Title: Add Bio Tooltips to HTML Reports
Description: Provides lightweight helpers for adding gene and chemical
tooltips to 'R Markdown', 'Quarto', 'shiny', 'pkgdown', and other HTML outputs.
The package emits small HTML spans with module-specific data attributes
and attaches the browser-side 'bio-tooltips' JavaScript and CSS assets
through 'htmltools'. Entity lookup and rendering are handled in the
browser by 'bio-tooltips'; this package does not query biological
databases from R during package checks.
Author: Matthew J. Meier [aut, cre]
Maintainer: Matthew J. Meier <matthew.meier@hc-sc.gc.ca>
Diff between BioTooltipR versions 0.1.1 dated 2026-08-20 and 0.1.2 dated 2026-09-23
DESCRIPTION | 6 MD5 | 38 NEWS.md | 14 R/dependencies.R | 4 R/plotly.R | 340 - README.md | 11 build/vignette.rds |binary inst/doc/BioTooltipR.R | 326 - inst/doc/BioTooltipR.Rmd | 17 inst/doc/BioTooltipR.html | 5687 ++++++++++----------- inst/htmltools/bio-tooltips/README.md | 2 inst/htmltools/bio-tooltips/SOURCE | 8 inst/htmltools/bio-tooltips/bio-tooltips.css | 2 inst/htmltools/bio-tooltips/bio-tooltips.global.js | 219 man/bio_tooltips_dependency.Rd | 2 man/bt_plotly_gene_hover.Rd | 20 man/use_bio_tooltips.Rd | 2 tests/testthat/test-dependencies.R | 29 tests/testthat/test-plotly.R | 93 vignettes/BioTooltipR.Rmd | 17 20 files changed, 3593 insertions(+), 3244 deletions(-)
Title: Green Index Quantification, Analysis and Visualization
Description: Quantification, analysis, and visualization of urban greenness within city networks using data from 'OpenStreetMap' <https://www.openstreetmap.org>.
Author: Sachit Mahajan [aut, cre]
Maintainer: Sachit Mahajan <sachitmahajan90@gmail.com>
Diff between greenR versions 0.0.1.7 dated 2026-05-29 and 0.0.1.8 dated 2026-09-23
greenR-0.0.1.7/greenR/tests/testthat/test.R |only greenR-0.0.1.8/greenR/DESCRIPTION | 23 greenR-0.0.1.8/greenR/MD5 | 77 +-- greenR-0.0.1.8/greenR/NAMESPACE | 13 greenR-0.0.1.8/greenR/NEWS.md |only greenR-0.0.1.8/greenR/R/accessibility_greenspace.R | 31 - greenR-0.0.1.8/greenR/R/accessibility_mapbox.R | 4 greenR-0.0.1.8/greenR/R/analyze_green_accessibility.R | 27 - greenR-0.0.1.8/greenR/R/analyze_green_and_tree_count_density.R | 6 greenR-0.0.1.8/greenR/R/calculate_and_visualize_GVI.R | 55 -- greenR-0.0.1.8/greenR/R/calculate_green_index.R | 250 +++------- greenR-0.0.1.8/greenR/R/calculate_percentage.R | 40 - greenR-0.0.1.8/greenR/R/convert_to_point.R | 82 +-- greenR-0.0.1.8/greenR/R/create_accessibility_visualizations.R | 1 greenR-0.0.1.8/greenR/R/create_hexmap_3D.R | 18 greenR-0.0.1.8/greenR/R/create_linestring_3D.R | 15 greenR-0.0.1.8/greenR/R/get_osm_data.R | 191 ++++--- greenR-0.0.1.8/greenR/R/green_space_clustering.R | 13 greenR-0.0.1.8/greenR/R/gssi.R | 23 greenR-0.0.1.8/greenR/R/hexGreenSpace.R | 223 +++----- greenR-0.0.1.8/greenR/R/nearest_greenspace.R | 48 + greenR-0.0.1.8/greenR/R/plot_green_index.R | 19 greenR-0.0.1.8/greenR/R/uh_decision.R | 12 greenR-0.0.1.8/greenR/R/uh_svf.R | 103 ---- greenR-0.0.1.8/greenR/R/zzz.R | 2 greenR-0.0.1.8/greenR/build/vignette.rds |binary greenR-0.0.1.8/greenR/inst/doc/introduction.R | 17 greenR-0.0.1.8/greenR/inst/doc/introduction.Rmd | 19 greenR-0.0.1.8/greenR/inst/doc/introduction.html | 66 -- greenR-0.0.1.8/greenR/man/accessibility_greenspace.Rd | 10 greenR-0.0.1.8/greenR/man/calculate_green_index.Rd | 26 - greenR-0.0.1.8/greenR/man/calculate_percentage.Rd | 3 greenR-0.0.1.8/greenR/man/check_duplicate_columns.Rd | 2 greenR-0.0.1.8/greenR/man/compute_gini_bootstrap.Rd | 3 greenR-0.0.1.8/greenR/man/get_osm_data.Rd | 11 greenR-0.0.1.8/greenR/man/hexGreenSpace.Rd | 30 - greenR-0.0.1.8/greenR/man/nearest_greenspace.Rd | 7 greenR-0.0.1.8/greenR/man/rename_duplicate_columns.Rd | 2 greenR-0.0.1.8/greenR/tests/testthat.R |only greenR-0.0.1.8/greenR/tests/testthat/test-green-index.R |only greenR-0.0.1.8/greenR/tests/testthat/test-utilities.R |only greenR-0.0.1.8/greenR/vignettes/introduction.Rmd | 19 42 files changed, 639 insertions(+), 852 deletions(-)
Title: Fitting (Exponential/Diffusion) RT-MPT Models
Description: Fit (exponential or diffusion) response-time extended multinomial processing tree (RT-MPT) models
by Klauer and Kellen (2018) <doi:10.1016/j.jmp.2017.12.003> and Klauer, Hartmann, and Meyer-Grant (submitted).
The RT-MPT class not only incorporate frequencies like traditional multinomial processing tree (MPT) models,
but also latencies. This enables it to estimate process completion times and encoding plus motor execution times
next to the process probabilities of traditional MPTs. 'rtmpt' is a hierarchical Bayesian framework and posterior
samples are sampled using a Metropolis-within-Gibbs sampler (for exponential RT-MPTs) or Hamiltonian-within-Gibbs
sampler (for diffusion RT-MPTs).
Author: Raphael Hartmann [aut, cre],
Karl C. Klauer [cph, aut, ctb, ths],
Constantin G. Meyer-Grant [aut, ctb],
Henrik Singmann [ctb, aut],
Jean Marie Linhart [ctb],
Frederick Novomestky [ctb]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>
Diff between rtmpt versions 2.0-3 dated 2025-03-19 and 2.1-1 dated 2026-09-23
DESCRIPTION | 8 MD5 | 72 ++- NAMESPACE | 3 R/SBC_fit_rtmpt.R | 28 - R/SimData.R | 4 R/call_rtmpt.R | 80 ++-- R/get_model.R | 10 R/print_rtmpt.R | 14 R/update_rtmpt.R |only build/vignette.rds |binary inst/doc/rtmpt_guideline.R | 148 ++++---- inst/doc/rtmpt_guideline.html | 5 man/SimData.Rd | 4 man/fit_drtmpt.Rd | 25 - man/fit_ertmpt.Rd | 16 man/fit_ertmpt_SBC.Rd | 4 man/update_drtmpt.Rd |only src/Quelle.cpp | 118 +++--- src/adaptive_rejection_sampling.cpp | 22 - src/additions.cpp | 24 - src/diagnosis.cpp | 640 ++++++++++++++-------------------- src/diffusion.cpp | 2 src/gibbs.cpp | 403 +++++++++------------ src/hamiltonian.cpp | 17 src/hcubature.cpp | 93 ++--- src/joint.cpp | 34 - src/main.cpp | 587 +++++++++++-------------------- src/mvtimes.cpp | 661 ++++++++++++++---------------------- src/onetimes.cpp | 172 ++++----- src/r_wrapper.cpp | 69 +-- src/rtimes.cpp | 79 +--- src/rtmpt_init.c | 2 src/rts.h | 114 +++--- src/rwiener.cpp | 16 src/specifics.cpp | 32 + src/times.cpp | 4 src/tools.cpp | 284 +++++++-------- src/trait.cpp | 40 -- 38 files changed, 1681 insertions(+), 2153 deletions(-)
Title: Hypothesis Testing for Populations of Brain Networks
Description: Non-parametric hypothesis testing for populations of brain
networks represented as graphs, following the L1-distance ANOVA
framework of Fraiman and Fraiman (2018) <doi:10.1038/s41598-018-23152-5>.
The package builds on this nonparametric graph-comparison framework,
extending it with procedures for edge-level inference and identification
of the specific connections driving group differences. In particular, it
provides utilities to compute central (mean) graphs, pairwise Manhattan
distances between adjacency matrices, the group test statistic T and its
permutation p-value, and a fast permutation procedure to identify the
critical edges that drive between-group differences. Helper functions to
generate synthetic
community-structured graphs and to visualise brain networks with
communities are also included.
Author: Maximiliano Martino [aut, cre] ,
Daniel Fraiman [aut]
Maintainer: Maximiliano Martino <maxii.martino@gmail.com>
Diff between BrainNetTest versions 0.2.1 dated 2026-06-05 and 0.2.2 dated 2026-09-23
DESCRIPTION | 19 LICENSE | 4 MD5 | 96 +- NAMESPACE | 7 NEWS.md | 121 ++ R/compute_central_graph.R | 86 -- R/compute_distance.R | 62 - R/compute_edge_frequencies.R | 130 +-- R/compute_edge_pvalues.R | 289 +++--- R/compute_test_statistic.R | 177 ++-- R/critical_links.R |only R/generate_category_graphs.R | 211 ++--- R/generate_community_graph.R | 233 ++--- R/generate_random_graph.R | 87 +- R/get_critical_nodes.R | 190 ++-- R/global_test.R |only R/identify_critical_links.R | 430 ++++------ R/identify_critical_links_naive.R | 215 ++--- R/permutation-null.R |only R/plot_critical_edges.R | 500 ++++++------ R/rank_edges.R | 123 +- R/utils-checks.R |only build/partial.rdb |binary build/vignette.rds |binary inst/doc/BrainNetTest_CommunityStructures.R | 137 +-- inst/doc/BrainNetTest_CommunityStructures.Rmd | 289 +++--- inst/doc/BrainNetTest_CommunityStructures.html | 1035 ++++++++++++------------- inst/doc/BrainNetTest_Introduction.R | 101 +- inst/doc/BrainNetTest_Introduction.Rmd | 283 +++--- inst/doc/BrainNetTest_Introduction.html | 1035 +++++++++++++------------ man/compute_edge_pvalues.Rd | 2 man/global_test.Rd |only man/identify_critical_links.Rd | 37 man/plot.critical_links.Rd |only man/plot_critical_edges.Rd | 284 +++--- man/print.critical_links.Rd |only man/print.global_test.Rd |only man/print.summary.critical_links.Rd |only man/rank_edges.Rd | 2 man/summary.critical_links.Rd |only tests/testthat.R | 8 tests/testthat/test-brainnettest.R | 250 +++--- tests/testthat/test-compute_edge_frequencies.R | 74 - tests/testthat/test-compute_edge_pvalues.R | 318 +++---- tests/testthat/test-critical_links_methods.R |only tests/testthat/test-generate_category_graphs.R | 248 +++-- tests/testthat/test-generate_community_graph.R | 173 ++-- tests/testthat/test-generate_random_graph.R | 84 +- tests/testthat/test-get_critical_nodes.R | 226 ++--- tests/testthat/test-global_test.R |only tests/testthat/test-identify_critical_links.R | 676 ++++++++-------- tests/testthat/test-plot_critical_edges.R | 136 +-- tests/testthat/test-rank_edges.R | 97 +- vignettes/BrainNetTest_CommunityStructures.Rmd | 289 +++--- vignettes/BrainNetTest_Introduction.Rmd | 283 +++--- 55 files changed, 4715 insertions(+), 4332 deletions(-)
Title: 'Automerge' Sync Server and Client
Description: A WebSocket-based implementation of the 'automerge-repo'
synchronization protocol used by 'sync.automerge.org'. Acts as a sync
server, enabling 'R' to serve as a synchronization hub for 'Automerge'
clients in 'JavaScript', 'Rust', and other languages, and as a client
for fetching, editing, and synchronizing documents hosted on remote
servers.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between autosync versions 0.1.0 dated 2026-07-06 and 0.2.0 dated 2026-09-23
DESCRIPTION | 12 ++++++------ MD5 | 24 +++++++++++++++++------- NAMESPACE | 8 +++++++- NEWS.md | 5 +++++ R/app.R |only R/client.R | 30 ++++++++++++++++++++++++++++-- R/edit.R |only R/import-standalone-defer.R |only R/project.R |only README.md | 2 +- inst |only man/sync_app.Rd |only man/sync_client.Rd | 18 ++++++++++++++++++ man/sync_project.Rd |only tests/testthat/helper.R | 32 ++++++++++++++++++++++++++++++++ tests/testthat/test-app.R |only tests/testthat/test-edit.R |only 17 files changed, 114 insertions(+), 17 deletions(-)
Title: A Framework for Planning and Executing Analyses
Description: A comprehensive framework for planning and executing analyses in R.
It provides a structured approach to running the same function multiple times
with different arguments, executing multiple functions on the same datasets,
and creating systematic analyses across multiple strata or variables.
The framework is particularly useful for applying the same analysis across
multiple strata (e.g., locations, age groups), running statistical methods
on multiple variables (e.g., exposures, outcomes), generating multiple tables
or graphs for reports, and creating systematic surveillance analyses.
Key features include efficient data management, structured analysis planning,
flexible execution options, built-in debugging tools, and hash-based caching.
Author: Richard Aubrey White [aut, cre, cph]
Maintainer: Richard Aubrey White <hello@rwhite.no>
Diff between plnr versions 2025.11.22 dated 2025-11-22 and 2026.9.23 dated 2026-09-23
DESCRIPTION | 27 LICENSE | 4 MD5 | 88 NAMESPACE | 32 NEWS.md | 203 - R/0_env.R | 2 R/1_config.R | 8 R/2_onLoad.R | 10 R/3_onAttach.R | 30 R/create_rmarkdown.R | 349 + R/data.R | 94 R/expand_list.R | 62 R/get_anything.R | 51 R/is_run_directly.R | 47 R/plan.R | 1771 +++++---- R/set_opts.R | 39 R/try_again.R | 160 README.md | 168 build/vignette.rds |binary inst/CITATION | 18 inst/doc/adding_analyses.R | 393 +- inst/doc/adding_analyses.Rmd | 554 +-- inst/doc/adding_analyses.html | 1842 +++++----- inst/doc/plnr.R | 186 - inst/doc/plnr.Rmd | 408 +- inst/doc/plnr.html | 1313 +++---- man/Plan.Rd | 2492 +++++++------- man/create_rmarkdown.Rd | 86 man/example_action_fn.Rd | 101 man/example_data_fn_nor_covid19_cases_by_time_location.Rd | 45 man/expand_list.Rd | 78 man/figures/logo.png |binary man/get_anything.Rd | 59 man/hash_it.Rd | 37 man/is_run_directly.Rd | 61 man/nor_covid19_cases_by_time_location.Rd | 89 man/set_opts.Rd | 57 man/test_action_fn.Rd | 65 man/try_again.Rd | 126 man/uuid_generator.Rd | 31 tests/testthat.R | 8 tests/testthat/test-add-analysis-from-list.R |only tests/testthat/test-create-rmarkdown.R |only tests/testthat/test_InitialiseProject.R | 270 - vignettes/adding_analyses.Rmd | 554 +-- vignettes/plnr.Rmd | 408 +- 46 files changed, 6427 insertions(+), 5999 deletions(-)
Title: Poisson Lognormal Models
Description: The Poisson-lognormal model and variants (Chiquet,
Mariadassou and Robin, 2021 <doi:10.3389/fevo.2021.588292>) can be
used for a variety of multivariate problems when count data are at
play, including principal component analysis for count data,
discriminant analysis, model-based clustering and network inference.
Implements variational algorithms to fit such models accompanied with
a set of functions for visualization and diagnostic.
