Title: Export or Graph and Tables to 'Microsoft' Office and Import
Figures and Tables
Description: Provides wrap functions to export and import graphics and
data frames in R to 'microsoft' office. And This package also
provide write out figures with lots of different formats.
Since people may work on the platform without GUI support, the package
also provide function to easily write out figures
to lots of different type of formats. Now this package provide function
to extract colors from all types of figures and pdf files.
Author: Kai Guo [aut, cre]
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between eoffice versions 0.2.2 dated 2022-10-05 and 0.2.3 dated 2026-02-09
DESCRIPTION | 10 MD5 | 28 +- NAMESPACE | 6 R/inFigure.R | 6 R/inoffice.R | 13 R/misc.R | 2 build/vignette.rds |binary inst/doc/eoffice.R | 12 inst/doc/eoffice.Rmd | 21 - inst/doc/eoffice.html | 696 ++++++++++++++++++++++++++++---------------------- man/todocx.Rd | 2 man/toffice.Rd | 2 man/topptx.Rd | 2 man/toxlsx.Rd | 2 vignettes/eoffice.Rmd | 21 - 15 files changed, 453 insertions(+), 370 deletions(-)
Title: Ecometric Models of Trait–Environment Relationships at the
Community Level
Description: Provides a framework for modeling relationships between functional traits and both quantitative and qualitative environmental variables at the community level. It includes tools for trait binning, likelihood-based environmental estimation, model evaluation, fossil projection into modern ecometric space, and result visualization. For more details see Vermillion et al. (2018) <doi:10.1007/978-3-319-94265-0_17>, Polly et al. (2011) <doi:10.1098/rspb.2010.2233> and Polly and Head (2015) <doi:10.1017/S1089332600002953>.
Author: Maria A. Hurtado-Materon [cre, aut],
Leila Siciliano-Martina [aut],
Rachel A. Short [aut],
Jenny L. McGuire [aut],
A. Michelle Lawing [cph, aut]
Maintainer: Maria A. Hurtado-Materon <maria.h.m_1995@tamu.edu>
Diff between commecometrics versions 1.0.1 dated 2025-10-07 and 1.1.1 dated 2026-02-09
DESCRIPTION | 12 ++++++++---- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/sensitivity_analysis.R | 4 ++++ R/sensitivity_analysis_qual.R | 4 ++++ R/summarize_traits_by_point.R | 20 ++++++++++++++++++-- inst/doc/fossil_commecometrics.html | 3 ++- 7 files changed, 48 insertions(+), 13 deletions(-)
More information about commecometrics at CRAN
Permanent link
Title: Calendrical Calculations
Description: An R implementation of the algorithms described in Reingold and
Dershowitz (4th ed., Cambridge University Press, 2018) <doi:10.1017/9781107415058>,
allowing conversion between many different calendar systems. Cultural and religious holidays
from several calendars can be calculated.
Author: Rob Hyndman [aut, cre, cph] ,
Edward Reingold [cph, ctb] ,
Nachum Dershowitz [cph, ctb]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between calcal versions 1.0.1 dated 2026-01-09 and 1.0.2 dated 2026-02-09
DESCRIPTION | 6 MD5 | 54 - NEWS.md | 3 R/babylonian.R | 2 R/bahai.R | 6 R/bali.R | 8 R/chinese.R | 20 R/coptic.R | 4 R/egyptian.R | 4 R/french.R | 4 R/icelandic.R | 4 R/kdays.R | 6 R/lunar_calendars_astronomy.R | 6 R/mayan.R | 4 R/modern_hindu.R | 10 R/old_hindu.R | 4 R/persian.R | 18 R/solar_lunar_constants.R | 1227 +++++++++++++++++++++++++++++++++++++++++- R/tibetan.R | 2 R/timezones.R | 2 R/zzz.R | 12 inst/doc/new_calendar.html | 4 man/bahai_new_year.Rd | 2 man/balinese_date.Rd | 2 man/persian_date.Rd | 2 man/tibetan_date.Rd | 2 tests/testthat/test-common.R | 8 tests/testthat/test-hindu.R | 4 28 files changed, 1314 insertions(+), 116 deletions(-)
Title: Modeling, Standardization and Testing for Provider Profiling
Description: Implements linear and generalized linear models for provider profiling,
incorporating both fixed and random effects. For large-scale providers, the linear
profiled-based method and the SerBIN method for binary data
reduce the computational burden. Provides post-modeling features, such as
indirect and direct standardization measures, hypothesis testing,
confidence intervals, and post-estimation visualization.
For more information, see Wu et al. (2022) <doi:10.1002/sim.9387>.
Author: Xiaohan Liu [aut, cre],
Lingfeng Luo [aut],
Yubo Shao [aut],
Xiangeng Fang [aut],
Wenbo Wu [aut],
Kevin He [aut]
Maintainer: Xiaohan Liu <xhliuu@umich.edu>
Diff between pprof versions 1.0.2 dated 2025-06-20 and 1.0.3 dated 2026-02-09
pprof-1.0.2/pprof/tests/testthat/test-SM_output.linear_fe.R |only pprof-1.0.2/pprof/tests/testthat/test-confint.linear_fe.R |only pprof-1.0.2/pprof/tests/testthat/test-test.linear_fe.R |only pprof-1.0.2/pprof/tests/testthat/test-test.linear_re.R |only pprof-1.0.3/pprof/DESCRIPTION | 14 +- pprof-1.0.3/pprof/MD5 | 76 ++++++++---- pprof-1.0.3/pprof/NAMESPACE | 17 ++ pprof-1.0.3/pprof/R/RcppExports.R | 12 + pprof-1.0.3/pprof/R/SM_output.linear_cre.R |only pprof-1.0.3/pprof/R/SM_output.logis_cre.R |only pprof-1.0.3/pprof/R/SM_output.logis_re.R | 6 pprof-1.0.3/pprof/R/caterpillar_plot.R | 4 pprof-1.0.3/pprof/R/confint.linear_cre.R |only pprof-1.0.3/pprof/R/confint.logis_cre.R |only pprof-1.0.3/pprof/R/linear_cre.R |only pprof-1.0.3/pprof/R/logis_cre.R |only pprof-1.0.3/pprof/R/logis_fe.R | 12 + pprof-1.0.3/pprof/R/logis_firth.R |only pprof-1.0.3/pprof/R/pprof.R | 12 + pprof-1.0.3/pprof/R/summary.linear_cre.R |only pprof-1.0.3/pprof/R/summary.linear_fe.R | 8 - pprof-1.0.3/pprof/R/summary.logis_cre.R |only pprof-1.0.3/pprof/R/summary.logis_re.R | 10 - pprof-1.0.3/pprof/R/test.linear_cre.R |only pprof-1.0.3/pprof/R/test.logis_cre.R |only pprof-1.0.3/pprof/R/test.logis_fe.R | 5 pprof-1.0.3/pprof/R/test.logis_re.R | 2 pprof-1.0.3/pprof/README.md | 4 pprof-1.0.3/pprof/man/SM_output.linear_cre.Rd |only pprof-1.0.3/pprof/man/SM_output.logis_cre.Rd |only pprof-1.0.3/pprof/man/confint.linear_cre.Rd |only pprof-1.0.3/pprof/man/confint.logis_cre.Rd |only pprof-1.0.3/pprof/man/linear_cre.Rd |only pprof-1.0.3/pprof/man/logis_cre.Rd |only pprof-1.0.3/pprof/man/logis_fe.Rd | 2 pprof-1.0.3/pprof/man/logis_firth.Rd |only pprof-1.0.3/pprof/man/summary.linear_fe.Rd | 29 +++- pprof-1.0.3/pprof/man/summary.logis_re.Rd | 28 +++- pprof-1.0.3/pprof/man/test.linear_cre.Rd |only pprof-1.0.3/pprof/man/test.logis_cre.Rd |only pprof-1.0.3/pprof/src/Firth.cpp |only pprof-1.0.3/pprof/src/Fixed_effect.cpp | 15 +- pprof-1.0.3/pprof/src/Makevars | 7 - pprof-1.0.3/pprof/src/Makevars.win | 9 - pprof-1.0.3/pprof/src/RcppExports.cpp | 54 ++++++++ pprof-1.0.3/pprof/src/header.h | 15 +- pprof-1.0.3/pprof/tests/testthat/test-SM_output.R |only pprof-1.0.3/pprof/tests/testthat/test-confint.R |only pprof-1.0.3/pprof/tests/testthat/test-linear_cre.R |only pprof-1.0.3/pprof/tests/testthat/test-linear_re.R | 2 pprof-1.0.3/pprof/tests/testthat/test-logis_cre.R |only pprof-1.0.3/pprof/tests/testthat/test-logis_fe.R |only pprof-1.0.3/pprof/tests/testthat/test-logis_re.R |only pprof-1.0.3/pprof/tests/testthat/test-plots.R |only pprof-1.0.3/pprof/tests/testthat/test-summary.R |only pprof-1.0.3/pprof/tests/testthat/test-test.R |only 56 files changed, 263 insertions(+), 80 deletions(-)
Title: Statistical Methods for Analytical Method Comparison and
Validation
Description: Provides statistical methods for analytical method comparison and
validation studies. Implements Bland-Altman analysis for assessing agreement
between measurement methods (Bland & Altman (1986) <doi:10.1016/S0140-6736(86)90837-8>),
Passing-Bablok regression for non-parametric method comparison
(Passing & Bablok (1983) <doi:10.1515/cclm.1983.21.11.709>), and Deming
regression accounting for measurement error in both variables
(Linnet (1993) <doi:10.1093/clinchem/39.3.424>). Also includes tools for
setting quality goals based on biological variation (Fraser & Petersen (1993)
<doi:10.1093/clinchem/39.7.1447>) and calculating Six Sigma metrics,
precision experiments with variance component analysis, precision
profiles for functional sensitivity estimation (Kroll & Emancipator (1993)
<https://pubmed.ncbi.nlm.nih.gov/8448849/>). Commonly used in clinical
laboratory method validation. Provides publication-ready plots and
comprehensive statistical [...truncated...]
Author: Marcello Grassi [aut, cre]
Maintainer: Marcello Grassi <marcello.grassi@tum.de>
Diff between valytics versions 0.3.0 dated 2026-01-22 and 0.4.0 dated 2026-02-09
DESCRIPTION | 20 - MD5 | 46 ++- NAMESPACE | 35 ++ NEWS.md | 79 +++++- R/data.R | 412 +++++++++++++++++++------------- R/precision_methods.R |only R/precision_plot.R |only R/precision_profile.R |only R/precision_profile_methods.R |only R/precision_profile_plot.R |only R/precision_study.R |only R/valytics-package.R | 27 +- R/verify_precision.R |only build/vignette.rds |binary data/troponin_precision.rda |only inst/WORDLIST | 22 + inst/doc/precision-profiles.R |only inst/doc/precision-profiles.Rmd |only inst/doc/precision-profiles.html |only man/plot.precision_profile.Rd |only man/plot.precision_study.Rd |only man/precision_profile.Rd |only man/precision_study.Rd |only man/print.precision_profile.Rd |only man/print.precision_study.Rd |only man/print.summary.precision_profile.Rd |only man/print.summary.precision_study.Rd |only man/print.summary.verify_precision.Rd |only man/print.verify_precision.Rd |only man/summary.precision_profile.Rd |only man/summary.precision_study.Rd |only man/summary.verify_precision.Rd |only man/troponin_precision.Rd |only man/valytics-package.Rd | 2 man/verify_precision.Rd |only tests/testthat/test-precision_profile.R |only tests/testthat/test-precision_study.R |only tests/testthat/test-verify_precision.R |only vignettes/precision-profiles.Rmd |only 39 files changed, 451 insertions(+), 192 deletions(-)
Title: Explore 'Wikidata' Through Tidy Data Frames
Description: Query 'Wikidata' API <https://www.wikidata.org/wiki/Wikidata:Main_Page> with ease, get tidy data frames in response, and cache data in a local database.
Author: Giorgio Comai [aut, cre, cph] ,
EDJNet [fnd]
Maintainer: Giorgio Comai <giorgio.comai@cci.tn.it>
This is a re-admission after prior archival of version 0.6.0 dated 2026-02-04
Diff between tidywikidatar versions 0.6.0 dated 2026-02-04 and 0.6.1 dated 2026-02-09
DESCRIPTION | 14 ++--- MD5 | 48 +++++++++-------- NAMESPACE | 1 NEWS.md | 5 + R/data.R | 4 - R/tw_extract.R | 107 ++++++++++++++++++--------------------- R/tw_get.R | 37 ++++++------- R/tw_get_item.R |only R/tw_get_property_with_details.R | 4 - R/tw_get_qualifiers.R | 20 ++----- R/tw_search.R | 18 ++++-- README.md | 4 - data/tw_test_items.rda |binary man/tw_extract_qualifier.Rd | 10 +-- man/tw_extract_single.Rd | 14 +---- man/tw_get.Rd | 8 ++ man/tw_get_item.Rd |only man/tw_get_qualifiers.Rd | 2 man/tw_get_qualifiers_single.Rd | 2 man/tw_get_single.Rd | 8 ++ man/tw_search.Rd | 4 + man/tw_search_item.Rd | 4 + man/tw_search_property.Rd | 4 + man/tw_search_single.Rd | 4 + man/tw_test_items.Rd | 6 +- tests/testthat/test-get.R | 2 26 files changed, 178 insertions(+), 152 deletions(-)
Title: APSIM Next Generation
Description: The Agricultural Production Systems sIMulator ('APSIM') is a widely
used to simulate the agricultural systems for multiple crops. This package
is designed to create, modify and run 'apsimx' files in the 'APSIM' Next
Generation <https://www.apsim.info/>.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <zheng.bangyou@gmail.com>
Diff between rapsimng versions 0.4.5 dated 2025-09-22 and 0.4.6 dated 2026-02-09
DESCRIPTION | 12 +- MD5 | 19 ++-- NAMESPACE | 3 R/apsimx_build.R | 126 +++++++++++++++++++++++++++--- R/cultivar.R | 8 + R/soil.R |only README.md | 9 ++ inst/extdata/wheat.apsimx | 172 ++++++++++++++++++++++++++++++++--------- man/get_pawc.Rd |only man/install_apsimng.Rd |only man/split_apsimx.Rd |only tests/testthat/test-cultivar.R | 5 - tests/testthat/test-soil.R |only 13 files changed, 294 insertions(+), 60 deletions(-)
Title: Genomic Annotation in Livestock for Positional Candidate LOci
Description: The accurate annotation of genes and Quantitative Trait Loci (QTLs) located within candidate markers and/or regions (haplotypes, windows, CNVs, etc) is a crucial step the most common genomic analyses performed in livestock, such as Genome-Wide Association Studies or transcriptomics. The Genomic Annotation in Livestock for positional candidate LOci (GALLO) is an R package designed to provide an intuitive and straightforward environment to annotate positional candidate genes and QTLs from high-throughput genetic studies in livestock. Moreover, GALLO allows the graphical visualization of gene and QTL annotation results, data comparison among different grouping factors (e.g., methods, breeds, tissues, statistical models, studies, etc.), and QTL enrichment in different livestock species including cattle, pigs, sheep, and chicken, among others.
Author: Pablo Fonseca [aut, cre],
Aroa Suarez-Vega [aut],
Gabriele Marras [aut],
Angela Canovas [aut]
Maintainer: Pablo Fonseca <p.fonseca@csic.es>
Diff between GALLO versions 1.5 dated 2024-06-04 and 2.0 dated 2026-02-09
GALLO-1.5/GALLO/R/Davies_ld.R |only GALLO-2.0/GALLO/DESCRIPTION | 14 GALLO-2.0/GALLO/MD5 | 58 GALLO-2.0/GALLO/NAMESPACE | 9 GALLO-2.0/GALLO/NEWS | 104 GALLO-2.0/GALLO/R/EMinfer.R |only GALLO-2.0/GALLO/R/Gene_PPA.R |only GALLO-2.0/GALLO/R/Global.R | 8 GALLO-2.0/GALLO/R/Liu_ld.R |only GALLO-2.0/GALLO/R/Net_embedding.R |only GALLO-2.0/GALLO/R/Nseg_chr.R | 58 GALLO-2.0/GALLO/R/WZ_ld.R | 2 GALLO-2.0/GALLO/R/gene_pval.R | 143 GALLO-2.0/GALLO/R/kde.R |only GALLO-2.0/GALLO/R/meta_LD.R | 2 GALLO-2.0/GALLO/R/model.LR.R |only GALLO-2.0/GALLO/R/model.M.R |only GALLO-2.0/GALLO/R/model.MVN.R |only GALLO-2.0/GALLO/R/model.NB.R |only GALLO-2.0/GALLO/R/model.proj.R |only GALLO-2.0/GALLO/R/sLDA.R |only GALLO-2.0/GALLO/README.md | 135 GALLO-2.0/GALLO/build/partial.rdb |binary GALLO-2.0/GALLO/build/vignette.rds |binary GALLO-2.0/GALLO/inst/doc/GALLO.R | 382 - GALLO-2.0/GALLO/inst/doc/GALLO.html | 7176 +++++++++++++++++------------------ GALLO-2.0/GALLO/inst/python |only GALLO-2.0/GALLO/man/EMinfer.Rd |only GALLO-2.0/GALLO/man/Gene_PPA.Rd |only GALLO-2.0/GALLO/man/Liu_ld.Rd |only GALLO-2.0/GALLO/man/Net_embedding.Rd |only GALLO-2.0/GALLO/man/Nseg_chr.Rd | 2 GALLO-2.0/GALLO/man/WZ_ld.Rd | 2 GALLO-2.0/GALLO/man/gene_pval.Rd | 11 GALLO-2.0/GALLO/man/kde.Rd |only GALLO-2.0/GALLO/man/meta_LD.Rd | 6 GALLO-2.0/GALLO/man/model.LR.Rd |only GALLO-2.0/GALLO/man/model.M.Rd |only GALLO-2.0/GALLO/man/model.MVN.Rd |only GALLO-2.0/GALLO/man/model.NB.Rd |only GALLO-2.0/GALLO/man/model.proj.Rd |only GALLO-2.0/GALLO/man/sLDA.Rd |only 42 files changed, 3995 insertions(+), 4117 deletions(-)
Title: Structured Project Standards for R and 'Quarto'
Description: Provides an opinionated project scaffold for R and 'Quarto' analysis work, enforcing a consistent directory layout with scripts in R/, .qmd files in pages/, and assets in www/. The primary entry point, init(), downloads the latest template from a companion GitHub repository so that project structure evolves independently of package releases. Supports persistent author metadata and 'Quarto' brand configuration that carry across projects automatically.
