Title: Taxonomic Information from 'Wikipedia'
Description: 'Taxonomic' information from 'Wikipedia', 'Wikicommons',
'Wikispecies', and 'Wikidata'. Functions included for getting
taxonomic information from each of the sources just listed, as
well performing taxonomic search.
Author: Scott Chamberlain [aut],
Ethan Welty [aut],
Grzegorz Sapijaszko [aut],
Zachary Foster [aut, cre]
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
This is a re-admission after prior archival of version 0.4.0 dated 2020-06-29
Diff between wikitaxa versions 0.4.0 dated 2020-06-29 and 0.5.0 dated 2026-02-13
wikitaxa-0.4.0/wikitaxa/tests/fixtures |only wikitaxa-0.5.0/wikitaxa/DESCRIPTION | 29 - wikitaxa-0.5.0/wikitaxa/LICENSE | 2 wikitaxa-0.5.0/wikitaxa/MD5 | 71 +-- wikitaxa-0.5.0/wikitaxa/NEWS.md | 10 wikitaxa-0.5.0/wikitaxa/R/wiki.R | 75 +++- wikitaxa-0.5.0/wikitaxa/R/wikispecies.R | 2 wikitaxa-0.5.0/wikitaxa/R/wikitaxa-package.R | 3 wikitaxa-0.5.0/wikitaxa/README.md | 84 ++-- wikitaxa-0.5.0/wikitaxa/build/vignette.rds |binary wikitaxa-0.5.0/wikitaxa/inst/doc/wikitaxa.html | 249 ++++++-------- wikitaxa-0.5.0/wikitaxa/man/wikitaxa-package.Rd | 9 wikitaxa-0.5.0/wikitaxa/man/wt_data.Rd | 7 wikitaxa-0.5.0/wikitaxa/man/wt_wiki_url_build.Rd | 2 wikitaxa-0.5.0/wikitaxa/man/wt_wiki_url_parse.Rd | 2 wikitaxa-0.5.0/wikitaxa/tests/testthat/_vcr |only wikitaxa-0.5.0/wikitaxa/tests/testthat/helper-wikitaxa.R | 5 wikitaxa-0.5.0/wikitaxa/tests/testthat/test-wikipedia.R | 1 wikitaxa-0.5.0/wikitaxa/tests/testthat/test-wikispecies.R | 70 ++- wikitaxa-0.5.0/wikitaxa/tests/testthat/test-wt_data.R | 4 20 files changed, 344 insertions(+), 281 deletions(-)
Title: Data Sets, Etc. for the Text "Using R for Introductory
Statistics", Second Edition
Description: A collection of data sets to accompany the
textbook "Using R for Introductory Statistics," second
edition.
Author: John Verzani [aut, cre]
Maintainer: John Verzani <verzani@math.csi.cuny.edu>
Diff between UsingR versions 2.0-7 dated 2022-01-11 and 2.0-8 dated 2026-02-13
DESCRIPTION | 12 + MD5 | 290 +++++++++++++++++++++--------------------- R/QQplot.R | 21 +-- data/BushApproval.rda |binary data/HUMMER.rda |binary data/KSI.rda |binary data/MLBattend.rda |binary data/Medicare.rda |binary data/OBP.rda |binary data/ObamaApproval.rda |binary data/age.universe.rda |binary data/aid.rda |binary data/alaska.pipeline.rda |binary data/alltime.movies.rda |binary data/aosat.rda |binary data/arctic.oscillations.rda |binary data/babies.rda |binary data/babyboom.rda |binary data/batting.rda |binary data/baycheck.rda |binary data/best.times.rda |binary data/blood.rda |binary data/breakdown.rda |binary data/bright.stars.rda |binary data/brightness.rda |binary data/bumpers.rda |binary data/bycatch.rda |binary data/cabinet.rda |binary data/camp.rda |binary data/cancer.rda |binary data/carbon.rda |binary data/carsafety.rda |binary data/central.park.cloud.rda |binary data/central.park.rda |binary data/ceo2013.rda |binary data/cfb.rda |binary data/chicken.rda |binary data/chips.rda |binary data/co2emiss.rda |binary data/coins.rda |binary data/coldvermont.rda |binary data/corn.rda |binary data/crime.rda |binary data/deflection.rda |binary data/diamond.rda |binary data/divorce.rda |binary data/dottodot.rda |binary data/dowdata.rda |binary data/dvdsales.rda |binary data/emissions.rda |binary data/ewr.rda |binary data/exec.pay.rda |binary data/fat.rda |binary data/father.son.rda |binary data/female.inc.rda |binary data/firstchi.rda |binary data/five.yr.temperature.rda |binary data/florida.rda |binary data/galileo.rda |binary data/galton.rda |binary data/gap.rda |binary data/gasprices.rda |binary data/goalspergame.rda |binary data/google.rda |binary data/grades.rda |binary data/grip.rda |binary data/hall.fame.rda |binary data/heartrate.rda |binary data/home.rda |binary data/homedata.rda |binary data/homeprice.rda |binary data/homework.rda |binary data/income_percentiles.RData |binary data/iq.rda |binary data/kid.weights.rda |binary data/last.tie.rda |binary data/lawsuits.rda |binary data/malpract.rda |binary data/mandms.rda |binary data/math.rda |binary data/maydow.rda |binary data/movie_data_2011.rda |binary data/movies.rda |binary data/mw.ages.rda |binary data/nba.draft.rda |binary data/nisdc.rda |binary data/normtemp.rda |binary data/nym.2002.rda |binary data/oral.lesion.rda |binary data/ozonemonthly.rda |binary data/paradise.rda |binary data/pi2000.rda |binary data/primes.rda |binary data/puerto.rda |binary data/rat.rda |binary data/reaction.time.rda |binary data/reddrum.rda |binary data/salmon.rate.rda |binary data/salmonharvest.rda |binary data/samhda.rda |binary data/scrabble.rda |binary data/slc.rda |binary data/smokyph.rda |binary data/snacks.rda |binary data/south.rda |binary data/southernosc.rda |binary data/sp500.excess.rda |binary data/stud.recs.rda |binary data/student.expenses.rda |binary data/tcm1y.rda |binary data/tempsalinity.rda |binary data/too.young.rda |binary data/twins.rda |binary data/u2.rda |binary data/urchin.growth.rda |binary data/vacation.rda |binary data/watertemp.rda |binary data/wchomes.rda |binary data/wellbeing.rda |binary data/yellowfin.rda |binary man/MLBattend.Rd | 2 man/Medicare.Rd | 2 man/age.universe.Rd | 2 man/aosat.Rd | 6 man/arctic.oscillations.Rd | 7 - man/babies.Rd | 4 man/batting.Rd | 8 - man/cabinet.Rd | 14 +- man/central.park.cloud.Rd | 4 man/diamond.Rd | 2 man/exec.pay.Rd | 4 man/fat.Rd | 2 man/maydow.Rd | 2 man/movie_data_2011.Rd | 3 man/mw.ages.Rd | 2 man/nba.draft.Rd | 2 man/normtemp.Rd | 2 man/npdb.Rd | 4 man/ozonemonthly.Rd | 4 man/pi2000.Rd | 2 man/salmon.rate.Rd | 2 man/snacks.Rd | 2 man/sp500.excess.Rd | 4 man/tcm1y.Rd | 2 man/wchomes.Rd | 4 man/wellbeing.Rd | 4 146 files changed, 210 insertions(+), 209 deletions(-)
Title: Data and Tools for Analyzing the Pali Canon
Description: Provides access to the complete Pali Canon, or
Tipitaka, the canonical scripture for Theravadin Buddhists
worldwide. Based on the Chattha Sangayana Tipitaka version
4 (Vipassana Research Institute, 1990). Includes word
frequency data and tools for Pali string sorting. For a
lemmatized critical edition with sutta-level granularity,
see the companion package 'tipitaka.critical'.