Author: Julien Chiquet [aut, cre] ,
Mahendra Mariadassou [aut] ,
Stephane Robin [aut],
Francois Gindraud [ctb],
Julie Aubert [ctb],
Bastien Batardiere [ctb],
Giovanni Poggiato [ctb],
Cole Trapnell [ctb],
Maddy Duran [ctb],
Ryan Friedman [ctb]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between PLNmodels versions 1.3.1 dated 2026-08-29 and 1.3.2 dated 2026-09-23
DESCRIPTION | 34 ++++++----- MD5 | 89 ++++++++++++++++--------------- NAMESPACE | 7 +- NEWS.md | 50 +++++++++++++++++ R/PLNPCAfit-class.R | 7 +- R/PLNfamily-class.R | 28 ++++++--- R/PLNnetworkfamily-class.R | 37 +++++++++++- R/PLNnetworkfit-S3methods.R | 9 ++- R/PLNnetworkfit-class.R | 45 +++++++++++++-- R/RcppExports.R | 4 + R/ZIPLNfit-S3methods.R | 5 + R/ZIPLNfit-class.R | 50 ++++++++++++++--- R/graphical_lasso.R |only R/plot_utils.R | 23 +++++--- inst/WORDLIST | 3 + inst/doc/Import_data.html | 4 - inst/doc/PLN.html | 4 - inst/doc/PLNLDA.html | 4 - inst/doc/PLNPCA.html | 48 ++++++++-------- inst/doc/PLNmixture.html | 4 - inst/doc/PLNnetwork.Rmd | 2 inst/doc/PLNnetwork.html | 73 +++++++++++++++---------- inst/doc/Trichoptera.html | 4 - inst/doc/ZIPLN.html | 8 +- man/Networkfamily.Rd | 27 +++++++++ man/PLNmodels-package.Rd | 3 - man/PLNnetworkfamily.Rd | 2 man/PLNnetworkfit.Rd | 15 ++++- man/ZIPLNfit_sparse.Rd | 37 +++++++++++- man/ZIPLNnetworkfamily.Rd | 2 man/figures/README-plnlda-1.png |binary man/figures/README-plnmixture-1.png |binary man/figures/README-plnnetwork-1.png |binary man/graphical_lasso.Rd |only man/plot.PLNnetworkfit.Rd | 6 ++ man/plot.ZIPLNfit_sparse.Rd | 6 ++ src/RcppExports.cpp | 19 ++++++ src/covariance_plnpca.h | 9 ++- src/graphical_lasso.cpp |only src/graphical_lasso.h |only tests/testthat/Rplots.pdf |binary tests/testthat/test-graphical-lasso.R |only tests/testthat/test-plnnetworkfit.R | 82 ++++++++++++++++++++++++++++ tests/testthat/test-plnpcafit.R | 40 +++++++++++++ tests/testthat/test-ziplnfit.R | 6 ++ tests/testthat/test-ziplnnetworkfamily.R | 24 ++++++++ vignettes/PLNnetwork.Rmd | 2 vignettes/articles/optimization.qmd | 3 - 48 files changed, 648 insertions(+), 177 deletions(-)
Title: Methods for ''An accurate, fast, and scalable ecological
inference algorithm for the R x C case''
Description: Estimates the probability matrix for the R×C Ecological Inference problem using the Expectation-Maximization Algorithm with four approximation methods for the E-Step, and an exact method as well. It also provides a bootstrap function to estimate the standard deviation of the estimated probabilities. In addition, it has functions that aggregate rows optimally to have more reliable estimates in cases of having few data points. For comparing the probability estimates of two groups, a Wald test routine is implemented. The library has data from the first round of the Chilean Presidential Election 2021 and can also generate synthetic election data. Methods described in Ubilla Pavez, Pablo; Hermosilla, Daniel; Thraves, Charles (2026) ''An accurate, fast, and scalable ecological inference algorithm for the R×C case'', Statistics and Computing 36, Article 195 <doi:10.1007/s11222-026-10946-1>.
Author: Charles Thraves [aut] ,
Pablo Ubilla [aut] ,
Daniel Hermosilla [aut, cre]
Maintainer: Daniel Hermosilla <daniel.hermosilla.r@ug.uchile.cl>
Diff between fastei versions 0.0.19 dated 2026-05-20 and 0.0.21 dated 2026-09-23
DESCRIPTION | 17 +-- MD5 | 47 ++++---- R/eim-class.R | 23 +++- R/fastei-package.R | 8 - R/instancer.R | 2 R/internal.R | 45 +++++++- README.md | 4 inst/doc/demonstration.html | 4 man/fastei-package.Rd | 10 - man/get_agg_opt.Rd | 6 - man/get_agg_proxy.Rd | 2 man/get_eim_chile.Rd | 5 man/run_em.Rd | 11 + man/simulate_election.Rd | 3 src/KL.c |only src/KL.h |only src/LP.c | 89 ++++++++-------- src/main.c | 16 ++ src/main_symmetric.c | 123 +++++----------------- src/multivariate-pdf.c | 161 ++++++++++++++++++++--------- src/stb_ds.h | 7 + src/utils_multivariate.c | 12 ++ tests/testthat/test-lp-adjustment.R | 51 +++++++++ tests/testthat/test-mvn-pdf-likelihood.R |only tests/testthat/test-run-em-nonparametric.R | 46 ++++++++ tests/testthat/test-run-em-symmetric.R | 64 +++++++++++ 26 files changed, 510 insertions(+), 246 deletions(-)
Title: Common Department for Education Analysis Tasks
Description: Provides preferred methods for common analytical tasks
undertaken across the Department for Education in England, including
number formatting, project templates and curated reference data.
Author: Cam Race [aut, cre],
Department for Education, England [cph],
Laura Selby [aut],
Adam Robinson [aut],
Jen Machin [ctb],
Jake Tufts [ctb],
Rich Bielby [ctb] ,
Menna Zayed [ctb],
Lauren Snaathorst [ctb],
Lara Garbett [ctb],
Paula Rocha [ctb]
Maintainer: Cam Race <cameron.race@education.gov.uk>
Diff between dfeR versions 1.0.1 dated 2025-01-15 and 2.0.0 dated 2026-09-23
dfeR-1.0.1/dfeR/R/datasets_utils.R |only dfeR-1.0.1/dfeR/data/wd_pcon_lad_la_rgn_ctry.rda |only dfeR-1.0.1/dfeR/man/wd_pcon_lad_la_rgn_ctry.Rd |only dfeR-1.0.1/dfeR/tests/testthat/test-data-wd_pcon_lad_la_rgn_ctry.R |only dfeR-2.0.0/dfeR/DESCRIPTION | 35 dfeR-2.0.0/dfeR/MD5 | 196 ++- dfeR-2.0.0/dfeR/NAMESPACE | 39 dfeR-2.0.0/dfeR/NEWS.md | 58 dfeR-2.0.0/dfeR/R/air_formatter.R |only dfeR-2.0.0/dfeR/R/check_databricks_odbc.R |only dfeR-2.0.0/dfeR/R/comma_sep.R | 10 dfeR-2.0.0/dfeR/R/create_project.R | 36 dfeR-2.0.0/dfeR/R/datasets_documentation.R | 79 + dfeR-2.0.0/dfeR/R/dfeR-package.R | 1 dfeR-2.0.0/dfeR/R/diagnostic_test.R |only dfeR-2.0.0/dfeR/R/fetch.R | 199 +++ dfeR-2.0.0/dfeR/R/fetch_utils.R | 138 +- dfeR-2.0.0/dfeR/R/format.R | 40 dfeR-2.0.0/dfeR/R/get_clean_sql.R | 2 dfeR-2.0.0/dfeR/R/get_ons_api_data.R | 151 +- dfeR-2.0.0/dfeR/R/params.R |only dfeR-2.0.0/dfeR/R/pretty.R | 234 ++- dfeR-2.0.0/dfeR/R/round_five_up.R | 102 - dfeR-2.0.0/dfeR/R/utils.R |only dfeR-2.0.0/dfeR/R/write_df_to_delta.R |only dfeR-2.0.0/dfeR/R/write_df_to_delta_utils.R |only dfeR-2.0.0/dfeR/R/z_replace.R | 23 dfeR-2.0.0/dfeR/README.md | 590 +++++----- dfeR-2.0.0/dfeR/build/vignette.rds |binary dfeR-2.0.0/dfeR/data/geo_hierarchy.rda |only dfeR-2.0.0/dfeR/data/lsip_lad.rda |only dfeR-2.0.0/dfeR/data/ons_geog_shorthands.rda |binary dfeR-2.0.0/dfeR/inst/README_template.md | 2 dfeR-2.0.0/dfeR/inst/WORDLIST | 145 +- dfeR-2.0.0/dfeR/inst/doc/connecting_to_sql.R | 50 dfeR-2.0.0/dfeR/inst/doc/connecting_to_sql.Rmd | 2 dfeR-2.0.0/dfeR/inst/doc/connecting_to_sql.html | 5 dfeR-2.0.0/dfeR/inst/doc/create_new_project.R |only dfeR-2.0.0/dfeR/inst/doc/create_new_project.Rmd |only dfeR-2.0.0/dfeR/inst/doc/create_new_project.html |only dfeR-2.0.0/dfeR/inst/doc/diagnosing-your-r-setup.R |only dfeR-2.0.0/dfeR/inst/doc/diagnosing-your-r-setup.Rmd |only dfeR-2.0.0/dfeR/inst/doc/diagnosing-your-r-setup.html |only dfeR-2.0.0/dfeR/inst/doc/write_df_to_delta.R |only dfeR-2.0.0/dfeR/inst/doc/write_df_to_delta.Rmd |only dfeR-2.0.0/dfeR/inst/doc/write_df_to_delta.html |only dfeR-2.0.0/dfeR/man/air_install.Rd |only dfeR-2.0.0/dfeR/man/air_style.Rd |only dfeR-2.0.0/dfeR/man/check_databricks_odbc.Rd |only dfeR-2.0.0/dfeR/man/check_git_sslverify.Rd |only dfeR-2.0.0/dfeR/man/check_gitconfig_location.Rd |only dfeR-2.0.0/dfeR/man/check_github_pat.Rd |only dfeR-2.0.0/dfeR/man/check_proxy_settings.Rd |only dfeR-2.0.0/dfeR/man/check_renv_dl_file_method.Rd |only dfeR-2.0.0/dfeR/man/check_renv_download_method.Rd |only dfeR-2.0.0/dfeR/man/check_renv_rprof_location.Rd |only dfeR-2.0.0/dfeR/man/check_rtools.Rd |only dfeR-2.0.0/dfeR/man/create_project.Rd | 116 - 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Title: UK Flood Estimation
Description: Functions to implement the methods of the Flood Estimation Handbook (FEH), associated updates and the revitalised flood hydrograph model (ReFH). Currently the package uses NRFA peak flow dataset version 15. Aside from FEH functionality, further hydrological functions are available. Most of the methods implemented in this package are described in one or more of the following: "Flood Estimation Handbook", Centre for Ecology & Hydrology (1999, ISBN:0 948540 94 X). "Flood Estimation Handbook Supplementary Report No. 1", Kjeldsen (2007, ISBN:0 903741 15 7). "Regional Frequency Analysis - an approach based on L-moments", Hosking & Wallis (1997, ISBN: 978 0 521 01940 8). "Making better use of local data in flood frequency estimation", Environment Agency (2017, ISBN: 978 1 84911 387 8). "Sampling uncertainty of UK design flood estimation" , Hammond (2021, <doi:10.2166/nh.2021.059>). "The FEH 2025 statistical method update", UK Centre for Ecology and Hydrology (2025). "Low flow es [...truncated...]
Author: Anthony Hammond [aut, cre],
Sam Clayton [ctb]
Maintainer: Anthony Hammond <agqhammond@gmail.com>
Diff between UKFE versions 2.15.0 dated 2026-09-16 and 2.15.1 dated 2026-09-23
DESCRIPTION | 6 MD5 | 32 +- NEWS.md | 31 ++ R/All.R | 27 +- README.md | 2 data/AMPF.rda |binary data/PeakFlowData.rda |binary inst/doc/Data-input.html | 12 inst/doc/Data-visualisation.html | 2 inst/doc/FEH-statistical-analysis.html | 402 ++++++++++++++++----------------- inst/doc/ReFH-analysis.html | 4 man/AMPF.Rd | 48 +-- man/HistoricMLE.Rd | 94 +++---- man/LowFlows.Rd | 114 ++++----- man/Pool.Rd | 2 man/QMED.Rd | 2 man/Seasonality.Rd | 74 +++--- 17 files changed, 448 insertions(+), 404 deletions(-)
Title: Regularized Point Processes and Stochastic Marginalization for
Extremes
Description: Implements a non-stationary extreme value analysis framework
by coupling a covariate-driven Non-Homogeneous Poisson Process (NHPP)
with Elastic-Net regularization and analytical gradients. Provides
methods for estimating conditional return levels and unconditional
(marginalized) return levels via parametric stochastic integration over
stable Vector Autoregressive VAR(p) or univariate autoregressive covariate
trajectories, or non-parametric annual-block resampling. Supports
block-specific penalty controls, operational active-set thresholds,
conditional parametric bootstrap inference, and walk-forward assessment.
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between margEVT versions 0.2.0 dated 2026-08-26 and 0.3.0 dated 2026-09-23
DESCRIPTION | 32 ++----- MD5 | 54 ++++++------ NEWS.md | 36 ++++++++ R/backtest.R | 68 ++++++++++----- R/bootstrap.R | 32 +++++-- R/design.R | 12 ++ R/fit.R | 47 ++++++++++- R/generator.R | 162 ++++++++++++++++++++++++++++++-------- R/likelihood.R | 6 - R/marginalize.R | 32 +++++++ R/params.R | 33 ++++++- R/select.R | 91 ++++++++++++--------- R/utils.R | 12 +- README.md | 8 - inst/CITATION | 4 man/backtest.Rd | 4 man/dot-select_lambda_bic.Rd | 1 man/fit_nhpp.Rd | 6 + man/predict_params.Rd | 6 + man/simulate_covariates.Rd | 18 +++- tests/testthat/test-backtest.R | 30 +++++++ tests/testthat/test-bootstrap.R | 28 ++++++ tests/testthat/test-design.R | 12 ++ tests/testthat/test-fit.R | 32 +++++++ tests/testthat/test-generator.R | 130 +++++++++++++++++++++++++++++- tests/testthat/test-marginalize.R | 90 +++++++++++++++++++++ tests/testthat/test-params.R | 63 ++++++++++++++ tests/testthat/test-select.R | 45 +++++++++- 28 files changed, 906 insertions(+), 188 deletions(-)
Title: Identifies Indicators of Transparency
Description: Use this package to identify indicators of transparency within the
published literature. It can identify and extract text related to
indicators of transparency from specifically formatted TXT files and from
PMC XML files (i.e. XML files downloaded from the PubMed Central). It builds
on the original 'rtransparent' tool of Serghiou et al. (2021)
<doi:10.1371/journal.pbio.3001107>.
