Title: Dynamic Factor Models
Description: Efficient estimation of Dynamic Factor Models using the Expectation Maximization (EM) algorithm
or Two-Step (2S) estimation, supporting datasets with missing data and mixed-frequency nowcasting applications.
Factors follow a stationary VAR process of order p. Estimation options include: running the Kalman Filter and
Smoother once with PCA initial values (2S) as in Doz, Giannone and Reichlin (2011) <doi:10.1016/j.jeconom.2011.02.012>;
iterated Kalman Filtering and Smoothing until EM convergence as in Doz, Giannone and Reichlin (2012)
<doi:10.1162/REST_a_00225>; or the adapted EM algorithm of Banbura and Modugno (2014) <doi:10.1002/jae.2306>,
allowing arbitrary missing-data patterns and monthly-quarterly mixed-frequency datasets. The implementation uses
the 'Armadillo' 'C++' library and the 'collapse' package for fast estimation. A comprehensive set of methods supports
interpretation and visualization, forecasting, and decomposition of the 'news' content of macroeconomi [...truncated...]
Author: Sebastian Krantz [aut, cre],
Rytis Bagdziunas [aut],
Santtu Tikka [rev],
Eli Holmes [rev]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between dfms versions 0.4.0 dated 2026-01-18 and 1.0.0 dated 2026-01-26
dfms-0.4.0/dfms/R/dfms.R |only dfms-1.0.0/dfms/DESCRIPTION | 33 - dfms-1.0.0/dfms/MD5 | 36 - dfms-1.0.0/dfms/NAMESPACE | 9 dfms-1.0.0/dfms/NEWS.md | 11 dfms-1.0.0/dfms/R/DFM.R | 66 ++ dfms-1.0.0/dfms/R/methods.R | 571 +++++++++++++++++++-- dfms-1.0.0/dfms/R/news.R |only dfms-1.0.0/dfms/README.md | 20 dfms-1.0.0/dfms/inst/WORDLIST |only dfms-1.0.0/dfms/inst/doc/dynamic_factor_models.pdf |binary dfms-1.0.0/dfms/inst/doc/introduction.R | 44 + dfms-1.0.0/dfms/inst/doc/introduction.Rmd | 72 ++ dfms-1.0.0/dfms/inst/doc/introduction.html | 274 +++++++--- dfms-1.0.0/dfms/man/DFM.Rd | 8 dfms-1.0.0/dfms/man/dfms-package.Rd | 34 - dfms-1.0.0/dfms/man/news.Rd |only dfms-1.0.0/dfms/man/predict.dfm.Rd | 3 dfms-1.0.0/dfms/man/residuals.dfm.Rd | 4 dfms-1.0.0/dfms/tests/testthat/test-full-state.R |only dfms-1.0.0/dfms/tests/testthat/test-news.R |only dfms-1.0.0/dfms/vignettes/introduction.Rmd | 72 ++ 22 files changed, 1040 insertions(+), 217 deletions(-)
Title: Open Source OCR Engine
Description: Bindings to 'Tesseract':
a powerful optical character recognition (OCR) engine that supports over 100 languages.
The engine is highly configurable in order to tune the detection algorithms and
obtain the best possible results.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between tesseract versions 5.2.4 dated 2025-12-29 and 5.2.5 dated 2026-01-26
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 3 +++ R/ocr.R | 3 +-- inst/doc/intro.html | 8 ++++---- man/ocr.Rd | 3 +-- 6 files changed, 17 insertions(+), 16 deletions(-)
Title: Utilizing Automated Text Analysis to Support Interpretation of
Narrative Feedback
Description: Combine topic modeling and sentiment analysis to identify individual students' gaps, and highlight their strengths and weaknesses across predefined competency domains and professional activities.
Author: Joyce Moonen - van Loon [aut, cre]
Maintainer: Joyce Moonen - van Loon <j.moonen@maastrichtuniversity.nl>
Diff between sumup versions 1.0.0 dated 2025-10-23 and 1.0.1 dated 2026-01-26
DESCRIPTION | 8 LICENSE |only MD5 | 96 NAMESPACE | 84 R/check_dataset.R | 110 R/create_output.R | 410 +-- R/example_data.R | 52 R/lemmatize.R | 336 +- R/obtain_word_counts.R | 92 R/run_sumup.R | 128 R/sentiment_analysis_grasp.R | 296 +- R/sentiment_analysis_sentimentr.R | 208 - R/settings.R | 35 R/stopwords.R | 92 R/sumup-package.R | 30 R/text_clean.R | 5 R/tidy_text.R | 148 - R/topic_classification.R | 400 +-- R/topic_modeling.R | 148 - R/utils-pipe.R | 28 R/zzz.R | 4 README.md |only inst/extdata/SumUp_Dictionary_en.csv | 3480 +++++++++++++-------------- inst/extdata/SumUp_Seeds_Competencies.json | 2 man/append_stopwords.Rd | 44 man/check_all_settings.Rd | 34 man/check_setting.Rd | 42 man/clean_text.Rd | 38 man/correct_text.Rd | 38 man/create_dataset_narratives.Rd | 34 man/create_output.Rd | 58 man/default_stopwords.Rd | 40 man/example_data.Rd | 74 man/get_corrections.Rd | 34 man/get_polarity.Rd | 52 man/lemmatize.Rd | 96 man/obtain_word_counts.Rd | 60 man/pipe.Rd | 40 man/replace_abbr.Rd | 34 man/run_sumup.Rd | 82 man/sentiment_analysis_grasp.Rd | 66 man/sentiment_analysis_sentimentr.Rd | 96 man/set_default_settings.Rd | 68 man/sumup-package.Rd | 30 man/text_clean.Rd | 70 man/tidy_text.Rd | 72 man/topic_classification.Rd | 132 - man/topic_modeling.Rd | 122 man/update_educational_framework_settings.Rd | 34 man/update_setting.Rd | 42 50 files changed, 3885 insertions(+), 3839 deletions(-)
Title: R Templates from the University of Miami
Description: This holds r markdown and quarto templates for academic papers and
slide decks. It also has templates to create research projects which
contain academic papers as vignettes.
Author: Raymond Balise [aut, cre] ,
Gabriel Odom [aut] ,
Kyle Grealis [aut] ,
Francisco Cardozo [aut] ,
Frank Gutierrez [ctb]
Maintainer: Raymond Balise <balise@miami.edu>
Diff between rUM versions 2.2.0 dated 2025-07-23 and 2.3.0 dated 2026-01-26
rUM-2.2.0/rUM/inst/gists/quarto_slides_example_rmed2025.qmd |only rUM-2.2.0/rUM/inst/gists/quarto_slides_rmed2025.qmd |only rUM-2.3.0/rUM/DESCRIPTION | 8 +- rUM-2.3.0/rUM/MD5 | 40 +++++----- rUM-2.3.0/rUM/NAMESPACE | 2 rUM-2.3.0/rUM/NEWS.md | 17 ++++ rUM-2.3.0/rUM/R/write_man.R | 8 +- rUM-2.3.0/rUM/R/write_slides.R | 19 +++- rUM-2.3.0/rUM/README.md | 15 ++- rUM-2.3.0/rUM/build/vignette.rds |binary rUM-2.3.0/rUM/inst/doc/aa_using_posit_cloud.html | 22 +++-- rUM-2.3.0/rUM/inst/doc/ab_make_research_project.html | 22 +++-- rUM-2.3.0/rUM/inst/doc/ac_make_research_project_markdown.html | 22 +++-- rUM-2.3.0/rUM/inst/doc/af_show_example.html | 5 - rUM-2.3.0/rUM/inst/doc/ag_write_scss.html | 5 - rUM-2.3.0/rUM/inst/doc/ah_write_slides.Rmd | 8 +- rUM-2.3.0/rUM/inst/doc/ah_write_slides.html | 12 +-- rUM-2.3.0/rUM/inst/doc/ai_find_show_slides.html | 5 - rUM-2.3.0/rUM/inst/gists/quarto_slides_example_rmed.qmd |only rUM-2.3.0/rUM/inst/gists/quarto_slides_rmed.qmd |only rUM-2.3.0/rUM/inst/gists/slides_example_rmed.scss | 15 +++ rUM-2.3.0/rUM/man/write_slides.Rd | 2 rUM-2.3.0/rUM/vignettes/ah_write_slides.Rmd | 8 +- 23 files changed, 144 insertions(+), 91 deletions(-)
Title: Tools for Running the External 'SaTScan' Software using R
Classes and Methods
Description: The 'SaTScan'(TM) <https://www.satscan.org> software uses spatial and
space-time scan statistics to detect and evaluate spatial and space-time clusters.
With the 'rsatscan' package, you can run the external 'SaTScan' software from
within R using R data formats. To successfully select appropriate parameter
settings within 'rsatscan', you must first learn 'SaTScan'.
Author: Ken Kleinman [aut],
Scott Hostovich [cre],
Amer Moosa [ctb]
Maintainer: Scott Hostovich <HostovichS@imsweb.com>
Diff between rsatscan versions 1.0.9 dated 2025-04-08 and 1.0.10 dated 2026-01-26
DESCRIPTION | 37 ++++----- MD5 | 94 ++++++++++++------------ NEWS | 109 ++++++++++++++++------------ R/methods.R | 11 ++ R/params.R | 177 ++++++++++++++++++++++++++++++----------------- R/readfiles.R | 4 - R/rsatscan.R | 17 +++- R/satscan.R | 70 +++++++++++------- R/zzz.R | 4 - README.md | 8 +- build/vignette.rds |binary inst/doc/rsatscan.Rmd | 4 - inst/doc/rsatscan.html | 22 +++-- inst/doc/simulation.Rmd | 2 inst/doc/simulation.html | 9 +- man/NHumbersidecas.Rd | 6 - man/NHumbersidectl.Rd | 6 - man/NHumbersidegeo.Rd | 8 +- man/NMcas.Rd | 12 +-- man/NMgeo.Rd | 8 +- man/NMpop.Rd | 12 +-- man/NYCfevercas.Rd | 8 +- man/NYCfevergeo.Rd | 8 +- man/read.col.Rd | 6 - man/read.gis.Rd | 6 - man/read.llr.Rd | 6 - man/read.rr.Rd | 6 - man/read.satscanmain.Rd | 8 +- man/read.sci.Rd | 6 - man/rsatscan.Rd | 25 ++++-- man/satscan.Rd | 33 +++----- man/search_for_param.Rd | 2 man/ss.options.Rd | 156 ++++++++++++++++++++++------------------- man/ss.options.extra.Rd | 65 +++++++++++++---- man/subin.Rd | 4 - man/write.adj.Rd | 4 - man/write.cas.Rd | 4 - man/write.ctl.Rd | 4 - man/write.geo.Rd | 4 - man/write.grd.Rd | 4 - man/write.ha.Rd | 4 - man/write.max.Rd | 4 - man/write.met.Rd | 4 - man/write.nbr.Rd | 4 - man/write.pop.Rd | 4 - man/write.ss.prm.Rd | 6 - vignettes/rsatscan.Rmd | 4 - vignettes/simulation.Rmd | 2 48 files changed, 587 insertions(+), 424 deletions(-)
Title: Visualization of BART and BARP using SHAP
Description: Complex machine learning models are often difficult to interpret. Shapley values serve as a powerful tool to understand and explain why a model makes a particular prediction. This package computes variable contributions using permutation-based Shapley values for Bayesian Additive Regression Trees (BART) and its extension with Post-Stratification (BARP). The permutation-based SHAP method proposed by Strumbel and Kononenko (2014) <doi:10.1007/s10115-013-0679-x> is grounded in data obtained via MCMC sampling. Similar to the BART model introduced by Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>, this package leverages Bayesian posterior samples generated during model estimation, allowing variable contributions to be computed without requiring additional sampling. The BART model is designed to work with the following R packages: 'BART' <doi:10.18637/jss.v097.i01>, 'bartMachine' <doi:10.18637/jss.v070.i04>, and 'dbarts' <https://CRAN.R-project.org/ [...truncated...]