Author: Dan Zigmond [aut, cre]
Maintainer: Dan Zigmond <djz@shmonk.com>
This is a re-admission after prior archival of version 0.1.2 dated 2021-03-30
Diff between tipitaka versions 0.1.2 dated 2021-03-30 and 1.0.0 dated 2026-02-13
tipitaka-0.1.2/tipitaka/data/sati_sutta_long.rda |only tipitaka-0.1.2/tipitaka/data/sati_sutta_raw.rda |only tipitaka-0.1.2/tipitaka/data/tipitaka_long.rda |only tipitaka-0.1.2/tipitaka/data/tipitaka_wide.rda |only tipitaka-0.1.2/tipitaka/man/sati_sutta_long.Rd |only tipitaka-0.1.2/tipitaka/man/sati_sutta_raw.Rd |only tipitaka-1.0.0/tipitaka/DESCRIPTION | 21 - tipitaka-1.0.0/tipitaka/MD5 | 55 +-- tipitaka-1.0.0/tipitaka/NAMESPACE | 4 tipitaka-1.0.0/tipitaka/NEWS.md | 35 +- tipitaka-1.0.0/tipitaka/R/compute.R |only tipitaka-1.0.0/tipitaka/R/cpp11.R | 4 tipitaka-1.0.0/tipitaka/R/pali-sort.R | 12 tipitaka-1.0.0/tipitaka/R/tipitaka-docs.R | 157 +++------- tipitaka-1.0.0/tipitaka/R/tipitaka-package.R | 12 tipitaka-1.0.0/tipitaka/README.md | 59 +-- tipitaka-1.0.0/tipitaka/data/tipitaka_raw.rda |binary tipitaka-1.0.0/tipitaka/man/abhidhamma_pitaka.Rd | 7 tipitaka-1.0.0/tipitaka/man/figures/README-dendogram-1.png |binary tipitaka-1.0.0/tipitaka/man/figures/README-dendogram-critical-1.png |only tipitaka-1.0.0/tipitaka/man/figures/README-freq-by-word-1.png |binary tipitaka-1.0.0/tipitaka/man/figures/README-kmeans-1.png |binary tipitaka-1.0.0/tipitaka/man/figures/README-sutta-clustering-1.png |only tipitaka-1.0.0/tipitaka/man/figures/README-wordclouds-1.png |binary tipitaka-1.0.0/tipitaka/man/pali_sort.Rd | 9 tipitaka-1.0.0/tipitaka/man/pali_stop_words.Rd | 12 tipitaka-1.0.0/tipitaka/man/sutta_pitaka.Rd | 13 tipitaka-1.0.0/tipitaka/man/tipitaka.Rd | 61 ++- tipitaka-1.0.0/tipitaka/man/tipitaka_long.Rd | 10 tipitaka-1.0.0/tipitaka/man/tipitaka_names.Rd | 4 tipitaka-1.0.0/tipitaka/man/tipitaka_wide.Rd | 7 tipitaka-1.0.0/tipitaka/man/vinaya_pitaka.Rd | 7 tipitaka-1.0.0/tipitaka/src/cpp11.cpp | 12 33 files changed, 236 insertions(+), 265 deletions(-)
Title: A Tool to Associate FASTA Sequences and Features
Description: Provides user friendly methods for the identification of sequence patterns that are statistically significantly associated with a property of the sequence. For instance, SeqFeatR allows to identify viral immune escape mutations for hosts of given HLA types. The underlying statistical method is Fisher's exact test, with appropriate corrections for multiple testing, or Bayes. Patterns may be point mutations or n-tuple of mutations. SeqFeatR offers several ways to visualize the results of the statistical analyses, see Budeus (2016) <doi:10.1371/journal.pone.0146409>.
Author: Bettina Budeus [aut, cre]
Maintainer: Bettina Budeus <bettina.budeus@stud.uni-due.de>
Diff between SeqFeatR versions 0.3.1 dated 2019-04-12 and 0.3.3 dated 2026-02-13
DESCRIPTION | 13 +++++++------ MD5 | 36 ++++++++++++++++++------------------ NEWS | 10 ++++++++++ R/visualizepairfeat.R | 2 +- build/vignette.rds |binary inst/CITATION | 6 ++---- inst/doc/SeqFeatR_tutorial.Rnw | 2 +- inst/doc/SeqFeatR_tutorial.pdf |binary man/assocpointpair.Rd | 3 ++- man/foundereffectfinder.Rd | 3 ++- man/getfreqs.Rd | 3 ++- man/orPlot.Rd | 3 ++- man/q-values.Rd | 3 ++- man/rewritetuple.Rd | 3 ++- man/tartan.Rd | 3 ++- man/visualizepair.Rd | 3 ++- man/visualizepairfeat.Rd | 3 ++- man/volcanoplot.Rd | 3 ++- vignettes/SeqFeatR_tutorial.Rnw | 2 +- 19 files changed, 60 insertions(+), 41 deletions(-)
Title: Data on Cars in Qatar
Description: Fuel economy, size, performance, and price data for cars in Qatar in 2025. Mirrors many of the columns in mtcars, but uses (1) non-US-centric makes and models, (2) 2025 prices, and (3) metric measurements, making it more appropriate for use as an example dataset outside the United States. For more details see Musgrave (2025) <doi:10.1080/15512169.2025.2572320>.
Author: Paul Musgrave [aut, cre, cph] ,
Andrew Heiss [aut]
Maintainer: Paul Musgrave <rpm47@georgetown.edu>
Diff between qatarcars versions 1.0.0 dated 2025-10-16 and 1.1.0 dated 2026-02-13
qatarcars-1.0.0/qatarcars/man/figures/img |only qatarcars-1.1.0/qatarcars/DESCRIPTION | 12 qatarcars-1.1.0/qatarcars/MD5 | 47 qatarcars-1.1.0/qatarcars/NAMESPACE | 7 qatarcars-1.1.0/qatarcars/NEWS.md | 14 qatarcars-1.1.0/qatarcars/R/color.R |only qatarcars-1.1.0/qatarcars/R/currency.R |only qatarcars-1.1.0/qatarcars/R/qatarcars.R | 16 qatarcars-1.1.0/qatarcars/R/sysdata.rda |binary qatarcars-1.1.0/qatarcars/R/utils.R |only qatarcars-1.1.0/qatarcars/README.md | 225 +++- qatarcars-1.1.0/qatarcars/build |only qatarcars-1.1.0/qatarcars/inst/CITATION |only qatarcars-1.1.0/qatarcars/inst/extdata/qatarcars.csv | 28 qatarcars-1.1.0/qatarcars/inst/extdata/qatarcars.dta |binary qatarcars-1.1.0/qatarcars/inst/extdata/qatarcars.rds |binary qatarcars-1.1.0/qatarcars/man/currency_conversion.Rd |only qatarcars-1.1.0/qatarcars/man/figures/README-plot-economy-histogram-1.png |binary qatarcars-1.1.0/qatarcars/man/figures/README-plot-mass-economy-1.png |binary qatarcars-1.1.0/qatarcars/man/figures/README-plot-mass-economy-us-1.png |only qatarcars-1.1.0/qatarcars/man/figures/README-plot-performance-price-1.png |binary qatarcars-1.1.0/qatarcars/man/figures/README-plot-performance-price-usd-1.png |only qatarcars-1.1.0/qatarcars/man/figures/README-plot-price-eur-1.png |only qatarcars-1.1.0/qatarcars/man/figures/README-show-qatar-maroon-1.png |only qatarcars-1.1.0/qatarcars/man/figures/qatarcars_hex.png |only qatarcars-1.1.0/qatarcars/man/figures/rstudio-viewer-labels.png |only qatarcars-1.1.0/qatarcars/man/qatar_maroon.Rd |only qatarcars-1.1.0/qatarcars/man/qatarcars-package.Rd | 2 qatarcars-1.1.0/qatarcars/man/qatarcars.Rd | 14 qatarcars-1.1.0/qatarcars/man/set_label.Rd |only qatarcars-1.1.0/qatarcars/tests/testthat/_snaps/data.md | 501 +++++----- qatarcars-1.1.0/qatarcars/tests/testthat/test-currency.R |only 32 files changed, 548 insertions(+), 318 deletions(-)
Title: High-Dimensional Variable Selection with Presence-Only Data
Description: Efficient algorithm for solving PU (Positive and Unlabeled) problem in low or high dimensional setting with lasso or group lasso penalty. The algorithm uses Maximization-Minorization and (block) coordinate descent. Sparse calculation and parallel computing are supported for the computational speed-up. See Hyebin Song, Garvesh Raskutti (2018) <doi:10.48550/arXiv.1711.08129>.
Author: Hyebin Song [aut, cre],
Garvesh Raskutti [aut]
Maintainer: Hyebin Song <hps5320@psu.edu>
This is a re-admission after prior archival of version 3.2.5 dated 2023-12-18
Diff between PUlasso versions 3.2.5 dated 2023-12-18 and 3.2.6 dated 2026-02-13
DESCRIPTION | 13 +++++++------ MD5 | 12 ++++++------ R/PUlasso.R | 28 ++++++++++++++-------------- build/vignette.rds |binary inst/doc/PUlasso-vignette.html | 24 ++++++++++++------------ man/PUlasso-package.Rd | 3 ++- tests/testthat/test.R | 4 ++-- 7 files changed, 43 insertions(+), 41 deletions(-)
Title: Decision Models with Multi Attribute Utility Theory
Description: Provides functions for the creation, evaluation and test of decision models based in
Multi Attribute Utility Theory (MAUT). Can process and evaluate local risk aversion utilities
for a set of indexes, compute utilities and weights for the whole decision tree defining the
decision model and simulate weights employing Dirichlet distributions under addition constraints
in weights.
