Title: Optimal Transport Weights for Causal Inference
Description: Uses optimal transport distances to find probabilistic
matching estimators for causal inference.
These methods are described in Dunipace, Eric (2021) <doi:10.48550/arXiv.2109.01991>.
The package will build the weights, estimate treatment effects, and
calculate confidence intervals via the methods described in the paper.
The package also supports several other methods as described in the help
files.
Author: Eric Dunipace [aut, cre]
Maintainer: Eric Dunipace <edunipace@mail.harvard.edu>
Diff between causalOT versions 1.0.2 dated 2024-02-18 and 1.0.3 dated 2026-02-14
causalOT-1.0.2/causalOT/man/Measure_-class.Rd |only causalOT-1.0.2/causalOT/man/OTProblem_-class.Rd |only causalOT-1.0.3/causalOT/DESCRIPTION | 17 causalOT-1.0.3/causalOT/MD5 | 32 causalOT-1.0.3/causalOT/NEWS.md | 9 causalOT-1.0.3/causalOT/R/OT.R | 457 +++++++++- causalOT-1.0.3/causalOT/R/cost_functions.R | 19 causalOT-1.0.3/causalOT/R/cotOOP.R | 915 ++++++++------------- causalOT-1.0.3/causalOT/R/utils.R | 7 causalOT-1.0.3/causalOT/build/vignette.rds |binary causalOT-1.0.3/causalOT/inst/doc/oopCOT.html | 5 causalOT-1.0.3/causalOT/inst/doc/usage.Rmd | 2 causalOT-1.0.3/causalOT/inst/doc/usage.html | 7 causalOT-1.0.3/causalOT/man/Measure.Rd | 154 ++- causalOT-1.0.3/causalOT/man/OTProblem.Rd | 639 ++++++++++++-- causalOT-1.0.3/causalOT/tests/testthat/setup.R | 3 causalOT-1.0.3/causalOT/tests/testthat/test-PSIS.R | 6 causalOT-1.0.3/causalOT/vignettes/usage.Rmd | 2 18 files changed, 1521 insertions(+), 753 deletions(-)
Title: Hierarchical Bayesian Aldrich-McKelvey Scaling via 'Stan'
Description: Perform hierarchical Bayesian Aldrich-McKelvey scaling using Hamiltonian Monte
Carlo via 'Stan'. Aldrich-McKelvey ('AM') scaling is a method for estimating the ideological
positions of survey respondents and political actors on a common scale using positional survey
data. The hierarchical versions of the Bayesian 'AM' model included in this package outperform
other versions both in terms of yielding meaningful posterior distributions for respondent
positions and in terms of recovering true respondent positions in simulations. The package
contains functions for preparing data, fitting models, extracting estimates, plotting key
results, and comparing models using cross-validation. The original version of the default
model is described in Bølstad (2024) <doi:10.1017/pan.2023.18>.
Author: Joergen Boelstad [aut, cre]
Maintainer: Joergen Boelstad <jorgen.bolstad@stv.uio.no>
Diff between hbamr versions 2.4.4 dated 2025-08-18 and 2.4.5 dated 2026-02-14
DESCRIPTION | 8 ++++---- MD5 | 38 +++++++++++++++++++------------------- NEWS.md | 6 ++++++ R/fbam.R | 12 ++++++++++-- R/get_est.R | 2 +- R/hbam.R | 6 +++--- R/hbam_cv.R | 4 ++-- R/hbamr-package.R | 2 +- R/inits.R | 6 +++--- R/plot_respondents.R | 4 ++-- R/prep_data.R | 8 ++++---- inst/doc/hbamr.Rmd | 2 +- inst/doc/hbamr.html | 26 +++++++++++++------------- man/fbam.Rd | 2 +- man/hbam.Rd | 6 +++--- man/hbam_cv.Rd | 4 ++-- man/hbamr-package.Rd | 2 +- man/prep_data.Rd | 4 ++-- src/stanExports_omni.cc | 34 +++++++++++++++++----------------- vignettes/hbamr.Rmd | 2 +- 20 files changed, 96 insertions(+), 82 deletions(-)
Title: Multivariate Normal and Elliptically-Contoured Repeated
Measurements Models
Description: Functions for fitting various normal theory (growth
curve) and elliptically-contoured repeated measurements models
with ARMA and random effects dependence.
Author: Bruce Swihart [cre, aut],
Jim Lindsey [aut]
Maintainer: Bruce Swihart <bruce.swihart@gmail.com>
Diff between growth versions 1.1.1 dated 2019-02-04 and 1.1.2 dated 2026-02-14
DESCRIPTION | 11 +++---- MD5 | 16 +++++----- NEWS.md | 82 ++++++++++++++++++++++++++++++-------------------------- README.md | 6 ++-- man/carma.Rd | 46 +++++++++++++++++++++---------- man/corgram.Rd | 17 +++++++++-- man/elliptic.Rd | 58 ++++++++++++++++++++++++++++----------- man/pergram.Rd | 32 +++++++++++++++------ man/potthoff.Rd | 10 +++++- 9 files changed, 176 insertions(+), 102 deletions(-)
Title: Forecasting Functions for Time Series and Linear Models
Description: Methods and tools for displaying and analysing
univariate time series forecasts including exponential smoothing
via state space models and automatic ARIMA modelling.
Author: Rob Hyndman [aut, cre, cph] ,
George Athanasopoulos [aut] ,
Christoph Bergmeir [aut] ,
Gabriel Caceres [aut] ,
Leanne Chhay [aut],
Kirill Kuroptev [aut],
Maximilian Muecke [aut] ,
Mitchell O'Hara-Wild [aut] ,
Fotios Petropoulos [aut] ,
Slava Razbash [ [...truncated...]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between forecast versions 9.0.0 dated 2026-01-11 and 9.0.1 dated 2026-02-14
forecast-9.0.0/forecast/R/dshw.r |only forecast-9.0.0/forecast/man/autolayer.Rd |only forecast-9.0.0/forecast/src/calcBATS.h |only forecast-9.0.0/forecast/src/registerDynamicSymbol.c |only forecast-9.0.1/forecast/DESCRIPTION | 12 forecast-9.0.1/forecast/MD5 | 135 +- forecast-9.0.1/forecast/NAMESPACE | 7 forecast-9.0.1/forecast/NEWS.md | 785 +++++++------- forecast-9.0.1/forecast/R/HoltWintersNew.R | 4 forecast-9.0.1/forecast/R/RcppExports.R |only forecast-9.0.1/forecast/R/acf.R | 14 forecast-9.0.1/forecast/R/adjustSeasonalSeeds.R | 4 forecast-9.0.1/forecast/R/arfima.R | 3 forecast-9.0.1/forecast/R/arima.R | 21 forecast-9.0.1/forecast/R/attach.R | 70 - forecast-9.0.1/forecast/R/bats.R | 2 forecast-9.0.1/forecast/R/bootstrap.R | 4 forecast-9.0.1/forecast/R/clean.R | 2 forecast-9.0.1/forecast/R/dshw.R |only forecast-9.0.1/forecast/R/errors.R | 17 forecast-9.0.1/forecast/R/ets.R | 131 -- forecast-9.0.1/forecast/R/etsforecast.R | 22 forecast-9.0.1/forecast/R/fitBATS.R | 234 +--- forecast-9.0.1/forecast/R/fitTBATS.R | 400 ++----- forecast-9.0.1/forecast/R/forecast-package.R | 21 forecast-9.0.1/forecast/R/forecast.R | 46 forecast-9.0.1/forecast/R/forecast.varest.R | 2 forecast-9.0.1/forecast/R/forecast2.R | 4 forecast-9.0.1/forecast/R/forecastBATS.R | 20 forecast-9.0.1/forecast/R/forecastTBATS.R | 46 forecast-9.0.1/forecast/R/ggplot.R | 176 --- forecast-9.0.1/forecast/R/guerrero.R | 2 forecast-9.0.1/forecast/R/makeMatrices.R | 34 forecast-9.0.1/forecast/R/makeParamVector.R | 2 forecast-9.0.1/forecast/R/mean.R | 2 forecast-9.0.1/forecast/R/mforecast.R | 32 forecast-9.0.1/forecast/R/modelAR.R | 5 forecast-9.0.1/forecast/R/mstl.R | 75 - forecast-9.0.1/forecast/R/msts.R | 14 forecast-9.0.1/forecast/R/naive.R | 2 forecast-9.0.1/forecast/R/newarima2.R | 12 forecast-9.0.1/forecast/R/nnetar.R | 5 forecast-9.0.1/forecast/R/reexports.R |only forecast-9.0.1/forecast/R/residuals.R | 8 forecast-9.0.1/forecast/R/season.R | 2 forecast-9.0.1/forecast/R/simulate.R | 22 forecast-9.0.1/forecast/R/simulate_forecasts.R | 10 forecast-9.0.1/forecast/R/spline.R | 9 forecast-9.0.1/forecast/R/tbats.R | 25 forecast-9.0.1/forecast/R/theta.R | 3 forecast-9.0.1/forecast/R/unitRoot.R | 14 forecast-9.0.1/forecast/R/whichmodels.R | 25 forecast-9.0.1/forecast/README.md | 4 forecast-9.0.1/forecast/inst/CITATION | 4 forecast-9.0.1/forecast/inst/doc/JSS2008.pdf |binary forecast-9.0.1/forecast/man/dshw.Rd | 2 forecast-9.0.1/forecast/man/reexports.Rd | 5 forecast-9.0.1/forecast/man/residuals.forecast.Rd | 10 forecast-9.0.1/forecast/src/RcppExports.cpp |only forecast-9.0.1/forecast/src/calcBATS.cpp | 87 - forecast-9.0.1/forecast/src/calcTBATS.cpp | 59 - forecast-9.0.1/forecast/src/etsTargetFunction.cpp | 10 forecast-9.0.1/forecast/src/etsTargetFunction.h | 13 forecast-9.0.1/forecast/src/etsTargetFunctionWrapper.cpp | 11 forecast-9.0.1/forecast/src/etscalc.c | 419 ++++--- forecast-9.0.1/forecast/src/etspolyroot.c | 95 - forecast-9.0.1/forecast/src/makeBATSMatrices.cpp | 357 ++---- forecast-9.0.1/forecast/src/makeTBATSMatrices.cpp | 228 +--- forecast-9.0.1/forecast/src/updateMatrices.cpp | 299 ++--- forecast-9.0.1/forecast/src/updateTBATSMatrices.cpp | 89 - forecast-9.0.1/forecast/tests/testthat/test-calendar.R | 4 forecast-9.0.1/forecast/tests/testthat/test-modelAR.R | 9 forecast-9.0.1/forecast/tests/testthat/test-whichmodels.R |only 73 files changed, 1786 insertions(+), 2404 deletions(-)
Title: Robust Meta-Analysis and Meta-Regression
Description: Performs meta-analysis and meta-regression using standard and robust methods with confidence intervals based on the profile likelihood. Robust methods are based on alternative distributions for the random effect, either the t-distribution (Lee and Thompson, 2008 <doi:10.1002/sim.2897> or Baker and Jackson, 2008 <doi:10.1007/s10729-007-9041-8>) or mixtures of normals (Beath, 2014 <doi:10.1002/jrsm.1114>).
Author: Ken Beath [aut, cre],
Ben Bolker [ctb],
R Development Core Team [ctb]
Maintainer: Ken Beath <ken@kjbeath.id.au>
Diff between metaplus versions 1.0-6 dated 2025-01-23 and 1.0-8 dated 2026-02-14
DESCRIPTION | 18 ++-- MD5 | 30 +++---- NAMESPACE | 6 - R/makestart.profilemix.metaplus.R | 147 ++++++++++++++----------------------- R/makestart.profilenorm.metaplus.R | 141 +++++++++++++++++------------------ R/metaplus.R | 10 +- R/profilemix.metaplus.R | 38 +++++---- R/profilenorm.metaplus.R | 34 ++++---- R/profilet.metaplus.R | 28 +++---- build/vignette.rds |binary inst/CITATION | 4 - inst/NEWS | 10 ++ inst/doc/metaplus-package.pdf |binary man/cdp.Rd | 2 man/marinho.Rd | 2 man/metaplus.Rd | 2 16 files changed, 227 insertions(+), 245 deletions(-)
Title: Probabilistic Time Series Forecasting with XGBoost and Conformal
Inference
Description: Implements a probabilistic approach to time series forecasting combining XGBoost regression with conformal inference methods. The package provides functionality for generating predictive distributions, evaluating uncertainty, and optimizing hyperparameters using Bayesian, coarse-to-fine, or random search strategies.
Author: Giancarlo Vercellino [aut, cre, cph]
Maintainer: Giancarlo Vercellino <giancarlo.vercellino@gmail.com>
Diff between xpect versions 1.0 dated 2025-03-24 and 1.1 dated 2026-02-14
DESCRIPTION | 8 +- MD5 | 10 +-- NEWS.md | 9 ++ R/main.R | 182 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++-- R/xpect.R | 2 man/xpect.Rd | 6 - 6 files changed, 200 insertions(+), 17 deletions(-)
Title: Language Model Agents in R for AI Workflows and Research
Description: Provides modular, graph-based agents powered by large language models (LLMs) for intelligent task execution in R.
Supports structured workflows for tasks such as forecasting, data visualization, feature engineering, data wrangling, data cleaning, 'SQL', code generation, weather reporting, and research-driven question answering.
Each agent performs iterative reasoning: recommending steps, generating R code, executing, debugging, and explaining results.
Includes built-in support for packages such as 'tidymodels', 'modeltime', 'plotly', 'ggplot2', and 'prophet'. Designed for analysts, developers, and teams building intelligent, reproducible AI workflows in R.
Compatible with LLM providers such as 'OpenAI', 'Anthropic', 'Groq', and 'Ollama'. Inspired by the Python package 'langagent'.
Author: Kwadwo Daddy Nyame Owusu Boakye [aut, cre]
Maintainer: Kwadwo Daddy Nyame Owusu Boakye <kwadwo.owusuboakye@outlook.com>
Diff between LLMAgentR versions 0.3.0 dated 2025-05-20 and 0.3.2 dated 2026-02-14
DESCRIPTION | 14 MD5 | 61 - NAMESPACE | 10 NEWS.md | 15 R/build_code_agent.R | 141 +++ R/build_data_cleaning_agent.R | 271 +++--- R/build_data_wrangling_agent.R | 276 +++---- R/build_doc_summarizer_agent.R | 132 +++ R/build_feature_engineering_agent.R | 276 +++---- R/build_forecasting_agent.R | 278 ++++--- R/build_interpreter_agent.R | 140 +++ R/build_researcher_agent.R | 200 ++++- R/build_sql_agent.R | 277 +++---- R/build_visualization_agent.R | 276 +++---- R/build_weather_agent.R | 194 ++++- R/zz_custom_agent.R |only README.md | 970 +------------------------ man/as_mermaid.Rd |only man/build_code_agent.Rd | 156 ++-- man/build_custom_agent.Rd |only man/build_custom_multi_agent.Rd |only man/build_data_cleaning_agent.Rd | 102 +- man/build_data_wrangling_agent.Rd | 146 +-- man/build_doc_summarizer_agent.Rd | 120 +-- man/build_feature_engineering_agent.Rd | 104 +- man/build_forecasting_agent.Rd | 112 +- man/build_interpreter_agent.Rd | 132 +-- man/build_researcher_agent.Rd | 110 +- man/build_sql_agent.Rd | 114 +- man/build_visualization_agent.Rd | 110 +- man/build_weather_agent.Rd | 116 +- man/compile_graph.Rd |only man/save_mermaid_png.Rd |only man/state_graph_utils.Rd |only tests/testthat/test_build_custom_agent.R |only tests/testthat/test_build_custom_multi_agent.R |only 36 files changed, 2456 insertions(+), 2397 deletions(-)
Title: Network Meta-Analytic Predictive Prior for Mid-Trial SoC Changes
Description: Implements the Network meta-Analytic Predictive (NAP) prior framework to
accommodate changes in the standard of care (SoC) during ongoing randomized controlled
trials (RCTs). The method synthesizes pre- and post-change in-trial data by leveraging
external evidence, particularly head-to-head trials comparing the original and new
standards of care, to bridge the two evidence periods and enable principled borrowing.
The package provides utilities to construct NAP-based priors and perform Bayesian
inference for time-to-event endpoints using summarized trial evidence.
Author: Chunyi Zhang [aut, cre]
Maintainer: Chunyi Zhang <czhang12@mdanderson.org>
Diff between NAPrior versions 0.1.1 dated 2026-01-20 and 0.2.0 dated 2026-02-14
DESCRIPTION | 6 ++-- MD5 | 20 +++++++------- NEWS.md | 2 + R/NAP_oc.R | 3 +- R/NAP_posterior.R | 3 +- R/NAP_prior.R | 3 +- R/post_w.R | 6 ++-- R/tune_param_eNAP.R | 5 ++- README.md | 69 ++++++++++++++++++++++++++------------------------- inst/doc/README.html | 62 +++++++++++++++++++++++---------------------- man/post_w.Rd | 3 +- 11 files changed, 98 insertions(+), 84 deletions(-)
Title: Interactive Volcano Plot
Description: Generate interactive volcano plots for exploring gene expression data. Built with 'ggplot2', the plots are rendered interactive using 'ggiraph', enabling users to hover over points to display detailed information or click to trigger custom actions.
Author: Guangchuang Yu [aut, cre, cph]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ivolcano versions 0.0.4 dated 2025-12-02 and 0.0.5 dated 2026-02-14
DESCRIPTION | 12 +- MD5 | 24 ++-- NAMESPACE | 11 ++ NEWS.md | 15 ++- R/geom-ivolcano-gene.R | 6 + R/idotplot.R |only R/ivolcano.R | 14 ++ R/pathway_volcano.R |only README.md | 2 inst/doc/ivolcano.R | 49 ++++++++++ inst/doc/ivolcano.html | 240 +++++++++++++++++++++++++++++++++++++++++++++---- inst/doc/ivolcano.qmd | 51 ++++++++++ man/idotplot.Rd |only man/pathway_volcano.Rd |only vignettes/ivolcano.qmd | 51 ++++++++++ 15 files changed, 438 insertions(+), 37 deletions(-)
Title: Testlet Item Response Theory
Description: Implementation of Testlet and Item Response Theory.
A light-version yet comprehensive and streamlined framework for psychometric analysis using
unidimensional
Item Response Theory (IRT; Baker & Kim (2004) <doi:10.1201/9781482276725>) and
Testlet Response Theory (TRT; Wainer et al., (2007) <doi:10.1017/CBO9780511618765>).
Designed for researchers, this package supports the estimation of item and person
parameters for a wide variety of models, including binary (i.e., Rasch, 2-Parameter Logistic, 3-Parameter Logistic)
and polytomous (Partial Credit Model, Generalized Partial Credit Model, Graded Response Model) formats. It also supports the estimation of Testlet models (Rasch Testlet, 2-Parameter Logistic Testlet, 3-Parameter Logistic Testlet, Bifactor, Partial Credit Model Testlet, Graded Response), allowing users to account for local item dependence in bundled items. A key feature is the specialized support for combination use and joint estimation of item response model [...truncated...]
Author: Jiawei Xiong [aut, cre],
Cheng Tang [ctb],
Qidi Liu [ctb]
Maintainer: Jiawei Xiong <jiawei.xiong@uga.edu>
Diff between tirt versions 0.1.3 dated 2026-02-06 and 0.2.0 dated 2026-02-14
DESCRIPTION | 12 - MD5 | 26 +- R/binaryirt.R | 423 ++++++++++++++++++++++++++++++++++++++++++----- R/data.R | 44 ++++ R/mixirt.R | 257 +++++++++++++++++++++++++++- R/polytomousirt.R | 156 ++++++++++++++++- data/ela3.rda |only data/ela3_testmap.rda |only inst/doc/intro_tirt.Rmd | 2 inst/doc/intro_tirt.html | 2 man/binary_irt.Rd | 38 +++- man/ela3.Rd |only man/ela3_testmap.Rd |only man/mixed_irt.Rd | 33 +++ man/polytomous_irt.Rd | 41 +++- vignettes/intro_tirt.Rmd | 2 16 files changed, 941 insertions(+), 95 deletions(-)
Title: Document Conversion to 'PDF', Thumbnails and Visual Testing
Description: Provides the ability to generate images from documents of
different types. Three main features are provided: generating document
thumbnails, performing visual tests of documents, and updating fields
and tables of contents of a 'Microsoft Word' or 'RTF' document.
'Microsoft Word' and/or 'LibreOffice' must be installed on the
machine. If 'Microsoft Word' is available, it can produce PDF
documents or images identical to the originals; otherwise
'LibreOffice' is used and the rendering may sometimes differ from the
original documents.
Author: David Gohel [aut, cre],
ArData [cph],
David Hajage [ctb]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between doconv versions 0.3.3 dated 2025-08-18 and 0.4.0 dated 2026-02-14
DESCRIPTION | 49 +++--- MD5 | 45 +++--- NAMESPACE | 5 NEWS.md | 41 +++++ R/docx2pdf.R | 20 +- R/expect_snapshot_doc.R | 119 ++++++++++++++++ R/run_in_shiny_app.R |only R/to_miniature.R | 38 +++-- R/utils.R | 87 ++++++++++++ README.md | 162 ++++++++++------------- inst/scripts/applescripts/docx2pdf.applescript | 44 +++--- inst/scripts/applescripts/docxupdate.applescript | 42 +++-- inst/scripts/applescripts/pptx2pdf.applescript | 26 ++- inst/scripts/powershell/docx2pdf.ps1 | 52 ++----- inst/scripts/powershell/docxupdate.ps1 | 27 +-- inst/scripts/powershell/pptx2pdf.ps1 | 13 + man/expect_snapshot_flextables.Rd |only man/expect_snapshot_ggplots.Rd |only man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/authorizations.png |binary man/figures/logo.png |binary man/run_in_shiny_app.Rd |only man/skip_if_not_snapshot_png.Rd |only man/to_miniature.Rd | 12 + 27 files changed, 534 insertions(+), 248 deletions(-)
Title: Spatial Analysis with Misaligned Data Using Atom-Based
Regression Models
Description: Implements atom-based regression models (ABRM) for analyzing spatially
misaligned data. Provides functions for simulating misaligned spatial data,
preparing NIMBLE model inputs, running MCMC diagnostics, and providing results. All main functions return
S3 objects with print(), summary(), and plot() methods for intuitive result exploration.
Methods originally described in Mugglin et al. (2000) <doi:10.1080/01621459.2000.10474279>,
further investigated in Trevisani & Gelfand (2013), and applied in Nethery et al. (2023)
<doi:10.1101/2023.01.10.23284410>.
Author: Yunzhe Qian [aut, cre],
Rachel Nethery [aut],
Nancy Krieger [ctb] ,
Nykesha Johnson [ctb]
Maintainer: Yunzhe Qian <qyzanemos@gmail.com>
Diff between spatialAtomizeR versions 0.2.5 dated 2026-02-08 and 0.2.6 dated 2026-02-14
spatialAtomizeR-0.2.5/spatialAtomizeR/R/dasymetric.R |only spatialAtomizeR-0.2.5/spatialAtomizeR/man/dasymetric_mapping.Rd |only spatialAtomizeR-0.2.5/spatialAtomizeR/man/fit_dasymetric_model.Rd |only spatialAtomizeR-0.2.5/spatialAtomizeR/man/run_both_methods.Rd |only spatialAtomizeR-0.2.5/spatialAtomizeR/man/run_sensitivity_analysis.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/DESCRIPTION | 16 spatialAtomizeR-0.2.6/spatialAtomizeR/MD5 | 54 - spatialAtomizeR-0.2.6/spatialAtomizeR/NAMESPACE | 29 spatialAtomizeR-0.2.6/spatialAtomizeR/NEWS.md | 8 spatialAtomizeR-0.2.6/spatialAtomizeR/R/analysis.R | 329 +-------- spatialAtomizeR-0.2.6/spatialAtomizeR/R/diagnostics.R | 222 ------ spatialAtomizeR-0.2.6/spatialAtomizeR/R/methods.R | 276 ++++--- spatialAtomizeR-0.2.6/spatialAtomizeR/R/nimble_model.R | 21 spatialAtomizeR-0.2.6/spatialAtomizeR/R/preparation.R | 2 spatialAtomizeR-0.2.6/spatialAtomizeR/README.md | 71 -- spatialAtomizeR-0.2.6/spatialAtomizeR/inst/doc/getting-started.R | 49 - spatialAtomizeR-0.2.6/spatialAtomizeR/inst/doc/getting-started.Rmd | 64 - spatialAtomizeR-0.2.6/spatialAtomizeR/inst/doc/getting-started.html | 352 ++++------ spatialAtomizeR-0.2.6/spatialAtomizeR/man/Rmfnchypg_rcall.Rd | 1 spatialAtomizeR-0.2.6/spatialAtomizeR/man/biasedUrn_rmfnc.Rd | 1 spatialAtomizeR-0.2.6/spatialAtomizeR/man/dmfnchypg.Rd | 1 spatialAtomizeR-0.2.6/spatialAtomizeR/man/plot.abrm.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/man/print.abrm.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/man/print.misaligned_data.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/man/print.vcov.abrm.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/man/register_nimble_distributions.Rd | 5 spatialAtomizeR-0.2.6/spatialAtomizeR/man/rmfnchypg.Rd | 1 spatialAtomizeR-0.2.6/spatialAtomizeR/man/run_abrm.Rd | 3 spatialAtomizeR-0.2.6/spatialAtomizeR/man/run_nimble_model.Rd | 3 spatialAtomizeR-0.2.6/spatialAtomizeR/man/spatialAtomizeR-package.Rd | 2 spatialAtomizeR-0.2.6/spatialAtomizeR/man/summary.abrm.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/man/summary.misaligned_data.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/man/vcov.abrm.Rd |only spatialAtomizeR-0.2.6/spatialAtomizeR/vignettes/getting-started.Rmd | 64 - 34 files changed, 594 insertions(+), 980 deletions(-)
More information about spatialAtomizeR at CRAN
Permanent link
Title: Convenient Access to NYC Open Data API Endpoints
Description: Provides a unified set of helper functions to access datasets
from the NYC Open Data platform <https://opendata.cityofnewyork.us/>.
Functions return results as tidy tibbles and support optional filtering,
sorting, and row limits via the Socrata API. The package includes endpoints
for 311 service requests, DOB job applications, juvenile justice metrics,
school safety, environmental data, event permitting, and additional citywide datasets.
Author: Christian Martinez [aut, cre] ,
Crystal Adote [ctb] ,
Jonah Dratfield [ctb] ,
Joyce Escatel-Flores [ctb] ,
Rob Hutto [ctb] ,
Isley Jean-Pierre [ctb] ,
Shannon Joyce [ctb] ,
Laura Rose-Werner [ctb] ,
Emma Tupone [ctb] ,
Xinru Wang [ctb]
Maintainer: Christian Martinez <c.martinez0@outlook.com>
This is a re-admission after prior archival of version 0.1.5 dated 2026-01-25
Diff between nycOpenData versions 0.1.5 dated 2026-01-25 and 0.1.6 dated 2026-02-14
nycOpenData-0.1.5/nycOpenData/R/nyc_2015_2018_school_discharge_report.R |only nycOpenData-0.1.5/nycOpenData/R/nyc_dop_Juvenile_cases.R |only nycOpenData-0.1.5/nycOpenData/man/figures/logo.png |only nycOpenData-0.1.5/nycOpenData/man/nyc_dop_Juvenile_cases.Rd |only nycOpenData-0.1.5/nycOpenData/tests/testthat/nyc_city_record.R |only nycOpenData-0.1.6/nycOpenData/DESCRIPTION | 64 +- nycOpenData-0.1.6/nycOpenData/MD5 | 314 +++++++--- nycOpenData-0.1.6/nycOpenData/NEWS.md | 37 - nycOpenData-0.1.6/nycOpenData/R/nyc_311.R | 58 - nycOpenData-0.1.6/nycOpenData/R/nyc_311_2010_2019.R | 57 - nycOpenData-0.1.6/nycOpenData/R/nyc_any_dataset.R | 6 nycOpenData-0.1.6/nycOpenData/R/nyc_borough_community_report.R | 17 nycOpenData-0.1.6/nycOpenData/R/nyc_borough_population.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_cause_of_death.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_city_record.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_civil_service_list.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_daily_attendance_2018_2019.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_detention_admissions.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_dhs_daily_report.R | 16 nycOpenData-0.1.6/nycOpenData/R/nyc_dob_job_applications.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_dob_permit_issuance.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_domestic_violence_annual_report.R | 19 nycOpenData-0.1.6/nycOpenData/R/nyc_dop_juvenile_cases.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_dop_juvenile_rearrest_rate.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_events_sealevel.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_film_permits.R | 16 nycOpenData-0.1.6/nycOpenData/R/nyc_for_hire_vehicles.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_ha_violations.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_homeless_drop_in_centers.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_homeless_population_by_year.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_ll97_shelter_pets.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_locallaw18_payreport.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_medallion_drivers_active.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_medallion_drivers_authorized.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_motor_vehicle_collisions_crashes.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_museum_locations.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_nypd_hate_crimes.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_open_parking_camera_violations.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_period_attendance_reporting.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_permit_events_historic.R | 13 nycOpenData-0.1.6/nycOpenData/R/nyc_pets_in_shelters.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_restaurant_inspection_results.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_runaway_and_homeless_youth_daily_census.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_school_discharge.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_school_discharge_report_2013_2015.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_school_discharge_report_2015_2018.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_shooting_incidents.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_slash_stab.R |only nycOpenData-0.1.6/nycOpenData/R/nyc_street_hail_livery_active.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_tlc_new_driver_app_status.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_tree_census_2015.R | 15 nycOpenData-0.1.6/nycOpenData/R/nyc_urban_park_animal_condition.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_violent_disruptive_school_incidents.R | 18 nycOpenData-0.1.6/nycOpenData/R/nyc_wetlands.R |only nycOpenData-0.1.6/nycOpenData/R/utils_request.R | 46 + nycOpenData-0.1.6/nycOpenData/README.md | 95 ++- nycOpenData-0.1.6/nycOpenData/build/vignette.rds |binary nycOpenData-0.1.6/nycOpenData/inst/doc/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.R |only nycOpenData-0.1.6/nycOpenData/inst/doc/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.Rmd |only 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nycOpenData-0.1.6/nycOpenData/inst/doc/analyzing-nyc_events_sealevel.html |only nycOpenData-0.1.6/nycOpenData/inst/doc/analyzing-nyc_wetlands.R |only nycOpenData-0.1.6/nycOpenData/inst/doc/analyzing-nyc_wetlands.Rmd |only nycOpenData-0.1.6/nycOpenData/inst/doc/analyzing-nyc_wetlands.html |only nycOpenData-0.1.6/nycOpenData/inst/doc/getting-started.Rmd | 7 nycOpenData-0.1.6/nycOpenData/inst/doc/getting-started.html | 63 +- nycOpenData-0.1.6/nycOpenData/inst/doc/investigating-inmate-incidents.R |only nycOpenData-0.1.6/nycOpenData/inst/doc/investigating-inmate-incidents.Rmd |only nycOpenData-0.1.6/nycOpenData/inst/doc/investigating-inmate-incidents.html |only nycOpenData-0.1.6/nycOpenData/inst/doc/nyc_ha_violations.R |only nycOpenData-0.1.6/nycOpenData/inst/doc/nyc_ha_violations.Rmd |only nycOpenData-0.1.6/nycOpenData/inst/doc/nyc_ha_violations.html |only nycOpenData-0.1.6/nycOpenData/man/figures/nycOpenData_hex.png |binary nycOpenData-0.1.6/nycOpenData/man/nyc_311.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_311_2010_2019.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_any_dataset.Rd | 6 nycOpenData-0.1.6/nycOpenData/man/nyc_borough_community_report.Rd | 10 nycOpenData-0.1.6/nycOpenData/man/nyc_borough_population.Rd |only nycOpenData-0.1.6/nycOpenData/man/nyc_cause_of_death.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_city_record.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_civil_service_list.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_daily_attendance_2018_2019.Rd | 11 nycOpenData-0.1.6/nycOpenData/man/nyc_detention_admissions.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_dhs_daily_report.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_dob_job_applications.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_dob_permit_issuance.Rd | 8 nycOpenData-0.1.6/nycOpenData/man/nyc_domestic_violence_annual_report.Rd | 11 nycOpenData-0.1.6/nycOpenData/man/nyc_dop_juvenile_cases.Rd |only nycOpenData-0.1.6/nycOpenData/man/nyc_dop_juvenile_rearrest_rate.Rd | 8 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nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_dhs_daily_report.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_dob_job_applications.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_dob_permit_issuance.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_domestic_violence_annual_report.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_dop_juvenile_cases.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_dop_juvenile_rearrest_rate.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_events_sealevel.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_film_permits_test.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_for_hire_vehicles.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_ha_violations.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_homeless_drop_in_centers.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_homeless_population_by_year.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_locallaw18_payreport.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_locallaw97_shelter_pets.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_medallion_drivers_active.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_medallion_drivers_authorized.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_motor_vehicle_collisions_crashes.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_museum_locations.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_nypd_hate_crimes.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_open_parking_camera_violations.R | 5 nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_period_attendance_reporting.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_permit_events_historic.R |only nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_pets_in_shelters.R |only 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nycOpenData-0.1.6/nycOpenData/tests/testthat/test-nyc_wetlands.R |only nycOpenData-0.1.6/nycOpenData/vignettes/Analyzing-the-Local-Law-97-of-2021-Pets-in-Shelter-Report.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/Using-Local-Law18-Pay-Report.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/analyzing-nyc-borough-population.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/analyzing-nyc-shooting-incidents.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/analyzing-nyc_events_sealevel.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/analyzing-nyc_wetlands.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/getting-started.Rmd | 7 nycOpenData-0.1.6/nycOpenData/vignettes/investigating-inmate-incidents.Rmd |only nycOpenData-0.1.6/nycOpenData/vignettes/nyc_ha_violations.Rmd |only 185 files changed, 830 insertions(+), 808 deletions(-)
Title: Analysis of MHC Data in Non-Model Species
Description: Sixteen tools for bioinformatics processing and analysis of major
histocompatibility complex (MHC) data. The functions are tailored for amplicon data
sets that have been filtered using the dada2 method (for more information on
dada2, visit <https://benjjneb.github.io/dada2/> ), but even other types of data
sets can be analyzed.
The ReplMatch() function matches replicates in data sets in order to evaluate
genotyping success.
The GetReplTable() and GetReplStats() functions perform such an evaluation.
The CreateFas() function creates a fasta file with all the sequences in the data
set.
The CreateSamplesFas() function creates individual fasta files for each sample in
the data set.
The DistCalc() function calculates Grantham, Sandberg, or p-distances from pairwise
comparisons of all sequences in a data set, and mean distances of all pairwise
comparisons within each sample in a data set. The function additionally outputs five
tables with physico-chemical z-descriptor values (based on S [...truncated...]
Author: Jacob Roved [aut, cre]
Maintainer: Jacob Roved <jacob.roved@biol.lu.se>
Diff between MHCtools versions 1.5.5 dated 2025-01-18 and 1.6.0 dated 2026-02-14
DESCRIPTION | 16 +++++++++++----- LICENSE | 2 +- MD5 | 17 +++++++++++------ NAMESPACE | 2 ++ NEWS.md | 8 ++++++++ R/BootKmeans_func_20250108.R | 5 +++++ R/SynDist_func_20250323.R |only R/sequence_table_SynDist.R |only README.md | 8 +++++++- data/sequence_table_SynDist.rda |only man/SynDist.Rd |only man/sequence_table_SynDist.Rd |only 12 files changed, 45 insertions(+), 13 deletions(-)
Title: Classes and Methods for Trajectory Data
Description: Classes and methods for trajectory data, with support for nesting individual Track objects in track sets (Tracks) and track sets for different entities in collections of Tracks. Methods include selection, generalization, aggregation, intersection, simulation, and plotting.
Author: Edzer Pebesma [aut, cre] ,
Benedikt Klus [aut],
Benedikt Graeler [ctb],
Nikolai Gorte [ctb],
Mehdi Moradi [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between trajectories versions 0.2-9 dated 2024-09-04 and 0.2-10 dated 2026-02-14
trajectories-0.2-10/trajectories/DESCRIPTION | 13 +++++++------ trajectories-0.2-10/trajectories/MD5 | 16 ++++++++-------- trajectories-0.2-10/trajectories/build/vignette.rds |binary trajectories-0.2-10/trajectories/demo/00Index | 1 - trajectories-0.2-10/trajectories/inst/doc/article.Rnw | 4 ++-- trajectories-0.2-10/trajectories/inst/doc/article.pdf |binary trajectories-0.2-10/trajectories/vignettes/article.Rnw | 4 ++-- trajectories-0.2-10/trajectories/vignettes/nojss.cls |only trajectories-0.2-10/trajectories/vignettes/refs.bib | 12 +++++------- trajectories-0.2-9/trajectories/demo/enviroCaR.R |only 10 files changed, 24 insertions(+), 26 deletions(-)
Title: Odds Ratio Tools for Logistic Regression
Description: Produces odds ratio analyses with comprehensive reporting tools. Generates
plots, summary tables, and diagnostic checks for logistic regression models
fitted with 'glm()' using binomial family. Provides visualisation methods,
formatted reporting tables via 'gt', and tools to assess logistic regression
model assumptions.
Author: Craig Parylo [aut, cre, cph]
Maintainer: Craig Parylo <craig.parylo2@nhs.net>
Diff between plotor versions 0.8.0 dated 2025-12-08 and 1.0.0 dated 2026-02-14
plotor-0.8.0/plotor/R/gt_extras.R |only plotor-0.8.0/plotor/man/figures/README-unnamed-chunk-4-1.png |only plotor-0.8.0/plotor/man/figures/README-unnamed-chunk-4-1.svg |only plotor-1.0.0/plotor/DESCRIPTION | 20 plotor-1.0.0/plotor/MD5 | 26 plotor-1.0.0/plotor/NEWS.md | 93 plotor-1.0.0/plotor/R/plot_or.R | 1080 +++++++++- plotor-1.0.0/plotor/R/sysdata.rda |only plotor-1.0.0/plotor/README.md | 287 -- plotor-1.0.0/plotor/inst/doc/using_plotor.html | 227 +- plotor-1.0.0/plotor/man/figures/readme_check_or.html |only plotor-1.0.0/plotor/man/figures/readme_check_or.png |only plotor-1.0.0/plotor/man/figures/readme_plot_or.png |only plotor-1.0.0/plotor/man/figures/readme_table_or.html |only plotor-1.0.0/plotor/man/figures/readme_table_or.png |only plotor-1.0.0/plotor/tests/testthat/helper_generate_data.R | 185 + plotor-1.0.0/plotor/tests/testthat/test-plot_or.R | 106 plotor-1.0.0/plotor/tests/testthat/test_data/make_test_data.R | 110 - plotor-1.0.0/plotor/tools |only 19 files changed, 1620 insertions(+), 514 deletions(-)
Title: Bayesian Analysis of Networks of Binary and/or Ordinal Variables
Description: Bayesian variable selection methods for analyzing the structure of a Markov random field model for a network of binary and/or ordinal variables.
Author: Maarten Marsman [aut, cre] ,
Don van den Bergh [aut] ,
Nikola Sekulovski [ctb] ,
Giuseppe Arena [ctb] ,
Laura Groot [ctb],
Gali Geller [ctb]
Maintainer: Maarten Marsman <m.marsman@uva.nl>
Diff between bgms versions 0.1.6.2 dated 2026-01-20 and 0.1.6.3 dated 2026-02-14
bgms-0.1.6.2/bgms/R/sampleMRF.R |only bgms-0.1.6.2/bgms/inst/extdata |only bgms-0.1.6.2/bgms/src/data_simulation.cpp |only bgms-0.1.6.3/bgms/DESCRIPTION | 33 bgms-0.1.6.3/bgms/MD5 | 161 +- bgms-0.1.6.3/bgms/NAMESPACE | 13 bgms-0.1.6.3/bgms/NEWS.md | 37 bgms-0.1.6.3/bgms/R/RcppExports.R | 28 bgms-0.1.6.3/bgms/R/bgm.R | 136 +- bgms-0.1.6.3/bgms/R/bgmCompare.R | 99 + bgms-0.1.6.3/bgms/R/bgmcompare-methods.r | 5 bgms-0.1.6.3/bgms/R/bgms-methods.R | 6 bgms-0.1.6.3/bgms/R/bgms-package.R | 4 bgms-0.1.6.3/bgms/R/data_utils.R | 134 - bgms-0.1.6.3/bgms/R/extractor_functions.R | 675 +++++++--- bgms-0.1.6.3/bgms/R/function_input_utils.R | 13 bgms-0.1.6.3/bgms/R/mcmc_summary.R | 9 bgms-0.1.6.3/bgms/R/nuts_diagnostics.R | 102 - bgms-0.1.6.3/bgms/R/output_utils.R | 21 bgms-0.1.6.3/bgms/R/simulate_predict.R |only bgms-0.1.6.3/bgms/README.md | 87 - bgms-0.1.6.3/bgms/build/partial.rdb |binary bgms-0.1.6.3/bgms/build/vignette.rds |binary bgms-0.1.6.3/bgms/inst/CITATION | 62 bgms-0.1.6.3/bgms/inst/CONTRIBUTORS.md |only bgms-0.1.6.3/bgms/inst/REFERENCES.bib | 17 bgms-0.1.6.3/bgms/inst/doc/comparison.R | 33 bgms-0.1.6.3/bgms/inst/doc/comparison.Rmd | 44 bgms-0.1.6.3/bgms/inst/doc/comparison.html | 315 +--- bgms-0.1.6.3/bgms/inst/doc/diagnostics.R | 2 bgms-0.1.6.3/bgms/inst/doc/diagnostics.Rmd | 13 bgms-0.1.6.3/bgms/inst/doc/diagnostics.html | 51 bgms-0.1.6.3/bgms/inst/doc/intro.R | 6 bgms-0.1.6.3/bgms/inst/doc/intro.Rmd | 12 bgms-0.1.6.3/bgms/inst/doc/intro.html | 79 - bgms-0.1.6.3/bgms/man/bgm.Rd | 46 bgms-0.1.6.3/bgms/man/bgmCompare.Rd | 34 bgms-0.1.6.3/bgms/man/bgms-package.Rd | 15 bgms-0.1.6.3/bgms/man/extractor_functions.Rd | 63 bgms-0.1.6.3/bgms/man/mrfSampler.Rd | 125 - bgms-0.1.6.3/bgms/man/predict.bgmCompare.Rd |only bgms-0.1.6.3/bgms/man/predict.bgms.Rd |only bgms-0.1.6.3/bgms/man/print.bgmCompare.Rd | 3 bgms-0.1.6.3/bgms/man/print.bgms.Rd | 3 bgms-0.1.6.3/bgms/man/simulate.bgmCompare.Rd |only bgms-0.1.6.3/bgms/man/simulate.bgms.Rd |only bgms-0.1.6.3/bgms/man/simulate_mrf.Rd |only bgms-0.1.6.3/bgms/src/RcppExports-9e54f986.o.tmp |only bgms-0.1.6.3/bgms/src/RcppExports.cpp | 108 + bgms-0.1.6.3/bgms/src/bgm/bgm_helper.cpp | 59 bgms-0.1.6.3/bgms/src/bgm/bgm_helper.h | 7 bgms-0.1.6.3/bgms/src/bgm/bgm_logp_and_grad.cpp | 412 +++--- bgms-0.1.6.3/bgms/src/bgm/bgm_logp_and_grad.h | 39 bgms-0.1.6.3/bgms/src/bgm/bgm_sampler.cpp | 176 +- bgms-0.1.6.3/bgms/src/bgm/bgm_sampler.h | 1 bgms-0.1.6.3/bgms/src/bgmCompare/bgmCompare_helper.cpp | 11 bgms-0.1.6.3/bgms/src/bgmCompare/bgmCompare_helper.h | 22 bgms-0.1.6.3/bgms/src/bgmCompare/bgmCompare_logp_and_grad.cpp | 634 +++++---- bgms-0.1.6.3/bgms/src/bgmCompare/bgmCompare_logp_and_grad.h | 58 bgms-0.1.6.3/bgms/src/bgmCompare/bgmCompare_sampler.cpp | 267 +++ bgms-0.1.6.3/bgms/src/bgmCompare/bgmCompare_sampler.h | 2 bgms-0.1.6.3/bgms/src/bgmCompare_interface.cpp | 17 bgms-0.1.6.3/bgms/src/bgm_interface.cpp | 12 bgms-0.1.6.3/bgms/src/mcmc/mcmc_adaptation.h | 212 ++- bgms-0.1.6.3/bgms/src/mcmc/mcmc_hmc.cpp | 45 bgms-0.1.6.3/bgms/src/mcmc/mcmc_hmc.h | 11 bgms-0.1.6.3/bgms/src/mcmc/mcmc_leapfrog.cpp | 125 + bgms-0.1.6.3/bgms/src/mcmc/mcmc_leapfrog.h | 52 bgms-0.1.6.3/bgms/src/mcmc/mcmc_memoization.h | 35 bgms-0.1.6.3/bgms/src/mcmc/mcmc_nuts.cpp | 345 +++-- bgms-0.1.6.3/bgms/src/mcmc/mcmc_nuts.h | 44 bgms-0.1.6.3/bgms/src/mcmc/mcmc_utils.cpp | 101 + bgms-0.1.6.3/bgms/src/mcmc/mcmc_utils.h | 100 - bgms-0.1.6.3/bgms/src/mrf_prediction.cpp |only bgms-0.1.6.3/bgms/src/mrf_simulation.cpp |only bgms-0.1.6.3/bgms/src/priors/sbm_edge_prior.cpp | 46 bgms-0.1.6.3/bgms/src/rng/rng_utils.h | 16 bgms-0.1.6.3/bgms/src/sbm_edge_prior_interface.cpp | 4 bgms-0.1.6.3/bgms/src/sbm_edge_prior_interface.h | 2 bgms-0.1.6.3/bgms/src/utils/variable_helpers.h | 282 +++- bgms-0.1.6.3/bgms/tests/testthat/helper-fixtures.R |only bgms-0.1.6.3/bgms/tests/testthat/test-bgm.R | 99 - bgms-0.1.6.3/bgms/tests/testthat/test-bgmCompare.R |only bgms-0.1.6.3/bgms/tests/testthat/test-extractor-functions.R |only bgms-0.1.6.3/bgms/tests/testthat/test-input-validation.R |only bgms-0.1.6.3/bgms/tests/testthat/test-methods.R |only bgms-0.1.6.3/bgms/tests/testthat/test-simulate-mrf.R |only bgms-0.1.6.3/bgms/tests/testthat/test-tolerance.R |only bgms-0.1.6.3/bgms/vignettes/comparison.Rmd | 44 bgms-0.1.6.3/bgms/vignettes/diagnostics.Rmd | 13 bgms-0.1.6.3/bgms/vignettes/intro.Rmd | 12 91 files changed, 3734 insertions(+), 2165 deletions(-)
Title: Compact Inline Widgets for 'shiny' Apps
Description: Provides a basic set of compact widgets for 'shiny' apps which
occupy less space and can appear inline with surrounding text.
