Title: Detect Text Reuse and Document Similarity
Description: Tools for measuring similarity among documents and detecting
passages which have been reused. Implements shingled n-gram, skip n-gram,
and other tokenizers; similarity/dissimilarity functions; pairwise
comparisons; minhash and locality sensitive hashing algorithms; and a
version of the Smith-Waterman local alignment algorithm suitable for
natural language.
Author: Lincoln Mullen [aut] ,
Yaoxiang Li [aut, cre]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
Diff between textreuse versions 0.1.5 dated 2020-05-15 and 1.0.1 dated 2026-05-07
DESCRIPTION | 31 LICENSE | 4 MD5 | 203 NAMESPACE | 210 NEWS.md | 107 R/RcppExports.R | 52 R/TextReuseCorpus.R | 517 R/TextReuseTextDocument.R | 771 R/align_local.R | 499 R/conversion-functions.R | 97 R/filenames.R | 46 R/lsh.R | 333 R/lsh_candidates.R | 78 R/lsh_compare.R | 122 R/lsh_probability.R | 111 R/lsh_query.R | 81 R/lsh_subset.R | 42 R/minhash.R | 128 R/pairwise_candidates.R | 70 R/pairwise_compare.R | 150 R/parallel.R | 28 R/rehash.R | 118 R/similarity.R | 313 R/textreuse-package.r | 102 R/token_index.R |only R/tokenize.R | 164 R/tokenizers.R | 122 R/utils.R | 192 R/wordcount.R | 50 README.md | 493 build/vignette.rds |binary inst/doc/textreuse-alignment.R | 40 inst/doc/textreuse-alignment.Rmd | 84 inst/doc/textreuse-alignment.html | 777 inst/doc/textreuse-introduction.R | 146 inst/doc/textreuse-introduction.Rmd | 322 inst/doc/textreuse-introduction.html | 1188 inst/doc/textreuse-minhash.R | 78 inst/doc/textreuse-minhash.Rmd | 180 inst/doc/textreuse-minhash.html | 920 inst/doc/textreuse-pairwise.R | 50 inst/doc/textreuse-pairwise.Rmd | 108 inst/doc/textreuse-pairwise.html | 785 inst/extdata/ats/calltounconv00baxt.txt |34366 +++++++++++------------ inst/extdata/ats/gospeltruth00whit.txt | 6668 ++-- inst/extdata/ats/lifeofrevrichard00baxt.txt |13362 ++++----- inst/extdata/ats/memoirjamesbrai00ricegoog.txt |36962 ++++++++++++------------- inst/extdata/ats/practicalthought00nev.txt |33602 +++++++++++----------- inst/extdata/ats/remember00palm.txt | 6070 ++-- inst/extdata/ats/remembermeorholy00palm.txt | 6228 ++-- inst/extdata/ats/thoughtsonpopery00nevi.txt |17132 +++++------ inst/extdata/legal/ca1851-match.txt | 160 inst/extdata/legal/ca1851-nomatch.txt | 48 inst/extdata/legal/ny1850-match.txt | 222 man/TextReuseCorpus.Rd | 207 man/TextReuseTextDocument-accessors.Rd | 74 man/TextReuseTextDocument.Rd | 225 man/align_local.Rd | 189 man/as.matrix.textreuse_candidates.Rd | 42 man/filenames.Rd | 54 man/hash_string.Rd | 42 man/lsh.Rd | 151 man/lsh_add.Rd |only man/lsh_candidates.Rd | 56 man/lsh_compare.Rd | 83 man/lsh_probability.Rd | 113 man/lsh_query.Rd | 64 man/lsh_subset.Rd | 60 man/minhash_generator.Rd | 108 man/pairwise_candidates.Rd | 68 man/pairwise_compare.Rd | 110 man/reexports.Rd | 38 man/rehash.Rd | 74 man/similarity-functions.Rd | 208 man/textreuse-package.Rd | 138 man/token_index.Rd |only man/token_index_candidates.Rd |only man/tokenize.Rd | 104 man/tokenizers.Rd | 92 man/wordcount.Rd | 40 src/RcppExports.cpp | 5 src/hash_string.cpp | 1 src/shingle_ngrams.cpp | 1 src/skip_ngrams.cpp | 1 tests/testthat.R | 8 tests/testthat/newman.txt | 56 tests/testthat/test-TextReuseCorpus.R | 246 tests/testthat/test-TextReuseTextDocument.R | 206 tests/testthat/test-alignment.R | 67 tests/testthat/test-candidate_pairs.R | 53 tests/testthat/test-filenames.R | 16 tests/testthat/test-hashing.R | 40 tests/testthat/test-jaccard.R | 62 tests/testthat/test-lsh.R | 136 tests/testthat/test-minhash.R | 62 tests/testthat/test-pairwise_cf.R | 40 tests/testthat/test-ratio_of_matches.R | 62 tests/testthat/test-token_index.R |only tests/testthat/test-tokenizers.R | 146 tests/testthat/test-utils.R | 56 tests/testthat/test-wordcount.R | 36 vignettes/textreuse-alignment.Rmd | 84 vignettes/textreuse-introduction.Rmd | 322 vignettes/textreuse-minhash.Rmd | 180 vignettes/textreuse-pairwise.Rmd | 108 105 files changed, 84880 insertions(+), 84186 deletions(-)
Title: Proteomics Data Analysis and Modeling Tools
Description: A comprehensive, user-friendly package for label-free proteomics data analysis and machine learning-based modeling. Data generated from 'MaxQuant' can be easily used to conduct differential expression analysis, build predictive models with top protein candidates, and assess model performance. promor includes a suite of tools for quality control, visualization, missing data imputation (Lazar et. al. (2016) <doi:10.1021/acs.jproteome.5b00981>), differential expression analysis (Ritchie et. al. (2015) <doi:10.1093/nar/gkv007>), and machine learning-based modeling (Kuhn (2008) <doi:10.18637/jss.v028.i05>).
Author: Chathurani Ranathunge [aut, cre, cph]
Maintainer: Chathurani Ranathunge <caranathunge86@gmail.com>
This is a re-admission after prior archival of version 0.2.2 dated 2025-11-11
Diff between promor versions 0.2.2 dated 2025-11-11 and 0.2.3 dated 2026-05-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 ++++++ tests/testthat/test-protein_analysis.R | 30 +----------------------------- 4 files changed, 13 insertions(+), 35 deletions(-)
Title: Penalized Synthetic Control Estimation
Description: Estimate penalized synthetic control models
and perform hold-out validation to determine their
penalty parameter. This method is based on the work by
Abadie & L'Hour (2021) <doi:10.1080/01621459.2021.1971535>.
Penalized synthetic controls smoothly interpolate between
one-to-one matching and the synthetic control method.
Author: Erik-Jan van Kesteren [cre, aut] ,
Isaac Slaughter [ctb]
Maintainer: Erik-Jan van Kesteren <erikjanvankesteren@pm.me>
Diff between pensynth versions 0.8.1 dated 2025-10-13 and 0.8.2 dated 2026-05-07
DESCRIPTION | 10 MD5 | 68 +- NAMESPACE | 60 +- R/convex_hull.R | 206 ++++---- R/cv_pensynth.R | 804 +++++++++++++++++------------------ R/examples/example_convex_hull.R | 22 R/examples/example_cv_pensynth.R | 8 R/examples/example_pensynth.R | 50 +- R/examples/example_placebo_test.R | 36 - R/examples/example_showcase.R | 88 +-- R/examples/example_simulate.R | 56 +- R/examples/example_simulate_factor.R | 62 +- R/pensynth.R | 352 +++++++-------- R/placebo_test.R | 348 +++++++-------- R/simulate_data.R | 600 +++++++++++++------------- R/standardization.R | 48 +- man/cv_pensynth.Rd | 140 +++--- man/in_convex_hull.Rd | 110 ++-- man/lambda_sequence.Rd | 72 +-- man/mvrarnorm.Rd | 60 +- man/pensynth.Rd | 176 +++---- man/placebo_test.Rd | 158 +++--- man/plot.cvpensynth.Rd | 50 +- man/plot.pensynthtest.Rd | 52 +- man/predict.cvpensynth.Rd | 62 +- man/predict.pensynth.Rd | 48 +- man/print.cvpensynth.Rd | 38 - man/print.pensynth.Rd | 38 - man/rarnorm.Rd | 56 +- man/simulate_data_factor.Rd | 238 +++++----- tests/testthat/test-convexhull.R | 32 - tests/testthat/test-cvpensynth.R | 62 +- tests/testthat/test-pensynth.R | 54 +- tests/testthat/test-placebo_test.R | 84 +-- tests/testthat/test-simulate_data.R | 98 ++-- 35 files changed, 2223 insertions(+), 2223 deletions(-)
Title: R Client for the Interactive Brokers Client Portal API
Description: Provides a lightweight R interface to the Interactive Brokers (IBKR)
Client Portal REST API. Functions cover session management, account and portfolio
queries, market data retrieval, and order placement and cancellation. Requires a
locally running IBKR Client Portal Gateway.
Author: Nagappan Karuppiah [aut, cre]
Maintainer: Nagappan Karuppiah <sactyr@gmail.com>
Diff between ibkrcp versions 0.1.0 dated 2026-05-06 and 0.1.1 dated 2026-05-07
ibkrcp-0.1.0/ibkrcp/R/account.r |only ibkrcp-0.1.0/ibkrcp/R/market_data.r |only ibkrcp-0.1.0/ibkrcp/R/orders.r |only ibkrcp-0.1.0/ibkrcp/R/session.r |only ibkrcp-0.1.0/ibkrcp/R/utils.r |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_accounts.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_orders.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_positions.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_get_summary.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_reauthenticate.Rd |only ibkrcp-0.1.0/ibkrcp/man/ibkr_tickle.Rd |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/orders.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/reauthenticate.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/secdef/search-5b4185.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio/U1234567/positions |only ibkrcp-0.1.0/ibkrcp/tests/testthat/no_orders/localhost-5000/v1/api/iserver/orders.json |only ibkrcp-0.1.0/ibkrcp/tests/testthat/no_positions/localhost-5000/v1/api/portfolio |only ibkrcp-0.1.0/ibkrcp/tests/testthat/test_account.r |only ibkrcp-0.1.0/ibkrcp/tests/testthat/test_session.r |only ibkrcp-0.1.0/ibkrcp/tests/testthat/unauthenticated |only ibkrcp-0.1.1/ibkrcp/DESCRIPTION | 13 ibkrcp-0.1.1/ibkrcp/LICENSE | 4 ibkrcp-0.1.1/ibkrcp/MD5 | 89 +- ibkrcp-0.1.1/ibkrcp/NAMESPACE | 11 ibkrcp-0.1.1/ibkrcp/NEWS.md |only ibkrcp-0.1.1/ibkrcp/R/contracts.R |only ibkrcp-0.1.1/ibkrcp/R/market_data.R |only ibkrcp-0.1.1/ibkrcp/R/orders.R |only ibkrcp-0.1.1/ibkrcp/R/portfolio.R |only ibkrcp-0.1.1/ibkrcp/R/session.R |only ibkrcp-0.1.1/ibkrcp/R/utils.R |only ibkrcp-0.1.1/ibkrcp/build/vignette.rds |binary ibkrcp-0.1.1/ibkrcp/inst/WORDLIST | 3 ibkrcp-0.1.1/ibkrcp/inst/doc/ibkrcp.Rmd | 382 +++++----- ibkrcp-0.1.1/ibkrcp/man/ibkr_auth_status.Rd | 30 ibkrcp-0.1.1/ibkrcp/man/ibkr_cancel_order.Rd | 38 ibkrcp-0.1.1/ibkrcp/man/ibkr_get_price_history.Rd | 48 - ibkrcp-0.1.1/ibkrcp/man/ibkr_get_trading_schedule.Rd | 52 - ibkrcp-0.1.1/ibkrcp/man/ibkr_live_orders.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_ping.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_place_order.Rd | 50 - ibkrcp-0.1.1/ibkrcp/man/ibkr_portfolio_accounts.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_portfolio_positions.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_portfolio_summary.Rd |only ibkrcp-0.1.1/ibkrcp/man/ibkr_search_contracts.Rd | 46 - ibkrcp-0.1.1/ibkrcp/tests/testthat.R | 24 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/account/U1234567/order/1001.json | 8 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/account/U1234567/orders-50e22c-POST.json | 12 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/account/orders-b2e57e.json |only ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/auth/status.json | 14 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/marketdata/history-45530b.json | 12 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/iserver/secdef/search-82afae-POST.json |only ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio/U1234567/summary.json | 34 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio/accounts.json | 16 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/portfolio2 |only ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/tickle.json | 20 ibkrcp-0.1.1/ibkrcp/tests/testthat/localhost-5000/v1/api/trsrv/secdef/schedule-c1b48e.json | 34 ibkrcp-0.1.1/ibkrcp/tests/testthat/no_history/localhost-5000/v1/api/iserver/marketdata/history-45530b.json | 6 ibkrcp-0.1.1/ibkrcp/tests/testthat/no_orders/localhost-5000/v1/api/iserver/account |only ibkrcp-0.1.1/ibkrcp/tests/testthat/no_positions/localhost-5000/v1/api/portfolio2 |only ibkrcp-0.1.1/ibkrcp/tests/testthat/test_market_data.R | 140 +-- ibkrcp-0.1.1/ibkrcp/tests/testthat/test_orders.R | 130 +-- ibkrcp-0.1.1/ibkrcp/tests/testthat/test_portfolio.R |only ibkrcp-0.1.1/ibkrcp/tests/testthat/test_session.R |only ibkrcp-0.1.1/ibkrcp/vignettes/ibkrcp.Rmd | 382 +++++----- 65 files changed, 787 insertions(+), 811 deletions(-)
Title: Functional Guilds, Invasion Status, Endemism, and Rarity of Ants
Description: Provides functions for the analysis of ant communities, aiming to
standardize workflows in myrmecology. The package automates the assignment
of species to functional guilds based on trophic strategies, feeding
habits, and foraging behavior, using established classification frameworks
(Silva et al., 2015 <doi:10.7476/9788574554419>; Silvestre et al., 2003
<isbn:9588151236>; Delabie et al., 2000
<https://www.researchgate.net/publication/44961742_Sampling_Ground-Dwelling_Ants_Case_Studies_from_the_World%27s_Rain_Forests>),
and also includes a novel classification system implemented within the
package, developed from ant species occurring in urban environments.
It also includes routines to flag exotic species of Brazil (Vieira, 2025,
unpublished master's thesis), identify endemic species (Silva et al., 2025
<doi:10.37885/250920259>), and classify species rarity and rarity forms
of the Atlantic Forest (Silva et al., 2024 <doi:10.1016/j.biocon.2024.110640>).
The [...truncated...]
Author: Debora C. O. Goncalves [aut, cre],
Nathalia S. Silva [aut],
Rony P. S. Almeida [aut],
Livia P. Prado [aut],
Maria S. C. Morini [aut]
Maintainer: Debora C. O. Goncalves <debora_cog@outlook.com>
Diff between AntClassify versions 0.1.0 dated 2026-04-09 and 0.2.1 dated 2026-05-07
DESCRIPTION | 43 MD5 | 47 NAMESPACE | 9 R/antclassify.R | 104 + R/antclassify_community.R |only R/assign_guild_ants.R | 71 - R/check_endemic_atlantic_ants.R | 123 +- R/check_exotic_ants.R | 118 +- R/check_rarity_atlantic_ants.R | 120 +- R/globals.R |only R/sysdata.rda |binary R/validate_species_names.R |only build/vignette.rds |binary data/ant_community.rda |only data/data.R | 2 inst/WORDLIST | 1 inst/doc/antclassify_workflow.R | 30 inst/doc/antclassify_workflow.Rmd | 66 - inst/doc/antclassify_workflow.html | 1988 ++++++++++++++++++++----------------- man/ant_community.Rd |only man/antclassify.Rd | 30 man/antclassify_community.Rd |only man/assign_guild_ants.Rd | 34 man/check_endemic_atlantic_ants.Rd | 37 man/check_exotic_ants.Rd | 37 man/check_rarity_atlantic_ants.Rd | 37 man/validate_species_names.Rd |only vignettes/antclassify_workflow.Rmd | 66 - 28 files changed, 1707 insertions(+), 1256 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-18 0.11.1
2026-04-03 0.10.0
2026-03-20 0.8.5
2026-03-03 0.8.4
2025-12-22 0.8.3
2025-12-03 0.7.2
2025-11-15 0.6.2
2025-09-22 0.5.1
2025-08-26 0.3.1
Title: Genetic Relatedness Between Polyclonal Infections
Description: An implementation of Dcifer (Distance for complex infections: fast estimation of relatedness), an identity by descent (IBD) based method to calculate genetic relatedness between polyclonal infections from biallelic and multiallelic data. The package includes functions that format and preprocess the data, implement the method, and visualize the results.
Gerlovina et al. (2022) <doi:10.1093/genetics/iyac126>.