Also includes other rating analysis methods as for example the Colley, Offensive - Defensive
ratings and the ranking aggregation with Borda count.
Author: Felipe Aguirre [ctb],
Julio Andrade [ctb],
Pedro Guarderas [aut, cre],
Daniel Lagos [ctb],
Andres Lopez [ctb],
Nelson Recalde [ctb],
Edison Salazar [ctb]
Maintainer: Pedro Guarderas <pedro.felipe.guarderas@gmail.com>
Diff between mau versions 0.1.2 dated 2018-01-17 and 0.4.0 dated 2026-02-13
mau-0.1.2/mau/R/Bar.Plot.R |only mau-0.1.2/mau/R/Compute.Model.R |only mau-0.1.2/mau/R/Eval.Utilities.R |only mau-0.1.2/mau/R/Make.Tree.R |only mau-0.1.2/mau/R/Plot.Simulation.Weight.R |only mau-0.1.2/mau/R/Read.Tree.R |only mau-0.1.2/mau/R/Read.Utilities.R |only mau-0.1.2/mau/R/Simulate.Weights.R |only mau-0.1.2/mau/R/Spider.Plot.R |only mau-0.1.2/mau/R/Stand.String.R |only mau-0.1.2/mau/man/Bar.Plot.Rd |only mau-0.1.2/mau/man/Compute.Model.Rd |only mau-0.1.2/mau/man/Deep.Compute.Rd |only mau-0.1.2/mau/man/Divide.Weights.Rd |only mau-0.1.2/mau/man/Eval.Utilities.Rd |only mau-0.1.2/mau/man/Index.Weights.Rd |only mau-0.1.2/mau/man/Make.Decision.Tree.Rd |only mau-0.1.2/mau/man/Plot.Simulation.Weight.Rd |only mau-0.1.2/mau/man/Read.Tree.Rd |only mau-0.1.2/mau/man/Read.Utilities.Rd |only mau-0.1.2/mau/man/Sim.Const.Weights.Rd |only mau-0.1.2/mau/man/Sim.Weights.Rd |only mau-0.1.2/mau/man/Spider.Plot.Rd |only mau-0.1.2/mau/man/Stand.String.Rd |only mau-0.1.2/mau/man/Sum.Weights.Rd |only mau-0.4.0/mau/DESCRIPTION | 15 mau-0.4.0/mau/MD5 | 82 - mau-0.4.0/mau/NAMESPACE | 35 mau-0.4.0/mau/NEWS.md | 10 mau-0.4.0/mau/R/bar_plot.R |only mau-0.4.0/mau/R/compute_model.R |only mau-0.4.0/mau/R/eval_utilities.R |only mau-0.4.0/mau/R/make_tree.R |only mau-0.4.0/mau/R/mau.R | 2 mau-0.4.0/mau/R/plot_simulation_weight.R |only mau-0.4.0/mau/R/rating_methods.R |only mau-0.4.0/mau/R/read_tree.R |only mau-0.4.0/mau/R/read_utilities.R |only mau-0.4.0/mau/R/simulate_weights.R |only mau-0.4.0/mau/R/spider_plot.R |only mau-0.4.0/mau/R/string_treatment.R |only mau-0.4.0/mau/README.md | 153 +-- mau-0.4.0/mau/build/partial.rdb |binary mau-0.4.0/mau/build/vignette.rds |binary mau-0.4.0/mau/inst/doc/Running_MAUT.R | 110 +- mau-0.4.0/mau/inst/doc/Running_MAUT.Rmd | 147 +-- mau-0.4.0/mau/inst/doc/Running_MAUT.html | 1364 +++++++++++++++++++++++++--- mau-0.4.0/mau/inst/doc/rankings.R |only mau-0.4.0/mau/inst/doc/rankings.Rmd |only mau-0.4.0/mau/inst/doc/rankings.html |only mau-0.4.0/mau/man/bar_plot.Rd |only mau-0.4.0/mau/man/borda_count.Rd |only mau-0.4.0/mau/man/colley_rating.Rd |only mau-0.4.0/mau/man/compute_model.Rd |only mau-0.4.0/mau/man/deep_compute.Rd |only mau-0.4.0/mau/man/divide_weights.Rd |only mau-0.4.0/mau/man/eval_utilities.Rd |only mau-0.4.0/mau/man/index_weights.Rd |only mau-0.4.0/mau/man/make_decision_tree.Rd |only mau-0.4.0/mau/man/mau-package.Rd | 2 mau-0.4.0/mau/man/od_rating.Rd |only mau-0.4.0/mau/man/plot_sim_weight.Rd |only mau-0.4.0/mau/man/read_tree.Rd |only mau-0.4.0/mau/man/read_utilities.Rd |only mau-0.4.0/mau/man/sim_const_weights.Rd |only mau-0.4.0/mau/man/sim_weights.Rd |only mau-0.4.0/mau/man/spider_plot.Rd |only mau-0.4.0/mau/man/stand_string.Rd |only mau-0.4.0/mau/man/sum_weights.Rd |only mau-0.4.0/mau/vignettes/Running_MAUT.Rmd | 147 +-- mau-0.4.0/mau/vignettes/rankings.Rmd |only 71 files changed, 1630 insertions(+), 437 deletions(-)
Title: Enhancing Data Quality of Biogeographic Ranges with Application
for Marine Invertebrates
Description: Provides step-by-step automation for integrating biodiversity data from multiple online aggregators, merging and cleaning datasets while addressing challenges such as taxonomic inconsistencies, georeferencing issues, and spatial or environmental outliers. Includes functions to extract environmental data and to define the biogeographic ranges in which species are most likely to occur. For methodological details see the associated publication.<doi: 10.1002/ecog.08203>.
Author: Priyanka Soni [aut, cre] ,
Austin Hendy [ctb] ,
David Bottjer [ctb] ,
Vijay Barve [ctb]
Maintainer: Priyanka Soni <sonip@usc.edu>
Diff between EcoCleanR versions 1.0.2 dated 2026-02-11 and 1.0.3 dated 2026-02-13
DESCRIPTION | 20 +- MD5 | 34 ++-- NAMESPACE | 5 NEWS.md | 5 R/ec_rm_duplicate_occurid.R |only R/ec_worms_synonym.R | 74 ++++++-- README.md | 2 inst/CITATION | 2 inst/WORDLIST | 9 - inst/doc/data_cleaning.Rmd | 7 inst/doc/data_cleaning.html | 32 ++- inst/doc/data_merging.R | 2 inst/doc/data_merging.Rmd | 306 ++++++++++++++++++------------------ inst/doc/data_merging.html | 2 man/ec_rm_duplicate_occurid.Rd |only man/ec_worms_synonym.Rd | 16 + tests/testthat/test-data_cleaning.R | 32 +++ vignettes/data_cleaning.Rmd | 7 vignettes/data_merging.Rmd | 306 ++++++++++++++++++------------------ 19 files changed, 487 insertions(+), 374 deletions(-)
Title: Adaptive Dynamics and Community Matrix Model Projections
Description: Runs projections of groups of matrix projection models (MPMs),
allowing density dependence mechanisms to work across MPMs. This
package was developed to run both adaptive dynamics simulations
such as pairwise and multiple invasibility analyses, and community
projections in which species are represented by MPMs. All forms of
MPMs are allowed, including integral projection models (IPMs).
Author: Richard P. Shefferson [aut, cre]
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between adapt3 versions 2.0.0 dated 2026-02-09 and 2.0.7 dated 2026-02-13
DESCRIPTION | 10 MD5 | 44 ++- NEWS.md | 16 + R/RcppExports.R | 45 ++-- R/utilities.R | 2 inst/doc/invasion.Rmd | 268 +++++++++-------------- inst/doc/invasion.html | 380 +++++++++++++--------------------- inst/include/basic_funcs/main_utils.h | 6 inst/include/basic_funcs/mats_utils.h | 18 - man/batch_project3.Rd | 14 - man/invade3.Rd | 4 man/project3.Rd | 4 man/summary.adaptInv.Rd | 2 src/RcppExports.cpp | 26 +- src/projection.cpp | 281 ++++++++++++++++--------- tests |only vignettes/ch2-2.11-1.png |binary vignettes/ch2-2.13-1.png |binary vignettes/ch2-2.14-1.png |binary vignettes/ch2-2.18-1.png |binary vignettes/invasion.Rmd | 268 +++++++++-------------- vignettes/invasion.Rmd.orig | 19 - 22 files changed, 670 insertions(+), 737 deletions(-)
Title: Visual Regression Testing and Graphical Diffing
Description: An extension to the 'testthat' package that makes it easy to
add graphical unit tests. It provides a Shiny application to manage
the test cases.
