/control.icm.Rd | 64 - man/control.net.Rd | 14 man/edgelist_censor.Rd | 2 man/geom_bands.Rd | 2 man/get_degree.Rd | 2 man/get_network.Rd | 2 man/get_nwstats.Rd | 2 man/get_param_set.Rd | 3 man/get_sims.Rd | 2 man/get_transmat.Rd | 2 man/merge.netsim.Rd | 2 man/modules.icm.Rd | 15 man/mutate_epi.Rd | 2 man/net-accessor.Rd | 55 + man/netdx.Rd | 8 man/netest.Rd | 2 man/param.icm.Rd | 13 man/param.net.Rd | 2 man/plot.dcm.Rd | 8 man/plot.icm.Rd | 4 man/plot.netdx.Rd | 16 man/plot.netsim.Rd | 2 man/summary.icm.Rd | 2 man/trim_netest.Rd | 2 man/truncate_sim.Rd | 2 man/update_params.Rd | 17 tests/testthat/Rplots.pdf |only tests/testthat/test-accessors.R | 1 tests/testthat/test-cumulative_edgelist.R | 169 ++++ tests/testthat/test-dissolution-diagnostics.R | 4 tests/testthat/test-get.R | 79 ++ tests/testthat/test-icm.R | 104 -- tests/testthat/test-merge.R | 61 + tests/testthat/test-multinets.R | 2 tests/testthat/test-mutate.R | 1 tests/testthat/test-netattr.R | 3 tests/testthat/test-netest.R | 12 tests/testthat/test-netsim.R | 41 + tests/testthat/test-netstats.R | 3 tests/testthat/test-newmodules.R | 58 + tests/testthat/test-print.R | 3 tests/testthat/test-terms.R | 4 tests/testthat/test-utils.R | 9 vignettes/Intro.Rmd | 202 +++++ vignettes/attributes-and-summary-statistics.Rmd | 366 ++++++---- vignettes/model-parameters.Rmd | 195 ++--- vignettes/network-objects.Rmd | 279 ++++++- 103 files changed, 4661 insertions(+), 2612 deletions(-)
Title: Model BIC Posterior Probability
Description: Fits the neighboring models of a fitted
structural equation model and assesses the model
uncertainty of the fitted model based on BIC posterior
probabilities (BPP), using the method presented in
Wu, Cheung, and Leung (2020)
<doi:10.1080/00273171.2019.1574546>. See
Pesigan, Cheung, Wu, Chang, and Leung (2026)
<doi:10.3758/s13428-025-02921-x> for an introduction to
the package.
Author: Shu Fai Cheung [aut, cre] ,
Huiping Wu [aut],
Shing On Leung [aut] ,
Ivan Jacob Agaloos Pesigan [ctb]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between modelbpp versions 0.2.0 dated 2026-03-01 and 0.3.0 dated 2026-05-12
DESCRIPTION | 8 ++--- MD5 | 34 +++++++++++------------ NEWS.md | 29 ++++++++++++++++++++ R/get_add.R | 11 ++++++- R/model_set.R | 10 ++++++ R/partables_helpers.R | 4 +- R/print.model_set.R | 8 +++++ README.md | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/modelbpp.Rmd | 44 +++++++++++++++++++----------- inst/doc/modelbpp.html | 58 +++++++++++++++++++++++----------------- man/get_add.Rd | 7 ++++ man/manipulate_partables.Rd | 4 +- man/model_set.Rd | 9 ++++++ man/modelbpp-package.Rd | 1 vignettes/modelbpp.Rmd | 44 +++++++++++++++++++----------- vignettes/modelbpp.Rmd.original | 10 ++++++ 18 files changed, 199 insertions(+), 84 deletions(-)
Title: Analyzing the Survey of Consumer Finances
Description: Analyze public-use micro data from the Survey of Consumer Finances.
Provides tools to download prepared data files, construct replicate-weighted
multiply imputed survey designs, compute descriptive statistics and model
estimates, and produce plots and tables. Methods follow design-based inference
for complex surveys and pooling across multiple imputations. See the package
website and the code book for background.
Author: Joseph Cohen [aut, cre]
Maintainer: Joseph Cohen <joseph.cohen@qc.cuny.edu>
Diff between scf versions 1.0.5 dated 2025-11-20 and 1.0.7 dated 2026-05-12
scf-1.0.5/scf/man/AIC.scf_model_result.Rd |only scf-1.0.5/scf/man/SE.Rd |only scf-1.0.5/scf/man/coef.scf_model_result.Rd |only scf-1.0.5/scf/man/formula.scf_model_result.Rd |only scf-1.0.5/scf/man/predict.scf_model_result.Rd |only scf-1.0.5/scf/man/residuals.scf_model_result.Rd |only scf-1.0.5/scf/man/scf_activate_theme.Rd |only scf-1.0.5/scf/man/vcov.scf_model_result.Rd |only scf-1.0.7/scf/DESCRIPTION | 8 scf-1.0.7/scf/LICENSE | 4 scf-1.0.7/scf/MD5 | 133 ++--- scf-1.0.7/scf/NAMESPACE | 200 ++++---- scf-1.0.7/scf/NEWS | 16 scf-1.0.7/scf/R/scf-package.R | 5 scf-1.0.7/scf/R/scf_MIcombine.R | 17 scf-1.0.7/scf/R/scf_activate_theme.R | 7 scf-1.0.7/scf/R/scf_corr.R | 16 scf-1.0.7/scf/R/scf_deflate.R |only scf-1.0.7/scf/R/scf_design.R | 33 - scf-1.0.7/scf/R/scf_download.R | 3 scf-1.0.7/scf/R/scf_freq.R | 17 scf-1.0.7/scf/R/scf_glm.R | 8 scf-1.0.7/scf/R/scf_implicates.R | 15 scf-1.0.7/scf/R/scf_imports.R | 4 scf-1.0.7/scf/R/scf_load.R | 28 - scf-1.0.7/scf/R/scf_logit.R | 3 scf-1.0.7/scf/R/scf_mean.R | 9 scf-1.0.7/scf/R/scf_median.R | 4 scf-1.0.7/scf/R/scf_model_methods.R | 147 ++--- scf-1.0.7/scf/R/scf_ols.R | 37 + scf-1.0.7/scf/R/scf_pctile_sum.R |only scf-1.0.7/scf/R/scf_percentile.R | 97 +++ scf-1.0.7/scf/R/scf_plot_dist.R | 11 scf-1.0.7/scf/R/scf_plot_hex.R | 2 scf-1.0.7/scf/R/scf_plot_smooth.R | 2 scf-1.0.7/scf/R/scf_quantreg.R |only scf-1.0.7/scf/R/scf_regtable.R | 171 +++++- scf-1.0.7/scf/R/scf_subset.R | 13 scf-1.0.7/scf/R/scf_theme.R | 16 scf-1.0.7/scf/R/scf_ttest.R | 7 scf-1.0.7/scf/R/scf_update.R | 106 +--- scf-1.0.7/scf/R/scf_update_by_implicate.R | 42 + scf-1.0.7/scf/R/scf_xtab.R | 12 scf-1.0.7/scf/README.md | 104 +++- scf-1.0.7/scf/build/partial.rdb |binary scf-1.0.7/scf/build/vignette.rds |binary scf-1.0.7/scf/inst/CITATION | 21 scf-1.0.7/scf/inst/doc/SCF-guide.R | 91 ++- scf-1.0.7/scf/inst/doc/SCF-guide.Rmd | 181 +++++-- scf-1.0.7/scf/inst/doc/SCF-guide.html | 595 ++++++++++++++---------- scf-1.0.7/scf/man/scf.Rd | 345 +++++++------ scf-1.0.7/scf/man/scf_MIcombine.Rd | 10 scf-1.0.7/scf/man/scf_corr.Rd | 16 scf-1.0.7/scf/man/scf_deflate.Rd |only scf-1.0.7/scf/man/scf_design.Rd | 28 - scf-1.0.7/scf/man/scf_download.Rd | 3 scf-1.0.7/scf/man/scf_freq.Rd | 13 scf-1.0.7/scf/man/scf_glm.Rd | 2 scf-1.0.7/scf/man/scf_implicates.Rd | 11 scf-1.0.7/scf/man/scf_load.Rd | 16 scf-1.0.7/scf/man/scf_logit.Rd | 2 scf-1.0.7/scf/man/scf_model_result_methods.Rd |only scf-1.0.7/scf/man/scf_pctile_sum.Rd |only scf-1.0.7/scf/man/scf_percentile.Rd | 38 + scf-1.0.7/scf/man/scf_plot_dist.Rd | 7 scf-1.0.7/scf/man/scf_plot_hex.Rd | 2 scf-1.0.7/scf/man/scf_plot_smooth.Rd | 2 scf-1.0.7/scf/man/scf_quantreg.Rd |only scf-1.0.7/scf/man/scf_regtable.Rd | 26 - scf-1.0.7/scf/man/scf_subset.Rd | 5 scf-1.0.7/scf/man/scf_theme.Rd | 24 scf-1.0.7/scf/man/scf_update.Rd | 9 scf-1.0.7/scf/man/scf_update_by_implicate.Rd | 16 scf-1.0.7/scf/man/scf_xtab.Rd | 8 scf-1.0.7/scf/vignettes/SCF-guide.Rmd | 181 +++++-- 75 files changed, 1801 insertions(+), 1148 deletions(-)
Title: Creating Correspondence Tables Between Two Statistical
Classifications
Description: A candidate correspondence table between two classifications can be created when there are correspondence tables leading from the first classification to the second one via intermediate 'pivot' classifications.
The correspondence table between two statistical classifications can be updated when one of the classifications gets updated to a new version.
Author: Vasilis Chasiotis [aut] ,
Photis Stavropoulos [aut] ,
Martin Karlberg [aut],
Matyas Meszaros [cre],
Martina Patone [aut],
Erkand Muraku [aut],
Clement Thomas [aut],
Loic Bienvenu [aut],
Mauro Baldacchini [aut],
Khadija Sossey-Lallemand [aut],
Mark va [...truncated...]
Maintainer: Matyas Meszaros <matyas.meszaros@ec.europa.eu>
Diff between correspondenceTables versions 0.7.4 dated 2022-09-27 and 1.0.1 dated 2026-05-12
correspondenceTables-0.7.4/correspondenceTables/inst/doc/Implementation_of_sample_datasets.R |only correspondenceTables-0.7.4/correspondenceTables/inst/doc/Implementation_of_sample_datasets.Rmd |only correspondenceTables-0.7.4/correspondenceTables/inst/doc/Implementation_of_sample_datasets.html |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/BEC4.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021_BEC4.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021_CN2022.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021_CPA21.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021_NST2007.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021_PRODCOM2021.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2021_SITC4.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2022.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CN2022_CPA21.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPA21.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPA21_100rows.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPA21_CN2022.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPA21_CPC21.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPA21_CPC21_100rows.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPC21.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/CPC21_100rows.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/ISIC4.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/ISIC4_100rows.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/ISIC4_CPC21.csv |only 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correspondenceTables-0.7.4/correspondenceTables/inst/extdata/names1.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/names2.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/names3.csv |only correspondenceTables-0.7.4/correspondenceTables/inst/extdata/names4.csv |only correspondenceTables-0.7.4/correspondenceTables/vignettes/Implementation_of_sample_datasets.Rmd |only correspondenceTables-1.0.1/correspondenceTables/DESCRIPTION | 32 correspondenceTables-1.0.1/correspondenceTables/MD5 | 210 correspondenceTables-1.0.1/correspondenceTables/NAMESPACE | 51 correspondenceTables-1.0.1/correspondenceTables/NEWS.md | 163 correspondenceTables-1.0.1/correspondenceTables/R/aggregateCorrespondenceTable.R |only correspondenceTables-1.0.1/correspondenceTables/R/analyseCorrespondanceTable.R |only correspondenceTables-1.0.1/correspondenceTables/R/check_n_columns.R |only correspondenceTables-1.0.1/correspondenceTables/R/classEndpoint.R |only 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More information about correspondenceTables at CRAN
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Title: A Magical Framework for Collaborative & Reproducible Data
Analysis
Description: A comprehensive data analysis framework for NIH-funded research that streamlines workflows for both data cleaning and preparing NIH Data Archive ('NDA') submission templates. Provides unified access to multiple data sources ('REDCap', 'MongoDB', 'Qualtrics', 'SQL', 'ORACLE') through interfaces to their APIs, with specialized functions for data cleaning, filtering, merging, and parsing. Features automatic validation, field harmonization, and memory-aware processing to enhance reproducibility in multi-site collaborative research as described in Mittal et al. (2021) <doi:10.20900/jpbs.20210011>.
Author: Joshua G. Kenney [aut, cre],
Trevor F. Williams [aut],
Minerva K. Pappu [aut],
Michael J. Spilka [aut],
Danielle N. Pratt [ctb],
Victor J. Pokorny [ctb],
Santiago Castiello de Obeso [ctb],
Praveen Suthaharan [ctb],
Christian R. Horgan [ctb]
Maintainer: Joshua G. Kenney <joshua.kenney@yale.edu>
Diff between wizaRdry versions 0.6.7 dated 2026-04-13 and 0.6.8 dated 2026-05-12
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NAMESPACE | 1 + R/getMongo.R | 3 +-- 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Partitioning Uncertainty Components of an Incomplete Ensemble of
Climate Projections
Description: These functions use data augmentation and Bayesian techniques for the assessment of single-member and incomplete ensembles of climate projections. It provides unbiased estimates of climate change responses of all simulation chains and of all uncertainty variables. It additionally propagates uncertainty due to missing information in the estimates.
- Evin, G., B. Hingray, J. Blanchet, N. Eckert, S. Morin, and D. Verfaillie. (2019) <doi:10.1175/JCLI-D-18-0606.1>.
Author: Guillaume Evin [aut, cre]
Maintainer: Guillaume Evin <guillaume.evin@inrae.fr>
Diff between QUALYPSO versions 2.3 dated 2023-10-24 and 3.0 dated 2026-05-12
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Title: Robust Measurement with 'Stan'
Description: Offers item-response theory (IRT) ideal-point measurement modeling for diverse distributions, missing data, and over-time variation. Full and approximate Bayesian sampling with 'Stan' (<https://mc-stan.org/>).
Author: Robert Kubinec [aut, cre]
Maintainer: Robert Kubinec <bobkubinec@gmail.com>
This is a re-admission after prior archival of version 0.7.2 dated 2019-07-10
Diff between idealstan versions 0.7.2 dated 2019-07-10 and 1.0 dated 2026-05-12
idealstan-0.7.2/idealstan/R/idealstan-internal.R |only idealstan-0.7.2/idealstan/R/stanmodels.R |only idealstan-0.7.2/idealstan/inst/doc/How_to_Evaluate_Models.html |only idealstan-0.7.2/idealstan/inst/doc/How_to_Evaluate_Models.html.asis |only idealstan-0.7.2/idealstan/inst/doc/Package_Introduction.html |only idealstan-0.7.2/idealstan/inst/doc/Package_Introduction.html.asis |only idealstan-0.7.2/idealstan/inst/doc/Time_Series.html |only idealstan-0.7.2/idealstan/inst/doc/Time_Series.html.asis |only idealstan-0.7.2/idealstan/inst/include |only idealstan-0.7.2/idealstan/man/id_plot-idealstan-method.Rd |only idealstan-0.7.2/idealstan/man/id_plot.Rd |only idealstan-0.7.2/idealstan/man/id_plot_irf.Rd |only idealstan-0.7.2/idealstan/man/idealstan.Rd |only idealstan-0.7.2/idealstan/src |only idealstan-0.7.2/idealstan/tools |only idealstan-0.7.2/idealstan/vignettes/How_to_Evaluate_Models.Rmd |only idealstan-0.7.2/idealstan/vignettes/How_to_Evaluate_Models.html.asis |only idealstan-0.7.2/idealstan/vignettes/Package_Introduction.Rmd |only idealstan-0.7.2/idealstan/vignettes/Package_Introduction.html.asis |only idealstan-0.7.2/idealstan/vignettes/Time_Series.Rmd |only idealstan-0.7.2/idealstan/vignettes/Time_Series.html.asis |only idealstan-1.0/idealstan/DESCRIPTION | 47 idealstan-1.0/idealstan/LICENSE |only idealstan-1.0/idealstan/MD5 | 190 idealstan-1.0/idealstan/NAMESPACE | 57 idealstan-1.0/idealstan/NEWS.md | 8 idealstan-1.0/idealstan/R/Constrain.R |only idealstan-1.0/idealstan/R/DGP_func.R | 650 + idealstan-1.0/idealstan/R/Estimate.R | 1620 ++-- idealstan-1.0/idealstan/R/Generics.R | 1116 ++- idealstan-1.0/idealstan/R/Helpers.R | 3296 ++++++++-- idealstan-1.0/idealstan/R/Plot.R | 1756 +++-- idealstan-1.0/idealstan/R/Simulate.R | 683 +- idealstan-1.0/idealstan/R/data_info.R | 8 idealstan-1.0/idealstan/R/idealstan.R | 19 idealstan-1.0/idealstan/R/rstan_generics.R | 1211 ++- idealstan-1.0/idealstan/R/zzz.R | 62 idealstan-1.0/idealstan/README.md | 95 idealstan-1.0/idealstan/build/vignette.rds |binary idealstan-1.0/idealstan/inst/CITATION | 16 idealstan-1.0/idealstan/inst/doc/Package_Introduction_Short.R |only idealstan-1.0/idealstan/inst/doc/Package_Introduction_Short.html |only idealstan-1.0/idealstan/inst/doc/Package_Introduction_Short.qmd |only idealstan-1.0/idealstan/inst/html_vignettes |only idealstan-1.0/idealstan/inst/stan_files |only idealstan-1.0/idealstan/man/delaware.Rd | 10 idealstan-1.0/idealstan/man/derive_chain.Rd | 25 idealstan-1.0/idealstan/man/id_estimate.Rd | 637 + idealstan-1.0/idealstan/man/id_extract-idealstan-method.Rd | 43 idealstan-1.0/idealstan/man/id_extract.Rd | 20 idealstan-1.0/idealstan/man/id_make.Rd | 258 idealstan-1.0/idealstan/man/id_me-idealstan-method.Rd |only idealstan-1.0/idealstan/man/id_me.Rd |only idealstan-1.0/idealstan/man/id_plot_all_hist.Rd | 36 idealstan-1.0/idealstan/man/id_plot_compare.Rd | 33 idealstan-1.0/idealstan/man/id_plot_cov.Rd | 114 idealstan-1.0/idealstan/man/id_plot_gbeta_prior.Rd |only idealstan-1.0/idealstan/man/id_plot_items.Rd |only idealstan-1.0/idealstan/man/id_plot_legis.Rd | 92 idealstan-1.0/idealstan/man/id_plot_legis_dyn.Rd | 112 idealstan-1.0/idealstan/man/id_plot_legis_var.Rd | 68 idealstan-1.0/idealstan/man/id_plot_persons.Rd |only idealstan-1.0/idealstan/man/id_plot_persons_dyn.Rd |only idealstan-1.0/idealstan/man/id_plot_ppc-idealstan-method.Rd | 83 idealstan-1.0/idealstan/man/id_plot_ppc.Rd | 37 idealstan-1.0/idealstan/man/id_plot_rhats.Rd | 12 idealstan-1.0/idealstan/man/id_plot_sims.Rd | 23 idealstan-1.0/idealstan/man/id_post_pred-idealstan-method.Rd | 85 idealstan-1.0/idealstan/man/id_post_pred.Rd | 21 idealstan-1.0/idealstan/man/id_sim_coverage.Rd | 22 idealstan-1.0/idealstan/man/id_sim_gen.Rd | 166 idealstan-1.0/idealstan/man/id_sim_resid.Rd | 16 idealstan-1.0/idealstan/man/id_sim_rmse.Rd | 16 idealstan-1.0/idealstan/man/idealstan-class.Rd | 2 idealstan-1.0/idealstan/man/idealstan-package.Rd |only idealstan-1.0/idealstan/man/launch_shinystan-idealstan-method.Rd | 32 idealstan-1.0/idealstan/man/launch_shinystan.Rd | 3 idealstan-1.0/idealstan/man/senate114.Rd | 10 idealstan-1.0/idealstan/man/stan_trace-idealstan-method.Rd | 29 idealstan-1.0/idealstan/man/stan_trace.Rd | 23 idealstan-1.0/idealstan/man/summary-idealstan-method.Rd | 42 idealstan-1.0/idealstan/vignettes/Package_Introduction_Short.qmd |only 82 files changed, 9692 insertions(+), 3212 deletions(-)
Title: Automated Selection and Visualisation of Statistical Hypothesis
Tests
Description: The right test, visualised. 'visStatistics' automatically
selects and visualises statistical hypothesis tests comparing two vectors,
based on their class, distribution, and sample size.
