Title: Plotting Ultrasound Tongue Traces
Description: Plots traced ultrasound tongue imaging data according to a polar coordinate system.
There is currently support for plotting means and standard deviations of each category's trace;
Smoothing Splines Analysis of Variance (SSANOVA) could be implemented as well. The origin of the
polar coordinates may be defined manually or automatically determined based on different
algorithms.
Points for each category can be split into two groups (anterior and posterior) at the point of
maximum curvature of each trace. User can specify rays to intersect various parts of the
tongue; intersections along these rays serve as input for a pairwise t-test to measure
significant contrasts between segments.
Currently 'ultrapolaRplot' supports ultrasound tongue imaging trace data from 'UltraTrace'
(<https://github.com/SwatPhonLab/UltraTrace>). 'UltraTrace' is capable of importing data from
Articulate Instruments AAA.
'read_textgrid.R' is required for opening TextGrids to determine category and alignment
inf [...truncated...]
Author: Yana Outkin [aut, cre],
Jonathan Washington [aut]
Maintainer: Yana Outkin <youtkin1@swarthmore.edu>
Diff between ultrapolaRplot versions 0.1.1 dated 2024-06-17 and 0.2.1 dated 2026-04-23
ultrapolaRplot-0.1.1/ultrapolaRplot/man/loadTraces.Rd |only ultrapolaRplot-0.1.1/ultrapolaRplot/man/makeTracesPolar.Rd |only ultrapolaRplot-0.2.1/ultrapolaRplot/DESCRIPTION | 15 ultrapolaRplot-0.2.1/ultrapolaRplot/MD5 | 13 ultrapolaRplot-0.2.1/ultrapolaRplot/NAMESPACE | 14 ultrapolaRplot-0.2.1/ultrapolaRplot/R/ultrapolaRplot.R | 1947 +++++++++- ultrapolaRplot-0.2.1/ultrapolaRplot/man/Summary_ultrapolaRplot.Rd | 18 ultrapolaRplot-0.2.1/ultrapolaRplot/man/loadAllTracesMidPoint.Rd |only ultrapolaRplot-0.2.1/ultrapolaRplot/man/plotTraces.Rd | 72 9 files changed, 1973 insertions(+), 106 deletions(-)
More information about ultrapolaRplot at CRAN
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Title: Neighborhood Deprivation Indices
Description: Computes various geospatial indices of socioeconomic deprivation
and disparity in the United States. Some indices are considered "spatial"
because they consider the values of neighboring (i.e., adjacent) census
geographies in their computation, while other indices are "aspatial"
because they only consider the value within each census geography. Two
types of aspatial neighborhood deprivation indices (NDI) are available,
including: (1) based on Messer et al. (2006) <doi:10.1007/s11524-006-9094-x>
and (2) based on Andrews et al. (2020) <doi:10.1080/17445647.2020.1750066>
and Slotman et al. (2022) <doi:10.1016/j.dib.2022.108002>
who use variables chosen by Roux and Mair (2010)
<doi:10.1111/j.1749-6632.2009.05333.x>. Both are a decomposition of multiple
demographic characteristics from the U.S. Census Bureau American Community
Survey 5-year estimates (ACS-5; 2006-2010 onward). Using data from the ACS-5
(2005-2009 onward), the package can also compute indices of racia [...truncated...]
Author: Ian D. Buller [aut, cre, cph] ,
NCI [cph, fnd]
Maintainer: Ian D. Buller <ian.buller@alumni.emory.edu>
Diff between ndi versions 0.2.1 dated 2025-09-05 and 0.2.2 dated 2026-04-23
DESCRIPTION | 44 MD5 | 204 - NAMESPACE | 130 - NEWS.md | 345 +-- R/DCtracts2020.R | 70 R/anthopolos.R | 548 ++-- R/atkinson.R | 886 +++---- R/bell.R | 908 ++++---- R/bemanian_beyer.R | 888 +++---- R/bravo.R | 664 ++--- R/denton.R | 918 ++++---- R/denton_cuzzort.R | 934 ++++---- R/duncan.R | 902 ++++---- R/duncan_cuzzort.R | 842 +++---- R/duncan_duncan.R | 918 ++++---- R/gini.R | 824 +++---- R/globals.R | 578 ++--- R/hoover.R | 826 +++---- R/james_taeuber.R | 930 ++++---- R/krieger.R | 960 ++++---- R/lieberson.R | 828 +++---- R/massey.R | 838 +++---- R/massey_duncan.R | 854 +++---- R/messer.R | 782 +++---- R/morgan_denton.R | 912 ++++---- R/morgan_massey.R | 834 +++---- R/ndi-package.R | 218 - R/powell_wiley.R | 946 ++++---- R/sudano.R | 798 +++---- R/theil.R | 848 +++---- R/utils.R | 1218 +++++----- R/white.R | 812 +++---- R/white_blau.R | 926 ++++---- R/zzz.R | 6 README.md | 3586 ++++++++++++++++---------------- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 1654 +++++++------- inst/doc/ndi1.html | 2406 ++++++++++----------- inst/doc/ndi1.html.asis | 6 inst/doc/ndi2.html | 3886 +++++++++++++++++------------------ inst/doc/ndi2.html.asis | 6 inst/doc/ndi3.html | 1718 +++++++-------- inst/doc/ndi3.html.asis | 6 man/DCtracts2020.Rd | 96 man/anthopolos.Rd | 198 - man/atkinson.Rd | 254 +- man/bell.Rd | 224 +- man/bemanian_beyer.Rd | 220 - man/bravo.Rd | 162 - man/denton.Rd | 226 +- man/denton_cuzzort.Rd | 220 - man/duncan.Rd | 212 - man/duncan_cuzzort.Rd | 218 - man/duncan_duncan.Rd | 226 +- man/gini.Rd | 216 - man/hoover.Rd | 216 - man/james_taeuber.Rd | 212 - man/krieger.Rd | 150 - man/lieberson.Rd | 216 - man/massey.Rd | 218 - man/massey_duncan.Rd | 212 - man/messer.Rd | 182 - man/morgan_massey.Rd | 226 +- man/ndi-package.Rd | 214 - man/powell_wiley.Rd | 196 - man/sudano.Rd | 212 - man/theil.Rd | 220 - man/white.Rd | 216 - man/white_blau.Rd | 238 +- tests/spelling.R | 6 tests/testthat.R | 8 tests/testthat/test-anthopolos.R | 164 - tests/testthat/test-atkinson.R | 222 - tests/testthat/test-bell.R | 216 - tests/testthat/test-bemanian_beyer.R | 216 - tests/testthat/test-bravo.R | 164 - tests/testthat/test-denton.R | 216 - tests/testthat/test-denton_cuzzort.R | 216 - tests/testthat/test-duncan.R | 216 - tests/testthat/test-duncan_cuzzort.R | 182 - tests/testthat/test-duncan_duncan.R | 216 - tests/testthat/test-gini.R | 178 - tests/testthat/test-hoover.R | 182 - tests/testthat/test-james_taeuber.R | 182 - tests/testthat/test-krieger.R | 116 - tests/testthat/test-lieberson.R | 182 - tests/testthat/test-massey.R | 182 - tests/testthat/test-massey_duncan.R | 182 - tests/testthat/test-messer.R | 196 - tests/testthat/test-morgan_denton.R | 216 - tests/testthat/test-powell_wiley.R | 196 - tests/testthat/test-sudano.R | 178 - tests/testthat/test-theil.R | 182 - tests/testthat/test-white.R | 182 - tests/testthat/test-white_blau.R | 216 - tests/testthat/test_morgan_massey.R | 182 - vignettes/ndi1.Rmd | 1068 ++++----- vignettes/ndi1.html.asis | 6 vignettes/ndi2.Rmd | 2470 +++++++++++----------- vignettes/ndi2.html.asis | 6 vignettes/ndi3.Rmd | 696 +++--- vignettes/ndi3.html.asis | 6 103 files changed, 25931 insertions(+), 25922 deletions(-)
Title: A Hydraulics Package to Compute Open-Channel Flow over Weirs
Description: Provides computational support for flow over weirs, such as sharp-crested, broad-crested, and embankments. Initially, the package supports broad- and sharp-crested weirs.
Author: William Asquith [aut, cre]
Maintainer: William Asquith <william.asquith@ttu.edu>
Diff between weirs versions 0.25 dated 2015-08-20 and 0.26 dated 2026-04-23
weirs-0.25/weirs/ChangeLog |only weirs-0.26/weirs/DESCRIPTION | 16 +++++++++++----- weirs-0.26/weirs/MD5 | 17 +++++++++-------- weirs-0.26/weirs/NEWS |only weirs-0.26/weirs/build |only weirs-0.26/weirs/inst/CITATION | 21 +++++++++++---------- weirs-0.26/weirs/man/weir.broadcrest.Rd | 8 ++++---- weirs-0.26/weirs/man/weir.sharpcrest.Rd | 6 +++--- weirs-0.26/weirs/man/weir3a5.broadcrest.Rd | 27 +++++++++++++-------------- weirs-0.26/weirs/man/weir3a5.sharpcrest.Rd | 28 ++++++++++++---------------- weirs-0.26/weirs/man/weirbos.broadcrest.Rd | 27 +++++++++++++-------------- 11 files changed, 76 insertions(+), 74 deletions(-)
Title: Detection and Spatial Analysis of Tertiary Lymphoid Structures
Description: Fast, reproducible detection and quantitative analysis of
tertiary lymphoid structures (TLS) in multiplexed tissue imaging.
Implements Independent Component Analysis Trace (ICAT) index, local
Ripley's K scanning, automated K Nearest Neighbor (KNN)-based TLS
detection, and T-cell clusters identification as described in
Amiryousefi et al. (2025) <doi:10.1101/2025.09.21.677465>.
Author: Ali Amiryousefi [aut, cre] ,
Jeremiah Wala [aut] ,
Peter Sorger [ctb]
Maintainer: Ali Amiryousefi <ali_amiryousefi@hms.harvard.edu>
Diff between tlsR versions 0.2.0 dated 2026-04-09 and 0.3.0 dated 2026-04-23
DESCRIPTION | 9 MD5 | 44 +-- NAMESPACE | 10 NEWS.md | 38 ++ R/calc_icat.R | 71 +++-- R/detect_TLS.R | 217 ++++++++++----- R/plot_TLS.R | 69 ++++ R/scan_clustering.R | 477 ++++++++++++++++++++++++--------- README.md |only data/toy_ldata.rda |binary inst/LICENSE.md |only inst/doc/tlsR-workflow.R | 131 ++++++--- inst/doc/tlsR-workflow.Rmd | 251 ++++++++++++----- inst/doc/tlsR-workflow.html | 480 ++++++++++++++++++++-------------- man/calc_icat.Rd | 35 +- man/detect_TLS.Rd | 27 + man/detect_tic.Rd | 2 man/plot_TLS.Rd | 45 ++- man/scan_clustering.Rd | 99 ++++--- tests/testthat/test-calc_icat.R | 19 + tests/testthat/test-detect_TLS.R | 2 tests/testthat/test-plot_TLS.R | 23 + tests/testthat/test-scan_clustering.R | 77 ++++- vignettes/tlsR-workflow.Rmd | 251 ++++++++++++----- 24 files changed, 1649 insertions(+), 728 deletions(-)
More information about InfluenceBorrowing at CRAN
Permanent link
More information about randomForestRHF at CRAN
Permanent link
Title: Working with the Neotoma Paleoecology Database
Description: Access and manipulation of data using the Neotoma Paleoecology Database.
<https://api.neotomadb.org/api-docs/>.
Examples in functions that require API access are not executed during CRAN checks.
Vignettes do not execute as to avoid API calls during CRAN checks.
Author: Dominguez Vidana Socorro [aut, cre] ,
Simon Goring [aut]
Maintainer: Dominguez Vidana Socorro <dominguezvid@wisc.edu>
Diff between neotoma2 versions 1.0.11 dated 2025-12-14 and 1.0.12 dated 2026-04-23
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS.md | 6 ++++++ README.md | 2 +- inst/doc/neotoma2-package.Rmd | 20 ++++++++++---------- inst/doc/neotoma2-package.html | 20 ++++++++++---------- vignettes/neotoma2-package.Rmd | 20 ++++++++++---------- 7 files changed, 49 insertions(+), 43 deletions(-)
Title: Fetch and Explore the Cornell Lab of Ornithology Open Tree of
Life Avian Phylogeny
Description: Fetches the Cornell Lab of Ornithology Open Tree of Life (clootl) tree in a specified taxonomy. Optionally prune it to a given set of study taxa. Provide a recommended citation list for the studies that informed the extracted tree. Tree generated as described in McTavish et al. (2024) <doi:10.1101/2024.05.20.595017>.
Author: Eliot Miller [aut, cre],
Emily Jane McTavish [aut],
Luna L. Sanchez Reyes [ctb, aut]
Maintainer: Eliot Miller <clootlmaintainers@gmail.com>
This is a re-admission after prior archival of version 0.1.3 dated 2026-04-17
Diff between clootl versions 0.1.3 dated 2026-04-17 and 0.1.4 dated 2026-04-23
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 3 +++ R/utils.R | 32 +++----------------------------- man/set_avesdata_repo_path.Rd | 1 - tests/testthat/test_basics.R | 11 +++++++++++ 6 files changed, 25 insertions(+), 38 deletions(-)
Title: Filter Based Feature Selection for 'mlr3'
Description: Extends 'mlr3' with filter methods for feature selection.
Besides standalone filter methods built-in methods of any
machine-learning algorithm are supported. Partial scoring of
multivariate filter methods is supported.
Author: Marc Becker [cre, aut] ,
Patrick Schratz [aut] ,
Michel Lang [aut] ,
Bernd Bischl [aut] ,
Martin Binder [aut],
John Zobolas [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3filters versions 0.9.0 dated 2025-09-12 and 0.9.1 dated 2026-04-23
DESCRIPTION | 6 +- MD5 | 82 ++++++++++++++-------------- NEWS.md | 4 + R/Filter.R | 43 +++++++------- R/FilterAUC.R | 4 - R/FilterAnova.R | 4 - R/FilterBoruta.R | 5 - R/FilterCMIM.R | 4 - R/FilterCarScore.R | 11 +-- R/FilterCarSurvScore.R | 10 +-- R/FilterCorrelation.R | 16 ++--- R/FilterDISR.R | 4 - R/FilterFindCorrelation.R | 14 ++-- R/FilterImportance.R | 8 +- R/FilterInformationGain.R | 11 +-- R/FilterJMI.R | 5 - R/FilterJMIM.R | 4 - R/FilterKruskalTest.R | 4 - R/FilterLearner.R | 4 + R/FilterMIM.R | 4 - R/FilterMRMR.R | 4 - R/FilterNJMIM.R | 4 - R/FilterPerformance.R | 18 +++--- R/FilterPermutation.R | 34 ++++++----- R/FilterRelief.R | 6 +- R/FilterSelectedFeatures.R | 7 +- R/FilterUnivariateCox.R | 5 + R/FilterVariance.R | 4 - R/helper.R | 5 + R/mlr_filters.R | 35 +++++++---- R/zzz.R | 2 build/partial.rdb |binary tests/testthat/helper.R | 16 +++-- tests/testthat/test_FilterFindCorrelation.R | 10 ++- tests/testthat/test_FilterInformationGain.R | 2 tests/testthat/test_FilterPerformance.R | 3 - tests/testthat/test_FilterRelief.R | 2 tests/testthat/test_FilterUnivariateCox.R | 4 - tests/testthat/test_filter_boruta.R | 2 tests/testthat/test_filter_regr.R | 1 tests/testthat/test_filter_surv.R | 2 tests/testthat/test_partial_scoring.R | 4 - 42 files changed, 218 insertions(+), 199 deletions(-)
Title: 'ggplot2' Based Plots with Statistical Details
Description: Extension of 'ggplot2', 'ggstatsplot' creates graphics with
details from statistical tests included in the plots themselves. It
provides an easier syntax to generate information-rich plots for
statistical analysis of continuous (violin plots, scatterplots,
histograms, dot plots, dot-and-whisker plots) or categorical (pie and
bar charts) data. Currently, it supports the most common types of
statistical approaches and tests: parametric, nonparametric, robust,
and Bayesian versions of t-test/ANOVA, correlation analyses,
contingency table analysis, meta-analysis, and regression analyses.
References: Patil (2021) <doi:10.21105/joss.03236>.