Author: Dong-eun Lee [aut, cre],
Eun-Kyung Lee [aut]
Maintainer: Dong-eun Lee <ldongeun.leel@gmail.com>
Diff between bartXViz versions 1.0.9 dated 2025-12-21 and 1.0.11 dated 2026-01-26
DESCRIPTION | 8 +++---- MD5 | 35 ++++++++++++++++----------------- R/Explain_stats.R | 2 - R/decision_plot.R | 2 - R/explain.dbart.R | 2 - R/explain_bartMachine.R | 2 - R/explain_wbart.R | 2 - R/fastshap_explain_fastshap_modified.R | 2 - R/plot_explainBART.R | 2 - R/waterfall_plot.R | 2 - README.md |only man/Explain.bart.Rd | 2 - man/Explain.bartMachine.Rd | 2 - man/Explain.default.Rd | 2 - man/Explain.wbart.Rd | 2 - man/Explain_stats.Rd | 2 - man/decision_plot.Rd | 2 - man/plot.ExplainBART.Rd | 2 - man/waterfall_plot.Rd | 2 - 19 files changed, 38 insertions(+), 37 deletions(-)
Title: Generate Venn Diagrams with Items Listed in the Sections
Description: Generate Venn diagrams from two or three sets, displaying the
overlapping items as lists in the appropriate sections. The lists can be
split into columns or shortened for large sets and the plot is generated
using 'ggplot2' allowing further customisations.
Author: Matthew Jackson-Wood [aut, cre]
Maintainer: Matthew Jackson-Wood <mattjackson4@gmail.com>
Diff between VennItem versions 1.0.0 dated 2026-01-19 and 1.1.0 dated 2026-01-26
DESCRIPTION | 11 +++-- MD5 | 14 +++--- NEWS.md |only R/VennItem.R | 82 ++++++++++++++++++++++---------------- R/zzz.R | 2 README.md | 18 ++++++-- man/figures/README-example4-1.png |only man/vennItem.Rd | 9 ++-- tests/testthat/test-vennItem.R | 5 +- 9 files changed, 86 insertions(+), 55 deletions(-)
Title: Discriminant Analysis with Additional Information
Description: In applications it is usual that some additional information is available. This package dawai (an acronym
for Discriminant Analysis With Additional Information) performs linear and quadratic discriminant analysis with
additional information expressed as inequality restrictions among the populations means. It also computes several
estimations of the true error rate.
Author: David Conde [aut, cre],
Miguel A. Fernandez [aut],
Bonifacio Salvador [aut]
Maintainer: David Conde <daconrio@gmail.com>
Diff between dawai versions 1.2.7 dated 2024-10-15 and 1.2.8 dated 2026-01-26
dawai-1.2.7/dawai/build |only dawai-1.2.7/dawai/inst/doc/GPL.txt |only dawai-1.2.7/dawai/inst/doc/dawai.Rnw |only dawai-1.2.7/dawai/inst/doc/dawai.pdf |only dawai-1.2.7/dawai/inst/doc/manualdawai.pdf.asis |only dawai-1.2.7/dawai/vignettes |only dawai-1.2.8/dawai/DESCRIPTION | 11 +++++------ dawai-1.2.8/dawai/MD5 | 9 +-------- 8 files changed, 6 insertions(+), 14 deletions(-)
Title: Cognitive Mapping Tools Based on Coding of Textual Sources
Description: Functions for building cognitive maps based on qualitative data. Inputs are textual sources (articles, transcription of qualitative interviews of agents,...). These sources have been coded using relations and are linked to (i) a table describing the variables (or concepts) used for the coding and (ii) a table describing the sources (typology of agents, ...). Main outputs are Individual Cognitive Maps (ICM), Social Cognitive Maps (all sources or group of sources) and a list of quotes linked to relations. This package is linked to the work done during the PhD of Frederic M. Vanwindekens (CRA-W / UCL) hold the 13 of May 2014 at University of Louvain in collaboration with the Walloon Agricultural Research Centre (project MIMOSA, MOERMAN fund).
Author: Frederic M. Vanwindekens [aut, cre] ,
Didier Stilmant [aut, ths],
Philippe V. Baret [aut, ths]
Maintainer: Frederic M. Vanwindekens <FrdVnW@proton.me>
Diff between cogmapr versions 0.9.3 dated 2022-01-04 and 0.9.5 dated 2026-01-26
DESCRIPTION | 38 ++++++++++++++++++++++++-------------- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 14 +++++++++++++- R/cogmapr-comp.R | 10 +++++----- R/cogmapr-indic.R | 4 ++-- R/cogmapr-package.R | 4 ++++ R/cogmapr.R | 24 ++++++++++++------------ R/globalVariables.R | 4 ++-- man/ConceptIndicators.Rd | 2 +- man/EdgCMap.Rd | 6 +++--- man/EdgIndCMap.Rd | 2 +- man/GraphIndicatorsTable.Rd | 2 +- man/ProjectCMap.Rd | 8 ++++---- man/RelationshipTest.Rd | 2 +- man/SocCMap.Rd | 4 ++-- man/cogmapr-package.Rd | 2 +- man/data.ggCMap.Rd | 4 ++-- man/ggCMap.hl.Rd | 4 ++-- 18 files changed, 97 insertions(+), 71 deletions(-)
Title: 'caret' Applications for Spatial-Temporal Models
Description: Supporting functionality to run 'caret' with spatial or spatial-temporal data. 'caret' is a frequently used package for model training and prediction using machine learning. CAST includes functions to improve spatial or spatial-temporal modelling tasks using 'caret'. It includes the newly suggested 'Nearest neighbor distance matching' cross-validation to estimate the performance of spatial prediction models and allows for spatial variable selection to selects suitable predictor variables in view to their contribution to the spatial model performance. CAST further includes functionality to estimate the (spatial) area of applicability of prediction models. Methods are described in Meyer et al. (2018) <doi:10.1016/j.envsoft.2017.12.001>; Meyer et al. (2019) <doi:10.1016/j.ecolmodel.2019.108815>; Meyer and Pebesma (2021) <doi:10.1111/2041-210X.13650>; Milà et al. (2022) <doi:10.1111/2041-210X.13851>; Meyer and Pebesma (2022) <doi:10.1038/s41467-022-29838-9>; L [...truncated...]
Author: Hanna Meyer [cre, aut],
Carles Mila [aut],
Marvin Ludwig [aut],
Jan Linnenbrink [aut],
Fabian Schumacher [aut],
Philipp Otto [ctb],
Chris Reudenbach [ctb],
Thomas Nauss [ctb],
Edzer Pebesma [ctb],
Jakub Nowosad [ctb]
Maintainer: Hanna Meyer <hanna.meyer@uni-muenster.de>
Diff between CAST versions 1.0.3 dated 2025-01-09 and 1.0.4 dated 2026-01-26
DESCRIPTION | 12 +- MD5 | 50 +++++----- NAMESPACE | 5 + NEWS.md | 4 R/CAST-package.R | 7 - R/CreateSpacetimeFolds.R | 33 +++++-- R/aoa.R | 176 +++++++++++++++++++++++++++++++------- R/knndm.R | 6 - README.md | 16 +-- inst/doc/cast01-CAST-intro.R | 28 +++--- inst/doc/cast01-CAST-intro.Rmd | 28 +++--- inst/doc/cast01-CAST-intro.html | 81 ++++++++--------- inst/doc/cast02-plotgeodist.html | 38 ++++---- inst/doc/cast03-CV.html | 26 ++--- inst/doc/cast04-AOA-tutorial.R | 26 ++--- inst/doc/cast04-AOA-tutorial.Rmd | 26 ++--- inst/doc/cast04-AOA-tutorial.html | 72 +++++++-------- inst/doc/cast05-parallel.R | 108 +++++++++++------------ inst/doc/cast05-parallel.html | 14 +-- man/CAST.Rd | 7 - man/CreateSpacetimeFolds.Rd | 23 +++- man/aoa.Rd | 22 +++- man/knndm.Rd | 7 + tests/testthat/test-aoa.R | 67 ++++++++++++-- vignettes/cast01-CAST-intro.Rmd | 28 +++--- vignettes/cast04-AOA-tutorial.Rmd | 26 ++--- 26 files changed, 584 insertions(+), 352 deletions(-)
Title: Ensemble Platform for Species Distribution Modeling
Description: Functions for species distribution modeling, calibration and evaluation,
ensemble of models, ensemble forecasting and visualization. The package permits to run
consistently up to 10 single models on a presence/absences (resp presences/pseudo-absences)
dataset and to combine them in ensemble models and ensemble projections. Some bench of other
evaluation and visualisation tools are also available within the package.