Visual outputs, including box plots, bar charts, regression lines with
confidence bands, mosaic plots, residual plots, and Q-Q plots, are
annotated with relevant test statistics, assumption checks, and post-hoc
analyses where applicable.
The algorithmic workflow shifts attention from ad-hoc test selection to
visual diagnostic assessment and statistical interpretation.
It is particularly suited for server-side R applications, where end users
interact solely through a web
interface to select data groups and receive a complete visual statistical
analysis automatically. The same automation makes it useful in
time-constrained contexts such as statistical consulting, where it reduces
effort spent on test selection and leaves more room for interpretation.
The implemented tests cover the most frequently applied [...truncated...]
Author: Sabine Schilling [cre, aut, cph] ,
Peter Kauf [ctb]
Maintainer: Sabine Schilling <sabineschilling@gmx.ch>
Diff between visStatistics versions 0.1.7 dated 2025-05-28 and 0.2.0 dated 2026-05-12
visStatistics-0.1.7/visStatistics/R/openGraphCairo.R |only visStatistics-0.1.7/visStatistics/R/saveGraphVisstat.R |only visStatistics-0.1.7/visStatistics/R/vis_anova_assumptions.R |only visStatistics-0.1.7/visStatistics/R/visstat-methods.R |only visStatistics-0.1.7/visStatistics/man/figures/README-chihair-data-1.png |only visStatistics-0.1.7/visStatistics/man/figures/README-chihair-data-2.png |only visStatistics-0.1.7/visStatistics/man/figures/README-insect-sprays-data-1.png |only visStatistics-0.1.7/visStatistics/man/figures/README-insectprays-anova-data-1.png |only visStatistics-0.1.7/visStatistics/man/figures/README-insectprays-anova-data-2.png |only visStatistics-0.1.7/visStatistics/man/figures/README-mtcars-data-1.png |only visStatistics-0.1.7/visStatistics/man/figures/README-sex-grades2-data-1.png |only visStatistics-0.1.7/visStatistics/man/figures/README-unnamed-chunk-2-1.png |only visStatistics-0.1.7/visStatistics/man/figures/README-unnamed-chunk-2-2.png |only 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visStatistics-0.2.0/visStatistics/tests/examples/examples_openGraphCairo_saveGraphVisstat.R | 3 visStatistics-0.2.0/visStatistics/tests/examples/examples_visstat.R | 262 visStatistics-0.2.0/visStatistics/tests/spelling.R |only visStatistics-0.2.0/visStatistics/tests/spelling.Rout.save |only visStatistics-0.2.0/visStatistics/tests/testthat |only visStatistics-0.2.0/visStatistics/tests/testthat.R |only visStatistics-0.2.0/visStatistics/vignettes/REFERENCES.bib |only visStatistics-0.2.0/visStatistics/vignettes/figures/decision_tree.png |binary visStatistics-0.2.0/visStatistics/vignettes/figures/overview.png |only visStatistics-0.2.0/visStatistics/vignettes/visStatistics.Rmd | 1158 ++-- visStatistics-0.2.0/visStatistics/vignettes/visstat.bib | 1338 ++++ 97 files changed, 6809 insertions(+), 3657 deletions(-)
Title: Track Numerical Optimization
Description: Tracks parameter values, gradients, and Hessians at each
iteration of numerical optimizers. Useful for analyzing optimization
progress, diagnosing issues, and studying convergence behavior.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between trackopt versions 0.1.0 dated 2025-05-12 and 0.1.1 dated 2026-05-12
trackopt-0.1.0/trackopt/man/figures/README-beta-1.png |only trackopt-0.1.1/trackopt/DESCRIPTION | 21 trackopt-0.1.1/trackopt/MD5 | 21 trackopt-0.1.1/trackopt/NEWS.md |only trackopt-0.1.1/trackopt/R/nlm_track.R | 143 +-- trackopt-0.1.1/trackopt/R/optim_track.R | 145 +-- trackopt-0.1.1/trackopt/R/trackopt-package.R | 145 +-- trackopt-0.1.1/trackopt/R/trackopt_methods.R | 481 ++++++------ trackopt-0.1.1/trackopt/README.md | 63 - trackopt-0.1.1/trackopt/man/figures/README-polynomial-1.png |only trackopt-0.1.1/trackopt/man/nlm_track.Rd | 66 - trackopt-0.1.1/trackopt/man/trackopt-package.Rd | 10 trackopt-0.1.1/trackopt/tests/testthat/test-optim_track.R | 7 13 files changed, 589 insertions(+), 513 deletions(-)
Title: Rectangle Nested Lists
Description: A tool to rectangle a nested list, that is to convert it into
a 'tibble'. This is done automatically or according to a given
specification. A common use case is for nested lists coming from
parsing 'JSON' files, or the 'JSON' responses of 'REST' 'APIs'.
'Rectangling' uses the 'vctrs' package, and therefore offers a wide
support of vector types.
Author: Jon Harmon [aut, cre] ,
Maximilian Girlich [aut, cph],
Kirill Mueller [ctb]
Maintainer: Jon Harmon <jonthegeek@gmail.com>
Diff between tibblify versions 0.4.0 dated 2026-05-09 and 0.4.1 dated 2026-05-12
DESCRIPTION | 6 MD5 | 44 - NEWS.md | 4 src/init.c | 4 tests/testthat/_snaps/format-tib.md | 806 +++++++++++------------ tests/testthat/_snaps/format-tibblify_object.md | 18 tests/testthat/_snaps/format-tspec.md | 58 - tests/testthat/_snaps/guess_tspec.md | 10 tests/testthat/_snaps/guess_tspec_df.md | 54 - tests/testthat/_snaps/guess_tspec_list.md | 80 +- tests/testthat/_snaps/guess_tspec_object.md | 790 +++++++++++----------- tests/testthat/_snaps/nest_tree.md | 300 ++++---- tests/testthat/_snaps/shape_utils.md | 144 ++-- tests/testthat/_snaps/spec_combine.md | 498 +++++++------- tests/testthat/_snaps/spec_inform_unspecified.md | 54 - tests/testthat/_snaps/spec_prep_recursive.md | 22 tests/testthat/_snaps/tib_spec_basics.md | 470 ++++++------- tests/testthat/_snaps/tib_spec_other.md | 18 tests/testthat/_snaps/tibblify.md | 658 +++++++++--------- tests/testthat/_snaps/tspec.md | 242 +++--- tests/testthat/_snaps/unnest_tree.md | 324 ++++----- tests/testthat/_snaps/unpack_tspec.md | 72 +- tests/testthat/_snaps/untibblify.md | 92 +- 23 files changed, 2386 insertions(+), 2382 deletions(-)
Title: Statistical Framework for in Vivo Drug Combination Studies
Description: A framework for evaluating drug combination effects in preclinical in vivo studies.
'SynergyLMM' provides functions to analyze longitudinal tumor growth experiments using mixed-effects models,
perform time-resolved analyses of synergy and antagonism, evaluate model diagnostics and performance,
and assess both post-hoc and a priori statistical power.
The calculation of drug combination synergy follows the statistical framework provided by Demidenko and Miller (2019, <doi:10.1371/journal.pone.0224137>).
The implementation and analysis of linear mixed-effect models is based on the methods described by Pinheiro and Bates (2000, <doi:10.1007/b98882>),
and Gałecki and Burzykowski (2013, <doi:10.1007/978-1-4614-3900-4>).
Author: Rafael Romero-Becerra [aut, cre] ,
Zhi Zhao [ctb],
Tero Aittokallio [ctb]
Maintainer: Rafael Romero-Becerra <rafrombec@gmail.com>
Diff between SynergyLMM versions 1.1.2 dated 2025-11-20 and 1.1.3 dated 2026-05-12
DESCRIPTION | 12 - MD5 | 16 - NEWS.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/SynergyLMM.html | 42 ++-- tests/testthat/test-lmmDiagnostics.R | 351 ++++++++--------------------------- tests/testthat/test-lmmPower.R | 76 ------- tests/testthat/test-lmmSynergy.R | 88 ++++---- 9 files changed, 178 insertions(+), 411 deletions(-)
Title: Data Sets from "SAS System for Mixed Models
Description: Data sets and sample lmer analyses corresponding
to the examples in Littell, Milliken, Stroup and Wolfinger
(1996), "SAS System for Mixed Models", SAS Institute.
Author: Ramon Littell [aut],
George Milliken [aut],
Walter Stroup [aut],
Russell Wolfinger [aut],
Douglas Bates [aut] ,
Martin Maechler [aut] ,
Ben Bolker [aut] ,
Steve Walker [aut] ,
Anna Ly [cre]
Maintainer: Anna Ly <annahuynh.ly@utoronto.ca>
This is a re-admission after prior archival of version 1.0-4 dated 2014-03-11
Diff between SASmixed versions 1.0-4 dated 2014-03-11 and 1.0-5 dated 2026-05-12
DESCRIPTION | 44 ++++++++++++++++++++++++++++++++++---------- MD5 | 19 ++++++++++--------- README.md |only build/vignette.rds |binary inst/doc/Usinglmer.R | 2 -- inst/doc/Usinglmer.Rnw | 2 +- inst/doc/Usinglmer.pdf |binary inst/transcripts/README | 2 +- vignettes/Usinglmer.Rnw | 2 +- vignettes/figs/f-adg1.pdf |binary vignettes/figs/f-bib1.pdf |binary 11 files changed, 47 insertions(+), 24 deletions(-)
Title: Import Data from Spanish Sociological Research Center (CIS)
Description: Search and import data directly to R from the Spanish Sociological
Research Center (CIS) <https://www.cis.es/inicio>. The CIS is a public
institution that conducts electoral and sociological research studies on the
Spanish society. The CIS has a large database of surveys that can be
accessed through its website. The package includes functions to search for
surveys, survey questions and timeseries, and import the data directly to R.
Author: Hector Meleiro [aut, cre]
Maintainer: Hector Meleiro <hmeleiros@gmail.com>
Diff between opencis versions 0.1.0 dated 2026-04-29 and 0.1.1 dated 2026-05-12
DESCRIPTION | 7 ++- MD5 | 15 ++++--- R/search.R | 22 +++++------ README.md | 26 ++++++++----- inst/doc/usage.R | 5 ++ inst/doc/usage.Rmd | 16 +++++--- inst/doc/usage.html | 99 ++++++++++++++++++++++++++-------------------------- man/figures |only vignettes/usage.Rmd | 16 +++++--- 9 files changed, 115 insertions(+), 91 deletions(-)
Title: Access and Search MedRxiv and BioRxiv Preprint Data
Description: An increasingly important source of health-related bibliographic
content are preprints - preliminary versions of research articles that have
yet to undergo peer review. The two preprint repositories most relevant to
health-related sciences are medRxiv <https://www.medrxiv.org/> and
bioRxiv, both of which are operated by the Cold
Spring Harbor Laboratory. 'medrxivr' provides programmatic access to the
'Cold Spring Harbour Laboratory (CSHL)' API <https://api.biorxiv.org/>,
allowing users to easily download medRxiv and bioRxiv preprint metadata
(e.g. title, abstract, publication date, author list, etc) into R.
'medrxivr' also provides functions to search the downloaded preprint records
using regular expressions and Boolean logic, as well as helper functions
that allow users to export their search results to a .BIB file for easy
import to a reference manager and to download the full-text PDFs of
preprints matching their search criteria.
Author: Yaoxiang Li [aut, cre] ,
Luke McGuinness [aut],
Lena Schmidt [aut],
Tuija Sonkkila [rev],
Najko Jahn [rev]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
Diff between medrxivr versions 0.1.3 dated 2026-05-07 and 0.1.4 dated 2026-05-12
DESCRIPTION | 9 +++-- MD5 | 14 ++++----- NEWS.md | 5 +++ R/mx_snapshot.R | 11 ++++++- README.md | 63 +++++++++++++++++++++-------------------- inst/doc/medrxivr.html | 4 +- man/medrxivr-package.Rd | 1 tests/testthat/test-snapshot.R | 8 +++++ 8 files changed, 71 insertions(+), 44 deletions(-)
Title: Extended Error Geoms for 'ggplot2'
Description: Extends the 'ggplot2' error geoms.
geom_error() accepts an error aesthetic with auto-inference of the orientation.
It also supports `error_neg` and `error_pos` for asymmetric cases, with full control over aesthetics per side, such as color, width etc...
Author: Yann Cohen [aut, cre]
Maintainer: Yann Cohen <yannco5@gmail.com>
Diff between ggerror versions 0.3.0 dated 2026-04-21 and 1.0.0 dated 2026-05-12
ggerror-0.3.0/ggerror/man/figures/examples_asymmetric.png |only ggerror-0.3.0/ggerror/man/figures/examples_basic.png |only ggerror-0.3.0/ggerror/tests/testthat/_snaps/geom-error |only ggerror-0.3.0/ggerror/tests/testthat/test-geom-error.R |only ggerror-0.3.0/ggerror/tests/testthat/test-orientation.R |only ggerror-1.0.0/ggerror/DESCRIPTION | 18 ggerror-1.0.0/ggerror/MD5 | 81 +-- ggerror-1.0.0/ggerror/NAMESPACE | 19 ggerror-1.0.0/ggerror/NEWS.md | 25 ggerror-1.0.0/ggerror/R/checks.R | 86 +++ ggerror-1.0.0/ggerror/R/geom-error.R | 125 ++++ ggerror-1.0.0/ggerror/R/stat-error.R |only ggerror-1.0.0/ggerror/README.md | 249 ++++++++- ggerror-1.0.0/ggerror/build/vignette.rds |binary ggerror-1.0.0/ggerror/inst/doc/ggerror.R | 149 +++-- ggerror-1.0.0/ggerror/inst/doc/ggerror.Rmd | 227 ++++---- ggerror-1.0.0/ggerror/inst/doc/ggerror.html | 256 +++++----- ggerror-1.0.0/ggerror/inst/doc/use-cases.R |only ggerror-1.0.0/ggerror/inst/doc/use-cases.Rmd |only ggerror-1.0.0/ggerror/inst/doc/use-cases.html |only ggerror-1.0.0/ggerror/man/geom_error.Rd | 54 +- ggerror-1.0.0/ggerror/man/ggerror-package.Rd | 9 ggerror-1.0.0/ggerror/man/stat_error.Rd |only ggerror-1.0.0/ggerror/tests/testthat/Rplots.pdf |only ggerror-1.0.0/ggerror/tests/testthat/_snaps/geom_error |only ggerror-1.0.0/ggerror/tests/testthat/test-call_stat_fun.R |only ggerror-1.0.0/ggerror/tests/testthat/test-check_deprecated_zero_side.R |only ggerror-1.0.0/ggerror/tests/testthat/test-check_na_in_symmetric_error.R |only ggerror-1.0.0/ggerror/tests/testthat/test-check_nonneg_aes.R |only ggerror-1.0.0/ggerror/tests/testthat/test-geom_error.R |only ggerror-1.0.0/ggerror/tests/testthat/test-infer_orientation.R |only ggerror-1.0.0/ggerror/tests/testthat/test-mean_cl_normal_internal.R |only ggerror-1.0.0/ggerror/tests/testthat/test-resolve_stat_fun.R |only ggerror-1.0.0/ggerror/tests/testthat/test-sign_aware.R |only ggerror-1.0.0/ggerror/tests/testthat/test-split_dots_for_fun.R |only ggerror-1.0.0/ggerror/tests/testthat/test-stat_error.R |only ggerror-1.0.0/ggerror/tests/testthat/test-validate_stat_fun_return.R |only ggerror-1.0.0/ggerror/vignettes/ggerror.Rmd | 227 ++++---- ggerror-1.0.0/ggerror/vignettes/use-cases.Rmd |only ggerror-1.0.0/ggerror/vignettes/vignette.css | 12 40 files changed, 1045 insertions(+), 492 deletions(-)
Title: Two-Sample Empirical Likelihood
Description: Empirical likelihood (EL) inference for two-sample problems.
The following statistics are included: the difference of two-sample means,
smooth Huber estimators, quantile (qdiff) and cumulative distribution
functions (fdiff), probability-probability (P-P) and quantile-quantile
(Q-Q) plots as well as receiver operating characteristic (ROC) curves.
Also includes two-sample block-wise empirical likelihood (BEL) and a
frequency-domain empirical likelihood test for autocorrelation differences
(FDEL). Methods for EL, P-P, Q-Q, ROC, qdiff and fdiff are based on
Valeinis and Cers (2011)
<http://home.lu.lv/~valeinis/lv/petnieciba/EL_TwoSample_2011.pdf>.
Author: Janis Valeinis [aut] ,
Edmunds Cers [aut],
Janis Gredzens [cre] ,
Reinis Alksnis [ctb]
Maintainer: Janis Gredzens <janis.gredzens@lu.lv>
Diff between EL versions 1.3 dated 2024-10-28 and 1.4 dated 2026-05-12
DESCRIPTION | 37 +- MD5 | 26 - NAMESPACE | 9 NEWS.md | 10 R/BEL.R | 2 R/EL.R | 930 ++++++++++++++++++++++++++++++++-------------------- R/FDEL.R |only inst |only man/BEL.means.Rd | 71 ++- man/EL.Huber.Rd | 174 +++++---- man/EL.means.Rd | 126 +++---- man/EL.plot.Rd | 326 ++++++++---------- man/EL.smooth.Rd | 227 ++++++------ man/EL.statistic.Rd | 84 ++-- man/FDEL.acf.Rd |only tests |only 16 files changed, 1117 insertions(+), 905 deletions(-)
Title: Dynamic Shrinkage Process and Change Point Detection
Description: Provides efficient Markov chain Monte Carlo (MCMC) algorithms for
dynamic shrinkage processes, which extend global-local shrinkage priors to
the time series setting by allowing shrinkage to depend on its own past.
These priors yield locally adaptive estimates, useful for time series and
regression functions with irregular features. The package includes full MCMC
implementations for trend filtering using dynamic shrinkage on signal differences,
producing locally constant or linear fits with adaptive credible bands.