Author: Lionel Henry [aut],
Thomas Lin Pedersen [cre, aut] ,
Posit Software, PBC [cph, fnd],
T Jake Luciani [aut] ,
Matthieu Decorde [aut] ,
Vaudor Lise [aut] ,
Tony Plate [ctb] ,
David Gohel [ctb] ,
Yixuan Qiu [ctb] ,
Hakon Malmedal [ctb]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between vdiffr versions 1.0.8 dated 2024-10-31 and 1.0.9 dated 2026-02-13
DESCRIPTION | 17 ++-- MD5 | 16 ++-- NEWS.md | 5 + R/expect-doppelganger.R | 8 +- README.md | 2 man/expect_doppelganger.Rd | 4 - src/Makevars | 2 src/Makevars.win | 2 tests/testthat/_snaps/expect-doppelganger/myplot.svg | 66 +++++++++---------- 9 files changed, 63 insertions(+), 59 deletions(-)
Title: Spatial Modeling of Infectious Disease with Reinfection
Description: Geographically Dependent Individual Level Models (GDILMs) within the Susceptible-Exposed-Infectious-Recovered-Susceptible (SEIRS) framework are applied to model infectious disease transmission, incorporating reinfection dynamics. This package employs a likelihood based Monte Carlo Expectation Conditional Maximization (MCECM) algorithm for estimating model parameters. It also provides tools for GDILM fitting, parameter estimation, AIC calculation on real pandemic data, and simulation studies customized to user-defined model settings.
Author: Amin Abed [aut, cre, cph] ,
Mahmoud Torabi [ths],
Zeinab Mashreghi [ths]
Maintainer: Amin Abed <abeda@myumanitoba.ca>
This is a re-admission after prior archival of version 0.0.5 dated 2025-11-02
Diff between GDILM.SEIRS versions 0.0.5 dated 2025-11-02 and 0.0.6 dated 2026-02-13
DESCRIPTION | 7 ++++--- MD5 | 5 +++-- R/GDILM_SEIRS_Sim_Par_Est.R | 4 ++-- inst |only 4 files changed, 9 insertions(+), 7 deletions(-)
Title: Optimal Histogram Binning Using Shimazaki-Shinomoto Method
Description: Implements the Shimazaki-Shinomoto method for optimizing the
bin width of a histogram. This method minimizes the mean integrated
squared error (MISE) and features a 'C++' backend for high performance
and shift-averaging to remove edge-position bias. Ideally suits for
time-dependent rate estimation and identifying intrinsic data structures.
Supports both 1D and 2D data distributions. For more details see
Shimazaki and Shinomoto (2007) "A Method for Selecting the Bin Size of a Time Histogram" <doi:10.1162/neco.2007.19.6.1503>.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between sshist versions 0.1.1 dated 2026-02-12 and 0.1.2 dated 2026-02-13
sshist-0.1.1/sshist/man/figures/README-example-1.png |only sshist-0.1.1/sshist/man/figures/README-example-1d-ggplot2-1.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-1.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-2.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-ggplot-2.png |only sshist-0.1.1/sshist/man/figures/README-example-2d-ggplot-3.png |only sshist-0.1.1/sshist/man/figures/README-example1-1.png |only sshist-0.1.1/sshist/man/figures/README-example2-1.png |only sshist-0.1.1/sshist/man/figures/README-example3-1.png |only sshist-0.1.1/sshist/man/figures/README-example4-1.png |only sshist-0.1.1/sshist/man/figures/README-example4-2.png |only sshist-0.1.1/sshist/man/figures/README-pressure-1.png |only sshist-0.1.2/sshist/DESCRIPTION | 20 ++--- sshist-0.1.2/sshist/MD5 | 34 +++------- sshist-0.1.2/sshist/NEWS.md | 24 +++++++ sshist-0.1.2/sshist/R/sshist.R | 17 +++++ sshist-0.1.2/sshist/inst/doc/introduction.R | 4 - sshist-0.1.2/sshist/inst/doc/introduction.Rmd | 4 - sshist-0.1.2/sshist/inst/doc/introduction.html | 4 - sshist-0.1.2/sshist/man/plot.sshist.Rd | 5 + sshist-0.1.2/sshist/man/plot.sshist_2d.Rd | 6 + sshist-0.1.2/sshist/man/print.sshist.Rd | 6 + sshist-0.1.2/sshist/man/print.sshist_2d.Rd | 6 + sshist-0.1.2/sshist/vignettes/introduction.Rmd | 4 - 24 files changed, 93 insertions(+), 41 deletions(-)
Title: Variable Selection in Partial Least Squares
Description: Interfaces and methods for variable selection in Partial Least
Squares. The methods include filter methods, wrapper methods and embedded
methods. Both regression and classification is supported.
Author: Kristian Hovde Liland [aut, cre] ,
Tahir Mehmood [ctb],
Solve Saeboe [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between plsVarSel versions 0.9.13 dated 2025-04-09 and 0.10.0 dated 2026-02-13
DESCRIPTION | 14 +++++++------- MD5 | 45 ++++++++++++++++++++++++--------------------- NAMESPACE | 2 ++ NEWS | 7 +++++++ R/BVE.R | 20 +++++++++++++------- R/GA.R | 2 +- R/IPW.R | 8 ++------ R/PVS_PVR.R |only R/REP.R | 16 ++++++++++------ R/SPA.R | 9 +++------ R/T2.R | 3 +-- R/UVE.R | 10 ++++------ R/WVC.R | 10 +++++----- R/covSel.R | 1 - R/filters.R | 22 ++++++++++------------ R/lda_from_pls.R | 12 ++++++------ R/mvrV.R | 16 ++++++++-------- R/shaving.R | 9 ++++----- R/stpls.R | 14 +++++++------- R/trunc.R | 7 ++++--- R/utilities.R | 36 ++++++++++++++++++------------------ README.md | 1 + man/PVR.Rd |only man/PVS.Rd |only man/bve_pls.Rd | 2 +- 25 files changed, 138 insertions(+), 128 deletions(-)
Title: Penalized Ordinal Regression
Description: Fits ordinal regression models with elastic net penalty.
Supported model families include cumulative probability, stopping ratio,
continuation ratio, and adjacent category. These families are a subset of
vector glm's which belong to a model class we call the elementwise link
multinomial-ordinal (ELMO) class. Each family in this class links a vector
of covariates to a vector of class probabilities. Each of these families
has a parallel form, which is appropriate for ordinal response data, as
well as a nonparallel form that is appropriate for an unordered categorical
response, or as a more flexible model for ordinal data. The parallel model
has a single set of coefficients, whereas the nonparallel model has a set of
coefficients for each response category except the baseline category. It is
also possible to fit a model with both parallel and nonparallel terms, which
we call the semi-parallel model. The semi-parallel model has the flexibility
of the nonparallel model, but the elastic net [...truncated...]
Author: Michael Wurm [aut, cre],
Paul Rathouz [aut],
Bret Hanlon [aut]
Maintainer: Michael Wurm <wurm@uwalumni.com>
Diff between ordinalNet versions 2.13 dated 2025-05-15 and 2.14 dated 2026-02-13
DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 16 ++++++++-------- R/ordinalNet.R | 12 +++++++----- R/ordinalNetCV.R | 18 +++++++++++------- R/ordinalNetTune.R | 18 +++++++++++------- man/ordinalNet.Rd | 12 +++++++----- man/ordinalNetCV.Rd | 16 ++++++++++------ man/ordinalNetTune.Rd | 16 ++++++++++------ 9 files changed, 69 insertions(+), 49 deletions(-)
Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely
compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models
and do basic R-style math, and compiling both models and nimbleFunctions via
custom-generated C++. 'NIMBLE' includes default methods for MCMC, Laplace
Approximation, deterministic nested approximations, Monte Carlo Expectation
Maximization, and some other tools.
The nimbleFunction system makes it easy to do things like implement new MCMC
samplers from R, customize the assignment of samplers to different parts of
a model from R, and compile the new samplers automatically via C++ alongside
the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language
by making it extensible: New distributions and functions can be added,
including as calls to external compiled code. Although most people think
of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models,
one can use 'NIMBLE' for writing arbitrary other kinds of model-generic
al [...truncated...]
Author: Perry de Valpine [aut],
Christopher Paciorek [aut, cre],
Daniel Turek [aut],
Nick Michaud [aut],
Cliff Anderson-Bergman [aut],
Fritz Obermeyer [aut],
Claudia Wehrhahn Cortes [aut] ,
Abel Rodriguez [aut] ,
Duncan Temple Lang [aut] ,
Wei Zhang [aut] ,
[...truncated...]