Author: Indrajeet Patil [cre, aut, cph]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ggstatsplot versions 0.13.6 dated 2026-04-06 and 1.0.0 dated 2026-04-23
ggstatsplot-0.13.6/ggstatsplot/R/reexports.R |only ggstatsplot-0.13.6/ggstatsplot/R/utils.R |only ggstatsplot-0.13.6/ggstatsplot/inst/WORDLIST |only ggstatsplot-0.13.6/ggstatsplot/man/reexports.Rd |only ggstatsplot-0.13.6/ggstatsplot/tests/testthat/_snaps/ggpiestats/grouped-ggpiestats-with-two-way-table.svg |only ggstatsplot-1.0.0/ggstatsplot/DESCRIPTION | 20 ggstatsplot-1.0.0/ggstatsplot/MD5 | 376 - ggstatsplot-1.0.0/ggstatsplot/NAMESPACE | 4 ggstatsplot-1.0.0/ggstatsplot/NEWS.md | 106 ggstatsplot-1.0.0/ggstatsplot/R/0-utils.R |only ggstatsplot-1.0.0/ggstatsplot/R/combine-plots.R | 11 ggstatsplot-1.0.0/ggstatsplot/R/extract-stats.R | 51 ggstatsplot-1.0.0/ggstatsplot/R/ggbarstats.R | 198 ggstatsplot-1.0.0/ggstatsplot/R/ggbetweenstats-helpers.R | 285 ggstatsplot-1.0.0/ggstatsplot/R/ggbetweenstats.R | 180 ggstatsplot-1.0.0/ggstatsplot/R/ggcoefstats.R | 183 ggstatsplot-1.0.0/ggstatsplot/R/ggcorrmat.R | 125 ggstatsplot-1.0.0/ggstatsplot/R/ggdotplotstats.R | 92 ggstatsplot-1.0.0/ggstatsplot/R/gghistostats-helpers.R | 29 ggstatsplot-1.0.0/ggstatsplot/R/gghistostats.R | 50 ggstatsplot-1.0.0/ggstatsplot/R/ggpiestats-ggbarstats-helpers.R | 224 ggstatsplot-1.0.0/ggstatsplot/R/ggpiestats.R | 152 ggstatsplot-1.0.0/ggstatsplot/R/ggscatterstats.R | 135 ggstatsplot-1.0.0/ggstatsplot/R/ggwithinstats.R | 250 ggstatsplot-1.0.0/ggstatsplot/R/globals.R | 7 ggstatsplot-1.0.0/ggstatsplot/R/theme-ggstatsplot.R | 10 ggstatsplot-1.0.0/ggstatsplot/README.md | 117 ggstatsplot-1.0.0/ggstatsplot/data/Titanic_full.rdata |binary ggstatsplot-1.0.0/ggstatsplot/inst/doc/additional.Rmd | 2 ggstatsplot-1.0.0/ggstatsplot/inst/doc/additional.html | 6 ggstatsplot-1.0.0/ggstatsplot/inst/doc/ggstatsplot.html | 2 ggstatsplot-1.0.0/ggstatsplot/man/dot-grouped_list.Rd | 2 ggstatsplot-1.0.0/ggstatsplot/man/dot-is_palette_sufficient.Rd | 13 ggstatsplot-1.0.0/ggstatsplot/man/figures/README-ggbarstats1-1.png |binary ggstatsplot-1.0.0/ggstatsplot/man/figures/README-ggbarstats2-1.png 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ggstatsplot-1.0.0/ggstatsplot/man/figures/README-ggwithinstats2-1.png |binary ggstatsplot-1.0.0/ggstatsplot/man/ggbarstats.Rd | 71 ggstatsplot-1.0.0/ggstatsplot/man/ggbetweenstats.Rd | 81 ggstatsplot-1.0.0/ggstatsplot/man/ggcoefstats.Rd | 30 ggstatsplot-1.0.0/ggstatsplot/man/ggcorrmat.Rd | 18 ggstatsplot-1.0.0/ggstatsplot/man/ggdotplotstats.Rd | 14 ggstatsplot-1.0.0/ggstatsplot/man/gghistostats.Rd | 14 ggstatsplot-1.0.0/ggstatsplot/man/ggpiestats.Rd | 55 ggstatsplot-1.0.0/ggstatsplot/man/ggscatterstats.Rd | 24 ggstatsplot-1.0.0/ggstatsplot/man/ggwithinstats.Rd | 102 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggbarstats.Rd | 50 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggbetweenstats.Rd | 24 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggcorrmat.Rd | 12 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggdotplotstats.Rd | 8 ggstatsplot-1.0.0/ggstatsplot/man/grouped_gghistostats.Rd | 8 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggpiestats.Rd | 30 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggscatterstats.Rd | 18 ggstatsplot-1.0.0/ggstatsplot/man/grouped_ggwithinstats.Rd | 31 ggstatsplot-1.0.0/ggstatsplot/tests/testthat.R | 7 ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/combine-plots/annotation-title-remains-bold-with-custom-theme.svg |only ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/combine-plots/defaults-work-as-expected.svg | 2 ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/darwin |only ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/ggbarstats.md | 4 ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/ggbarstats/changing-aesthetics-works.svg | 40 ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/ggbarstats/checking-count-labels.svg | 46 ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/ggbarstats/checking-one-way-table-with-na.svg |only ggstatsplot-1.0.0/ggstatsplot/tests/testthat/_snaps/ggbarstats/checking-one-way-table-without-na.svg |only 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Title: Hypothesis Testing for Populations of Brain Networks
Description: Non-parametric hypothesis testing for populations of brain
networks represented as graphs, following the L1-distance ANOVA
framework of Fraiman and Fraiman (2018) <doi:10.1038/s41598-018-21688-0>.
The package builds on this nonparametric graph-comparison framework,
extending it with procedures for edge-level inference and identification
of the specific connections driving group differences. In particular, it
provides utilities to compute central (mean) graphs, pairwise Manhattan
distances between adjacency matrices, the group test statistic T, and a
fast permutation procedure to identify the critical edges that drive
between-group differences. Helper functions to generate synthetic
community-structured graphs and to visualise brain networks with
communities are also included.
Author: Maximiliano Martino [aut, cre] ,
Daniel Fraiman [aut]
Maintainer: Maximiliano Martino <maxii.martino@gmail.com>
Diff between BrainNetTest versions 0.1.0 dated 2026-04-21 and 0.2.0 dated 2026-04-23
BrainNetTest-0.1.0/BrainNetTest/R/plot_graph_with_communities.R |only BrainNetTest-0.1.0/BrainNetTest/R/plot_graphs_grid.R |only BrainNetTest-0.1.0/BrainNetTest/man/plot_graph_with_communities.Rd |only BrainNetTest-0.1.0/BrainNetTest/man/plot_graphs_grid.Rd |only BrainNetTest-0.1.0/BrainNetTest/tests/testthat/test-plot_graph_with_communities.R |only BrainNetTest-0.1.0/BrainNetTest/tests/testthat/test-plot_graphs_grid.R |only BrainNetTest-0.2.0/BrainNetTest/DESCRIPTION | 8 ++--- BrainNetTest-0.2.0/BrainNetTest/MD5 | 16 +++------- BrainNetTest-0.2.0/BrainNetTest/NAMESPACE | 4 -- BrainNetTest-0.2.0/BrainNetTest/NEWS.md | 9 +++++ BrainNetTest-0.2.0/BrainNetTest/inst/doc/BrainNetTest_CommunityStructures.html | 4 +- BrainNetTest-0.2.0/BrainNetTest/inst/doc/BrainNetTest_Introduction.html | 4 +- 12 files changed, 22 insertions(+), 23 deletions(-)
Title: Bayesian Network Modeling and Analysis
Description: A "Shiny"" web application for creating interactive Bayesian Network models,
learning the structure and parameters of Bayesian networks, and utilities for classic
network analysis.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between BayesianNetwork versions 0.3.2 dated 2024-07-12 and 0.4 dated 2026-04-23
BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Dashboard.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Measures.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Parameters.PNG |only BayesianNetwork-0.3.2/BayesianNetwork/inst/images/Structure.PNG |only BayesianNetwork-0.4/BayesianNetwork/DESCRIPTION | 18 BayesianNetwork-0.4/BayesianNetwork/MD5 | 45 - BayesianNetwork-0.4/BayesianNetwork/NEWS.md | 16 BayesianNetwork-0.4/BayesianNetwork/R/BayesianNetwork-package.R |only BayesianNetwork-0.4/BayesianNetwork/R/BayesianNetwork.R | 5 BayesianNetwork-0.4/BayesianNetwork/README.md | 136 --- BayesianNetwork-0.4/BayesianNetwork/build |only BayesianNetwork-0.4/BayesianNetwork/inst/bn/figure/unnamed-chunk-3-1.png |binary BayesianNetwork-0.4/BayesianNetwork/inst/bn/figure/unnamed-chunk-6-1.png |binary BayesianNetwork-0.4/BayesianNetwork/inst/bn/figure/unnamed-chunk-8-1.png |binary BayesianNetwork-0.4/BayesianNetwork/inst/bn/global.R | 16 BayesianNetwork-0.4/BayesianNetwork/inst/bn/server.R | 423 +++++----- BayesianNetwork-0.4/BayesianNetwork/inst/bn/ui.R | 216 +---- BayesianNetwork-0.4/BayesianNetwork/inst/doc |only BayesianNetwork-0.4/BayesianNetwork/inst/images/Dashboard.png |only BayesianNetwork-0.4/BayesianNetwork/inst/images/Inference.png |binary BayesianNetwork-0.4/BayesianNetwork/inst/images/Measures.png |only BayesianNetwork-0.4/BayesianNetwork/inst/images/Parameters.png |only BayesianNetwork-0.4/BayesianNetwork/inst/images/Structure.png |only BayesianNetwork-0.4/BayesianNetwork/man/BayesianNetwork-package.Rd |only BayesianNetwork-0.4/BayesianNetwork/man/BayesianNetwork.Rd | 4 BayesianNetwork-0.4/BayesianNetwork/man/figures/logo.png |binary BayesianNetwork-0.4/BayesianNetwork/tests |only BayesianNetwork-0.4/BayesianNetwork/vignettes |only 28 files changed, 395 insertions(+), 484 deletions(-)
More information about BayesianNetwork at CRAN
Permanent link
Title: Bayesian Exposure-Response Analysis Tools
Description: Suite of tools that facilitate
exposure-response analysis using Bayesian methods. The package
provides a streamlined workflow for fitting types of models that are
commonly used in exposure-response analysis - linear and Emax for continuous
endpoints, logistic linear and logistic Emax for binary endpoints, as well
as performing simulation and visualization. Learn more about the workflow
at <https://genentech.github.io/BayesERbook/>.
Author: Kenta Yoshida [aut, cre] ,
Francois Mercier [aut] ,
Danielle Navarro [aut] ,
Genentech, Inc. [cph]
Maintainer: Kenta Yoshida <yoshida.kenta.6@gmail.com>
Diff between BayesERtools versions 0.2.4 dated 2025-10-02 and 0.2.5 dated 2026-04-23
DESCRIPTION | 6 MD5 | 155 +- NAMESPACE | 210 +-- NEWS.md | 102 + R/BayesERtools-package.R | 12 R/build_spec_coveff.R | 842 +++++++------- R/coveff.R | 896 +++++++-------- R/dev_ermod_emax.R | 688 +++++------ R/dev_ermod_lin.R | 1654 ++++++++++++++-------------- R/ermod-class.R | 730 ++++++------ R/ermod-methods.R | 750 ++++++------ R/ersim-class.R | 152 +- R/ersim-methods.R | 218 +-- R/eval_ermod.R | 278 ++-- R/loo_kfold.R | 496 ++++---- R/p_direction.R | 164 +- R/plot_ermod.R | 1702 ++++++++++++++++------------- R/plot_ermod_exp_cov_sel.R | 346 ++--- R/s3_generics.R | 108 - R/sim_ermod.R | 960 ++++++++-------- R/yyy.R | 323 +++-- README.md | 448 +++---- build/vignette.rds |binary data/d_sim_placebo.rda |only inst/doc/overview_of_the_package.R | 120 +- inst/doc/overview_of_the_package.Rmd | 266 ++-- inst/doc/overview_of_the_package.html | 1567 +++++++++++++------------- man/BayesERtools-package.Rd | 72 - man/as_draws.Rd | 104 - man/build_spec_coveff.Rd | 172 +- man/calc_ersim_med_qi.Rd | 40 man/combine_er_components.Rd |only man/d_sim_binom_cov.Rd | 116 - man/d_sim_emax.Rd | 78 - man/d_sim_lin.Rd | 70 - man/d_sim_placebo.Rd |only man/dev_ermod_bin.Rd | 172 +- man/dev_ermod_bin_cov_functions.Rd | 180 +-- man/dev_ermod_bin_cov_sel.Rd | 236 ++-- man/dev_ermod_bin_exp_sel.Rd | 164 +- man/dev_ermod_emax.Rd | 256 ++-- man/dev_ermod_emax_exp_sel.Rd | 214 +-- man/edit_spec_coveff.Rd | 210 +-- man/ermod_cov_sel_method.Rd | 50 man/ermod_exp_sel_method.Rd | 50 man/ermod_method.Rd | 84 - man/ersim_method.Rd | 56 man/eval_ermod.Rd | 146 +- man/extract_coef_exp_ci.Rd | 54 man/extract_ermod.Rd | 104 - man/extract_ersim.Rd | 104 - man/extract_method.Rd | 104 - man/figures/logo_svg.svg | 1870 ++++++++++++++++---------------- man/kfold.Rd | 126 +- man/loo.Rd | 56 man/p_direction.Rd | 146 +- man/plot_cov_sel.Rd | 102 - man/plot_coveff.Rd | 154 +- man/plot_er.Rd | 342 ++--- man/plot_er_exp_sel.Rd | 74 - man/plot_er_gof.Rd | 257 ++-- man/print_coveff.Rd | 150 +- man/prior_summary.Rd | 44 man/sim_coveff.Rd | 142 +- man/sim_er.Rd | 172 +- man/sim_er_new_exp.Rd | 226 +-- man/sim_er_new_exp_marg.Rd | 224 +-- tests/testthat.R | 24 tests/testthat/test-build_spec_coveff.R | 166 +- tests/testthat/test-coveff.R | 346 ++--- tests/testthat/test-dev_ermod_emax.R | 456 +++---- tests/testthat/test-dev_ermod_lin.R | 923 +++++++-------- tests/testthat/test-ermod-methods.R | 298 ++--- tests/testthat/test-eval_ermod.R | 268 ++-- tests/testthat/test-loo_kfold.R | 283 ++-- tests/testthat/test-p_direction.R | 104 - tests/testthat/test-plot_ermod.R | 548 +++++---- tests/testthat/test-sim_ermod.R | 374 +++--- vignettes/data/supported_models.csv | 16 vignettes/overview_of_the_package.Rmd | 266 ++-- 80 files changed, 12322 insertions(+), 11864 deletions(-)
Title: Life History Metrics from Matrix Population Models
Description: Functions for calculating life history metrics using matrix
population models ('MPMs'). Described in Jones et al. (2021)
<doi:10.1101/2021.04.26.441330>.
Author: Patrick Barks [aut] ,
Danny Buss [ctb],
Pol Capdevila [aut] ,
Hal Caswell [aut] ,
Judy P. Che-Castaldo [aut] ,
Richard A. Hinrichsen [aut] ,
John Jackson [aut] ,
Tamora James [aut] ,
Owen Jones [aut, cre] ,
Sam Levin [aut] ,
William K. Petry [aut] ,
[...truncated...]
Maintainer: Owen Jones <jones@biology.sdu.dk>
Diff between Rage versions 1.8.0 dated 2025-01-07 and 1.9.0 dated 2026-04-23
DESCRIPTION | 52 ++++++----- MD5 | 136 +++++++++++++++-------------- NAMESPACE | 3 NEWS.md | 14 ++ R/entropy_d.R | 32 +++--- R/entropy_k_stage.R | 36 ++++++- R/evenness_shannon.R |only R/gen_time.R | 16 +-- R/is_leslie_matrix.R | 48 +++++++--- R/leslie_collapse.R | 2 R/mature_.R | 10 -- R/mpm_collapse.R | 11 ++ R/mpm_to_.R | 19 ++-- R/mpm_to_table.R | 52 +++++------ R/net_repro_rate.R | 26 +++-- R/perturb_trans.R | 1 R/perturb_vr.R | 5 + R/plot_life_cycle.R | 44 ++++++--- R/scale_mpm_to_lambda1.R |only R/stage_at_death_dist.R |only R/utils.R | 12 +- R/vr.R | 6 + R/vr_vec.R | 5 + build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 4 inst/doc/a01_GettingStarted.html | 47 +++++----- inst/doc/a02_VitalRates.html | 9 + inst/doc/a03_LifeHistoryTraits.html | 9 + inst/doc/a04_AgeFromStage.html | 9 + inst/doc/a05_SuggestedQualityControl.html | 4 man/Rage-package.Rd | 1 man/age_from_stage.Rd | 10 +- man/entropy_d.Rd | 5 - man/entropy_k.Rd | 3 man/entropy_k_age.Rd | 3 man/entropy_k_stage.Rd | 38 ++++++-- man/evenness_shannon.Rd |only man/gen_time.Rd | 8 + man/is_leslie_matrix.Rd | 47 +++++++--- man/leslie_collapse.Rd | 1 man/life_elas.Rd | 3 man/life_expect.Rd | 3 man/longevity.Rd | 3 man/mpm_collapse.Rd | 5 + man/mpm_rearrange.Rd | 1 man/mpm_split.Rd | 1 man/mpm_standardize.Rd | 1 man/mpm_to_table.Rd | 11 +- man/name_stages.Rd | 1 man/net_repro_rate.Rd | 22 ++-- man/perturb_vr.Rd | 6 + man/plot_life_cycle.Rd | 10 +- man/repro_maturity.Rd | 3 man/repro_stages.Rd | 1 man/scale_mpm_to_lambda1.Rd |only man/shape_rep.Rd | 3 man/shape_surv.Rd | 3 man/stage_at_death_dist.Rd |only man/standard_stages.Rd | 3 man/vr.Rd | 6 + man/vr_vec.Rd | 6 + tests/testthat/test-gen_time.R | 12 ++ tests/testthat/test-is_leslie_matrix.R | 17 +++ tests/testthat/test-leslie_collapse.R | 4 tests/testthat/test-mature_.R | 12 ++ tests/testthat/test-mpm_collapse.R | 38 ++++++++ tests/testthat/test-mpm_to_.R | 11 ++ tests/testthat/test-mpm_to_table.R | 21 +++- tests/testthat/test-net_repro_rate.R | 10 ++ tests/testthat/test-plot_life_cycle.R | 9 + tests/testthat/test-scale_mpm_to_lambda1.R |only tests/testthat/test-stage_at_death_dist.R |only 73 files changed, 656 insertions(+), 298 deletions(-)
Title: Heteroskedastic Gaussian Process Modeling and Design under
Replication
Description: Performs Gaussian process regression with heteroskedastic noise following the model by Binois, M., Gramacy, R., Ludkovski, M. (2016) <doi:10.48550/arXiv.1611.05902>, with implementation details in Binois, M. & Gramacy, R. B. (2021) <doi:10.18637/jss.v098.i13>. The input dependent noise is modeled as another Gaussian process. Replicated observations are encouraged as they yield computational savings. Sequential design procedures based on the integrated mean square prediction error and lookahead heuristics are provided, and notably fast update functions when adding new observations.
Author: Mickael Binois [aut, cre],
Robert B. Gramacy [aut]
Maintainer: Mickael Binois <mickael.binois@inria.fr>
Diff between hetGP versions 1.1.8 dated 2025-05-08 and 1.1.9 dated 2026-04-23
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS | 5 +++++ R/hetGP.R | 31 +++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/hetGP_vignette.R | 13 +++++++------ inst/doc/hetGP_vignette.Rnw | 25 +++++++++++++------------ inst/doc/hetGP_vignette.pdf |binary man/mleHetGP.Rd | 8 +++++--- vignettes/hetGP_vignette.Rnw | 25 +++++++++++++------------ vignettes/refs.bib | 21 ++++++++++----------- 11 files changed, 89 insertions(+), 69 deletions(-)
Title: Fungal Assignment Pipeline
Description: Fungi are ubiquitous in Earth's wonderfully diverse ecosystems. The 'ClassifyITS' package aids in the taxonomic classification of environmental internal transcribed spacer (ITS) short-read barcoding data. Unlike previous methods, it employs taxon-specific e-value and percent identity cutoffs at each taxonomic rank from kingdom to species. The package takes a conservative approach and outputs both graphics and user-friendly files to help users manually inspect fungal operational taxonomic units (OTUs) that fail classification at relevant levels (e.g., Phylum). 'ClassifyITS' is based on taxonomic cutoff criteria from "The Global Soil Mycobiome consortium dataset for boosting fungal diversity research" (Fungal Diversity, Tedersoo, 2021, <doi:10.1007/s13225-021-00493-7>) and "Best practices in metabarcoding of fungi: From experimental design to results" (Molecular Ecology, Tedersoo, 2022, <doi:10.1111/mec.16460>).