Also included are models with static shrinkage and normal-inverse-Gamma priors for comparison.
Additional tools cover dynamic regression with time-varying coefficients and
B-spline models with shrinkage on basis differences, allowing for flexible
curve-fitting with unequally spaced data. Some support for heteroscedastic errors,
outlier detection, and change point estimation.
Methods in this package are described in Kowal et al. (2019) <doi:10.1111/rssb.12325>,
Wu et al. [...truncated...]
Author: Daniel R. Kowal [aut, cph],
Haoxuan Wu [aut],
Toryn Schafer [aut, cre] ,
Jason B. Cho [aut],
David S. Matteson [aut]
Maintainer: Toryn Schafer <toryn27@gmail.com>
Diff between dsp versions 1.3.0 dated 2026-04-20 and 1.4.0 dated 2026-05-12
DESCRIPTION | 6 ++--- MD5 | 26 ++++++++++----------- NEWS.md | 5 ++++ R/mcmc_samplers.R | 60 +++++++++++++++++++++++++------------------------- R/nb_btf.R | 10 ++++---- R/plotmethods.R | 62 ++++++++++++++++++++++++++-------------------------- man/btf.Rd | 4 +-- man/btf0.Rd | 4 +-- man/btf_bspline.Rd | 4 +-- man/btf_bspline0.Rd | 4 +-- man/btf_nb.Rd | 4 +-- man/btf_reg.Rd | 4 +-- man/btf_sparse.Rd | 4 +-- man/plot.dsp.Rd | 10 ++++---- 14 files changed, 106 insertions(+), 101 deletions(-)
More information about dist.structure at CRAN
Permanent link
Title: Build Species Distribution Modeling using 'caret'
Description: Use machine learning algorithms and advanced geographic information system tools to
build Species Distribution Modeling in a extensible and modern fashion.
Author: Luiz Fernando Esser [aut, cre, cph] ,
Reginaldo Re [aut] ,
Marcos R. Lima [aut] ,
Edivando Couto [aut] ,
Jose Hilario Delconte Ferreira [aut] ,
Valeria Batista [aut] ,
Dayani Bailly [aut]
Maintainer: Luiz Fernando Esser <luizesser@gmail.com>
Diff between caretSDM versions 1.5 dated 2026-03-10 and 1.8.3 dated 2026-05-12
DESCRIPTION | 23 MD5 | 137 ++-- NAMESPACE | 16 NEWS.md | 34 + R/GBIF_data.R | 10 R/add_predictors.R | 57 +- R/add_scenarios.R | 2 R/background.R | 111 ++- R/buffer_sdm.R | 2 R/change_sdm.r | 9 R/data_clean.R | 16 R/ensemble_sdm.R |only R/gcms_ensembles.R | 10 R/input_sdm.R | 53 + R/mahal.dist.R | 101 --- R/maxent.R | 92 ++- R/multicollinearity_sdm.R |only R/names.R | 52 - R/occurrences_sdm.R | 15 R/pdp_sdm.R | 61 +- R/plot.R | 229 +++++--- R/predict_sdm.R | 343 +----------- R/pseudoabsences.R | 240 +++++--- R/sdm_area.R | 287 ++++++++-- R/sdm_as.R | 52 - R/train_sdm.R | 694 ++++++++++++++++++------- R/vif_predictors.R | 15 R/write.R | 52 + man/GBIF_data.Rd | 10 man/add_predictors.Rd | 12 man/background.Rd | 28 - man/buffer_sdm.Rd | 2 man/data_clean.Rd | 9 man/ensemble_sdm.Rd |only man/gcms_ensembles.Rd | 6 man/multicollinearity_sdm.Rd |only man/occurrences_sdm.Rd | 5 man/pdp_sdm.Rd | 1 man/plot_occurrences.Rd | 41 - man/predict_sdm.Rd | 15 man/prediction_change_sdm.Rd | 5 man/predictor_names.Rd | 22 man/print.ensembles.Rd |only man/pseudoabsences.Rd | 51 + man/sdm_area.Rd | 3 man/vif_predictors.Rd | 5 man/write_ensembles.Rd | 3 tests/testthat/_snaps/gcms_ensembles.md | 8 tests/testthat/_snaps/multicollinearity_sdm.md |only tests/testthat/_snaps/predict_sdm.md | 545 ++++++++++--------- tests/testthat/_snaps/vif_predictors.md | 26 tests/testthat/test-add_predictors.R | 39 - tests/testthat/test-add_scenarios.R | 2 tests/testthat/test-background.R | 16 tests/testthat/test-change_sdm.R |only tests/testthat/test-correlate_sdm.R |only tests/testthat/test-ensemble_sdm.R |only tests/testthat/test-essentials.R | 190 ++++-- tests/testthat/test-gcms_ensembles.R | 28 - tests/testthat/test-multicollinearity_sdm.R |only tests/testthat/test-names.R | 6 tests/testthat/test-pca_predictors.R | 20 tests/testthat/test-pdp_sdm.R | 7 tests/testthat/test-plot.R | 24 tests/testthat/test-predict_sdm.R | 126 ++-- tests/testthat/test-predictors_misc.R | 2 tests/testthat/test-pseudoabsences.R | 24 tests/testthat/test-sdm_area.R | 4 tests/testthat/test-sdm_as.R | 13 tests/testthat/test-tidyverse.R | 7 tests/testthat/test-train_sdm.R | 163 ++++- tests/testthat/test-tuneGrid_sdm.R |only tests/testthat/test-varImp_sdm.R | 2 tests/testthat/test-vif_predictors.R | 2 tests/testthat/test-write.R | 9 75 files changed, 2478 insertions(+), 1716 deletions(-)
Title: Complementary Genomic Functions
Description: Presents a series of molecular and genetic routines in the R
environment with the aim of assisting in analytical pipelines before
and after the use of 'asreml' or another library to perform analyses such
as Genomic Selection or Genome-Wide Association Analyses.
Methods and examples are described in Gezan, Oliveira, Galli, and Murray (2022)
<https://asreml.kb.vsni.co.uk/wp-content/uploads/sites/3/ASRgenomics_Manual.pdf>.
Author: Salvador Gezan [aut, cre],
Darren Murray [aut],
Amanda Avelar de Oliveira [aut],
Giovanni Galli [aut],
VSN International [cph]
Maintainer: Salvador Gezan <salvador.gezan@vsni.co.uk>
Diff between ASRgenomics versions 1.1.5 dated 2025-08-23 and 1.1.6 dated 2026-05-12
DESCRIPTION | 10 MD5 | 31 + NAMESPACE | 25 + NEWS.md | 4 R/ASRgenomics-package.R | 70 ++-- R/G_inverse.R | 122 ++++--- R/Kinship_heatmap.R | 642 +++++++++++++++++++++++++++++++------- R/genomic_summaries.R | 41 +- R/snp_pruning.R | 242 ++++++++------ inst/WORDLIST | 19 - man/ASRgenomics-package.Rd | 1 man/dot-auto_label_size.Rd |only man/dot-dendrogram_segments.Rd |only man/dot-heat_kinship.Rd |only man/kinship.heatmap.Rd | 8 tests/testthat/Rplots.pdf |binary tests/testthat/test-Gtuneup.R | 61 +-- tests/testthat/test-kinshipheat.R | 184 ++++++++++ 18 files changed, 1075 insertions(+), 385 deletions(-)
Title: Utility Functions for R Histograms
Description: Provides a number of utility functions useful for
manipulating large histograms. This includes methods to trim, subset,
merge buckets, merge histograms, convert to CDF, and calculate
information loss due to binning. It also provides a protocol buffer
representation of R's native histogram class to allow histograms over
large data sets to be computed and combined in distributed analytical
pipelines. Implements bin-by-bin histogram distance measures
described in Rubner, Tomasi and Guibas (2000)
<doi:10.1023/A:1026543900054>, Swain and Ballard (1991)
<doi:10.1007/BF00130487>, and Puzicha, Hofmann and Buhmann (1997)
<doi:10.1109/CVPR.1997.609331>, and average shifted histograms as
in Scott (2015, ISBN:9781118575536).
Author: Murray Stokely [aut, cre, cph] ,
Google, Inc. [cph],
Tim Hesterberg [ctb]
Maintainer: Murray Stokely <murray@stokely.org>
This is a re-admission after prior archival of version 0.3.2 dated 2015-07-29
Diff between HistogramTools versions 0.3.2 dated 2015-07-29 and 0.4.1 dated 2026-05-12
HistogramTools-0.3.2/HistogramTools/ChangeLog |only HistogramTools-0.3.2/HistogramTools/inst/NEWS.Rd |only HistogramTools-0.3.2/HistogramTools/inst/doc/HistogramTools-UnitTests.R |only HistogramTools-0.3.2/HistogramTools/inst/doc/HistogramTools-UnitTests.Rnw |only HistogramTools-0.3.2/HistogramTools/inst/doc/HistogramTools-UnitTests.pdf |only HistogramTools-0.3.2/HistogramTools/inst/unitTests |only HistogramTools-0.3.2/HistogramTools/man/histogram-package.Rd |only HistogramTools-0.3.2/HistogramTools/tests/runtests.R |only HistogramTools-0.3.2/HistogramTools/vignettes/HistogramTools-UnitTests.Rnw |only HistogramTools-0.4.1/HistogramTools/DESCRIPTION | 50 +++-- HistogramTools-0.4.1/HistogramTools/MD5 | 93 ++++------ HistogramTools-0.4.1/HistogramTools/NAMESPACE | 1 HistogramTools-0.4.1/HistogramTools/NEWS.md |only HistogramTools-0.4.1/HistogramTools/R/dtrace.R | 2 HistogramTools-0.4.1/HistogramTools/R/ecdf.R | 4 HistogramTools-0.4.1/HistogramTools/README.md |only HistogramTools-0.4.1/HistogramTools/build/vignette.rds |binary HistogramTools-0.4.1/HistogramTools/inst/doc/HistogramTools-quickref.R | 20 +- HistogramTools-0.4.1/HistogramTools/inst/doc/HistogramTools-quickref.Rnw | 7 HistogramTools-0.4.1/HistogramTools/inst/doc/HistogramTools-quickref.pdf |binary HistogramTools-0.4.1/HistogramTools/inst/doc/HistogramTools.R | 78 ++++---- HistogramTools-0.4.1/HistogramTools/inst/doc/HistogramTools.Rnw | 10 - HistogramTools-0.4.1/HistogramTools/inst/doc/HistogramTools.pdf |binary HistogramTools-0.4.1/HistogramTools/inst/extdata |only HistogramTools-0.4.1/HistogramTools/man/HistogramTools-package.Rd |only HistogramTools-0.4.1/HistogramTools/man/ash.Rd | 10 - HistogramTools-0.4.1/HistogramTools/man/bindist.Rd | 9 HistogramTools-0.4.1/HistogramTools/man/binning.Rd | 11 - HistogramTools-0.4.1/HistogramTools/man/dtrace.Rd | 18 + HistogramTools-0.4.1/HistogramTools/man/ecdfofhist.Rd | 12 + HistogramTools-0.4.1/HistogramTools/man/histogram-message.Rd | 18 + HistogramTools-0.4.1/HistogramTools/man/informationloss.Rd | 15 - HistogramTools-0.4.1/HistogramTools/man/intersect.Rd | 9 HistogramTools-0.4.1/HistogramTools/man/merge.Rd | 11 - HistogramTools-0.4.1/HistogramTools/man/mergebuckets.Rd | 12 + HistogramTools-0.4.1/HistogramTools/man/message-histogram.Rd | 17 + HistogramTools-0.4.1/HistogramTools/man/plot.Rd | 10 - HistogramTools-0.4.1/HistogramTools/man/plothist.Rd | 8 HistogramTools-0.4.1/HistogramTools/man/quantiles.Rd | 15 + HistogramTools-0.4.1/HistogramTools/man/scale.Rd | 10 - HistogramTools-0.4.1/HistogramTools/man/subset.Rd | 10 - HistogramTools-0.4.1/HistogramTools/man/trimsparse.Rd | 10 - HistogramTools-0.4.1/HistogramTools/tests/testthat |only HistogramTools-0.4.1/HistogramTools/tests/testthat.R |only HistogramTools-0.4.1/HistogramTools/vignettes/HistogramTools-quickref.Rnw | 7 HistogramTools-0.4.1/HistogramTools/vignettes/HistogramTools.Rnw | 10 - 46 files changed, 321 insertions(+), 166 deletions(-)
More information about HistogramTools at CRAN
Permanent link
Title: Read, Write, Visualize and Manipulate PDB Files
Description: Provides tools to read, write, visualize Protein Data Bank (PDB) files and
perform some structural manipulations.
Author: Leonard Mada [cre, ctb],
Julien Ide [aut]
Maintainer: Leonard Mada <lmada@umft.ro>
Diff between Rpdb versions 2.4.4 dated 2026-03-30 and 2.4.5 dated 2026-05-12
DESCRIPTION | 12 ++-- MD5 | 67 ++++++++++++---------- NAMESPACE | 16 ++++- NEWS.md | 40 +++++++++++-- R/Rpdb-package.R | 21 ++++--- R/Structure.R |only R/addAxes.R | 114 ++++++++++++++++++--------------------- R/addLabels.R | 21 ++++++- R/atoms.R | 34 ++++++++++- R/backbone.R | 41 ++++++++++---- R/centres.R | 16 +++++ R/connect.NucleicAcids.R |only R/connect.R | 32 ++++++++++ R/coords.R | 66 ++++++++++++++-------- R/crystal.R | 84 ++++++++++++++-------------- R/merge.coords.R | 80 +++++++++++++++++++-------- R/pdb.R | 54 ++++++++++++------ R/range.coords.R | 67 +++++++++++++++++++--- R/read.pdb.R | 137 ++++++++++++++++++++++++++++------------------- R/split.pdb.R | 46 +++++++++------ R/visualize.R | 10 ++- R/xyz2abc.R | 34 +++++------ README.md | 42 +++++++++++--- man/Rpdb-package.Rd | 22 ++++--- man/addAxes.Rd | 24 ++++++-- man/atoms.Rd | 10 +++ man/connect.nucleic.Rd |only man/coords.Rd | 58 ++++++++++++------- man/crystal.Rd | 46 ++++++++------- man/merge.coords.Rd | 38 ++++++++----- man/pdb.Rd | 33 +++++++---- man/range.coords.Rd | 19 ++++++ man/read.pdb.Rd | 25 +++++--- man/split.pdb.Rd | 12 ++-- man/visualize.Rd | 4 - man/xyz2abc.Rd | 27 ++++----- 36 files changed, 886 insertions(+), 466 deletions(-)
Title: National Emergency Medical Service Quality Alliance Measure
Calculations
Description: Designed to automate the calculation of Emergency Medical
Service (EMS) quality metrics, 'nemsqar' implements measures defined
by the National EMS Quality Alliance (NEMSQA). By providing reliable,
evidence-based quality assessments, the package supports EMS agencies,
healthcare providers, and researchers in evaluating and improving
patient outcomes. Users can find details on all approved NEMSQA
measures at <https://www.nemsqa.org/measures>. Full technical
specifications, including documentation and pseudocode used to develop
'nemsqar', are available on the NEMSQA website after creating a user
profile at <https://www.nemsqa.org>.