Author: Kyle Grealis [aut, cre]
Maintainer: Kyle Grealis <kyleGrealis@proton.me>
Diff between froggeR versions 0.6.0 dated 2025-11-14 and 1.0.0 dated 2026-02-09
froggeR-0.6.0/froggeR/R/brand_settings.R |only froggeR-0.6.0/froggeR/R/settings.R |only froggeR-0.6.0/froggeR/R/write_notes.R |only froggeR-0.6.0/froggeR/R/write_readme.R |only froggeR-0.6.0/froggeR/inst/doc/building-your-brand-identity.R |only froggeR-0.6.0/froggeR/inst/doc/building-your-brand-identity.Rmd |only froggeR-0.6.0/froggeR/inst/doc/building-your-brand-identity.html |only froggeR-0.6.0/froggeR/inst/doc/set-once-use-everywhere.R |only froggeR-0.6.0/froggeR/inst/doc/set-once-use-everywhere.Rmd |only froggeR-0.6.0/froggeR/inst/doc/set-once-use-everywhere.html |only froggeR-0.6.0/froggeR/inst/doc/your-metadata-your-way.R |only froggeR-0.6.0/froggeR/inst/doc/your-metadata-your-way.Rmd |only froggeR-0.6.0/froggeR/inst/doc/your-metadata-your-way.html |only froggeR-0.6.0/froggeR/inst/gists |only froggeR-0.6.0/froggeR/man/brand_settings.Rd |only froggeR-0.6.0/froggeR/man/settings.Rd |only froggeR-0.6.0/froggeR/man/write_notes.Rd |only froggeR-0.6.0/froggeR/man/write_readme.Rd |only froggeR-0.6.0/froggeR/tests/testthat/test-brand_settings.R |only froggeR-0.6.0/froggeR/tests/testthat/test-settings.R |only froggeR-0.6.0/froggeR/tests/testthat/test-write_notes.R |only froggeR-0.6.0/froggeR/tests/testthat/test-write_readme.R |only froggeR-0.6.0/froggeR/vignettes/building-your-brand-identity.Rmd |only froggeR-0.6.0/froggeR/vignettes/set-once-use-everywhere.Rmd |only froggeR-0.6.0/froggeR/vignettes/your-metadata-your-way.Rmd |only froggeR-1.0.0/froggeR/DESCRIPTION | 26 froggeR-1.0.0/froggeR/MD5 | 117 -- froggeR-1.0.0/froggeR/NAMESPACE | 17 froggeR-1.0.0/froggeR/NEWS.md | 156 +-- froggeR-1.0.0/froggeR/R/froggeR-package.R | 15 froggeR-1.0.0/froggeR/R/init.R |only froggeR-1.0.0/froggeR/R/quarto_project.R | 174 --- froggeR-1.0.0/froggeR/R/save_brand.R | 55 - froggeR-1.0.0/froggeR/R/save_variables.R | 34 froggeR-1.0.0/froggeR/R/utils.R | 129 +- froggeR-1.0.0/froggeR/R/write_brand.R | 129 -- froggeR-1.0.0/froggeR/R/write_ignore.R | 94 - froggeR-1.0.0/froggeR/R/write_quarto.R | 123 -- froggeR-1.0.0/froggeR/R/write_scss.R | 99 - froggeR-1.0.0/froggeR/R/write_variables.R | 114 -- froggeR-1.0.0/froggeR/README.md | 450 +------- froggeR-1.0.0/froggeR/build/vignette.rds |binary froggeR-1.0.0/froggeR/inst/WORDLIST | 14 froggeR-1.0.0/froggeR/inst/doc/every-file-in-its-place.R |only froggeR-1.0.0/froggeR/inst/doc/every-file-in-its-place.Rmd |only froggeR-1.0.0/froggeR/inst/doc/every-file-in-its-place.html |only froggeR-1.0.0/froggeR/inst/doc/from-zero-to-project.Rmd | 342 +----- froggeR-1.0.0/froggeR/inst/doc/from-zero-to-project.html | 496 +++------ froggeR-1.0.0/froggeR/man/figures/froggeR_hex.svg |only froggeR-1.0.0/froggeR/man/figures/logo.png |binary froggeR-1.0.0/froggeR/man/figures/logo.svg | 504 ++++++++- froggeR-1.0.0/froggeR/man/init.Rd |only froggeR-1.0.0/froggeR/man/quarto_project.Rd | 49 froggeR-1.0.0/froggeR/man/save_brand.Rd | 5 froggeR-1.0.0/froggeR/man/save_variables.Rd | 5 froggeR-1.0.0/froggeR/man/write_brand.Rd | 34 froggeR-1.0.0/froggeR/man/write_ignore.Rd | 45 froggeR-1.0.0/froggeR/man/write_quarto.Rd | 35 froggeR-1.0.0/froggeR/man/write_scss.Rd | 45 froggeR-1.0.0/froggeR/man/write_variables.Rd | 41 froggeR-1.0.0/froggeR/tests/testthat/helper-templates.R |only froggeR-1.0.0/froggeR/tests/testthat/test-init.R |only froggeR-1.0.0/froggeR/tests/testthat/test-quarto_project.R | 513 ---------- froggeR-1.0.0/froggeR/tests/testthat/test-save_brand.R | 76 - froggeR-1.0.0/froggeR/tests/testthat/test-save_variables.R | 97 + froggeR-1.0.0/froggeR/tests/testthat/test-write_brand.R | 153 +- froggeR-1.0.0/froggeR/tests/testthat/test-write_ignore.R | 197 --- froggeR-1.0.0/froggeR/tests/testthat/test-write_quarto.R | 457 +------- froggeR-1.0.0/froggeR/tests/testthat/test-write_scss.R | 228 ++-- froggeR-1.0.0/froggeR/tests/testthat/test-write_variables.R | 193 +-- froggeR-1.0.0/froggeR/vignettes/every-file-in-its-place.Rmd |only froggeR-1.0.0/froggeR/vignettes/from-zero-to-project.Rmd | 342 +----- 72 files changed, 1945 insertions(+), 3658 deletions(-)
Title: Archive and Unarchive Databases Using Flat Files
Description: Flat text files provide a robust, compressible, and portable
way to store tables from databases. This package provides convenient
functions for exporting tables from relational database connections
into compressed text files and streaming those text files back into
a database without requiring the whole table to fit in working memory.
Author: Carl Boettiger [aut, cre, cph] ,
Richard FitzJohn [ctb],
Brandon Bertelsen [ctb]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between arkdb versions 0.0.18 dated 2024-01-15 and 0.0.19 dated 2026-02-09
DESCRIPTION | 12 ++--- MD5 | 22 +++++----- NEWS.md | 4 + R/streamable_table.R | 67 +++++++++++++++----------------- README.md | 13 +++++- build/vignette.rds |binary inst/doc/arkdb.R | 8 +-- inst/doc/arkdb.Rmd | 4 - inst/doc/arkdb.html | 99 ++++++++++++++++++++++-------------------------- man/arkdb-package.Rd | 1 man/streamable_table.Rd | 4 - vignettes/arkdb.Rmd | 4 - 12 files changed, 122 insertions(+), 116 deletions(-)
Title: Build Tables in the OMOP Common Data Model
Description: Provides functionality to construct standardised tables from health
care data formatted according to the Observational Medical Outcomes
Partnership (OMOP) Common Data Model. The package includes tools to build
key tables such as observation period and drug era, among others.
Author: Marti Catala [aut, cre] ,
Elin Rowlands [ctb] ,
Cecilia Campanile [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between OmopConstructor versions 0.1.0 dated 2025-09-30 and 0.2.0 dated 2026-02-09
DESCRIPTION | 12 MD5 | 40 NAMESPACE | 15 NEWS.md |only R/OmopConstructor-package.R | 18 R/buildDrugEra.R |only R/buildObservationPeriod.R | 606 ++--- R/collapseRecords.R | 268 +- README.md | 238 +- build/vignette.rds |binary inst/doc/buildObservationPeriod.R | 612 ++--- inst/doc/buildObservationPeriod.Rmd | 878 ++++---- inst/doc/buildObservationPeriod.html | 2866 ++++++++++++++------------- man/OmopConstructor-package.Rd | 58 man/buildDrugEra.Rd |only man/buildObservationPeriod.Rd | 88 man/collapseRecords.Rd | 67 tests/testthat.R | 24 tests/testthat/setup.R | 142 - tests/testthat/test-buildDrugEra.R |only tests/testthat/test-buildObservationPeriod.R | 984 ++++----- tests/testthat/test-collapseRecords.R | 394 +-- vignettes/buildObservationPeriod.Rmd | 878 ++++---- 23 files changed, 4213 insertions(+), 3975 deletions(-)
More information about OmopConstructor at CRAN
Permanent link
Title: Genotype Quality Control with 'PLINK'
Description: Genotyping arrays enable the direct measurement of an individuals
genotype at thousands of markers. 'plinkQC' facilitates genotype quality
control for genetic association studies as described by Anderson and
colleagues (2010) <doi:10.1038/nprot.2010.116>. It makes 'PLINK' basic
statistics (e.g. missing genotyping rates per individual, allele frequencies
per genetic marker) and relationship functions accessible from 'R' and
generates a per-individual and per-marker quality control report.
Individuals and markers that fail the quality control can subsequently be
removed to generate a new, clean dataset. Removal of individuals based on
relationship status is optimised to retain as many individuals as possible
in the study. Additionally, there is a trained classifier to predict
genomic ancestry of human samples.
Author: Hannah Meyer [aut, cre] ,
Caroline Walter [ctb],
Maha Syed [ctb]
Maintainer: Hannah Meyer <hannah.v.meyer@gmail.com>
Diff between plinkQC versions 1.0.0 dated 2025-11-25 and 1.0.1 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 33 +++++++++++++++++---------------- NEWS.md | 6 +++++- R/ancestry.R | 12 +++++++----- inst/doc/AncestryCheck.html | 4 ++-- inst/doc/Genomes1000.Rmd | 2 +- inst/doc/Genomes1000.pdf |binary inst/doc/HapMap.Rmd | 4 ++-- inst/doc/HapMap.pdf |binary inst/doc/plinkQC.Rmd | 4 ++-- inst/doc/plinkQC.pdf |binary man/check_hwe.Rd | 4 ++-- man/plinkQC-package.Rd | 2 +- tests/testthat/data.clean.pheno.sscore |only tests/testthat/test-ancestry.R | 8 +++++++- vignettes/Genomes1000.Rmd | 2 +- vignettes/HapMap.Rmd | 4 ++-- vignettes/plinkQC.Rmd | 4 ++-- 18 files changed, 55 insertions(+), 42 deletions(-)
Title: Generate Machine- And Human-Readable Plot Labels for Experiments
Description: A no-frills open-source solution for designing plot labels affixed with QR
codes. It features 'EasyQrlabelr', a 'BrAPI-compliant' 'shiny' app that
simplifies the process of plot label design for non-R users. It builds on the
methods described by Wu 'et al.' (2020) <doi:10.1111/2041-210X.13405>.
Author: Alexander Wireko Kena [aut, cre] ,
Ebenezer Ogoe [aut],
Clara Cruet Burgos [aut],
Geoffrey Preston Morris [aut],
Rubi Raymundo-Carhuapoma [aut],
Yihan Wu [ctb] ,
Robert Colautti [ctb] ,
Colorado State University [cph],
Kwame Nkrumah University of Sci [...truncated...]
Maintainer: Alexander Wireko Kena <alex.kena24@gmail.com>
Diff between qrlabelr versions 0.2.0 dated 2023-12-20 and 0.2.1 dated 2026-02-09
qrlabelr-0.2.0/qrlabelr/tests/testthat.R |only qrlabelr-0.2.0/qrlabelr/tests/testthat/_snaps/add_border/test-layout.svg |only qrlabelr-0.2.1/qrlabelr/DESCRIPTION | 18 qrlabelr-0.2.1/qrlabelr/MD5 | 49 +- qrlabelr-0.2.1/qrlabelr/NAMESPACE | 2 qrlabelr-0.2.1/qrlabelr/NEWS.md | 8 qrlabelr-0.2.1/qrlabelr/R/all_new_functions.R | 162 ++++---- qrlabelr-0.2.1/qrlabelr/R/qrlabelr.R | 7 qrlabelr-0.2.1/qrlabelr/README.md | 14 qrlabelr-0.2.1/qrlabelr/build/vignette.rds |binary qrlabelr-0.2.1/qrlabelr/inst/doc/qrlabelr.R | 194 +++++----- qrlabelr-0.2.1/qrlabelr/inst/doc/qrlabelr.Rmd | 6 qrlabelr-0.2.1/qrlabelr/inst/doc/qrlabelr.html | 28 - qrlabelr-0.2.1/qrlabelr/inst/shinyapps/qrlabelr/Dockerfile |only qrlabelr-0.2.1/qrlabelr/inst/shinyapps/qrlabelr/app.R | 123 ++---- qrlabelr-0.2.1/qrlabelr/inst/shinyapps/qrlabelr/deploy-sript.sh |only qrlabelr-0.2.1/qrlabelr/inst/shinyapps/qrlabelr/docker-compose.yml |only qrlabelr-0.2.1/qrlabelr/inst/shinyapps/qrlabelr/render.yaml |only qrlabelr-0.2.1/qrlabelr/inst/shinyapps/qrlabelr/supervisord.conf |only qrlabelr-0.2.1/qrlabelr/man/add_border.Rd | 2 qrlabelr-0.2.1/qrlabelr/man/create_label.Rd | 3 qrlabelr-0.2.1/qrlabelr/man/gp_label_portrait.Rd | 3 qrlabelr-0.2.1/qrlabelr/man/make_qrcode.Rd | 2 qrlabelr-0.2.1/qrlabelr/man/qrlabelr.Rd | 4 qrlabelr-0.2.1/qrlabelr/tests/testthat/_snaps/add_border/test-layout-new.svg |only qrlabelr-0.2.1/qrlabelr/tests/testthat/_snaps/add_border/test-layout.new.svg |only qrlabelr-0.2.1/qrlabelr/tests/testthat/test-add_border.R | 2 qrlabelr-0.2.1/qrlabelr/tests/testthat/test-create_label.R | 2 qrlabelr-0.2.1/qrlabelr/tests/testthat/test-gp_label_portrait.R | 2 qrlabelr-0.2.1/qrlabelr/vignettes/qrlabelr.Rmd | 6 30 files changed, 335 insertions(+), 302 deletions(-)
More information about multigroup.vaccine at CRAN
Permanent link
Title: Adaptive Dynamics and Community Matrix Model Projections
Description: Runs projections of groups of matrix projection models (MPMs),
allowing density dependence mechanisms to work across MPMs. This
package was developed to run both adaptive dynamics simulations
such as pairwise and multiple invasibility analyses, and community
projections in which species are represented by MPMs. All forms of
MPMs are allowed, including integral projection models (IPMs).