Author: Maya Gueguen [aut, cre],
Helene Blancheteau [aut],
Remi Lemaire-Patin [aut],
Wilfried Thuiller [aut]
Maintainer: Maya Gueguen <maya.gueguen@univ-grenoble-alpes.fr>
Diff between biomod2 versions 4.3-4-3 dated 2025-12-22 and 4.3-4-4 dated 2026-01-26
biomod2-4.3-4-3/biomod2/vignettes/pictures/CVschema.PNG |only biomod2-4.3-4-3/biomod2/vignettes/pictures/MyBiomodData_With_CalibLines.PNG |only biomod2-4.3-4-3/biomod2/vignettes/pictures/biomod2_presentation.workflow_05_2024.pdf |only biomod2-4.3-4-4/biomod2/DESCRIPTION | 17 biomod2-4.3-4-4/biomod2/MD5 | 151 ++--- biomod2-4.3-4-4/biomod2/R/BIOMOD_EnsembleForecasting.R | 2 biomod2-4.3-4-4/biomod2/R/BIOMOD_EnsembleModeling.R | 2 biomod2-4.3-4-4/biomod2/R/BIOMOD_Modeling.R | 2 biomod2-4.3-4-4/biomod2/R/BIOMOD_Report.R | 94 +++ biomod2-4.3-4-4/biomod2/R/biomod2_classes_0.R | 94 --- biomod2-4.3-4-4/biomod2/R/biomod2_classes_1.R | 15 biomod2-4.3-4-4/biomod2/R/biomod2_classes_3.R | 3 biomod2-4.3-4-4/biomod2/R/biomod2_classes_4.R | 4 biomod2-4.3-4-4/biomod2/R/biomod2_data.R | 48 - biomod2-4.3-4-4/biomod2/R/bm_CrossValidation.R | 14 biomod2-4.3-4-4/biomod2/R/bm_FindOptimStat.R | 24 biomod2-4.3-4-4/biomod2/R/bm_ModelAnalysis.R | 2 biomod2-4.3-4-4/biomod2/R/bm_ModelingOptions.R | 2 biomod2-4.3-4-4/biomod2/R/bm_PlotResponseCurves.R | 4 biomod2-4.3-4-4/biomod2/R/bm_PseudoAbsences.R | 4 biomod2-4.3-4-4/biomod2/R/bm_RunModelsLoop.R | 22 biomod2-4.3-4-4/biomod2/R/bm_SRE.R | 12 biomod2-4.3-4-4/biomod2/R/bm_Tuning.R | 15 biomod2-4.3-4-4/biomod2/R/sysdata.rda |binary biomod2-4.3-4-4/biomod2/R/zzz.R | 5 biomod2-4.3-4-4/biomod2/README.md | 7 biomod2-4.3-4-4/biomod2/data/ModelsTable.rda |binary biomod2-4.3-4-4/biomod2/data/OptionsBigboss.rda |binary biomod2-4.3-4-4/biomod2/inst/doc/examples_1_mainFunctions_AB.Rmd | 16 biomod2-4.3-4-4/biomod2/inst/doc/examples_1_mainFunctions_AB.html | 17 biomod2-4.3-4-4/biomod2/inst/doc/examples_1_mainFunctions_BIN.Rmd | 16 biomod2-4.3-4-4/biomod2/inst/doc/examples_1_mainFunctions_BIN.html | 17 biomod2-4.3-4-4/biomod2/inst/doc/examples_2_auxiliaryFunctions.Rmd | 2 biomod2-4.3-4-4/biomod2/inst/doc/examples_2_auxiliaryFunctions.html | 8 biomod2-4.3-4-4/biomod2/inst/doc/news.Rmd | 25 biomod2-4.3-4-4/biomod2/inst/doc/news.html | 54 + biomod2-4.3-4-4/biomod2/inst/doc/vignette_crossValidation.Rmd | 191 ++---- biomod2-4.3-4-4/biomod2/inst/doc/vignette_crossValidation.html | 211 +++---- biomod2-4.3-4-4/biomod2/inst/doc/vignette_dataPreparation.html | 2 biomod2-4.3-4-4/biomod2/inst/doc/vignette_modelingOptions.Rmd | 301 +++++----- biomod2-4.3-4-4/biomod2/inst/doc/vignette_modelingOptions.html | 295 +++++---- biomod2-4.3-4-4/biomod2/inst/doc/vignette_presentation.Rmd | 18 biomod2-4.3-4-4/biomod2/inst/doc/vignette_presentation.html | 19 biomod2-4.3-4-4/biomod2/inst/doc/vignette_pseudoAbsences.Rmd | 32 - biomod2-4.3-4-4/biomod2/inst/doc/vignette_pseudoAbsences.html | 30 biomod2-4.3-4-4/biomod2/inst/doc/vignette_variability.html | 2 biomod2-4.3-4-4/biomod2/inst/doc/vignette_videos.html | 2 biomod2-4.3-4-4/biomod2/man/BIOMOD.ensemble.models.out.Rd | 1 biomod2-4.3-4-4/biomod2/man/BIOMOD.formated.data.PA.Rd | 1 biomod2-4.3-4-4/biomod2/man/BIOMOD.formated.data.Rd | 1 biomod2-4.3-4-4/biomod2/man/BIOMOD.models.out.Rd | 1 biomod2-4.3-4-4/biomod2/man/BIOMOD.projection.out.Rd | 1 biomod2-4.3-4-4/biomod2/man/BIOMOD_EnsembleForecasting.Rd | 2 biomod2-4.3-4-4/biomod2/man/BIOMOD_EnsembleModeling.Rd | 2 biomod2-4.3-4-4/biomod2/man/BIOMOD_Report.Rd | 93 +++ biomod2-4.3-4-4/biomod2/man/DataSTOC.Rd | 18 biomod2-4.3-4-4/biomod2/man/OptionsBigboss.Rd | 3 biomod2-4.3-4-4/biomod2/man/bm_CrossValidation.Rd | 14 biomod2-4.3-4-4/biomod2/man/bm_FindOptimStat.Rd | 13 biomod2-4.3-4-4/biomod2/man/bm_ModelAnalysis.Rd | 2 biomod2-4.3-4-4/biomod2/man/bm_ModelingOptions.Rd | 2 biomod2-4.3-4-4/biomod2/man/bm_PlotResponseCurves.Rd | 4 biomod2-4.3-4-4/biomod2/man/bm_SRE.Rd | 12 biomod2-4.3-4-4/biomod2/man/plot.Rd | 1 biomod2-4.3-4-4/biomod2/man/summary.Rd | 1 biomod2-4.3-4-4/biomod2/vignettes/examples_1_mainFunctions_AB.Rmd | 16 biomod2-4.3-4-4/biomod2/vignettes/examples_1_mainFunctions_BIN.Rmd | 16 biomod2-4.3-4-4/biomod2/vignettes/examples_2_auxiliaryFunctions.Rmd | 2 biomod2-4.3-4-4/biomod2/vignettes/news.Rmd | 25 biomod2-4.3-4-4/biomod2/vignettes/pictures/biomod2_options_2025_12.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/biomod2_presentation.workflow_01_2026.pdf |only biomod2-4.3-4-4/biomod2/vignettes/pictures/biomod2_pseudoabsences_2024_07.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_3_plot1.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_3_plot2.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_4_plot1.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_4_plot2.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_4_plot3.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_4_plot4.png |only biomod2-4.3-4-4/biomod2/vignettes/pictures/examples_4_plot5.png |only biomod2-4.3-4-4/biomod2/vignettes/vignette_crossValidation.Rmd | 191 ++---- biomod2-4.3-4-4/biomod2/vignettes/vignette_modelingOptions.Rmd | 301 +++++----- biomod2-4.3-4-4/biomod2/vignettes/vignette_presentation.Rmd | 18 biomod2-4.3-4-4/biomod2/vignettes/vignette_pseudoAbsences.Rmd | 32 - 83 files changed, 1421 insertions(+), 1153 deletions(-)
Title: Fitting Interpretable Neural Additive Models Using
Orthogonalization
Description: An algorithm for fitting interpretable additive neural
networks for identifiable and visualizable feature effects using post
hoc orthogonalization. Fit custom neural networks intuitively using
established 'R' 'formula' notation, including interaction effects of
arbitrary order while preserving identifiability to enable a
functional decomposition of the prediction function. For more details see
Koehler et al. (2025) <doi:10.1038/s44387-025-00033-7>.
Author: David Koehler [aut, cre]
Maintainer: David Koehler <koehler@imbie.uni-bonn.de>
Diff between ONAM versions 1.0.0 dated 2025-11-11 and 1.0.1 dated 2026-01-26
DESCRIPTION | 6 +- MD5 | 20 ++++----- R/evaluation.R | 17 +++---- R/input_checks.R | 68 +++++++++++++++++++++++++------ R/install_helper.R | 54 ++++++++++++++++++++++--- R/onam.R | 2 R/zzz.R | 14 ------ README.md | 2 man/install_conda_env.Rd | 9 +++- man/predict.onam.Rd | 10 ++-- tests/testthat/test-onam.R | 97 ++++++++++++++++++++++++++++++++++++++++++--- 11 files changed, 231 insertions(+), 68 deletions(-)
Title: Spatiotemporal Nutrient Balance Analysis Across Agricultural and
Municipal Systems
Description: A comprehensive framework for analyzing agricultural nutrient
balances across multiple spatial scales (county, 'HUC8', 'HUC2') with
integration of wastewater treatment plant ('WWTP') effluent loads for both
nitrogen and phosphorus. Supports classification of spatial units as
nutrient sources, sinks, or balanced areas based on agricultural surplus
and deficit calculations. Includes visualization tools, spatial transition
probability analysis, and nutrient flow network mapping. Built-in datasets
include agricultural nutrient balance data from the Nutrient Use Geographic
Information System ('NuGIS'; The Fertilizer Institute and Plant Nutrition
Canada, 1987-2016) <https://nugis.tfi.org/tabular_data/> and U.S. Environmental
Protection Agency ('EPA') wastewater discharge data from the 'ECHO' Discharge
Monitoring Report ('DMR') Loading Tool (2007-2016)
<https://echo.epa.gov/trends/loading-tool/water-pollution-search>. Data
are downloaded on demand from the Open Science Framework ( [...truncated...]
Author: Olatunde D. Akanbi [aut, cre, cph] ,
Vibha Mandayam [aut] ,
Atharva Gupta [aut] ,
K. Colton Flynn [aut] ,
Jeffrey Yarus [aut] ,
Erika I. Barcelos [aut, cph] ,
Roger H. French [aut, cph]
Maintainer: Olatunde D. Akanbi <olatunde.akanbi@case.edu>
Diff between manureshed versions 0.1.0 dated 2025-12-22 and 0.1.1 dated 2026-01-26
DESCRIPTION | 13 - MD5 | 45 ++- NAMESPACE | 2 NEWS.md | 18 + R/comparison_functions.R | 370 ++++++++++++++++++++++++++++++++ R/dashboard_functions.R |only R/file_io_functions.R | 8 R/utils.R | 6 R/workflow_functions.R | 2 README.md |only build/vignette.rds |binary inst/doc/advanced-features.html | 4 inst/doc/custom-efficiency-analyis.html | 4 inst/doc/dashboard-guide.R |only inst/doc/dashboard-guide.Rmd |only inst/doc/dashboard-guide.html |only inst/doc/data-integration.html | 4 inst/doc/getting-started.html | 4 inst/doc/scenario-comparison.R |only inst/doc/scenario-comparison.Rmd |only inst/doc/scenario-comparison.html |only inst/doc/visualization-guide.html | 4 inst/shiny |only man/compare_scenarios.Rd |only man/create_comparison_plots.Rd |only man/create_comparison_summary.Rd |only man/extract_scenario_metrics.Rd |only man/launch_dashboard.Rd |only man/manureshed.Rd | 2 vignettes/dashboard-guide.Rmd |only vignettes/scenario-comparison.Rmd |only 31 files changed, 454 insertions(+), 32 deletions(-)
Title: A Toolkit for Sports Injury and Illness Data Analysis
Description: Sports Injury Data analysis aims to identify and describe the
magnitude of the injury problem, and to gain more insights (e.g.
determine potential risk factors) by statistical modelling approaches.