Author: Nicolas Foss [aut, cre],
Samuel Kordik [aut] ,
Alyssa Green [ctb],
Iowa Department of Health and Human Services [cph]
Maintainer: Nicolas Foss <nicolas.foss@hhs.iowa.gov>
Diff between nemsqar versions 1.1.2 dated 2025-07-21 and 1.2.0 dated 2026-05-12
nemsqar-1.1.2/nemsqar/man/results_summarize.Rd |only nemsqar-1.1.2/nemsqar/man/summarize_measure.Rd |only nemsqar-1.2.0/nemsqar/DESCRIPTION | 18 nemsqar-1.2.0/nemsqar/MD5 | 293 nemsqar-1.2.0/nemsqar/NAMESPACE | 1 nemsqar-1.2.0/nemsqar/NEWS.md | 69 nemsqar-1.2.0/nemsqar/R/airway_01.R | 476 - nemsqar-1.2.0/nemsqar/R/airway_01_population.R | 411 - nemsqar-1.2.0/nemsqar/R/airway_05.R | 379 - nemsqar-1.2.0/nemsqar/R/airway_05_population.R | 964 +- nemsqar-1.2.0/nemsqar/R/airway_18.R | 361 - nemsqar-1.2.0/nemsqar/R/airway_18_population.R | 1751 ++--- nemsqar-1.2.0/nemsqar/R/asthma_01.R | 381 - nemsqar-1.2.0/nemsqar/R/asthma_01_population.R | 1065 +-- nemsqar-1.2.0/nemsqar/R/compare_formals.R |only nemsqar-1.2.0/nemsqar/R/constants.R |only nemsqar-1.2.0/nemsqar/R/globalVariables.R | 284 nemsqar-1.2.0/nemsqar/R/hypoglycemia_01.R | 440 - nemsqar-1.2.0/nemsqar/R/hypoglycemia_01_population.R | 1379 +--- nemsqar-1.2.0/nemsqar/R/nemsqa_binomial_confint.R | 43 nemsqar-1.2.0/nemsqar/R/nemsqa_missing_summary.R |only nemsqar-1.2.0/nemsqar/R/nemsqar-package.R | 23 nemsqar-1.2.0/nemsqar/R/pediatrics_03b.R | 437 - nemsqar-1.2.0/nemsqar/R/pediatrics_03b_population.R | 1094 +-- nemsqar-1.2.0/nemsqar/R/pretty_percent.r | 46 nemsqar-1.2.0/nemsqar/R/respiratory_01.R | 342 - nemsqar-1.2.0/nemsqar/R/respiratory_01_population.R | 995 +-- nemsqar-1.2.0/nemsqar/R/respiratory_02.R | 415 - nemsqar-1.2.0/nemsqar/R/respiratory_02_population.R | 1053 +-- nemsqar-1.2.0/nemsqar/R/results_summarize.R | 120 nemsqar-1.2.0/nemsqar/R/safety_01.R | 326 nemsqar-1.2.0/nemsqar/R/safety_01_population.R | 861 +- nemsqar-1.2.0/nemsqar/R/safety_02.R | 364 - nemsqar-1.2.0/nemsqar/R/safety_02_population.R | 1028 +-- nemsqar-1.2.0/nemsqar/R/safety_04.R | 292 nemsqar-1.2.0/nemsqar/R/safety_04_population.R | 1158 +-- nemsqar-1.2.0/nemsqar/R/seizure_02.R | 389 - nemsqar-1.2.0/nemsqar/R/seizure_02_population.R | 1000 +-- nemsqar-1.2.0/nemsqar/R/stroke_01.R | 252 nemsqar-1.2.0/nemsqar/R/stroke_01_population.R | 674 -- nemsqar-1.2.0/nemsqar/R/summarize_measure.R | 10 nemsqar-1.2.0/nemsqar/R/syncope_01.R | 321 nemsqar-1.2.0/nemsqar/R/syncope_01_population.R | 1072 +-- nemsqar-1.2.0/nemsqar/R/tbi_01.R | 297 nemsqar-1.2.0/nemsqar/R/tbi_01_population.R | 1124 +-- nemsqar-1.2.0/nemsqar/R/trauma_01.R | 215 nemsqar-1.2.0/nemsqar/R/trauma_01_population.R | 1159 +-- nemsqar-1.2.0/nemsqar/R/trauma_03.R | 269 nemsqar-1.2.0/nemsqar/R/trauma_03_population.R | 1713 +---- nemsqar-1.2.0/nemsqar/R/trauma_04.R | 472 - nemsqar-1.2.0/nemsqar/R/trauma_04_population.R | 3313 +++------- nemsqar-1.2.0/nemsqar/R/trauma_08.R | 222 nemsqar-1.2.0/nemsqar/R/trauma_08_population.R | 923 +- nemsqar-1.2.0/nemsqar/R/trauma_14.R | 305 nemsqar-1.2.0/nemsqar/R/trauma_14_population.R | 3245 +++------ nemsqar-1.2.0/nemsqar/R/ttr_01.R | 227 nemsqar-1.2.0/nemsqar/R/ttr_01_population.R | 1188 +-- nemsqar-1.2.0/nemsqar/R/validate_character_factor.R |only nemsqar-1.2.0/nemsqar/R/validate_choice.R |only nemsqar-1.2.0/nemsqar/R/validate_class.R |only nemsqar-1.2.0/nemsqar/R/validate_complete.R |only nemsqar-1.2.0/nemsqar/R/validate_data_pull.R |only nemsqar-1.2.0/nemsqar/R/validate_data_structure.R |only nemsqar-1.2.0/nemsqar/R/validate_error_type.R |only nemsqar-1.2.0/nemsqar/R/validate_length.R |only nemsqar-1.2.0/nemsqar/R/validate_names.R |only nemsqar-1.2.0/nemsqar/R/validate_numeric.R |only nemsqar-1.2.0/nemsqar/R/validate_set.R |only nemsqar-1.2.0/nemsqar/README.md | 12 nemsqar-1.2.0/nemsqar/build/partial.rdb |binary nemsqar-1.2.0/nemsqar/build/vignette.rds |only nemsqar-1.2.0/nemsqar/inst |only nemsqar-1.2.0/nemsqar/man/airway_01.Rd | 39 nemsqar-1.2.0/nemsqar/man/airway_01_population.Rd | 12 nemsqar-1.2.0/nemsqar/man/airway_05.Rd | 57 nemsqar-1.2.0/nemsqar/man/airway_05_population.Rd | 18 nemsqar-1.2.0/nemsqar/man/airway_18.Rd | 90 nemsqar-1.2.0/nemsqar/man/airway_18_population.Rd | 61 nemsqar-1.2.0/nemsqar/man/asthma_01.Rd | 51 nemsqar-1.2.0/nemsqar/man/asthma_01_population.Rd | 20 nemsqar-1.2.0/nemsqar/man/hypoglycemia_01.Rd | 71 nemsqar-1.2.0/nemsqar/man/hypoglycemia_01_population.Rd | 46 nemsqar-1.2.0/nemsqar/man/nemsqa_binomial_confint.Rd | 2 nemsqar-1.2.0/nemsqar/man/nemsqar-package.Rd | 3 nemsqar-1.2.0/nemsqar/man/pediatrics_03b.Rd | 61 nemsqar-1.2.0/nemsqar/man/pediatrics_03b_population.Rd | 40 nemsqar-1.2.0/nemsqar/man/respiratory_01.Rd | 66 nemsqar-1.2.0/nemsqar/man/respiratory_01_population.Rd | 47 nemsqar-1.2.0/nemsqar/man/respiratory_02.Rd | 67 nemsqar-1.2.0/nemsqar/man/respiratory_02_population.Rd | 44 nemsqar-1.2.0/nemsqar/man/safety_01.Rd | 51 nemsqar-1.2.0/nemsqar/man/safety_01_population.Rd | 37 nemsqar-1.2.0/nemsqar/man/safety_02.Rd | 68 nemsqar-1.2.0/nemsqar/man/safety_02_population.Rd | 45 nemsqar-1.2.0/nemsqar/man/safety_04.Rd | 84 nemsqar-1.2.0/nemsqar/man/safety_04_population.Rd | 61 nemsqar-1.2.0/nemsqar/man/seizure_02.Rd | 72 nemsqar-1.2.0/nemsqar/man/seizure_02_population.Rd | 49 nemsqar-1.2.0/nemsqar/man/stroke_01.Rd | 72 nemsqar-1.2.0/nemsqar/man/stroke_01_population.Rd | 45 nemsqar-1.2.0/nemsqar/man/syncope_01.Rd | 76 nemsqar-1.2.0/nemsqar/man/syncope_01_population.Rd | 55 nemsqar-1.2.0/nemsqar/man/tbi_01.Rd | 94 nemsqar-1.2.0/nemsqar/man/tbi_01_population.Rd | 69 nemsqar-1.2.0/nemsqar/man/trauma_01.Rd | 81 nemsqar-1.2.0/nemsqar/man/trauma_01_population.Rd | 64 nemsqar-1.2.0/nemsqar/man/trauma_03.Rd | 81 nemsqar-1.2.0/nemsqar/man/trauma_03_population.Rd | 52 nemsqar-1.2.0/nemsqar/man/trauma_04.Rd | 209 nemsqar-1.2.0/nemsqar/man/trauma_04_population.Rd | 224 nemsqar-1.2.0/nemsqar/man/trauma_08.Rd | 85 nemsqar-1.2.0/nemsqar/man/trauma_08_population.Rd | 61 nemsqar-1.2.0/nemsqar/man/trauma_14.Rd | 136 nemsqar-1.2.0/nemsqar/man/trauma_14_population.Rd | 113 nemsqar-1.2.0/nemsqar/man/ttr_01.Rd | 94 nemsqar-1.2.0/nemsqar/man/ttr_01_population.Rd | 73 nemsqar-1.2.0/nemsqar/tests/testthat/test-airway_01.R | 369 - nemsqar-1.2.0/nemsqar/tests/testthat/test-airway_01_population.R | 416 - nemsqar-1.2.0/nemsqar/tests/testthat/test-airway_05_population.R | 183 nemsqar-1.2.0/nemsqar/tests/testthat/test-airway_18.R | 448 - nemsqar-1.2.0/nemsqar/tests/testthat/test-airway_18_population.R | 365 - nemsqar-1.2.0/nemsqar/tests/testthat/test-asthma_01.R | 101 nemsqar-1.2.0/nemsqar/tests/testthat/test-asthma_01_population.R | 311 nemsqar-1.2.0/nemsqar/tests/testthat/test-compare_formals.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-hypoglycemia_01.R | 128 nemsqar-1.2.0/nemsqar/tests/testthat/test-hypoglycemia_01_population.R | 372 - nemsqar-1.2.0/nemsqar/tests/testthat/test-pediatrics_03b.R | 145 nemsqar-1.2.0/nemsqar/tests/testthat/test-pediatrics_03b_population.R | 289 nemsqar-1.2.0/nemsqar/tests/testthat/test-pretty_percent.R | 39 nemsqar-1.2.0/nemsqar/tests/testthat/test-respiratory_01.R | 95 nemsqar-1.2.0/nemsqar/tests/testthat/test-respiratory_01_population.R | 305 nemsqar-1.2.0/nemsqar/tests/testthat/test-respiratory_02.R | 99 nemsqar-1.2.0/nemsqar/tests/testthat/test-respiratory_02_population.R | 338 - nemsqar-1.2.0/nemsqar/tests/testthat/test-safety_01.R | 82 nemsqar-1.2.0/nemsqar/tests/testthat/test-safety_01_population.R | 202 nemsqar-1.2.0/nemsqar/tests/testthat/test-safety_02.R | 98 nemsqar-1.2.0/nemsqar/tests/testthat/test-safety_02_population.R | 271 nemsqar-1.2.0/nemsqar/tests/testthat/test-safety_04.R | 86 nemsqar-1.2.0/nemsqar/tests/testthat/test-safety_04_population.R | 308 nemsqar-1.2.0/nemsqar/tests/testthat/test-seizure_02_population.R | 251 nemsqar-1.2.0/nemsqar/tests/testthat/test-stroke_01_population.R | 208 nemsqar-1.2.0/nemsqar/tests/testthat/test-syncope_01_population.R | 300 nemsqar-1.2.0/nemsqar/tests/testthat/test-tbi_01_population.R | 297 nemsqar-1.2.0/nemsqar/tests/testthat/test-trauma_01_population.R | 304 nemsqar-1.2.0/nemsqar/tests/testthat/test-trauma_03_population.R | 728 +- nemsqar-1.2.0/nemsqar/tests/testthat/test-trauma_04.R | 233 nemsqar-1.2.0/nemsqar/tests/testthat/test-trauma_04_population.R | 883 +- nemsqar-1.2.0/nemsqar/tests/testthat/test-trauma_08_population.R | 421 - nemsqar-1.2.0/nemsqar/tests/testthat/test-trauma_14_population.R | 776 +- nemsqar-1.2.0/nemsqar/tests/testthat/test-ttr_01_population.R | 569 - nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_character_factor.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_choice.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_class.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_complete.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_data_pull.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_data_structure.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_error_type.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_length.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_names.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_numeric.R |only nemsqar-1.2.0/nemsqar/tests/testthat/test-validate_set.R |only nemsqar-1.2.0/nemsqar/vignettes |only 162 files changed, 22742 insertions(+), 25495 deletions(-)
Title: Dose Rate Modelling of Carbonate-Rich Samples
Description: Translation of the 'MATLAB' program 'Carb' (Nathan and Mauz 2008 <DOI:10.1016/j.radmeas.2007.12.012>; Mauz and Hoffmann 2014) for dose rate modelling for carbonate-rich samples in the context of trapped charged dating (e.g., luminescence dating) applications.
Author: Sebastian Kreutzer [aut, trl, cre, dtc] ,
Roger P. Nathan [aut, cph],
Barbara Mauz [aut, cph]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@uni-heidelberg.de>
Diff between RCarb versions 0.1.7 dated 2025-07-25 and 0.1.8 dated 2026-05-12
DESCRIPTION | 18 ++- MD5 | 32 +++--- NEWS.md | 14 ++ R/RCarb-package.R | 2 R/calc_DoseRate.R | 3 R/internals_RCarb.R | 26 +++++ R/model_DoseRate.R | 142 ++++++++++++++++++------------ R/write_InputTemplate.R | 13 ++ README.md | 5 - inst/doc/GetStarted.html | 41 ++++---- man/RCarb-package.Rd | 1 man/model_DoseRate.Rd | 14 +- man/write_InputTemplate.Rd | 6 - tests/testthat/test_.cal_DoseRate.R | 9 + tests/testthat/test_model_DoseRate.R | 45 ++++++--- tests/testthat/test_write_InputTemplate.R | 6 + vignettes/GetStarted.Rmd | 8 + 17 files changed, 257 insertions(+), 128 deletions(-)
Title: Conservation Indicators Using Spatial Information
Description: Supports the assessment of the degree of conservation of taxa
in conservation systems, both in ex situ (in genebanks,
botanical gardens, and other repositories), and in situ
(in protected natural areas). Methods are described in
Carver et al. (2021) <doi:10.1111/ecog.05430>, building on
Khoury et al. (2020) <doi:10.1073/pnas.2007029117>,
Khoury et al. (2019) <doi:10.1016/j.ecolind.2018.11.016>,
Khoury et al. (2019) <doi:10.1111/DDI.13008>,
Castaneda-Alvarez et al. (2016) <doi:10.1038/nplants.2016.22>,
and Ramirez-Villegas et al. (2010) <doi:10.1371/journal.pone.0013497>.
Author: Dan Carver [aut, cre, cph] ,
Sarah Gore [aut, cph] ,
Chrystian Sosa [aut, cph] ,
Colin Khoury [aut, cph] ,
Julian Ramirez-Villegas [aut, cph] ,
Valentin Stefan [ctb],
Harold Achicanoy [ctb, cph],
Maria Victoria Diaz [ctb, cph],
Steven Sotelo [ctb, cp [...truncated...]
Maintainer: Dan Carver <carver.dan1@gmail.com>
Diff between GapAnalysis versions 2.0.0 dated 2026-04-09 and 2.0.2 dated 2026-05-12
DESCRIPTION | 11 ++- MD5 | 93 ++++++++++++++++----------------- NEWS.md | 11 +++ R/ERSex.R | 60 +++++++++++---------- R/ERSin.R | 44 +++++++++------ R/FCSc_mean.R | 2 R/FCSex.R | 6 +- R/FCSin.R | 2 R/GRSex.R | 2 R/GRSin.R | 6 +- R/SRSex.R | 9 +-- R/SRSin.R | 22 ++++--- R/checkEcoregion.R | 2 R/checkOccurrences.R | 2 R/checkProtectedAreas.R | 2 R/checkRasters.R | 2 R/data.R | 12 ++-- R/generateCounts.R | 2 R/generateEcoSelection.R | 2 R/generateGBuffers.R | 2 R/getDatasets.R | 2 build/partial.rdb |only build/vignette.rds |binary inst/doc/multipleSpecies_vignette.R | 10 +-- inst/doc/multipleSpecies_vignette.Rmd | 10 +-- inst/doc/multipleSpecies_vignette.html | 93 ++++++++++++++++----------------- man/CucurbitaData.Rd | 4 - man/CucurbitaRasters.Rd | 4 - man/ERSex.Rd | 2 man/ERSin.Rd | 2 man/FCSc_mean.Rd | 2 man/FCSex.Rd | 2 man/FCSin.Rd | 2 man/GRSex.Rd | 2 man/GRSin.Rd | 2 man/ProtectedAreas.Rd | 2 man/SRSex.Rd | 2 man/SRSin.Rd | 2 man/checkEcoregion.Rd | 2 man/checkOccurrences.Rd | 2 man/checkProtectedAreas.Rd | 2 man/checksdm.Rd | 2 man/ecoregions.Rd | 2 man/generateCounts.Rd | 2 man/generateEcoSelection.Rd | 2 man/generateGBuffers.Rd | 2 man/getDatasets.Rd | 2 vignettes/multipleSpecies_vignette.Rmd | 10 +-- 48 files changed, 244 insertions(+), 221 deletions(-)
Title: Tidy Finance Helper Functions
Description: Helper functions for empirical research in financial
economics, addressing a variety of topics covered in Scheuch, Voigt,
and Weiss (2023) <doi:10.1201/b23237>. The package is designed to
provide shortcuts for issues extensively discussed in the book,
facilitating easier application of its concepts. For more information
and resources related to the book, visit
<https://www.tidy-finance.org/r/index.html>.
Author: Christoph Scheuch [aut, cre, cph] ,
Stefan Voigt [aut, cph] ,
Patrick Weiss [aut, cph] ,
Maximilian Muecke [ctb]
Maintainer: Christoph Scheuch <christoph@tidy-intelligence.com>
Diff between tidyfinance versions 0.4.5 dated 2026-01-08 and 0.5.0 dated 2026-05-12
tidyfinance-0.4.5/tidyfinance/R/add_lag_columns.R |only tidyfinance-0.4.5/tidyfinance/R/lag_column.R |only tidyfinance-0.4.5/tidyfinance/man/add_lag_columns.Rd |only tidyfinance-0.4.5/tidyfinance/man/disconnection_connection.Rd |only tidyfinance-0.4.5/tidyfinance/man/download_data_factors.Rd |only tidyfinance-0.4.5/tidyfinance/man/get_random_user_agent.Rd |only tidyfinance-0.4.5/tidyfinance/man/lag_column.Rd |only tidyfinance-0.4.5/tidyfinance/tests/testthat/test-add_lag_columns.R |only tidyfinance-0.5.0/tidyfinance/DESCRIPTION | 18 tidyfinance-0.5.0/tidyfinance/MD5 | 247 - tidyfinance-0.5.0/tidyfinance/NAMESPACE | 30 tidyfinance-0.5.0/tidyfinance/NEWS.md | 164 - tidyfinance-0.5.0/tidyfinance/R/add_lagged_columns.R |only tidyfinance-0.5.0/tidyfinance/R/assign_portfolio.R | 77 tidyfinance-0.5.0/tidyfinance/R/breakpoint_options.R | 95 tidyfinance-0.5.0/tidyfinance/R/check_new_col.R |only tidyfinance-0.5.0/tidyfinance/R/check_supported_type.R | 15 tidyfinance-0.5.0/tidyfinance/R/compute_breakpoints.R | 233 - tidyfinance-0.5.0/tidyfinance/R/compute_long_short_returns.R | 56 tidyfinance-0.5.0/tidyfinance/R/compute_portfolio_returns.R | 762 +++-- tidyfinance-0.5.0/tidyfinance/R/compute_rolling_value.R |only tidyfinance-0.5.0/tidyfinance/R/create_summary_statistics.R | 35 tidyfinance-0.5.0/tidyfinance/R/create_wrds_dummy_database.R | 13 tidyfinance-0.5.0/tidyfinance/R/data_options.R | 151 - tidyfinance-0.5.0/tidyfinance/R/disconnect_connection.R | 20 tidyfinance-0.5.0/tidyfinance/R/download_data.R | 311 +- tidyfinance-0.5.0/tidyfinance/R/download_data_constituents.R | 57 tidyfinance-0.5.0/tidyfinance/R/download_data_factors.R | 347 +- tidyfinance-0.5.0/tidyfinance/R/download_data_fred.R | 60 tidyfinance-0.5.0/tidyfinance/R/download_data_huggingface.R |only tidyfinance-0.5.0/tidyfinance/R/download_data_macro_predictors.R | 134 tidyfinance-0.5.0/tidyfinance/R/download_data_osap.R | 42 tidyfinance-0.5.0/tidyfinance/R/download_data_risk_free.R |only tidyfinance-0.5.0/tidyfinance/R/download_data_stock_prices.R | 39 tidyfinance-0.5.0/tidyfinance/R/download_data_wrds.R | 145 tidyfinance-0.5.0/tidyfinance/R/download_data_wrds_ccm_links.R | 15 tidyfinance-0.5.0/tidyfinance/R/download_data_wrds_compustat.R | 155 - tidyfinance-0.5.0/tidyfinance/R/download_data_wrds_crsp.R | 360 +- tidyfinance-0.5.0/tidyfinance/R/download_data_wrds_fisd.R | 25 tidyfinance-0.5.0/tidyfinance/R/download_data_wrds_trace_enhanced.R | 62 tidyfinance-0.5.0/tidyfinance/R/estimate_betas.R | 77 tidyfinance-0.5.0/tidyfinance/R/estimate_fama_macbeth.R | 177 - tidyfinance-0.5.0/tidyfinance/R/estimate_model.R | 150 tidyfinance-0.5.0/tidyfinance/R/filter_options.R |only tidyfinance-0.5.0/tidyfinance/R/filter_sorting_data.R |only tidyfinance-0.5.0/tidyfinance/R/get_random_user_agent.R | 17 tidyfinance-0.5.0/tidyfinance/R/get_wrds_connection.R | 45 tidyfinance-0.5.0/tidyfinance/R/global_variables.R | 31 tidyfinance-0.5.0/tidyfinance/R/handle_download_error.R | 27 tidyfinance-0.5.0/tidyfinance/R/implement_portfolio_sort.R |only tidyfinance-0.5.0/tidyfinance/R/join_lagged_values.R |only tidyfinance-0.5.0/tidyfinance/R/list_supported_indexes.R | 121 tidyfinance-0.5.0/tidyfinance/R/list_supported_types.R | 1510 +++++----- tidyfinance-0.5.0/tidyfinance/R/list_tidy_finance_chapters.R | 3 tidyfinance-0.5.0/tidyfinance/R/open_tidy_finance_website.R | 9 tidyfinance-0.5.0/tidyfinance/R/portfolio_sort_options.R |only tidyfinance-0.5.0/tidyfinance/R/set_wrds_credentials.R | 50 tidyfinance-0.5.0/tidyfinance/R/tidyfinance-package.R | 13 tidyfinance-0.5.0/tidyfinance/R/trim.R | 5 tidyfinance-0.5.0/tidyfinance/R/validate.R | 38 tidyfinance-0.5.0/tidyfinance/R/winsorize.R | 3 tidyfinance-0.5.0/tidyfinance/README.md | 383 ++ tidyfinance-0.5.0/tidyfinance/inst/doc/dates-in-tidyfinance.R | 26 tidyfinance-0.5.0/tidyfinance/inst/doc/dates-in-tidyfinance.Rmd | 62 tidyfinance-0.5.0/tidyfinance/inst/doc/dates-in-tidyfinance.html | 140 tidyfinance-0.5.0/tidyfinance/inst/doc/using-tidyfinance.R | 19 tidyfinance-0.5.0/tidyfinance/inst/doc/using-tidyfinance.Rmd | 19 tidyfinance-0.5.0/tidyfinance/inst/doc/using-tidyfinance.html | 65 tidyfinance-0.5.0/tidyfinance/man/add_lagged_columns.Rd |only tidyfinance-0.5.0/tidyfinance/man/assign_portfolio.Rd | 55 tidyfinance-0.5.0/tidyfinance/man/breakpoint_options.Rd | 61 tidyfinance-0.5.0/tidyfinance/man/check_supported_type.Rd | 10 tidyfinance-0.5.0/tidyfinance/man/compute_breakpoints.Rd | 96 tidyfinance-0.5.0/tidyfinance/man/compute_long_short_returns.Rd | 59 tidyfinance-0.5.0/tidyfinance/man/compute_portfolio_returns.Rd | 171 - 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Title: Patient Rule Induction Method (PRIM)
Description: Patient Rule Induction Method (PRIM) for bump hunting in high-dimensional data.