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between nimble versions 1.4.0 dated 2025-12-13 and 1.4.1 dated 2026-02-13
DESCRIPTION | 10 INSTALL | 6 LICENSE | 2 MD5 | 36 +- NAMESPACE | 1 R/BUGS_model.R | 40 ++ R/BUGS_modelDef.R | 4 R/MCMC_build.R | 52 ++- R/MCMC_configuration.R | 16 - R/MCMC_conjugacy.R | 63 ++-- R/MCMC_samplers.R | 149 +++++++++ R/initializeModel.R | 2 R/options.R | 2 inst/COPYRIGHTS | 4 inst/NEWS.md | 25 + man/initializeModel.Rd | 2 man/samplers.Rd | 17 + tests/testthat/test-mcem.R | 16 - tests/testthat/test-mcmc.R | 691 ++++++++++++++++++++++++++++++++++++--------- 19 files changed, 909 insertions(+), 229 deletions(-)
Title: Minimalist Async Evaluation Framework for R
Description: Evaluates R expressions asynchronously and in parallel,
locally or distributed across networks. An official parallel cluster
type for R. Built on 'nanonext' and 'NNG', its non-polling,
event-driven architecture scales from a laptop to thousands of
processes across high-performance computing clusters and cloud
platforms. Features FIFO scheduling with task cancellation, promises
for reactive programming, 'OpenTelemetry' distributed tracing, and
custom serialization for cross-language data types.
Author: Charlie Gao [aut, cre] ,
Joe Cheng [ctb],
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between mirai versions 2.5.3 dated 2025-12-01 and 2.6.0 dated 2026-02-13
mirai-2.5.3/mirai/inst/CITATION |only mirai-2.6.0/mirai/DESCRIPTION | 26 +- mirai-2.6.0/mirai/MD5 | 127 +++++----- mirai-2.6.0/mirai/NAMESPACE | 9 mirai-2.6.0/mirai/NEWS.md | 20 + mirai-2.6.0/mirai/R/daemon.R | 101 +++----- mirai-2.6.0/mirai/R/daemons.R | 191 +++++---------- mirai-2.6.0/mirai/R/dispatcher.R | 156 ------------ mirai-2.6.0/mirai/R/launchers.R | 270 ++++++++++++++-------- mirai-2.6.0/mirai/R/map.R | 53 +--- mirai-2.6.0/mirai/R/mirai-package.R | 32 +- mirai-2.6.0/mirai/R/mirai.R | 226 +++++++++--------- mirai-2.6.0/mirai/R/next.R | 16 - mirai-2.6.0/mirai/R/parallel.R | 32 -- mirai-2.6.0/mirai/R/promises.R | 31 -- mirai-2.6.0/mirai/README.md | 133 ++++++---- mirai-2.6.0/mirai/inst/doc/mirai.Rmd | 55 ++-- mirai-2.6.0/mirai/inst/doc/mirai.html | 57 ++-- mirai-2.6.0/mirai/inst/doc/v01-reference.Rmd | 221 ++++++++++-------- mirai-2.6.0/mirai/inst/doc/v01-reference.html | 203 +++++++++------- mirai-2.6.0/mirai/inst/doc/v02-promises.Rmd | 16 - mirai-2.6.0/mirai/inst/doc/v02-promises.html | 22 - mirai-2.6.0/mirai/inst/doc/v03-serialization.html | 6 mirai-2.6.0/mirai/inst/doc/v04-parallel.html | 6 mirai-2.6.0/mirai/inst/doc/v05-opentelemetry.html | 2 mirai-2.6.0/mirai/inst/doc/v06-packages.html | 6 mirai-2.6.0/mirai/inst/doc/v07-questions.Rmd | 18 + mirai-2.6.0/mirai/inst/doc/v07-questions.html | 18 + mirai-2.6.0/mirai/man/as.promise.mirai.Rd | 11 mirai-2.6.0/mirai/man/as.promise.mirai_map.Rd | 20 - mirai-2.6.0/mirai/man/call_mirai.Rd | 10 mirai-2.6.0/mirai/man/cluster_config.Rd | 27 -- mirai-2.6.0/mirai/man/collect_mirai.Rd | 22 - mirai-2.6.0/mirai/man/daemon.Rd | 92 +++---- mirai-2.6.0/mirai/man/daemons.Rd | 126 ++++------ mirai-2.6.0/mirai/man/daemons_set.Rd | 5 mirai-2.6.0/mirai/man/dispatcher.Rd | 28 -- mirai-2.6.0/mirai/man/everywhere.Rd | 63 ++--- mirai-2.6.0/mirai/man/figures/architecture.svg |only mirai-2.6.0/mirai/man/host_url.Rd | 13 - mirai-2.6.0/mirai/man/http_config.Rd |only mirai-2.6.0/mirai/man/info.Rd | 8 mirai-2.6.0/mirai/man/is_mirai.Rd | 2 mirai-2.6.0/mirai/man/is_mirai_error.Rd | 2 mirai-2.6.0/mirai/man/launch_local.Rd | 49 +-- mirai-2.6.0/mirai/man/make_cluster.Rd | 34 -- mirai-2.6.0/mirai/man/mirai-package.Rd | 19 - mirai-2.6.0/mirai/man/mirai.Rd | 52 +--- mirai-2.6.0/mirai/man/mirai_map.Rd | 60 ++-- mirai-2.6.0/mirai/man/nextstream.Rd | 23 - mirai-2.6.0/mirai/man/race_mirai.Rd | 53 +++- mirai-2.6.0/mirai/man/register_serial.Rd | 13 - mirai-2.6.0/mirai/man/remote_config.Rd | 36 +- mirai-2.6.0/mirai/man/require_daemons.Rd | 11 mirai-2.6.0/mirai/man/serial_config.Rd | 13 - mirai-2.6.0/mirai/man/ssh_config.Rd | 67 ++--- mirai-2.6.0/mirai/man/status.Rd | 15 - mirai-2.6.0/mirai/man/stop_mirai.Rd | 17 - mirai-2.6.0/mirai/man/unresolved.Rd | 4 mirai-2.6.0/mirai/man/with.miraiDaemons.Rd | 8 mirai-2.6.0/mirai/man/with_daemons.Rd | 14 - mirai-2.6.0/mirai/tests/tests.R | 92 ++++++- mirai-2.6.0/mirai/vignettes/mirai.Rmd | 55 ++-- mirai-2.6.0/mirai/vignettes/v01-reference.Rmd | 221 ++++++++++-------- mirai-2.6.0/mirai/vignettes/v02-promises.Rmd | 16 - mirai-2.6.0/mirai/vignettes/v07-questions.Rmd | 18 + 66 files changed, 1712 insertions(+), 1660 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Provides functions for classification and ranking of candidate
features, reconstruction of networks from adjacency matrices and data
frames, topological analysis, and calculation of centrality measures. The
package includes the SIRIR model, which combines leave-one-out
cross-validation with the conventional SIR model to rank vertex influence
in an unsupervised manner. Additional functions support assessment of
dependence and correlation between network centrality measures, as well as
estimation of conditional probabilities of deviation from their
corresponding means in opposite directions.
Author: Adrian Salavaty [aut, cre] ,
Mirana Ramialison [ths],
Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.2.9 dated 2023-12-09 and 2.3.0 dated 2026-02-13
DESCRIPTION | 50 +- MD5 | 32 - NEWS.md | 20 + R/functions.R | 460 +++++++++++++++++++---- README.md | 5 build/vignette.rds |binary inst/ShinyApps/ExIR/app.R | 2 inst/doc/Vignettes.R | 890 ++++++++++++++++++++++----------------------- inst/doc/Vignettes.html | 11 man/cent_network.vis.Rd | 3 man/comp_manipulate.Rd | 2 man/cond.prob.analysis.Rd | 4 man/exir.Rd | 3 man/fcor.Rd | 7 man/hubness.score.Rd | 2 man/influential-package.Rd | 2 man/spreading.score.Rd | 4 17 files changed, 921 insertions(+), 576 deletions(-)
Title: Representation for Glycan Compositions and Structures
Description: Computational representations of glycan compositions and structures,
including details such as linkages, anomers, and substituents. Supports varying
levels of monosaccharide specificity (e.g., "Hex" or "Gal") and ambiguous linkages.
Provides robust parsing and generation of IUPAC-condensed structure strings.
Optimized for vectorized operations on glycan structures, with efficient handling
of duplications. As the cornerstone of the glycoverse ecosystem, this package
delivers the foundational data structures that power glycomics and glycoproteomics
analysis workflows.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glyrepr versions 0.10.0 dated 2026-01-24 and 0.10.1 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ R/color-utils.R | 4 ++-- R/composition.R | 2 +- inst/doc/glycan-graph.html | 6 +++--- inst/doc/glyrepr.html | 37 +++++++++++++++++++------------------ inst/doc/smap.html | 8 ++++---- tests/testthat/test-composition.R | 19 ------------------- 9 files changed, 46 insertions(+), 58 deletions(-)
Title: Functions for Tabular Reporting
Description: Use a grammar for creating and customizing pretty tables.
