Title: A Universal Approach for Causal Mediation Analysis
Description: This program realizes a universal estimation approach that accommodates
multi-category variables and effect scales, making up for the deficiencies
of the existing approaches when dealing with non-binary exposures and
complex models. The estimation via bootstrapping can simultaneously provide results of
causal mediation on risk difference (RD), odds ratio (OR) and risk ratio (RR) scales with tests of the effects' difference.
The estimation is also applicable to many other settings, e.g., moderated mediation, inconsistent covariates,
panel data, etc. The high flexibility and compatibility
make it possible to apply for any type of model, greatly meeting the needs of
current empirical researches.
Author: Tianbao Zhou [aut, cre],
Xinghao Li [aut],
Lin Liu* [aut]
Maintainer: Tianbao Zhou <michaelzhou@buaa.edu.cn>
Diff between unvs.med versions 1.0.0 dated 2025-06-04 and 1.1.0 dated 2026-01-27
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- NEWS.md | 10 +++++++++- R/BootEstimation_MT.R | 13 ++++++++----- R/BootEstimation_for.R | 9 ++++++--- R/FormalEstmed.R | 37 ++++++++++++++++++++++++++++++++++--- R/SingleEstimation.R | 22 +++++++++++++++------- R/Statistics.R | 12 +++++++----- R/potentialoutcome_numX.R | 19 ++++++++++++++++--- man/BootEstimation_MT.Rd | 8 ++++++-- man/BootEstimation_for.Rd | 8 ++++++-- man/FormalEstmed.Rd | 22 +++++++++++++++++++++- man/SingleEstimation.Rd | 7 ++++++- man/Statistics.Rd | 6 +++++- man/potentialoutcome_numX.Rd | 6 +++++- 15 files changed, 162 insertions(+), 53 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] ,
yoonkyoung Chun [aut],
Zarathu [cph, fnd],
sungho Choi [aut],
Mingu Jee [aut],
Wonbin Hahn [aut],
Taehong Kim [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.5.22 dated 2025-11-28 and 0.6.0 dated 2026-01-27
DESCRIPTION | 18 ++-- MD5 | 15 +-- NEWS.md | 12 ++ R/jskm.R | 166 ++++++++++++++++++++++++------------- R/svyjskm.R | 187 ++++++++++++++++++++++++++---------------- inst/doc/jskm.html | 44 +++++---- man/jskm.Rd | 18 ++-- man/svyjskm.Rd | 22 ++-- tests/testthat/test_taehong.R |only 9 files changed, 306 insertions(+), 176 deletions(-)
Title: A Method to Search for Differentially Expressed Genes and to
Detect Recurrent Chromosomal Copy Number Aberrations
Description: A fold change rank based method is presented to search for genes with
changing expression and to detect recurrent chromosomal copy number
aberrations. This method may be useful for high-throughput biological
data (micro-array, sequencing, ...).
Probabilities are associated with genes or probes in the data set and
there is no problem of multiple tests when using this method. For
array-based comparative genomic hybridization data, segmentation
results are obtained by merging the significant probes detected.
Author: Doulaye Dembele [aut, cre]
Maintainer: Doulaye Dembele <doulaye@igbmc.fr>
Diff between fcros versions 1.6.1 dated 2019-05-31 and 1.6-6 dated 2026-01-27
DESCRIPTION | 31 ++++++++------- MD5 | 104 +++++++++++++++++++++++++-------------------------- R/calcSRmat.R | 3 - R/calcSRmatMod.R | 9 +--- R/chrMerge.R | 24 +++++------ R/chrPlot.R | 10 ++-- R/chrPlot2.R | 14 +++--- R/chrSegment.R | 2 R/dataSummary.R | 4 - R/fc2Calc.R | 10 ++-- R/fcros2.R | 2 R/fcrosC.R |only R/fcrosFCmat.R | 5 -- R/fcrosMod.R | 7 +-- R/fcrosRead.R | 5 -- R/fcrosTopN.R | 7 +-- R/fcrosTtest.R | 5 -- R/fcrosWrite.R | 5 -- R/fvalTopN.R | 5 -- R/fvalVolcanoPlot.R | 6 +- R/histoPlot.R | 4 - R/moyStdCalc.R | 6 +- R/pvalTopN.R | 3 - R/pvalVolcanoPlot.R | 2 R/rmatCalc.R | 8 +-- R/rmatTrim.R | 10 ++-- R/tprobaCalc.R | 8 +-- R/voomReads.R | 1 man/chrMerge.rd | 4 - man/chrPlot.rd | 4 - man/chrPlot2.rd | 10 ++-- man/chrSegment.rd | 4 - man/dataSummary.rd | 4 - man/fc2Calc.rd | 4 - man/fcros-package.Rd | 6 +- man/fcros.Rd | 9 ++-- man/fcros2.Rd | 5 +- man/fcrosC.Rd |only man/fcrosFCmat.Rd | 5 +- man/fcrosMod.Rd | 6 +- man/fcrosRead.Rd | 14 +++--- man/fcrosWrite.Rd | 5 +- man/fdata.Rd | 4 - man/moyStdCalc.rd | 6 +- man/pfco.rd | 8 +-- man/pfcoMod.rd | 18 ++++---- man/rankReads.Rd | 3 - man/rmatTrim.rd | 4 - man/scoreThr.Rd | 3 - man/tcnReads.Rd | 5 +- man/tprobaCalc.rd | 4 - man/varBeta.Rd | 3 - src/fcros.c | 35 ++++++++++++++++- src/init.c | 1 54 files changed, 260 insertions(+), 214 deletions(-)