Author: Tarn Duong [aut, cre]
Maintainer: Tarn Duong <tarn.duong@gmail.com>
Diff between prim versions 1.0.22 dated 2024-11-28 and 1.0.23 dated 2026-05-12
prim-1.0.22/prim/inst/doc/prim-2d.R |only prim-1.0.22/prim/inst/doc/prim-2d.Rmd |only prim-1.0.22/prim/inst/doc/prim-2d.html |only prim-1.0.22/prim/inst/doc/prim-3d.R |only prim-1.0.22/prim/inst/doc/prim-3d.Rmd |only prim-1.0.22/prim/inst/doc/prim-3d.html |only prim-1.0.22/prim/vignettes/prim-2d.Rmd |only prim-1.0.22/prim/vignettes/prim-3d.Rmd |only prim-1.0.23/prim/DESCRIPTION | 12 ++++++------ prim-1.0.23/prim/MD5 | 30 ++++++++++++++---------------- prim-1.0.23/prim/R/boxfun.R | 11 ----------- prim-1.0.23/prim/R/prim.R | 22 ++-------------------- prim-1.0.23/prim/README.md |only prim-1.0.23/prim/build/vignette.rds |binary prim-1.0.23/prim/inst/doc/prim.R |only prim-1.0.23/prim/inst/doc/prim.Rmd |only prim-1.0.23/prim/inst/doc/prim.html |only prim-1.0.23/prim/inst/pkgdown.yml |only prim-1.0.23/prim/man/plot.prim.Rd | 15 +++++++++------ prim-1.0.23/prim/man/prim-package.Rd | 13 ++++++------- prim-1.0.23/prim/man/prim.S3methods.Rd | 9 +-------- prim-1.0.23/prim/man/prim.box.Rd | 5 ----- prim-1.0.23/prim/vignettes/prim.Rmd |only 23 files changed, 38 insertions(+), 79 deletions(-)
Title: Various Methods for the Two Sample Problem in D>1 Dimensions
Description: The routine twosample_test() in this package runs the
two-sample test using various test statistic for multivariate data.
The user can also run several tests and then find a p value adjusted for simultaneous inference.
The p values are found via permutation or via the parametric bootstrap.
The routine twosample_power() allows the estimation of the power of the tests.
The routine run.studies() allows a user to quickly study the power of a new method and
how it compares to those included in the package.
For details of the methods and references see the included vignettes.
Author: Wolfgang Rolke [aut, cre]
Maintainer: Wolfgang Rolke <wolfgang.rolke@upr.edu>
Diff between MD2sample versions 1.2.0 dated 2026-03-28 and 1.2.1 dated 2026-05-12
DESCRIPTION | 6 +-- MD5 | 20 +++++----- NEWS.md | 3 + R/chisq2D_test_cont.R | 6 +-- R/chisqTS.R | 3 + R/run.studies.R | 3 + R/twosample_test.R | 1 R/twosample_test_adjusted_pvalue.R | 14 ++++++- inst/doc/CaseStudies.html | 68 ++++++++++++++++++------------------- inst/doc/MD2sample.html | 28 +++++++-------- man/run.studies.Rd | 3 + 11 files changed, 85 insertions(+), 70 deletions(-)
Title: R Functions to Model CDOM Spectra
Description: Wrapper functions to model and extract various quantitative information from absorption spectra of chromophoric dissolved organic matter (CDOM).
Author: Philippe Massicotte [aut, cre]
Maintainer: Philippe Massicotte <pmassicotte@hotmail.com>
Diff between cdom versions 0.1.0 dated 2016-03-04 and 0.1.1 dated 2026-05-12
cdom-0.1.0/cdom/R/fit_exponential.R |only cdom-0.1.0/cdom/man/cdom_fit_exponential.Rd |only cdom-0.1.1/cdom/DESCRIPTION | 17 - cdom-0.1.1/cdom/MD5 | 35 +- cdom-0.1.1/cdom/NAMESPACE | 7 cdom-0.1.1/cdom/NEWS.md | 12 cdom-0.1.1/cdom/R/exponential.R |only cdom-0.1.1/cdom/R/slope_ratio.R | 17 - cdom-0.1.1/cdom/R/spectral_curve.R | 34 +- cdom-0.1.1/cdom/README.md | 242 ++++++++++++---- cdom-0.1.1/cdom/build |only cdom-0.1.1/cdom/inst/CITATION | 13 cdom-0.1.1/cdom/inst/images/README-data-1.png |binary cdom-0.1.1/cdom/inst/images/README-exponential-1.png |binary cdom-0.1.1/cdom/inst/images/README-spectral_curve-1.png |binary cdom-0.1.1/cdom/man/cdom_exponential.Rd |only cdom-0.1.1/cdom/man/cdom_slope_ratio.Rd | 3 cdom-0.1.1/cdom/man/cdom_spectral_curve.Rd | 3 cdom-0.1.1/cdom/man/coef.exponential_fit.Rd |only cdom-0.1.1/cdom/man/plot.exponential_fit.Rd |only cdom-0.1.1/cdom/man/predict.exponential_fit.Rd |only cdom-0.1.1/cdom/man/spectra.Rd | 5 cdom-0.1.1/cdom/man/summary.exponential_fit.Rd |only 23 files changed, 268 insertions(+), 120 deletions(-)
Title: Algorithms and Tools for Tabular Statistics and Hierarchical
Computations
Description: Includes general data manipulation functions, algorithms for statistical disclosure control (Langsrud, 2024) <doi:10.1007/978-3-031-69651-0_6> and functions for hierarchical computations by sparse model matrices (Langsrud, 2023) <doi:10.32614/RJ-2023-088>.
Author: Oeyvind Langsrud [aut, cre] ,
Daniel Lupp [aut] ,
Bjoern-Helge Mevik [ctb],
Vidar Norstein Klungre [rev] ,
Statistics Norway [cph]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 1.8.6 dated 2025-12-01 and 1.8.7 dated 2026-05-12
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/table_all_integers.R | 2 +- build/partial.rdb |binary man/convert_integer64.Rd | 2 +- 6 files changed, 18 insertions(+), 12 deletions(-)
Title: Parallel GLM
Description: Provides a parallel estimation method for generalized linear
models without compiling with a multithreaded LAPACK or BLAS.
Author: Benjamin Christoffersen [aut] ,
Anthony Williams [cph],
Boost developers [cph],
Tom Palmer [aut, cre]
Maintainer: Tom Palmer <remlapmot@hotmail.com>
Diff between parglm versions 0.1.8 dated 2026-04-21 and 0.1.9 dated 2026-05-12
parglm-0.1.8/parglm/inst/doc/parglm.html.asis |only parglm-0.1.8/parglm/vignettes/parglm.html.asis |only parglm-0.1.9/parglm/DESCRIPTION | 17 parglm-0.1.9/parglm/MD5 | 56 parglm-0.1.9/parglm/NAMESPACE | 13 parglm-0.1.9/parglm/NEWS.md | 34 parglm-0.1.9/parglm/R/parglm-package.R |only parglm-0.1.9/parglm/R/parglm.R | 156 ++ parglm-0.1.9/parglm/R/tidy_parglm_robust.R |only parglm-0.1.9/parglm/README.md | 2 parglm-0.1.9/parglm/build/vignette.rds |binary parglm-0.1.9/parglm/inst/doc/parglm.Rmd |only parglm-0.1.9/parglm/inst/doc/parglm.html | 1082 +++++++++++++----- parglm-0.1.9/parglm/inst/doc/sandwich.R |only parglm-0.1.9/parglm/inst/doc/sandwich.Rmd |only parglm-0.1.9/parglm/inst/doc/sandwich.html |only parglm-0.1.9/parglm/man/parglm-package.Rd |only parglm-0.1.9/parglm/man/parglm.Rd | 8 parglm-0.1.9/parglm/man/parglm.control.Rd | 19 parglm-0.1.9/parglm/man/tidy_parglm_robust.Rd |only parglm-0.1.9/parglm/src/family.cpp | 36 parglm-0.1.9/parglm/src/parallel_glm.cpp | 112 + parglm-0.1.9/parglm/src/parallel_qr.cpp | 73 - parglm-0.1.9/parglm/src/parallel_qr.h | 13 parglm-0.1.9/parglm/src/thread_pool.cpp | 1 parglm-0.1.9/parglm/src/thread_pool.h | 132 -- parglm-0.1.9/parglm/tests/testthat/test_internal.R | 10 parglm-0.1.9/parglm/tests/testthat/test_misc.R | 175 ++ parglm-0.1.9/parglm/tests/testthat/test_parglm_fams.R | 96 + parglm-0.1.9/parglm/tests/testthat/test_sandwich.R |only parglm-0.1.9/parglm/vignettes/img |only parglm-0.1.9/parglm/vignettes/parglm.Rmd |only parglm-0.1.9/parglm/vignettes/parglm.Rmd.orig |only parglm-0.1.9/parglm/vignettes/precompile.R |only parglm-0.1.9/parglm/vignettes/sandwich.Rmd |only 35 files changed, 1474 insertions(+), 561 deletions(-)
Title: Visually Exploring Random Forests
Description: Graphic elements for exploring Random Forests using the
'randomForest' or 'randomForestSRC' package for survival, regression
and classification forests and 'ggplot2' package plotting. Implements
visualisations of the methods described in Breiman (2001)
<doi:10.1023/A:1010933404324> and Ishwaran, Kogalur, Blackstone, and
Lauer (2008) <doi:10.1214/08-AOAS169>.
Author: John Ehrlinger [aut, cre]
Maintainer: John Ehrlinger <john.ehrlinger@gmail.com>
Diff between ggRandomForests versions 2.7.2 dated 2026-05-02 and 2.7.3 dated 2026-05-12
DESCRIPTION | 10 +-- MD5 | 73 +++++++++++++++--------- NAMESPACE | 38 ++++++++++++ NEWS.md | 35 +++++++++++ R/autoplot_methods.R |only R/gg_brier.R |only R/gg_error.R | 2 R/gg_partial_rfsrc.R | 1 R/gg_rfsrc.R | 2 R/gg_roc.R | 2 R/gg_survival.R | 4 + R/gg_variable.R | 2 R/gg_vimp.R | 2 R/plot.gg_brier.R |only R/plot.gg_partial.R | 35 ++++++----- R/plot.gg_rfsrc.R | 70 +++++++++++++---------- R/plot.gg_survival.R | 15 +++-- R/print_helpers.R |only R/print_methods.R |only R/ribbon_style.R |only R/summary_methods.R |only README.md | 6 +- inst/doc/ggRandomForests-regression.html | 36 ++++++------ inst/doc/ggRandomForests-survival.R | 17 +++++ inst/doc/ggRandomForests-survival.html | 91 ++++++++++++++++++++++++------- inst/doc/ggRandomForests-survival.qmd | 45 +++++++++++++++ inst/doc/ggRandomForests.html | 22 +------ man/autoplot.gg.Rd |only man/figures |only man/gg_brier.Rd |only man/plot.gg_brier.Rd |only man/plot.gg_partial.Rd | 8 +- man/plot.gg_partial_rfsrc.Rd | 5 + man/plot.gg_partialpro.Rd | 13 ++-- man/plot.gg_survival.Rd | 4 + man/print.gg.Rd |only man/summary.gg.Rd |only tests/testthat/Rplots.pdf |only tests/testthat/test_autoplot.R |only tests/testthat/test_gg_brier.R |only tests/testthat/test_gg_partial.R | 8 +- tests/testthat/test_gg_partialpro.R | 8 +- tests/testthat/test_print_summary.R |only tests/testthat/test_snapshots.R | 17 +++++ vignettes/ggRandomForests-survival.qmd | 45 +++++++++++++++ vignettes/ggRandomForests.bib | 11 +++ 46 files changed, 465 insertions(+), 162 deletions(-)
More information about ggRandomForests at CRAN
Permanent link
Title: An Interface to Google's 'BigQuery' 'API'
Description: Easily talk to Google's 'BigQuery' database from R.
Author: Hadley Wickham [aut, cre] ,
Jennifer Bryan [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between bigrquery versions 1.6.1 dated 2025-09-10 and 1.6.2 dated 2026-05-12
DESCRIPTION | 20 ++--- MD5 | 99 +++++++++++++------------- NEWS.md | 12 +++ R/bq-dataset.R | 8 +- R/bq-download.R | 6 - R/bq-field.R | 2 R/bq-job.R | 8 +- R/bq-perform.R | 121 ++++++++++++++++++++++++-------- R/bq-project.R | 6 - R/bq-projects.R | 4 - R/bq-query.R | 4 - R/bq-request.R | 4 - R/bq-table.R | 38 +++++++--- R/dbi-connection.R | 32 ++++++-- R/dbi-driver.R | 5 + R/dbi-result.R | 1 R/dplyr.R | 49 ++++++++++-- R/utils.R | 61 +++++++++++++++- R/zzz.R | 3 README.md | 89 +++++++++++------------ man/DBI.Rd | 8 -- man/api-dataset.Rd | 10 +- man/api-job.Rd | 4 - man/api-perform.Rd | 43 +++++++---- man/api-project.Rd | 6 - man/api-table.Rd | 30 +++++-- man/bigquery.Rd | 9 ++ man/bigrquery-package.Rd | 1 man/bq_auth.Rd | 6 - man/bq_auth_configure.Rd | 8 +- man/bq_deauth.Rd | 6 - man/bq_field.Rd | 2 man/bq_has_token.Rd | 4 - man/bq_projects.Rd | 4 - man/bq_query.Rd | 10 ++ man/bq_table_download.Rd | 6 - man/bq_token.Rd | 6 - man/bq_user.Rd | 4 - man/collect.tbl_BigQueryConnection.Rd | 4 - tests/testthat/_snaps/bq-download.md | 2 tests/testthat/_snaps/bq-perform.md | 8 +- tests/testthat/_snaps/dbi-connection.md | 15 +++ tests/testthat/_snaps/dbi-driver.md |only tests/testthat/_snaps/utils.md | 18 ++++ tests/testthat/test-bq-download.R | 8 +- tests/testthat/test-bq-job.R | 3 tests/testthat/test-bq-perform.R | 54 ++++++++++++-- tests/testthat/test-dbi-connection.R | 27 ++++++- tests/testthat/test-dbi-driver.R | 22 +++++ tests/testthat/test-dplyr.R | 41 +++++++--- tests/testthat/test-utils.R | 26 ++++++ 51 files changed, 687 insertions(+), 280 deletions(-)
Title: Tipping Point Analysis for Survival Endpoints
Description: Implements tipping point sensitivity analysis for time-to-event endpoints under different missing data scenarios, as described in Oodally et al. (2025) <doi:10.48550/arXiv.2506.19988>. Supports both model-based and model-free imputation, multiple imputation workflows, plausibility assessment and visualizations. Enables robust assessment for regulatory and exploratory analyses.
Author: Ajmal Oodally [cre, aut] ,
Craig Wang [aut] ,
Zheng Li [ctb]
Maintainer: Ajmal Oodally <ajmal.oodally@novartis.com>
Diff between tipse versions 1.2 dated 2026-01-16 and 2.0 dated 2026-05-12
tipse-1.2/tipse/R/impute_deterministic.R |only tipse-1.2/tipse/R/impute_random.R |only tipse-1.2/tipse/man/impute_deterministic.Rd |only tipse-1.2/tipse/man/impute_random.Rd |only tipse-1.2/tipse/tests/testthat/test-asess_plausibility.R |only tipse-1.2/tipse/tests/testthat/test-impute_deterministic.R |only tipse-1.2/tipse/tests/testthat/test-impute_random.R |only tipse-2.0/tipse/DESCRIPTION | 8 tipse-2.0/tipse/MD5 | 80 ++--- tipse-2.0/tipse/NAMESPACE | 4 tipse-2.0/tipse/NEWS.md | 25 + tipse-2.0/tipse/R/assess_plausibility.R | 26 - tipse-2.0/tipse/R/fit_model.R | 2 tipse-2.0/tipse/R/impute_landmark.R |only tipse-2.0/tipse/R/impute_model_based.R | 17 - tipse-2.0/tipse/R/impute_percentile.R |only tipse-2.0/tipse/R/plot_km.R | 25 - tipse-2.0/tipse/R/plot_tipse.R | 36 +- tipse-2.0/tipse/R/plot_tp.R | 94 +++-- tipse-2.0/tipse/R/plot_tp_2d.R |only tipse-2.0/tipse/R/pool_results.R | 29 + tipse-2.0/tipse/R/sanitize.R | 7 tipse-2.0/tipse/R/summary_tipse.R | 57 ++- tipse-2.0/tipse/R/tipping_point_model_based.R | 136 +++++--- tipse-2.0/tipse/R/tipping_point_model_free.R | 140 ++++++-- tipse-2.0/tipse/inst/doc/analysis_examples.R | 50 +-- tipse-2.0/tipse/inst/doc/analysis_examples.Rmd | 68 ++-- tipse-2.0/tipse/inst/doc/analysis_examples.html | 126 ++++--- tipse-2.0/tipse/man/assess_plausibility.Rd | 6 tipse-2.0/tipse/man/impute_landmark.Rd |only tipse-2.0/tipse/man/impute_model.Rd | 14 tipse-2.0/tipse/man/impute_percentile.Rd |only tipse-2.0/tipse/man/plot.tipse.Rd | 24 + tipse-2.0/tipse/man/plot_tp.Rd | 37 +- tipse-2.0/tipse/man/plot_tp_2d.Rd |only tipse-2.0/tipse/man/pool_results.Rd | 13 tipse-2.0/tipse/man/summary.tipse.Rd | 21 + tipse-2.0/tipse/man/tipping_point_model_based.Rd | 7 tipse-2.0/tipse/man/tipping_point_model_free.Rd | 20 - tipse-2.0/tipse/tests/testthat/test-assess_plausibility.R |only tipse-2.0/tipse/tests/testthat/test-impute_landmark.R |only tipse-2.0/tipse/tests/testthat/test-impute_percentile.R |only tipse-2.0/tipse/tests/testthat/test-plot_km.R | 4 tipse-2.0/tipse/tests/testthat/test-plot_tipse.R | 22 - tipse-2.0/tipse/tests/testthat/test-plot_tp.R | 10 tipse-2.0/tipse/tests/testthat/test-summary_tipse.R | 62 ++- tipse-2.0/tipse/tests/testthat/test-tipping_point_model_based.R | 153 +++++++++ tipse-2.0/tipse/tests/testthat/test-tipping_point_model_free.R | 160 +++++++++- tipse-2.0/tipse/vignettes/analysis_examples.Rmd | 68 ++-- 49 files changed, 1052 insertions(+), 499 deletions(-)
Title: Stylometric Multivariate Analyses
Description: Supervised and unsupervised multivariate methods, supplemented by GUI and some visualizations, to perform various analyses in the field of computational stylistics, authorship attribution, etc. For further reference, see Eder et al. (2016), <https://journal.r-project.org/articles/RJ-2016-007/index.html>. You are also encouraged to visit the Computational Stylistics Group's website <https://computationalstylistics.github.io/>, where a reasonable amount of information about the package and related projects are provided.