The following formats are supported: 'HTML', 'PDF', 'RTF', 'Microsoft
Word', 'Microsoft PowerPoint', R 'Grid Graphics' and 'patchwork'.
'R Markdown', 'Quarto' and the package 'officer' can be used to
produce the result files. The syntax is the same for the user
regardless of the type of output to be produced. A set of functions
allows the creation, definition of cell arrangement, addition of
headers or footers, formatting and definition of cell content with
text and or images. The package also offers a set of high-level
functions that allow tabular reporting of statistical models and the
creation of complex cross tabulations.
Author: David Gohel [aut, cre],
ArData [cph],
Clementine Jager [ctb],
Eli Daniels [ctb],
Panagiotis Skintzos [aut],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb],
Titouan Robert [ctb],
Michael Barrowman [ctb],
Atsushi Yasumoto [ctb],
Paul Julian [ctb],
Sean B [...truncated...]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.9.10 dated 2025-08-24 and 0.9.11 dated 2026-02-13
flextable-0.9.10/flextable/inst/snapshots_for_manual_tests |only flextable-0.9.10/flextable/man/figures/README-mtcars-dataset-2.png |only flextable-0.9.10/flextable/man/figures/fig_formats.png |only flextable-0.9.10/flextable/tests/testthat/test-borders.R |only flextable-0.9.11/flextable/DESCRIPTION | 38 flextable-0.9.11/flextable/MD5 | 469 ++++--- flextable-0.9.11/flextable/NAMESPACE | 12 flextable-0.9.11/flextable/NEWS.md | 80 + flextable-0.9.11/flextable/R/00_utils.R | 7 flextable-0.9.11/flextable/R/01_fpstruct.R | 19 flextable-0.9.11/flextable/R/05_content.R | 281 ++++ flextable-0.9.11/flextable/R/append_chunk.R | 10 flextable-0.9.11/flextable/R/as_flextable.R | 20 flextable-0.9.11/flextable/R/as_flextable_tabulator.R | 39 flextable-0.9.11/flextable/R/augment_rows.R | 110 - flextable-0.9.11/flextable/R/body_add_flextable.R | 2 flextable-0.9.11/flextable/R/border_fix.R | 5 flextable-0.9.11/flextable/R/borders.R | 464 +++++-- flextable-0.9.11/flextable/R/captions.R | 2 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|only flextable-0.9.11/flextable/R/pptx_str.R | 9 flextable-0.9.11/flextable/R/printers.R | 268 ++-- flextable-0.9.11/flextable/R/read_structure.R | 17 flextable-0.9.11/flextable/R/rtf_str.R | 6 flextable-0.9.11/flextable/R/runs_as_functions.R | 28 flextable-0.9.11/flextable/R/styles.R | 589 ++++++---- flextable-0.9.11/flextable/R/summarizor.R | 68 - flextable-0.9.11/flextable/R/table-properties.R | 9 flextable-0.9.11/flextable/R/themes.R | 42 flextable-0.9.11/flextable/R/zzz.R |only flextable-0.9.11/flextable/README.md | 64 - flextable-0.9.11/flextable/build/vignette.rds |binary flextable-0.9.11/flextable/inst/_extensions |only flextable-0.9.11/flextable/man/add_body.Rd | 16 flextable-0.9.11/flextable/man/add_body_row.Rd | 11 flextable-0.9.11/flextable/man/add_footer.Rd | 15 flextable-0.9.11/flextable/man/add_footer_lines.Rd | 15 flextable-0.9.11/flextable/man/add_footer_row.Rd | 11 flextable-0.9.11/flextable/man/add_header.Rd | 15 flextable-0.9.11/flextable/man/add_header_lines.Rd | 31 flextable-0.9.11/flextable/man/add_header_row.Rd | 11 flextable-0.9.11/flextable/man/add_latex_dep.Rd | 3 flextable-0.9.11/flextable/man/align.Rd | 21 flextable-0.9.11/flextable/man/append_chunks.Rd | 13 flextable-0.9.11/flextable/man/args_selectors_with_all.Rd |only flextable-0.9.11/flextable/man/args_selectors_without_all.Rd |only flextable-0.9.11/flextable/man/args_x_i_j.Rd |only flextable-0.9.11/flextable/man/args_x_i_part.Rd |only flextable-0.9.11/flextable/man/args_x_i_part_no_all.Rd |only flextable-0.9.11/flextable/man/args_x_j.Rd |only flextable-0.9.11/flextable/man/args_x_j_part.Rd |only flextable-0.9.11/flextable/man/args_x_j_part_no_all.Rd |only flextable-0.9.11/flextable/man/args_x_only.Rd |only flextable-0.9.11/flextable/man/args_x_part.Rd |only flextable-0.9.11/flextable/man/args_x_part_no_all.Rd |only flextable-0.9.11/flextable/man/as_b.Rd | 2 flextable-0.9.11/flextable/man/as_bracket.Rd | 4 flextable-0.9.11/flextable/man/as_chunk.Rd | 4 flextable-0.9.11/flextable/man/as_equation.Rd | 2 flextable-0.9.11/flextable/man/as_flextable.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.compact_summary.Rd |only flextable-0.9.11/flextable/man/as_flextable.data.frame.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.gam.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.glm.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.grouped_data.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.htest.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.kmeans.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.lm.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.merMod.Rd | 6 flextable-0.9.11/flextable/man/as_flextable.pam.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.summarizor.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.table.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.tabular.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.tabulator.Rd | 4 flextable-0.9.11/flextable/man/as_flextable.xtable.Rd | 4 flextable-0.9.11/flextable/man/as_grouped_data.Rd | 2 flextable-0.9.11/flextable/man/as_highlight.Rd | 2 flextable-0.9.11/flextable/man/as_i.Rd | 2 flextable-0.9.11/flextable/man/as_image.Rd | 4 flextable-0.9.11/flextable/man/as_paragraph.Rd | 32 flextable-0.9.11/flextable/man/as_qmd.Rd |only flextable-0.9.11/flextable/man/as_strike.Rd |only flextable-0.9.11/flextable/man/as_sub.Rd | 2 flextable-0.9.11/flextable/man/as_sup.Rd | 2 flextable-0.9.11/flextable/man/as_word_field.Rd | 37 flextable-0.9.11/flextable/man/autofit.Rd | 9 flextable-0.9.11/flextable/man/before.Rd | 8 flextable-0.9.11/flextable/man/bg.Rd | 30 flextable-0.9.11/flextable/man/body_replace_flextable_at_bkm.Rd | 2 flextable-0.9.11/flextable/man/bold.Rd | 16 flextable-0.9.11/flextable/man/border.Rd | 17 flextable-0.9.11/flextable/man/border_inner.Rd | 9 flextable-0.9.11/flextable/man/border_inner_h.Rd | 9 flextable-0.9.11/flextable/man/border_inner_v.Rd | 9 flextable-0.9.11/flextable/man/border_outer.Rd | 7 flextable-0.9.11/flextable/man/border_remove.Rd | 3 flextable-0.9.11/flextable/man/chunk_dataframe.Rd | 2 flextable-0.9.11/flextable/man/colformat_char.Rd | 9 flextable-0.9.11/flextable/man/colformat_date.Rd | 9 flextable-0.9.11/flextable/man/colformat_datetime.Rd | 9 flextable-0.9.11/flextable/man/colformat_double.Rd | 15 flextable-0.9.11/flextable/man/colformat_image.Rd | 9 flextable-0.9.11/flextable/man/colformat_int.Rd | 9 flextable-0.9.11/flextable/man/colformat_lgl.Rd | 9 flextable-0.9.11/flextable/man/colformat_num.Rd | 14 flextable-0.9.11/flextable/man/color.Rd | 30 flextable-0.9.11/flextable/man/colorize.Rd | 2 flextable-0.9.11/flextable/man/compact_summary.Rd |only flextable-0.9.11/flextable/man/compose.Rd | 15 flextable-0.9.11/flextable/man/continuous_summary.Rd | 2 flextable-0.9.11/flextable/man/delete_columns.Rd | 8 flextable-0.9.11/flextable/man/delete_part.Rd | 9 flextable-0.9.11/flextable/man/delete_rows.Rd | 26 flextable-0.9.11/flextable/man/df_printer.Rd | 3 flextable-0.9.11/flextable/man/dim.flextable.Rd | 5 flextable-0.9.11/flextable/man/dim_pretty.Rd | 9 flextable-0.9.11/flextable/man/empty_blanks.Rd | 16 flextable-0.9.11/flextable/man/figures/README-diamonds-dataset-1.png |binary flextable-0.9.11/flextable/man/figures/README-mtcars-dataset-1.png |binary flextable-0.9.11/flextable/man/figures/README-simple-example-1.png |only