Title: Create Tables from Different Types of Regression
Description: Create regression tables from generalized linear model(GLM), generalized estimating equation(GEE), generalized linear mixed-effects model(GLMM), Cox proportional hazards model, survey-weighted generalized linear model(svyglm) and survey-weighted Cox model results for publication.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Yoonkyoung Jeon [aut],
Jaehun Shon [aut],
Hyojong Myung [aut],
Hyungwoo Jo [aut],
Sungho Choi [aut],
Jaewoong Heo [aut],
Mingu Jee [aut],
Yujeong Yoon [aut],
Minhyuk Kim [aut],
Wonbin Hahn [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jstable versions 1.3.19 dated 2025-10-24 and 1.3.23 dated 2026-01-27
DESCRIPTION | 14 - MD5 | 26 +- NEWS.md | 18 + R/CreateTableOneJS.R | 6 R/forestcox.R | 275 ++++++++++++++++++++------ R/svycox.R | 4 R/svyglm.R | 8 R/utils.R | 44 ++-- inst/doc/jstable.html | 30 +- inst/doc/jstable_competing_risk_analysis.html | 4 inst/doc/jstable_options.html | 4 man/TableSubgroupCox.Rd | 8 man/TableSubgroupMultiCox.Rd | 8 man/count_event_by.Rd | 10 14 files changed, 337 insertions(+), 122 deletions(-)
Title: Tools to Quickly and Neatly Summarize Data
Description: Data frame summaries, cross-tabulations,
weight-enabled frequency tables and common descriptive
(univariate) statistics in concise tables available in a
variety of formats (plain ASCII, Markdown and HTML). A good
point-of-entry for exploring data, both for experienced
and new R users.
Author: Dominic Comtois [aut, cre]
Maintainer: Dominic Comtois <dominic.comtois@gmail.com>
Diff between summarytools versions 1.1.4 dated 2025-04-29 and 1.1.5 dated 2026-01-27
DESCRIPTION | 10 +- MD5 | 30 +++--- NAMESPACE | 4 NEWS.md | 5 - R/helpers.R | 3 R/parse_call.R | 198 ++++++++++++++++++++++++++++++++------------- R/print.summarytools.R | 2 R/tb.R | 5 - R/what.is.R | 33 +++---- build/vignette.rds |binary inst/doc/introduction.Rmd | 2 inst/doc/introduction.html | 37 +++----- inst/doc/rmarkdown.html | 55 +++++------- man/print.summarytools.Rd | 2 man/what.is.Rd | 5 - vignettes/introduction.Rmd | 2 16 files changed, 232 insertions(+), 161 deletions(-)
Title: Microbial Community Ecology Data Analysis
Description: A series of statistical and plotting approaches in microbial community ecology based on the R6 class. The classes are designed for data preprocessing, taxa abundance plotting, alpha diversity analysis, beta diversity analysis, differential abundance test, null model analysis, network analysis, machine learning, environmental data analysis and functional analysis.
Author: Chi Liu [aut, cre],
Felipe R. P. Mansoldo [ctb],
Minjie Yao [ctb],
Xiangzhen Li [ctb]
Maintainer: Chi Liu <liuchi0426@126.com>
Diff between microeco versions 1.16.0 dated 2025-10-31 and 2.0.0 dated 2026-01-27
DESCRIPTION | 6 - MD5 | 43 ++++++------- R/microtable.R | 48 ++++++++------ R/trans_abund.R | 4 - R/trans_beta.R | 36 +++++++++-- R/trans_classifier.R | 11 +-- R/trans_diff.R | 135 ++++++++++++++++++++++++++++++++++++++++-- R/trans_env.R | 39 ++++++++++-- R/trans_func.R | 20 ++++-- R/trans_network.R | 25 ++++++- R/trans_norm.R | 26 +++++--- R/trans_nullmodel.R | 4 - R/utility.R | 4 - data/prok_func_FAPROTAX.RData |binary inst/logo.png |only man/microtable.Rd | 66 +++++++++++++------- man/trans_beta.Rd | 13 ++++ man/trans_diff.Rd | 63 ++++++++++++++++++- man/trans_env.Rd | 16 ++++ man/trans_func.Rd | 5 + man/trans_network.Rd | 6 + man/trans_norm.Rd | 10 ++- man/trans_nullmodel.Rd | 4 - 23 files changed, 457 insertions(+), 127 deletions(-)
Title: Construct Mapper Graphs for Topological and Exploratory Data
Analysis
Description: Topological data analysis (TDA) is a method of data analysis that
uses techniques from topology to analyze high-dimensional data. Here we
implement Mapper, an algorithm from this area developed by Singh, Mémoli and
Carlsson (2007) which generalizes the concept of a
Reeb graph <https://en.wikipedia.org/wiki/Reeb_graph>.