Author: Richard P. Shefferson [aut, cre]
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between adapt3 versions 1.0.1 dated 2025-07-16 and 2.0.0 dated 2026-02-09
adapt3-1.0.1/adapt3/vignettes/ch1.10-1.png |only adapt3-1.0.1/adapt3/vignettes/ch1.8-1.png |only adapt3-1.0.1/adapt3/vignettes/ch2.11-1.png |only adapt3-1.0.1/adapt3/vignettes/ch2.13-1.png |only adapt3-1.0.1/adapt3/vignettes/ch2.14-1.png |only adapt3-1.0.1/adapt3/vignettes/ch2.7-1.png |only adapt3-2.0.0/adapt3/DESCRIPTION | 15 adapt3-2.0.0/adapt3/MD5 | 85 adapt3-2.0.0/adapt3/NAMESPACE | 3 adapt3-2.0.0/adapt3/NEWS.md | 92 adapt3-2.0.0/adapt3/R/RcppExports.R | 681 + adapt3-2.0.0/adapt3/R/adapt3-package.R | 1 adapt3-2.0.0/adapt3/R/data.R | 6 adapt3-2.0.0/adapt3/R/graphics.R | 222 adapt3-2.0.0/adapt3/R/inputs.R | 15 adapt3-2.0.0/adapt3/R/utilities.R | 411 adapt3-2.0.0/adapt3/build/vignette.rds |binary adapt3-2.0.0/adapt3/inst/doc/comproj.Rmd | 248 adapt3-2.0.0/adapt3/inst/doc/comproj.html | 276 adapt3-2.0.0/adapt3/inst/doc/invasion.Rmd | 641 - adapt3-2.0.0/adapt3/inst/doc/invasion.html | 821 - adapt3-2.0.0/adapt3/inst/include/basic_funcs/input_utils.h | 1 adapt3-2.0.0/adapt3/inst/include/basic_funcs/main_utils.h | 1489 ++ adapt3-2.0.0/adapt3/inst/include/basic_funcs/mats_utils.h | 3248 +++++ adapt3-2.0.0/adapt3/man/batch_project3.Rd |only adapt3-2.0.0/adapt3/man/cypa_data.Rd | 6 adapt3-2.0.0/adapt3/man/equiv_input.Rd | 15 adapt3-2.0.0/adapt3/man/invade3.Rd | 82 adapt3-2.0.0/adapt3/man/plot.adaptInv.Rd | 33 adapt3-2.0.0/adapt3/man/plot.adaptProj.Rd | 10 adapt3-2.0.0/adapt3/man/project3.Rd | 86 adapt3-2.0.0/adapt3/man/summary.adaptProj.Rd | 13 adapt3-2.0.0/adapt3/man/summary.adaptProjBatch.Rd |only adapt3-2.0.0/adapt3/man/ta_skeleton.Rd | 8 adapt3-2.0.0/adapt3/man/trait_axis.Rd | 29 adapt3-2.0.0/adapt3/src/RcppExports.cpp | 61 adapt3-2.0.0/adapt3/src/projection.cpp | 7313 +++++++++---- adapt3-2.0.0/adapt3/src/utilities.cpp | 89 adapt3-2.0.0/adapt3/vignettes/adapt3tutorial.bib | 108 adapt3-2.0.0/adapt3/vignettes/ch1-1.12-1.png |binary adapt3-2.0.0/adapt3/vignettes/ch2-1.10-1.png |only adapt3-2.0.0/adapt3/vignettes/ch2-1.8-1.png |only adapt3-2.0.0/adapt3/vignettes/ch2-2.11-1.png |only adapt3-2.0.0/adapt3/vignettes/ch2-2.13-1.png |only adapt3-2.0.0/adapt3/vignettes/ch2-2.14-1.png |only adapt3-2.0.0/adapt3/vignettes/ch2-2.18-1.png |only adapt3-2.0.0/adapt3/vignettes/ch2-2.7-1.png |only adapt3-2.0.0/adapt3/vignettes/comproj.Rmd | 248 adapt3-2.0.0/adapt3/vignettes/comproj.Rmd.orig | 14 adapt3-2.0.0/adapt3/vignettes/invasion.Rmd | 641 - adapt3-2.0.0/adapt3/vignettes/invasion.Rmd.orig | 182 51 files changed, 12966 insertions(+), 4227 deletions(-)
Title: Parse Front Matter from Documents
Description: Extracts and parses structured metadata ('YAML' or 'TOML')
from the beginning of text documents. Front matter is a common pattern
in 'Quarto' documents, 'R Markdown' documents, static site generators,
documentation systems, content management tools and even 'Python' and
'R' scripts where metadata is placed at the top of a document,
separated from the main content by delimiter fences.
Author: Garrick Aden-Buie [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Garrick Aden-Buie <garrick@posit.co>
Diff between frontmatter versions 0.1.0 dated 2026-01-14 and 0.2.0 dated 2026-02-09
frontmatter-0.1.0/frontmatter/R/default_parsers.R |only frontmatter-0.1.0/frontmatter/tests/testthat/test-default_parsers.R |only frontmatter-0.2.0/frontmatter/DESCRIPTION | 7 frontmatter-0.2.0/frontmatter/MD5 | 27 - frontmatter-0.2.0/frontmatter/NAMESPACE | 3 frontmatter-0.2.0/frontmatter/NEWS.md | 8 frontmatter-0.2.0/frontmatter/R/formats.R |only frontmatter-0.2.0/frontmatter/R/parse_front_matter.R | 46 ++ frontmatter-0.2.0/frontmatter/R/write_front_matter.R |only frontmatter-0.2.0/frontmatter/README.md | 106 +++++ frontmatter-0.2.0/frontmatter/man/format_front_matter.Rd |only frontmatter-0.2.0/frontmatter/src/extract_front_matter.cpp | 97 +++-- frontmatter-0.2.0/frontmatter/tests/testthat/_snaps |only frontmatter-0.2.0/frontmatter/tests/testthat/test-comment-formats.R | 6 frontmatter-0.2.0/frontmatter/tests/testthat/test-formats.R |only frontmatter-0.2.0/frontmatter/tests/testthat/test-parse_front_matter.R | 181 +++++++++- frontmatter-0.2.0/frontmatter/tests/testthat/test-whitespace.R | 6 frontmatter-0.2.0/frontmatter/tests/testthat/test-write_front_matter.R |only 18 files changed, 430 insertions(+), 57 deletions(-)
Title: Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Description: An integrated R interface to several United States Census Bureau
APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's
geographic boundary files. Allows R users to return Census and ACS data as
tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping
and spatial analysis.
Author: Kyle Walker [aut, cre],
Matt Herman [aut],
Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tidycensus versions 1.7.3 dated 2025-07-24 and 1.7.5 dated 2026-02-09
DESCRIPTION | 20 +++++++++--------- MD5 | 14 ++++++------- R/acs.R | 2 - R/estimates.R | 54 +++++++++++++++++++++++++-------------------------- R/flows.R | 2 - R/moe.R | 6 ++--- man/get_acs.Rd | 2 - man/get_estimates.Rd | 2 - 8 files changed, 51 insertions(+), 51 deletions(-)
Title: Visualise OMOP Results using 'shiny' Applications
Description: Visualise results obtained from analysing data mapped to the
Observational Medical Outcomes Partnership (OMOP) common data model using
'shiny' applications.
Author: Marti Catala [aut, cre] ,
Yuchen Guo [aut] ,
Edward Burn [ctb] ,
Nuria Mercade-Besora [ctb] ,
Elin Rowlands [ctb] ,
Cecilia Campanile [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between OmopViewer versions 0.6.0 dated 2025-12-10 and 0.7.0 dated 2026-02-09
OmopViewer-0.6.0/OmopViewer/inst/brand/complement |only OmopViewer-0.6.0/OmopViewer/inst/brand/scarlet.yml |only OmopViewer-0.7.0/OmopViewer/DESCRIPTION | 19 OmopViewer-0.7.0/OmopViewer/MD5 | 131 OmopViewer-0.7.0/OmopViewer/NAMESPACE | 28 OmopViewer-0.7.0/OmopViewer/NEWS.md | 59 OmopViewer-0.7.0/OmopViewer/R/about.R | 50 OmopViewer-0.7.0/OmopViewer/R/appDynamic.R | 594 +-- OmopViewer-0.7.0/OmopViewer/R/appStatic.R | 737 ++-- OmopViewer-0.7.0/OmopViewer/R/background.R | 112 OmopViewer-0.7.0/OmopViewer/R/buttons.R | 252 - OmopViewer-0.7.0/OmopViewer/R/classes.R | 186 - OmopViewer-0.7.0/OmopViewer/R/createServer.R | 363 +- OmopViewer-0.7.0/OmopViewer/R/createUi.R | 416 +- OmopViewer-0.7.0/OmopViewer/R/data.R | 34 OmopViewer-0.7.0/OmopViewer/R/defaultPanels.R | 245 - OmopViewer-0.7.0/OmopViewer/R/functions.R | 857 ++-- OmopViewer-0.7.0/OmopViewer/R/omopViewer-package.R | 22 OmopViewer-0.7.0/OmopViewer/R/populatePanelDetailsOptions.R | 600 +-- OmopViewer-0.7.0/OmopViewer/R/readme.R |only OmopViewer-0.7.0/OmopViewer/R/report.R | 317 - OmopViewer-0.7.0/OmopViewer/R/styleCode.R | 20 OmopViewer-0.7.0/OmopViewer/R/summary.R | 38 OmopViewer-0.7.0/OmopViewer/R/sysdata.rda |binary OmopViewer-0.7.0/OmopViewer/R/theme.R | 148 OmopViewer-0.7.0/OmopViewer/R/utilities.R | 98 OmopViewer-0.7.0/OmopViewer/README.md | 249 - OmopViewer-0.7.0/OmopViewer/build/vignette.rds |binary OmopViewer-0.7.0/OmopViewer/data/omopViewerPanels.rda |binary OmopViewer-0.7.0/OmopViewer/data/omopViewerResults.rda |binary OmopViewer-0.7.0/OmopViewer/inst/brand/ohdsi.yml | 35 OmopViewer-0.7.0/OmopViewer/inst/brand/sad_robot.yml | 25 OmopViewer-0.7.0/OmopViewer/inst/doc/dynamic_app.R | 24 OmopViewer-0.7.0/OmopViewer/inst/doc/dynamic_app.Rmd | 66 OmopViewer-0.7.0/OmopViewer/inst/doc/dynamic_app.html | 759 ++-- OmopViewer-0.7.0/OmopViewer/inst/doc/edit_static_content.R | 116 OmopViewer-0.7.0/OmopViewer/inst/doc/edit_static_content.Rmd | 220 - OmopViewer-0.7.0/OmopViewer/inst/doc/edit_static_content.html | 906 ++--- OmopViewer-0.7.0/OmopViewer/inst/doc/export_static_app.R | 104 OmopViewer-0.7.0/OmopViewer/inst/doc/export_static_app.Rmd | 270 - OmopViewer-0.7.0/OmopViewer/inst/doc/export_static_app.html | 1637 ++++----- OmopViewer-0.7.0/OmopViewer/inst/functions.R | 857 ++-- OmopViewer-0.7.0/OmopViewer/inst/logos/ohdsi_logo.svg | 1784 +++++----- OmopViewer-0.7.0/OmopViewer/man/OmopViewer-package.Rd | 71 OmopViewer-0.7.0/OmopViewer/man/defaultPanels.Rd | 38 OmopViewer-0.7.0/OmopViewer/man/exportStaticApp.Rd | 156 OmopViewer-0.7.0/OmopViewer/man/figures/lifecycle-deprecated.svg | 42 OmopViewer-0.7.0/OmopViewer/man/figures/lifecycle-experimental.svg | 42 OmopViewer-0.7.0/OmopViewer/man/figures/lifecycle-stable.svg | 58 OmopViewer-0.7.0/OmopViewer/man/figures/lifecycle-superseded.svg | 42 OmopViewer-0.7.0/OmopViewer/man/getPanel.Rd | 46 OmopViewer-0.7.0/OmopViewer/man/launchDynamicApp.Rd | 28 OmopViewer-0.7.0/OmopViewer/man/omopViewerPanels.Rd | 40 OmopViewer-0.7.0/OmopViewer/man/omopViewerResults.Rd | 40 OmopViewer-0.7.0/OmopViewer/man/omopViewerThemes.Rd | 40 OmopViewer-0.7.0/OmopViewer/man/panelDetailsFromResult.Rd | 51 OmopViewer-0.7.0/OmopViewer/tests/testthat.R | 24 OmopViewer-0.7.0/OmopViewer/tests/testthat/_snaps/appStatic.md | 14 OmopViewer-0.7.0/OmopViewer/tests/testthat/test-appStatic.R | 453 +- OmopViewer-0.7.0/OmopViewer/tests/testthat/test-background.R | 108 OmopViewer-0.7.0/OmopViewer/tests/testthat/test-choices.R | 336 - OmopViewer-0.7.0/OmopViewer/tests/testthat/test-functions.R | 30 OmopViewer-0.7.0/OmopViewer/tests/testthat/test-packagesSupported.R | 14 OmopViewer-0.7.0/OmopViewer/tests/testthat/test-readme.R |only OmopViewer-0.7.0/OmopViewer/tests/testthat/test-summary.R | 380 +- OmopViewer-0.7.0/OmopViewer/vignettes/dynamic_app.Rmd | 66 OmopViewer-0.7.0/OmopViewer/vignettes/edit_static_content.Rmd | 220 - OmopViewer-0.7.0/OmopViewer/vignettes/export_static_app.Rmd | 270 - 68 files changed, 7575 insertions(+), 7412 deletions(-)
Title: Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
Description: Pipeline tools coordinate the pieces of computationally
demanding analysis projects.
The 'targets' package is a 'Make'-like pipeline tool for statistics and
data science in R. The package skips costly runtime for tasks
that are already up to date,
orchestrates the necessary computation with implicit parallel computing,
and abstracts files as R objects. If all the current output matches
the current upstream code and data, then the whole pipeline is up
to date, and the results are more trustworthy than otherwise.
The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre] ,
Matthew T. Warkentin [ctb],
Mark Edmondson [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between targets versions 1.11.4 dated 2025-09-13 and 1.12.0 dated 2026-02-09
targets-1.11.4/targets/tests/interactive/_targets.R |only targets-1.11.4/targets/tests/interactive/_targets_r |only targets-1.11.4/targets/tests/testthat/_targets |only targets-1.11.4/targets/tests/testthat/_targets.R |only targets-1.12.0/targets/DESCRIPTION | 6 targets-1.12.0/targets/LICENSE | 2 targets-1.12.0/targets/MD5 | 223 ++++------ targets-1.12.0/targets/NAMESPACE | 3 targets-1.12.0/targets/NEWS.md | 13 targets-1.12.0/targets/R/class_active.R | 1 targets-1.12.0/targets/R/class_builder.R | 3 targets-1.12.0/targets/R/class_clustermq.R | 7 targets-1.12.0/targets/R/class_cue.R | 3 targets-1.12.0/targets/R/class_junction.R | 2 targets-1.12.0/targets/R/class_meta.R | 2 targets-1.12.0/targets/R/class_network.R | 34 - targets-1.12.0/targets/R/class_passive.R | 1 targets-1.12.0/targets/R/class_pipeline.R | 4 targets-1.12.0/targets/R/class_runtime.R | 6 targets-1.12.0/targets/R/class_target.R | 2 targets-1.12.0/targets/R/class_vector.R | 4 targets-1.12.0/targets/R/class_visnetwork.R | 1 targets-1.12.0/targets/R/tar_active.R | 2 targets-1.12.0/targets/R/tar_bind.R | 2 targets-1.12.0/targets/R/tar_definition.R | 6 targets-1.12.0/targets/R/tar_delete.R | 2 targets-1.12.0/targets/R/tar_destroy.R | 2 targets-1.12.0/targets/R/tar_envvars.R | 5 targets-1.12.0/targets/R/tar_igraph.R |only targets-1.12.0/targets/R/tar_load.R | 3 targets-1.12.0/targets/R/tar_load_everything.R | 2 targets-1.12.0/targets/R/tar_manifest.R | 6 targets-1.12.0/targets/R/tar_network.R | 27 - targets-1.12.0/targets/R/tar_option_unset.R |only targets-1.12.0/targets/R/tar_package.R | 2 targets-1.12.0/targets/R/tar_path_target.R | 70 +-- targets-1.12.0/targets/R/tar_pipeline.R | 2 targets-1.12.0/targets/R/tar_repository_cas.R | 6 targets-1.12.0/targets/R/tar_resources_aws.R | 2 targets-1.12.0/targets/R/tar_script.R | 3 targets-1.12.0/targets/R/tar_target.R | 15 targets-1.12.0/targets/R/utils_assert.R | 24 - targets-1.12.0/targets/R/utils_aws.R | 6 targets-1.12.0/targets/R/utils_callr.R | 6 targets-1.12.0/targets/R/utils_data.R | 7 targets-1.12.0/targets/R/utils_language.R | 9 targets-1.12.0/targets/build/partial.rdb |binary targets-1.12.0/targets/build/vignette.rds |binary targets-1.12.0/targets/inst/templates/github_actions.yaml | 25 - targets-1.12.0/targets/man/tar_bind.Rd | 2 targets-1.12.0/targets/man/tar_config_get.Rd | 1 targets-1.12.0/targets/man/tar_config_projects.Rd | 1 targets-1.12.0/targets/man/tar_config_set.Rd | 1 targets-1.12.0/targets/man/tar_config_unset.Rd | 1 targets-1.12.0/targets/man/tar_config_yaml.Rd | 1 targets-1.12.0/targets/man/tar_definition.Rd | 15 targets-1.12.0/targets/man/tar_delete.Rd | 2 targets-1.12.0/targets/man/tar_deps.Rd | 1 targets-1.12.0/targets/man/tar_destroy.Rd | 4 targets-1.12.0/targets/man/tar_envvars.Rd | 8 targets-1.12.0/targets/man/tar_glimpse.Rd | 22 targets-1.12.0/targets/man/tar_igraph.Rd |only targets-1.12.0/targets/man/tar_language.Rd | 6 targets-1.12.0/targets/man/tar_manifest.Rd | 1 targets-1.12.0/targets/man/tar_mermaid.Rd | 22 targets-1.12.0/targets/man/tar_network.Rd | 28 - targets-1.12.0/targets/man/tar_option_get.Rd | 1 targets-1.12.0/targets/man/tar_option_reset.Rd | 1 targets-1.12.0/targets/man/tar_option_set.Rd | 3 targets-1.12.0/targets/man/tar_option_unset.Rd |only targets-1.12.0/targets/man/tar_option_with.Rd | 3 targets-1.12.0/targets/man/tar_outdated.Rd | 1 targets-1.12.0/targets/man/tar_path_target.Rd | 52 +- targets-1.12.0/targets/man/tar_pipeline.Rd | 2 targets-1.12.0/targets/man/tar_prune.Rd | 2 targets-1.12.0/targets/man/tar_repository_cas.Rd | 6 targets-1.12.0/targets/man/tar_repository_cas_local.Rd | 4 targets-1.12.0/targets/man/tar_repository_cas_local_gc.Rd | 4 targets-1.12.0/targets/man/tar_resources_aws.Rd | 2 targets-1.12.0/targets/man/tar_resources_gcp.Rd | 2 targets-1.12.0/targets/man/tar_script.Rd | 3 targets-1.12.0/targets/man/tar_sitrep.Rd | 1 targets-1.12.0/targets/man/tar_target.Rd | 15 targets-1.12.0/targets/man/tar_validate.Rd | 1 targets-1.12.0/targets/man/tar_visnetwork.Rd | 22 targets-1.12.0/targets/man/target_run_worker.Rd | 2 targets-1.12.0/targets/tests/hpc/test-clustermq_local.R | 12 targets-1.12.0/targets/tests/hpc/test-clustermq_sge.R | 30 - targets-1.12.0/targets/tests/hpc/test-crew_local.R | 8 targets-1.12.0/targets/tests/hpc/test-future_local.R | 8 targets-1.12.0/targets/tests/hpc/test-retrieval.R | 4 targets-1.12.0/targets/tests/performance/test-memory.R | 8 targets-1.12.0/targets/tests/testthat/helper-utils.R | 11 targets-1.12.0/targets/tests/testthat/test-class_balanced.R |only targets-1.12.0/targets/tests/testthat/test-class_builder.R | 19 targets-1.12.0/targets/tests/testthat/test-class_clustermq.R | 73 ++- targets-1.12.0/targets/tests/testthat/test-class_crew.R | 40 - targets-1.12.0/targets/tests/testthat/test-class_options.R | 8 targets-1.12.0/targets/tests/testthat/test-class_parallel.R | 21 targets-1.12.0/targets/tests/testthat/test-class_runtime.R | 8 targets-1.12.0/targets/tests/testthat/test-class_terse.R | 2 targets-1.12.0/targets/tests/testthat/test-class_torch.R | 16 targets-1.12.0/targets/tests/testthat/test-class_vector.R | 4 targets-1.12.0/targets/tests/testthat/test-tar_envvars.R | 3 targets-1.12.0/targets/tests/testthat/test-tar_format.R | 2 targets-1.12.0/targets/tests/testthat/test-tar_igraph.R |only targets-1.12.0/targets/tests/testthat/test-tar_load.R | 7 targets-1.12.0/targets/tests/testthat/test-tar_make.R | 8 targets-1.12.0/targets/tests/testthat/test-tar_make_clustermq.R | 14 targets-1.12.0/targets/tests/testthat/test-tar_option_set.R | 4 targets-1.12.0/targets/tests/testthat/test-tar_option_unset.R |only targets-1.12.0/targets/tests/testthat/test-tar_path_target.R | 20 targets-1.12.0/targets/tests/testthat/test-tar_repository_cas.R | 4 113 files changed, 653 insertions(+), 475 deletions(-)
Title: Archetypes for Targets
Description: Function-oriented Make-like declarative pipelines for
Statistics and data science are supported in the 'targets' R package.
