Title: Hierarchical Partitioning of R2 for Phylogenetic Linear
Regression
Description: Conducts hierarchical partitioning to calculate individual contributions of phylogenetic tree and predictors (groups) towards total R2 for phylogenetic linear regression models.
Author: Jiangshan Lai [aut, cre] ,
Gang Wang [aut]
Maintainer: Jiangshan Lai <lai@njfu.edu.cn>
Diff between phylolm.hp versions 0.0-3 dated 2024-12-05 and 0.0-4 dated 2025-11-25
DESCRIPTION | 11 ++++++----- MD5 | 14 +++++++------- R/phyloglmhp.r | 5 +++-- R/phylolmhp.r | 2 +- R/zzz.R | 2 +- inst/CITATION | 20 ++++++++++---------- man/phyloglm.hp.Rd | 3 ++- man/phylolm.hp.Rd | 2 +- 8 files changed, 31 insertions(+), 28 deletions(-)
Title: Outlier Detection and Influence Diagnostics for Meta-Analysis
Description: Computational tools for outlier detection and influence diagnostics in meta-analysis (Noma et al. (2025) <doi:10.1101/2025.09.18.25336125>). Bootstrap distributions of influence statistics are computed, and explicit thresholds for identifying outliers are provided. These methods can also be applied to the analysis of influential centers or regions in multicenter or multiregional clinical trials (Aoki and Noma (2021) <doi:10.1080/24709360.2021.1921944>, Nakamura and Noma (2021) <doi:10.5691/jjb.41.117>).
Author: Hisashi Noma [aut, cre],
Kazushi Maruo [aut],
Masahiko Gosho [aut]
Maintainer: Hisashi Noma <noma@ism.ac.jp>
Diff between boutliers versions 2.1-1 dated 2025-09-20 and 2.1-2 dated 2025-11-25
boutliers-2.1-1/boutliers/README.md |only boutliers-2.1-2/boutliers/DESCRIPTION | 8 ++--- boutliers-2.1-2/boutliers/MD5 | 11 +++---- boutliers-2.1-2/boutliers/NEWS.md | 4 ++ boutliers-2.1-2/boutliers/R/LRT.r | 50 ++++++++++++++++++++++++++++----- boutliers-2.1-2/boutliers/R/STR.r | 41 +++++++++++++++++++++++++-- boutliers-2.1-2/boutliers/R/VRATIO.r | 51 ++++++++++++++++++++++++++++++---- 7 files changed, 139 insertions(+), 26 deletions(-)
Title: Computes Adaptable Radial Axes Mappings
Description: Computes low-dimensional point representations of high-dimensional numerical data according to the data visualization method Adaptable Radial Axes described in: Manuel Rubio-Sánchez, Alberto Sanchez, and Dirk J. Lehmann (2017) "Adaptable radial axes plots for improved multivariate data visualization" <doi:10.1111/cgf.13196>.
Author: Manuel Rubio-Sanchez [aut, cre, cph] ,
Dirk J. Lehmann [ctb] ,
Miguel Angel Munoz Mohedano [ctb] ,
Alberto Sanchez Campos [ctb] ,
Cristina Soguero-Ruiz [ctb]
Maintainer: Manuel Rubio-Sanchez <manuel.rubio@urjc.es>
Diff between aramappings versions 0.1.1 dated 2025-11-19 and 0.1.2 dated 2025-11-25
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 5 README.md | 14 - inst/doc/intro_to_aramappings.R | 11 + inst/doc/intro_to_aramappings.Rmd | 12 - inst/doc/intro_to_aramappings.html | 326 ++++++++++++++++++------------------- vignettes/intro_to_aramappings.Rmd | 12 - 8 files changed, 205 insertions(+), 195 deletions(-)
Title: Synthesise and Correlate Likert Scale and Rating-Scale Data
Based on Summary Statistics
Description: Generate and correlate synthetic Likert and rating-scale data
with predefined means, standard deviations, Cronbach's Alpha, Factor
Loading table, coefficients, and other summary statistics.
Worked examples and documentation are available in the package
articles, accessible via the package website,
<https://winzarh.github.io/LikertMakeR/>.
Author: Hume Winzar [cre, aut]
Maintainer: Hume Winzar <winzar@gmail.com>
Diff between LikertMakeR versions 1.2.0 dated 2025-10-09 and 1.3.0 dated 2025-11-25
LikertMakeR-1.2.0/LikertMakeR/tests/testthat/test_makeRepeated.R |only LikertMakeR-1.3.0/LikertMakeR/DESCRIPTION | 12 LikertMakeR-1.3.0/LikertMakeR/MD5 | 49 LikertMakeR-1.3.0/LikertMakeR/NAMESPACE | 8 LikertMakeR-1.3.0/LikertMakeR/NEWS.md | 53 LikertMakeR-1.3.0/LikertMakeR/R/correlateScales.R | 480 - LikertMakeR-1.3.0/LikertMakeR/R/lcor.R | 139 LikertMakeR-1.3.0/LikertMakeR/R/lfast.R | 260 LikertMakeR-1.3.0/LikertMakeR/R/makeCorrAlpha.R | 623 - LikertMakeR-1.3.0/LikertMakeR/R/makeItems.R | 8 LikertMakeR-1.3.0/LikertMakeR/R/makeItemsScale.R | 17 LikertMakeR-1.3.0/LikertMakeR/R/makeScales.R |only LikertMakeR-1.3.0/LikertMakeR/R/makeScalesRegression.R |only LikertMakeR-1.3.0/LikertMakeR/README.md | 187 LikertMakeR-1.3.0/LikertMakeR/build/vignette.rds |binary LikertMakeR-1.3.0/LikertMakeR/inst/doc/LikertMakeR_vignette.R | 76 LikertMakeR-1.3.0/LikertMakeR/inst/doc/LikertMakeR_vignette.Rmd | 3547 +++++----- LikertMakeR-1.3.0/LikertMakeR/inst/doc/LikertMakeR_vignette.html | 2655 ++++--- LikertMakeR-1.3.0/LikertMakeR/man/correlateScales.Rd | 3 LikertMakeR-1.3.0/LikertMakeR/man/makeCorrAlpha.Rd | 51 LikertMakeR-1.3.0/LikertMakeR/man/makeItems.Rd | 5 LikertMakeR-1.3.0/LikertMakeR/man/makeItemsScale.Rd | 4 LikertMakeR-1.3.0/LikertMakeR/man/makeScales.Rd |only LikertMakeR-1.3.0/LikertMakeR/man/makeScalesRegression.Rd |only LikertMakeR-1.3.0/LikertMakeR/man/print.makeScalesRegression.Rd |only LikertMakeR-1.3.0/LikertMakeR/tests/testthat/test-lcor.R | 125 LikertMakeR-1.3.0/LikertMakeR/tests/testthat/test-makeRepeated.R |only LikertMakeR-1.3.0/LikertMakeR/tests/testthat/test-makeScales.R |only LikertMakeR-1.3.0/LikertMakeR/tests/testthat/test-makeScalesRegression.R |only LikertMakeR-1.3.0/LikertMakeR/vignettes/LikertMakeR_vignette.Rmd | 3547 +++++----- 30 files changed, 6569 insertions(+), 5280 deletions(-)
Title: Summary Scores of the Adolescent Brain Cognitive Development
(ABCD) Study
Description: Provides functions to compute summary scores
(besides proprietary ones) reported in the tabulated data resource that is
released by the Adolescent Brain Cognitive Development (ABCD) study.
Author: Le Zhang [aut, cre] ,
Janosch Linkersdoerfer [aut] ,
Olivier Celhay [aut] ,
Biplabendu Das [aut] ,
Sammy Berman [aut] ,
Laura Ziemer [aut]
Maintainer: Le Zhang <dairc.service@gmail.com>
Diff between ABCDscores versions 6.0.1 dated 2025-09-11 and 6.1.0 dated 2025-11-25
DESCRIPTION | 28 - MD5 | 53 +- NAMESPACE | 13 NEWS.md | 31 + R/ABCDscores-package.R | 2 R/globals.R | 38 + R/scores_fc.R | 655 +++++++++++++++++++++++++++++++- R/scores_mh.R | 4 R/scores_ph.R | 101 +++- R/utils.R | 93 ++++ R/zzz.R | 15 README.md | 19 build/partial.rdb |only build/vignette.rds |binary inst/CITATION |only inst/doc/ABCDscores.html | 4 man/ABCDscores-package.Rd | 12 man/check_assign_na.Rd | 12 man/compute_fc_p_vs__famil_mean.Rd |only man/compute_fc_p_vs__famil_mean__v01.Rd |only man/compute_fc_p_vs__famil_nm.Rd |only man/compute_fc_p_vs__famil_nm__v01.Rd |only man/compute_fc_p_vs__supp_mean.Rd | 2 man/compute_fc_y_vs__famil_mean.Rd |only man/compute_fc_y_vs__famil_mean__v01.Rd |only man/compute_fc_y_vs__famil_nm.Rd |only man/compute_fc_y_vs__famil_nm__v01.Rd |only man/compute_mh_p_eatq_all.Rd | 2 man/compute_mh_y_pps_all.Rd | 2 man/compute_ph_y_mctq__sd_count.Rd | 12 man/compute_ph_y_mctq__sleep_loss.Rd | 4 man/compute_ph_y_mctq_chrono.Rd | 6 man/create_session_num.Rd |only 33 files changed, 982 insertions(+), 126 deletions(-)
Title: Working with the Neotoma Paleoecology Database
Description: Access and manipulation of data using the Neotoma Paleoecology Database.
<https://api.neotomadb.org/api-docs/>.
Author: Dominguez Vidana Socorro [aut, cre] ,
Simon Goring [aut]
Maintainer: Dominguez Vidana Socorro <dominguezvid@wisc.edu>
Diff between neotoma2 versions 1.0.8 dated 2025-11-18 and 1.0.9 dated 2025-11-25
DESCRIPTION | 8 ++-- MD5 | 34 +++++++++---------- NAMESPACE | 4 ++ NEWS.md | 11 ++++++ R/get_datasets.R | 17 +++++++++ R/get_downloads.R | 30 ++++++++++------ R/get_publications.R | 21 ++++++++++- R/get_sites.R | 7 +++ R/samples.R | 4 +- README.md | 2 - inst/doc/neotoma2-package.html | 6 +-- man/get_datasets.Rd | 3 + man/get_downloads.Rd | 9 +++-- man/get_publications.Rd | 5 ++ man/get_sites.Rd | 3 + tests/testthat/test_get_datasets.R | 22 +++++++++++- tests/testthat/test_get_downloads.R | 64 ++++++++++++++++++++++++++++-------- tests/testthat/test_samples.R | 14 +++++++ 18 files changed, 201 insertions(+), 63 deletions(-)
Title: Convenient Functions for Exploratory Data Analysis
Description: A collection of convenient functions to facilitate common tasks in exploratory data analysis.
Some common tasks include generating summary tables of variables,
displaying tables as a 'flextable' or a 'kable' and visualising variables using 'ggplot2'.
Labels stating the source file with run time can be easily generated
for annotation in tables and plots.