Author: Inna Gerlovina [aut, cre]
Maintainer: Inna Gerlovina <innager@berkeley.edu>
Diff between dcifer versions 1.5.0 dated 2025-11-11 and 1.5.2 dated 2026-05-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/ibd.R | 8 ++++++++ R/prep.R | 2 +- build/vignette.rds |binary inst/doc/vignetteDcifer.pdf |binary 6 files changed, 18 insertions(+), 10 deletions(-)
Title: Multi-Way Component Analysis
Description: For single tensor data, any matrix factorization method can be specified the matricised tensor in each dimension by Multi-way Component Analysis (MWCA). An originally extended MWCA is also implemented to specify and decompose multiple matrices and tensors simultaneously (CoupledMWCA). See the reference section of GitHub README.md <https://github.com/rikenbit/mwTensor>, for details of the methods.
Author: Koki Tsuyuzaki [aut, cre]
Maintainer: Koki Tsuyuzaki <k.t.the-answer@hotmail.co.jp>
Diff between mwTensor versions 1.1.0 dated 2023-07-06 and 1.2.2 dated 2026-05-07
mwTensor-1.1.0/mwTensor/R/CoupledMWCA_Check.R |only mwTensor-1.2.2/mwTensor/DESCRIPTION | 9 mwTensor-1.2.2/mwTensor/MD5 | 51 +++-- mwTensor-1.2.2/mwTensor/NAMESPACE | 14 + mwTensor-1.2.2/mwTensor/R/AllClasses.R | 28 ++ mwTensor-1.2.2/mwTensor/R/AllGenerics.R | 14 + mwTensor-1.2.2/mwTensor/R/CoupledMWCA_Check_common.R | 79 +------ mwTensor-1.2.2/mwTensor/R/CoupledMWCA_Check_specific.R | 99 ++-------- mwTensor-1.2.2/mwTensor/R/MWCAProgram.R |only mwTensor-1.2.2/mwTensor/R/checkCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/R/compileMWCAProgram.R |only mwTensor-1.2.2/mwTensor/R/executeMWCAProgram.R |only mwTensor-1.2.2/mwTensor/R/initCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/R/mwTensor-internal.R | 76 +++++++ mwTensor-1.2.2/mwTensor/R/refineFactor.R |only mwTensor-1.2.2/mwTensor/build/partial.rdb |binary mwTensor-1.2.2/mwTensor/build/vignette.rds |only mwTensor-1.2.2/mwTensor/inst/NEWS | 55 +++++ mwTensor-1.2.2/mwTensor/inst/doc |only mwTensor-1.2.2/mwTensor/man/CoupledMWCA.Rd | 8 mwTensor-1.2.2/mwTensor/man/CoupledMWCAInit-class.Rd |only mwTensor-1.2.2/mwTensor/man/MWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/man/RefinedFactor-class.Rd |only mwTensor-1.2.2/mwTensor/man/checkCoupledMWCA.Rd |only mwTensor-1.2.2/mwTensor/man/compileMWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/man/defaultCoupledMWCAParams.Rd | 2 mwTensor-1.2.2/mwTensor/man/executeMWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/man/initCoupledMWCA.Rd |only mwTensor-1.2.2/mwTensor/man/mwTensor-package.Rd | 2 mwTensor-1.2.2/mwTensor/man/refineFactor.Rd |only mwTensor-1.2.2/mwTensor/man/validateMWCAProgram.Rd |only mwTensor-1.2.2/mwTensor/tests/testthat.R | 4 mwTensor-1.2.2/mwTensor/tests/testthat/test_MWCAProgram.R |only mwTensor-1.2.2/mwTensor/tests/testthat/test_checkCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/tests/testthat/test_initCoupledMWCA.R |only mwTensor-1.2.2/mwTensor/tests/testthat/test_refineFactor.R |only mwTensor-1.2.2/mwTensor/vignettes |only 37 files changed, 281 insertions(+), 160 deletions(-)
Title: Publication-Quality 'ggplot2' Visualisation
Description: Wrapper 'ggplot2' functions for publication-quality visualisation.
Aligned with 'ggplot2' and 'tidyverse'. Covers much of what 'ggplot2' does.
Author: David Hodge [aut, cre, cph]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between ggblanket versions 12.4.0 dated 2025-06-03 and 20.0.0 dated 2026-05-07
ggblanket-12.4.0/ggblanket/R/aes.R |only ggblanket-12.4.0/ggblanket/R/annotate_axis_line.R |only ggblanket-12.4.0/ggblanket/R/bind_each_all.R |only ggblanket-12.4.0/ggblanket/R/colour.R |only ggblanket-12.4.0/ggblanket/R/dark_mode.R |only ggblanket-12.4.0/ggblanket/R/flex_mode.R |only ggblanket-12.4.0/ggblanket/R/get_base.R |only ggblanket-12.4.0/ggblanket/R/gg_area.R |only ggblanket-12.4.0/ggblanket/R/gg_bar.R |only ggblanket-12.4.0/ggblanket/R/gg_bin_2d.R |only ggblanket-12.4.0/ggblanket/R/gg_blanket.R |only ggblanket-12.4.0/ggblanket/R/gg_boxplot.R |only ggblanket-12.4.0/ggblanket/R/gg_col.R |only ggblanket-12.4.0/ggblanket/R/gg_contour.R |only ggblanket-12.4.0/ggblanket/R/gg_contour_filled.R |only ggblanket-12.4.0/ggblanket/R/gg_crossbar.R |only ggblanket-12.4.0/ggblanket/R/gg_density.R |only ggblanket-12.4.0/ggblanket/R/gg_density_2d.R |only ggblanket-12.4.0/ggblanket/R/gg_density_2d_filled.R |only ggblanket-12.4.0/ggblanket/R/gg_errorbar.R |only ggblanket-12.4.0/ggblanket/R/gg_freqpoly.R |only ggblanket-12.4.0/ggblanket/R/gg_function.R |only ggblanket-12.4.0/ggblanket/R/gg_hex.R |only ggblanket-12.4.0/ggblanket/R/gg_histogram.R |only ggblanket-12.4.0/ggblanket/R/gg_jitter.R |only ggblanket-12.4.0/ggblanket/R/gg_label.R |only ggblanket-12.4.0/ggblanket/R/gg_line.R |only ggblanket-12.4.0/ggblanket/R/gg_linerange.R |only ggblanket-12.4.0/ggblanket/R/gg_path.R |only ggblanket-12.4.0/ggblanket/R/gg_point.R |only ggblanket-12.4.0/ggblanket/R/gg_pointrange.R |only ggblanket-12.4.0/ggblanket/R/gg_polygon.R |only ggblanket-12.4.0/ggblanket/R/gg_qq.R |only ggblanket-12.4.0/ggblanket/R/gg_quantile.R |only ggblanket-12.4.0/ggblanket/R/gg_raster.R |only ggblanket-12.4.0/ggblanket/R/gg_rect.R |only ggblanket-12.4.0/ggblanket/R/gg_ribbon.R |only ggblanket-12.4.0/ggblanket/R/gg_rug.R |only ggblanket-12.4.0/ggblanket/R/gg_segment.R |only ggblanket-12.4.0/ggblanket/R/gg_sf.R |only ggblanket-12.4.0/ggblanket/R/gg_smooth.R |only 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Title: Advanced Continuous Glucose Monitoring Analysis with
High-Performance C++ Backend
Description: Tools for advanced analysis of continuous glucose monitoring (CGM)
time-series, implementing GRID (Glucose Rate Increase Detector) and GRID-based
algorithms for postprandial peak detection, and detection of hypoglycemic and
hyperglycemic episodes (Levels 1/2/Extended) aligned with international consensus
CGM metrics. Core algorithms are implemented in optimized C++ using 'Rcpp' to
provide accurate and fast analysis on large datasets.
Author: Sang Ho Park [aut, cre],
Rosa Oh [aut, ctb],
Sang-Man Jin [aut, ctb]
Maintainer: Sang Ho Park <shstat1729@gmail.com>
Diff between cgmguru versions 0.1.0 dated 2025-11-05 and 0.2.0 dated 2026-05-07
DESCRIPTION | 6 MD5 | 161 +++--- NEWS.md | 18 R/cgmguru-functions-docs.R | 635 ++++++++++++++----------- R/cgmguru-package.R | 32 - R/function_overrides.R | 155 ++++++ inst/doc/detect_all_events.R | 4 inst/doc/detect_all_events.Rmd | 5 inst/doc/detect_all_events.html | 25 inst/doc/detect_between_maxima.html | 9 inst/doc/detect_hyperglycemic_events.html | 345 ++++++------- inst/doc/detect_hypoglycemic_events.html | 279 +++++----- inst/doc/examples.R | 2 inst/doc/examples.Rmd | 2 inst/doc/examples.html | 197 +++---- inst/doc/excursion.Rmd | 2 inst/doc/excursion.html | 3 inst/doc/find_local_maxima.html | 1 inst/doc/find_max_after_hours.html | 15 inst/doc/find_max_before_hours.html | 15 inst/doc/find_min_after_hours.html | 15 inst/doc/find_min_before_hours.html | 15 inst/doc/find_new_maxima.html | 5 inst/doc/grid.html | 23 inst/doc/intro.R | 32 - inst/doc/intro.Rmd | 36 - inst/doc/intro.html | 253 ++++----- inst/doc/maxima_grid.html | 1 inst/doc/mod_grid.html | 1 inst/doc/orderfast.html | 1 inst/doc/start_finder.Rmd | 2 inst/doc/start_finder.html | 15 inst/doc/transform_df.html | 29 - inst/examples/detect_hyperglycemic_events.R | 18 inst/examples/detect_hypoglycemic_events.R | 15 inst/examples/find_max_after_hours.R | 14 inst/examples/find_max_before_hours.R | 14 inst/examples/find_min_after_hours.R | 14 inst/examples/find_min_before_hours.R | 14 inst/examples/start_finder.R | 8 inst/examples/transform_df.R | 4 man/cgmguru-package.Rd | 32 - man/detect_all_events.Rd | 2 man/detect_between_maxima.Rd | 10 man/detect_hyperglycemic_events.Rd | 139 +++-- man/detect_hypoglycemic_events.Rd | 127 +++-- man/excursion.Rd | 6 man/find_max_after_hours.Rd | 28 - man/find_max_before_hours.Rd | 26 - man/find_min_after_hours.Rd | 24 man/find_min_before_hours.Rd | 24 man/find_new_maxima.Rd | 12 man/grid.Rd | 2 man/maxima_grid.Rd | 9 man/mod_grid.Rd | 13 man/start_finder.Rd | 16 man/transform_df.Rd | 30 - src/detect_all_events.cpp | 27 - src/detect_hyperglycemic_events.cpp | 147 +++-- src/detect_hypoglycemic_events.cpp | 14 src/excursion.cpp | 2 src/find_max_after_hours.cpp | 6 src/find_max_before_hours.cpp | 6 src/find_min_after_hours.cpp | 6 src/find_min_before_hours.cpp | 6 src/find_new_maxima.cpp | 6 src/grid.cpp | 2 src/mod_grid.cpp | 2 src/start_finder.cpp | 2 tests/testthat/test-events.R | 31 + tests/testthat/test-find_local_maxima.R | 4 tests/testthat/test-find_new_maxima-branches.R | 4 tests/testthat/test-function_overrides.R | 4 tests/testthat/test-pre-recovery-events.R |only tests/testthat/test-start_finder.R | 4 tests/testthat/test-transform-between.R | 2 tests/testthat/test-windowing.R | 24 vignettes/detect_all_events.Rmd | 5 vignettes/examples.Rmd | 2 vignettes/excursion.Rmd | 2 vignettes/intro.Rmd | 36 - vignettes/start_finder.Rmd | 2 82 files changed, 1853 insertions(+), 1433 deletions(-)
Title: Non-Parametric Causal Effects of Feasible Interventions Based on
Modified Treatment Policies
Description: Non-parametric estimators for casual effects based on longitudinal modified treatment
policies as described in Diaz, Williams, Hoffman, and Schenck <doi:10.1080/01621459.2021.1955691>, traditional point treatment,
and traditional longitudinal effects. Continuous, binary, categorical treatments, and multivariate treatments are allowed as well are
censored outcomes. The treatment mechanism is estimated via a density ratio classification procedure
irrespective of treatment variable type. For both continuous and binary outcomes, additive treatment effects
can be calculated and relative risks and odds ratios may be calculated for binary outcomes.
Supports survival outcomes with competing risks (Diaz, Hoffman, and Hejazi; <doi:10.1007/s10985-023-09606-7>).
Author: Nicholas Williams [aut, cre, cph] ,
Ivan Diaz [aut, cph] ,
Beaudan Campbell-Brown [ctb]
Maintainer: Nicholas Williams <ntwilliams.personal@gmail.com>
Diff between lmtp versions 1.5.3 dated 2025-07-24 and 1.5.4 dated 2026-05-07
DESCRIPTION | 14 +++++++------- MD5 | 20 +++++++++++--------- NAMESPACE | 1 - NEWS.md | 13 +++++++++++++ R/contrasts.R | 10 ++++++++-- R/lmtp-package.R | 1 - R/make_folds.R |only R/sl.R | 6 ++++++ build/partial.rdb |binary man/lmtp-package.Rd | 2 +- tests/testthat/test-checks.R | 13 +++++++++++++ tests/testthat/test-make_folds.R |only 12 files changed, 59 insertions(+), 21 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-29 0.5.2
2025-06-18 0.5.1
2025-04-28 0.5.0
2025-03-05 0.4.0
Title: A Data Analysis GUI for R
Description: An intuitive, cross-platform graphical data analysis system. It uses menus and dialogs to guide the user efficiently through the data manipulation and analysis process, and has an excel like spreadsheet for easy data frame visualization and editing. Deducer works best when used with the Java based R GUI JGR, but the dialogs can be called from the command line. Dialogs have also been integrated into the Windows Rgui.
Author: Ian Fellows [aut, cre]
Maintainer: Ian Fellows <ian@fellstat.com>
Diff between Deducer versions 0.9-1 dated 2025-10-02 and 0.9-2 dated 2026-05-06
DESCRIPTION | 10 ++-- MD5 | 14 +++--- NEWS | 9 +++ R/zzz.R | 113 ++++++++++++++++++++++++++++++++++++++----------- inst/java/deducer.jar |binary java/org/deducer.jar |binary man/Helpers.Rd | 3 + man/deducer.addmenu.Rd | 6 +- 8 files changed, 116 insertions(+), 39 deletions(-)
More information about CanonicalFamilyExtra at CRAN
Permanent link
Title: Mediterranean Landscape Simulation
Description: Simulate forest hydrology, forest function and dynamics over landscapes [De Caceres et al. (2015) <doi:10.1016/j.agrformet.2015.06.012>]. Parallelization is allowed in several simulation functions and simulations may be conducted including spatial processes such as lateral water transfer and seed dispersal.
Author: Miquel De Caceres [aut, cre],
Aitor Ameztegui [aut] ,
Maria Gonzalez [aut] ,
Nuria Aquilue [aut],
Daniel Caviedes-Voullieme [aut],
Mario Morales-Hernandez [aut],
Mario Beltran [ctb],
Rodrigo Balaguer-Romano [ctb] ,
Roberto Molowny-Horas [ctb]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between medfateland versions 2.8.1 dated 2025-10-22 and 3.0.0 dated 2026-05-06
DESCRIPTION | 16 MD5 | 72 +- NAMESPACE | 3 R/RcppExports.R | 20 R/add_soilgrids.R | 176 ++--- R/initialize_landscape.R | 34 R/medfateland-package.R | 1 R/model_land.R | 186 +++-- R/model_land_utils.R | 22 R/model_spatial_day.R | 58 + R/plot_summary.R | 45 + R/simulation_summary.R | 4 R/sysdata.rda |binary man/plot_summary.Rd | 10 man/simulation_summary.Rd | 4 man/soil_parametrization.Rd | 21 man/spwb_land.Rd | 2 man/spwb_land_day.Rd | 12 man/unnest_summary.Rd |only src/RcppExports.cpp | 98 -- src/fireutils.cpp | 2 src/fireutils.h | 2 src/serghei.cpp | 2 src/serghei.h | 2 src/spwbland.cpp | 196 ++--- src/spwbland.h | 2 src/tetis.cpp | 833 +++++++++++------------- src/tetis_channel.cpp | 2 src/tetis_channel.h | 2 tests/testthat/initialized_objects |only tests/testthat/test_land.R | 9 tests/testthat/test_old_version_input_objects.R |only tests/testthat/test_spatial.R | 1 tests/testthat/test_spatial_day.R | 25 34 files changed, 932 insertions(+), 930 deletions(-)
Title: Online Changepoint Detection in Univariate and Multivariate Data
Streams
Description: Provides high-performance online changepoint detection in univariate and multivariate data
streams. Implements efficient 'C++' backends for the 'focus', 'md-focus' and 'np-focus'
algorithms, with an 'R' interface for real-time monitoring and offline analysis.
The package bundles code from 'Qhull' <http://www.qhull.org/>, by C. B. Barber and
The Geometry Center. See 'inst/COPYRIGHTS' for details.