As an extension to 'targets', the 'tarchetypes' package provides
convenient user-side functions to make 'targets' easier to use.
By establishing reusable archetypes for common kinds of
targets and pipelines, these functions help express complicated
reproducible pipelines concisely and compactly.
The methods in this package were influenced by the 'targets' R package.
by Will Landau (2018) <doi:10.21105/joss.00550>.
Author: William Michael Landau [aut, cre] ,
Rudolf Siegel [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph, fnd]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between tarchetypes versions 0.13.2 dated 2025-09-13 and 0.14.0 dated 2026-02-09
DESCRIPTION | 11 +- MD5 | 182 +++++++++++++++++------------------ NAMESPACE | 1 NEWS.md | 10 + R/tar_age.R | 15 ++ R/tar_assign.R | 6 - R/tar_change.R | 7 - R/tar_combine.R | 9 - R/tar_download.R | 7 - R/tar_eval.R | 8 - R/tar_file_read.R | 6 - R/tar_files.R | 4 R/tar_files_input.R | 4 R/tar_force.R | 4 R/tar_formats.R | 8 - R/tar_group_by.R | 6 - R/tar_group_count.R | 6 - R/tar_group_select.R | 6 - R/tar_group_size.R | 6 - R/tar_hook_before.R | 11 +- R/tar_hook_inner.R | 7 - R/tar_hook_outer.R | 7 - R/tar_knit.R | 4 R/tar_map.R | 24 ++-- R/tar_map2.R | 6 - R/tar_map2_count.R | 6 - R/tar_map2_size.R | 6 - R/tar_map_rep.R | 6 - R/tar_plan.R | 18 ++- R/tar_quarto.R | 6 - R/tar_quarto_rep.R | 6 - R/tar_quarto_rep_raw.R | 17 +++ R/tar_render.R | 23 +++- R/tar_render_rep.R | 6 - R/tar_rep.R | 2 R/tar_rep2.R | 6 - R/tar_rep_map.R | 6 - R/tar_rep_map_raw.R | 6 - R/tar_select_names.R | 6 - R/tar_select_targets.R | 14 +- R/tar_skip.R | 8 - R/tar_sub.R | 6 - R/tar_tangle.R |only inst/WORDLIST | 4 inst/example_tar_tangle.qmd |only man/tar_age.Rd | 28 +++-- man/tar_assign.Rd | 22 ++-- man/tar_change.Rd | 19 ++- man/tar_combine.Rd | 21 ++-- man/tar_cue_age.Rd | 11 +- man/tar_download.Rd | 19 ++- man/tar_eval.Rd | 20 ++- man/tar_file_read.Rd | 18 +-- man/tar_files.Rd | 16 +-- man/tar_files_input.Rd | 16 +-- man/tar_force.Rd | 16 +-- man/tar_formats.Rd | 16 +-- man/tar_formats_superseded.Rd | 16 +-- man/tar_group_by.Rd | 18 +-- man/tar_group_count.Rd | 18 +-- man/tar_group_select.Rd | 18 +-- man/tar_group_size.Rd | 18 +-- man/tar_hook_before.Rd | 23 ++-- man/tar_hook_inner.Rd | 23 ++-- man/tar_hook_outer.Rd | 23 ++-- man/tar_knit.Rd | 16 +-- man/tar_map.Rd | 24 ++-- man/tar_map2.Rd | 18 +-- man/tar_map2_count.Rd | 18 +-- man/tar_map2_size.Rd | 18 +-- man/tar_map_rep.Rd | 18 +-- man/tar_plan.Rd | 31 +++-- man/tar_quarto.Rd | 18 +-- man/tar_quarto_rep.Rd | 18 +-- man/tar_render.Rd | 37 +++++-- man/tar_render_rep.Rd | 18 +-- man/tar_rep.Rd | 14 +- man/tar_rep2.Rd | 18 +-- man/tar_rep_map.Rd | 18 +-- man/tar_rep_map_raw.Rd | 18 +-- man/tar_select_names.Rd | 18 +-- man/tar_select_targets.Rd | 26 ++--- man/tar_skip.Rd | 20 ++- man/tar_sub.Rd | 18 +-- man/tar_tangle.Rd |only tests/testthat/test-tar_map2.R | 84 ++++++++-------- tests/testthat/test-tar_map2_count.R | 42 ++++---- tests/testthat/test-tar_map2_size.R | 42 ++++---- tests/testthat/test-tar_map_rep.R | 136 +++++++++++++------------- tests/testthat/test-tar_quarto.R | 2 tests/testthat/test-tar_quarto_rep.R | 1 tests/testthat/test-tar_rep2.R | 38 +++---- tests/testthat/test-tar_rep_map.R | 38 +++---- tests/testthat/test-tar_tangle.R |only 94 files changed, 927 insertions(+), 736 deletions(-)
Title: Non-Longitudinal Bayesian Historical Borrowing Models
Description: Historical borrowing in clinical trials can improve
precision and operating characteristics. This package supports
a hierarchical model and a mixture model to borrow historical
control data from other studies to better characterize the
control response of the current study. It also quantifies
the amount of borrowing through benchmark models (independent
and pooled). Some of the methods are discussed by
Viele et al. (2013) <doi:10.1002/pst.1589>.
Author: William Michael Landau [aut, cre] ,
Albert Man [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between historicalborrow versions 1.1.0 dated 2024-09-10 and 1.1.1 dated 2026-02-09
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/doc/methods.Rmd | 4 ++-- inst/doc/methods.html | 24 +++++++++++++----------- inst/doc/usage.html | 12 ++++++------ tests/testthat/test-hb_ess.R | 12 ++++++------ vignettes/bibliography.bib | 12 ++++++------ vignettes/methods.Rmd | 4 ++-- 9 files changed, 48 insertions(+), 46 deletions(-)
More information about historicalborrow at CRAN
Permanent link
Title: Box-Cox Symmetric Regression for Non-Negative Data
Description: A collection of tools for regression analysis of non-negative data,
including strictly positive and zero-inflated observations, based on the class of the Box-Cox
symmetric (BCS) distributions and its zero-adjusted extension. The BCS distributions are a
class of flexible probability models capable of describing different levels of skewness and
tail-heaviness. The package offers a comprehensive regression modeling framework, including
estimation and tools for evaluating goodness-of-fit.
Author: Felipe Queiroz [aut] ,
Rodrigo Medeiros [aut, cre, cph]
Maintainer: Rodrigo Medeiros <rodrigo.matheus@ufrn.br>
Diff between BCSreg versions 1.1.0 dated 2026-01-12 and 1.1.1 dated 2026-02-09
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 3 +++ tests/testthat/test-bcno.R | 26 +++++++++++++------------- 4 files changed, 22 insertions(+), 19 deletions(-)
Title: Three-Way Component Analysis
Description: Component analysis for three-way data arrays by means of Candecomp/Parafac, Tucker3, Tucker2 and Tucker1 models.
Author: Maria Antonietta Del Ferraro [aut],
Paolo Giordani [aut, cre],
Henk A.L. Kiers [aut]
Maintainer: Paolo Giordani <paolo.giordani@uniroma1.it>
Diff between ThreeWay versions 1.1.3 dated 2015-09-07 and 1.1.4 dated 2026-02-09
DESCRIPTION | 28 +++++++++++++++++++++------- MD5 | 32 ++++++++++++++++---------------- inst/CITATION | 19 +++++++------------ man/CP.Rd | 2 +- man/CPdimensionalityplot.Rd | 6 +++--- man/Kinship.Rd | 4 ++-- man/T1.Rd | 2 +- man/T2.Rd | 2 +- man/T2func.Rd | 4 ++-- man/T2funcrep.Rd | 4 ++-- man/T3.Rd | 2 +- man/T3dimensionalityplot.Rd | 6 +++--- man/T3func.Rd | 6 +++--- man/T3funcrep.Rd | 6 +++--- man/TV.Rd | 10 +++++----- man/pcamean.Rd | 2 +- man/threewayanova.Rd | 2 +- 17 files changed, 73 insertions(+), 64 deletions(-)
Title: Stable Isotope Bayesian Ellipses in R
Description: Fits bi-variate ellipses to stable isotope data using Bayesian
inference with the aim being to describe and compare their isotopic
niche.
Author: Andrew Jackson [aut, cre] ,
Andrew Parnell [aut]
Maintainer: Andrew Jackson <jacksoan@tcd.ie>
Diff between SIBER versions 2.1.9 dated 2023-10-19 and 2.1.10 dated 2026-02-09
SIBER-2.1.10/SIBER/DESCRIPTION | 19 +- SIBER-2.1.10/SIBER/MD5 | 46 ++--- SIBER-2.1.10/SIBER/NAMESPACE | 4 SIBER-2.1.10/SIBER/NEWS.md | 3 SIBER-2.1.10/SIBER/R/createSiberObject.R | 2 SIBER-2.1.10/SIBER/build/partial.rdb |binary SIBER-2.1.10/SIBER/build/vignette.rds |binary SIBER-2.1.10/SIBER/inst/doc/Centroid-Vectors.html | 9 - SIBER-2.1.10/SIBER/inst/doc/Customising-Plots-Manually.html | 7 SIBER-2.1.10/SIBER/inst/doc/Ellipse-Overlap.html | 9 - SIBER-2.1.10/SIBER/inst/doc/Introduction-to-SIBER.html | 19 +- SIBER-2.1.10/SIBER/inst/doc/Plot-SIA-ggplot2.html | 71 ++++---- SIBER-2.1.10/SIBER/inst/doc/Plot-posterior-ellipses.R | 6 SIBER-2.1.10/SIBER/inst/doc/Plot-posterior-ellipses.Rmd | 6 SIBER-2.1.10/SIBER/inst/doc/Plot-posterior-ellipses.html | 13 - SIBER-2.1.10/SIBER/inst/doc/Points-Inside-Outside-Ellipse.html | 11 - SIBER-2.1.10/SIBER/inst/doc/Test-convergence.html | 19 +- SIBER-2.1.10/SIBER/inst/doc/siber-comparing-communities.html | 15 - SIBER-2.1.10/SIBER/inst/doc/siber-comparing-populations.html | 85 +++++----- SIBER-2.1.10/SIBER/vignettes/Plot-posterior-ellipses.Rmd | 6 SIBER-2.1.9/SIBER/R/kapow.R |only SIBER-2.1.9/SIBER/R/siberKapow.R |only SIBER-2.1.9/SIBER/inst/doc/kapow-example.R |only SIBER-2.1.9/SIBER/inst/doc/kapow-example.Rmd |only SIBER-2.1.9/SIBER/inst/doc/kapow-example.html |only SIBER-2.1.9/SIBER/man/kapow.Rd |only SIBER-2.1.9/SIBER/man/siberKapow.Rd |only SIBER-2.1.9/SIBER/vignettes/kapow-example.Rmd |only 28 files changed, 178 insertions(+), 172 deletions(-)
Title: Text Tokenization using Byte Pair Encoding and Unigram Modelling
Description: Unsupervised text tokenizer allowing to perform byte pair encoding and unigram modelling.
Wraps the 'sentencepiece' library <https://github.com/google/sentencepiece> which provides a language independent tokenizer to split text in words and smaller subword units.
The techniques are explained in the paper "SentencePiece: A simple and language independent subword tokenizer and detokenizer for Neural Text Processing" by Taku Kudo and John Richardson (2018) <doi:10.18653/v1/D18-2012>.
Provides as well straightforward access to pretrained byte pair encoding models and subword embeddings trained on Wikipedia using 'word2vec',
as described in "BPEmb: Tokenization-free Pre-trained Subword Embeddings in 275 Languages" by Benjamin Heinzerling and Michael Strube (2018) <http://www.lrec-conf.org/proceedings/lrec2018/pdf/1049.pdf>.
Author: Jan Wijffels [aut, cre, cph] ,
BNOSAC [cph] ,
Google Inc. [ctb, cph] ,
The Abseil Authors [ctb, cph] ,
Google Inc. [ctb, cph] ),
Kenton Varda [ctb, cph] ),
Sanjay Ghemawat [ctb, cph] ),
Jeff Dean [ctb, cph] ),
Laszlo Csomor [ctb, cph] ),
Wink Sav [...truncated...]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between sentencepiece versions 0.2.4 dated 2025-11-27 and 0.2.5 dated 2026-02-09
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- NEWS.md | 4 ++++ src/Makevars | 1 + 4 files changed, 13 insertions(+), 7 deletions(-)
Title: Bayesian Deep Gaussian Processes using MCMC
Description: Performs Bayesian posterior inference for deep Gaussian
processes following Sauer, Gramacy, and Higdon (2023, <doi:10.48550/arXiv.2012.08015>).
See Sauer (2023, <http://hdl.handle.net/10919/114845>) for comprehensive
methodological details and <https://bitbucket.org/gramacylab/deepgp-ex/> for
a variety of coding examples. Models are trained through MCMC including
elliptical slice sampling of latent Gaussian layers and Metropolis-Hastings
sampling of kernel hyperparameters. Gradient-enhancement and gradient
predictions are offered following Booth (2025, <doi:10.48550/arXiv.2512.18066>).
Vecchia approximation for faster
computation is implemented following Sauer, Cooper, and Gramacy
(2023, <doi:10.48550/arXiv.2204.02904>). Optional monotonic warpings are
implemented following Barnett et al. (2025, <doi:10.48550/arXiv.2408.01540>).