Author: Tomas Sou [aut, cre]
Maintainer: Tomas Sou <tomas.sou@carexer.com>
Diff between edar versions 0.0.5 dated 2025-10-29 and 0.0.6 dated 2025-11-25
edar-0.0.5/edar/R/init.R |only edar-0.0.5/edar/man/ggcov_box.Rd |only edar-0.0.5/edar/man/ggcov_hist.Rd |only edar-0.0.5/edar/man/ggcov_violin.Rd |only edar-0.0.5/edar/man/hcln.Rd |only edar-0.0.6/edar/DESCRIPTION | 18 - edar-0.0.6/edar/MD5 | 56 ++-- edar-0.0.6/edar/NAMESPACE | 18 + edar-0.0.6/edar/NEWS.md | 6 edar-0.0.6/edar/R/edar-package.R | 3 edar-0.0.6/edar/R/func_all.R |only edar-0.0.6/edar/R/func_gg.R |only edar-0.0.6/edar/README.md | 193 ++++++++++----- edar-0.0.6/edar/man/edar-package.Rd | 2 edar-0.0.6/edar/man/fc.Rd | 16 - edar-0.0.6/edar/man/figures/README-unnamed-chunk-4-1.png |binary edar-0.0.6/edar/man/figures/README-unnamed-chunk-4-2.png |binary edar-0.0.6/edar/man/figures/README-unnamed-chunk-4-3.png |only edar-0.0.6/edar/man/figures/README-unnamed-chunk-4-4.png |only edar-0.0.6/edar/man/figures/README-unnamed-chunk-5-1.png |binary edar-0.0.6/edar/man/figures/README-unnamed-chunk-5-2.png |binary edar-0.0.6/edar/man/figures/README-unnamed-chunk-5-3.png |only edar-0.0.6/edar/man/figures/README-unnamed-chunk-5-4.png |only edar-0.0.6/edar/man/ft.Rd | 2 edar-0.0.6/edar/man/ft_def.Rd | 22 + edar-0.0.6/edar/man/ggbox.Rd |only edar-0.0.6/edar/man/gghist.Rd |only edar-0.0.6/edar/man/ggsrc.Rd | 10 edar-0.0.6/edar/man/ggtpp.Rd |only edar-0.0.6/edar/man/ggvio.Rd |only edar-0.0.6/edar/man/ggxy.Rd |only edar-0.0.6/edar/man/hexn.Rd |only edar-0.0.6/edar/man/kb.Rd | 4 edar-0.0.6/edar/man/label_src.Rd | 18 - edar-0.0.6/edar/man/label_tz.Rd | 4 edar-0.0.6/edar/man/reexports.Rd |only edar-0.0.6/edar/man/summ_by.Rd | 12 edar-0.0.6/edar/man/summ_cat.Rd | 23 + 38 files changed, 260 insertions(+), 147 deletions(-)
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 0.3.4 dated 2021-07-15 and 1.0.0 dated 2025-11-25
plinkQC-0.3.4/plinkQC/R/plinkQC.R |only plinkQC-0.3.4/plinkQC/README.md |only plinkQC-0.3.4/plinkQC/inst/doc/AncestryCheck.pdf |only plinkQC-0.3.4/plinkQC/inst/extdata/Genomes1000_ID2Pop.txt |only plinkQC-0.3.4/plinkQC/inst/extdata/data.HapMapIII.eigenvec |only plinkQC-0.3.4/plinkQC/inst/extdata/data.HapMapIII.fam |only plinkQC-0.3.4/plinkQC/man/check_ancestry.Rd |only plinkQC-0.3.4/plinkQC/man/evaluate_check_ancestry.Rd |only plinkQC-0.3.4/plinkQC/man/plinkQC.Rd |only plinkQC-0.3.4/plinkQC/man/run_check_ancestry.Rd |only plinkQC-0.3.4/plinkQC/tests/testthat/data.clean.HapMapIII.eigenvec |only plinkQC-0.3.4/plinkQC/tests/testthat/data.fail-ancestry.IDs |only plinkQC-1.0.0/plinkQC/DESCRIPTION | 28 plinkQC-1.0.0/plinkQC/MD5 | 124 - plinkQC-1.0.0/plinkQC/NAMESPACE | 17 plinkQC-1.0.0/plinkQC/NEWS.md | 10 plinkQC-1.0.0/plinkQC/R/ancestry.R |only plinkQC-1.0.0/plinkQC/R/applyQC.R | 77 plinkQC-1.0.0/plinkQC/R/individualQC.R | 1200 ++-------- plinkQC-1.0.0/plinkQC/R/markerQC.R | 158 + plinkQC-1.0.0/plinkQC/R/plinkQC-package.R |only plinkQC-1.0.0/plinkQC/R/sysdata.rda |only plinkQC-1.0.0/plinkQC/R/utils.R | 187 + plinkQC-1.0.0/plinkQC/build/partial.rdb |only plinkQC-1.0.0/plinkQC/build/vignette.rds |binary plinkQC-1.0.0/plinkQC/inst/doc/AncestryCheck.R | 139 + plinkQC-1.0.0/plinkQC/inst/doc/AncestryCheck.Rmd | 482 ++-- plinkQC-1.0.0/plinkQC/inst/doc/AncestryCheck.html |only plinkQC-1.0.0/plinkQC/inst/doc/Genomes1000.Rmd | 40 plinkQC-1.0.0/plinkQC/inst/doc/Genomes1000.pdf |binary plinkQC-1.0.0/plinkQC/inst/doc/HapMap.Rmd | 12 plinkQC-1.0.0/plinkQC/inst/doc/HapMap.pdf |binary plinkQC-1.0.0/plinkQC/inst/doc/my-vignette.R |only plinkQC-1.0.0/plinkQC/inst/doc/my-vignette.Rmd |only plinkQC-1.0.0/plinkQC/inst/doc/my-vignette.html |only plinkQC-1.0.0/plinkQC/inst/doc/plinkQC.R | 94 plinkQC-1.0.0/plinkQC/inst/doc/plinkQC.Rmd | 243 +- plinkQC-1.0.0/plinkQC/inst/doc/plinkQC.pdf |binary plinkQC-1.0.0/plinkQC/inst/extdata/data.hg38.bed |only plinkQC-1.0.0/plinkQC/inst/extdata/data.hg38.bim |only plinkQC-1.0.0/plinkQC/inst/extdata/data.hg38.fam |only plinkQC-1.0.0/plinkQC/inst/extdata/final_model.RDS |only plinkQC-1.0.0/plinkQC/man/ancestry_prediction.Rd |only plinkQC-1.0.0/plinkQC/man/checkLoadingMat.Rd |only plinkQC-1.0.0/plinkQC/man/checkPlink.Rd | 2 plinkQC-1.0.0/plinkQC/man/checkPlink2.Rd |only plinkQC-1.0.0/plinkQC/man/check_hwe.Rd | 2 plinkQC-1.0.0/plinkQC/man/cleanData.Rd | 19 plinkQC-1.0.0/plinkQC/man/convert_to_plink2.Rd |only plinkQC-1.0.0/plinkQC/man/evaluate_ancestry_prediction.Rd |only plinkQC-1.0.0/plinkQC/man/overviewPerIndividualQC.Rd | 17 plinkQC-1.0.0/plinkQC/man/perIndividualQC.Rd | 149 - plinkQC-1.0.0/plinkQC/man/plinkQC-package.Rd |only plinkQC-1.0.0/plinkQC/man/pruning_ld.Rd |only plinkQC-1.0.0/plinkQC/man/rename_variant_identifiers.Rd |only plinkQC-1.0.0/plinkQC/man/run_ancestry_format.Rd |only plinkQC-1.0.0/plinkQC/man/run_ancestry_prediction.Rd |only plinkQC-1.0.0/plinkQC/tests/testthat/Rplots.pdf |only plinkQC-1.0.0/plinkQC/tests/testthat/data.clean.log |only plinkQC-1.0.0/plinkQC/tests/testthat/data.clean.pgen |only plinkQC-1.0.0/plinkQC/tests/testthat/data.clean.psam |only plinkQC-1.0.0/plinkQC/tests/testthat/data.clean.pvar |only plinkQC-1.0.0/plinkQC/tests/testthat/data.clean.sscore |only plinkQC-1.0.0/plinkQC/tests/testthat/data.exclude-ancestry.IDs |only plinkQC-1.0.0/plinkQC/tests/testthat/data.fail.IDs | 30 plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.log |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.renamed.bed |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.renamed.bim |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.renamed.fam |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.renamed.pgen |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.renamed.psam |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.renamed.pvar |only plinkQC-1.0.0/plinkQC/tests/testthat/data.hg38.sscore |only plinkQC-1.0.0/plinkQC/tests/testthat/data.log |only plinkQC-1.0.0/plinkQC/tests/testthat/data.pgen |only plinkQC-1.0.0/plinkQC/tests/testthat/data.psam |only plinkQC-1.0.0/plinkQC/tests/testthat/data.pvar |only plinkQC-1.0.0/plinkQC/tests/testthat/data.sscore |only plinkQC-1.0.0/plinkQC/tests/testthat/data.sscore.tmp |only plinkQC-1.0.0/plinkQC/tests/testthat/test-ancestry.R |only plinkQC-1.0.0/plinkQC/tests/testthat/test-applyQC.R | 14 plinkQC-1.0.0/plinkQC/tests/testthat/test-individualQC.R | 182 - plinkQC-1.0.0/plinkQC/tests/testthat/test-utils.R | 25 plinkQC-1.0.0/plinkQC/vignettes/AncestryCheck.Rmd | 482 ++-- plinkQC-1.0.0/plinkQC/vignettes/Genomes1000.Rmd | 40 plinkQC-1.0.0/plinkQC/vignettes/HapMap.Rmd | 12 plinkQC-1.0.0/plinkQC/vignettes/ancestral_prediction.pdf |only plinkQC-1.0.0/plinkQC/vignettes/ancestral_prediction.png |only plinkQC-1.0.0/plinkQC/vignettes/individualQC.pdf |only plinkQC-1.0.0/plinkQC/vignettes/individualQC.png |binary plinkQC-1.0.0/plinkQC/vignettes/my-vignette.Rmd |only plinkQC-1.0.0/plinkQC/vignettes/overviewQC.png |binary plinkQC-1.0.0/plinkQC/vignettes/plinkQC.Rmd | 243 +- 93 files changed, 1857 insertions(+), 2171 deletions(-)
Title: Correction Factors for Tree Plot Areas Intersected by Stand
Boundaries
Description: The German national forest inventory uses angle count sampling,
a sampling method first published as `Bitterlich, W.: Die Winkelzählmessung.
Allgemeine Forst- und Holzwirtschaftliche Zeitung, 58. Jahrg., Folge 11/12
vom Juni 1947` and extended by Grosenbaugh
(<https://academic.oup.com/jof/article-abstract/50/1/32/4684174>)
as probability proportional to size sampling.
When plots are located near stand boundaries, their sizes and hence
their probabilities need to be corrected.
Author: Andreas Dominik Cullmann [aut, cre],
Bernhard Boesch [ctb],
Christoph Fischer [ctb],
Gerald Kaendler [ctb]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between treePlotArea versions 3.0.0 dated 2025-11-03 and 3.1.0 dated 2025-11-25
DESCRIPTION | 6 +-- MD5 | 43 ++++++++++++------------ NEWS.md | 7 +++ R/boundaries2polygons.R | 11 +++--- R/create_pentagon.R | 2 - R/create_tetragon.R | 2 - R/create_triangle.R | 2 - R/do_split.R | 4 +- R/get_boundary_polygons.R | 3 + R/get_boundary_radius.R | 9 ++--- R/get_correction_factors.R | 10 +++-- R/get_r_max.R | 4 +- R/is_boundary_encloses_origin.R | 4 +- R/plot_tree_plot_area.R | 14 ++++--- R/split_coord.R | 4 +- R/split_coords.R | 4 +- inst/NEWS.rd | 8 ++++ inst/doc/An_Introduction_to_treePlotArea.pdf |binary inst/runit_tests/data |only inst/runit_tests/runit-get_correction_factors.R | 14 +++++++ man/get_boundary_polygons.Rd | 10 +++++ man/get_boundary_radius.Rd | 9 ++--- man/get_r_max.Rd | 6 +-- 23 files changed, 109 insertions(+), 67 deletions(-)
More information about SelectBoost.gamlss at CRAN
Permanent link
Title: Converts Between R Objects and Simple Feature Objects
Description: Converts between R and Simple Feature 'sf' objects, without depending
on the Simple Feature library. Conversion functions are available at both the R level,
and through 'Rcpp'.
Author: David Cooley [aut, cre],
Michael Sumner [ctb]
Maintainer: David Cooley <david.cooley.au@gmail.com>
Diff between sfheaders versions 0.4.4 dated 2024-01-17 and 0.4.5 dated 2025-11-25
DESCRIPTION | 14 +++++++------- MD5 | 4 ++-- NEWS.md | 3 +++ 3 files changed, 12 insertions(+), 9 deletions(-)
Title: Convert Between 'R' Objects and Javascript Object Notation
(JSON)
Description: Conversions between 'R' objects and Javascript Object Notation (JSON) using
the 'rapidjsonr' library <https://CRAN.R-project.org/package=rapidjsonr>.
Author: David Cooley [aut, cre],
Chris Muir [ctb],
Brendan Knapp [ctb]
Maintainer: David Cooley <dcooley@symbolix.com.au>
Diff between jsonify versions 1.2.2 dated 2022-11-09 and 1.2.3 dated 2025-11-25
jsonify-1.2.2/jsonify/build |only jsonify-1.2.2/jsonify/inst/doc |only jsonify-1.2.2/jsonify/vignettes |only jsonify-1.2.3/jsonify/DESCRIPTION | 23 ++++---- jsonify-1.2.3/jsonify/MD5 | 23 +++----- jsonify-1.2.3/jsonify/NEWS.md | 5 + jsonify-1.2.3/jsonify/README.md | 9 ++- jsonify-1.2.3/jsonify/inst/include/jsonify/from_json/from_json.hpp | 27 +++++----- jsonify-1.2.3/jsonify/src/Makevars | 2 jsonify-1.2.3/jsonify/src/Makevars.win | 2 jsonify-1.2.3/jsonify/tests/testthat/test-from_json.R | 5 + jsonify-1.2.3/jsonify/tests/testthat/test-to_json_dates.R | 7 +- jsonify-1.2.3/jsonify/tests/testthat/test-to_json_unbox.R | 2 13 files changed, 59 insertions(+), 46 deletions(-)
Title: Acquiring and Processing Data from Japan Institute for Health
Security
Description: Download and post process the infectious disease case data
from Japan Institute for Health Security. Also the package included
ready-to-analyse datasets. See the data source website for further details
<https://id-info.jihs.go.jp/>.