Author: Gaetano Romano [aut, cre, trl],
Kes Ward [aut],
Yuntang Fan [aut],
Guillem Rigaill [aut],
Vincent Runge [aut],
Paul Fearnhead [aut],
Idris A. Eckley [aut],
C. B. Barber [ctb, cph] ,
The Geometry Center [cph]
Maintainer: Gaetano Romano <g.romano@lancaster.ac.uk>
Diff between focus versions 0.1.3 dated 2026-03-31 and 0.1.5 dated 2026-05-06
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/ARpInfo.h | 42 ++++++++++++++++++++++++++---------------- src/focus_rcpp_module.cpp | 20 ++++++++++++++++---- 4 files changed, 49 insertions(+), 27 deletions(-)
Title: Explore 'Wikidata' Through Tidy Data Frames
Description: Query 'Wikidata' API <https://www.wikidata.org/wiki/Wikidata:Main_Page> with ease, get tidy data frames in response, and cache data in a local database.
Author: Giorgio Comai [aut, cre, cph] ,
EDJNet [fnd]
Maintainer: Giorgio Comai <giorgio.comai@cci.tn.it>
Diff between tidywikidatar versions 0.6.1 dated 2026-02-09 and 0.6.2 dated 2026-05-06
DESCRIPTION | 8 - MD5 | 122 +++++++++++------------ NEWS.md | 5 R/tw_check.R | 6 - R/tw_extract.R | 22 ++-- R/tw_filter.R | 19 ++- R/tw_get.R | 47 ++++++-- R/tw_get_cached_search.R | 4 R/tw_get_field.R | 7 + R/tw_get_image.R | 48 ++++++--- R/tw_get_item.R | 12 +- R/tw_get_others.R | 39 +++++-- R/tw_get_property.R | 36 ++++-- R/tw_get_property_description.R | 6 - R/tw_get_property_label.R | 4 R/tw_get_property_with_details.R | 41 +++++-- R/tw_get_qualifiers.R | 37 +++++- R/tw_get_wikipedia_page_section_links.R | 6 - R/tw_search.R | 50 ++++++++- R/tw_write_search_to_cache.R | 3 build/vignette.rds |binary man/tw_check_search.Rd | 6 - man/tw_create_cache_folder.Rd | 4 man/tw_extract_qualifier.Rd | 28 ++++- man/tw_filter.Rd | 2 man/tw_filter_first.Rd | 2 man/tw_filter_people.Rd | 8 - man/tw_get.Rd | 8 + man/tw_get_cached_search.Rd | 4 man/tw_get_description.Rd | 20 +++ man/tw_get_field.Rd | 7 + man/tw_get_image.Rd | 18 ++- man/tw_get_image_metadata.Rd | 20 +++ man/tw_get_image_metadata_single.Rd | 14 ++ man/tw_get_image_same_length.Rd | 24 +++- man/tw_get_item.Rd | 9 + man/tw_get_label.Rd | 19 ++- man/tw_get_p1.Rd | 18 +++ man/tw_get_property.Rd | 16 ++- man/tw_get_property_description.Rd | 4 man/tw_get_property_description_single.Rd | 2 man/tw_get_property_label_single.Rd | 4 man/tw_get_property_same_length.Rd | 20 +++ man/tw_get_property_with_details.Rd | 18 +++ man/tw_get_property_with_details_single.Rd | 21 +++ man/tw_get_qualifiers.Rd | 12 ++ man/tw_get_qualifiers_single.Rd | 12 ++ man/tw_get_single.Rd | 8 + man/tw_get_wikipedia.Rd | 20 +++ man/tw_get_wikipedia_section_links_api_url.Rd | 6 - man/tw_reset_item_cache.Rd | 8 - man/tw_reset_qualifiers_cache.Rd | 4 man/tw_reset_wikipedia_category_members_cache.Rd | 4 man/tw_reset_wikipedia_page_cache.Rd | 4 man/tw_reset_wikipedia_page_links_cache.Rd | 4 man/tw_reset_wikipedia_page_sections_cache.Rd | 4 man/tw_search.Rd | 8 + man/tw_search_item.Rd | 4 man/tw_search_single.Rd | 14 ++ man/tw_write_qualifiers_to_cache.Rd | 3 man/tw_write_search_to_cache.Rd | 3 tests/testthat/test-get_image.R | 15 ++ 62 files changed, 713 insertions(+), 238 deletions(-)
Title: Access the Open Experience Sampling Method Database
Description: Provides programmatic access to the Open Experience Sampling Method ('openESM') database (<https://openesmdata.org>),
a collection of harmonized experience sampling datasets. The package enables researchers to discover, download,
and work with the datasets while ensuring proper citation and license compliance.
Author: Bjoern S. Siepe [aut, cre, cph] ,
Matthias Kloft [aut]
Maintainer: Bjoern S. Siepe <bjoernsiepe@gmail.com>
Diff between openesm versions 0.1.2 dated 2025-12-03 and 0.2.0 dated 2026-05-06
DESCRIPTION | 6 +- MD5 | 14 +++--- NAMESPACE | 2 NEWS.md | 63 +++++++++++++++++------------ R/get_dataset.R | 81 ++++++++++++++++++++++++++++---------- R/zenodo.R | 66 ++++++------------------------ tests/testthat/test-get_dataset.R | 16 ++++++- tests/testthat/test-zenodo.R | 37 ++++++++++------- 8 files changed, 159 insertions(+), 126 deletions(-)
Title: Simulate Discrete Character Data along Phylogenetic Trees
Description: Tools to simulate morphological traits along phylogenetic trees
with branch lengths representing evolutionary distance or time.
Includes functions for visualizing evolutionary processes along trees
and within morphological character matrices.
Author: Laura Mulvey [aut, cre, cph],
Tim Brandler [aut, cph],
Alessio Capobianco [aut, cph],
Rachel Warnock [aut, cph],
Joelle Barido-Sottani [aut, cph]
Maintainer: Laura Mulvey <lauramulvey479@gmail.com>
Diff between MorphSim versions 0.1.0 dated 2026-01-12 and 1.2.0 dated 2026-05-06
DESCRIPTION | 10 +- MD5 | 49 ++++++++----- NAMESPACE | 14 +++ R/morpho.R | 5 + R/plot.morpho.R | 62 ++++++++++++++-- R/plotMorphoGrid.R | 2 R/reconstruct.tree.R | 2 R/sim.missing.data.R | 127 ++++++++++++++------------------- R/sim.morpho.R | 157 +++++++++++++++++++++++++++++++++-------- R/summary.r | 176 +++++++++++++++++++++++++++++++++++++++++++++-- R/write.r | 57 +++++++++++++++ README.md | 52 +++++++++++-- build |only inst/doc |only man/convergent_evol.Rd | 9 ++ man/find_path_to_tip.Rd | 4 - man/get.convergent.Rd |only man/get.matrix.Rd |only man/get.reconstructed.Rd | 7 + man/get.transitions.Rd |only man/morpho.Rd | 6 + man/plot.morpho.Rd | 16 ++-- man/sim.missing.data.Rd | 37 ++++++--- man/sim.morpho.Rd | 112 ++++++++++++++++++++++------- man/stats.morpho.Rd | 5 + man/write.morpho.Rd |only tests |only vignettes |only 28 files changed, 703 insertions(+), 206 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Description: Measurement and partitioning of diversity, based on Tsallis entropy, following Marcon and Herault (2015) <doi:10.18637/jss.v067.i08>.
'divent' provides functions to estimate alpha, beta and gamma diversity of communities, including phylogenetic and functional diversity.
Author: Eric Marcon [aut, cre] ,
Florence Puech [aut]
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between divent versions 0.5-3 dated 2025-08-27 and 0.5-4 dated 2026-05-06
DESCRIPTION | 14 - MD5 | 82 +++---- NEWS.md | 26 +- R/accum_sp_hill.R | 3 R/coverage.R | 39 ++- R/div_gen_simpson.R | 1 R/div_hill.R | 2 R/div_hurlbert.R | 1 R/div_richness.R | 28 +- R/ent_phylo.R | 2 R/ent_similarity.R | 2 R/ent_tsallis.R | 2 R/metacommunity.R | 2 R/package.R | 5 build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 414 +++++++++++++++++++++++++++++++++------ inst/doc/divent.R | 6 inst/doc/divent.Rmd | 39 +-- inst/doc/divent.html | 38 +-- man/accum_div_phylo.Rd | 2 man/alphahull.Rd | 86 ++++---- man/autoplot.wmppp.Rd | 4 man/check_divent_args.Rd | 2 man/coverage.Rd | 1 man/div_gen_simpson.Rd | 142 ++++++------- man/div_pd.Rd | 2 man/div_phylo.Rd | 2 man/divent-package.Rd | 1 man/ent_allen.Rd | 2 man/ent_gen_simpson.Rd | 168 +++++++-------- man/ent_phylo.Rd | 2 man/ent_rao.Rd | 2 man/mock_3sp.Rd | 2 man/non_species_columns.Rd | 5 man/paracou_6_taxo.Rd | 2 man/phylo_divent.Rd | 4 man/plot.phylo_divent.Rd | 2 man/plot.species_distribution.Rd | 2 man/profile_phylo.Rd | 2 man/reexports.Rd | 2 vignettes/divent.Rmd | 39 +-- 42 files changed, 746 insertions(+), 436 deletions(-)
Title: A C++11 Interface for R's C Interface
Description: Provides a header only, C++11 interface to R's C
interface. Compared to other approaches 'cpp11' strives to be safe
against long jumps from the C API as well as C++ exceptions, conform
to normal R function semantics and supports interaction with 'ALTREP'
vectors.
Author: Davis Vaughan [aut, cre] ,
Jim Hester [aut] ,
Romain Francois [aut] ,
Benjamin Kietzman [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between cpp11 versions 0.5.4 dated 2026-04-04 and 0.5.5 dated 2026-05-06
DESCRIPTION | 6 - MD5 | 42 ++++++------- NEWS.md | 6 + R/source.R | 65 +++++++++++++++----- README.md | 2 inst/doc/FAQ.Rmd | 2 inst/doc/FAQ.html | 10 +-- inst/doc/cpp11.R | 32 ++++++---- inst/doc/cpp11.Rmd | 44 ++++++++----- inst/doc/cpp11.html | 130 ++++++++++++++++++++++------------------- inst/doc/internals.Rmd | 2 inst/doc/internals.html | 2 inst/doc/motivations.Rmd | 14 ++-- inst/doc/motivations.html | 16 ++--- inst/include/cpp11/protect.hpp | 74 ++++++++++++++++++----- man/cpp_source.Rd | 4 - tests/testthat/fixtures |only tests/testthat/test-source.R | 14 ++++ vignettes/FAQ.Rmd | 2 vignettes/cpp11.Rmd | 44 ++++++++----- vignettes/internals.Rmd | 2 vignettes/motivations.Rmd | 14 ++-- 22 files changed, 333 insertions(+), 194 deletions(-)
Title: Blinded Sample Size Recalculation
Description: Computation of key characteristics and plots for blinded sample size recalculation.
Continuous as well as binary endpoints are supported in superiority and non-inferiority trials.
See Baumann, Pilz, Kieser (2022) <doi:10.32614/RJ-2022-001> for a detailed description.
The implemented methods include the approaches by
Lu, K. (2016) <doi:10.1002/pst.1737>,
Kieser, M. and Friede, T. (2000) <doi:10.1002/(SICI)1097-0258(20000415)19:7%3C901::AID-SIM405%3E3.0.CO;2-L>,
Friede, T. and Kieser, M. (2004) <doi:10.1002/pst.140>,
Friede, T., Mitchell, C., Mueller-Veltern, G. (2007) <doi:10.1002/bimj.200610373>, and
Friede, T. and Kieser, M. (2011) <doi:10.3414/ME09-01-0063>.
Author: Lukas Baumann [aut, cre] ,
Maximilian Pilz [aut] ,
Institute of Medical Biometry - University of Heidelberg [cph]
Maintainer: Lukas Baumann <baumann@imbi.uni-heidelberg.de>
Diff between blindrecalc versions 1.1.0 dated 2025-06-17 and 1.1.1 dated 2026-05-06
DESCRIPTION | 11 ++++++----- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/Student.R | 23 ++++++++++++++++++----- R/test_statistics.R | 6 +++--- README.md | 19 ++++++++++--------- build/vignette.rds |binary man/Student.Rd | 6 +++--- man/simulation.Rd | 8 ++++---- tests/testthat/test_t_test.R | 12 +++++++++++- 10 files changed, 68 insertions(+), 39 deletions(-)
Title: Sequential Probability Ratio Tests Toolbox
Description: A toolbox for Sequential Probability Ratio Tests (SPRT) based on
Wald (1945) <doi:10.2134/agronj1947.00021962003900070011x>.
SPRTs are applied during the sampling process, ideally after each
observation, and at every stage return a decision to either continue
sampling or terminate and accept one of the specified hypotheses.
The `seq_ttest()` function performs one-sample, two-sample, and paired
t-tests for one- and two-sided hypotheses (Schnuerch & Erdfelder (2019)
<doi:10.1037/met0000234>). The `seq_anova()` function performs a sequential
one-way fixed effects ANOVA (Steinhilber et al. (2024)
<doi:10.1037/met0000677>). The `plan_sample_size()` function helps plan
sequential studies by simulating required sample sizes across a range of
effect sizes. For more information, see the vignettes
browseVignettes(package = "sprtt") or the package website
<https://meikesteinhilber.github.io/sprtt/>.