Downstream tasks include sequential design
through active learning Cohn/integrated mean squared error (ALC/IMSE; Sauer,
G [...truncated...]
Author: Annie S. Booth [aut, cre]
Maintainer: Annie S. Booth <annie_booth@vt.edu>
Diff between deepgp versions 1.2.0 dated 2026-01-08 and 1.2.1 dated 2026-02-09
DESCRIPTION | 8 ++-- MD5 | 14 +++---- README.md | 7 +++ inst/doc/deepgp.R | 40 +++++++++++----------- inst/doc/deepgp.Rmd | 51 ++++++++++++++++------------ inst/doc/deepgp.html | 92 +++++++++++++++++++++++++++------------------------ src/vecchia.cpp | 16 ++++---- vignettes/deepgp.Rmd | 51 ++++++++++++++++------------ 8 files changed, 154 insertions(+), 125 deletions(-)
Title: Hemodynamic Response Functions for fMRI Data Analysis
Description: Creates, manipulates, and evaluates hemodynamic response functions
and event-related regressors for functional magnetic resonance imaging data
analysis. Supports multiple basis sets including Canonical, Gamma, Gaussian,
B-spline, and Fourier bases. Features decorators for time-shifting and blocking,
and efficient convolution algorithms for regressor construction. Methods are based
on standard fMRI analysis techniques as described in Jezzard et al. (2001, ISBN:9780192630711).
Author: Bradley Buchsbaum [aut, cre]
Maintainer: Bradley Buchsbaum <brad.buchsbaum@gmail.com>
Diff between fmrihrf versions 0.1.0 dated 2025-09-16 and 0.2.0 dated 2026-02-09
fmrihrf-0.1.0/fmrihrf/man/deriv.SPMG1_HRF.Rd |only fmrihrf-0.1.0/fmrihrf/man/deriv.SPMG2_HRF.Rd |only fmrihrf-0.1.0/fmrihrf/man/deriv.SPMG3_HRF.Rd |only fmrihrf-0.2.0/fmrihrf/DESCRIPTION | 8 fmrihrf-0.2.0/fmrihrf/MD5 | 95 - fmrihrf-0.2.0/fmrihrf/NAMESPACE | 7 fmrihrf-0.2.0/fmrihrf/NEWS.md |only fmrihrf-0.2.0/fmrihrf/R/deriv-methods.R | 6 fmrihrf-0.2.0/fmrihrf/R/evaluate-helpers.R | 121 - fmrihrf-0.2.0/fmrihrf/R/hrf-functions.R | 295 +++ fmrihrf-0.2.0/fmrihrf/R/hrf.R | 375 +++- fmrihrf-0.2.0/fmrihrf/R/reg-constructor.R | 141 + fmrihrf-0.2.0/fmrihrf/R/reg-methods.R | 314 +++ fmrihrf-0.2.0/fmrihrf/R/utils-internal.R | 4 fmrihrf-0.2.0/fmrihrf/build/vignette.rds |binary fmrihrf-0.2.0/fmrihrf/inst/doc/a_01_hemodynamic_response.R | 498 ++--- fmrihrf-0.2.0/fmrihrf/inst/doc/a_01_hemodynamic_response.Rmd | 590 +++--- fmrihrf-0.2.0/fmrihrf/inst/doc/a_01_hemodynamic_response.html | 932 +++------- fmrihrf-0.2.0/fmrihrf/inst/doc/a_02_regressor.R | 121 - fmrihrf-0.2.0/fmrihrf/inst/doc/a_02_regressor.Rmd | 121 - fmrihrf-0.2.0/fmrihrf/inst/doc/a_02_regressor.html | 139 - fmrihrf-0.2.0/fmrihrf/inst/doc/a_03_hrf_generators.html | 21 fmrihrf-0.2.0/fmrihrf/inst/doc/a_04_advanced_modeling.R | 7 fmrihrf-0.2.0/fmrihrf/inst/doc/a_04_advanced_modeling.Rmd | 7 fmrihrf-0.2.0/fmrihrf/inst/doc/a_04_advanced_modeling.html | 167 - fmrihrf-0.2.0/fmrihrf/man/HRF_objects.Rd | 14 fmrihrf-0.2.0/fmrihrf/man/Reg.Rd | 3 fmrihrf-0.2.0/fmrihrf/man/as_hrf.Rd | 15 fmrihrf-0.2.0/fmrihrf/man/deriv.HRF.Rd | 31 fmrihrf-0.2.0/fmrihrf/man/hrf_basis_lwu.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_boxcar.Rd |only fmrihrf-0.2.0/fmrihrf/man/hrf_bspline.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_gamma.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_gaussian.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_half_cosine.Rd | 42 fmrihrf-0.2.0/fmrihrf/man/hrf_inv_logit.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_lwu.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_mexhat.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_sine.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_spmg1.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_tent_generator.Rd |only fmrihrf-0.2.0/fmrihrf/man/hrf_time.Rd | 4 fmrihrf-0.2.0/fmrihrf/man/hrf_weighted.Rd |only fmrihrf-0.2.0/fmrihrf/man/plot.HRF.Rd | 34 fmrihrf-0.2.0/fmrihrf/man/plot.Reg.Rd |only fmrihrf-0.2.0/fmrihrf/man/plot_hrfs.Rd |only fmrihrf-0.2.0/fmrihrf/man/plot_regressors.Rd |only fmrihrf-0.2.0/fmrihrf/man/print.HRF.Rd |only fmrihrf-0.2.0/fmrihrf/man/print.Rd | 6 fmrihrf-0.2.0/fmrihrf/man/regressor.Rd | 52 fmrihrf-0.2.0/fmrihrf/tests/testthat/test_hrf.R | 642 ++++++ fmrihrf-0.2.0/fmrihrf/vignettes/a_01_hemodynamic_response.Rmd | 590 +++--- fmrihrf-0.2.0/fmrihrf/vignettes/a_02_regressor.Rmd | 121 - fmrihrf-0.2.0/fmrihrf/vignettes/a_04_advanced_modeling.Rmd | 7 54 files changed, 3493 insertions(+), 2073 deletions(-)
Title: Core Tools for Packages in the 'fable' Framework
Description: Provides tools, helpers and data structures for
developing models and time series functions for 'fable' and extension
packages. These tools support a consistent and tidy interface for time
series modelling and analysis.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Rob Hyndman [aut],
Earo Wang [aut] ,
Di Cook [ctb],
George Athanasopoulos [ctb],
David Holt [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between fabletools versions 0.5.1 dated 2025-09-01 and 0.6.0 dated 2026-02-09
fabletools-0.5.1/fabletools/tests/testthat/test-graphics.R |only fabletools-0.6.0/fabletools/DESCRIPTION | 13 -- fabletools-0.6.0/fabletools/MD5 | 83 ++++++------- fabletools-0.6.0/fabletools/NAMESPACE | 6 fabletools-0.6.0/fabletools/NEWS.md | 11 + fabletools-0.6.0/fabletools/R/accuracy.R | 6 fabletools-0.6.0/fabletools/R/components.R | 8 - fabletools-0.6.0/fabletools/R/dable.R | 4 fabletools-0.6.0/fabletools/R/frequency.R | 6 fabletools-0.6.0/fabletools/R/model.R | 4 fabletools-0.6.0/fabletools/R/model_decomposition.R | 3 fabletools-0.6.0/fabletools/R/plot.R | 40 +++++- fabletools-0.6.0/fabletools/R/reconciliation.R | 4 fabletools-0.6.0/fabletools/R/utils.R | 10 - fabletools-0.6.0/fabletools/R/xregs.R | 2 fabletools-0.6.0/fabletools/R/zzz.R | 29 ++++ fabletools-0.6.0/fabletools/README.md | 1 fabletools-0.6.0/fabletools/build/stage23.rdb |binary fabletools-0.6.0/fabletools/build/vignette.rds |binary fabletools-0.6.0/fabletools/inst/doc/extension_models.html | 5 fabletools-0.6.0/fabletools/man/accuracy.Rd | 2 fabletools-0.6.0/fabletools/man/aggregate_index.Rd | 7 - fabletools-0.6.0/fabletools/man/aggregate_key.Rd | 7 - fabletools-0.6.0/fabletools/man/augment.Rd | 2 fabletools-0.6.0/fabletools/man/autoplot.dcmp_ts.Rd | 2 fabletools-0.6.0/fabletools/man/autoplot.fbl_ts.Rd | 4 fabletools-0.6.0/fabletools/man/autoplot.tbl_ts.Rd | 2 fabletools-0.6.0/fabletools/man/combination_model.Rd | 2 fabletools-0.6.0/fabletools/man/common_xregs.Rd | 3 fabletools-0.6.0/fabletools/man/components.Rd | 8 - fabletools-0.6.0/fabletools/man/dable.Rd | 4 fabletools-0.6.0/fabletools/man/decomposition_model.Rd | 3 fabletools-0.6.0/fabletools/man/features.Rd | 2 fabletools-0.6.0/fabletools/man/forecast.Rd | 2 fabletools-0.6.0/fabletools/man/generate.mdl_df.Rd | 2 fabletools-0.6.0/fabletools/man/glance.Rd | 2 fabletools-0.6.0/fabletools/man/hypothesize.mdl_df.Rd | 2 fabletools-0.6.0/fabletools/man/interpolate.Rd | 2 fabletools-0.6.0/fabletools/man/model.Rd | 2 fabletools-0.6.0/fabletools/man/reconcile.Rd | 2 fabletools-0.6.0/fabletools/man/refit.Rd | 2 fabletools-0.6.0/fabletools/man/skill_score.Rd | 2 fabletools-0.6.0/fabletools/man/tidy.Rd | 2 43 files changed, 179 insertions(+), 124 deletions(-)
Title: Correlation Heatmaps
Description: Create correlation heatmaps from a numeric matrix. Ensembl Gene ID row names can be converted to Gene Symbols
using, e.g., BioMart. Optionally, data can be clustered and filtered by correlation, tree cutting and/or number
of missing values. Genes of interest can be highlighted in the plot and correlation significance be indicated by
asterisks encoding corresponding P-Values. Plot dimensions and label measures are adjusted automatically by default.
The plot features rely on the heatmap.n2() function in the 'heatmapFlex' package.
Author: Vidal Fey [aut, cre],
Henri Sara [aut]
Maintainer: Vidal Fey <vidal.fey@gmail.com>
This is a re-admission after prior archival of version 0.2.2 dated 2021-09-19
Diff between coreheat versions 0.2.2 dated 2021-09-19 and 0.3.2 dated 2026-02-09
DESCRIPTION | 16 MD5 | 22 - NAMESPACE | 1 R/cormap2.R | 189 ++++++++- build/vignette.rds |binary inst/doc/coreheat-vignette.R | 80 ++- inst/doc/coreheat-vignette.Rmd | 54 +- inst/doc/coreheat-vignette.html | 821 +++++++++++++++++++++++++++------------- man/coreheat.Rd | 2 man/cormap2.Rd | 21 + man/cormap_filt.Rd | 21 + vignettes/coreheat-vignette.Rmd | 54 +- 12 files changed, 936 insertions(+), 345 deletions(-)
More information about compositional.mle at CRAN
Permanent link
Title: Named Entity Recognition in Texts using 'NameTag'
Description: Wraps the 'nametag' library <https://github.com/ufal/nametag>, allowing users to find and extract entities (names, persons, locations, addresses, ...) in raw text and build your own entity recognition models.
Based on a maximum entropy Markov model which is described in Strakova J., Straka M. and Hajic J. (2013) <https://ufal.mff.cuni.cz/~straka/papers/2013-tsd_ner.pdf>.
Author: Jan Wijffels [aut, cre, cph] ,
BNOSAC [cph] ,
Institute of Formal and Applied Linguistics, Faculty of Mathematics and
Physics, Charles University in Prague, Czech Republic [cph],
Milan Straka [ctb, cph] ,
Jana Strakova [ctb, cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between nametagger versions 0.1.6 dated 2026-01-30 and 0.1.7 dated 2026-02-09
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ src/nametag/src/classifier/network_classifier.cpp | 2 +- src/nametag/src/morphodita/morpho/persistent_unordered_map.h | 2 +- src/nametag/src/utils/unaligned_access.h | 8 ++++---- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Check Text Files Content at a Glance
Description: Tools to help text files importation. It can return the
number of lines; print the first and last lines; convert encoding;
guess delimiters and file encoding. Operations are made without
reading the entire file before starting, resulting in good
performances with large files. This package provides an alternative to
a simple use of the 'head', 'tail', 'wc' and 'iconv' programs that are
not always available on machine where R is installed.
Author: David Gohel [aut, cre]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between fpeek versions 0.1.2 dated 2021-03-31 and 0.2.0 dated 2026-02-09
DESCRIPTION | 38 +++++++++---------- MD5 | 36 +++++++++++------- NAMESPACE | 2 + NEWS.md | 13 ++++++ R/funs.R | 35 +++++++++--------- R/peek-guess-delim.R |only R/peek-guess-encoding.R |only README.md | 68 +++++++++++++++++++++++++++++++---- inst/datafiles/test-comma.csv |only inst/datafiles/test-pipe.csv |only inst/datafiles/test-semicolon.csv |only inst/datafiles/test-tab.csv |only man/peek_count_lines.Rd | 2 - man/peek_guess_delim.Rd |only man/peek_guess_encoding.Rd |only man/peek_head.Rd | 2 - man/peek_iconv.Rd | 1 man/peek_tail.Rd | 2 - src/RcppExports.cpp | 5 ++ tests/testthat/test-guess-delim.R |only tests/testthat/test-guess-encoding.R |only tests/testthat/test-headtail.R | 20 ++++++---- tests/testthat/test-iconv.R | 24 ++++++++---- tests/testthat/test-wcl.R | 1 24 files changed, 173 insertions(+), 76 deletions(-)
Title: Tools for Calculating Allocations in Game Theory using Exact and
Approximated Methods
Description: The main objective of cooperative Transferable-Utility games (TU-games)
is to allocate a good among the agents involved. The package implements major
solution concepts including the Shapley value, Banzhaf value, and egalitarian
rules, alongside their extensions for structured games:
the Owen value and Banzhaf-Owen value for games with a priori unions, and the
Myerson value for communication games on networks. To address the inherent exponential
computational complexity of exact evaluation, the package offers both exact
algorithms and linear approximation methods based on sampling, enabling the
analysis of large-scale games. Additionally, it supports core set-based
solutions, allowing computation of the vertices and the centroid of the core.
Author: Maria D. Guillen [cre, aut] ,
Juan Carlos Goncalves [aut]
Maintainer: Maria D. Guillen <maria.guilleng@umh.es>
Diff between TUvalues versions 1.1.0 dated 2025-12-16 and 1.1.1 dated 2026-02-09
DESCRIPTION | 8 +++--- MD5 | 10 ++++---- NAMESPACE | 10 +++++--- R/core_appro.R | 64 ++++++++++++++++++++++++++---------------------------- R/core_exact.R | 2 - man/core_appro.Rd | 5 +--- 6 files changed, 48 insertions(+), 51 deletions(-)
Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') for
temporal data in an data- and model-oriented format. The 'tsibble'
provides tools to easily manipulate and analyse temporal data, such as
filling in time gaps and aggregating over calendar periods.
Author: Earo Wang [aut] ,
Di Cook [aut, ths] ,
Rob Hyndman [aut, ths] ,
Mitchell O'Hara-Wild [aut, cre] ,
Tyler Smith [ctb],
Wil Davis [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between tsibble versions 1.1.6 dated 2025-01-30 and 1.2.0 dated 2026-02-09
DESCRIPTION | 41 ++++++------ MD5 | 76 +++++++++++----------- NAMESPACE | 12 ++- NEWS.md | 13 +++ R/as-tsibble.R | 34 +++++---- R/dplyr-verbs.R | 5 + R/error.R | 13 --- R/filter-index.R | 4 - R/gaps.R | 16 ++-- R/holiday.R | 2 R/scales.R | 4 - R/summary.R |only R/tsibble-meta.R | 133 +++++++++++++++++++++++++++++++++++++-- R/tsibble-package.R | 2 R/vctrs-tsibble.R | 9 ++ R/yearquarter.R | 12 ++- build/vignette.rds |binary inst/WORDLIST | 65 +++++++------------ inst/doc/faq.html | 5 - inst/doc/implicit-na.html | 7 +- inst/doc/intro-tsibble.Rmd | 2 inst/doc/intro-tsibble.html | 13 ++- man/as-tsibble.Rd | 14 ++-- man/build_tsibble.Rd | 12 ++- man/duplicates.Rd | 12 ++- man/filter_index.Rd | 5 - man/index-rd.Rd | 14 ++++ man/key.Rd | 13 +++ man/measured-vars.Rd | 41 ++++++++++++ man/tsibble-package.Rd | 5 - man/tsibble.Rd | 20 ++++- man/unnest_tsibble.Rd | 8 +- man/update_tsibble.Rd | 14 ++-- tests/testthat/test-dplyr.R | 11 +++ tests/testthat/test-gaps.R | 10 ++ tests/testthat/test-tidyr.R | 39 +++++++++++ tests/testthat/test-tidyselect.R |only tests/testthat/test-tsibble.R | 34 ++++++++- tests/testthat/test-tsibble2ts.R | 16 ++-- vignettes/intro-tsibble.Rmd | 2 40 files changed, 530 insertions(+), 208 deletions(-)
Title: Multiple Precision Arithmetic
Description: Multiple Precision Arithmetic (big integers and rationals,
prime number tests, matrix computation), "arithmetic without limitations"
using the C library GMP (GNU Multiple Precision Arithmetic).