Author: Tomonori Hoshi [aut, cre],
Erina Ishigaki [aut],
Satoshi Kaneko [aut]
Maintainer: Tomonori Hoshi <tomonori.hoshi.japan@gmail.com>
Diff between jpinfect versions 0.1.6 dated 2025-11-08 and 0.1.8 dated 2025-11-25
DESCRIPTION | 6 - MD5 | 7 - data/bullet.rda |binary inst/CITATION |only inst/doc/jpinfect.html | 204 ++++++++++++++++++++++++------------------------- 5 files changed, 109 insertions(+), 108 deletions(-)
Title: GCxGC Preprocessing and Analysis
Description: Provides complete detailed preprocessing of two-dimensional gas chromatogram (GCxGC) samples. Baseline correction, smoothing, peak detection, and peak alignment. Also provided are some analysis functions, such as finding extracted ion chromatograms, finding mass spectral data, targeted analysis, and nontargeted analysis with either the 'National Institute of Standards and Technology Mass Spectral Library' or with the mass data. There are also several visualization methods provided for each step of the preprocessing and analysis.
Author: Stephanie Gamble [aut, cre] ,
Mannion Joseph [ctb],
Granger Caroline [ctb],
Battelle Savannah River Alliance [cph],
NNSA, US DOE [fnd]
Maintainer: Stephanie Gamble <stephanie.gamble@srnl.doe.gov>
Diff between gcxgclab versions 1.0.1 dated 2024-01-22 and 1.1.0 dated 2025-11-25
DESCRIPTION | 11 - MD5 | 40 ++--- NAMESPACE | 2 NEWS.md |only R/align.R | 146 ++++++++++-------- R/blc_sm.R | 31 +++- R/extract_data.R | 72 ++++++++- R/find_peaks.R | 15 + R/integration.R |only R/non_targeted.R | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/gcxgclab_vignette.R | 2 inst/doc/gcxgclab_vignette.Rmd | 27 +++ inst/doc/gcxgclab_vignette.html | 310 +++++++++++++++++++++------------------- man/TIC_integrate.Rd |only man/align.Rd | 9 + man/batch_extract.Rd |only man/batch_preprocess.Rd | 14 + man/extract_data.Rd | 4 man/plot_chr.Rd | 16 +- man/plot_peak.Rd | 8 + vignettes/gcxgclab_vignette.Rmd | 27 +++ 23 files changed, 484 insertions(+), 256 deletions(-)
Title: Linear Fixed/Mixed Effects Models for Diallel Crosses
Description: Several service functions to be used to analyse datasets obtained from diallel experiments within the frame of linear models in R, as described in Onofri et al (2020) <DOI:10.1007/s00122-020-03716-8>.
Author: Andrea Onofri [aut, cre],
Niccolo Terzaroli [aut]
Maintainer: Andrea Onofri <andrea.onofri@unipg.it>
Diff between lmDiallel versions 1.0.1 dated 2023-04-19 and 1.0.2 dated 2025-11-25
DESCRIPTION | 10 ++--- MD5 | 12 +++--- NEWS.md | 3 + R/mmer.diallel_v1.97.R | 78 ++++++++++++++++++++--------------------- R/model.matrix.diallel_v2.00.R | 4 +- README.md | 4 +- inst/CITATION | 8 ++-- 7 files changed, 62 insertions(+), 57 deletions(-)
Title: Causal Meta-Analysis for Aggregated Data
Description: A tool for causal meta-analysis. This package implements the aggregation formulas and inference methods proposed in Berenfeld et al. (2025) <doi:10.48550/arXiv.2505.20168>. Users can input aggregated data across multiple studies and compute causally meaningful aggregated effects of their choice (risk difference, risk ratio, odds ratio, etc) under user-specified population weighting. The built-in function camea() allows to obtain precise variance estimates for these effects and to compare the latter to a classical meta-analysis aggregate, the random effect model, as implemented in the 'metafor' package <https://CRAN.R-project.org/package=metafor>.
Author: Clement Berenfeld [ctb, cre],
Ahmed Boughdiri [ctb],
Charif El Gataa [aut],
Julie Josse [ctb]
Maintainer: Clement Berenfeld <clement.berenfeld@inria.fr>
Diff between CaMeA versions 0.1.0 dated 2025-10-09 and 0.1.1 dated 2025-11-25
CaMeA-0.1.0/CaMeA/LICENSE |only CaMeA-0.1.1/CaMeA/DESCRIPTION | 8 ++++---- CaMeA-0.1.1/CaMeA/MD5 | 5 ++--- CaMeA-0.1.1/CaMeA/inst/doc/CaMeA_vignette.html | 2 +- 4 files changed, 7 insertions(+), 8 deletions(-)
Title: Mining Frequent Sequences
Description: Add-on for arules to handle and mine frequent sequences.
Provides interfaces to the C++ implementation of cSPADE by
Mohammed J. Zaki.
Author: Christian Buchta [aut, cre],
Michael Hahsler [aut],
Daniel Diaz [ctb]
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>
Diff between arulesSequences versions 0.2-31 dated 2024-08-22 and 0.2-32 dated 2025-11-25
CHANGELOG | 4 ++++ DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- src/idlists.c | 4 ++-- src/matrix.c | 6 +++--- src/ported.c | 14 +++++++------- src/ptree.c | 4 ++-- src/similarity.c | 10 +++++----- 8 files changed, 33 insertions(+), 29 deletions(-)
More information about arulesSequences at CRAN
Permanent link
Title: Unit Testing for R
Description: Software testing is important, but, in part because it is
frustrating and boring, many of us avoid it. 'testthat' is a testing
framework for R that is easy to learn and use, and integrates with
your existing 'workflow'.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb] )
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between testthat versions 3.3.0 dated 2025-11-13 and 3.3.1 dated 2025-11-25
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 4 ++++ R/expectation.R | 5 ++++- R/snapshot-file.R | 6 ++++-- R/test-that.R | 2 +- inst/doc/custom-expectation.Rmd | 4 +++- inst/doc/custom-expectation.html | 7 ++++++- inst/doc/mocking.html | 6 +++--- inst/doc/snapshotting.html | 6 +++--- tests/testthat/test-parallel-teardown.R | 1 + vignettes/custom-expectation.Rmd | 4 +++- 12 files changed, 46 insertions(+), 27 deletions(-)
Title: Setup, Run and Analyze 'NetLogo' Model Simulations from 'R' via
'XML'
Description: Setup, run and analyze 'NetLogo' (<https://www.netlogo.org>) model simulations in 'R'.
'nlrx' experiments use a similar structure as 'NetLogos' Behavior Space experiments.
However, 'nlrx' offers more flexibility and additional tools for running and analyzing complex simulation designs and sensitivity analyses.
The user defines all information that is needed in an intuitive framework, using class objects.
Experiments are submitted from 'R' to 'NetLogo' via 'XML' files that are dynamically written, based on specifications defined by the user.
By nesting model calls in future environments, large simulation design with many runs can be executed in parallel.
This also enables simulating 'NetLogo' experiments on remote high performance computing machines.
In order to use this package, 'Java' and 'NetLogo' (>= 5.3.1) need to be available on the executing system.
Author: Jan Salecker [aut] ,
Marco Sciaini [aut] ,
Marina Papadopoulou [rev] ,
Sebastian Hanss [cre]
Maintainer: Sebastian Hanss <nlrx@mailbox.org>
Diff between nlrx versions 0.4.5 dated 2024-01-29 and 0.4.6 dated 2025-11-25
DESCRIPTION | 14 - MD5 | 46 +-- NEWS.md | 7 R/download_netlogo.R | 3 R/write_simoutput.R | 2 README.md | 27 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/abc.R | 418 ++++++++++++++++---------------- inst/doc/abc.html | 366 ++++++++++++++-------------- inst/doc/furthernotes.R | 208 ++++++++-------- inst/doc/furthernotes.Rmd | 4 inst/doc/furthernotes.html | 206 ++++++++-------- inst/doc/getstarted.R | 234 +++++++++--------- inst/doc/getstarted.Rmd | 4 inst/doc/getstarted.html | 243 +++++++++--------- inst/doc/optimization.R | 228 ++++++++--------- inst/doc/optimization.html | 180 +++++++------- inst/doc/sensitivity.R | 292 +++++++++++----------- inst/doc/sensitivity.html | 248 +++++++++---------- inst/doc/simdesign-examples.R | 486 ++++++++++++++++++------------------- inst/doc/simdesign-examples.html | 500 +++++++++++++++++++-------------------- vignettes/furthernotes.Rmd | 4 vignettes/getstarted.Rmd | 4 24 files changed, 1865 insertions(+), 1859 deletions(-)
Title: Modular Monte Carlo Risk Analysis
Description: Framework for building modular Monte Carlo risk analysis models. It extends the capabilities of 'mc2d' to facilitate working with multiple risk pathways, variates and scenarios. It provides tools to organize risk analysis in independent flexible modules, perform multivariate Monte Carlo node operations, automate the creation of Monte Carlo nodes and visualize risk analysis models. For more details see Ciria (2025) <https://nataliaciria.github.io/mcmodule/articles/mcmodule>.
Author: Natalia Ciria [aut, cre, cph] ,
Alberto Allepuz [ths] ,
Giovanna Ciaravino [ths]
Maintainer: Natalia Ciria <nataliaciria@hotmail.com>
Diff between mcmodule versions 1.1.0 dated 2025-10-22 and 1.1.1 dated 2025-11-25
DESCRIPTION | 6 MD5 | 34 - NEWS.md | 23 + R/create_mcnodes.R | 5 R/dim_match.R | 457 ++++++++++++++++----- R/eval_module.R | 284 ++++++++----- R/get_node_list.R | 123 ++++- R/totals.R | 773 +++++++++++++++++++++++++----------- R/utils.R | 77 ++- inst/doc/mcmodule.html | 218 +++++----- man/eval_module.Rd | 17 man/get_node_list.Rd | 7 man/trial_totals.Rd | 5 tests/testthat/test-dim_match.R | 261 ++++++++---- tests/testthat/test-eval_module.R | 434 +++++++++++++++----- tests/testthat/test-get_node_list.R | 154 +++++-- tests/testthat/test-totals.R | 487 +++++++++++++++++----- tests/testthat/test-utils.R | 72 ++- 18 files changed, 2454 insertions(+), 983 deletions(-)
Title: Graphical User Interface with Integrated 'Diagrammer' for
'Lavaan'
Description: Provides a graphical user interface with an
integrated diagrammer for latent variable models from the 'lavaan' package.
It offers two core functions: first, lavaangui() launches a web application
that allows users to specify models by drawing path diagrams, fitting them,
assessing model fit, and more; second, plot_lavaan() creates
interactive path diagrams from models specified in 'lavaan'.
Karch (2024) <doi: 10.1080/10705511.2024.2420678> contains a tutorial.
Author: Julian D. Karch [aut, cre, cph]
Maintainer: Julian D. Karch <j.d.karch@fsw.leidenuniv.nl>
Diff between lavaangui versions 0.3.0 dated 2025-10-16 and 0.3.1 dated 2025-11-25
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Title: Regulatory Tables for Clinical Research
Description: Creates tables suitable for regulatory agency submission by
leveraging the 'gtsummary' package as the back end. Tables can be exported
to HTML, Word, PDF and more. Highly customized outputs are
available by utilizing existing styling functions from 'gtsummary' as
well as custom options designed for regulatory tables.
Author: Shannon Pileggi [aut, cre, cph] ,
Daniel D. Sjoberg [aut]
Maintainer: Shannon Pileggi <shannon.pileggi@gmail.com>
Diff between gtreg versions 0.4.1 dated 2025-02-27 and 0.4.2 dated 2025-11-25
DESCRIPTION | 15 MD5 | 44 - NEWS.md | 116 ++--- R/add_overall.R | 488 ++++++++++----------- R/broom-helpers.R | 805 +++++++++++++++++------------------- R/selectors.R | 166 +++---- R/tbl_ae.R | 398 ++++++++--------- R/tbl_ae_count.R | 294 ++++++------- R/tbl_ae_focus.R | 420 +++++++++--------- R/tbl_listing.R | 330 +++++++------- R/tbl_reg_summary.R | 152 +++--- README.md | 304 ++++++------- build/vignette.rds |binary inst/doc/further_documentation.R | 12 inst/doc/further_documentation.html | 542 ++++++++++++------------ man/add_overall_tbl_ae.Rd | 228 +++++----- man/reexports.Rd | 116 ++--- man/selectors.Rd | 136 +++--- man/tbl_ae.Rd | 242 +++++----- man/tbl_ae_count.Rd | 188 ++++---- man/tbl_ae_focus.Rd | 198 ++++---- man/tbl_listing.Rd | 186 ++++---- man/tbl_reg_summary.Rd | 202 ++++----- 23 files changed, 2795 insertions(+), 2787 deletions(-)
Title: Nicely Formatted Contingency Tables and Frequency Tables
Description: Nicely formatted frequency tables and contingency tables (1-way, 2-way, 3-way and 4-way tables), that can easily be exported to HTML or 'Office' documents. Designed to work with pipes.