Author: Meike Snijder-Steinhilber [aut, cre] ,
Martin Schnuerch [aut, ths] ,
Anna-Lena Schubert [aut, ths]
Maintainer: Meike Snijder-Steinhilber <Meike.Steinhilber@aol.com>
Diff between sprtt versions 0.2.0 dated 2023-07-06 and 0.3.1 dated 2026-05-06
sprtt-0.2.0/sprtt/inst/doc/sprts.Rmd |only sprtt-0.2.0/sprtt/inst/doc/sprts.html |only sprtt-0.2.0/sprtt/inst/doc/usage_sprtt.R |only sprtt-0.2.0/sprtt/inst/doc/usage_sprtt.Rmd |only sprtt-0.2.0/sprtt/inst/doc/usage_sprtt.html |only sprtt-0.2.0/sprtt/tests/testthat/_snaps/calc_plot_sprt |only sprtt-0.2.0/sprtt/vignettes/sprts.Rmd |only sprtt-0.2.0/sprtt/vignettes/usage_sprtt.Rmd |only sprtt-0.3.1/sprtt/DESCRIPTION | 53 sprtt-0.3.1/sprtt/MD5 | 203 sprtt-0.3.1/sprtt/NAMESPACE | 11 sprtt-0.3.1/sprtt/NEWS.md | 32 sprtt-0.3.1/sprtt/R/CLASS_seq_anova_arguments.R | 6 sprtt-0.3.1/sprtt/R/calc_plot_sprt.R | 22 sprtt-0.3.1/sprtt/R/draw_sample_mixture.R | 3 sprtt-0.3.1/sprtt/R/draw_sample_normal.R | 1 sprtt-0.3.1/sprtt/R/load_data_external.R |only sprtt-0.3.1/sprtt/R/plan_sample_size.R |only sprtt-0.3.1/sprtt/R/plot_sprt.R | 130 sprtt-0.3.1/sprtt/R/seq_anova.R | 76 sprtt-0.3.1/sprtt/R/seq_ttest.R | 45 sprtt-0.3.1/sprtt/R/zzz.R |only sprtt-0.3.1/sprtt/README.md | 125 sprtt-0.3.1/sprtt/build/partial.rdb |binary sprtt-0.3.1/sprtt/build/vignette.rds |binary sprtt-0.3.1/sprtt/data/df_cancer.rda |binary sprtt-0.3.1/sprtt/data/df_income.rda |binary sprtt-0.3.1/sprtt/data/df_stress.rda |binary sprtt-0.3.1/sprtt/inst/doc/developer_guide.R |only sprtt-0.3.1/sprtt/inst/doc/developer_guide.Rmd |only sprtt-0.3.1/sprtt/inst/doc/developer_guide.html |only sprtt-0.3.1/sprtt/inst/doc/one_way_anova.R | 118 sprtt-0.3.1/sprtt/inst/doc/one_way_anova.Rmd | 290 sprtt-0.3.1/sprtt/inst/doc/one_way_anova.html | 599 - sprtt-0.3.1/sprtt/inst/doc/plan_sample_size.R |only sprtt-0.3.1/sprtt/inst/doc/plan_sample_size.Rmd |only sprtt-0.3.1/sprtt/inst/doc/plan_sample_size.html |only sprtt-0.3.1/sprtt/inst/doc/sprt.Rmd |only sprtt-0.3.1/sprtt/inst/doc/sprt.html |only sprtt-0.3.1/sprtt/inst/doc/t_test.R | 111 sprtt-0.3.1/sprtt/inst/doc/t_test.Rmd | 355 sprtt-0.3.1/sprtt/inst/doc/t_test.html | 792 + sprtt-0.3.1/sprtt/inst/doc/use_case.R | 18 sprtt-0.3.1/sprtt/inst/doc/use_case.Rmd | 99 sprtt-0.3.1/sprtt/inst/doc/use_case.html | 287 sprtt-0.3.1/sprtt/inst/doc/workflow_sprtt.R |only sprtt-0.3.1/sprtt/inst/doc/workflow_sprtt.Rmd |only sprtt-0.3.1/sprtt/inst/doc/workflow_sprtt.html |only sprtt-0.3.1/sprtt/inst/examples/plot_anova.R | 35 sprtt-0.3.1/sprtt/inst/examples/sprtt_examples.R | 15 sprtt-0.3.1/sprtt/inst/joss |only sprtt-0.3.1/sprtt/inst/rmarkdown |only sprtt-0.3.1/sprtt/man/cache_clear.Rd |only sprtt-0.3.1/sprtt/man/cache_info.Rd |only sprtt-0.3.1/sprtt/man/download_sample_size_data.Rd |only sprtt-0.3.1/sprtt/man/draw_sample_mixture.Rd | 2 sprtt-0.3.1/sprtt/man/draw_sample_normal.Rd | 2 sprtt-0.3.1/sprtt/man/figures/readme_example.png |only sprtt-0.3.1/sprtt/man/get_sprtt_cache_dir.Rd |only sprtt-0.3.1/sprtt/man/load_sample_size_data.Rd |only sprtt-0.3.1/sprtt/man/plan_sample_size.Rd |only sprtt-0.3.1/sprtt/man/plot_anova.Rd | 97 sprtt-0.3.1/sprtt/man/seq_anova.Rd | 81 sprtt-0.3.1/sprtt/man/seq_ttest.Rd | 46 sprtt-0.3.1/sprtt/man/sprtt-package.Rd | 4 sprtt-0.3.1/sprtt/tests/testthat.R | 1 sprtt-0.3.1/sprtt/tests/testthat/_snaps/calc_effect_sizes.md | 1039 - sprtt-0.3.1/sprtt/tests/testthat/_snaps/calc_group_means.md | 42 sprtt-0.3.1/sprtt/tests/testthat/_snaps/calc_likelihoods.md | 50 sprtt-0.3.1/sprtt/tests/testthat/_snaps/calc_seq_anova_non_centrality_parameter.md | 28 sprtt-0.3.1/sprtt/tests/testthat/_snaps/calc_ss_effect.md | 14 sprtt-0.3.1/sprtt/tests/testthat/_snaps/calc_ss_residual.md | 14 sprtt-0.3.1/sprtt/tests/testthat/_snaps/draw_sample.md | 2344 +--- sprtt-0.3.1/sprtt/tests/testthat/_snaps/seq_anova.md | 96 sprtt-0.3.1/sprtt/tests/testthat/_snaps/show.md | 656 - sprtt-0.3.1/sprtt/tests/testthat/test-CLASS_seq_anova_arguments.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-CLASS_seq_anova_results.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-CLASS_seq_ttest_arguments.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-CLASS_seq_ttest_results.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-build_seq_anova_arguments.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-build_seq_ttest_arguments.R | 3 sprtt-0.3.1/sprtt/tests/testthat/test-calc_boundaries.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-calc_group_means.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-calc_likelihoods.R | 59 sprtt-0.3.1/sprtt/tests/testthat/test-calc_plot_sprt.R | 78 sprtt-0.3.1/sprtt/tests/testthat/test-calc_seq_anova_non_centrality_parameter.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-calc_ss_effect.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-calc_ss_residual.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-calc_t_statistic.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-check_constant_data.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-check_data.R | 3 sprtt-0.3.1/sprtt/tests/testthat/test-check_formula.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-delete_na.R | 4 sprtt-0.3.1/sprtt/tests/testthat/test-draw_sample.R | 43 sprtt-0.3.1/sprtt/tests/testthat/test-extract_formula.R | 7 sprtt-0.3.1/sprtt/tests/testthat/test-get_one_sample_sided.R | 3 sprtt-0.3.1/sprtt/tests/testthat/test-get_seq_decision.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-load-data-external.R |only sprtt-0.3.1/sprtt/tests/testthat/test-plan_sample_size.R |only sprtt-0.3.1/sprtt/tests/testthat/test-plot_anova.R |only sprtt-0.3.1/sprtt/tests/testthat/test-seq_anova.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-seq_anova_error_rates.R | 45 sprtt-0.3.1/sprtt/tests/testthat/test-seq_ttest-error_rates.R | 1 sprtt-0.3.1/sprtt/tests/testthat/test-seq_ttest.R | 2 sprtt-0.3.1/sprtt/tests/testthat/test-show.R | 38 sprtt-0.3.1/sprtt/vignettes/customize.css |only sprtt-0.3.1/sprtt/vignettes/developer_guide.Rmd |only sprtt-0.3.1/sprtt/vignettes/one_way_anova.Rmd | 290 sprtt-0.3.1/sprtt/vignettes/plan_sample_size.Rmd |only sprtt-0.3.1/sprtt/vignettes/references.bib | 5799 ++-------- sprtt-0.3.1/sprtt/vignettes/sprt.Rmd |only sprtt-0.3.1/sprtt/vignettes/t_test.Rmd | 355 sprtt-0.3.1/sprtt/vignettes/use_case.Rmd | 99 sprtt-0.3.1/sprtt/vignettes/workflow_sprtt.Rmd |only 114 files changed, 7404 insertions(+), 7388 deletions(-)
Title: Quality Control for Label-Free Proteomics Expression Data
Description: Label-free bottom-up proteomics expression data is often affected by data heterogeneity and missing values. Normalization and missing value imputation are commonly used techniques to address these issues and make the dataset suitable for further downstream analysis. This package provides an optimal combination of normalization and imputation methods for the dataset. The package utilizes three normalization methods and three imputation methods.The statistical evaluation measures named pooled co-efficient of variance, pooled estimate of variance and pooled median absolute deviation are used for selecting the best combination of normalization and imputation method for the given dataset. The user can also visualize the results by using various plots available in this package. The user can also perform the differential expression analysis between two sample groups with the function included in this package. The chosen three normalization methods, three imputation methods and three evaluati [...truncated...]
Author: Kabilan S [aut, cre],
Dr Shashi Bhushan Lal [aut, ths],
Dr Sudhir Srivastava [aut, ths],
Dr Krishna Kumar Chaturvedi [ths],
Dr Yasin Jeshima K [ths],
Dr Ramasubramanian V [ths],
Dr Dwijesh Chandra Mishra [ths],
Dr Girish Kumar Jha [ctb],
Dr Sharanbas [...truncated...]
Maintainer: Kabilan S <kabilan151414@gmail.com>
Diff between lfproQC versions 1.4.2 dated 2026-05-01 and 1.4.3 dated 2026-05-06
DESCRIPTION | 9 +++++---- MD5 | 8 ++++---- NEWS | 5 +++++ inst/doc/user_guide.html | 2 +- man/lfproQC-package.Rd | 1 + 5 files changed, 16 insertions(+), 9 deletions(-)
Title: Simple Features for R
Description: Support for simple feature access, a standardized way to
encode and analyze spatial vector data. Binds to 'GDAL'
<doi:10.5281/zenodo.5884351> for reading and writing data, to 'GEOS'
<doi:10.5281/zenodo.11396894> for geometrical operations,
and to 'PROJ' <doi:10.5281/zenodo.5884394> for projection
conversions and datum transformations. Uses by default the 's2'
package for geometry operations on geodetic (long/lat degree)
coordinates.
Author: Edzer Pebesma [aut, cre] ,
Roger Bivand [ctb] ,
Etienne Racine [ctb],
Michael Sumner [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb] ,
Kirill Mueller [ctb],
Thomas Lin Pedersen [ctb],
Dan Baston [c [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 1.1-0 dated 2026-02-24 and 1.1-1 dated 2026-05-06
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Title: Random Fields on Metric Graphs
Description: Facilitates creation and manipulation of metric graphs, such as street or river networks. Further facilitates operations and visualizations of data on metric graphs, and the creation of a large class of random fields and stochastic partial differential equations on such spaces. These random fields can be used for simulation, prediction and inference. In particular, linear mixed effects models including random field components can be fitted to data based on computationally efficient sparse matrix representations. Interfaces to the R packages 'INLA' and 'inlabru' are also provided, which facilitate working with Bayesian statistical models on metric graphs. The main references for the methods are Bolin, Simas and Wallin (2024) <doi:10.3150/23-BEJ1647>, Bolin, Kovacs, Kumar and Simas (2023) <doi:10.1090/mcom/3929> and Bolin, Simas and Wallin (2023) <doi:10.48550/arXiv.2304.03190> and <doi:10.48550/arXiv.2304.10372>.
Author: David Bolin [cre, aut],
Alexandre Simas [aut],
Jonas Wallin [aut]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between MetricGraph versions 1.5.0 dated 2025-05-19 and 1.6.0 dated 2026-05-06
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Title: Mediterranean Forest Simulation
Description: Simulate Mediterranean forest functioning and dynamics using cohort-based description of vegetation [De Caceres et al. (2015) <doi:10.1016/j.agrformet.2015.06.012>; De Caceres et al. (2021) <doi:10.1016/j.agrformet.2020.108233>].
Author: Miquel De Caceres [aut, cre, cph] ,
Nicolas Martin-StPaul [aut] ,
Victor Granda [aut] ,
Antoine Cabon [aut] ,
Arsene Druel [aut] ,
Julien Ruffault [aut] ,
Jordi Martinez-Vilalta [ctb] ,
Maurizio Mencuccini [ctb] ,
Francois Pimont [ctb] ,
Herve Cochar [...truncated...]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between medfate versions 4.8.4 dated 2025-10-21 and 5.0.0 dated 2026-05-06
medfate-4.8.4/medfate/R/soil_retentionCurvePlot.R |only medfate-4.8.4/medfate/src/aspwb.h |only medfate-4.8.4/medfate/src/fireseverity.cpp |only medfate-4.8.4/medfate/src/fireseverity.h |only medfate-4.8.4/medfate/src/growth.h |only medfate-4.8.4/medfate/src/incbeta.cpp |only medfate-4.8.4/medfate/src/incbeta.h |only medfate-4.8.4/medfate/src/incgamma.cpp |only medfate-4.8.4/medfate/src/incgamma.h |only medfate-4.8.4/medfate/src/phenology.h |only medfate-4.8.4/medfate/src/spwb_day.h |only medfate-4.8.4/medfate/src/struct_photosynthesis.h |only medfate-4.8.4/medfate/src/struct_sureau.h |only medfate-4.8.4/medfate/src/transpiration.h |only medfate-4.8.4/medfate/src/windextinction.cpp |only medfate-4.8.4/medfate/src/windextinction.h |only medfate-5.0.0/medfate/DESCRIPTION | 19 medfate-5.0.0/medfate/MD5 | 387 - medfate-5.0.0/medfate/NAMESPACE | 7 medfate-5.0.0/medfate/R/MedfateRunner.R |only medfate-5.0.0/medfate/R/RcppExports.R | 1867 +++-- medfate-5.0.0/medfate/R/VerticalProfiles.R | 31 medfate-5.0.0/medfate/R/dataset_documentation.R | 99 medfate-5.0.0/medfate/R/defaultControl.R | 53 medfate-5.0.0/medfate/R/defaultSoilParams.R | 8 medfate-5.0.0/medfate/R/emptyforest.R | 118 medfate-5.0.0/medfate/R/extract.R | 314 medfate-5.0.0/medfate/R/fordyn.R | 96 medfate-5.0.0/medfate/R/fordynutils.R | 290 medfate-5.0.0/medfate/R/forest_mapWoodyTables.R | 16 medfate-5.0.0/medfate/R/forest_mergeTrees.R | 268 medfate-5.0.0/medfate/R/plot.forest.R | 5 medfate-5.0.0/medfate/R/plot.soil.R |only medfate-5.0.0/medfate/R/plot.spwb.R | 13 medfate-5.0.0/medfate/R/plot_internals.R | 33 medfate-5.0.0/medfate/R/regeneration.R | 329 medfate-5.0.0/medfate/R/soil_redefineLayers.R | 9 medfate-5.0.0/medfate/R/stand_metrics.R | 19 medfate-5.0.0/medfate/R/summary.forest.R | 84 medfate-5.0.0/medfate/R/summary.soil.R | 11 medfate-5.0.0/medfate/R/summary.spwb.R | 2 medfate-5.0.0/medfate/R/transp_stomatalRegulationPlot.R | 226 medfate-5.0.0/medfate/R/welcome.R | 2 medfate-5.0.0/medfate/build/partial.rdb |binary medfate-5.0.0/medfate/data/SpParamsDefinition.rda |binary medfate-5.0.0/medfate/data/SpParamsMED.rda |binary medfate-5.0.0/medfate/data/exampleforest.rda |binary medfate-5.0.0/medfate/data/exampleforest2.rda |binary medfate-5.0.0/medfate/data/exampleobs.rda |binary medfate-5.0.0/medfate/data/poblet_trees.rda |binary medfate-5.0.0/medfate/inst/include/medfate_RcppExports.h | 529 - medfate-5.0.0/medfate/man/aspwb.Rd | 36 medfate-5.0.0/medfate/man/carbon.Rd | 94 medfate-5.0.0/medfate/man/communication.Rd | 82 medfate-5.0.0/medfate/man/decomposition_DAYCENT.Rd |only medfate-5.0.0/medfate/man/decomposition_annualLitterDecompositionRate.Rd |only medfate-5.0.0/medfate/man/defaultControl.Rd | 21 medfate-5.0.0/medfate/man/defaultSoilParams.Rd | 7 medfate-5.0.0/medfate/man/emptyforest.Rd | 45 medfate-5.0.0/medfate/man/extract.Rd | 13 medfate-5.0.0/medfate/man/fire_severity.Rd | 15 medfate-5.0.0/medfate/man/fordyn.Rd | 4 medfate-5.0.0/medfate/man/forest.Rd | 97 medfate-5.0.0/medfate/man/forest2aboveground.Rd | 3 medfate-5.0.0/medfate/man/forest_mapWoodyTables.Rd | 1 medfate-5.0.0/medfate/man/forest_simplification.Rd | 11 medfate-5.0.0/medfate/man/growth.Rd | 12 medfate-5.0.0/medfate/man/growth_day.Rd |only medfate-5.0.0/medfate/man/hydraulics_conductancefunctions.Rd | 26 medfate-5.0.0/medfate/man/hydraulics_scalingconductance.Rd | 18 medfate-5.0.0/medfate/man/hydraulics_supplyfunctions.Rd | 150 medfate-5.0.0/medfate/man/hydrology_infiltration.Rd | 42 medfate-5.0.0/medfate/man/hydrology_soilEvaporation.Rd | 20 medfate-5.0.0/medfate/man/hydrology_verticalInputs.Rd | 35 medfate-5.0.0/medfate/man/light_advanced.Rd | 20 medfate-5.0.0/medfate/man/modelInput.Rd | 16 medfate-5.0.0/medfate/man/moisture.Rd | 10 medfate-5.0.0/medfate/man/photo.Rd | 66 medfate-5.0.0/medfate/man/plant_values.Rd | 4 medfate-5.0.0/medfate/man/plot.forest.Rd | 5 medfate-5.0.0/medfate/man/plot.soil.Rd |only medfate-5.0.0/medfate/man/pwb.Rd |only medfate-5.0.0/medfate/man/regeneration.Rd | 39 medfate-5.0.0/medfate/man/root.Rd | 46 medfate-5.0.0/medfate/man/runners-module.Rd |only medfate-5.0.0/medfate/man/soil.Rd | 11 medfate-5.0.0/medfate/man/soil_retentionCurvePlot.Rd | 5 medfate-5.0.0/medfate/man/soil_texture.Rd | 89 medfate-5.0.0/medfate/man/soil_thermodynamics.Rd | 4 medfate-5.0.0/medfate/man/spwb.Rd | 88 medfate-5.0.0/medfate/man/spwb_day.Rd | 74 medfate-5.0.0/medfate/man/summary.forest.Rd | 3 medfate-5.0.0/medfate/man/transp_stomatalregulation.Rd | 54 medfate-5.0.0/medfate/man/woodformation.Rd | 46 medfate-5.0.0/medfate/src/Makevars |only medfate-5.0.0/medfate/src/Makevars.win |only medfate-5.0.0/medfate/src/RcppExports.cpp | 3346 ++++------ medfate-5.0.0/medfate/src/aspwb.cpp | 339 - medfate-5.0.0/medfate/src/biophysicsutils.cpp | 188 medfate-5.0.0/medfate/src/biophysicsutils.h | 17 medfate-5.0.0/medfate/src/biophysicsutils_c.cpp |only medfate-5.0.0/medfate/src/biophysicsutils_c.h |only medfate-5.0.0/medfate/src/carbon.cpp | 372 - medfate-5.0.0/medfate/src/carbon.h | 36 medfate-5.0.0/medfate/src/carbon_c.cpp |only medfate-5.0.0/medfate/src/carbon_c.h |only medfate-5.0.0/medfate/src/communication_structures.cpp | 766 -- medfate-5.0.0/medfate/src/communication_structures.h | 19 medfate-5.0.0/medfate/src/control_c.cpp |only medfate-5.0.0/medfate/src/control_c.h |only medfate-5.0.0/medfate/src/decomposition.cpp |only medfate-5.0.0/medfate/src/decomposition_c.cpp |only medfate-5.0.0/medfate/src/decomposition_c.h |only medfate-5.0.0/medfate/src/firebehaviour.cpp | 376 - medfate-5.0.0/medfate/src/firebehaviour.h | 14 medfate-5.0.0/medfate/src/firebehaviour_c.cpp |only medfate-5.0.0/medfate/src/firebehaviour_c.h |only medfate-5.0.0/medfate/src/fireseverity_c.cpp |only medfate-5.0.0/medfate/src/fireseverity_c.h |only medfate-5.0.0/medfate/src/forestutils.cpp | 1063 ++- medfate-5.0.0/medfate/src/forestutils.h | 11 medfate-5.0.0/medfate/src/forestutils_c.cpp |only medfate-5.0.0/medfate/src/forestutils_c.h |only medfate-5.0.0/medfate/src/fuelmoisture.cpp | 137 medfate-5.0.0/medfate/src/fuelmoisture.h | 12 medfate-5.0.0/medfate/src/fuelmoisture_c.cpp |only medfate-5.0.0/medfate/src/fuelmoisture_c.h |only medfate-5.0.0/medfate/src/fuelstructure.cpp | 79 medfate-5.0.0/medfate/src/fuelstructure.h | 4 medfate-5.0.0/medfate/src/fuelstructure_c.cpp |only medfate-5.0.0/medfate/src/fuelstructure_c.h |only medfate-5.0.0/medfate/src/growth.cpp | 2089 +----- medfate-5.0.0/medfate/src/growth_day.cpp |only medfate-5.0.0/medfate/src/growth_day_c.cpp |only medfate-5.0.0/medfate/src/growth_day_c.h |only medfate-5.0.0/medfate/src/hydraulics.cpp | 788 -- medfate-5.0.0/medfate/src/hydraulics.h | 35 medfate-5.0.0/medfate/src/hydraulics_c.cpp |only medfate-5.0.0/medfate/src/hydraulics_c.h |only medfate-5.0.0/medfate/src/hydrology.cpp | 1470 ---- medfate-5.0.0/medfate/src/hydrology.h | 16 medfate-5.0.0/medfate/src/hydrology_c.cpp |only medfate-5.0.0/medfate/src/hydrology_c.h |only medfate-5.0.0/medfate/src/incbeta_c.cpp |only medfate-5.0.0/medfate/src/incbeta_c.h |only medfate-5.0.0/medfate/src/incgamma_c.cpp |only medfate-5.0.0/medfate/src/incgamma_c.h |only medfate-5.0.0/medfate/src/inner_sperry.cpp | 57 medfate-5.0.0/medfate/src/inner_sperry.h | 2 medfate-5.0.0/medfate/src/inner_sperry_c.cpp |only medfate-5.0.0/medfate/src/inner_sperry_c.h |only medfate-5.0.0/medfate/src/inner_sureau.cpp | 569 - medfate-5.0.0/medfate/src/inner_sureau.h | 6 medfate-5.0.0/medfate/src/inner_sureau_c.cpp |only medfate-5.0.0/medfate/src/inner_sureau_c.h |only medfate-5.0.0/medfate/src/lightextinction_advanced.cpp | 532 - medfate-5.0.0/medfate/src/lightextinction_advanced.h | 22 medfate-5.0.0/medfate/src/lightextinction_advanced_c.cpp |only medfate-5.0.0/medfate/src/lightextinction_advanced_c.h |only medfate-5.0.0/medfate/src/lightextinction_basic.cpp | 58 medfate-5.0.0/medfate/src/lightextinction_basic.h | 2 medfate-5.0.0/medfate/src/lightextinction_basic_c.cpp |only medfate-5.0.0/medfate/src/lightextinction_basic_c.h |only medfate-5.0.0/medfate/src/lowlevel_structures_c.cpp |only medfate-5.0.0/medfate/src/lowlevel_structures_c.h |only medfate-5.0.0/medfate/src/medfate.h |only medfate-5.0.0/medfate/src/medfate_runners.cpp |only medfate-5.0.0/medfate/src/medfate_runners.h |only medfate-5.0.0/medfate/src/medfate_workers.cpp |only medfate-5.0.0/medfate/src/medfate_workers.h |only medfate-5.0.0/medfate/src/modelInput.cpp | 532 + medfate-5.0.0/medfate/src/modelInput.h | 9 medfate-5.0.0/medfate/src/modelInput_c.cpp |only medfate-5.0.0/medfate/src/modelInput_c.h |only medfate-5.0.0/medfate/src/numerical_solving.cpp | 8 medfate-5.0.0/medfate/src/numerical_solving.h | 2 medfate-5.0.0/medfate/src/numerical_solving_c.cpp |only medfate-5.0.0/medfate/src/numerical_solving_c.h |only medfate-5.0.0/medfate/src/paramutils.cpp | 134 medfate-5.0.0/medfate/src/paramutils.h | 2 medfate-5.0.0/medfate/src/phenology.cpp | 184 medfate-5.0.0/medfate/src/phenology_c.cpp |only medfate-5.0.0/medfate/src/phenology_c.h |only medfate-5.0.0/medfate/src/photosynthesis.cpp | 420 - medfate-5.0.0/medfate/src/photosynthesis.h | 23 medfate-5.0.0/medfate/src/photosynthesis_c.cpp |only medfate-5.0.0/medfate/src/photosynthesis_c.h |only medfate-5.0.0/medfate/src/root.cpp | 333 medfate-5.0.0/medfate/src/root.h | 12 medfate-5.0.0/medfate/src/root_c.cpp |only medfate-5.0.0/medfate/src/root_c.h |only medfate-5.0.0/medfate/src/soil.cpp | 478 - medfate-5.0.0/medfate/src/soil.h | 56 medfate-5.0.0/medfate/src/soil_c.cpp |only medfate-5.0.0/medfate/src/soil_c.h |only medfate-5.0.0/medfate/src/soil_thermodynamics.cpp | 66 medfate-5.0.0/medfate/src/soil_thermodynamics.h | 7 medfate-5.0.0/medfate/src/soil_thermodynamics_c.cpp |only medfate-5.0.0/medfate/src/soil_thermodynamics_c.h |only medfate-5.0.0/medfate/src/spwb.cpp | 1235 ++- medfate-5.0.0/medfate/src/spwb.h | 18 medfate-5.0.0/medfate/src/spwb_day.cpp | 1025 --- medfate-5.0.0/medfate/src/spwb_day_c.cpp |only medfate-5.0.0/medfate/src/spwb_day_c.h |only medfate-5.0.0/medfate/src/spwbland_const.h |only medfate-5.0.0/medfate/src/tissuemoisture.cpp | 120 medfate-5.0.0/medfate/src/tissuemoisture.h | 20 medfate-5.0.0/medfate/src/tissuemoisture_c.cpp |only medfate-5.0.0/medfate/src/tissuemoisture_c.h |only medfate-5.0.0/medfate/src/transpiration_advanced.cpp | 1405 ---- medfate-5.0.0/medfate/src/transpiration_advanced_c.cpp |only medfate-5.0.0/medfate/src/transpiration_advanced_c.h |only medfate-5.0.0/medfate/src/transpiration_basic.cpp | 605 - medfate-5.0.0/medfate/src/transpiration_basic_c.cpp |only medfate-5.0.0/medfate/src/transpiration_basic_c.h |only medfate-5.0.0/medfate/src/windKatul.cpp | 384 - medfate-5.0.0/medfate/src/windKatul.h | 10 medfate-5.0.0/medfate/src/windKatul_c.cpp |only medfate-5.0.0/medfate/src/windKatul_c.h |only medfate-5.0.0/medfate/src/windextinction_c.cpp |only medfate-5.0.0/medfate/src/windextinction_c.h |only medfate-5.0.0/medfate/src/woodformation.cpp | 79 medfate-5.0.0/medfate/src/woodformation.h | 9 medfate-5.0.0/medfate/src/woodformation_c.cpp |only medfate-5.0.0/medfate/src/woodformation_c.h |only medfate-5.0.0/medfate/tests/testthat/Rplots.pdf |binary medfate-5.0.0/medfate/tests/testthat/initialized_objects |only medfate-5.0.0/medfate/tests/testthat/test_aspwb.R | 16 medfate-5.0.0/medfate/tests/testthat/test_backwards_compatibility.R |only medfate-5.0.0/medfate/tests/testthat/test_communication.R |only medfate-5.0.0/medfate/tests/testthat/test_daycent.R |only medfate-5.0.0/medfate/tests/testthat/test_fccs.R |only medfate-5.0.0/medfate/tests/testthat/test_fordyn.R | 51 medfate-5.0.0/medfate/tests/testthat/test_forest.R | 161 medfate-5.0.0/medfate/tests/testthat/test_growth.R | 92 medfate-5.0.0/medfate/tests/testthat/test_growth_day.R |only medfate-5.0.0/medfate/tests/testthat/test_hydrology.R |only medfate-5.0.0/medfate/tests/testthat/test_old_version_input_objects.R |only medfate-5.0.0/medfate/tests/testthat/test_plant.R |only medfate-5.0.0/medfate/tests/testthat/test_post_processing.R | 86 medfate-5.0.0/medfate/tests/testthat/test_pre_processing.R | 12 medfate-5.0.0/medfate/tests/testthat/test_runners.R |only medfate-5.0.0/medfate/tests/testthat/test_soil.R |only medfate-5.0.0/medfate/tests/testthat/test_spwb.R | 156 medfate-5.0.0/medfate/tests/testthat/test_spwb_day.R |only medfate-5.0.0/medfate/tests/testthat/test_transpiration.R |only medfate-5.0.0/medfate/tests/testthat/test_wind.R |only 247 files changed, 9655 insertions(+), 16667 deletions(-)
Title: APSIM Next Generation
Description: The Agricultural Production Systems sIMulator ('APSIM') is a widely
used to simulate the agricultural systems for multiple crops. This package
is designed to create, modify and run 'apsimx' files in the 'APSIM' Next
Generation <https://www.apsim.info/>.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <zheng.bangyou@gmail.com>
Diff between rapsimng versions 0.4.6 dated 2026-02-09 and 0.5.0 dated 2026-05-06
rapsimng-0.4.6/rapsimng/inst/extdata/Models.Rds |only rapsimng-0.4.6/rapsimng/man/available_models.Rd |only rapsimng-0.5.0/rapsimng/DESCRIPTION | 11 rapsimng-0.5.0/rapsimng/MD5 | 42 - rapsimng-0.5.0/rapsimng/NAMESPACE | 15 rapsimng-0.5.0/rapsimng/R/experiment.R |only rapsimng-0.5.0/rapsimng/R/model_frost_heat_damage.R |only rapsimng-0.5.0/rapsimng/R/models.R | 129 ++--- rapsimng-0.5.0/rapsimng/R/search.R | 2 rapsimng-0.5.0/rapsimng/README.md | 1 rapsimng-0.5.0/rapsimng/build/vignette.rds |binary rapsimng-0.5.0/rapsimng/inst/doc/modify.R | 3 rapsimng-0.5.0/rapsimng/inst/doc/modify.Rmd | 255 ++++------ rapsimng-0.5.0/rapsimng/inst/doc/modify.html | 68 -- rapsimng-0.5.0/rapsimng/inst/doc/sensitivity.Rmd | 142 ++--- rapsimng-0.5.0/rapsimng/man/frost_heat_damage.Rd |only rapsimng-0.5.0/rapsimng/man/get_experiment.Rd |only rapsimng-0.5.0/rapsimng/man/get_pawc.Rd | 60 +- rapsimng-0.5.0/rapsimng/man/new_cultivar.Rd | 56 +- rapsimng-0.5.0/rapsimng/man/search_path.Rd | 4 rapsimng-0.5.0/rapsimng/man/with_apsimx.Rd | 28 - rapsimng-0.5.0/rapsimng/tests/testthat/test-experiment.R |only rapsimng-0.5.0/rapsimng/tests/testthat/test-frost-heat-damage.R |only rapsimng-0.5.0/rapsimng/tests/testthat/test-simulations.R | 120 ++-- rapsimng-0.5.0/rapsimng/vignettes/modify.Rmd | 255 ++++------ rapsimng-0.5.0/rapsimng/vignettes/sensitivity.Rmd | 142 ++--- 26 files changed, 650 insertions(+), 683 deletions(-)
Title: Extract from the Scottish Health and Social Care Open Data
Platform
Description: Extract and interact with data from the Scottish Health and
Social Care Open Data platform <https://www.opendata.nhs.scot>.
Author: Public Health Scotland [cph],
Csilla Scharle [cre, aut],
James Hayes [aut] ,
David Aikman [aut],
Ross Hull [aut],
Haritha Jagadeesh [aut],
Simon Barnes [ctb]
Maintainer: Csilla Scharle <csilla.scharle2@phs.scot>
Diff between phsopendata versions 1.0.3 dated 2026-02-05 and 1.1.0 dated 2026-05-06
DESCRIPTION | 33 ++-- MD5 | 22 +-- NEWS.md | 9 - R/get_resource_sql.R | 82 +++++++---- R/list_datasets.R | 15 ++ R/list_resources.R | 255 +++++++++++++++++++++++++++++------ R/request_url.R | 3 README.md | 83 ++++++----- man/get_resource_sql.Rd | 78 +++++++--- man/list_datasets.Rd | 16 ++ man/list_resources.Rd | 37 +++-- tests/testthat/test-list_resources.R | 238 ++++++++++++++++++++++++++++++-- 12 files changed, 695 insertions(+), 176 deletions(-)
Title: Access Colombian Data via APIs and Curated Datasets
Description: Provides a comprehensive interface to access diverse public data about
Colombia through multiple APIs and curated datasets. The package integrates
four different APIs: 'API-Colombia' for Colombian-specific data including
geography, culture, tourism, and government information; 'World Bank API'
for economic and demographic indicators; 'Nager.Date' for public holidays;
and 'REST Countries API' for general country information. The package enables
users to explore various aspects of Colombia such as geographic locations,
cultural attractions, economic indicators, demographic data, and public
holidays. Additionally, 'ColombiAPI' includes curated datasets covering
Bogota air stations, business and holiday dates, public schools, Colombian
coffee exports, cannabis licenses, Medellin rainfall, malls in Bogota, as
well as datasets on indigenous languages, student admissions and school
statistics, forest liana mortality, municipal and regional data, connectivity
and digital infrastructure, progra [...truncated...]