Author: Antoine Lucas [aut, cre] ,
Immanuel Scholz [aut],
Rainer Boehme [ctb],
Sylvain Jasson [ctb],
Martin Maechler [ctb]
Maintainer: Antoine Lucas <antoinelucas@gmail.com>
Diff between gmp versions 0.7-5 dated 2024-08-23 and 0.7-5.1 dated 2026-02-09
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- src/Rgmp.h | 3 +++ 3 files changed, 10 insertions(+), 6 deletions(-)
Title: Feature Extraction and Statistics for Time Series
Description: Provides a collection of features, decomposition methods,
statistical summaries and graphics functions for the analysing tidy time
series data. The package name 'feasts' is an acronym comprising of its key
features: Feature Extraction And Statistics for Time Series.
Author: Mitchell O'Hara-Wild [aut, cre],
Rob Hyndman [aut],
Earo Wang [aut],
Di Cook [ctb],
Thiyanga Talagala [ctb] ,
Leanne Chhay [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between feasts versions 0.4.2 dated 2025-08-27 and 0.5.0 dated 2026-02-09
feasts-0.4.2/feasts/man/autoplot.tbl_cf.Rd |only feasts-0.4.2/feasts/man/gg_arma.Rd |only feasts-0.4.2/feasts/man/gg_irf.Rd |only feasts-0.4.2/feasts/man/gg_lag.Rd |only feasts-0.4.2/feasts/man/gg_season.Rd |only feasts-0.4.2/feasts/man/gg_subseries.Rd |only feasts-0.4.2/feasts/man/gg_tsdisplay.Rd |only feasts-0.4.2/feasts/man/gg_tsresiduals.Rd |only feasts-0.4.2/feasts/man/scale_cf_lag.Rd |only feasts-0.4.2/feasts/tests/testthat/test-graphics.R |only feasts-0.5.0/feasts/DESCRIPTION | 15 feasts-0.5.0/feasts/MD5 | 62 feasts-0.5.0/feasts/NAMESPACE | 34 feasts-0.5.0/feasts/NEWS.md | 6 feasts-0.5.0/feasts/R/acf.R | 106 - feasts-0.5.0/feasts/R/features.R | 73 - feasts-0.5.0/feasts/R/graphics.R | 922 ------------- feasts-0.5.0/feasts/R/seats.R | 2 feasts-0.5.0/feasts/R/utils.R | 8 feasts-0.5.0/feasts/R/x11.R | 2 feasts-0.5.0/feasts/R/x13arimaseats.R | 2 feasts-0.5.0/feasts/README.md | 53 feasts-0.5.0/feasts/build/vignette.rds |binary feasts-0.5.0/feasts/inst/doc/feasts.html | 30 feasts-0.5.0/feasts/man/ACF.Rd | 2 feasts-0.5.0/feasts/man/STL.Rd | 6 feasts-0.5.0/feasts/man/cointegration_phillips_ouliaris.Rd | 66 feasts-0.5.0/feasts/man/feasts-package.Rd | 2 feasts-0.5.0/feasts/man/figures/README-dcmp-plot-1.png |binary feasts-0.5.0/feasts/man/figures/README-extreme-1.png |binary feasts-0.5.0/feasts/man/figures/README-features-plot-1.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-1.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-2.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-3.png |binary feasts-0.5.0/feasts/man/figures/README-graphics-4.png |binary feasts-0.5.0/feasts/man/reexports.Rd | 11 feasts-0.5.0/feasts/tests/testthat/test-cf.R | 33 37 files changed, 242 insertions(+), 1193 deletions(-)
Title: Applied Econometrics with R
Description: Functions, data sets, examples, demos, and vignettes for the book
Christian Kleiber and Achim Zeileis (2008),
Applied Econometrics with R, Springer-Verlag, New York.
ISBN 978-0-387-77316-2. <doi:10.1007/978-0-387-77318-6>
(See the vignette "AER" for a package overview.)
Author: Christian Kleiber [aut] ,
Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between AER versions 1.2-15 dated 2025-06-18 and 1.2-16 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 5 +++++ inst/doc/AER.Rnw | 12 ++++++------ inst/doc/AER.pdf |binary inst/doc/Sweave-journals.pdf |binary tests/Ch-Validation.R | 1 - tests/Ch-Validation.Rout.save | 9 --------- vignettes/AER.Rnw | 12 ++++++------ vignettes/aer.bib | 2 +- 10 files changed, 31 insertions(+), 36 deletions(-)
Title: 'vcd' Extensions and Additions
Description: Provides additional data sets, methods and documentation to complement the 'vcd' package for Visualizing Categorical Data
and the 'gnm' package for Generalized Nonlinear Models.
In particular, 'vcdExtra' extends mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models and
adds a 3D version in 'mosaic3d'. Additionally, methods are provided for comparing and visualizing lists of
'glm' and 'loglm' objects. This package is now a support package for the book, "Discrete Data Analysis with R" by
Michael Friendly and David Meyer.
Author: Michael Friendly [aut, cre] ,
David Meyer [ctb],
Achim Zeileis [ctb] ,
Duncan Murdoch [ctb],
Heather Turner [ctb] ,
David Firth [ctb],
Daniel Sabanes Bove [ctb],
Matt Kumar [ctb],
Shuguang Sun [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between vcdExtra versions 0.9.0 dated 2026-01-21 and 0.9.1 dated 2026-02-09
DESCRIPTION | 15 MD5 | 275 - NAMESPACE | 256 - NEWS.md | 18 R/CrabSatellites.R | 126 R/Crossings.R | 150 R/color_table.R |only R/data.R | 6264 ++++++++++++++++++------------------ R/get_model.R |only R/glmlist.R | 146 R/labeling_points.R |only R/mosaic.glm.R | 718 ++-- R/mosaic3d.R | 15 R/seq_loglm.R | 30 R/split3d.R | 3 R/vcdExtra-package.R | 246 - R/woolf_test.R | 718 ++-- build/partial.rdb |only build/vignette.rds |binary data/Reinis.rda |only demo/00Index | 4 demo/Wong2-3.R | 10 demo/Wong3-1.R | 2 demo/mosaic3d-hec.R | 2 demo/ucb-glm.R | 53 demo/yaish-unidiff.R | 72 inst/WORDLIST | 546 +-- inst/doc/a1-creating.Rmd | 1552 ++++---- inst/doc/a1-creating.html | 9 inst/doc/a2-tests.Rmd | 796 ++-- inst/doc/a2-tests.html | 9 inst/doc/a3-loglinear.Rmd | 508 +- inst/doc/a3-loglinear.html | 9 inst/doc/a4-mosaics.Rmd | 878 ++--- inst/doc/a4-mosaics.html | 11 inst/doc/a5-demo-housing.Rmd | 742 ++-- inst/doc/a5-demo-housing.html | 9 inst/doc/a6-mobility.Rmd | 804 ++-- inst/doc/a6-mobility.html | 9 inst/doc/a7-continuous.Rmd | 440 +- inst/doc/a7-continuous.html | 11 inst/doc/datasets.Rmd | 288 - inst/doc/datasets.html | 11 inst/doc/tidyCats.Rmd | 21 inst/doc/tidyCats.html | 27 inst/extdata/tv.dat | 1650 ++++----- man/Abortion.Rd | 116 man/Accident.Rd | 236 - man/AirCrash.Rd | 136 man/Alligator.Rd | 126 man/Asbestos.Rd | 118 man/Bartlett.Rd | 126 man/Burt.Rd | 104 man/CMHtest.Rd | 444 +- man/Caesar.Rd | 170 man/Cancer.Rd | 78 man/Cormorants.Rd | 156 man/CrabSatellites.Rd | 124 man/Crossings.Rd | 116 man/CyclingDeaths.Rd | 120 man/DaytonSurvey.Rd | 150 man/Depends.Rd | 110 man/Detergent.Rd | 110 man/Donner.Rd | 240 - man/Draft1970.Rd | 136 man/Draft1970table.Rd | 182 - man/Dyke.Rd | 162 man/Fungicide.Rd | 122 man/GKgamma.Rd | 138 man/GSS.Rd | 86 man/Geissler.Rd | 142 man/Gilby.Rd | 112 man/Glass.Rd | 144 man/HLtest.Rd | 226 - man/HairEyePlace.Rd | 112 man/Hauser79.Rd | 314 - man/Heart.Rd | 78 man/Heckman.Rd | 148 man/HospVisits.Rd | 102 man/HouseTasks.Rd | 124 man/Hoyt.Rd | 230 - man/ICU.Rd | 226 - man/JobSat.Rd | 76 man/Kway.Rd | 218 - man/LRstats.Rd | 178 - man/Mammograms.Rd | 80 man/Mental.Rd | 106 man/Mice.Rd | 90 man/Mobility.Rd | 96 man/PhdPubs.Rd | 110 man/Reinis.Rd |only man/ShakeWords.Rd | 90 man/Summarise.Rd | 160 man/TV.Rd | 154 man/Titanicp.Rd | 104 man/Toxaemia.Rd | 138 man/Vietnam.Rd | 100 man/Vote1980.Rd | 94 man/WorkerSat.Rd | 76 man/Yamaguchi87.Rd | 214 - man/blogits.Rd | 148 man/collapse.table.Rd | 218 - man/color_table.Rd |only man/cutfac.Rd | 166 man/datasets.Rd | 156 man/expand.dft.Rd | 134 man/figures/logo-new.jpg |only man/figures/logo-old.png |only man/figures/logo.png |binary man/get_model.Rd |only man/glmlist.Rd | 272 - man/labeling_points.Rd |only man/logLik.loglm.Rd | 160 man/loglin-utilities.Rd | 241 - man/logseries.Rd | 200 - man/mcaplot.Rd | 200 - man/modFit.Rd | 104 man/mosaic.glm.Rd | 490 +- man/mosaic.glmlist.Rd | 332 - man/mosaic3d.Rd | 357 +- man/print.Kappa.Rd | 102 man/seq_loglm.Rd | 211 - man/seq_mosaic.Rd | 180 - man/split3d.Rd | 181 - man/update.xtabs.Rd | 94 man/vcdExtra-package.Rd | 240 - man/woolf_test.Rd | 2 man/zero.test.Rd | 148 tests/testthat.R | 24 tests/testthat/data/adcibc.csv | 464 +- tests/testthat/data/create_adcibc.R | 32 tests/testthat/test-CMHtest.R | 340 - vignettes/a1-creating.Rmd | 1552 ++++---- vignettes/a2-tests.Rmd | 796 ++-- vignettes/a3-loglinear.Rmd | 508 +- vignettes/a4-mosaics.Rmd | 878 ++--- vignettes/a5-demo-housing.Rmd | 742 ++-- vignettes/a6-mobility.Rmd | 804 ++-- vignettes/a7-continuous.Rmd | 440 +- vignettes/apa.csl | 1242 +++---- vignettes/datasets.Rmd | 288 - vignettes/tidyCats.Rmd | 21 vignettes/vcdExtra.bib | 4 vignettes/vignettes.bib | 90 144 files changed, 19048 insertions(+), 18614 deletions(-)
Title: Simulation of Study Data
Description: Simulates data sets in order to explore modeling
techniques or better understand data generating processes. The user
specifies a set of relationships between covariates, and generates
data based on these specifications. The final data sets can represent
data from randomized control trials, repeated measure (longitudinal)
designs, and cluster randomized trials. Missingness can be generated
using various mechanisms (MCAR, MAR, NMAR).
Author: Keith Goldfeld [aut, cre] ,
Jacob Wujciak-Jens [aut]
Maintainer: Keith Goldfeld <keith.goldfeld@nyulangone.org>
Diff between simstudy versions 0.9.1 dated 2025-12-16 and 0.9.2 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- inst/doc/clustered.html | 2 +- inst/doc/longitudinal.html | 2 +- tests/testthat/test-generate_correlated_data.R | 8 ++++++-- 5 files changed, 16 insertions(+), 12 deletions(-)
Title: Bayesian Estimation of Probit Unfolding Models for Binary
Preference Data
Description: Bayesian estimation and analysis methods for Probit Unfolding Models (PUMs), a novel class of scaling models designed for binary preference data. These models allow for both monotonic and non-monotonic response functions. The package supports Bayesian inference for both static and dynamic PUMs using Markov chain Monte Carlo (MCMC) algorithms with minimal or no tuning. Key functionalities include posterior sampling, hyperparameter selection, data preprocessing, model fit evaluation, and visualization. The methods are particularly suited to analyzing voting data, such as from the U.S. Congress or Supreme Court, but can also be applied in other contexts where non-monotonic responses are expected. For methodological details, see Shi et al. (2025) <doi:10.48550/arXiv.2504.00423>.
Author: Skylar Shi [aut, cre] ,
Abel Rodriguez [aut] ,
Rayleigh Lei [aut] ,
Jonathan Olmsted [cph]
Maintainer: Skylar Shi <dshi98@uw.edu>
This is a re-admission after prior archival of version 1.0.1 dated 2025-10-22
Diff between pumBayes versions 1.0.1 dated 2025-10-22 and 1.0.2 dated 2026-02-09
DESCRIPTION | 6 ++-- MD5 | 10 +++--- R/scotus.1937.2021.R | 1 README.md | 32 ++++++++++++++++++++- man/scotus.1937.2021.Rd | 1 src/three_utility_probit_helper_functions.cpp | 39 +++++++++++++------------- 6 files changed, 59 insertions(+), 30 deletions(-)
Title: Professional Comprehensive Omics Data Analysis
Description: Provides a comprehensive suite of tools for analyzing omics data. It includes
functionalities for alpha diversity analysis, beta diversity analysis, differential
abundance analysis, community assembly analysis, visualization of phylogenetic tree, and
functional enrichment analysis. With a progressive approach, the package offers a range of
analysis methods to explore and understand the complex communities. It is designed to
support researchers and practitioners in conducting in-depth and professional omics data
analysis.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <bfzede@gmail.com>
Diff between pctax versions 0.1.3 dated 2024-12-02 and 0.1.7 dated 2026-02-09
pctax-0.1.3/pctax/vignettes/pctax_cache/html/lib_edaa109a9155baa43419851f33b3cf81.rdb |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/lib_edaa109a9155baa43419851f33b3cf81.rdx |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/setup_8ae11416e5c5639c1c730c1286b53fc5.rdb |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/setup_8ae11416e5c5639c1c730c1286b53fc5.rdx |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_a4c6eae63fe4b35c079f4cfe25d48d88.rdb |only pctax-0.1.3/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_a4c6eae63fe4b35c079f4cfe25d48d88.rdx |only pctax-0.1.7/pctax/DESCRIPTION | 41 pctax-0.1.7/pctax/MD5 | 73 pctax-0.1.7/pctax/NAMESPACE | 23 pctax-0.1.7/pctax/NEWS.md | 29 pctax-0.1.7/pctax/R/Rtaxonkit.R | 14 pctax-0.1.7/pctax/R/b_analyse.R | 91 pctax-0.1.7/pctax/R/diff_analyse.R | 117 + pctax-0.1.7/pctax/R/other_software.R | 963 +++++++++- pctax-0.1.7/pctax/R/pctax-package.R | 4 pctax-0.1.7/pctax/R/phylogenetic.R | 226 ++ pctax-0.1.7/pctax/R/stats.R |only pctax-0.1.7/pctax/build/vignette.rds |binary pctax-0.1.7/pctax/inst/doc/pctax.R | 6 pctax-0.1.7/pctax/inst/doc/pctax.html | 3 pctax-0.1.7/pctax/man/ALDEX.Rd | 12 pctax-0.1.7/pctax/man/RDA_plot.Rd | 7 pctax-0.1.7/pctax/man/ann_tree.Rd | 4 pctax-0.1.7/pctax/man/batch_mediate.Rd |only pctax-0.1.7/pctax/man/df2tree.Rd | 4 pctax-0.1.7/pctax/man/df2tree1.Rd | 8 pctax-0.1.7/pctax/man/drop_tips_update.Rd |only pctax-0.1.7/pctax/man/load_mpa_df.Rd |only pctax-0.1.7/pctax/man/multi_bar.Rd | 2 pctax-0.1.7/pctax/man/multi_conf.Rd |only pctax-0.1.7/pctax/man/myRDA.Rd | 1 pctax-0.1.7/pctax/man/pctax-package.Rd | 2 pctax-0.1.7/pctax/man/permanova.Rd | 3 pctax-0.1.7/pctax/man/plot.b_res.Rd | 6 pctax-0.1.7/pctax/man/plot_checkm2_res.Rd |only pctax-0.1.7/pctax/man/plot_contigs_quality.Rd |only pctax-0.1.7/pctax/man/plot_gtdb_tr.Rd |only pctax-0.1.7/pctax/man/plot_one_phage.Rd |only pctax-0.1.7/pctax/man/pre_assembly_stats.Rd |only pctax-0.1.7/pctax/man/pre_format_report.Rd |only pctax-0.1.7/pctax/man/pre_genomad.Rd |only pctax-0.1.7/pctax/man/pre_gtdb_tk.Rd |only pctax-0.1.7/pctax/man/pre_tax_table.Rd | 5 pctax-0.1.7/pctax/man/print.virus_res.Rd |only pctax-0.1.7/pctax/man/stamp_plot.Rd |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/lib_7858f483600c014896211e60e0626680.rdb |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/lib_7858f483600c014896211e60e0626680.rdx |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/setup_35e25c351e84cb5efd95fe39f6eabc01.rdb |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/setup_35e25c351e84cb5efd95fe39f6eabc01.rdx |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_277d2e2f2b7b90d394584184e383ae77.rdb |only pctax-0.1.7/pctax/vignettes/pctax_cache/html/unnamed-chunk-2_277d2e2f2b7b90d394584184e383ae77.rdx |only 51 files changed, 1475 insertions(+), 169 deletions(-)
Title: Network Analysis for Omics Data
Description: Comprehensive network analysis package.