Author: Maciej Eder [aut, cre],
Jan Rybicki [aut],
Mike Kestemont [aut],
Steffen Pielstroem [aut]
Maintainer: Maciej Eder <maciejeder@gmail.com>
Diff between stylo versions 0.7.5 dated 2024-04-03 and 0.7.7 dated 2026-05-12
DESCRIPTION | 15 +++---- MD5 | 41 +++++++++++-------- NAMESPACE | 3 - NEWS.md | 16 +++++++ R/classify.R | 15 +++++-- R/gui.classify.R | 1 R/gui.oppose.R | 1 R/gui.stylo.R | 1 R/gui.support.R |only R/imposters.R | 92 +++++++++++++++++++++++++++++++++----------- R/oppose.R | 15 +++++-- R/rolling.classify.r | 11 ++--- R/rolling.delta.R | 15 +++++-- R/stylo.R | 25 +++++++++-- inst/CITATION | 2 man/crossv.Rd | 4 - man/imposters.Rd | 29 +++++++++++-- man/make.ngrams.Rd | 2 man/performance.measures.Rd | 4 - tests |only 20 files changed, 208 insertions(+), 84 deletions(-)
Title: Create and (Interactively) Modify Nested Hierarchies
Description: Provides functionality to generate, (interactively) modify (by adding, removing and renaming nodes) and convert nested hierarchies between different formats.
These tree like structures can be used to define for example complex hierarchical tables used for statistical disclosure control.
Author: Bernhard Meindl [aut, cre]
Maintainer: Bernhard Meindl <bernhard.meindl@statistik.gv.at>
Diff between sdcHierarchies versions 0.23.0 dated 2026-03-19 and 0.23.1 dated 2026-05-12
DESCRIPTION | 10 +-- MD5 | 9 +-- NEWS.md | 3 + inst/doc/usage.html | 4 - src/util-functions.cpp | 87 ++++++++++++++++++++++++++---- tests/testthat/test_contributing_leaves.R |only 6 files changed, 92 insertions(+), 21 deletions(-)
More information about sdcHierarchies at CRAN
Permanent link
Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] ,
Jan Wielemaker [ctb, cph] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rswipl versions 10.1.6 dated 2026-04-26 and 10.1.7 dated 2026-05-12
rswipl-10.1.6/rswipl/inst/swipl |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/archive/archive.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/bdb/bdb4pl.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/clib/clib.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/clib/process.c.rej |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/cpp/pl2cpp.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/cpp/test_cpp.cpp.rej |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/cpp/test_cpp.pl.rej |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/cql/cql.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/http/http.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/json/json.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/pcre/pcre.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/plunit/plunit.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/sgml/sgml.doc |only rswipl-10.1.6/rswipl/src/swipl-devel/packages/ssl/crypto.doc |only 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rswipl-10.1.7/rswipl/src/swipl-devel/src/pl-write.c | 94 rswipl-10.1.7/rswipl/src/swipl-devel/tests/core/test_syntax_unicode.pl |only rswipl-10.1.7/rswipl/src/swipl-devel/tests/core/test_unicode.pl | 8 292 files changed, 9602 insertions(+), 6392 deletions(-)
Title: Power Analysis via Data Simulation for (Generalized) Linear
Mixed Effects Models
Description: Conduct a priori power analyses via Monte-Carlo style data simulation for linear and generalized linear mixed-effects models (LMMs/GLMMs). Provides a user-friendly workflow with helper functions to easily define fixed and random effects as well as diagnostic functions to evaluate the adequacy of the results of the power analysis.
Author: Markus Grill [aut, cre]
Maintainer: Markus Grill <markus.grill@uni-wh.de>
Diff between PowRPriori versions 0.1.2 dated 2026-01-28 and 0.2.0 dated 2026-05-12
DESCRIPTION | 10 MD5 | 49 - NEWS.md | 35 + R/initialize_data.R | 176 ++--- R/power_sim.R | 182 ++++- R/utils.R | 328 +++++++--- R/visualization.R | 132 +++- README.md | 3 build/vignette.rds |binary inst/doc/Workflow-Example.R | 52 - inst/doc/Workflow-Example.Rmd | 187 +++-- inst/doc/Workflow-Example.html | 937 +++++++++++++++++------------- inst/extdata/power_results_workflow.rds |binary man/define_design.Rd | 78 +- man/dot-center_predictors.Rd |only man/dot-create_design_matrix.Rd | 12 man/fixed_effects_from_average_outcome.Rd | 29 man/get_fixed_effects_structure.Rd | 2 man/get_random_effects_structure.Rd | 6 man/plot_sim_model.Rd | 24 man/power_sim.Rd | 38 - tests/testthat/test-define_design.R | 45 - tests/testthat/test-helpers.R | 52 + tests/testthat/test-power_sim.R | 2 vignettes/Workflow-Example.Rmd | 187 +++-- vignettes/references.bib | 11 26 files changed, 1605 insertions(+), 972 deletions(-)
Title: Plot Columns of Two Matrices Against Each Other Using 'ggplot2'
Description: A quick and easy way of plotting the columns of two matrices or
data frames against each other using 'ggplot2'. Although 'ggmatplot' doesn't
provide the same flexibility as 'ggplot2', it can be used as a workaround for
having to wrangle wide format data into long format for plotting with
'ggplot2'.
Author: Xuan Liang [aut, cre] ,
Francis K. C. Hui [aut] ,
Emi Tanaka [aut] ,
Dilinie Seimon [aut]
Maintainer: Xuan Liang <xuan.liang@anu.edu.au>
Diff between ggmatplot versions 0.1.2.1 dated 2026-02-17 and 0.1.3 dated 2026-05-12
DESCRIPTION | 10 MD5 | 67 - NEWS.md | 4 R/ggmatplot.R | 87 - R/matclean.R | 1 R/pivotlonger.R | 17 README.md | 2 build/vignette.rds |binary inst/CITATION | 11 inst/doc/ggmatplot.R | 13 inst/doc/ggmatplot.Rmd | 15 inst/doc/ggmatplot.html | 108 - man/figures/README-boxplot-1.png |binary man/figures/README-density-1.png |binary man/figures/README-dotplot-1.png |binary man/figures/README-errorplot-1.png |binary man/figures/README-histogram-1.png |binary man/figures/README-point-1.png |binary man/figures/README-violin-1.png |binary tests/testthat/_snaps/ggmatplot_baseplots/basic-boxplot.svg | 8 tests/testthat/_snaps/ggmatplot_baseplots/basic-density-plot.svg | 12 tests/testthat/_snaps/ggmatplot_baseplots/basic-dotplot.svg | 600 +++++----- tests/testthat/_snaps/ggmatplot_baseplots/basic-ecdf.svg | 2 tests/testthat/_snaps/ggmatplot_baseplots/basic-histogram.svg | 124 +- tests/testthat/_snaps/ggmatplot_baseplots/basic-violin-plot.svg | 4 tests/testthat/_snaps/ggmatplot_parameters/color-and-fill-density-plot.svg | 18 tests/testthat/_snaps/ggmatplot_parameters/density-plot-with-x-axis-limits.svg | 12 tests/testthat/_snaps/ggmatplot_parameters/histogram-with-y-axis-limits.svg | 168 +- tests/testthat/_snaps/ggmatplot_parameters/single-fill-density-plot.svg | 12 tests/testthat/_snaps/ggmatplot_parameters/three-color-violin-plot.svg | 6 tests/testthat/_snaps/ggmatplot_parameters/three-fill-color-violin-plot.svg | 6 tests/testthat/test-matclean.R |only tests/testthat/test_ggmatplot_baseplots.R | 2 tests/testthat/test_pivotlonger.R | 7 vignettes/ggmatplot.Rmd | 15 35 files changed, 666 insertions(+), 665 deletions(-)
Title: Simple Definition Of Time Intervals
Description: Simple definition of time intervals for the current, previous, and next week, month, quarter and year.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between timeperiodsR versions 0.7.5 dated 2026-04-16 and 0.7.7 dated 2026-05-12
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 6 R/check_dayoffs.R | 4 README.md | 1 build/partial.rdb |binary inst/doc/tpr_intro.html | 348 +++++++++--------------------------------------- 7 files changed, 88 insertions(+), 289 deletions(-)
Title: Indian Alien Flora Information Database Retrieval
Description: The Indian Alien Flora Information (ILORA) database contains 14 invasion-relevant variables for 1388 alien plant species in India. The package enables exploration of the database using user-defined criteria. Using this package, users can retrieve variable-specific and species-level data from the database. The package also supports exploratory data analysis and visualization to give users an idea of the variables of interest. Further details about the database are available at <https://iloradb.wixsite.com/alienflora>.
Author: Ruqaiya Shaikh [aut, cre],
Achyut Kumar Banerjee [aut],
Abhishek Mukherjee [aut],
Amiya Ranjan Bhowmick [aut]
Maintainer: Ruqaiya Shaikh <ruqaiyashaikh41@gmail.com>
Diff between ILORA versions 0.1.1 dated 2026-04-25 and 0.1.2 dated 2026-05-12
DESCRIPTION | 6 MD5 | 4 tests/testthat/test-get_data.R | 675 +++++++++++++++++++++-------------------- 3 files changed, 363 insertions(+), 322 deletions(-)
Title: Create Vector Tiles from Spatial Data
Description: Create vector tile archives in 'PMTiles' format from 'sf' spatial
data frames. Supports 'Mapbox Vector Tile' ('MVT') and 'MapLibre Tile'
('MLT') output formats. Uses a 'Rust' backend via 'extendr' for fast,
in-memory tiling with zero external system dependencies.
Author: Kyle Walker [aut, cre]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between freestiler versions 0.1.6 dated 2026-04-21 and 0.1.7 dated 2026-05-12
DESCRIPTION | 10 +-- MD5 | 18 ++--- NEWS.md | 5 + src/Makevars.in | 2 src/rust/Cargo.lock | 118 ++++++++++++------------------------ src/rust/Cargo.toml | 5 + src/rust/freestiler-core/Cargo.lock | 43 +++++++------ src/rust/freestiler-core/Cargo.toml | 15 +++- src/rust/vendor.tar.xz |binary tools/config.R | 43 ++++++++++++- 10 files changed, 142 insertions(+), 117 deletions(-)
Title: Factor Model Estimation with Latent Variables
Description: A flexible framework for estimating factor models with multiple
latent variables. Supports linear, probit, ordered probit, and multinomial
logit model components. Features include multi-stage estimation, automatic
parameter initialization, analytical gradients and Hessians, and parallel
estimation. Methods are described in Heckman, Humphries, and Veramendi
(2016) <doi:10.1016/j.jeconom.2015.12.001>, Heckman, Humphries, and
Veramendi (2018) <doi:10.1086/698760>, and Humphries, Joensen, and
Veramendi (2024) <doi:10.1257/pandp.20241026>.
Author: Greg Veramendi [aut, cre],
Jess Xiong [aut]
Maintainer: Greg Veramendi <greg.veramendi@gmail.com>
Diff between factorana versions 1.2.0 dated 2026-04-22 and 1.3.4 dated 2026-05-12
DESCRIPTION | 6 MD5 | 119 ++ NAMESPACE | 1 NEWS.md | 283 ++++++ R/define_factor_model.R | 14 R/define_model_component.R | 21 R/define_model_system.R | 27 R/fix_coefficient.R | 5 R/fix_factor_param.R |only R/initialize_parameters.R | 140 +-- R/optimize_model.R | 225 ++++ man/build_dynamic_previous_stage.Rd | 2 man/define_dynamic_measurement.Rd | 2 man/fix_factor_param.Rd |only src/FactorModel.cpp | 23 src/rcpp_interface.cpp | 449 +++++++-- tests/testthat/test-equality-constraints.R | 124 ++ tests/testthat/test-fix-factor-param.R |only tests/testthat/test-interaction-factors.R | 4 tests/testthat/test-skip-empty-eval.R |only tests/testthat/test-stale-previous-stage.R |only tests/testthat/test-test-02-conditioning.R | 26 tests/testthat/test-two-stage-se-types.R | 460 ++++++++++ tests/testthat/test_logs/test_A_measurement_system_20260507_003816.txt |only tests/testthat/test_logs/test_A_measurement_system_20260507_004432.txt |only tests/testthat/test_logs/test_A_measurement_system_20260507_110139.txt |only tests/testthat/test_logs/test_A_measurement_system_20260510_223334.txt |only tests/testthat/test_logs/test_A_measurement_system_20260511_082525.txt |only tests/testthat/test_logs/test_A_measurement_system_20260511_091129.txt |only tests/testthat/test_logs/test_A_measurement_system_20260511_123219.txt |only tests/testthat/test_logs/test_A_measurement_system_20260511_124509.txt |only tests/testthat/test_logs/test_A_measurement_system_20260511_133323.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260507_003817.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260507_004432.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260507_110140.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260510_223335.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260511_082526.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260511_091130.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260511_123219.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260511_124510.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260511_133324.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260507_003817.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260507_004432.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260507_110142.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260510_223336.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260511_082527.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260511_091131.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260511_123221.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260511_124511.txt |only tests/testthat/test_logs/test_C_measurement_plus_oprobit_20260511_133325.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260507_003817.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260507_004432.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260507_110143.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260510_223337.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260511_082528.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260511_091133.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260511_123222.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260511_124512.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260511_133327.txt |only tests/testthat/test_logs/test_E_roy_model_20260507_003819.txt |only tests/testthat/test_logs/test_E_roy_model_20260507_004434.txt |only tests/testthat/test_logs/test_E_roy_model_20260507_110151.txt |only tests/testthat/test_logs/test_E_roy_model_20260510_223343.txt |only tests/testthat/test_logs/test_E_roy_model_20260511_082534.txt |only tests/testthat/test_logs/test_E_roy_model_20260511_091139.txt |only tests/testthat/test_logs/test_E_roy_model_20260511_123228.txt |only tests/testthat/test_logs/test_E_roy_model_20260511_124518.txt |only tests/testthat/test_logs/test_E_roy_model_20260511_133333.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260507_003819.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260507_004434.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260507_110154.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260510_223345.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260511_082537.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260511_091141.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260511_123231.txt |only 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tests/testthat/test_logs/test_H_se_quadratic_20260510_223623.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260511_082811.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260511_091418.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260511_123514.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260511_124802.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260511_133614.txt |only tests/testthat/test_logs/test_parallelization_roy_20260507_004325.txt |only tests/testthat/test_logs/test_parallelization_roy_20260507_105327.txt |only tests/testthat/test_logs/test_parallelization_roy_20260510_222523.txt |only tests/testthat/test_logs/test_parallelization_roy_20260511_081809.txt |only tests/testthat/test_logs/test_parallelization_roy_20260511_090408.txt |only tests/testthat/test_logs/test_parallelization_roy_20260511_122445.txt |only tests/testthat/test_logs/test_parallelization_roy_20260511_123735.txt |only tests/testthat/test_logs/test_parallelization_roy_20260511_132603.txt |only 103 files changed, 1673 insertions(+), 258 deletions(-)
Title: A 'Neo4J' Driver
Description: A Modern and Flexible 'Neo4J' Driver, allowing you to query
data on a 'Neo4J' server and handle the results in R. It's modern in
the sense it provides a driver
that can be easily integrated in a data analysis workflow, especially by
providing an API working smoothly with other data analysis and graph
packages. It's flexible in the way it returns the results, by
trying to stay as close as
possible to the way 'Neo4J' returns data. That way, you have the control
over the way you will compute the results. At the same time, the result
is not too complex, so that the "heavy lifting" of data wrangling is not
left to the user.
Author: Colin Fay [cre, aut] ,
ThinkR [cph],
Neo4J [spn]
Maintainer: Colin Fay <contact@colinfay.me>
Diff between neo4r versions 0.1.1 dated 2019-02-15 and 0.1.4 dated 2026-05-12
neo4r-0.1.1/neo4r/inst/plumber.R |only neo4r-0.1.1/neo4r/inst/rundev.R |only neo4r-0.1.4/neo4r/DESCRIPTION | 40 - neo4r-0.1.4/neo4r/MD5 | 28 - neo4r-0.1.4/neo4r/NAMESPACE | 1 neo4r-0.1.4/neo4r/NEWS.md | 38 + neo4r-0.1.4/neo4r/R/api_result_parsing.R | 312 ++++++------ neo4r-0.1.4/neo4r/R/play_this.R |only neo4r-0.1.4/neo4r/R/unnest_them.R | 17 neo4r-0.1.4/neo4r/inst/tests/manual_tests |only neo4r-0.1.4/neo4r/inst/tests/testthat/test-as-convert.R | 28 - neo4r-0.1.4/neo4r/inst/tests/testthat/test-context-movies.R |only neo4r-0.1.4/neo4r/man/call_neo4j.Rd | 10 neo4r-0.1.4/neo4r/man/figures/README-unnamed-chunk-20-1.png |only neo4r-0.1.4/neo4r/man/figures/README-unnamed-chunk-21-1.png |only neo4r-0.1.4/neo4r/man/load_csv.Rd | 16 neo4r-0.1.4/neo4r/man/neo4j_api.Rd | 6 neo4r-0.1.4/neo4r/man/play_movies.Rd |only neo4r-0.1.4/neo4r/man/send_cypher.Rd | 10 19 files changed, 281 insertions(+), 225 deletions(-)
Title: Automatic Calibration by Evolutionary Multi Objective Algorithm
Description: The caRamel optimizer has been developed to meet the requirement for an automatic calibration procedure that delivers a family of parameter sets
that are optimal with regard to a multi-objective target (Monteil et al. <doi:10.5194/hess-24-3189-2020>).