Author: Stylianos Serghiou [aut],
Ahmad Sofi-Mahmudi [cre, aut]
Maintainer: Ahmad Sofi-Mahmudi <a.sofimahmudi@gmail.com>
Diff between rtransparency versions 1.0.0 dated 2026-07-01 and 1.2.0 dated 2026-09-23
DESCRIPTION | 16 MD5 | 227 +-- NAMESPACE | 29 NEWS.md | 182 ++ R/data.R | 86 - R/data_code.R | 106 + R/rt_ai.R | 181 ++ R/rt_all.R | 102 + R/rt_all_pmc.R | 161 -- R/rt_batch.R | 136 +- R/rt_coi.R | 68 - R/rt_coi_pmc.R | 32 R/rt_coi_pubmed.R |only R/rt_data_code.R | 35 R/rt_data_code_pmc.R | 36 R/rt_ethics.R |only R/rt_fetch.R | 233 +++ R/rt_fund.R | 1624 ------------------------ R/rt_fund_pmc.R | 230 --- R/rt_jats.R |only R/rt_meta_pmc.R | 13 R/rt_novelty.R | 35 R/rt_novelty_pmc.R | 19 R/rt_open_access.R |only R/rt_read_pdf.R | 66 R/rt_register.R | 1172 ----------------- R/rt_register_pmc.R | 509 ------- R/rt_registration.R |only R/rt_replication.R | 74 - R/rt_replication_pmc.R | 31 R/rt_reporting.R |only R/rt_summary.R | 127 + R/rtransparency-package.R | 11 R/utils.R | 272 ---- R/xml_utils.R | 501 ------- R/zzz.R | 5 README.md | 173 +- data/rt_accuracy.rda |binary data/rt_accuracy_2021.rda |only data/rt_demo.rda |binary inst/CITATION | 1 inst/benchmark/results.csv | 54 inst/benchmark/results.md | 22 inst/benchmark/results_2023_sample.csv | 6 inst/benchmark/results_2023_sample.md | 8 inst/benchmark/results_all_sets.csv |only inst/benchmark/results_data_code.md | 2 inst/benchmark/results_europepmc_parity.csv |only inst/benchmark/results_europepmc_parity.md |only inst/benchmark/results_multilingual.csv | 12 inst/benchmark/results_multilingual.md | 16 inst/benchmark/results_novelty_replication.md | 2 inst/benchmark/results_oa_reporting.csv |only inst/benchmark/results_oa_reporting.md |only inst/benchmark/results_replication_enriched.csv | 2 inst/benchmark/results_replication_enriched.md | 6 inst/benchmark/results_txt_parity.csv | 12 inst/benchmark/results_txt_parity.md | 20 inst/doc/ai-disclosure.R | 10 inst/doc/ai-disclosure.Rmd | 25 inst/doc/ai-disclosure.html | 71 - inst/doc/rtransparency.R | 40 inst/doc/rtransparency.Rmd | 122 + inst/doc/rtransparency.html | 216 ++- inst/doc/scope-and-limitations.R | 4 inst/doc/scope-and-limitations.Rmd | 39 inst/doc/scope-and-limitations.html | 58 inst/doc/transparency-summary.R | 6 inst/doc/transparency-summary.Rmd | 48 inst/doc/transparency-summary.html | 182 +- man/rt_accuracy.Rd | 63 man/rt_accuracy_2021.Rd |only man/rt_ai.Rd | 14 man/rt_ai_pmc.Rd | 27 man/rt_all.Rd | 48 man/rt_all_pdf.Rd |only man/rt_all_pmc.Rd | 26 man/rt_all_pmc_dir.Rd | 19 man/rt_all_txt_dir.Rd |only man/rt_authors_pmc.Rd |only man/rt_check_links.Rd |only man/rt_coi.Rd | 12 man/rt_coi_pmc.Rd | 8 man/rt_coi_pubmed.Rd |only man/rt_convert_ids.Rd |only man/rt_data_code.Rd | 15 man/rt_data_code_pmc.Rd | 19 man/rt_data_code_pmc_list.Rd | 8 man/rt_demo.Rd | 4 man/rt_ethics.Rd |only man/rt_ethics_pmc.Rd |only man/rt_fetch_pmc.Rd |only man/rt_fill_coi_pubmed.Rd |only man/rt_fund.Rd | 18 man/rt_fund_pmc.Rd | 8 man/rt_funders_pmc.Rd |only man/rt_meta_pmc.Rd | 9 man/rt_novelty.Rd | 11 man/rt_novelty_pmc.Rd | 8 man/rt_oa.Rd |only man/rt_oa_pmc.Rd |only man/rt_read_pdf.Rd | 31 man/rt_register.Rd | 11 man/rt_register_pmc.Rd | 8 man/rt_registration_timing.Rd |only man/rt_replication.Rd | 11 man/rt_replication_pmc.Rd | 8 man/rt_reporting.Rd |only man/rt_reporting_pmc.Rd |only man/rt_summary.Rd | 53 man/rt_trial_ids.Rd |only man/rtransparency-package.Rd | 11 tests/testthat/test-data-code.R | 56 tests/testthat/test-rt_ai.R | 53 tests/testthat/test-rt_all_pmc.R | 70 - tests/testthat/test-rt_batch.R | 57 tests/testthat/test-rt_coi.R | 27 tests/testthat/test-rt_coi_pubmed.R |only tests/testthat/test-rt_ethics.R |only tests/testthat/test-rt_fetch.R |only tests/testthat/test-rt_jats.R |only tests/testthat/test-rt_multilingual.R | 18 tests/testthat/test-rt_open_access.R |only tests/testthat/test-rt_register.R | 80 - tests/testthat/test-rt_registration.R |only tests/testthat/test-rt_replication.R | 27 tests/testthat/test-rt_reporting.R |only tests/testthat/test-rt_summary.R | 51 tests/testthat/test-rt_txt_parity.R | 12 vignettes/ai-disclosure.Rmd | 25 vignettes/rtransparency.Rmd | 122 + vignettes/scope-and-limitations.Rmd | 39 vignettes/transparency-summary.Rmd | 48 133 files changed, 3278 insertions(+), 5333 deletions(-)
Title: Assess the FAIRness of Research Data Objects and Software
Description: A native R implementation of the F-UJI (FAIRsFAIR Research Data
Object Assessment) and FRSM (FAIR for Research Software) metrics for
evaluating how well a research data object or piece of research software
satisfies the FAIR principles (Findable, Accessible, Interoperable,
Reusable). The software metrics operationalize the FAIR Principles for
Research Software (FAIR4RS) of Chue Hong et al. (2022)
<doi:10.15497/RDA00068>. Given a persistent identifier, URL, or code
repository, 'rfair'
resolves it, harvests metadata from landing pages and registries, and scores
it against the FAIRsFAIR metrics of Devaraju and Huber (2020)
<doi:10.5281/zenodo.3775793> entirely in R, without requiring an external
assessment server. 'rfair' began as a fork of the 'rfuji' F-UJI API client
and reimplements the assessment engine natively.
Author: Ahmad Sofi-Mahmudi [aut, cre] ,
Steffen Neumann [ctb] ,
PANGAEA [cph]
Maintainer: Ahmad Sofi-Mahmudi <a.sofimahmudi@gmail.com>
Diff between rfair versions 0.1.0 dated 2026-07-01 and 0.2.0 dated 2026-09-23
rfair-0.1.0/rfair/R/collect_github.R |only rfair-0.1.0/rfair/tests/testthat/test-audit-fixes.R |only rfair-0.2.0/rfair/DESCRIPTION | 16 rfair-0.2.0/rfair/LICENSE.note | 15 rfair-0.2.0/rfair/MD5 | 132 +++--- rfair-0.2.0/rfair/NAMESPACE | 3 rfair-0.2.0/rfair/NEWS.md | 144 +++++++ rfair-0.2.0/rfair/R/accept_types.R | 1 rfair-0.2.0/rfair/R/as_rdf.R | 65 ++- rfair-0.2.0/rfair/R/assess.R | 35 + rfair-0.2.0/rfair/R/assess_data_code.R | 117 ++++- rfair-0.2.0/rfair/R/collect_csl.R |only rfair-0.2.0/rfair/R/collect_datacite.R | 29 + rfair-0.2.0/rfair/R/collect_files.R |only rfair-0.2.0/rfair/R/collect_forge.R |only rfair-0.2.0/rfair/R/collect_html.R | 80 +++ rfair-0.2.0/rfair/R/collect_rdf.R | 97 +++- rfair-0.2.0/rfair/R/collect_xml.R | 9 rfair-0.2.0/rfair/R/eval_accessible.R | 34 - rfair-0.2.0/rfair/R/eval_frsm.R | 9 rfair-0.2.0/rfair/R/eval_helpers.R | 39 + rfair-0.2.0/rfair/R/eval_semantic.R | 53 +- rfair-0.2.0/rfair/R/fair_assessment.R | 33 + rfair-0.2.0/rfair/R/fair_compare.R |only rfair-0.2.0/rfair/R/fair_principles.R | 4 rfair-0.2.0/rfair/R/fair_recommendations.R |only rfair-0.2.0/rfair/R/frsm_agreement.R |only rfair-0.2.0/rfair/R/harvest_data.R | 35 - rfair-0.2.0/rfair/R/identifier.R | 5 rfair-0.2.0/rfair/R/license_reuse.R | 24 + rfair-0.2.0/rfair/R/plot.R | 2 rfair-0.2.0/rfair/R/request.R | 244 ++++++++++-- rfair-0.2.0/rfair/R/rfair-package.R | 9 rfair-0.2.0/rfair/R/signposting.R | 3 rfair-0.2.0/rfair/R/sysdata.rda |binary rfair-0.2.0/rfair/R/zzz.R | 4 rfair-0.2.0/rfair/README.md | 64 ++- rfair-0.2.0/rfair/inst/CITATION | 21 - rfair-0.2.0/rfair/inst/doc/beyond-fuji.Rmd | 2 rfair-0.2.0/rfair/inst/doc/beyond-fuji.html | 2 rfair-0.2.0/rfair/inst/doc/illustrating-fairness.html | 6 rfair-0.2.0/rfair/inst/doc/methodology.Rmd | 65 ++- rfair-0.2.0/rfair/inst/doc/methodology.html | 73 ++- rfair-0.2.0/rfair/inst/doc/rfair.Rmd | 2 rfair-0.2.0/rfair/inst/doc/rfair.html | 4 rfair-0.2.0/rfair/inst/extdata/frsm_validation_template.csv |only rfair-0.2.0/rfair/inst/extdata/recommendations.yaml |only rfair-0.2.0/rfair/inst/plumber/rfair-api.R | 15 rfair-0.2.0/rfair/inst/shiny-apps/rfair/app.R | 17 rfair-0.2.0/rfair/man/as_rdf.Rd | 15 rfair-0.2.0/rfair/man/assess_data_code.Rd | 9 rfair-0.2.0/rfair/man/assess_fair.Rd | 7 rfair-0.2.0/rfair/man/assess_fair_batch.Rd | 34 + rfair-0.2.0/rfair/man/fair_assessment.Rd | 8 rfair-0.2.0/rfair/man/fair_compare.Rd |only rfair-0.2.0/rfair/man/fair_recommendations.Rd |only rfair-0.2.0/rfair/man/frsm_agreement.Rd |only rfair-0.2.0/rfair/man/rfair-package.Rd | 9 rfair-0.2.0/rfair/tests/testthat/fixtures |only rfair-0.2.0/rfair/tests/testthat/helper-mock.R |only rfair-0.2.0/rfair/tests/testthat/test-api-artifacts.R | 17 rfair-0.2.0/rfair/tests/testthat/test-assess.R | 25 + rfair-0.2.0/rfair/tests/testthat/test-data-code.R | 41 ++ rfair-0.2.0/rfair/tests/testthat/test-files.R |only rfair-0.2.0/rfair/tests/testthat/test-frsm-agreement.R |only rfair-0.2.0/rfair/tests/testthat/test-guidance.R |only rfair-0.2.0/rfair/tests/testthat/test-harvest.R |only rfair-0.2.0/rfair/tests/testthat/test-html-items.R |only rfair-0.2.0/rfair/tests/testthat/test-identifier.R | 32 + rfair-0.2.0/rfair/tests/testthat/test-phase3.R | 22 + rfair-0.2.0/rfair/tests/testthat/test-regressions.R |only rfair-0.2.0/rfair/tests/testthat/test-request.R |only rfair-0.2.0/rfair/tests/testthat/test-reuse.R | 10 rfair-0.2.0/rfair/vignettes/beyond-fuji.Rmd | 2 rfair-0.2.0/rfair/vignettes/methodology.Rmd | 65 ++- rfair-0.2.0/rfair/vignettes/rfair.Rmd | 2 76 files changed, 1450 insertions(+), 360 deletions(-)
Title: Psychometric and Statistical Analysis Tools
Description: Provides tools for psychometric and statistical analysis in
social sciences, including functions for data preprocessing, factor
analysis, reliability testing, descriptive statistics, visualization of
Likert-scale items, measurement invariance analysis, and handling of
multi-class imbalance. Facilitates advanced data analysis tasks commonly
encountered in psychological and educational research. Includes an
updated easy_invariance() function for ordinal data following
Wu and Estabrook (2016) <doi:10.1037/met0000051>.
Author: Jose Ventura-Leon [aut, cre]
Maintainer: Jose Ventura-Leon <jventuraleon@gmail.com>
Diff between PsyMetricTools versions 1.2.2 dated 2026-08-06 and 1.2.4 dated 2026-09-23
DESCRIPTION | 9 MD5 | 101 +-- NAMESPACE | 1 NEWS.md | 47 + R/EFA_modern.R | 185 +++--- R/EFA_plot.R | 281 ++++----- R/Standardized_solutions.R | 191 +++--- R/Standardized_solutions_cfa.R | 154 ++--- R/boot_cfa.R | 628 +++++++++++---------- R/boot_cfa_density.R | 558 +++++++++---------- R/boot_cfa_plot.R | 680 +++++++++++------------ R/boot_cfa_plot_enhanced.R | 974 +++++++++++++++++---------------- R/boot_cfa_raincloud.R | 836 ++++++++++++++--------------- R/boot_efa.R | 1090 +++++++++++++++++++------------------- R/boot_efa_forest_plot.R | 392 ++++++------- R/boot_efa_plot.R | 632 +++++++++++----------- R/calculate_per_fit.R | 198 +++--- R/calculate_per_fit_efa.R | 202 +++---- R/combine_likert_sem.R | 302 +++++----- R/cor_afe.R | 68 +- R/extract_fit.R | 126 ++-- R/factor_summary.R | 108 +-- R/fit_index_Table.R | 152 ++--- R/multi_cfa.R | 273 ++++----- R/plot_multi_sem.R | 524 +++++++++--------- R/run_sempowerlab.R |only R/safe_cfa.R | 231 ++++---- inst |only man/EFA_modern.Rd | 23 man/EFA_plot.Rd | 17 man/Standardized_solutions.Rd | 17 man/Standardized_solutions_cfa.Rd | 14 man/admis_simple.Rd | 11 man/boot_cfa.Rd | 23 man/boot_cfa_density.Rd | 14 man/boot_cfa_plot.Rd | 14 man/boot_cfa_plot_enhanced.Rd | 8 man/boot_cfa_raincloud.Rd | 14 man/boot_efa.Rd | 8 man/boot_efa_forest_plot.Rd | 8 man/boot_efa_plot.Rd | 8 man/calculate_per_fit.Rd | 14 man/calculate_per_fit_efa.Rd | 8 man/combine_likert_sem.Rd | 14 man/cor_afe.Rd | 14 man/extract_fit.Rd | 14 man/factor_summary.Rd | 14 man/fit_index_Table.Rd | 14 man/multi_cfa.Rd | 17 man/plot_multi_sem.Rd | 14 man/run_sempowerlab.Rd |only man/safe_cfa.Rd | 11 man/safe_measures.Rd | 11 53 files changed, 4639 insertions(+), 4628 deletions(-)
More information about PsyMetricTools at CRAN
Permanent link
Title: 'Material UI' for 'shiny' Apps and 'Quarto'
Description: Wraps the 'Material UI' React components <https://mui.com/> for use in R, 'shiny'
applications and 'quarto' documents, including inputs, layouts, navigation, and
surfaces. All inputs come with R usage examples.
Author: Felix Luginbuhl [aut, cre, cph] ,
MUI [cph] ,
Emotion team [cph] ,
Meta Platforms, Inc. and affiliates [cph]
Maintainer: Felix Luginbuhl <felix.luginbuhl@protonmail.ch>
Diff between muiMaterial versions 0.2.2 dated 2026-07-02 and 0.2.3 dated 2026-09-23
DESCRIPTION | 6 MD5 | 51 - NAMESPACE | 2 NEWS.md | 371 ++++++---- R/aaa-utils.R | 28 R/docs-templates.R | 13 R/inputs.R | 56 + R/muiMaterialDependency.R | 23 R/muiMaterialExample.R | 11 R/muiMaterialPage.R | 34 R/static-tabs.R | 9 R/triggerId.R | 18 inst/examples/Checkbox.R | 4 inst/examples/DrawerTriggerId.R | 7 inst/examples/TransferList.R | 84 +- inst/examples/mui-template-dashboard/modules/mod_SideMenuMobile.R | 10 inst/www/muiMaterial/mui-material.js | 78 +- man/Drawer.triggerId.Rd | 13 man/ListItemButton.Rd | 46 + man/Menu.triggerId.Rd | 5 man/SwipeableDrawer.triggerId.Rd | 12 man/muiMaterialPage.Rd | 9 man/shinyInput.Rd | 13 tests/testthat/test-muiMaterialExample.R |only tests/testthat/test-muiMaterialPage.R | 66 - tests/testthat/test-shinyInput-factories.R | 44 + tests/testthat/test-triggerId.R | 1 27 files changed, 677 insertions(+), 337 deletions(-)
Title: Visualizations for 'mlr3'
Description: Visualization package of the 'mlr3' ecosystem. It features
plots for mlr3 objects such as tasks, learners, predictions, benchmark
results, tuning instances and filters via the 'autoplot()' generic of
'ggplot2'. The package draws plots with the 'viridis' color palette
and applies the minimal theme. Visualizations include barplots,
boxplots, histograms, ROC curves, and Precision-Recall curves.
Author: Michel Lang [aut] ,
Patrick Schratz [aut] ,
Raphael Sonabend [aut] ,
Marc Becker [cre, aut] ,
Jakob Richter [aut] ,
Damir Pulatov [ctb],
John Zobolas [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3viz versions 0.11.1 dated 2026-07-25 and 0.11.2 dated 2026-09-23
DESCRIPTION | 16 ++--- MD5 | 16 ++--- NAMESPACE | 18 +++-- NEWS.md | 5 + tests/testthat/_snaps/BenchmarkResult/bmr-holdout-roc.svg | 2 tests/testthat/_snaps/BenchmarkResult/bmr-prc.svg | 1 tests/testthat/_snaps/EnsembleFSResult/pareto-estimated.svg | 37 +++++------- tests/testthat/_snaps/EnsembleFSResult/pareto-stepwise.svg | 2 tests/testthat/_snaps/ResampleResult/resampleresult-prc.svg | 1 9 files changed, 53 insertions(+), 45 deletions(-)
Title: Windowed Cross Correlation
Description: Calculates Windowed Cross Correlation for pairs of time series.
Provides support for surrogate analysis for nonparametric test of significance.
Calculates aggregate statistics over a range of parameter values.
Plots the results as Windowed Cross Correlation plots and heat maps.
The software is described in Boker, S. M., Rotondo, J. L., Xu, M., & King, K. (2002). Windowed cross-correlation and peak picking for the analysis of variability in the association between behavioral time series. Psychological Methods, 7(3), 338.