Author: Quinn Moon [aut, cre]
Maintainer: Quinn Moon <qmoon@umich.edu>
Diff between ClassifyITS versions 0.1.0 dated 2026-04-09 and 1.0.2 dated 2026-04-23
DESCRIPTION | 8 MD5 | 26 +-- NEWS.md | 6 R/Best_Assingment.R | 264 +++++++++++++++++++++----------- R/Consensus_taxonomy.R | 77 +++++++-- R/Easy_Assingments.R | 288 ++++++++++++++++++++--------------- R/QC.R | 1 R/pipeline_wrapper.R | 34 +++- R/zzz.R | 2 README.md | 14 + inst/doc/ClassifyITS.html | 50 +++--- man/best_hit_taxonomy_assignment.Rd | 16 + man/consensus_taxonomy_assignment.Rd | 1 man/easy_assignments.Rd | 2 14 files changed, 503 insertions(+), 286 deletions(-)
Title: Win Time Methods for Time-to-Event Data in Clinical Trials
Description: Performs an analysis of time-to-event clinical trial data using various "win time" methods,
including 'ewt', 'ewtr', 'rmt', 'ewtp', 'rewtp', 'ewtpr', 'rewtpr', 'max', 'wtr', 'rwtr', 'pwt', and 'rpwt'. These methods are used to calculate and compare
treatment effects on ordered composite endpoints. The package handles event times, event indicators, and treatment
arm indicators and supports calculations on observed and resampled data. Detailed explanations of each method and
usage examples are provided in "Use of win time for ordered composite endpoints in clinical trials," by Troendle et al.
(2024)<https://pubmed.ncbi.nlm.nih.gov/38417455/>. For more information, see the package documentation or the vignette titled "Introduction to wintime."
Author: James Troendle [aut, cre],
Samuel Lawrence [aut]
Maintainer: James Troendle <james.troendle@nih.gov>
Diff between wintime versions 0.4.3 dated 2026-01-28 and 0.4.4 dated 2026-04-23
DESCRIPTION | 8 MD5 | 43 +- R/ewt.R | 69 ++- R/ewtp.R | 217 ++++++---- R/ewtpr.R | 577 ++++++++++++++++++---------- R/ewtr.R | 123 +++++ R/km.R | 349 ++++++++++++++++ R/markov.R | 28 + R/rewtp.R | 179 ++++---- R/rewtpr.R | 337 ++++++++++------ R/rmt.R | 71 ++- R/wintime.R | 91 +++- README.md |only inst/doc/wintime_vignette.html | 204 +++++---- man/EWT.Rd | 2 man/EWTP.Rd | 3 man/EWTPR.Rd | 8 man/EWTR.Rd | 3 man/REWTP.Rd | 3 man/REWTPR.Rd | 8 man/RMT.Rd | 2 man/wintime.Rd | 50 ++ tests/testthat/test-main_wintime_function.R | 29 - 23 files changed, 1732 insertions(+), 672 deletions(-)
Title: Interface to 'TA-Lib' for Technical Analysis and Candlestick
Patterns
Description: Interface to the 'TA-Lib' (Technical Analysis Library) 'C'
library, providing access to 150+ indicators (e.g. Average Directional
Movement Index (ADX), Moving Average Convergence Divergence (MACD),
Relative Strength Index (RSI), Stochastic Oscillator, Bollinger Bands),
candlestick pattern recognition, and rolling-window utilities. Core
computations are implemented in 'C' for fast Open-High-Low-Close-Volume
(OHLCV) time-series feature engineering and rule-based signal
generation, with optional interactive visualization via 'plotly'.
Author: Serkan Korkmaz [cre, aut, cph] ,
Mario Fortier [cph] )
Maintainer: Serkan Korkmaz <serkor1@duck.com>
Diff between talib versions 0.9-0 dated 2026-04-21 and 0.9-1 dated 2026-04-23
talib-0.9-0/talib/src/ta_MA.c |only talib-0.9-0/talib/src/ta_MA.h |only talib-0.9-1/talib/DESCRIPTION | 10 talib-0.9-1/talib/MD5 | 214 ++++++++-- talib-0.9-1/talib/NAMESPACE | 1 talib-0.9-1/talib/NEWS.md | 16 talib-0.9-1/talib/R/ta_DEMA.R | 51 +- talib-0.9-1/talib/R/ta_EMA.R | 51 +- talib-0.9-1/talib/R/ta_KAMA.R | 51 +- talib-0.9-1/talib/R/ta_MACDEXT.R | 42 - talib-0.9-1/talib/R/ta_MAMA.R | 86 ++-- talib-0.9-1/talib/R/ta_SMA.R | 51 +- talib-0.9-1/talib/R/ta_STOCHRSI.R | 85 ++- talib-0.9-1/talib/R/ta_T3.R | 69 ++- talib-0.9-1/talib/R/ta_TEMA.R | 51 +- talib-0.9-1/talib/R/ta_TRIMA.R | 51 +- talib-0.9-1/talib/R/ta_WMA.R | 51 +- talib-0.9-1/talib/README.md | 46 +- talib-0.9-1/talib/configure | 111 +++-- talib-0.9-1/talib/configure.win | 21 talib-0.9-1/talib/inst/doc/candlestick.html | 8 talib-0.9-1/talib/inst/doc/charting.html | 94 ++-- talib-0.9-1/talib/inst/doc/talib.html | 4 talib-0.9-1/talib/man/double_exponential_moving_average.Rd | 2 talib-0.9-1/talib/man/exponential_moving_average.Rd | 2 talib-0.9-1/talib/man/extended_moving_average_convergence_divergence.Rd | 6 talib-0.9-1/talib/man/figures/README-charting-1.png |binary talib-0.9-1/talib/man/kaufman_adaptive_moving_average.Rd | 2 talib-0.9-1/talib/man/mesa_adaptive_moving_average.Rd | 15 talib-0.9-1/talib/man/simple_moving_average.Rd | 2 talib-0.9-1/talib/man/stochastic_relative_strength_index.Rd | 12 talib-0.9-1/talib/man/t3_exponential_moving_average.Rd | 11 talib-0.9-1/talib/man/triangular_moving_average.Rd | 2 talib-0.9-1/talib/man/triple_exponential_moving_average.Rd | 2 talib-0.9-1/talib/man/weighted_moving_average.Rd | 2 talib-0.9-1/talib/src/api.h | 18 talib-0.9-1/talib/src/init.c | 12 talib-0.9-1/talib/src/lib.c | 6 talib-0.9-1/talib/src/ta_DEMA.c |only talib-0.9-1/talib/src/ta_EMA.c |only talib-0.9-1/talib/src/ta_KAMA.c |only talib-0.9-1/talib/src/ta_MAMA.c |only talib-0.9-1/talib/src/ta_SMA.c |only talib-0.9-1/talib/src/ta_STOCHRSI.c | 60 -- talib-0.9-1/talib/src/ta_T3.c |only talib-0.9-1/talib/src/ta_TEMA.c |only talib-0.9-1/talib/src/ta_TRIMA.c |only talib-0.9-1/talib/src/ta_WMA.c |only talib-0.9-1/talib/tests/parity |only talib-0.9-1/talib/tests/testthat/test-moving_average_spec.R |only talib-0.9-1/talib/tests/testthat/test-ta_STOCHRSI.R | 27 + 51 files changed, 866 insertions(+), 479 deletions(-)
Title: 'RethinkDB' Client
Description: A full-featured 'RethinkDB' <https://rethinkdb.com/> client for R; allows users to store JSON-serialised data in a robust, distributed no-SQL system, use rich queries and react to data changes in real-time.
Author: Miron B. Kursa [aut, cre]
Maintainer: Miron B. Kursa <m@mbq.me>
This is a re-admission after prior archival of version 1.1.0 dated 2017-11-13
Diff between rethinker versions 1.1.0 dated 2017-11-13 and 2.0.0 dated 2026-04-23
rethinker-1.1.0/rethinker/tests/testthat/testTransactions.R |only rethinker-2.0.0/rethinker/DESCRIPTION | 28 ++++++++---- rethinker-2.0.0/rethinker/MD5 | 7 +-- rethinker-2.0.0/rethinker/inst/NEWS | 3 + rethinker-2.0.0/rethinker/man/openConnection.Rd | 3 - 5 files changed, 26 insertions(+), 15 deletions(-)
Title: Read Data from Relational Database Management Systems and Health
Information Systems
Description: Import Data from Relational Database Management Systems
(RDBMS) and Health Information Systems ('HIS'). The current version of the
package supports importing data from RDBMS including 'MS SQL', 'MySQL',
'PostGRESQL', and 'SQLite', as well as from two HIS platforms: 'DHIS2' and
'SORMAS'.
Author: Karim Mane [aut] ,
Emmanuel Kabuga [aut] ,
Bubacarr Bah [aut, cre] ,
Bankole Ahadzie [ctb],
Nuredin Mohammed [ctb],
Abdoelnaser Degoot [ctb],
Hugo Gruson [rev] ,
Pratik Gupte [rev] ,
Andree Valle-Campos [rev] ,
London School of Hygiene and Tropical M [...truncated...]
Maintainer: Bubacarr Bah <Bubacarr.Bah1@lshtm.ac.uk>
Diff between readepi versions 1.0.5 dated 2026-04-22 and 1.0.6 dated 2026-04-23
DESCRIPTION | 6 MD5 | 18 inst/doc/design_principle.html | 160 inst/doc/query_parameters.Rmd | 2 inst/doc/query_parameters.html | 14 inst/doc/readepi.R | 290 inst/doc/readepi.Rmd | 55 inst/doc/readepi.html |58759 ----------------------------------------- vignettes/query_parameters.Rmd | 2 vignettes/readepi.Rmd | 55 10 files changed, 384 insertions(+), 58977 deletions(-)
Title: Iterated Racing for Automatic Algorithm Configuration
Description: Iterated race is an extension of the Iterated F-race method for
the automatic configuration of optimization algorithms, that is,
(offline) tuning their parameters by finding the most appropriate
settings given a set of instances of an optimization problem.
M. López-Ibáñez, J. Dubois-Lacoste, L. Pérez Cáceres, T. Stützle,
and M. Birattari (2016) <doi:10.1016/j.orp.2016.09.002>.
Author: Manuel Lopez-Ibanez [aut, cre] ,
Jeremie Dubois-Lacoste [aut],
Leslie Perez Caceres [aut],
Thomas Stuetzle [aut],
Mauro Birattari [aut],
Eric Yuan [ctb],
Prasanna Balaprakash [ctb],
Nguyen Dang [ctb]
Maintainer: Manuel Lopez-Ibanez <manuel.lopez-ibanez@manchester.ac.uk>
Diff between irace versions 4.4.2 dated 2026-04-23 and 4.4.3 dated 2026-04-23
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/scenario.R | 6 ++++++ R/version.R | 2 +- build/partial.rdb |binary inst/doc/irace-package.pdf |binary tests/testthat/test-bug-10.R | 3 ++- tests/testthat/test-bug-90.R | 1 + tests/testthat/test-bug1col.R | 1 + 10 files changed, 27 insertions(+), 14 deletions(-)
Title: Detection and Reconstruction of Muscle Fibers from diceCT Image
Data
Description: Reconstruction of muscle fibers from image stacks using textural analysis. Includes functions for tracking, smoothing, cleaning, plotting and exporting muscle fibers. Also calculates basic fiber properties (e.g., length, angle and curvature).
Author: Jessica Arbour [aut, cre]
Maintainer: Jessica Arbour <jessica.arbour@mtsu.edu>
Diff between GoodFibes versions 0.1.13 dated 2026-02-19 and 1.0.0 dated 2026-04-23
DESCRIPTION | 12 ++--- MD5 | 52 +++++++++++++------------ NAMESPACE | 8 ++- R/color.scale.R | 19 ++++++--- R/fiber.angle.R | 95 ++++++++++++++++++++++++++--------------------- R/find.endpoints.R |only R/fuse.fibers.auto.R | 6 +- R/muscle.plot.stl.R | 28 +++++++++++-- build/partial.rdb |binary man/GoodFibes-package.Rd | 2 man/check.overlap.Rd | 2 man/color.scale.Rd | 17 ++++---- man/crop.stack.Rd | 2 man/equalize.stack.Rd | 2 man/fiber.angle.Rd | 29 +++++++------- man/fiber.curve.Rd | 2 man/fiber.lengths.Rd | 2 man/fibers.smoothed.Rd | 2 man/find.endpoints.Rd |only man/fuse.fibers.Rd | 3 - man/fuse.fibers.auto.Rd | 2 man/good.fibes.Rd | 2 man/muscle.plot.Rd | 3 - man/muscle.plot.multi.Rd | 3 - man/muscle.plot.stl.Rd | 19 ++++++--- man/quality.check.Rd | 3 - man/sequencePlot.Rd | 3 - man/thresholdPlot.Rd | 7 +-- 28 files changed, 189 insertions(+), 136 deletions(-)
Title: Inequality Measures for Weighted Data
Description: Computes inequality measures of a given variable taking into account weights. Suitable for ratio, interval and ordered scale. Includes Gini, Theil, Leti index, Palma ratio, 20:20 ratio, Allison and Foster index, Jenkins index, Cowell and Flechaire index, Abul Naga and Yalcin index, Apouey index, Blair and Lacy index. Bootstrap provides distribution of inequality measures enabling significance tests.
Author: Sebastian Wojcik [aut, cre] ,
Agnieszka Giemza [aut],
Katarzyna Machowska [aut],
Jaroslaw Napora [aut]
Maintainer: Sebastian Wojcik <S.Wojcik@stat.gov.pl>
Diff between wINEQ versions 1.2.1 dated 2024-09-09 and 1.2.2 dated 2026-04-23
DESCRIPTION | 13 MD5 | 17 NAMESPACE | 1 NEWS.md | 20 R/inequalityMeasure.R | 2346 +++++++++++++++++++++++----------------------- R/inequalityMeasureBoot.R | 7 data/Tourism.rda |binary data/Well_being.rda |binary man/CEO_to_Worker.Rd |only man/ineq_weighted.Rd | 4 10 files changed, 1234 insertions(+), 1174 deletions(-)
Title: Iterated Racing for Automatic Algorithm Configuration
Description: Iterated race is an extension of the Iterated F-race method for
the automatic configuration of optimization algorithms, that is,
(offline) tuning their parameters by finding the most appropriate
settings given a set of instances of an optimization problem.
M. López-Ibáñez, J. Dubois-Lacoste, L. Pérez Cáceres, T. Stützle,
and M. Birattari (2016) <doi:10.1016/j.orp.2016.09.002>.
Author: Manuel Lopez-Ibanez [aut, cre] ,
Jeremie Dubois-Lacoste [aut],
Leslie Perez Caceres [aut],
Thomas Stuetzle [aut],
Mauro Birattari [aut],
Eric Yuan [ctb],
Prasanna Balaprakash [ctb],
Nguyen Dang [ctb]
Maintainer: Manuel Lopez-Ibanez <manuel.lopez-ibanez@manchester.ac.uk>
Diff between irace versions 4.4.1 dated 2026-03-28 and 4.4.2 dated 2026-04-23
DESCRIPTION | 6 +++--- MD5 | 13 +++++++------ NEWS.md | 8 ++++++-- R/race.R | 5 +++-- R/version.R | 2 +- build/partial.rdb |binary inst/doc/irace-package.pdf |binary tests/testthat/test-bug-90.R |only 8 files changed, 20 insertions(+), 14 deletions(-)
Title: Estimating Bivariate Dependency from Marginal Data
Description: Provides statistical methods for estimating bivariate dependency (correlation) from marginal summary statistics across multiple studies.
The package supports three modules of bivariate joint distribution estimated from marginal summary data: (1) two binary, (2) two continuous, (3) one binary and one continuous
These methods enable privacy-preserving joint estimation when individual-level data are unavailable.
The approaches are detailed in Shang, Tsao, and Zhang (2025a) <doi:10.48550/arXiv.2505.03995> and Shang, Tsao, and Zhang (2025b) <doi:10.48550/arXiv.2508.02057>.
Author: Longwen Shang [aut],
Min Tsao [aut],
Xuekui Zhang [aut, cre, fnd]
Maintainer: Xuekui Zhang <ubcxzhang@gmail.com>
Diff between ebdm versions 3.0.0 dated 2025-10-16 and 3.0.1 dated 2026-04-23
DESCRIPTION | 19 +++++++++---------- MD5 | 2 +- 2 files changed, 10 insertions(+), 11 deletions(-)
Title: Direct Labels for Multicolor Plots
Description: An extensible framework
for automatically placing direct labels onto multicolor 'lattice' or
'ggplot2' plots.
Label positions are described using Positioning Methods
which can be re-used across several different plots.
There are heuristics for examining "trellis" and "ggplot" objects
and inferring an appropriate Positioning Method.
Author: Toby Dylan Hocking [aut, cre]
Maintainer: Toby Dylan Hocking <toby.hocking@r-project.org>
Diff between directlabels versions 2025.6.24 dated 2025-06-24 and 2026.4.23 dated 2026-04-23
DESCRIPTION | 13 ++-- MD5 | 26 ++++---- NEWS | 10 +++ R/doc.R | 28 ++++----- R/ggplot2.R | 3 R/utility.function.R | 41 ++++++++++++- build/vignette.rds |binary data/prostate.RData |only inst/doc/examples.R | 22 ++++++- inst/doc/examples.Rmd | 27 +++++++- inst/doc/examples.html | 96 ++++++++++++++++--------------- man/dl.add.Rd |only man/positioning.functions.Rd | 118 +++++++++++++++++---------------------- man/prostate.Rd |only tests/testthat/test_substitute.R |only vignettes/examples.Rmd | 27 +++++++- 16 files changed, 259 insertions(+), 152 deletions(-)
Title: Tidy Dataframes and Expressions with Statistical Details
Description: Utilities for producing dataframes with rich details for the
most common types of statistical approaches and tests: parametric,
nonparametric, robust, and Bayesian t-test, one-way ANOVA, correlation
analyses, contingency table analyses, and meta-analyses. The functions
are pipe-friendly and provide a consistent syntax to work with tidy
data. These dataframes additionally contain expressions with
statistical details, and can be used in graphing packages. This
package also forms the statistical processing backend for
'ggstatsplot'. References: Patil (2021) <doi:10.21105/joss.03236>.