Author: Mans Thulin [aut, cre],
Kajsa Grind [aut],
Stefan Furne [aut]
Maintainer: Mans Thulin <mans@statistikkonsult.com>
Diff between ivo.table versions 0.7.0 dated 2025-09-30 and 0.7.1 dated 2025-11-25
DESCRIPTION | 6 MD5 | 10 - NEWS.md | 3 R/ivo_tables.R | 4 inst/doc/ivo_table.html | 12 - inst/doc/ivo_table_gt.html | 440 ++++++++++++++++++++++----------------------- 6 files changed, 239 insertions(+), 236 deletions(-)
Title: The Q-Matrix Validation Methods Framework
Description: Provide a variety of Q-matrix validation methods for the generalized
cognitive diagnosis models, including the method based on the generalized
deterministic input, noisy, and gate model (G-DINA) by de la Torre (2011)
<DOI:10.1007/s11336-011-9207-7> discrimination index (the GDI method) by
de la Torre and Chiu (2016) <DOI:10.1007/s11336-015-9467-8>, the Hull method
by Najera et al. (2021) <DOI:10.1111/bmsp.12228>, the stepwise Wald test method
(the Wald method) by Ma and de la Torre (2020) <DOI:10.1111/bmsp.12156>, the
multiple logistic regression‑based Q‑matrix validation method (the MLR-B method)
by Tu et al. (2022) <DOI:10.3758/s13428-022-01880-x>, the beta method based on
signal detection theory by Li and Chen (2024) <DOI:10.1111/bmsp.12371> and
Q-matrix validation based on relative fit index by Chen et al. (2013)
<DOI:10.1111/j.1745-3984.2012.00185.x>. Different research methods and iterative
procedures during Q-matrix validating are availa [...truncated...]
Author: Haijiang Qin [aut, cre, cph] ,
Lei Guo [aut, cph]
Maintainer: Haijiang Qin <haijiang133@outlook.com>
Diff between Qval versions 1.2.3 dated 2025-06-02 and 1.2.4 dated 2025-11-25
Qval-1.2.3/Qval/man/parallel_iter.Rd |only Qval-1.2.3/Qval/tests/demo.R |only Qval-1.2.3/Qval/tests/realdata_analysis.R |only Qval-1.2.3/Qval/tests/realdata_analysis_beta.R |only Qval-1.2.3/Qval/tests/repeat.R |only Qval-1.2.4/Qval/DESCRIPTION | 27 - Qval-1.2.4/Qval/MD5 | 96 ++--- Qval-1.2.4/Qval/NAMESPACE | 21 + Qval-1.2.4/Qval/NEWS.md | 21 + Qval-1.2.4/Qval/R/CDM.R | 94 +++-- Qval-1.2.4/Qval/R/IndexBeta.R | 43 +- Qval-1.2.4/Qval/R/IndexPVAF.R | 47 +- Qval-1.2.4/Qval/R/IndexPriority.R | 22 - Qval-1.2.4/Qval/R/IndexR2.R | 44 +- Qval-1.2.4/Qval/R/QvalBeta.R | 366 ++++++++----------- Qval-1.2.4/Qval/R/QvalGDI.R | 91 ++-- Qval-1.2.4/Qval/R/QvalHull.R | 62 +-- Qval-1.2.4/Qval/R/QvalMLRB.R | 307 +++++++++------- Qval-1.2.4/Qval/R/QvalValidation.R | 124 ++---- Qval-1.2.4/Qval/R/QvalWald.R | 462 ++++++++++++++++--------- Qval-1.2.4/Qval/R/Rmatrix.R | 55 +- Qval-1.2.4/Qval/R/S3Extract.R | 173 ++++++--- Qval-1.2.4/Qval/R/S3Plot.R | 6 Qval-1.2.4/Qval/R/S3Print.R | 159 +++++++- Qval-1.2.4/Qval/R/S3Summary.R | 85 +++- Qval-1.2.4/Qval/R/S3Update.R | 98 ++++- Qval-1.2.4/Qval/R/Wald.test.R | 27 - Qval-1.2.4/Qval/R/att.hierarchy.R |only Qval-1.2.4/Qval/R/fit.R | 53 ++ Qval-1.2.4/Qval/R/is.Qident.R |only Qval-1.2.4/Qval/R/sim.Q.R | 30 + Qval-1.2.4/Qval/R/sim.data.R | 135 +++++-- Qval-1.2.4/Qval/R/zzz.R | 2 Qval-1.2.4/Qval/man/CDM.Rd | 48 +- Qval-1.2.4/Qval/man/Wald.test.Rd | 6 Qval-1.2.4/Qval/man/att.hierarchy.Rd |only Qval-1.2.4/Qval/man/extract.Rd | 130 ++++--- Qval-1.2.4/Qval/man/fit.Rd | 43 +- Qval-1.2.4/Qval/man/get.PVAF.Rd | 16 Qval-1.2.4/Qval/man/get.R2.Rd | 16 Qval-1.2.4/Qval/man/get.Rmatrix.Rd | 7 Qval-1.2.4/Qval/man/get.beta.Rd | 16 Qval-1.2.4/Qval/man/get.priority.Rd | 18 Qval-1.2.4/Qval/man/is.Qident.Rd |only Qval-1.2.4/Qval/man/plot.Rd | 6 Qval-1.2.4/Qval/man/print.Rd | 62 ++- Qval-1.2.4/Qval/man/sim.Q.Rd | 6 Qval-1.2.4/Qval/man/sim.data.Rd | 27 + Qval-1.2.4/Qval/man/summary.Rd | 38 -- Qval-1.2.4/Qval/man/update.Rd | 28 + Qval-1.2.4/Qval/man/validation.Rd | 99 +---- Qval-1.2.4/Qval/src/PGDINA.cpp | 2 Qval-1.2.4/Qval/tests/Supplemental_Material.R |only Qval-1.2.4/Qval/tests/building.R | 19 - 54 files changed, 2019 insertions(+), 1218 deletions(-)
Title: Helper Tools for Teaching Statistical Data Analysis
Description: Provides functions and data-sets that are helpful
for teaching statistics and data analysis. It was originally designed for use
when teaching students in the Psychology Department at Nottingham Trent University.
Author: Mark Andrews [aut, cre],
Jens Roeser [aut]
Maintainer: Mark Andrews <mark.andrews@ntu.ac.uk>
Diff between psyntur versions 0.1.0 dated 2021-09-15 and 0.1.1 dated 2025-11-25
psyntur-0.1.0/psyntur/man/ez_anova.Rd |only psyntur-0.1.1/psyntur/DESCRIPTION | 12 psyntur-0.1.1/psyntur/MD5 | 23 psyntur-0.1.1/psyntur/NAMESPACE | 2 psyntur-0.1.1/psyntur/R/statistics-utils.R | 32 - psyntur-0.1.1/psyntur/build/vignette.rds |binary psyntur-0.1.1/psyntur/inst/doc/exploration.R | 2 psyntur-0.1.1/psyntur/inst/doc/exploration.html | 642 +++++++++++++++------- psyntur-0.1.1/psyntur/inst/doc/simplestats.R | 2 psyntur-0.1.1/psyntur/inst/doc/simplestats.html | 509 ++++++++++++----- psyntur-0.1.1/psyntur/inst/doc/visualization.R | 18 psyntur-0.1.1/psyntur/inst/doc/visualization.html | 483 ++++++++++++---- psyntur-0.1.1/psyntur/man/sum_xna.Rd | 12 13 files changed, 1218 insertions(+), 519 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut],
Adam Banker [aut],
Dyfan Jones [cre],
Amazon.com, Inc. [cph]
Maintainer: Dyfan Jones <dyfan.r.jones@gmail.com>
Diff between paws.common versions 0.8.6 dated 2025-11-19 and 0.8.7 dated 2025-11-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ tests/testthat/test_credential_providers.R | 4 ++-- tests/testthat/test_signer_bearer.R | 4 ++-- 5 files changed, 14 insertions(+), 11 deletions(-)
Title: Multivariate Analysis Using Biplots in R
Description: Several multivariate techniques from a biplot perspective. It is the translation (with many improvements) into R of the previous package developed in 'Matlab'. The package contains some of the main developments of my team during the last 30 years together with some more standard techniques. Package includes: Classical Biplots, HJ-Biplot, Canonical Biplots, MANOVA Biplots, Correspondence Analysis, Canonical Correspondence Analysis, Canonical STATIS-ACT, Logistic Biplots for binary and ordinal data, Multidimensional Unfolding, External Biplots for Principal Coordinates Analysis or Multidimensional Scaling, among many others. References can be found in the help of each procedure.
Author: Jose Luis Vicente Villardon [aut],
Laura Vicente-Gonzalez [aut],
Elisa Frutos-Bernal [aut],
Jose Luis Vicente Villardon [cre]
Maintainer: Jose Luis Vicente Villardon <villardon@usal.es>
Diff between MultBiplotR versions 23.11.0 dated 2023-11-21 and 25.11.15 dated 2025-11-25
MultBiplotR-23.11.0/MultBiplotR/R/PolyOrdinalLogBiplot.R |only MultBiplotR-23.11.0/MultBiplotR/R/Tucker3PCovR.R |only MultBiplotR-23.11.0/MultBiplotR/R/t3pcovr.R |only MultBiplotR-23.11.0/MultBiplotR/man/PolyOrdinalLogBiplot.Rd |only MultBiplotR-23.11.0/MultBiplotR/man/t3pcovr.Rd |only MultBiplotR-25.11.15/MultBiplotR/DESCRIPTION | 28 ++ MultBiplotR-25.11.15/MultBiplotR/MD5 | 86 ++++---- MultBiplotR-25.11.15/MultBiplotR/NAMESPACE | 9 MultBiplotR-25.11.15/MultBiplotR/R/BinaryLogBiplotGDRecursive.R | 6 MultBiplotR-25.11.15/MultBiplotR/R/BinaryPLSFit.R | 11 - MultBiplotR-25.11.15/MultBiplotR/R/BinaryPLSR.R | 6 MultBiplotR-25.11.15/MultBiplotR/R/ColContributionPlot.R | 41 ++- MultBiplotR-25.11.15/MultBiplotR/R/CorrelationCircle.R | 1 MultBiplotR-25.11.15/MultBiplotR/R/CostsGradients4LogBiplotRec.R | 21 + MultBiplotR-25.11.15/MultBiplotR/R/CostsGradients4OrdLogBiplotRec.R |only MultBiplotR-25.11.15/MultBiplotR/R/NearestR.R |only MultBiplotR-25.11.15/MultBiplotR/R/OrdLogBipEM.R | 1 MultBiplotR-25.11.15/MultBiplotR/R/OrdVarBiplot.R | 8 MultBiplotR-25.11.15/MultBiplotR/R/OrdVarCoordinates.R | 25 +- MultBiplotR-25.11.15/MultBiplotR/R/OrdinalBiplotExpectedValues.r |only MultBiplotR-25.11.15/MultBiplotR/R/OrdinalLogBiplotGDRecursive.R |only MultBiplotR-25.11.15/MultBiplotR/R/OrdinalLogisticFit.R | 1 MultBiplotR-25.11.15/MultBiplotR/R/PLSR.R | 4 MultBiplotR-25.11.15/MultBiplotR/R/PLSRBin.R | 7 MultBiplotR-25.11.15/MultBiplotR/R/PLSRBinFit.R | 1 MultBiplotR-25.11.15/MultBiplotR/R/PolyBiplot.R |only MultBiplotR-25.11.15/MultBiplotR/R/PolychorMatrix.R |only MultBiplotR-25.11.15/MultBiplotR/R/RidgeBinaryLogistic.R | 11 - MultBiplotR-25.11.15/MultBiplotR/R/RidgeBinaryLogisticFit.R | 5 MultBiplotR-25.11.15/MultBiplotR/R/RidgeOrdinalLogistic.R | 1 MultBiplotR-25.11.15/MultBiplotR/R/biplot.BinaryPLSR.R | 5 MultBiplotR-25.11.15/MultBiplotR/R/biplot.PLSRBIN.R | 2 MultBiplotR-25.11.15/MultBiplotR/R/plot.Binary.Logistic.Biplot.R | 30 +- MultBiplotR-25.11.15/MultBiplotR/R/plot.ContinuousBiplot.R | 27 +- MultBiplotR-25.11.15/MultBiplotR/R/plot.Ordinal.Logistic.Biplot.R | 106 +++++++--- MultBiplotR-25.11.15/MultBiplotR/R/plot.Supplementary.Variables.R | 2 MultBiplotR-25.11.15/MultBiplotR/R/plot.t3pcovR.R |only MultBiplotR-25.11.15/MultBiplotR/R/summary.Binary.Logistic.Biplot.R | 8 MultBiplotR-25.11.15/MultBiplotR/R/summary.ContinuousBiplot.R | 37 ++- MultBiplotR-25.11.15/MultBiplotR/R/summary.Ordinal.Logistic.Biplot.R | 32 ++- MultBiplotR-25.11.15/MultBiplotR/R/summary.RidgeBinaryLogistic.R | 8 MultBiplotR-25.11.15/MultBiplotR/data/DoctorsNUM.rda |only MultBiplotR-25.11.15/MultBiplotR/man/ContributionPlot.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/DoctorsNUM.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/OrdVarBiplot.Rd | 5 MultBiplotR-25.11.15/MultBiplotR/man/OrdVarCoordinates.Rd | 5 MultBiplotR-25.11.15/MultBiplotR/man/OrdinalBiplotExpectedValues.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/OrdinalLogBiplotGDRecursive.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/PolyBiplot.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/PolychorMatrix.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/plot.Binary.Logistic.Biplot.Rd | 10 MultBiplotR-25.11.15/MultBiplotR/man/plot.Ordinal.Logistic.Biplot.Rd | 51 ++++ MultBiplotR-25.11.15/MultBiplotR/man/sigmoide.Rd |only MultBiplotR-25.11.15/MultBiplotR/man/summary.ContinuousBiplot.Rd | 5 54 files changed, 418 insertions(+), 188 deletions(-)
Title: Core Mathematical Functions for Multi-Objective Optimization
Description: Fast implementations of mathematical operations and performance metrics for multi-objective optimization, including filtering and ranking of dominated vectors according to Pareto optimality, hypervolume metric, C.M. Fonseca, L. Paquete, M. López-Ibáñez (2006) <doi:10.1109/CEC.2006.1688440>, epsilon indicator, inverted generational distance, computation of the empirical attainment function, V.G. da Fonseca, C.M. Fonseca, A.O. Hall (2001) <doi:10.1007/3-540-44719-9_15>, and Vorob'ev threshold, expectation and deviation, M. Binois, D. Ginsbourger, O. Roustant (2015) <doi:10.1016/j.ejor.2014.07.032>, among others.