Author: Steven Boker [aut, cre],
Minquan Xu [aut],
Sareena Chadha [aut],
Christopher Welker [aut],
Jingyun Wu [aut],
Pascal Deboeck [aut],
Aaron Peikert [aut],
Claude [aut]
Maintainer: Steven Boker <smb3u@virginia.edu>
Diff between wcc versions 0.4.1 dated 2026-07-17 and 0.4.2 dated 2026-09-23
DESCRIPTION | 9 +++++---- MD5 | 8 +++++--- NEWS.md | 17 ++++++++++++++++- R/wccPlot.R | 23 ++++++++++++++++++++--- R/wccTestSurrogateDyads.R |only man/wccTestSurrogateDyads.Rd |only 6 files changed, 46 insertions(+), 11 deletions(-)
Title: Visualize and Summarize Repeat-Dose Toxicology Study Results
Description: A 'shiny' app that generates plots and summary tables from repeat-dose
toxicology study results to facilitate holistic evaluation of the drug safety of
active pharmaceutical ingredients (API) prior to initiation of clinical trials.
Author: Yousuf Ali [cre, aut],
Kevin Snyder [aut],
FDA [cph]
Maintainer: Yousuf Ali <mdyousuf.ali@fda.hhs.gov>
Diff between toxSummary versions 1.0.0 dated 2024-02-27 and 1.0.1 dated 2026-09-23
DESCRIPTION | 17 +++--- MD5 | 10 +-- README.md | 1 build/vignette.rds |binary inst/doc/Introduction.R | 2 inst/doc/Introduction.html | 127 ++++++++++++++++++++++----------------------- 6 files changed, 79 insertions(+), 78 deletions(-)
Title: 'KorAP' Web Service Client Package
Description: A client package that makes the 'KorAP' web service API accessible from R. The corpus analysis platform 'KorAP' has been developed as a scientific tool to make potentially large, stratified and multiply annotated corpora, such as the 'German Reference Corpus DeReKo' or the 'Corpus of the Contemporary Romanian Language CoRoLa', accessible for linguists to let them verify hypotheses and to find interesting patterns in real language use. The 'RKorAPClient' package provides access to 'KorAP' and the corpora behind it for user-created R code, as a programmatic alternative to the 'KorAP' web user-interface. You can learn more about 'KorAP' and use it directly on 'DeReKo' at <https://korap.ids-mannheim.de/>.
Author: Marc Kupietz [aut, cre],
Nils Diewald [ctb],
Leibniz Institute for the German Language [cph, fnd]
Maintainer: Marc Kupietz <kupietz@ids-mannheim.de>
Diff between RKorAPClient versions 1.4.0 dated 2026-09-09 and 1.4.1 dated 2026-09-23
RKorAPClient-1.4.0/RKorAPClient/man/calculate_sophisticated_eta.Rd |only RKorAPClient-1.4.0/RKorAPClient/man/format_eta_display.Rd |only RKorAPClient-1.4.0/RKorAPClient/man/get_cache_indicator.Rd |only RKorAPClient-1.4.1/RKorAPClient/DESCRIPTION | 6 RKorAPClient-1.4.1/RKorAPClient/MD5 | 35 - RKorAPClient-1.4.1/RKorAPClient/NAMESPACE | 5 RKorAPClient-1.4.1/RKorAPClient/NEWS.md | 10 RKorAPClient-1.4.1/RKorAPClient/R/KorAPConnection.R | 4 RKorAPClient-1.4.1/RKorAPClient/R/KorAPCorpusStats.R | 90 -- RKorAPClient-1.4.1/RKorAPClient/R/KorAPQuery.R | 123 ++-- RKorAPClient-1.4.1/RKorAPClient/R/logging.R | 307 +++++++--- RKorAPClient-1.4.1/RKorAPClient/man/corpusQuery-KorAPConnection-method.Rd | 4 RKorAPClient-1.4.1/RKorAPClient/man/frequencyQuery-KorAPConnection-method.Rd | 1 RKorAPClient-1.4.1/RKorAPClient/man/initialize-KorAPQuery-method.Rd | 2 RKorAPClient-1.4.1/RKorAPClient/tests/testthat/test-collocations.R | 6 RKorAPClient-1.4.1/RKorAPClient/tests/testthat/test-corpusQuery.R | 14 RKorAPClient-1.4.1/RKorAPClient/tests/testthat/test-corpusStats-eta.R | 58 - RKorAPClient-1.4.1/RKorAPClient/tests/testthat/test-corpusquery-eta.R | 130 ++-- RKorAPClient-1.4.1/RKorAPClient/tests/testthat/test-readme-against-llm.R | 14 RKorAPClient-1.4.1/RKorAPClient/tests/testthat/test-textMetadata.R | 6 20 files changed, 479 insertions(+), 336 deletions(-)
Title: Interface to 'JDemetra+' 3.x Time Series Analysis Software
Description: Interface to 'JDemetra+' 3.x (<https://github.com/jdemetra>)
time series analysis software. It offers full access to txt, csv, xml
and spreadsheets files which are meant to be read by 'JDemetra+'
Graphical User Interface.
Author: Jean Palate [aut],
Alessandro Piovani [aut, cre, cph],
Tanguy Barthelemy [aut, art],
Eulalie Delaune [aut]
Maintainer: Alessandro Piovani <alessandro.piovani@istat.it>
Diff between rjd3providers versions 3.8.0 dated 2026-07-13 and 3.9.0 dated 2026-09-23
rjd3providers-3.8.0/rjd3providers/inst/java/java-io-base-0.0.38.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/java-io-picocsv-0.0.38.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/java-io-xml-0.0.38.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/java-io-xml-bind-0.0.38.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/jdplus-spreadsheet-base-api-3.8.0.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/jdplus-spreadsheet-base-r-3.8.0.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/jdplus-text-base-api-3.8.0.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/jdplus-text-base-r-3.8.0.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/jdplus-toolkit-base-tsp-3.8.0.jar |only rjd3providers-3.8.0/rjd3providers/inst/java/jdplus-toolkit-base-xml-3.8.0.jar |only rjd3providers-3.9.0/rjd3providers/DESCRIPTION | 25 rjd3providers-3.9.0/rjd3providers/MD5 | 113 rjd3providers-3.9.0/rjd3providers/NAMESPACE | 86 rjd3providers-3.9.0/rjd3providers/NEWS.md | 21 rjd3providers-3.9.0/rjd3providers/R/jd3spreadsheet.R | 881 +++--- rjd3providers-3.9.0/rjd3providers/R/jd3txt.R | 1099 ++++---- rjd3providers-3.9.0/rjd3providers/R/jd3xml.R | 638 ++-- rjd3providers-3.9.0/rjd3providers/R/options.R |only rjd3providers-3.9.0/rjd3providers/R/providers.R | 169 - rjd3providers-3.9.0/rjd3providers/R/rjd3providers-package.R | 12 rjd3providers-3.9.0/rjd3providers/R/zzz.R | 129 - rjd3providers-3.9.0/rjd3providers/README.md | 488 +-- rjd3providers-3.9.0/rjd3providers/inst/extdata/ABS.csv | 852 +++--- rjd3providers-3.9.0/rjd3providers/inst/extdata/Prod.xml | 1286 +++++----- rjd3providers-3.9.0/rjd3providers/inst/java/java-io-base-0.0.39.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/java-io-picocsv-0.0.39.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/java-io-xml-0.0.39.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/java-io-xml-bind-0.0.39.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/jdplus-spreadsheet-base-api-3.9.0.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/jdplus-spreadsheet-base-r-3.9.0.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/jdplus-text-base-api-3.9.0.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/jdplus-text-base-r-3.9.0.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/jdplus-toolkit-base-tsp-3.9.0.jar |only rjd3providers-3.9.0/rjd3providers/inst/java/jdplus-toolkit-base-xml-3.9.0.jar |only rjd3providers-3.9.0/rjd3providers/java/README | 12 rjd3providers-3.9.0/rjd3providers/man/dot-obs_format.Rd | 68 rjd3providers-3.9.0/rjd3providers/man/dot-obs_gathering.Rd | 71 rjd3providers-3.9.0/rjd3providers/man/dot-spreadsheet_moniker.Rd | 46 rjd3providers-3.9.0/rjd3providers/man/dot-txt_moniker.Rd | 46 rjd3providers-3.9.0/rjd3providers/man/dot-xml_moniker.Rd | 46 rjd3providers-3.9.0/rjd3providers/man/figures/logo.svg | 188 - rjd3providers-3.9.0/rjd3providers/man/get_providers_option.Rd | 42 rjd3providers-3.9.0/rjd3providers/man/providers_option.Rd | 41 rjd3providers-3.9.0/rjd3providers/man/rjd3providers-package.Rd | 70 rjd3providers-3.9.0/rjd3providers/man/set_spreadsheet_paths.Rd | 47 rjd3providers-3.9.0/rjd3providers/man/set_txt_paths.Rd | 47 rjd3providers-3.9.0/rjd3providers/man/set_xml_paths.Rd | 47 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_change_file.Rd | 62 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_content.Rd | 51 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_data.Rd | 98 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_id_to_properties.Rd | 72 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_name.Rd | 40 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_properties_to_id.Rd | 68 rjd3providers-3.9.0/rjd3providers/man/spreadsheet_series.Rd | 105 rjd3providers-3.9.0/rjd3providers/man/txt_change_file.Rd | 62 rjd3providers-3.9.0/rjd3providers/man/txt_content.Rd | 138 - rjd3providers-3.9.0/rjd3providers/man/txt_data.Rd | 138 - rjd3providers-3.9.0/rjd3providers/man/txt_id_to_properties.Rd | 55 rjd3providers-3.9.0/rjd3providers/man/txt_name.Rd | 40 rjd3providers-3.9.0/rjd3providers/man/txt_properties_to_id.Rd | 68 rjd3providers-3.9.0/rjd3providers/man/txt_series.Rd | 147 - rjd3providers-3.9.0/rjd3providers/man/xml_change_file.Rd | 62 rjd3providers-3.9.0/rjd3providers/man/xml_content.Rd | 57 rjd3providers-3.9.0/rjd3providers/man/xml_data.Rd | 66 rjd3providers-3.9.0/rjd3providers/man/xml_id_to_properties.Rd | 57 rjd3providers-3.9.0/rjd3providers/man/xml_name.Rd | 40 rjd3providers-3.9.0/rjd3providers/man/xml_properties_to_id.Rd | 56 rjd3providers-3.9.0/rjd3providers/man/xml_series.Rd | 73 68 files changed, 4102 insertions(+), 4023 deletions(-)
Title: Representativity Indicators for Survey Quality
Description: Calculate representativity indicators for survey quality based on survey
data and response models. Use partial indicators to analyse the impact of
individual variables and categories. Monitor changes in representativity
during data collection. Improve representativity through adaptive survey
design. Supports both R-indicators and coefficients of variation. See also
Schouten, Cobben, Bethlehem (2009) <https://api.semanticscholar.org/CorpusID:33654901>,
Shlomo, Skinner, Schouten (2012) <doi:10.1016/j.jspi.2011.07.008> and
Schouten, Shlomo (2017) <doi:10.1111/insr.12159>.
Author: Reijer Idema [aut, cre],
Barry Schouten [aut]
Maintainer: Reijer Idema <r.idema@cbs.nl>
Diff between risq versions 3.0.0 dated 2026-09-21 and 3.0.1 dated 2026-09-23
DESCRIPTION | 8 +++++--- MD5 | 6 +++--- NEWS.md | 4 ++++ inst/doc/theory.pdf |binary 4 files changed, 12 insertions(+), 6 deletions(-)
Title: J&J Innovative Medicine SDTM Test Data
Description: A set of Study Data Tabulation Model (SDTM) datasets constructed by
modifying the 'pharmaversesdtm' package to meet J&J Innovative Medicine's
standard data structure for Clinical and Statistical Programming.
Author: David Munoz Tord [aut, cre],
Nicholas Masel [aut],
Joe Kovach [aut],
Renfei Mao [ctb],
J&J Innovative Medicine [cph, fnd]
Maintainer: David Munoz Tord <david.munoztord@mailbox.org>
Diff between pharmaversesdtmjnj versions 0.0.4 dated 2026-05-07 and 0.0.6 dated 2026-09-23
DESCRIPTION | 9 +- MD5 | 71 +++++++++++---------- NAMESPACE | 8 +- NEWS.md | 68 ++++++++++---------- R/ae.R | 102 +++++++++++++++--------------- R/ds.R | 58 ++++++++--------- R/dv.R | 54 ++++++---------- R/ho.R | 54 ++++++++-------- R/ie.R | 46 ++++++++----- R/mh.R | 92 +++++++++++++-------------- R/pharmaversesdtmjnj-package.R | 10 +- R/pr.R |only R/suppho.R | 45 ++++++------- R/supppc.R |only R/supppr.R |only R/ts.R | 42 ++++++------ README.md | 120 +++++++++++++++++------------------ data/ae.rda |binary data/ds.rda |binary data/dv.rda |binary data/ho.rda |binary data/ie.rda |binary data/mh.rda |binary data/pr.rda |only data/suppho.rda |binary data/supppc.rda |only data/supppr.rda |only data/ts.rda |binary inst/WORDLIST | 56 ++++++++-------- man/ae.Rd | 128 +++++++++++++++++++------------------- man/ds.Rd | 84 ++++++++++++------------ man/dv.Rd | 24 +------ man/ho.Rd | 78 +++++++++++------------ man/ie.Rd | 16 +++- man/mh.Rd | 118 +++++++++++++++++------------------ man/pharmaversesdtmjnj-package.Rd | 57 ++++++++-------- man/pr.Rd |only man/suppho.Rd | 69 +++++++++----------- man/supppc.Rd |only man/supppr.Rd |only man/ts.Rd | 68 ++++++++++---------- 41 files changed, 742 insertions(+), 735 deletions(-)
More information about pharmaversesdtmjnj at CRAN
Permanent link
Title: Forest Analysis with Airborne Laser Scanning (LiDAR) Data
Description: Provides functions for forest objects detection, structure metrics
computation, model calibration and mapping with airborne laser scanning:
co-registration of field plots (Monnet and Mermin (2014)
<doi:10.3390/f5092307>); tree detection (method 1 in Eysn et al. (2015)
<doi:10.3390/f6051721>) and segmentation; forest parameters estimation with
the area-based approach: model calibration with ground reference, and maps
export (Aussenac et al. (2023) <doi:10.12688/openreseurope.15373.2>);
extraction of both physical (gaps, edges, trees) and statistical
features useful for e.g. habitat suitability modeling (Glad et al. (2020)
<doi:10.1002/rse2.117>) and forest maturity mapping (Fuhr et al. (2022)
<doi:10.1002/rse2.274>).
Author: Jean-Matthieu Monnet [aut, cre] ,
Pascal Obstetar [ctb]
Maintainer: Jean-Matthieu Monnet <jean-matthieu.monnet@inrae.fr>
This is a re-admission after prior archival of version 4.0.8 dated 2025-01-23
Diff between lidaRtRee versions 4.0.8 dated 2025-01-23 and 4.0.9 dated 2026-09-23
DESCRIPTION | 22 +++++++-------- MD5 | 31 ++++++++++++---------- NAMESPACE | 1 NEWS.md | 14 ++++++++++ R/aba.R | 2 + R/common.R | 50 ++++++++++++++++++++++++++++++++++++ R/metrics.R | 38 ++++++++++++++++++--------- R/quatre_montagnes-data.R | 2 - R/tree_detection.R | 4 ++ README.md | 29 ++++++++++++-------- build/partial.rdb |binary inst/CITATION | 8 ++--- inst/extdata/las_chablais3.copc.laz |only man/aba_metrics.Rd | 5 --- man/figures/logo.png |only man/gpstime2Date.Rd |only man/quatre_montagnes.Rd | 2 - man/terrain_points_metrics.Rd | 9 +++++- 18 files changed, 154 insertions(+), 63 deletions(-)
Title: Regression under Interference in Connected Populations
Description: An implementation of generalized linear models (GLMs) for studying relationships among attributes in connected populations, where responses of connected units can be dependent, as introduced by Fritz et al. (2025) <doi:10.1080/01621459.2025.2565851>. 'iglm' extends GLMs for independent responses to dependent responses and can be used for studying spillover in connected populations and other network-mediated phenomena.