Author: Indrajeet Patil [cre, aut, cph]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between statsExpressions versions 1.7.4 dated 2026-04-05 and 2.0.0 dated 2026-04-23
statsExpressions-1.7.4/statsExpressions/R/reexports.R |only statsExpressions-1.7.4/statsExpressions/inst/WORDLIST |only statsExpressions-1.7.4/statsExpressions/man/examples/examples-contingency-table.R |only statsExpressions-1.7.4/statsExpressions/man/examples/examples-two-sample-test-between.R |only statsExpressions-1.7.4/statsExpressions/man/examples/examples-two-sample-test-within.R |only statsExpressions-1.7.4/statsExpressions/man/p_adjust_text.Rd |only statsExpressions-1.7.4/statsExpressions/man/reexports.Rd |only statsExpressions-2.0.0/statsExpressions/DESCRIPTION | 16 statsExpressions-2.0.0/statsExpressions/MD5 | 150 +- statsExpressions-2.0.0/statsExpressions/NAMESPACE | 12 statsExpressions-2.0.0/statsExpressions/NEWS.md | 19 statsExpressions-2.0.0/statsExpressions/R/add-expression-col.R | 416 +++-- statsExpressions-2.0.0/statsExpressions/R/centrality-description.R | 158 +- statsExpressions-2.0.0/statsExpressions/R/contingency-table.R | 426 +++-- statsExpressions-2.0.0/statsExpressions/R/corr-test.R | 119 - statsExpressions-2.0.0/statsExpressions/R/data.R | 172 +- statsExpressions-2.0.0/statsExpressions/R/globals.R | 93 - statsExpressions-2.0.0/statsExpressions/R/helpers-easystats.R | 158 +- statsExpressions-2.0.0/statsExpressions/R/long-to-wide-converter.R | 193 +- statsExpressions-2.0.0/statsExpressions/R/meta-analysis.R | 225 +-- statsExpressions-2.0.0/statsExpressions/R/one-sample-test.R | 233 +-- statsExpressions-2.0.0/statsExpressions/R/oneway-anova.R | 624 ++++---- statsExpressions-2.0.0/statsExpressions/R/pairwise-comparisons.R | 641 ++++---- statsExpressions-2.0.0/statsExpressions/R/pairwise-contingency-table.R |only statsExpressions-2.0.0/statsExpressions/R/print.R | 18 statsExpressions-2.0.0/statsExpressions/R/statsExpressions-package.R | 64 statsExpressions-2.0.0/statsExpressions/R/switch-functions.R | 208 +- statsExpressions-2.0.0/statsExpressions/R/tidy-model-expressions.R | 268 +-- statsExpressions-2.0.0/statsExpressions/R/two-sample-test.R | 408 +++-- statsExpressions-2.0.0/statsExpressions/README.md | 73 statsExpressions-2.0.0/statsExpressions/inst/doc/statsExpressions.R | 68 statsExpressions-2.0.0/statsExpressions/inst/doc/statsExpressions.Rmd | 102 + statsExpressions-2.0.0/statsExpressions/inst/doc/statsExpressions.html | 169 +- statsExpressions-2.0.0/statsExpressions/inst/doc/stats_details.Rmd | 21 statsExpressions-2.0.0/statsExpressions/inst/doc/stats_details.html | 55 statsExpressions-2.0.0/statsExpressions/man/contingency_table.Rd | 160 +- statsExpressions-2.0.0/statsExpressions/man/examples/examples-centrality-description.R | 36 statsExpressions-2.0.0/statsExpressions/man/examples/examples-corr-test.R | 36 statsExpressions-2.0.0/statsExpressions/man/examples/examples-one-sample-test.R | 42 statsExpressions-2.0.0/statsExpressions/man/one_sample_test.Rd | 6 statsExpressions-2.0.0/statsExpressions/man/oneway_anova.Rd | 13 statsExpressions-2.0.0/statsExpressions/man/pairwise_comparisons.Rd | 8 statsExpressions-2.0.0/statsExpressions/man/pairwise_contingency_table.Rd |only statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/functionality.Rmd | 1 statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/meta_analysis.Rmd | 4 statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/one_sample_test.Rmd | 2 statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/oneway_anova.Rmd | 13 statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/pairwise_comparisons.Rmd | 4 statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/pairwise_contingency_table.Rmd |only statsExpressions-2.0.0/statsExpressions/man/rmd-fragments/two_sample_test.Rmd | 4 statsExpressions-2.0.0/statsExpressions/man/two_sample_test.Rd | 47 statsExpressions-2.0.0/statsExpressions/tests/testthat.R | 10 statsExpressions-2.0.0/statsExpressions/tests/testthat/_snaps/contingency-table.md | 22 statsExpressions-2.0.0/statsExpressions/tests/testthat/_snaps/pairwise-contingency-table.md |only statsExpressions-2.0.0/statsExpressions/tests/testthat/helper-state.R | 26 statsExpressions-2.0.0/statsExpressions/tests/testthat/helper.R | 340 ++-- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-centrality-description.R | 113 - statsExpressions-2.0.0/statsExpressions/tests/testthat/test-contingency-table.R | 434 +++-- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-corr-test.R | 264 +-- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-long-to-wide-converter.R | 351 ++-- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-meta-random-bayes.R | 37 statsExpressions-2.0.0/statsExpressions/tests/testthat/test-meta-random-parametric.R | 27 statsExpressions-2.0.0/statsExpressions/tests/testthat/test-meta-random-robust.R | 23 statsExpressions-2.0.0/statsExpressions/tests/testthat/test-one-sample.R | 89 - statsExpressions-2.0.0/statsExpressions/tests/testthat/test-one-two-sample-dataframes.R | 191 +- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-oneway-anova-bayes.R | 310 ++-- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-oneway-anova-nonparametric.R | 191 +- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-oneway-anova-parametric.R | 183 +- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-oneway-anova-robust.R | 156 +- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-pairwise-comparisons.R | 736 ++++------ statsExpressions-2.0.0/statsExpressions/tests/testthat/test-pairwise-contingency-table.R |only statsExpressions-2.0.0/statsExpressions/tests/testthat/test-print.R | 31 statsExpressions-2.0.0/statsExpressions/tests/testthat/test-stats-type-switch.R | 21 statsExpressions-2.0.0/statsExpressions/tests/testthat/test-tidy-model-expressions.R | 216 +- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-two-sample-bayes.R | 141 - statsExpressions-2.0.0/statsExpressions/tests/testthat/test-two-sample-nonparametric.R | 131 - statsExpressions-2.0.0/statsExpressions/tests/testthat/test-two-sample-parametric.R | 203 +- statsExpressions-2.0.0/statsExpressions/tests/testthat/test-two-sample-robust.R | 214 +- statsExpressions-2.0.0/statsExpressions/vignettes/setup.R | 34 statsExpressions-2.0.0/statsExpressions/vignettes/statsExpressions.Rmd | 102 + statsExpressions-2.0.0/statsExpressions/vignettes/stats_details.Rmd | 21 statsExpressions-2.0.0/statsExpressions/vignettes/web_only/dataframe_outputs.Rmd | 182 ++ 82 files changed, 5682 insertions(+), 4602 deletions(-)
More information about statsExpressions at CRAN
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Title: Fully Parameterizable ANOVA Tests
Description: Allows the user to perform ANOVA tests (in a strict sense: continuous and normally-distributed Y variable and 1 or more factorial/categorical X variable(s)), with the possibility to specify the type of sum of squares (1, 2 or 3), the types of variables (Fixed or Random) and their relationships (crossed or nested) with the sole function of the package (FullyParamANOVA()). The resulting outputs are the same as in 'SAS' software. A dataset (Butterfly) to test the function is also joined.
Author: Victor Brans [aut, cre]
Maintainer: Victor Brans <vicbrans003@gmail.com>
Diff between ParamANOVA versions 0.1.3 dated 2026-04-15 and 0.1.4 dated 2026-04-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/Funs.R | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Fast and Efficient Processing of PAM Data
Description: Processing Chlorophyll Fluorescence & P700 Absorbance data. Four models are provided for the regression of Pi curves, which can be compared with each other in order to select the most suitable model for the data set. Control plots ensure the successful verification of each regression. Bundled output of alpha, ETRmax, Ik etc. enables fast and reliable further processing of the data.
Author: Julien Boehm [cre, aut] ,
Philipp Schrag [aut]
Maintainer: Julien Boehm <julien.boehm@uni-rostock.de>
Diff between pam versions 2.1.0 dated 2026-04-11 and 2.2.0 dated 2026-04-23
pam-2.1.0/pam/R/combo_plot_control.R |only pam-2.1.0/pam/R/eilers_peeters.R |only pam-2.1.0/pam/R/platt.R |only pam-2.1.0/pam/R/read_pam_data.R |only pam-2.1.0/pam/R/vollenweider.R |only pam-2.1.0/pam/R/walsby.R |only pam-2.1.0/pam/inst/extdata/20231122_01.csv |only pam-2.1.0/pam/inst/extdata/20240925.csv |only pam-2.1.0/pam/inst/extdata/junior_pam |only pam-2.1.0/pam/tests/testthat/data/20231122_01.csv |only pam-2.1.0/pam/tests/testthat/data/20240925.csv |only pam-2.1.0/pam/tests/testthat/data/20260130_01_efeutute_dual_pam_only_ps_1.csv |only pam-2.1.0/pam/tests/testthat/data/20260130_efeutute_dual_pam_only_ps_2.csv |only pam-2.1.0/pam/tests/testthat/data/bulk |only pam-2.1.0/pam/tests/testthat/data/junior_pam_20250613.csv |only pam-2.1.0/pam/tests/testthat/data/universal_data.csv |only pam-2.1.0/pam/tests/testthat/test-eilers_peeters_junior_pam_etr_II.R |only pam-2.2.0/pam/DESCRIPTION | 6 pam-2.2.0/pam/MD5 | 207 +++--- pam-2.2.0/pam/NAMESPACE | 3 pam-2.2.0/pam/R/compare_regression_models.R | 39 - pam-2.2.0/pam/R/device_dual_pam.R |only pam-2.2.0/pam/R/device_dual_pam_single_channel_fluo.R |only pam-2.2.0/pam/R/device_dual_pam_single_channel_p700.R |only pam-2.2.0/pam/R/device_junior_pam.R |only pam-2.2.0/pam/R/device_pam_2500.R |only pam-2.2.0/pam/R/device_universal_data.R |only pam-2.2.0/pam/R/model_eilers_peeters.R |only pam-2.2.0/pam/R/model_platt.R |only pam-2.2.0/pam/R/model_vollenweider.R |only pam-2.2.0/pam/R/model_walsby.R |only pam-2.2.0/pam/R/plot.R |only pam-2.2.0/pam/R/util.R | 311 ---------- pam-2.2.0/pam/R/validation.R | 92 -- pam-2.2.0/pam/R/write_model_result_csv.R |only pam-2.2.0/pam/inst/CITATION | 13 pam-2.2.0/pam/inst/extdata/dual_pam_data |only pam-2.2.0/pam/inst/extdata/dual_pam_single_channel_fluo_data |only pam-2.2.0/pam/inst/extdata/dual_pam_single_channel_p700_data |only pam-2.2.0/pam/inst/extdata/junior_pam_data |only pam-2.2.0/pam/inst/extdata/pam_2500_data |only pam-2.2.0/pam/man/combo_plot_control.Rd | 4 pam-2.2.0/pam/man/compare_regression_models_ETR_I.Rd | 2 pam-2.2.0/pam/man/compare_regression_models_ETR_II.Rd | 2 pam-2.2.0/pam/man/eilers_peeters_default_start_value_a.Rd | 2 pam-2.2.0/pam/man/eilers_peeters_default_start_value_b.Rd | 2 pam-2.2.0/pam/man/eilers_peeters_default_start_value_c.Rd | 2 pam-2.2.0/pam/man/eilers_peeters_generate_regression_ETR_I.Rd | 4 pam-2.2.0/pam/man/eilers_peeters_generate_regression_ETR_II.Rd | 4 pam-2.2.0/pam/man/eilers_peeters_modified.Rd | 4 pam-2.2.0/pam/man/platt_default_start_value_alpha.Rd | 2 pam-2.2.0/pam/man/platt_default_start_value_beta.Rd | 2 pam-2.2.0/pam/man/platt_default_start_value_ps.Rd | 2 pam-2.2.0/pam/man/platt_generate_regression_ETR_I.Rd | 4 pam-2.2.0/pam/man/platt_generate_regression_ETR_II.Rd | 4 pam-2.2.0/pam/man/platt_modified.Rd | 4 pam-2.2.0/pam/man/plot_control.Rd | 4 pam-2.2.0/pam/man/read_dual_pam_data.Rd | 110 +-- pam-2.2.0/pam/man/read_dual_pam_single_channel_fluo_data.Rd |only pam-2.2.0/pam/man/read_dual_pam_single_channel_p700_data.Rd |only pam-2.2.0/pam/man/read_junior_pam_data.Rd | 9 pam-2.2.0/pam/man/read_pam_2500_data.Rd |only pam-2.2.0/pam/man/read_universal_data.Rd | 2 pam-2.2.0/pam/man/vollenweider_default_start_value_a.Rd | 2 pam-2.2.0/pam/man/vollenweider_default_start_value_alpha.Rd | 2 pam-2.2.0/pam/man/vollenweider_default_start_value_n.Rd | 2 pam-2.2.0/pam/man/vollenweider_default_start_value_pmax.Rd | 2 pam-2.2.0/pam/man/vollenweider_generate_regression_ETR_I.Rd | 4 pam-2.2.0/pam/man/vollenweider_generate_regression_ETR_II.Rd | 4 pam-2.2.0/pam/man/vollenweider_modified.Rd | 4 pam-2.2.0/pam/man/walsby_default_start_value_alpha.Rd | 2 pam-2.2.0/pam/man/walsby_default_start_value_beta.Rd | 2 pam-2.2.0/pam/man/walsby_default_start_value_etr_max.Rd | 2 pam-2.2.0/pam/man/walsby_generate_regression_ETR_I.Rd | 4 pam-2.2.0/pam/man/walsby_generate_regression_ETR_II.Rd | 4 pam-2.2.0/pam/man/walsby_modified.Rd | 4 pam-2.2.0/pam/man/write_model_result_csv.Rd | 4 pam-2.2.0/pam/tests/testthat/data/dual_pam_data |only pam-2.2.0/pam/tests/testthat/data/dual_pam_single_channel_fluo_data |only pam-2.2.0/pam/tests/testthat/data/dual_pam_single_channel_p700_data |only pam-2.2.0/pam/tests/testthat/data/junior_pam_data |only pam-2.2.0/pam/tests/testthat/data/pam_2500_data |only pam-2.2.0/pam/tests/testthat/data/universal_data |only pam-2.2.0/pam/tests/testthat/helper-os-detection.R | 61 - pam-2.2.0/pam/tests/testthat/test-combo_plot_control_etr_I.R | 2 pam-2.2.0/pam/tests/testthat/test-combo_plot_control_etr_II.R | 2 pam-2.2.0/pam/tests/testthat/test-compare_regression_models_etr_I.R | 6 pam-2.2.0/pam/tests/testthat/test-compare_regression_models_etr_II.R | 6 pam-2.2.0/pam/tests/testthat/test-compare_regression_models_total.R | 6 pam-2.2.0/pam/tests/testthat/test-eilers_peeters_etr_I.R | 16 pam-2.2.0/pam/tests/testthat/test-eilers_peeters_etr_II.R | 14 pam-2.2.0/pam/tests/testthat/test-get_etr_data_for_par_values.R | 2 pam-2.2.0/pam/tests/testthat/test-platt_etr_I.R | 14 pam-2.2.0/pam/tests/testthat/test-platt_etr_II.R | 16 pam-2.2.0/pam/tests/testthat/test-read_dual_pam_data.R | 16 pam-2.2.0/pam/tests/testthat/test-read_dual_pam_single_channel_fluo_data.R |only pam-2.2.0/pam/tests/testthat/test-read_dual_pam_single_channel_p700_data.R |only pam-2.2.0/pam/tests/testthat/test-read_junior_pam_data.R | 166 ++--- pam-2.2.0/pam/tests/testthat/test-read_pam_2500_data.R |only pam-2.2.0/pam/tests/testthat/test-read_universal_data.R | 8 pam-2.2.0/pam/tests/testthat/test-relative_root_mean_squared_error.R | 6 pam-2.2.0/pam/tests/testthat/test-root_mean_squared_error.R | 6 pam-2.2.0/pam/tests/testthat/test-universal_data_etr_I.R | 8 pam-2.2.0/pam/tests/testthat/test-vollenweider_etr_I.R | 16 pam-2.2.0/pam/tests/testthat/test-vollenweider_etr_II.R | 16 pam-2.2.0/pam/tests/testthat/test-walsby_etr_I.R | 16 pam-2.2.0/pam/tests/testthat/test-walsby_etr_II.R | 16 pam-2.2.0/pam/tests/testthat/test-write_model_result_csv.R | 4 108 files changed, 485 insertions(+), 820 deletions(-)
Title: Regression under Interference in Connected Populations
Description: An implementation of generalized linear models (GLMs) for studying relationships among attributes in connected populations, where responses of connected units can be dependent, as introduced by Fritz et al. (2025) <doi:10.1080/01621459.2025.2565851>. 'igml' extends GLMs for independent responses to dependent responses and can be used for studying spillover in connected populations and other network-mediated phenomena.
Author: Cornelius Fritz [aut, cre],
Michael Schweinberger [aut]
Maintainer: Cornelius Fritz <corneliusfritz2010@gmail.com>
Diff between iglm versions 1.2.3 dated 2026-04-10 and 1.2.4 dated 2026-04-23
DESCRIPTION | 8 MD5 | 83 +++--- NAMESPACE | 2 R/RcppExports.R | 8 R/estimation.R | 18 - R/helper.R | 19 + R/iglm.r | 191 +++++++++------- R/iglm_data.r | 17 - R/init_terms.R | 310 ++++++++++++++------------ R/results.r | 84 ++++--- R/sampler.r | 222 +++++++----------- R/simulation.R | 16 - R/zzz.R | 2 inst/doc/iglm.R | 19 - inst/doc/iglm.Rmd | 26 -- inst/doc/iglm.html | 139 +++++------ inst/include/iglm/helper_functions.h | 7 inst/include/iglm/network_class.h | 2 inst/include/iglm/xyz_class.h | 2 inst/include/iglm/xz_class.h | 11 man/check.IglmTerm.Rd | 1 man/create_userterms_skeleton.Rd | 2 man/iglm-terms.Rd | 2 man/iglm.Rd | 11 man/iglm.data_generator.Rd | 6 man/iglm.object.generator.Rd | 45 ++- man/results.generator.Rd | 2 man/sampler.iglm.Rd | 39 +-- man/sampler.iglm.generator.Rd | 41 ++- man/sampler.net.attr.Rd | 26 -- man/sampler.net.attr.generator.Rd | 73 +----- man/simulate_iglm.Rd | 4 src/RcppExports.cpp | 26 -- src/change_statistics.cpp | 68 ++--- src/iglm_classes.cpp | 115 +++++++++ src/xyz_sampling.cpp | 244 +++++++------------- tests/testthat/test-empty-overlap.R |only tests/testthat/test-iglm.R | 12 - tests/testthat/test-neighborhood-validation.R |only tests/testthat/test-printing.R |only tests/testthat/test-results.R | 6 tests/testthat/test-sampler.R | 30 +- tests/testthat/test-statistics.R | 36 +-- vignettes/iglm.Rmd | 26 -- 44 files changed, 1045 insertions(+), 956 deletions(-)
Title: Evaluate Function Calls on HPC Schedulers (SLURM, LSF, SGE, GCS,
OCS, PBS, Torque)
Description: Evaluate arbitrary function calls using workers on HPC schedulers
in single line of code. All processing is done on the network without
accessing the file system. Remote schedulers are supported via SSH.