Author: Manuel Lopez-Ibanez [aut, cre] ,
Carlos Fonseca [ctb],
Luis Paquete [ctb],
Andreia P. Guerreiro [ctb],
Mickael Binois [ctb],
Michael H. Buselli [cph] ,
Wessel Dankers [cph] ,
NumPy Developers [cph] ,
Jean-Sebastien Roy [cph] ,
Makoto Matsumoto [cph] [...truncated...]
Maintainer: Manuel Lopez-Ibanez <manuel.lopez-ibanez@manchester.ac.uk>
Diff between moocore versions 0.1.9 dated 2025-11-01 and 0.1.10 dated 2025-11-25
DESCRIPTION | 10 +++--- MD5 | 36 +++++++++++----------- NEWS.md | 5 +++ build/partial.rdb |binary man/moocore-package.Rd | 2 - src/Rcommon.h | 2 - src/Rmoocore.c | 2 - src/libmoocore/Makefile | 1 src/libmoocore/README.md | 59 ++++++++++++++++++++++--------------- src/libmoocore/common.h | 10 ++++-- src/libmoocore/config.h | 6 +++ src/libmoocore/eaf.c | 2 - src/libmoocore/epsilon.c | 2 - src/libmoocore/gcc.mk | 6 +++ src/libmoocore/hv_contrib.c | 10 +++--- src/libmoocore/hv_priv.h | 2 - src/libmoocore/libmoocore-config.h | 2 - src/libmoocore/nondominated.h | 2 - src/libmoocore/whv.c | 19 ++++++----- 19 files changed, 106 insertions(+), 72 deletions(-)
Title: Nonparametric Change Point Detection for Multivariate Time
Series
Description: Implements the nonparametric moving sum procedure for detecting
changes in the joint characteristic function (NP-MOJO) for multiple change
point detection in multivariate time series. See McGonigle, E. T., Cho, H.
(2025) <doi:10.1093/biomet/asaf024> for description of the NP-MOJO methodology.
Author: Euan T. McGonigle [aut, cre],
Haeran Cho [aut]
Maintainer: Euan T. McGonigle <e.t.mcgonigle@soton.ac.uk>
Diff between CptNonPar versions 0.3.0 dated 2025-04-16 and 0.3.1 dated 2025-11-25
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/multiscale.np.mojo.R | 15 +++++++++++++-- R/np.mojo.R | 11 +++++++++-- R/np.mojo.multilag.R | 17 ++++++++++++++--- R/utils.R | 3 ++- README.md | 7 ++----- man/multiscale.np.mojo.Rd | 4 ++++ man/np.mojo.Rd | 6 +++++- man/np.mojo.multilag.Rd | 4 ++++ 11 files changed, 70 insertions(+), 27 deletions(-)
Title: Revisiting Base Rapply
Description: The minimal 'rrapply'-package contains a single function rrapply(), providing an extended implementation of 'R'-base rapply() by allowing to recursively apply a function to elements of a nested list based on a general condition function and including the possibility to prune or aggregate nested list elements from the result. In addition, special arguments can be supplied to access the name, location, parents and siblings in the nested list of the element under evaluation. The rrapply() function builds upon rapply()'s native 'C' implementation and requires no other package dependencies.
Author: Joris Chau [aut, cre]
Maintainer: Joris Chau <joris.chau@openanalytics.eu>
Diff between rrapply versions 1.2.7 dated 2024-06-26 and 1.2.8 dated 2025-11-25
DESCRIPTION | 10 - MD5 | 14 +- NEWS.md | 4 build/vignette.rds |binary inst/doc/rrapply_cheatsheet.pdf |binary inst/unit_tests/unit_test_rrapply.R | 235 ++++++++++++++++++++++-------------- src/flatten.c | 2 src/list.c | 11 + 8 files changed, 174 insertions(+), 102 deletions(-)
Title: Processing of Model Parameters
Description: Utilities for processing the parameters of various
statistical models. Beyond computing p values, CIs, and other indices
for a wide variety of models (see list of supported models using the
function 'insight::supported_models()'), this package implements
features like bootstrapping or simulating of parameters and models,
feature reduction (feature extraction and variable selection) as well
as functions to describe data and variable characteristics (e.g.
skewness, kurtosis, smoothness or distribution).
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Soeren Hoejsgaard [aut],
Brenton M. Wiernik [aut] ,
Zen J. Lau [ctb],
Vincent Arel-Bundock [ctb] ,
Jeffrey Girard [ctb] ,
Christina Maimone [re [...truncated...]
Maintainer: Daniel Luedecke <officialeasystats@gmail.com>
Diff between parameters versions 0.28.2 dated 2025-09-10 and 0.28.3 dated 2025-11-25
DESCRIPTION | 16 MD5 | 160 - NAMESPACE | 28 NEWS.md | 16 R/1_model_parameters.R | 135 - R/ci_generic.R | 88 R/ci_kenward.R | 42 R/ci_satterthwaite.R | 7 R/dof.R | 46 R/dof_kenward.R | 290 --- R/dof_satterthwaite.R | 14 R/equivalence_test.R | 103 + R/extract_parameters.R | 378 ++- R/format_parameters.R | 123 - R/methods_glmmTMB.R | 231 +- R/methods_hclust.R | 19 R/methods_lcmm.R |only R/methods_modelbased.R |only R/methods_survey.R | 66 R/n_clusters_easystats.R | 54 R/p_value_kenward.R | 91 R/parameters_type.R | 88 R/pool_parameters.R | 245 +- R/standard_error_kenward.R | 31 R/standardize_info.R | 6 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 2 man/bootstrap_model.Rd | 2 man/bootstrap_parameters.Rd | 2 man/ci.default.Rd | 2 man/cluster_discrimination.Rd | 2 man/compare_parameters.Rd | 2 man/convert_efa_to_cfa.Rd | 2 man/degrees_of_freedom.Rd | 2 man/display.parameters_model.Rd | 4 man/dominance_analysis.Rd | 2 man/equivalence_test.lm.Rd | 2 man/factor_scores.Rd | 2 man/get_scores.Rd | 2 man/model_parameters.BFBayesFactor.Rd | 2 man/model_parameters.aov.Rd | 4 man/model_parameters.brmsfit.Rd | 2 man/model_parameters.compare.loo.Rd | 2 man/model_parameters.default.Rd | 2 man/model_parameters.glmmTMB.Rd | 2 man/model_parameters.hclust.Rd | 19 man/model_parameters.mira.Rd | 2 man/model_parameters.mlm.Rd | 2 man/model_parameters.principal.Rd | 2 man/model_parameters.zcpglm.Rd | 2 man/n_clusters.Rd | 8 man/n_factors.Rd | 2 man/p_direction.lm.Rd | 2 man/p_function.Rd | 2 man/p_significance.lm.Rd | 2 man/p_value.Rd | 2 man/p_value_kenward.Rd | 9 man/pool_parameters.Rd | 2 man/principal_components.Rd | 2 man/print.compare_parameters.Rd | 2 man/print.parameters_model.Rd | 2 man/select_parameters.Rd | 2 man/standard_error.Rd | 2 man/standardize_info.Rd | 2 man/standardize_parameters.Rd | 4 tests/testthat/test-Hmisc.R | 2 tests/testthat/test-glmmTMB.R | 1897 +++++++++++--------- tests/testthat/test-lcmm.R |only tests/testthat/test-model_parameters.bracl.R | 39 tests/testthat/test-model_parameters.fixest_multi.R | 8 tests/testthat/test-model_parameters.mclogit.R | 61 tests/testthat/test-model_parameters.mediate.R | 91 tests/testthat/test-model_parameters_df_method.R | 221 -- tests/testthat/test-model_parameters_std_mixed.R | 89 tests/testthat/test-polr.R | 9 tests/testthat/test-posterior.R | 39 tests/testthat/test-printing-stan.R | 132 - tests/testthat/test-random_effects_ci-glmmTMB.R | 320 ++- tests/testthat/test-random_effects_ci.R | 568 ++++- tests/testthat/test-robust.R | 34 tests/testthat/test-standardize_parameters.R | 15 tests/testthat/test-svyolr.R |only 83 files changed, 3467 insertions(+), 2449 deletions(-)
Title: Historical, Relational, and Tail Anomaly-Detection Algorithms
Description: The presence of outliers in a dataset can substantially bias the
results of statistical analyses. To correct for outliers, micro edits are
manually performed on all records. A set of constraints and decision rules
is typically used to aid the editing process. However, straightforward
decision rules might overlook anomalies arising from disruption of linear
relationships. Computationally efficient methods are provided to
identify historical, tail, and relational anomalies at the data-entry
level (Sartore et al., 2024; <doi:10.6339/24-JDS1136>). A score statistic
is developed for each anomaly type, using a distribution-free approach
motivated by the Bienaymé-Chebyshev's inequality, and fuzzy logic is used
to detect cellwise outliers resulting from different types of anomalies.
Each data entry is individually scored and individual scores are combined
into a final score to determine anomalous entries. In contrast to fuzzy
logic, Bayesian bootstrap and a Bayesian test based on empiric [...truncated...]