Author: Cornelius Fritz [aut, cre],
Michael Schweinberger [aut]
Maintainer: Cornelius Fritz <corneliusfritz2010@gmail.com>
Diff between iglm versions 1.2.5 dated 2026-07-08 and 1.2.6 dated 2026-09-23
iglm-1.2.5/iglm/data/copenhagen.R |only iglm-1.2.5/iglm/data/state_twitter.R |only iglm-1.2.6/iglm/DESCRIPTION | 10 iglm-1.2.6/iglm/MD5 | 119 - iglm-1.2.6/iglm/NAMESPACE | 3 iglm-1.2.6/iglm/NEWS.md |only iglm-1.2.6/iglm/R/RcppExports.R | 32 iglm-1.2.6/iglm/R/data.R | 6 iglm-1.2.6/iglm/R/estimation.R | 127 - iglm-1.2.6/iglm/R/helper.R | 767 ++++++ iglm-1.2.6/iglm/R/iglm.r | 237 +- iglm-1.2.6/iglm/R/iglm_data.r | 1891 +++++++++++----- iglm-1.2.6/iglm/R/init_terms.R | 147 - iglm-1.2.6/iglm/R/results.r | 1423 +----------- iglm-1.2.6/iglm/R/sampler.r | 34 iglm-1.2.6/iglm/R/simulation.R | 211 + iglm-1.2.6/iglm/R/statistics.R | 48 iglm-1.2.6/iglm/R/zzz.R | 6 iglm-1.2.6/iglm/build/vignette.rds |binary iglm-1.2.6/iglm/data/copenhagen.rda |binary iglm-1.2.6/iglm/data/state_twitter.rda |only iglm-1.2.6/iglm/inst/doc/iglm.R | 24 iglm-1.2.6/iglm/inst/doc/iglm.Rmd | 24 iglm-1.2.6/iglm/inst/doc/iglm.html | 30 iglm-1.2.6/iglm/inst/doc/model-terms.Rmd | 281 +- iglm-1.2.6/iglm/inst/doc/model-terms.html | 551 ++-- iglm-1.2.6/iglm/inst/extdata/copenhagen_raw.rds |binary iglm-1.2.6/iglm/inst/extdata/state_twitter_raw.rds |binary iglm-1.2.6/iglm/inst/include/iglm/attribute_class.h | 18 iglm-1.2.6/iglm/inst/include/iglm/extension_api.hpp | 2 iglm-1.2.6/iglm/inst/include/iglm/helper_functions.h | 57 iglm-1.2.6/iglm/inst/include/iglm/network_class.h | 16 iglm-1.2.6/iglm/inst/include/iglm/xyz_class.h | 20 iglm-1.2.6/iglm/inst/include/iglm/xz_class.h | 22 iglm-1.2.6/iglm/man/check.IglmTerm.Rd | 17 iglm-1.2.6/iglm/man/copenhagen.Rd | 4 iglm-1.2.6/iglm/man/iglm-terms.Rd | 21 iglm-1.2.6/iglm/man/iglm.Rd | 28 iglm-1.2.6/iglm/man/iglm.data.Rd | 48 iglm-1.2.6/iglm/man/iglm.data_generator.Rd | 826 ++++++ iglm-1.2.6/iglm/man/iglm.object.generator.Rd | 30 iglm-1.2.6/iglm/man/sampler.iglm.Rd | 18 iglm-1.2.6/iglm/man/sampler.iglm.generator.Rd | 19 iglm-1.2.6/iglm/man/simulate_iglm.Rd | 51 iglm-1.2.6/iglm/man/state_twitter.Rd | 2 iglm-1.2.6/iglm/man/statistics.Rd | 28 iglm-1.2.6/iglm/src/RcppExports.cpp | 82 iglm-1.2.6/iglm/src/change_statistics.cpp | 130 - iglm-1.2.6/iglm/src/iglm_classes.cpp | 262 +- iglm-1.2.6/iglm/src/xyz_sampling.cpp | 1001 ++++---- iglm-1.2.6/iglm/tests/testthat/test-check_iglm_term.R | 114 iglm-1.2.6/iglm/tests/testthat/test-cpp_optimizations.R | 30 iglm-1.2.6/iglm/tests/testthat/test-empty-overlap.R | 16 iglm-1.2.6/iglm/tests/testthat/test-iglm.R | 111 iglm-1.2.6/iglm/tests/testthat/test-iglm_data.R | 499 ++++ iglm-1.2.6/iglm/tests/testthat/test-plot.R |only iglm-1.2.6/iglm/tests/testthat/test-printing.R | 64 iglm-1.2.6/iglm/tests/testthat/test-results.R | 22 iglm-1.2.6/iglm/tests/testthat/test-sampler.R | 17 iglm-1.2.6/iglm/tests/testthat/test-shared_partner.R |only iglm-1.2.6/iglm/tests/testthat/test-simulate-fixed.R |only iglm-1.2.6/iglm/tests/testthat/test-statistics.R | 548 ++++ iglm-1.2.6/iglm/vignettes/iglm.Rmd | 24 iglm-1.2.6/iglm/vignettes/model-terms.Rmd | 281 +- 64 files changed, 6496 insertions(+), 3903 deletions(-)
Title: Exact Arbitrary-Precision Decimal Vectors
Description: Arbitrary-precision vectors with an exact decimal representation,
avoiding the rounding surprises of binary floating point. Built on the
'mpdecimal' C library, arithmetic is governed by an explicit decimal
context controlling precision, rounding, and signaling, and vectors
integrate with 'vctrs' for use in data frames, 'tibble' objects, summaries,
and common numeric workflows. Missing values, signed zeros, infinities, and
not-a-number values are supported throughout. The arithmetic model follows
Cowlishaw (2009) "General Decimal Arithmetic"
<https://speleotrove.com/decimal/decarith.html>.
Author: Pedro Baltazar [aut, cre, cph],
Stefan Krah [ctb, cph]
Maintainer: Pedro Baltazar <pedrobtz@gmail.com>
Diff between decimal versions 0.1.0 dated 2026-08-24 and 0.1.1 dated 2026-09-23
DESCRIPTION | 14 MD5 | 47 +- NAMESPACE | 8 NEWS.md | 102 ++++ R/arrow.R |only R/decimal.R | 228 +++++++++- R/native-core.R | 4 R/zzz.R | 1 build/vignette.rds |binary inst/doc/arrow-decimal-types.R |only inst/doc/arrow-decimal-types.Rmd |only inst/doc/arrow-decimal-types.html |only inst/doc/contexts-and-signals.html | 6 inst/doc/decimal-values.R | 5 inst/doc/decimal-values.Rmd | 26 + inst/doc/decimal-values.html | 129 +++-- man/arrow_as_data_frame.Rd |only man/arrow_decimal_type.Rd |only man/as_decimal.Rd | 20 man/decimal_arrow.Rd |only man/summary.decimal.Rd |only src/core.c | 839 +++++++++++++++++++++++++------------ src/init.c | 2 tests/testthat/test-arrow.R |only tests/testthat/test-data-table.R |only tests/testthat/test-decimal.R | 108 ++++ tests/testthat/test-math.R | 85 +++ tests/testthat/test-native-core.R | 156 ++++++ vignettes/arrow-decimal-types.Rmd |only vignettes/decimal-values.Rmd | 26 + 30 files changed, 1456 insertions(+), 350 deletions(-)
Title: Probabilistic Streaming Data Sketches
Description: Provides an interface to the 'Apache DataSketches'
(<https://datasketches.apache.org/>) library of streaming algorithms for
approximate analytics on data too large to hold or process exactly.
Sketches are compact, mergeable summaries built in a single pass over a
stream that answer queries such as approximate distinct counts, quantiles
and ranks, frequent items and point-frequency estimates, weighted sampling,
and set membership with mathematically proven error bounds. Implements
Karnin-Lang-Liberty (KLL), Relative Error
Quantiles (REQ), t-Digest, HyperLogLog (HLL), Compressed Probabilistic
Counting (CPC), Theta, Frequent Items, Count-Min, Array of Doubles,
Variance Optimal (VarOpt), Exact and Bounded Probabilistic
Proportional-to-Size (EBPPS), and Bloom filter sketches, with native
serialization for interoperability with other 'Apache DataSketches'
implementations.
Author: Pedro Baltazar [aut, cre, cph],
The Apache Software Foundation [ctb] ,
Stephan Brumme [ctb] ,
Austin Appleby [ctb] ,
Sean Eron Anderson [ctb]
Maintainer: Pedro Baltazar <pedrobtz@gmail.com>
Diff between data.sketches versions 0.1.0 dated 2026-07-09 and 0.1.1 dated 2026-09-23
DESCRIPTION | 6 - MD5 | 74 +++++++++---------- NEWS.md | 47 ++++++++++++ R/cardinality-cpc.R | 2 R/cardinality-hll.R | 4 - R/cardinality-theta.R | 26 +++++- R/checks.R | 122 +++++++++++++++++++++++++++++++- R/count-min.R | 2 R/filters-bloom.R | 2 R/frequent-items.R | 2 R/print.R | 52 +++++++++++++ R/quantiles-kll-doubles.R | 8 +- R/quantiles-kll-floats.R | 8 +- R/quantiles-req.R | 8 +- R/quantiles-tdigest-double.R | 8 +- R/sampling-reservoir.R | 2 R/sampling-varopt.R | 2 R/tuple.R | 23 ++++-- README.md | 2 man/array_of_doubles.Rd | 6 + man/theta.Rd | 9 +- src/array_of_doubles_sketch.cpp | 16 ++-- src/bloom_filter.cpp | 32 ++++---- src/count_min_sketch.cpp | 16 ++-- src/cpc_sketch.cpp | 16 ++-- src/ebpps_sketch.cpp | 16 ++-- src/frequent_items_sketch.cpp | 12 +-- src/hll_sketch.cpp | 16 ++-- src/kll_doubles.cpp | 12 +-- src/kll_floats.cpp | 12 +-- src/req_sketch.cpp | 12 +-- src/tdigest_double.cpp | 12 +-- src/theta_sketch.cpp | 16 ++-- src/var_opt_sketch.cpp | 16 ++-- tests/testthat/test-cardinality-hll.R | 4 - tests/testthat/test-cardinality-theta.R | 41 ++++++++++ tests/testthat/test-conditions.R |only tests/testthat/test-interrupt-safety.R |only tests/testthat/test-tuple.R | 38 +++++++++ 39 files changed, 542 insertions(+), 160 deletions(-)
Title: Header-Only 'C++' and 'R' Interface
Description: Provides a header only, 'C++' interface to 'R' with enhancements
over 'cpp11'. Enforces copy-on-write semantics consistent with 'R'
behavior. Offers native support for ALTREP objects, 'UTF-8' string
handling, modern 'C++' features and idioms, and reduced memory
requirements. Allows for vendoring, making it useful for restricted
environments. Compared to 'cpp11', it adds support for converting 'C++'
maps to 'R' lists, 'Roxygen' documentation directly in 'C++' code, proper
handling of matrix attributes, support for nullable external pointers,
bidirectional copy of complex number types, flexibility in type
conversions, use of nullable pointers, and various performance
optimizations.
Author: Mauricio Vargas Sepulveda [aut, cre] ,
Posit Software, PBC [aut]
Maintainer: Mauricio Vargas Sepulveda <m.vargas.sepulveda@gmail.com>
Diff between cpp4r versions 1.1.0 dated 2026-07-21 and 1.3.0 dated 2026-09-23
cpp4r-1.1.0/cpp4r/inst/extdata/pkgtemplate/src/01_plus_one.h |only cpp4r-1.1.0/cpp4r/inst/extdata/pkgtemplate/src/02_plus_two.h |only cpp4r-1.1.0/cpp4r/inst/extdata/pkgtemplate/src/main.cpp |only cpp4r-1.3.0/cpp4r/DESCRIPTION | 14 - cpp4r-1.3.0/cpp4r/MD5 | 95 ++++++++--- cpp4r-1.3.0/cpp4r/NAMESPACE | 3 cpp4r-1.3.0/cpp4r/NEWS.md | 12 + cpp4r-1.3.0/cpp4r/R/cpp4r-package.R | 13 + cpp4r-1.3.0/cpp4r/R/decorations.R | 7 cpp4r-1.3.0/cpp4r/R/register.R | 35 +++- cpp4r-1.3.0/cpp4r/R/template.R | 18 -- cpp4r-1.3.0/cpp4r/R/vendor.R | 12 - cpp4r-1.3.0/cpp4r/build |only cpp4r-1.3.0/cpp4r/inst/WORDLIST | 29 ++- cpp4r-1.3.0/cpp4r/inst/doc |only cpp4r-1.3.0/cpp4r/inst/extdata/pkgtemplate/NAMESPACE | 2 cpp4r-1.3.0/cpp4r/inst/extdata/pkgtemplate/src/examples |only cpp4r-1.3.0/cpp4r/inst/extdata/pkgtemplate/src/template.h |only cpp4r-1.3.0/cpp4r/inst/tinytest/helper.R | 8 cpp4r-1.3.0/cpp4r/inst/tinytest/test_register.R | 30 +-- cpp4r-1.3.0/cpp4r/inst/tinytest/test_vendor.R | 11 - cpp4r-1.3.0/cpp4r/man/cpp4r-package.Rd | 41 +--- cpp4r-1.3.0/cpp4r/man/pkg_template.Rd | 13 + cpp4r-1.3.0/cpp4r/man/register.Rd | 28 +-- cpp4r-1.3.0/cpp4r/man/unvendor.Rd | 13 + cpp4r-1.3.0/cpp4r/man/vendor.Rd | 27 +-- cpp4r-1.3.0/cpp4r/vignettes |only 27 files changed, 261 insertions(+), 150 deletions(-)
Title: Create Interactive Chart with the JavaScript 'Billboard' Library
Description: Provides an 'htmlwidgets' interface to 'billboard.js',
a re-usable easy interface JavaScript chart library, based on D3 v4+.
Chart types include line charts, scatterplots, bar/lollipop charts, histogram/density plots, pie/donut charts and gauge charts.
All charts are interactive, and a proxy method is implemented to smoothly update a chart without rendering it again in 'shiny' apps.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
NAVER Corp [cph] ,
Mike Bostock [cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between billboarder versions 0.5.1 dated 2026-01-29 and 0.5.2 dated 2026-09-23
DESCRIPTION | 8 MD5 | 128 NAMESPACE | 46 NEWS.md | 8 R/bb_helpers.R | 3345 +++++++++---------- R/bb_utils.R | 1978 +++++------ R/billboarder.R | 87 build/vignette.rds |binary inst/doc/billboarder-intro.html | 832 ++-- inst/doc/billboarder-mapping.html | 776 ++-- inst/doc/billboarder-options.html | 834 ++-- inst/doc/billboarder.R | 102 inst/doc/billboarder.Rmd | 107 inst/doc/billboarder.html | 1387 ++++--- inst/htmlwidgets/billboarder.js | 873 ++-- inst/htmlwidgets/lib/billboard/billboard.min.css | 4 inst/htmlwidgets/lib/billboard/billboard.pkgd.min.js | 60 inst/htmlwidgets/lib/billboard/datalab.min.css | 4 inst/htmlwidgets/lib/billboard/graph.min.css | 4 inst/htmlwidgets/lib/billboard/insight.min.css | 4 inst/htmlwidgets/lib/billboard/modern.min.css | 4 man/bb_area.Rd | 12 man/bb_axis.Rd | 18 man/bb_bar.Rd | 9 man/bb_bar_color_manual.Rd | 11 man/bb_barchart.Rd | 48 man/bb_bubble.Rd | 19 man/bb_categories.Rd | 11 man/bb_color.Rd | 17 man/bb_colors_manual.Rd | 34 man/bb_data.Rd | 13 man/bb_densityplot.Rd | 39 man/bb_donut.Rd | 7 man/bb_donutchart.Rd | 14 man/bb_export.Rd | 39 man/bb_gauge.Rd | 17 man/bb_gaugechart.Rd | 15 man/bb_grid.Rd | 14 man/bb_histogram.Rd | 39 man/bb_interaction.Rd | 17 man/bb_legend.Rd | 15 man/bb_line.Rd | 11 man/bb_linechart.Rd | 96 man/bb_lollipop.Rd | 31 man/bb_padding.Rd | 13 man/bb_pie.Rd | 21 man/bb_piechart.Rd | 22 man/bb_point.Rd | 12 man/bb_radar.Rd | 12 man/bb_radarchart.Rd | 17 man/bb_regions.Rd | 50 man/bb_render.Rd | 13 man/bb_scatterplot.Rd | 37 man/bb_spline.Rd | 12 man/bb_subchart.Rd | 12 man/bb_svg.Rd | 12 man/bb_title.Rd | 13 man/bb_tooltip.Rd | 10 man/bb_transition.Rd | 12 man/bb_treemap.Rd | 12 man/bb_treemapchart.Rd | 20 man/bb_zoom.Rd | 15 man/billboarder.Rd | 67 tests/testthat/test-readme.R | 701 +-- vignettes/billboarder.Rmd | 107 65 files changed, 6467 insertions(+), 5860 deletions(-)
Title: Create Interactive Chart with the JavaScript 'ApexCharts'
Library
Description: Provides an 'htmlwidgets' interface to 'apexcharts.js'.
'Apexcharts' is a modern JavaScript charting library to build interactive charts and visualizations with simple API.