Author: Michael Schubert [aut, cre, cph] ,
ZeroMQ authors [aut, cph]
Maintainer: Michael Schubert <mschu.dev@gmail.com>
Diff between clustermq versions 0.9.9 dated 2025-04-20 and 0.10.0 dated 2026-04-23
DESCRIPTION | 16 +- MD5 | 88 ++++++------ NEWS.md | 21 ++ R/RcppExports.R | 4 R/clustermq-package.r | 2 R/master.r | 2 R/pool.r | 52 +------ R/qsys.r | 10 - R/qsys_sge.r | 48 ++++++ R/summarize_result.r | 2 R/work_chunk.r | 12 + R/zzz.r | 3 README.md | 8 - build/vignette.rds |binary configure | 9 - inst/GCS.tmpl |only inst/LSF.tmpl | 2 inst/OCS.tmpl |only inst/PBS.tmpl | 2 inst/SGE.tmpl | 2 inst/SLURM.tmpl | 2 inst/TORQUE.tmpl | 2 inst/doc/faq.Rmd | 6 inst/doc/faq.html | 10 - inst/doc/technicaldocs.R | 5 inst/doc/technicaldocs.Rmd | 9 - inst/doc/technicaldocs.html | 21 +- inst/doc/userguide.R | 20 ++ inst/doc/userguide.Rmd | 134 ++++++++++++++++-- inst/doc/userguide.html | 275 ++++++++++++++++++++++++++------------ man/GCS.Rd |only man/OCS.Rd |only man/clustermq-package.Rd | 2 src/CMQMaster.cpp | 2 src/CMQMaster.h | 2 src/CMQProxy.h | 4 src/CMQWorker.h | 6 src/Makevars.win | 2 src/RcppExports.cpp | 12 + src/memory.cpp |only src/memory.h |only src/util.cpp | 7 tests/testthat/test-2-worker.r | 40 ++++- tests/testthat/test-4-pool.r | 16 +- tests/testthat/test-7-ssh_proxy.r | 8 - vignettes/faq.Rmd | 6 vignettes/technicaldocs.Rmd | 9 - vignettes/userguide.Rmd | 134 ++++++++++++++++-- 48 files changed, 730 insertions(+), 287 deletions(-)
Title: Case-Control Likelihood Ratio (ccLR)
Description: Implementation of case-control data analysis using likelihood ratio
approaches and logistic regression for the classification of variants of
uncertain significance (VUS) in breast, ovarian, or custom cancer
susceptibility genes.
Author: Damianos Michaelides [aut, cre],
Maria Zanti [aut],
Denise O' Mahony [aut],
Christian Carrizosa [aut],
Theodora Nearchou [aut],
Kyriaki Michailidou [aut]
Maintainer: Damianos Michaelides <damianosm@cing.ac.cy>
Diff between ccLRforR versions 1.1 dated 2026-03-05 and 1.2 dated 2026-04-23
DESCRIPTION | 6 ++--- MD5 | 14 ++++++------ R/PS4_ccLR.R | 58 ++++++++++++++++++++++++++++++++++++++++++++++++++- R/PS4_logistic.R | 7 +++++- R/ccLR_grid.R | 61 +++++++++++++++++++++++++++++++++++++++++++++++++++++- R/ccLR_imp.R | 59 +++++++++++++++++++++++++++++++++++++++++++++++++++- build/partial.rdb |binary data/Yang.rda |binary 8 files changed, 191 insertions(+), 14 deletions(-)
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013, Lemant et al. 2022)
<doi:10.1016/j.mbs.2012.10.005>, <doi:10.1093/sysbio/syac027>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph] ,
Emmanuel Paradis [cph] ,
Robert Noble [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 2.2.0 dated 2026-03-20 and 2.3.0 dated 2026-04-23
DESCRIPTION | 8 MD5 | 558 +- NAMESPACE | 1031 +-- NEWS.md | 1303 ++-- R/AddTip.R | 550 +- R/ArtificialExtinction.R | 242 R/ClusterTable.R | 254 R/Combinatorics.R | 696 +- R/Consensus.R | 300 - R/ConsistentSplits.R | 84 R/Decompose.R | 330 - R/ImposeConstraint.R | 278 - R/Information.R | 522 - R/KeptPaths.R | 94 R/KeptVerts.R | 126 R/LongBranchScore.R | 150 R/MatchNodes.R | 216 R/MatchStrings.R | 66 R/PathLengths.R | 96 R/PhyToString.R | 285 - R/RUtreebalance.R | 648 +- R/RcppExports-manual.R | 64 R/RcppExports.R | 4 R/ReadMrBayes.R | 190 R/ReadTntTree.R | 580 +- R/Reweight.R | 220 R/RoguePlot.R | 618 +- R/SplitFunctions.R | 912 +-- R/Splits.R | 1337 ++-- R/Stemwardness.R | 218 R/Support.R | 392 - R/TipTimedTree.R | 100 R/TopologyOnly.R | 84 R/TotalCopheneticIndex.R | 316 - R/TreeNumber.R | 1166 ++-- R/TreeTools-package.R | 50 R/Treeness.R | 116 R/as.matrix.R | 30 R/as.multiPhylo.R | 152 R/data.R | 180 R/helper_functions.R | 200 R/match.R | 496 - R/mst.R | 158 R/parse_files.R | 1840 +++--- R/phylo.R | 644 +- R/sort.R | 156 R/split_analysis.R | 162 R/tree_ancestors.R | 220 R/tree_comparison.R | 86 R/tree_descendants.R | 274 - R/tree_display.R | 292 - R/tree_generation.R | 998 +-- R/tree_information.R | 206 R/tree_properties.R | 1028 +-- R/tree_rearrangement.R | 1294 ++-- R/tree_shape.R | 572 +- R/tree_write.R | 262 R/zzz.R | 68 build/partial.rdb |binary build/vignette.rds |binary data/brewer.R | 40 data/nRootedShapes.R | 114 data/nUnrootedShapes.R | 124 inst/CITATION | 34 inst/REFERENCES.bib | 756 +- inst/TreeTools.svg |only inst/WORDLIST | 252 inst/apa-old-doi-prefix.csl | 4546 ++++++++--------- inst/doc/filesystem-navigation.Rmd | 104 inst/doc/filesystem-navigation.html | 4 inst/doc/load-data.Rmd | 428 - inst/doc/load-data.html | 4 inst/doc/load-trees.Rmd | 250 inst/doc/load-trees.html | 4 inst/extdata/input/dataset.nex | 44 inst/extdata/input/notes.nex | 54 inst/extdata/output/named.tre | 6 inst/extdata/output/numbered.tre | 8 inst/extdata/tests/ape-tree.nex | 10 inst/extdata/tests/continuous.nex | 44 inst/extdata/tests/encoding.nex | 48 inst/extdata/tests/parse-nexus.nexus | 510 - inst/extdata/tests/taxon-notes.nex | 48 inst/extdata/tests/tnt-bare-tree.tnt | 2 inst/extdata/tests/tnt-dna.tnt | 42 inst/extdata/tests/tnt-matrix.tnt | 294 - inst/extdata/tests/tnt-namedtree.tre | 8 inst/extdata/tests/tnt-tree.tre | 46 inst/extdata/tests/tnt-trees-and-matrix.tnt | 58 inst/include/TreeTools/SplitList.h | 27 man/AddTip.Rd | 280 - man/AncestorEdge.Rd | 106 man/ApeTime.Rd | 54 man/ArtificialExtinction.Rd | 216 man/CharacterInformation.Rd | 86 man/Cherries.Rd | 108 man/CladeSizes.Rd | 96 man/CladisticInfo.Rd | 144 man/ClusterTable-methods.Rd | 94 man/ClusterTable.Rd | 160 man/CollapseNode.Rd | 162 man/CompatibleSplits.Rd | 108 man/Consensus.Rd | 104 man/ConsensusWithout.Rd | 212 man/ConstrainedNJ.Rd | 108 man/Decompose.Rd | 166 man/DescendantEdges.Rd | 162 man/DoubleFactorial.Rd | 132 man/DropTip.Rd | 280 - man/EdgeAncestry.Rd | 124 man/EdgeDistances.Rd | 104 man/EdgeRatio.Rd | 92 man/EndSentence.Rd | 64 man/ExtractTaxa.Rd | 90 man/GenerateTree.Rd | 188 man/Hamming.Rd | 156 man/ImposeConstraint.Rd | 148 man/J1Index.Rd | 190 man/KeptPaths.Rd | 132 man/KeptVerts.Rd | 138 man/LabelSplits.Rd | 172 man/LeafLabelInterchange.Rd | 118 man/ListAncestors.Rd | 218 man/Lobo.data.Rd | 66 man/LongBranch.Rd | 130 man/MRCA.Rd | 134 man/MSTEdges.Rd | 146 man/MakeTreeBinary.Rd | 108 man/MatchEdges.Rd | 138 man/MatchStrings.Rd | 80 man/MatrixToPhyDat.Rd | 156 man/MorphoBankDecode.Rd | 58 man/N1Spr.Rd | 76 man/NDescendants.Rd | 92 man/NJTree.Rd | 82 man/NPartitionPairs.Rd | 102 man/NRooted.Rd | 268 - man/NSplits.Rd | 172 man/NTip.Rd | 140 man/NewickTree.Rd | 54 man/Neworder.Rd | 128 man/NodeDepth.Rd | 126 man/NodeNumbers.Rd | 114 man/NodeOrder.Rd | 108 man/PairwiseDistances.Rd | 82 man/PathLengths.Rd | 118 man/PhyToString.Rd | 212 man/PolarizeSplits.Rd | 70 man/ReadCharacters.Rd | 288 - man/ReadMrBayesTrees.Rd | 110 man/ReadTntTree.Rd | 248 man/Renumber.Rd | 118 man/RenumberTips.Rd | 140 man/Reorder.Rd | 556 +- man/Reweight.Rd | 156 man/RightmostCharacter.Rd | 72 man/RoguePlot.Rd | 240 man/RootNode.Rd | 104 man/RootTree.Rd | 190 man/SampleOne.Rd | 84 man/SortTree.Rd | 184 man/SplitConsistent.Rd | 90 man/SplitFrequency.Rd | 166 man/SplitInformation.Rd | 256 man/SplitMatchProbability.Rd | 94 man/Splits.Rd | 216 man/SplitsInBinaryTree.Rd | 162 man/Stemwardness.Rd | 198 man/Subsplit.Rd | 96 man/Subtree.Rd | 122 man/SupportColour.Rd | 142 man/TipLabels.Rd | 252 man/TipTimedTree.Rd | 140 man/TipsInSplits.Rd | 144 man/TopologyOnly.Rd | 46 man/TotalCopheneticIndex.Rd | 188 man/TreeIsRooted.Rd | 86 man/TreeNumber.Rd | 432 - man/TreeShape.Rd | 318 - man/TreeTools-package.Rd | 80 man/Treeness.Rd | 114 man/TreesMatchingSplit.Rd | 92 man/TreesMatchingTree.Rd | 98 man/TrivialSplits.Rd | 96 man/TrivialTree.Rd | 124 man/Unquote.Rd | 64 man/UnrootedTreesMatchingSplit.Rd | 96 man/UnshiftTree.Rd | 116 man/WriteTntCharacters.Rd | 140 man/as.Newick.Rd | 96 man/as.multiPhylo.Rd | 106 man/brewer.Rd | 66 man/dot-RandomParent.Rd | 54 man/doubleFactorials.Rd | 52 man/edge_to_splits.Rd | 98 man/is.TreeNumber.Rd | 64 man/logDoubleFactorials.Rd | 46 man/match.Splits.Rd | 136 man/match.multiPhylo.Rd | 144 man/nRootedShapes.Rd | 56 man/print.TreeNumber.Rd | 44 man/root_on_node.Rd | 58 man/sapply64.Rd | 164 man/sort.multiPhylo.Rd | 114 man/xor.Rd | 62 src/RcppExports.cpp | 13 src/consensus.cpp | 22 src/fast_paste.cpp |only src/splits_to_tree.cpp | 8 tests/figs/rogueplot.svg | 68 tests/spelling.R | 8 tests/testthat.R | 8 tests/testthat/_snaps/RoguePlot/rogueplot-poly.svg | 82 tests/testthat/_snaps/RoguePlot/rogueplot-simple.svg | 94 tests/testthat/_snaps/RoguePlot/rogueplot-trees1.svg | 106 tests/testthat/_snaps/RoguePlot/rogueplot-trees2.svg | 82 tests/testthat/_snaps/Support/labelsplits-nameless.svg | 172 tests/testthat/_snaps/Support/labelsplits-names.svg | 148 tests/testthat/_snaps/Support/labelsplits.svg | 148 tests/testthat/_snaps/mst/mst-plotting.svg | 142 tests/testthat/_snaps/tree_display/sorted-tree.svg | 270 - tests/testthat/test-AddTip.R | 356 - tests/testthat/test-ArtificialExtinction.R | 94 tests/testthat/test-Cherries.R | 24 tests/testthat/test-ClusterTable.R | 284 - tests/testthat/test-Decompose.R | 152 tests/testthat/test-EdgeRatio.R | 18 tests/testthat/test-FirstMatchingSplit.R | 68 tests/testthat/test-ImposeConstraint.R | 296 - tests/testthat/test-KeptPaths.R | 40 tests/testthat/test-KeptVerts.R | 172 tests/testthat/test-LongBranchScore.R | 36 tests/testthat/test-MatchNodes.R | 148 tests/testthat/test-MatchStrings.R | 26 tests/testthat/test-PathLengths.R | 70 tests/testthat/test-PhyToString.R | 150 tests/testthat/test-RUtreebalance.R | 128 tests/testthat/test-ReadMrBayes.R | 8 tests/testthat/test-ReadTntTree.R | 290 - tests/testthat/test-Reweight.R | 92 tests/testthat/test-RoguePlot.R | 362 - tests/testthat/test-SplitConsistent.R | 72 tests/testthat/test-SplitFunctions.R | 452 - tests/testthat/test-Splits.R | 1184 ++-- tests/testthat/test-Stemwardness.R | 28 tests/testthat/test-Support.R | 208 tests/testthat/test-TipTimedTree.R | 28 tests/testthat/test-TopologyOnly.R | 54 tests/testthat/test-TotalCopheneticIndex.R | 152 tests/testthat/test-TreeNumber.R | 360 - tests/testthat/test-Treeness.R | 38 tests/testthat/test-as.matrix.R | 14 tests/testthat/test-as.multiPhylo.R | 70 tests/testthat/test-combinatorics.R | 178 tests/testthat/test-consensus.R | 236 tests/testthat/test-helper_functions.R | 22 tests/testthat/test-information.R | 84 tests/testthat/test-int_to_tree.cpp.R | 130 tests/testthat/test-match.R | 58 tests/testthat/test-mst.R | 84 tests/testthat/test-parsers.R | 442 - tests/testthat/test-phylo.R | 112 tests/testthat/test-root_tree.h.R | 226 tests/testthat/test-sort.R | 44 tests/testthat/test-split_analysis.R | 22 tests/testthat/test-splits.cpp.R | 74 tests/testthat/test-tree_ancestors.R | 40 tests/testthat/test-tree_comparison.R | 48 tests/testthat/test-tree_descendants.R | 168 tests/testthat/test-tree_display.R | 128 tests/testthat/test-tree_generation-random.R | 90 tests/testthat/test-tree_generation.R | 438 - tests/testthat/test-tree_information.R | 38 tests/testthat/test-tree_properties.R | 364 - tests/testthat/test-tree_rearrange.R | 830 +-- tests/testthat/test-tree_shape.R | 318 - tests/testthat/test-tree_write.R | 98 tests/testthat/testdata/nonPreCons.nex | 48 vignettes/filesystem-navigation.Rmd | 104 vignettes/load-data.Rmd | 428 - vignettes/load-trees.Rmd | 250 281 files changed, 29567 insertions(+), 29501 deletions(-)
Title: Random Ferns Classifier
Description: Provides the random ferns classifier by Ozuysal, Calonder, Lepetit and Fua (2009) <doi:10.1109/TPAMI.2009.23>, modified for generic and multi-label classification and featuring OOB error approximation and importance measure as introduced in Kursa (2014) <doi:10.18637/jss.v061.i10>.
Author: Miron Bartosz Kursa [aut, cre]
Maintainer: Miron Bartosz Kursa <m@mbq.me>
This is a re-admission after prior archival of version 5.0.0 dated 2021-09-22
Diff between rFerns versions 5.0.0 dated 2021-09-22 and 6.0.0 dated 2026-04-23
DESCRIPTION | 17 ++++++++--------- MD5 | 6 +++--- inst/CITATION | 15 +++++---------- inst/NEWS | 3 +++ 4 files changed, 19 insertions(+), 22 deletions(-)
Title: Latent Binary Bayesian Neural Networks Using 'torch'
Description: Latent binary Bayesian neural networks (LBBNNs) are implemented using
'torch', an R interface to the LibTorch backend. Supports mean-field variational
inference as well as flexible variational posteriors using normalizing flows.
The standard LBBNN implementation follows Hubin and Storvik (2024) <doi:10.3390/math12060788>,
using the local reparametrization trick as in Skaaret-Lund et al. (2024)
<https://openreview.net/pdf?id=d6kqUKzG3V>. Input-skip connections are also supported,
as described in Høyheim et al. (2025) <doi:10.48550/arXiv.2503.10496>.