The 'injurytools' package provides standardized routines and utilities
that simplify such analyses. It offers functions for data preparation,
informative visualizations and descriptive and model-based analyses.
Author: Lore Zumeta Olaskoaga [aut, cre] ,
Dae-Jin Lee [ctb]
Maintainer: Lore Zumeta Olaskoaga <lorezumeta@gmail.com>
Diff between injurytools versions 2.0.0 dated 2025-11-28 and 2.0.1 dated 2026-01-26
injurytools-2.0.0/injurytools/tests/testthat/test-gg_time_trend.R |only injurytools-2.0.1/injurytools/DESCRIPTION | 8 injurytools-2.0.1/injurytools/LICENSE | 4 injurytools-2.0.1/injurytools/MD5 | 206 injurytools-2.0.1/injurytools/NAMESPACE | 186 injurytools-2.0.1/injurytools/NEWS.md | 96 injurytools-2.0.1/injurytools/R/calc_burden.R | 167 injurytools-2.0.1/injurytools/R/calc_exposure.R | 206 injurytools-2.0.1/injurytools/R/calc_incidence.R | 191 injurytools-2.0.1/injurytools/R/calc_iqr_dayslost.R | 120 injurytools-2.0.1/injurytools/R/calc_mean_dayslost.R | 108 injurytools-2.0.1/injurytools/R/calc_median_dayslost.R | 112 injurytools-2.0.1/injurytools/R/calc_ncases.R | 130 injurytools-2.0.1/injurytools/R/calc_ndayslost.R | 112 injurytools-2.0.1/injurytools/R/calc_prevalence.R | 604 - injurytools-2.0.1/injurytools/R/calc_summary.R | 298 injurytools-2.0.1/injurytools/R/data.R | 260 injurytools-2.0.1/injurytools/R/gg_photo.R | 186 injurytools-2.0.1/injurytools/R/gg_prevalence.R | 280 injurytools-2.0.1/injurytools/R/gg_rank.R | 184 injurytools-2.0.1/injurytools/R/gg_riskmatrix.R | 304 injurytools-2.0.1/injurytools/R/helpers.R | 186 injurytools-2.0.1/injurytools/R/injurytools-package.R | 58 injurytools-2.0.1/injurytools/R/prepare_data.R | 752 +- injurytools-2.0.1/injurytools/R/summary_unit.R | 146 injurytools-2.0.1/injurytools/R/utils.R | 632 - injurytools-2.0.1/injurytools/README.md | 234 injurytools-2.0.1/injurytools/build/partial.rdb |binary injurytools-2.0.1/injurytools/build/vignette.rds |binary injurytools-2.0.1/injurytools/inst/CITATION |only injurytools-2.0.1/injurytools/inst/doc/estimate-epi-measures.R | 508 - injurytools-2.0.1/injurytools/inst/doc/estimate-epi-measures.Rmd | 866 +- injurytools-2.0.1/injurytools/inst/doc/estimate-epi-measures.html | 3337 ++++------ injurytools-2.0.1/injurytools/inst/doc/model-injury-data-i.R | 728 +- injurytools-2.0.1/injurytools/inst/doc/model-injury-data-i.Rmd | 962 +- injurytools-2.0.1/injurytools/inst/doc/model-injury-data-i.html | 1689 ++--- injurytools-2.0.1/injurytools/inst/doc/model-injury-data-ii.R | 960 +- injurytools-2.0.1/injurytools/inst/doc/model-injury-data-ii.Rmd | 1330 +-- injurytools-2.0.1/injurytools/inst/doc/model-injury-data-ii.html | 1895 ++--- injurytools-2.0.1/injurytools/inst/doc/prepare-injury-data.R | 172 injurytools-2.0.1/injurytools/inst/doc/prepare-injury-data.Rmd | 352 - injurytools-2.0.1/injurytools/inst/doc/prepare-injury-data.html | 1149 +-- injurytools-2.0.1/injurytools/inst/doc/visualize-injury-data.R | 866 +- injurytools-2.0.1/injurytools/inst/doc/visualize-injury-data.Rmd | 1142 +-- injurytools-2.0.1/injurytools/inst/doc/visualize-injury-data.html | 1613 ++-- injurytools-2.0.1/injurytools/man/calc_burden.Rd | 144 injurytools-2.0.1/injurytools/man/calc_exposure.Rd | 76 injurytools-2.0.1/injurytools/man/calc_incidence.Rd | 146 injurytools-2.0.1/injurytools/man/calc_iqr_dayslost.Rd | 70 injurytools-2.0.1/injurytools/man/calc_mean_dayslost.Rd | 68 injurytools-2.0.1/injurytools/man/calc_median_dayslost.Rd | 68 injurytools-2.0.1/injurytools/man/calc_ncases.Rd | 68 injurytools-2.0.1/injurytools/man/calc_ndayslost.Rd | 68 injurytools-2.0.1/injurytools/man/calc_prevalence.Rd | 144 injurytools-2.0.1/injurytools/man/calc_summary.Rd | 227 injurytools-2.0.1/injurytools/man/check_injfollowup.Rd | 42 injurytools-2.0.1/injurytools/man/cut_injd.Rd | 122 injurytools-2.0.1/injurytools/man/data_followup.Rd | 40 injurytools-2.0.1/injurytools/man/data_injurieslong.Rd | 40 injurytools-2.0.1/injurytools/man/date2season.Rd | 50 injurytools-2.0.1/injurytools/man/date_format.Rd | 52 injurytools-2.0.1/injurytools/man/exp_unit_suffix.Rd | 40 injurytools-2.0.1/injurytools/man/get_data_exposures.Rd | 44 injurytools-2.0.1/injurytools/man/get_data_followup.Rd | 44 injurytools-2.0.1/injurytools/man/get_data_injuries.Rd | 44 injurytools-2.0.1/injurytools/man/gg_photo.Rd | 92 injurytools-2.0.1/injurytools/man/gg_prevalence.Rd | 138 injurytools-2.0.1/injurytools/man/gg_rank.Rd | 130 injurytools-2.0.1/injurytools/man/gg_riskmatrix.Rd | 214 injurytools-2.0.1/injurytools/man/injd.Rd | 106 injurytools-2.0.1/injurytools/man/injurytools.Rd | 62 injurytools-2.0.1/injurytools/man/is_injd.Rd | 36 injurytools-2.0.1/injurytools/man/label_unit.Rd | 42 injurytools-2.0.1/injurytools/man/new_injd.Rd | 40 injurytools-2.0.1/injurytools/man/prepare_data.Rd | 272 injurytools-2.0.1/injurytools/man/raw_df_exposures.Rd | 118 injurytools-2.0.1/injurytools/man/raw_df_injuries.Rd | 108 injurytools-2.0.1/injurytools/man/season2year.Rd | 46 injurytools-2.0.1/injurytools/man/summary_unit.Rd | 52 injurytools-2.0.1/injurytools/man/validate_injd.Rd | 36 injurytools-2.0.1/injurytools/tests/testthat.R | 8 injurytools-2.0.1/injurytools/tests/testthat/test-calc_burden.R | 48 injurytools-2.0.1/injurytools/tests/testthat/test-calc_exposure.R | 36 injurytools-2.0.1/injurytools/tests/testthat/test-calc_incidence.R | 52 injurytools-2.0.1/injurytools/tests/testthat/test-calc_iqr_dayslost.R | 38 injurytools-2.0.1/injurytools/tests/testthat/test-calc_mean_dayslost.R | 36 injurytools-2.0.1/injurytools/tests/testthat/test-calc_median_dayslost.R | 36 injurytools-2.0.1/injurytools/tests/testthat/test-calc_ncases.R | 36 injurytools-2.0.1/injurytools/tests/testthat/test-calc_ndayslost.R | 36 injurytools-2.0.1/injurytools/tests/testthat/test-calc_prevalence.R | 38 injurytools-2.0.1/injurytools/tests/testthat/test-calc_summary.R | 158 injurytools-2.0.1/injurytools/tests/testthat/test-gg_photo.R | 26 injurytools-2.0.1/injurytools/tests/testthat/test-gg_prevalence.R | 68 injurytools-2.0.1/injurytools/tests/testthat/test-gg_rank.R | 38 injurytools-2.0.1/injurytools/tests/testthat/test-gg_riskmatrix.R | 38 injurytools-2.0.1/injurytools/tests/testthat/test-helpers.R | 84 injurytools-2.0.1/injurytools/tests/testthat/test-prepare_data.R | 216 injurytools-2.0.1/injurytools/tests/testthat/test-summary_unit.R | 176 injurytools-2.0.1/injurytools/tests/testthat/test-utils.R | 182 injurytools-2.0.1/injurytools/vignettes/estimate-epi-measures.Rmd | 866 +- injurytools-2.0.1/injurytools/vignettes/model-injury-data-i.Rmd | 962 +- injurytools-2.0.1/injurytools/vignettes/model-injury-data-ii.Rmd | 1330 +-- injurytools-2.0.1/injurytools/vignettes/prepare-injury-data.Rmd | 352 - injurytools-2.0.1/injurytools/vignettes/refs.bib | 92 injurytools-2.0.1/injurytools/vignettes/visualize-injury-data.Rmd | 1142 +-- 105 files changed, 16264 insertions(+), 16258 deletions(-)
Title: Analysis of Geostatistical Data using Bayes and Empirical Bayes
Methods
Description: Functions to fit geostatistical data. The data can be
continuous, binary or count data and the models implemented are
flexible. Conjugate priors are assumed on some parameters while
inference on the other parameters can be done through a full
Bayesian analysis of by empirical Bayes methods.