Author: Luca Sartore [aut] ,
Luca Sartore [cre] ,
Lu Chen [aut] ,
Justin van Wart [aut],
Andrew Dau [aut] ,
Valbona Bejleri [aut]
Maintainer: Luca Sartore <drwolf85@gmail.com>
Diff between HRTnomaly versions 25.2.25 dated 2025-02-26 and 25.11.22 dated 2025-11-25
ChangeLog | 60 ++++++++++++++++++++++++ DESCRIPTION | 8 +-- MD5 | 65 +++++++++++++------------- R/bayesHRT.R | 41 ++++++++++++++++ R/bayeswise.R | 53 +++++++++++++++++++++ R/bootHRT.R | 47 +++++++++++++++++++ R/cellwise.R | 55 ++++++++++++++++++++++ R/class_check.R | 33 +++++++++++++ R/dif.R | 35 ++++++++++++++ R/fuzzyHRT.R | 41 ++++++++++++++++ R/gif.R | 35 ++++++++++++++ R/pif.R |only R/print.checkwise.R | 33 +++++++++++++ R/setCores.R | 31 ++++++++++++ R/zzz.R | 2 README.md | 6 ++ THANKS | 6 ++ inst/INSTALL.md | 4 - man/bayesHRT.Rd | 112 ++++++++++++++++++++++----------------------- man/bayeswise.Rd | 60 +++++++++++++----------- man/bootHRT.Rd | 120 +++++++++++++++++++++++++------------------------ man/cellwise.Rd | 63 ++++++++++++++----------- man/class_check.Rd | 55 +++++++++++----------- man/dif.Rd | 100 +++++++++++++++++++++------------------- man/fuzzyHRT.Rd | 111 +++++++++++++++++++++------------------------ man/gif.Rd | 100 +++++++++++++++++++++------------------- man/pif.Rd |only man/print.checkwise.Rd | 54 +++++++++++----------- man/setCores.Rd | 43 ++++++++--------- src/cellwise.c | 71 +++++++++++++--------------- src/dif.c | 36 ++++++++------ src/fuzzyHRT.c | 20 ++++---- src/gif.c | 26 ++++++---- src/pif.c |only src/post_thresh.c | 2 35 files changed, 1014 insertions(+), 514 deletions(-)
Title: Volumetric Analysis using Graphic Double Integration
Description: Tools implementing an automated version of the graphic double integration technique (GDI) for volume implementation, and some other related utilities for paleontological image-analysis. GDI was first employed by Jerison (1973) <ISBN:9780323141086> and Hurlburt (1999) <doi:10.1080/02724634.1999.10011145> and is primarily used for volume or mass estimation of (extinct) animals. The package 'gdi' aims to make this technique as convenient and versatile as possible. The core functions of 'gdi' provide utilities for automatically measuring diameters from digital silhouettes provided as image files and calculating volume via graphic double integration with simple elliptical, superelliptical (following Motani 2001 <doi:10.1666/0094-8373(2001)027%3C0735:EBMFST%3E2.0.CO;2>) or complex cross-sectional geometries (see also Zhao 2024 <doi:10.7717/peerj.17479>). Additionally, the package provides functions for estimating the center of mass position (COM), the moment of inerti [...truncated...]
Author: Darius Nau [aut, cre]
Maintainer: Darius Nau <dariusnau@gmx.at>
Diff between gdi versions 1.6.0 dated 2024-04-21 and 1.10.0 dated 2025-11-25
DESCRIPTION | 16 - MD5 | 33 ++-- NAMESPACE | 4 NEWS.md | 27 +++ R/gdi.r | 352 ++++++++++++++++++++++++++++++++++++++++--- build/vignette.rds |binary inst/doc/estimating_COM.R | 8 inst/doc/estimating_COM.html | 103 +++++++----- inst/doc/gdi.R | 2 inst/doc/gdi.html | 96 +++++------ inst/doc/misc.R | 4 inst/doc/misc.html | 2 man/expandConvexHull.Rd |only man/gdi.Rd | 6 man/inter_corr.Rd |only man/plot_sil.Rd | 3 man/rotI.Rd | 2 man/sellipse.coo.Rd | 2 man/transfer_ratio.Rd |only 19 files changed, 517 insertions(+), 143 deletions(-)
Title: Deep Compositional Spatial Models
Description: Deep compositional spatial models are standard spatial covariance
models coupled with an injective warping function of the spatial
domain. The warping function is constructed through a composition
of multiple elemental injective functions in a deep-learning
framework. The package implements two cases for the univariate setting; first,
when these warping functions are known up to some weights that
need to be estimated, and, second, when the weights in each layer are random.
In the multivariate setting only the former case is available.
Estimation and inference is done using `tensorflow`, which makes use of
graphics processing units.
For more details see Zammit-Mangion et al. (2022) <doi:10.1080/01621459.2021.1887741>,
Vu et al. (2022) <doi:10.5705/ss.202020.0156>,
Vu et al. (2023) <doi:10.1016/j.spasta.2023.100742>, and
Shao et al. (2025) <doi:10.48550/arXiv.2505.12548>.
Author: Andrew Zammit-Mangion [aut],
Quan Vu [aut, cre],
Xuanjie Shao [aut]
Maintainer: Quan Vu <quanvustats@gmail.com>
Diff between deepspat versions 0.3.0 dated 2025-11-12 and 0.3.1 dated 2025-11-25
DESCRIPTION | 17 MD5 | 58 - NEWS.md | 10 R/GS_rPP.R | 878 ++++++++++---------- R/NMLL.R | 9 R/NMLL_GP.R | 6 R/deepspat_main.R | 532 ++++++------ R/deepspat_main_GP.R | 712 ++++++++-------- R/deepspat_main_MSP.R | 833 +++++++++---------- R/deepspat_main_bivar_GP.R | 1724 ++++++++++++++++++++-------------------- R/deepspat_main_nn_GP.R | 670 +++++++-------- R/deepspat_main_nn_ST_GP.R | 1094 ++++++++++++------------- R/deepspat_main_rPP.R | 747 ++++++++--------- R/deepspat_main_trivar_GP.R | 1854 ++++++++++++++++++++++---------------------- R/predict.deepspat.R | 2 R/summary.deepspat_MSP.R | 554 ++++++------- R/summary.deepspat_rPP.R | 546 ++++++------ R/utils_tf.R | 6 R/zzz.R | 1 README.md | 2 man/deepspat.Rd | 8 man/deepspat_GP.Rd | 2 man/deepspat_MSP.Rd | 11 man/deepspat_bivar_GP.Rd | 2 man/deepspat_nn_GP.Rd | 2 man/deepspat_nn_ST_GP.Rd | 2 man/deepspat_rPP.Rd | 8 man/deepspat_trivar_GP.Rd | 2 man/summary.deepspat_MSP.Rd | 6 man/summary.deepspat_rPP.Rd | 6 30 files changed, 5164 insertions(+), 5140 deletions(-)
Title: Fast and Beautiful Interactive Visualization for 'Markdown' and
'Shiny'
Description: Apache licensed alternative to 'Highcharter' which provides
functions for both fast and beautiful interactive visualization for 'Markdown'
and 'Shiny'.
Author: Mauricio Vargas Sepulveda [aut, cre, cph] ,
John Coene [aut],
Ariel Alvarado [ctb],
Sylvain Lesage [ctb],
Curran Kelleher [ctb],
Fernando Becerra [ctb],
Natural Earth [dtc],
R Consortium [fnd]
Maintainer: Mauricio Vargas Sepulveda <m.vargas.sepulveda@gmail.com>
Diff between d3po versions 1.0.1 dated 2025-11-23 and 1.0.2 dated 2025-11-25
DESCRIPTION | 6 +- MD5 | 8 +- NEWS.md | 4 + R/api.R | 7 ++ inst/doc/examples.html | 140 ++++++++++++++++++++++++------------------------- 5 files changed, 88 insertions(+), 77 deletions(-)
Title: 'shiny' Application for Statistical Test Assumption Checking and
Guidance
Description: A 'shiny' application to assess statistical assumptions and guide users toward appropriate tests. The app is designed for researchers with minimal statistical training and provides diagnostics, plots, and test recommendations for a wide range of analyses. Many statistical assumptions are implemented using the package 'rstatix' (Kassambara, 2019) <doi:10.32614/CRAN.package.rstatix> and 'performance' (Lüdecke et al., 2021) <doi:10.21105/joss.03139>.
Author: Ahmed Bargheet [aut, cre]
Maintainer: Ahmed Bargheet <ahmed.bargheet@yahoo.com>
Diff between AssumpSure versions 1.1.3 dated 2025-11-12 and 1.1.4 dated 2025-11-25
AssumpSure-1.1.3/AssumpSure/R/stat_tests.R |only AssumpSure-1.1.4/AssumpSure/DESCRIPTION | 26 +- AssumpSure-1.1.4/AssumpSure/MD5 | 13 - AssumpSure-1.1.4/AssumpSure/NAMESPACE | 9 AssumpSure-1.1.4/AssumpSure/NEWS.md | 10 + AssumpSure-1.1.4/AssumpSure/R/launch_app.R | 2 AssumpSure-1.1.4/AssumpSure/R/zzz.R | 2 AssumpSure-1.1.4/AssumpSure/inst/app/app.R | 277 +++++++++++++++-------------- 8 files changed, 180 insertions(+), 159 deletions(-)
Title: Modelling Multivariate Data with Additive Bayesian Networks
Description: The 'abn' R package facilitates Bayesian network analysis, a
probabilistic graphical model that derives from empirical data a
directed acyclic graph (DAG). This DAG describes the dependency
structure between random variables. The R package 'abn' provides
routines to help determine optimal Bayesian network models for a given
data set. These models are used to identify statistical dependencies
in messy, complex data. Their additive formulation is equivalent to
multivariate generalised linear modelling, including mixed models with
independent and identically distributed (iid) random effects. The core
functionality of the 'abn' package revolves around model selection,
also known as structure discovery. It supports both exact and
heuristic structure learning algorithms and does not restrict the data
distribution of parent-child combinations, providing flexibility in
model creation and analysis. The 'abn' package uses Laplace
approximations for metric estimation and includes wrappers to the
[...truncated...]
Author: Matteo Delucchi [aut, cre] ,
Reinhard Furrer [aut] ,
Gilles Kratzer [aut] ,
Fraser Iain Lewis [aut] ,
Jonas I. Liechti [ctb] ,
Marta Pittavino [ctb] ,
Kalina Cherneva [ctb]
Maintainer: Matteo Delucchi <matteo.delucchi@math.uzh.ch>
Diff between abn versions 3.1.9 dated 2025-06-26 and 3.1.12 dated 2025-11-25
abn-3.1.12/abn/DESCRIPTION | 14 abn-3.1.12/abn/MD5 | 99 - abn-3.1.12/abn/NAMESPACE | 8 abn-3.1.12/abn/R/RcppExports.R | 54 abn-3.1.12/abn/R/abn-methods.R | 46 abn-3.1.12/abn/R/build_score_cache.R | 4 abn-3.1.12/abn/R/build_score_cache_mle.R | 62 abn-3.1.12/abn/R/export.R |only abn-3.1.12/abn/R/fitabn.R | 3 abn-3.1.12/abn/R/fitabn_mle.R | 312 ++- abn-3.1.12/abn/README.md | 2 abn-3.1.12/abn/build/vignette.rds |binary abn-3.1.12/abn/configure | 18 abn-3.1.12/abn/configure.ac | 2 abn-3.1.12/abn/inst/CITATION | 7 abn-3.1.12/abn/inst/doc/data_simulation.Rmd | 6 abn-3.1.12/abn/inst/doc/data_simulation.html | 577 ++++-- abn-3.1.12/abn/inst/doc/mixed_effect_BN_model.html | 841 ++++++---- abn-3.1.12/abn/inst/doc/model_specification.html | 509 ++++-- abn-3.1.12/abn/inst/doc/multiprocessing.html | 560 ++++-- abn-3.1.12/abn/inst/doc/parameter_learning.html | 541 ++++-- abn-3.1.12/abn/inst/doc/quick_start_example.html | 473 ++++- abn-3.1.12/abn/inst/doc/structure_learning.html | 458 ++++- abn-3.1.12/abn/man/as.data.frame.abnDag.Rd |only abn-3.1.12/abn/man/build.control.Rd | 4 abn-3.1.12/abn/man/export_abnFit.Rd |only abn-3.1.12/abn/man/export_abnFit_bayes.Rd |only abn-3.1.12/abn/man/export_abnFit_mle.Rd |only abn-3.1.12/abn/man/export_abnFit_mle_arcs.Rd |only abn-3.1.12/abn/man/export_abnFit_mle_grouped_nodes.Rd |only abn-3.1.12/abn/man/export_abnFit_mle_nodes.Rd |only abn-3.1.12/abn/man/export_to_json.Rd |only abn-3.1.12/abn/man/extract_parameters_by_distribution.Rd |only abn-3.1.12/abn/man/extract_parameters_mixed_effects.Rd |only abn-3.1.12/abn/man/extract_states_from_data.Rd |only abn-3.1.12/abn/man/fit.control.Rd | 4 abn-3.1.12/abn/man/fitAbn.Rd | 5 abn-3.1.12/abn/man/get_link_function.Rd |only abn-3.1.12/abn/src/RcppExports.cpp | 84 abn-3.1.12/abn/src/irls_binomial_fast.cpp | 12 abn-3.1.12/abn/src/irls_binomial_fast_br.cpp | 15 abn-3.1.12/abn/src/irls_gaussian_fast.cpp | 9 abn-3.1.12/abn/src/irls_poisson_fast.cpp | 232 +- abn-3.1.12/abn/tests/testthat/helper-export.R |only abn-3.1.12/abn/tests/testthat/test-abn-methods.R | 23 abn-3.1.12/abn/tests/testthat/test-abn-toolbox.R | 44 abn-3.1.12/abn/tests/testthat/test-build_score_cache_mle.R | 144 + abn-3.1.12/abn/tests/testthat/test-export.R |only abn-3.1.12/abn/tests/testthat/test-fitabn_mle.R | 127 + abn-3.1.12/abn/tests/testthat/testdata/abnfit_mle_groups.Rdata |only abn-3.1.12/abn/tests/testthat/testdata/n_250_k_2_groups_Even_mp_7_nodedists_Balanced_s_04_graph1.Rdata |only abn-3.1.12/abn/tests/testthat/testdata/n_250_k_2_groups_Even_p_6_nodedists_Balanced_s_04_graph1.rda |only abn-3.1.12/abn/vignettes/benchmarkBoxPlot-1.png |binary abn-3.1.12/abn/vignettes/data_simulation.Rmd | 6 abn-3.1.9/abn/man/factorial.Rd |only abn-3.1.9/abn/man/factorial_fast.Rd |only abn-3.1.9/abn/man/irls_binomial_cpp.Rd |only abn-3.1.9/abn/man/irls_binomial_cpp_br.Rd |only abn-3.1.9/abn/man/irls_gaussian_cpp.Rd |only abn-3.1.9/abn/man/irls_poisson_cpp.Rd |only abn-3.1.9/abn/src/irls_binomial.cpp |only abn-3.1.9/abn/src/irls_binomial_br.cpp |only abn-3.1.9/abn/src/irls_gaussian.cpp |only abn-3.1.9/abn/src/irls_poisson.cpp |only abn-3.1.9/abn/tests/testthat/Rplots.pdf |only 65 files changed, 3774 insertions(+), 1531 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-10-26 0.5.0
2025-08-19 0.4.1
2025-05-11 0.4.0
2025-03-31 0.3.0
Title: Graphical Output in Terminals
Description: Defines a graphics device and functions for graphical output in
terminal emulators that support graphical output. Currently terminals that
support the Terminal Graphics Protocol
(<https://sw.kovidgoyal.net/kitty/graphics-protocol/>) and terminal supporting Sixel
(<https://en.wikipedia.org/wiki/Sixel>) are supported.