Author: Renzo Caceres Rossi [aut, cre]
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
Diff between ColombiAPI versions 0.3.1 dated 2025-10-12 and 0.3.2 dated 2026-05-06
DESCRIPTION | 6 MD5 | 176 ++++++------- NAMESPACE | 2 NEWS.md | 220 ++++++++++++----- R/colombiapi-package.R | 4 R/data-documentation.R | 4 R/get_colombia_airports.R | 60 ++-- R/get_colombia_attractions.R | 64 +++- R/get_colombia_child_mortality.R | 44 ++- R/get_colombia_cities.R | 60 ++-- R/get_colombia_cpi.R | 44 ++- R/get_colombia_departments.R | 58 ++-- R/get_colombia_energy_use.R | 44 ++- R/get_colombia_gdp.R | 44 ++- R/get_colombia_holidays.R | 65 ++++- R/get_colombia_hospital_beds.R | 44 ++- R/get_colombia_invasive_species.R | 65 +++-- R/get_colombia_life_expectancy.R | 82 ++---- R/get_colombia_literacy_rate.R | 57 ++-- R/get_colombia_native_communities.R | 62 +++- R/get_colombia_natural_areas.R | 77 +++-- R/get_colombia_population.R | 47 ++- R/get_colombia_presidents.R | 56 ++-- R/get_colombia_radios.R | 64 +++- R/get_colombia_regions.R | 48 ++- R/get_colombia_typical_dishes.R | 66 +++-- R/get_colombia_unemployment.R | 44 ++- R/get_country_info_co.R | 111 +++++--- R/utils.R | 4 R/view_datasets_ColombiAPI.R | 4 README.md | 2 build/vignette.rds |binary inst/CITATION | 4 inst/licenses/LICENSE.md | 2 man/get_colombia_attractions.Rd | 30 ++ man/get_colombia_cities.Rd | 26 +- man/get_colombia_holidays.Rd | 16 + man/get_colombia_invasive_species.Rd | 31 ++ man/get_colombia_life_expectancy.Rd | 10 man/get_colombia_literacy_rate.Rd | 5 man/get_colombia_native_communities.Rd | 28 +- man/get_colombia_natural_areas.Rd | 31 ++ man/get_colombia_population.Rd | 3 man/get_colombia_radios.Rd | 30 +- man/get_colombia_typical_dishes.Rd | 31 +- man/get_country_info_co.Rd | 39 ++- tests/testthat/test-Bogota_airstations_df.R | 4 tests/testthat/test-Bogota_business_Date.R | 4 tests/testthat/test-Bogota_holidays_Date.R | 4 tests/testthat/test-Bogota_malls_tbl_df.R | 4 tests/testthat/test-Bucaramanga_wifi_tbl_df.R | 4 tests/testthat/test-Cannabis_Licenses_tbl_df.R | 4 tests/testthat/test-Cartagena_wifi_tbl_df.R | 4 tests/testthat/test-Colombia_coffee_tbl_df.R | 4 tests/testthat/test-Medellin_rain_tbl_df.R | 4 tests/testthat/test-Tulua_Public_Schools_tbl_df.R | 4 tests/testthat/test-admitted_students_df.R | 4 tests/testthat/test-dead_lianas_df.R | 4 tests/testthat/test-digital_centers_tbl_df.R | 4 tests/testthat/test-digital_graduates_tbl_df.R | 4 tests/testthat/test-foreign_visitors_tbl_df.R | 4 tests/testthat/test-gdp_departments_tbl_df.R | 4 tests/testthat/test-get_colombia_airports.R | 4 tests/testthat/test-get_colombia_attractions.R | 4 tests/testthat/test-get_colombia_child_mortality.R | 4 tests/testthat/test-get_colombia_cities.R | 186 +++----------- tests/testthat/test-get_colombia_cpi.R | 97 ++----- tests/testthat/test-get_colombia_departments.R | 224 ++++------------- tests/testthat/test-get_colombia_energy_use.R | 93 +++---- tests/testthat/test-get_colombia_gdp.R | 117 ++++----- tests/testthat/test-get_colombia_holidays.R | 85 +++--- tests/testthat/test-get_colombia_hospital_beds.R | 111 +++----- tests/testthat/test-get_colombia_invasive_species.R | 107 ++++---- tests/testthat/test-get_colombia_life_expectancy.R | 147 +++-------- tests/testthat/test-get_colombia_literacy_rate.R | 143 +++-------- tests/testthat/test-get_colombia_native_communities.R | 80 +++--- tests/testthat/test-get_colombia_natural_areas.R | 152 ++++++----- tests/testthat/test-get_colombia_population.R | 156 ++++-------- tests/testthat/test-get_colombia_presidents.R | 232 ++++++------------ tests/testthat/test-get_colombia_radios.R | 97 ++++--- tests/testthat/test-get_colombia_regions.R | 191 +++++--------- tests/testthat/test-get_colombia_typical_dishes.R | 90 +++--- tests/testthat/test-get_colombia_unemployment.R | 123 +++------ tests/testthat/test-get_country_info_co.R | 155 +++--------- tests/testthat/test-indigenous_vocabulary_df.R | 4 tests/testthat/test-municipalities_tbl_df.R | 4 tests/testthat/test-school_levels_df.R | 4 tests/testthat/test-vehicle_count_tbl_df.R | 4 tests/testthat/test-view_datasets_ColombiAPI.R | 4 89 files changed, 2335 insertions(+), 2361 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-15 1.1
2018-02-21 1.0.9
2018-01-24 1.0.8
2017-10-26 1.0.7
2017-04-06 1.0.6
2017-03-14 1.0.5
2016-12-30 1.0.4
2016-12-21 1.0.3
2016-04-24 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-21 0.5.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-24 0.3
2018-12-16 0.2
2017-11-27 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-27 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-11 0.1.3
2018-06-04 0.1.2
2017-07-10 0.1.1
2017-03-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-22 4.0.0
2017-12-21 3.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-15 0.5
2018-09-27 0.3
2018-04-22 0.2
2018-04-12 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-24 1.2.0
2018-08-29 1.1.0
2018-02-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-15 0.4.0
2018-12-31 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-17 0.1.4
2018-04-29 0.1.3
2017-06-26 0.1.2
2017-01-07 0.1.1
2016-12-11 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-12-18 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-22 0.4-14.1
2019-05-27 0.4-14
2018-05-17 0.4-13
2013-11-12 0.4-11
2013-08-21 0.4-10
2012-06-19 0.4-6
2012-05-12 0.4-4
2011-11-02 0.4-3
2011-09-07 0.4-2
2011-09-05 0.4.1
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started.
Author: Robert J. Hijmans [cre, aut] ,
Andrew Brown [aut] ,
Marcia Barbosa [aut] ,
Krzysztof Dyba [ctb] ,
Roger Bivand [ctb] ,
Michael Chirico [ctb] ,
Emanuele Cordano [ctb] ,
Edzer Pebesma [ctb] ,
Barry Rowlingson [ctb] ,
Michael D. Sumner [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.9-11 dated 2026-03-26 and 1.9-25 dated 2026-05-06
terra-1.9-11/terra/R/merge.R |only terra-1.9-11/terra/R/update.R |only terra-1.9-11/terra/inst/ex/countries.rds |only terra-1.9-11/terra/src/gcp.cpp |only terra-1.9-11/terra/src/movingWindow.cpp |only terra-1.9-11/terra/src/ncdf.cpp |only terra-1.9-11/terra/src/nearest.cpp |only terra-1.9-11/terra/src/patches.cpp |only terra-1.9-11/terra/src/spatVector2.cpp |only terra-1.9-11/terra/src/spatVector2.h |only terra-1.9-11/terra/src/surfArea.cpp |only terra-1.9-11/terra/src/watershed_internal.cpp |only terra-1.9-11/terra/src/watershed_internal.h |only terra-1.9-25/terra/DESCRIPTION | 14 terra-1.9-25/terra/MD5 | 303 terra-1.9-25/terra/NAMESPACE | 52 terra-1.9-25/terra/NEWS.md | 56 terra-1.9-25/terra/R/Aclasses.R | 1 terra-1.9-25/terra/R/Agenerics.R | 6 terra-1.9-25/terra/R/Arith_generics.R | 5 terra-1.9-25/terra/R/RcppExports.R | 12 terra-1.9-25/terra/R/SpatRasterDataset.R | 15 terra-1.9-25/terra/R/animate.R | 23 terra-1.9-25/terra/R/autocor.R | 35 terra-1.9-25/terra/R/coerce.R | 45 terra-1.9-25/terra/R/crs.R | 35 terra-1.9-25/terra/R/distance.R | 17 terra-1.9-25/terra/R/focal.R | 127 terra-1.9-25/terra/R/generics.R | 3098 +++++----- terra-1.9-25/terra/R/geom.R | 54 terra-1.9-25/terra/R/kml.R |only terra-1.9-25/terra/R/messages.R | 9 terra-1.9-25/terra/R/ncdf.R | 49 terra-1.9-25/terra/R/options.R | 5 terra-1.9-25/terra/R/panel.R | 2 terra-1.9-25/terra/R/plot_add.R | 81 terra-1.9-25/terra/R/plot_legend_continuous.R | 37 terra-1.9-25/terra/R/plot_let.R | 58 terra-1.9-25/terra/R/plot_scale.R | 51 terra-1.9-25/terra/R/rast.R | 50 terra-1.9-25/terra/R/show.R | 551 - terra-1.9-25/terra/R/spatvec.R | 2 terra-1.9-25/terra/R/subset.R | 6 terra-1.9-25/terra/R/tile_apply.R |only terra-1.9-25/terra/R/tiles.R | 81 terra-1.9-25/terra/R/values.R | 19 terra-1.9-25/terra/R/vect.R | 12 terra-1.9-25/terra/R/write.R | 35 terra-1.9-25/terra/R/z_show.R |only terra-1.9-25/terra/build/partial.rdb |binary terra-1.9-25/terra/configure | 43 terra-1.9-25/terra/configure.ac | 41 terra-1.9-25/terra/inst/ex/nouragues.nc |only terra-1.9-25/terra/inst/tinytest/test_autocor.R |only terra-1.9-25/terra/inst/tinytest/test_classify_subst_parallel.R |only terra-1.9-25/terra/inst/tinytest/test_costDist.R |only terra-1.9-25/terra/inst/tinytest/test_distance.R | 126 terra-1.9-25/terra/inst/tinytest/test_focal2.R |only terra-1.9-25/terra/inst/tinytest/test_focal_cores.R |only terra-1.9-25/terra/inst/tinytest/test_future.R |only terra-1.9-25/terra/inst/tinytest/test_kml_extended.R |only terra-1.9-25/terra/inst/tinytest/test_merge.R | 16 terra-1.9-25/terra/inst/tinytest/test_misc-raster.R |only terra-1.9-25/terra/inst/tinytest/test_misc-vector.R |only terra-1.9-25/terra/inst/tinytest/test_nc.R |only terra-1.9-25/terra/inst/tinytest/test_proj_pipelines.R |only terra-1.9-25/terra/inst/tinytest/test_raster-local.R |only terra-1.9-25/terra/inst/tinytest/test_revdep_fixes.R |only terra-1.9-25/terra/inst/tinytest/test_sample.R |only terra-1.9-25/terra/inst/tinytest/test_tessellate.R |only terra-1.9-25/terra/inst/tinytest/test_tile_apply.R |only terra-1.9-25/terra/inst/tinytest/test_update.R |only terra-1.9-25/terra/inst/tinytest/test_vrt.R |only terra-1.9-25/terra/inst/tinytest/test_window.R | 61 terra-1.9-25/terra/man/add_mtext.Rd | 4 terra-1.9-25/terra/man/aggregate.Rd | 2 terra-1.9-25/terra/man/animate.Rd | 17 terra-1.9-25/terra/man/as.list.Rd | 2 terra-1.9-25/terra/man/autocor.Rd | 7 terra-1.9-25/terra/man/centroids.Rd | 2 terra-1.9-25/terra/man/chunk.Rd | 2 terra-1.9-25/terra/man/clamp_ts.Rd | 2 terra-1.9-25/terra/man/compare-generics.Rd | 1 terra-1.9-25/terra/man/compareGeom.Rd | 4 terra-1.9-25/terra/man/costDist.Rd | 11 terra-1.9-25/terra/man/crs.Rd | 2 terra-1.9-25/terra/man/densify.Rd | 2 terra-1.9-25/terra/man/focal.Rd | 13 terra-1.9-25/terra/man/gdal.Rd | 4 terra-1.9-25/terra/man/gridDist.Rd | 5 terra-1.9-25/terra/man/legend_cont.Rd |only terra-1.9-25/terra/man/makeTiles.Rd | 22 terra-1.9-25/terra/man/merge.Rd | 13 terra-1.9-25/terra/man/mosaic.Rd | 28 terra-1.9-25/terra/man/plet.Rd | 8 terra-1.9-25/terra/man/plot.Rd | 6 terra-1.9-25/terra/man/proj_pipelines.Rd |only terra-1.9-25/terra/man/project.Rd | 260 terra-1.9-25/terra/man/quantile.Rd | 2 terra-1.9-25/terra/man/rast.Rd | 18 terra-1.9-25/terra/man/sbar.Rd | 3 terra-1.9-25/terra/man/sds.Rd | 3 terra-1.9-25/terra/man/sprc.Rd | 2 terra-1.9-25/terra/man/terra-package.Rd | 143 terra-1.9-25/terra/man/terraOptions.Rd | 5 terra-1.9-25/terra/man/tessellate.Rd |only terra-1.9-25/terra/man/thin.Rd |only terra-1.9-25/terra/man/tile_apply.Rd |only terra-1.9-25/terra/man/update.Rd | 41 terra-1.9-25/terra/man/vect.Rd | 5 terra-1.9-25/terra/man/vrt.Rd | 2 terra-1.9-25/terra/man/warp_scale.Rd |only terra-1.9-25/terra/src/RcppExports.cpp | 42 terra-1.9-25/terra/src/RcppFunctions.cpp | 106 terra-1.9-25/terra/src/RcppModule.cpp | 30 terra-1.9-25/terra/src/arith.cpp | 21 terra-1.9-25/terra/src/catchments.cpp |only terra-1.9-25/terra/src/costDistance.cpp |only terra-1.9-25/terra/src/crs.cpp | 237 terra-1.9-25/terra/src/crs.h | 10 terra-1.9-25/terra/src/distRaster.cpp | 2376 +++++-- terra-1.9-25/terra/src/distValueRaster.cpp | 3 terra-1.9-25/terra/src/distVector.cpp | 187 terra-1.9-25/terra/src/distance.cpp | 2 terra-1.9-25/terra/src/extract.cpp | 2 terra-1.9-25/terra/src/file_utils.cpp | 154 terra-1.9-25/terra/src/file_utils.h | 3 terra-1.9-25/terra/src/focal.cpp | 1106 +++ terra-1.9-25/terra/src/gdal_algs.cpp | 454 + terra-1.9-25/terra/src/gdal_multidimensional.cpp | 1029 ++- terra-1.9-25/terra/src/gdalio.cpp | 35 terra-1.9-25/terra/src/gdalio.h | 7 terra-1.9-25/terra/src/geos_methods.cpp | 7 terra-1.9-25/terra/src/geos_spat.h | 11 terra-1.9-25/terra/src/geosphere.cpp | 342 + terra-1.9-25/terra/src/geosphere.h | 41 terra-1.9-25/terra/src/math_utils.cpp | 2 terra-1.9-25/terra/src/mediancut.cpp | 2 terra-1.9-25/terra/src/memory.cpp | 9 terra-1.9-25/terra/src/merge.cpp |only terra-1.9-25/terra/src/ram.cpp | 2 terra-1.9-25/terra/src/raster_methods.cpp | 903 -- terra-1.9-25/terra/src/raster_stats.cpp | 4 terra-1.9-25/terra/src/rasterize.cpp | 16 terra-1.9-25/terra/src/read.cpp | 28 terra-1.9-25/terra/src/read_gdal.cpp | 213 terra-1.9-25/terra/src/read_ogr.cpp | 429 - terra-1.9-25/terra/src/sample.cpp | 4 terra-1.9-25/terra/src/show.cpp |only terra-1.9-25/terra/src/sort.cpp | 16 terra-1.9-25/terra/src/spatBase.cpp | 3 terra-1.9-25/terra/src/spatBase.h | 12 terra-1.9-25/terra/src/spatDataframe.cpp | 23 terra-1.9-25/terra/src/spatDataframe.h | 16 terra-1.9-25/terra/src/spatFactor.cpp | 4 terra-1.9-25/terra/src/spatFactor.h | 8 terra-1.9-25/terra/src/spatRaster.cpp | 17 terra-1.9-25/terra/src/spatRaster.h | 33 terra-1.9-25/terra/src/spatRasterMultiple.cpp | 40 terra-1.9-25/terra/src/spatRasterMultiple.h | 15 terra-1.9-25/terra/src/spatSources.cpp | 11 terra-1.9-25/terra/src/spatTime.cpp | 25 terra-1.9-25/terra/src/spatTime.h | 5 terra-1.9-25/terra/src/spatVector.cpp | 29 terra-1.9-25/terra/src/spatVector.h | 21 terra-1.9-25/terra/src/string_utils.cpp | 11 terra-1.9-25/terra/src/string_utils.h | 2 terra-1.9-25/terra/src/table_utils.cpp | 17 terra-1.9-25/terra/src/tbb_helper.h |only terra-1.9-25/terra/src/tessellate.cpp |only terra-1.9-25/terra/src/vecmath.cpp | 2 terra-1.9-25/terra/src/vecmathse.cpp | 2 terra-1.9-25/terra/src/vector_methods.cpp | 6 terra-1.9-25/terra/src/write.cpp | 2 terra-1.9-25/terra/src/write_gdal.cpp | 137 terra-1.9-25/terra/src/write_ogr.cpp | 57 176 files changed, 9534 insertions(+), 4671 deletions(-)
Title: Automatic Short Form Creation
Description: Performs automatic creation of short forms of scales with an
ant colony optimization algorithm and a Tabu search. As implemented in the
package, the ant colony algorithm randomly selects items to build a model of
a specified length, then updates the probability of item selection according
to the fit of the best model within each set of searches. The algorithm
continues until the same items are selected by multiple ants a given number
of times in a row. On the other hand, the Tabu search changes one parameter at
a time to be either free, constrained, or fixed while keeping track of the
changes made and putting changes that result in worse fit in a "tabu" list
so that the algorithm does not revisit them for some number of searches.
See Leite, Huang, & Marcoulides (2008) <doi:10.1080/00273170802285743> for
an applied example of the ant colony algorithm, and Marcoulides & Falk (2018)
<doi:10.1080/10705511.2017.1409074> for an applied example of the Tabu search.
Author: Anthony Raborn [aut, cre] ,
Walter Leite [aut]
Maintainer: Anthony Raborn <anthony.w.raborn@gmail.com>
Diff between ShortForm versions 0.5.7 dated 2026-05-03 and 0.5.8 dated 2026-05-06
DESCRIPTION | 12 - MD5 | 14 - NAMESPACE | 8 R/ACO.R | 334 ++++++++++++++++++++++--------------- R/TS.R | 60 +++--- R/tabu_sem_shortform.R | 24 +- man/plot-ACO-ANY-method.Rd | 2 tests/testthat/test-aco-internals |only tests/testthat/test-tabu-internals |only 9 files changed, 271 insertions(+), 183 deletions(-)
Title: Spatial and Spatio-Temporal Models using 'INLA'
Description: Prepare objects to implement models over spatial and
spacetime domains with the 'INLA' package (<https://www.r-inla.org>).
