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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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
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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:
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