Author: Lars Skaaret-Lund [aut, cre],
Aliaksandr Hubin [aut],
Eirik Hoeyheim [aut]
Maintainer: Lars Skaaret-Lund <lars.skaaret-lund@nmbu.no>
Diff between LBBNN versions 0.1.4 dated 2026-01-12 and 0.1.5 dated 2026-04-23
DESCRIPTION | 6 - MD5 | 68 +++++++++++--------- NAMESPACE | 1 NEWS.md | 5 + R/FLOW.R | 3 R/LBBNN_Model.R | 3 R/Layers.R | 6 + R/RNVP.R | 3 R/Train_validate.R | 3 R/custom_activation_functions.R | 28 +++----- R/overwrite_functions.R | 15 ++-- R/plotting_graphs.R | 3 R/utils_torch.R |only README.md | 101 +++++++++++++----------------- man/coef.lbbnn_net.Rd | 3 man/custom_activation.Rd | 5 - man/figures/README-unnamed-chunk-10-1.png |only man/figures/README-unnamed-chunk-11-1.png |only man/figures/README-unnamed-chunk-14-1.png |only man/figures/README-unnamed-chunk-14-2.png |only man/figures/README-unnamed-chunk-14-3.png |only man/figures/README-unnamed-chunk-14-4.png |only man/figures/README-unnamed-chunk-3-1.png |only man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |only man/lbbnn_conv2d.Rd | 3 man/lbbnn_linear.Rd | 3 man/lbbnn_net.Rd | 3 man/normalizing_flow.Rd | 3 man/plot_active_paths.Rd | 3 man/predict.lbbnn_net.Rd | 3 man/print.lbbnn_net.Rd | 3 man/residuals.lbbnn_net.Rd | 3 man/rnvp_layer.Rd | 3 man/summary.lbbnn_net.Rd | 3 man/torch_available.Rd |only man/train_lbbnn.Rd | 3 tests/testthat/test_lbbnn_predictions.R |only tests/testthat/test_smoke_training.R | 4 - tests/testthat/test_windows_batch_shape.R |only 41 files changed, 160 insertions(+), 130 deletions(-)
Title: Simplified Legend and Guide Alignment for 'ggplot2'
Description: Provides one-liner functions for common legend and guide operations
in 'ggplot2'. Simplifies legend positioning, styling, wrapping, and
collection across multi-panel plots created with 'patchwork' or 'cowplot'.
Author: Gilles Colling [aut, cre]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between ggguides versions 1.1.5 dated 2026-04-22 and 1.1.6 dated 2026-04-23
DESCRIPTION | 6 +- MD5 | 42 +++++++++--------- NAMESPACE | 1 NEWS.md | 10 ++++ R/legend_position.R | 84 ++++++++++++++++++------------------- R/legend_style.R | 51 ++++++++++++++++++++-- README.md | 2 inst/doc/getting-started.R | 5 +- inst/doc/getting-started.Rmd | 8 +++ inst/doc/getting-started.html | 62 ++++++++++++++------------- inst/doc/multiple-legends.Rmd | 2 inst/doc/multiple-legends.html | 16 +++---- inst/doc/positioning.R | 2 inst/doc/positioning.Rmd | 2 inst/doc/positioning.html | 2 man/legend_inside.Rd | 15 +++--- tests/testthat/Rplots.pdf |binary tests/testthat/test-legend_multi.R | 22 ++++----- tests/testthat/test-legend_style.R | 36 +++++++-------- vignettes/getting-started.Rmd | 8 +++ vignettes/multiple-legends.Rmd | 2 vignettes/positioning.Rmd | 2 22 files changed, 228 insertions(+), 152 deletions(-)
Title: End-to-End Automated Machine Learning and Model Evaluation
Description: Single unified interface for end-to-end modelling of regression,
categorical and time-to-event (survival) outcomes. Models created using
familiar are self-containing, and their use does not require additional
information such as baseline survival, feature clustering, or feature
transformation and normalisation parameters. Model performance,
calibration, risk group stratification, (permutation) variable importance,
individual conditional expectation, partial dependence, and more, are
assessed automatically as part of the evaluation process and exported in
tabular format and plotted, and may also be computed manually using export
and plot functions. Where possible, metrics and values obtained during the
evaluation process come with confidence intervals.
Author: Alex Zwanenburg [aut, cre] ,
Steffen Loeck [aut],
German Cancer Research Center [cph],
Technische Universitaet Dresden [cph]
Maintainer: Alex Zwanenburg <alexander.zwanenburg@nct-dresden.de>
Diff between familiar versions 1.5.0 dated 2024-09-23 and 2.0.0 dated 2026-04-23
familiar-1.5.0/familiar/R/Evaluation.R |only familiar-1.5.0/familiar/R/FeatureSelection.R |only familiar-1.5.0/familiar/R/LearnerSurvivalGrouping.R |only familiar-1.5.0/familiar/R/ModelBuilding.R |only familiar-1.5.0/familiar/R/RandomGrouping.R |only familiar-1.5.0/familiar/R/TrainS4Methods.R |only familiar-1.5.0/familiar/inst/doc/feature_selection_precompiled.Rmd |only familiar-1.5.0/familiar/inst/doc/feature_selection_precompiled.html |only familiar-1.5.0/familiar/inst/doc/prospective_use_precompiled.Rmd |only familiar-1.5.0/familiar/inst/doc/prospective_use_precompiled.html |only familiar-1.5.0/familiar/man/create_randomised_groups.Rd |only familiar-1.5.0/familiar/man/dot-parse_feature_selection_settings.Rd |only familiar-1.5.0/familiar/man/dot-prepare_familiar_data_sets.Rd |only familiar-1.5.0/familiar/man/extract_data.Rd |only familiar-1.5.0/familiar/man/get_fs_method_names-familiarCollection-method.Rd |only familiar-1.5.0/familiar/man/set_fs_method_names-familiarCollection-method.Rd |only familiar-1.5.0/familiar/tests/testthat/test-0_plot_ice_a.R |only familiar-1.5.0/familiar/tests/testthat/test-0_plot_ice_b.R |only familiar-1.5.0/familiar/tests/testthat/test-0_plot_sample_clustering_a.R |only familiar-1.5.0/familiar/tests/testthat/test-0_plot_sample_clustering_b.R |only familiar-1.5.0/familiar/tests/testthat/test-0_vimp_rfsrc_S4.R |only familiar-1.5.0/familiar/tests/testthat/test-learner_mboost_lm_S4.R |only familiar-1.5.0/familiar/tests/testthat/test-learner_mboost_tree_S4.R |only familiar-1.5.0/familiar/tests/testthat/test-parallel_backend.R |only familiar-1.5.0/familiar/tests/testthat/test-predict.R |only familiar-1.5.0/familiar/vignettes/eval_and_explain/ice-2d-survival-1.png |only familiar-1.5.0/familiar/vignettes/eval_and_explain/ice-cell-shap-uniformity-1.png |only familiar-1.5.0/familiar/vignettes/eval_and_explain/ice-cell-shape-uniformity-anchored-1.png |only familiar-1.5.0/familiar/vignettes/eval_and_explain/permutation-variable-importance-bc-spearman-1.png |only familiar-1.5.0/familiar/vignettes/feature_selection_precompiled.Rmd |only familiar-1.5.0/familiar/vignettes/prospective_use |only familiar-1.5.0/familiar/vignettes/prospective_use_precompiled.Rmd |only familiar-2.0.0/familiar/DESCRIPTION | 100 familiar-2.0.0/familiar/MD5 | 779 - familiar-2.0.0/familiar/NAMESPACE | 10 familiar-2.0.0/familiar/NEWS.md | 163 familiar-2.0.0/familiar/R/BatchNormalisation.R | 309 familiar-2.0.0/familiar/R/BootstrapConfidenceInterval.R | 66 familiar-2.0.0/familiar/R/CheckArguments.R | 278 familiar-2.0.0/familiar/R/CheckHyperparameters.R | 213 familiar-2.0.0/familiar/R/CheckPackages.R | 182 familiar-2.0.0/familiar/R/ClassBalance.R | 36 familiar-2.0.0/familiar/R/ClusterRepresentation.R | 173 familiar-2.0.0/familiar/R/Clustering.R | 201 familiar-2.0.0/familiar/R/ClusteringMethod.R | 536 familiar-2.0.0/familiar/R/CombatNormalisation.R | 159 familiar-2.0.0/familiar/R/DataObject.R | 1573 +- familiar-2.0.0/familiar/R/DataParameterChecks.R | 1263 + familiar-2.0.0/familiar/R/DataPreProcessing.R | 592 familiar-2.0.0/familiar/R/DataProcessing.R | 44 familiar-2.0.0/familiar/R/DataServerBackend.R | 157 familiar-2.0.0/familiar/R/ErrorMessages.R | 663 familiar-2.0.0/familiar/R/ExperimentData.R | 143 familiar-2.0.0/familiar/R/ExperimentSetup.R | 561 familiar-2.0.0/familiar/R/Familiar.R | 606 familiar-2.0.0/familiar/R/FamiliarCollection.R | 247 familiar-2.0.0/familiar/R/FamiliarCollectionExport.R | 257 familiar-2.0.0/familiar/R/FamiliarData.R | 109 familiar-2.0.0/familiar/R/FamiliarDataComputation.R | 1093 - familiar-2.0.0/familiar/R/FamiliarDataComputationAUCCurves.R | 522 familiar-2.0.0/familiar/R/FamiliarDataComputationCalibrationData.R | 1974 +- familiar-2.0.0/familiar/R/FamiliarDataComputationCalibrationInfo.R | 175 familiar-2.0.0/familiar/R/FamiliarDataComputationConfusionMatrix.R | 309 familiar-2.0.0/familiar/R/FamiliarDataComputationDecisionCurveAnalysis.R | 827 - familiar-2.0.0/familiar/R/FamiliarDataComputationFeatureExpression.R | 206 familiar-2.0.0/familiar/R/FamiliarDataComputationFeatureSimilarity.R | 370 familiar-2.0.0/familiar/R/FamiliarDataComputationHyperparameters.R | 119 familiar-2.0.0/familiar/R/FamiliarDataComputationICE.R | 843 - familiar-2.0.0/familiar/R/FamiliarDataComputationModelPerformance.R | 541 familiar-2.0.0/familiar/R/FamiliarDataComputationPermutationVimp.R | 381 familiar-2.0.0/familiar/R/FamiliarDataComputationPredictionData.R | 533 familiar-2.0.0/familiar/R/FamiliarDataComputationRiskStratificationData.R | 643 familiar-2.0.0/familiar/R/FamiliarDataComputationRiskStratificationInfo.R | 83 familiar-2.0.0/familiar/R/FamiliarDataComputationSHAP.R |only familiar-2.0.0/familiar/R/FamiliarDataComputationSampleSimilarity.R | 268 familiar-2.0.0/familiar/R/FamiliarDataComputationUnivariateAnalysis.R | 152 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familiar-2.0.0/familiar/tests/testthat/test-task_based_workflow.R |only familiar-2.0.0/familiar/tests/testthat/test-train_familiar.R | 184 familiar-2.0.0/familiar/tests/testthat/test-transformation.R | 49 familiar-2.0.0/familiar/tests/testthat/test-update_object.R | 2 familiar-2.0.0/familiar/tests/testthat/test-vignette_introduction.R |only familiar-2.0.0/familiar/tests/testthat/test-vimp_concordance_S4.R | 69 familiar-2.0.0/familiar/tests/testthat/test-vimp_corelearn_S4.R | 140 familiar-2.0.0/familiar/tests/testthat/test-vimp_correlation_S4.R | 51 familiar-2.0.0/familiar/tests/testthat/test-vimp_glmnet_S4.R | 55 familiar-2.0.0/familiar/tests/testthat/test-vimp_mutual_information_S4.R | 212 familiar-2.0.0/familiar/tests/testthat/test-vimp_ranger_S4.R | 273 familiar-2.0.0/familiar/tests/testthat/test-vimp_regression_S4.R | 128 familiar-2.0.0/familiar/tests/testthat/test-vimp_rfsrc_S4.R |only familiar-2.0.0/familiar/tests/testthat/test-vimp_table.R | 11 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|only 442 files changed, 47178 insertions(+), 39469 deletions(-)
Title: 'data.table' Time-Series
Description: High-frequency time-series support via 'nanotime' and 'data.table'.
Author: Dirk Eddelbuettel [aut, cre] ,
Leonardo Silvestri [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between dtts versions 0.1.3 dated 2024-07-18 and 0.1.4 dated 2026-04-23
ChangeLog | 34 ++++++++++++++++++++++++++++++++++ DESCRIPTION | 17 +++++++++++------ MD5 | 10 +++++----- NAMESPACE | 6 +++--- inst/NEWS.Rd | 10 ++++++++++ inst/tinytest/test_dtts.R | 44 ++++++++++++++++++++++---------------------- 6 files changed, 85 insertions(+), 36 deletions(-)
Title: POSIX System Utilities
Description: Bindings to system utilities found in most Unix systems such as
POSIX functions which are not part of the Standard C Library.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between unix versions 1.5.9 dated 2024-10-04 and 1.6.0 dated 2026-04-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 3 +++ tests/testthat/test-forking.R | 2 +- 4 files changed, 11 insertions(+), 8 deletions(-)
Title: Canonical Correlations and Tests of Independence
Description: A simple interface for multivariate correlation analysis that unifies various classical
statistical procedures including t-tests, tests in univariate and multivariate linear models,
parametric and nonparametric tests for correlation, Kruskal-Wallis tests, common approximate
versions of Wilcoxon rank-sum and signed rank tests, chi-squared tests of independence, score
tests of particular hypotheses in generalized linear models, canonical correlation analysis and
linear discriminant analysis.
Author: Robert Schlicht [aut, cre]
Maintainer: Robert Schlicht <robert.schlicht@tu-dresden.de>
Diff between cctest versions 2.3.2 dated 2026-03-26 and 2.3.3 dated 2026-04-23
DESCRIPTION | 6 - MD5 | 8 - NAMESPACE | 2 R/cctest.R | 263 +++++++++++++++++++++++++++++----------------------------- man/cctest.Rd | 123 +++++++++++++-------------- 5 files changed, 203 insertions(+), 199 deletions(-)
Title: Standardized Git Repository Data
Description: Obtain standardized data from multiple 'Git' services, including 'GitHub' and 'GitLab'.
Designed to be 'Git' service-agnostic, this package assists teams with activities spread across various
'Git' platforms by providing a unified way to access repository data.
Author: Maciej Banas [aut, cre],
Kamil Koziej [aut],
Karolina Marcinkowska [aut],
Matt Secrest [aut]
Maintainer: Maciej Banas <banasmaciek@gmail.com>
Diff between GitStats versions 2.5.0 dated 2026-04-02 and 2.5.1 dated 2026-04-23
DESCRIPTION | 6 MD5 | 83 ++-- NAMESPACE | 1 NEWS.md | 41 +- R/EngineGraphQL.R | 140 +++++-- R/EngineGraphQLGitLab.R | 84 ++++ R/GitHost.R | 22 - R/GitHostGitHub.R | 7 R/GitHostGitLab.R | 10 R/GitStats.R | 109 ++++- R/set_host.R | 6 README.md | 37 +- inst/WORDLIST | 2 inst/doc/store_data.R | 5 inst/doc/store_data.Rmd | 8 inst/doc/store_data.html | 368 ++++++++++---------- man/is_parallel.Rd |only man/set_github_host.Rd | 6 man/set_gitlab_host.Rd | 6 man/set_parallel.Rd | 12 tests/testthat/_snaps/01-get_repos-GitLab.md | 9 tests/testthat/_snaps/helpers.md | 1 tests/testthat/helper-error-fixtures.R | 20 + tests/testthat/helper-expect-responses.R | 17 tests/testthat/setup.R | 2 tests/testthat/test-00-api-requests.R | 2 tests/testthat/test-00-get_orgs-GitLab.R | 2 tests/testthat/test-00-graphql_errors.R | 11 tests/testthat/test-01-get_repos-GitHub.R | 10 tests/testthat/test-01-get_repos-GitLab.R | 112 +++++- tests/testthat/test-02-get_commits-GitLab.R | 2 tests/testthat/test-03-get_files_structure-GitHub.R | 15 tests/testthat/test-03-get_files_structure-GitLab.R | 4 tests/testthat/test-get_files_tree-REST.R | 8 tests/testthat/test-get_issues_stats.R | 2 tests/testthat/test-get_pull_requests-04-stats.R | 2 tests/testthat/test-get_storage.R | 2 tests/testthat/test-incremental-cache.R | 18 tests/testthat/test-parallel.R | 142 +++++-- tests/testthat/test-set_host.R | 20 + tests/testthat/test-set_storage.R | 78 ++-- tests/testthat/test-utils.R | 4 vignettes/store_data.Rmd | 8 43 files changed, 940 insertions(+), 504 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-11-28 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-08-27 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-12-03 2.1
2015-05-22 2.0
2015-01-08 1.1
2014-07-23 1.0
Title: Variable Importance Plots
Description: A general framework for constructing variable importance plots from
various types of machine learning models in R. Aside from some standard model-
specific variable importance measures, this package also provides model-
agnostic approaches that can be applied to any supervised learning algorithm.
These include 1) an efficient permutation-based variable importance measure,
2) variable importance based on Shapley values (Strumbelj and Kononenko,
2014) <doi:10.1007/s10115-013-0679-x>, and 3) the variance-based
approach described in Greenwell et al. (2018) <doi:10.48550/arXiv.1805.04755>. A
variance-based method for quantifying the relative strength of interaction
effects is also included (see the previous reference for details).
Author: Brandon M. Greenwell [aut, cre] ,
Brad Boehmke [aut]
Maintainer: Brandon M. Greenwell <greenwell.brandon@gmail.com>
Diff between vip versions 0.4.5 dated 2025-12-12 and 0.4.6 dated 2026-04-23
vip-0.4.5/vip/inst/tinytest/test_get_feature_names.R |only vip-0.4.6/vip/DESCRIPTION | 9 +- vip-0.4.6/vip/MD5 | 63 +++++++++---------- vip-0.4.6/vip/NEWS.md | 19 +++++ vip-0.4.6/vip/R/get_feature_names.R | 5 - vip-0.4.6/vip/R/vi_permute.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_C50.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_Cubist.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_RSNNS.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_caret.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_earth.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_gbm.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_glmnet.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_h2o.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_lightgbm.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_mixOmics.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_mlr.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_mlr3.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_neuralnet.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_nnet.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_party.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_partykit.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_pls.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_randomForest.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_ranger.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_rpart.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_stats.R | 4 - vip-0.4.6/vip/inst/tinytest/test_pkg_tidymodels.R | 2 vip-0.4.6/vip/inst/tinytest/test_pkg_xgboost.R | 12 +-- vip-0.4.6/vip/inst/tinytest/test_vi_firm.R | 18 ++--- vip-0.4.6/vip/inst/tinytest/test_vi_permute.R | 22 +++--- vip-0.4.6/vip/man/vi_model.Rd | 4 - vip-0.4.6/vip/man/vi_permute.Rd | 2 33 files changed, 113 insertions(+), 119 deletions(-)
Title: Lean Analytics and Robust Exploration Sidekick
Description: Auxiliary package for better/faster analytics, visualization, data mining, and machine
learning tasks. With a wide variety of family functions, like Machine Learning, Data Wrangling,
Marketing Mix Modeling (Robyn), Exploratory, API, and Scrapper, it helps the analyst or
data scientist to get quick and robust results, without the need of repetitive coding or
advanced R programming skills.