Author: Nick Davies [aut, cre]
Maintainer: Nick Davies <nicholas.davies@lshtm.ac.uk>
Diff between inshiny versions 0.1.1 dated 2025-12-03 and 0.1.2 dated 2026-02-14
DESCRIPTION | 8 - MD5 | 32 ++--- NEWS.md | 9 + R/action.R | 22 ++- R/check.R | 42 ++++--- R/date.R | 46 ++++--- R/helper.R | 162 +++++---------------------- R/number.R | 24 ++-- R/select.R | 46 ++++--- R/slider.R | 24 ++-- R/text.R | 55 +++++---- inst/doc/inshiny.html | 3 tests/testthat/_snaps/number.md | 2 tests/testthat/_snaps/shiny-1.10.0/action.md | 2 tests/testthat/_snaps/shiny-1.12.0/action.md | 2 tests/testthat/_snaps/slider.md | 2 tests/testthat/test-helper.R | 8 + 17 files changed, 230 insertions(+), 259 deletions(-)
Title: Taxonomic Information from Around the Web
Description: Interacts with a suite of web application programming interfaces
(API) for taxonomic tasks, such as getting database specific taxonomic
identifiers, verifying species names, getting taxonomic hierarchies, fetching
downstream and upstream taxonomic names, getting taxonomic synonyms, converting
scientific to common names and vice versa, and more. Some of the services
supported include 'NCBI E-utilities' (<https://www.ncbi.nlm.nih.gov/books/NBK25501/>),
'Encyclopedia of Life' (<https://eol.org/docs/what-is-eol/data-services>),
'Global Biodiversity Information Facility' (<https://techdocs.gbif.org/en/openapi/>),
and many more. Links to the API documentation for other supported services are
available in the documentation for their respective functions in this package.
Author: Scott Chamberlain [aut],
Eduard Szoecs [aut],
Zachary Foster [aut, cre],
Zebulun Arendsee [aut],
Carl Boettiger [ctb],
Karthik Ram [ctb],
Ignasi Bartomeus [ctb],
John Baumgartner [ctb],
James O'Donnell [ctb],
Jari Oksanen [ctb],
Bastian Greshake Tzov [...truncated...]
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
This is a re-admission after prior archival of version 0.10.0 dated 2025-02-07
Diff between taxize versions 0.10.0 dated 2025-02-07 and 0.10.1 dated 2026-02-14
DESCRIPTION | 11 +++++------ MD5 | 16 ++++++++-------- NEWS.md | 6 +++++- R/gna_verifier.R | 2 +- R/synonyms.R | 3 ++- R/taxize-package.R | 2 +- man/species_plantarum_binomials.Rd | 2 +- man/synonyms.Rd | 3 ++- tests/testthat/Rplots.pdf |binary 9 files changed, 25 insertions(+), 20 deletions(-)
Title: Provider-Agnostic OAuth Authentication for 'shiny' Applications
Description: Provides a simple, configurable, provider-agnostic 'OAuth 2.0' and
'OpenID Connect' (OIDC) authentication framework for 'shiny' applications
using 'S7' classes. Defines providers, clients, and tokens, as well
as various supporting functions and a 'shiny' module. Features include
cross-site request forgery (CSRF) protection, state encryption,
'Proof Key for Code Exchange' (PKCE) handling, validation of OIDC identity
tokens (nonces, signatures, claims), automatic user info retrieval, asynchronous
flows, and hooks for audit logging.
Author: Luka Koning [aut, cre, cph]
Maintainer: Luka Koning <koningluka@gmail.com>
Diff between shinyOAuth versions 0.3.0 dated 2026-01-30 and 0.4.0 dated 2026-02-14
DESCRIPTION | 6 MD5 | 167 ++-- NEWS.md | 222 ++++++ R/classes__OAuthClient.R | 228 +++++- R/classes__OAuthProvider.R | 133 +++ R/classes__OAuthToken.R | 40 + R/custom_cache.R | 69 + R/errors.R | 71 + R/methods__client_bearer_req.R | 38 + R/methods__login.R | 351 ++++++++- R/methods__token.R | 123 +-- R/methods__userinfo.R | 416 +++++++++++ R/oauth_module_server.R | 552 ++++++++++----- R/providers__oidc_discovery.R | 77 +- R/softeners.R | 60 + R/use_shinyOAuth.R | 10 R/utils.R | 77 ++ R/utils__base64url.R | 8 R/utils__crypt.R | 21 R/utils__http.R | 87 ++ R/utils__jwks.R | 129 ++- R/utils__jwt.R | 238 ++++++ R/utils__scopes.R | 65 + R/utils__shiny.R | 243 +++++- R/utils__state.R | 276 +++++-- inst/doc/audit-logging.Rmd | 54 + inst/doc/audit-logging.html | 93 ++ inst/doc/authentication-flow.Rmd | 82 +- inst/doc/authentication-flow.html | 109 ++ inst/doc/usage.Rmd | 56 + inst/doc/usage.html | 91 ++ inst/examples/custom_cache.R | 15 inst/examples/oauth_provider_microsoft.R | 13 man/OAuthClient.Rd | 72 + man/OAuthProvider.Rd | 28 man/OAuthToken.Rd | 20 man/client_bearer_req.Rd | 10 man/custom_cache.Rd | 67 + man/error_on_softened.Rd | 2 man/handle_callback.Rd | 16 man/oauth_client.Rd | 72 + man/oauth_module_server.Rd | 19 man/oauth_provider.Rd | 30 man/oauth_provider_microsoft.Rd | 13 man/state_store_get_remove.Rd | 12 tests/testthat/helper-login.R | 67 + tests/testthat/test-absolute-url-validation.R | 53 + tests/testthat/test-acr-enforcement.R |only tests/testthat/test-async-serialization.R |only tests/testthat/test-audit-async-options.R | 481 +++++++++++-- tests/testthat/test-base64url-helpers.R | 17 tests/testthat/test-callback-bypass-protection.R |only tests/testthat/test-callback-iss-validation.R |only tests/testthat/test-claims-parameter.R |only tests/testthat/test-claims-validation.R |only tests/testthat/test-client-bearer-req-url-validation.R |only tests/testthat/test-defaults-and-validation.R | 53 + tests/testthat/test-discovery-auth-methods.R | 61 + tests/testthat/test-discovery-hardened.R | 100 ++ tests/testthat/test-error-response-state.R | 68 - tests/testthat/test-extra-headers-revoke-introspect.R |only tests/testthat/test-id-token-claims.R |only tests/testthat/test-input-validation-guards.R |only tests/testthat/test-introspect-token.R | 2 tests/testthat/test-jwks-cache-host-policy.R |only tests/testthat/test-jwt-at-hash.R |only tests/testthat/test-jwt-auth-time.R |only tests/testthat/test-jwt-crit-header.R |only tests/testthat/test-jwt-jwe-detection.R |only tests/testthat/test-jwt-malformed-and-claims.R | 55 + tests/testthat/test-jwt-max-lifetime.R |only tests/testthat/test-leeway-validation.R |only tests/testthat/test-login-callback.R | 7 tests/testthat/test-mirai-utils.R |only tests/testthat/test-missing-expires-in.R |only tests/testthat/test-module-server-async.R | 198 +++-- tests/testthat/test-module-server.R | 208 +++++ tests/testthat/test-oauth-error-body.R |only tests/testthat/test-openid-scope-enforcement.R |only tests/testthat/test-provider-helpers.R |only tests/testthat/test-refresh-iss-aud.R |only tests/testthat/test-revoke-introspect-header-parity.R |only tests/testthat/test-revoke-token.R | 2 tests/testthat/test-softeners.R | 123 +++ tests/testthat/test-state-fail-delay.R | 5 tests/testthat/test-state-store-atomic-take.R |only tests/testthat/test-state-store-concurrent-replay.R |only tests/testthat/test-state-store-strict.R | 54 + tests/testthat/test-userinfo-after-id-token-validation.R | 28 tests/testthat/test-userinfo-jwt-crit-and-jwks-refresh.R |only tests/testthat/test-userinfo-jwt-fallback.R |only tests/testthat/test-userinfo-jwt.R |only tests/testthat/test-utils-crypt-decrypt-rejects.R | 27 tests/testthat/test-utils-http-helpers.R | 96 ++ tests/testthat/test-utils-url-and-scopes.R | 88 ++ tests/testthat/test_state_store_single_use.R | 33 vignettes/audit-logging.Rmd | 54 + vignettes/authentication-flow.Rmd | 82 +- vignettes/usage.Rmd | 56 + 99 files changed, 5666 insertions(+), 933 deletions(-)
Title: Create and Manage Todolist using 'Todoist.com' API
Description: Allows you to interact with the API of the "Todoist"
platform. 'Todoist' <https://www.todoist.com/> provides an online task
manager service for teams.
Author: Cervan Girard [aut] ,
Vincent Guyader [cre, aut] ,
ThinkR [cph, fnd]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between rtodoist versions 0.2.0 dated 2026-01-22 and 0.4.0 dated 2026-02-14
rtodoist-0.2.0/rtodoist/man/call_api_project_data.Rd |only rtodoist-0.4.0/rtodoist/DESCRIPTION | 26 rtodoist-0.4.0/rtodoist/LICENSE | 4 rtodoist-0.4.0/rtodoist/MD5 | 159 +++- rtodoist-0.4.0/rtodoist/NAMESPACE | 74 ++ rtodoist-0.4.0/rtodoist/NEWS.md |only rtodoist-0.4.0/rtodoist/R/activity.R |only rtodoist-0.4.0/rtodoist/R/all_objects.R | 200 ++--- rtodoist-0.4.0/rtodoist/R/backups.R |only rtodoist-0.4.0/rtodoist/R/clean_tools.R | 286 ++++--- rtodoist-0.4.0/rtodoist/R/comments.R |only rtodoist-0.4.0/rtodoist/R/filters.R |only rtodoist-0.4.0/rtodoist/R/labels.R |only rtodoist-0.4.0/rtodoist/R/open_todoist_website.R | 34 rtodoist-0.4.0/rtodoist/R/projects.R | 221 ++++++ rtodoist-0.4.0/rtodoist/R/reminders.R |only rtodoist-0.4.0/rtodoist/R/section.R | 267 ++++++- rtodoist-0.4.0/rtodoist/R/tasks.R | 485 +++++++++++-- rtodoist-0.4.0/rtodoist/R/templates.R |only rtodoist-0.4.0/rtodoist/R/todoist-package.R | 1 rtodoist-0.4.0/rtodoist/R/token.R | 4 rtodoist-0.4.0/rtodoist/R/uploads.R |only rtodoist-0.4.0/rtodoist/R/users.R | 648 +++++++++++------- rtodoist-0.4.0/rtodoist/R/utils.R | 71 + rtodoist-0.4.0/rtodoist/R/workspaces.R |only rtodoist-0.4.0/rtodoist/R/zzz.R | 2 rtodoist-0.4.0/rtodoist/README.md | 96 +- rtodoist-0.4.0/rtodoist/build/vignette.rds |binary rtodoist-0.4.0/rtodoist/inst/doc/complete_guide.R |only rtodoist-0.4.0/rtodoist/inst/doc/complete_guide.Rmd |only rtodoist-0.4.0/rtodoist/inst/doc/complete_guide.html |only rtodoist-0.4.0/rtodoist/inst/doc/how_it_works.html | 4 rtodoist-0.4.0/rtodoist/man/accept_invitation.Rd |only rtodoist-0.4.0/rtodoist/man/add_comment.Rd |only rtodoist-0.4.0/rtodoist/man/add_filter.Rd |only rtodoist-0.4.0/rtodoist/man/add_label.Rd |only rtodoist-0.4.0/rtodoist/man/add_reminder.Rd |only rtodoist-0.4.0/rtodoist/man/add_section.Rd | 7 rtodoist-0.4.0/rtodoist/man/archive_project.Rd |only rtodoist-0.4.0/rtodoist/man/archive_section.Rd |only rtodoist-0.4.0/rtodoist/man/call_api.Rd | 10 rtodoist-0.4.0/rtodoist/man/call_api_rest.Rd |only rtodoist-0.4.0/rtodoist/man/close_task.Rd |only rtodoist-0.4.0/rtodoist/man/delete_collaborator.Rd |only rtodoist-0.4.0/rtodoist/man/delete_comment.Rd |only rtodoist-0.4.0/rtodoist/man/delete_filter.Rd |only rtodoist-0.4.0/rtodoist/man/delete_invitation.Rd |only rtodoist-0.4.0/rtodoist/man/delete_label.Rd |only rtodoist-0.4.0/rtodoist/man/delete_project.Rd |only rtodoist-0.4.0/rtodoist/man/delete_reminder.Rd |only rtodoist-0.4.0/rtodoist/man/delete_section.Rd |only rtodoist-0.4.0/rtodoist/man/delete_task.Rd |only rtodoist-0.4.0/rtodoist/man/delete_upload.Rd |only rtodoist-0.4.0/rtodoist/man/download_backup.Rd |only rtodoist-0.4.0/rtodoist/man/escape_json.Rd |only rtodoist-0.4.0/rtodoist/man/export_template.Rd |only rtodoist-0.4.0/rtodoist/man/get_activity_logs.Rd |only rtodoist-0.4.0/rtodoist/man/get_all_filters.Rd |only rtodoist-0.4.0/rtodoist/man/get_all_labels.Rd |only rtodoist-0.4.0/rtodoist/man/get_all_reminders.Rd |only rtodoist-0.4.0/rtodoist/man/get_all_sections.Rd |only rtodoist-0.4.0/rtodoist/man/get_all_workspaces.Rd |only rtodoist-0.4.0/rtodoist/man/get_archived_projects.Rd |only rtodoist-0.4.0/rtodoist/man/get_backups.Rd |only rtodoist-0.4.0/rtodoist/man/get_comment.Rd |only rtodoist-0.4.0/rtodoist/man/get_comments.Rd |only rtodoist-0.4.0/rtodoist/man/get_completed_tasks.Rd |only rtodoist-0.4.0/rtodoist/man/get_filter.Rd |only rtodoist-0.4.0/rtodoist/man/get_filter_id.Rd |only rtodoist-0.4.0/rtodoist/man/get_label.Rd |only rtodoist-0.4.0/rtodoist/man/get_label_id.Rd |only rtodoist-0.4.0/rtodoist/man/get_productivity_stats.Rd |only rtodoist-0.4.0/rtodoist/man/get_project.Rd |only rtodoist-0.4.0/rtodoist/man/get_section.Rd |only rtodoist-0.4.0/rtodoist/man/get_section_id.Rd | 7 rtodoist-0.4.0/rtodoist/man/get_shared_labels.Rd |only rtodoist-0.4.0/rtodoist/man/get_task.Rd |only rtodoist-0.4.0/rtodoist/man/get_tasks_by_filter.Rd |only rtodoist-0.4.0/rtodoist/man/get_user_info.Rd |only rtodoist-0.4.0/rtodoist/man/get_workspace_users.Rd |only rtodoist-0.4.0/rtodoist/man/import_template.Rd |only rtodoist-0.4.0/rtodoist/man/invite_to_workspace.Rd |only rtodoist-0.4.0/rtodoist/man/leave_workspace.Rd |only rtodoist-0.4.0/rtodoist/man/move_section.Rd |only rtodoist-0.4.0/rtodoist/man/move_task.Rd |only rtodoist-0.4.0/rtodoist/man/quick_add_task.Rd |only rtodoist-0.4.0/rtodoist/man/reject_invitation.Rd |only rtodoist-0.4.0/rtodoist/man/remove_shared_label.Rd |only rtodoist-0.4.0/rtodoist/man/rename_shared_label.Rd |only rtodoist-0.4.0/rtodoist/man/reopen_task.Rd |only rtodoist-0.4.0/rtodoist/man/rtodoist-package.Rd | 4 rtodoist-0.4.0/rtodoist/man/unarchive_project.Rd |only rtodoist-0.4.0/rtodoist/man/unarchive_section.Rd |only rtodoist-0.4.0/rtodoist/man/update_comment.Rd |only rtodoist-0.4.0/rtodoist/man/update_filter.Rd |only rtodoist-0.4.0/rtodoist/man/update_label.Rd |only rtodoist-0.4.0/rtodoist/man/update_project.Rd |only rtodoist-0.4.0/rtodoist/man/update_reminder.Rd |only rtodoist-0.4.0/rtodoist/man/update_section.Rd |only rtodoist-0.4.0/rtodoist/man/update_task.Rd |only rtodoist-0.4.0/rtodoist/man/update_workspace.Rd |only rtodoist-0.4.0/rtodoist/man/upload_file.Rd |only rtodoist-0.4.0/rtodoist/tests |only rtodoist-0.4.0/rtodoist/vignettes/complete_guide.Rmd |only 104 files changed, 1919 insertions(+), 691 deletions(-)
Title: NASCAR Race Data
Description: A collection of NASCAR race, driver, owner and manufacturer
data across the three major NASCAR divisions: NASCAR Cup Series, NXS,
and NASCAR Craftsman Truck Series. The curated
data begins with the 1949 season and is updated weekly during the
racing season. Explore race, season, or career performance for drivers,
teams, and manufacturers throughout NASCAR's history. Data was sourced
with permission from DriverAverages.com.
Author: Kyle Grealis [aut, cre] ,
Nick Triplett [ctb],
Gabriel Odom [ctb]
Maintainer: Kyle Grealis <kylegrealis@proton.me>
Diff between nascaR.data versions 2.2.3 dated 2025-09-11 and 3.0.0 dated 2026-02-14
nascaR.data-2.2.3/nascaR.data/data |only nascaR.data-2.2.3/nascaR.data/inst/updates/update_cup.R |only nascaR.data-2.2.3/nascaR.data/inst/updates/update_truck.R |only nascaR.data-2.2.3/nascaR.data/inst/updates/update_xfinity.R |only nascaR.data-2.2.3/nascaR.data/inst/updates/xfinity_track_info.rda |only nascaR.data-2.2.3/nascaR.data/man/cup_series.Rd |only nascaR.data-2.2.3/nascaR.data/man/find_driver.Rd |only nascaR.data-2.2.3/nascaR.data/man/find_manufacturer.Rd |only nascaR.data-2.2.3/nascaR.data/man/find_team.Rd |only nascaR.data-2.2.3/nascaR.data/man/nascaR.data-package.Rd |only nascaR.data-2.2.3/nascaR.data/man/selected_series_data.Rd |only nascaR.data-2.2.3/nascaR.data/man/truck_series.Rd |only nascaR.data-2.2.3/nascaR.data/man/xfinity_series.Rd |only nascaR.data-3.0.0/nascaR.data/DESCRIPTION | 36 nascaR.data-3.0.0/nascaR.data/MD5 | 67 nascaR.data-3.0.0/nascaR.data/NAMESPACE | 23 nascaR.data-3.0.0/nascaR.data/NEWS.md | 146 - nascaR.data-3.0.0/nascaR.data/R/cache.R |only nascaR.data-3.0.0/nascaR.data/R/data.R | 231 + nascaR.data-3.0.0/nascaR.data/R/find.R | 1159 +++------- nascaR.data-3.0.0/nascaR.data/R/nascaR.data-package.R | 19 nascaR.data-3.0.0/nascaR.data/R/r2_upload.R |only nascaR.data-3.0.0/nascaR.data/R/series-data.R |only nascaR.data-3.0.0/nascaR.data/R/utils.R | 51 nascaR.data-3.0.0/nascaR.data/README.md | 132 - nascaR.data-3.0.0/nascaR.data/build |only nascaR.data-3.0.0/nascaR.data/inst/CITATION |only nascaR.data-3.0.0/nascaR.data/inst/WORDLIST |only nascaR.data-3.0.0/nascaR.data/inst/doc |only nascaR.data-3.0.0/nascaR.data/inst/updates/nxs_track_info.rda |only nascaR.data-3.0.0/nascaR.data/inst/updates/refresh_track_info.R |only nascaR.data-3.0.0/nascaR.data/inst/updates/run_all_updates.R | 30 nascaR.data-3.0.0/nascaR.data/inst/updates/scraper.R |only nascaR.data-3.0.0/nascaR.data/inst/updates/upload_to_r2.R |only nascaR.data-3.0.0/nascaR.data/inst/validation |only nascaR.data-3.0.0/nascaR.data/man/clear_cache.Rd |only nascaR.data-3.0.0/nascaR.data/man/get_driver_info.Rd | 56 nascaR.data-3.0.0/nascaR.data/man/get_manufacturer_info.Rd | 55 nascaR.data-3.0.0/nascaR.data/man/get_team_info.Rd | 56 nascaR.data-3.0.0/nascaR.data/man/load_series.Rd |only nascaR.data-3.0.0/nascaR.data/man/series_data.Rd |only nascaR.data-3.0.0/nascaR.data/tests |only nascaR.data-3.0.0/nascaR.data/vignettes |only 43 files changed, 1003 insertions(+), 1058 deletions(-)
Title: Constraint Multiobjective Sample Allocation
Description: Provides a framework for multipurpose optimal resource allocation in survey sampling,
extending the classical optimal allocation principles introduced by Tschuprow (1923) and
Neyman (1934) to multidomain and multivariate allocation problems. The primary method
mosalloc() allows for the consideration of precision and cost constraints at the subpopulation
level while minimizing either a vector of sampling errors or survey costs across a broad range
of optimal sample allocation problems. The approach supports both single- and multistage
designs. For single-stage stratified random sampling, the mosallocSTRS() function offers a user-
friendly interface. Sensitivity analysis is supported through the problem's dual variables, which
are naturally obtained via the internal use of the Embedded Conic Solver from the 'ECOSolveR'
package. See Willems (2025, <doi:10.25353/ubtr-9200-484c-5c89>) for a detailed description
of the theory behind 'MOSAlloc'.
Author: Felix Willems [aut, cre] ,
Ralf Muennich [ths]
Maintainer: Felix Willems <mail.willemsf+MOSAlloc@gmail.com>
This is a re-admission after prior archival of version 1.2.4 dated 2026-02-07
Diff between MOSAlloc versions 1.2.4 dated 2026-02-07 and 1.2.5 dated 2026-02-14
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 12 +++++++++++- R/mosalloc.R | 6 +++--- R/mosallocStepwiseFirst.R | 9 +++++---- README.md | 11 ++++++++--- man/mosalloc.Rd | 2 +- 7 files changed, 37 insertions(+), 21 deletions(-)
Title: Exporting 'flextable' to 'xlsx' Files
Description: Exports 'flextable' objects to 'xlsx' files,
utilizing functionalities provided by 'flextable' and 'openxlsx2'.
Author: Tobias Heidler [aut, cre, cph]
Maintainer: Tobias Heidler <flexlsx@heidler.ovh>
Diff between flexlsx versions 0.3.5 dated 2025-04-25 and 1.0.0 dated 2026-02-14
DESCRIPTION | 18 MD5 | 10 NEWS.md | 7 tests/testthat/_snaps/ft_to_style.md | 7790 ++++++++++++++++++++++++++++++--- tests/testthat/test-wb_add_caption.R | 23 tests/testthat/test-wb_add_flextable.R | 50 6 files changed, 7192 insertions(+), 706 deletions(-)
Title: An Empirical Bayes Method for Chi-Squared Data
Description: We provide the main R functions to compute the posterior interval for the noncentrality parameter of the chi-squared distribution. The skewness estimate of the posterior distribution is also available to improve the coverage rate of posterior intervals. Details can be found in Du and Hu (2022) <doi:10.1080/01621459.2020.1777137>.
Author: Lilun Du [aut, cre],
Inchi Hu [aut]
Maintainer: Lilun Du <lilundu@cityu.edu.hk>
Diff between EBCHS versions 0.1.0 dated 2021-06-01 and 0.1.1 dated 2026-02-14
EBCHS-0.1.0/EBCHS/README.md |only EBCHS-0.1.1/EBCHS/DESCRIPTION | 14 ++++++------ EBCHS-0.1.1/EBCHS/MD5 | 24 ++++++++++++--------- EBCHS-0.1.1/EBCHS/NAMESPACE | 2 + EBCHS-0.1.1/EBCHS/R/EB_CS.R | 10 ++++---- EBCHS-0.1.1/EBCHS/R/density_LS.R | 2 - EBCHS-0.1.1/EBCHS/R/density_PLS.R | 2 - EBCHS-0.1.1/EBCHS/R/density_g_model.R |only EBCHS-0.1.1/EBCHS/R/predictive_recursion.R |only EBCHS-0.1.1/EBCHS/man/EB_CS.Rd | 6 ++--- EBCHS-0.1.1/EBCHS/man/density_LS.Rd | 2 - EBCHS-0.1.1/EBCHS/man/density_PLS.Rd | 2 - EBCHS-0.1.1/EBCHS/man/density_g_model.Rd |only EBCHS-0.1.1/EBCHS/man/figures/README-example-1.png |binary EBCHS-0.1.1/EBCHS/man/predictive_recursion.Rd |only EBCHS-0.1.1/EBCHS/tests/testthat/test_1.R |only 16 files changed, 35 insertions(+), 29 deletions(-)
Title: Bayesian Discharge Rating Curves
Description: Fits a discharge rating curve based on the power-law and the generalized power-law from data on paired stage and discharge measurements in a given river using a Bayesian hierarchical model as described in Hrafnkelsson et al. (2020) <doi:10.48550/arXiv.2010.04769>.
Author: Birgir Hrafnkelsson [aut, cph] ,
Solvi Rognvaldsson [aut] ,
Rafael Daniel Vias [aut, cre] ,
Axel Orn Jansson [aut]
Maintainer: Rafael Daniel Vias <raffidv@gmail.com>
Diff between bdrc versions 1.1.0 dated 2023-03-19 and 2.0.0 dated 2026-02-14
bdrc-1.1.0/bdrc/man/evaluate_game.Rd |only bdrc-2.0.0/bdrc/DESCRIPTION | 40 bdrc-2.0.0/bdrc/MD5 | 170 +- bdrc-2.0.0/bdrc/NAMESPACE | 7 bdrc-2.0.0/bdrc/NEWS.md | 16 bdrc-2.0.0/bdrc/R/RcppExports.R |only bdrc-2.0.0/bdrc/R/bdrc-package.R |only bdrc-2.0.0/bdrc/R/data.R | 40 bdrc-2.0.0/bdrc/R/extract_draws.R | 184 +- bdrc-2.0.0/bdrc/R/gplm.R | 632 ++++----- bdrc-2.0.0/bdrc/R/gplm0.R | 476 +++---- bdrc-2.0.0/bdrc/R/help_functions.R | 1017 ++++++++------- bdrc-2.0.0/bdrc/R/plm.R | 401 ++--- bdrc-2.0.0/bdrc/R/plm0.R | 342 ++--- bdrc-2.0.0/bdrc/R/plm_methods.R | 591 ++++---- bdrc-2.0.0/bdrc/R/report.R | 265 +-- bdrc-2.0.0/bdrc/R/tournament.R | 340 +++-- bdrc-2.0.0/bdrc/R/tournament_methods.R | 441 ++++-- bdrc-2.0.0/bdrc/README.md | 86 - bdrc-2.0.0/bdrc/build/vignette.rds |binary bdrc-2.0.0/bdrc/inst/doc/background.R | 4 bdrc-2.0.0/bdrc/inst/doc/background.Rmd | 14 bdrc-2.0.0/bdrc/inst/doc/background.html | 16 bdrc-2.0.0/bdrc/inst/doc/introduction.R | 72 - bdrc-2.0.0/bdrc/inst/doc/introduction.Rmd | 96 - bdrc-2.0.0/bdrc/inst/doc/introduction.html | 479 +++---- bdrc-2.0.0/bdrc/inst/doc/tournament.R | 56 bdrc-2.0.0/bdrc/inst/doc/tournament.Rmd | 290 +++- bdrc-2.0.0/bdrc/inst/doc/tournament.html | 882 +++++++++---- bdrc-2.0.0/bdrc/man/autoplot.plm0.Rd | 48 bdrc-2.0.0/bdrc/man/autoplot.tournament.Rd | 16 bdrc-2.0.0/bdrc/man/evaluate_comparison.Rd |only bdrc-2.0.0/bdrc/man/gather_draws.Rd | 34 bdrc-2.0.0/bdrc/man/get_report.Rd | 16 bdrc-2.0.0/bdrc/man/get_report_pages.Rd | 26 bdrc-2.0.0/bdrc/man/gplm.Rd | 100 - bdrc-2.0.0/bdrc/man/gplm0.Rd | 84 - bdrc-2.0.0/bdrc/man/jokdal.Rd | 4 bdrc-2.0.0/bdrc/man/jokfjoll.Rd | 4 bdrc-2.0.0/bdrc/man/kallstorp.Rd | 4 bdrc-2.0.0/bdrc/man/krokfors.Rd | 4 bdrc-2.0.0/bdrc/man/melby.Rd | 4 bdrc-2.0.0/bdrc/man/nordura.Rd | 4 bdrc-2.0.0/bdrc/man/norn.Rd | 4 bdrc-2.0.0/bdrc/man/plm.Rd | 88 - bdrc-2.0.0/bdrc/man/plm0.Rd | 74 - bdrc-2.0.0/bdrc/man/plot.plm0.Rd | 54 bdrc-2.0.0/bdrc/man/plot.tournament.Rd | 44 bdrc-2.0.0/bdrc/man/plot_fun.Rd | 38 bdrc-2.0.0/bdrc/man/predict.plm0.Rd | 25 bdrc-2.0.0/bdrc/man/print.plm0.Rd | 2 bdrc-2.0.0/bdrc/man/print.tournament.Rd | 4 bdrc-2.0.0/bdrc/man/skjalf.Rd | 4 bdrc-2.0.0/bdrc/man/skogsliden.Rd | 4 bdrc-2.0.0/bdrc/man/spanga.Rd | 4 bdrc-2.0.0/bdrc/man/spread_draws.Rd | 34 bdrc-2.0.0/bdrc/man/summary.plm0.Rd | 2 bdrc-2.0.0/bdrc/man/summary.tournament.Rd | 29 bdrc-2.0.0/bdrc/man/theme_bdrc.Rd | 6 bdrc-2.0.0/bdrc/man/tournament.Rd | 87 + bdrc-2.0.0/bdrc/man/tournament_summary_output.Rd |only bdrc-2.0.0/bdrc/src |only bdrc-2.0.0/bdrc/tests/testthat/Rplots.pdf |only bdrc-2.0.0/bdrc/tests/testthat/helper-comparison.R | 26 bdrc-2.0.0/bdrc/tests/testthat/setup.R | 21 bdrc-2.0.0/bdrc/tests/testthat/test-extract_draws.R | 161 +- bdrc-2.0.0/bdrc/tests/testthat/test-gplm.R | 250 ++- bdrc-2.0.0/bdrc/tests/testthat/test-gplm0.R | 232 ++- bdrc-2.0.0/bdrc/tests/testthat/test-help_functions.R |only bdrc-2.0.0/bdrc/tests/testthat/test-plm.R | 219 ++- bdrc-2.0.0/bdrc/tests/testthat/test-plm0.R | 203 ++ bdrc-2.0.0/bdrc/tests/testthat/test-plm_methods.R | 263 ++- bdrc-2.0.0/bdrc/tests/testthat/test-report.R | 128 + bdrc-2.0.0/bdrc/tests/testthat/test-tournament.R | 146 +- bdrc-2.0.0/bdrc/tests/testthat/test-tournament_methods.R | 83 + bdrc-2.0.0/bdrc/vignettes/background.Rmd | 14 bdrc-2.0.0/bdrc/vignettes/introduction.Rmd | 96 - bdrc-2.0.0/bdrc/vignettes/introduction_files |only bdrc-2.0.0/bdrc/vignettes/tournament.Rmd | 290 +++- 79 files changed, 5989 insertions(+), 3951 deletions(-)
Title: Useful Tools for Structural Equation Modeling
Description: Provides miscellaneous tools for structural equation modeling,
many of which extend the 'lavaan' package. For example, latent
interactions can be estimated using product indicators (Lin et al.,
2010, <doi:10.1080/10705511.2010.488999>) and simple effects probed;
analytical power analyses can be conducted (Jak et al., 2021,
<doi:10.3758/s13428-020-01479-0>); and scale reliability
can be estimated based on estimated factor-model parameters.
Author: Terrence D. Jorgensen [aut, cre] ,
Sunthud Pornprasertmanit [aut] ,
Alexander M. Schoemann [aut] ,
Yves Rosseel [aut] ,
Patrick Miller [ctb],
Corbin Quick [ctb],
Mauricio Garnier-Villarreal [ctb] ,
James Selig [ctb],
Aaron Boulton [ctb],
Kristopher P [...truncated...]
Maintainer: Terrence D. Jorgensen <TJorgensen314@gmail.com>
Diff between semTools versions 0.5-7 dated 2025-03-13 and 0.5-8 dated 2026-02-14
semTools-0.5-7/semTools/R/efa.R |only semTools-0.5-7/semTools/R/longInvariance.R |only semTools-0.5-7/semTools/R/measurementInvariance.R |only semTools-0.5-7/semTools/R/measurementInvarianceCat.R |only semTools-0.5-7/semTools/R/runMI-LRT.R |only semTools-0.5-7/semTools/R/runMI-Wald.R |only semTools-0.5-7/semTools/R/runMI-methods.R |only semTools-0.5-7/semTools/R/runMI-modification.R |only semTools-0.5-7/semTools/R/runMI-score.R |only semTools-0.5-7/semTools/R/runMI.R |only semTools-0.5-7/semTools/man/EFA-class.Rd |only semTools-0.5-7/semTools/man/OLDlavaan.mi-class.Rd |only semTools-0.5-7/semTools/man/calculate.D2-deprecated.Rd |only semTools-0.5-7/semTools/man/efaUnrotate-deprecated.Rd |only semTools-0.5-7/semTools/man/lavTestLRT.mi-deprecated.Rd |only semTools-0.5-7/semTools/man/lavTestScore.mi-deprecated.Rd |only semTools-0.5-7/semTools/man/lavTestWald.mi-deprecated.Rd |only semTools-0.5-7/semTools/man/longInvariance-deprecated.Rd |only semTools-0.5-7/semTools/man/measurementInvariance-deprecated.Rd |only semTools-0.5-7/semTools/man/measurementInvarianceCat-deprecated.Rd |only semTools-0.5-7/semTools/man/miPowerFit.Rd |only semTools-0.5-7/semTools/man/modindices.mi-deprecated.Rd |only semTools-0.5-7/semTools/man/rotate-deprecated.Rd |only semTools-0.5-7/semTools/man/runMI-deprecated.Rd |only semTools-0.5-8/semTools/DESCRIPTION | 53 semTools-0.5-8/semTools/MD5 | 106 semTools-0.5-8/semTools/NAMESPACE | 33 semTools-0.5-8/semTools/NEWS.md | 43 semTools-0.5-8/semTools/R/clipboard.R | 20 semTools-0.5-8/semTools/R/compareFit.R | 57 semTools-0.5-8/semTools/R/dataDiagnosis.R | 8 semTools-0.5-8/semTools/R/fitIndices.R | 47 semTools-0.5-8/semTools/R/indProd.R | 25 semTools-0.5-8/semTools/R/measEq.R | 8 semTools-0.5-8/semTools/R/miPowerFit.R | 1887 +++++++-- semTools-0.5-8/semTools/R/missingBootstrap.R | 8 semTools-0.5-8/semTools/R/monteCarloCI.R | 13 semTools-0.5-8/semTools/R/partialInvariance.R | 255 - semTools-0.5-8/semTools/R/permuteMeasEq.R | 9 semTools-0.5-8/semTools/R/plausibleValues.R | 6 semTools-0.5-8/semTools/R/powerAnalysisRMSEA.R | 4 semTools-0.5-8/semTools/R/reliability.R | 1956 +++++----- semTools-0.5-8/semTools/R/semTools.R | 2 semTools-0.5-8/semTools/R/singleParamTest.R | 244 + semTools-0.5-8/semTools/build/partial.rdb |binary semTools-0.5-8/semTools/build/vignette.rds |binary semTools-0.5-8/semTools/inst/doc/partialInvariance.pdf |binary semTools-0.5-8/semTools/man/bsBootMiss.Rd | 3 semTools-0.5-8/semTools/man/chisqSmallN.Rd | 4 semTools-0.5-8/semTools/man/clipboard.Rd | 14 semTools-0.5-8/semTools/man/compRelSEM.Rd | 661 +-- semTools-0.5-8/semTools/man/epcEquivCheck.Rd |only semTools-0.5-8/semTools/man/epcEquivFit.Rd |only semTools-0.5-8/semTools/man/indProd.Rd | 23 semTools-0.5-8/semTools/man/kurtosis.Rd | 2 semTools-0.5-8/semTools/man/measEq.syntax.Rd | 2 semTools-0.5-8/semTools/man/monteCarloCI.Rd | 6 semTools-0.5-8/semTools/man/moreFitIndices.Rd | 4 semTools-0.5-8/semTools/man/nullRMSEA.Rd | 2 semTools-0.5-8/semTools/man/partialInvariance.Rd | 101 semTools-0.5-8/semTools/man/permuteMeasEq.Rd | 7 semTools-0.5-8/semTools/man/plausibleValues.Rd | 4 semTools-0.5-8/semTools/man/plotRMSEApower.Rd | 2 semTools-0.5-8/semTools/man/semTools-deprecated.Rd | 143 semTools-0.5-8/semTools/man/semTools.Rd | 2 semTools-0.5-8/semTools/man/singleParamTest.Rd | 20 semTools-0.5-8/semTools/man/skew.Rd | 4 67 files changed, 3694 insertions(+), 2094 deletions(-)
Title: Portable Native and Joint Stack Traces
Description: Obtain the native stack trace and fuse it with R's
stack trace for easier debugging of R packages with native code.
Author: Kirill Mueller [aut, cre] ,
R Consortium [fnd],
Ian Lance Taylor [aut] ,
Free Software Foundation [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between winch versions 0.1.2 dated 2025-05-01 and 0.1.3 dated 2026-02-14
DESCRIPTION | 10 +-- MD5 | 10 +-- NEWS.md | 33 +++++++++++++ build/vignette.rds |binary inst/doc/report.html | 128 +++++++++++++++++++++++++-------------------------- tests/example6.R | 2 6 files changed, 107 insertions(+), 76 deletions(-)
Title: Predictions, Comparisons, Slopes, Marginal Means, and Hypothesis
Tests
Description: Compute and plot predictions, slopes, marginal means, and comparisons (contrasts, risk ratios, odds, etc.) for over 100 classes of statistical and machine learning models in R. Conduct linear and non-linear hypothesis tests, or equivalence tests. Calculate uncertainty estimates using the delta method, bootstrapping, or simulation-based inference. Details can be found in Arel-Bundock, Greifer, and Heiss (2024) <doi:10.18637/jss.v111.i09>.
Author: Vincent Arel-Bundock [aut, cre, cph] ,
Noah Greifer [ctb] ,
Etienne Bacher [ctb] ,
Grant McDermott [ctb] ,
Andrew Heiss [ctb]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between marginaleffects versions 0.31.0 dated 2025-11-14 and 0.32.0 dated 2026-02-14
DESCRIPTION | 52 +++++------ MD5 | 95 ++++++++++---------- NAMESPACE | 4 NEWS.md | 17 +++ R/autodiff.R | 27 ++++- R/comparisons.R | 14 +-- R/datagrid.R | 31 +++++- R/get_comparisons.R | 20 +++- R/get_comparisons_data.R | 2 R/get_modeldata.R | 13 +- R/get_predict.R | 44 ++++----- R/get_se_delta.R | 2 R/get_vcov.R | 2 R/hypotheses.R | 2 R/hypothesis_string.R | 2 R/inferences.R | 1 R/methods_DirichletReg.R |only R/methods_betareg.R | 2 R/methods_dbarts.R | 2 R/methods_fixest.R | 17 +++ R/methods_robustlmm.R | 2 R/methods_survey.R | 10 +- R/plot_build.R | 60 +++++++++--- R/plot_comparisons.R | 4 R/plot_predictions.R | 66 +++++--------- R/plot_slopes.R | 2 R/predictions.R | 8 - R/sanitize_newdata.R | 21 ++++ R/sanity_model.R | 30 +++--- R/slopes.R | 10 +- R/type_dictionary.R | 1 R/unpack_matrix_cols.R | 4 R/utils.R | 21 ++++ man/autodiff.Rd | 14 +-- man/comparisons.Rd | 190 +++++++++++++++++++++++++++++------------ man/get_coef.Rd | 7 + man/get_dataset.Rd | 2 man/get_group_names.Rd | 2 man/get_predict.Rd | 27 +++-- man/get_vcov.Rd | 2 man/hypotheses.Rd | 6 - man/inferences.Rd | 1 man/plot_comparisons.Rd | 14 --- man/plot_predictions.Rd | 81 ++++++++++++++++- man/plot_slopes.Rd | 4 man/predictions.Rd | 104 ++++++++++++++++++---- man/sanitize_model_specific.Rd | 34 ++++--- man/set_coef.Rd | 20 ++-- man/slopes.Rd | 104 ++++++++++++++++++---- 49 files changed, 825 insertions(+), 375 deletions(-)
More information about marginaleffects at CRAN
Permanent link
Title: R Interface to 'Keras'
Description: Interface to 'Keras' <https://keras.io>, a high-level neural
networks 'API'. 'Keras' was developed with a focus on enabling fast experimentation,
supports both convolution based networks and recurrent networks (as well as
combinations of the two), and runs seamlessly on both 'CPU' and 'GPU' devices.
Author: Tomasz Kalinowski [ctb, cph, cre],
Daniel Falbel [ctb, cph],
JJ Allaire [aut, cph],
Francois Chollet [aut, cph],
RStudio [ctb, cph, fnd],
Google [ctb, cph, fnd],
Yuan Tang [ctb, cph] ,
Wouter Van Der Bijl [ctb, cph],
Martin Studer [ctb, cph],
Sigrid [...truncated...]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between keras versions 2.16.0 dated 2025-08-18 and 2.16.1 dated 2026-02-14
DESCRIPTION | 8 ++--- MD5 | 56 +++++++++++++++++------------------ NEWS.md | 2 + R/model-custom.R | 2 - R/package.R | 6 +++ R/py-classes.R | 3 - build/vignette.rds |binary inst/doc/applications.html | 3 - inst/doc/custom_layers.html | 3 - inst/doc/custom_models.html | 3 - inst/doc/faq.html | 3 - inst/doc/functional_api.Rmd | 10 +----- inst/doc/functional_api.html | 16 +++++----- inst/doc/guide_keras.html | 3 - inst/doc/index.Rmd | 2 - inst/doc/index.html | 9 ++--- inst/doc/saving_serializing.Rmd | 7 ++-- inst/doc/saving_serializing.html | 9 +++-- inst/doc/sequential_model.Rmd | 17 +++++----- inst/doc/sequential_model.html | 35 ++++++++++----------- inst/doc/training_callbacks.html | 3 - inst/doc/training_visualization.html | 9 ++--- man/grapes-set-active-grapes.Rd | 2 - man/keras_model_custom.Rd | 2 - tests/testthat/helper-utils.R | 21 ++++++++++--- vignettes/functional_api.Rmd | 10 +----- vignettes/index.Rmd | 2 - vignettes/saving_serializing.Rmd | 7 ++-- vignettes/sequential_model.Rmd | 17 +++++----- 29 files changed, 136 insertions(+), 134 deletions(-)
Title: Fast Algorithms for Fitting Topic Models and Non-Negative Matrix
Factorizations to Count Data
Description: Implements fast, scalable optimization algorithms for
fitting topic models ("grade of membership" models) and
non-negative matrix factorizations to count data. The methods
exploit the special relationship between the multinomial topic
model (also, "probabilistic latent semantic indexing") and Poisson
non-negative matrix factorization. The package provides tools to
compare, annotate and visualize model fits, including functions to
efficiently create "structure plots" and identify key features in
topics. The 'fastTopics' package is a successor to the
'CountClust' package. For more information, see
<doi:10.48550/arXiv.2105.13440> and
<doi:10.1186/s13059-023-03067-9>. Please also see the GitHub
repository for additional vignettes not included in the package on
CRAN.
Author: Peter Carbonetto [aut, cre],
Kevin Luo [aut],
Kushal Dey [aut],
Joyce Hsiao [ctb],
Abhishek Sarkar [ctb],
Anthony Hung [ctb],
Xihui Lin [ctb],
Paul C. Boutros [ctb],
Minzhe Wang [ctb],
Tracy Ke [ctb],
Eric Weine [ctb],
Matthew Stephens [aut]
Maintainer: Peter Carbonetto <peter.carbonetto@gmail.com>
Diff between fastTopics versions 0.7-37 dated 2025-12-23 and 0.7-38 dated 2026-02-14
DESCRIPTION | 10 ++-- MD5 | 16 +++--- R/fit_poisson_nmf.R | 2 inst/doc/relationship.html | 12 ++--- inst/doc/single_cell_rnaseq_basic.html | 53 +++++++++++----------- inst/doc/topics_vs_clusters.R | 18 +++---- inst/doc/topics_vs_clusters.Rmd | 20 ++++---- inst/doc/topics_vs_clusters.html | 78 ++++++++++++++++----------------- vignettes/topics_vs_clusters.Rmd | 20 ++++---- 9 files changed, 115 insertions(+), 114 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-06 0.3.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-01-27 0.1.0
Title: Time Series for 'iNZight'
Description: Provides a collection of functions for working with time series data, including functions for drawing, decomposing, and forecasting. Includes capabilities to compare multiple series and fit both additive and multiplicative models. Used by 'iNZight', a graphical user interface providing easy exploration and visualisation of data for students of statistics, available in both desktop and online versions. Holt (1957) <doi:10.1016/j.ijforecast.2003.09.015>, Winters (1960) <doi:10.1287/mnsc.6.3.324>, Cleveland, Cleveland, & Terpenning (1990) "STL: A Seasonal-Trend Decomposition Procedure Based on Loess".
Author: Tom Elliott [aut, cre] ,
Zhaoming Su [aut],
Junjie Zeng [ctb],
Simon Potter [ctb],
David Banks [ctb],
Marco Kuper [ctb],
Dongning Zhang [ctb]
Maintainer: Tom Elliott <tom.elliott@auckland.ac.nz>
Diff between iNZightTS versions 2.0.3 dated 2026-01-16 and 2.0.4 dated 2026-02-13
DESCRIPTION | 14 +++++++------- MD5 | 14 +++++++------- R/feat.R | 4 ++-- R/forecastplot.R | 4 ++-- R/rawplot.R | 2 +- R/seasonplot.R | 6 +++--- man/subseries.Rd | 2 +- tests/testthat/test_plots.R | 1 + 8 files changed, 24 insertions(+), 23 deletions(-)
Title: Generating Cluster Masks for Single-Cell Dimensional Reduction
Plots
Description: Implements a procedure to automatically generate 2D masks
for clusters on dimensional reduction plots from methods like
t-SNE (t-distributed stochastic neighbor embedding) or
UMAP (uniform manifold approximation and projection),
with a focus on single-cell RNA-sequencing data.