These objects contain data to for the 'cgeneric' interface in
'INLA', enabling fast parallel computations.
We implemented the spatial barrier model, see Bakka et. al. (2019)
<doi:10.1016/j.spasta.2019.01.002>, and some of the spatio-temporal
models proposed in Lindgren et. al. (2024)
<https://raco.cat/index.php/SORT/article/view/428665>.
Details are provided in the available vignettes and from the URL bellow.
Author: Elias Teixeira Krainski [cre, aut, cph] ,
Finn Lindgren [aut] ,
Haavard Rue’ [aut]
Maintainer: Elias Teixeira Krainski <elias.krainski@kaust.edu.sa>
This is a re-admission after prior archival of version 0.1.13 dated 2025-12-21
Diff between INLAspacetime versions 0.1.13 dated 2025-12-21 and 0.1.14 dated 2026-05-06
INLAspacetime-0.1.13/INLAspacetime/R/cWhittleMatern.R |only INLAspacetime-0.1.13/INLAspacetime/man/cWhittleMatern.Rd |only INLAspacetime-0.1.13/INLAspacetime/man/pcrange.Rd |only INLAspacetime-0.1.14/INLAspacetime/DESCRIPTION | 38 ++---- INLAspacetime-0.1.14/INLAspacetime/MD5 | 54 ++++---- INLAspacetime-0.1.14/INLAspacetime/NAMESPACE | 12 + INLAspacetime-0.1.14/INLAspacetime/R/INLAspacetime.R | 5 INLAspacetime-0.1.14/INLAspacetime/R/aaa.R |only INLAspacetime-0.1.14/INLAspacetime/R/ar2precision.R | 2 INLAspacetime-0.1.14/INLAspacetime/R/barrierModel.define.R | 33 +---- INLAspacetime-0.1.14/INLAspacetime/R/cgeneric_sspde.R | 24 ++- INLAspacetime-0.1.14/INLAspacetime/R/mesh2fem.R | 12 - INLAspacetime-0.1.14/INLAspacetime/R/paramsUtils.R | 25 --- INLAspacetime-0.1.14/INLAspacetime/R/stModel.define.R | 26 +--- INLAspacetime-0.1.14/INLAspacetime/R/stModel.matrices.R | 2 INLAspacetime-0.1.14/INLAspacetime/R/stats.inla.R | 7 - INLAspacetime-0.1.14/INLAspacetime/R/zzz.R |only INLAspacetime-0.1.14/INLAspacetime/build/partial.rdb |binary INLAspacetime-0.1.14/INLAspacetime/build/vignette.rds |binary INLAspacetime-0.1.14/INLAspacetime/demo/pcrange.R | 16 -- INLAspacetime-0.1.14/INLAspacetime/man/bru_get_mapper.stModel_cgeneric.Rd | 2 INLAspacetime-0.1.14/INLAspacetime/man/cgeneric_sspde.Rd | 7 - INLAspacetime-0.1.14/INLAspacetime/src/INLAspacetime.c | 63 +++++++++- INLAspacetime-0.1.14/INLAspacetime/src/INLAspacetime.h | 32 ++++- INLAspacetime-0.1.14/INLAspacetime/src/INLAspacetime_init.c | 4 INLAspacetime-0.1.14/INLAspacetime/src/cgeneric_ast.c | 4 INLAspacetime-0.1.14/INLAspacetime/src/cgeneric_barrier.c | 4 INLAspacetime-0.1.14/INLAspacetime/src/cgeneric_nngp.c |only INLAspacetime-0.1.14/INLAspacetime/src/cgeneric_sspde.c | 4 INLAspacetime-0.1.14/INLAspacetime/src/cgeneric_sstspde.c | 6 INLAspacetime-0.1.14/INLAspacetime/src/cgeneric_vrst.c | 4 31 files changed, 214 insertions(+), 172 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-12 0.1.0
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2019-04-07 1.0
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2019-03-07 0.2.0
2019-01-11 0.1.0
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2012-07-17 0.1-1
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2019-02-24 0.1.2
2018-04-05 0.1.1
2017-06-07 0.1.0
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2019-01-25 1.1.0
2018-05-30 0.1.0
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2018-11-16 1.0
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2018-12-09 1.0.1
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2019-05-10 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-15 4.0.5
2021-06-25 4.0.3
2020-09-02 4.0.1
2020-08-28 4.0.0
2020-07-02 3.0.2
2020-02-12 3.0.1
2019-11-03 3.0.0
2018-03-28 2.0.3
2017-10-24 2.0.1
2017-10-18 2.0.0
2017-08-24 1.1.1
2017-07-19 1.0.1
2017-07-11 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-05 0.1.2
2018-10-26 0.1.1
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-24 0.6.0
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2023-11-19 0.5.0
2022-02-22 0.4.5
2021-07-16 0.4.4
2021-06-10 0.4.3
2019-09-27 0.4.2
2018-07-19 0.4.1
2018-06-20 0.4.0
2018-05-11 0.3.9
2018-04-10 0.3.8
2017-08-15 0.3.7
2017-07-18 0.3.6
2017-07-10 0.3.5
2017-03-17 0.3.4
2017-03-14 0.3.3
2017-02-03 0.3.1
2017-01-25 0.3
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2019-02-06 2.0
2018-09-12 1.1
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2020-09-23 1.0.0
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2022-04-20 0.1.3
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2020-09-23 0.1.0
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2019-04-22 0.1.1
2013-09-30 0.1
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2019-03-11 2.0
2017-09-15 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
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2014-12-30 0.9.7
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-06 0.2.4
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2022-05-10 0.2.1
2022-04-01 0.2.0
2021-12-15 0.1.5
2021-11-16 0.1.4
2021-06-21 0.1.3
2020-09-27 0.1.2
2018-07-19 0.1.1
2018-06-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-03 0.4
2018-07-26 0.3
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2017-12-20 0.1
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2019-04-25 2.1
2018-11-09 2.0
2018-11-06 1.9
2018-10-26 1.8
2018-10-12 1.7
2018-03-28 1.5
2018-02-18 1.4
2018-02-07 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-07 0.1.1
2016-08-25 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-06 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-01 1.0.5
2018-03-06 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-10-29 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-31 1.5
2019-10-02 1.3
2019-09-23 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-12-19 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-27 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-24 0.1.4
2017-09-18 0.1.3
2017-06-20 0.1.1
2017-06-20 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-10 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-11 0.1.1
2018-05-11 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-19 0.3.4
2018-02-15 0.3.3
2017-12-21 0.2.2
Title: R Interface to 'Redatam' Library
Description: Provides an API to work with 'Redatam' (see <https://redatam.org>)
databases in both formats: 'RXDB' (new format) and 'DICX' (old format) and running
'Redatam' programs written in 'SPC' language. It's a wrapper around 'Redatam'
core and provides functions to open/close a database (redatam_open()/redatam_close()),
list entities and variables from the database (redatam_entities(), redatam_variables())
and execute a 'SPC' program and gets the results as data frames
(redatam_query(), redatam_run()).
Author: Jaime Salvador [aut, cre] ,
CELADE [cph]
Maintainer: Jaime Salvador <jaime.salvador@ideasybits.com>
Diff between redatamx versions 1.2.1 dated 2025-11-22 and 1.3.0 dated 2026-05-06
DESCRIPTION | 6 MD5 | 66 +++--- NAMESPACE | 30 +-- NEWS.md | 7 R/output-env.R | 82 ++++---- R/redatam-api.R | 414 +++++++++++++++++++++--------------------- R/redatam-package.R | 16 - R/redatam-plugins.R | 76 +++---- R/redatam-query.R | 206 ++++++++++---------- R/redatam-run.R | 200 ++++++++++---------- R/zzz.R | 34 +-- README.md | 20 -- configure | 2 configure.win | 2 inst/COPYRIGHTS | 6 inst/License.txt | 2 man/outputs.Rd | 62 +++--- man/redatam_close.Rd | 56 ++--- man/redatam_create.Rd | 54 ++--- man/redatam_destroy_.Rd | 48 ++-- man/redatam_entities.Rd | 52 ++--- man/redatam_info.Rd | 40 ++-- man/redatam_init_.Rd | 54 ++--- man/redatam_internal_query.Rd | 58 ++--- man/redatam_internal_run.Rd | 58 ++--- man/redatam_load_plugin.Rd | 58 ++--- man/redatam_open.Rd | 52 ++--- man/redatam_query.Rd | 70 +++---- man/redatam_run.Rd | 70 +++---- man/redatam_save.Rd | 60 +++--- man/redatam_variables.Rd | 56 ++--- man/redatam_version.Rd | 40 ++-- man/redatamx-package.Rd | 58 ++--- src/red_initialize.cpp | 2 34 files changed, 1061 insertions(+), 1056 deletions(-)
Title: Qualitative Analysis with Large Language Models
Description: Tools for AI-assisted qualitative data coding using large language
models ('LLMs') via the 'ellmer' package, supporting providers including
'OpenAI', 'Anthropic', 'Google', 'Azure', and local models via 'Ollama'.
Provides a 'codebook'-based workflow for defining coding instructions and
applying them to texts, images, and other data. Includes built-in 'codebooks'
for common applications such as sentiment analysis and policy coding, and
functions for creating custom 'codebooks' for specific research questions.
Supports systematic replication across models and settings, computing
inter-coder reliability statistics including Krippendorff's alpha
(Krippendorff 2019, <doi:10.4135/9781071878781>) and Fleiss' kappa
(Fleiss 1971, <doi:10.1037/h0031619>), as well as gold-standard validation
metrics including accuracy, precision, recall, and F1 scores following
Sokolova and Lapalme (2009, <doi:10.1016/j.ipm.2009.03.002>). Provides audit
trail functionality for documenting coding [...truncated...]
Author: Seraphine F. Maerz [aut, cre] ,
Kenneth Benoit [aut]
Maintainer: Seraphine F. Maerz <seraphine.maerz@unimelb.edu.au>
Diff between quallmer versions 0.3.0 dated 2026-02-16 and 0.4.0 dated 2026-05-06
DESCRIPTION | 12 - MD5 | 62 ++++-- NAMESPACE | 7 NEWS.md | 37 ++++ R/accessors.R | 2 R/alpha_u.R |only R/as_qlm_coded.R | 138 ++++++++++++++- R/data.R | 71 +++++++ R/qlm_code.R | 35 +-- R/qlm_compare.R | 335 ++++++++++++++++++++++++++++++++++--- R/qlm_segment.R |only R/qlm_validate.R | 3 R/quallmer-package.R | 2 R/trail_compare.R | 17 - R/validate.R | 77 ++++---- README.md | 36 ++- build/partial.rdb |binary build/vignette.rds |binary data/data_corpus_MPexamples.rda |only data/data_corpus_MPexamplesseg.rda |only inst/doc/getting-started.Rmd | 2 inst/doc/getting-started.html | 5 man/annotate.Rd | 10 - man/as_qlm_coded.Rd | 22 ++ man/codebook.Rd | 1 man/data_corpus_MPexamples.Rd |only man/inputs.Rd | 1 man/qlm_code.Rd | 13 - man/qlm_compare.Rd | 62 ++++++ man/qlm_segment.Rd |only tests/testthat/_problems |only tests/testthat/test-alpha_u.R |only tests/testthat/test-qlm_code.R | 32 +-- tests/testthat/test-qlm_segment.R |only vignettes/getting-started.Rmd | 2 35 files changed, 807 insertions(+), 177 deletions(-)
Title: Safe, Multiple, Simultaneous String Substitution
Description: Designed to enable simultaneous substitution in strings in a safe fashion.
Safe means it does not rely on placeholders (which can cause errors in same length matches).
Author: Mark Ewing [aut, cre]
Maintainer: Mark Ewing <b.mark.ewing@gmail.com>
Diff between mgsub versions 1.7.3 dated 2021-07-28 and 2.0.0 dated 2026-05-06
DESCRIPTION | 17 MD5 | 39 + NAMESPACE | 1 NEWS.md | 80 +-- R/base_fallback_helpers.R |only R/helper_functions.R | 156 ++++-- R/mgsub-package.R |only R/mgsub.R | 184 +++---- R/mgsub_censor.R | 11 README.md | 90 +-- build/vignette.rds |binary inst/doc/Safe-Censoring.R | 138 ++--- inst/doc/Safe-Censoring.html | 923 +++++++++++++++++++++------------------- inst/doc/Safe-Substitution.R | 74 +-- inst/doc/Safe-Substitution.html | 823 +++++++++++++++++++---------------- man/censor_worker.Rd | 10 man/filter_overlap_base.Rd |only man/get_matches_base.Rd |only man/mgsub-package.Rd |only man/mgsub_censor.Rd | 10 src |only tests/testthat/test_mgsub.R | 713 +++++++++++++++++++++++++----- 22 files changed, 1959 insertions(+), 1310 deletions(-)
Title: Utility Functions for Production R Code
Description: A suite of utility functions providing functionality commonly
needed for production level projects such as logging, error handling,
cache management and date-time parsing. Functions for date-time parsing and
formatting require that time zones be specified explicitly, avoiding a common
source of error when working with environmental time series.
Author: Jonathan Callahan [aut, cre],
Eli Grosman [ctb],
Spencer Pease [ctb],
Thomas Bergamaschi [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaCoreUtils versions 0.6.0 dated 2026-01-12 and 0.6.2 dated 2026-05-06
DESCRIPTION | 12 - MD5 | 130 ++++++------- NEWS.md | 14 + R/MazamaCoreUtils-package.R | 133 ++++++++----- R/cacheManagement.R | 107 ++++++----- R/createLocationID.R | 166 +++++------------ R/createLocationMask.R | 53 ++--- R/dateRange.R | 180 ++++++++---------- R/dateSequence.R | 128 ++++++------- R/devtools_check.R | 86 ++++---- R/errorHandling.R | 112 ++++------- R/functionArgument_lintRules.R | 83 +++----- R/functionArgument_linting.R | 87 ++++----- R/html_getLinks.R | 84 ++++---- R/html_getTables.R | 64 ++---- R/initializeLogging.R | 34 ++- R/loadDataFile.R | 71 ++++--- R/parseDatetime.R | 120 +++++------- R/setIfNull.R | 152 +++++---------- R/stopIfNull.R | 50 +++-- R/timeRange.R | 76 ++++--- R/timeStamp.R | 81 +++----- R/utils-location.R | 75 +++++-- R/utils-logging.R | 319 +++++++++++++++++++++------------ R/utils-pipe.R | 6 R/utils-tidyeval-data.R | 4 inst/doc/logging.html | 32 +-- man/APIKeys.Rd | 24 +- man/MazamaCoreUtils-package.Rd | 30 +-- man/createLocationID.Rd | 79 ++------ man/createLocationMask.Rd | 44 ++-- man/dateRange.Rd | 160 +++++++--------- man/dateSequence.Rd | 108 +++++------ man/getAPIKey.Rd | 15 - man/html_getLinks.Rd | 57 +++-- man/html_getTables.Rd | 51 ++--- man/initializeLogging.Rd | 31 ++- man/lintFunctionArgs.Rd | 80 ++++---- man/loadDataFile.Rd | 62 +++--- man/logLevels.Rd | 18 + man/logger.debug.Rd | 15 - man/logger.error.Rd | 15 - man/logger.fatal.Rd | 15 - man/logger.info.Rd | 15 - man/logger.isInitialized.Rd | 17 + man/logger.setLevel.Rd | 33 ++- man/logger.setup.Rd | 84 ++++---- man/logger.trace.Rd | 15 - man/logger.warn.Rd | 15 - man/manageCache.Rd | 91 +++++---- man/packageCheck.Rd | 67 +++--- man/parseDatetime.Rd | 112 +++++------ man/pipe.Rd | 2 man/setAPIKey.Rd | 14 - man/setIfNull.Rd | 91 +++------ man/showAPIKeys.Rd | 8 man/stopIfNull.Rd | 32 ++- man/stopOnError.Rd | 102 +++------- man/tidyeval-data.Rd | 2 man/timeRange.Rd | 69 +++---- man/timeStamp.Rd | 77 +++---- man/timezoneLintRules.Rd | 56 +---- man/validateLonLat.Rd | 23 +- man/validateLonsLats.Rd | 32 ++- tests/testthat/test-createLocationID.R | 24 -- tests/testthat/test-setIfNull.R | 68 +++---- 66 files changed, 2162 insertions(+), 2150 deletions(-)
More information about MazamaCoreUtils at CRAN
Permanent link
Title: Bivariate Copula Functions Based on Regular Grid
Description: Estimates grid type bivariate copula functions, calculates some association measures and provides several copula graphics.