Calculate correlation network fastly, accelerate lots of analysis by parallel computing.
Support for multi-omics data, search sub-nets fluently.
Handle bigger data, more than 10,000 nodes in each omics.
Offer various layout method for multi-omics network and some interfaces to other software ('Gephi', 'Cytoscape', 'ggplot2'), easy to visualize.
Provide comprehensive topology indexes calculation, including ecological network stability.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <bfzede@gmail.com>
Diff between MetaNet versions 0.2.7 dated 2025-06-26 and 0.2.8 dated 2026-02-09
DESCRIPTION | 10 +++---- MD5 | 30 ++++++++++++---------- NAMESPACE | 1 R/1.calculate.R | 60 ++++++++++++++++++++++++++++++++++++++++++++- R/2-2.manipulate.R | 12 +++------ R/2-3.RMT.R | 15 ++++++++--- R/5.topological.R | 7 +++-- R/8.net_compare.R | 4 +-- R/MetaNet-package.R | 1 README.md | 55 ++++++++++------------------------------- build/vignette.rds |binary inst/doc/MetaNet.R | 6 ++-- inst/doc/MetaNet.html | 9 +++--- man/RMT_threshold.Rd | 3 ++ man/figures/MetaNet_GA.jpg |only man/net_par.Rd | 5 +++ man/plot_corr_heatmap.Rd |only 17 files changed, 133 insertions(+), 85 deletions(-)
Title: Grammar of Graphics and Plot Helpers for Time Series
Visualization
Description: Extends the capabilities of 'ggplot2' by providing grammatical
elements and plot helpers designed for visualizing temporal patterns. The
package implements a grammar of temporal graphics, which leverages calendar
structures to highlight changes over time. The package also provides plot
helper functions to quickly produce commonly used time series graphics,
including time plots, season plots, and seasonal sub-series plots.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Cynthia A. Huang [aut] ,
Matthew Kay [aut] ,
Rob Hyndman [aut] ,
Earo Wang [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between ggtime versions 0.1.0 dated 2025-06-10 and 0.2.0 dated 2026-02-09
ggtime-0.1.0/ggtime/R/cal_wrap.R |only ggtime-0.1.0/ggtime/R/coord-calendar.R |only ggtime-0.1.0/ggtime/R/seq-gen.R |only ggtime-0.1.0/ggtime/tests/testthat/Rplots.pdf |only ggtime-0.2.0/ggtime/DESCRIPTION | 28 ggtime-0.2.0/ggtime/MD5 | 51 ggtime-0.2.0/ggtime/NAMESPACE | 15 ggtime-0.2.0/ggtime/NEWS.md | 15 ggtime-0.2.0/ggtime/R/ggplot-dep.R |only ggtime-0.2.0/ggtime/R/ggtime-package.R | 3 ggtime-0.2.0/ggtime/R/plot-dable.R | 147 +- ggtime-0.2.0/ggtime/R/plot-fable.R |only ggtime-0.2.0/ggtime/R/plot-helpers.R | 706 +++++++---- ggtime-0.2.0/ggtime/R/plot-tsibble.R | 92 - ggtime-0.2.0/ggtime/R/utils.R | 202 ++- ggtime-0.2.0/ggtime/README.md | 55 ggtime-0.2.0/ggtime/man/autoplot.dcmp_ts.Rd | 1 ggtime-0.2.0/ggtime/man/autoplot.fbl_ts.Rd |only ggtime-0.2.0/ggtime/man/autoplot.tbl_cf.Rd |only ggtime-0.2.0/ggtime/man/autoplot.tbl_ts.Rd | 7 ggtime-0.2.0/ggtime/man/figures/README-seasonplot-1.png |binary ggtime-0.2.0/ggtime/man/figures/README-timeplot-1.png |binary ggtime-0.2.0/ggtime/man/figures/README-unnamed-chunk-2-1.png |only ggtime-0.2.0/ggtime/man/figures/logo.svg |only ggtime-0.2.0/ggtime/man/ggtime-package.Rd | 14 ggtime-0.2.0/ggtime/man/scale_cf_lag.Rd |only ggtime-0.2.0/ggtime/tests/testthat/_snaps |only ggtime-0.2.0/ggtime/tests/testthat/helper-vdiffr.R |only ggtime-0.2.0/ggtime/tests/testthat/test-plot-helpers.R | 41 29 files changed, 982 insertions(+), 395 deletions(-)
Title: Probabilities for Pedigrees Given DNA Data
Description: An interface to the core 'Familias' functions which are
programmed in C++. The implementation is described in Egeland, Mostad and Olaisen
(1997) <doi:10.1016/S1355-0306(97)72202-0> and Simonsson and Mostad
(2016) <doi:10.1016/j.fsigen.2016.04.005>.
Author: Petter Mostad [aut],
Thore Egeland [aut],
Franco Marsico [aut, cre],
Ivar Simonsson [aut]
Maintainer: Franco Marsico <franco.lmarsico@gmail.com>
Diff between Familias versions 2.6.3 dated 2025-05-12 and 2.6.4 dated 2026-02-09
DESCRIPTION | 17 MD5 | 36 - NAMESPACE | 20 NEWS.md | 18 R/FamiliasLocus.R | 1246 +++++++++++++++++++++---------------------- R/FamiliasPedigree.R | 62 +- R/FamiliasPosterior.R | 506 ++++++++--------- R/FamiliasPrior.R | 272 ++++----- R/plot.FamiliasPedigree.R | 64 +- README.md | 66 +- man/Familias-package.Rd | 148 ++--- man/FamiliasLocus.Rd | 382 ++++++------- man/FamiliasPedigree.Rd | 162 ++--- man/FamiliasPosterior.Rd | 458 +++++++-------- man/FamiliasPrior.Rd | 176 +++--- man/NorwegianFrequencies.Rd | 78 +- man/plot.FamiliasPedigree.Rd | 102 +-- src/GroupOfPersons.cpp | 23 src/table.cpp | 20 19 files changed, 1936 insertions(+), 1920 deletions(-)
Title: Panel Generalized Linear Models
Description: Estimation of panel models for glm-like models:
this includes binomial models (logit and probit), count models (poisson and negbin)
and ordered models (logit and probit), as described in:
Baltagi (2013) Econometric Analysis of Panel Data, ISBN-13:978-1-118-67232-7,
Hsiao (2014) Analysis of Panel Data <doi:10.1017/CBO9781139839327> and
Croissant and Millo (2018), Panel Data Econometrics with R, ISBN:978-1-118-94918-4.
Author: Yves Croissant [aut, cre]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>
Diff between pglm versions 0.2-3 dated 2021-07-19 and 0.2-4 dated 2026-02-09
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ data/Fairness.rda |binary data/HealthIns.rda |binary data/PatentsRD.rda |binary data/PatentsRDUS.rda |binary data/UnionWage.rda |binary man/HealthIns.Rd | 2 +- man/PatentsRD.Rd | 4 ++-- man/PatentsRDUS.Rd | 4 ++-- 11 files changed, 23 insertions(+), 19 deletions(-)
Title: Unconstrained Numerical Optimization Algorithms
Description: Optimization algorithms implemented in R, including
conjugate gradient (CG), Broyden-Fletcher-Goldfarb-Shanno (BFGS) and the
limited memory BFGS (L-BFGS) methods. Most internal parameters can be set
through the call interface. The solvers hold up quite well for
higher-dimensional problems.
Author: James Melville [aut, cre]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between mize versions 0.2.4 dated 2020-08-30 and 0.2.5 dated 2026-02-09
DESCRIPTION | 9 MD5 | 24 NEWS.md | 9 R/rasmussen.R | 6 build/vignette.rds |binary inst/doc/convergence.html | 547 +++++++++------- inst/doc/mize.Rmd | 8 inst/doc/mize.html | 1225 ++++++++++++++++++++++++------------ inst/doc/mmds.html | 503 ++++++++------ inst/doc/stateful.html | 694 ++++++++++++-------- tests/testthat/test_minfunc_wolfe.R | 14 tests/testthat/test_rasmussen_cg.R | 4 vignettes/mize.Rmd | 8 13 files changed, 1911 insertions(+), 1140 deletions(-)
Title: Lightweight Toolkit for Messaging, Concurrency and the Web
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ.
A toolkit for messaging, concurrency and the web. High-performance
socket messaging over in-process, IPC, TCP, WebSocket and secure TLS
transports implements 'Scalability Protocols', a standard for common
communications patterns including publish/subscribe, request/reply and
survey. A threaded concurrency framework with intuitive 'aio' objects
that resolve automatically upon completion of asynchronous operations,
and synchronisation primitives that allow R to wait on events
signalled by concurrent threads. A unified HTTP server hosting REST
endpoints, WebSocket connections and streaming on a single port, with
a built-in HTTP client.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph],
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between nanonext versions 1.7.2 dated 2025-11-03 and 1.8.0 dated 2026-02-09
nanonext-1.7.2/nanonext/inst/CITATION |only nanonext-1.7.2/nanonext/src/mbedtls-362.tar.xz |only nanonext-1.7.2/nanonext/src/nng-111.tar.xz |only nanonext-1.8.0/nanonext/DESCRIPTION | 30 nanonext-1.8.0/nanonext/MD5 | 484 ++++++++ nanonext-1.8.0/nanonext/NAMESPACE | 17 nanonext-1.8.0/nanonext/NEWS.md | 24 nanonext-1.8.0/nanonext/R/aio.R | 17 nanonext-1.8.0/nanonext/R/context.R | 1 nanonext-1.8.0/nanonext/R/dispatcher.R |only nanonext-1.8.0/nanonext/R/ncurl.R | 84 - nanonext-1.8.0/nanonext/R/server.R |only nanonext-1.8.0/nanonext/R/tls.R | 23 nanonext-1.8.0/nanonext/README.md | 289 +---- nanonext-1.8.0/nanonext/build/vignette.rds |binary nanonext-1.8.0/nanonext/cleanup | 2 nanonext-1.8.0/nanonext/cleanup.win | 2 nanonext-1.8.0/nanonext/configure | 241 +--- nanonext-1.8.0/nanonext/configure.ucrt | 22 nanonext-1.8.0/nanonext/configure.win | 30 nanonext-1.8.0/nanonext/inst/doc/nanonext.Rmd | 820 ++++---------- nanonext-1.8.0/nanonext/inst/doc/nanonext.html | 881 +++++++--------- nanonext-1.8.0/nanonext/inst/doc/v01-messaging.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v01-messaging.html |only nanonext-1.8.0/nanonext/inst/doc/v02-protocols.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v02-protocols.html |only nanonext-1.8.0/nanonext/inst/doc/v03-configuration.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v03-configuration.html |only nanonext-1.8.0/nanonext/inst/doc/v04-web.Rmd |only nanonext-1.8.0/nanonext/inst/doc/v04-web.html |only nanonext-1.8.0/nanonext/man/close.Rd | 7 nanonext-1.8.0/nanonext/man/dot-context.Rd | 1 nanonext-1.8.0/nanonext/man/dot-dispatcher.Rd |only nanonext-1.8.0/nanonext/man/format_sse.Rd |only nanonext-1.8.0/nanonext/man/handler.Rd |only nanonext-1.8.0/nanonext/man/handler_directory.Rd |only nanonext-1.8.0/nanonext/man/handler_file.Rd |only nanonext-1.8.0/nanonext/man/handler_inline.Rd |only nanonext-1.8.0/nanonext/man/handler_redirect.Rd |only nanonext-1.8.0/nanonext/man/handler_stream.Rd |only nanonext-1.8.0/nanonext/man/handler_ws.Rd |only nanonext-1.8.0/nanonext/man/http_server.Rd |only nanonext-1.8.0/nanonext/man/ncurl.Rd | 35 nanonext-1.8.0/nanonext/man/ncurl_aio.Rd | 30 nanonext-1.8.0/nanonext/man/ncurl_session.Rd | 30 nanonext-1.8.0/nanonext/man/race_aio.Rd |only nanonext-1.8.0/nanonext/man/tls_config.Rd | 26 nanonext-1.8.0/nanonext/src/Makevars.in | 19 nanonext-1.8.0/nanonext/src/Makevars.ucrt | 19 nanonext-1.8.0/nanonext/src/Makevars.win | 19 nanonext-1.8.0/nanonext/src/aio.c | 208 ++- nanonext-1.8.0/nanonext/src/comms.c | 121 +- nanonext-1.8.0/nanonext/src/core.c | 38 nanonext-1.8.0/nanonext/src/dispatcher.c |only nanonext-1.8.0/nanonext/src/init.c | 16 nanonext-1.8.0/nanonext/src/mbedtls |only nanonext-1.8.0/nanonext/src/nanonext.h | 143 ++ nanonext-1.8.0/nanonext/src/ncurl.c | 128 +- nanonext-1.8.0/nanonext/src/nng |only nanonext-1.8.0/nanonext/src/nng_structs.h |only nanonext-1.8.0/nanonext/src/proto.c | 10 nanonext-1.8.0/nanonext/src/server.c |only nanonext-1.8.0/nanonext/src/sync.c | 6 nanonext-1.8.0/nanonext/src/thread.c | 4 nanonext-1.8.0/nanonext/src/tls.c | 14 nanonext-1.8.0/nanonext/src/utils.c | 6 nanonext-1.8.0/nanonext/tests/tests.R | 722 ++++++++++++- nanonext-1.8.0/nanonext/vignettes/nanonext.Rmd | 820 ++++---------- nanonext-1.8.0/nanonext/vignettes/v01-messaging.Rmd |only nanonext-1.8.0/nanonext/vignettes/v02-protocols.Rmd |only nanonext-1.8.0/nanonext/vignettes/v03-configuration.Rmd |only nanonext-1.8.0/nanonext/vignettes/v04-web.Rmd |only 72 files changed, 3151 insertions(+), 2238 deletions(-)
Title: Trellis Graphics for R
Description: A powerful and elegant high-level data visualization
system inspired by Trellis graphics, with an emphasis on
multivariate data. Lattice is sufficient for typical graphics needs,
and is also flexible enough to handle most nonstandard requirements.
See ?Lattice for an introduction.
Author: Deepayan Sarkar [aut, cre] ,
Felix Andrews [ctb],
Kevin Wright [ctb] ,
Neil Klepeis [ctb],
Johan Larsson [ctb] ,
Zhijian Wen [cph] ,
Paul Murrell [ctb],
Stefan Eng [ctb] ,
Achim Zeileis [ctb] ,
Alexandre Courtiol [ctb]
Maintainer: Deepayan Sarkar <deepayan.sarkar@r-project.org>
Diff between lattice versions 0.22-7 dated 2025-04-02 and 0.22-9 dated 2026-02-09
ChangeLog | 26 ++++ DESCRIPTION | 11 + MD5 | 165 +++++++++++++++-------------- R/axis.R | 171 ------------------------------- R/panels.R | 4 R/splom.R | 3 inst/doc/grid.pdf |binary inst/po/de/LC_MESSAGES/R-lattice.mo |binary inst/po/en@quot/LC_MESSAGES/R-lattice.mo |binary inst/po/fr/LC_MESSAGES/R-lattice.mo |binary inst/po/pl/LC_MESSAGES/R-lattice.mo |binary man/Lattice.Rd | 2 man/Rows.Rd | 2 man/USMortality.Rd | 2 man/axis.default.Rd | 2 man/banking.Rd | 2 man/barchart.table.Rd | 2 man/barley.Rd | 2 man/cloud.Rd | 2 man/draw.colorkey.Rd | 2 man/draw.key.Rd | 2 man/environmental.Rd | 2 man/ethanol.Rd | 2 man/figures |only man/histogram.Rd | 2 man/interaction.Rd | 2 man/lattice.options.Rd | 2 man/latticeParseFormula.Rd | 2 man/level.colors.Rd | 2 man/levelplot.Rd | 2 man/llines.Rd | 2 man/lset.Rd | 2 man/make.groups.Rd | 2 man/melanoma.Rd | 4 man/oneway.Rd | 2 man/packet.panel.default.Rd | 2 man/panel.axis.Rd | 2 man/panel.barchart.Rd | 2 man/panel.bwplot.Rd | 2 man/panel.cloud.Rd | 2 man/panel.densityplot.Rd | 2 man/panel.dotplot.Rd | 2 man/panel.functions.Rd | 2 man/panel.histogram.Rd | 2 man/panel.levelplot.Rd | 2 man/panel.loess.Rd | 2 man/panel.number.Rd | 2 man/panel.pairs.Rd | 2 man/panel.parallel.Rd | 2 man/panel.qqmath.Rd | 2 man/panel.qqmathline.Rd | 2 man/panel.smoothScatter.Rd | 2 man/panel.spline.Rd | 2 man/panel.stripplot.Rd | 2 man/panel.superpose.Rd | 2 man/panel.violin.Rd | 2 man/panel.xyplot.Rd | 2 man/prepanel.default.Rd | 2 man/prepanel.functions.Rd | 2 man/print.trellis.Rd | 2 man/qq.Rd | 2 man/qqmath.Rd | 2 man/rfs.Rd | 2 man/shingles.Rd | 2 man/simpleKey.Rd | 2 man/simpleTheme.Rd | 2 man/singer.Rd | 2 man/splom.Rd | 2 man/standard.theme.Rd | 2 man/strip.default.Rd | 2 man/tmd.Rd | 2 man/trellis.device.Rd | 2 man/trellis.object.Rd | 2 man/trellis.par.get.Rd | 2 man/update.trellis.Rd | 2 man/utilities.3d.Rd | 2 man/xyplot.Rd | 2 man/xyplot.ts.Rd | 2 po/R-de.po | 8 - po/R-fr.po | 8 - po/R-it.po | 5 po/R-ko.po | 5 po/R-lattice.pot | 7 - po/R-pl.po | 12 +- 84 files changed, 207 insertions(+), 352 deletions(-)
Title: Instrumental-Variables Regression by '2SLS', '2SM', or '2SMM',
with Diagnostics
Description: Instrumental variable estimation for linear models by two-stage least-squares (2SLS) regression or by robust-regression via M-estimation (2SM) or MM-estimation (2SMM). The main ivreg() model-fitting function is designed to provide a workflow as similar as possible to standard lm() regression. A wide range of methods is provided for fitted ivreg model objects, including extensive functionality for computing and graphing regression diagnostics in addition to other standard model tools.