flextable-0.9.11/flextable/man/fit_to_width.Rd | 3 flextable-0.9.11/flextable/man/fix_border_issues.Rd | 9 flextable-0.9.11/flextable/man/flextable-package.Rd | 53 flextable-0.9.11/flextable/man/flextable.Rd | 2 flextable-0.9.11/flextable/man/flextable_dim.Rd | 5 flextable-0.9.11/flextable/man/flextable_selectors.Rd |only flextable-0.9.11/flextable/man/flextable_to_rmd.Rd | 8 flextable-0.9.11/flextable/man/fmt_2stats.Rd | 11 flextable-0.9.11/flextable/man/fmt_avg_dev.Rd | 5 flextable-0.9.11/flextable/man/fmt_dbl.Rd | 5 flextable-0.9.11/flextable/man/fmt_header_n.Rd | 6 flextable-0.9.11/flextable/man/fmt_int.Rd | 4 flextable-0.9.11/flextable/man/fmt_n_percent.Rd | 7 flextable-0.9.11/flextable/man/fmt_pct.Rd | 4 flextable-0.9.11/flextable/man/font.Rd | 40 flextable-0.9.11/flextable/man/fontsize.Rd | 16 flextable-0.9.11/flextable/man/footnote.Rd | 21 flextable-0.9.11/flextable/man/fp_border_default.Rd | 10 flextable-0.9.11/flextable/man/fp_text_default.Rd | 28 flextable-0.9.11/flextable/man/gen_grob.Rd | 92 - flextable-0.9.11/flextable/man/get_flextable_defaults.Rd | 1 flextable-0.9.11/flextable/man/gg_chunk.Rd | 4 flextable-0.9.11/flextable/man/grid_chunk.Rd | 4 flextable-0.9.11/flextable/man/height.Rd | 10 flextable-0.9.11/flextable/man/highlight.Rd | 32 flextable-0.9.11/flextable/man/hline.Rd | 36 flextable-0.9.11/flextable/man/hline_bottom.Rd | 26 flextable-0.9.11/flextable/man/hline_top.Rd | 30 flextable-0.9.11/flextable/man/hrule.Rd | 26 flextable-0.9.11/flextable/man/htmltools_value.Rd | 8 flextable-0.9.11/flextable/man/hyperlink_text.Rd | 4 flextable-0.9.11/flextable/man/information_data_cell.Rd | 5 flextable-0.9.11/flextable/man/information_data_chunk.Rd | 5 flextable-0.9.11/flextable/man/information_data_paragraph.Rd | 5 flextable-0.9.11/flextable/man/italic.Rd | 16 flextable-0.9.11/flextable/man/keep_with_next.Rd | 21 flextable-0.9.11/flextable/man/knit_print.flextable.Rd | 234 +-- flextable-0.9.11/flextable/man/labelizor.Rd | 29 flextable-0.9.11/flextable/man/line_spacing.Rd | 20 flextable-0.9.11/flextable/man/linerange.Rd | 4 flextable-0.9.11/flextable/man/merge_at.Rd | 13 flextable-0.9.11/flextable/man/merge_h.Rd | 10 flextable-0.9.11/flextable/man/merge_h_range.Rd | 10 flextable-0.9.11/flextable/man/merge_none.Rd | 11 flextable-0.9.11/flextable/man/merge_v.Rd | 11 flextable-0.9.11/flextable/man/minibar.Rd | 4 flextable-0.9.11/flextable/man/ncol_keys.Rd | 3 flextable-0.9.11/flextable/man/nrow_part.Rd | 7 flextable-0.9.11/flextable/man/padding.Rd | 16 flextable-0.9.11/flextable/man/paginate.Rd | 8 flextable-0.9.11/flextable/man/plot.flextable.Rd | 20 flextable-0.9.11/flextable/man/plot_chunk.Rd | 4 flextable-0.9.11/flextable/man/prepend_chunks.Rd | 13 flextable-0.9.11/flextable/man/print.flextable.Rd | 8 flextable-0.9.11/flextable/man/rotate.Rd | 54 flextable-0.9.11/flextable/man/save_as_docx.Rd | 3 flextable-0.9.11/flextable/man/save_as_html.Rd | 3 flextable-0.9.11/flextable/man/save_as_image.Rd | 6 flextable-0.9.11/flextable/man/save_as_pptx.Rd | 3 flextable-0.9.11/flextable/man/save_as_rtf.Rd | 3 flextable-0.9.11/flextable/man/separate_header.Rd | 5 flextable-0.9.11/flextable/man/set_caption.Rd | 7 flextable-0.9.11/flextable/man/set_flextable_defaults.Rd | 1 flextable-0.9.11/flextable/man/set_formatter.Rd | 8 flextable-0.9.11/flextable/man/set_header_footer_df.Rd | 11 flextable-0.9.11/flextable/man/set_header_labels.Rd | 12 flextable-0.9.11/flextable/man/set_table_properties.Rd | 8 flextable-0.9.11/flextable/man/style.Rd | 67 - flextable-0.9.11/flextable/man/summarizor.Rd | 2 flextable-0.9.11/flextable/man/surround.Rd | 18 flextable-0.9.11/flextable/man/tab_settings.Rd | 20 flextable-0.9.11/flextable/man/tabulator.Rd | 2 flextable-0.9.11/flextable/man/theme_alafoli.Rd | 4 flextable-0.9.11/flextable/man/theme_apa.Rd | 4 flextable-0.9.11/flextable/man/theme_booktabs.Rd | 4 flextable-0.9.11/flextable/man/theme_borderless.Rd |only flextable-0.9.11/flextable/man/theme_box.Rd | 4 flextable-0.9.11/flextable/man/theme_tron.Rd | 4 flextable-0.9.11/flextable/man/theme_tron_legacy.Rd | 4 flextable-0.9.11/flextable/man/theme_vader.Rd | 4 flextable-0.9.11/flextable/man/theme_vanilla.Rd | 4 flextable-0.9.11/flextable/man/theme_zebra.Rd | 4 flextable-0.9.11/flextable/man/to_html.flextable.Rd | 6 flextable-0.9.11/flextable/man/use_flextable_qmd.Rd |only flextable-0.9.11/flextable/man/use_model_printer.Rd | 2 flextable-0.9.11/flextable/man/valign.Rd | 16 flextable-0.9.11/flextable/man/vline.Rd | 35 flextable-0.9.11/flextable/man/vline_left.Rd | 31 flextable-0.9.11/flextable/man/vline_right.Rd | 31 flextable-0.9.11/flextable/man/void.Rd | 27 flextable-0.9.11/flextable/man/width.Rd | 6 flextable-0.9.11/flextable/man/wrap_flextable.Rd |only flextable-0.9.11/flextable/tests/testthat/setup.R | 78 - flextable-0.9.11/flextable/tests/testthat/test-as_flextable.R | 273 ++++ flextable-0.9.11/flextable/tests/testthat/test-cell_content.R | 86 + flextable-0.9.11/flextable/tests/testthat/test-clintables.R |only flextable-0.9.11/flextable/tests/testthat/test-footnote.R | 111 + flextable-0.9.11/flextable/tests/testthat/test-images.R | 299 +++++ flextable-0.9.11/flextable/tests/testthat/test-keep_next.R | 155 ++ flextable-0.9.11/flextable/tests/testthat/test-latex.R | 314 +++++ flextable-0.9.11/flextable/tests/testthat/test-patchwork.R |only flextable-0.9.11/flextable/tests/testthat/test-quarto.R |only flextable-0.9.11/flextable/tests/testthat/test-rtf.R |only flextable-0.9.11/flextable/tests/testthat/test-tab_settings.R | 166 ++ flextable-0.9.11/flextable/tests/testthat/test-text.R | 50 flextable-0.9.11/flextable/tests/testthat/test-themes.R |only 246 files changed, 4788 insertions(+), 2094 deletions(-)
Title: Patterned Fills for 'ggplot2' and 'grid' Graphics
Description: Provides geometric patterns to replace solid color fills in
statistical graphics. These patterns ensure figures remain distinguishable
when viewed by colorblind readers or when printed in black and white. The
included patterns can be customized in terms of scale, rotation, color,
fill, line type, and line width. Compatible with the 'ggplot2' package as
well as 'grid' graphics.
Author: Daniel P. Smith [aut, cre] ,
Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>
Diff between fillpattern versions 1.0.2 dated 2024-06-24 and 1.0.3 dated 2026-02-13
DESCRIPTION | 38 + LICENSE | 4 MD5 | 17 NEWS.md | 23 + R/fill_pattern.r | 2 R/makeContent.r | 661 +++++++++++++++++----------------- R/scale_fill_pattern.r | 6 README.md | 50 +- man/figures/logo.png |only tests/testthat/test-coverage.r |only tests/testthat/test-scale-internals.r |only 11 files changed, 425 insertions(+), 376 deletions(-)
Title: Dunn's Test of Multiple Comparisons Using Rank Sums
Description: Computes Dunn's test (1964) for stochastic dominance and reports the results among multiple pairwise comparisons after a Kruskal-Wallis test for 0th-order stochastic dominance among k groups (Kruskal and Wallis, 1952). 'dunn.test' makes k(k-1)/2 multiple pairwise comparisons based on Dunn's z-test-statistic approximations to the actual rank statistics. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. Like the rank-sum test, if the data can be assumed to be continuous, and the distributions are assumed identical except for a difference in location, Dunn's test may be understood as a test for median difference and for mean difference. 'dunn.test' accounts for tied ranks.