Author: Evangelos Evangelou [aut, cre],
Vivekananda Roy [aut]
Maintainer: Evangelos Evangelou <e.evangelou@maths.bath.ac.uk>
Diff between geoBayes versions 0.7.4 dated 2024-10-07 and 0.7.5 dated 2026-01-26
DESCRIPTION | 13 ++++++++----- MD5 | 10 +++++----- demo/rhizoctonia1.R | 12 +++++------- demo/rhizoctonia2.R | 3 +-- demo/yield2.R | 6 ++---- src/lbfgsbmod.f90 | 4 ++-- 6 files changed, 23 insertions(+), 25 deletions(-)
Title: Ecological Niche Modeling using Presence-Absence Data
Description: A set of tools to perform Ecological Niche Modeling with
presence-absence data. It includes algorithms for data partitioning,
model fitting, calibration, evaluation, selection, and prediction.
Other functions help to explore signals of ecological niche using univariate
and multivariate analyses, and model features such as variable response
curves and variable importance. Unique characteristics of this package are
the ability to exclude models with concave quadratic responses, and the
option to clamp model predictions to specific variables. These tools are
implemented following principles proposed in
Cobos et al., (2022) <doi:10.17161/bi.v17i.15985>,
Cobos et al., (2019) <doi:10.7717/peerj.6281>,
and Peterson et al., (2008) <doi:10.1016/j.ecolmodel.2007.11.008>.
Author: Luis F. Arias-Giraldo [aut, cre] ,
Marlon E. Cobos [aut] ,
A. Townsend Peterson [ctb]
Maintainer: Luis F. Arias-Giraldo <lfarias.giraldo@gmail.com>
Diff between enmpa versions 0.2.2 dated 2025-12-14 and 0.2.3 dated 2026-01-26
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/predict_selected.R | 5 +++++ src/Makevars.in | 2 +- src/Makevars.ucrt | 2 +- src/Makevars.win | 2 +- 7 files changed, 24 insertions(+), 13 deletions(-)
Title: Ordination Methods for the Analysis of Beta-Diversity Indices
Description: The analysis of different aspects of biodiversity requires specific algorithms. For example, in regionalisation analyses, the high frequency of ties and zero values in dissimilarity matrices produced by Beta-diversity turnover produces hierarchical cluster dendrograms whose topology and bootstrap supports are affected by the order of rows in the original matrix. Moreover, visualisation of biogeographical regionalisation can be facilitated by a combination of hierarchical clustering and multi-dimensional scaling. The recluster package provides robust techniques to visualise and analyse patterns of biodiversity and to improve occurrence data for cryptic taxa.
Author: Leonardo Dapporto [aut, cre],
Matteo Ramazzotti [aut],
Simone Fattorini [aut],
Roger Vila [aut],
Gerard Talavera [aut],
Roger H.L. Dennis [aut]
Maintainer: Leonardo Dapporto <leondap@gmail.com>
Diff between recluster versions 3.4 dated 2026-01-25 and 3.5 dated 2026-01-26
DESCRIPTION | 11 +-- MD5 | 14 ++-- R/recluster.cons.R | 83 +++++++++++++++++------- R/recluster.region.R | 163 ++++++++++++++++++++++++++++-------------------- data/dataisl.rda |binary man/biodecrypt.Rd | 47 +++++-------- man/recluster.cons.Rd | 100 +++++++++++++++++++---------- man/recluster.region.Rd | 140 +++++++++++++++++++++++++---------------- 8 files changed, 338 insertions(+), 220 deletions(-)
Title: In Vitro Toxicokinetic Data Processing and Analysis Pipeline
Description: A set of tools for processing and analyzing in vitro toxicokinetic
measurements in a standardized and reproducible pipeline. The package
was developed to perform frequentist and Bayesian estimation on 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 methods provided
by the package were described in Wambaugh et al. (2019) <doi:10.1093/toxsci/kfz205>.
Author: John Wambaugh [aut] ,
Caroline Ring [cre] ,
Sarah E. Davidson-Fritz [aut] ,
Lindsay Knupp [ctb],
Barbara A. Wetmore [ctb] ,
Zhao Zhihui [ctb],
Chantel Nicolas [ctb] ,
Anna Kreutz [ctb] ,
U.S. Federal Government [cph]
Maintainer: Caroline Ring <ring.caroline@epa.gov>
Diff between invitroTKstats versions 0.0.13 dated 2025-08-19 and 0.0.14 dated 2026-01-26
invitroTKstats-0.0.13/invitroTKstats/inst/extdata/Kreutz-Clint/README.html |only invitroTKstats-0.0.14/invitroTKstats/DESCRIPTION | 19 + invitroTKstats-0.0.14/invitroTKstats/MD5 | 101 ++++------ invitroTKstats-0.0.14/invitroTKstats/NEWS.md | 7 invitroTKstats-0.0.14/invitroTKstats/R/calc_caco2_point.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/calc_clint.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/calc_clint_point.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/calc_fup_red.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/calc_fup_red_point.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/calc_fup_uc.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/calc_fup_uc_point.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/format_caco2.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/format_clint.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/format_fup_red.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/format_fup_uc.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/merge_level0.R | 4 invitroTKstats-0.0.14/invitroTKstats/R/round_output.R | 2 invitroTKstats-0.0.14/invitroTKstats/R/sample_verification.R | 2 invitroTKstats-0.0.14/invitroTKstats/README.md | 15 + invitroTKstats-0.0.14/invitroTKstats/build/partial.rdb |binary invitroTKstats-0.0.14/invitroTKstats/build/vignette.rds |binary invitroTKstats-0.0.14/invitroTKstats/inst/doc/Caco2_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/inst/doc/Caco2_vignette.html | 19 - invitroTKstats-0.0.14/invitroTKstats/inst/doc/Clint_vignette.R | 68 +++--- invitroTKstats-0.0.14/invitroTKstats/inst/doc/Clint_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/inst/doc/Clint_vignette.html | 23 +- invitroTKstats-0.0.14/invitroTKstats/inst/doc/Data-guide-and-L0_vignette.html | 11 - invitroTKstats-0.0.14/invitroTKstats/inst/doc/FupRED_vignette.R | 68 +++--- invitroTKstats-0.0.14/invitroTKstats/inst/doc/FupRED_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/inst/doc/FupRED_vignette.html | 23 +- invitroTKstats-0.0.14/invitroTKstats/inst/doc/FupUC_vignette.R | 8 invitroTKstats-0.0.14/invitroTKstats/inst/doc/FupUC_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/inst/doc/FupUC_vignette.html | 21 -- invitroTKstats-0.0.14/invitroTKstats/inst/doc/plotting-invitroTKstats.html | 17 - invitroTKstats-0.0.14/invitroTKstats/man/calc_caco2_point.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/calc_clint.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/calc_clint_point.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/calc_fup_red.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/calc_fup_red_point.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/calc_fup_uc.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/calc_fup_uc_point.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/format_caco2.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/format_clint.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/format_fup_red.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/format_fup_uc.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/merge_level0.Rd | 4 invitroTKstats-0.0.14/invitroTKstats/man/round_output.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/man/sample_verification.Rd | 2 invitroTKstats-0.0.14/invitroTKstats/vignettes/Caco2_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/vignettes/Clint_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/vignettes/FupRED_vignette.Rmd | 2 invitroTKstats-0.0.14/invitroTKstats/vignettes/FupUC_vignette.Rmd | 2 52 files changed, 244 insertions(+), 232 deletions(-)
More information about invitroTKstats at CRAN
Permanent link
Title: Interface to the World Database on Protected Areas
Description: Fetch and clean data from the World Database on Protected
Areas (WDPA) and the World Database on Other Effective Area-Based
Conservation Measures (WDOECM). Data is obtained from Protected Planet
<https://www.protectedplanet.net/en>. To augment data cleaning procedures,
users can install the 'prepr' R package (available at
<https://github.com/prioritizr/prepr>). For more information on this
package, see Hanson (2022) <doi:10.21105/joss.04594>.
Author: Jeffrey O Hanson [aut, cre]
Maintainer: Jeffrey O Hanson <jeffrey.hanson@uqconnect.edu.au>
Diff between wdpar versions 1.3.8 dated 2024-10-07 and 1.3.9 dated 2026-01-26
DESCRIPTION | 10 - MD5 | 48 +++--- NEWS.md | 47 ++++++ R/internal.R | 67 ++++----- R/st_erase_overlaps.R | 2 R/st_repair_geometry.R | 6 R/wdpa_clean.R | 264 +++++++++++++++++++++++++----------- R/wdpa_fetch.R | 20 +- R/wdpa_read.R | 157 +++++++++------------ R/wdpa_url.R | 2 README.md | 36 ++-- build/vignette.rds |binary inst/URLLIST | 1 inst/doc/wdpar.Rmd | 14 - inst/doc/wdpar.html | 158 ++++++++++----------- man/figures/README-readme-map-1.png |binary man/st_repair_geometry.Rd | 4 man/wdpa_clean.Rd | 53 +++++-- man/wdpa_fetch.Rd | 16 +- tests/testthat/helper_variables.R | 14 + tests/testthat/test_internal.R | 15 +- tests/testthat/test_wdpa_clean.R | 72 +++------ tests/testthat/test_wdpa_fetch.R | 5 tests/testthat/test_wdpa_read.R | 43 +++-- vignettes/wdpar.Rmd | 14 - 25 files changed, 624 insertions(+), 444 deletions(-)
Title: Dynamic Screening Systems
Description: In practice, we will encounter problems where the longitudinal performance of processes needs to be monitored over time.
Dynamic screening systems (DySS) are methods that aim to identify and give signals to processes with poor performance as early as possible.
This package is designed to implement dynamic screening systems and the related methods.
References:
Qiu, P. and Xiang, D. (2014) <doi:10.1080/00401706.2013.822423>;
Qiu, P. and Xiang, D. (2015) <doi:10.1002/sim.6477>;
Li, J. and Qiu, P. (2016) <doi:10.1080/0740817X.2016.1146423>;
Li, J. and Qiu, P. (2017) <doi:10.1002/qre.2160>;
You, L. and Qiu, P. (2019) <doi:10.1080/00949655.2018.1552273>;
Qiu, P., Xia, Z., and You, L. (2020) <doi:10.1080/00401706.2019.1604434>;
You, L., Qiu, A., Huang, B., and Qiu, P. (2020) <doi:10.1002/bimj.201900127>;
You, L. and Qiu, P. (2021) <doi:10.1080/00224065.2020.1767006>.