Author: John Fox [aut] ,
Christian Kleiber [aut] ,
Achim Zeileis [aut, cre] ,
Nikolas Kuschnig [ctb] ,
R Core Team [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between ivreg versions 0.6-5 dated 2025-01-19 and 0.6-6 dated 2026-02-09
DESCRIPTION | 18 - MD5 | 37 +- NAMESPACE | 1 NEWS.md | 29 ++ R/ivreg.R | 12 R/ivreg.fit.R | 61 ++-- R/ivregDiagnostics.R | 3 R/ivregMethods.R | 14 - R/summary.ivreg.R | 10 build/vignette.rds |binary inst/doc/Diagnostics-for-2SLS-Regression.html | 49 +-- inst/doc/ivreg.R | 8 inst/doc/ivreg.html | 342 ++++++++++---------------- man/ivreg.Rd | 12 man/ivreg.fit.Rd | 2 man/ivregDiagnostics.Rd | 2 man/ivregMethods.Rd | 8 tests/testthat/test-alias.R |only tests/testthat/test-case-deletion.R | 13 tests/testthat/test-stage1.R | 4 20 files changed, 316 insertions(+), 309 deletions(-)
Title: Analysis of Spatial Stratified Heterogeneity
Description: Detecting spatial associations via spatial stratified heterogeneity, accounting for spatial dependencies, interpretability, complex interactions, and robust stratification. In addition, it supports the spatial stratified heterogeneity family described in Lv et al. (2025)<doi:10.1111/tgis.70032>.
Author: Wenbo Lv [aut, cre, cph] ,
Yangyang Lei [aut] ,
Fangmei Liu [aut] ,
Jianwu Yan [aut] ,
Yongze Song [aut] ,
Wufan Zhao [aut]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between gdverse versions 1.5.1 dated 2025-10-15 and 1.6 dated 2026-02-09
DESCRIPTION | 8 MD5 | 302 ++-- NAMESPACE | 158 +- NEWS.md | 20 R/data.R | 90 - R/gd.R | 176 +- R/gd_optunidisc.R | 172 +- R/gdverse-package.R | 8 R/geodetector.R | 1190 +++++++++--------- R/globals.R | 30 R/gozh.R | 463 +++---- R/idsa.R | 386 +++--- R/lesh.R | 378 ++--- R/loess_optscale.R | 78 - R/opgd.R | 264 ++-- R/pid_idsa.R | 426 +++--- R/psd_pseudop.R | 286 ++-- R/psd_spade.R | 402 +++--- R/r_interact_py.R | 14 R/rgd.R | 292 ++-- R/rid.R | 168 +- R/robustdisc.R | 92 - R/rpartdisc.R | 62 R/sesu_gozh.R | 378 ++--- R/sesu_opgd.R | 374 ++--- R/spade.R | 320 ++--- R/spd_lesh.R | 228 +-- R/srs_geodetecor.R | 742 +++++------ R/srsgd.R | 192 +-- R/utils.R | 182 +- R/zzz.R | 21 README.md | 4 build/vignette.rds |binary inst/CITATION | 25 inst/doc/gd.Rmd | 862 ++++++------- inst/doc/idsa.Rmd | 2 inst/doc/idsa.html | 2 inst/doc/opgd.Rmd | 432 +++--- inst/doc/opgd.html | 4 inst/doc/rgdrid.Rmd | 166 +- inst/doc/rgdrid.html | 12 inst/doc/sesu.Rmd | 1278 ++++++++++---------- inst/doc/sesu.html | 2 inst/doc/shegd.Rmd | 394 +++--- inst/doc/shegd.html | 42 inst/extdata/Depression.csv | 2146 +++++++++++++++++----------------- inst/python/cpd_disc.py | 106 - man/F_informationloss.Rd | 60 man/NTDs.Rd | 34 man/all2int.Rd | 44 man/cpsd_disc.Rd | 150 +- man/cpsd_spade.Rd | 88 - man/ecological_detector.Rd | 74 - man/factor_detector.Rd | 76 - man/figures/opgd/opgd_plot-1.png |binary man/figures/rgdrid/rgd_id-1.png |binary man/figures/rgdrid/rid_plot-1.png |binary man/gd.Rd | 92 - man/gd_optunidisc.Rd | 112 - man/gen_permutations.Rd | 46 man/geodetector.Rd | 122 - man/gozh.Rd | 102 - man/gozh_detector.Rd | 108 - man/idsa.Rd | 176 +- man/interaction_detector.Rd | 79 - man/lesh.Rd | 96 - man/loess_optscale.Rd | 94 - man/ndvi.Rd | 40 man/opgd.Rd | 144 +- man/pid_idsa.Rd | 74 - man/pipe.Rd | 30 man/plot.ecological_detector.Rd | 44 man/plot.factor_detector.Rd | 62 man/plot.gd_result.Rd | 44 man/plot.gozh_result.Rd | 44 man/plot.idsa_result.Rd | 44 man/plot.interaction_detector.Rd | 48 man/plot.lesh_result.Rd | 100 - man/plot.opgd_result.Rd | 44 man/plot.rgd_result.Rd | 58 man/plot.rid_result.Rd | 48 man/plot.risk_detector.Rd | 44 man/plot.sesu_gozh.Rd | 44 man/plot.sesu_opgd.Rd | 44 man/plot.spade_result.Rd | 60 man/plot.srs_ecological_detector.Rd | 44 man/plot.srs_factor_detector.Rd | 48 man/plot.srs_interaction_detector.Rd | 48 man/plot.srsgd_result.Rd | 44 man/print.ecological_detector.Rd | 44 man/print.factor_detector.Rd | 44 man/print.gd_result.Rd | 44 man/print.gozh_result.Rd | 44 man/print.idsa_result.Rd | 44 man/print.interaction_detector.Rd | 44 man/print.lesh_result.Rd | 44 man/print.opgd_result.Rd | 44 man/print.rgd_result.Rd | 44 man/print.rid_result.Rd | 44 man/print.risk_detector.Rd | 44 man/print.sesu_gozh.Rd | 44 man/print.sesu_opgd.Rd | 44 man/print.spade_result.Rd | 46 man/print.srs_ecological_detector.Rd | 44 man/print.srs_factor_detector.Rd | 44 man/print.srs_interaction_detector.Rd | 44 man/print.srsgd_result.Rd | 44 man/psd_iev.Rd | 80 - man/psd_pseudop.Rd | 92 - man/psd_spade.Rd | 80 - man/psmd_pseudop.Rd | 128 +- man/psmd_spade.Rd | 122 - man/rgd.Rd | 140 +- man/rid.Rd | 136 +- man/risk_detector.Rd | 58 man/robust_disc.Rd | 82 - man/rpart_disc.Rd | 72 - man/sesu_gozh.Rd | 178 +- man/sesu_opgd.Rd | 180 +- man/sim.Rd | 40 man/spade.Rd | 142 +- man/spd_lesh.Rd | 102 - man/srs_ecological_detector.Rd | 88 - man/srs_factor_detector.Rd | 78 - man/srs_geodetector.Rd | 92 - man/srs_interaction_detector.Rd | 92 - man/srs_table.Rd | 34 man/srs_wt.Rd | 34 man/srsgd.Rd | 112 - man/weight_assign.Rd | 52 src/RcppExports.cpp | 27 src/roughset.cpp | 117 - tests/testthat.R | 24 tests/testthat/test-data_type.R | 16 tests/testthat/test-geodetector.R | 14 tests/testthat/test-multicores.R | 18 tests/testthat/test-psd_spade.R | 12 tests/testthat/test-srs_geodetecor.R | 18 vignettes/consistency.Rmd.orig | 76 - vignettes/gd.Rmd | 862 ++++++------- vignettes/gd.Rmd.orig | 414 +++--- vignettes/idsa.Rmd | 2 vignettes/idsa.Rmd.orig | 108 - vignettes/opgd.Rmd | 432 +++--- vignettes/opgd.Rmd.orig | 162 +- vignettes/rgdrid.Rmd | 166 +- vignettes/rgdrid.Rmd.orig | 102 - vignettes/sesu.Rmd | 1278 ++++++++++---------- vignettes/sesu.Rmd.orig | 156 +- vignettes/shegd.Rmd | 394 +++--- vignettes/shegd.Rmd.orig | 192 +-- vignettes/spade.Rmd.orig | 218 +-- 152 files changed, 11999 insertions(+), 11949 deletions(-)
Title: Font Metrics and Font Management Utilities for R Graphics
Description: Compute text metrics (width, ascent, descent) using 'Cairo'
and 'FreeType', independently of the active graphic device. Font
lookup is delegated to 'systemfonts'. Additional utilities let users
register 'Google Fonts' or bundled 'Liberation' fonts, check font
availability, and assemble 'htmlDependency' objects so that fonts are
correctly embedded in 'Shiny' applications, 'R Markdown' documents,
and 'htmlwidgets' outputs such as 'ggiraph'.
Author: David Gohel [aut, cre],
Hadley Wickham [aut],
Lionel Henry [aut],
Jeroen Ooms [aut] ,
Yixuan Qiu [ctb],
R Core Team [cph] ,
ArData [cph],
RStudio [cph]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between gdtools versions 0.4.4 dated 2025-10-06 and 0.5.0 dated 2026-02-09
gdtools-0.4.4/gdtools/inst/include |only gdtools-0.4.4/gdtools/man/str_extents.Rd |only gdtools-0.4.4/gdtools/src/gdtools.cpp |only gdtools-0.4.4/gdtools/tests/testthat/test-str_extents.R |only gdtools-0.5.0/gdtools/DESCRIPTION | 22 - gdtools-0.5.0/gdtools/MD5 | 93 +++--- gdtools-0.5.0/gdtools/NAMESPACE | 8 gdtools-0.5.0/gdtools/NEWS.md | 31 ++ gdtools-0.5.0/gdtools/R/RcppExports.R | 20 - gdtools-0.5.0/gdtools/R/font-caching.R | 38 +- gdtools-0.5.0/gdtools/R/font_family_exists.R | 34 +- gdtools-0.5.0/gdtools/R/font_set.R |only gdtools-0.5.0/gdtools/R/fontconfig.R | 13 gdtools-0.5.0/gdtools/R/fonts.R | 44 ++- gdtools-0.5.0/gdtools/R/gdtools.R | 11 gdtools-0.5.0/gdtools/R/liberation.R | 85 ++++- gdtools-0.5.0/gdtools/R/str-metrics.R | 159 ++++++----- gdtools-0.5.0/gdtools/R/sysdata.rda |binary gdtools-0.5.0/gdtools/README.md | 185 +++++++++---- gdtools-0.5.0/gdtools/man/addGFontHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/dummy_setup.Rd | 9 gdtools-0.5.0/gdtools/man/font_family_exists.Rd | 12 gdtools-0.5.0/gdtools/man/font_google.Rd |only gdtools-0.5.0/gdtools/man/font_liberation.Rd |only gdtools-0.5.0/gdtools/man/font_set.Rd |only gdtools-0.5.0/gdtools/man/font_set_auto.Rd |only gdtools-0.5.0/gdtools/man/font_set_liberation.Rd |only gdtools-0.5.0/gdtools/man/fonts_cache_dir.Rd | 2 gdtools-0.5.0/gdtools/man/liberationmonoHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/liberationsansHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/liberationserifHtmlDependency.Rd | 2 gdtools-0.5.0/gdtools/man/m_str_extents.Rd | 23 + gdtools-0.5.0/gdtools/man/match_family.Rd | 5 gdtools-0.5.0/gdtools/man/register_gfont.Rd | 2 gdtools-0.5.0/gdtools/man/register_liberationmono.Rd | 14 gdtools-0.5.0/gdtools/man/register_liberationsans.Rd | 14 gdtools-0.5.0/gdtools/man/register_liberationserif.Rd | 14 gdtools-0.5.0/gdtools/man/str_metrics.Rd | 26 + gdtools-0.5.0/gdtools/man/strings_sizes.Rd | 22 + gdtools-0.5.0/gdtools/man/sys_fonts.Rd | 7 gdtools-0.5.0/gdtools/man/version_cairo.Rd | 12 gdtools-0.5.0/gdtools/src/CairoContext.cpp | 37 -- gdtools-0.5.0/gdtools/src/Makevars.in | 2 gdtools-0.5.0/gdtools/src/Makevars.win | 4 gdtools-0.5.0/gdtools/src/RcppExports.cpp | 162 ----------- gdtools-0.5.0/gdtools/src/font_metrics.cpp | 62 ++-- gdtools-0.5.0/gdtools/src/gdtools_types.h |only gdtools-0.5.0/gdtools/tests/testthat/helper-fontconfig.R | 8 gdtools-0.5.0/gdtools/tests/testthat/test-font-set.R |only gdtools-0.5.0/gdtools/tests/testthat/test-fonts.R | 33 ++ gdtools-0.5.0/gdtools/tests/testthat/test-str_metrics.R | 54 +++ gdtools-0.5.0/gdtools/tests/testthat/test-utils.R | 13 52 files changed, 772 insertions(+), 516 deletions(-)
Title: Evidence Accumulation Models
Description: Simulation-based evidence accumulation models for analyzing responses
and reaction times in single- and multi-response tasks. The package includes
simulation engines for five representative models: the Diffusion Decision
Model (DDM), Leaky Competing Accumulator (LCA), Linear Ballistic Accumulator
(LBA), Racing Diffusion Model (RDM), and Levy Flight Model (LFM), and
extends these frameworks to multi-response settings. The package supports
user-defined functions for item-level parameterization and the incorporation
of covariates, enabling flexible customization and the development of new
model variants based on existing architectures. Inference is performed using
simulation-based methods, including Approximate Bayesian Computation (ABC)
and Amortized Bayesian Inference (ABI), which allow parameter estimation
without requiring tractable likelihood functions. In addition to core
inference tools, the package provides modules for parameter recovery,
posterior predictive checks, and model com [...truncated...]
Author: Guangyu Zhu [aut] ,
Guang Yang [aut, cre]
Maintainer: Guang Yang <guang.spike.yang@gmail.com>
Diff between eam versions 1.0.1 dated 2026-01-17 and 1.1.0 dated 2026-02-09
eam-1.0.1/eam/README.md |only eam-1.1.0/eam/DESCRIPTION | 10 ++-- eam-1.1.0/eam/MD5 | 22 ++++++---- eam-1.1.0/eam/NAMESPACE | 1 eam-1.1.0/eam/NEWS.md |only eam-1.1.0/eam/R/abi_input.R |only eam-1.1.0/eam/R/plot_posterior_parameters.R | 54 ++++++++++++++++++------- eam-1.1.0/eam/R/plot_rt.R | 16 +++++-- eam-1.1.0/eam/R/simulation.R | 8 ++- eam-1.1.0/eam/R/summarise_by.R | 5 +- eam-1.1.0/eam/man/build_abi_input.Rd |only eam-1.1.0/eam/man/build_abi_input.Z.Rd |only eam-1.1.0/eam/man/build_abi_input.theta.Rd |only eam-1.1.0/eam/man/plot_posterior_parameters.Rd | 11 ++++- eam-1.1.0/eam/man/plot_rt.Rd | 6 ++ 15 files changed, 94 insertions(+), 39 deletions(-)