Author: Alexey Sergushichev [aut, cre]
Maintainer: Alexey Sergushichev <alsergbox@gmail.com>
Diff between mascarade versions 0.3.0 dated 2026-01-12 and 0.3.1 dated 2026-02-13
DESCRIPTION | 11 - MD5 | 23 +-- NAMESPACE | 3 NEWS.md | 3 R/fancyMask.R | 182 +++++++++++++++++++++++--- R/mark_shape.R | 2 inst/doc/mascarade-gallery.html | 12 - inst/doc/mascarade-tutorial.R | 22 +-- inst/doc/mascarade-tutorial.Rmd | 31 ++-- inst/doc/mascarade-tutorial.html | 269 +++++++++++++++++++-------------------- man/fancyMask.Rd | 30 +++- tests/testthat/test-fancyMask.R |only vignettes/mascarade-tutorial.Rmd | 31 ++-- 13 files changed, 388 insertions(+), 231 deletions(-)
Title: Download Time Series Data from the U.S. Bureau of Labor
Statistics
Description: These functions provide a convenient interface for downloading data from the U.S. Bureau of Labor Statistics <https://www.bls.gov>. The functions in this package utilize flat files produced by the Bureau of Labor Statistics, which contain full series history. These files include employment, unemployment, wages, prices, industry and occupational data at a national, state, and sub-state level, depending on the series. Individual functions are included for those programs which have data available at the state level. The core functions provide direct access to the Current Employment Statistics (CES) <https://www.bls.gov/ces/>, Local Area Unemployment Statistics (LAUS) <https://www.bls.gov/lau/>, Occupational Employment and Wage Statistics (OEWS) <https://www.bls.gov/oes/> and Alternative Measures of Labor Underutilization (SALT) <https://www.bls.gov/lau/stalt.htm> data produced by the Bureau of Labor Statistics.
Author: Nevada Department of Employment, Training, and Rehabilitation [cph],
David Schmidt [aut, cre],
Mark Rembert [aut]
Maintainer: David Schmidt <deschmidt@detr.nv.gov>
Diff between BLSloadR versions 0.2 dated 2025-11-25 and 0.4 dated 2026-02-13
DESCRIPTION | 17 +- MD5 | 78 ++++++---- NAMESPACE | 18 ++ NEWS.md | 95 ++++++++++++- R/bls_overview.R | 6 R/ces_helpers.R |only R/data.R |only R/download_helpers.R | 227 ++++++++++++++++++++++++++----- R/fread_bls.R | 253 ++++++++++++---------------------- R/get_ces.R | 284 ++++++++++++++++++++++++++++++++++----- R/get_jolts.R | 5 R/get_laus.R | 10 - R/get_national_ces.R | 184 ++++++++++++++++--------- R/get_oews.R | 204 ++++++++++++++++++++++++++-- R/get_qcew.R |only R/get_salt.R | 1 R/globals.R | 8 + R/load_bls_dataset.R | 114 ++++++++++++--- R/national_ces_helpers.R |only README.md | 8 - build/vignette.rds |binary data |only inst/doc/BLSloadR-intro.Rmd | 59 +++++++- inst/doc/BLSloadR-intro.html | 107 +++++++++++++- inst/doc/File-cache-guide.R |only inst/doc/File-cache-guide.Rmd |only inst/doc/File-cache-guide.html |only man/area_lookup.Rd |only man/bls_get_cache_dir.Rd |only man/bls_overview.Rd | 6 man/check_bls_cache_env.Rd |only man/download_bls_files.Rd | 4 man/fread_bls.Rd | 17 -- man/get_ces.Rd | 165 +++++++++++++++------- man/get_jolts.Rd | 5 man/get_laus.Rd | 10 - man/get_national_ces.Rd | 202 ++++++++++++++++----------- man/get_oews.Rd | 8 - man/get_oews_areas.Rd |only man/get_qcew.Rd |only man/ind_lookup.Rd |only man/list_ces_industries.Rd |only man/list_ces_states.Rd |only man/list_national_ces_options.Rd |only man/load_bls_dataset.Rd | 34 ++++ man/show_ces_options.Rd |only man/show_national_ces_options.Rd |only man/smart_bls_download.Rd |only vignettes/BLSloadR-intro.Rmd | 59 +++++++- vignettes/File-cache-guide.Rmd |only 50 files changed, 1633 insertions(+), 555 deletions(-)
Title: Flexible Cutoffs for Model Fit Evaluation in Covariance-Based
Structural Models
Description: A toolbox to derive flexible cutoffs for fit indices in
'Covariance-based Structural Equation Modeling' based on the paper by
'Niemand & Mai (2018)' <doi:10.1007/s11747-018-0602-9>. Flexible
cutoffs are an alternative to fixed cutoffs - rules-of-thumb -
regarding an appropriate cutoff for fit indices such as 'CFI' or
'SRMR'. It has been demonstrated that these flexible cutoffs perform
better than fixed cutoffs in grey areas where misspecification is not
easy to detect. The package provides an alternative to the tool at
<https://flexiblecutoffs.org> as it allows to tailor flexible cutoffs
to a given dataset and model, which is so far not available in the
tool. The package simulates fit indices based on a given dataset and
model and then estimates the flexible cutoffs. Some useful functions,
e.g., to determine the 'GoF-' or 'BoF-nature' of a fit index, are
provided. So far, additional options for a relative use (is a model
better than another?) are provided in an explorat [...truncated...]
Author: Thomas Niemand [aut, cre] ,
Robert Mai [ctb] ,
Nadine Schroeder [ctb] ,
Andreas Falke [ctb]
Maintainer: Thomas Niemand <thomas.niemand@gmail.com>
Diff between FCO versions 2.0.0 dated 2025-09-25 and 2.0.1 dated 2026-02-13
DESCRIPTION | 10 - MD5 | 19 +- NEWS.md | 8 - R/gen_fit.R | 4 R/mardia.R |only README.md | 8 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/FCO.R | 278 +++++++++++++++++++++--------------------- inst/doc/FCO.html | 2 tests/testthat/test-gen_fit.R | 5 11 files changed, 171 insertions(+), 163 deletions(-)
Title: Unique Location Extractor
Description: Extracts coordinates of an event location from text based on dictionaries of landmarks, roads, and areas. Only returns the location of an event of interest and ignores other location references; for example, if determining the location of a road traffic crash from the text "crash near [location 1] heading towards [location 2]", only the coordinates of "location 1" would be returned. Moreover, accounts for differences in spelling between how a user references a location and how a location is captured in location dictionaries. For more information on the algorithm, see Milusheva et al. (2021) <doi:10.1371/journal.pone.0244317>.
Author: Robert Marty [aut, cre]
Maintainer: Robert Marty <rmarty@worldbank.org>
Diff between ulex versions 0.1.0 dated 2024-06-17 and 0.1.1 dated 2026-02-13
DESCRIPTION | 14 ++++++++------ MD5 | 6 +++--- R/locate_event.R | 2 +- man/figures/README-unnamed-chunk-6-1.png |binary 4 files changed, 12 insertions(+), 10 deletions(-)
Title: Detect and Treat Outliers in Data Mining
Description: Implements a suite of tools for outlier detection and treatment
in data mining. It includes univariate methods (Z-score, Interquartile Range),
multivariate detection using Mahalanobis distance, and density-based
detection (Local Outlier Factor) via the 'dbscan' package. It also
provides functions for visualization using 'ggplot2' and data cleaning
via Winsorization.
Author: Daniel Lopez Perez [aut, cre]
Maintainer: Daniel Lopez Perez <dlopez350@icloud.com>
Diff between quickOutlier versions 0.1.0 dated 2025-12-19 and 0.1.5 dated 2026-02-13
DESCRIPTION | 18 MD5 | 26 NAMESPACE | 15 NEWS.md |only R/detect_categorical.R |only R/detect_iforest.R |only R/detect_timeseries.R |only R/diagnose_model.R |only R/plot_interactive.R |only build/vignette.rds |binary inst/doc/introduction.R | 131 +- inst/doc/introduction.Rmd | 187 ++- inst/doc/introduction.html | 2157 ++++++++++++++++++++++++++++++++++-- man/detect_categorical_outliers.Rd |only man/detect_iforest.Rd |only man/detect_ts_outliers.Rd |only man/diagnose_influence.Rd |only man/plot_interactive.Rd |only tests/testthat/test-all_functions.R |only vignettes/introduction.Rmd | 187 ++- 20 files changed, 2455 insertions(+), 266 deletions(-)
Title: Logic Forest
Description: Logic Forest is an ensemble machine learning method that identifies important and interpretable combinations of binary predictors using logic regression trees to model complex relationships with an outcome. Wolf, B.J., Slate, E.H., Hill, E.G. (2010) <doi:10.1093/bioinformatics/btq354>.
Author: Bethany Wolf [aut],
Melica Nikahd [ctb, cre],
Andrew Gothard [ctb],
Madison Hyer [ctb]
Maintainer: Melica Nikahd <melica.nikahd@osumc.edu>
Diff between LogicForest versions 2.1.2 dated 2025-07-14 and 2.1.3 dated 2026-02-13
DESCRIPTION | 8 MD5 | 64 +++--- NAMESPACE | 5 R/TTab.R | 114 ++++++----- R/a.frame.logreg2.R | 267 ++++++++++++++------------ R/build.interactions.R |only R/find.ctree.R | 24 +- R/logforest.R | 5 R/p.combos.R | 25 +- R/perms.R | 23 +- R/pimp.import.R | 447 ++++++++++++++++++++++----------------------- R/pimp.mat.bin.R | 17 - R/pimp.mat.nonbin.R | 20 +- R/predict.logforest.R | 303 ++++++++++++++++-------------- R/predict.logreg2.R | 35 ++- R/prime.imp.R | 32 ++- R/print.LFprediction.R | 131 ++++++------- R/print.logforest.R | 143 +++++++------- R/proportion.positive.R | 32 ++- man/Perms.Rd | 17 + man/TTab.Rd | 21 +- man/build.interactions.Rd |only man/find.ctree.Rd | 19 + man/frame.logreg2.Rd | 35 ++- man/p.combos.Rd | 19 + man/pimp.import.Rd | 47 ++-- man/pimp.mat.bin.Rd | 16 - man/pimp.mat.nonbin.Rd | 19 + man/predict.logforest.Rd | 30 ++- man/predict.logreg2.Rd | 32 ++- man/prime.imp.Rd | 29 ++ man/print.LFprediction.Rd | 16 + man/print.logforest.Rd | 21 +- man/proportion.positive.Rd | 27 ++ 34 files changed, 1151 insertions(+), 892 deletions(-)
Title: In Vitro Toxicokinetic Data Processed with the 'invitroTKstats'
Pipeline
Description: A collection of datasets containing a variety of in vitro toxicokinetic
measurements including -- but not limited to -- chemical fraction unbound
in the presence of plasma (f_up), intrinsic hepatic clearance (Clint,
uL/min/million hepatocytes), and membrane permeability for
oral absorption (Caco2). The datasets provided by the package were
processed and analyzed with the companion 'invitroTKstats' package.
Author: Sarah E. Davidson-Fritz [aut] ,
Caroline Ring [cre] ,
John Wambaugh [aut] ,
Lindsay Knupp [ctb],
Barbara A. Wetmore [ctb] ,
Anna Kreutz [ctb] ,
Marci Smeltz [ctb] ,
David Crizer [ctb],
U.S. Federal Government [cph]
Maintainer: Caroline Ring <ring.caroline@epa.gov>
Diff between invitroTKdata versions 0.0.1 dated 2025-08-19 and 0.0.2 dated 2026-02-13
DESCRIPTION | 21 ++++++++++++--------- MD5 | 8 ++++---- NEWS.md | 7 +++++++ README.md | 12 ++++++++++-- build/partial.rdb |binary 5 files changed, 33 insertions(+), 15 deletions(-)
Title: Google Traffic
Description: Create geographically referenced traffic data from the Google Maps JavaScript API <https://developers.google.com/maps/documentation/javascript/examples/layer-traffic>.
Author: Robert Marty [aut, cre]
Maintainer: Robert Marty <rmarty@worldbank.org>
Diff between googletraffic versions 0.1.7 dated 2024-09-04 and 0.1.8 dated 2026-02-13
DESCRIPTION | 12 +++++++----- MD5 | 10 +++++----- R/gt_html_to_raster.R | 2 +- R/gt_make_grid.R | 9 ++++++--- R/gt_make_png.R | 41 ++++++++++++++++++++++++++++++++++------- README.md | 2 +- 6 files changed, 54 insertions(+), 22 deletions(-)
Title: Formal Concept Analysis
Description: Provides tools to perform fuzzy formal concept analysis, presented in Wille (1982) <doi:10.1007/978-3-642-01815-2_23> and in Ganter and Obiedkov (2016) <doi:10.1007/978-3-662-49291-8>. It provides functions to load and save a formal context, extract its concept lattice and implications. In addition, one can use the implications to compute semantic closures of fuzzy sets and, thus, build recommendation systems. Matrix factorization is provided by the GreConD+ algorithm (Belohlavek and Trneckova, 2024 <doi:10.1109/TFUZZ.2023.3330760>).
Author: Domingo Lopez Rodriguez [aut, cre] ,
Angel Mora [aut],
Jesus Dominguez [aut],
Ana Villalon [aut]
Maintainer: Domingo Lopez Rodriguez <dominlopez78@gmail.com>
Diff between fcaR versions 1.3.0 dated 2026-01-12 and 1.5.0 dated 2026-02-13
fcaR-1.3.0/fcaR/R/utils-pipe.R |only fcaR-1.3.0/fcaR/man/pipe.Rd |only fcaR-1.5.0/fcaR/DESCRIPTION | 16 fcaR-1.5.0/fcaR/MD5 | 162 +- fcaR-1.5.0/fcaR/NAMESPACE | 48 fcaR-1.5.0/fcaR/NEWS.md | 87 + fcaR-1.5.0/fcaR/R/RcppExports.R | 4 fcaR-1.5.0/fcaR/R/batch_apply.R | 4 fcaR-1.5.0/fcaR/R/brackets_R6.R | 11 fcaR-1.5.0/fcaR/R/causal.R |only fcaR-1.5.0/fcaR/R/check_many_valued.R | 52 fcaR-1.5.0/fcaR/R/clean.R | 4 fcaR-1.5.0/fcaR/R/compare_concepts.R | 18 fcaR-1.5.0/fcaR/R/compute_closure_fuzzy.R | 10 fcaR-1.5.0/fcaR/R/compute_grades.R | 2 fcaR-1.5.0/fcaR/R/concept_lattice.R | 231 ++- fcaR-1.5.0/fcaR/R/context_to_latex.R | 18 fcaR-1.5.0/fcaR/R/dplyr_implications.R |only fcaR-1.5.0/fcaR/R/dplyr_verbs.R |only fcaR-1.5.0/fcaR/R/entails_equiv.R | 6 fcaR-1.5.0/fcaR/R/export_to_latex.R | 18 fcaR-1.5.0/fcaR/R/export_to_string.R | 20 fcaR-1.5.0/fcaR/R/formal_context.R | 604 +++++++-- fcaR-1.5.0/fcaR/R/format_label.R | 2 fcaR-1.5.0/fcaR/R/holds_respects.R | 8 fcaR-1.5.0/fcaR/R/imp_to_basis.R | 8 fcaR-1.5.0/fcaR/R/imp_to_bsis_bg.R | 10 fcaR-1.5.0/fcaR/R/implication_set.R | 818 +++++-------- fcaR-1.5.0/fcaR/R/imps_to_arules.R | 34 fcaR-1.5.0/fcaR/R/latex_exporter.R | 96 + fcaR-1.5.0/fcaR/R/lattice_from_json.R |only fcaR-1.5.0/fcaR/R/lattice_plot.R | 89 - fcaR-1.5.0/fcaR/R/parser.R | 24 fcaR-1.5.0/fcaR/R/repository.R | 82 - fcaR-1.5.0/fcaR/R/rule_set.R |only fcaR-1.5.0/fcaR/R/scaling.R | 218 +-- fcaR-1.5.0/fcaR/R/simplification.R | 16 fcaR-1.5.0/fcaR/R/sparse_set.R | 8 fcaR-1.5.0/fcaR/R/to_cxt.R | 6 fcaR-1.5.0/fcaR/R/to_fraction.R | 93 - fcaR-1.5.0/fcaR/README.md | 108 - fcaR-1.5.0/fcaR/build/vignette.rds |binary fcaR-1.5.0/fcaR/inst/doc/causal.R |only fcaR-1.5.0/fcaR/inst/doc/causal.Rmd |only fcaR-1.5.0/fcaR/inst/doc/causal.html |only fcaR-1.5.0/fcaR/inst/doc/concept_lattice.html | 6 fcaR-1.5.0/fcaR/inst/doc/conceptual-scaling.R | 46 fcaR-1.5.0/fcaR/inst/doc/conceptual-scaling.Rmd | 46 fcaR-1.5.0/fcaR/inst/doc/conceptual-scaling.html | 2 fcaR-1.5.0/fcaR/inst/doc/extending_equivalence.html | 25 fcaR-1.5.0/fcaR/inst/doc/fcaR_dplyr.R |only fcaR-1.5.0/fcaR/inst/doc/fcaR_dplyr.Rmd |only fcaR-1.5.0/fcaR/inst/doc/fcaR_dplyr.html |only fcaR-1.5.0/fcaR/inst/doc/implications.html | 24 fcaR-1.5.0/fcaR/inst/doc/json_export_import.R |only fcaR-1.5.0/fcaR/inst/doc/json_export_import.Rmd |only fcaR-1.5.0/fcaR/inst/doc/json_export_import.html |only fcaR-1.5.0/fcaR/inst/doc/lattice_properties.Rmd | 2 fcaR-1.5.0/fcaR/inst/doc/lattice_properties.html | 9 fcaR-1.5.0/fcaR/inst/doc/lattice_visualization.html | 10 fcaR-1.5.0/fcaR/inst/doc/matrix_factorization.html | 16 fcaR-1.5.0/fcaR/inst/doc/random_contexts.html | 4 fcaR-1.5.0/fcaR/man/ConceptLattice.Rd | 41 fcaR-1.5.0/fcaR/man/FormalContext.Rd | 77 - fcaR-1.5.0/fcaR/man/ImplicationSet.Rd | 311 +--- fcaR-1.5.0/fcaR/man/RuleSet.Rd |only fcaR-1.5.0/fcaR/man/Set.Rd | 6 fcaR-1.5.0/fcaR/man/context_from_json.Rd |only fcaR-1.5.0/fcaR/man/dplyr_rules.Rd |only fcaR-1.5.0/fcaR/man/dplyr_verbs.Rd |only fcaR-1.5.0/fcaR/man/fcaR-package.Rd | 2 fcaR-1.5.0/fcaR/man/find_causal_rules.Rd |only fcaR-1.5.0/fcaR/man/implications_from_json.Rd |only fcaR-1.5.0/fcaR/man/lattice_from_json.Rd |only fcaR-1.5.0/fcaR/man/print.tikz_code.Rd |only fcaR-1.5.0/fcaR/man/rules_from_json.Rd |only fcaR-1.5.0/fcaR/src/MatrixFactorization.cpp | 759 +++++++++--- fcaR-1.5.0/fcaR/src/RcppExports.cpp | 18 fcaR-1.5.0/fcaR/src/fuzzy_do.cpp | 168 ++ fcaR-1.5.0/fcaR/tests/testthat/Rplots.pdf |binary fcaR-1.5.0/fcaR/tests/testthat/test-causal.R |only fcaR-1.5.0/fcaR/tests/testthat/test-concept_lattice.R | 42 fcaR-1.5.0/fcaR/tests/testthat/test-coverage_sniper.R |only fcaR-1.5.0/fcaR/tests/testthat/test-dplyr.R |only fcaR-1.5.0/fcaR/tests/testthat/test-factorization.R |only fcaR-1.5.0/fcaR/tests/testthat/test-formal_context.R | 177 ++ fcaR-1.5.0/fcaR/tests/testthat/test-implication_set.R | 95 + fcaR-1.5.0/fcaR/tests/testthat/test-json.R |only fcaR-1.5.0/fcaR/tests/testthat/test-many_valued.R | 10 fcaR-1.5.0/fcaR/tests/testthat/test-metrics.R | 29 fcaR-1.5.0/fcaR/tests/testthat/test-metrics_stability.R |only fcaR-1.5.0/fcaR/tests/testthat/test-rules_simplification.R |only fcaR-1.5.0/fcaR/tests/testthat/test-scaling_advanced.R |only fcaR-1.5.0/fcaR/tests/testthat/test-sparse_set.R | 24 fcaR-1.5.0/fcaR/tests/testthat/test-visualization.R | 24 fcaR-1.5.0/fcaR/vignettes/causal.Rmd |only fcaR-1.5.0/fcaR/vignettes/conceptual-scaling.Rmd | 46 fcaR-1.5.0/fcaR/vignettes/fcaR_dplyr.Rmd |only fcaR-1.5.0/fcaR/vignettes/json_export_import.Rmd |only fcaR-1.5.0/fcaR/vignettes/lattice_properties.Rmd | 2 100 files changed, 3208 insertions(+), 1748 deletions(-)
Title: Analysis of Nonlinear Time Series Through Threshold
Autoregressive Moving Average Models (TARMA) Models
Description: Routines for nonlinear time series analysis based on Threshold Autoregressive Moving Average (TARMA) models. It provides functions and methods for: TARMA model fitting and forecasting, including robust estimators, see Goracci et al. JBES (2025) <doi:10.1080/07350015.2024.2412011>; tests for threshold effects, see Giannerini et al. JoE (2024) <doi:10.1016/j.jeconom.2023.01.004>, Goracci et al. Statistica Sinica (2023) <doi:10.5705/ss.202021.0120>, Angelini et al. (2024) OBES <doi:10.1111/obes.12647>; unit-root tests based on TARMA models, see Chan et al. Statistica Sinica (2024) <doi:10.5705/ss.202022.0125>.
Author: Simone Giannerini [aut, cre] ,
Greta Goracci [aut]
Maintainer: Simone Giannerini <simone.giannerini@uniud.it>
Diff between tseriesTARMA versions 0.5-1 dated 2024-10-08 and 0.5-2 dated 2026-02-13
DESCRIPTION | 15 +- MD5 | 38 +++--- NEWS.md | 11 + R/CritValues.R | 2 R/TARMA.fit.R | 17 +- R/TARMAGARCH.test.R | 2 R/TARMAur.test.B.R | 2 R/TARMAur.test.R | 87 +++++++-------- R/plot.tsfit.R | 2 R/print.TARMA.R | 1 R/tseriesTARMA.R | 10 + README.md | 19 +-- build/partial.rdb |binary build/stage23.rdb |binary inst/REFERENCES.bib | 40 ++++-- man/TARMA.fit.Rd | 15 +- man/TARMAGARCH.test.Rd | 282 ++++++++++++++++++++++++------------------------- man/TARMAur.test.B.Rd | 2 man/TARMAur.test.Rd | 9 - man/tseriesTARMA.Rd | 86 +++++++------- 20 files changed, 341 insertions(+), 299 deletions(-)
Title: Synthesize Bio API Wrapper
Description: Access Synthesize Bio models from their API <https://app.synthesize.bio/> using
this wrapper that provides a convenient interface to the Synthesize Bio API, allowing users
to generate realistic gene expression data based on specified biological conditions. This package
enables researchers to easily access AI-generated transcriptomic data for various
modalities including bulk RNA-seq, single-cell RNA-seq, microarray data, and more.
Author: Synthesize Bio [aut, cre]
Maintainer: Synthesize Bio <candace@synthesize.bio>
Diff between rsynthbio versions 4.0.0 dated 2025-12-03 and 4.0.1 dated 2026-02-13
DESCRIPTION | 6 MD5 | 36 ++- NAMESPACE | 1 NEWS.md | 13 - R/call_model_api.R | 18 + README.md | 193 +++--------------- build/vignette.rds |binary inst/doc/baseline.R |only inst/doc/baseline.Rmd |only inst/doc/baseline.html |only inst/doc/getting-started.R | 109 ---------- inst/doc/getting-started.Rmd | 283 +++----------------------- inst/doc/getting-started.html | 370 ++++++----------------------------- inst/doc/metadata-prediction.R |only inst/doc/metadata-prediction.Rmd |only inst/doc/metadata-prediction.html |only inst/doc/reference-conditioning.R |only inst/doc/reference-conditioning.Rmd |only inst/doc/reference-conditioning.html |only man/get_example_query.Rd | 4 man/predict_query.Rd | 8 vignettes/baseline.Rmd |only vignettes/getting-started.Rmd | 283 +++----------------------- vignettes/metadata-prediction.Rmd |only vignettes/reference-conditioning.Rmd |only 25 files changed, 232 insertions(+), 1092 deletions(-)
Title: Estimating and Displaying Population Attributable Fractions
Description: Estimation and display of various types of population attributable
fraction and impact fractions. As well as the usual calculations of
attributable fractions and impact fractions, functions are provided for
attributable fraction nomograms and fan plots, continuous exposures, for
pathway specific population attributable fractions, and for joint, average
and sequential population attributable fractions.
Author: John Ferguson [aut, cre]
Maintainer: John Ferguson <john.ferguson@universityofgalway.ie>
This is a re-admission after prior archival of version 2.0.0 dated 2023-12-20
Diff between graphPAF versions 2.0.0 dated 2023-12-20 and 2.0.1 dated 2026-02-13
graphPAF-2.0.0/graphPAF/man/graphPAF.Rd |only graphPAF-2.0.1/graphPAF/DESCRIPTION | 24 ++-- graphPAF-2.0.1/graphPAF/MD5 | 25 ++-- graphPAF-2.0.1/graphPAF/R/PAF_calc_continuous.R | 5 graphPAF-2.0.1/graphPAF/R/data.R | 2 graphPAF-2.0.1/graphPAF/R/data_clean.R | 6 - graphPAF-2.0.1/graphPAF/R/graphPAF.R | 6 - graphPAF-2.0.1/graphPAF/R/impact_fraction.R | 14 +- graphPAF-2.0.1/graphPAF/R/joint_PAF.R | 2 graphPAF-2.0.1/graphPAF/R/plot_sequential_PAF.R | 96 ++++++++++------- graphPAF-2.0.1/graphPAF/build/partial.rdb |only graphPAF-2.0.1/graphPAF/build/vignette.rds |binary graphPAF-2.0.1/graphPAF/inst/doc/graphPAF_vignette.pdf |binary graphPAF-2.0.1/graphPAF/man/graphPAF-package.Rd |only graphPAF-2.0.1/graphPAF/man/stroke_reduced.Rd | 2 15 files changed, 110 insertions(+), 72 deletions(-)
Title: Selection of Genes and Gene Representation Independent Functions
Description: This collection of gene representation-independent
mechanisms for evolutionary and genetic algorithms
for the R-package xega <https://CRAN.R-project.org/package=xega>
contains four groups of functions:
First, functions for selecting a gene
in a population of genes according to its fitness value
and for adaptive scaling of the fitness values as well as for
performance optimization and measurement offer several
variants for implementing the survival of the fittest.
Second, evaluation functions for
deterministic functions avoid recomputation.
Evaluation of stochastic functions incrementally improve
the estimation of the mean and variance of fitness values
at almost no additional cost. Evaluation functions
for gene repair handle error-correcting decoders.
Third, timing and counting functions for profiling the
algorithm pipeline are provided to assess bottlenecks in
the algorithms.
Fourth, a small collection of problem environments
for function optimization, combinatorial optimization [...truncated...]
Author: Andreas Geyer-Schulz [aut, cre]
Maintainer: Andreas Geyer-Schulz <Andreas.Geyer-Schulz@kit.edu>
Diff between xegaSelectGene versions 1.0.0.3 dated 2025-04-16 and 1.0.0.4 dated 2026-02-13
DESCRIPTION | 19 ++++++++++------- MD5 | 43 ++++++++++++++++++++-------------------- NAMESPACE | 1 NEWS | 5 ++++ R/selectGene.R | 46 ++++++++++++++++++++++++++++++++++++++----- man/STournament.Rd | 3 ++ man/SelectDuel.Rd | 1 man/SelectGeneFactory.Rd | 1 man/SelectLRSelective.Rd | 1 man/SelectLinearRankTSR.Rd | 1 man/SelectPropFit.Rd | 1 man/SelectPropFitDiff.Rd | 1 man/SelectPropFitDiffM.Rd | 1 man/SelectPropFitDiffOnln.Rd | 1 man/SelectPropFitM.Rd | 1 man/SelectPropFitOnln.Rd | 1 man/SelectSTournament.Rd | 1 man/SelectSUS.Rd | 1 man/SelectTopK.Rd |only man/SelectTournament.Rd | 1 man/SelectUniform.Rd | 1 man/SelectUniformP.Rd | 1 man/Tournament.Rd | 2 - 23 files changed, 99 insertions(+), 35 deletions(-)
More information about xegaSelectGene at CRAN
Permanent link
Title: Power Analyses using Monte Carlo Simulations
Description: Provides a general purpose simulation-based power analysis
API for routine and customized simulation experimental designs.
The package focuses exclusively on Monte Carlo simulation experiment variants of
(expected) prospective power analyses,
criterion analyses, compromise analyses, sensitivity analyses, and
a priori/post-hoc analyses. The default simulation experiment functions defined within the package
provide stochastic variants of the power analysis subroutines in
G*Power 3.1 (Faul, Erdfelder, Buchner, and Lang, 2009) <doi:10.3758/brm.41.4.1149>,
along with various other parametric and non-parametric power analysis
applications (e.g., mediation analyses) and support for Bayesian power analysis
by way of Bayes factors or posterior probability evaluations.
Additional functions for building
empirical power curves, reanalyzing simulation information, and
for increasing the precision of the resulting power
estimates are also included, each of which utilize similar API structures. [...truncated...]
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between Spower versions 0.5.1 dated 2025-11-27 and 0.6 dated 2026-02-13
DESCRIPTION | 14 MD5 | 76 ++--- NAMESPACE | 1 R/Spower.R | 190 +++++++----- R/SpowerBatch.R | 24 - R/SpowerCurve.R | 15 - R/p_2r.R | 3 R/p_chisq.test.R | 14 R/p_mediation.R | 4 R/p_r.R | 4 R/p_t.test.R | 4 R/p_var.test.R | 3 R/util.R | 22 + README.md | 9 inst/doc/SpowerIntro.R | 9 inst/doc/SpowerIntro.Rmd | 21 + inst/doc/SpowerIntro.html | 73 +++- inst/doc/SpowerIntro_logicals.R | 17 - inst/doc/SpowerIntro_logicals.Rmd | 17 - inst/doc/SpowerIntro_logicals.html | 37 +- inst/doc/Spower_TypeSM.R | 8 inst/doc/Spower_TypeSM.Rmd | 10 inst/doc/Spower_TypeSM.html | 42 +- inst/doc/gpower_examples.Rmd | 313 +++++++++++---------- inst/doc/gpower_examples.html | 546 ++++++++++++++++++------------------- inst/intro.rds |binary inst/intro2.rds |binary inst/intro3.rds |binary man/Spower.Rd | 233 +++++++++------ man/p_2r.Rd | 3 man/p_chisq.test.Rd | 14 man/p_mediation.Rd | 4 man/p_r.Rd | 4 man/p_t.test.Rd | 4 man/p_var.test.Rd | 3 vignettes/SpowerIntro.Rmd | 21 + vignettes/SpowerIntro_logicals.Rmd | 17 - vignettes/Spower_TypeSM.Rmd | 10 vignettes/gpower_examples.Rmd | 313 +++++++++++---------- 39 files changed, 1176 insertions(+), 926 deletions(-)
Title: Weighted Mean SHAP and CI for Robust Feature Assessment in ML
Grid
Description: This R package introduces Weighted Mean SHapley Additive exPlanations (WMSHAP), an innovative method for calculating SHAP values for a grid of fine-tuned base-learner machine learning models as well as stacked ensembles, a method not previously available due to the common reliance on single best-performing models. By integrating the weighted mean SHAP values from individual base-learners comprising the ensemble or individual base-learners in a tuning grid search, the package weights SHAP contributions according to each model's performance, assessed by multiple either R squared (for both regression and classification models). alternatively, this software also offers weighting SHAP values based on the area under the precision-recall curve (AUCPR), the area under the curve (AUC), and F2 measures for binary classifiers. It further extends this framework to implement weighted confidence intervals for weighted mean SHAP values, offering a more comprehensive and robust feature importance eval [...truncated...]
Author: E. F. Haghish [aut, cre, cph]
Maintainer: E. F. Haghish <haghish@hotmail.com>
Diff between shapley versions 0.5.1 dated 2025-09-18 and 0.6.0 dated 2026-02-13
DESCRIPTION | 8 - MD5 | 52 +++++----- NAMESPACE | 2 R/feature.selection.R | 69 ++++++++----- R/feature.test.R | 94 +++++++++++------- R/h2o.get_ids.R | 17 +-- R/normalize.R | 24 ++++ R/shapley.R | 228 +++++++++++++++++++------------------------- R/shapley.domain.R | 81 +++++++-------- R/shapley.domain.test.R |only R/shapley.feature.test.R | 41 ++++--- R/shapley.plot.R | 137 ++++++++++++++------------ R/shapley.row.plot.R | 64 ++++++------ R/shapley.table.R | 38 +++---- R/shapley.top.R | 7 - README.md | 21 ---- man/feature.selection.Rd | 42 ++++---- man/feature.test.Rd | 27 +++-- man/h2o.get_ids.Rd | 13 +- man/normalize.Rd | 12 +- man/shapley.Rd | 127 ++++++++++++------------ man/shapley.domain.Rd | 53 ++++------ man/shapley.domain.test.Rd |only man/shapley.feature.test.Rd | 21 +--- man/shapley.plot.Rd | 61 +++++------ man/shapley.row.plot.Rd | 49 ++++----- man/shapley.table.Rd | 27 ++--- man/shapley.top.Rd | 6 - 28 files changed, 691 insertions(+), 630 deletions(-)
Title: Various Plotting Functions
Description: Lots of plots, various labeling, axis and color scaling functions. The author/maintainer died in September 2023.
Author: Jim Lemon [aut],
Ben Bolker [ctb],
Sander Oom [ctb],
Eduardo Klein [ctb],
Barry Rowlingson [ctb],
Hadley Wickham [ctb],
Anupam Tyagi [ctb],
Olivier Eterradossi [ctb],
Gabor Grothendieck [ctb],
Michael Toews [ctb],
John Kane [ctb],
Rolf Turner [ctb],
[...truncated...]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between plotrix versions 3.8-13 dated 2025-11-14 and 3.8-14 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 4 ++++ R/radial.plot.R | 6 ++++-- 4 files changed, 14 insertions(+), 8 deletions(-)
Title: Utilities for Scheduling Functions to Execute Later with Event
Loops
Description: Executes arbitrary R or C functions some time after the
current time, after the R execution stack has emptied. The functions
are scheduled in an event loop.
Author: Winston Chang [aut] ,
Joe Cheng [aut],
Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Marcus Geelnard [ctb, cph] ,
Evan Nemerson [ctb, cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between later versions 1.4.5 dated 2026-01-08 and 1.4.6 dated 2026-02-13
later-1.4.5/later/inst/include/later.h |only later-1.4.6/later/DESCRIPTION | 6 later-1.4.6/later/MD5 | 21 +- later-1.4.6/later/NEWS.md | 6 later-1.4.6/later/README.md | 2 later-1.4.6/later/inst/doc/later-cpp.html | 4 later-1.4.6/later/inst/include/later_api.h | 248 +++++++++++++++++++++++++++-- later-1.4.6/later/src/RcppExports.cpp | 1 later-1.4.6/later/src/callback_registry.h | 1 later-1.4.6/later/src/later.h | 6 later-1.4.6/later/src/later_posix.cpp | 4 later-1.4.6/later/src/later_win32.cpp | 1 12 files changed, 264 insertions(+), 36 deletions(-)
Title: Statistical Analysis of Haplotypes with Traits and Covariates
when Linkage Phase is Ambiguous
Description: Routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em(), haplo.glm(), haplo.score(), and haplo.power(); all of which have detailed examples in the vignette.
Author: Schaid Daniel [aut],
Jason P. Sinnwell [aut, cre]
Maintainer: Jason P. Sinnwell <sinnwell.jason@mayo.edu>
Diff between haplo.stats versions 1.9.7.1 dated 2026-02-12 and 1.9.8.2 dated 2026-02-13
haplo.stats-1.9.7.1/haplo.stats/inst/doc/GPL.txt |only haplo.stats-1.9.7.1/haplo.stats/inst/doc/LICENSE.mayo |only haplo.stats-1.9.7.1/haplo.stats/inst/doc/haplostats.Rnw |only haplo.stats-1.9.7.1/haplo.stats/inst/doc/haplostats.pdf |only haplo.stats-1.9.7.1/haplo.stats/inst/doc/manualHaploStats.pdf |only haplo.stats-1.9.7.1/haplo.stats/inst/doc/manualHaploStats.pdf.asis |only haplo.stats-1.9.7.1/haplo.stats/inst/doc/manualHaploStats.rnwsave |only haplo.stats-1.9.7.1/haplo.stats/tests/expanded/test.anova.haplo.glm.Rout |only haplo.stats-1.9.7.1/haplo.stats/tests/expanded/test.haplo.em.Rout |only haplo.stats-1.9.7.1/haplo.stats/tests/expanded/test.haplo.scan.Rout |only haplo.stats-1.9.7.1/haplo.stats/tests/expanded/test.haplo.score.Rout |only haplo.stats-1.9.7.1/haplo.stats/tests/expanded/test.methods.haplo.glm.Rout |only haplo.stats-1.9.7.1/haplo.stats/vignettes/haplostats.Rnw |only haplo.stats-1.9.7.1/haplo.stats/vignettes/manualHaploStats.pdf.asis |only haplo.stats-1.9.8.2/haplo.stats/DESCRIPTION | 17 ++-- haplo.stats-1.9.8.2/haplo.stats/MD5 | 36 ++++------ haplo.stats-1.9.8.2/haplo.stats/build/vignette.rds |binary haplo.stats-1.9.8.2/haplo.stats/data/hapPower.demo.tab |only haplo.stats-1.9.8.2/haplo.stats/data/hapPower.demo.tab.gz |binary haplo.stats-1.9.8.2/haplo.stats/data/hla.demo.tab |only haplo.stats-1.9.8.2/haplo.stats/data/hla.demo.tab.gz |binary haplo.stats-1.9.8.2/haplo.stats/data/seqhap.dat.tab |only haplo.stats-1.9.8.2/haplo.stats/data/seqhap.dat.tab.gz |binary haplo.stats-1.9.8.2/haplo.stats/data/seqhap.pos.tab |only haplo.stats-1.9.8.2/haplo.stats/data/seqhap.pos.tab.gz |binary haplo.stats-1.9.8.2/haplo.stats/inst/NEWS.Rd | 7 + haplo.stats-1.9.8.2/haplo.stats/inst/doc/haplostats.R |only haplo.stats-1.9.8.2/haplo.stats/inst/doc/haplostats.Rmd |only haplo.stats-1.9.8.2/haplo.stats/inst/doc/haplostats.html |only haplo.stats-1.9.8.2/haplo.stats/vignettes/haplostats.Rmd |only 30 files changed, 31 insertions(+), 29 deletions(-)
Title: Spatial and Spatio-Temporal Geostatistical Modelling, Prediction
and Simulation
Description: Variogram modelling; simple, ordinary and universal point or block (co)kriging; spatio-temporal kriging; sequential Gaussian or indicator (co)simulation; variogram and variogram map plotting utility functions; supports sf and stars.
Author: Edzer Pebesma [aut, cre] ,
Benedikt Graeler [aut]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between gstat versions 2.1-4 dated 2025-07-10 and 2.1-5 dated 2026-02-13
DESCRIPTION | 6 - MD5 | 104 +++++++++++++++++----------------- R/variogramLine.R | 7 -- build/vignette.rds |binary data/DE_RB_2005.rda |binary data/coalash.rda |binary data/fulmar.rda |binary data/jura.rda |binary data/meuse.all.rda |binary data/meuse.alt.rda |binary data/ncp.grid.rda |binary data/oxford.rda |binary data/pcb.rda |binary data/sic2004.rda |binary data/sic97.rda |binary data/tull.rda |binary data/vv.rda |binary data/walker.rda |binary data/wind.rda |binary inst/CITATION | 2 inst/doc/gstat.pdf |binary inst/doc/prs.pdf |binary inst/doc/spatio-temporal-kriging.Rnw | 6 - inst/doc/spatio-temporal-kriging.bib | 46 +++++++-------- inst/doc/spatio-temporal-kriging.pdf |binary inst/doc/st.R | 69 +++++++++++----------- inst/doc/st.Rnw | 19 +++--- inst/doc/st.pdf |binary man/fit.lmc.Rd | 1 man/fit.variogram.Rd | 4 - man/get.contr.Rd | 3 man/gstat.Rd | 4 - man/hscat.Rd | 4 - man/krige.Rd | 2 man/krige.cv.Rd | 1 man/krigeST.Rd | 4 - man/krigeTg.Rd | 2 man/meuse.all.Rd | 1 man/meuse.alt.Rd | 3 man/plot.gstatVariogram.Rd | 1 man/plot.pointPairs.Rd | 1 man/plot.variogramCloud.Rd | 3 man/show.vgms.Rd | 1 man/variogram.Rd | 7 -- man/variogramST.Rd | 2 man/vgm.Rd | 2 man/vgm.panel.Rd | 1 tests/stars.Rout.save | 100 ++++++++++++++++---------------- tests/windst.R | 5 + tests/windst.Rout.save | 13 ++-- vignettes/spatio-temporal-kriging.Rnw | 6 - vignettes/spatio-temporal-kriging.bib | 46 +++++++-------- vignettes/st.Rnw | 19 +++--- 53 files changed, 234 insertions(+), 261 deletions(-)
Title: Dendrogram Seriation: Ordering for Visualisation
Description: Re-arranges a dendrogram to optimize visualisation-based cost functions.
The methods implemented here are described in "Advances in Dendrogram Seriation for Application
to Visualization", Journal of Computational and Graphical Statistics (2015) D. Earle and C.B. Hurley <doi:10.1080/10618600.2013.874295>.
Author: Catherine B. Hurley [aut],
Denise Earle [aut],
Catherine Hurley [cre]
Maintainer: Catherine Hurley <catherine.hurley@mu.ie>
Diff between DendSer versions 1.0.2 dated 2022-04-28 and 1.0.3 dated 2026-02-13
DendSer-1.0.2/DendSer/demo/pottery.R |only DendSer-1.0.2/DendSer/man/costARc.Rd |only DendSer-1.0.3/DendSer/DESCRIPTION | 33 ++++- DendSer-1.0.3/DendSer/MD5 | 44 ++++--- DendSer-1.0.3/DendSer/NAMESPACE | 45 ++++--- DendSer-1.0.3/DendSer/NEWS.md |only DendSer-1.0.3/DendSer/R/DendSer-package.R |only DendSer-1.0.3/DendSer/R/DendSer.R | 165 ++++++++++++++++----------- DendSer-1.0.3/DendSer/R/cost.R | 102 +++++++++------- DendSer-1.0.3/DendSer/R/dser.R | 72 ++++++++++- DendSer-1.0.3/DendSer/R/dser2seriate.R | 33 ++++- DendSer-1.0.3/DendSer/R/leafSort.R | 165 +++++++++++++-------------- DendSer-1.0.3/DendSer/R/node.R | 34 ++--- DendSer-1.0.3/DendSer/R/plotAsColor.R | 25 ++++ DendSer-1.0.3/DendSer/build |only DendSer-1.0.3/DendSer/demo/00Index | 1 DendSer-1.0.3/DendSer/inst |only DendSer-1.0.3/DendSer/man/DendSer-package.Rd |only DendSer-1.0.3/DendSer/man/DendSer.Rd | 124 ++++++++++---------- DendSer-1.0.3/DendSer/man/cost.Rd |only DendSer-1.0.3/DendSer/man/crit2cost.Rd | 23 +-- DendSer-1.0.3/DendSer/man/dser.Rd | 84 +++++++------ DendSer-1.0.3/DendSer/man/plotAsColor.Rd | 98 ++++++---------- DendSer-1.0.3/DendSer/vignettes |only 24 files changed, 617 insertions(+), 431 deletions(-)
Title: Create Codebooks from Data Frames
Description: Quickly and easily create codebooks (i.e. data dictionaries) directly from a data frame.
Author: Brad Cannell [aut, cre, cph]
Maintainer: Brad Cannell <brad.cannell@gmail.com>
This is a re-admission after prior archival of version 0.1.8 dated 2024-02-19
Diff between codebookr versions 0.1.8 dated 2024-02-19 and 0.1.9 dated 2026-02-13
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/cb_get_col_attributes.R | 3 +-- README.md | 5 +++-- man/cb_get_col_attributes.Rd | 3 +-- 6 files changed, 19 insertions(+), 16 deletions(-)
Title: Discover and Call 'Bund.dev' APIs
Description: Provides a registry of APIs listed on <https://bund.dev> and a core
'OpenAPI' client layer to explore specs and perform requests. Adapter helpers
return tidy tibbles for supported APIs, with optional response caching and
rate limiting guidance.
Author: Michael Buecker [aut, cre]
Maintainer: Michael Buecker <michael.buecker@fh-muenster.de>
Diff between bunddev versions 0.1.0 dated 2026-02-08 and 0.2.0 dated 2026-02-13
bunddev-0.1.0/bunddev/R/adapt_berufssprachkurssuche.R |only bunddev-0.1.0/bunddev/R/adapt_coachingangebote.R |only bunddev-0.1.0/bunddev/R/adapt_entgeltatlas.R |only bunddev-0.1.0/bunddev/R/adapt_interpol.R |only bunddev-0.1.0/bunddev/R/adapt_weiterbildungssuche.R |only bunddev-0.1.0/bunddev/R/adapt_zoll.R |only bunddev-0.1.0/bunddev/man/berufssprachkurssuche_search.Rd |only bunddev-0.1.0/bunddev/man/coachingangebote_search.Rd |only bunddev-0.1.0/bunddev/man/entgeltatlas_entgelte.Rd |only bunddev-0.1.0/bunddev/man/interpol_red_notice.Rd |only bunddev-0.1.0/bunddev/man/interpol_red_notice_images.Rd |only bunddev-0.1.0/bunddev/man/interpol_red_notices.Rd |only bunddev-0.1.0/bunddev/man/interpol_un_notice.Rd |only bunddev-0.1.0/bunddev/man/interpol_un_notice_images.Rd |only bunddev-0.1.0/bunddev/man/interpol_un_notices.Rd |only bunddev-0.1.0/bunddev/man/interpol_yellow_notice.Rd |only bunddev-0.1.0/bunddev/man/interpol_yellow_notice_images.Rd |only bunddev-0.1.0/bunddev/man/interpol_yellow_notices.Rd |only bunddev-0.1.0/bunddev/man/weiterbildungssuche_facetten.Rd |only bunddev-0.1.0/bunddev/man/weiterbildungssuche_search.Rd |only bunddev-0.1.0/bunddev/man/zoll_kategorien.Rd |only bunddev-0.1.0/bunddev/man/zoll_kurse.Rd |only bunddev-0.1.0/bunddev/man/zoll_laender.Rd |only bunddev-0.1.0/bunddev/man/zoll_produkte.Rd |only bunddev-0.1.0/bunddev/man/zoll_produktgruppen.Rd |only bunddev-0.1.0/bunddev/tests/testthat/test-berufssprachkurssuche.R |only bunddev-0.1.0/bunddev/tests/testthat/test-coachingangebote.R |only bunddev-0.1.0/bunddev/tests/testthat/test-entgeltatlas.R |only bunddev-0.1.0/bunddev/tests/testthat/test-interpol.R |only bunddev-0.1.0/bunddev/tests/testthat/test-weiterbildungssuche.R |only bunddev-0.1.0/bunddev/tests/testthat/test-zoll.R |only bunddev-0.2.0/bunddev/DESCRIPTION | 8 bunddev-0.2.0/bunddev/MD5 | 63 +---- bunddev-0.2.0/bunddev/NAMESPACE | 19 - bunddev-0.2.0/bunddev/NEWS.md | 25 ++ bunddev-0.2.0/bunddev/R/adapt_dip_bundestag.R | 6 bunddev-0.2.0/bunddev/R/adapt_handelsregister.R | 9 bunddev-0.2.0/bunddev/R/core_cache.R | 23 +- bunddev-0.2.0/bunddev/R/core_call.R | 3 bunddev-0.2.0/bunddev/inst/doc/getting-started.R | 18 - bunddev-0.2.0/bunddev/inst/doc/getting-started.Rmd | 2 bunddev-0.2.0/bunddev/inst/doc/getting-started.html | 25 -- bunddev-0.2.0/bunddev/inst/registry/registry.yml | 56 ----- bunddev-0.2.0/bunddev/tests/testthat/test-ausbildungssuche.R | 5 bunddev-0.2.0/bunddev/tests/testthat/test-dip-bundestag.R | 111 +++++++++- bunddev-0.2.0/bunddev/tests/testthat/test-handelsregister.R | 10 bunddev-0.2.0/bunddev/tests/testthat/test-hochwasserzentralen.R | 2 bunddev-0.2.0/bunddev/vignettes/getting-started.Rmd | 2 48 files changed, 213 insertions(+), 174 deletions(-)
Title: Bayesian Fitting of Ornstein-Uhlenbeck Models to Phylogenies
Description: Fits and simulates multi-optima Ornstein-Uhlenbeck models to phylogenetic comparative data using
Bayesian reversible-jump methods. See Uyeda and Harmon (2014) <DOI:10.1093/sysbio/syu057>.