Author: George Clare Kennedy [aut, cre]
Maintainer: George Clare Kennedy <george-clarekennedy@uiowa.edu>
Diff between mappeR versions 2.3.0 dated 2025-07-27 and 2.4.0 dated 2026-01-27
DESCRIPTION | 9 ++--- MD5 | 24 ++++++------- NEWS.md | 6 +++ R/baskin_robbins.R | 16 +++----- R/cartography_chamber.R | 73 ++++++++++++++++++++--------------------- R/clusterer_farm.R | 8 ++-- R/quilting_hut.R | 2 - README.md | 18 ++++++---- man/create_1D_mapper_object.Rd | 8 +--- man/create_mapper_object.Rd | 16 ++------ man/mappeR-package.Rd | 2 - tests/testthat/test-binning.R | 6 +-- tests/testthat/test-inputs.R | 46 +++++++++++++++++++++++-- 13 files changed, 135 insertions(+), 99 deletions(-)
Title: Estimate Inverse Probability Weights
Description: Functions to estimate the probability to receive the observed treatment, based on
individual characteristics. The inverse of these probabilities can be used as weights when
estimating causal effects from observational data via marginal structural models. Both point
treatment situations and longitudinal studies can be analysed. The same functions can be used to
correct for informative censoring.
Author: Hung Thai Tran [aut, cre],
Willem M. van der Wal [aut],
Ronald B. Geskus [aut]
Maintainer: Hung Thai Tran <hungtt@oucru.org>
Diff between ipw versions 1.2.2 dated 2025-12-08 and 1.3.0 dated 2026-01-27
DESCRIPTION | 19 - LICENSE |only MD5 | 42 +- NAMESPACE | 19 - NEWS.md |only R/basdat.R |only R/haartdat.R |only R/healthdat.R |only R/ipwplot.R | 81 +++- R/ipwpoint.R | 470 ++++++++++++++++------------ R/ipwtm.R | 894 +++++++++++++++++++++++++++++++++++-------------------- R/timedat.R |only R/tstartfun.R | 107 ++++-- README.md |only man/basdat.Rd | 83 ++--- man/figures |only man/haartdat.Rd | 95 +++-- man/healthdat.Rd | 82 ++--- man/ipwplot.Rd | 101 +++--- man/ipwpoint.Rd | 259 ++++++++------- man/ipwtm.Rd | 520 +++++++++++++++++-------------- man/timedat.Rd | 95 +++-- man/tstartfun.Rd | 110 +++--- tests |only 24 files changed, 1740 insertions(+), 1237 deletions(-)
Title: Parsing Glycan Structure Text Representations
Description: Provides functions to parse glycan structure text representations
into 'glyrepr' glycan structures. Currently, it supports StrucGP-style,
pGlyco-style, IUPAC-condensed, IUPAC-extended, IUPAC-short, WURCS,
Linear Code, and GlycoCT format. It also provides an automatic parser
to detect the format and parse the structure string.
Author: Bin Fu [aut, cre, cph]
Maintainer: Bin Fu <23110220018@m.fudan.edu.cn>
Diff between glyparse versions 0.5.3 dated 2025-11-04 and 0.5.4 dated 2026-01-27
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 6 ++++++ README.md | 19 +++++++++++++++++-- tests/testthat/test-auto-parse.R | 6 ++---- 5 files changed, 33 insertions(+), 14 deletions(-)
Title: Functions and Data Sets for "That's Weird: Anomaly Detection
Using R" by Rob J Hyndman
Description: All functions and data sets required for the examples in the book
Hyndman (2026) "That's Weird: Anomaly Detection Using R" <https://OTexts.com/weird/>.
All packages needed to run the examples are also loaded.
Author: Rob Hyndman [aut, cre, cph] ,
RStudio [cph]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between weird versions 1.0.2 dated 2024-01-24 and 2.0.0 dated 2026-01-27
weird-1.0.2/weird/R/density.R |only weird-1.0.2/weird/R/ggplot.R |only weird-1.0.2/weird/R/log_scores.R |only weird-1.0.2/weird/R/lookout.R |only weird-1.0.2/weird/R/mvscale.R |only weird-1.0.2/weird/man/as_kde.Rd |only weird-1.0.2/weird/man/autoplot.kde.Rd |only weird-1.0.2/weird/man/density_scores.Rd |only weird-1.0.2/weird/man/hdr_palette.Rd |only weird-1.0.2/weird/man/hdrplot.Rd |only weird-1.0.2/weird/man/lookout.Rd |only weird-1.0.2/weird/man/mvscale.Rd |only weird-1.0.2/weird/man/weird_conflicts.Rd |only weird-1.0.2/weird/man/weird_packages.Rd |only weird-1.0.2/weird/tests/testthat/test-hdr.R |only weird-1.0.2/weird/tests/testthat/test-kde_scores.R |only weird-2.0.0/weird/DESCRIPTION | 33 - weird-2.0.0/weird/MD5 | 129 ++-- weird-2.0.0/weird/NAMESPACE | 55 +- weird-2.0.0/weird/NEWS.md | 17 weird-2.0.0/weird/R/attach.R | 11 weird-2.0.0/weird/R/bagplot.R | 89 ++- weird-2.0.0/weird/R/conflicts.R | 46 - weird-2.0.0/weird/R/datasets.R | 39 + weird-2.0.0/weird/R/dist_density.R |only weird-2.0.0/weird/R/dist_kde.R |only weird-2.0.0/weird/R/gg_density.R |only weird-2.0.0/weird/R/gg_density_layer.R |only weird-2.0.0/weird/R/grubbs.R | 38 - weird-2.0.0/weird/R/hampel.R |only weird-2.0.0/weird/R/hdr.R | 465 +++++++---------- weird-2.0.0/weird/R/interpolation.R |only weird-2.0.0/weird/R/kde_bandwidth.R |only weird-2.0.0/weird/R/lof_scores.R | 2 weird-2.0.0/weird/R/peirce.R | 2 weird-2.0.0/weird/R/show_data.R |only weird-2.0.0/weird/R/stray.R | 8 weird-2.0.0/weird/R/surprisal_utils.R |only weird-2.0.0/weird/R/surprisals.R |only weird-2.0.0/weird/R/surprisals_data.R |only weird-2.0.0/weird/R/surprisals_models.R |only weird-2.0.0/weird/R/utils.R | 15 weird-2.0.0/weird/R/weird.R | 7 weird-2.0.0/weird/R/wine_reviews.R | 16 weird-2.0.0/weird/README.md | 334 +++++------- weird-2.0.0/weird/data/cricket_batting.rda |binary weird-2.0.0/weird/data/fr_mortality.rda |only weird-2.0.0/weird/data/oldfaithful.rda |binary weird-2.0.0/weird/inst/CITATION | 2 weird-2.0.0/weird/man/bagplot.Rd | 19 weird-2.0.0/weird/man/cricket_batting.Rd | 10 weird-2.0.0/weird/man/dist_density.Rd |only weird-2.0.0/weird/man/dist_kde.Rd |only weird-2.0.0/weird/man/fetch_wine_reviews.Rd | 12 weird-2.0.0/weird/man/figures/README-of-boxplot-1.png |binary weird-2.0.0/weird/man/figures/README-of-boxplot-2.png |binary weird-2.0.0/weird/man/figures/README-of-boxplot-3.png |binary weird-2.0.0/weird/man/figures/README-of-boxplot2-1.png |binary weird-2.0.0/weird/man/figures/README-of-boxplot2-2.png |binary weird-2.0.0/weird/man/figures/README-of-boxplot3-1.png |binary weird-2.0.0/weird/man/figures/README-of-boxplot3-2.png |binary weird-2.0.0/weird/man/figures/README-of-density-1.png |binary weird-2.0.0/weird/man/figures/README-of-density2-1.png |binary weird-2.0.0/weird/man/figures/weird-hex.png |binary weird-2.0.0/weird/man/fr_mortality.Rd |only weird-2.0.0/weird/man/gg_density.Rd |only weird-2.0.0/weird/man/gg_density_layer.Rd |only weird-2.0.0/weird/man/gg_hdrboxplot.Rd |only weird-2.0.0/weird/man/grubbs_anomalies.Rd | 4 weird-2.0.0/weird/man/hampel_anomalies.Rd |only weird-2.0.0/weird/man/hdr_table.Rd | 51 - weird-2.0.0/weird/man/kde_bandwidth.Rd | 36 - weird-2.0.0/weird/man/lof_scores.Rd | 4 weird-2.0.0/weird/man/n01.Rd | 4 weird-2.0.0/weird/man/oldfaithful.Rd | 16 weird-2.0.0/weird/man/peirce_anomalies.Rd | 3 weird-2.0.0/weird/man/reexports.Rd | 3 weird-2.0.0/weird/man/stray_anomalies.Rd | 4 weird-2.0.0/weird/man/stray_scores.Rd | 4 weird-2.0.0/weird/man/surprisals.Rd |only weird-2.0.0/weird/man/surprisals_data.Rd |only weird-2.0.0/weird/man/surprisals_model.Rd |only weird-2.0.0/weird/man/weird-package.Rd | 8 weird-2.0.0/weird/tests/testthat/surprisals.R |only weird-2.0.0/weird/tests/testthat/test_dist_density.R |only weird-2.0.0/weird/tests/testthat/test_dist_kde1.R |only weird-2.0.0/weird/tests/testthat/test_dist_kde2.R |only 87 files changed, 793 insertions(+), 693 deletions(-)
Title: Predictive (Classification and Regression) Models Homologator
Description: Methods to unify the different ways of creating predictive models and their different predictive formats for classification and regression. It includes methods such as K-Nearest Neighbors Schliep, K. P. (2004) <doi:10.5282/ubm/epub.1769>, Decision Trees Leo Breiman, Jerome H. Friedman, Richard A. Olshen, Charles J. Stone (2017) <doi:10.1201/9781315139470>, ADA Boosting Esteban Alfaro, Matias Gamez, Noelia García (2013) <doi:10.18637/jss.v054.i02>, Extreme Gradient Boosting Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>, Random Forest Breiman (2001) <doi:10.1023/A:1010933404324>, Neural Networks Venables, W. N., & Ripley, B. D. (2002) <ISBN:0-387-95457-0>, Support Vector Machines Bennett, K. P. & Campbell, C. (2000) <doi:10.1145/380995.380999>, Bayesian Methods Gelman, A., Carlin, J. B., Stern, H. S., & Rubin, D. B. (1995) <doi:10.1201/9780429258411>, Linear Discriminant Analysis Venables, W. N., & Ripley, B. [...truncated...]