Author: Bernardo Lares [aut, cre]
Maintainer: Bernardo Lares <laresbernardo@gmail.com>
Diff between lares versions 5.3.2 dated 2025-08-18 and 5.4.0 dated 2026-04-23
lares-5.3.2/lares/man/get_mp3.Rd |only lares-5.3.2/lares/man/trim_mp3.Rd |only lares-5.4.0/lares/DESCRIPTION | 18 lares-5.4.0/lares/LICENSE |only lares-5.4.0/lares/MD5 | 239 +++--- lares-5.4.0/lares/NAMESPACE | 7 lares-5.4.0/lares/R/audio.R | 260 ++++++- lares-5.4.0/lares/R/cache.R | 2 lares-5.4.0/lares/R/calendar.R |only lares-5.4.0/lares/R/clusters.R | 2 lares-5.4.0/lares/R/correlations.R | 30 lares-5.4.0/lares/R/credentials.R | 63 + lares-5.4.0/lares/R/crossbrand.R | 2 lares-5.4.0/lares/R/dont_sleep.R | 45 - lares-5.4.0/lares/R/dropbox.R | 2 lares-5.4.0/lares/R/encryption.R | 2 lares-5.4.0/lares/R/facebook.R | 16 lares-5.4.0/lares/R/frequencies.R | 35 lares-5.4.0/lares/R/lares.R | 3 lares-5.4.0/lares/R/lasso.R | 2 lares-5.4.0/lares/R/mails.R | 2 lares-5.4.0/lares/R/maze.R | 1 lares-5.4.0/lares/R/missings.R | 2 lares-5.4.0/lares/R/model_functions.R | 29 lares-5.4.0/lares/R/model_plots.R | 104 +- lares-5.4.0/lares/R/onehotencoding.R | 187 ++--- lares-5.4.0/lares/R/other_functions.R | 1127 ------------------------------- lares-5.4.0/lares/R/querieSQL.R | 7 lares-5.4.0/lares/R/shapley.R | 2 lares-5.4.0/lares/R/text_mining.R | 2 lares-5.4.0/lares/R/tictoc.R | 2 lares-5.4.0/lares/R/update.R | 11 lares-5.4.0/lares/R/utils_data.R |only lares-5.4.0/lares/R/utils_system.R |only lares-5.4.0/lares/R/utils_text.R |only lares-5.4.0/lares/R/wrangling.R | 4 lares-5.4.0/lares/README.md | 14 lares-5.4.0/lares/build |only lares-5.4.0/lares/inst/doc |only lares-5.4.0/lares/man/autoline.Rd | 3 lares-5.4.0/lares/man/bind_files.Rd | 3 lares-5.4.0/lares/man/bring_api.Rd | 1 lares-5.4.0/lares/man/cal_split.Rd |only lares-5.4.0/lares/man/chr2num.Rd | 3 lares-5.4.0/lares/man/corr.Rd | 1 lares-5.4.0/lares/man/corr_cross.Rd | 34 lares-5.4.0/lares/man/corr_var.Rd | 1 lares-5.4.0/lares/man/crosstab.Rd | 1 lares-5.4.0/lares/man/db_download.Rd | 1 lares-5.4.0/lares/man/db_upload.Rd | 1 lares-5.4.0/lares/man/df_str.Rd | 1 lares-5.4.0/lares/man/dist2d.Rd | 1 lares-5.4.0/lares/man/distr.Rd | 1 lares-5.4.0/lares/man/dont_sleep.Rd | 5 lares-5.4.0/lares/man/export_plot.Rd | 1 lares-5.4.0/lares/man/export_results.Rd | 1 lares-5.4.0/lares/man/fb_accounts.Rd | 2 lares-5.4.0/lares/man/fb_ads.Rd | 2 lares-5.4.0/lares/man/fb_creatives.Rd | 2 lares-5.4.0/lares/man/fb_insights.Rd | 4 lares-5.4.0/lares/man/fb_report_check.Rd | 2 lares-5.4.0/lares/man/fb_rf.Rd | 2 lares-5.4.0/lares/man/fb_token.Rd | 2 lares-5.4.0/lares/man/filesGD.Rd | 2 lares-5.4.0/lares/man/files_functions.Rd | 3 lares-5.4.0/lares/man/font_exists.Rd | 3 lares-5.4.0/lares/man/formatColoured.Rd | 3 lares-5.4.0/lares/man/format_string.Rd | 3 lares-5.4.0/lares/man/freqs.Rd | 1 lares-5.4.0/lares/man/freqs_df.Rd | 1 lares-5.4.0/lares/man/freqs_list.Rd | 1 lares-5.4.0/lares/man/freqs_plot.Rd | 1 lares-5.4.0/lares/man/get_credentials.Rd | 6 lares-5.4.0/lares/man/glued.Rd | 7 lares-5.4.0/lares/man/google_sheets.Rd | 2 lares-5.4.0/lares/man/google_trends.Rd | 2 lares-5.4.0/lares/man/grepm.Rd | 3 lares-5.4.0/lares/man/h2o_automl.Rd | 18 lares-5.4.0/lares/man/h2o_results.Rd | 5 lares-5.4.0/lares/man/h2o_selectmodel.Rd | 1 lares-5.4.0/lares/man/haveInternet.Rd | 3 lares-5.4.0/lares/man/holidays.Rd | 11 lares-5.4.0/lares/man/image_metadata.Rd | 3 lares-5.4.0/lares/man/importxlsx.Rd | 3 lares-5.4.0/lares/man/ip_data.Rd | 5 lares-5.4.0/lares/man/json2vector.Rd | 3 lares-5.4.0/lares/man/lasso_vars.Rd | 1 lares-5.4.0/lares/man/list_cats.Rd | 3 lares-5.4.0/lares/man/listfiles.Rd | 3 lares-5.4.0/lares/man/mail_send.Rd | 1 lares-5.4.0/lares/man/markdown2df.Rd | 3 lares-5.4.0/lares/man/maze_solve.Rd | 2 lares-5.4.0/lares/man/missingness.Rd | 1 lares-5.4.0/lares/man/model_metrics.Rd | 1 lares-5.4.0/lares/man/move_files.Rd | 3 lares-5.4.0/lares/man/mp3_get.Rd |only lares-5.4.0/lares/man/mp3_trim.Rd |only lares-5.4.0/lares/man/mp3_update_tags.Rd |only lares-5.4.0/lares/man/msplit.Rd | 1 lares-5.4.0/lares/man/myip.Rd | 3 lares-5.4.0/lares/man/plot_cats.Rd | 1 lares-5.4.0/lares/man/plot_df.Rd | 1 lares-5.4.0/lares/man/plot_nums.Rd | 1 lares-5.4.0/lares/man/quants.Rd | 1 lares-5.4.0/lares/man/queryDB.Rd | 8 lares-5.4.0/lares/man/quiet.Rd | 3 lares-5.4.0/lares/man/read.file.Rd | 3 lares-5.4.0/lares/man/spread_list.Rd | 2 lares-5.4.0/lares/man/statusbar.Rd | 1 lares-5.4.0/lares/man/stocks_hist.Rd | 2 lares-5.4.0/lares/man/stocks_plots.Rd | 2 lares-5.4.0/lares/man/tic.Rd | 1 lares-5.4.0/lares/man/toon_reduction.Rd |only lares-5.4.0/lares/man/tree_var.Rd | 1 lares-5.4.0/lares/man/try_require.Rd | 3 lares-5.4.0/lares/man/updateLares.Rd | 13 lares-5.4.0/lares/man/warnifnot.Rd | 3 lares-5.4.0/lares/man/what_size.Rd | 3 lares-5.4.0/lares/vignettes |only 119 files changed, 881 insertions(+), 1577 deletions(-)
Title: Bayesian Rasch Analysis Using 'brms'
Description: Reproduces classic Rasch psychometric analysis features
using Bayesian item response theory models fitted with 'brms' following
Bürkner (2021) <doi:10.18637/jss.v100.i05> and Bürkner (2020) <doi:10.3390/jintelligence8010005>.
Supports both dichotomous and polytomous Rasch models.
Features include posterior predictive item fit, conditional infit, item-restscore
associations, person fit, differential item functioning, local dependence
assessment via Q3 residual correlations, dimensionality assessment with
residual principal components analysis, person-item targeting plots,
item category probability curves, and reliability using relative
measurement uncertainty following Bignardi et al. (2025) <doi:10.31234/osf.io/h54k8_v1>.
Author: Magnus Johansson [aut, cre] ,
Giacomo Bignardi [ctb]
Maintainer: Magnus Johansson <pgmj@pm.me>
Diff between easyRaschBayes versions 0.2.0 dated 2026-03-28 and 0.2.0.1 dated 2026-04-23
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/cicc_plot.R | 4 ++-- 4 files changed, 12 insertions(+), 8 deletions(-)
More information about easyRaschBayes at CRAN
Permanent link
Title: R Interface for Apache Sedona
Description: R interface for 'Apache Sedona' based on 'sparklyr'
(<https://sedona.apache.org>).
Author: Apache Sedona [aut, cre],
Jia Yu [ctb, cph],
Yitao Li [aut, cph] ,
The Apache Software Foundation [cph],
RStudio [cph]
Maintainer: Apache Sedona <private@sedona.apache.org>
Diff between apache.sedona versions 1.8.1 dated 2026-01-09 and 1.9.0 dated 2026-04-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/dependencies.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-15 0.1.1-1
2023-02-11 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-15 0.1.6-1
2025-05-07 0.1.6
2025-05-05 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-15 0.1.0-1
2023-03-28 0.1.0
Title: Easily Install and Load the 'Tidymodels' Packages
Description: The tidy modeling "verse" is a collection of packages for
modeling and statistical analysis that share the underlying design
philosophy, grammar, and data structures of the tidyverse.
Author: Max Kuhn [aut, cre] ,
Hadley Wickham [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between tidymodels versions 1.4.1 dated 2025-09-08 and 1.5.0 dated 2026-04-23
DESCRIPTION | 20 ++++++++++---------- MD5 | 8 ++++---- NEWS.md | 6 ++++++ README.md | 20 ++++++++++---------- build/vignette.rds |binary 5 files changed, 30 insertions(+), 24 deletions(-)
Title: A Library for using 'Pathling'
Description: R API for 'Pathling', a tool for querying and transforming electronic health record data that is represented using the 'Fast Healthcare Interoperability Resources' (FHIR) standard - see <https://pathling.csiro.au/docs>.
Author: Australian e-Health Research Centre, CSIRO [cph, cre],
Piotr Szul [aut],
John Grimes [aut]
Maintainer: "Australian e-Health Research Centre, CSIRO" <pathling@csiro.au>
Diff between pathling versions 9.5.0 dated 2026-03-17 and 9.6.0 dated 2026-04-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/view.R | 8 ++++---- man/ds_view.Rd | 4 ++-- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Bayesian Longitudinal Regularized Quantile Mixed Model
Description: With high-dimensional omics features, repeated measure ANOVA leads to longitudinal gene-environment interaction studies that have intra-cluster correlations, outlying observations and structured sparsity arising from the ANOVA design. In this package, we have developed robust sparse Bayesian mixed effect models tailored for the above studies (Fan et al. (2025) <doi:10.1093/jrsssc/qlaf027>). An efficient Gibbs sampler has been developed to facilitate fast computation. The Markov chain Monte Carlo algorithms of the proposed and alternative methods are efficiently implemented in 'C++'. The development of this software package and the associated statistical methods have been partially supported by an Innovative Research Award from Johnson Cancer Research Center, Kansas State University.
Author: Kun Fan [aut, cre],
Shejuty Devnath [aut],
Cen Wu [aut]
Maintainer: Kun Fan <fzt0428@gmail.com>
Diff between mixedBayes versions 0.2.4 dated 2026-04-13 and 0.2.5 dated 2026-04-23
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 9 +++++++-- R/data.R | 8 +++++--- R/mixedBayes.R | 19 +++++++++---------- R/predict_mixedBayes.R | 5 +++++ README.md | 8 ++++---- man/data.Rd | 8 +++++--- man/mixedBayes.Rd | 19 +++++++++---------- man/predict_mixedBayes.Rd | 5 ++++- 10 files changed, 61 insertions(+), 46 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-22 0.1.3
2026-04-08 0.1.2
2026-04-03 0.1.1
2026-03-29 0.1.0
2026-02-12 0.0.9
2026-02-02 0.0.8
2026-01-14 0.0.7
2025-12-19 0.0.6
2025-11-20 0.0.5
2025-06-23 0.0.4
2025-06-16 0.0.3
2025-06-04 0.0.2
2025-06-02 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-23 0.1.24
2026-01-15 0.1.15
2025-04-27 0.1.12
2025-04-19 0.1.11
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-12-21 0.1.13
2025-03-14 0.1.12
2025-02-25 0.1.11
2024-10-16 0.1.10
2024-08-19 0.1.9
2024-04-21 0.1.8
2023-08-27 0.1.7
2023-04-19 0.1.6
2023-04-05 0.1.5
Title: Information Theoretic Analysis of Gene Expression Data
Description: Implements Surprisal analysis for gene expression data such as RNA-seq or microarray experiments. Surprisal analysis is an information-theoretic method that decomposes gene expression data into a baseline state and constraint-associated deviations, capturing coordinated gene expression patterns under different biological conditions. References: Kravchenko-Balasha N. et al. (2014) <doi:10.1371/journal.pone.0108549>. Zadran S. et al. (2014) <doi:10.1073/pnas.1414714111>. Su Y. et al. (2019) <doi:10.1371/journal.pcbi.1007034>. Bogaert K. A. et al. (2018) <doi:10.1371/journal.pone.0195142>.
Author: Annice Najafi [aut, cre]
Maintainer: Annice Najafi <annicenajafi27@gmail.com>
Diff between SurprisalAnalysis versions 3.0.0 dated 2026-01-07 and 3.0.1 dated 2026-04-23
SurprisalAnalysis-3.0.0/SurprisalAnalysis/inst/extdata/GSE60450_Lactation-GenewiseCounts.txt |only SurprisalAnalysis-3.0.0/SurprisalAnalysis/inst/extdata/helper_T_cell_0_test.csv |only SurprisalAnalysis-3.0.0/SurprisalAnalysis/inst/shiny/data |only SurprisalAnalysis-3.0.0/SurprisalAnalysis/inst/shiny/rsconnect |only SurprisalAnalysis-3.0.1/SurprisalAnalysis/DESCRIPTION | 14 SurprisalAnalysis-3.0.1/SurprisalAnalysis/MD5 | 45 SurprisalAnalysis-3.0.1/SurprisalAnalysis/NAMESPACE | 131 - SurprisalAnalysis-3.0.1/SurprisalAnalysis/R/runApp.R | 12 SurprisalAnalysis-3.0.1/SurprisalAnalysis/R/surprisal_analysis.R | 2 SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/NormalizationsZeroHandlingComparisons.R | 2 SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/NormalizationsZeroHandlingComparisons.Rmd | 6 SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/NormalizationsZeroHandlingComparisons.html | 848 +++----- SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/RunTimeRecording.Rmd | 4 SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/RunTimeRecording.html | 836 ++------ SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/SurprisalAnalysisGuideline.R | 2 SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/SurprisalAnalysisGuideline.Rmd | 6 SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/doc/SurprisalAnalysisGuideline.html | 978 +++------- SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/extdata/GSE60450_Lactation-GenewiseCounts.txt.gz |only SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/extdata/helper_T_cell_0_test.csv.gz |only SurprisalAnalysis-3.0.1/SurprisalAnalysis/inst/shiny/app.R | 67 SurprisalAnalysis-3.0.1/SurprisalAnalysis/man/GO_analysis_surprisal_analysis.Rd | 156 - SurprisalAnalysis-3.0.1/SurprisalAnalysis/man/runSurprisalApp.Rd | 73 SurprisalAnalysis-3.0.1/SurprisalAnalysis/man/surprisal_analysis.Rd | 64 SurprisalAnalysis-3.0.1/SurprisalAnalysis/vignettes/NormalizationsZeroHandlingComparisons.Rmd | 6 SurprisalAnalysis-3.0.1/SurprisalAnalysis/vignettes/RunTimeRecording.Rmd | 4 SurprisalAnalysis-3.0.1/SurprisalAnalysis/vignettes/SurprisalAnalysisGuideline.Rmd | 6 26 files changed, 1228 insertions(+), 2034 deletions(-)
More information about SurprisalAnalysis at CRAN
Permanent link
Title: Utilities for using the 'COM(P)ADRE' Matrix Model Database
Description: Utility functions for interacting with the 'COMPADRE' and
'COMADRE' databases of matrix population models. Described in Jones et
al. (2021) <doi:10.1101/2021.04.26.441330>.