Author: Josef C. Uyeda [aut, cre] ,
Jon Eastman [ctb],
Luke Harmon [ctb] ,
Abhishek Hari [ctb]
Maintainer: Josef C. Uyeda <juyeda@vt.edu>
This is a re-admission after prior archival of version 2.3.1 dated 2025-06-10
Diff between bayou versions 2.3.1 dated 2025-06-10 and 2.3.2 dated 2026-02-13
DESCRIPTION | 8 +- MD5 | 15 ++-- R/RcppExports.R | 12 +++ R/bayou-likelihood.R | 2 R/bayou-utilities.R | 2 src/Makevars | 3 src/Makevars.win |only src/RcppExports.cpp | 43 ++++++++++++- src/branches.cpp | 161 +++++++++++++++++++++++++-------------------------- 9 files changed, 148 insertions(+), 98 deletions(-)
Title: Symmetrized Data Aggregation
Description: We develop a new class of distribution free multiple testing rules for false discovery rate (FDR) control under general dependence. A key element in our proposal is a symmetrized data aggregation (SDA) approach to incorporating the dependence structure via sample splitting, data screening and information pooling. The proposed SDA filter first constructs a sequence of ranking statistics that fulfill global symmetry properties, and then chooses a data driven threshold along the ranking to control the FDR. For more information, see the website below and the accompanying paper: Du et al. (2023), "False Discovery Rate Control Under General Dependence By Symmetrized Data Aggregation", <doi:10.1080/01621459.2021.1945459>. Some optional functionality uses the archived R packages ‘huge’ and ‘pfa’, which are not available from CRAN’s main repositories. Users who need this optional functionality can obtain them from the CRAN Archive as follows: ‘huge’ at <https://cran.r-project.org/src/c [...truncated...]
Author: Lilun Du [aut, cre],
Xu Guo [aut],
Wenguang Sun [aut],
Changliang Zou [aut]
Maintainer: Lilun Du <lilundu@cityu.edu.hk>
This is a re-admission after prior archival of version 1.0.0 dated 2020-03-19
Diff between sdafilter versions 1.0.0 dated 2020-03-19 and 1.0.1 dated 2026-02-13
sdafilter-1.0.0/sdafilter/R/core.R |only sdafilter-1.0.1/sdafilter/DESCRIPTION | 31 ++--- sdafilter-1.0.1/sdafilter/MD5 | 12 +- sdafilter-1.0.1/sdafilter/NAMESPACE | 3 sdafilter-1.0.1/sdafilter/R/SDA_2S.R |only sdafilter-1.0.1/sdafilter/R/SDA_M.R |only sdafilter-1.0.1/sdafilter/man/SDA_2S.Rd |only sdafilter-1.0.1/sdafilter/man/SDA_M.Rd | 48 ++++++-- sdafilter-1.0.1/sdafilter/tests/testthat/test-SDA_M.R | 98 ++++++++++++++---- 9 files changed, 137 insertions(+), 55 deletions(-)
Title: Trends and Indices for Monitoring Data
Description: The TRIM model is widely used for estimating growth and decline of
animal populations based on (possibly sparsely available) count data. The
current package is a reimplementation of the original TRIM software developed
at Statistics Netherlands by Jeroen Pannekoek. See
<https://www.cbs.nl/en-gb/society/nature-and-environment/indices-and-trends%2d%2dtrim%2d%2d>
for more information about TRIM.
Author: Patrick Bogaart [aut, cre] ,
Mark van der Loo [aut],
Jeroen Pannekoek [aut],
Statistics Netherlands [cph]
Maintainer: Patrick Bogaart <rtrim@cbs.nl>
Diff between rtrim versions 2.3.0 dated 2024-06-21 and 2.3.1 dated 2026-02-13
DESCRIPTION | 13 MD5 | 28 - NEWS | 3 R/read_tcf.R | 4 R/rtrim-pkg.R | 2 build/vignette.rds |binary inst/doc/Skylark_example.html | 575 +++++++++++++++---------------- inst/doc/rtrim_2_extensions.html | 559 +++++++++++++++--------------- inst/doc/rtrim_confidence_intervals.html | 43 +- inst/doc/rtrim_for_TRIM_users.html | 9 inst/doc/taming_overdispersion.R | 4 inst/doc/taming_overdispersion.html | 103 ++--- man/read_tcf.Rd | 2 man/rtrim-package.Rd | 2 man/trimcommand.Rd | 2 15 files changed, 679 insertions(+), 670 deletions(-)
Title: R Interface to 'Keras'
Description: Interface to 'Keras' <https://keras.io>, a high-level neural
networks API. 'Keras' was developed with a focus on enabling fast experimentation,
supports both convolution based networks and recurrent networks (as well as
combinations of the two), and runs seamlessly on both CPU and GPU devices.
Author: Tomasz Kalinowski [aut, cph, cre],
Daniel Falbel [ctb, cph],
JJ Allaire [aut, cph],
Francois Chollet [aut, cph],
Posit Software, PBC [cph, fnd],
Google [cph, fnd],
Yuan Tang [ctb, cph] ,
Wouter Van Der Bijl [ctb, cph],
Martin Studer [ctb, cph],
Sigri [...truncated...]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between keras3 versions 1.5.0 dated 2025-12-22 and 1.5.1 dated 2026-02-13
DESCRIPTION | 6 MD5 | 82 ++++++------- NEWS.md | 11 + R/install.R | 30 ++-- R/package.R | 27 ++-- inst/doc/custom_train_step_in_tensorflow.Rmd | 10 - inst/doc/custom_train_step_in_tensorflow.html | 10 - inst/doc/distributed_training_with_tensorflow.Rmd | 14 +- inst/doc/distributed_training_with_tensorflow.html | 14 +- inst/doc/distribution.Rmd | 12 - inst/doc/distribution.html | 12 - inst/doc/functional_api.Rmd | 12 - inst/doc/functional_api.html | 12 - inst/doc/getting_started.Rmd | 8 - inst/doc/getting_started.html | 10 - inst/doc/intro_to_keras_for_engineers.Rmd | 24 +-- inst/doc/intro_to_keras_for_engineers.html | 24 +-- inst/doc/making_new_layers_and_models_via_subclassing.Rmd | 6 inst/doc/making_new_layers_and_models_via_subclassing.html | 6 inst/doc/training_with_built_in_methods.Rmd | 64 +++++----- inst/doc/training_with_built_in_methods.html | 66 +++++----- inst/doc/transfer_learning.Rmd | 10 - inst/doc/transfer_learning.html | 10 - inst/doc/writing_a_custom_training_loop_in_tensorflow.Rmd | 42 +++--- inst/doc/writing_a_custom_training_loop_in_tensorflow.html | 42 +++--- man/deserialize_keras_object.Rd | 2 man/layer_tfsm.Rd | 4 man/metric_mean_absolute_percentage_error.Rd | 4 man/op_erf.Rd | 2 man/op_gelu.Rd | 2 man/use_backend.Rd | 19 +-- vignettes/custom_train_step_in_tensorflow.Rmd | 10 - vignettes/distributed_training_with_tensorflow.Rmd | 14 +- vignettes/distribution.Rmd | 12 - vignettes/functional_api.Rmd | 12 - vignettes/getting_started.Rmd | 8 - vignettes/getting_started/unnamed-chunk-12-1.png |binary vignettes/intro_to_keras_for_engineers.Rmd | 24 +-- vignettes/making_new_layers_and_models_via_subclassing.Rmd | 6 vignettes/training_with_built_in_methods.Rmd | 64 +++++----- vignettes/transfer_learning.Rmd | 10 - vignettes/writing_a_custom_training_loop_in_tensorflow.Rmd | 42 +++--- 42 files changed, 409 insertions(+), 390 deletions(-)
Title: Tools for Working with URLs and HTTP
Description: Useful tools for working with HTTP organised by HTTP verbs
(GET(), POST(), etc). Configuration functions make it easy to control
additional request components (authenticate(), add_headers() and so
on).
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between httr versions 1.4.7 dated 2023-08-15 and 1.4.8 dated 2026-02-13
httr-1.4.7/httr/demo |only httr-1.4.8/httr/DESCRIPTION | 16 ++--- httr-1.4.8/httr/MD5 | 44 ++++----------- httr-1.4.8/httr/NAMESPACE | 9 +++ httr-1.4.8/httr/NEWS.md | 4 + httr-1.4.8/httr/R/request.R | 4 + httr-1.4.8/httr/R/url.r | 2 httr-1.4.8/httr/R/write-function.R | 6 ++ httr-1.4.8/httr/README.md | 6 +- httr-1.4.8/httr/build/vignette.rds |binary httr-1.4.8/httr/inst/doc/quickstart.R | 2 httr-1.4.8/httr/inst/doc/secrets.R | 96 +++++++++++++++++----------------- httr-1.4.8/httr/inst/doc/secrets.Rmd | 2 httr-1.4.8/httr/inst/doc/secrets.html | 3 - httr-1.4.8/httr/man/httr-package.Rd | 2 httr-1.4.8/httr/vignettes/secrets.Rmd | 2 16 files changed, 104 insertions(+), 94 deletions(-)
Title: Congruence Class Models for Networks
Description: Provides an implementation of Congruence Class Models for
generating networks. It facilitates sampling networks based
on specific topological properties and attribute mixing patterns using
a Markov Chain Monte Carlo framework. The implementation builds upon code
from the 'ergm' package; see Handcock et al. (2008) <doi:10.18637/jss.v024.i01>.
Author: Ravi Goyal [aut, cre],
Statnet Development Team [ctb, cph]
Maintainer: Ravi Goyal <ravi.j.goyal@gmail.com>
This is a re-admission after prior archival of version 0.0-3 dated 2015-12-10
Diff between CCMnet versions 0.0-3 dated 2015-12-10 and 0.1.4 dated 2026-02-13
CCMnet-0.0-3/CCMnet/LICENSE |only CCMnet-0.0-3/CCMnet/R/CCMnet_func.R |only CCMnet-0.0-3/CCMnet/R/CCMnet_simulate_data.R |only CCMnet-0.0-3/CCMnet/inst/CITATION |only CCMnet-0.0-3/CCMnet/man/CCMnet-internal.Rd |only CCMnet-0.0-3/CCMnet/man/CCMnet-package.Rd |only CCMnet-0.0-3/CCMnet/man/CCMnet_constr.Rd |only CCMnet-0.0-3/CCMnet/man/NS_Multinomial.Rd |only CCMnet-0.1.4/CCMnet/DESCRIPTION | 34 CCMnet-0.1.4/CCMnet/MD5 | 90 CCMnet-0.1.4/CCMnet/NAMESPACE | 59 CCMnet-0.1.4/CCMnet/R/CCMnet_MissingInf.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_MissingInf_Update_Prob_Distr_Params.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_MissingInf_compare_stats.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_MissingInf_generate_partial_network.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_Sample.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_Sample_methods.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_StructAssess.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_StructAssess_formula.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_StructAssess_plot.ccm_inference.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_StructAssess_plot_network.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_StructAssess_plot_test.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_StructAssess_print.ccm_inference.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_bi.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat_degdist.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat_degmxing.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat_degmxing_clustering.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat_edges.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat_mixing.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_initalstat_mixing_degdist.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_obs_stats.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput_degdist.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput_degmxing.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput_degmxing_clustering.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput_edges.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput_mixing.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_uni_verifyinput_mixing_degdist.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_constr_utils.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_diagnostics_traceplot.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_tests_degree.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_degmix.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_degmixclustering.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_degree.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_degree_mixing.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_density.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_edges.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_theoretical_check_mixing.R |only CCMnet-0.1.4/CCMnet/R/CCMnet_utils.R |only CCMnet-0.1.4/CCMnet/R/zzz.R |only CCMnet-0.1.4/CCMnet/README.md |only CCMnet-0.1.4/CCMnet/build |only CCMnet-0.1.4/CCMnet/inst/doc |only CCMnet-0.1.4/CCMnet/man/CCM_theoretical_check.Rd |only CCMnet-0.1.4/CCMnet/man/CCM_traceplot.Rd |only CCMnet-0.1.4/CCMnet/man/sample_ccm.Rd |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_degdist.c |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_degdist.h |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_degmixing.c |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_degmixing.h |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_degmixing_clustering.c |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_degmixing_clustering.h |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_edges.c |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_edges.h |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_mixing.c |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_mixing.h |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_mixing_degdist.c |only CCMnet-0.1.4/CCMnet/src/CCMnet_netprop_mixing_degdist.h |only CCMnet-0.1.4/CCMnet/src/MCMC.c | 521 - CCMnet-0.1.4/CCMnet/src/MCMC.h | 89 CCMnet-0.1.4/CCMnet/src/MCMC_prob.h | 3208 ++-------- CCMnet-0.1.4/CCMnet/src/MHproposal.c | 4 CCMnet-0.1.4/CCMnet/src/changestats.c | 23 CCMnet-0.1.4/CCMnet/src/init.c |only CCMnet-0.1.4/CCMnet/src/model.c | 4 CCMnet-0.1.4/CCMnet/tests |only CCMnet-0.1.4/CCMnet/vignettes |only 81 files changed, 1226 insertions(+), 2806 deletions(-)
Title: Tools for Educational and Psychological Measurement
Description: 'Provides an interactive toolkit for educational and psychological measurement implemented using the 'shiny' framework. The package supports content validity analysis, dimensionality assessment, and Classical Test Theory using the 'CTT' package (Willse, 2018) <doi:10.32614/CRAN.package.CTT>.Item Response Theory (IRT) analyses are conducted via 'mirt' (Chalmers, 2012) <doi:10.18637/jss.v048.i06>. Exploratory Factor Analysis is performed using 'psych' (Revelle, 2025), while Confirmatory Factor Analysis and Structural Equation Modeling are based on the 'lavaan' framework (Rosseel, 2012) <doi:10.18637/jss.v048.i02>. The application allows users to upload data, evaluate statistical models, visualize results, and export outputs through an intuitive graphical interface without requiring programming experience.
Author: Hasan Djidu [aut, cre]
Maintainer: Hasan Djidu <hasandjidu@gmail.com>
Diff between measureR versions 0.0.1 dated 2026-02-10 and 0.0.2 dated 2026-02-13
DESCRIPTION | 6 - MD5 | 11 +-- NEWS.md | 11 +++ inst/app/aiken_critical_table.rds |only inst/app/contentval_ui.R | 23 +++--- inst/app/ctt_ui.R | 8 +- inst/app/serverContentval.R | 133 +++++++++++++++++++++++++++++--------- 7 files changed, 139 insertions(+), 53 deletions(-)
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: Tomasz Kalinowski [ctb, cre],
Kevin Ushey [aut],
JJ Allaire [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] ,
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Sigrid Keydana [ctb],
Ryan Hafen [ctb, cph],
Marcus Geelnard [ctb, cph]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between reticulate versions 1.44.1 dated 2025-11-14 and 1.45.0 dated 2026-02-13
DESCRIPTION | 6 - MD5 | 56 +++++---- NAMESPACE | 10 + NEWS.md | 34 +++++ R/ark-variables-methods.R | 29 +++++ R/config.R | 2 R/conversion.R | 47 +++++++- R/knitr-engine.R | 2 R/package.R | 125 ++++++++++++++++++++-- R/py_require.R | 21 ++- R/python-tools.R | 16 ++ R/thread.R | 3 R/use_python.R | 16 -- R/utils.R | 30 +++++ R/virtualenv.R | 10 + R/zzz.R | 108 +++++++++++++------ inst/doc/python_packages.Rmd | 2 inst/doc/python_packages.html | 10 - src/python.cpp | 26 ++++ tests/testthat/_snaps/py_require.md | 46 ++++++++ tests/testthat/helper-py-require.R | 2 tests/testthat/resources/_snaps |only tests/testthat/resources/knitr-print.md |only tests/testthat/resources/knitr-print2.md |only tests/testthat/resources/knitr-warn.md |only tests/testthat/resources/test-chunking.md |only tests/testthat/test-py_require.R | 121 ++++++++++++++++++--- tests/testthat/test-python-envs.R | 64 +++++++++++ tests/testthat/test-python-pandas.R | 21 +++ tests/testthat/test-python-virtual-environments.R | 3 tests/testthat/test-sigpipe.R |only vignettes/python_packages.Rmd | 2 32 files changed, 690 insertions(+), 122 deletions(-)
Title: Spatial Dependence: Weighting Schemes, Statistics
Description: A collection of functions to create spatial weights matrix
objects from polygon 'contiguities', from point patterns by distance and
tessellations, for summarizing these objects, and for permitting their
use in spatial data analysis, including regional aggregation by minimum
spanning tree; a collection of tests for spatial 'autocorrelation',
including global 'Morans I' and 'Gearys C' proposed by 'Cliff' and 'Ord'
(1973, ISBN: 0850860369) and (1981, ISBN: 0850860814), 'Hubert/Mantel'
general cross product statistic, Empirical Bayes estimates and
'Assunção/Reis' (1999) <doi:10.1002/(SICI)1097-0258(19990830)18:16%3C2147::AID-SIM179%3E3.0.CO;2-I> Index, 'Getis/Ord' G ('Getis' and 'Ord' 1992)
<doi:10.1111/j.1538-4632.1992.tb00261.x> and multicoloured
join count statistics, 'APLE' ('Li et al.' )
<doi:10.1111/j.1538-4632.2007.00708.x>, local 'Moran's I', 'Gearys C'
('Anselin' 1995) <doi:10.1111/j.1538-4632.1995.tb00338.x> and
'Getis/Ord' G ('Ord' and 'Getis' 1995)
<d [...truncated...]
Author: Roger Bivand [cre, aut] ,
Micah Altman [ctb],
Luc Anselin [ctb],
Renato Assuncao [ctb],
Anil Bera [ctb],
Olaf Berke [ctb],
F. Guillaume Blanchet [ctb],
Marilia Carvalho [ctb],
Bjarke Christensen [ctb],
Yongwan Chun [ctb],
Carsten Dormann [ctb],
Steph [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between spdep versions 1.4-1 dated 2025-08-31 and 1.4-2 dated 2026-02-13
DESCRIPTION | 15 +++-- MD5 | 38 +++++++-------- NAMESPACE | 1 NEWS.md | 8 ++- R/SD.RStests.R | 5 + R/hotspotmap.R | 2 R/licd_boots.R | 103 +++++++++++++++++++++++++++++++---------- R/local-joincount-univariate.R | 56 +++++++++++++++++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/CO69.html | 6 +- inst/doc/nb.html | 2 inst/doc/nb_sf.html | 30 +++++------ inst/doc/sids.html | 18 +++---- inst/doc/subgraphs.html | 18 +++---- man/SD.RStests.Rd | 2 man/hotspotmap.Rd | 4 + man/licd_multi.Rd | 4 - man/local_joincount_uni.Rd | 14 ++++- man/localmoran.Rd | 4 - 20 files changed, 222 insertions(+), 108 deletions(-)
Title: A Framework for Clustering Longitudinal Data
Description: A framework for clustering longitudinal datasets in a standardized way.
The package provides an interface to existing R packages for clustering longitudinal univariate trajectories, facilitating reproducible and transparent analyses.
Additionally, standard tools are provided to support cluster analyses, including repeated estimation, model validation, and model assessment.
The interface enables users to compare results between methods, and to implement and evaluate new methods with ease.
The 'akmedoids' package is available from <https://github.com/MAnalytics/akmedoids>.
Author: Niek Den Teuling [aut, cre] ,
Steffen Pauws [ctb],
Edwin van den Heuvel [ctb],
Koninklijke Philips N.V. [cph]
Maintainer: Niek Den Teuling <niek.den.teuling@philips.com>
This is a re-admission after prior archival of version 1.6.2 dated 2025-07-04
Diff between latrend versions 1.6.2 dated 2025-07-04 and 1.6.3 dated 2026-02-13
DESCRIPTION | 21 +--- MD5 | 60 +++++------ NAMESPACE | 1 R/formula.R | 4 R/latrend.R | 4 R/method.R | 11 -- R/methodAKMedoids.R | 4 R/methodKML.R | 30 +++-- R/modelKML.R | 15 +- R/modelMixtoolsGMM.R | 204 ++++++++++++++++++++-------------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/demo.html | 7 - inst/doc/implement.Rmd | 2 inst/doc/implement.html | 7 - inst/doc/simulation.R | 16 +-- inst/doc/simulation.Rmd | 16 +-- inst/doc/simulation.html | 177 ++++++++++++++++++---------------- man/as.list.lcMethod.Rd | 11 -- man/createTestDataFolds.Rd | 2 man/createTrainDataFolds.Rd | 2 man/interface-akmedoids.Rd | 2 man/interface-kml.Rd | 2 man/interface-mixtools.Rd | 3 man/lcMethodAkmedoids.Rd | 2 man/lcMethodKML.Rd | 4 man/meanNA.Rd | 2 tests/testthat/test-akmedoids.R | 5 tests/testthat/test-method.R | 9 + vignettes/implement.Rmd | 2 vignettes/simulation.Rmd | 16 +-- 31 files changed, 326 insertions(+), 315 deletions(-)
Title: Spatiotemporal Arrays, Raster and Vector Data Cubes
Description: Reading, manipulating, writing and plotting
spatiotemporal arrays (raster and vector data cubes) in 'R', using 'GDAL'
bindings provided by 'sf', and 'NetCDF' bindings by 'ncmeta' and 'RNetCDF'.
Author: Edzer Pebesma [aut, cre] ,
Michael Sumner [ctb] ,
Etienne Racine [ctb],
Adriano Fantini [ctb],
David Blodgett [ctb],
Krzysztof Dyba [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between stars versions 0.7-0 dated 2025-12-14 and 0.7-1 dated 2026-02-13
DESCRIPTION | 6 +-- MD5 | 70 ++++++++++++++++++++++---------------------- NEWS.md | 6 +++ inst/doc/stars1.html | 6 +-- inst/doc/stars2.html | 10 +++--- tests/aggregate.Rout.save | 18 +++++------ tests/align.Rout.save | 6 +-- tests/area.Rout.save | 6 +-- tests/crop.Rout.save | 10 +++--- tests/curvilinear.Rout.save | 6 +-- tests/datasets.Rout.save | 6 +-- tests/dimensions.Rout.save | 10 +++--- tests/downsample.Rout.save | 6 +-- tests/ee.Rout.save | 6 +-- tests/extract.Rout.save | 10 +++--- tests/gridtypes.Rout.save | 6 +-- tests/mdim.Rout.save | 6 +-- tests/nc.Rout.save | 6 +-- tests/plot.Rout.save | 6 +-- tests/predict.Rout.save | 10 +++--- tests/proxy.Rout.save | 22 ++++++------- tests/raster.Rout.save | 6 +-- tests/rasterize.Rout.save | 14 ++++---- tests/rectilinear.Rout.save | 6 +-- tests/redimension.Rout.save | 6 +-- tests/sf.Rout.save | 6 +-- tests/sp.Rout.save | 6 +-- tests/spacetime.Rout.save | 6 +-- tests/spatstat.Rout.save | 6 +-- tests/stars.R | 2 - tests/stars.Rout.save | 10 +++--- tests/subset.Rout.save | 6 +-- tests/tidy.Rout.save | 6 +-- tests/transform.Rout.save | 6 +-- tests/warp.Rout.save | 24 +++++++-------- tests/write.Rout.save | 6 +-- 36 files changed, 180 insertions(+), 174 deletions(-)
Title: Summary Tables and Plots for Statistical Models and Data:
Beautiful, Customizable, and Publication-Ready
Description: Create beautiful and customizable tables to summarize several
statistical models side-by-side. Draw coefficient plots, multi-level
cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and
correlation matrices. This package supports dozens of statistical models, and
it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint, Excel,
RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or 'knitr'
dynamic documents. Details can be found in Arel-Bundock (2022)
<doi:10.18637/jss.v103.i01>.
Author: Vincent Arel-Bundock [aut, cre] ,
Joachim Gassen [ctb] ,
Nathan Eastwood [ctb],
Nick Huntington-Klein [ctb] ,
Moritz Schwarz [ctb] ,
Benjamin Elbers [ctb] ,
Grant McDermott [ctb] ,
Lukas Wallrich [ctb]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between modelsummary versions 2.5.0 dated 2025-08-25 and 2.6.0 dated 2026-02-13
DESCRIPTION | 12 - MD5 | 36 ++-- NEWS.md | 20 ++ R/datasummary_balance.R | 91 +++++++++-- R/datasummary_skim.R | 18 +- R/dvnames.R | 2 R/modelsummary.R | 78 +++++++-- R/sanitize_output.R | 1 R/sanitize_vcov.R | 339 ++++++++++++++++++++--------------------- build/partial.rdb |binary man/datasummary.Rd | 19 ++ man/datasummary_balance.Rd | 32 +++ man/datasummary_correlation.Rd | 19 ++ man/datasummary_crosstab.Rd | 19 ++ man/datasummary_skim.Rd | 21 ++ man/dsummary.Rd | 19 ++ man/dvnames.Rd | 2 man/modelsummary.Rd | 27 ++- man/msummary.Rd | 27 ++- 19 files changed, 539 insertions(+), 243 deletions(-)
Title: VCG Sampling using Energy-Based Covariate Balancing
Description: Provides a principled framework for sampling Virtual Control Group (VCG) using energy distance-based covariate balancing. The package offers visualization tools to assess covariate balance and includes a permutation test to evaluate the statistical significance of observed deviations.
Author: Andreas Schulz [aut, cre] ,
Sanofi [cph, fnd]
Maintainer: Andreas Schulz <andreas.schulz2@sanofi.com>
Diff between eVCGsampler versions 0.9.2 dated 2025-12-19 and 0.9.5 dated 2026-02-13
DESCRIPTION | 7 +- LICENSE | 2 MD5 | 28 ++++---- NAMESPACE | 5 + R/combine_variables.R |only R/energy_distance.R | 3 R/find_outliers.R |only R/multiSampler.R | 6 - build/vignette.rds |binary inst/doc/eVCGsampler_user_guide.R | 50 ++++++++++++++- inst/doc/eVCGsampler_user_guide.Rmd | 76 ++++++++++++++++++++++- inst/doc/eVCGsampler_user_guide.html | 115 +++++++++++++++++++++++++++++------ man/combine_variables.Rd |only man/energy_distance.Rd | 2 man/find_outliers.Rd |only man/multiSampler.Rd | 6 - vignettes/eVCGsampler_user_guide.Rmd | 76 ++++++++++++++++++++++- 17 files changed, 330 insertions(+), 46 deletions(-)
Title: Simple Assertions for Beautiful and Customisable Error Messages
Description: Provides simple assertions with sensible defaults and customisable error messages.
It offers convenient assertion call wrappers and a general assert function that can handle any condition.
Default error messages are user friendly and easily customized with inline code evaluation and styling powered by the 'cli' package.
Author: Sam El-Kamand [aut, cre, cph]
Maintainer: Sam El-Kamand <sam.elkamand@gmail.com>
Diff between assertions versions 0.2.0 dated 2024-11-19 and 0.3.0 dated 2026-02-13
DESCRIPTION | 24 +++--- MD5 | 61 +++++++++------- NAMESPACE | 9 ++ NEWS.md | 24 ++++++ R/assert_compare.R | 109 ++++++++++++++++++++++++++++ R/assert_functions.R | 88 +++++++++++++++++++++++ R/assert_length.R | 5 + R/assert_numerical.R | 50 +++++++++++++ R/assert_packages.R |only R/assert_regex.R |only R/assert_set.R | 2 R/assert_type.R | 3 R/has.R | 1 R/is_comparisons.R | 25 ++++++ R/is_functions.R | 23 ++++-- R/utils.R | 10 ++ README.md | 13 +-- inst/doc/create_custom_assertions.R | 98 ++++++++++++------------- man/assert_all_between.Rd |only man/assert_all_finite.Rd |only man/assert_all_strings_contain.Rd |only man/assert_between.Rd |only man/assert_finite.Rd |only man/assert_function_expects.Rd |only man/assert_function_variadic.Rd |only man/assert_packages_installed.Rd |only man/assert_string_contains.Rd |only man/contains_pattern.Rd |only man/is_between.Rd |only tests/testthat/_snaps/assert_compare.md | 2 tests/testthat/_snaps/assert_set.md | 4 - tests/testthat/test-assert_compare.R | 106 +++++++++++++++++++++++++++ tests/testthat/test-assert_functions.R | 122 +++++++++++++++++++++++++++++++- tests/testthat/test-assert_length.R | 10 ++ tests/testthat/test-assert_numerical.R | 49 ++++++++++++ tests/testthat/test-assert_packages.R |only tests/testthat/test-assert_regex.R |only tests/testthat/test-assert_type.R | 2 tests/testthat/test-is_functions.R | 4 + 39 files changed, 740 insertions(+), 104 deletions(-)
Title: R Interface to 'lp_solve' Version 5.5.2.0
Description: The lpSolveAPI package provides an R interface to 'lp_solve',
a Mixed Integer Linear Programming (MILP) solver with support for pure
linear, (mixed) integer/binary, semi-continuous and special ordered sets
(SOS) models.
Author: lp_solve [aut],
Kjell Konis [aut],
Florian Schwendinger [aut, cre],
Kurt Hornik [ctb]
Maintainer: Florian Schwendinger <FlorianSchwendinger@gmx.at>
Diff between lpSolveAPI versions 5.5.2.0-17.14 dated 2025-04-14 and 5.5.2.0-17.15 dated 2026-02-13
ChangeLog | 3 DESCRIPTION | 8 MD5 | 130 ++++++------- R/add.SOS.R | 16 + R/add.column.R | 21 +- R/add.constraint.R | 39 ++- R/delete.column.R | 5 R/delete.constraint.R | 5 R/delete.lp.R | 5 R/dim.lpExtPtr.R | 11 - R/dimnames.lpExtPtr.R | 46 ++-- R/get.basis.R | 10 - R/get.bounds.R | 8 R/get.branch.mode.R | 11 - R/get.column.R | 5 R/get.constr.type.R | 13 - R/get.constr.value.R | 13 - R/get.constraints.R | 5 R/get.dual.solution.R | 5 R/get.kind.R | 8 R/get.mat.R | 5 R/get.objective.R | 5 R/get.primal.solution.R | 10 - R/get.rhs.R | 5 R/get.sensitivity.obj.R | 5 R/get.sensitivity.objex.R | 5 R/get.sensitivity.rhs.R | 5 R/get.solutioncount.R | 5 R/get.total.iter.R | 5 R/get.total.nodes.R | 5 R/get.type.R | 15 - R/get.variables.R | 5 R/guess.basis.R | 21 +- R/lp.control.R | 431 +++++++++++++++++++++++++++++--------------- R/make.lp.R | 10 - R/name.lp.R | 8 R/plot.lpExtPtr.R | 74 ++++--- R/print.lpExtPtr.R | 47 ++-- R/read.lp.R | 54 ++--- R/resize.lp.R | 5 R/row.add.mode.R | 7 R/select.solution.R | 10 - R/set.basis.R | 36 ++- R/set.bounds.R | 21 -- R/set.branch.mode.R | 40 ++-- R/set.branch.weights.R | 16 - R/set.column.R | 24 +- R/set.constr.type.R | 17 - R/set.constr.value.R | 24 +- R/set.mat.R | 5 R/set.objfn.R | 21 +- R/set.rhs.R | 5 R/set.row.R | 24 +- R/set.semicont.R | 5 R/set.type.R | 17 - R/solve.R | 5 R/write.lp.R | 15 - inst/include/RlpSolveLink.h | 1 inst/include/lp_lib.h | 4 inst/include/lp_report.h | 2 src/RlpSolve.c | 1 src/RlpSolveLink.c | 2 src/lp_solve/Makefile | 2 src/lp_solve/lp_lib.c | 7 src/lp_solve/lp_presolve.c | 57 ----- src/lp_solve/lp_report.c | 154 --------------- 66 files changed, 753 insertions(+), 861 deletions(-)
Title: Calculate and Map Distances Between Phylogenetic Trees
Description: Implements measures of tree similarity, including
information-based generalized Robinson-Foulds distances
(Phylogenetic Information Distance, Clustering Information Distance,
Matching Split Information Distance; Smith 2020)
<doi:10.1093/bioinformatics/btaa614>;
Jaccard-Robinson-Foulds distances (Bocker et al. 2013)
<doi:10.1007/978-3-642-40453-5_13>,
including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>;
the Matching Split Distance (Bogdanowicz & Giaro 2012)
<doi:10.1109/TCBB.2011.48>;
the Hierarchical Mutual Information (Perotti et al. 2015)
<doi:10.1103/PhysRevE.92.062825>;
Maximum Agreement Subtree distances;
the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the
Nearest Neighbour Interchange (NNI) distance, approximated per Li et al.
(1996) <doi:10.1007/3-540-61332-3_168>.
Includes tools for visualizing mappings of tree space (Smith 2022)
<doi:10.1093/sysbio/syab100>,
for identifying islands o [...truncated...]
Author: Martin R. Smith [aut, cre, cph, prg] ,
Roy Jonker [prg, cph] ,
Yong Yang [ctb, cph] ,
Yi Cao [ctb, cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeDist versions 2.11.1 dated 2025-10-13 and 2.12.0 dated 2026-02-13
DESCRIPTION | 17 MD5 | 94 NAMESPACE | 3 NEWS.md | 13 R/3Dplot.R |only R/RcppExports.R | 20 R/hierarchical_mutual_information.R | 2 R/lap.R | 2 R/tree_distance_nni.R | 2 R/tree_distance_rf.R | 2 R/tree_distance_spr.R | 380 +++ R/tree_information.R | 41 build/partial.rdb |binary inst/apa-old-doi-prefix.csl | 3164 +++++++++++++++++----------- inst/doc/Generalized-RF.html | 41 inst/doc/Robinson-Foulds.html | 47 inst/doc/Using-TreeDist.Rmd | 2 inst/doc/Using-TreeDist.html | 11 inst/doc/compare-treesets.Rmd | 2 inst/doc/compare-treesets.html | 15 inst/doc/different-leaves.html | 5 inst/doc/information.html | 16 inst/doc/landscapes.Rmd | 2 inst/doc/landscapes.html | 35 inst/doc/treespace.Rmd | 2 inst/doc/treespace.html | 89 inst/doc/using-distances.Rmd | 5 inst/doc/using-distances.html | 38 inst/treespace/app.R | 109 man/LAPJV.Rd | 2 man/SPRDist.Rd | 26 man/dot-ThreeDPlotServer.Rd |only src/RcppExports.cpp | 95 src/binary_entropy_counts.cpp |only src/day_1985.cpp | 257 +- src/information.h | 125 - src/spr |only src/spr.cpp | 211 - src/spr_lookup.cpp |only src/tree_distances.cpp | 192 - tests/testthat/test-VisualizeMatching.R | 2 tests/testthat/test-binary_entropy_counts.R |only tests/testthat/test-day_1985.cpp.r | 16 tests/testthat/test-split_info.R | 9 tests/testthat/test-tree_distance_spr.R | 273 ++ tests/testthat/test-tree_information.R | 8 vignettes/Using-TreeDist.Rmd | 2 vignettes/compare-treesets.Rmd | 2 vignettes/landscapes.Rmd | 2 vignettes/treespace.Rmd | 2 vignettes/using-distances.Rmd | 5 51 files changed, 3480 insertions(+), 1908 deletions(-)
Title: Classes and Methods for Spatial Data
Description: Classes and methods for spatial
data; the classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc. From this
version, 'rgdal', 'maptools', and 'rgeos' are no longer used at all,
see <https://r-spatial.org/r/2023/05/15/evolution4.html> for details.
Author: Edzer Pebesma [aut, cre],
Roger Bivand [aut],
Barry Rowlingson [ctb],
Virgilio Gomez-Rubio [ctb],
Robert Hijmans [ctb],
Michael Sumner [ctb],
Don MacQueen [ctb],
Jim Lemon [ctb],
Finn Lindgren [ctb],
Josh O'Brien [ctb],
Joseph O'Rourke [ctb],
Patrick [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sp versions 2.2-0 dated 2025-02-01 and 2.2-1 dated 2026-02-13
DESCRIPTION | 12 ++-- MD5 | 41 +++++++-------- R/SpatialLines-methods.R | 2 build/vignette.rds |binary inst/doc/csdacm.pdf |binary inst/doc/intro_sp.R | 52 +++++++++---------- inst/doc/intro_sp.Rnw | 4 - inst/doc/intro_sp.pdf |binary inst/doc/retiring_rgdal_geos_1.html | 2 inst/doc/sp_gallery.html | 95 ++++++++++++++---------------------- man/meuse.Rd | 2 man/meuse.grid.Rd | 3 - tests/base.R | 2 tests/base.Rout.save | 12 ++-- tests/pass1.R | 18 +++--- tests/pass1.Rout.save | 76 ++++++++++++++-------------- tests/sp1.R | 2 tests/sp1.Rout.save | 14 +++-- tests/utils |only tests/zerodist.R | 2 tests/zerodist.Rout.save | 18 +++--- vignettes/intro_sp.Rnw | 4 - 22 files changed, 175 insertions(+), 186 deletions(-)
Title: Horn's Test of Principal Components/Factors
Description: An implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between paran versions 1.5.4 dated 2025-04-12 and 1.5.5 dated 2026-02-13
DESCRIPTION | 12 +++-- MD5 | 11 ++-- NAMESPACE | 5 -- R/pad.spaces.R |only R/paran.R | 125 ++++++++++++++++++++++++++++++++++-------------------- build/partial.rdb |binary man/paran.Rd | 28 +++++++++--- 7 files changed, 117 insertions(+), 64 deletions(-)
Title: Fast QR Decomposition and Update
Description: Efficient algorithms for performing, updating, and removing rows or columns from the QR decomposition, R decomposition, or the inverse of the R decomposition of a matrix as rows or columns are added or removed. It also includes functions for solving linear systems of equations, normal equations for linear regression models, and normal equations for linear regression with a RIDGE penalty. For a detailed introduction to these methods, the monograph Matrix Computations (2013, <doi:10.1007/978-3-319-05089-8>) for complete introduction to the methods.
Author: Mauro Bernardi [aut, cre],
Claudio Busatto [aut],
Manuela Cattelan [aut]
Maintainer: Mauro Bernardi <mauro.bernardi@unipd.it>
This is a re-admission after prior archival of version 1.0.0 dated 2025-02-04
Diff between fastQR versions 1.0.0 dated 2025-02-04 and 1.1.4 dated 2026-02-13
DESCRIPTION | 12 MD5 | 51 +- NAMESPACE | 23 + R/RcppExports.R | 908 ++++++++++++++++++++++++++++++++++++++++++++++- build/partial.rdb |binary inst/WORDLIST |only man/qr_Q.Rd |only man/qr_Q_full.Rd |only man/qr_Q_reduced2full.Rd |only man/qr_Qty.Rd |only man/qr_Qy.Rd |only man/qr_R.Rd |only man/qr_X.Rd |only man/qr_coef.Rd |only man/qr_fast.Rd |only man/qr_fitted.Rd |only man/qr_lm.Rd |only man/qr_lse_Qty.Rd |only man/qr_lse_Qy.Rd |only man/qr_lse_coef.Rd |only man/qr_lse_fitted.Rd |only man/qr_lse_resid.Rd |only man/qr_pivot2perm.Rd |only man/qr_resid.Rd |only man/qr_thin.Rd |only man/rdowndate.Rd | 2 man/rupdate.Rd | 2 src/QR_utils_wrap.cpp | 481 ++++++++++++++++++++++++ src/QR_wrap.cpp | 59 +-- src/QRupdate.cpp | 156 +++++++- src/QRupdate.h | 11 src/RcppExports.cpp | 429 ++++++++++++++++++++++ src/fastQR_wrap.cpp |only src/fastQRutils.cpp |only src/fastQRutils.h |only src/thinQR_wrap.cpp | 42 +- src/utils.cpp | 4 src/utils.h | 1 38 files changed, 2107 insertions(+), 74 deletions(-)
Title: FDR Based Multiple Testing Procedures with Adaptation for
Discrete Tests
Description: Implementations of the multiple testing procedures for discrete
tests described in the paper Döhler, Durand and Roquain (2018) "New FDR
bounds for discrete and heterogeneous tests" <doi:10.1214/18-EJS1441>. The
main procedures of the paper (HSU and HSD), their adaptive counterparts
(AHSU and AHSD), and the HBR variant are available and are coded to take as
input the results of a test procedure from package 'DiscreteTests', or a set
of observed p-values and their discrete support under their nulls. A
shortcut function to obtain such p-values and supports is also provided,
along with a wrapper allowing to apply discrete procedures directly to data.
Author: Sebastian Doehler [aut, ctb] ,
Florian Junge [aut, ctb, cre] ,
Guillermo Durand [aut, ctb] ,
Etienne Roquain [ctb],
Christina Kihn [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteFDR versions 2.1.0 dated 2024-12-14 and 2.1.1 dated 2026-02-13
DESCRIPTION | 19 +++++----- MD5 | 30 +++++++-------- NEWS.md | 8 +++- R/support.R | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/DiscreteFDR.R | 8 ++-- inst/doc/DiscreteFDR.html | 79 ++++++++++++++++++------------------------ inst/doc/furtheranalyses.R | 4 +- inst/doc/furtheranalyses.Rmd | 8 ++-- inst/doc/furtheranalyses.html | 16 ++++---- inst/doc/toyexample.R | 4 +- inst/doc/toyexample.Rmd | 6 +-- inst/doc/toyexample.html | 17 ++++----- vignettes/furtheranalyses.Rmd | 8 ++-- vignettes/toyexample.Rmd | 6 +-- 16 files changed, 108 insertions(+), 107 deletions(-)
Title: Caught by the Fuzz! - A Minimalistic Fuzz-Test Runner
Description: A simple runner for fuzz-testing functions in an R package's
public interface. Fuzz testing helps identify functions lacking sufficient
argument validation, and uncovers problematic inputs that, while valid by
function signature, may cause issues within the function body.
Author: Marco Colombo [aut, cre]
Maintainer: Marco Colombo <mar.colombo13@gmail.com>
Diff between CBTF versions 0.5.0 dated 2025-08-21 and 0.6.0 dated 2026-02-13
CBTF-0.5.0/CBTF/man/namify.Rd |only CBTF-0.6.0/CBTF/DESCRIPTION | 12 - CBTF-0.6.0/CBTF/MD5 | 49 ++-- CBTF-0.6.0/CBTF/NAMESPACE | 2 CBTF-0.6.0/CBTF/NEWS.md | 33 ++ CBTF-0.6.0/CBTF/R/CBTF-package.R | 14 - CBTF-0.6.0/CBTF/R/fuzz.R | 267 +++++++++++------------ CBTF-0.6.0/CBTF/R/inputs.R | 35 ++- CBTF-0.6.0/CBTF/R/misc.R | 188 ++++++++++++---- CBTF-0.6.0/CBTF/R/queue.R |only CBTF-0.6.0/CBTF/R/summary.R | 59 ++++- CBTF-0.6.0/CBTF/README.md | 251 ++++++++++++++------- CBTF-0.6.0/CBTF/man/CBTF-package.Rd | 15 - CBTF-0.6.0/CBTF/man/fuzz.Rd | 106 +++++++-- CBTF-0.6.0/CBTF/man/get_exported_functions.Rd | 7 CBTF-0.6.0/CBTF/man/print.cbtf.Rd | 17 - CBTF-0.6.0/CBTF/man/sub-sub-.cbtf.Rd |only CBTF-0.6.0/CBTF/man/summary.cbtf.Rd | 4 CBTF-0.6.0/CBTF/man/test_inputs.Rd | 2 CBTF-0.6.0/CBTF/man/whitelist.Rd | 1 CBTF-0.6.0/CBTF/tests/testthat.R | 1 CBTF-0.6.0/CBTF/tests/testthat/_snaps/summary.md | 18 + CBTF-0.6.0/CBTF/tests/testthat/setup.R | 19 + CBTF-0.6.0/CBTF/tests/testthat/test_fuzz.R | 239 ++++++++++++++------ CBTF-0.6.0/CBTF/tests/testthat/test_inputs.R | 6 CBTF-0.6.0/CBTF/tests/testthat/test_misc.R | 167 +++++++++++--- CBTF-0.6.0/CBTF/tests/testthat/test_summary.R | 29 ++ 27 files changed, 1091 insertions(+), 450 deletions(-)
Title: Taxonomic Information from 'Wikipedia'
Description: 'Taxonomic' information from 'Wikipedia', 'Wikicommons',
'Wikispecies', and 'Wikidata'. Functions included for getting
taxonomic information from each of the sources just listed, as
well performing taxonomic search.