Author: Lu You [aut, cre],
Peihua Qiu [aut]
Maintainer: Lu You <Lu.You@epi.usf.edu>
This is a re-admission after prior archival of version 1.0 dated 2022-07-16
Diff between DySS versions 1.0 dated 2022-07-16 and 1.0.1 dated 2026-01-26
DESCRIPTION | 10 MD5 | 43 - NAMESPACE | 19 R/RcppExports.R | 426 +++++------ R/addendum_cleaning.R | 136 +-- R/addendum_data.R | 172 ++-- R/addendum_search_CL.R | 288 +++---- R/calculate_ATS.R | 254 +++--- R/calculate_signal_times.R | 204 ++--- R/estimate_pattern_long_1d.R | 652 ++++++++--------- R/estimate_pattern_long_md.R | 326 ++++---- R/estimate_pattern_long_surv.R | 382 +++++----- R/evaluate_control_chart.R | 1103 +++++++++++++++--------------- R/imports.R |only R/monitor_long_1d.R | 1262 +++++++++++++++++----------------- R/monitor_long_md.R | 1076 ++++++++++++++--------------- R/monitor_long_surv.R | 228 +++--- build/vignette.rds |binary inst/doc/DySS.R | 486 ++++++------- inst/doc/DySS.html | 1503 ++++++++++++++++++++++------------------- man/monitor_long_1d.Rd | 12 src/Makevars | 1 src/Makevars.win | 1 23 files changed, 4357 insertions(+), 4227 deletions(-)
Title: Distributed Laplace Factor Model
Description: Distributed estimation method is based on a Laplace factor model
to solve the estimates of load and specific variance. The philosophy of
the package is described in Guangbao Guo. (2022).
<doi:10.1007/s00180-022-01270-z>.
Author: Guangbao Guo [aut, cre],
Siqi Liu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
This is a re-admission after prior archival of version 0.1.4 dated 2025-12-06
Diff between DLFM versions 0.1.4 dated 2025-12-06 and 0.2.2 dated 2026-01-26
DESCRIPTION | 39 ++++++++++++++++++-------------- MD5 | 50 +++++++++++++++++++++++------------------ NAMESPACE | 11 +++++++-- R/DGulPC.R | 19 ++++++++++++--- R/DIPC.R | 20 +++++++++++----- R/DPC.R | 19 ++++++++++++--- R/DPPC.R | 19 ++++++++++++--- R/DSAPC.R | 19 ++++++++++++--- R/GulPC.R | 19 ++++++++++++--- R/IPC.R |only R/LFM.R | 60 +++++++++++++++++++++++++++++++++----------------- R/PC.R | 20 ++++++++++++---- R/PPC.R | 19 ++++++++++++--- R/SAPC.R | 19 ++++++++++++--- R/online_sir_lfm.R |only R/osdr_lfm.R |only man/DGulPC.Rd | 19 ++++++++++++--- man/DIPC.Rd | 20 +++++++++++----- man/DPC.Rd | 19 ++++++++++++--- man/DPPC.Rd | 19 ++++++++++++--- man/DSAPC.Rd | 19 ++++++++++++--- man/GulPC.Rd | 19 ++++++++++++--- man/IPC.Rd |only man/LFM.Rd | 5 ---- man/PC.Rd | 19 ++++++++++++--- man/PPC.Rd | 19 ++++++++++++--- man/SAPC.Rd | 19 ++++++++++++--- man/online_sir_lfm.Rd |only man/osdr_lfm.Rd |only 29 files changed, 368 insertions(+), 142 deletions(-)
Title: Adaptive Cycle and Trend Analysis for Irregular Time Series
Description: Provides adaptive trend estimation, cycle detection, Fourier harmonic
selection, bootstrap confidence intervals, change-point detection, and
rolling-origin forecasting. Supports LOESS (Locally Estimated Scatterplot
Smoothing), GAM (Generalized Additive Model), and GAMM (Generalized Additive
Mixed Model), and automatically handles irregular sampling using the
Lomb-Scargle periodogram. Methods implemented in this package are described
in Cleveland et al. (1990) <doi:10.2307/2289548>, Wood (2017)
<doi:10.1201/9781315370279>, and Scargle (1982) <doi:10.1086/160554>.
Author: Pietro Piu [aut, cre]
Maintainer: Pietro Piu <pietro.piu.si@gmail.com>
Diff between cycleTrendR versions 0.2.0 dated 2026-01-22 and 0.3.0 dated 2026-01-26
DESCRIPTION | 18 +- MD5 | 26 +-- NAMESPACE | 25 --- NEWS.md | 28 +++ R/adaptive_cycle_trend_analysis.r | 279 ++++++++++++++++++---------------- build/vignette.rds |binary inst/doc/cycleTrendR-overview.R | 64 +++++++ inst/doc/cycleTrendR-overview.Rmd | 58 +++---- inst/doc/cycleTrendR-overview.html | 196 ++++++++++++++++++----- inst/doc/cycleTrendR_in_practice.R |only inst/doc/cycleTrendR_in_practice.Rmd |only inst/doc/cycleTrendR_in_practice.html |only man/adaptive_cycle_trend_analysis.Rd | 66 +++----- tests |only vignettes/cycleTrendR-overview.Rmd | 58 +++---- vignettes/cycleTrendR_in_practice.Rmd |only 16 files changed, 508 insertions(+), 310 deletions(-)
Title: Political Linguistics Toolkit - Gaffes, Phonetics, and Text
Transformation
Description: A comprehensive toolkit for political linguistics featuring a museum
of famous digital gaffes, phonetic transformation algorithms (Soundex, consonant
shifts), QWERTY keyboard geometry for typo simulation, syllable parsing, word
blending (portmanteau creation), and text corruption analysis. Originally
inspired by the infamous "covfefe" tweet of 2017.
Author: Michael Kirchner [aut, cre]
Maintainer: Michael Kirchner <michael@kirchner.io>
Diff between covfefe versions 0.1.0 dated 2017-06-06 and 1.0.0 dated 2026-01-26
DESCRIPTION | 35 ++- MD5 | 75 ++++++- NAMESPACE | 32 ++- NEWS.md |only R/blend.R |only R/corrupt.R |only R/covfefe.R | 13 - R/data.R |only R/detect.R |only R/keyboard.R |only R/museum.R |only R/phonetic.R |only R/syllable.R |only README.md | 400 +++++++++++++++++++------------------- data |only man/adjacent_key_typo.Rd |only man/analyze_gaffe.Rd |only man/blend_score.Rd |only man/blend_words.Rd |only man/consonant_pairs.Rd |only man/corrupt_text.Rd |only man/covfefy.Rd | 9 man/covfefySentence.Rd | 8 man/covfefySpeech.Rd | 6 man/detect_blend.Rd |only man/detect_typo_type.Rd |only man/gaffes.Rd |only man/garble_sentence.Rd |only man/get_phonetic_group.Rd |only man/is_keyboard_adjacent.Rd |only man/keyboard_mash.Rd |only man/museum_by_person.Rd |only man/museum_by_type.Rd |only man/museum_by_year.Rd |only man/museum_list.Rd |only man/museum_lookup.Rd |only man/museum_random.Rd |only man/onset_nucleus_coda.Rd |only man/phonetic_distance.Rd |only man/phonetic_groups.Rd |only man/phonetic_shift.Rd |only man/qwerty_adjacency.Rd |only man/qwerty_adjacent.Rd |only man/qwerty_distance.Rd |only man/qwerty_layout.Rd |only man/soundex.Rd |only man/soundex_map.Rd |only man/suggest_corrections.Rd |only man/syllabify.Rd |only man/syllable_count.Rd |only man/syllable_swap.Rd |only man/vowel_shift.Rd |only man/vowel_shifts.Rd |only tests/testthat/test-blend.R |only tests/testthat/test-corrupt.R |only tests/testthat/test-detect.R |only tests/testthat/test-integration.R |only tests/testthat/test-keyboard.R |only tests/testthat/test-museum.R |only tests/testthat/test-phonetic.R |only tests/testthat/test-syllable.R |only tests/testthat/test.R | 43 ++++ 62 files changed, 384 insertions(+), 237 deletions(-)
Title: Analyze Bunching in a Kink or Notch Setting
Description: View and analyze data where bunching is expected. Estimate counter-
factual distributions. For earnings data, estimate the compensated
elasticity of earnings w.r.t. the net-of-tax rate.
Author: Itai Trilnick [aut, cre]
Maintainer: Itai Trilnick <itai.trilnick@gmail.com>
Diff between bunchr versions 1.2.0 dated 2017-01-30 and 1.2.1 dated 2026-01-26
DESCRIPTION | 18 LICENSE | 4 MD5 | 52 - NEWS.md | 77 +- R/bunchr.R | 55 - R/earning_fun.R | 45 + R/elas_equalizer.R | 6 R/kink_estimator.R | 504 ++++++++-------- R/notch_estimator.R | 10 R/util_calc.R | 10 README.md | 55 + build/vignette.rds |binary inst/doc/bunching_with_bunchr.R | 290 ++++----- inst/doc/bunching_with_bunchr.Rmd | 846 ++++++++++++++-------------- inst/doc/bunching_with_bunchr.html | 1106 ++++++++++++++++++++++++++----------- inst/doc/notch_estimation.html | 489 ++++++++++++---- man/bunch.Rd | 31 - man/bunchApp.Rd | 1 man/bunch_viewer.Rd | 17 man/bunchr.Rd | 8 man/earning_fun.Rd | 1 man/elas_equalizer.Rd | 7 man/kink_estimator.Rd | 28 man/notch_estimator.Rd | 34 - man/util_calc.Rd | 1 man/util_equalizer.Rd | 1 vignettes/bunching_with_bunchr.Rmd | 846 ++++++++++++++-------------- 27 files changed, 2702 insertions(+), 1840 deletions(-)
Title: Dummy R APIs Used in 'Azure Synapse Analytics' for Local
Developments
Description: This is a pure dummy interfaces package which mirrors 'MsSparkUtils' APIs <https://learn.microsoft.com/en-us/azure/synapse-analytics/spark/microsoft-spark-utilities?pivots=programming-language-r> of 'Azure Synapse Analytics' <https://learn.microsoft.com/en-us/azure/synapse-analytics/> for R users,
customer of Azure Synapse can download this package from CRAN for local development.