Author: Oldemar Rodriguez R. [aut, cre],
Andres Navarro D. [aut],
Ariel Arroyo S. [aut],
Diego Jimenez A. [aut],
Jennifer Lobo V. [aut]
Maintainer: Oldemar Rodriguez R. <oldemar.rodriguez@ucr.ac.cr>
Diff between traineR versions 2.2.10 dated 2026-01-17 and 2.2.11 dated 2026-01-27
traineR-2.2.10/traineR/man/predict.ada.prmdt.Rd |only traineR-2.2.10/traineR/man/train.ada.Rd |only traineR-2.2.10/traineR/man/varplot.Rd |only traineR-2.2.11/traineR/DESCRIPTION | 11 ++--- traineR-2.2.11/traineR/MD5 | 17 +++---- traineR-2.2.11/traineR/NAMESPACE | 5 -- traineR-2.2.11/traineR/R/Utilities.R | 14 ------ traineR-2.2.11/traineR/R/predict.R | 30 ------------- traineR-2.2.11/traineR/R/train.R | 52 ------------------------ traineR-2.2.11/traineR/R/traineR.R | 4 - traineR-2.2.11/traineR/man/traineR.Rd | 4 - 11 files changed, 17 insertions(+), 120 deletions(-)
Title: Sparse Vectors for Use in Data Frames
Description: Provides sparse vectors powered by ALTREP (Alternative
Representations for R Objects) that behave like regular vectors, and
can thus be used in data frames. Also provides tools to convert
between sparse matrices and data frames with sparse columns and
functions to interact with sparse vectors.
Author: Emil Hvitfeldt [aut, cre] ,
Davis Vaughan [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>
Diff between sparsevctrs versions 0.3.5 dated 2025-12-09 and 0.3.6 dated 2026-01-27
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/type-predicates.R | 10 +++++----- src/sparse-utils.c | 4 ++-- src/sparse-utils.h | 10 ++++++++++ 6 files changed, 29 insertions(+), 15 deletions(-)
Title: Model Wrappers for Rule-Based Models
Description: Bindings for additional models for use with the 'parsnip'
package. Models include prediction rule ensembles (Friedman and
Popescu, 2008) <doi:10.1214/07-AOAS148>, C5.0 rules (Quinlan, 1992
ISBN: 1558602380), and Cubist (Kuhn and Johnson, 2013)
<doi:10.1007/978-1-4614-6849-3>.
Author: Emil Hvitfeldt [aut, cre] ,
Max Kuhn [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>
Diff between rules versions 1.0.2 dated 2023-03-08 and 1.0.3 dated 2026-01-27
DESCRIPTION | 25 - LICENSE | 2 MD5 | 63 ++-- NAMESPACE | 2 NEWS.md | 4 R/C5_rules.R | 29 +- R/C5_rules_data.R | 24 - R/cubist_rules.R | 40 +- R/cubist_rules_data.R | 24 - R/rule_fit.R | 209 ++++++++------ R/rules-package.R | 45 ++- R/tidy_C5.0.R | 45 +-- R/tidy_cubist.R | 47 +-- R/tidy_xrf.R | 37 +- README.md | 6 build/partial.rdb |binary inst/WORDLIST | 29 -- man/figures/logo.png |binary man/multi_predict.Rd | 2 man/rmd/tidy-example.Rmd | 34 +- man/rules-internal.Rd | 1 man/rules-package.Rd | 2 man/tidy.cubist.Rd | 89 +++--- tests/spelling.R | 3 tests/testthat/_snaps/c5.md |only tests/testthat/_snaps/cubist.md |only tests/testthat/_snaps/rule-fit-regression.md | 11 tests/testthat/helpers.R | 116 +++++--- tests/testthat/test-c5.R | 215 +++++++++------ tests/testthat/test-cubist.R | 381 +++++++++++++++++---------- tests/testthat/test-rule-fit-binomial.R | 213 ++++++++------- tests/testthat/test-rule-fit-multinomial.R | 210 +++++++++----- tests/testthat/test-rule-fit-regression.R | 171 +++++++----- tests/testthat/test-rule_fit.R |only 34 files changed, 1254 insertions(+), 825 deletions(-)
Title: Power Analyses for Common Designs (Power to the People)
Description: Statistical power analysis for designs including t-tests, correlations,
multiple regression, ANOVA, mediation, and logistic regression. Functions accompany
Aberson (2019) <doi:10.4324/9781315171500>.
Author: Chris Aberson [aut, cre]
Maintainer: Chris Aberson <chris.aberson@gmail.com>
Diff between pwr2ppl versions 0.5.0 dated 2022-09-06 and 0.6.0 dated 2026-01-27
pwr2ppl-0.5.0/pwr2ppl/R/anc.R |only pwr2ppl-0.5.0/pwr2ppl/README.md |only pwr2ppl-0.5.0/pwr2ppl/man/anc.Rd |only pwr2ppl-0.5.0/pwr2ppl/man/packrat |only pwr2ppl-0.6.0/pwr2ppl/DESCRIPTION | 21 +- pwr2ppl-0.6.0/pwr2ppl/MD5 | 51 ++---- pwr2ppl-0.6.0/pwr2ppl/NAMESPACE | 2 pwr2ppl-0.6.0/pwr2ppl/NEWS.md |only pwr2ppl-0.6.0/pwr2ppl/R/Assumptions.R | 4 pwr2ppl-0.6.0/pwr2ppl/R/Assumptions_resample.R | 24 +- pwr2ppl-0.6.0/pwr2ppl/R/anova2x2.R | 2 pwr2ppl-0.6.0/pwr2ppl/R/d_prec.R | 4 pwr2ppl-0.6.0/pwr2ppl/R/depb.R | 2 pwr2ppl-0.6.0/pwr2ppl/R/depcorr0.R | 2 pwr2ppl-0.6.0/pwr2ppl/R/med.R | 6 pwr2ppl-0.6.0/pwr2ppl/R/propind.R | 1 pwr2ppl-0.6.0/pwr2ppl/R/win1F.R | 65 ++++--- pwr2ppl-0.6.0/pwr2ppl/R/win1Ftrends.R | 4 pwr2ppl-0.6.0/pwr2ppl/R/win1bg1.R | 97 +++++------ pwr2ppl-0.6.0/pwr2ppl/R/win2F.R | 112 +++++++------ pwr2ppl-0.6.0/pwr2ppl/R/win2Fse.R | 187 +++++++++++----------- pwr2ppl-0.6.0/pwr2ppl/man/Assumptions_resample.Rd | 14 + pwr2ppl-0.6.0/pwr2ppl/man/anova2x2.Rd | 2 pwr2ppl-0.6.0/pwr2ppl/man/d_prec.Rd | 4 pwr2ppl-0.6.0/pwr2ppl/man/depb.Rd | 2 pwr2ppl-0.6.0/pwr2ppl/man/depcorr0.Rd | 2 pwr2ppl-0.6.0/pwr2ppl/man/propind.Rd | 4 pwr2ppl-0.6.0/pwr2ppl/man/win1F.Rd | 2 28 files changed, 322 insertions(+), 292 deletions(-)
Title: Get Network Representation of an R Package
Description: Tools from the domain of graph theory can be used to quantify the complexity
and vulnerability to failure of a software package. That is the guiding philosophy
of this package. 'pkgnet' provides tools to analyze the dependencies between functions
in an R package and between its imported packages. See the pkgnet website for vignettes
and other supplementary information.