Author: Scott Chamberlain [aut],
Ethan Welty [aut],
Grzegorz Sapijaszko [aut],
Zachary Foster [aut, cre]
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
This is a re-admission after prior archival of version 0.4.0 dated 2020-06-29
Diff between wikitaxa versions 0.4.0 dated 2020-06-29 and 0.5.0 dated 2026-02-13
wikitaxa-0.4.0/wikitaxa/tests/fixtures |only wikitaxa-0.5.0/wikitaxa/DESCRIPTION | 29 - wikitaxa-0.5.0/wikitaxa/LICENSE | 2 wikitaxa-0.5.0/wikitaxa/MD5 | 71 +-- wikitaxa-0.5.0/wikitaxa/NEWS.md | 10 wikitaxa-0.5.0/wikitaxa/R/wiki.R | 75 +++- wikitaxa-0.5.0/wikitaxa/R/wikispecies.R | 2 wikitaxa-0.5.0/wikitaxa/R/wikitaxa-package.R | 3 wikitaxa-0.5.0/wikitaxa/README.md | 84 ++-- wikitaxa-0.5.0/wikitaxa/build/vignette.rds |binary wikitaxa-0.5.0/wikitaxa/inst/doc/wikitaxa.html | 249 ++++++-------- wikitaxa-0.5.0/wikitaxa/man/wikitaxa-package.Rd | 9 wikitaxa-0.5.0/wikitaxa/man/wt_data.Rd | 7 wikitaxa-0.5.0/wikitaxa/man/wt_wiki_url_build.Rd | 2 wikitaxa-0.5.0/wikitaxa/man/wt_wiki_url_parse.Rd | 2 wikitaxa-0.5.0/wikitaxa/tests/testthat/_vcr |only wikitaxa-0.5.0/wikitaxa/tests/testthat/helper-wikitaxa.R | 5 wikitaxa-0.5.0/wikitaxa/tests/testthat/test-wikipedia.R | 1 wikitaxa-0.5.0/wikitaxa/tests/testthat/test-wikispecies.R | 70 ++- wikitaxa-0.5.0/wikitaxa/tests/testthat/test-wt_data.R | 4 20 files changed, 344 insertions(+), 281 deletions(-)
Title: Data Sets, Etc. for the Text "Using R for Introductory
Statistics", Second Edition
Description: A collection of data sets to accompany the
textbook "Using R for Introductory Statistics," second
edition.
Author: John Verzani [aut, cre]
Maintainer: John Verzani <verzani@math.csi.cuny.edu>
Diff between UsingR versions 2.0-7 dated 2022-01-11 and 2.0-8 dated 2026-02-13
DESCRIPTION | 12 + MD5 | 290 +++++++++++++++++++++--------------------- R/QQplot.R | 21 +-- data/BushApproval.rda |binary data/HUMMER.rda |binary data/KSI.rda |binary data/MLBattend.rda |binary data/Medicare.rda |binary data/OBP.rda |binary data/ObamaApproval.rda |binary data/age.universe.rda |binary data/aid.rda |binary data/alaska.pipeline.rda |binary data/alltime.movies.rda |binary data/aosat.rda |binary data/arctic.oscillations.rda |binary data/babies.rda |binary data/babyboom.rda |binary data/batting.rda |binary data/baycheck.rda |binary data/best.times.rda |binary data/blood.rda |binary data/breakdown.rda |binary data/bright.stars.rda |binary data/brightness.rda |binary data/bumpers.rda |binary data/bycatch.rda |binary data/cabinet.rda |binary data/camp.rda |binary data/cancer.rda |binary data/carbon.rda |binary data/carsafety.rda |binary data/central.park.cloud.rda |binary data/central.park.rda |binary data/ceo2013.rda |binary data/cfb.rda |binary data/chicken.rda |binary data/chips.rda |binary data/co2emiss.rda |binary data/coins.rda |binary data/coldvermont.rda |binary data/corn.rda |binary data/crime.rda |binary data/deflection.rda |binary data/diamond.rda |binary data/divorce.rda |binary data/dottodot.rda |binary data/dowdata.rda |binary data/dvdsales.rda |binary data/emissions.rda |binary data/ewr.rda |binary data/exec.pay.rda |binary data/fat.rda |binary data/father.son.rda |binary data/female.inc.rda |binary data/firstchi.rda |binary data/five.yr.temperature.rda |binary data/florida.rda |binary data/galileo.rda |binary data/galton.rda |binary data/gap.rda |binary data/gasprices.rda |binary data/goalspergame.rda |binary data/google.rda |binary data/grades.rda |binary data/grip.rda |binary data/hall.fame.rda |binary data/heartrate.rda |binary data/home.rda |binary data/homedata.rda |binary data/homeprice.rda |binary data/homework.rda |binary data/income_percentiles.RData |binary data/iq.rda |binary data/kid.weights.rda |binary data/last.tie.rda |binary data/lawsuits.rda |binary data/malpract.rda |binary data/mandms.rda |binary data/math.rda |binary data/maydow.rda |binary data/movie_data_2011.rda |binary data/movies.rda |binary data/mw.ages.rda |binary data/nba.draft.rda |binary data/nisdc.rda |binary data/normtemp.rda |binary data/nym.2002.rda |binary data/oral.lesion.rda |binary data/ozonemonthly.rda |binary data/paradise.rda |binary data/pi2000.rda |binary data/primes.rda |binary data/puerto.rda |binary data/rat.rda |binary data/reaction.time.rda |binary data/reddrum.rda |binary data/salmon.rate.rda |binary data/salmonharvest.rda |binary data/samhda.rda |binary data/scrabble.rda |binary data/slc.rda |binary data/smokyph.rda |binary data/snacks.rda |binary data/south.rda |binary data/southernosc.rda |binary data/sp500.excess.rda |binary data/stud.recs.rda |binary data/student.expenses.rda |binary data/tcm1y.rda |binary data/tempsalinity.rda |binary data/too.young.rda |binary data/twins.rda |binary data/u2.rda |binary data/urchin.growth.rda |binary data/vacation.rda |binary data/watertemp.rda |binary data/wchomes.rda |binary data/wellbeing.rda |binary data/yellowfin.rda |binary man/MLBattend.Rd | 2 man/Medicare.Rd | 2 man/age.universe.Rd | 2 man/aosat.Rd | 6 man/arctic.oscillations.Rd | 7 - man/babies.Rd | 4 man/batting.Rd | 8 - man/cabinet.Rd | 14 +- man/central.park.cloud.Rd | 4 man/diamond.Rd | 2 man/exec.pay.Rd | 4 man/fat.Rd | 2 man/maydow.Rd | 2 man/movie_data_2011.Rd | 3 man/mw.ages.Rd | 2 man/nba.draft.Rd | 2 man/normtemp.Rd | 2 man/npdb.Rd | 4 man/ozonemonthly.Rd | 4 man/pi2000.Rd | 2 man/salmon.rate.Rd | 2 man/snacks.Rd | 2 man/sp500.excess.Rd | 4 man/tcm1y.Rd | 2 man/wchomes.Rd | 4 man/wellbeing.Rd | 4 146 files changed, 210 insertions(+), 209 deletions(-)
Title: Data and Tools for Analyzing the Pali Canon
Description: Provides access to the complete Pali Canon, or
Tipitaka, the canonical scripture for Theravadin Buddhists
worldwide. Based on the Chattha Sangayana Tipitaka version
4 (Vipassana Research Institute, 1990). Includes word
frequency data and tools for Pali string sorting. For a
lemmatized critical edition with sutta-level granularity,
see the companion package 'tipitaka.critical'.
Author: Dan Zigmond [aut, cre]
Maintainer: Dan Zigmond <djz@shmonk.com>
This is a re-admission after prior archival of version 0.1.2 dated 2021-03-30
Diff between tipitaka versions 0.1.2 dated 2021-03-30 and 1.0.0 dated 2026-02-13
tipitaka-0.1.2/tipitaka/data/sati_sutta_long.rda |only tipitaka-0.1.2/tipitaka/data/sati_sutta_raw.rda |only tipitaka-0.1.2/tipitaka/data/tipitaka_long.rda |only tipitaka-0.1.2/tipitaka/data/tipitaka_wide.rda |only tipitaka-0.1.2/tipitaka/man/sati_sutta_long.Rd |only tipitaka-0.1.2/tipitaka/man/sati_sutta_raw.Rd |only tipitaka-1.0.0/tipitaka/DESCRIPTION | 21 - tipitaka-1.0.0/tipitaka/MD5 | 55 +-- tipitaka-1.0.0/tipitaka/NAMESPACE | 4 tipitaka-1.0.0/tipitaka/NEWS.md | 35 +- tipitaka-1.0.0/tipitaka/R/compute.R |only tipitaka-1.0.0/tipitaka/R/cpp11.R | 4 tipitaka-1.0.0/tipitaka/R/pali-sort.R | 12 tipitaka-1.0.0/tipitaka/R/tipitaka-docs.R | 157 +++------- tipitaka-1.0.0/tipitaka/R/tipitaka-package.R | 12 tipitaka-1.0.0/tipitaka/README.md | 59 +-- tipitaka-1.0.0/tipitaka/data/tipitaka_raw.rda |binary tipitaka-1.0.0/tipitaka/man/abhidhamma_pitaka.Rd | 7 tipitaka-1.0.0/tipitaka/man/figures/README-dendogram-1.png |binary tipitaka-1.0.0/tipitaka/man/figures/README-dendogram-critical-1.png |only tipitaka-1.0.0/tipitaka/man/figures/README-freq-by-word-1.png |binary tipitaka-1.0.0/tipitaka/man/figures/README-kmeans-1.png |binary tipitaka-1.0.0/tipitaka/man/figures/README-sutta-clustering-1.png |only tipitaka-1.0.0/tipitaka/man/figures/README-wordclouds-1.png |binary tipitaka-1.0.0/tipitaka/man/pali_sort.Rd | 9 tipitaka-1.0.0/tipitaka/man/pali_stop_words.Rd | 12 tipitaka-1.0.0/tipitaka/man/sutta_pitaka.Rd | 13 tipitaka-1.0.0/tipitaka/man/tipitaka.Rd | 61 ++- tipitaka-1.0.0/tipitaka/man/tipitaka_long.Rd | 10 tipitaka-1.0.0/tipitaka/man/tipitaka_names.Rd | 4 tipitaka-1.0.0/tipitaka/man/tipitaka_wide.Rd | 7 tipitaka-1.0.0/tipitaka/man/vinaya_pitaka.Rd | 7 tipitaka-1.0.0/tipitaka/src/cpp11.cpp | 12 33 files changed, 236 insertions(+), 265 deletions(-)
Title: A Tool to Associate FASTA Sequences and Features
Description: Provides user friendly methods for the identification of sequence patterns that are statistically significantly associated with a property of the sequence. For instance, SeqFeatR allows to identify viral immune escape mutations for hosts of given HLA types. The underlying statistical method is Fisher's exact test, with appropriate corrections for multiple testing, or Bayes. Patterns may be point mutations or n-tuple of mutations. SeqFeatR offers several ways to visualize the results of the statistical analyses, see Budeus (2016) <doi:10.1371/journal.pone.0146409>.
Author: Bettina Budeus [aut, cre]
Maintainer: Bettina Budeus <bettina.budeus@stud.uni-due.de>
Diff between SeqFeatR versions 0.3.1 dated 2019-04-12 and 0.3.3 dated 2026-02-13
DESCRIPTION | 13 +++++++------ MD5 | 36 ++++++++++++++++++------------------ NEWS | 10 ++++++++++ R/visualizepairfeat.R | 2 +- build/vignette.rds |binary inst/CITATION | 6 ++---- inst/doc/SeqFeatR_tutorial.Rnw | 2 +- inst/doc/SeqFeatR_tutorial.pdf |binary man/assocpointpair.Rd | 3 ++- man/foundereffectfinder.Rd | 3 ++- man/getfreqs.Rd | 3 ++- man/orPlot.Rd | 3 ++- man/q-values.Rd | 3 ++- man/rewritetuple.Rd | 3 ++- man/tartan.Rd | 3 ++- man/visualizepair.Rd | 3 ++- man/visualizepairfeat.Rd | 3 ++- man/volcanoplot.Rd | 3 ++- vignettes/SeqFeatR_tutorial.Rnw | 2 +- 19 files changed, 60 insertions(+), 41 deletions(-)
Title: Data on Cars in Qatar
Description: Fuel economy, size, performance, and price data for cars in Qatar in 2025. Mirrors many of the columns in mtcars, but uses (1) non-US-centric makes and models, (2) 2025 prices, and (3) metric measurements, making it more appropriate for use as an example dataset outside the United States. For more details see Musgrave (2025) <doi:10.1080/15512169.2025.2572320>.
Author: Paul Musgrave [aut, cre, cph] ,
Andrew Heiss [aut]
Maintainer: Paul Musgrave <rpm47@georgetown.edu>
Diff between qatarcars versions 1.0.0 dated 2025-10-16 and 1.1.0 dated 2026-02-13
qatarcars-1.0.0/qatarcars/man/figures/img |only qatarcars-1.1.0/qatarcars/DESCRIPTION | 12 qatarcars-1.1.0/qatarcars/MD5 | 47 qatarcars-1.1.0/qatarcars/NAMESPACE | 7 qatarcars-1.1.0/qatarcars/NEWS.md | 14 qatarcars-1.1.0/qatarcars/R/color.R |only qatarcars-1.1.0/qatarcars/R/currency.R |only qatarcars-1.1.0/qatarcars/R/qatarcars.R | 16 qatarcars-1.1.0/qatarcars/R/sysdata.rda |binary qatarcars-1.1.0/qatarcars/R/utils.R |only qatarcars-1.1.0/qatarcars/README.md | 225 +++- qatarcars-1.1.0/qatarcars/build |only qatarcars-1.1.0/qatarcars/inst/CITATION |only qatarcars-1.1.0/qatarcars/inst/extdata/qatarcars.csv | 28 qatarcars-1.1.0/qatarcars/inst/extdata/qatarcars.dta |binary qatarcars-1.1.0/qatarcars/inst/extdata/qatarcars.rds |binary qatarcars-1.1.0/qatarcars/man/currency_conversion.Rd |only qatarcars-1.1.0/qatarcars/man/figures/README-plot-economy-histogram-1.png |binary qatarcars-1.1.0/qatarcars/man/figures/README-plot-mass-economy-1.png |binary qatarcars-1.1.0/qatarcars/man/figures/README-plot-mass-economy-us-1.png |only qatarcars-1.1.0/qatarcars/man/figures/README-plot-performance-price-1.png |binary qatarcars-1.1.0/qatarcars/man/figures/README-plot-performance-price-usd-1.png |only qatarcars-1.1.0/qatarcars/man/figures/README-plot-price-eur-1.png |only qatarcars-1.1.0/qatarcars/man/figures/README-show-qatar-maroon-1.png |only qatarcars-1.1.0/qatarcars/man/figures/qatarcars_hex.png |only qatarcars-1.1.0/qatarcars/man/figures/rstudio-viewer-labels.png |only qatarcars-1.1.0/qatarcars/man/qatar_maroon.Rd |only qatarcars-1.1.0/qatarcars/man/qatarcars-package.Rd | 2 qatarcars-1.1.0/qatarcars/man/qatarcars.Rd | 14 qatarcars-1.1.0/qatarcars/man/set_label.Rd |only qatarcars-1.1.0/qatarcars/tests/testthat/_snaps/data.md | 501 +++++----- qatarcars-1.1.0/qatarcars/tests/testthat/test-currency.R |only 32 files changed, 548 insertions(+), 318 deletions(-)
Title: High-Dimensional Variable Selection with Presence-Only Data
Description: Efficient algorithm for solving PU (Positive and Unlabeled) problem in low or high dimensional setting with lasso or group lasso penalty. The algorithm uses Maximization-Minorization and (block) coordinate descent. Sparse calculation and parallel computing are supported for the computational speed-up. See Hyebin Song, Garvesh Raskutti (2018) <doi:10.48550/arXiv.1711.08129>.
Author: Hyebin Song [aut, cre],
Garvesh Raskutti [aut]
Maintainer: Hyebin Song <hps5320@psu.edu>
This is a re-admission after prior archival of version 3.2.5 dated 2023-12-18
Diff between PUlasso versions 3.2.5 dated 2023-12-18 and 3.2.6 dated 2026-02-13
DESCRIPTION | 13 +++++++------ MD5 | 12 ++++++------ R/PUlasso.R | 28 ++++++++++++++-------------- build/vignette.rds |binary inst/doc/PUlasso-vignette.html | 24 ++++++++++++------------ man/PUlasso-package.Rd | 3 ++- tests/testthat/test.R | 4 ++-- 7 files changed, 43 insertions(+), 41 deletions(-)
Title: Decision Models with Multi Attribute Utility Theory
Description: Provides functions for the creation, evaluation and test of decision models based in
Multi Attribute Utility Theory (MAUT). Can process and evaluate local risk aversion utilities
for a set of indexes, compute utilities and weights for the whole decision tree defining the
decision model and simulate weights employing Dirichlet distributions under addition constraints
in weights.
Also includes other rating analysis methods as for example the Colley, Offensive - Defensive
ratings and the ranking aggregation with Borda count.
Author: Felipe Aguirre [ctb],
Julio Andrade [ctb],
Pedro Guarderas [aut, cre],
Daniel Lagos [ctb],
Andres Lopez [ctb],
Nelson Recalde [ctb],
Edison Salazar [ctb]
Maintainer: Pedro Guarderas <pedro.felipe.guarderas@gmail.com>
Diff between mau versions 0.1.2 dated 2018-01-17 and 0.4.0 dated 2026-02-13
mau-0.1.2/mau/R/Bar.Plot.R |only mau-0.1.2/mau/R/Compute.Model.R |only mau-0.1.2/mau/R/Eval.Utilities.R |only mau-0.1.2/mau/R/Make.Tree.R |only mau-0.1.2/mau/R/Plot.Simulation.Weight.R |only mau-0.1.2/mau/R/Read.Tree.R |only mau-0.1.2/mau/R/Read.Utilities.R |only mau-0.1.2/mau/R/Simulate.Weights.R |only mau-0.1.2/mau/R/Spider.Plot.R |only mau-0.1.2/mau/R/Stand.String.R |only mau-0.1.2/mau/man/Bar.Plot.Rd |only mau-0.1.2/mau/man/Compute.Model.Rd |only mau-0.1.2/mau/man/Deep.Compute.Rd |only mau-0.1.2/mau/man/Divide.Weights.Rd |only mau-0.1.2/mau/man/Eval.Utilities.Rd |only mau-0.1.2/mau/man/Index.Weights.Rd |only mau-0.1.2/mau/man/Make.Decision.Tree.Rd |only mau-0.1.2/mau/man/Plot.Simulation.Weight.Rd |only mau-0.1.2/mau/man/Read.Tree.Rd |only mau-0.1.2/mau/man/Read.Utilities.Rd |only mau-0.1.2/mau/man/Sim.Const.Weights.Rd |only mau-0.1.2/mau/man/Sim.Weights.Rd |only mau-0.1.2/mau/man/Spider.Plot.Rd |only mau-0.1.2/mau/man/Stand.String.Rd |only mau-0.1.2/mau/man/Sum.Weights.Rd |only mau-0.4.0/mau/DESCRIPTION | 15 mau-0.4.0/mau/MD5 | 82 - mau-0.4.0/mau/NAMESPACE | 35 mau-0.4.0/mau/NEWS.md | 10 mau-0.4.0/mau/R/bar_plot.R |only mau-0.4.0/mau/R/compute_model.R |only mau-0.4.0/mau/R/eval_utilities.R |only mau-0.4.0/mau/R/make_tree.R |only mau-0.4.0/mau/R/mau.R | 2 mau-0.4.0/mau/R/plot_simulation_weight.R |only mau-0.4.0/mau/R/rating_methods.R |only mau-0.4.0/mau/R/read_tree.R |only mau-0.4.0/mau/R/read_utilities.R |only mau-0.4.0/mau/R/simulate_weights.R |only mau-0.4.0/mau/R/spider_plot.R |only mau-0.4.0/mau/R/string_treatment.R |only mau-0.4.0/mau/README.md | 153 +-- mau-0.4.0/mau/build/partial.rdb |binary mau-0.4.0/mau/build/vignette.rds |binary mau-0.4.0/mau/inst/doc/Running_MAUT.R | 110 +- mau-0.4.0/mau/inst/doc/Running_MAUT.Rmd | 147 +-- mau-0.4.0/mau/inst/doc/Running_MAUT.html | 1364 +++++++++++++++++++++++++--- mau-0.4.0/mau/inst/doc/rankings.R |only mau-0.4.0/mau/inst/doc/rankings.Rmd |only mau-0.4.0/mau/inst/doc/rankings.html |only mau-0.4.0/mau/man/bar_plot.Rd |only mau-0.4.0/mau/man/borda_count.Rd |only mau-0.4.0/mau/man/colley_rating.Rd |only mau-0.4.0/mau/man/compute_model.Rd |only mau-0.4.0/mau/man/deep_compute.Rd |only mau-0.4.0/mau/man/divide_weights.Rd |only mau-0.4.0/mau/man/eval_utilities.Rd |only mau-0.4.0/mau/man/index_weights.Rd |only mau-0.4.0/mau/man/make_decision_tree.Rd |only mau-0.4.0/mau/man/mau-package.Rd | 2 mau-0.4.0/mau/man/od_rating.Rd |only mau-0.4.0/mau/man/plot_sim_weight.Rd |only mau-0.4.0/mau/man/read_tree.Rd |only mau-0.4.0/mau/man/read_utilities.Rd |only mau-0.4.0/mau/man/sim_const_weights.Rd |only mau-0.4.0/mau/man/sim_weights.Rd |only mau-0.4.0/mau/man/spider_plot.Rd |only mau-0.4.0/mau/man/stand_string.Rd |only mau-0.4.0/mau/man/sum_weights.Rd |only mau-0.4.0/mau/vignettes/Running_MAUT.Rmd | 147 +-- mau-0.4.0/mau/vignettes/rankings.Rmd |only 71 files changed, 1630 insertions(+), 437 deletions(-)
Title: Enhancing Data Quality of Biogeographic Ranges with Application
for Marine Invertebrates
Description: Provides step-by-step automation for integrating biodiversity data from multiple online aggregators, merging and cleaning datasets while addressing challenges such as taxonomic inconsistencies, georeferencing issues, and spatial or environmental outliers. Includes functions to extract environmental data and to define the biogeographic ranges in which species are most likely to occur. For methodological details see the associated publication.<doi: 10.1002/ecog.08203>.
Author: Priyanka Soni [aut, cre] ,
Austin Hendy [ctb] ,
David Bottjer [ctb] ,
Vijay Barve [ctb]
Maintainer: Priyanka Soni <sonip@usc.edu>
Diff between EcoCleanR versions 1.0.2 dated 2026-02-11 and 1.0.3 dated 2026-02-13
DESCRIPTION | 20 +- MD5 | 34 ++-- NAMESPACE | 5 NEWS.md | 5 R/ec_rm_duplicate_occurid.R |only R/ec_worms_synonym.R | 74 ++++++-- README.md | 2 inst/CITATION | 2 inst/WORDLIST | 9 - inst/doc/data_cleaning.Rmd | 7 inst/doc/data_cleaning.html | 32 ++- inst/doc/data_merging.R | 2 inst/doc/data_merging.Rmd | 306 ++++++++++++++++++------------------ inst/doc/data_merging.html | 2 man/ec_rm_duplicate_occurid.Rd |only man/ec_worms_synonym.Rd | 16 + tests/testthat/test-data_cleaning.R | 32 +++ vignettes/data_cleaning.Rmd | 7 vignettes/data_merging.Rmd | 306 ++++++++++++++++++------------------ 19 files changed, 487 insertions(+), 374 deletions(-)
Title: Adaptive Dynamics and Community Matrix Model Projections
Description: Runs projections of groups of matrix projection models (MPMs),
allowing density dependence mechanisms to work across MPMs. This
package was developed to run both adaptive dynamics simulations
such as pairwise and multiple invasibility analyses, and community
projections in which species are represented by MPMs. All forms of
MPMs are allowed, including integral projection models (IPMs).
Author: Richard P. Shefferson [aut, cre]
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between adapt3 versions 2.0.0 dated 2026-02-09 and 2.0.7 dated 2026-02-13
DESCRIPTION | 10 MD5 | 44 ++- NEWS.md | 16 + R/RcppExports.R | 45 ++-- R/utilities.R | 2 inst/doc/invasion.Rmd | 268 +++++++++-------------- inst/doc/invasion.html | 380 +++++++++++++--------------------- inst/include/basic_funcs/main_utils.h | 6 inst/include/basic_funcs/mats_utils.h | 18 - man/batch_project3.Rd | 14 - man/invade3.Rd | 4 man/project3.Rd | 4 man/summary.adaptInv.Rd | 2 src/RcppExports.cpp | 26 +- src/projection.cpp | 281 ++++++++++++++++--------- tests |only vignettes/ch2-2.11-1.png |binary vignettes/ch2-2.13-1.png |binary vignettes/ch2-2.14-1.png |binary vignettes/ch2-2.18-1.png |binary vignettes/invasion.Rmd | 268 +++++++++-------------- vignettes/invasion.Rmd.orig | 19 - 22 files changed, 670 insertions(+), 737 deletions(-)
Title: Visual Regression Testing and Graphical Diffing
Description: An extension to the 'testthat' package that makes it easy to
add graphical unit tests. It provides a Shiny application to manage
the test cases.
Author: Lionel Henry [aut],
Thomas Lin Pedersen [cre, aut] ,
Posit Software, PBC [cph, fnd],
T Jake Luciani [aut] ,
Matthieu Decorde [aut] ,
Vaudor Lise [aut] ,
Tony Plate [ctb] ,
David Gohel [ctb] ,
Yixuan Qiu [ctb] ,
Hakon Malmedal [ctb]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between vdiffr versions 1.0.8 dated 2024-10-31 and 1.0.9 dated 2026-02-13
DESCRIPTION | 17 ++-- MD5 | 16 ++-- NEWS.md | 5 + R/expect-doppelganger.R | 8 +- README.md | 2 man/expect_doppelganger.Rd | 4 - src/Makevars | 2 src/Makevars.win | 2 tests/testthat/_snaps/expect-doppelganger/myplot.svg | 66 +++++++++---------- 9 files changed, 63 insertions(+), 59 deletions(-)
Title: Spatial Modeling of Infectious Disease with Reinfection
Description: Geographically Dependent Individual Level Models (GDILMs) within the Susceptible-Exposed-Infectious-Recovered-Susceptible (SEIRS) framework are applied to model infectious disease transmission, incorporating reinfection dynamics. This package employs a likelihood based Monte Carlo Expectation Conditional Maximization (MCECM) algorithm for estimating model parameters. It also provides tools for GDILM fitting, parameter estimation, AIC calculation on real pandemic data, and simulation studies customized to user-defined model settings.
Author: Amin Abed [aut, cre, cph] ,
Mahmoud Torabi [ths],
Zeinab Mashreghi [ths]
Maintainer: Amin Abed <abeda@myumanitoba.ca>
This is a re-admission after prior archival of version 0.0.5 dated 2025-11-02
Diff between GDILM.SEIRS versions 0.0.5 dated 2025-11-02 and 0.0.6 dated 2026-02-13
DESCRIPTION | 7 ++++--- MD5 | 5 +++-- R/GDILM_SEIRS_Sim_Par_Est.R | 4 ++-- inst |only 4 files changed, 9 insertions(+), 7 deletions(-)
Title: Optimal Histogram Binning Using Shimazaki-Shinomoto Method
Description: Implements the Shimazaki-Shinomoto method for optimizing the
bin width of a histogram. This method minimizes the mean integrated
squared error (MISE) and features a 'C++' backend for high performance
and shift-averaging to remove edge-position bias. Ideally suits for
time-dependent rate estimation and identifying intrinsic data structures.
Supports both 1D and 2D data distributions. For more details see
Shimazaki and Shinomoto (2007) "A Method for Selecting the Bin Size of a Time Histogram" <doi:10.1162/neco.2007.19.6.1503>.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between sshist versions 0.1.1 dated 2026-02-12 and 0.1.2 dated 2026-02-13
sshist-0.1.1/sshist/man/figures/README-example-1.png |only sshist-0.1.1/sshist/man/figures/README-example-1d-ggplot2-1.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-1.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-2.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-ggplot-2.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-ggplot-3.png |only sshist-0.1.1/sshist/man/figures/README-example1-1.png |only sshist-0.1.1/sshist/man/figures/README-example2-1.png |only sshist-0.1.1/sshist/man/figures/README-example3-1.png |only sshist-0.1.1/sshist/man/figures/README-example4-1.png |only sshist-0.1.1/sshist/man/figures/README-example4-2.png |only sshist-0.1.1/sshist/man/figures/README-pressure-1.png |only sshist-0.1.2/sshist/DESCRIPTION | 20 ++--- sshist-0.1.2/sshist/MD5 | 34 +++------- sshist-0.1.2/sshist/NEWS.md | 24 +++++++ sshist-0.1.2/sshist/R/sshist.R | 17 +++++ sshist-0.1.2/sshist/inst/doc/introduction.R | 4 - sshist-0.1.2/sshist/inst/doc/introduction.Rmd | 4 - sshist-0.1.2/sshist/inst/doc/introduction.html | 4 - sshist-0.1.2/sshist/man/plot.sshist.Rd | 5 + sshist-0.1.2/sshist/man/plot.sshist_2d.Rd | 6 + sshist-0.1.2/sshist/man/print.sshist.Rd | 6 + sshist-0.1.2/sshist/man/print.sshist_2d.Rd | 6 + sshist-0.1.2/sshist/vignettes/introduction.Rmd | 4 - 24 files changed, 93 insertions(+), 41 deletions(-)
Title: Variable Selection in Partial Least Squares
Description: Interfaces and methods for variable selection in Partial Least
Squares. The methods include filter methods, wrapper methods and embedded
methods. Both regression and classification is supported.
Author: Kristian Hovde Liland [aut, cre] ,
Tahir Mehmood [ctb],
Solve Saeboe [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between plsVarSel versions 0.9.13 dated 2025-04-09 and 0.10.0 dated 2026-02-13
DESCRIPTION | 14 +++++++------- MD5 | 45 ++++++++++++++++++++++++--------------------- NAMESPACE | 2 ++ NEWS | 7 +++++++ R/BVE.R | 20 +++++++++++++------- R/GA.R | 2 +- R/IPW.R | 8 ++------ R/PVS_PVR.R |only R/REP.R | 16 ++++++++++------ R/SPA.R | 9 +++------ R/T2.R | 3 +-- R/UVE.R | 10 ++++------ R/WVC.R | 10 +++++----- R/covSel.R | 1 - R/filters.R | 22 ++++++++++------------ R/lda_from_pls.R | 12 ++++++------ R/mvrV.R | 16 ++++++++-------- R/shaving.R | 9 ++++----- R/stpls.R | 14 +++++++------- R/trunc.R | 7 ++++--- R/utilities.R | 36 ++++++++++++++++++------------------ README.md | 1 + man/PVR.Rd |only man/PVS.Rd |only man/bve_pls.Rd | 2 +- 25 files changed, 138 insertions(+), 128 deletions(-)
Title: Penalized Ordinal Regression
Description: Fits ordinal regression models with elastic net penalty.
Supported model families include cumulative probability, stopping ratio,
continuation ratio, and adjacent category. These families are a subset of
vector glm's which belong to a model class we call the elementwise link
multinomial-ordinal (ELMO) class. Each family in this class links a vector
of covariates to a vector of class probabilities. Each of these families
has a parallel form, which is appropriate for ordinal response data, as
well as a nonparallel form that is appropriate for an unordered categorical
response, or as a more flexible model for ordinal data. The parallel model
has a single set of coefficients, whereas the nonparallel model has a set of
coefficients for each response category except the baseline category. It is
also possible to fit a model with both parallel and nonparallel terms, which
we call the semi-parallel model. The semi-parallel model has the flexibility
of the nonparallel model, but the elastic net [...truncated...]
Author: Michael Wurm [aut, cre],
Paul Rathouz [aut],
Bret Hanlon [aut]
Maintainer: Michael Wurm <wurm@uwalumni.com>
Diff between ordinalNet versions 2.13 dated 2025-05-15 and 2.14 dated 2026-02-13
DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 16 ++++++++-------- R/ordinalNet.R | 12 +++++++----- R/ordinalNetCV.R | 18 +++++++++++------- R/ordinalNetTune.R | 18 +++++++++++------- man/ordinalNet.Rd | 12 +++++++----- man/ordinalNetCV.Rd | 16 ++++++++++------ man/ordinalNetTune.Rd | 16 ++++++++++------ 9 files changed, 69 insertions(+), 49 deletions(-)
Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely
compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models
and do basic R-style math, and compiling both models and nimbleFunctions via
custom-generated C++. 'NIMBLE' includes default methods for MCMC, Laplace
Approximation, deterministic nested approximations, Monte Carlo Expectation
Maximization, and some other tools.
The nimbleFunction system makes it easy to do things like implement new MCMC
samplers from R, customize the assignment of samplers to different parts of
a model from R, and compile the new samplers automatically via C++ alongside
the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language
by making it extensible: New distributions and functions can be added,
including as calls to external compiled code. Although most people think
of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models,
one can use 'NIMBLE' for writing arbitrary other kinds of model-generic
al [...truncated...]
Author: Perry de Valpine [aut],
Christopher Paciorek [aut, cre],
Daniel Turek [aut],
Nick Michaud [aut],
Cliff Anderson-Bergman [aut],
Fritz Obermeyer [aut],
Claudia Wehrhahn Cortes [aut] ,
Abel Rodriguez [aut] ,
Duncan Temple Lang [aut] ,
Wei Zhang [aut] ,
[...truncated...]
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between nimble versions 1.4.0 dated 2025-12-13 and 1.4.1 dated 2026-02-13
DESCRIPTION | 10 INSTALL | 6 LICENSE | 2 MD5 | 36 +- NAMESPACE | 1 R/BUGS_model.R | 40 ++ R/BUGS_modelDef.R | 4 R/MCMC_build.R | 52 ++- R/MCMC_configuration.R | 16 - R/MCMC_conjugacy.R | 63 ++-- R/MCMC_samplers.R | 149 +++++++++ R/initializeModel.R | 2 R/options.R | 2 inst/COPYRIGHTS | 4 inst/NEWS.md | 25 + man/initializeModel.Rd | 2 man/samplers.Rd | 17 + tests/testthat/test-mcem.R | 16 - tests/testthat/test-mcmc.R | 691 ++++++++++++++++++++++++++++++++++++--------- 19 files changed, 909 insertions(+), 229 deletions(-)
Title: Minimalist Async Evaluation Framework for R
Description: Evaluates R expressions asynchronously and in parallel,
locally or distributed across networks. An official parallel cluster
type for R. Built on 'nanonext' and 'NNG', its non-polling,
event-driven architecture scales from a laptop to thousands of
processes across high-performance computing clusters and cloud
platforms. Features FIFO scheduling with task cancellation, promises
for reactive programming, 'OpenTelemetry' distributed tracing, and
custom serialization for cross-language data types.
Author: Charlie Gao [aut, cre] ,
Joe Cheng [ctb],
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between mirai versions 2.5.3 dated 2025-12-01 and 2.6.0 dated 2026-02-13
mirai-2.5.3/mirai/inst/CITATION |only mirai-2.6.0/mirai/DESCRIPTION | 26 +- mirai-2.6.0/mirai/MD5 | 127 +++++----- mirai-2.6.0/mirai/NAMESPACE | 9 mirai-2.6.0/mirai/NEWS.md | 20 + mirai-2.6.0/mirai/R/daemon.R | 101 +++----- mirai-2.6.0/mirai/R/daemons.R | 191 +++++---------- mirai-2.6.0/mirai/R/dispatcher.R | 156 ------------ mirai-2.6.0/mirai/R/launchers.R | 270 ++++++++++++++-------- mirai-2.6.0/mirai/R/map.R | 53 +--- mirai-2.6.0/mirai/R/mirai-package.R | 32 +- mirai-2.6.0/mirai/R/mirai.R | 226 +++++++++--------- mirai-2.6.0/mirai/R/next.R | 16 - mirai-2.6.0/mirai/R/parallel.R | 32 -- mirai-2.6.0/mirai/R/promises.R | 31 -- mirai-2.6.0/mirai/README.md | 133 ++++++---- mirai-2.6.0/mirai/inst/doc/mirai.Rmd | 55 ++-- mirai-2.6.0/mirai/inst/doc/mirai.html | 57 ++-- mirai-2.6.0/mirai/inst/doc/v01-reference.Rmd | 221 ++++++++++-------- mirai-2.6.0/mirai/inst/doc/v01-reference.html | 203 +++++++++------- mirai-2.6.0/mirai/inst/doc/v02-promises.Rmd | 16 - mirai-2.6.0/mirai/inst/doc/v02-promises.html | 22 - mirai-2.6.0/mirai/inst/doc/v03-serialization.html | 6 mirai-2.6.0/mirai/inst/doc/v04-parallel.html | 6 mirai-2.6.0/mirai/inst/doc/v05-opentelemetry.html | 2 mirai-2.6.0/mirai/inst/doc/v06-packages.html | 6 mirai-2.6.0/mirai/inst/doc/v07-questions.Rmd | 18 + mirai-2.6.0/mirai/inst/doc/v07-questions.html | 18 + mirai-2.6.0/mirai/man/as.promise.mirai.Rd | 11 mirai-2.6.0/mirai/man/as.promise.mirai_map.Rd | 20 - mirai-2.6.0/mirai/man/call_mirai.Rd | 10 mirai-2.6.0/mirai/man/cluster_config.Rd | 27 -- mirai-2.6.0/mirai/man/collect_mirai.Rd | 22 - mirai-2.6.0/mirai/man/daemon.Rd | 92 +++---- mirai-2.6.0/mirai/man/daemons.Rd | 126 ++++------ mirai-2.6.0/mirai/man/daemons_set.Rd | 5 mirai-2.6.0/mirai/man/dispatcher.Rd | 28 -- mirai-2.6.0/mirai/man/everywhere.Rd | 63 ++--- mirai-2.6.0/mirai/man/figures/architecture.svg |only mirai-2.6.0/mirai/man/host_url.Rd | 13 - mirai-2.6.0/mirai/man/http_config.Rd |only mirai-2.6.0/mirai/man/info.Rd | 8 mirai-2.6.0/mirai/man/is_mirai.Rd | 2 mirai-2.6.0/mirai/man/is_mirai_error.Rd | 2 mirai-2.6.0/mirai/man/launch_local.Rd | 49 +-- mirai-2.6.0/mirai/man/make_cluster.Rd | 34 -- mirai-2.6.0/mirai/man/mirai-package.Rd | 19 - mirai-2.6.0/mirai/man/mirai.Rd | 52 +--- mirai-2.6.0/mirai/man/mirai_map.Rd | 60 ++-- mirai-2.6.0/mirai/man/nextstream.Rd | 23 - mirai-2.6.0/mirai/man/race_mirai.Rd | 53 +++- mirai-2.6.0/mirai/man/register_serial.Rd | 13 - mirai-2.6.0/mirai/man/remote_config.Rd | 36 +- mirai-2.6.0/mirai/man/require_daemons.Rd | 11 mirai-2.6.0/mirai/man/serial_config.Rd | 13 - mirai-2.6.0/mirai/man/ssh_config.Rd | 67 ++--- mirai-2.6.0/mirai/man/status.Rd | 15 - mirai-2.6.0/mirai/man/stop_mirai.Rd | 17 - mirai-2.6.0/mirai/man/unresolved.Rd | 4 mirai-2.6.0/mirai/man/with.miraiDaemons.Rd | 8 mirai-2.6.0/mirai/man/with_daemons.Rd | 14 - mirai-2.6.0/mirai/tests/tests.R | 92 ++++++- mirai-2.6.0/mirai/vignettes/mirai.Rmd | 55 ++-- mirai-2.6.0/mirai/vignettes/v01-reference.Rmd | 221 ++++++++++-------- mirai-2.6.0/mirai/vignettes/v02-promises.Rmd | 16 - mirai-2.6.0/mirai/vignettes/v07-questions.Rmd | 18 + 66 files changed, 1712 insertions(+), 1660 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Provides functions for classification and ranking of candidate
features, reconstruction of networks from adjacency matrices and data
frames, topological analysis, and calculation of centrality measures. The
package includes the SIRIR model, which combines leave-one-out
cross-validation with the conventional SIR model to rank vertex influence
in an unsupervised manner. Additional functions support assessment of
dependence and correlation between network centrality measures, as well as
estimation of conditional probabilities of deviation from their
corresponding means in opposite directions.
Author: Adrian Salavaty [aut, cre] ,
Mirana Ramialison [ths],
Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.2.9 dated 2023-12-09 and 2.3.0 dated 2026-02-13
DESCRIPTION | 50 +- MD5 | 32 - NEWS.md | 20 + R/functions.R | 460 +++++++++++++++++++---- README.md | 5 build/vignette.rds |binary inst/ShinyApps/ExIR/app.R | 2 inst/doc/Vignettes.R | 890 ++++++++++++++++++++++----------------------- inst/doc/Vignettes.html | 11 man/cent_network.vis.Rd | 3 man/comp_manipulate.Rd | 2 man/cond.prob.analysis.Rd | 4 man/exir.Rd | 3 man/fcor.Rd | 7 man/hubness.score.Rd | 2 man/influential-package.Rd | 2 man/spreading.score.Rd | 4 17 files changed, 921 insertions(+), 576 deletions(-)
Title: Representation for Glycan Compositions and Structures
Description: Computational representations of glycan compositions and structures,
including details such as linkages, anomers, and substituents. Supports varying
levels of monosaccharide specificity (e.g., "Hex" or "Gal") and ambiguous linkages.
Provides robust parsing and generation of IUPAC-condensed structure strings.
Optimized for vectorized operations on glycan structures, with efficient handling
of duplications. As the cornerstone of the glycoverse ecosystem, this package
delivers the foundational data structures that power glycomics and glycoproteomics
analysis workflows.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glyrepr versions 0.10.0 dated 2026-01-24 and 0.10.1 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ R/color-utils.R | 4 ++-- R/composition.R | 2 +- inst/doc/glycan-graph.html | 6 +++--- inst/doc/glyrepr.html | 37 +++++++++++++++++++------------------ inst/doc/smap.html | 8 ++++---- tests/testthat/test-composition.R | 19 ------------------- 9 files changed, 46 insertions(+), 58 deletions(-)
Title: Functions for Tabular Reporting
Description: Use a grammar for creating and customizing pretty tables.
The following formats are supported: 'HTML', 'PDF', 'RTF', 'Microsoft
Word', 'Microsoft PowerPoint', R 'Grid Graphics' and 'patchwork'.
'R Markdown', 'Quarto' and the package 'officer' can be used to
produce the result files. The syntax is the same for the user
regardless of the type of output to be produced. A set of functions
allows the creation, definition of cell arrangement, addition of
headers or footers, formatting and definition of cell content with
text and or images. The package also offers a set of high-level
functions that allow tabular reporting of statistical models and the
creation of complex cross tabulations.