Author: Jan van der Laan [aut, cre] ,
Doug Kelkhoff [ctb]
Maintainer: Jan van der Laan <r@eoos.dds.nl>
Diff between terminalgraphics versions 0.1.1 dated 2025-08-28 and 0.2.0 dated 2025-11-25
terminalgraphics-0.1.1/terminalgraphics/R/is_kitty.R |only terminalgraphics-0.1.1/terminalgraphics/man/is_kitty.Rd |only terminalgraphics-0.2.0/terminalgraphics/DESCRIPTION | 33 +++- terminalgraphics-0.2.0/terminalgraphics/MD5 | 57 ++++--- terminalgraphics-0.2.0/terminalgraphics/NAMESPACE | 2 terminalgraphics-0.2.0/terminalgraphics/NEWS.md |only terminalgraphics-0.2.0/terminalgraphics/R/RcppExports.R | 4 terminalgraphics-0.2.0/terminalgraphics/R/device_manager.R | 24 ++- terminalgraphics-0.2.0/terminalgraphics/R/has_tgp_support.R | 46 +++++- terminalgraphics-0.2.0/terminalgraphics/R/is_terminal.R |only terminalgraphics-0.2.0/terminalgraphics/R/kitty_colors.R | 19 +- terminalgraphics-0.2.0/terminalgraphics/R/png2tgp.R | 6 terminalgraphics-0.2.0/terminalgraphics/R/raster2tgp.R | 73 ++++++++-- terminalgraphics-0.2.0/terminalgraphics/R/sixel.R | 17 +- terminalgraphics-0.2.0/terminalgraphics/R/sysdata.rda |only terminalgraphics-0.2.0/terminalgraphics/R/term_color_mode.R |only terminalgraphics-0.2.0/terminalgraphics/R/term_colors.R | 60 ++++++-- terminalgraphics-0.2.0/terminalgraphics/R/term_dim.R | 5 terminalgraphics-0.2.0/terminalgraphics/R/term_height.R | 3 terminalgraphics-0.2.0/terminalgraphics/R/term_width.R | 3 terminalgraphics-0.2.0/terminalgraphics/R/tgp.R | 35 +++- terminalgraphics-0.2.0/terminalgraphics/R/with_tgp_protocol.R |only terminalgraphics-0.2.0/terminalgraphics/README.md | 57 ++++++- terminalgraphics-0.2.0/terminalgraphics/man/is_terminal.Rd |only terminalgraphics-0.2.0/terminalgraphics/man/sixel.Rd | 9 - terminalgraphics-0.2.0/terminalgraphics/man/term_color_mode.Rd |only terminalgraphics-0.2.0/terminalgraphics/man/term_colors.Rd | 15 +- terminalgraphics-0.2.0/terminalgraphics/man/tgp.Rd | 9 - terminalgraphics-0.2.0/terminalgraphics/man/tgp_diacritics.Rd |only terminalgraphics-0.2.0/terminalgraphics/src/RcppExports.cpp | 14 + terminalgraphics-0.2.0/terminalgraphics/src/query_color_mode.cpp |only terminalgraphics-0.2.0/terminalgraphics/src/query_tgp_support.cpp | 67 ++------- terminalgraphics-0.2.0/terminalgraphics/src/screen_dim.cpp | 47 ++++++ terminalgraphics-0.2.0/terminalgraphics/src/utils.cpp |only terminalgraphics-0.2.0/terminalgraphics/src/utils.h |only terminalgraphics-0.2.0/terminalgraphics/tests |only 36 files changed, 426 insertions(+), 179 deletions(-)
More information about terminalgraphics at CRAN
Permanent link
Title: Times and Dates from 'S-PLUS'
Description: A collection of classes and methods for working with
times and dates. The code was originally available in 'S-PLUS'.
Author: Stephen Kaluzny [aut, cre],
TIBCO Software Inc. [aut, cph]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Diff between splusTimeDate versions 2.5.8 dated 2024-09-12 and 2.5.9 dated 2025-11-25
DESCRIPTION | 6 +++--- LICENSE | 2 +- MD5 | 16 +++++++++------- man/format.timeDate.Rd | 1 + src/sptd_utils.c |only src/sptd_utils.h |only src/timeFormat.c | 6 ++++-- src/timeObj.c | 6 ++++-- src/timeSpanFormat.c | 10 ++++++---- src/zoneObj.c | 11 +++++++++-- 10 files changed, 37 insertions(+), 21 deletions(-)
Title: Statistical Inference for Partially Observed Markov Processes
Description: Tools for data analysis with partially observed Markov process (POMP) models (also known as stochastic dynamical systems, hidden Markov models, and nonlinear, non-Gaussian, state-space models). The package provides facilities for implementing POMP models, simulating them, and fitting them to time series data by a variety of frequentist and Bayesian methods. It is also a versatile platform for implementation of inference methods for general POMP models.
Author: Aaron A. King [aut, cre] ,
Edward L. Ionides [aut] ,
Carles Breto [aut] ,
Stephen P. Ellner [ctb] ,
Matthew J. Ferrari [ctb] ,
Sebastian Funk [ctb] ,
Steven G. Johnson [ctb],
Bruce E. Kendall [ctb] ,
Michael Lavine [ctb],
Dao Nguyen [ctb] ,
Eamon B. [...truncated...]
Maintainer: Aaron A. King <kingaa@umich.edu>
Diff between pomp versions 6.3 dated 2025-05-09 and 6.4 dated 2025-11-25
DESCRIPTION | 10 +- MD5 | 170 +++++++++++++++++++++---------------------- R/coef.R | 2 R/dmeasure_spec.R | 2 R/dprocess_spec.R | 2 build/partial.rdb |binary data/LondonYorke.rda |binary data/bsflu.rda |binary data/ebolaWA2014.rda |binary data/ewcitmeas.rda |binary data/ewmeas.rda |binary inst/NEWS | 4 + inst/NEWS.Rd | 5 + inst/doc/index.html | 33 +++++--- man/abc.Rd | 2 man/accumvars.Rd | 2 man/basic_components.Rd | 2 man/basic_probes.Rd | 2 man/betabinom.Rd | 2 man/blowflies.Rd | 4 - man/bsflu.Rd | 2 man/bsmc2.Rd | 2 man/childhood.Rd | 4 - man/cond_logLik.Rd | 2 man/covariate_table.Rd | 2 man/csnippet.Rd | 2 man/dacca.Rd | 4 - man/dinit.Rd | 2 man/dinit_spec.Rd | 2 man/dmeasure.Rd | 2 man/dmeasure_spec.Rd | 4 - man/dprior.Rd | 2 man/dprocess.Rd | 2 man/dprocess_spec.Rd | 4 - man/ebola.Rd | 4 - man/eff_sample_size.Rd | 2 man/elementary_algorithms.Rd | 2 man/emeasure.Rd | 2 man/emeasure_spec.Rd | 2 man/eulermultinom.Rd | 2 man/filter_mean.Rd | 2 man/filter_traj.Rd | 2 man/flow.Rd | 4 - man/gompertz.Rd | 2 man/kalman.Rd | 4 - man/mif2.Rd | 2 man/nlf.Rd | 2 man/ou2.Rd | 2 man/parameter_trans.Rd | 2 man/partrans.Rd | 2 man/parus.Rd | 2 man/pfilter.Rd | 4 - man/pmcmc.Rd | 2 man/pomp-package.Rd | 6 - man/pomp.Rd | 2 man/pomp_examp.Rd | 2 man/pred_mean.Rd | 2 man/pred_var.Rd | 2 man/prior_spec.Rd | 2 man/probe.Rd | 4 - man/probe_match.Rd | 2 man/ricker.Rd | 2 man/rinit.Rd | 2 man/rinit_spec.Rd | 2 man/rmeasure.Rd | 2 man/rmeasure_spec.Rd | 2 man/rprior.Rd | 2 man/rprocess.Rd | 2 man/rprocess_spec.Rd | 2 man/rw2.Rd | 2 man/saved_states.Rd | 2 man/simulate.Rd | 2 man/sir.Rd | 2 man/skeleton.Rd | 4 - man/skeleton_spec.Rd | 4 - man/spect.Rd | 4 - man/spect_match.Rd | 2 man/traj_match.Rd | 2 man/trajectory.Rd | 4 - man/transformations.Rd | 2 man/userdata.Rd | 2 man/verhulst.Rd | 2 man/vmeasure.Rd | 2 man/vmeasure_spec.Rd | 2 man/workhorses.Rd | 2 man/wpfilter.Rd | 4 - 86 files changed, 214 insertions(+), 192 deletions(-)
Title: Capture-Mark-Recapture Analysis using Multiple Non-Invasive
Marks
Description: Traditional and spatial capture-mark-recapture analysis with
multiple non-invasive marks. The models implemented in 'multimark' combine
encounter history data arising from two different non-invasive "marks",
such as images of left-sided and right-sided pelage patterns of bilaterally
asymmetrical species, to estimate abundance and related demographic
parameters while accounting for imperfect detection. Bayesian models are
specified using simple formulae and fitted using Markov chain Monte Carlo.
Addressing deficiencies in currently available software, 'multimark' also
provides a user-friendly interface for performing Bayesian multimodel
inference using non-spatial or spatial capture-recapture data consisting of a single
conventional mark or multiple non-invasive marks. See McClintock (2015) <doi:10.1002/ece3.1676> and Maronde et al. (2020) <doi:10.1002/ece3.6990>.
Author: Brett T. McClintock [aut, cre],
Acho Arnold [ctb, cph] ,
Barry Brown [ctb] ,
James Lovato [ctb] ,
John Burkardt [ctb] ,
Cleve Moler [ctb] ,
Arjun Gopalaswamy [ctb]
Maintainer: Brett T. McClintock <brett.mcclintock@noaa.gov>
Diff between multimark versions 2.1.6 dated 2023-03-10 and 2.1.7 dated 2025-11-25
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 1 - NEWS | 7 +++++++ R/CJS.R | 2 +- R/Closed.R | 2 +- R/ClosedSCR.R | 2 +- README.md | 2 +- 8 files changed, 23 insertions(+), 17 deletions(-)
Title: Performance Measures for 'mlr3'
Description: Implements multiple performance measures for supervised
learning. Includes over 40 measures for regression and
classification. Additionally, meta information about the performance
measures can be queried, e.g. what the best and worst possible
performances scores are.