'Apexcharts' examples and documentation are available here: <https://apexcharts.com/>.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
Juned Chhipa [cph] ,
Mike Bostock [cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between apexcharter versions 0.5.0 dated 2026-06-23 and 0.5.1 dated 2026-09-23
DESCRIPTION | 10 - MD5 | 28 ++-- NAMESPACE | 94 +++++++++------- NEWS.md | 7 + R/apex.R | 3 R/apexcharter.R | 9 + R/data.R | 11 + build/vignette.rds |binary data/blockbusters.rda |only inst/doc/apexcharter.R | 33 +++++ inst/doc/apexcharter.Rmd | 41 ++++++- inst/doc/apexcharter.html | 163 ++++++++++++++++------------ inst/htmlwidgets/apexcharter.js | 2 inst/htmlwidgets/apexcharter.js.LICENSE.txt | 2 man/blockbusters.Rd |only vignettes/apexcharter.Rmd | 41 ++++++- 16 files changed, 305 insertions(+), 139 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-15 1.0.0
2024-04-30 0.3.4
Title: Offline 'Google' Fonts for 'Markdown' and 'Shiny'
Description: Download 'Google' fonts and generate 'CSS' to use in 'rmarkdown' documents and
'shiny' applications. Some popular fonts are included and ready to use.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
Mario Ranftl [ctb, cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between gfonts versions 0.2.0 dated 2023-01-08 and 0.2.1 dated 2026-09-23
DESCRIPTION | 8 MD5 | 54 NAMESPACE | 30 NEWS.md | 49 R/api.R | 262 +-- R/css.R | 176 +- R/data.R | 28 R/gfonts-package.R | 39 R/setup_font.R | 200 +-- R/use_pkg_gfont.R | 2 README.md | 170 +- build/vignette.rds |binary inst/assets/css/oswald.css | 48 inst/assets/css/poppins.css | 48 inst/assets/templates/css_modern.txt | 18 inst/doc/gfonts.R | 88 - inst/doc/gfonts.Rmd | 268 ++-- inst/doc/gfonts.html | 954 +++++++------- man/gfonts.Rd | 14 man/use_pkg_gfont.Rd | 2 tests/testthat/generate_css.yml | 76 - tests/testthat/get_all_fonts.yml | 1838 ++++++++++++++-------------- tests/testthat/get_font_info_montserrat.yml | 76 - tests/testthat/get_font_info_roboto.yml | 76 - tests/testthat/test-api.R | 102 - tests/testthat/test-setup_font.R | 44 vignettes/articles/included-fonts.Rmd | 360 ++--- vignettes/gfonts.Rmd | 268 ++-- 28 files changed, 2660 insertions(+), 2638 deletions(-)
Title: Bayesian Reliability Estimation
Description: Functionality for reliability estimates. For 'unidimensional' tests:
Coefficient alpha, 'Guttman's' lambda-2/-4/-6, the Greatest lower
bound and coefficient omega_u ('unidimensional') in a Bayesian and a frequentist version.
For multidimensional tests: omega_t (total) and omega_h (hierarchical).
The results include confidence and credible intervals, the
probability of a coefficient being larger than a cutoff,
and a check for the factor models, necessary for the omega coefficients.
The method for the Bayesian 'unidimensional' estimates, except for omega_u,
is sampling from the posterior inverse 'Wishart' for the
covariance matrix based measures (see 'Murphy', 2007,
<https://groups.seas.harvard.edu/courses/cs281/papers/murphy-2007.pdf>).
The Bayesian omegas (u, t, and h) are obtained by
'Gibbs' sampling from the conditional posterior distributions of
(1) the single factor model, (2) the second-order factor model, (3) the bi-factor model,
(4) the correlated factor model
('Lee', 2007 [...truncated...]
Author: Julius M. Pfadt [aut, cre] ,
Don van den Bergh [aut] ,
Joris Goosen [aut]
Maintainer: Julius M. Pfadt <julius.pfadt@gmail.com>
Diff between Bayesrel versions 0.7.9 dated 2026-07-28 and 0.8.0 dated 2026-09-23
DESCRIPTION | 10 +++--- MD5 | 18 ++++++------ NEWS.md | 27 ++++++++++++++++++ R/genericFunctions.R | 11 ++++++- R/omegasCFAMultiOut.R | 12 ++++++-- R/omegasMultiLavaan.R | 37 ++++++++++++++++++++----- R/reliabilityMultiFreq.R | 25 ++++++++++++++++- build/partial.rdb |binary inst/tinytest/test_omegas.R | 63 ++++++++++++++++++++++++++++++++++++++++++++ man/omegasCFA.Rd | 9 +++++- 10 files changed, 185 insertions(+), 27 deletions(-)
Title: Inference Based on Non-Probability Samples
Description: Statistical inference with non-probability samples when auxiliary information from external sources such as probability samples or population totals or means is available. The package implements various methods such as inverse probability (propensity score) weighting, mass imputation and doubly robust approach. Details can be found in: Chen et al. (2020) <doi:10.1080/01621459.2019.1677241>, Yang et al. (2020) <doi:10.1111/rssb.12354>, Kim et al. (2021) <doi:10.1111/rssa.12696>, Yang et al. (2021) <https://www150.statcan.gc.ca/n1/pub/12-001-x/2021001/article/00004-eng.htm> and Wu (2022) <https://www150.statcan.gc.ca/n1/pub/12-001-x/2022002/article/00002-eng.htm>. For details on the package and its functionalities see <doi:10.18637/jss.v117.i02>.
Author: Lukasz Chrostowski [aut, ctb],
Maciej Beresewicz [aut, cre] ,
Piotr Chlebicki [aut, ctb]
Maintainer: Maciej Beresewicz <maciej.beresewicz@ue.poznan.pl>
Diff between nonprobsvy versions 0.2.3 dated 2025-08-20 and 0.3.0 dated 2026-09-23
DESCRIPTION | 17 MD5 | 125 ++- NAMESPACE | 4 NEWS.md | 63 + R/RcppExports.R | 4 R/boot_dr.R | 358 +++++------ R/boot_ipw.R | 104 ++- R/boot_mi.R | 247 +++---- R/check_balance.R | 41 - R/control_inference.R | 47 + R/control_outcome.R | 52 + R/control_selection.R | 4 R/est_method_ipw.R | 4 R/internals.R | 2 R/method_glm.R | 101 ++- R/method_nn.R | 441 +++++++++++-- R/method_npar.R | 30 R/method_pmm.R | 168 +++-- R/method_ps.R | 602 +++++++++++------- R/methods.R | 76 +- R/nonprob.R | 59 + R/nonprob_documentation.R | 128 ++-- R/nonprob_dr.R | 421 +++++++++---- R/nonprob_ipw.R | 96 ++- R/nonprob_mi.R | 208 ++++-- R/prints.R | 47 + R/summary.R | 7 R/variance_ipw.R | 4 README.md | 296 +++++---- build |only inst/CITATION | 44 - inst/WORDLIST | 76 ++ inst/doc |only inst/tinytest/test_boot_reproducibility.R |only inst/tinytest/test_controls.R | 32 - inst/tinytest/test_dr.R | 258 ++++++-- inst/tinytest/test_ipw.R | 113 +++ inst/tinytest/test_ipw_boot.R | 55 + inst/tinytest/test_ipw_mle_variance_formulas.R |only inst/tinytest/test_ipw_stability.R |only inst/tinytest/test_make_outcomes.R |only inst/tinytest/test_methods.R | 51 + inst/tinytest/test_mi.R | 100 +++ inst/tinytest/test_mi_boot_nn_pmm.R |only inst/tinytest/test_mi_known_n.R |only inst/tinytest/test_mult_outcome_analytic_variance.R |only inst/tinytest/test_nn_cache.R |only inst/tinytest/test_nn_k.R |only inst/tinytest/test_nonprob.R | 3 inst/tinytest/test_nonprob_unit_level.R | 40 + inst/tinytest/test_pmm_k_choice.R |only inst/tinytest/test_rcpp_cv.R |only inst/tinytest/test_simulations.R | 92 ++ inst/tinytest/test_vars_selection.R | 337 ++++++---- man/check_balance.Rd | 41 - man/control_inf.Rd | 22 man/control_out.Rd | 40 - man/control_sel.Rd | 4 man/method_glm.Rd | 16 man/method_nn.Rd | 72 +- man/method_npar.Rd | 16 man/method_pmm.Rd | 66 +- man/nonprob.Rd | 96 ++- man/pop_size.Rd | 36 - man/summary.nonprob.Rd | 3 src/RcppExports.cpp | 15 src/nonprobCV_cpp.cpp | 639 +++++++++++--------- tests/tinytest.R | 31 vignettes |only 69 files changed, 4048 insertions(+), 2006 deletions(-)
Title: Computational Test for Conditional Independence
Description: Tool for performing computational testing for conditional independence between variables in a dataset. 'CCI' implements permutation in combination with Monte Carlo Cross-Validation in generating null distributions and test statistics. For more details see Computational Test for Conditional Independence (2024) <doi:10.3390/a17080323>.
Author: Christian Thorjussen [aut, cre] ,
Kristian Hovde Liland [aut]
Maintainer: Christian Thorjussen <christianbern@gmail.com>
Diff between CCI versions 0.3.6.1 dated 2026-03-03 and 0.3.7 dated 2026-09-23
CCI-0.3.6.1/CCI/inst/NEWS.Rd |only CCI-0.3.6.1/CCI/tests/testthat/dev.R |only CCI-0.3.7/CCI/DESCRIPTION | 11 CCI-0.3.7/CCI/MD5 | 98 +- CCI-0.3.7/CCI/NAMESPACE | 4 CCI-0.3.7/CCI/NEWS.md |only CCI-0.3.7/CCI/R/CCI.direction.R | 326 ++++---- CCI-0.3.7/CCI/R/CCI.pretuner.R | 632 +++++++--------- CCI-0.3.7/CCI/R/CCI.test.R | 646 ++++++++-------- CCI-0.3.7/CCI/R/QQplot.R | 143 +-- CCI-0.3.7/CCI/R/perm.test.R | 310 +++----- CCI-0.3.7/CCI/R/plot.R | 23 CCI-0.3.7/CCI/R/reports.R | 139 ++- CCI-0.3.7/CCI/R/test.gen.R | 506 ++++++------- CCI-0.3.7/CCI/R/utils.R | 139 +++ CCI-0.3.7/CCI/R/wrappers.R | 357 +++------ CCI-0.3.7/CCI/README.md | 612 ++-------------- CCI-0.3.7/CCI/build/vignette.rds |binary CCI-0.3.7/CCI/inst/CITATION | 44 - CCI-0.3.7/CCI/inst/doc/Testing-CI-with-CCI.R | 140 +-- CCI-0.3.7/CCI/inst/doc/Testing-CI-with-CCI.Rmd | 436 ++++++----- CCI-0.3.7/CCI/inst/doc/Testing-CI-with-CCI.html | 687 +++++++++--------- CCI-0.3.7/CCI/inst/doc/applied-examples.R |only CCI-0.3.7/CCI/inst/doc/applied-examples.Rmd |only CCI-0.3.7/CCI/inst/doc/applied-examples.html |only CCI-0.3.7/CCI/inst/doc/custom-models-and-metrics.R |only CCI-0.3.7/CCI/inst/doc/custom-models-and-metrics.Rmd |only CCI-0.3.7/CCI/inst/doc/custom-models-and-metrics.html |only CCI-0.3.7/CCI/inst/doc/diagnostics-and-tuning.R |only CCI-0.3.7/CCI/inst/doc/diagnostics-and-tuning.Rmd |only CCI-0.3.7/CCI/inst/doc/diagnostics-and-tuning.html |only CCI-0.3.7/CCI/man/CCI.direction.Rd | 69 + CCI-0.3.7/CCI/man/CCI.pretuner.Rd | 104 +- CCI-0.3.7/CCI/man/CCI.test.Rd | 26 CCI-0.3.7/CCI/man/QQplot.Rd | 10 CCI-0.3.7/CCI/man/add_poly_terms.Rd | 2 CCI-0.3.7/CCI/man/clean_formula.Rd | 8 CCI-0.3.7/CCI/man/get_pvalues.Rd | 6 CCI-0.3.7/CCI/man/get_tuned_params.Rd | 3 CCI-0.3.7/CCI/man/perm.test.Rd | 13 CCI-0.3.7/CCI/man/plot.CCI.Rd | 8 CCI-0.3.7/CCI/man/reports.Rd | 34 CCI-0.3.7/CCI/man/test.gen.Rd | 11 CCI-0.3.7/CCI/man/wrapper_knn.Rd | 4 CCI-0.3.7/CCI/man/wrapper_ranger.Rd | 2 CCI-0.3.7/CCI/man/wrapper_xgboost.Rd | 27 CCI-0.3.7/CCI/tests/testthat.R |only CCI-0.3.7/CCI/tests/testthat/test-character.R |only CCI-0.3.7/CCI/tests/testthat/test-direction.R |only CCI-0.3.7/CCI/tests/testthat/test-formula.R |only CCI-0.3.7/CCI/tests/testthat/test-mc-sample.R |only CCI-0.3.7/CCI/tests/testthat/test-metricfunc.R |only CCI-0.3.7/CCI/tests/testthat/test-misc.R |only CCI-0.3.7/CCI/tests/testthat/test-perm-test.R |only CCI-0.3.7/CCI/tests/testthat/test-pretuner.R |only CCI-0.3.7/CCI/tests/testthat/test-pvalues.R |only CCI-0.3.7/CCI/tests/testthat/test-qqplot.R |only CCI-0.3.7/CCI/tests/testthat/test-reports.R |only CCI-0.3.7/CCI/tests/testthat/test-wrapper-xgboost.R |only CCI-0.3.7/CCI/vignettes/Testing-CI-with-CCI.Rmd | 436 ++++++----- CCI-0.3.7/CCI/vignettes/applied-examples.Rmd |only CCI-0.3.7/CCI/vignettes/custom-models-and-metrics.Rmd |only CCI-0.3.7/CCI/vignettes/diagnostics-and-tuning.Rmd |only CCI-0.3.7/CCI/vignettes/references.bib | 48 + 64 files changed, 3070 insertions(+), 2994 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre, cph],
Victor Morales-Onate [ctb],
Francisco Cuevas-Pacheco [ctb],
Christian Caamano-Carrillo [ctb]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 2.2.8 dated 2026-08-21 and 2.2.9 dated 2026-09-23
DESCRIPTION | 9 MD5 | 89 +-- NAMESPACE | 7 R/BuildInfo.R | 5 R/CVUtils.R | 137 ++++- R/GeoCV.R | 182 +++++- R/GeoCorrFct.r | 22 R/GeoCovariogram.r | 24 R/GeoCovmatrix.r | 64 ++ R/GeoFit.R | 25 R/GeoKrig.r | 153 +++++ R/GeoKrigloc.R | 71 ++ R/GeoKriglocWeights.R | 4 R/GeoOMP.R |only R/GeoSimapprox.r | 5 R/GeoWls.r | 44 + R/KrigUtils.R | 92 ++- R/ParameterValidation.R |only R/SimulationUtils.R | 2 R/Utility.r | 6 R/Utility_cov.R | 10 inst |only man/GeoCV.Rd | 87 ++- man/GeoCovariogram.Rd | 2 man/GeoCovmatrix.Rd | 23 man/GeoFit.Rd | 11 man/GeoKrig.Rd | 28 - man/GeoKrigloc.Rd | 23 man/GeoKriglocWeights.Rd | 8 man/GeoNA.Rd | 2 man/GeoNeighborhood.Rd | 2 man/GeoOMP.Rd |only man/WlsStart.Rd | 2 src/2F1.c | 6 src/2kummer.c | 1101 ++++++++++++++--------------------------- src/CompositeLikelihood2.c | 12 src/CompositeLikelihood2_ani.c | 4 src/CompositeLikelihoodCond2.c | 12 src/CorrelationFunction.c | 102 ++- src/Distributions.c | 983 +++++++----------------------------- src/GeoModels_init.c | 11 src/Makevars | 8 src/OpenMP.c |only src/PairCache.c | 410 ++++++++------- src/correlation_param_count.h |only src/count_conditional_gibbs.c | 61 +- src/header.h | 23 src/matern_bessel.c |only src/matern_bessel.h |only src/matern_kernel.h |only 50 files changed, 1967 insertions(+), 1905 deletions(-)
Title: Three-Step Estimation for Latent Class Analysis
Description: Implements BCH (Bolck-Croon-Hagenaars) <doi:10.1093/pan/mph001> and ML (Vermunt's maximum likelihood) <doi:10.1093/pan/mpq025> approaches for three-step estimation of latent class models with covariates and distal outcomes, following Bakk, Tekle & Vermunt (2013) <doi:10.1177/0081175012470644>, Bakk, Oberski & Vermunt (2014) <https://www.jstor.org/stable/24573086>, and Bakk & Kuha (2018) <doi:10.1007/s11336-017-9592-7>. Built on 'multilevLCA' (Lyrvall et al., 2025) <doi:10.1080/00273171.2025.2473935> for Step-1 measurement model estimation, this package extends it with support for Gaussian, Poisson, and binomial distal outcome families. Unlike 'poLCA', which relies on one-step estimation and cannot accommodate a measurement model from a different sample, this package uses a stepwise approach to prevent the structural model from influencing latent class formation. Implements correct sandwich variance estimation that propagates measurement u [...truncated...]