Author: David Gohel [aut, cre],
ArData [cph],
Clementine Jager [ctb],
Eli Daniels [ctb],
Panagiotis Skintzos [aut],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb],
Titouan Robert [ctb],
Michael Barrowman [ctb],
Atsushi Yasumoto [ctb],
Paul Julian [ctb],
Sean B [...truncated...]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.9.10 dated 2025-08-24 and 0.9.11 dated 2026-02-13
flextable-0.9.10/flextable/inst/snapshots_for_manual_tests |only flextable-0.9.10/flextable/man/figures/README-mtcars-dataset-2.png |only flextable-0.9.10/flextable/man/figures/fig_formats.png |only flextable-0.9.10/flextable/tests/testthat/test-borders.R |only flextable-0.9.11/flextable/DESCRIPTION | 38 flextable-0.9.11/flextable/MD5 | 469 ++++--- flextable-0.9.11/flextable/NAMESPACE | 12 flextable-0.9.11/flextable/NEWS.md | 80 + flextable-0.9.11/flextable/R/00_utils.R | 7 flextable-0.9.11/flextable/R/01_fpstruct.R | 19 flextable-0.9.11/flextable/R/05_content.R | 281 ++++ flextable-0.9.11/flextable/R/append_chunk.R | 10 flextable-0.9.11/flextable/R/as_flextable.R | 20 flextable-0.9.11/flextable/R/as_flextable_tabulator.R | 39 flextable-0.9.11/flextable/R/augment_rows.R | 110 - flextable-0.9.11/flextable/R/body_add_flextable.R | 2 flextable-0.9.11/flextable/R/border_fix.R | 5 flextable-0.9.11/flextable/R/borders.R | 464 +++++-- flextable-0.9.11/flextable/R/captions.R | 2 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|only flextable-0.9.11/flextable/R/pptx_str.R | 9 flextable-0.9.11/flextable/R/printers.R | 268 ++-- flextable-0.9.11/flextable/R/read_structure.R | 17 flextable-0.9.11/flextable/R/rtf_str.R | 6 flextable-0.9.11/flextable/R/runs_as_functions.R | 28 flextable-0.9.11/flextable/R/styles.R | 589 ++++++---- flextable-0.9.11/flextable/R/summarizor.R | 68 - flextable-0.9.11/flextable/R/table-properties.R | 9 flextable-0.9.11/flextable/R/themes.R | 42 flextable-0.9.11/flextable/R/zzz.R |only flextable-0.9.11/flextable/README.md | 64 - flextable-0.9.11/flextable/build/vignette.rds |binary flextable-0.9.11/flextable/inst/_extensions |only flextable-0.9.11/flextable/man/add_body.Rd | 16 flextable-0.9.11/flextable/man/add_body_row.Rd | 11 flextable-0.9.11/flextable/man/add_footer.Rd | 15 flextable-0.9.11/flextable/man/add_footer_lines.Rd | 15 flextable-0.9.11/flextable/man/add_footer_row.Rd | 11 flextable-0.9.11/flextable/man/add_header.Rd | 15 flextable-0.9.11/flextable/man/add_header_lines.Rd | 31 flextable-0.9.11/flextable/man/add_header_row.Rd | 11 flextable-0.9.11/flextable/man/add_latex_dep.Rd | 3 flextable-0.9.11/flextable/man/align.Rd | 21 flextable-0.9.11/flextable/man/append_chunks.Rd | 13 flextable-0.9.11/flextable/man/args_selectors_with_all.Rd |only flextable-0.9.11/flextable/man/args_selectors_without_all.Rd |only flextable-0.9.11/flextable/man/args_x_i_j.Rd |only flextable-0.9.11/flextable/man/args_x_i_part.Rd |only flextable-0.9.11/flextable/man/args_x_i_part_no_all.Rd |only flextable-0.9.11/flextable/man/args_x_j.Rd |only flextable-0.9.11/flextable/man/args_x_j_part.Rd |only flextable-0.9.11/flextable/man/args_x_j_part_no_all.Rd |only flextable-0.9.11/flextable/man/args_x_only.Rd |only flextable-0.9.11/flextable/man/args_x_part.Rd |only flextable-0.9.11/flextable/man/args_x_part_no_all.Rd |only flextable-0.9.11/flextable/man/as_b.Rd | 2 flextable-0.9.11/flextable/man/as_bracket.Rd | 4 flextable-0.9.11/flextable/man/as_chunk.Rd | 4 flextable-0.9.11/flextable/man/as_equation.Rd | 2 flextable-0.9.11/flextable/man/as_flextable.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.compact_summary.Rd |only flextable-0.9.11/flextable/man/as_flextable.data.frame.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.gam.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.glm.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.grouped_data.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.htest.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.kmeans.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.lm.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.merMod.Rd | 6 flextable-0.9.11/flextable/man/as_flextable.pam.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.summarizor.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.table.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.tabular.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.tabulator.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.xtable.Rd | 4 flextable-0.9.11/flextable/man/as_grouped_data.Rd | 2 flextable-0.9.11/flextable/man/as_highlight.Rd | 2 flextable-0.9.11/flextable/man/as_i.Rd | 2 flextable-0.9.11/flextable/man/as_image.Rd | 4 flextable-0.9.11/flextable/man/as_paragraph.Rd | 32 flextable-0.9.11/flextable/man/as_qmd.Rd |only flextable-0.9.11/flextable/man/as_strike.Rd |only flextable-0.9.11/flextable/man/as_sub.Rd | 2 flextable-0.9.11/flextable/man/as_sup.Rd | 2 flextable-0.9.11/flextable/man/as_word_field.Rd | 37 flextable-0.9.11/flextable/man/autofit.Rd | 9 flextable-0.9.11/flextable/man/before.Rd | 8 flextable-0.9.11/flextable/man/bg.Rd | 30 flextable-0.9.11/flextable/man/body_replace_flextable_at_bkm.Rd | 2 flextable-0.9.11/flextable/man/bold.Rd | 16 flextable-0.9.11/flextable/man/border.Rd | 17 flextable-0.9.11/flextable/man/border_inner.Rd | 9 flextable-0.9.11/flextable/man/border_inner_h.Rd | 9 flextable-0.9.11/flextable/man/border_inner_v.Rd | 9 flextable-0.9.11/flextable/man/border_outer.Rd | 7 flextable-0.9.11/flextable/man/border_remove.Rd | 3 flextable-0.9.11/flextable/man/chunk_dataframe.Rd | 2 flextable-0.9.11/flextable/man/colformat_char.Rd | 9 flextable-0.9.11/flextable/man/colformat_date.Rd | 9 flextable-0.9.11/flextable/man/colformat_datetime.Rd | 9 flextable-0.9.11/flextable/man/colformat_double.Rd | 15 flextable-0.9.11/flextable/man/colformat_image.Rd | 9 flextable-0.9.11/flextable/man/colformat_int.Rd | 9 flextable-0.9.11/flextable/man/colformat_lgl.Rd | 9 flextable-0.9.11/flextable/man/colformat_num.Rd | 14 flextable-0.9.11/flextable/man/color.Rd | 30 flextable-0.9.11/flextable/man/colorize.Rd | 2 flextable-0.9.11/flextable/man/compact_summary.Rd |only flextable-0.9.11/flextable/man/compose.Rd | 15 flextable-0.9.11/flextable/man/continuous_summary.Rd | 2 flextable-0.9.11/flextable/man/delete_columns.Rd | 8 flextable-0.9.11/flextable/man/delete_part.Rd | 9 flextable-0.9.11/flextable/man/delete_rows.Rd | 26 flextable-0.9.11/flextable/man/df_printer.Rd | 3 flextable-0.9.11/flextable/man/dim.flextable.Rd | 5 flextable-0.9.11/flextable/man/dim_pretty.Rd | 9 flextable-0.9.11/flextable/man/empty_blanks.Rd | 16 flextable-0.9.11/flextable/man/figures/README-diamonds-dataset-1.png |binary flextable-0.9.11/flextable/man/figures/README-mtcars-dataset-1.png |binary flextable-0.9.11/flextable/man/figures/README-simple-example-1.png |only flextable-0.9.11/flextable/man/fit_to_width.Rd | 3 flextable-0.9.11/flextable/man/fix_border_issues.Rd | 9 flextable-0.9.11/flextable/man/flextable-package.Rd | 53 flextable-0.9.11/flextable/man/flextable.Rd | 2 flextable-0.9.11/flextable/man/flextable_dim.Rd | 5 flextable-0.9.11/flextable/man/flextable_selectors.Rd |only flextable-0.9.11/flextable/man/flextable_to_rmd.Rd | 8 flextable-0.9.11/flextable/man/fmt_2stats.Rd | 11 flextable-0.9.11/flextable/man/fmt_avg_dev.Rd | 5 flextable-0.9.11/flextable/man/fmt_dbl.Rd | 5 flextable-0.9.11/flextable/man/fmt_header_n.Rd | 6 flextable-0.9.11/flextable/man/fmt_int.Rd | 4 flextable-0.9.11/flextable/man/fmt_n_percent.Rd | 7 flextable-0.9.11/flextable/man/fmt_pct.Rd | 4 flextable-0.9.11/flextable/man/font.Rd | 40 flextable-0.9.11/flextable/man/fontsize.Rd | 16 flextable-0.9.11/flextable/man/footnote.Rd | 21 flextable-0.9.11/flextable/man/fp_border_default.Rd | 10 flextable-0.9.11/flextable/man/fp_text_default.Rd | 28 flextable-0.9.11/flextable/man/gen_grob.Rd | 92 - flextable-0.9.11/flextable/man/get_flextable_defaults.Rd | 1 flextable-0.9.11/flextable/man/gg_chunk.Rd | 4 flextable-0.9.11/flextable/man/grid_chunk.Rd | 4 flextable-0.9.11/flextable/man/height.Rd | 10 flextable-0.9.11/flextable/man/highlight.Rd | 32 flextable-0.9.11/flextable/man/hline.Rd | 36 flextable-0.9.11/flextable/man/hline_bottom.Rd | 26 flextable-0.9.11/flextable/man/hline_top.Rd | 30 flextable-0.9.11/flextable/man/hrule.Rd | 26 flextable-0.9.11/flextable/man/htmltools_value.Rd | 8 flextable-0.9.11/flextable/man/hyperlink_text.Rd | 4 flextable-0.9.11/flextable/man/information_data_cell.Rd | 5 flextable-0.9.11/flextable/man/information_data_chunk.Rd | 5 flextable-0.9.11/flextable/man/information_data_paragraph.Rd | 5 flextable-0.9.11/flextable/man/italic.Rd | 16 flextable-0.9.11/flextable/man/keep_with_next.Rd | 21 flextable-0.9.11/flextable/man/knit_print.flextable.Rd | 234 +-- flextable-0.9.11/flextable/man/labelizor.Rd | 29 flextable-0.9.11/flextable/man/line_spacing.Rd | 20 flextable-0.9.11/flextable/man/linerange.Rd | 4 flextable-0.9.11/flextable/man/merge_at.Rd | 13 flextable-0.9.11/flextable/man/merge_h.Rd | 10 flextable-0.9.11/flextable/man/merge_h_range.Rd | 10 flextable-0.9.11/flextable/man/merge_none.Rd | 11 flextable-0.9.11/flextable/man/merge_v.Rd | 11 flextable-0.9.11/flextable/man/minibar.Rd | 4 flextable-0.9.11/flextable/man/ncol_keys.Rd | 3 flextable-0.9.11/flextable/man/nrow_part.Rd | 7 flextable-0.9.11/flextable/man/padding.Rd | 16 flextable-0.9.11/flextable/man/paginate.Rd | 8 flextable-0.9.11/flextable/man/plot.flextable.Rd | 20 flextable-0.9.11/flextable/man/plot_chunk.Rd | 4 flextable-0.9.11/flextable/man/prepend_chunks.Rd | 13 flextable-0.9.11/flextable/man/print.flextable.Rd | 8 flextable-0.9.11/flextable/man/rotate.Rd | 54 flextable-0.9.11/flextable/man/save_as_docx.Rd | 3 flextable-0.9.11/flextable/man/save_as_html.Rd | 3 flextable-0.9.11/flextable/man/save_as_image.Rd | 6 flextable-0.9.11/flextable/man/save_as_pptx.Rd | 3 flextable-0.9.11/flextable/man/save_as_rtf.Rd | 3 flextable-0.9.11/flextable/man/separate_header.Rd | 5 flextable-0.9.11/flextable/man/set_caption.Rd | 7 flextable-0.9.11/flextable/man/set_flextable_defaults.Rd | 1 flextable-0.9.11/flextable/man/set_formatter.Rd | 8 flextable-0.9.11/flextable/man/set_header_footer_df.Rd | 11 flextable-0.9.11/flextable/man/set_header_labels.Rd | 12 flextable-0.9.11/flextable/man/set_table_properties.Rd | 8 flextable-0.9.11/flextable/man/style.Rd | 67 - flextable-0.9.11/flextable/man/summarizor.Rd | 2 flextable-0.9.11/flextable/man/surround.Rd | 18 flextable-0.9.11/flextable/man/tab_settings.Rd | 20 flextable-0.9.11/flextable/man/tabulator.Rd | 2 flextable-0.9.11/flextable/man/theme_alafoli.Rd | 4 flextable-0.9.11/flextable/man/theme_apa.Rd | 4 flextable-0.9.11/flextable/man/theme_booktabs.Rd | 4 flextable-0.9.11/flextable/man/theme_borderless.Rd |only flextable-0.9.11/flextable/man/theme_box.Rd | 4 flextable-0.9.11/flextable/man/theme_tron.Rd | 4 flextable-0.9.11/flextable/man/theme_tron_legacy.Rd | 4 flextable-0.9.11/flextable/man/theme_vader.Rd | 4 flextable-0.9.11/flextable/man/theme_vanilla.Rd | 4 flextable-0.9.11/flextable/man/theme_zebra.Rd | 4 flextable-0.9.11/flextable/man/to_html.flextable.Rd | 6 flextable-0.9.11/flextable/man/use_flextable_qmd.Rd |only flextable-0.9.11/flextable/man/use_model_printer.Rd | 2 flextable-0.9.11/flextable/man/valign.Rd | 16 flextable-0.9.11/flextable/man/vline.Rd | 35 flextable-0.9.11/flextable/man/vline_left.Rd | 31 flextable-0.9.11/flextable/man/vline_right.Rd | 31 flextable-0.9.11/flextable/man/void.Rd | 27 flextable-0.9.11/flextable/man/width.Rd | 6 flextable-0.9.11/flextable/man/wrap_flextable.Rd |only flextable-0.9.11/flextable/tests/testthat/setup.R | 78 - flextable-0.9.11/flextable/tests/testthat/test-as_flextable.R | 273 ++++ flextable-0.9.11/flextable/tests/testthat/test-cell_content.R | 86 + flextable-0.9.11/flextable/tests/testthat/test-clintables.R |only flextable-0.9.11/flextable/tests/testthat/test-footnote.R | 111 + flextable-0.9.11/flextable/tests/testthat/test-images.R | 299 +++++ flextable-0.9.11/flextable/tests/testthat/test-keep_next.R | 155 ++ flextable-0.9.11/flextable/tests/testthat/test-latex.R | 314 +++++ flextable-0.9.11/flextable/tests/testthat/test-patchwork.R |only flextable-0.9.11/flextable/tests/testthat/test-quarto.R |only flextable-0.9.11/flextable/tests/testthat/test-rtf.R |only flextable-0.9.11/flextable/tests/testthat/test-tab_settings.R | 166 ++ flextable-0.9.11/flextable/tests/testthat/test-text.R | 50 flextable-0.9.11/flextable/tests/testthat/test-themes.R |only 246 files changed, 4788 insertions(+), 2094 deletions(-)
Title: Patterned Fills for 'ggplot2' and 'grid' Graphics
Description: Provides geometric patterns to replace solid color fills in
statistical graphics. These patterns ensure figures remain distinguishable
when viewed by colorblind readers or when printed in black and white. The
included patterns can be customized in terms of scale, rotation, color,
fill, line type, and line width. Compatible with the 'ggplot2' package as
well as 'grid' graphics.
Author: Daniel P. Smith [aut, cre] ,
Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>
Diff between fillpattern versions 1.0.2 dated 2024-06-24 and 1.0.3 dated 2026-02-13
DESCRIPTION | 38 + LICENSE | 4 MD5 | 17 NEWS.md | 23 + R/fill_pattern.r | 2 R/makeContent.r | 661 +++++++++++++++++----------------- R/scale_fill_pattern.r | 6 README.md | 50 +- man/figures/logo.png |only tests/testthat/test-coverage.r |only tests/testthat/test-scale-internals.r |only 11 files changed, 425 insertions(+), 376 deletions(-)
Title: Dunn's Test of Multiple Comparisons Using Rank Sums
Description: Computes Dunn's test (1964) for stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis test for 0th-order stochastic dominance among k groups (Kruskal and Wallis, 1952). 'dunn.test' makes k(k-1)/2 multiple pairwise comparisons based on Dunn's z-test-statistic approximations to the actual rank statistics. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Dunn's test may be understood as a test for median difference and for mean difference. 'dunn.test' accounts for tied ranks.
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between dunn.test versions 1.3.6 dated 2024-04-12 and 1.3.7 dated 2026-02-13
DESCRIPTION | 15 ++-- MD5 | 12 ++- NAMESPACE | 5 - R/dunn.test.R | 189 ++++++++++++++++++++++++++++-------------------------- R/pad.left.R |only R/pad.spaces.R |only build/partial.rdb |binary man/dunn.test.Rd | 9 ++ 8 files changed, 127 insertions(+), 103 deletions(-)
Title: Estimation and Simulation of Multi-Binary Response Models
Description: Multi-binary response models are a class of models that allow for the estimation of multiple binary outcomes simultaneously. This package provides functions to estimate and simulate these models using the Discrete Exponential-Family Models [DEFM] framework. In it, we implement the models described in Vega Yon, Valente, and Pugh (2023) <doi:10.48550/arXiv.2211.00627>. DEFMs include Exponential-Family Random Graph Models [ERGMs], which characterize graphs using sufficient statistics, which is also the core of DEFMs. Using sufficient statistics, we can describe the data through meaningful motifs, for example, transitions between different states, joint distribution of the outcomes, etc.
Author: George Vega Yon [aut, cre] ,
Department of Veterans Affairs - Rehabilitation, Research, and
Development Service [fnd] ,
U.S. Army Medical Research Acquisition Activity [fnd]
Maintainer: George Vega Yon <g.vegayon@gmail.com>
This is a re-admission after prior archival of version 0.1-1 dated 2023-09-07
Diff between defm versions 0.1-1 dated 2023-09-07 and 0.2.1.0 dated 2026-02-13
defm-0.1-1/defm/inst/NEWS |only defm-0.1-1/defm/inst/include |only defm-0.2.1.0/defm/DESCRIPTION | 30 + defm-0.2.1.0/defm/LICENSE | 2 defm-0.2.1.0/defm/MD5 | 120 ++----- defm-0.2.1.0/defm/NAMESPACE | 23 + defm-0.2.1.0/defm/NEWS.md | 7 defm-0.2.1.0/defm/R/RcppExports.R | 204 ++++++++++--- defm-0.2.1.0/defm/R/counters.R |only defm-0.2.1.0/defm/R/defm-package.R | 25 + defm-0.2.1.0/defm/R/defm_mle.R | 147 +++++++++ defm-0.2.1.0/defm/R/motif_census.R | 76 +++- defm-0.2.1.0/defm/README.md | 291 ++++++++++++------- defm-0.2.1.0/defm/inst/tinytest |only defm-0.2.1.0/defm/man/DEFM.Rd | 51 ++- defm-0.2.1.0/defm/man/defm_mle.Rd | 26 + defm-0.2.1.0/defm/man/defm_terms.Rd | 86 +++-- defm-0.2.1.0/defm/man/figures/README-chain1fig-1.png |binary defm-0.2.1.0/defm/man/figures/README-chain2fig-1.png |binary defm-0.2.1.0/defm/man/figures/README-logodds-1.png |binary defm-0.2.1.0/defm/man/get_counters.Rd |only defm-0.2.1.0/defm/man/get_stats.Rd | 4 defm-0.2.1.0/defm/man/loglike_defm.Rd | 4 defm-0.2.1.0/defm/man/motif_census.Rd | 12 defm-0.2.1.0/defm/src/Makevars.in | 4 defm-0.2.1.0/defm/src/Makevars.win | 5 defm-0.2.1.0/defm/src/RcppExports.cpp | 173 ++++++++--- defm-0.2.1.0/defm/src/counters.cpp |only defm-0.2.1.0/defm/src/defm-object.cpp | 66 +++- defm-0.2.1.0/defm/src/terms.cpp | 169 ++++++----- defm-0.2.1.0/defm/tests |only 31 files changed, 1064 insertions(+), 461 deletions(-)
Title: A 'dplyr' Back End for Databases
Description: A 'dplyr' back end for databases that allows you to work with
remote database tables as if they are in-memory data frames. Basic
features works with any database that has a 'DBI' back end; more
advanced features require 'SQL' translation to be provided by the
package author.
Author: Hadley Wickham [aut, cre],
Maximilian Girlich [aut],
Edgar Ruiz [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dbplyr versions 2.5.1 dated 2025-09-10 and 2.5.2 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 32 ++++++++++++++++---------------- NEWS.md | 4 ++++ R/data-nycflights13.R | 2 +- build/stage23.rdb |binary build/vignette.rds |binary inst/doc/dbplyr.html | 10 +++++----- inst/doc/new-backend.html | 2 +- inst/doc/reprex.html | 6 +++--- inst/doc/sql.html | 16 ++++++++-------- inst/doc/translation-function.html | 6 +++--- man/dbplyr-slice.Rd | 4 +--- man/filter.tbl_lazy.Rd | 4 +--- man/group_by.tbl_lazy.Rd | 6 +----- man/mutate.tbl_lazy.Rd | 4 +--- man/nycflights13.Rd | 2 +- man/summarise.tbl_lazy.Rd | 4 +--- 17 files changed, 50 insertions(+), 58 deletions(-)
Title: Access and Analysis of Brazilian CNEFE Address Data
Description: Download, cache and read municipality-level address data from the
Cadastro Nacional de Enderecos para Fins Estatisticos (CNEFE) of the 2022
Brazilian Census, published by the Instituto Brasileiro de Geografia e
Estatistica (IBGE)
<https://ftp.ibge.gov.br/Cadastro_Nacional_de_Enderecos_para_Fins_Estatisticos/>.
Beyond data access, provides spatial aggregation of addresses, computation
of land-use mix indices, and dasymetric interpolation of census tract
variables using CNEFE dwelling points as ancillary data. Results can be
produced on 'H3' hexagonal grids or user-supplied polygons, and heavy
operations leverage a 'DuckDB' backend with extensions for fast,
in-process execution.
Author: Jorge Ubirajara Pedreira Junior [aut, cre, cph] ,
Bruno Mioto [aut],
Kaio Cunha Pedreira [ctb]
Maintainer: Jorge Ubirajara Pedreira Junior <jorge.ubirajara@ufba.br>
Diff between cnefetools versions 0.2.0 dated 2026-02-11 and 0.2.1 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 4 ++-- tests/testthat/test-test-tracts_to_h3.R | 1 + 3 files changed, 6 insertions(+), 5 deletions(-)
Title: Integrated Development Toolbox for Aquatic Chemical Model
Generation
Description: Toolbox for the experimental aquatic chemist, focused on
acidification and CO2 air-water exchange. It contains all elements to
model the pH, the related CO2 air-water exchange, and
aquatic acid-base chemistry for an arbitrary marine,
estuarine or freshwater system. It contains a suite of tools for
sensitivity analysis, visualisation, modelling of chemical batches,
and can be used to build dynamic models of aquatic systems.
As from version 1.0-4, it also contains functions to calculate
the buffer factors.
Author: Andreas F. Hofmann [aut],
Karline Soetaert [aut, cre],
Filip J.R. Meysman [aut],
Mathilde Hagens [aut]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between AquaEnv versions 1.0-4 dated 2016-09-06 and 1.0-5 dated 2026-02-13
AquaEnv-1.0-4/AquaEnv/inst/doc/AquaEnv-ConstantsAndFormulae.pdf |only AquaEnv-1.0-4/AquaEnv/inst/doc/AquaEnv-PrivateFunctions.pdf |only AquaEnv-1.0-4/AquaEnv/inst/doc/index.html |only AquaEnv-1.0-5/AquaEnv/DESCRIPTION | 30 AquaEnv-1.0-5/AquaEnv/MD5 | 84 AquaEnv-1.0-5/AquaEnv/NAMESPACE | 5 AquaEnv-1.0-5/AquaEnv/R/aquaenv_private_Kfunctions.R | 1267 AquaEnv-1.0-5/AquaEnv/R/aquaenv_private_auxilaryfunctions.R | 1274 AquaEnv-1.0-5/AquaEnv/R/aquaenv_public_applications.R | 496 AquaEnv-1.0-5/AquaEnv/R/aquaenv_public_mainfunctions.R | 4 AquaEnv-1.0-5/AquaEnv/build/vignette.rds |binary AquaEnv-1.0-5/AquaEnv/data/sample_dickson1981.rda |binary AquaEnv-1.0-5/AquaEnv/data/sample_dickson2007.rda |binary AquaEnv-1.0-5/AquaEnv/inst/CITATION | 35 AquaEnv-1.0-5/AquaEnv/inst/doc/AquaEnv.R | 2712 - AquaEnv-1.0-5/AquaEnv/inst/doc/AquaEnv.pdf |binary AquaEnv-1.0-5/AquaEnv/man/BufferFactors.Rd | 212 AquaEnv-1.0-5/AquaEnv/man/K0_CO2.Rd | 40 AquaEnv-1.0-5/AquaEnv/man/K0_O2.Rd | 40 AquaEnv-1.0-5/AquaEnv/man/K_BOH3.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_CO2.Rd | 66 AquaEnv-1.0-5/AquaEnv/man/K_H2PO4.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_H2S.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_H3PO4.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_HCO3.Rd | 68 AquaEnv-1.0-5/AquaEnv/man/K_HF.Rd | 64 AquaEnv-1.0-5/AquaEnv/man/K_HNO3.Rd |only AquaEnv-1.0-5/AquaEnv/man/K_HPO4.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_HSO4.Rd | 52 AquaEnv-1.0-5/AquaEnv/man/K_NH4.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_SiOH4.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/K_SiOOH3.Rd | 54 AquaEnv-1.0-5/AquaEnv/man/K_W.Rd | 56 AquaEnv-1.0-5/AquaEnv/man/Ksp_aragonite.Rd | 44 AquaEnv-1.0-5/AquaEnv/man/Ksp_calcite.Rd | 44 AquaEnv-1.0-5/AquaEnv/man/PhysChemConst.Rd | 40 AquaEnv-1.0-5/AquaEnv/man/TAfit.Rd | 604 AquaEnv-1.0-5/AquaEnv/man/aquaenv.Rd | 578 AquaEnv-1.0-5/AquaEnv/man/convert.Rd | 114 AquaEnv-1.0-5/AquaEnv/man/gauge_p.Rd | 38 AquaEnv-1.0-5/AquaEnv/man/sample_dickson1981.Rd | 66 AquaEnv-1.0-5/AquaEnv/man/sample_dickson2007.Rd | 48 AquaEnv-1.0-5/AquaEnv/man/titration.Rd | 224 AquaEnv-1.0-5/AquaEnv/vignettes/AquaEnv-HClTit8.pdf |only AquaEnv-1.0-5/AquaEnv/vignettes/AquaEnv-PrivateFunctions.tex |only AquaEnv-1.0-5/AquaEnv/vignettes/AquaEnv.bib |21655 ++++------ 46 files changed, 15206 insertions(+), 15200 deletions(-)
Title: A Button-Based GUI for Financial and Economic Data Analysis
Description: A GUI designed to support the analysis of financial-economic time
series data.
Author: Ho Tsung-wu [aut, cre]
Maintainer: Ho Tsung-wu <tsungwu@ntnu.edu.tw>
Diff between iClick versions 1.6 dated 2025-08-21 and 1.6.1 dated 2026-02-13
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- NAMESPACE | 2 +- 3 files changed, 9 insertions(+), 9 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-12 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-16 0.1.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-03 0.1.4
2024-05-30 0.1.3
2024-05-22 0.1.2
2024-02-08 0.1.1
2023-11-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-23 1.4.5
2025-01-22 1.4.0
2025-01-09 1.3.5
2024-12-17 1.3.0
2024-08-31 1.1.1
2023-11-27 1.0.8
2023-09-01 1.0.7
2021-04-18 1.0.6
2021-03-02 1.0.5
2020-09-01 1.0.4
2020-07-17 1.0.3
2020-05-07 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-24 0.3
2022-05-30 0.2.0
2021-12-14 0.1.5
2021-10-20 0.1.4
2021-07-20 0.1.3
2021-04-21 0.1.2
2021-02-23 0.1.1
2021-02-17 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-06 1.1
2018-12-03 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-14 0.17
2023-12-12 0.16
2021-07-16 0.15
2018-03-31 0.14
2016-08-15 0.13
2015-11-13 0.12
2014-12-09 0.11
2014-08-08 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-20 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-04 1.6.2
2024-05-15 1.6.1
2024-02-18 1.6.0
2023-03-17 1.5.1
2022-11-10 1.5.0
2022-10-26 1.4.3
2022-08-15 1.4.2
Title: Tidy Analysis Tools for Mortality, Fertility, Migration and
Population Data
Description: Analysing vital statistics based on tools
consistent with the tidyverse. Tools are provided for data visualization,
life table calculations, computing net migration numbers, Lee-Carter
modelling; functional data modelling and forecasting.
Author: Rob Hyndman [aut, cre, cph] ,
Sixian Tang [aut] ,
Miles McBain [ctb] ,
Mitchell O'Hara-Wild [ctb]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between vital versions 2.0.2 dated 2026-01-18 and 2.0.3 dated 2026-02-12
DESCRIPTION | 6 +-- MD5 | 20 +++++------ NEWS.md | 5 ++ R/FDM.R | 62 ++++++++++++++++++++++++++++++------- R/LC.R | 2 - R/autoplot.R | 45 ++++++++++++++++++++------ man/FDM.Rd | 15 +++++++- man/figures/README-autoplot-1.png |binary man/figures/README-e0-1.png |binary man/figures/README-lc3-1.png |binary man/figures/README-smoothing-1.png |binary 11 files changed, 118 insertions(+), 37 deletions(-)
Title: Data for "Forecasting: Principles and Practice" (3rd Edition)
Description: All data sets required for the examples and exercises in the book
"Forecasting: principles and practice" by Rob J Hyndman and George Athanasopoulos
<https://OTexts.com/fpp3/>. All packages required to run the examples are also
loaded. Additional data sets not used in the book are also included.
Author: Rob Hyndman [aut, cre, cph] ,
George Athanasopoulos [ctb],
Mitchell O'Hara-Wild [ctb],
Nuwani Palihawadana [ctb],
Shanika Wickramasuriya [ctb],
RStudio [cph]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between fpp3 versions 1.0.2 dated 2025-09-01 and 1.0.3 dated 2026-02-12
DESCRIPTION | 16 ++++++++-------- MD5 | 18 +++++++++--------- NAMESPACE | 1 + NEWS.md | 4 ++++ R/attach.R | 1 + R/data.R | 4 ++-- R/fpp3.R | 1 + README.md | 21 +++++++++------------ man/boston_marathon.Rd | 2 +- man/canadian_gas.Rd | 2 +- 10 files changed, 37 insertions(+), 33 deletions(-)
Title: Access the 'CDC PLACES' API
Description: Allows users to seamlessly query several 'CDC PLACES' APIs (<https://data.cdc.gov/browse?q=PLACES%20&sortBy=relevance>)
by geography, state, measure, and release year. This package also contains a
function to explore the available measures for each release year.
Author: Brenden Smith [aut, cre]
Maintainer: Brenden Smith <smit2535@msu.edu>
Diff between CDCPLACES versions 1.1.10 dated 2025-05-22 and 1.2.0 dated 2026-02-12
DESCRIPTION | 8 MD5 | 19 - NAMESPACE | 2 NEWS.md | 57 ++++ R/get_places.R | 476 ++++++++++++++++----------------------- R/globals.R | 12 R/sysdata.rda |binary README.md | 10 man/get_places.Rd | 12 tests/testthat/test-get_places.R | 374 +++++++++++++++++------------- tests/testthat/test-helpers.R |only 11 files changed, 504 insertions(+), 466 deletions(-)
Title: Simulate Impact of Different Urban Policies Through a General
Equilibrium Model
Description: Develops a General Equilibrium (GE) Model, which estimates key variables such as wages, the number of residents and workers, the prices of the floor space, and its distribution between commercial and residential use, as in Ahlfeldt et al., (2015) <doi:10.3982/ECTA10876>. By doing so, the model allows understanding the economic influence of different urban policies.
Author: David Zarruk [aut],
Roman Zarate [aut, cre]
Maintainer: Roman Zarate <rd.zarate40@gmail.com>
Diff between IGC.CSM versions 0.2.0 dated 2024-09-30 and 0.3.0 dated 2026-02-12
DESCRIPTION | 6 - MD5 | 12 ++- NAMESPACE | 2 R/NoPricesInversionModel.R |only R/PricesInversionModel.R |only R/solveModel.R | 140 ++++++++++++++++++++++++------------------ man/NoPricesInversionModel.Rd |only man/PricesInversionModel.Rd |only man/solveModel.Rd | 56 ++++------------ 9 files changed, 110 insertions(+), 106 deletions(-)
Title: Treatment Switching
Description: Implements rank preserving structural failure time model (RPSFTM), iterative parameter estimation (IPE), inverse probability of censoring weights (IPCW), marginal structural model (MSM), simple two-stage estimation (TSEsimp), and improved two-stage estimation with g-estimation (TSEgest) methods for treatment switching in randomized clinical trials.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between trtswitch versions 0.2.3 dated 2026-01-10 and 0.2.4 dated 2026-02-12
DESCRIPTION | 14 MD5 | 48 - NEWS.md | 6 R/RcppExports.R | 42 + R/utilities.R | 41 - build/vignette.rds |binary inst/doc/tsegest.html | 22 man/survsplit.Rd | 2 src/RcppExports.cpp | 10 src/dataframe_list.cpp | 594 ++++++---------- src/dataframe_list.h | 362 +++++---- src/ipcw.cpp | 1600 +++++++++++++++++++++----------------------- src/ipe.cpp | 328 ++++----- src/logistic_regression.cpp | 16 src/msm.cpp | 1077 ++++++++++++++--------------- src/recensor_sim_rpsftm.cpp | 104 +- src/rpsftm.cpp | 558 +++++++-------- src/splines.cpp | 2 src/survival_analysis.cpp | 201 ++--- src/tsegest.cpp | 1187 ++++++++++++++++---------------- src/tsegestsim.cpp | 9 src/tsesimp.cpp | 599 ++++++++-------- src/tssim.cpp | 7 src/utilities.cpp | 308 +++++--- src/utilities.h | 34 25 files changed, 3627 insertions(+), 3544 deletions(-)
Title: Estimation, Simulation and Reliability of Drifting Markov Models
Description: Performs the drifting Markov models (DMM) which are
non-homogeneous Markov models designed for modeling the heterogeneities of
sequences in a more flexible way than homogeneous Markov chains or even
hidden Markov models. In this context, we developed an R package dedicated to
the estimation, simulation and the exact computation of associated reliability
of drifting Markov models. The implemented methods are described in
Vergne, N. (2008), <doi:10.2202/1544-6115.1326> and
Barbu, V.S., Vergne, N. (2019) <doi:10.1007/s11009-018-9682-8> .
Author: Nicolas Vergne [aut, cre] ,
Corentin Lothode [aut] ,
Alexandre Seiller [aut],
Victor Mataigne [ctb],
Arnaud Lefebvre [ctb],
Annthomy Gilles [ctb],
Vlad Stefan Barbu [aut]
Maintainer: Nicolas Vergne <nicolas.vergne@univ-rouen.fr>
Diff between drimmR versions 1.0.1 dated 2021-05-10 and 1.0.3 dated 2026-02-12
DESCRIPTION | 63 ++++++++------ MD5 | 18 ++-- NAMESPACE | 3 NEWS.md | 222 ++++++++++++++++++++++++++++++++------------------ R/dmm.R | 103 +++++++++++++---------- R/metrics.R | 18 ++-- R/utils.R | 2 R/word.R | 6 - build/partial.rdb |binary man/drimmR-package.Rd | 19 ---- 10 files changed, 265 insertions(+), 189 deletions(-)
Title: Group Sequential Design with Non-Constant Effect
Description: The goal of 'gsDesign2' is to enable fixed or group sequential
design under non-proportional hazards. To enable highly flexible enrollment,
time-to-event and time-to-dropout assumptions, 'gsDesign2' offers piecewise
constant enrollment, failure rates, and dropout rates for a stratified
population. This package includes three methods for designs:
average hazard ratio, weighted logrank tests in Yung and Liu (2019)
<doi:10.1111/biom.13196>, and MaxCombo tests.
Substantial flexibility on top of what is in the 'gsDesign' package
is intended for selecting boundaries.
Author: Keaven Anderson [aut],
Yujie Zhao [aut, cre],
Yilong Zhang [aut],
John Blischak [aut],
Yihui Xie [aut],
Nan Xiao [aut],
Jianxiao Yang [aut],
Amin Shirazi [ctb],
Ruixue Wang [ctb],
Yi Cui [ctb],
Ping Yang [ctb],
Xin Tong Li [ctb],
Chenxiang Li [ctb],
[...truncated...]
Maintainer: Yujie Zhao <yujie.zhao@merck.com>
Diff between gsDesign2 versions 1.1.7 dated 2025-11-19 and 1.1.8 dated 2026-02-12
DESCRIPTION | 8 MD5 | 28 NEWS.md | 15 R/as_gt.R | 16 R/gridpts_h1_hupdate.R | 2 R/gs_design_ahr.R | 37 + R/gs_update_ahr.R | 72 ++ R/summary.R | 12 inst/doc/gsDesign2.html | 770 +++++++++++++------------- man/gsDesign2-package.Rd | 2 man/gs_update_ahr.Rd | 72 ++ man/summary.Rd | 4 tests/testthat/_snaps/independent_as_gt.md | 41 - tests/testthat/test-developer-gs_design_ahr.R | 96 +++ tests/testthat/test-developer-summary.R | 9 15 files changed, 760 insertions(+), 424 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-07 1.2.4
2026-01-27 1.2.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-05 0.2.1
2026-01-31 0.2.0
Title: Parallel Numerical Derivatives, Gradients, Jacobians, and
Hessians of Arbitrary Accuracy Order
Description: Numerical derivatives through finite-difference approximations
can be calculated using the 'pnd' package with parallel capabilities and
optimal step-size selection to improve accuracy. These functions facilitate
efficient computation of derivatives, gradients, Jacobians, and Hessians,
allowing for more evaluations to reduce the mathematical and machine errors.
Designed for compatibility with the 'numDeriv' package,
which has not received updates in several years, it introduces advanced features
such as computing derivatives of arbitrary order, improving
the accuracy of Hessian approximations by avoiding repeated differencing,
and parallelising slow functions on Windows, Mac, and Linux.
Author: Andrei Victorovitch Kostyrka [aut, cre]
Maintainer: Andrei Victorovitch Kostyrka <andrei.kostyrka@gmail.com>
Diff between pnd versions 0.1.1 dated 2025-09-03 and 0.1.2 dated 2026-02-12
DESCRIPTION | 8 +- MD5 | 50 ++++++------- NEWS.md | 6 + R/gradient.R | 12 +-- R/helpers.R | 2 R/methods.R | 2 R/step-select.R | 27 ++++--- R/stepK.R | 2 R/zzz.R | 2 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 18 ++-- inst/doc/compatibility-with-numDeriv.html | 113 +++++++++++++++--------------- inst/doc/fast-and-accurate.html | 40 +++++----- inst/doc/step-size-selection.html | 36 ++++----- man/GenD.Rd | 6 - man/Grad.Rd | 6 - man/Jacobian.Rd | 6 - man/checkDimensions.Rd | 6 - man/plot.stepsize.Rd | 2 man/stepx.Rd | 6 - tests/testthat/Rplots.pdf |binary tests/testthat/test-Jacobian.R | 2 tests/testthat/test-helpers.R | 7 + tests/testthat/test-step.CR.R | 2 26 files changed, 189 insertions(+), 174 deletions(-)
Title: Stochastic Tree Ensembles (XBART and BART) for Supervised
Learning and Causal Inference
Description: Flexible stochastic tree ensemble software.
Robust implementations of Bayesian Additive Regression Trees (BART)
Chipman, George, McCulloch (2010) <doi:10.1214/09-AOAS285>
for supervised learning and Bayesian Causal Forests (BCF)
Hahn, Murray, Carvalho (2020) <doi:10.1214/19-BA1195>
for causal inference. Enables model serialization and parallel sampling
and provides a low-level interface for custom stochastic forest samplers.
Author: Drew Herren [aut, cre] ,
Richard Hahn [aut],
Jared Murray [aut],
Carlos Carvalho [aut],
Jingyu He [aut],
Pedro Lima [ctb],
stochtree contributors [cph],
Eigen contributors [cph] ,
xgboost contributors [cph] ,
treelite contributors [cph] ,
Microsoft C [...truncated...]
Maintainer: Drew Herren <drewherrenopensource@gmail.com>
Diff between stochtree versions 0.3.0 dated 2026-01-27 and 0.3.1 dated 2026-02-12
DESCRIPTION | 6 +-- MD5 | 34 ++++++++++---------- NEWS.md | 10 ++++++ R/bart.R | 51 +++++++++++++++++-------------- R/bcf.R | 24 +++++++------- R/cpp11.R | 16 +++++++++ configure | 18 +++++----- configure.ac | 2 - src/Makevars.in | 1 src/Makevars.win.in | 1 src/R_utils.cpp |only src/cpp11.cpp | 32 +++++++++++++++++++ src/include/stochtree/discrete_sampler.h | 6 +-- src/include/stochtree/distributions.h |only src/include/stochtree/gamma_sampler.h | 9 +---- src/include/stochtree/ig_sampler.h | 7 +--- src/include/stochtree/normal_sampler.h | 9 +++-- src/include/stochtree/tree_sampler.h | 24 ++++++-------- src/leaf_model.cpp | 4 +- 19 files changed, 157 insertions(+), 97 deletions(-)
Title: Model-Independent Variable Selection via the Rule-Based Variable
Priority
Description: A new framework of variable selection, which instead of generating artificial covariates such as permutation importance and knockoffs, creates release rules to examine the affect on the response for each covariate where the conditional distribution of the response variable can be arbitrary and unknown.
Author: Min Lu [aut],
Aster K. Shear [aut],
Udaya B. Kogalur [aut, cre],
Hemant Ishwaran [aut]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between varPro versions 2.0.0 dated 2026-01-11 and 2.1.0 dated 2026-02-12
DESCRIPTION | 8 MD5 | 35 +- NAMESPACE | 3 R/cv.varpro.R | 12 R/ivarpro.R | 357 ++++++++++++++++------ R/predict.ivarpro.R |only R/utilities_cv_varpro.R | 13 R/utilities_hotencode.R | 2 R/utilities_ivarpro.R | 668 ++++++++++++++++++++++++++++++++++++++--- R/varpro.R | 50 +-- data/datalist | 1 data/hrrecov.rda |only inst/NEWS | 10 man/alzheimers.Rd | 66 ++-- man/cv.varpro.Rd | 4 man/hrrecov.Rd |only man/ivarpro.Rd | 741 ++++++++++++++++++++++++---------------------- man/partial.ivarpro.Rd |only man/predict.ivarpro.Rd |only man/utilities_internal.Rd | 1 man/varpro.Rd | 13 21 files changed, 1396 insertions(+), 588 deletions(-)
Title: Simulation Methods for Legislative Redistricting
Description: Enables researchers to sample redistricting plans from a pre-specified
target distribution using Sequential Monte Carlo and Markov Chain Monte Carlo
algorithms. The package allows for the implementation of various constraints in
the redistricting process such as geographic compactness and population parity
requirements. Tools for analysis such as computation of various summary statistics
and plotting functionality are also included. The package implements the SMC
algorithm of McCartan and Imai (2023) <doi:10.1214/23-AOAS1763>, the enumeration
algorithm of Fifield, Imai, Kawahara, and Kenny (2020) <doi:10.1080/2330443X.2020.1791773>,
the Flip MCMC algorithm of Fifield, Higgins, Imai and Tarr (2020) <doi:10.1080/10618600.2020.1739532>,
the Merge-split/Recombination algorithms of Carter et al. (2019) <doi:10.48550/arXiv.1911.01503>
and DeFord et al. (2021) <doi:10.1162/99608f92.eb30390f>, and the Short-burst
optimization algorithm of Cannon et al. (2020) < [...truncated...]
Author: Christopher T. Kenny [aut, cre] ,
Cory McCartan [aut] ,
Ben Fifield [aut] ,
Kosuke Imai [aut] ,
Jun Kawahara [ctb],
Alexander Tarr [ctb],
Michael Higgins [ctb]
Maintainer: Christopher T. Kenny <ctkenny@proton.me>
Diff between redist versions 4.3.1 dated 2025-10-01 and 4.3.2 dated 2026-02-12
DESCRIPTION | 10 - MD5 | 44 ++-- NEWS.md | 9 R/RcppExports.R | 4 R/redistMPI.R | 8 R/redist_findparams.R | 18 + R/redist_flip.R | 338 ++++++++++++++++++++++++++----------- R/redist_shortburst.R | 13 - R/skinny_flips.R | 7 README.md | 41 ---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/common_args.html | 6 inst/doc/flip.html | 106 +++++++++-- inst/doc/map-preproc.html | 58 +++--- inst/doc/redist.Rmd | 4 inst/doc/redist.html | 10 - man/redist_flip.Rd | 42 +++- src/RcppExports.cpp | 11 - src/map_calc.cpp | 13 - src/sw_mh_alg.cpp | 17 + tests/testthat/test_skinny_flips.R | 7 vignettes/redist.Rmd | 4 23 files changed, 511 insertions(+), 259 deletions(-)
Title: Calculate Mass Properties and Uncertainties of Tree Structures
Description: Recursively calculates mass properties (mass, center of mass, moments and products of inertia, and optionally, their uncertainties) for arbitrary decomposition trees. R. L. Zimmerman, J. H. Nakai. (2005) <https://www.sawe.org/product/paper-3360/>).
Author: James Steven Jenkins [aut, cre, cph]
Maintainer: James Steven Jenkins <sjenkins@studioj.us>
Diff between massProps versions 0.3.4 dated 2026-01-29 and 0.3.5 dated 2026-02-12
DESCRIPTION | 8 +-- MD5 | 20 ++++----- NAMESPACE | 2 NEWS.md | 4 + R/massprops-package.R | 2 R/massprops.R | 104 ++++++++++++++++++++++++------------------------ README.md | 2 build/vignette.rds |binary inst/doc/massProps.Rmd | 8 +-- inst/doc/massProps.html | 8 +-- vignettes/massProps.Rmd | 8 +-- 11 files changed, 87 insertions(+), 79 deletions(-)
Title: Post-Estimation Utilities for 'lavaan' Fitted Models
Description: Companion toolbox for structural equation models fitted with 'lavaan'. Provides post-estimation diagnostics and graphics that operate directly on a fitted object using its estimates and covariance, and refits auxiliary models when needed. The package relies on 'lavaan' (Rosseel, 2012) <doi:10.18637/jss.v048.i02>.
Author: Giuseppe Corbelli [aut, cre]
Maintainer: Giuseppe Corbelli <giuseppe.corbelli@uninettunouniversity.net>
Diff between lavinteract versions 0.4.5 dated 2026-02-10 and 0.4.6 dated 2026-02-12
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/lav_fdr.R | 12 +++++++----- 4 files changed, 17 insertions(+), 11 deletions(-)
Title: Toolkit for Data Processing, Quality, and Statistical Models
Description: Offers tools for data formatting, anomaly detection, and classification
of tree-ring data using spatial comparisons and cross-correlation.
Supports flexible detrending and climate–growth modeling via generalized
additive mixed models (Wood 2017, ISBN:978-1498728331) and the 'mgcv'
package (<https://CRAN.R-project.org/package=mgcv>), enabling robust
analysis of non-linear trends and autocorrelated data. Provides
standardized visual reporting, including summaries, diagnostics, and
model performance. Compatible with '.rwl' files and tailored for the
Canadian Forest Service Tree-Ring Data (CFS-TRenD) repository
(Girardin et al. (2021) <doi:10.1139/er-2020-0099>), offering
a comprehensive and adaptable framework for dendrochronologists working
with large and complex datasets.
Author: Xiao Jing Guo [aut, cre],
Martin Girardin [aut],
Juha Metsaranta [aut],
David Gervais [aut],
Elizabeth Campbell [aut]
Maintainer: Xiao Jing Guo <xiaojing.guo@nrcan-rncan.gc.ca>
This is a re-admission after prior archival of version 0.2.1 dated 2026-01-29
Diff between growthTrendR versions 0.2.1 dated 2026-01-29 and 0.2.2 dated 2026-02-12
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 3 +-- R/graphing.R | 4 ++-- R/imports.R | 4 ++-- R/quality_assessment.R | 10 ++++++++-- R/utils.R | 2 +- man/generate_report.Rd | 4 ++-- 8 files changed, 28 insertions(+), 23 deletions(-)
Title: Make 'PICRUSt2' Output Analysis and Visualization Easier
Description: Provides a convenient way to analyze and visualize 'PICRUSt2' output with pre-defined plots and functions. Allows for generating statistical plots about microbiome functional predictions and offers customization options. Features a one-click option for creating publication-level plots, saving time and effort in producing professional-grade figures. Streamlines the 'PICRUSt2' analysis and visualization process. For more details, see Yang et al. (2023) <doi:10.1093/bioinformatics/btad470>.