Author: Patrick Barks [aut] ,
Danny Buss [aut],
Roberto Salguero-Gomez [aut] ,
Iain Stott [aut] ,
William K. Petry [aut] ,
Tamora James [aut] ,
Owen Jones [aut, cre] ,
Julia Jones [aut] ,
Gesa Roemer [aut] ,
Sam Levin [aut]
Maintainer: Owen Jones <jones@biology.sdu.dk>
Diff between Rcompadre versions 1.4.0 dated 2024-10-16 and 1.5.0 dated 2026-04-23
DESCRIPTION | 41 ++++---- MD5 | 141 ++++++++++++++-------------- NAMESPACE | 7 + NEWS.md | 5 R/ClassUnionMethods.R | 12 -- R/CompadreDB-Methods.R | 105 ++++++++++++++++++++ R/CompadreDB-Subsetting.R | 61 ++---------- R/CompadreDB-Tidyverse.R | 89 ++++++----------- R/CompadreDB.R | 22 ---- R/cdb_collapse.R | 2 R/cdb_export_matlab.R |only R/cdb_fetch.R | 6 - R/cdb_flag.R | 1 R/cdb_mean_matF.R | 1 R/cdb_rbind.R | 85 +++++++++++++--- R/cdb_unflatten.R | 1 R/data.R | 4 R/mpm_elementwise_apply.R | 66 ++++++------- R/mpm_mean.R | 24 ++-- R/mpm_median.R | 30 ++--- R/mpm_sd.R | 32 +++--- R/string_representation.R | 6 - build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/a01_GettingStarted.R | 26 +++-- inst/doc/a01_GettingStarted.Rmd | 20 +++ inst/doc/a01_GettingStarted.html | 15 +- inst/doc/a02_RcompadreTidy.R | 36 +++++-- inst/doc/a02_RcompadreTidy.Rmd | 37 +++++-- inst/doc/a02_RcompadreTidy.html | 20 ++- inst/doc/a03_VectorisingRcompadre.R | 26 ++++- inst/doc/a03_VectorisingRcompadre.Rmd | 22 +++- inst/doc/a03_VectorisingRcompadre.html | 14 +- inst/doc/a04_ObtainingReferences.R | 28 ++++- inst/doc/a04_ObtainingReferences.Rmd | 30 ++++- inst/doc/a04_ObtainingReferences.html | 16 ++- inst/doc/a05_UsingYourOwnData.R | 2 inst/doc/a05_UsingYourOwnData.html | 17 +-- man/CompadreDB-Methods.Rd | 27 ++++- man/CompadreDB-Subsetting.Rd | 9 - man/Rcompadre-package.Rd | 2 man/cdb_export_matlab.Rd |only man/cdb_fetch.Rd | 4 man/cdb_flatten.Rd | 3 man/cdb_id.Rd | 1 man/cdb_id_stages.Rd | 3 man/cdb_id_studies.Rd | 3 man/cdb_mean_matF.Rd | 3 man/cdb_rbind.Rd | 23 +++- man/cdb_unflatten.Rd | 3 man/cdb_unnest.Rd | 3 man/mpm_elementwise_apply.Rd | 21 ++-- man/mpm_mean.Rd | 7 - man/mpm_median.Rd | 3 man/mpm_sd.Rd | 3 man/string_representation.Rd | 3 tests/testthat/test-CompadreDB-Methods.R | 37 ++++++- tests/testthat/test-CompadreDB-Subsetting.R | 15 +- tests/testthat/test-CompadreDB.R | 8 - tests/testthat/test-CompadreMat.R | 8 - tests/testthat/test-cdb_build_cdb.R | 2 tests/testthat/test-cdb_export_matlab.R |only tests/testthat/test-cdb_fetch.R | 12 +- tests/testthat/test-cdb_flatten.R | 5 tests/testthat/test-cdb_rbind.R | 37 +++++++ tests/testthat/test-mpm_median.R | 3 tests/testthat/test-mpm_sd.R | 1 tests/testthat/test-string_representation.R | 8 + vignettes/a01_GettingStarted.Rmd | 20 +++ vignettes/a02_RcompadreTidy.Rmd | 37 +++++-- vignettes/a03_VectorisingRcompadre.Rmd | 22 +++- vignettes/a04_ObtainingReferences.Rmd | 30 ++++- 73 files changed, 914 insertions(+), 504 deletions(-)
Title: Quality Report Generation for MaxQuant and mzTab Results
Description: Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the
MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool).
Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format.
Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015)
<doi:10.1021/acs.jproteome.5b00780>.
Author: Chris Bielow [aut, cre],
Juliane Schmachtenberg [ctb],
Swenja Wagner [ctb],
Patricia Scheil [ctb],
Tom Waschischek [ctb],
Guido Mastrobuoni [dtc, rev]
Maintainer: Chris Bielow <chris.bielow@bsc.fu-berlin.de>
Diff between PTXQC versions 1.1.4 dated 2026-02-18 and 1.1.5 dated 2026-04-23
DESCRIPTION | 8 MD5 | 30 NEWS | 2 R/FilenameMapper.R | 730 ++++++++++---------- R/MQDataReader.R | 1015 ++++++++++++++-------------- README.md | 11 inst/doc/PTXQC-Basic_Guide_for_R_users.html | 4 inst/doc/PTXQC-CustomizeReport.html | 4 inst/doc/PTXQC-DragNDrop.html | 4 inst/doc/PTXQC-FAQ.html | 4 inst/doc/PTXQC-Input_And_Output_Data.Rmd | 3 inst/doc/PTXQC-Input_And_Output_Data.html | 7 inst/doc/PTXQC-ListOfMetrics.html | 4 man/FilenameMapper-class.Rd | 2 man/MQDataReader-class.Rd | 18 vignettes/PTXQC-Input_And_Output_Data.Rmd | 3 16 files changed, 932 insertions(+), 917 deletions(-)
Title: Some Utilities for Developing Data Science Software
Description: A collection of general-purpose helper functions that I (and maybe
others) find useful when developing data science software. Includes tools
for simulation, data transformation, input validation, and more.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between oeli versions 0.7.5 dated 2025-08-18 and 0.7.6 dated 2026-04-23
DESCRIPTION | 11 MD5 | 364 ++-- NAMESPACE | 379 ++-- NEWS.md | 412 ++-- R/RcppExports.R | 182 +- R/catch-routine-registration.R | 12 R/check_correlation_matrix.R | 164 - R/check_covariance_matrix.R | 164 - R/check_list_of_lists.R | 104 - R/check_missing.R | 130 - R/check_numeric_vector.R | 136 - R/check_one_hot_matrix.R |only R/check_probability_vector.R | 124 - R/check_transition_probability_matrix.R | 144 - R/cholesky_root.R | 208 +- R/chunk_vector.R | 130 - R/correlated_regressors.R | 714 +++---- R/covariance_differencing.R | 306 +-- R/delete_columns_data.frame.R | 72 R/dictionary.R | 616 +++--- R/dirichlet.R | 136 - R/do.call_timed.R | 75 R/equidistant_vectors.R | 144 - R/find_namespace_calls.R | 224 +- R/function_arguments.R | 90 - R/function_body.R | 74 R/function_defaults.R | 78 R/gaussian_tv.R | 290 +-- R/group_data.frame.R | 73 R/hermannslauf.R |only R/identical_structure.R | 122 - R/input_check_response.R | 218 +- R/insert_matrix_column.R | 150 - R/insert_vector_entry.R | 102 - R/map_indices.R | 90 - R/match_arg.R | 128 - R/match_numerics.R | 92 - R/matrix_diagonal_indices.R | 110 - R/matrix_indices.R | 80 R/merge_lists.R | 66 R/mixnorm.R | 382 ++-- R/mvnorm.R | 426 ++-- R/occurrence_info.R | 124 - R/oeli-package.R | 182 +- R/package_logo.R | 230 +- R/permutations.R | 80 R/print_data.frame.R | 248 +- R/print_matrix.R | 318 +-- R/quiet.R | 122 - R/round_data.frame.R | 92 - R/sample_correlation_matrix.R | 84 R/sample_covariance_matrix.R | 64 R/sample_transition_probability_matrix.R | 56 R/simulate_markov_chain.R | 102 - R/simulator.R | 804 ++++---- R/split_vector_at.R | 94 - R/stationary_distribution.R | 90 - R/storage.R | 1170 ++++++------- R/subsets.R | 84 R/system_information.R | 122 - R/timed.R | 126 - R/tnorm.R | 200 +- R/try_silent.R | 66 R/unexpected_error.R | 76 R/user_confirm.R | 92 - R/variable_name.R | 72 R/vector_occurrence.R | 74 R/wishart.R | 154 - README.md | 455 ++--- data |only man/Dictionary.Rd | 456 ++--- man/Simulator.Rd | 432 ++-- man/Storage.Rd | 692 +++---- man/check_correlation_matrix.Rd | 137 - man/check_covariance_matrix.Rd | 137 - man/check_list_of_lists.Rd | 108 - man/check_numeric_vector.Rd | 294 +-- man/check_one_hot_matrix.Rd |only man/check_probability_vector.Rd | 134 - man/check_transition_probability_matrix.Rd | 151 - man/chunk_vector.Rd | 114 - man/correlated_regressors.Rd | 190 +- man/cov_to_chol.Rd | 1 man/ddirichlet.Rd | 136 - man/diff_cov.Rd | 221 +- man/dmixnorm.Rd | 200 +- man/dmvnorm.Rd | 218 +- man/do.call_timed.Rd | 90 - man/dtnorm.Rd | 180 +- man/dwishart.Rd | 168 - man/equidistant_vectors.Rd | 112 - man/function_arguments.Rd | 84 man/function_body.Rd | 84 man/function_defaults.Rd | 80 man/gaussian_tv.Rd | 178 - man/hermann.Rd |only man/identical_structure.Rd | 98 - man/input_check_response.Rd | 202 +- man/insert_matrix_column.Rd | 133 - man/insert_vector_entry.Rd | 118 - man/map_indices.Rd | 102 - man/match_arg.Rd | 102 - man/match_numerics.Rd | 80 man/matrix_diagonal_indices.Rd | 117 - man/matrix_indices.Rd | 93 - man/merge_lists.Rd | 56 man/oeli-package.Rd | 52 man/package_logo.Rd | 126 - man/permutations.Rd | 80 man/print_data.frame.Rd | 134 - man/print_matrix.Rd | 148 - man/sample_correlation_matrix.Rd | 95 - man/sample_covariance_matrix.Rd | 99 - man/sample_transition_probability_matrix.Rd | 83 man/simulate_markov_chain.Rd | 88 man/split_vector_at.Rd | 90 - man/stationary_distribution.Rd | 89 man/subsets.Rd | 84 man/system_information.Rd | 82 man/timed.Rd | 102 - man/try_silent.Rd | 82 man/unexpected_error.Rd | 84 man/user_confirm.Rd | 76 man/variable_name.Rd | 80 man/vector_occurrence.Rd | 92 - src/RcppExports.cpp | 28 tests/testthat.R | 24 tests/testthat/test-check_correlation_matrix.R | 142 - tests/testthat/test-check_covariance_matrix.R | 108 - tests/testthat/test-check_list_of_lists.R | 40 tests/testthat/test-check_missing.R | 40 tests/testthat/test-check_numeric_vector.R | 68 tests/testthat/test-check_one_hot_matrix.R |only tests/testthat/test-check_probability_vector.R | 66 tests/testthat/test-check_transition_probability_matrix.R | 132 - tests/testthat/test-cholesky_root.R | 28 tests/testthat/test-chunk_vector.R | 34 tests/testthat/test-correlated_regressors.R | 64 tests/testthat/test-covariance_differencing.R | 84 tests/testthat/test-cpp.R | 2 tests/testthat/test-delete_columns_data.frame.R | 36 tests/testthat/test-dictionary.R | 186 +- tests/testthat/test-dirichlet.R | 68 tests/testthat/test-do.call_timed.R | 26 tests/testthat/test-equidistant_vectors.R | 60 tests/testthat/test-function_arguments.R | 100 - tests/testthat/test-function_body.R | 40 tests/testthat/test-function_defaults.R | 22 tests/testthat/test-gaussian_tv.R | 84 tests/testthat/test-group_data.frame.R | 64 tests/testthat/test-identical_structure.R | 26 tests/testthat/test-input_check_response.R | 88 tests/testthat/test-insert_matrix_column.R | 96 - tests/testthat/test-insert_vector_entry.R | 56 tests/testthat/test-map_indices.R | 36 tests/testthat/test-match_arg.R | 68 tests/testthat/test-match_numerics.R | 12 tests/testthat/test-matrix_diagonal_indices.R | 10 tests/testthat/test-matrix_indices.R | 30 tests/testthat/test-merge_lists.R | 52 tests/testthat/test-mixnorm.R | 314 +-- tests/testthat/test-mvnorm.R | 258 +- tests/testthat/test-occurrence_info.R | 48 tests/testthat/test-package_logo.R | 26 tests/testthat/test-permutations.R | 26 tests/testthat/test-print_data.frame.R | 50 tests/testthat/test-print_matrix.R | 220 +- tests/testthat/test-quiet.R | 60 tests/testthat/test-round_data.frame.R | 36 tests/testthat/test-sample_correlation_matrix.R | 10 tests/testthat/test-sample_covariance_matrix.R | 16 tests/testthat/test-sample_transition_probability_matrix.R | 14 tests/testthat/test-simulate_markov_chain.R | 12 tests/testthat/test-simulator.R | 192 +- tests/testthat/test-split_vector_at.R | 60 tests/testthat/test-stationary_distribution.R | 48 tests/testthat/test-storage.R | 92 - tests/testthat/test-subsets.R | 46 tests/testthat/test-system_information.R | 14 tests/testthat/test-timed.R | 50 tests/testthat/test-tnorm.R | 162 - tests/testthat/test-try_silent.R | 8 tests/testthat/test-unexpected_error.R | 26 tests/testthat/test-variable_name.R | 34 tests/testthat/test-vector_occurrence.R | 10 tests/testthat/test-wishart.R | 70 186 files changed, 12174 insertions(+), 12115 deletions(-)
Title: Download Time Series Data from the U.S. Bureau of Labor
Statistics
Description: These functions provide a convenient interface for downloading data from the U.S. Bureau of Labor Statistics <https://www.bls.gov>. The functions in this package utilize flat files produced by the Bureau of Labor Statistics, which contain full series history. These files include employment, unemployment, wages, prices, industry and occupational data at a national, state, and sub-state level, depending on the series. Individual functions are included for those programs which have data available at the state level. The core functions provide direct access to the Current Employment Statistics (CES) <https://www.bls.gov/ces/>, Local Area Unemployment Statistics (LAUS) <https://www.bls.gov/lau/>, Occupational Employment and Wage Statistics (OEWS) <https://www.bls.gov/oes/> and Alternative Measures of Labor Underutilization (SALT) <https://www.bls.gov/lau/stalt.htm> data produced by the Bureau of Labor Statistics.
Author: Nevada Department of Employment, Training, and Rehabilitation [cph],
David Schmidt [aut, cre],
Mark Rembert [aut]
Maintainer: David Schmidt <deschmidt@detr.nv.gov>
Diff between BLSloadR versions 0.4 dated 2026-02-13 and 0.4.5 dated 2026-04-23
BLSloadR-0.4.5/BLSloadR/MD5 | 87 +++++++++++----------- BLSloadR-0.4.5/BLSloadR/R/bls_overview.R | 20 ----- BLSloadR-0.4.5/BLSloadR/R/download_helpers.R | 103 ++++++++++++++++++++++----- BLSloadR-0.4.5/BLSloadR/R/fread_BLS.R |only BLSloadR-0.4.5/BLSloadR/R/get_ces.R | 7 + BLSloadR-0.4.5/BLSloadR/R/get_jolts.R | 7 + BLSloadR-0.4.5/BLSloadR/R/get_laus.R | 7 + BLSloadR-0.4.5/BLSloadR/R/get_national_ces.R | 7 + BLSloadR-0.4.5/BLSloadR/R/get_oews.R | 27 ++----- BLSloadR-0.4.5/BLSloadR/R/get_salt.R | 49 +++--------- BLSloadR-0.4.5/BLSloadR/R/globals.R | 4 - BLSloadR-0.4.5/BLSloadR/R/load_bls_dataset.R | 25 +----- BLSloadR-0.4.5/BLSloadR/data/ind_lookup.rda |binary BLSloadR-0.4/BLSloadR/DESCRIPTION |only BLSloadR-0.4/BLSloadR/LICENSE |only BLSloadR-0.4/BLSloadR/NAMESPACE |only BLSloadR-0.4/BLSloadR/NEWS.md |only BLSloadR-0.4/BLSloadR/R/fread_bls.R |only BLSloadR-0.4/BLSloadR/README.md |only BLSloadR-0.4/BLSloadR/build |only BLSloadR-0.4/BLSloadR/data/area_lookup.rda |only BLSloadR-0.4/BLSloadR/inst |only BLSloadR-0.4/BLSloadR/man |only 23 files changed, 189 insertions(+), 154 deletions(-)
Title: A Collection of Statistical Tools for Biologists
Description: Contains functions from: Aho, K. (2014) Foundational and Applied Statistics for Biologists using R. CRC/Taylor and Francis, Boca Raton, FL, ISBN: 978-1-4398-7338-0.
Author: Ken Aho [aut, cre]
Maintainer: Ken Aho <kenaho1@gmail.com>
Diff between asbio versions 1.13 dated 2026-04-07 and 1.13-1 dated 2026-04-23
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/anm.LV.r | 6 ++++-- R/pairw.anova.R | 19 ++++++++++--------- inst/doc/ranefCov.pdf |binary inst/doc/simpson.pdf |binary inst/doc/typeISS_key.pdf |binary 7 files changed, 25 insertions(+), 22 deletions(-)
Title: Estimating Penalized AFT Models via Coordinate Descent
Description: Provides penalized accelerated failure time (AFT) model estimation
for right-censored and partly interval-censored survival data using induced
smoothing and coordinate descent algorithms. Supported penalties include
broken adaptive ridge (BAR), LASSO, adaptive LASSO, and SCAD. Core
estimation routines are implemented in 'C++' via 'Rcpp' and 'RcppArmadillo' for
computational efficiency. The methodology is related to Zeng and Lin (2008)
<doi:10.1093/biostatistics/kxm034>, Xu et al. (2010)
<doi:10.1002/sim.2576>, Dai et al. (2018)
<doi:10.1016/j.jmva.2018.08.007>, and Choi et al. (2025)
<doi:10.48550/arXiv.2503.11268>.
Author: Suyeon Seon [aut, cre],
Taehwa Choi [aut],
Dipankar Bandyopadhyay [aut],
Dongha Kim [aut],
Seongoh Park [aut]
Maintainer: Suyeon Seon <seonsy429@gmail.com>
Diff between aftPenCDA versions 0.1.0 dated 2026-04-07 and 0.1.1 dated 2026-04-23
DESCRIPTION | 10 ++- MD5 | 17 ++++-- R/data_simdat.R |only README.md | 30 ++++------- data |only inst/doc/aftPenCDA.R | 113 +++++-------------------------------------- inst/doc/aftPenCDA.Rmd | 118 ++++++--------------------------------------- inst/doc/aftPenCDA.html | 125 +++++++----------------------------------------- man/simdat_pic.Rd |only man/simdat_rc.Rd |only vignettes/aftPenCDA.Rmd | 118 ++++++--------------------------------------- 11 files changed, 101 insertions(+), 430 deletions(-)
Title: Hierarchical Partitioning of R2 for Spatial Simultaneous
Autoregressive Model
Description: Conducts hierarchical partitioning to calculate individual contributions of spatial and predictors (groups) towards total R2 for spatial simultaneous autoregressive model.
Author: Jiangshan Lai [aut, cre]
Maintainer: Jiangshan Lai <lai@njfu.edu.cn>
Diff between spatialreg.hp versions 0.0-1 dated 2025-08-27 and 0.0-2 dated 2026-04-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/zzz.R | 2 +- inst/CITATION | 18 +++++++++--------- 4 files changed, 17 insertions(+), 17 deletions(-)