Author: Sam Lee [aut, cre, cph] ,
Jay Goodliffe [aut, cph]
Maintainer: Sam Lee <samlee@arizona.edu>
Diff between tseLCA versions 1.1.0 dated 2026-09-19 and 1.1.1 dated 2026-09-23
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 6 ++++++ R/tseLCA-package.R | 2 +- README.md | 5 +++-- inst/CITATION | 7 +++++-- inst/doc/tseLCA-workflow.html | 9 +++++---- man/tseLCA-package.Rd | 2 +- 8 files changed, 33 insertions(+), 22 deletions(-)
Title: 'Stata' Markdown
Description: Settings and functions to extend the 'knitr' 'Stata' engine.
Author: Doug Hemken [aut] ),
Tom Palmer [aut, cre] ,
Philipp Lepert [ctb]
Maintainer: Tom Palmer <remlapmot@hotmail.com>
Diff between Statamarkdown versions 1.0.0 dated 2026-08-21 and 1.1.0 dated 2026-09-23
DESCRIPTION | 11 +- MD5 | 48 ++++----- NEWS.md | 8 + R/find_stata.r | 8 - R/purl_stata.R | 49 +++++---- R/spinstata.R | 196 +++++++++++---------------------------- R/stata_engine.r | 2 R/utils.R | 46 --------- inst/doc/basicuse.html | 4 inst/doc/basicuse.qmd | 2 inst/doc/linkblocks.html | 4 inst/doc/linkblocks.qmd | 2 inst/doc/randstata.html | 4 inst/doc/randstata.qmd | 2 man/find_stata.Rd | 6 - man/purl_stata.Rd | 16 +-- man/spinstata.Rd | 23 +++- man/stata_engine.Rd | 2 tests/testthat/test-find_stata.R | 14 ++ tests/testthat/test-purl_stata.R | 30 ++++- tests/testthat/test-render.R | 4 tests/testthat/test-spinstata.R | 84 ++++++++++++++++ vignettes/basicuse.qmd | 2 vignettes/linkblocks.qmd | 2 vignettes/randstata.qmd | 2 25 files changed, 297 insertions(+), 274 deletions(-)
Title: Modified Poisson Regression for Binary Outcome and Related
Methods
Description: Modified Poisson, logistic and least-squares regression analyses for binary outcomes of Zou (2004) <doi:10.1093/aje/kwh090>, Noma (2026)<doi:10.1016/j.spl.2026.110698>, and Cheung (2007) <doi:10.1093/aje/kwm223> have been standard multivariate analysis methods to estimate risk ratio and risk difference in clinical and epidemiological studies. This R package involves an easy-to-handle function to implement these analyses by simple commands. Missing data analysis tools (multiple imputation) are also involved. In addition, recent studies have shown the ordinary robust variance estimator possibly has serious bias under small or moderate sample size situations for these methods. This package also provides computational tools to calculate alternative accurate confidence intervals.
Author: Hisashi Noma [aut, cre]
Maintainer: Hisashi Noma <noma@ism.ac.jp>
Diff between rqlm versions 4.4-1 dated 2026-07-13 and 4.5-1 dated 2026-09-23
DESCRIPTION | 8 MD5 | 26 - NAMESPACE | 61 +-- NEWS.md | 6 R/methods.r |only R/qlogist.r | 576 +++++++++++++++++--------------- R/rqlm.r | 922 ++++++++++++++++++++++++++-------------------------- R/ttemsm.r | 304 +++++++++-------- data/SGLT2i01.RData |only data/SGLT2i02.RData |only man/SGLT2i01.Rd |only man/SGLT2i02.Rd |only man/qlogist.Rd | 47 ++ man/rqlm-methods.Rd |only man/rqlm-package.Rd | 4 man/rqlm.Rd | 30 + man/ttemsm.Rd | 40 +- 17 files changed, 1097 insertions(+), 927 deletions(-)
Title: Kriging Models using the 'libKriging' Library
Description: Interface to 'libKriging' 'C++' library <https://github.com/libKriging> that should
provide most standard Kriging / Gaussian process regression features
(like in 'DiceKriging', 'kergp' or 'RobustGaSP' packages).
'libKriging' relies on Armadillo linear algebra library (Apache 2 license) by Conrad Sanderson,
'lbfgsb_cpp' is a 'C++' port around by Pascal Have of 'lbfgsb' library (BSD-3 license) by
Ciyou Zhu, Richard Byrd, Jorge Nocedal and Jose Luis Morales used for hyperparameters optimization.
Author: Yann Richet [aut, cre] ,
Pascal Have [aut],
Yves Deville [aut],
Conrad Sanderson [ctb],
Ciyou Zhu [ctb],
Richard Byrd [ctb],
Jorge Nocedal [ctb],
Jose Luis Morales [ctb],
Mike Smith [ctb]
Maintainer: Yann Richet <yann.richet@asnr.fr>
Diff between rlibkriging versions 1.1-1 dated 2026-07-12 and 1.2-2 dated 2026-09-23
rlibkriging-1.1-1/rlibkriging/src/libK/AGENTS.md |only rlibkriging-1.2-2/rlibkriging/DESCRIPTION | 14 rlibkriging-1.2-2/rlibkriging/MD5 | 102 - rlibkriging-1.2-2/rlibkriging/NAMESPACE | 16 rlibkriging-1.2-2/rlibkriging/NEWS.md | 46 rlibkriging-1.2-2/rlibkriging/R/KrigingClass.R | 66 rlibkriging-1.2-2/rlibkriging/R/NestedKrigingClass.R | 2 rlibkriging-1.2-2/rlibkriging/R/RcppExports.R | 36 rlibkriging-1.2-2/rlibkriging/R/WarpKrigingClass.R | 122 + rlibkriging-1.2-2/rlibkriging/man/Kriging.Rd | 9 rlibkriging-1.2-2/rlibkriging/man/NestedKriging.Rd | 2 rlibkriging-1.2-2/rlibkriging/man/WarpKriging.Rd | 27 rlibkriging-1.2-2/rlibkriging/man/covMat.WarpKriging.Rd |only rlibkriging-1.2-2/rlibkriging/man/fit.Kriging.Rd | 6 rlibkriging-1.2-2/rlibkriging/man/fit.WarpKriging.Rd | 12 rlibkriging-1.2-2/rlibkriging/man/noise.Rd |only rlibkriging-1.2-2/rlibkriging/man/noise.WarpKriging.Rd |only rlibkriging-1.2-2/rlibkriging/man/subsetOfData.Rd |only rlibkriging-1.2-2/rlibkriging/man/update.WarpKriging.Rd | 10 rlibkriging-1.2-2/rlibkriging/man/update_simulate.WarpKriging.Rd | 6 rlibkriging-1.2-2/rlibkriging/man/warp_params.Rd |only rlibkriging-1.2-2/rlibkriging/man/warp_params.WarpKriging.Rd |only rlibkriging-1.2-2/rlibkriging/src/RcppExports.cpp | 107 + rlibkriging-1.2-2/rlibkriging/src/WarpKriging_binding.cpp | 127 + rlibkriging-1.2-2/rlibkriging/src/kriging_binding.cpp | 17 rlibkriging-1.2-2/rlibkriging/src/libK/CHANGELOG.md | 217 +++ rlibkriging-1.2-2/rlibkriging/src/libK/CMakeLists.txt | 47 rlibkriging-1.2-2/rlibkriging/src/libK/CONTRIBUTING.md | 4 rlibkriging-1.2-2/rlibkriging/src/libK/README.md | 87 - rlibkriging-1.2-2/rlibkriging/src/libK/RELEASE.md |only rlibkriging-1.2-2/rlibkriging/src/libK/cmake/update_version.sh | 2 rlibkriging-1.2-2/rlibkriging/src/libK/cmake/version.cmake | 4 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/Kriging.cpp | 682 +++++++++- rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/KrigingImpl.cpp | 68 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/LinearAlgebra.cpp | 105 + rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/NestedKriging.cpp | 13 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/WarpKriging.cpp | 381 ++++- rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/Covariance.hpp | 2 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/Kriging.hpp | 138 +- rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/KrigingImpl.hpp | 29 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/LinearAlgebra.hpp | 32 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/MLPKriging.hpp | 2 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/NestedKriging.hpp | 2 rlibkriging-1.2-2/rlibkriging/src/libK/src/lib/include/libKriging/WarpKriging.hpp | 140 +- rlibkriging-1.2-2/rlibkriging/src/libK/tools/common/before_script.sh | 2 rlibkriging-1.2-2/rlibkriging/src/libK/tools/linux-macos/install.sh | 2 rlibkriging-1.2-2/rlibkriging/src/libK/tools/linux-macos/loadenv.sh | 2 rlibkriging-1.2-2/rlibkriging/src/libK/tools/linux-macos/test.sh | 2 rlibkriging-1.2-2/rlibkriging/src/libK/tools/notebooks |only rlibkriging-1.2-2/rlibkriging/src/libK/tools/octave-windows/test.sh | 10 rlibkriging-1.2-2/rlibkriging/src/libK/tools/release/check_versions.py |only rlibkriging-1.2-2/rlibkriging/src/libK/tools/windows/build.sh | 13 rlibkriging-1.2-2/rlibkriging/src/libK/tools/windows/test.sh | 7 rlibkriging-1.2-2/rlibkriging/tests/test-KrigingConstructorConsistency.R | 6 rlibkriging-1.2-2/rlibkriging/tests/test-WarpKriging.R | 95 + rlibkriging-1.2-2/rlibkriging/tools/gitmodules-shas | 2 rlibkriging-1.2-2/rlibkriging/tools/setup.sh | 85 - 57 files changed, 2486 insertions(+), 422 deletions(-)
Title: Application of NODEs in 'Monolix', 'NONMEM', and 'nlmixr2'
Description: An easy-to-use tool for implementing Neural Ordinary Differential Equations (NODEs) in pharmacometric software such as 'Monolix', 'NONMEM', and 'nlmixr2', see Bräm et al. (2024) <doi:10.1007/s10928-023-09886-4> and Bräm et al. (2025) <doi:10.1002/psp4.13265>. The main functionality is to automatically generate structural model code describing computations within a neural network. Additionally, parameters and software settings can be initialized automatically. For using these additional functionalities with 'Monolix', 'pmxNODE' interfaces with 'MonolixSuite' via the 'lixoftConnectors' package. The 'lixoftConnectors' package is distributed with 'MonolixSuite' (<https://monolixsuite.slp-software.com/r-functions/2024R1/package-lixoftconnectors>) and is not available from public repositories.
Author: Dominic Braem [aut, cre] ,
Bernhard Steiert [ctb],
Gilbert Koch [ctb],
Matthew Fidler [ctb]
Maintainer: Dominic Braem <domi.braem@hotmail.com>
Diff between pmxNODE versions 0.1.0 dated 2025-11-26 and 0.2.1 dated 2026-09-23
DESCRIPTION | 8 +-- MD5 | 84 +++++++++++++++++++-------------------- NAMESPACE | 13 ++++-- R/der_vs_state.R | 48 ++++++++++++++-------- R/der_vs_state_nlmixr.R | 20 +++++---- R/helpers_mlx.R | 68 +++++++++++++++++++++++-------- R/helpers_nm.R | 57 +++++++++++++++----------- R/ind_rhs_data_funs.R | 81 ++++++++++++++++++++++++++++--------- R/nn_converters.R | 27 ++++++++---- R/rhs_data_funs.R | 69 +++++++++++++++++++++++++------- README.md | 18 +++----- build/vignette.rds |binary inst/doc/pmxNODE_in_Monolix.html | 26 ++++++------ inst/doc/pmxNODE_in_NONMEM.html | 36 ++++++++-------- man/der_state_plot_mlx.Rd | 3 + man/der_state_plot_nlmixr.Rd | 3 + man/der_state_plot_nm.Rd | 3 + man/der_vs_state_mlx.Rd | 3 + man/der_vs_state_nlmixr.Rd | 3 + man/der_vs_state_nm.Rd | 3 + man/ind_der_state_plot_mlx.Rd | 3 + man/ind_der_state_plot_nlmixr.Rd | 3 + man/ind_der_state_plot_nm.Rd | 3 + man/ind_der_vs_state_mlx.Rd | 3 + man/ind_der_vs_state_nlmixr.Rd | 3 + man/ind_der_vs_state_nm.Rd | 3 + man/ind_rhs_calc_mlx.Rd | 3 + man/ind_rhs_calc_nlmixr.Rd | 3 + man/ind_rhs_calc_nm.Rd | 3 + man/ind_rhs_plot_mlx.Rd | 3 + man/ind_rhs_plot_nlmixr.Rd | 3 + man/ind_rhs_plot_nm.Rd | 3 + man/mlx_model_initializer.Rd | 16 ++++++- man/model_parm_updater_mlx.Rd | 6 +- man/nn_converter_mlx.Rd | 14 +++++- man/pre_fixef_extractor_nm.Rd | 4 + man/rhs_calc_mlx.Rd | 3 + man/rhs_calc_nlmixr.Rd | 3 + man/rhs_calc_nm.Rd | 3 + man/rhs_plot_mlx.Rd | 3 + man/rhs_plot_nlmixr.Rd | 3 + man/rhs_plot_nm.Rd | 3 + man/run_nm.Rd | 6 +- 43 files changed, 462 insertions(+), 211 deletions(-)
Title: Least Squares Sparse Principal Components Analysis
Description: Implements least-squares sparse principal component analysis with cardinality constraints. The package has an efficient C++ backend and provides functions for fitting, summarizing, comparing, and visualizing sparse principal component models. The approach follows Merola (2015) <doi:10.1111/anzs.12128> and Merola and Chen (2019) <doi:10.1016/j.jmva.2019.04.001>.