Author: Chen Yang [aut, cre],
Liangliang Zhang [aut]
Maintainer: Chen Yang <cafferychen7850@gmail.com>
Diff between ggpicrust2 versions 2.5.2 dated 2025-08-25 and 2.5.10 dated 2026-02-12
ggpicrust2-2.5.10/ggpicrust2/DESCRIPTION | 24 ggpicrust2-2.5.10/ggpicrust2/MD5 | 188 + ggpicrust2-2.5.10/ggpicrust2/NAMESPACE | 15 ggpicrust2-2.5.10/ggpicrust2/NEWS.md |only ggpicrust2-2.5.10/ggpicrust2/R/compare_daa_results.R | 149 - ggpicrust2-2.5.10/ggpicrust2/R/compare_gsea_daa.R | 56 ggpicrust2-2.5.10/ggpicrust2/R/compare_metagenome_results.R | 73 ggpicrust2-2.5.10/ggpicrust2/R/daa_annotated_results_df.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/daa_results_df.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/data_documentation.R |only ggpicrust2-2.5.10/ggpicrust2/R/data_utils.R |only ggpicrust2-2.5.10/ggpicrust2/R/ggpicrust2.R | 273 +- ggpicrust2-2.5.10/ggpicrust2/R/gsea_pathway_annotation.R | 277 +- ggpicrust2-2.5.10/ggpicrust2/R/kegg_abundance.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/ko2kegg_abundance.R | 427 +--- ggpicrust2-2.5.10/ggpicrust2/R/ko_abundance.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/metadata.R | 2 ggpicrust2-2.5.10/ggpicrust2/R/pathway_annotation.R | 408 +--- ggpicrust2-2.5.10/ggpicrust2/R/pathway_daa.R | 909 +++------ ggpicrust2-2.5.10/ggpicrust2/R/pathway_errorbar.R | 301 +-- ggpicrust2-2.5.10/ggpicrust2/R/pathway_errorbar_table.R | 20 ggpicrust2-2.5.10/ggpicrust2/R/pathway_gsea.R | 979 ++++++---- ggpicrust2-2.5.10/ggpicrust2/R/pathway_heatmap.R | 155 - ggpicrust2-2.5.10/ggpicrust2/R/pathway_pca.R | 157 - ggpicrust2-2.5.10/ggpicrust2/R/pathway_ridgeplot.R |only ggpicrust2-2.5.10/ggpicrust2/R/pathway_volcano.R |only ggpicrust2-2.5.10/ggpicrust2/R/visualize_gsea.R | 283 +- ggpicrust2-2.5.10/ggpicrust2/README.md |only ggpicrust2-2.5.10/ggpicrust2/build |only ggpicrust2-2.5.10/ggpicrust2/data/daa_annotated_results_df.rda |only ggpicrust2-2.5.10/ggpicrust2/data/daa_results_df.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ec_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/kegg_abundance.rda |only ggpicrust2-2.5.10/ggpicrust2/data/kegg_pathway_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_abundance.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_to_go_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/ko_to_kegg_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metacyc_abundance.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metacyc_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metacyc_to_ec_reference.rda |only ggpicrust2-2.5.10/ggpicrust2/data/metadata.rda |only ggpicrust2-2.5.10/ggpicrust2/inst/doc |only ggpicrust2-2.5.10/ggpicrust2/man/build_design_matrix.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/calculate_abundance_stats.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/calculate_log2_fold_change.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/calculate_pseudocount.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/compare_daa_results.Rd | 54 ggpicrust2-2.5.10/ggpicrust2/man/compare_gsea_daa.Rd | 6 ggpicrust2-2.5.10/ggpicrust2/man/compare_metagenome_results.Rd | 31 ggpicrust2-2.5.10/ggpicrust2/man/create_heatmap_plot.Rd | 5 ggpicrust2-2.5.10/ggpicrust2/man/create_network_plot.Rd | 5 ggpicrust2-2.5.10/ggpicrust2/man/data_utils.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-as_color_vector.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-build_continuous_scale.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-build_discrete_fill_for_direction.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-build_heatmap_col_fun.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/dot-is_ggplot_scale.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ec_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ggpicrust2.Rd | 49 ggpicrust2-2.5.10/ggpicrust2/man/gsea_pathway_annotation.Rd | 4 ggpicrust2-2.5.10/ggpicrust2/man/kegg_pathway_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ko2kegg_abundance.Rd | 97 ggpicrust2-2.5.10/ggpicrust2/man/ko_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ko_to_go_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/ko_to_kegg_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/metacyc_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/metacyc_to_ec_reference.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/pathway_annotation.Rd | 41 ggpicrust2-2.5.10/ggpicrust2/man/pathway_daa.Rd | 72 ggpicrust2-2.5.10/ggpicrust2/man/pathway_gsea.Rd | 136 + ggpicrust2-2.5.10/ggpicrust2/man/pathway_heatmap.Rd | 4 ggpicrust2-2.5.10/ggpicrust2/man/pathway_pca.Rd | 32 ggpicrust2-2.5.10/ggpicrust2/man/pathway_ridgeplot.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/pathway_volcano.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/prepare_gene_sets.Rd | 6 ggpicrust2-2.5.10/ggpicrust2/man/require_column.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/run_fgsea.Rd | 8 ggpicrust2-2.5.10/ggpicrust2/man/run_limma_gsea.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/validate_daa_results.Rd |only ggpicrust2-2.5.10/ggpicrust2/man/visualize_gsea.Rd | 14 ggpicrust2-2.5.10/ggpicrust2/tests/testthat.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/Rplots.pdf |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/helper-gsea.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-ggpicrust2-return-structure.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-go_pathway_support.R | 244 -- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-gsea_pathway_annotation.R | 184 - ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-ko2kegg_abundance.R | 169 - ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_annotation.R | 551 ----- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_daa.R | 368 ++- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_errorbar.R | 420 +--- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_gsea.R | 231 -- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_heatmap.R | 374 --- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_pca.R | 292 -- ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_ridgeplot.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-pathway_volcano.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-reference_data_structure.R |only ggpicrust2-2.5.10/ggpicrust2/tests/testthat/test-visualize_gsea.R | 311 --- ggpicrust2-2.5.10/ggpicrust2/vignettes |only ggpicrust2-2.5.2/ggpicrust2/R/ggpicrust2_extended.R |only ggpicrust2-2.5.2/ggpicrust2/R/sysdata.rda |only ggpicrust2-2.5.2/ggpicrust2/data/daa_annotated_results_df.RData |only ggpicrust2-2.5.2/ggpicrust2/data/daa_results_df.RData |only ggpicrust2-2.5.2/ggpicrust2/data/kegg_abundance.RData |only ggpicrust2-2.5.2/ggpicrust2/data/ko_abundance.RData |only ggpicrust2-2.5.2/ggpicrust2/data/metacyc_abundance.RData |only ggpicrust2-2.5.2/ggpicrust2/data/metadata.RData |only ggpicrust2-2.5.2/ggpicrust2/inst/PICRUST_COMPATIBILITY.md |only ggpicrust2-2.5.2/ggpicrust2/inst/extdata/create_metacyc_to_ec_mapping.R |only ggpicrust2-2.5.2/ggpicrust2/man/create_basic_go_mapping.Rd |only ggpicrust2-2.5.2/ggpicrust2/man/ggpicrust2_extended.Rd |only ggpicrust2-2.5.2/ggpicrust2/man/validate_abundance_data.Rd |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/TEST_SUITE_DOCUMENTATION.md |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/helper-skip.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-compare_gsea_daa-comprehensive.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-compare_gsea_daa.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-compare_gsea_daa_advanced.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-cross_pathway_consistency.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-error_handling_edge_cases.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-ggpicrust2_extended.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_core_functions.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_mathematical_correctness.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_pathway_annotation-comprehensive-fixed.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_pathway_annotation-comprehensive.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_utilities_final.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-gsea_utility_functions_working.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-heatmap_plot_detailed.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-issue-166.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_annotation_system.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_error_handling_edge_cases.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_gsea_implementation.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-metacyc_reference_data_loading.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-network_plot_detailed.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-p-value-formatting.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-pathway_errorbar-comprehensive.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-picrust-compatibility.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-visualize_gsea_edge_cases.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-visualize_gsea_helper_functions.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test-visualize_gsea_pathway_labels.R |only ggpicrust2-2.5.2/ggpicrust2/tests/testthat/test_examples.R |only 140 files changed, 3381 insertions(+), 5031 deletions(-)
Title: Handling Missing Values with Multivariate Data Analysis
Description: Imputation of incomplete continuous or categorical datasets; Missing values are imputed with a principal component analysis (PCA), a multiple correspondence analysis (MCA) model or a multiple factor analysis (MFA) model; Perform multiple imputation with and in PCA or MCA.
Author: Francois Husson [aut, cre] ,
Julie Josse [aut]
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between missMDA versions 1.20 dated 2025-07-23 and 1.21 dated 2026-02-12
DESCRIPTION | 10 +- MD5 | 16 ++-- NAMESPACE | 2 R/MIFAMD.R | 108 +++++++++++-------------------- R/plot.MIFAMD.R |only R/plot.MIMCA.R | 182 +++++++++++++++++++++++++++-------------------------- R/plot.MIPCA.R | 96 +++++++++++++-------------- man/MIFAMD.Rd | 4 - man/plot.MIFAMD.Rd |only man/plot.MIMCA.Rd | 3 10 files changed, 195 insertions(+), 226 deletions(-)
Title: Interface Between R and the OpenStreetMap-Based Routing Service
'Valhalla'
Description: An interface between R and the 'Valhalla' API. 'Valhalla' is a
routing service based on 'OpenStreetMap' data.
See <https://valhalla.github.io/valhalla/> for more information.
This package enables the computation of routes, trips, isochrones and
travel distances matrices (travel time and kilometer distance).
Author: Timothee Giraud [cre, aut] ,
Matthieu Viry [aut]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between valh versions 0.1.0 dated 2025-04-09 and 0.2.0 dated 2026-02-12
DESCRIPTION | 15 +- MD5 | 36 +++--- NEWS.md | 11 +- R/utils.R | 5 R/vl_elevation.R | 11 -- R/vl_isochrone.R | 11 -- R/vl_locate.R | 7 - R/vl_matrix.R | 10 - R/vl_optimized_route.R | 11 -- R/vl_route.R | 11 -- R/vl_status.R | 13 +- README.md | 222 +++++++++++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/install-valhalla.Rmd | 29 ++--- inst/doc/install-valhalla.html | 47 ++++---- man/figures |only man/vl_status.Rd | 2 vignettes/install-valhalla.Rmd | 29 ++--- 18 files changed, 297 insertions(+), 173 deletions(-)
Title: R and C++ Interfaces to 'spdlog' C++ Header Library for Logging
Description: The mature and widely-used C++ logging library 'spdlog' by Gabi Melman provides
many desirable features. This package bundles these header files for easy use by R packages
from both their R and C or C++ code. Explicit use via 'LinkingTo:' is also supported. Also
see the 'spdl' package which enhanced this package with a consistent R and C++ interface.
Author: Dirk Eddelbuettel [aut, cre] ,
Gabi Melman [aut] ,
Victor Zverovic [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSpdlog versions 0.0.26 dated 2026-01-16 and 0.0.27 dated 2026-02-12
ChangeLog | 15 +++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ build/partial.rdb |binary inst/NEWS.Rd | 7 +++++++ inst/include/RcppSpdlog | 16 +++++++++------- src/formatter.cpp | 23 +++++++++++++++++++++++ 7 files changed, 64 insertions(+), 17 deletions(-)
Title: Functionalities for the 'INLA' Package
Description: Contain code to work with a C struct, in short
cgeneric, to define a Gaussian Markov random (GMRF) model.
The cgeneric contain code to specify GMRF elements such as
the graph and the precision matrix, and also the initial and
prior for its parameters, useful for model inference.
It can be accessed from a C program and is the recommended
way to implement new GMRF models in the 'INLA' package
(<https://www.r-inla.org>).
The 'INLAtools' implement functions to evaluate
each one of the model specifications from R.
The implemented functionalities leverage the use
of 'cgeneric' models and provide a way to debug
the code as well to work with the prior for the
model parameters and to sample from it.
A very useful functionality is the Kronecker product method
that creates a new model from multiple cgeneric models.
It also works with the rgeneric, the R version of the
cgeneric intended to easy try implementation of new GMRF models.
The Kronecker between two cgeneric models was used in
Sterr [...truncated...]
Author: Elias Teixeira Krainski [cre, aut, cph] ,
Finn Lindgren [aut] ,
Haavard Rue’ [aut]
Maintainer: Elias Teixeira Krainski <eliaskrainski@gmail.com>
Diff between INLAtools versions 0.0.8 dated 2026-02-02 and 0.0.9 dated 2026-02-12
DESCRIPTION | 9 ++---- MD5 | 20 +++++++------- NAMESPACE | 1 R/aaa_methods.R | 13 +++------ R/cgeneric.R | 35 +++++++++++++++--------- R/cgeneric_generic0.R | 66 ++++++++++++++++++++++++++--------------------- R/kronecker.R | 4 +- R/rgeneric.R | 44 +++++++++++++++++-------------- man/INLAtools-methods.Rd | 4 +- man/cgeneric-class.Rd | 2 - man/rgeneric-class.Rd | 13 +++------ 11 files changed, 114 insertions(+), 97 deletions(-)
Title: Estimating Public Transport Emissions from General Transit Feed
Specification (GTFS) Data
Description: A bottom up model to estimate the emission levels of public transport systems based on General Transit Feed Specification (GTFS) data. The package requires two main inputs: i) Public transport data in the GTFS standard format; and ii) Some basic information on fleet characteristics such as fleet age, technology, fuel and Euro stage. As it stands, the package estimates several pollutants at high spatial and temporal resolutions. Pollution levels can be calculated for specific transport routes, trips, time of the day or for the transport system as a whole. The output with emission estimates can be extracted in different formats, supporting analysis on how emission levels vary across space, time and by fleet characteristics. A full description of the methods used in the 'gtfs2emis' model is presented in Vieira, J. P. B.; Pereira, R. H. M.; Andrade, P. R. (2022) <doi:10.31219/osf.io/8m2cy>.
Author: Joao Bazzo [aut, cre] ,
Rafael H. M. Pereira [aut] ,
Pedro R. Andrade [aut] ,
Sergio Ibarra-Espinosa [ctb] ,
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Joao Bazzo <joao.bazzo@gmail.com>
Diff between gtfs2emis versions 0.1.1 dated 2024-12-02 and 0.1.2 dated 2026-02-12
DESCRIPTION | 22 LICENSE | 4 MD5 | 126 +- NAMESPACE | 42 NEWS.md | 21 R/data.R | 280 ++--- R/ef_brazil_cetesb.R | 244 ++-- R/ef_europe_emep.R | 762 +++++++------- R/ef_scaled_euro.R | 458 ++++---- R/ef_usa_emfac.R | 314 +++--- R/ef_usa_moves.R | 320 +++--- R/emi_europe_emep_wear.R | 696 ++++++------- R/emis_grid.R | 660 ++++++------ R/emis_summary.R | 322 +++--- R/emis_to_dt.R | 306 ++--- R/emission_model.R | 1038 ++++++++++---------- R/fuel_correction.R | 198 +-- R/multiply_ef.R | 250 ++-- R/slope_class_europe_emep.R | 230 ++-- R/transport_model.R | 488 ++++----- R/utils.R | 56 - README.md | 538 +++++----- build/vignette.rds |binary inst/CITATION | 30 inst/doc/gtfs2emis_emission_factor.R | 258 ++--- inst/doc/gtfs2emis_emission_factor.Rmd | 578 +++++------ inst/doc/gtfs2emis_emission_factor.html | 1272 ++++++++++++------------ inst/doc/gtfs2emis_fleet_data.R | 96 - inst/doc/gtfs2emis_fleet_data.Rmd | 280 ++--- inst/doc/gtfs2emis_fleet_data.html | 1153 +++++++++++----------- inst/doc/gtfs2emis_intro_vignette.R | 300 ++--- inst/doc/gtfs2emis_intro_vignette.Rmd | 604 +++++------ inst/doc/gtfs2emis_intro_vignette.html | 1549 +++++++++++++++--------------- inst/doc/gtfs2emis_non_exhaust_ef.R | 308 ++--- inst/doc/gtfs2emis_non_exhaust_ef.Rmd | 648 ++++++------ inst/doc/gtfs2emis_non_exhaust_ef.html | 1647 ++++++++++++++++---------------- inst/extdata/bra_cur_fleet.txt | 222 ++-- inst/extdata/irl_dub_fleet.txt | 10 inst/extdata/usa_det_fleet.txt | 20 man/ef_brazil_cetesb.Rd | 138 +- man/ef_brazil_cetesb_db.Rd | 78 - man/ef_europe_emep.Rd | 210 ++-- man/ef_europe_emep_db.Rd | 132 +- man/ef_scaled_euro.Rd | 236 ++-- man/ef_usa_emfac.Rd | 148 +- man/ef_usa_emfac_db.Rd | 96 - man/ef_usa_moves.Rd | 146 +- man/ef_usa_moves_db.Rd | 114 +- man/emi_europe_emep_wear.Rd | 418 ++++---- man/emis_grid.Rd | 186 +-- man/emis_summary.Rd | 188 +-- man/emis_to_dt.Rd | 170 +-- man/emission_model.Rd | 426 ++++---- man/fuel_correction.Rd | 70 - man/multiply_ef.Rd | 84 - man/roxygen/templates/as_list.R | 6 man/roxygen/templates/fuel.R | 4 man/roxygen/templates/reference_year.R | 4 man/slope_class_europe_emep.Rd | 132 +- man/transport_model.Rd | 206 ++-- vignettes/gtfs2emis_emission_factor.Rmd | 578 +++++------ vignettes/gtfs2emis_fleet_data.Rmd | 280 ++--- vignettes/gtfs2emis_intro_vignette.Rmd | 604 +++++------ vignettes/gtfs2emis_non_exhaust_ef.Rmd | 648 ++++++------ 64 files changed, 10829 insertions(+), 10823 deletions(-)
Title: Functions for Epidemiological Analysis using Population Data
Description: Enables computation of epidemiological statistics, including
those where counts or mortality rates of the reference population are
used. Currently supported: excess hazard models (Dickman, Sloggett,
Hills, and Hakulinen (2012) <doi:10.1002/sim.1597>), rates, mean
survival times, relative/net survival (in particular the Ederer II
(Ederer and Heise (1959)) and Pohar Perme (Pohar Perme, Stare, and
Esteve (2012) <doi:10.1111/j.1541-0420.2011.01640.x>) estimators), and
standardized incidence and mortality ratios, all of which can be
easily adjusted for by covariates such as age. Fast splitting and
aggregation of 'Lexis' objects (from package 'Epi') and other
computations achieved using 'data.table'.
Author: Joonas Miettinen [cre, aut] ,
Matti Rantanen [aut],
Karri Seppa [ctb]
Maintainer: Joonas Miettinen <joonas.miettinen@cancer.fi>
Diff between popEpi versions 0.4.13 dated 2025-01-31 and 0.4.14 dated 2026-02-12
popEpi-0.4.13/popEpi/tests/testthat/test_Surv.R |only popEpi-0.4.14/popEpi/DESCRIPTION | 9 ++++---- popEpi-0.4.14/popEpi/MD5 | 15 ++++++------- popEpi-0.4.14/popEpi/NEWS.md | 4 +++ popEpi-0.4.14/popEpi/R/Surv.R | 4 --- popEpi-0.4.14/popEpi/build/partial.rdb |binary popEpi-0.4.14/popEpi/build/vignette.rds |binary popEpi-0.4.14/popEpi/inst/doc/sir.html | 12 +++++----- popEpi-0.4.14/popEpi/inst/doc/survtab_examples.html | 22 ++++++++++---------- 9 files changed, 33 insertions(+), 33 deletions(-)
Title: Network Analysis and Visualization
Description: Routines for simple graphs and network analysis. It can
handle large graphs very well and provides functions for generating
random and regular graphs, graph visualization, centrality methods and
much more.
Author: Gabor Csardi [aut] ,
Tamas Nepusz [aut] ,
Vincent Traag [aut] ,
Szabolcs Horvat [aut] ,
Fabio Zanini [aut] ,
Daniel Noom [aut],
Kirill Mueller [aut, cre] ,
Michael Antonov [ctb],
Chan Zuckerberg Initiative [fnd] ,
David Schoch [aut] ,
Maelle Salmon [a [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between igraph versions 2.2.1 dated 2025-10-27 and 2.2.2 dated 2026-02-12
DESCRIPTION | 6 ++-- MD5 | 20 +++++++------- NEWS.md | 7 +++++ R/games.R | 2 - R/versions.R | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/igraph.html | 65 ++++++++++++++++++++++++------------------------ inst/doc/igraph_ES.html | 63 +++++++++++++++++++++++----------------------- man/sample_degseq.Rd | 2 - src/rinterface_extra.c | 9 ++---- 11 files changed, 91 insertions(+), 85 deletions(-)
Title: Statistical Analysis of Haplotypes with Traits and Covariates
when Linkage Phase is Ambiguous
Description: Routines for the analysis of indirectly measured haplotypes. The statistical methods assume that all subjects are unrelated and that haplotypes are ambiguous (due to unknown linkage phase of the genetic markers). The main functions are: haplo.em(), haplo.glm(), haplo.score(), and haplo.power(); all of which have detailed examples in the vignette.
Author: Schaid Daniel [aut],
Jason P. Sinnwell [aut, cre]
Maintainer: Jason P. Sinnwell <sinnwell.jason@mayo.edu>
Diff between haplo.stats versions 1.9.7 dated 2024-09-19 and 1.9.7.1 dated 2026-02-12
haplo.stats-1.9.7.1/haplo.stats/DESCRIPTION | 6 +++--- haplo.stats-1.9.7.1/haplo.stats/MD5 | 9 +++++---- haplo.stats-1.9.7.1/haplo.stats/build/vignette.rds |binary haplo.stats-1.9.7.1/haplo.stats/inst/doc/haplostats.pdf |binary haplo.stats-1.9.7.1/haplo.stats/inst/doc/manualHaploStats.pdf |only haplo.stats-1.9.7.1/haplo.stats/vignettes/manualHaploStats.pdf.asis |only haplo.stats-1.9.7/haplo.stats/vignettes/manualHaploStats.pdf |only 7 files changed, 8 insertions(+), 7 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-01-29 0.1.5
2024-01-14 0.1.4
2023-08-09 0.1.3
Title: Ordinal Relations
Description: Functions to handle ordinal relations reflected within the feature space. Those function allow to search for ordinal relations in multi-class datasets. One can check whether proposed relations are reflected in a specific feature representation. Furthermore, it provides functions to filter, organize and further analyze those ordinal relations.
Author: L Lausser [aut],
LM Schaefer [aut],
R Szekely [aut],
A Stolnicu [aut],
HA Kestler [aut, cre]
Maintainer: HA Kestler <hans.kestler@uni-ulm.de>
Diff between ORION versions 1.1.0 dated 2026-02-10 and 1.1.1 dated 2026-02-12
ORION-1.1.0/ORION/tests/testthat/test-e-svm-with-projection.R |only ORION-1.1.0/ORION/tests/testthat/test-e-svm-without-projection.R |only ORION-1.1.0/ORION/tests/testthat/test-tunePareto-svm-with-projection.R |only ORION-1.1.1/ORION/DESCRIPTION | 8 + ORION-1.1.1/ORION/MD5 | 16 +-- ORION-1.1.1/ORION/R/predictionMap.R | 45 +++------- ORION-1.1.1/ORION/inst/doc/ORION.html | 4 ORION-1.1.1/ORION/man/ORION-package.Rd | 1 ORION-1.1.1/ORION/man/predictionMap.Rd | 18 ---- ORION-1.1.1/ORION/tests/testthat/test-knn-with-projection.R |only ORION-1.1.1/ORION/tests/testthat/test-svm-with-projection.R |only ORION-1.1.1/ORION/tests/testthat/test-svm-without-projection.R |only 12 files changed, 36 insertions(+), 56 deletions(-)
Title: Search Download and Handle Data from Copernicus Marine Service
Information
Description: Subset and download data from EU Copernicus Marine
Service Information: <https://data.marine.copernicus.eu>.
Import data on the oceans physical and biogeochemical state
from Copernicus into R without the need of external software.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Diff between CopernicusMarine versions 0.3.7 dated 2025-11-30 and 0.4.0 dated 2026-02-12
DESCRIPTION | 20 - MD5 | 72 ++-- NAMESPACE | 51 +-- NEWS.md | 10 R/cms_catalogue_entry.R | 42 +- R/cms_cite_product.r | 1 R/cms_download_native.R | 59 +++ R/cms_download_subset.r | 501 +++++++------------------------ R/cms_login.r | 238 +++++++------- R/cms_product_details.r | 32 - R/cms_product_metadata.r | 14 R/cms_product_services.r | 1 R/cms_products_list.r | 28 - R/cms_wmts.r | 247 +++++++-------- R/generics.r | 137 ++++---- R/import.r | 2 R/translate.R | 250 +++++++-------- README.md | 419 ++++++++++++------------- inst/doc/translate.R | 6 inst/doc/translate.Rmd | 146 ++++----- inst/doc/translate.html | 8 man/account.Rd | 88 ++--- man/cms_download_native.Rd | 166 +++++----- man/cms_download_subset.Rd | 183 +++++------ man/cms_native_proxy.Rd |only man/cms_translate.Rd | 2 man/cms_wmts.Rd | 158 ++++----- man/cms_zarr_proxy.Rd |only man/figures/README-download-subset-1.png |binary man/figures/README-leaflet-1.png |binary tests/testthat.R | 8 tests/testthat/test-translate.R | 80 ++-- tests/testthat/test_login.r | 24 + tests/testthat/test_native.r | 17 + tests/testthat/test_product.r | 146 ++++----- tests/testthat/test_subset.r | 19 - tests/testthat/test_wmts.r | 112 +++--- vignettes/translate.Rmd | 146 ++++----- 38 files changed, 1632 insertions(+), 1801 deletions(-)
More information about CopernicusMarine at CRAN
Permanent link
Title: Single Cell Oriented Reconstruction of PANDA Individual
Optimized Networks
Description: Constructs cell-type–specific gene regulatory networks from single-cell RNA-sequencing data. The method implements the SCORPION algorithm, which first aggregates individual cells into supercells and then applies PANDA (Passing Attributes between Networks for Data Assimilation) to infer transcription factor–target regulatory relationships. It also provides statistical methods for differential edge analysis.
Author: Daniel Osorio [aut, cre] ,
Marieke L. Kuijjer [aut]
Maintainer: Daniel Osorio <daniecos@uio.no>
Diff between SCORPION versions 1.3.0 dated 2026-02-04 and 1.3.1 dated 2026-02-12
DESCRIPTION | 12 +-- MD5 | 8 +- NAMESPACE | 3 R/testEdges.R | 201 ++++++++++++++++++++++++++++++++++--------------------- man/testEdges.Rd | 30 ++++++-- 5 files changed, 162 insertions(+), 92 deletions(-)
Title: Stratified and Personalised Models Based on Model-Based Trees
and Forests
Description: Model-based trees for subgroup analyses in clinical trials and
model-based forests for the estimation and prediction of personalised
treatment effects (personalised models). Currently partitioning of linear
models, lm(), generalised linear models, glm(), and Weibull models,
survreg(), is supported. Advanced plotting functionality is supported for
the trees and a test for parameter heterogeneity is provided for the
personalised models. For details on model-based trees for subgroup analyses
see Seibold, Zeileis and Hothorn (2016) <doi:10.1515/ijb-2015-0032>; for
details on model-based forests for estimation of individual treatment effects
see Seibold, Zeileis and Hothorn (2017) <doi:10.1177/0962280217693034>.
Author: Heidi Seibold [aut, cre],
Achim Zeileis [aut],
Torsten Hothorn [aut]
Maintainer: Heidi Seibold <heidi@seibold.co>
This is a re-admission after prior archival of version 0.9-8 dated 2024-11-08
Diff between model4you versions 0.9-8 dated 2024-11-08 and 0.9-9 dated 2026-02-12
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NAMESPACE | 2 +- R/plot-pmtree.R | 38 +++++++++++++++++++++----------------- R/pmodel-test.R | 4 ++-- 5 files changed, 36 insertions(+), 32 deletions(-)
Title: Access Chinese Data via Public APIs and Curated Datasets
Description: Provides functions to access data from public RESTful APIs including 'Nager.Date',
'World Bank API', and 'REST Countries API', retrieving real-time or historical data
related to China, such as holidays, economic indicators, and international demographic
and geopolitical indicators. Additionally, the package includes one of the largest
curated collections of open datasets focused on China and Hong Kong, covering topics
such as air quality, demographics, input-output tables, epidemiology, political
structure, names, and social indicators. The package supports reproducible research
and teaching by integrating reliable international APIs and structured datasets from
public, academic, and government sources.
For more information on the APIs, see:
'Nager.Date' <https://date.nager.at/Api>,
'World Bank API' <https://datahelpdesk.worldbank.org/knowledgebase/articles/889392>,
and 'REST Countries API' <https://restcountries.com/>.
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
This is a re-admission after prior archival of version 0.1.0 dated 2025-08-26
Diff between ChinAPIs versions 0.1.0 dated 2025-08-26 and 0.1.1 dated 2026-02-12
DESCRIPTION | 6 - LICENSE | 2 MD5 | 137 ++++++++++++------------ NAMESPACE | 1 NEWS.md |only R/chinapis-package.R | 4 R/data-documentation.R | 4 R/get_china_child_mortality.R | 47 ++++++-- R/get_china_cpi.R | 47 ++++++-- R/get_china_energy_use.R | 55 ++++++++- R/get_china_gdp.R | 65 +++++++++-- R/get_china_holidays.R | 77 ++++++++++--- R/get_china_hospital_beds.R | 59 +++++++--- R/get_china_life_expectancy.R | 56 +++++++-- R/get_china_literacy_rate.R | 47 ++++++-- R/get_china_population.R | 57 +++++++-- R/get_china_unemployment.R | 56 +++++++-- R/get_country_info_cn.R | 68 ++++++++--- R/utils.R | 4 R/view_datasets_ChinAPIs.R | 4 build/vignette.rds |binary inst/CITATION | 4 inst/doc/ChinAPIs_vignette.html | 5 man/get_china_holidays.Rd | 18 +-- tests/testthat/test-COVID19_HongKong_df.R | 4 tests/testthat/test-bj_air_quality_tbl_df.R | 4 tests/testthat/test-china_admin_divisions_df.R | 4 tests/testthat/test-china_cars_tbl_df.R | 4 tests/testthat/test-china_corruption_tbl_df.R | 4 tests/testthat/test-china_io_2002_122_df.R | 4 tests/testthat/test-china_io_2005_42_df.R | 4 tests/testthat/test-china_io_2007_135_df.R | 4 tests/testthat/test-china_io_2010_41_df.R | 4 tests/testthat/test-china_io_2012_139_df.R | 4 tests/testthat/test-china_io_2015_42_df.R | 4 tests/testthat/test-china_io_2017_149_df.R | 4 tests/testthat/test-china_io_2017_42_df.R | 4 tests/testthat/test-china_io_2018_153_df.R | 4 tests/testthat/test-china_io_2018_42_df.R | 4 tests/testthat/test-china_io_2020_153_df.R | 4 tests/testthat/test-china_io_2020_42_df.R | 4 tests/testthat/test-chinese_cities_tbl_df.R | 4 tests/testthat/test-chinese_dams_tbl_df.R | 4 tests/testthat/test-family_name_df.R | 4 tests/testthat/test-get_china_child_mortality.R | 36 ++++-- tests/testthat/test-get_china_cpi.R | 83 ++++---------- tests/testthat/test-get_china_energy_use.R | 74 +++++++----- tests/testthat/test-get_china_gdp.R | 111 ++++++++++--------- tests/testthat/test-get_china_holidays.R | 98 +++++++++-------- tests/testthat/test-get_china_hospital_beds.R | 92 +++++++--------- tests/testthat/test-get_china_life_expectancy.R | 72 ++++++++---- tests/testthat/test-get_china_literacy_rate.R | 70 ++++++++---- tests/testthat/test-get_china_population.R | 81 +++++++++----- tests/testthat/test-get_china_unemployment.R | 114 +++++-------------- tests/testthat/test-get_country_info_cn.R | 89 +++++++-------- tests/testthat/test-given_name_df.R | 4 tests/testthat/test-health_family_life_df.R | 4 tests/testthat/test-hk_councillors_tbl_df.R | 4 tests/testthat/test-hk_districts_tbl_df.R | 4 tests/testthat/test-hk_population_tbl_df.R | 4 tests/testthat/test-hk_street_names_tbl_df.R | 4 tests/testthat/test-panda_locations_df.R | 4 tests/testthat/test-sars_hong_kong_list.R | 4 tests/testthat/test-shanghai_factories_df.R | 4 tests/testthat/test-shanghai_pm25_df.R | 4 tests/testthat/test-top1000name_prov_df.R | 4 tests/testthat/test-top100name_year_df.R | 4 tests/testthat/test-top50char_year_df.R | 4 tests/testthat/test-view_datasets_ChinAPIs.R | 4 tests/testthat/test-wenchuan_ptsd_matrix.R | 4 70 files changed, 1122 insertions(+), 761 deletions(-)
Title: Sample Size and Power Calculation for Bayesian Testing with
Bayes Factor
Description: The goal of 'BayesPower' is to provide tools for Bayesian sample size determination and power analysis across a range of common hypothesis testing scenarios using Bayes factors. The main function, BayesPower_BayesFactor(), launches an interactive 'shiny' application for performing these analyses. The application also provides command-line code for reproducibility. Details of the methods are described in the tutorial by Wong, Pawel, and Tendeiro (2025) <doi:10.31234/osf.io/pgdac_v2>.
Author: Tsz Keung Wong [aut, cre],
Samuel Pawel [aut],
Jorge Tendeiro [aut]
Maintainer: Tsz Keung Wong <t.k.wong3004@gmail.com>
Diff between BayesPower versions 1.0.1 dated 2025-10-29 and 1.0.2 dated 2026-02-12
BayesPower-1.0.1/BayesPower/man/BF10.t.test.one_sample.Rd |only BayesPower-1.0.1/BayesPower/man/BF10.t.test.two_sample.Rd |only BayesPower-1.0.1/BayesPower/man/BFpower.f.Rd |only BayesPower-1.0.1/BayesPower/man/BFpower.t.test_one_sample.Rd |only BayesPower-1.0.1/BayesPower/man/BFpower.t.test_two_sample.Rd |only BayesPower-1.0.2/BayesPower/DESCRIPTION | 11 BayesPower-1.0.2/BayesPower/MD5 | 50 BayesPower-1.0.2/BayesPower/NAMESPACE | 26 BayesPower-1.0.2/BayesPower/R/BF_S3class.r |only BayesPower-1.0.2/BayesPower/R/BF_app_backend.R | 4510 ++++++---- BayesPower-1.0.2/BayesPower/R/BF_app_frontend.r | 3209 +++---- BayesPower-1.0.2/BayesPower/R/BF_app_helpers.r | 1004 +- BayesPower-1.0.2/BayesPower/R/BF_pval.r |only BayesPower-1.0.2/BayesPower/R/BF_users_functions.r | 3959 ++++++-- BayesPower-1.0.2/BayesPower/inst/report_templates/report_2p.Rmd | 48 BayesPower-1.0.2/BayesPower/inst/report_templates/report_bin.Rmd | 26 BayesPower-1.0.2/BayesPower/inst/report_templates/report_f.Rmd | 32 BayesPower-1.0.2/BayesPower/inst/report_templates/report_r.Rmd | 28 BayesPower-1.0.2/BayesPower/inst/report_templates/report_t1.Rmd | 39 BayesPower-1.0.2/BayesPower/inst/report_templates/report_t2.Rmd | 33 BayesPower-1.0.2/BayesPower/man/BF10.bin.test.Rd | 71 BayesPower-1.0.2/BayesPower/man/BF10.cor.Rd | 63 BayesPower-1.0.2/BayesPower/man/BF10.f.test.Rd | 45 BayesPower-1.0.2/BayesPower/man/BF10.props.Rd | 53 BayesPower-1.0.2/BayesPower/man/BF10.ttest.OneSample.Rd |only BayesPower-1.0.2/BayesPower/man/BF10.ttest.TwoSample.Rd |only BayesPower-1.0.2/BayesPower/man/BFpower.bin.Rd | 179 BayesPower-1.0.2/BayesPower/man/BFpower.cor.Rd | 194 BayesPower-1.0.2/BayesPower/man/BFpower.f.test.Rd |only BayesPower-1.0.2/BayesPower/man/BFpower.props.Rd | 168 BayesPower-1.0.2/BayesPower/man/BFpower.ttest.OneSample.Rd |only BayesPower-1.0.2/BayesPower/man/BFpower.ttest.TwoSample.Rd |only 32 files changed, 9071 insertions(+), 4677 deletions(-)
Title: Transition Network Analysis (TNA)
Description: Provides tools for performing Transition Network Analysis (TNA) to
study relational dynamics, including functions for building and plotting TNA
models, calculating centrality measures, and identifying dominant events and
patterns. TNA statistical techniques (e.g., bootstrapping and permutation
tests) ensure the reliability of observed insights and confirm that
identified dynamics are meaningful. See (Saqr et al., 2025)
<doi:10.1145/3706468.3706513> for more details on TNA.
Author: Mohammed Saqr [aut],
Santtu Tikka [aut],
Sonsoles Lopez-Pernas [aut, cre]
Maintainer: Sonsoles Lopez-Pernas <sonsoles.lopez@uef.fi>
Diff between tna versions 1.1.0 dated 2025-10-18 and 1.2.0 dated 2026-02-12
tna-1.1.0/tna/man/cluster_sequences.Rd |only tna-1.2.0/tna/DESCRIPTION | 13 tna-1.2.0/tna/MD5 | 207 tna-1.2.0/tna/NAMESPACE | 7 tna-1.2.0/tna/NEWS.md | 12 tna-1.2.0/tna/R/build.R | 314 - tna-1.2.0/tna/R/centralities.R | 91 tna-1.2.0/tna/R/check.R | 75 tna-1.2.0/tna/R/clusters.R | 335 + tna-1.2.0/tna/R/coef.R | 10 tna-1.2.0/tna/R/communities.R | 4 tna-1.2.0/tna/R/compare.R | 395 - tna-1.2.0/tna/R/data.R | 191 tna-1.2.0/tna/R/groups.R | 26 tna-1.2.0/tna/R/indices.R | 444 + tna-1.2.0/tna/R/mmm.R | 46 tna-1.2.0/tna/R/permutation.R | 59 tna-1.2.0/tna/R/plot.R | 607 +- tna-1.2.0/tna/R/print.R | 62 tna-1.2.0/tna/R/reliability.R |only tna-1.2.0/tna/R/simulate.R | 174 tna-1.2.0/tna/R/summary.R | 9 tna-1.2.0/tna/R/tna-package.R | 8 tna-1.2.0/tna/R/utilities.R | 45 tna-1.2.0/tna/R/vcov.R | 33 tna-1.2.0/tna/README.md | 205 tna-1.2.0/tna/data/engagement_mmm.rda |binary tna-1.2.0/tna/inst/doc/communities_and_cliques.R | 3 tna-1.2.0/tna/inst/doc/communities_and_cliques.Rmd | 12 tna-1.2.0/tna/inst/doc/communities_and_cliques.html | 13 tna-1.2.0/tna/inst/doc/complete_tutorial.R | 4 tna-1.2.0/tna/inst/doc/complete_tutorial.Rmd | 7 tna-1.2.0/tna/inst/doc/complete_tutorial.html | 36 tna-1.2.0/tna/inst/doc/grouped_sequences.R | 1 tna-1.2.0/tna/inst/doc/grouped_sequences.Rmd | 10 tna-1.2.0/tna/inst/doc/grouped_sequences.html | 4 tna-1.2.0/tna/inst/doc/tna.html | 2 tna-1.2.0/tna/man/bootstrap.Rd | 4 tna-1.2.0/tna/man/build_model.Rd | 81 tna-1.2.0/tna/man/centralities.Rd | 18 tna-1.2.0/tna/man/cluster_data.Rd |only tna-1.2.0/tna/man/compare.Rd | 12 tna-1.2.0/tna/man/compare.group_tna.Rd | 39 tna-1.2.0/tna/man/compare_sequences.Rd | 63 tna-1.2.0/tna/man/deprune.Rd | 4 tna-1.2.0/tna/man/estimate_centrality_stability.Rd | 23 tna-1.2.0/tna/man/figures/README-centralitiesplot-1.svg | 3821 ++++++++-------- tna-1.2.0/tna/man/figures/README-tnaplot-1.svg | 1991 ++++---- tna-1.2.0/tna/man/figures/README-tnaplot-2.svg | 1457 +++--- tna-1.2.0/tna/man/figures/README-unnamed-chunk-12-1.svg | 1991 ++++---- tna-1.2.0/tna/man/figures/README-unnamed-chunk-14-1.svg | 467 + tna-1.2.0/tna/man/figures/README-unnamed-chunk-16-1.svg | 3174 +++++++------ tna-1.2.0/tna/man/group_model.Rd | 11 tna-1.2.0/tna/man/import_data.Rd | 11 tna-1.2.0/tna/man/import_onehot.Rd | 52 tna-1.2.0/tna/man/permutation_test.Rd | 4 tna-1.2.0/tna/man/permutation_test.group_tna.Rd | 4 tna-1.2.0/tna/man/plot.group_tna.Rd | 11 tna-1.2.0/tna/man/plot.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/plot.group_tna_permutation.Rd | 4 tna-1.2.0/tna/man/plot.group_tna_stability.Rd | 4 tna-1.2.0/tna/man/plot.tna.Rd | 17 tna-1.2.0/tna/man/plot.tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/plot.tna_communities.Rd | 5 tna-1.2.0/tna/man/plot.tna_comparison.Rd | 10 tna-1.2.0/tna/man/plot.tna_permutation.Rd | 4 tna-1.2.0/tna/man/plot.tna_reliability.Rd |only tna-1.2.0/tna/man/plot.tna_sequence_comparison.Rd | 3 tna-1.2.0/tna/man/plot.tna_stability.Rd | 4 tna-1.2.0/tna/man/plot_frequencies.group_tna.Rd | 19 tna-1.2.0/tna/man/plot_mosaic.Rd | 5 tna-1.2.0/tna/man/plot_mosaic.group_tna.Rd | 7 tna-1.2.0/tna/man/plot_mosaic.tna_data.Rd | 5 tna-1.2.0/tna/man/prepare_data.Rd | 1 tna-1.2.0/tna/man/print.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.group_tna_permutation.Rd | 4 tna-1.2.0/tna/man/print.group_tna_stability.Rd | 4 tna-1.2.0/tna/man/print.summary.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.summary.tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/print.tna_clustering.Rd |only tna-1.2.0/tna/man/print.tna_data.Rd | 1 tna-1.2.0/tna/man/print.tna_permutation.Rd | 4 tna-1.2.0/tna/man/print.tna_reliability.Rd |only tna-1.2.0/tna/man/print.tna_stability.Rd | 4 tna-1.2.0/tna/man/prune.Rd | 8 tna-1.2.0/tna/man/pruning_details.Rd | 4 tna-1.2.0/tna/man/reliability.Rd |only tna-1.2.0/tna/man/reprune.Rd | 4 tna-1.2.0/tna/man/simulate.group_tna.Rd |only tna-1.2.0/tna/man/simulate.tna.Rd | 29 tna-1.2.0/tna/man/summary.group_tna_bootstrap.Rd | 4 tna-1.2.0/tna/man/summary.tna_bootstrap.Rd | 4 tna-1.2.0/tna/tests/testthat/helper-mock.R | 10 tna-1.2.0/tna/tests/testthat/test-build.R | 83 tna-1.2.0/tna/tests/testthat/test-check.R | 113 tna-1.2.0/tna/tests/testthat/test-clusters.R | 375 + tna-1.2.0/tna/tests/testthat/test-compare.R | 25 tna-1.2.0/tna/tests/testthat/test-data.R | 119 tna-1.2.0/tna/tests/testthat/test-indices.R | 20 tna-1.2.0/tna/tests/testthat/test-mmm.R | 371 + tna-1.2.0/tna/tests/testthat/test-plot.R | 77 tna-1.2.0/tna/tests/testthat/test-print.R | 25 tna-1.2.0/tna/tests/testthat/test-reliability.R |only tna-1.2.0/tna/tests/testthat/test-simulate.R | 197 tna-1.2.0/tna/vignettes/articles/atna.Rmd |only tna-1.2.0/tna/vignettes/articles/new-docs.Rmd |only tna-1.2.0/tna/vignettes/communities_and_cliques.Rmd | 12 tna-1.2.0/tna/vignettes/complete_tutorial.Rmd | 7 tna-1.2.0/tna/vignettes/grouped_sequences.Rmd | 10 110 files changed, 10529 insertions(+), 7799 deletions(-)
Title: Lorenz and Penalized Lorenz Regressions
Description: Inference for the Lorenz and penalized Lorenz regressions. More broadly, the package proposes functions to assess inequality and graphically represent it. The Lorenz Regression procedure is introduced in Heuchenne and Jacquemain (2022) <doi:10.1016/j.csda.2021.107347> and in Jacquemain, A., C. Heuchenne, and E. Pircalabelu (2024) <doi:10.1214/23-EJS2200>.
Author: Alexandre Jacquemain [aut, cre] ,
Xingjie Shi [ctb]
Maintainer: Alexandre Jacquemain <aljacquemain@gmail.com>
Diff between LorenzRegression versions 2.3.0 dated 2025-08-20 and 2.3.1 dated 2026-02-12
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/LorenzRegression-package.R | 2 +- man/LorenzRegression-package.Rd | 2 +- 5 files changed, 14 insertions(+), 10 deletions(-)
More information about LorenzRegression at CRAN
Permanent link
Title: Companion to the Book "Investigating Statistical Concepts,
Applications, and Methods"
Description: Introductory statistics methods to accompany "Investigating
Statistical Concepts, Applications, and Methods" (ISCAM) by Beth
Chance & Allan Rossman (2024) <https://rossmanchance.com/iscam4/>.
Tools to introduce statistical concepts with a focus on simulation
approaches. Functions are verbose, designed to provide ample output
for students to understand what each function does. Additionally, most
functions are accompanied with plots. The package is designed to be
used in an educational setting alongside the ISCAM textbook.
Author: Beth Chance [cre, aut, cph],
Visruth Srimath Kandali [aut]
Maintainer: Beth Chance <bchance@calpoly.edu>
Diff between ISCAM versions 1.0.0 dated 2025-11-11 and 1.2.0 dated 2026-02-12
DESCRIPTION | 6 MD5 | 165 NEWS.md | 12 R/binomial.R | 2008 +++++---- R/chisqprob.R | 111 R/help.R |only R/hypergeometric.R | 469 +- R/normal.R | 2645 ++++++------- R/overlayDensities.R | 586 +- R/plots.R | 279 - R/summary.R | 132 R/t.R | 2077 ++++------ R/utils.R |only README.md | 57 build/partial.rdb |binary man/ISCAM-package.Rd | 58 man/dot-add_density_common_params.Rd | 36 man/dot-plot_funcs_common_params.Rd | 40 man/iscamaddexp.Rd | 70 man/iscamaddlnorm.Rd | 68 man/iscamaddnorm.Rd | 68 man/iscamaddt.Rd | 74 man/iscamaddtnorm.Rd | 74 man/iscamboxplot.Rd | 92 man/iscamdotplot.Rd | 94 man/iscamonepropztest.Rd | 109 man/iscamsummary.Rd | 70 man/iscamtprob.Rd | 68 man/iscamtwopropztest.Rd | 135 tests/testthat/Rplots.pdf |only tests/testthat/_snaps/binomial |only tests/testthat/_snaps/binomial.md | 35 tests/testthat/_snaps/chisq-hyper |only tests/testthat/_snaps/chisq-hyper.md | 21 tests/testthat/_snaps/darwin |only tests/testthat/_snaps/iscamsummary.md |only tests/testthat/_snaps/linux |only tests/testthat/_snaps/normal |only tests/testthat/_snaps/normal.md | 21 tests/testthat/_snaps/overlayDensities.md |only tests/testthat/_snaps/plots.md |only tests/testthat/_snaps/plots/iscamdotplot-one-variable.svg | 7 tests/testthat/_snaps/plots/iscamdotplot-two-variables.svg | 8 tests/testthat/_snaps/prop-tests |only tests/testthat/_snaps/prop-tests.md | 14 tests/testthat/_snaps/t |only tests/testthat/_snaps/t.md | 38 tests/testthat/_snaps/windows |only tests/testthat/helper-capture.R | 39 tests/testthat/test-binomial.R | 118 tests/testthat/test-chisq-hyper.R | 171 tests/testthat/test-help.R |only tests/testthat/test-iscamsummary.R | 5 tests/testthat/test-normal.R | 92 tests/testthat/test-overlayDensities.R | 57 tests/testthat/test-plots.R | 44 tests/testthat/test-prop-tests.R | 67 tests/testthat/test-smoke-exports.R |only tests/testthat/test-t.R | 139 tests/testthat/test-utils.R |only 60 files changed, 5678 insertions(+), 4801 deletions(-)
Title: Cumulative Link Models with 'CmdStanR'
Description: Fits cumulative link models (CLMs) for ordinal categorical data
using 'CmdStanR'. Supports various link functions including logit, probit,
cloglog, loglog, cauchit, and flexible parametric links such as
Generalized Extreme Value (GEV), Asymmetric Exponential Power (AEP),
and Symmetric Power. Models are pre-compiled using the 'instantiate'
package for fast execution without runtime compilation. Methods are
described in Agresti (2010, ISBN:978-0-470-08289-8),
Wang and Dey (2011) <doi:10.1007/s10651-010-0154-8>, and
Naranjo, Perez, and Martin (2015) <doi:10.1007/s11222-014-9449-1>.