Author: Brian Burns [aut, cre],
James Lamb [aut],
Jay Qi [aut]
Maintainer: Brian Burns <brian.burns.opensource@gmail.com>
Diff between pkgnet versions 0.5.0 dated 2024-05-03 and 0.6.0 dated 2026-01-27
pkgnet-0.5.0/pkgnet/tests/testthat/testdata/graph_measures_baseballstats_DependencyReporter.csv |only pkgnet-0.5.0/pkgnet/tests/testthat/testdata/graph_measures_baseballstats_FunctionReporter.csv |only pkgnet-0.5.0/pkgnet/tests/testthat/testdata/graph_measures_milne_InheritanceReporter.csv |only pkgnet-0.5.0/pkgnet/tests/testthat/testdata/node_measures_baseballstats_DependencyReporter.csv |only pkgnet-0.5.0/pkgnet/tests/testthat/testdata/node_measures_baseballstats_FunctionReporter.csv |only pkgnet-0.5.0/pkgnet/tests/testthat/testdata/node_measures_milne_InheritanceReporter.csv |only pkgnet-0.6.0/pkgnet/DESCRIPTION | 14 - pkgnet-0.6.0/pkgnet/MD5 | 48 +-- pkgnet-0.6.0/pkgnet/NAMESPACE | 13 - pkgnet-0.6.0/pkgnet/NEWS.md | 17 + pkgnet-0.6.0/pkgnet/R/AbstractGraphReporter.R | 8 pkgnet-0.6.0/pkgnet/R/CreatePackageReport.R | 26 +- pkgnet-0.6.0/pkgnet/R/FunctionReporter.R | 4 pkgnet-0.6.0/pkgnet/R/GraphClasses.R | 24 - pkgnet-0.6.0/pkgnet/R/logging.R | 126 +++++++-- pkgnet-0.6.0/pkgnet/R/testing_utils.R | 26 ++ pkgnet-0.6.0/pkgnet/inst/package_report/package_report.Rmd | 2 pkgnet-0.6.0/pkgnet/man/DirectedGraphMeasures.Rd | 4 pkgnet-0.6.0/pkgnet/man/SimpleLogger.Rd |only pkgnet-0.6.0/pkgnet/tests/testthat/setup-logger.R | 12 pkgnet-0.6.0/pkgnet/tests/testthat/teardown-logger.R | 5 pkgnet-0.6.0/pkgnet/tests/testthat/test-0-test-package-installation.R | 7 pkgnet-0.6.0/pkgnet/tests/testthat/test-DependencyReporter-class.R | 10 pkgnet-0.6.0/pkgnet/tests/testthat/test-DirectedGraph.R | 71 ----- pkgnet-0.6.0/pkgnet/tests/testthat/test-FunctionReporter-class.R | 16 - pkgnet-0.6.0/pkgnet/tests/testthat/test-InheritanceReporter-class.R | 12 pkgnet-0.6.0/pkgnet/tests/testthat/test-Z-test-no-source-modifcations.R |only pkgnet-0.6.0/pkgnet/tests/testthat/test-logging.R | 127 ++++++++-- pkgnet-0.6.0/pkgnet/tests/testthat/test-plotting.R | 34 +- 29 files changed, 377 insertions(+), 229 deletions(-)
Title: The Multivariate Normal and t Distributions, and Their Truncated
Versions
Description: Functions are provided for computing the density and the
distribution function of multi-dimensional normal and "t" random variables,
possibly truncated (on one side or two sides), and for generating random
vectors sampled from these distributions, except sampling from the truncated
"t". Moments of arbitrary order of a multivariate truncated normal are
computed, and converted to cumulants up to order 4.
Probabilities are computed via non-Monte Carlo methods; different routines
are used in the case d=1, d=2, d=3, d>3, if d denotes the dimensionality.