Author: Giovanni Maria Merola [aut, cre]
Maintainer: Giovanni Maria Merola <merolagio@gmail.com>
Diff between spca versions 1.1.3 dated 2026-08-31 and 1.1.4 dated 2026-09-23
spca-1.1.3/spca/man/qqplot_spca.Rd |only spca-1.1.3/spca/man/screeplot_spca.Rd |only spca-1.1.3/spca/tests/testthat/test-compare-plot.R |only spca-1.1.3/spca/tests/testthat/test-methods.R |only spca-1.1.3/spca/tests/testthat/test-new-spca.R |only spca-1.1.4/spca/DESCRIPTION | 11 spca-1.1.4/spca/MD5 | 170 - spca-1.1.4/spca/NAMESPACE | 18 spca-1.1.4/spca/NEWS.md | 23 spca-1.1.4/spca/R/Internal_utilities_and_cpp_wrappers.R | 152 - spca-1.1.4/spca/R/RcppExports.R | 4 spca-1.1.4/spca/R/compare_spca.R | 67 spca-1.1.4/spca/R/methods_and_functions.R | 422 ++- spca-1.1.4/spca/R/pca.R | 127 - spca-1.1.4/spca/R/pca_methods.R | 394 ++- spca-1.1.4/spca/R/plot.spca.R | 477 ++-- spca-1.1.4/spca/R/print.spca.R | 50 spca-1.1.4/spca/R/spca-package.R | 5 spca-1.1.4/spca/R/spca.R | 119 - spca-1.1.4/spca/R/summary.spca.R | 55 spca-1.1.4/spca/R/validation.R | 22 spca-1.1.4/spca/README.md | 277 +- spca-1.1.4/spca/build/vignette.rds |binary spca-1.1.4/spca/inst/doc/spca_extended.R | 269 +- spca-1.1.4/spca/inst/doc/spca_extended.Rmd | 580 +++-- spca-1.1.4/spca/inst/doc/spca_extended.html | 1145 +++++++--- spca-1.1.4/spca/inst/doc/spca_intro.R | 32 spca-1.1.4/spca/inst/doc/spca_intro.Rmd | 88 spca-1.1.4/spca/inst/doc/spca_intro.html | 288 +- spca-1.1.4/spca/man/aggregate_by_group.Rd | 72 spca-1.1.4/spca/man/change_loadings_sign_spca.Rd | 8 spca-1.1.4/spca/man/change_sign.Rd | 63 spca-1.1.4/spca/man/change_weights_sign_spca.Rd | 8 spca-1.1.4/spca/man/compare_spca.Rd | 29 spca-1.1.4/spca/man/figures/README-circular-1.png |binary spca-1.1.4/spca/man/figures/README-groups-1.png |binary spca-1.1.4/spca/man/figures/README-heatmap-1.png |binary spca-1.1.4/spca/man/figures/README-methods-1.png |binary spca-1.1.4/spca/man/figures/README-pca_checks-1.png |binary spca-1.1.4/spca/man/figures/README-pca_checks-2.png |binary spca-1.1.4/spca/man/figures/README-plots-1.png |only spca-1.1.4/spca/man/figures/README-spca90-1.png |binary spca-1.1.4/spca/man/figures/README-spca_vs_pca-1.png |only spca-1.1.4/spca/man/is.pca.Rd |only spca-1.1.4/spca/man/is.spca.Rd | 7 spca-1.1.4/spca/man/mp_qqplot.Rd |only spca-1.1.4/spca/man/new_spca.Rd | 7 spca-1.1.4/spca/man/pca.Rd | 58 spca-1.1.4/spca/man/plot.spca.Rd | 68 spca-1.1.4/spca/man/print.spca.Rd | 45 spca-1.1.4/spca/man/scree_plot.Rd |only spca-1.1.4/spca/man/show_contributions_spca.Rd |only spca-1.1.4/spca/man/show_correlations.Rd | 45 spca-1.1.4/spca/man/show_weights.Rd | 62 spca-1.1.4/spca/man/spca-package.Rd | 5 spca-1.1.4/spca/man/spca.Rd | 32 spca-1.1.4/spca/man/spca_object.Rd | 7 spca-1.1.4/spca/man/spca_screeplot.Rd | 24 spca-1.1.4/spca/man/summary.spca.Rd | 41 spca-1.1.4/spca/man/wachter_qqplot.Rd | 58 spca-1.1.4/spca/src/RcppExports.cpp | 15 spca-1.1.4/spca/src/spca_fat.cpp | 52 spca-1.1.4/spca/src/spca_tall.cpp | 51 spca-1.1.4/spca/src/utility_wrappers.cpp | 52 spca-1.1.4/spca/tests/testthat/Rplots.pdf |only spca-1.1.4/spca/tests/testthat/test-pca-methods.R |only spca-1.1.4/spca/tests/testthat/test-pca-plots.R | 62 spca-1.1.4/spca/tests/testthat/test-plot.R |only spca-1.1.4/spca/tests/testthat/test-spca-fixedindex.R | 70 spca-1.1.4/spca/tests/testthat/test-spca-functions.R |only spca-1.1.4/spca/tests/testthat/test-spca-methods.R |only spca-1.1.4/spca/tests/testthat/test-spca-selection.R | 3 spca-1.1.4/spca/tests/testthat/test-spca-validation.R | 20 spca-1.1.4/spca/tests/testthat/test-spca.R | 1 spca-1.1.4/spca/vignettes/Extended_vignette_material/spca_vignette_results.rda |only spca-1.1.4/spca/vignettes/figures/circplot-1.png |binary spca-1.1.4/spca/vignettes/figures/heatmap-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-circular-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-groups-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-heatmap-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-methods-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-pca_checks-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-pca_checks-2.png |binary spca-1.1.4/spca/vignettes/figures/intro-spca90-1.png |binary spca-1.1.4/spca/vignettes/figures/intro-spca_vs_pca-1.png |only spca-1.1.4/spca/vignettes/figures/pca-1.png |binary spca-1.1.4/spca/vignettes/figures/qqplot-1.png |binary spca-1.1.4/spca/vignettes/figures/workflow_bar_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_circplot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_colon_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_comp_pca_call-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_comp_pca_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_compispca_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_heatmap-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_isolet_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_mss_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_pca_plot-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_pca_qq-1.png |only spca-1.1.4/spca/vignettes/figures/workflow_pca_scree-1.png |only spca-1.1.4/spca/vignettes/spca_extended.Rmd | 580 +++-- spca-1.1.4/spca/vignettes/spca_intro.Rmd | 88 101 files changed, 4431 insertions(+), 1997 deletions(-)
Title: Advanced Methods for Stochastic Frontier Analysis
Description: Stochastic frontier analysis with advanced methods.
In particular, it applies the approach proposed by Latruffe et al. (2017)
<DOI:10.1093/ajae/aaw077> to estimate a stochastic frontier with technical inefficiency
effects when one input is endogenous.
Author: Yann Desjeux [aut, cre],
Laure Latruffe [aut],
Alain Carpentier [ctb]
Maintainer: Yann Desjeux <yann.desjeux@inrae.fr>
Diff between sfadv versions 1.0.1 dated 2017-06-19 and 1.0.2 dated 2026-09-23
DESCRIPTION | 16 ++++++++-------- MD5 | 11 ++++++----- NEWS.md | 11 +++++++++++ R/zzz.R | 6 ++---- build |only inst/CITATION | 2 +- man/sfaendog.Rd | 4 ++-- 7 files changed, 30 insertions(+), 20 deletions(-)
Title: Additive Partitions of Integers
Description: Additive partitions of integers. Enumerates the
partitions, unequal partitions, and restricted partitions of an
integer; the three corresponding partition functions are also given.
Set partitions and now compositions and riffle shuffles are
included.
Author: Robin K. S. Hankin [aut, cre] ,
Paul Egeler [ctb]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between partitions versions 1.10-9 dated 2025-04-30 and 1.11-1 dated 2026-09-23
DESCRIPTION | 15 +++++---- MD5 | 55 ++++++++++++++++++----------------- NAMESPACE | 66 ++++++++++++++++++++++++++++++++++-------- NEWS.md |only R/partitions.R | 68 ++++++++++++++++++++++++++++++++++++++++---- README.md | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/partitions.R | 2 - inst/doc/partitions.pdf |binary inst/doc/scrabble.R | 2 - inst/doc/scrabble.pdf |binary inst/doc/setpartitions.R | 6 +-- inst/doc/setpartitions.Rnw | 6 +-- inst/doc/setpartitions.pdf |binary man/P.Rd | 10 +++--- man/condense.Rd | 4 +- man/conjugate.Rd | 6 +-- man/nextpart.Rd | 10 +++--- man/partitions.package.Rd | 8 ++--- man/parts.Rd | 26 ++++++++-------- man/perms.Rd | 4 +- man/riffle.Rd | 2 - man/setparts.Rd | 12 +++---- man/summary.partition.Rd | 2 - src/app.cpp | 5 +-- tests/testthat/test_aaa.R | 2 - vignettes/partitions.bib | 8 ++--- vignettes/setpartitions.Rnw | 6 +-- 29 files changed, 211 insertions(+), 116 deletions(-)
Title: Solvers for Maximum Weight Connected Subgraph Problem and Its
Variants
Description: Algorithms for solving various Maximum
Weight Connected Subgraph Problems, including variants with
budget constraints, cardinality constraints, weighted edges and signals.
The package represents an R interface to high-efficient solvers based on
relax-and-cut approach (Álvarez-Miranda E., Sinnl M. (2017) <doi:10.1016/j.cor.2017.05.015>)
mixed-integer programming (Loboda A., Artyomov M., and Sergushichev A. (2016) <doi:10.1007/978-3-319-43681-4_17>)
and simulated annealing.
Author: Alexander Loboda [aut, cre],
Nikolay Poperechnyi [aut],
Eduardo Alvarez-Miranda [aut],
Markus Sinnl [aut],
Alexey Sergushichev [aut],
Paul Hosler Jr. [cph] ,
www.hamcrest.org [cph] ,
Barak Naveh and Contributors [cph] ,
The Apache Software Foundation [...truncated...]
Maintainer: Alexander Loboda <aleks.loboda@gmail.com>
This is a re-admission after prior archival of version 0.1.12 dated 2026-06-30
Diff between mwcsr versions 0.1.12 dated 2026-06-30 and 0.1.13 dated 2026-09-23
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- inst/doc/tutorial.html | 12 ++++++------ src/graph.cpp | 1 + src/sgmwcs/include/variable.h | 1 + src/sgmwcs/relax_and_cut.cpp | 1 + 6 files changed, 17 insertions(+), 14 deletions(-)
Title: The Modified Half-Normal Distribution
Description: Provides density, distribution, quantile, and random generation
functions for the Modified Half-Normal (MHN) distribution, along with
moments and mode; the Fox-Wright Psi normalizing constant is evaluated
internally. The MHN distribution arises as a conditional posterior in
Bayesian Markov chain Monte Carlo and generalizes the half-normal,
truncated normal, and square-root gamma distributions. Implements
efficient sampling via the Sun, Kong & Pal (2023)
<doi:10.1080/03610926.2021.1934700> algorithms and the Gao & Wang (2025)
<doi:10.1080/03610918.2025.2524551> relaxed transformed density
rejection method.
Author: Tomotaka Momozaki [aut, cre]
Maintainer: Tomotaka Momozaki <momozaki.stat@gmail.com>
Diff between mhn versions 0.1.0 dated 2026-05-27 and 0.1.1 dated 2026-09-23
mhn-0.1.0/mhn/inst/audits/results/cdf_series_accuracy_20260512.csv |only mhn-0.1.1/mhn/DESCRIPTION | 23 mhn-0.1.1/mhn/MD5 | 134 - mhn-0.1.1/mhn/NAMESPACE | 10 mhn-0.1.1/mhn/NEWS.md | 395 ++++ mhn-0.1.1/mhn/R/RcppExports.R | 4 mhn-0.1.1/mhn/R/dmhn.R | 13 mhn-0.1.1/mhn/R/mhn-package.R | 15 mhn-0.1.1/mhn/R/mhn_mode.R | 8 mhn-0.1.1/mhn/R/mhn_moments.R | 24 mhn-0.1.1/mhn/R/pmhn.R | 16 mhn-0.1.1/mhn/R/qmhn.R | 11 mhn-0.1.1/mhn/R/rmhn.R | 52 mhn-0.1.1/mhn/README.md | 45 mhn-0.1.1/mhn/inst/CITATION | 25 mhn-0.1.1/mhn/inst/audits/cdf_series_accuracy.R | 126 + mhn-0.1.1/mhn/inst/audits/results/cdf_series_accuracy_20260903.csv |only mhn-0.1.1/mhn/inst/benchmarks/auto_dispatch.R | 188 +- mhn-0.1.1/mhn/inst/benchmarks/replicate_gw_tables.R | 23 mhn-0.1.1/mhn/inst/benchmarks/rmhn_gof.R |only mhn-0.1.1/mhn/inst/doc/introduction.Rmd | 12 mhn-0.1.1/mhn/inst/doc/introduction.html | 22 mhn-0.1.1/mhn/inst/doc/theory.Rmd | 80 mhn-0.1.1/mhn/inst/doc/theory.html | 92 - mhn-0.1.1/mhn/inst/examples |only mhn-0.1.1/mhn/man/dmhn.Rd | 11 mhn-0.1.1/mhn/man/mhn-package.Rd | 2 mhn-0.1.1/mhn/man/mhn_kurtosis.Rd | 10 mhn-0.1.1/mhn/man/mhn_mean.Rd | 2 mhn-0.1.1/mhn/man/mhn_mode.Rd | 8 mhn-0.1.1/mhn/man/mhn_skewness.Rd | 10 mhn-0.1.1/mhn/man/mhn_var.Rd | 2 mhn-0.1.1/mhn/man/pmhn.Rd | 14 mhn-0.1.1/mhn/man/qmhn.Rd | 9 mhn-0.1.1/mhn/man/rmhn.Rd | 41 mhn-0.1.1/mhn/src/RcppExports.cpp | 29 mhn-0.1.1/mhn/src/mhn_cdf_integrate.cpp | 354 ++++ mhn-0.1.1/mhn/src/mhn_cdf_integrate.h | 24 mhn-0.1.1/mhn/src/mhn_cdf_series.cpp | 73 mhn-0.1.1/mhn/src/mhn_check.cpp | 31 mhn-0.1.1/mhn/src/mhn_check.h | 6 mhn-0.1.1/mhn/src/mhn_dmhn.cpp | 132 + mhn-0.1.1/mhn/src/mhn_log_arith.h | 9 mhn-0.1.1/mhn/src/mhn_mode.cpp | 11 mhn-0.1.1/mhn/src/mhn_moments.cpp | 228 ++ mhn-0.1.1/mhn/src/mhn_param_slots.h |only mhn-0.1.1/mhn/src/mhn_pmhn.cpp | 72 mhn-0.1.1/mhn/src/mhn_pmhn_state.h | 95 + mhn-0.1.1/mhn/src/mhn_psi.h | 10 mhn-0.1.1/mhn/src/mhn_psi_closed.cpp | 33 mhn-0.1.1/mhn/src/mhn_psi_dispatch.cpp | 28 mhn-0.1.1/mhn/src/mhn_psi_integrate.cpp | 200 ++ mhn-0.1.1/mhn/src/mhn_psi_series.cpp | 12 mhn-0.1.1/mhn/src/mhn_qmhn.cpp | 157 + mhn-0.1.1/mhn/src/mhn_rmhn.cpp | 146 + mhn-0.1.1/mhn/src/mhn_rtdr.cpp | 848 ++++++++-- mhn-0.1.1/mhn/src/mhn_rtdr.h | 65 mhn-0.1.1/mhn/src/mhn_special_cases.cpp | 245 +- mhn-0.1.1/mhn/src/mhn_special_cases.h | 6 mhn-0.1.1/mhn/src/mhn_stable.h |only mhn-0.1.1/mhn/src/mhn_sun.cpp | 133 - mhn-0.1.1/mhn/src/mhn_sun.h | 6 mhn-0.1.1/mhn/src/mhn_trunc_normal.cpp | 19 mhn-0.1.1/mhn/tests/testthat/test-dmhn.R | 16 mhn-0.1.1/mhn/tests/testthat/test-numerical-stability.R |only mhn-0.1.1/mhn/tests/testthat/test-pmhn.R | 66 mhn-0.1.1/mhn/tests/testthat/test-rmhn-rtdr-regions.R | 16 mhn-0.1.1/mhn/tests/testthat/test-rmhn-sun.R | 37 mhn-0.1.1/mhn/tests/testthat/test-rmhn.R | 84 mhn-0.1.1/mhn/tests/testthat/test-rtdr-newton.R |only mhn-0.1.1/mhn/vignettes/introduction.Rmd | 12 mhn-0.1.1/mhn/vignettes/theory.Rmd | 80 72 files changed, 3701 insertions(+), 1009 deletions(-)
Title: High Dimensional Bayesian Ridge Regression without MCMC
Description: Implements Bayesian ridge regression for high-dimensional data
without using Markov chain Monte Carlo (MCMC). Posterior computations
are performed using singular value decomposition (SVD) or QR
decomposition. The package also provides variable selection and
prediction methods.
Author: Blanca Monroy-Castillo [aut, cre],
Paulino Perez-Rodriguez [ctb],
Jose Crossa [ctb],
Sergio Perez-Elizalde [aut]
Maintainer: Blanca Monroy-Castillo <blancamonroy.96@gmail.com>
This is a re-admission after prior archival of version 1.1.4 dated 2022-10-05
Diff between HDBRR versions 1.1.4 dated 2022-10-05 and 1.1.5 dated 2026-09-23
DESCRIPTION | 38 ++++--- MD5 | 37 ++++--- NAMESPACE | 5 R/HDBRR.R | 8 - R/X.R | 2 R/coef.HDBRR.R | 63 ++++++------ R/phenowheat.R | 2 R/plot.HDBRR.R | 129 +++++++++++++------------ R/predict.HDBRR.R | 43 ++++---- R/print.HDBRR.R | 101 ++++++++++--------- R/summary.HDBRR.R | 240 ++++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/HDBRR.pdf |binary man/HDBRR.Rd | 67 +------------ man/coef.Rd |only man/matop.Rd | 4 man/phenowheat.Rd | 4 man/plot.Rd |only man/predict.Rd |only man/print.Rd |only man/summary.Rd |only vignettes/references.bib | 23 +++- 22 files changed, 381 insertions(+), 385 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],
Staysail Systems, Inc. [cph] ,
Capitar IT Group BV [cph] ,
The Mbed TLS Contributors [cph] ,
Pierre L'Ecuyer [cph] ,
sakura authors [cph] ,
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between nanonext versions 1.10.2 dated 2026-08-04 and 1.10.3 dated 2026-09-23
DESCRIPTION | 10 - MD5 | 71 ++++---- NAMESPACE | 1 NEWS.md | 22 ++ R/launch-server.R |only R/server.R | 22 ++ R/utils.R | 25 ++ README.md | 7 configure | 29 ++- inst/doc/nanonext.html | 2 inst/doc/v01-messaging.html | 2 inst/doc/v02-protocols.html | 2 inst/doc/v03-configuration.html | 2 inst/doc/v04-web.Rmd | 79 +++++++-- inst/doc/v04-web.html | 66 +++++-- inst/examples |only man/dot-suspend_interrupts.Rd |only man/http_server.Rd | 23 ++ man/serial_config.Rd | 7 src/aio.c | 7 src/comms.c | 1 src/core.c | 5 src/init.c | 1 src/nanonext.h | 2 src/ncurl.c | 1 src/nng/include/nng/nng.h | 4 src/nng/src/core/message.c | 3 src/nng/src/core/url.c | 6 src/nng/src/core/url.h | 1 src/nng/src/supplemental/http/http_chunk.c | 50 +++-- src/nng/src/supplemental/http/http_msg.c | 8 src/nng/src/supplemental/websocket/websocket.c | 37 +++- src/nng_structs.h | 2 src/sync.c | 21 ++ tests/tests.R | 218 ++++++++++++++++++++++++- tools/update_nng.sh | 7 vignettes/v04-web.Rmd | 79 +++++++-- 37 files changed, 681 insertions(+), 142 deletions(-)