Author: runtimeexp [aut, cre],
Microsoft [cph]
Maintainer: runtimeexp <runtimeexpdg@microsoft.com>
Diff between notebookutils versions 1.5.3 dated 2024-04-07 and 1.6.2 dated 2026-01-26
notebookutils-1.5.3/notebookutils/R/warehouse.R |only notebookutils-1.5.3/notebookutils/R/workspace.R |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.create.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.delete.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.get.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.getDefinition.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.help.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.list.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.update.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.warehouse.updateDefinition.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.assignToCapacity.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.create.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.delete.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.get.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.help.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.list.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.listArtifacts.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.unassignFromCapacity.Rd |only notebookutils-1.5.3/notebookutils/man/notebookutils.workspace.update.Rd |only notebookutils-1.6.2/notebookutils/DESCRIPTION | 12 notebookutils-1.6.2/notebookutils/LICENSE | 4 notebookutils-1.6.2/notebookutils/MD5 | 317 +-- notebookutils-1.6.2/notebookutils/NAMESPACE | 282 +- notebookutils-1.6.2/notebookutils/R/conf.R |only notebookutils-1.6.2/notebookutils/R/connections.R |only notebookutils-1.6.2/notebookutils/R/credentials.R | 562 ++--- notebookutils-1.6.2/notebookutils/R/env.R | 304 +-- notebookutils-1.6.2/notebookutils/R/fabricClient.R | 157 - notebookutils-1.6.2/notebookutils/R/fs.R | 1006 +++++----- notebookutils-1.6.2/notebookutils/R/help.R | 64 notebookutils-1.6.2/notebookutils/R/lakehouse.R | 376 +-- notebookutils-1.6.2/notebookutils/R/notebook.R | 402 ++- notebookutils-1.6.2/notebookutils/R/runtime.R | 104 - notebookutils-1.6.2/notebookutils/R/session.R | 48 notebookutils-1.6.2/notebookutils/R/udf.R |only notebookutils-1.6.2/notebookutils/R/utils.R |only notebookutils-1.6.2/notebookutils/R/variableLibrary.R |only notebookutils-1.6.2/notebookutils/R/visualization.R | 117 - notebookutils-1.6.2/notebookutils/build/vignette.rds |binary notebookutils-1.6.2/notebookutils/inst/doc/notebookutils-tutorial.Rmd | 34 notebookutils-1.6.2/notebookutils/inst/doc/notebookutils-tutorial.html | 725 +++---- notebookutils-1.6.2/notebookutils/man/display.Rd | 52 notebookutils-1.6.2/notebookutils/man/display.config.Rd | 82 notebookutils-1.6.2/notebookutils/man/display.configCustomOptions.Rd |only notebookutils-1.6.2/notebookutils/man/displayHTML.Rd | 46 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.getConnectionStringOrCreds.Rd | 46 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.getFullConnectionString.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.getPropertiesAll.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.getSecret.Rd | 52 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.getSecretWithLS.Rd | 46 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.getToken.Rd | 50 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.help.Rd | 38 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.isValidToken.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.putSecret.Rd | 66 notebookutils-1.6.2/notebookutils/man/mssparkutils.credentials.putSecretWithLS.Rd | 58 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.getClusterId.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.getJobId.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.getPoolName.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.getUserId.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.getUserName.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.getWorkspaceName.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.env.help.Rd | 38 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.append.Rd | 52 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.cp.Rd | 52 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.exists.Rd | 46 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.fastcp.Rd | 58 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.getMountPath.Rd | 48 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.head.Rd | 48 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.help.Rd | 66 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.ls.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.mkdirs.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.mount.Rd | 50 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.mountToDriverNode.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.mounts.Rd | 38 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.mv.Rd | 62 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.put.Rd | 54 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.refreshMounts.Rd | 36 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.rm.Rd | 46 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.unmount.Rd | 42 notebookutils-1.6.2/notebookutils/man/mssparkutils.fs.unmountFromDriverNode.Rd | 34 notebookutils-1.6.2/notebookutils/man/mssparkutils.help.Rd | 44 notebookutils-1.6.2/notebookutils/man/mssparkutils.lakehouse.create.Rd | 56 notebookutils-1.6.2/notebookutils/man/mssparkutils.lakehouse.delete.Rd | 32 notebookutils-1.6.2/notebookutils/man/mssparkutils.lakehouse.get.Rd | 38 notebookutils-1.6.2/notebookutils/man/mssparkutils.lakehouse.help.Rd 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Title: Custom 'Bootstrap' 'Sass' Themes for 'shiny' and 'rmarkdown'
Description: Simplifies custom 'CSS' styling of both 'shiny' and
'rmarkdown' via 'Bootstrap' 'Sass'. Supports 'Bootstrap' 3, 4 and 5 as
well as their various 'Bootswatch' themes. An interactive widget is
also provided for previewing themes in real time.
Author: Carson Sievert [aut, cre] ,
Joe Cheng [aut],
Garrick Aden-Buie [aut] ,
Posit Software, PBC [cph, fnd],
Bootstrap contributors [ctb] ,
Twitter, Inc [cph] ,
Javi Aguilar [ctb, cph] ,
Thomas Park [ctb, cph] ,
PayPal [ctb, cph]
Maintainer: Carson Sievert <carson@posit.co>
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-02 0.0.5
2025-09-30 0.0.4
2025-01-13 0.0.3
2024-12-07 0.0.2
2024-12-05 0.0.1
Title: Mongolian 'NSO' 'PXWeb' Data and Boundaries (Tidy Client)
Description: A 'tidyverse'-friendly client for the National Statistics Office of Mongolia
'PXWeb' API <https://data.1212.mn/> with helpers to discover tables, variables, and fetch
statistical data. Also includes utilities to retrieve Mongolia administrative boundaries
(ADM0-ADM2) as 'sf' objects from open sources for mapping and spatial analysis.
Author: Temuulen Enebish [aut, cre, cph]
Maintainer: Temuulen Enebish <temuulen@gmail.com>
Diff between mongolstats versions 0.1.0 dated 2026-01-18 and 0.1.1 dated 2026-01-26
DESCRIPTION | 10 LICENSE | 2 MD5 | 58 ++-- NEWS.md | 8 R/data.R | 9 README.md | 14 - inst/doc/discovery.R | 261 ------------------- inst/doc/discovery.Rmd | 22 + inst/doc/discovery.html | 133 +--------- inst/doc/environmental-surveillance.R | 356 -------------------------- inst/doc/environmental-surveillance.Rmd | 98 ++++++- inst/doc/environmental-surveillance.html | 274 +++++++++++--------- inst/doc/getting-started.R | 239 ------------------ inst/doc/getting-started.Rmd | 94 +++---- inst/doc/getting-started.html | 171 ++---------- inst/doc/mapping.R | 202 --------------- inst/doc/mapping.Rmd | 16 - inst/doc/mapping.html | 18 - inst/doc/ub-health-environment.R | 410 ------------------------------- inst/doc/ub-health-environment.Rmd | 31 +- inst/doc/ub-health-environment.html | 116 +++----- inst/extdata/air_annual_cached.csv |only inst/extdata/air_monthly_cached.csv |only inst/extdata/px_index.json | 2 man/mongolstats-package.Rd | 2 man/nso_data.Rd | 12 vignettes/discovery.Rmd | 22 + vignettes/environmental-surveillance.Rmd | 98 ++++++- vignettes/getting-started.Rmd | 94 +++---- vignettes/mapping.Rmd | 16 - vignettes/ub-health-environment.Rmd | 31 +- 31 files changed, 723 insertions(+), 2096 deletions(-)
Title: Rational Approximations of Fractional Stochastic Partial
Differential Equations
Description: Functions that compute rational approximations of fractional elliptic stochastic partial differential equations. The package also contains functions for common statistical usage of these approximations. The main references for rSPDE are Bolin, Simas and Xiong (2023) <doi:10.1080/10618600.2023.2231051> for the covariance-based method and Bolin and Kirchner (2020) <doi:10.1080/10618600.2019.1665537> for the operator-based rational approximation. These can be generated by the citation function in R.
Author: David Bolin [cre, aut],
Alexandre Simas [aut],
Finn Lindgren [ctb]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between rSPDE versions 2.5.1 dated 2025-03-21 and 2.5.2 dated 2026-01-26
rSPDE-2.5.1/rSPDE/man/figures |only rSPDE-2.5.2/rSPDE/DESCRIPTION | 8 rSPDE-2.5.2/rSPDE/MD5 | 54 - rSPDE-2.5.2/rSPDE/NAMESPACE | 23 rSPDE-2.5.2/rSPDE/NEWS.md | 8 rSPDE-2.5.2/rSPDE/R/fractional.computations.R | 5 rSPDE-2.5.2/rSPDE/R/fractional.operators.R | 427 ++++++---- rSPDE-2.5.2/rSPDE/R/inla_rspde_1d.R | 7 rSPDE-2.5.2/rSPDE/R/inla_rspde_intrinsic.R | 61 + rSPDE-2.5.2/rSPDE/R/inla_rspde_spacetime.R | 7 rSPDE-2.5.2/rSPDE/R/inlabru_rspde.R | 23 rSPDE-2.5.2/rSPDE/R/intrinsic.R | 240 +++-- rSPDE-2.5.2/rSPDE/R/rspde_lme.R | 139 ++- rSPDE-2.5.2/rSPDE/R/spacetime.R | 69 + rSPDE-2.5.2/rSPDE/build/vignette.rds |binary rSPDE-2.5.2/rSPDE/inst/doc/rSPDE_package.Rmd | 88 ++ rSPDE-2.5.2/rSPDE/inst/doc/rSPDE_package.html | 4 rSPDE-2.5.2/rSPDE/man/bru_get_mapper.intrinsic_matern.Rd |only rSPDE-2.5.2/rSPDE/man/cov_function_mesh.Rd |only rSPDE-2.5.2/rSPDE/man/covariance_mesh.Rd |only rSPDE-2.5.2/rSPDE/man/cross_validation.Rd | 3 rSPDE-2.5.2/rSPDE/man/intrinsic.matern.operators.Rd | 4 rSPDE-2.5.2/rSPDE/man/make_A.Rd |only rSPDE-2.5.2/rSPDE/man/predict.CBrSPDEobj2d.Rd | 4 rSPDE-2.5.2/rSPDE/man/predict.intrinsicCBrSPDEobj.Rd | 6 rSPDE-2.5.2/rSPDE/man/rspde.spacetime.Rd | 3 rSPDE-2.5.2/rSPDE/man/spacetime.operators.Rd | 5 rSPDE-2.5.2/rSPDE/man/spde.matern.operators.Rd | 3 rSPDE-2.5.2/rSPDE/tests/testthat/test.inlabru_rspde.R |only rSPDE-2.5.2/rSPDE/tests/testthat/test.rspde_lme_optim_errors.R |only rSPDE-2.5.2/rSPDE/tests/testthat/test.s3.operators.R |only rSPDE-2.5.2/rSPDE/vignettes/rSPDE_package.Rmd | 88 ++ 32 files changed, 934 insertions(+), 345 deletions(-)
Title: Modelling and Validation of Non Homogeneous Poisson Processes
Description: Tools for modelling, ML estimation, validation analysis and simulation of non homogeneous Poisson processes in time.