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between dunn.test versions 1.3.6 dated 2024-04-12 and 1.3.7 dated 2026-02-13
DESCRIPTION | 15 ++-- MD5 | 12 ++- NAMESPACE | 5 - R/dunn.test.R | 189 ++++++++++++++++++++++++++++-------------------------- R/pad.left.R |only R/pad.spaces.R |only build/partial.rdb |binary man/dunn.test.Rd | 9 ++ 8 files changed, 127 insertions(+), 103 deletions(-)
Title: Estimation and Simulation of Multi-Binary Response Models
Description: Multi-binary response models are a class of models that allow for the estimation of multiple binary outcomes simultaneously. This package provides functions to estimate and simulate these models using the Discrete Exponential-Family Models [DEFM] framework. In it, we implement the models described in Vega Yon, Valente, and Pugh (2023) <doi:10.48550/arXiv.2211.00627>. DEFMs include Exponential-Family Random Graph Models [ERGMs], which characterize graphs using sufficient statistics, which is also the core of DEFMs. Using sufficient statistics, we can describe the data through meaningful motifs, for example, transitions between different states, joint distribution of the outcomes, etc.
Author: George Vega Yon [aut, cre] ,
Department of Veterans Affairs - Rehabilitation, Research, and
Development Service [fnd] ,
U.S. Army Medical Research Acquisition Activity [fnd]
Maintainer: George Vega Yon <g.vegayon@gmail.com>
This is a re-admission after prior archival of version 0.1-1 dated 2023-09-07
Diff between defm versions 0.1-1 dated 2023-09-07 and 0.2.1.0 dated 2026-02-13
defm-0.1-1/defm/inst/NEWS |only defm-0.1-1/defm/inst/include |only defm-0.2.1.0/defm/DESCRIPTION | 30 + defm-0.2.1.0/defm/LICENSE | 2 defm-0.2.1.0/defm/MD5 | 120 ++----- defm-0.2.1.0/defm/NAMESPACE | 23 + defm-0.2.1.0/defm/NEWS.md | 7 defm-0.2.1.0/defm/R/RcppExports.R | 204 ++++++++++--- defm-0.2.1.0/defm/R/counters.R |only defm-0.2.1.0/defm/R/defm-package.R | 25 + defm-0.2.1.0/defm/R/defm_mle.R | 147 +++++++++ defm-0.2.1.0/defm/R/motif_census.R | 76 +++- defm-0.2.1.0/defm/README.md | 291 ++++++++++++------- defm-0.2.1.0/defm/inst/tinytest |only defm-0.2.1.0/defm/man/DEFM.Rd | 51 ++- defm-0.2.1.0/defm/man/defm_mle.Rd | 26 + defm-0.2.1.0/defm/man/defm_terms.Rd | 86 +++-- defm-0.2.1.0/defm/man/figures/README-chain1fig-1.png |binary defm-0.2.1.0/defm/man/figures/README-chain2fig-1.png |binary defm-0.2.1.0/defm/man/figures/README-logodds-1.png |binary defm-0.2.1.0/defm/man/get_counters.Rd |only defm-0.2.1.0/defm/man/get_stats.Rd | 4 defm-0.2.1.0/defm/man/loglike_defm.Rd | 4 defm-0.2.1.0/defm/man/motif_census.Rd | 12 defm-0.2.1.0/defm/src/Makevars.in | 4 defm-0.2.1.0/defm/src/Makevars.win | 5 defm-0.2.1.0/defm/src/RcppExports.cpp | 173 ++++++++--- defm-0.2.1.0/defm/src/counters.cpp |only defm-0.2.1.0/defm/src/defm-object.cpp | 66 +++- defm-0.2.1.0/defm/src/terms.cpp | 169 ++++++----- defm-0.2.1.0/defm/tests |only 31 files changed, 1064 insertions(+), 461 deletions(-)
Title: A 'dplyr' Back End for Databases
Description: A 'dplyr' back end for databases that allows you to work with
remote database tables as if they are in-memory data frames. Basic
features works with any database that has a 'DBI' back end; more
advanced features require 'SQL' translation to be provided by the
package author.
Author: Hadley Wickham [aut, cre],
Maximilian Girlich [aut],
Edgar Ruiz [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between dbplyr versions 2.5.1 dated 2025-09-10 and 2.5.2 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 32 ++++++++++++++++---------------- NEWS.md | 4 ++++ R/data-nycflights13.R | 2 +- build/stage23.rdb |binary build/vignette.rds |binary inst/doc/dbplyr.html | 10 +++++----- inst/doc/new-backend.html | 2 +- inst/doc/reprex.html | 6 +++--- inst/doc/sql.html | 16 ++++++++-------- inst/doc/translation-function.html | 6 +++--- man/dbplyr-slice.Rd | 4 +--- man/filter.tbl_lazy.Rd | 4 +--- man/group_by.tbl_lazy.Rd | 6 +----- man/mutate.tbl_lazy.Rd | 4 +--- man/nycflights13.Rd | 2 +- man/summarise.tbl_lazy.Rd | 4 +--- 17 files changed, 50 insertions(+), 58 deletions(-)
Title: Access and Analysis of Brazilian CNEFE Address Data
Description: Download, cache and read municipality-level address data from the
Cadastro Nacional de Enderecos para Fins Estatisticos (CNEFE) of the 2022
Brazilian Census, published by the Instituto Brasileiro de Geografia e
Estatistica (IBGE)
<https://ftp.ibge.gov.br/Cadastro_Nacional_de_Enderecos_para_Fins_Estatisticos/>.
Beyond data access, provides spatial aggregation of addresses, computation
of land-use mix indices, and dasymetric interpolation of census tract
variables using CNEFE dwelling points as ancillary data. Results can be
produced on 'H3' hexagonal grids or user-supplied polygons, and heavy
operations leverage a 'DuckDB' backend with extensions for fast,
in-process execution.
Author: Jorge Ubirajara Pedreira Junior [aut, cre, cph] ,
Bruno Mioto [aut],
Kaio Cunha Pedreira [ctb]
Maintainer: Jorge Ubirajara Pedreira Junior <jorge.ubirajara@ufba.br>
Diff between cnefetools versions 0.2.0 dated 2026-02-11 and 0.2.1 dated 2026-02-13
DESCRIPTION | 6 +++--- MD5 | 4 ++-- tests/testthat/test-test-tracts_to_h3.R | 1 + 3 files changed, 6 insertions(+), 5 deletions(-)
Title: Integrated Development Toolbox for Aquatic Chemical Model
Generation
Description: Toolbox for the experimental aquatic chemist, focused on
acidification and CO2 air-water exchange. It contains all elements to
model the pH, the related CO2 air-water exchange, and
aquatic acid-base chemistry for an arbitrary marine,
estuarine or freshwater system. It contains a suite of tools for
sensitivity analysis, visualisation, modelling of chemical batches,
and can be used to build dynamic models of aquatic systems.
As from version 1.0-4, it also contains functions to calculate
the buffer factors.
Author: Andreas F. Hofmann [aut],
Karline Soetaert [aut, cre],
Filip J.R. Meysman [aut],
Mathilde Hagens [aut]
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between AquaEnv versions 1.0-4 dated 2016-09-06 and 1.0-5 dated 2026-02-13
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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:
2025-07-23 1.4.5
2025-01-22 1.4.0
2025-01-09 1.3.5
2024-12-17 1.3.0
2024-08-31 1.1.1
2023-11-27 1.0.8
2023-09-01 1.0.7
2021-04-18 1.0.6
2021-03-02 1.0.5
2020-09-01 1.0.4
2020-07-17 1.0.3
2020-05-07 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
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2024-09-03 0.1.4
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2024-02-08 0.1.1
2023-11-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-12 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-20 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-04 1.6.2
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2024-02-18 1.6.0
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2022-11-10 1.5.0
2022-10-26 1.4.3
2022-08-15 1.4.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
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2021-04-21 0.1.2
2021-02-23 0.1.1
2021-02-17 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-14 0.17
2023-12-12 0.16
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2018-03-31 0.14
2016-08-15 0.13
2015-11-13 0.12
2014-12-09 0.11
2014-08-08 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-06 1.1
2018-12-03 1.0