Author: Nicolas Le Moine [aut],
Celine Monteil [aut],
Frederic Hendrickx [ctb],
Fabrice Zaoui [aut, cre],
Alban de Lavenne [ctb]
Maintainer: Fabrice Zaoui <fabrice.zaoui@edf.fr>
Diff between caRamel versions 1.4 dated 2024-07-29 and 1.5 dated 2026-05-12
DESCRIPTION | 10 - MD5 | 34 ++--- NEWS | 6 R/caRamel.R | 24 +-- R/newXval.R | 1 R/pareto.R | 24 ++- build/vignette.rds |binary inst/doc/Benchmark.html | 174 +++++++++++++++------------ inst/doc/Carallel.html | 144 ++++++++++++---------- inst/doc/Constraints.html | 148 ++++++++++++----------- inst/doc/MPI.R | 80 ++++++------ inst/doc/MPI.html | 147 +++++++++++++---------- inst/doc/MultiPareto.html | 138 +++++++++++---------- inst/doc/PythonFunction.R | 78 ++++++------ inst/doc/PythonFunction.html | 136 +++++++++++---------- inst/doc/Sensitivity.html | 162 ++++++++++++++----------- src/caramel.c | 24 +++ src/pareto_and_co.f95 | 273 +++++++++++++++++++++++++++++++++++++++---- 18 files changed, 1001 insertions(+), 602 deletions(-)
Title: Simulation-Based Calculation of Basket Trial Operating
Characteristics
Description: Provides a unified syntax for the simulation-based comparison of
different single-stage basket trial designs with a binary endpoint and equal
sample sizes in all baskets. Methods include the designs by
Baumann et al. (2025) <doi:10.1080/19466315.2024.2402275>,
Schmitt and Baumann (2025) <doi:10.1080/19466315.2025.2486231>,
Fujikawa et al. (2020) <doi:10.1002/bimj.201800404>,
Berry et al. (2020) <doi:10.1177/1740774513497539>, and
Neuenschwander et al. (2016) <doi:10.1002/pst.1730>. For the
latter two designs, the functions are mostly
wrappers for functions provided by the package 'bhmbasket'.
Author: Lukas Baumann [aut, cre] ,
Lukas D Sauer [aut] ,
Sabrina Schmitt [aut]
Maintainer: Lukas Baumann <baumann@imbi.uni-heidelberg.de>
Diff between basksim versions 2.1.0 dated 2026-03-03 and 2.2.0 dated 2026-05-12
DESCRIPTION | 8 MD5 | 58 +- NAMESPACE | 2 R/adjust_lambda.R | 4 R/class.R | 79 ++- R/get_details.R | 606 ++++++++++++++++++----- R/get_evaluation.R | 8 R/get_results.R | 11 R/helper.R | 79 ++- README.md | 2 man/adjust_lambda.exnex.Rd | 4 man/get_details.binomial.Rd |only man/get_details.exnex.Rd | 8 man/get_evaluation.exnex.Rd | 8 man/get_results.exnex.Rd | 8 man/get_scenarios.Rd | 56 +- man/setup_app.Rd | 4 man/setup_bhm.Rd | 94 +-- man/setup_binomial.Rd |only man/setup_cpp.Rd | 4 man/setup_cppglobal.Rd | 4 man/setup_cpplim.Rd | 4 man/setup_exnex.Rd | 118 ++-- man/setup_fujikawa.Rd | 76 +-- man/setup_jsdglobal.Rd | 4 man/setup_mml.Rd | 84 +-- man/setup_mmlglobal.Rd | 2 tests/testthat.R | 24 tests/testthat/test-adjust_lambda.R | 12 tests/testthat/test-class.R | 6 tests/testthat/test-get_details.R | 910 +++++++++++++++++++++++++++--------- 31 files changed, 1587 insertions(+), 700 deletions(-)
Title: Efficient Learning of Word Representations and Sentence
Classification
Description: An interface to the 'fastText' <https://github.com/facebookresearch/fastText> library for efficient learning of word representations and sentence classification. The 'fastText' algorithm is explained in detail in (i) "Enriching Word Vectors with subword Information", Piotr Bojanowski, Edouard Grave, Armand Joulin, Tomas Mikolov, 2017, <doi:10.1162/tacl_a_00051>; (ii) "Bag of Tricks for Efficient Text Classification", Armand Joulin, Edouard Grave, Piotr Bojanowski, Tomas Mikolov, 2017, <doi:10.18653/v1/e17-2068>; (iii) "FastText.zip: Compressing text classification models", Armand Joulin, Edouard Grave, Piotr Bojanowski, Matthijs Douze, Herve Jegou, Tomas Mikolov, 2016, <doi:10.48550/arXiv.1612.03651>.
Author: Lampros Mouselimis [aut, cre] ,
Facebook Inc [cph]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between fastText versions 1.0.7 dated 2026-02-20 and 1.0.8 dated 2026-05-12
DESCRIPTION | 8 MD5 | 21 - NEWS.md | 5 R/fasttext_interface.R | 569 +++++++++++++++++----------------- README.md |only inst/doc/language_identification.html | 4 inst/doc/the_fastText_R_package.html | 4 man/fasttext_interface.Rd | 245 ++++++++------ man/language_identification.Rd | 22 - man/plot_progress_logs.Rd | 8 man/print_parameters.Rd | 3 tests/testthat/test-fasttext.R | 515 ++++++++++++++++-------------- 12 files changed, 753 insertions(+), 651 deletions(-)
Title: Seasonal to Decadal Verification
Description: An advanced version of package 's2dverification'. Intended for
seasonal to decadal (s2d) climate forecast verification, but also applicable
to other types of forecasts or general climate analysis. This package is
specifically designed for comparing experimental and observational datasets.
It provides functionality for data retrieval, post-processing, skill score
computation against observations, and visualization. Compared to
's2dverification', 's2dv' is more compatible with the package 'startR', able
to use multiple cores for computation and handle multi-dimensional arrays
with a higher flexibility. The Climate Data Operators (CDO) version used in
development is 1.9.8. Implements methods described in Wilks (2011)
<doi:10.1016/B978-0-12-385022-5.00008-7>, DelSole and Tippett
(2016) <doi:10.1175/MWR-D-15-0218.1>, Kharin et al. (2012)
<doi:10.1029/2012GL052647>, Doblas-Reyes et al. (2003)
<doi:10.1007/s00382-003-0350-4>.
Author: BSC-CNS [aut, cph],
An-Chi Ho [aut],
Nuria Perez-Zanon [aut],
Roberto Bilbao [ctb],
Josep Cos [ctb],
Carlos Delgado [ctb],
Llorenc Lledo [ctb],
Andrea Manrique [ctb],
Deborah Verfaillie [ctb],
Eva Rifa [ctb],
Victoria Agudetse [ctb],
Nadia Milders [c [...truncated...]
Maintainer: Ariadna Batalla <ariadna.batalla@bsc.es>
Diff between s2dv versions 2.2.1 dated 2025-11-03 and 2.3.0 dated 2026-05-12
DESCRIPTION | 14 +- MD5 | 62 ++++----- NAMESPACE | 10 + NEWS.md | 12 + R/CDORemap.R | 286 +++++++++++++++++++++--------------------- R/ColorBar.R | 53 +++---- R/DieboldMarianoTest.R |only R/Histo2Hindcast.R | 4 R/NAO.R | 5 R/Plot2VarsVsLTime.R | 5 R/PlotACC.R | 6 R/PlotAno.R | 4 R/PlotBoxWhisker.R | 5 R/PlotClim.R | 4 R/RPSS.R | 98 ++++++++------ R/Smoothing.R | 5 R/Spread.R | 10 - R/TimescaleDecomposition.R |only R/s2dv-package.R | 2 man/CDORemap.Rd | 271 ++++++++++++++++++++------------------- man/ColorBar.Rd | 4 man/DieboldMarianoTest.Rd |only man/Histo2Hindcast.Rd | 4 man/NAO.Rd | 5 man/Plot2VarsVsLTime.Rd | 5 man/PlotACC.Rd | 6 man/PlotAno.Rd | 4 man/PlotBoxWhisker.Rd | 5 man/PlotClim.Rd | 4 man/RPSS.Rd | 23 +-- man/Smoothing.Rd | 5 man/Spread.Rd | 10 - man/TimescaleDecomposition.Rd |only man/s2dv-package.Rd | 1 34 files changed, 516 insertions(+), 416 deletions(-)
Title: 'Express.js' Like Routing for R Web Frameworks
Description: It aims to provide R web frameworks a routing mechanism of HTTP
requests inspired by the battle tested 'Express.js' web framework.
Author: Julio Collazos [aut, cre] ,
router contributors [ctb, cph]
Maintainer: Julio Collazos <amarullazo626@gmail.com>
Diff between routing versions 1.0.0 dated 2026-04-27 and 1.1.0 dated 2026-05-12
DESCRIPTION | 6 MD5 | 22 +- NEWS.md | 5 R/layer.R | 24 +- R/router.R | 48 ++--- R/utils.R | 4 README.md | 359 ++++++++++++++++++++++++++++++++++++++++- man/Router.Rd | 31 +++ tests/testthat/helper-server.R | 44 +++-- tests/testthat/static |only tests/testthat/test-handle.R | 199 ++++++++++++++++++++++ tests/testthat/test-route.R | 32 +++ 12 files changed, 714 insertions(+), 60 deletions(-)
Title: Board Game Graphics
Description: Functions to make board game graphics with the 'ggplot2', 'grid', 'rayrender', 'rayvertex', and 'rgl' packages. Specializes in game diagrams, animations, and "Print & Play" layouts for the 'piecepack' <https://www.ludism.org/ppwiki> but can make graphics for other board game systems. Includes configurations for several public domain game systems such as checkers, (double-18) dominoes, go, 'piecepack', playing cards, etc.
Author: Trevor L. Davis [aut, cre] ,
Linux Foundation [dtc] ,
Delapouite <https://delapouite.com/> [ill] ,
Creative Commons [ill] ` uses "license badges"
from Creative Commons to describe the generated print-and-play
file's license)
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between piecepackr versions 1.15.3 dated 2025-10-16 and 1.16.1 dated 2026-05-12
DESCRIPTION | 15 MD5 | 153 NAMESPACE | 10 NEWS.md | 44 R/animate_piece.R | 13 R/crosshairGrob.R | 130 R/game_systems.R | 122 R/op_transform.R | 18 R/pieceGrob-grid.R | 9 R/pmap_piece.R | 12 R/render_piece.R | 12 R/save_piece_obj.R | 2 R/save_print_and_play.R | 19 R/sysdata.rda |binary R/utils-boards.R | 12 R/utils-composite.R | 2 R/utils-d10.R | 7 R/utils-d12.R | 18 R/utils-d20.R | 18 R/utils-d4.R | 25 R/utils-d6.R | 11 R/utils-d8.R | 30 R/utils-geometry.R | 136 R/utils-grobCoords.R | 6 R/utils-op-grobs.R | 140 R/utils-pnp-letter-bleed.R | 93 R/utils-token.R | 47 R/utils-xyz.R | 44 R/zzz.R | 2 data/spdx_license_list.rda |binary man/animate_piece.Rd | 8 man/game_systems.Rd | 42 man/geom_piece.Rd | 2 man/grid.crosshair.Rd | 56 man/grid.piece.Rd | 4 man/piece3d.Rd | 2 man/piecepackr-package.Rd | 7 man/pp_shape.Rd | 4 man/render_piece.Rd | 7 man/save_print_and_play.Rd | 15 man/scale_piece.Rd | 6 tests/testthat/_snaps/crosshairs/crosshairs-circled-segments.svg |only tests/testthat/_snaps/crosshairs/crosshairs-squared-segments.svg |only tests/testthat/_snaps/game_systems.md |only tests/testthat/_snaps/game_systems/checkers.svg | 4 tests/testthat/_snaps/game_systems/cubes.svg |only tests/testthat/_snaps/game_systems/dice-d10-percentile.svg | 1497 ++ tests/testthat/_snaps/game_systems/dice-d10.svg | 1391 ++ tests/testthat/_snaps/game_systems/dice-d12.svg | 1983 +++ tests/testthat/_snaps/game_systems/dice-d20.svg | 5389 ++++++++-- tests/testthat/_snaps/game_systems/dice-d4.svg | 223 tests/testthat/_snaps/game_systems/dice-d6.svg | 14 tests/testthat/_snaps/game_systems/dice-d8.svg | 826 + tests/testthat/_snaps/game_systems/dominoes-chinese.svg | 249 tests/testthat/_snaps/game_systems/go.svg | 2 tests/testthat/_snaps/game_systems/king-of-stars-fill-stroke.svg |only tests/testthat/_snaps/game_systems/marbles-op.svg | 54 tests/testthat/_snaps/game_systems/marbles-shading.svg |only tests/testthat/_snaps/game_systems/marbles.svg | 52 tests/testthat/_snaps/op_transform/oblique-pyramids.svg | 516 tests/testthat/_snaps/op_transform/op-transform-045.svg | 2 tests/testthat/_snaps/op_transform/op-transform-135.svg | 4 tests/testthat/_snaps/op_transform/op-transform-225.svg | 12 tests/testthat/_snaps/op_transform/op-transform-315.svg | 10 tests/testthat/_snaps/op_transform/pawns-far-from-origin-135.svg |only tests/testthat/_snaps/op_transform/pyramid-tops-larger-on-top.svg | 4 tests/testthat/_snaps/op_transform/pyramid-tops-smaller-on-top.svg | 329 tests/testthat/_snaps/op_transform/rotated-tile-faces.svg | 14 tests/testthat/_snaps/pieceGrob.md |only tests/testthat/_snaps/pieceGrob/diagram-op-ppgf.svg | 2 tests/testthat/_snaps/pieceGrob/diagram-op.svg | 2 tests/testthat/_snaps/pieceGrob/die-face-op-roundrect.svg |only tests/testthat/_snaps/pieceGrob/pawn-top-meeple-op.svg |only tests/testthat/_snaps/pieceGrob/tile-face-op.svg | 2 tests/testthat/_snaps/pp_shape/polyclip-holed-board-op.svg |only tests/testthat/_snaps/pp_shape/polyclip-holed-board.svg |only tests/testthat/test-crop_marks.R | 4 tests/testthat/test-crosshairs.R | 28 tests/testthat/test-game_systems.R | 428 tests/testthat/test-op_transform.R | 156 tests/testthat/test-pieceGrob.R | 196 tests/testthat/test-pp_shape.R | 26 tests/testthat/test-render_piece.R | 6 tests/testthat/test-utils-misc.R |only 84 files changed, 12401 insertions(+), 2327 deletions(-)
Title: Facilitates Clustered Binary Data Generation, and Estimation of
Intracluster Correlation Coefficient (ICC) for Binary Data
Description: Assists in generating binary clustered data, estimates of Intracluster Correlation coefficient (ICC) for binary response in 16 different methods, and 5 different types of confidence intervals.
Author: Akhtar Hossain [aut, cre],
Hrishikesh Chakraborty [aut]
Maintainer: Akhtar Hossain <ahossain@live.com>
Diff between ICCbin versions 1.1.1 dated 2017-11-13 and 1.2.0 dated 2026-05-12
COPYING |only DESCRIPTION | 24 ++-- MD5 | 19 ++- NAMESPACE | 25 ++-- NEWS.md |only R/iccbin.R | 238 +++++++++++++++++++++++++--------------------- R/rcbin.R | 38 ++++--- R/rcbin_flex.R |only README.md | 23 ++++ inst |only man/iccbin.Rd | 276 ++++++++++++++++++++++++++++-------------------------- man/rcbin.Rd | 93 +++++++++--------- man/rcbin_flex.Rd |only 13 files changed, 409 insertions(+), 327 deletions(-)
Title: Benchmarking and Visualization Toolkit for Penalized Cox Models
Description: Creates nomogram visualizations for penalized Cox regression
models, with the support of reproducible survival model building,
validation, calibration, and comparison for high-dimensional data.
Author: Nan Xiao [aut, cre] ,
Qing-Song Xu [aut],
Miao-Zhu Li [aut],
Frank Harrell [ctb] ,
Sergej Potapov [ctb] ,
Werner Adler [ctb] ,
Matthias Schmid [ctb]
Maintainer: Nan Xiao <me@nanx.me>
Diff between hdnom versions 6.1.0 dated 2025-06-09 and 6.2.0 dated 2026-05-12
hdnom-6.1.0/hdnom/LICENSE |only hdnom-6.2.0/hdnom/DESCRIPTION | 10 hdnom-6.2.0/hdnom/MD5 | 89 ++-- hdnom-6.2.0/hdnom/NAMESPACE | 1 hdnom-6.2.0/hdnom/NEWS.md | 12 hdnom-6.2.0/hdnom/R/1_1_model.R | 141 ++++-- hdnom-6.2.0/hdnom/R/1_3_model_method.R | 57 +- hdnom-6.2.0/hdnom/R/2_1_nomogram.R | 3 hdnom-6.2.0/hdnom/R/2_3_survial_curves.R | 15 hdnom-6.2.0/hdnom/R/3_1_validate.R | 40 + hdnom-6.2.0/hdnom/R/3_2_validate_utils.R | 28 - hdnom-6.2.0/hdnom/R/3_3_validate_method.R | 7 hdnom-6.2.0/hdnom/R/3_4_validate_external.R | 7 hdnom-6.2.0/hdnom/R/3_5_validate_external_utils.R | 15 hdnom-6.2.0/hdnom/R/3_6_validate_external_method.R | 7 hdnom-6.2.0/hdnom/R/4_1_calibrate.R | 42 + hdnom-6.2.0/hdnom/R/4_2_calibrate_utils.R | 37 + hdnom-6.2.0/hdnom/R/4_3_calibrate_method.R | 7 hdnom-6.2.0/hdnom/R/4_4_calibrate_external.R | 7 hdnom-6.2.0/hdnom/R/4_5_calibrate_external_utils.R | 7 hdnom-6.2.0/hdnom/R/4_6_calibrate_external_method.R | 7 hdnom-6.2.0/hdnom/R/4_7_kmplot.R | 16 hdnom-6.2.0/hdnom/R/5_1_compare_by_validate.R | 40 + hdnom-6.2.0/hdnom/R/5_2_compare_by_validate_method.R | 11 hdnom-6.2.0/hdnom/R/5_3_compare_by_calibrate.R | 40 + hdnom-6.2.0/hdnom/R/5_4_compare_by_calibrate_method.R | 9 hdnom-6.2.0/hdnom/R/rms_nomogram.R | 132 +++--- hdnom-6.2.0/hdnom/R/rms_nomogram_method.R | 53 +- hdnom-6.2.0/hdnom/R/rms_nomogram_misc.R | 240 +++++----- hdnom-6.2.0/hdnom/build/vignette.rds |binary hdnom-6.2.0/hdnom/inst/CITATION | 2 hdnom-6.2.0/hdnom/inst/doc/hdnom.html | 329 +++++++-------- hdnom-6.2.0/hdnom/man/as_nomogram.Rd | 3 hdnom-6.2.0/hdnom/man/calibrate.Rd | 3 hdnom-6.2.0/hdnom/man/compare_by_calibrate.Rd | 3 hdnom-6.2.0/hdnom/man/compare_by_validate.Rd | 3 hdnom-6.2.0/hdnom/man/fit_aenet.Rd | 6 hdnom-6.2.0/hdnom/man/fit_alasso.Rd | 6 hdnom-6.2.0/hdnom/man/fit_enet.Rd | 6 hdnom-6.2.0/hdnom/man/fit_lasso.Rd | 12 hdnom-6.2.0/hdnom/man/glmnet_calibrate_surv_prob_pred.Rd | 3 hdnom-6.2.0/hdnom/man/glmnet_validate_tauc.Rd | 3 hdnom-6.2.0/hdnom/man/hdnom-package.Rd | 1 hdnom-6.2.0/hdnom/man/predict.hdnom.model.Rd | 2 hdnom-6.2.0/hdnom/man/print.hdnom.model.Rd | 2 hdnom-6.2.0/hdnom/man/validate.Rd | 5 46 files changed, 839 insertions(+), 630 deletions(-)
Title: Extreme Risk Measures
Description: A set of procedures for estimating risks related to extreme events via risk measures such as Expectile, Value-at-Risk, etc. is provided. Estimation methods for univariate independent observations and temporal dependent observations are available. The methodology is extended to the case of independent multidimensional observations. The statistical inference is performed through parametric and non-parametric estimators. Inferential procedures such as confidence intervals, confidence regions and hypothesis testing are obtained by exploiting the asymptotic theory. Adapts the methodologies derived in Padoan and Stupfler (2022) <doi:10.3150/21-BEJ1375>, Davison et al. (2023) <doi:10.1080/07350015.2022.2078332>, Daouia et al. (2018) <doi:10.1111/rssb.12254>, Drees (2000) <doi:10.1214/aoap/1019487617>, Drees (2003) <doi:10.3150/bj/1066223272>, de Haan and Ferreira (2006) <doi:10.1007/0-387-34471-3>, de Haan et al. (2016) <doi:10.1007/s00780-015-0287-6> [...truncated...]