Author: Tomotaka Momozaki [aut, cre]
Maintainer: Tomotaka Momozaki <momozaki.stat@gmail.com>
Diff between clmstan versions 0.1.0 dated 2026-02-10 and 0.1.1 dated 2026-02-12
DESCRIPTION | 8 +++----- MD5 | 6 +++--- NEWS.md | 14 ++++++++++++++ src/install.libs.R | 38 +++++++++++++++++++++++++------------- 4 files changed, 45 insertions(+), 21 deletions(-)
Title: Text Analysis for All
Description: An R 'shiny' app designed for diverse text analysis tasks, offering a wide range of methodologies tailored to Natural Language Processing (NLP) needs.
It is a versatile, general-purpose tool for analyzing textual data.
'tall' features a comprehensive workflow, including data cleaning, preprocessing, statistical analysis, and visualization, all integrated for effective text analysis.
Author: Massimo Aria [aut, cre, cph] ,
Maria Spano [aut] ,
Luca D'Aniello [aut] ,
Corrado Cuccurullo [ctb] ,
Michelangelo Misuraca [ctb]
Maintainer: Massimo Aria <aria@unina.it>
Diff between tall versions 0.5.1 dated 2025-12-12 and 0.5.2 dated 2026-02-12
DESCRIPTION | 6 MD5 | 30 - NAMESPACE | 1 NEWS.md | 12 R/zzz.R | 2 inst/tall/collocation.R | 1184 ++++++++++++++++++++++++++-------------------- inst/tall/cssTags.R | 121 ++++ inst/tall/documents.R | 6 inst/tall/header.R | 2 inst/tall/import.R | 4 inst/tall/keyness.R | 367 +++++++------- inst/tall/overview.R | 243 +++++---- inst/tall/server.R | 2 inst/tall/settings.R | 222 ++++---- inst/tall/tallFunctions.R | 684 +++++++++++++------------- inst/tall/words.R | 137 ----- 16 files changed, 1639 insertions(+), 1384 deletions(-)
Title: Longitudinal Sequential Imputation and Prediction with Bayesian
Trees Mixed-Effects Models for Longitudinal Data
Description: Implements a sequential imputation framework using Bayesian Mixed-Effects Trees ('SBMTrees') for handling missing data in longitudinal studies. The package supports a variety of models, including non-linear relationships and non-normal random effects and residuals, leveraging Dirichlet Process priors for increased flexibility. Key features include handling Missing at Random (MAR) longitudinal data, imputation of both covariates and outcomes, and generating posterior predictive samples for further analysis. The methodology is designed for applications in epidemiology, biostatistics, and other fields requiring robust handling of missing data in longitudinal settings.
Author: Jungang Zou [aut, cre],
Liangyuan Hu [aut],
Robert McCulloch [ctb],
Rodney Sparapani [ctb],
Charles Spanbauer [ctb],
Robert Gramacy [ctb],
Jean-Sebastien Roy [ctb]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Diff between SBMTrees versions 1.4 dated 2026-02-06 and 1.5 dated 2026-02-12
DESCRIPTION | 8 MD5 | 12 NEWS.md | 6 R/RcppExports.R | 4 inst/doc/SBMTrees_Introduction.html | 67 +-- src/RcppExports.cpp | 16 src/bart_model.h | 782 ++++++++++++++++-------------------- 7 files changed, 421 insertions(+), 474 deletions(-)
Title: Interact with Data on 'SurveyCTO'
Description: 'SurveyCTO' is a platform for mobile data collection in offline settings.
The 'rsurveycto' R package uses the 'SurveyCTO' REST API
<https://docs.surveycto.com/05-exporting-and-publishing-data/05-api-access/01.api-access.html>
to read datasets and forms from a 'SurveyCTO' server into R as 'data.table's
and to download file attachments. The package also has limited support to
write datasets to a server.
Author: Jake Hughey [aut, cre],
Robert On [aut]
Maintainer: Jake Hughey <jake@agency.fund>
Diff between rsurveycto versions 0.2.4 dated 2025-12-22 and 0.2.5 dated 2026-02-12
DESCRIPTION | 6 +++--- MD5 | 13 ++++++++----- NAMESPACE | 1 + NEWS.md | 3 +++ R/scto_get_form_responses.R |only R/scto_read.R | 2 ++ man/scto_get_form_responses.Rd |only man/scto_read.Rd | 3 +++ tests/testthat/test-scto-get-form-responses.R |only 9 files changed, 20 insertions(+), 8 deletions(-)
Title: A Comprehensive Toolkit for Working with Encrypted Parquet Files
Description: Utilities for reading, writing, and managing RCDF files, including encryption and decryption support. It offers a flexible interface for handling data stored in encrypted Parquet format, along with metadata extraction, key management, and secure operations using Advanced Encryption Standard (AES) and Rivest-Shamir-Adleman (RSA) encryption.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
This is a re-admission after prior archival of version 0.1.2 dated 2025-12-03
Diff between rcdf versions 0.1.2 dated 2025-12-03 and 0.1.3 dated 2026-02-12
DESCRIPTION | 6 +- MD5 | 30 ++++++------ NAMESPACE | 3 + NEWS.md | 8 ++- R/helpers.R | 17 +++++++ R/merge_rcdf.R |only R/metadata.R | 64 +++++++++++++++----------- R/read_parquet.R | 16 ++++-- R/read_rcdf.R | 88 ++++++++++++++++++++++++++++++------- R/utils.R | 48 +++++++++++++++++++- R/write_parquet.R | 9 +-- R/write_rcdf.R | 4 + R/zzz.R | 3 - build/vignette.rds |binary man/merge_rcdf.Rd |only man/read_rcdf.Rd | 5 +- tests/testthat/test-read_parquet.R | 17 ------- 17 files changed, 225 insertions(+), 93 deletions(-)
Title: Mixed Model Association Test for GEne-Environment Interaction
Description: Use a 'glmmkin' class object (GMMAT package) from the null model to perform generalized linear mixed model-based single-variant and variant set main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020) <DOI:10.1002/gepi.22351>.
Author: Xinyu Wang [aut],
Han Chen [aut, cre],
Duy Pham [aut],
Kenneth Westerman [ctb],
Cong Pan [aut],
Eric Biggers [ctb, cph] ,
Tino Reichardt [ctb, cph] library),
Meta Platforms, Inc. and affiliates [cph] library)
Maintainer: Han Chen <hanchenphd@gmail.com>
Diff between MAGEE versions 1.4.4 dated 2025-10-21 and 1.4.5 dated 2026-02-12
DESCRIPTION | 8 MD5 | 22 +- build/vignette.rds |binary configure | 30 +- configure.ac | 2 data/example.rda |binary inst/doc/MAGEE.Rnw | 31 +- inst/doc/MAGEE.pdf |binary man/MAGEE-package.Rd | 4 src/fitglmm.cpp | 543 +++++++++++++++++++++++++-------------------------- src/fitmagee.cpp | 2 vignettes/MAGEE.Rnw | 31 +- 12 files changed, 341 insertions(+), 332 deletions(-)
Title: Evaluation of Inequality Constrained Hypotheses Using GORICA
Description: Implements the generalized order-restricted information criterion
approximation (GORICA), an AIC-like information criterion that can be
utilized to evaluate informative hypotheses specifying directional
relationships between model parameters in terms of (in)equality
constraints (see Altinisik, Van Lissa, Hoijtink, Oldehinkel, & Kuiper,
2021), <doi:10.31234/osf.io/t3c8g>. The GORICA is applicable not only to
normal linear models, but also to generalized linear models (GLMs),
generalized linear mixed models (GLMMs), structural equation models
(SEMs), and contingency tables. For contingency tables, restrictions on cell
probabilities can be non-linear.
Author: Rebecca M. Kuiper [aut],
Altinisik Yasin [aut],
Vanbrabant Leonard [ctb],
Caspar J. van Lissa [aut, cre]
Maintainer: Caspar J. van Lissa <c.j.vanlissa@tilburguniversity.edu>
This is a re-admission after prior archival of version 0.1.4 dated 2023-10-11
Diff between gorica versions 0.1.4 dated 2023-10-11 and 0.1.5 dated 2026-02-12
DESCRIPTION | 8 - MD5 | 20 +- NAMESPACE | 3 NEWS.md | 47 +++-- R/compare_hypotheses.R | 146 +++++++++--------- R/get_estimates_unique_to_gorica.R | 294 ++++++++++++++++++------------------- R/hox_2010.R | 58 +++---- R/print_functions.R | 88 +++++------ build/partial.rdb |binary man/hox_2010.Rd | 8 - tests/testthat/test-sem_example.R | 4 11 files changed, 345 insertions(+), 331 deletions(-)
Title: Exploratory Analysis of Temporal and Spatio-Temporal Health Data
Description: A collection of commonly used visualizations of temporal and
spatio-temporal health data including case counts, incidence rates, and
covariates. The available plot types include time series, heatmaps,
seasonality plots, maps and more. The package supports standard data
transformations such as temporal and spatial aggregations, while
offering extensive customization options for the resulting figures.
Author: Carles Mila [aut, cre] ,
Giovenale Moirano [aut] ,
Anna B. Kawiecki [aut] ,
Rachel Lowe [aut, cph]
Maintainer: Carles Mila <carles.milagarcia@bsc.es>
Diff between GHRexplore versions 0.2.1 dated 2025-11-05 and 0.2.2 dated 2026-02-12
DESCRIPTION | 8 MD5 | 102 ++-- NAMESPACE | 2 NEWS.md | 8 R/GHR_palette.R | 273 +++++++---- R/dengue_MS.R | 16 R/dengue_SP.R | 6 R/epiyw.R |only R/map_MS.R | 6 R/plot_bivariate.R | 234 +++++----- R/plot_combine.R | 172 ++++--- R/plot_compare.R | 167 ++++--- R/plot_correlation.R | 352 ++++++++------- R/plot_heatmap.R | 529 +++++++++++++---------- R/plot_map.R | 756 ++++++++++++++++++--------------- R/plot_multiple.R | 69 +-- R/plot_multiple_common.R | 99 ++-- R/plot_multiple_map.R | 97 ++-- R/plot_seasonality.R | 434 ++++++++++-------- R/plot_timeseries.R | 649 ++++++++++++++++------------ R/plot_timeseries2.R | 717 +++++++++++++++++-------------- R/utils.R | 547 +++++++++++++---------- README.md | 3 inst/doc/GHRexplore.html | 20 man/GHR_palette.Rd | 3 man/aggregate_cases.Rd | 3 man/aggregate_cov.Rd | 3 man/date_to_epiyw.Rd |only man/dengue_MS.Rd | 2 man/epiyw_to_date.Rd |only man/plot_bivariate.Rd | 28 - man/plot_combine.Rd | 20 man/plot_compare.Rd | 23 - man/plot_correlation.Rd | 36 - man/plot_heatmap.Rd | 49 +- man/plot_map.Rd | 69 +-- man/plot_multiple.Rd | 8 man/plot_seasonality.Rd | 37 - man/plot_timeseries.Rd | 60 +- man/plot_timeseries2.Rd | 32 - tests/testthat/test-GHR_palette.R | 8 tests/testthat/test-epiyw.R |only tests/testthat/test-helper_functions.R | 272 +++++++---- tests/testthat/test-plot_bivariate.R | 114 +++- tests/testthat/test-plot_combine.R | 69 ++- tests/testthat/test-plot_compare.R | 34 - tests/testthat/test-plot_correlation.R | 69 ++- tests/testthat/test-plot_heatmap.R | 259 ++++++++--- tests/testthat/test-plot_map.R | 509 +++++++++++++--------- tests/testthat/test-plot_multiple.R | 58 +- tests/testthat/test-plot_seasonality.R | 241 +++++++--- tests/testthat/test-plot_timeseries.R | 721 +++++++++++++++++++++---------- tests/testthat/test-plot_timeseries2.R | 164 +++++-- vignettes/GHRexplore-vignette.html | 96 ++-- 54 files changed, 4917 insertions(+), 3336 deletions(-)
Title: Affinity in Co-Occurrence Data
Description: Computes a novel metric of affinity between two entities based on their co-occurrence
(using binary presence/absence data). The metric and its maximum likelihood estimator (alpha hat) were advanced in
Mainali, Slud, et al, 2021 <doi:10.1126/sciadv.abj9204>. Four types of confidence intervals and median interval
were developed in Mainali and Slud, 2022 <doi:10.1101/2022.11.01.514801>. The `finches` dataset is
bundled with the package.
Author: Kumar Mainali [aut, cre],
Eric Slud [aut]
Maintainer: Kumar Mainali <kpmainali@gmail.com>
Diff between CooccurrenceAffinity versions 1.0.2 dated 2025-06-27 and 2.0.0 dated 2026-02-12
DESCRIPTION | 16 - MD5 | 22 - NEWS.md | 48 +++ R/affinity.R | 15 R/globals.R |only R/plotgg.R | 644 ++++++++++++++++++++++++++++++++--------- README.md | 88 ++++- inst/examples/plotgg_example.R | 71 ++++ man/figures |only man/plotgg.Rd | 198 +++++++++--- 10 files changed, 877 insertions(+), 225 deletions(-)
More information about CooccurrenceAffinity at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-11 1.3.3
2018-08-14 1.3.2
2017-02-27 1.3.1
2015-08-05 1.3.0
2014-06-17 1.2.2
2013-10-22 1.2.1
2013-08-19 1.2
2013-06-12 1.1
2013-01-23 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-08-26 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-19 0.1.8
2024-02-14 0.1.7
2023-03-16 0.1.6
2022-08-09 0.1.5
2022-07-18 0.1.4
Title: Generate Publication-Ready Statistical Tables
Description: A collection of functions for generating frequency tables and cross-tabulations of categorical variables. The resulting tables can be exported to various formats (Excel, PDF, HTML, etc.) with extensive formatting and layout customization options.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
Diff between tsg versions 0.1.0 dated 2025-11-09 and 0.1.1 dated 2026-02-12
DESCRIPTION | 6 +- MD5 | 52 +++++++++-------- NAMESPACE | 1 NEWS.md | 4 + R/facade.R | 35 +++++++++++ R/generate_crosstab.R | 92 +++++++++++++++++++++++++++++-- R/generate_frequency.R | 5 + R/generate_helpers.R | 82 ++++++++++++++++++++++++++- R/generate_modifiers.R | 21 +++---- R/generate_output.R | 6 ++ R/helpers.R | 56 +++++++++++++----- R/utils.R | 7 +- R/xlsx.R | 38 +++++++++++- R/xlsx_components.R | 51 +++++++++-------- R/xlsx_facade.R | 32 +++++++++- R/xlsx_writer.R | 40 ++++++++++++- R/zzz.R | 1 README.md | 25 +++++++- build/vignette.rds |binary inst/doc/tsg.html | 10 +-- inst/extdata/facade/xlsx/default.yaml | 38 ++++++++++-- inst/extdata/facade/xlsx/yolo.yaml | 4 + man/add_facade.Rd | 3 - man/add_facade_alt.Rd |only man/generate_crosstab.Rd | 3 + tests/testthat/test-generate_frequency.R | 6 ++ tests/testthat/test-helpers.R |only tests/testthat/test-write_xlsx.R | 4 - 28 files changed, 502 insertions(+), 120 deletions(-)
Title: qPCR Data Analysis
Description: Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, Wilcoxon-test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.
Author: Ghader Mirzaghaderi [aut, cre, cph]
Maintainer: Ghader Mirzaghaderi <mirzaghaderi@gmail.com>
Diff between rtpcr versions 2.1.3 dated 2026-02-03 and 2.1.4 dated 2026-02-12
DESCRIPTION | 12 MD5 | 45 +- NAMESPACE | 2 NEWS.md | 11 R/ANOVA_DCt.R | 257 ++++++-------- R/ANOVA_DDCt.R | 688 ++++++++++++++++++++++----------------- R/Means_DDCt.R | 4 R/TTEST_DDCt.R | 2 R/WILCOX_DDCt.R | 8 R/globalVariables.R | 3 R/plotFactor.R | 2 R/plotSingleGene.R |only inst/doc/Manual.R | 138 ++++--- inst/doc/Manual.Rmd | 225 ++++++++---- inst/doc/Manual.html | 534 +++++++++++++++++++----------- man/ANOVA_DCt.Rd | 28 - man/ANOVA_DDCt.Rd | 61 ++- man/Means_DDCt.Rd | 4 man/figures/base.png |only man/figures/dataStructure1.png |binary man/figures/repeated_measure.png |only man/figures/sampleData1.png |only man/figures/signif.png |only man/figures/standCur.png |only man/plotFactor.Rd | 2 man/plotSingleGene.Rd |only vignettes/Manual.Rmd | 225 ++++++++---- 27 files changed, 1344 insertions(+), 907 deletions(-)
Title: 'RDF' and 'SPARQL' for R using 'Oxigraph'
Description: Provides 'RDF' storage and 'SPARQL' 1.1 query capabilities by wrapping
the 'Oxigraph' graph database library <https://github.com/oxigraph/oxigraph>.
Supports in-memory and persistent ('RocksDB') storage, multiple 'RDF'
serialization formats ('Turtle', 'N-Triples', 'RDF-XML', 'N-Quads', 'TriG'),
and full 'SPARQL' 1.1 Query and Update support. Built using the 'extendr'
framework for 'Rust'-R bindings.
Author: Carl Boettiger [aut, cre] ,
Oxigraph Contributors [cph] ,
Authors of the dependency Rust crates [aut]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between roxigraph versions 0.1.0 dated 2026-02-05 and 0.1.1 dated 2026-02-12
DESCRIPTION | 11 ++++--- MD5 | 15 +++++----- NEWS.md |only inst/AUTHORS | 34 ++++++++++++------------ inst/WORDLIST | 1 src/Makevars.in | 1 src/rust/Cargo.lock | 68 ++++++++++++++++++++++++------------------------- src/rust/Cargo.toml | 5 ++- src/rust/vendor.tar.xz |binary 9 files changed, 70 insertions(+), 65 deletions(-)
Title: Conditional Mixture Modeling and Model-Based Clustering
Description: Conditional mixture model fitted via EM (Expectation Maximization) algorithm for model-based clustering, including parsimonious procedure, optimal conditional order exploration, and visualization.
Author: Yang Wang [aut, cre],
Volodymyr Melnykov [aut],
Stephen Moshier [ctb] ,
Rouben Rostamian [ctb]
Maintainer: Yang Wang <wangy00808@gmail.com>
Diff between cmbClust versions 0.0.1 dated 2022-11-03 and 0.0.2 dated 2026-02-12
DESCRIPTION | 13 +++++++------ MD5 | 4 ++-- man/cmb.search.Rd | 2 +- 3 files changed, 10 insertions(+), 9 deletions(-)
Title: Zero-Inflated and Hurdle INAR(1) Models
Description: Provides tools for estimating Zero-Inflated INAR(1)
(ZI-INAR(1)) and Hurdle INAR(1) (H-INAR(1)) models using 'Stan'.
It allows users to simulate time series data for these models,
estimate parameters, and evaluate model fit using various criteria.
Functions include model estimation, simulation, and likelihood-based metrics.
Author: Fusheng Yang [aut, cre],
Victor Hugo Lachos Davila [aut]
Maintainer: Fusheng Yang <fusheng.yang@uconn.edu>
Diff between ZIHINAR1 versions 0.2.0 dated 2026-01-25 and 0.2.1 dated 2026-02-12
ZIHINAR1-0.2.0/ZIHINAR1/inst/stan/ZIIGP-INAR1.stan |only ZIHINAR1-0.2.1/ZIHINAR1/DESCRIPTION | 6 +++--- ZIHINAR1-0.2.1/ZIHINAR1/MD5 | 4 ++-- ZIHINAR1-0.2.1/ZIHINAR1/inst/stan/ZIGP-INAR1.stan |only 4 files changed, 5 insertions(+), 5 deletions(-)
Title: Fast Unified Random Forests for Survival, Regression, and
Classification (RF-SRC)
Description: Fast OpenMP parallel computing of Breiman's random forests for univariate, multivariate, unsupervised, survival, competing risks, class imbalanced classification and quantile regression. New Mahalanobis splitting for correlated outcomes. Extreme random forests and randomized splitting. Suite of imputation methods for missing data. Fast random forests using subsampling. Confidence regions and standard errors for variable importance. New improved holdout importance. Case-specific importance. Minimal depth variable importance. Visualize trees on your Safari or Google Chrome browser. Anonymous random forests for data privacy.
Author: Hemant Ishwaran [aut],
Udaya B. Kogalur [aut, cre]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between randomForestSRC versions 3.5.0 dated 2026-01-11 and 3.5.1 dated 2026-02-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/generic.predict.rfsrc.R | 2 +- R/rfsrc.R | 4 ++-- R/utilities_survival.R | 3 ++- inst/NEWS | 9 +++++++-- 6 files changed, 21 insertions(+), 15 deletions(-)
More information about randomForestSRC at CRAN
Permanent link
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca/>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://www.sshrc-crsh.gc.ca/>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://sharcnet.ca/>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.60-19 dated 2026-01-29 and 0.60-20 dated 2026-02-12
CHANGELOG | 53 ++ DESCRIPTION | 10 MD5 | 121 ++--- NAMESPACE | 14 R/bandwidth.R | 4 R/conbandwidth.R | 4 R/condbandwidth.R | 4 R/dbandwidth.R | 4 R/np.condensity.R | 16 R/np.condensity.bw.R | 61 +- R/np.condistribution.R | 16 R/np.condistribution.bw.R | 65 +-- R/np.density.R | 16 R/np.density.bw.R | 53 +- R/np.distribution.R | 8 R/np.distribution.bw.R | 52 +- R/np.kernel.R | 81 ++- R/np.pairs.R |only R/np.plot.R | 88 ++-- R/np.plregression.R | 12 R/np.plregression.bw.R | 30 - R/np.qregression.R | 12 R/np.regression.R | 20 R/np.regression.bw.R | 54 +- R/np.sigtest.R | 17 R/np.singleindex.R | 14 R/np.singleindex.bw.R | 17 R/np.smoothcoef.R | 12 R/np.smoothcoef.bw.R | 23 - R/np.unitest.R | 2 R/npregiv.R | 335 +++++++++++++--- R/npregivderiv.R | 262 ++++++++++-- R/rbandwidth.R | 4 R/util.R | 21 - R/zzz.R | 2 README.md | 27 - cleanup | 2 demo/Engel95.R | 4 demo/npregiv.R | 4 inst/doc/entropy_np.pdf |binary inst/doc/np.pdf |binary inst/doc/np_faq.Rnw | 117 +++++ inst/doc/np_faq.pdf |binary man/data-Engel95.Rd | 4 man/np.condensity.bw.Rd | 22 + man/np.condistribution.bw.Rd | 22 + man/np.density.bw.Rd | 21 + man/np.distribution.bw.Rd | 21 + man/np.regression.bw.Rd | 21 + man/np.regressioniv.Rd | 248 ++++++----- man/np.regressionivderiv.Rd | 95 ++-- man/npuniden.boundary.Rd | 2 man/npuniden.reflect.Rd | 2 man/npuniden.sc.Rd | 2 src/Makevars.win | 1 src/headers.h | 5 src/jksum.c | 441 +++++++++++++++++---- src/np.c | 889 +++++++++++++++++++++++++++++++++++++------ src/np_init.c | 20 src/nr.c | 6 src/statmods.c | 2 vignettes/np_faq.Rnw | 117 +++++ 62 files changed, 2753 insertions(+), 849 deletions(-)
Title: Multivariate Birth-Death Processes
Description: Computationally efficient functions to provide direct likelihood-based
inference for partially-observed multivariate birth-death processes. Such processes
range from a simple Yule model to the complex susceptible-infectious-removed model
in disease dynamics. Efficient likelihood evaluation facilitates maximum likelihood
estimation and Bayesian inference.
Author: Lam S.T. Ho [aut],
Marc A. Suchard [aut, cre],
Forrest W. Crawford [aut],
Jason Xu [ctb],
Vladimir N. Minin [ctb]
Maintainer: Marc A. Suchard <msuchard@ucla.edu>
Diff between MultiBD versions 1.0.0 dated 2025-11-29 and 1.0.1 dated 2026-02-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- README.md | 4 ++-- inst/doc/SIR-MCMC.pdf |binary inst/doc/SIRtrans.pdf |binary src/bbd.h | 2 +- 6 files changed, 12 insertions(+), 12 deletions(-)
Title: Sean 'Lahman' Baseball Database
Description: Provides the tables from the 'Sean Lahman Baseball Database' as
a set of R data.frames. It uses the data on pitching, hitting and fielding
performance and other tables from 1871 through 2024, as recorded in the 2025
version of the database. Documentation examples show how many baseball
questions can be investigated.
Author: Michael Friendly [aut],
Chris Dalzell [cre, aut],
Martin Monkman [aut],
Dennis Murphy [aut],
Vanessa Foot [ctb],
Justeena Zaki-Azat [ctb],
Daniel J Eck [ctb],
Sean Lahman [cph]
Maintainer: Chris Dalzell <cdalzell@gmail.com>
Diff between Lahman versions 13.0-0 dated 2025-09-08 and 14.0-0 dated 2026-02-12
Lahman-13.0-0/Lahman/data/datalist |only Lahman-14.0-0/Lahman/DESCRIPTION | 10 - Lahman-14.0-0/Lahman/MD5 | 163 ++++++++---------- Lahman-14.0-0/Lahman/NEWS.md | 5 Lahman-14.0-0/Lahman/build/vignette.rds |binary Lahman-14.0-0/Lahman/data/AllstarFull.RData |binary Lahman-14.0-0/Lahman/data/Appearances.RData |binary Lahman-14.0-0/Lahman/data/AwardsManagers.RData |binary Lahman-14.0-0/Lahman/data/AwardsPlayers.RData |binary Lahman-14.0-0/Lahman/data/AwardsShareManagers.RData |binary Lahman-14.0-0/Lahman/data/AwardsSharePlayers.RData |binary Lahman-14.0-0/Lahman/data/Batting.RData |binary Lahman-14.0-0/Lahman/data/BattingPost.RData |binary Lahman-14.0-0/Lahman/data/CollegePlaying.RData |binary Lahman-14.0-0/Lahman/data/Fielding.RData |binary Lahman-14.0-0/Lahman/data/FieldingOF.RData |binary Lahman-14.0-0/Lahman/data/FieldingOFsplit.RData |binary Lahman-14.0-0/Lahman/data/FieldingPost.RData |binary Lahman-14.0-0/Lahman/data/HallOfFame.RData |binary Lahman-14.0-0/Lahman/data/HomeGames.RData |binary Lahman-14.0-0/Lahman/data/LahmanData.RData |binary Lahman-14.0-0/Lahman/data/Managers.RData |binary Lahman-14.0-0/Lahman/data/ManagersHalf.RData |binary Lahman-14.0-0/Lahman/data/Parks.RData |binary Lahman-14.0-0/Lahman/data/People.RData |binary Lahman-14.0-0/Lahman/data/Pitching.RData |binary Lahman-14.0-0/Lahman/data/PitchingPost.RData |binary Lahman-14.0-0/Lahman/data/Salaries.RData |binary Lahman-14.0-0/Lahman/data/Schools.RData |binary Lahman-14.0-0/Lahman/data/SeriesPost.RData |binary Lahman-14.0-0/Lahman/data/Teams.RData |binary Lahman-14.0-0/Lahman/data/TeamsFranchises.RData |binary Lahman-14.0-0/Lahman/data/TeamsHalf.RData |binary Lahman-14.0-0/Lahman/data/battingLabels.RData |binary Lahman-14.0-0/Lahman/data/fieldingLabels.RData |binary Lahman-14.0-0/Lahman/data/pitchingLabels.RData |binary Lahman-14.0-0/Lahman/demo/batting-summstats.R | 1 Lahman-14.0-0/Lahman/inst/doc/FHM-primer.Rmd | 4 Lahman-14.0-0/Lahman/inst/doc/FHM-primer.html | 17 - Lahman-14.0-0/Lahman/inst/doc/hits-by-type.R | 1 Lahman-14.0-0/Lahman/inst/doc/hits-by-type.Rmd | 1 Lahman-14.0-0/Lahman/inst/doc/hits-by-type.html | 36 +-- Lahman-14.0-0/Lahman/inst/doc/payroll.html | 64 +++---- Lahman-14.0-0/Lahman/inst/doc/run-scoring-trends.Rmd | 4 Lahman-14.0-0/Lahman/inst/doc/run-scoring-trends.html | 51 +++-- Lahman-14.0-0/Lahman/inst/doc/strikeoutsandhr.R | 2 Lahman-14.0-0/Lahman/inst/doc/strikeoutsandhr.Rmd | 2 Lahman-14.0-0/Lahman/inst/doc/strikeoutsandhr.html | 49 ++--- Lahman-14.0-0/Lahman/inst/doc/vignette-intro.html | 4 Lahman-14.0-0/Lahman/inst/scripts/dataMapping.R | 6 Lahman-14.0-0/Lahman/inst/scripts/readLahman.R | 5 Lahman-14.0-0/Lahman/man/AllstarFull.Rd | 4 Lahman-14.0-0/Lahman/man/Appearances.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsManagers.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsPlayers.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsShareManagers.Rd | 4 Lahman-14.0-0/Lahman/man/AwardsSharePlayers.Rd | 4 Lahman-14.0-0/Lahman/man/Batting.Rd | 4 Lahman-14.0-0/Lahman/man/BattingPost.Rd | 4 Lahman-14.0-0/Lahman/man/CollegePlaying.Rd | 4 Lahman-14.0-0/Lahman/man/Fielding.Rd | 6 Lahman-14.0-0/Lahman/man/FieldingOF.Rd | 2 Lahman-14.0-0/Lahman/man/FieldingOFsplit.Rd | 4 Lahman-14.0-0/Lahman/man/FieldingPost.Rd | 4 Lahman-14.0-0/Lahman/man/HallOfFame.Rd | 4 Lahman-14.0-0/Lahman/man/HomeGames.Rd | 4 Lahman-14.0-0/Lahman/man/Lahman-package.Rd | 2 Lahman-14.0-0/Lahman/man/Managers.Rd | 4 Lahman-14.0-0/Lahman/man/ManagersHalf.Rd | 2 Lahman-14.0-0/Lahman/man/Parks.Rd | 2 Lahman-14.0-0/Lahman/man/People.Rd | 4 Lahman-14.0-0/Lahman/man/Pitching.Rd | 4 Lahman-14.0-0/Lahman/man/PitchingPost.Rd | 4 Lahman-14.0-0/Lahman/man/Salaries.Rd | 2 Lahman-14.0-0/Lahman/man/Schools.Rd | 4 Lahman-14.0-0/Lahman/man/SeriesPost.Rd | 4 Lahman-14.0-0/Lahman/man/Teams.Rd | 4 Lahman-14.0-0/Lahman/man/TeamsFranchises.Rd | 4 Lahman-14.0-0/Lahman/man/TeamsHalf.Rd | 4 Lahman-14.0-0/Lahman/vignettes/FHM-primer.Rmd | 4 Lahman-14.0-0/Lahman/vignettes/hits-by-type.Rmd | 1 Lahman-14.0-0/Lahman/vignettes/run-scoring-trends.Rmd | 4 Lahman-14.0-0/Lahman/vignettes/strikeoutsandhr.Rmd | 2 83 files changed, 274 insertions(+), 266 deletions(-)
Title: Conover-Iman Test of Multiple Comparisons Using Rank Sums
Description: Computes the Conover-Iman test (1979) for 0th-order stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis omnibus test for i0th-order stochastic dominance among k groups (Kruskal and Wallis, 1952). conover.test makes k(k-1)/2 multiple pairwise comparisons based on Conover-Iman t-test-statistic of the rank differences. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Conover-Iman test may be understood as a test for median difference and for mean difference. conover.test accounts for tied ranks. The Conover-Iman test is strictly valid if and [...truncated...]
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between conover.test versions 1.1.6 dated 2024-04-09 and 1.1.7 dated 2026-02-12
DESCRIPTION | 15 + MD5 | 12 - NAMESPACE | 4 R/conover.test.R | 393 ++++++++++++++++++++++++++-------------------------- R/pad.left.R |only R/pad.spaces.R |only build/partial.rdb |binary man/conover.test.Rd | 16 +- 8 files changed, 234 insertions(+), 206 deletions(-)
Title: Graphical User Interface for 'r5r' Router
Description: Interactively build and explore public transit routes with
'r5r' package via a graphical user interface in a 'shiny' app. The
underlying routing methods are described in Pereira et al. (2021)
<doi:10.32866/001c.21262>.
Author: Egor Kotov [aut, cre, cph]
Maintainer: Egor Kotov <kotov.egor@gmail.com>
Diff between r5rgui versions 0.1.0 dated 2025-11-25 and 0.2.0 dated 2026-02-11
DESCRIPTION | 6 MD5 | 24 - NEWS.md | 17 R/r5r_gui.R | 73 +++ R/r5r_gui_demo.R | 10 README.md | 50 ++ inst/CITATION | 1 inst/schemaorg.json | 9 inst/shiny_app/server.R | 747 ++++++++++++++++++++++++++++++++-------- inst/shiny_app/ui.R | 506 ++++++++++++++++++++++++--- man/r5r_gui.Rd | 25 + man/r5r_gui_demo.Rd | 8 tests/testthat/test-launchers.R | 8 13 files changed, 1250 insertions(+), 234 deletions(-)
Title: Conditional Manifold Learning
Description: Finds a low-dimensional embedding of high-dimensional data, conditioning on available manifold information.
Author: Anh Tuan Bui [aut, cre]
Maintainer: Anh Tuan Bui <atbui@u.northwestern.edu>
Diff between cml versions 0.2.2 dated 2023-04-24 and 0.3.1 dated 2026-02-11
DESCRIPTION | 19 +++- MD5 | 32 ++++---- NAMESPACE | 1 R/condDist.R | 10 +- R/condDist2.R | 8 +- R/condIsomap.R | 8 +- R/condMDS.R | 10 ++ R/condMDSeigen.R | 10 +- R/condSmacof.R | 196 +++++++++++++++++++++++++++++--------------------- R/condSmacof_mer.R |only inst/CITATION | 36 ++------- man/cml-package.Rd | 42 ++++------ man/condDist.Rd | 10 +- man/condIsomap.Rd | 24 ++++-- man/condMDS.Rd | 23 +++-- man/condSmacof.Rd | 27 +++--- man/condSmacof_mer.Rd |only man/cz.Rd | 2 18 files changed, 251 insertions(+), 207 deletions(-)
Title: Extra Functions for 'gtsummary' Table Styling
Description: Provides additional convenience functions for 'gtsummary'
(Sjoberg et al. (2021) <doi:10.32614/RJ-2021-053>) & 'gt' tables,
including automatic variable labeling from dictionaries, standardized
missing value display, and consistent formatting helpers for streamlined
table styling workflows.
Author: Kyle Grealis [aut, cre] ,
Raymond Balise [ctb] ,
Daniel Maya [ctb]
Maintainer: Kyle Grealis <kyleGrealis@proton.me>
Diff between sumExtras versions 0.3.0 dated 2026-01-22 and 1.0.0 dated 2026-02-11
sumExtras-0.3.0/sumExtras/R/zzz.R |only sumExtras-0.3.0/sumExtras/man/apply_labels_from_dictionary.Rd |only sumExtras-0.3.0/sumExtras/man/figures/table-a.png |only sumExtras-0.3.0/sumExtras/man/figures/table-b.png |only sumExtras-0.3.0/sumExtras/man/figures/table-basic.png |only sumExtras-0.3.0/sumExtras/man/figures/table-styled.png |only sumExtras-0.3.0/sumExtras/man/figures/tables-side-by-side.png |only sumExtras-1.0.0/sumExtras/DESCRIPTION | 15 sumExtras-1.0.0/sumExtras/LICENSE | 2 sumExtras-1.0.0/sumExtras/MD5 | 101 sumExtras-1.0.0/sumExtras/NAMESPACE | 7 sumExtras-1.0.0/sumExtras/NEWS.md | 129 sumExtras-1.0.0/sumExtras/R/clean_table.R | 178 sumExtras-1.0.0/sumExtras/R/extras.R | 322 sumExtras-1.0.0/sumExtras/R/labels.R | 408 sumExtras-1.0.0/sumExtras/R/styling.R | 306 sumExtras-1.0.0/sumExtras/R/sumExtras-package.R | 51 sumExtras-1.0.0/sumExtras/R/use_jama_theme.R | 58 sumExtras-1.0.0/sumExtras/R/utils.R | 4 sumExtras-1.0.0/sumExtras/README.md | 270 sumExtras-1.0.0/sumExtras/build/vignette.rds |binary sumExtras-1.0.0/sumExtras/inst/CITATION | 29 sumExtras-1.0.0/sumExtras/inst/doc/labeling.R | 256 sumExtras-1.0.0/sumExtras/inst/doc/labeling.Rmd | 478 sumExtras-1.0.0/sumExtras/inst/doc/labeling.html | 5450 ------ sumExtras-1.0.0/sumExtras/inst/doc/options.R |only sumExtras-1.0.0/sumExtras/inst/doc/options.Rmd |only sumExtras-1.0.0/sumExtras/inst/doc/options.html |only sumExtras-1.0.0/sumExtras/inst/doc/styling.R | 475 sumExtras-1.0.0/sumExtras/inst/doc/styling.Rmd | 774 sumExtras-1.0.0/sumExtras/inst/doc/styling.html | 8424 ---------- sumExtras-1.0.0/sumExtras/inst/doc/sumExtras-intro.R | 138 sumExtras-1.0.0/sumExtras/inst/doc/sumExtras-intro.Rmd | 272 sumExtras-1.0.0/sumExtras/inst/doc/sumExtras-intro.html | 3050 --- sumExtras-1.0.0/sumExtras/inst/doc/themes.R |only sumExtras-1.0.0/sumExtras/inst/doc/themes.Rmd |only sumExtras-1.0.0/sumExtras/inst/doc/themes.html |only sumExtras-1.0.0/sumExtras/man/add_auto_labels.Rd | 136 sumExtras-1.0.0/sumExtras/man/add_group_colors.Rd | 48 sumExtras-1.0.0/sumExtras/man/add_group_styling.Rd | 53 sumExtras-1.0.0/sumExtras/man/clean_table.Rd | 94 sumExtras-1.0.0/sumExtras/man/extras.Rd | 127 sumExtras-1.0.0/sumExtras/man/figures/readme-example.png |only sumExtras-1.0.0/sumExtras/man/get_group_rows.Rd | 19 sumExtras-1.0.0/sumExtras/man/sumExtras-package.Rd | 45 sumExtras-1.0.0/sumExtras/man/theme_gt_compact.Rd | 28 sumExtras-1.0.0/sumExtras/man/use_jama_theme.Rd | 48 sumExtras-1.0.0/sumExtras/tests/testthat/helper-utils.R |only sumExtras-1.0.0/sumExtras/tests/testthat/test-clean_table-regex.R | 129 sumExtras-1.0.0/sumExtras/tests/testthat/test-clean_table.R | 105 sumExtras-1.0.0/sumExtras/tests/testthat/test-extras-warnings.R | 319 sumExtras-1.0.0/sumExtras/tests/testthat/test-extras.R | 240 sumExtras-1.0.0/sumExtras/tests/testthat/test-labels.R | 718 sumExtras-1.0.0/sumExtras/tests/testthat/test-styling.R | 118 sumExtras-1.0.0/sumExtras/tests/testthat/test-use_jama_theme.R | 37 sumExtras-1.0.0/sumExtras/vignettes/labeling.Rmd | 478 sumExtras-1.0.0/sumExtras/vignettes/options.Rmd |only sumExtras-1.0.0/sumExtras/vignettes/styling.Rmd | 774 sumExtras-1.0.0/sumExtras/vignettes/sumExtras-intro.Rmd | 272 sumExtras-1.0.0/sumExtras/vignettes/themes.Rmd |only 60 files changed, 4625 insertions(+), 20360 deletions(-)
Title: Create Common Tables and Listings Used in Clinical Trials
Description: Structure and formatting requirements for clinical trial table and listing outputs
vary between pharmaceutical companies. 'junco' provides additional tooling for use alongside
the 'rtables', 'rlistings' and 'tern' packages when creating table and listing outputs. While
motivated by the specifics of Johnson and Johnson Clinical and Statistical Programming's
table and listing shells, 'junco' provides functionality that is general and reusable.
Major features include a) alternative and extended statistical analyses beyond what 'tern'
supports for use in standard safety and efficacy tables, b) a robust production-grade
Rich Text Format (RTF) exporter for both tables and listings, c) structural support
for spanning column headers and risk difference columns in tables, and d) robust
font-aware automatic column width algorithms for both listings and tables.
Author: Gabriel Becker [cre, aut] ,
Ilse Augustyns [aut],
Paul Jenkins [aut],
Daniel Hofstaedter [aut],
Joseph Kovach [aut],
David Munoz Tord [aut],
Daniel Sabanes Bove [aut],
Ezequiel Anokian [ctb],
Renfei Mao [ctb],
Mrinal Das [ctb],
Wojciech Wojciak [ctb] [...truncated...]
Maintainer: Gabriel Becker <gabembecker@gmail.com>
Diff between junco versions 0.1.3 dated 2026-01-15 and 0.1.4 dated 2026-02-11
junco-0.1.3/junco/man/assert_rbmi.Rd |only junco-0.1.3/junco/tests/testthat/_snaps/docx_exporter_functions.md |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part4of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part4of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part5of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part5of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part6of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part6of7.rtf |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part7of7.csv |only junco-0.1.3/junco/tests/testthat/_snaps/tt_to_tblfile/test2part7of7.rtf |only junco-0.1.4/junco/DESCRIPTION | 20 junco-0.1.4/junco/MD5 | 80 junco-0.1.4/junco/NEWS.md | 12 junco-0.1.4/junco/R/ancova_rbmi.R | 11 junco-0.1.4/junco/R/docx_exporter_functions.R | 18 junco-0.1.4/junco/R/mmrm_rbmi.R | 1 junco-0.1.4/junco/R/pool_rbmi.R | 1 junco-0.1.4/junco/R/rbmi.R | 96 junco-0.1.4/junco/R/tt_to_tblfile.R | 6 junco-0.1.4/junco/R/utils.R | 15 junco-0.1.4/junco/README.md | 17 junco-0.1.4/junco/inst/WORDLIST | 2 junco-0.1.4/junco/inst/doc/table_and_listing_customizations.R | 263 junco-0.1.4/junco/inst/doc/table_and_listing_customizations.html | 2660 ++++------ junco-0.1.4/junco/inst/doc/table_and_listing_customizations.rmd | 80 junco-0.1.4/junco/man/rbmi_analyse.Rd | 92 junco-0.1.4/junco/man/rbmi_ancova_single.Rd | 9 junco-0.1.4/junco/tests/testthat/_snaps/summarize_mmrm.md | 148 junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of3.csv |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part1of3.rtf |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of3.csv |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part2of3.rtf |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of3.csv |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test2part3of3.rtf |only junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/test3allparts.rtf | 2190 +------- junco-0.1.4/junco/tests/testthat/_snaps/tt_to_tblfile/testemptylisting.rtf | 50 junco-0.1.4/junco/tests/testthat/test-a_summarize_aval_chg_diff.R | 2 junco-0.1.4/junco/tests/testthat/test-ancova_rbmi.R | 13 junco-0.1.4/junco/tests/testthat/test-docx_exporter_functions.R | 11 junco-0.1.4/junco/tests/testthat/test-mmrm_rbmi.R | 6 junco-0.1.4/junco/tests/testthat/test-pool_rbmi.R | 12 junco-0.1.4/junco/tests/testthat/test-rbmi.R | 92 junco-0.1.4/junco/tests/testthat/test-summarize_mmrm.R | 20 junco-0.1.4/junco/tests/testthat/test-tabulate_rbmi.R | 11 junco-0.1.4/junco/tests/testthat/test-tt_to_tblfile.R | 45 junco-0.1.4/junco/vignettes/table_and_listing_customizations.rmd | 80 52 files changed, 2317 insertions(+), 3746 deletions(-)
Title: Just a Rather Bayesian Evidence Synthesis
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>
Diff between jarbes versions 2.4.0 dated 2025-08-29 and 2.4.2 dated 2026-02-11
ChangeLog | 48 +++ DESCRIPTION | 10 MD5 | 57 ++- NAMESPACE | 7 R/bcbnp.R | 725 +++++++++++++++++++++++------------------------ R/bcbnp_0.R |only R/bcmeta.R | 385 ++++++++++++------------ R/bcmixmeta.R | 543 ++++------------------------------- R/data-documentation.R | 182 +++++++++++ R/dpmeta.R | 13 R/plot.bcbnp_0.R |only R/plot.bcmeta.R | 199 +++++++----- R/plot.bcmixmeta.R | 42 +- R/plot_data.R | 68 +++- R/summary.bcbnp_0.R |only R/summary.bcmeta.R | 81 ++--- R/summary.bcmixmeta.R |only data/ai_distress.rda |only data/macula_rwe.rda |binary data/personality.rda |only data/preterm.rda |only man/ai_distress.Rd |only man/bcbnp.Rd | 2 man/bcbnp_0.Rd |only man/bcmeta.Rd | 20 - man/bcmixmeta.Rd | 22 - man/macula_rwe.Rd | 15 man/personality.Rd |only man/plot.bcbnp_0.Rd |only man/plot.bcmeta.Rd | 64 +++- man/plot.bcmixmeta.Rd | 6 man/plot_data.Rd | 10 man/preterm.Rd |only man/print.bcbnp_0.Rd |only man/summary.bcbnp_0.Rd |only man/summary.bcmeta.Rd | 4 man/summary.bcmixmeta.Rd |only 37 files changed, 1243 insertions(+), 1260 deletions(-)
Title: Geospatial Regression Equation for European Nutrient Losses
(GREEN)
Description: Tools and methods to apply the model Geospatial Regression Equation
for European Nutrient losses (GREEN);
Grizzetti et al. (2005) <doi:10.1016/j.jhydrol.2004.07.036>;
Grizzetti et al. (2008);
Grizzetti et al. (2012) <doi:10.1111/j.1365-2486.2011.02576.x>;
Grizzetti et al. (2021) <doi:10.1016/j.gloenvcha.2021.102281>.
Author: A. Udias [aut],
B. Grizzetti [aut],
O. Vigiak [aut],
J. Gomez [aut],
C. Alfaro [aut, cre],
A. Aloe [aut]
Maintainer: C. Alfaro <c.alfarog@gmail.com>
Diff between GREENeR versions 1.0.0 dated 2024-02-01 and 1.0.1 dated 2026-02-11
DESCRIPTION | 17 +-- MD5 | 32 +++--- NAMESPACE | 207 ++++++++++++++++++++++----------------------- NEWS.md | 12 +- R/GREENeR-package.R | 14 --- R/optimization_metrics.R | 12 ++ R/rgreen_plots.R | 61 +++++++------ README.md |only inst/doc/GREENeR.Rmd | 44 ++++----- inst/doc/GREENeR.html | 186 +++++++++++++++++++++++++--------------- man/GREENeR-package.Rd | 105 +++++++++++++--------- man/create_lits_of_maps.Rd | 4 man/evolution_plot_area.Rd | 5 - man/gof.Rd |only man/gr_density_plot.Rd | 6 + man/nutrient_maps.Rd | 114 ++++++++++++------------ man/simobs_annual_plot.Rd | 6 + vignettes/GREENeR.Rmd | 44 ++++----- 18 files changed, 484 insertions(+), 385 deletions(-)