Author: Michel Lang [aut] ,
Martin Binder [ctb],
Marc Becker [cre, aut] ,
Lona Koers [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3measures versions 1.1.0 dated 2025-09-04 and 1.2.0 dated 2025-11-25
DESCRIPTION | 6 +++--- MD5 | 14 +++++++++----- NAMESPACE | 2 ++ NEWS.md | 4 ++++ R/binary_bbrier.R | 15 ++++++++++++++- R/classif_logloss.R | 19 ++++++++++++++++++- man/obs_logloss.Rd |only man/se_binary.Rd |only tests/testthat/test_binary_bbrier.R |only tests/testthat/test_classif_logloss.R |only 10 files changed, 50 insertions(+), 10 deletions(-)
Title: Grouped Hyper Data Frame: An Extension of Hyper Data Frame
Description: An S3 class 'groupedHyperframe' that
inherits from hyper data frame. Batch
processes on point-pattern hyper column.
Aggregation of function-value-table hyper
column(s) and numeric hyper column(s) over a
nested grouping structure.
Author: Tingting Zhan [aut, cre] ,
Inna Chervoneva [ctb]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between groupedHyperframe versions 0.3.1 dated 2025-10-30 and 0.3.2 dated 2025-11-25
groupedHyperframe-0.3.1/groupedHyperframe/R/summary_fv.R |only groupedHyperframe-0.3.1/groupedHyperframe/R/trapz.R |only groupedHyperframe-0.3.1/groupedHyperframe/inst/doc/groupedHyperframe.R |only groupedHyperframe-0.3.1/groupedHyperframe/inst/doc/groupedHyperframe.html |only groupedHyperframe-0.3.1/groupedHyperframe/inst/doc/groupedHyperframe.qmd |only groupedHyperframe-0.3.1/groupedHyperframe/man/keyval.fv.Rd |only groupedHyperframe-0.3.1/groupedHyperframe/man/summary.fvlist.Rd |only groupedHyperframe-0.3.1/groupedHyperframe/man/summary_fv.Rd |only groupedHyperframe-0.3.1/groupedHyperframe/man/trapz_fv.Rd |only groupedHyperframe-0.3.1/groupedHyperframe/vignettes/groupedHyperframe.qmd |only groupedHyperframe-0.3.2/groupedHyperframe/DESCRIPTION | 6 groupedHyperframe-0.3.2/groupedHyperframe/MD5 | 58 - groupedHyperframe-0.3.2/groupedHyperframe/NAMESPACE | 21 groupedHyperframe-0.3.2/groupedHyperframe/R/Defunct.R | 22 groupedHyperframe-0.3.2/groupedHyperframe/R/aggregate_marks.R | 26 groupedHyperframe-0.3.2/groupedHyperframe/R/append_marks.R | 7 groupedHyperframe-0.3.2/groupedHyperframe/R/fvlist.R | 532 ++++------ groupedHyperframe-0.3.2/groupedHyperframe/R/interpolation.fv.R | 24 groupedHyperframe-0.3.2/groupedHyperframe/R/key1val.R | 87 + groupedHyperframe-0.3.2/groupedHyperframe/R/lastLegal.R | 104 + groupedHyperframe-0.3.2/groupedHyperframe/R/loess.fv.R | 11 groupedHyperframe-0.3.2/groupedHyperframe/R/vignette.R | 32 groupedHyperframe-0.3.2/groupedHyperframe/R/vtrapz.R | 298 ++++- groupedHyperframe-0.3.2/groupedHyperframe/build/vignette.rds |binary groupedHyperframe-0.3.2/groupedHyperframe/inst/doc/intro.R |only groupedHyperframe-0.3.2/groupedHyperframe/inst/doc/intro.html |only groupedHyperframe-0.3.2/groupedHyperframe/inst/doc/intro.qmd |only groupedHyperframe-0.3.2/groupedHyperframe/man/aggregate_marks.Rd | 6 groupedHyperframe-0.3.2/groupedHyperframe/man/cumvtrapz.Rd |only groupedHyperframe-0.3.2/groupedHyperframe/man/defunct.Rd | 11 groupedHyperframe-0.3.2/groupedHyperframe/man/fv2theo.Rd | 11 groupedHyperframe-0.3.2/groupedHyperframe/man/interpolation_fv.Rd | 6 groupedHyperframe-0.3.2/groupedHyperframe/man/keyval.Rd |only groupedHyperframe-0.3.2/groupedHyperframe/man/loess.fv.Rd | 4 groupedHyperframe-0.3.2/groupedHyperframe/man/visualize_vtrapz.Rd | 10 groupedHyperframe-0.3.2/groupedHyperframe/man/vtrapz.Rd | 26 groupedHyperframe-0.3.2/groupedHyperframe/vignettes/groupedHyperframe.bib | 25 groupedHyperframe-0.3.2/groupedHyperframe/vignettes/intro.qmd |only 38 files changed, 780 insertions(+), 547 deletions(-)
More information about groupedHyperframe at CRAN
Permanent link
Title: Side Grammar Graphics
Description: The grammar of graphics as shown in 'ggplot2' has provided
an expressive API for users to build plots. 'ggside' extends 'ggplot2'
by allowing users to add graphical information about one of the main panel's
axis using a familiar 'ggplot2' style API with tidy data. This package is
particularly useful for visualizing metadata on a discrete axis, or summary
graphics on a continuous axis such as a boxplot or a density distribution.
Author: Justin Landis [aut, cre]
Maintainer: Justin Landis <jtlandis314@gmail.com>
Diff between ggside versions 0.4.0 dated 2025-09-13 and 0.4.1 dated 2025-11-25
ggside-0.4.0/ggside/tests/testthat/_snaps/side_layers |only ggside-0.4.0/ggside/tests/testthat/test_side_layers.R |only ggside-0.4.1/ggside/DESCRIPTION | 8 ggside-0.4.1/ggside/MD5 | 147 +++++++++--- ggside-0.4.1/ggside/NEWS.md | 6 ggside-0.4.1/ggside/R/scales-sides-.R | 6 ggside-0.4.1/ggside/R/side-facet-grid.R | 1 ggside-0.4.1/ggside/R/side-facet-wrap.R | 2 ggside-0.4.1/ggside/R/side-layout-.r | 8 ggside-0.4.1/ggside/README.md | 31 ++ ggside-0.4.1/ggside/inst/WORDLIST | 2 ggside-0.4.1/ggside/man/geom_xsideabline.Rd | 42 ++- ggside-0.4.1/ggside/man/ggside-scales.Rd | 4 ggside-0.4.1/ggside/tests/testthat/Rplots.pdf |only ggside-0.4.1/ggside/tests/testthat/_snaps/all_ggside_layers |only ggside-0.4.1/ggside/tests/testthat/test_all_ggside_layers.R |only 16 files changed, 202 insertions(+), 55 deletions(-)
Title: Efficient Spatial Thinning of Species Occurrences
Description: Provides efficient geospatial thinning algorithms to reduce
the density of coordinate data while maintaining spatial
relationships. Implements K-D Tree and brute-force distance-based
thinning, as well as grid-based and precision-based thinning methods.
For more information on the methods, see Elseberg et al. (2012)
<https://hdl.handle.net/10446/86202>.
Author: Jorge Mestre-Tomas [aut, cre]
Maintainer: Jorge Mestre-Tomas <jorge.mestre.tomas@csic.es>
Diff between GeoThinneR versions 2.0.0 dated 2025-04-24 and 2.1.0 dated 2025-11-25
DESCRIPTION | 14 - LICENSE | 4 MD5 | 58 +++-- NAMESPACE | 1 NEWS.md | 31 ++- R/GeoThinned_class.R | 44 +++- R/distance_thinning.R | 16 + R/grid_thinning.R | 9 R/precision_thinning.R | 9 R/thin_points.R | 9 R/thinning_algorithm.R | 9 R/utils.R | 26 ++ README.md | 15 - build/vignette.rds |binary inst/CITATION |only inst/doc/GeoThinneR.R | 13 + inst/doc/GeoThinneR.Rmd | 44 +++- inst/doc/GeoThinneR.html | 300 +++++++++++++++++-------------- man/GeoThinned.Rd | 5 man/distance_thinning.Rd | 3 man/grid_thinning.Rd | 2 man/is_lonlat.Rd |only man/max_thinning_algorithm.Rd | 9 man/precision_thinning.Rd | 2 man/thin_points.Rd | 3 tests/testthat.R | 24 +- tests/testthat/test-distance_thinning.R | 13 + tests/testthat/test-grid_thinning.R | 4 tests/testthat/test-precision_thinning.R | 1 tests/testthat/test-thin_points.R | 5 vignettes/GeoThinneR.Rmd | 44 +++- 31 files changed, 468 insertions(+), 249 deletions(-)
Title: Visualizing Generalized Canonical Discriminant and Canonical
Correlation Analysis
Description: Functions for computing and visualizing
generalized canonical discriminant analyses and canonical correlation analysis
for a multivariate linear model.
Traditional canonical discriminant analysis is restricted to a one-way 'MANOVA'
design and is equivalent to canonical correlation analysis between a set of quantitative
response variables and a set of dummy variables coded from the factor variable.
The 'candisc' package generalizes this to higher-way 'MANOVA' designs
for all factors in a multivariate linear model,
computing canonical scores and vectors for each term. The graphic functions provide low-rank (1D, 2D, 3D)
visualizations of terms in an 'mlm' via the 'plot.candisc' and 'heplot.candisc' methods. Related plots are
now provided for canonical correlation analysis when all predictors are quantitative. Methods for
linear discriminant analysis are now included.
Author: Michael Friendly [aut, cre] ,
John Fox [aut]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between candisc versions 1.0.0 dated 2025-11-05 and 1.1.0 dated 2025-11-25
DESCRIPTION | 16 - MD5 | 52 ++- NAMESPACE | 11 NEWS.md | 24 + R/data.R | 3 R/painters2.R |only R/plot_discrim.R | 469 +++++++++++++++++++++++++--------- R/predict_discrim.R | 25 + R/reflect.R | 71 ++++- R/scores.lda.R |only data/painters2.rda |only demo/painters.R | 195 +++++++++++++- inst/WORDLIST | 10 inst/doc/diabetes.Rmd | 4 inst/doc/diabetes.html | 7 man/Grass.Rd | 1 man/Wine.Rd | 1 man/Wolves.Rd | 1 man/figures/README-iris-canplot-1.png |only man/figures/README-iris-heplot-1.png |only man/figures/iris-lda-qda.png |only man/painters2.Rd |only man/plot_discrim.Rd | 305 +++++++++++++++++----- man/predict_discrim.Rd | 19 - man/reflect.Rd | 33 ++ man/scores.lda.Rd |only tests |only vignettes/apa.csl |only vignettes/diabetes.Rmd | 4 vignettes/painters.qmd |only vignettes/references.bib |only vignettes/schools-table.R |only 32 files changed, 999 insertions(+), 252 deletions(-)
Title: Bayesian Preference Learning with the Mallows Rank Model
Description: An implementation of the Bayesian version of the Mallows rank model
(Vitelli et al., Journal of Machine Learning Research, 2018 <https://jmlr.org/papers/v18/15-481.html>;
Crispino et al., Annals of Applied Statistics, 2019 <doi:10.1214/18-AOAS1203>;
Sorensen et al., R Journal, 2020 <doi:10.32614/RJ-2020-026>;
Stein, PhD Thesis, 2023 <https://eprints.lancs.ac.uk/id/eprint/195759>). Both Metropolis-Hastings
and sequential Monte Carlo algorithms for estimating the models are available. Cayley, footrule,
Hamming, Kendall, Spearman, and Ulam distances are supported in the models. The rank data to be
analyzed can be in the form of complete rankings, top-k rankings, partially missing rankings, as well
as consistent and inconsistent pairwise preferences. Several functions for plotting and studying the
posterior distributions of parameters are provided. The package also provides functions for estimating
the partition function (normalizing constant) of the Mallows rank mo [...truncated...]
Author: Oystein Sorensen [aut, cre] ,
Waldir Leoncio [aut],
Valeria Vitelli [aut] ,
Marta Crispino [aut],
Qinghua Liu [aut],
Cristina Mollica [aut],
Luca Tardella [aut],
Anja Stein [aut]
Maintainer: Oystein Sorensen <oystein.sorensen.1985@gmail.com>
Diff between BayesMallows versions 2.2.5 dated 2025-06-27 and 2.2.6 dated 2025-11-25
DESCRIPTION | 8 +++--- MD5 | 27 +++++++++++----------- NEWS.md | 8 ++++++ R/heat_plot.R | 19 ++++++++++++--- R/plot.R | 4 +-- R/tidy_mcmc.R | 14 ++++++----- build/partial.rdb |binary inst/doc/BayesMallows.html | 5 ++-- inst/doc/SMC-Mallows.html | 5 ++-- inst/doc/parallel_chains.html | 5 ++-- inst/examples/heat_plot_example.R | 10 ++++++++ man/heat_plot.Rd | 15 ++++++++++++ tests/testthat/test-assign_cluster.R | 16 ++++++------- tests/testthat/test-cluster_assignment_thinning.R |only tests/testthat/test-heat_plot.R | 7 ++--- 15 files changed, 96 insertions(+), 47 deletions(-)