Author: Simone Padoan [cre, aut],
Gilles Stupfler [aut],
Carlotta Pacifici [aut]
Maintainer: Simone Padoan <simone.padoan@unibocconi.it>
Diff between ExtremeRisks versions 0.0.5 dated 2025-10-09 and 0.0.6 dated 2026-05-12
DESCRIPTION | 10 +++++----- MD5 | 40 ++++++++++++++++++++-------------------- man/EBTailIndex.Rd | 2 +- man/ExpectMES.Rd | 7 +++---- man/HTailIndex.Rd | 6 +++--- man/HypoTesting.Rd | 2 +- man/MLTailIndex.Rd | 4 ++-- man/MomTailIndex.Rd | 2 +- man/MultiHTailIndex.Rd | 2 +- man/QuantMES.Rd | 7 +++---- man/estExpectiles.Rd | 2 +- man/estExtLevel.Rd | 2 +- man/estMultiExpectiles.Rd | 2 +- man/expectiles.Rd | 2 +- man/extMultiQuantile.Rd | 2 +- man/extQuantile.Rd | 7 +++---- man/predExpectiles.Rd | 7 +++---- man/predMultiExpectiles.Rd | 2 +- man/rbtimeseries.Rd | 2 +- man/rmdata.Rd | 2 +- man/rtimeseries.Rd | 2 +- 21 files changed, 55 insertions(+), 59 deletions(-)
Title: Dynamic Structural Equation Models
Description: Applies dynamic structural equation models to time-series data
with generic and simplified specification for simultaneous and lagged
effects. Methods are described in Thorson et al. (2024)
"Dynamic structural equation models synthesize ecosystem dynamics
constrained by ecological mechanisms."
Author: James Thorson [aut, cre] ,
Maurice Goodman [ctb] ,
Wouter van der Bijl [ctb] ,
Giovanni M. Marchetti [ctr]
Maintainer: James Thorson <James.Thorson@noaa.gov>
Diff between dsem versions 1.7.0 dated 2025-09-15 and 2.0.0 dated 2026-05-12
dsem-1.7.0/dsem/inst/doc/dynamic_factor_analysis.R |only dsem-1.7.0/dsem/inst/doc/dynamic_factor_analysis.Rmd |only dsem-1.7.0/dsem/inst/doc/dynamic_factor_analysis.html |only dsem-1.7.0/dsem/vignettes/dynamic_factor_analysis.Rmd |only dsem-2.0.0/dsem/DESCRIPTION | 16 dsem-2.0.0/dsem/MD5 | 87 - dsem-2.0.0/dsem/NAMESPACE | 3 dsem-2.0.0/dsem/NEWS.md | 29 dsem-2.0.0/dsem/R/data.R | 91 + dsem-2.0.0/dsem/R/dsem.R | 238 ++- dsem-2.0.0/dsem/R/dsemRTMB.R | 56 dsem-2.0.0/dsem/R/make_dsem_ram.R | 88 - dsem-2.0.0/dsem/R/utility.R | 55 dsem-2.0.0/dsem/README.md | 11 dsem-2.0.0/dsem/build/partial.rdb |binary dsem-2.0.0/dsem/build/vignette.rds |binary dsem-2.0.0/dsem/data/hare_lynx.rda |only dsem-2.0.0/dsem/data/lake_washington.rda |only dsem-2.0.0/dsem/data/paramesium_didinium.rda |only dsem-2.0.0/dsem/data/pdo_departure_bay.rda |only dsem-2.0.0/dsem/inst/CITATION | 50 dsem-2.0.0/dsem/inst/doc/features.R | 133 +- dsem-2.0.0/dsem/inst/doc/features.Rmd | 170 ++ dsem-2.0.0/dsem/inst/doc/features.html | 1149 ++++++++++-------- dsem-2.0.0/dsem/inst/doc/model-description.R | 6 dsem-2.0.0/dsem/inst/doc/model-description.Rmd | 128 +- dsem-2.0.0/dsem/inst/doc/model-description.html | 277 +++- dsem-2.0.0/dsem/inst/doc/nonlinear.R |only dsem-2.0.0/dsem/inst/doc/nonlinear.Rmd |only dsem-2.0.0/dsem/inst/doc/nonlinear.html |only dsem-2.0.0/dsem/inst/doc/random_slopes.R |only dsem-2.0.0/dsem/inst/doc/random_slopes.Rmd |only dsem-2.0.0/dsem/inst/doc/random_slopes.html |only dsem-2.0.0/dsem/inst/doc/spatial_diffusion.Rmd | 1 dsem-2.0.0/dsem/inst/doc/spatial_diffusion.html | 3 dsem-2.0.0/dsem/man/dsem.Rd | 18 dsem-2.0.0/dsem/man/dsemRTMB.Rd | 29 dsem-2.0.0/dsem/man/dsem_control.Rd | 39 dsem-2.0.0/dsem/man/hare_lynx.Rd |only dsem-2.0.0/dsem/man/lake_washington.Rd |only dsem-2.0.0/dsem/man/paramesium_didinium.Rd |only dsem-2.0.0/dsem/man/pdo_departure_bay.Rd |only dsem-2.0.0/dsem/man/rk4sys.Rd |only dsem-2.0.0/dsem/src/dsem.cpp | 353 ++++- dsem-2.0.0/dsem/tests/testthat/test-distributions.R | 27 dsem-2.0.0/dsem/tests/testthat/test-gmrf-versions.R | 269 +++- dsem-2.0.0/dsem/tests/testthat/test-platform.R | 155 +- dsem-2.0.0/dsem/tests/testthat/test-priors.R | 28 dsem-2.0.0/dsem/tests/testthat/test-varying-slopes.R |only dsem-2.0.0/dsem/vignettes/dsem_vignettes.bib |only dsem-2.0.0/dsem/vignettes/features.Rmd | 170 ++ dsem-2.0.0/dsem/vignettes/model-description.Rmd | 128 +- dsem-2.0.0/dsem/vignettes/nonlinear.Rmd |only dsem-2.0.0/dsem/vignettes/random_slopes.Rmd |only dsem-2.0.0/dsem/vignettes/spatial_diffusion.Rmd | 1 dsem-2.0.0/dsem/vignettes/web_only |only 56 files changed, 2634 insertions(+), 1174 deletions(-)
Title: Transport Accessibility Measures
Description: A set of fast and convenient functions to help conducting
accessibility analyses. Given a pre-computed travel cost matrix and a land
use dataset (containing for example the location of jobs, healthcare and
population), the package allows one to calculate accessibility levels, and
accessibility poverty and inequality. The package covers the majority of the
most commonly used accessibility measures (such as cumulative opportunities,
gravity-based and floating catchment areas methods), some cutting edge
measures proposed in the literature (e.g. balancing cost and constrained
accessibility) as well as the most frequently used inequality and poverty
metrics (such as the Palma ratio, the concentration and Theil indices and
the FGT family of measures).
Author: Rafael H. M. Pereira [aut] ,
Daniel Herszenhut [aut, cre] ,
Anastasia Soukhov [aut],
Christopher Higgins [ctb],
Joey Reid [ctb],
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Daniel Herszenhut <dhersz@gmail.com>
Diff between accessibility versions 1.4.0 dated 2024-03-06 and 1.5.0 dated 2026-05-12
accessibility-1.4.0/accessibility/R/accessibility.R |only accessibility-1.5.0/accessibility/DESCRIPTION | 39 accessibility-1.5.0/accessibility/LICENSE | 4 accessibility-1.5.0/accessibility/MD5 | 243 - accessibility-1.5.0/accessibility/NAMESPACE | 57 accessibility-1.5.0/accessibility/NEWS.md | 265 - accessibility-1.5.0/accessibility/R/accessibility-package.R |only accessibility-1.5.0/accessibility/R/apply_gravity_measure.R | 86 accessibility-1.5.0/accessibility/R/assert_and_assign.R | 784 ++--- accessibility-1.5.0/accessibility/R/balancing_cost.R | 370 +- accessibility-1.5.0/accessibility/R/concentration_index.R | 334 +- accessibility-1.5.0/accessibility/R/constrained_accessibility.R |only accessibility-1.5.0/accessibility/R/cost_to_closest.R | 356 +- accessibility-1.5.0/accessibility/R/cumulative_cutoff.R | 459 +-- accessibility-1.5.0/accessibility/R/cumulative_interval.R | 418 +- accessibility-1.5.0/accessibility/R/decay_binary.R | 98 accessibility-1.5.0/accessibility/R/decay_exponential.R | 92 accessibility-1.5.0/accessibility/R/decay_linear.R | 100 accessibility-1.5.0/accessibility/R/decay_logistic.R | 210 - accessibility-1.5.0/accessibility/R/decay_power.R | 98 accessibility-1.5.0/accessibility/R/decay_stepped.R | 334 +- accessibility-1.5.0/accessibility/R/doubly_constrained.R |only accessibility-1.5.0/accessibility/R/fgt_poverty.R | 349 +- accessibility-1.5.0/accessibility/R/fill_missing_ids.R | 72 accessibility-1.5.0/accessibility/R/floating_catchment_area.R | 462 +-- accessibility-1.5.0/accessibility/R/gini_index.R | 240 - accessibility-1.5.0/accessibility/R/gravity.R | 222 - accessibility-1.5.0/accessibility/R/merge_by_reference.R | 38 accessibility-1.5.0/accessibility/R/palma_ratio.R | 352 +- accessibility-1.5.0/accessibility/R/singly_constrained.R |only accessibility-1.5.0/accessibility/R/spatial_availability.R | 345 +- accessibility-1.5.0/accessibility/R/theil_t.R | 596 ++-- accessibility-1.5.0/accessibility/R/total_constrained.R |only accessibility-1.5.0/accessibility/R/warn_extra_cols.R | 94 accessibility-1.5.0/accessibility/README.md | 321 +- accessibility-1.5.0/accessibility/build/partial.rdb |binary accessibility-1.5.0/accessibility/build/vignette.rds |binary accessibility-1.5.0/accessibility/inst/REFERENCES.bib | 338 +- accessibility-1.5.0/accessibility/inst/doc/accessibility.R | 262 - accessibility-1.5.0/accessibility/inst/doc/accessibility.Rmd | 724 ++-- accessibility-1.5.0/accessibility/inst/doc/accessibility.html | 1478 +++++----- accessibility-1.5.0/accessibility/inst/doc/decay_functions.R | 302 +- accessibility-1.5.0/accessibility/inst/doc/decay_functions.Rmd | 752 ++--- accessibility-1.5.0/accessibility/inst/doc/decay_functions.html | 1448 +++++---- accessibility-1.5.0/accessibility/inst/doc/inequality_and_poverty.R | 187 - accessibility-1.5.0/accessibility/inst/doc/inequality_and_poverty.Rmd | 465 +-- accessibility-1.5.0/accessibility/inst/doc/inequality_and_poverty.html | 1213 ++++---- accessibility-1.5.0/accessibility/man/accessibility.Rd | 105 accessibility-1.5.0/accessibility/man/balancing_cost.Rd | 212 - accessibility-1.5.0/accessibility/man/concentration_index.Rd | 210 - accessibility-1.5.0/accessibility/man/constrained_accessibility.Rd |only accessibility-1.5.0/accessibility/man/cost_to_closest.Rd | 196 - accessibility-1.5.0/accessibility/man/cumulative_cutoff.Rd | 272 - accessibility-1.5.0/accessibility/man/cumulative_interval.Rd | 224 - accessibility-1.5.0/accessibility/man/decay_binary.Rd | 90 accessibility-1.5.0/accessibility/man/decay_exponential.Rd | 90 accessibility-1.5.0/accessibility/man/decay_linear.Rd | 90 accessibility-1.5.0/accessibility/man/decay_logistic.Rd | 130 accessibility-1.5.0/accessibility/man/decay_power.Rd | 88 accessibility-1.5.0/accessibility/man/decay_stepped.Rd | 148 - accessibility-1.5.0/accessibility/man/doubly_constrained.Rd |only accessibility-1.5.0/accessibility/man/fgt_poverty.Rd | 217 - accessibility-1.5.0/accessibility/man/floating_catchment_area.Rd | 268 - accessibility-1.5.0/accessibility/man/gini_index.Rd | 150 - accessibility-1.5.0/accessibility/man/gravity.Rd | 204 - accessibility-1.5.0/accessibility/man/palma_ratio.Rd | 176 - accessibility-1.5.0/accessibility/man/roxygen/templates/accessibility_data.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/active.R | 8 accessibility-1.5.0/accessibility/man/roxygen/templates/arguments_fca.R | 8 accessibility-1.5.0/accessibility/man/roxygen/templates/decay_function.R | 16 accessibility-1.5.0/accessibility/man/roxygen/templates/demand.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/description_generic_cost.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/fill_missing_ids_combinations.R | 18 accessibility-1.5.0/accessibility/man/roxygen/templates/group_by.R | 12 accessibility-1.5.0/accessibility/man/roxygen/templates/group_by_access.R | 14 accessibility-1.5.0/accessibility/man/roxygen/templates/input_data.R | 10 accessibility-1.5.0/accessibility/man/roxygen/templates/land_use_data.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/opportunity.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/opportunity_access.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/population.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/return_accessibility.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/return_decay_function.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/return_inequality.R | 2 accessibility-1.5.0/accessibility/man/roxygen/templates/sociodem_data_with_income.R | 8 accessibility-1.5.0/accessibility/man/roxygen/templates/sociodem_data_without_income.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/supply.R |only accessibility-1.5.0/accessibility/man/roxygen/templates/travel_cost.R | 6 accessibility-1.5.0/accessibility/man/roxygen/templates/travel_matrix.R | 8 accessibility-1.5.0/accessibility/man/singly_constrained.Rd |only accessibility-1.5.0/accessibility/man/spatial_availability.Rd | 272 - accessibility-1.5.0/accessibility/man/theil_t.Rd | 232 - accessibility-1.5.0/accessibility/man/total_constrained.Rd |only accessibility-1.5.0/accessibility/tests/test_rafa/comparing_decay_functions.R | 166 - accessibility-1.5.0/accessibility/tests/test_rafa/concentr_index.R | 464 +-- accessibility-1.5.0/accessibility/tests/test_rafa/decay_functions_ggplot.R | 66 accessibility-1.5.0/accessibility/tests/test_rafa/generate_inst_data.R | 216 - accessibility-1.5.0/accessibility/tests/test_rafa/loc_alloc_solve_p_median.R |only accessibility-1.5.0/accessibility/tests/test_rafa/location-allocation.R | 199 + accessibility-1.5.0/accessibility/tests/test_rafa/reprex_logo.R | 234 - accessibility-1.5.0/accessibility/tests/test_rafa/test_rafa.R | 402 +- accessibility-1.5.0/accessibility/tests/test_rafa/testing_constrained.Rmd |only accessibility-1.5.0/accessibility/tests/testthat.R | 12 accessibility-1.5.0/accessibility/tests/testthat/setup.R | 48 accessibility-1.5.0/accessibility/tests/testthat/test-apply_gravity_measure.R | 104 accessibility-1.5.0/accessibility/tests/testthat/test-assert_land_use_data.R | 186 - accessibility-1.5.0/accessibility/tests/testthat/test-assert_sociodemographic_data_warnings.R | 170 - accessibility-1.5.0/accessibility/tests/testthat/test-balancing_cost.R | 476 +-- accessibility-1.5.0/accessibility/tests/testthat/test-concentration_index.R | 468 +-- accessibility-1.5.0/accessibility/tests/testthat/test-constrained-essentials.R |only accessibility-1.5.0/accessibility/tests/testthat/test-constrained-wrapper.R |only accessibility-1.5.0/accessibility/tests/testthat/test-cost_to_closest.R | 666 ++-- accessibility-1.5.0/accessibility/tests/testthat/test-cumulative_cutoff.R | 762 ++--- accessibility-1.5.0/accessibility/tests/testthat/test-cumulative_interval.R | 728 ++-- accessibility-1.5.0/accessibility/tests/testthat/test-decay_binary.R | 122 accessibility-1.5.0/accessibility/tests/testthat/test-decay_exponential.R | 122 accessibility-1.5.0/accessibility/tests/testthat/test-decay_linear.R | 126 accessibility-1.5.0/accessibility/tests/testthat/test-decay_logistic.R | 114 accessibility-1.5.0/accessibility/tests/testthat/test-decay_power.R | 122 accessibility-1.5.0/accessibility/tests/testthat/test-decay_stepped.R | 182 - accessibility-1.5.0/accessibility/tests/testthat/test-do_fill_missing_ids.R | 188 - accessibility-1.5.0/accessibility/tests/testthat/test-fgt_poverty.R | 414 +- accessibility-1.5.0/accessibility/tests/testthat/test-floating_catchment_area.R | 641 ++-- accessibility-1.5.0/accessibility/tests/testthat/test-gini_index.R | 346 +- accessibility-1.5.0/accessibility/tests/testthat/test-gravity.R | 646 ++-- accessibility-1.5.0/accessibility/tests/testthat/test-palma_ratio.R | 598 ++-- accessibility-1.5.0/accessibility/tests/testthat/test-spatial_availability.R | 684 ++-- accessibility-1.5.0/accessibility/tests/testthat/test-theil_t.R | 908 +++--- accessibility-1.5.0/accessibility/vignettes/accessibility.Rmd | 724 ++-- accessibility-1.5.0/accessibility/vignettes/decay_functions.Rmd | 752 ++--- accessibility-1.5.0/accessibility/vignettes/inequality_and_poverty.Rmd | 465 +-- 130 files changed, 15660 insertions(+), 15012 deletions(-)