Author: Adelchi Azzalini [aut, cre],
Alan Genz [aut] ,
Alan Miller [ctb] ,
Michael J. Wichura [ctb] ,
G. W. Hill [ctb] ,
Yihong Ge. [ctb]
Maintainer: Adelchi Azzalini <adelchi.azzalini@unipd.it>
Diff between mnormt versions 2.1.1 dated 2022-09-26 and 2.1.2 dated 2026-01-27
DESCRIPTION | 48 ++++++++++++++++++++++++++++++++++++------------ MD5 | 24 ++++++++++++------------ build/partial.rdb |binary inst/CITATION | 4 ++-- inst/NEWS.Rd | 20 ++++++++++++++++---- man/mnorm.Rd | 5 +++-- man/mnormt-package.Rd | 4 ++-- man/mom.mtruncnorm.Rd | 6 +++--- man/mt.Rd | 11 ++++++----- man/mtruncnorm.Rd | 4 ++-- src/rtmng.f | 12 ++++++------ src/sadmvnt.f | 2 +- src/tvpack.f | 5 +++-- 13 files changed, 92 insertions(+), 53 deletions(-)
Title: File IO for Intracranial Electroencephalography
Description: Integrated toolbox supporting common file formats used for intracranial
Electroencephalography (iEEG) and deep-brain stimulation (DBS) study.
Author: Zhengjia Wang [aut, cre]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between ieegio versions 0.0.8 dated 2026-01-11 and 0.0.9 dated 2026-01-27
ieegio-0.0.8/ieegio/R/aaa.R |only ieegio-0.0.9/ieegio/DESCRIPTION | 6 ieegio-0.0.9/ieegio/MD5 | 54 +- ieegio-0.0.9/ieegio/NEWS.md | 5 ieegio-0.0.9/ieegio/R/aaa-000.R |only ieegio-0.0.9/ieegio/R/aaa-generics-volume.R | 375 --------------- ieegio-0.0.9/ieegio/R/as_ieegio_volume.R |only ieegio-0.0.9/ieegio/R/hdf5.R | 2 ieegio-0.0.9/ieegio/R/mcp-surface.R |only ieegio-0.0.9/ieegio/R/mcp-volume.R |only ieegio-0.0.9/ieegio/R/samples.R | 9 ieegio-0.0.9/ieegio/R/zzz.R | 11 ieegio-0.0.9/ieegio/inst/doc/read-ephys.R | 8 ieegio-0.0.9/ieegio/inst/doc/read-ephys.Rmd | 10 ieegio-0.0.9/ieegio/inst/doc/read-imaging-data.R | 8 ieegio-0.0.9/ieegio/inst/doc/read-imaging-data.Rmd | 9 ieegio-0.0.9/ieegio/inst/mcp |only ieegio-0.0.9/ieegio/man/as_ieegio_volume.Rd | 2 ieegio-0.0.9/ieegio/man/io_h5_valid.Rd | 2 ieegio-0.0.9/ieegio/tests/testthat/setup.R | 1 ieegio-0.0.9/ieegio/tests/testthat/teardown.R |only ieegio-0.0.9/ieegio/tests/testthat/test-edf.R | 1 ieegio-0.0.9/ieegio/tests/testthat/test-flirt.R | 10 ieegio-0.0.9/ieegio/tests/testthat/testthat-problems.rds |only ieegio-0.0.9/ieegio/vignettes/read-ephys.Rmd | 10 ieegio-0.0.9/ieegio/vignettes/read-imaging-data.Rmd | 9 26 files changed, 127 insertions(+), 405 deletions(-)
Title: Interface for the 'Finnish Biodiversity Information Facility'
API
Description: A programmatic interface to the 'Finnish Biodiversity Information
Facility' ('FinBIF') API (<https://api.laji.fi>). 'FinBIF' aggregates
Finnish biodiversity data from multiple sources in a single open access
portal for researchers, citizen scientists, industry and government.
'FinBIF' allows users of biodiversity information to find, access, combine
and visualise data on Finnish plants, animals and microorganisms. The
'finbif' package makes the publicly available data in 'FinBIF' easily
accessible to programmers. Biodiversity information is available on taxonomy
and taxon occurrence. Occurrence data can be filtered by taxon, time,
location and other variables. The data accessed are conveniently
preformatted for subsequent analyses.