Author: Ana C. Cebrian [aut, cre]
Maintainer: Ana C. Cebrian <acebrian@unizar.es>
Diff between NHPoisson versions 3.3 dated 2020-02-19 and 3.4 dated 2026-01-26
DESCRIPTION | 16 +++++++++------- MD5 | 9 +++++---- data/BarTxTn.rda |binary inst |only man/NHPoisson-package.Rd | 4 ++-- man/graphresU.fun.Rd | 2 +- 6 files changed, 17 insertions(+), 14 deletions(-)
Title: R Port of the 'Scilab' Neldermead Module
Description: Provides several direct search optimization algorithms based on the
simplex method. The provided algorithms are direct search algorithms, i.e.
algorithms which do not use the derivative of the cost function. They are
based on the update of a simplex. The following algorithms are available: the
fixed shape simplex method of Spendley, Hext and Himsworth (unconstrained
optimization with a fixed shape simplex, 1962) <doi:10.1080/00401706.1962.10490033>,
the variable shape simplex method of Nelder and Mead (unconstrained optimization
with a variable shape simplex made, 1965) <doi:10.1093/comjnl/7.4.308>, and
Box's complex method (constrained optimization with a variable shape simplex,
1965) <doi: 10.1093/comjnl/8.1.42>.
Author: Sebastien Bihorel [aut, cre],
Michael Baudin [cph]
Maintainer: Sebastien Bihorel <sb.pmlab@gmail.com>
Diff between neldermead versions 1.0-12 dated 2022-02-01 and 1.0-13 dated 2026-01-26
neldermead-1.0-12/neldermead/inst/images |only neldermead-1.0-13/neldermead/DESCRIPTION | 8 neldermead-1.0-13/neldermead/MD5 | 114 neldermead-1.0-13/neldermead/NAMESPACE | 1 neldermead-1.0-13/neldermead/R/boxlinesearch.R | 2 neldermead-1.0-13/neldermead/R/costf.transposex.R | 2 neldermead-1.0-13/neldermead/R/fmin.gridsearch.R | 2 neldermead-1.0-13/neldermead/R/fminbnd.R | 2 neldermead-1.0-13/neldermead/R/fminbnd.function.R | 2 neldermead-1.0-13/neldermead/R/fminbnd.outputfun.R | 2 neldermead-1.0-13/neldermead/R/fminsearch.R | 2 neldermead-1.0-13/neldermead/R/fminsearch.function.R | 2 neldermead-1.0-13/neldermead/R/fminsearch.outputfun.R | 2 neldermead-1.0-13/neldermead/R/is.R | 2 neldermead-1.0-13/neldermead/R/neldermead.R | 2 neldermead-1.0-13/neldermead/R/neldermead.algo.R | 2 neldermead-1.0-13/neldermead/R/neldermead.autorestart.R | 2 neldermead-1.0-13/neldermead/R/neldermead.box.R | 2 neldermead-1.0-13/neldermead/R/neldermead.costf.R | 2 neldermead-1.0-13/neldermead/R/neldermead.destroy.R | 2 neldermead-1.0-13/neldermead/R/neldermead.fixed.R | 2 neldermead-1.0-13/neldermead/R/neldermead.function.R | 2 neldermead-1.0-13/neldermead/R/neldermead.get.R | 2 neldermead-1.0-13/neldermead/R/neldermead.interpolate.R | 2 neldermead-1.0-13/neldermead/R/neldermead.isrkelley.R | 2 neldermead-1.0-13/neldermead/R/neldermead.isroneill.R | 2 neldermead-1.0-13/neldermead/R/neldermead.istorestart.R | 2 neldermead-1.0-13/neldermead/R/neldermead.log.R | 2 neldermead-1.0-13/neldermead/R/neldermead.outputcmd.R | 2 neldermead-1.0-13/neldermead/R/neldermead.restart.R | 2 neldermead-1.0-13/neldermead/R/neldermead.scaletocenter.R | 2 neldermead-1.0-13/neldermead/R/neldermead.scaletox0.R | 2 neldermead-1.0-13/neldermead/R/neldermead.search.R | 2 neldermead-1.0-13/neldermead/R/neldermead.set.R | 2 neldermead-1.0-13/neldermead/R/neldermead.startup.R | 2 neldermead-1.0-13/neldermead/R/neldermead.storehistory.R | 2 neldermead-1.0-13/neldermead/R/neldermead.termination.R | 2 neldermead-1.0-13/neldermead/R/neldermead.termstartup.R | 2 neldermead-1.0-13/neldermead/R/neldermead.updatesimp.R | 2 neldermead-1.0-13/neldermead/R/neldermead.variable.R | 2 neldermead-1.0-13/neldermead/R/optimget.R | 2 neldermead-1.0-13/neldermead/R/optimset.R | 2 neldermead-1.0-13/neldermead/R/optimset.method.R | 2 neldermead-1.0-13/neldermead/R/print.neldermead.R | 2 neldermead-1.0-13/neldermead/R/scaleinconstraints.R | 2 neldermead-1.0-13/neldermead/R/summary.neldermead.R | 2 neldermead-1.0-13/neldermead/build/vignette.rds |binary neldermead-1.0-13/neldermead/inst/doc/fminsearch.svg |only neldermead-1.0-13/neldermead/inst/doc/manual.R | 2 neldermead-1.0-13/neldermead/inst/doc/manual.Rmd | 12 neldermead-1.0-13/neldermead/inst/doc/manual.html | 1425 ++++++++++-- neldermead-1.0-13/neldermead/inst/doc/neldermeadalgo1.svg |only neldermead-1.0-13/neldermead/inst/doc/neldermeadalgo2.svg |only neldermead-1.0-13/neldermead/inst/doc/neldermeadalgo3.svg |only neldermead-1.0-13/neldermead/inst/doc/neldermeadsearch1.svg |only neldermead-1.0-13/neldermead/inst/doc/neldermeadsearch2.svg |only neldermead-1.0-13/neldermead/man/neldermead-package.Rd | 4 neldermead-1.0-13/neldermead/man/neldermead.Rd | 4 neldermead-1.0-13/neldermead/vignettes/manual.Rmd | 12 59 files changed, 1424 insertions(+), 242 deletions(-)
Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent
access to information contained in various R models, like model
formulas, model terms, information about random effects, data that was
used to fit the model or data from response variables. 'insight'
mainly revolves around two types of functions: Functions that find
(the names of) information, starting with 'find_', and functions that
get the underlying data, starting with 'get_'. The package has a
consistent syntax and works with many different model objects, where
otherwise functions to access these information are missing.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut, ctb] ,
Indrajeet Patil [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Mattan S. Ben-Shachar [aut, ctb] ,
Brenton M. Wiernik [aut, ctb] ,
Vincent Arel-Bundock [aut, ctb] ,
Etienne Bacher [aut, ctb] ,
Ale [...truncated...]
Maintainer: Daniel Luedecke <officialeasystats@gmail.com>
Diff between insight versions 1.4.4 dated 2025-12-06 and 1.4.5 dated 2026-01-26
insight-1.4.4/insight/tests/testthat/test-panelr-asym.R |only insight-1.4.4/insight/tests/testthat/test-panelr.R |only insight-1.4.5/insight/DESCRIPTION | 16 insight-1.4.5/insight/MD5 | 44 insight-1.4.5/insight/NAMESPACE | 2 insight-1.4.5/insight/NEWS.md | 17 insight-1.4.5/insight/R/find_predictors.R | 68 + insight-1.4.5/insight/R/get_data.R | 54 + insight-1.4.5/insight/R/get_datagrid.R | 57 - insight-1.4.5/insight/R/utils_object.R | 6 insight-1.4.5/insight/inst/WORDLIST | 1 insight-1.4.5/insight/inst/doc/display.html | 468 ++++----- insight-1.4.5/insight/inst/doc/export.html | 2 insight-1.4.5/insight/inst/doc/insight.html | 10 insight-1.4.5/insight/tests/testthat/test-display.R | 40 insight-1.4.5/insight/tests/testthat/test-export_table.R | 603 +++++++++++- insight-1.4.5/insight/tests/testthat/test-feis.R | 4 insight-1.4.5/insight/tests/testthat/test-format_table.R | 169 ++- insight-1.4.5/insight/tests/testthat/test-format_table_ci.R | 12 insight-1.4.5/insight/tests/testthat/test-get_datagrid.R | 24 insight-1.4.5/insight/tests/testthat/test-lmer.R | 14 insight-1.4.5/insight/tests/testthat/test-mipo.R | 26 insight-1.4.5/insight/tests/testthat/test-plm.R | 12 insight-1.4.5/insight/tests/testthat/test-tidymodels.R | 104 ++ 24 files changed, 1365 insertions(+), 388 deletions(-)
Title: Comprehensive TIFF I/O with Full Support for 'ImageJ' TIFF Files
Description: General purpose TIFF file I/O for R users. Currently the
only such package with read and write support for TIFF files with
floating point (real-numbered) pixels, and the only package that can
correctly import TIFF files that were saved from 'ImageJ' and write
TIFF files than can be correctly read by 'ImageJ'
<https://imagej.net/ij/>. Also supports text image I/O.
Author: Rory Nolan [aut, cre] ,
Kent Johnson [aut],
Simon Urbanek [ctb],
Sergi Padilla-Parra [ths] ,
Jeroen Ooms [rev, ctb] ,
Jon Clayden [rev]
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between ijtiff versions 3.1.3 dated 2025-04-05 and 3.2.0 dated 2026-01-26
DESCRIPTION | 19 +- MD5 | 58 +++--- NEWS.md | 21 ++ R/argument-checking.R | 240 ++++++++++++++++++++------- R/read.R | 10 - R/text-io.R | 4 R/utils.R | 39 ++++ R/write.R | 141 ++++++--------- inst/WORDLIST | 7 inst/doc/reading-and-writing-images.html | 33 +-- inst/doc/text-images.html | 4 inst/doc/the-imagej-problem.html | 13 - inst/doc/tiff-tags.html | 9 - man/write_tif.Rd | 105 ++++------- src/common.c | 14 + src/common.h | 3 src/init.c | 4 src/read.c | 14 - src/tags.c | 14 - src/write.c | 23 +- tests/testthat/helper-tag-tests.R | 34 ++- tests/testthat/test-attribute-tags.R |only tests/testthat/test-bitspersample-override.R |only tests/testthat/test-compression-override.R |only tests/testthat/test-metadata-passthrough.R |only tests/testthat/test-tag-datetime.R | 3 tests/testthat/test-tag-documentname.R | 54 ------ tests/testthat/test-tag-imagedescription.R |only tests/testthat/test-tag-resolutionunit.R | 8 tests/testthat/test-tag-xposition.R | 54 ------ tests/testthat/test-tag-yposition.R | 54 ------ tests/testthat/test-tag-yresolution.R | 4 tests/testthat/test-tags-roundtrip.R |only 33 files changed, 499 insertions(+), 487 deletions(-)