Author: Finnish Museum of Natural History - Luomus [cph] ,
Finnish Biodiversity Information Facility [cph] ,
William K. Morris [aut, cre]
Maintainer: William K. Morris <willi@mmorris.email>
Diff between finbif versions 0.9.11 dated 2025-08-22 and 0.9.12 dated 2026-01-27
DESCRIPTION | 8 LICENSE | 2 MD5 | 88 NAMESPACE | 1 NEWS.md | 5 R/api_get.R | 2 R/finbif_collections.R | 19 R/finbif_occurrence_load.R | 24 R/finbif_request_token.R | 24 R/sysdata.rda |binary README.md | 4 build/vignette.rds |binary inst/doc/finbif.html | 5 inst/doc/v02_occurrence_data.html | 5 inst/doc/v03_selecting_variables.html | 5 inst/doc/v04_metadata.html | 5 inst/doc/v05_filtering.html | 5 man/finbif-package.Rd | 4 man/finbif_request_token.Rd | 8 tests/fixtures/finbif_cache_db_timeout.yml | 73 tests/fixtures/finbif_cache_file_timeout.yml | 73 tests/fixtures/finbif_cache_timeout.yml | 73 tests/fixtures/finbif_check_taxa.yml | 16 tests/fixtures/finbif_collections.yml |12482 +++------ tests/fixtures/finbif_informal_groups.yml | 12 tests/fixtures/finbif_last_mod1.yml | 9 tests/fixtures/finbif_last_mod2.yml | 9 tests/fixtures/finbif_last_mod3.yml | 9 tests/fixtures/finbif_metadata.yml | 538 tests/fixtures/finbif_occurrence.yml |12983 +++------- tests/fixtures/finbif_occurrence_aggregate.yml | 51 tests/fixtures/finbif_occurrence_api_error.yml | 7 tests/fixtures/finbif_occurrence_compute_var_from_id_zero_rows.yml |12519 +++------ tests/fixtures/finbif_occurrence_dates.yml | 158 tests/fixtures/finbif_occurrence_load.yml | 161 tests/fixtures/finbif_occurrence_print.yml | 23 tests/fixtures/finbif_occurrence_select_local_area.yml | 9 tests/fixtures/finbif_taxa.yml | 22 tests/testthat/_snaps/caching.md | 84 tests/testthat/_snaps/finbif_collections.md | 530 tests/testthat/_snaps/finbif_metadata.md | 2 tests/testthat/_snaps/finbif_occurrence.md | 92 tests/testthat/_snaps/finbif_occurrence_load.md | 96 tests/testthat/test-finbif_informal_groups.R | 2 tests/testthat/test-finbif_request_token.R | 11 45 files changed, 15602 insertions(+), 24656 deletions(-)
Title: Exponential Integral and Incomplete Gamma Function
Description: The exponential integrals E_1(x), E_2(x), E_n(x) and
Ei(x), and the incomplete gamma function G(a, x) defined for
negative values of its first argument. The package also gives easy
access to the underlying C routines through an API; see the package
vignette for details. A test package included in sub-directory
example_API provides an implementation. C routines derived from the
GNU Scientific Library <https://www.gnu.org/software/gsl/>.
Author: Vincent Goulet [cre, aut],
Gerard Jungman [aut] ,
Brian Gough [aut] ,
Jeffrey A. Ryan [aut] ,
Robert Gentleman [aut] ,
Ross Ihaka [aut] ,
R Core Team [aut] ,
R Foundation [aut]
Maintainer: Vincent Goulet <vincent.goulet@act.ulaval.ca>
Diff between expint versions 0.2-0 dated 2026-01-19 and 0.2-1 dated 2026-01-27
DESCRIPTION | 9 - MD5 | 20 +-- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 9 + inst/doc/expint.R | 57 +++++++-- inst/doc/expint.Rnw | 296 +++++++++++++++++++++++++++++++++++++++++++-------- inst/doc/expint.pdf |binary src/gamma_inc.c | 4 vignettes/expint.Rnw | 296 +++++++++++++++++++++++++++++++++++++++++++-------- vignettes/expint.bib | 50 ++++---- 11 files changed, 598 insertions(+), 143 deletions(-)
Title: Business Process Analysis in R
Description: Comprehensive Business Process Analysis toolkit. Creates S3-class for event log objects, and related handler functions. Imports related packages for filtering event data, computation of descriptive statistics, handling of 'Petri Net' objects and visualization of process maps. See also packages 'edeaR','processmapR', 'eventdataR' and 'processmonitR'.
Author: Benoît Depaire [cre],
Gert Janssenswillen [aut],
Gerard van Hulzen [ctb],
Felix Mannhardt [ctb],
Niels Martin [ctb],
Greg Van Houdt [ctb],
Hasselt University [cph]
Maintainer: Benoît Depaire <benoit.depaire@uhasselt.be>
Diff between bupaR versions 1.0.0 dated 2025-12-01 and 1.0.1 dated 2026-01-27
bupaR-1.0.0/bupaR/man/fill.Rd |only bupaR-1.0.1/bupaR/DESCRIPTION | 6 +++--- bupaR-1.0.1/bupaR/MD5 | 9 ++++----- bupaR-1.0.1/bupaR/R/fill.R | 5 ----- bupaR-1.0.1/bupaR/man/group_by_trace.Rd | 30 +++++++++++++++--------------- bupaR-1.0.1/bupaR/man/reexports.Rd | 5 ++++- 6 files changed, 26 insertions(+), 29 deletions(-)
Title: Convert Statistical Objects into Tidy Tibbles
Description: Summarizes key information about statistical objects in tidy
tibbles. This makes it easy to report results, create plots and
consistently work with large numbers of models at once. Broom
provides three verbs that each provide different types of information
about a model. tidy() summarizes information about model components
such as coefficients of a regression. glance() reports information
about an entire model, such as goodness of fit measures like AIC and
BIC. augment() adds information about individual observations to a
dataset, such as fitted values or influence measures.
Author: David Robinson [aut],
Alex Hayes [aut] ,
Simon Couch [aut] ,
Emil Hvitfeldt [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Indrajeet Patil [ctb] ,
Derek Chiu [ctb],
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb], [...truncated...]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>
Diff between broom versions 1.0.11 dated 2025-12-04 and 1.0.12 dated 2026-01-27
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/deprecated-0-7-0.R | 2 +- R/utilities.R | 1 + build/vignette.rds |binary inst/doc/adding-tidiers.html | 4 ++-- inst/doc/available-methods.html | 4 ++-- inst/doc/bootstrapping.html | 4 ++-- inst/doc/broom.html | 10 +++++----- inst/doc/broom_and_dplyr.html | 4 ++-- 11 files changed, 32 insertions(+), 27 deletions(-)