Author: Rogelio Salinas Gutierrez [aut, cre, cph] ,
Angelica Hernandez Quintero [aut, cph] ,
Pedro Abraham Montoya Calzada [aut, cph]
Maintainer: Rogelio Salinas Gutierrez <rsalinas@correo.uaa.mx>
Diff between GRIDCOPULA versions 1.1.0 dated 2025-09-13 and 1.1.1 dated 2026-05-06
DESCRIPTION | 8 +++--- MD5 | 18 ++++++++------ NAMESPACE | 2 - R/alpha_logis.R |only R/calculate_lsq.R | 55 ++++++++++++++------------------------------- R/calculate_lsq2.R |only R/estimate_gridCopula.R | 23 ++++++++++++++++++ R/measures_grid.R | 2 - R/mi_grid.R | 4 +-- R/schweizer_grid.R | 9 +++++++ man/estimate.gridCopula.Rd | 2 - 11 files changed, 68 insertions(+), 55 deletions(-)
Title: Extension of `data.frame`
Description: Fast aggregation of large data (e.g. 100GB in RAM), fast ordered joins, fast add/modify/delete of columns by group using no copies at all, list columns, friendly and fast character-separated-value read/write. Offers a natural and flexible syntax, for faster development.
Author: Tyson Barrett [aut, cre] ,
Matt Dowle [aut],
Arun Srinivasan [aut],
Jan Gorecki [aut],
Michael Chirico [aut] ,
Toby Hocking [aut] ,
Benjamin Schwendinger [aut] ,
Ivan Krylov [aut] ,
Pasha Stetsenko [ctb],
Tom Short [ctb],
Steve Lianoglou [ctb],
Eduar [...truncated...]
Maintainer: Tyson Barrett <t.barrett88@gmail.com>
Diff between data.table versions 1.18.2.1 dated 2026-01-27 and 1.18.4 dated 2026-05-06
DESCRIPTION | 12 +-- MD5 | 48 ++++++------ NEWS.md | 12 +++ R/data.table.R | 9 +- R/frollapply.R | 4 - build/vignette.rds |binary inst/cc | 4 - inst/doc/datatable-benchmarking.html | 10 +- inst/doc/datatable-faq.html | 16 ++-- inst/doc/datatable-fread-and-fwrite.html | 10 +- inst/doc/datatable-importing.html | 10 +- inst/doc/datatable-intro.html | 10 +- inst/doc/datatable-joins.html | 10 +- inst/doc/datatable-keys-fast-subset.html | 16 ++-- inst/doc/datatable-programming.html | 16 ++-- inst/doc/datatable-reference-semantics.html | 12 +-- inst/doc/datatable-reshape.html | 18 ++-- inst/doc/datatable-sd-usage.html | 16 ++-- inst/doc/datatable-secondary-indices-and-auto-indexing.html | 24 +++--- inst/tests/froll.Rraw.bz2 |binary inst/tests/frollBatch.Rraw.bz2 |binary inst/tests/tests.Rraw.bz2 |binary src/assign.c | 4 - src/fread.c | 8 +- src/init.c | 2 25 files changed, 147 insertions(+), 124 deletions(-)
Title: Summarise and Visualise Characteristics of Patients in the OMOP
CDM
Description: Summarise and visualise the characteristics of patients in data
mapped to the Observational Medical Outcomes Partnership (OMOP) common data
model (CDM).
Author: Marti Catala [aut, cre] ,
Yuchen Guo [aut] ,
Mike Du [ctb] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Nuria Mercade-Besora [aut] ,
Marta Alcalde [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between CohortCharacteristics versions 1.1.2 dated 2026-03-21 and 1.1.3 dated 2026-05-06
DESCRIPTION | 24 MD5 | 45 - NEWS.md | 6 R/summariseLargeScaleCharacteristics.R | 131 ++- R/utilities.R | 65 + README.md | 54 - inst/CITATION |only inst/doc/summarise_characteristics.html | 602 +++++++-------- inst/doc/summarise_cohort_overlap.html | 220 ++--- inst/doc/summarise_cohort_timing.html | 222 ++--- inst/doc/summarise_large_scale_characteristics.html | 224 ++--- man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-16-1.png |binary man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-19-1.png |binary man/figures/README-unnamed-chunk-20-1.png |binary man/figures/README-unnamed-chunk-21-1.png |binary man/figures/README-unnamed-chunk-23-1.png |binary man/figures/README-unnamed-chunk-24-1.png |binary man/figures/README-unnamed-chunk-26-1.png |binary man/figures/README-unnamed-chunk-28-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary tests/testthat/test-summariseLargeScaleCharacteristics.R | 4 24 files changed, 860 insertions(+), 737 deletions(-)
More information about CohortCharacteristics at CRAN
Permanent link
Title: Tools for Bayesian Analyses
Description: Provides tools for conducting Bayesian analyses and Bayesian model averaging
(Kass and Raftery, 1995, <doi:10.1080/01621459.1995.10476572>,
Hoeting et al., 1999, <doi:10.1214/ss/1009212519>). The package contains
functions for creating a wide range of prior distribution objects, mixing posterior
samples from 'JAGS' and 'Stan' models, plotting posterior distributions, and etc...
The tools for working with prior distribution span from visualization, generating 'JAGS'
and 'bridgesampling' syntax to basic functions such as rng, quantile, and distribution functions.
Author: Frantisek Bartos [aut, cre]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between BayesTools versions 0.2.23 dated 2025-12-08 and 0.3.0 dated 2026-05-06
BayesTools-0.2.23/BayesTools/R/zzz.R |only BayesTools-0.3.0/BayesTools/DESCRIPTION | 19 BayesTools-0.3.0/BayesTools/MD5 | 154 BayesTools-0.3.0/BayesTools/NAMESPACE | 371 - BayesTools-0.3.0/BayesTools/NEWS.md | 37 BayesTools-0.3.0/BayesTools/R/BayesTools-package.R | 36 BayesTools-0.3.0/BayesTools/R/JAGS-diagnostics.R | 289 BayesTools-0.3.0/BayesTools/R/JAGS-fit.R | 3445 +++++----- BayesTools-0.3.0/BayesTools/R/JAGS-formula.R | 1811 ++++- BayesTools-0.3.0/BayesTools/R/JAGS-marglik.R | 603 + BayesTools-0.3.0/BayesTools/R/distributions-mpoint.R | 344 BayesTools-0.3.0/BayesTools/R/distributions-point.R | 254 BayesTools-0.3.0/BayesTools/R/distributions-tools.R | 52 BayesTools-0.3.0/BayesTools/R/distributions-weightfunctions.R | 1309 +-- BayesTools-0.3.0/BayesTools/R/interpret.R | 1215 +++ BayesTools-0.3.0/BayesTools/R/marginal-distributions.R | 844 +- BayesTools-0.3.0/BayesTools/R/model-averaging-plots.R | 2889 +++++++- BayesTools-0.3.0/BayesTools/R/model-averaging.R | 1060 ++- BayesTools-0.3.0/BayesTools/R/posterior-extraction.R |only BayesTools-0.3.0/BayesTools/R/priors-density.R | 305 BayesTools-0.3.0/BayesTools/R/priors-informed.R | 99 BayesTools-0.3.0/BayesTools/R/priors-linear-density.R |only BayesTools-0.3.0/BayesTools/R/priors-plot.R | 149 BayesTools-0.3.0/BayesTools/R/priors-print.R | 140 BayesTools-0.3.0/BayesTools/R/priors-tools.R | 177 BayesTools-0.3.0/BayesTools/R/priors.R | 1890 +++-- BayesTools-0.3.0/BayesTools/R/selection-kernels.R |only BayesTools-0.3.0/BayesTools/R/summary-tables.R | 1622 +++- BayesTools-0.3.0/BayesTools/R/tools.R | 598 - BayesTools-0.3.0/BayesTools/README.md | 6 BayesTools-0.3.0/BayesTools/build/partial.rdb |binary BayesTools-0.3.0/BayesTools/build/vignette.rds |binary BayesTools-0.3.0/BayesTools/inst/doc/ComparisonR.R | 5 BayesTools-0.3.0/BayesTools/inst/doc/ComparisonR.Rmd | 446 - BayesTools-0.3.0/BayesTools/inst/doc/ComparisonR.html | 37 BayesTools-0.3.0/BayesTools/inst/doc/SpikeAndSlab.R | 7 BayesTools-0.3.0/BayesTools/inst/doc/SpikeAndSlab.Rmd | 10 BayesTools-0.3.0/BayesTools/inst/doc/SpikeAndSlab.html | 36 BayesTools-0.3.0/BayesTools/man/BayesTools_ensemble_tables.Rd | 330 BayesTools-0.3.0/BayesTools/man/BayesTools_model_tables.Rd | 476 - BayesTools-0.3.0/BayesTools/man/JAGS_bridgesampling.Rd | 6 BayesTools-0.3.0/BayesTools/man/JAGS_check_and_list.Rd | 4 BayesTools-0.3.0/BayesTools/man/JAGS_check_convergence.Rd | 8 BayesTools-0.3.0/BayesTools/man/JAGS_evaluate_formula.Rd | 4 BayesTools-0.3.0/BayesTools/man/JAGS_fit.Rd | 14 BayesTools-0.3.0/BayesTools/man/JAGS_formula.Rd | 41 BayesTools-0.3.0/BayesTools/man/JAGS_formula_design.Rd |only BayesTools-0.3.0/BayesTools/man/JAGS_marglik_parameters.Rd | 4 BayesTools-0.3.0/BayesTools/man/as_marginal_inference.Rd | 130 BayesTools-0.3.0/BayesTools/man/as_mixed_posteriors.Rd | 95 BayesTools-0.3.0/BayesTools/man/check_input.Rd | 240 BayesTools-0.3.0/BayesTools/man/density.prior.Rd | 173 BayesTools-0.3.0/BayesTools/man/formula_add_intercept.Rd |only BayesTools-0.3.0/BayesTools/man/geom_prior.Rd | 183 BayesTools-0.3.0/BayesTools/man/geom_prior_list.Rd | 188 BayesTools-0.3.0/BayesTools/man/inclusion_BF.Rd | 10 BayesTools-0.3.0/BayesTools/man/interpret.Rd | 17 BayesTools-0.3.0/BayesTools/man/interpret_records.Rd |only BayesTools-0.3.0/BayesTools/man/is_prior_bias.Rd |only BayesTools-0.3.0/BayesTools/man/is_prior_phacking.Rd |only BayesTools-0.3.0/BayesTools/man/lines.prior.Rd | 183 BayesTools-0.3.0/BayesTools/man/lines_prior_list.Rd | 188 BayesTools-0.3.0/BayesTools/man/marginal_inference.Rd | 128 BayesTools-0.3.0/BayesTools/man/marginal_posterior.Rd | 141 BayesTools-0.3.0/BayesTools/man/mpoint.Rd | 98 BayesTools-0.3.0/BayesTools/man/parameter_names.Rd | 7 BayesTools-0.3.0/BayesTools/man/phack_pi_null.Rd |only BayesTools-0.3.0/BayesTools/man/plot.prior.Rd | 241 BayesTools-0.3.0/BayesTools/man/plot_marginal.Rd | 163 BayesTools-0.3.0/BayesTools/man/plot_models.Rd | 199 BayesTools-0.3.0/BayesTools/man/plot_posterior.Rd | 223 BayesTools-0.3.0/BayesTools/man/plot_prior_list.Rd | 214 BayesTools-0.3.0/BayesTools/man/plot_transformed_prior.Rd |only BayesTools-0.3.0/BayesTools/man/point.Rd | 94 BayesTools-0.3.0/BayesTools/man/posterior_extraction_helpers.Rd |only BayesTools-0.3.0/BayesTools/man/prior_bias.Rd |only BayesTools-0.3.0/BayesTools/man/prior_informed.Rd | 149 BayesTools-0.3.0/BayesTools/man/prior_informed_medicine_names.Rd | 58 BayesTools-0.3.0/BayesTools/man/prior_phacking.Rd |only BayesTools-0.3.0/BayesTools/man/prior_weightfunction.Rd | 140 BayesTools-0.3.0/BayesTools/man/selection_backend_spec.Rd |only BayesTools-0.3.0/BayesTools/man/transform_prior_samples.Rd |only BayesTools-0.3.0/BayesTools/man/transform_scale_samples.Rd |only BayesTools-0.3.0/BayesTools/man/weightfunctions.Rd | 243 BayesTools-0.3.0/BayesTools/tools |only BayesTools-0.3.0/BayesTools/vignettes/ComparisonR.Rmd | 446 - BayesTools-0.3.0/BayesTools/vignettes/SpikeAndSlab.Rmd | 10 87 files changed, 16470 insertions(+), 8637 deletions(-)
Title: Deep Python Extensions for 'daltoolbox'
Description: Extends 'daltoolbox' with Python-backed components for deep learning,
scikit-learn classification, and time-series forecasting through
'reticulate'. The package provides objects that follow the 'daltoolbox'
architecture while delegating model creation, fitting, encoding, and
prediction to Python libraries such as 'torch' and 'scikit-learn'. In the
package name, 'dp' stands for 'Deep Python'. The overall workflow is
inspired by the Experiment Lines approach described in Ogasawara et al.
(2009) <doi:10.1007/978-3-642-02279-1_20>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Diego Salles [aut],
Janio Lima [aut],
Lucas Tavares [aut],
Eduardo Bezerra [ctb],
CEFET/RJ [cph]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolboxdp versions 1.2.747 dated 2026-03-10 and 1.2.767 dated 2026-05-05
DESCRIPTION | 10 MD5 | 99 +++--- NAMESPACE | 7 R/autoenc_adv_e.R | 48 ++- R/autoenc_adv_ed.R | 48 ++- R/autoenc_conv_e.R | 49 ++- R/autoenc_conv_ed.R | 49 ++- R/autoenc_denoise_e.R | 48 ++- R/autoenc_denoise_ed.R | 48 ++- R/autoenc_e.R | 39 ++ R/autoenc_ed.R | 39 ++ R/autoenc_lstm_e.R | 47 ++- R/autoenc_lstm_ed.R | 39 ++ R/autoenc_stacked_e.R | 48 ++- R/autoenc_stacked_ed.R | 50 ++- R/autoenc_variational_e.R | 48 ++- R/autoenc_variational_ed.R | 48 ++- R/globals.R | 2 R/torch_cla_mlp.R |only R/torch_reg_mlp.R |only R/ts_conv1d.R | 119 +++++-- R/ts_lstm.R | 110 +++++-- README.md | 5 inst/python/autoenc.py | 369 ++++++++++------------- inst/python/autoenc_adv.py | 570 +++++++++++++++---------------------- inst/python/autoenc_common.py |only inst/python/autoenc_conv.py | 323 +++++++++----------- inst/python/autoenc_denoise.py | 350 +++++++++------------- inst/python/autoenc_lstm.py | 367 ++++++++++------------- inst/python/autoenc_stacked.py | 394 +++++++++++-------------- inst/python/autoenc_variational.py | 366 ++++++++++------------- inst/python/skcla_knn.py | 2 inst/python/torch_cla_mlp.py |only inst/python/torch_reg_mlp.py |only inst/python/ts_conv1d.py | 456 ++++++++++++++++++----------- inst/python/ts_lstm.py | 430 ++++++++++++++++++--------- man/autoenc_adv_e.Rd | 46 ++ man/autoenc_adv_ed.Rd | 46 ++ man/autoenc_conv_e.Rd | 48 ++- man/autoenc_conv_ed.Rd | 48 ++- man/autoenc_denoise_e.Rd | 46 ++ man/autoenc_denoise_ed.Rd | 46 ++ man/autoenc_e.Rd | 38 ++ man/autoenc_ed.Rd | 38 ++ man/autoenc_lstm_e.Rd | 46 ++ man/autoenc_lstm_ed.Rd | 38 ++ man/autoenc_stacked_e.Rd | 46 ++ man/autoenc_stacked_ed.Rd | 48 ++- man/autoenc_variational_e.Rd | 46 ++ man/autoenc_variational_ed.Rd | 46 ++ man/torch_cla_mlp.Rd |only man/torch_reg_mlp.Rd |only man/ts_conv1d.Rd | 61 ++- man/ts_lstm.Rd | 61 ++- 54 files changed, 3171 insertions(+), 2204 deletions(-)
Title: Price Index Aggregation
Description: Most price indexes are made with a two-step procedure, where
period-over-period elementary indexes are first calculated for a collection
of elementary aggregates at each point in time, and then aggregated according
to a price index aggregation structure. These indexes can then be chained
together to form a time series that gives the evolution of prices with
respect to a fixed base period. This package contains a collection of
functions that revolve around this work flow, making it easy to build
standard price indexes, and implement the methods described by
Balk (2008, <doi:10.1017/CBO9780511720758>), von der Lippe (2007,
<doi:10.3726/978-3-653-01120-3>), and the CPI manual (2020,
<doi:10.5089/9781484354841.069>) for bilateral price indexes.
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <marberts@protonmail.com>
Diff between piar versions 0.8.3 dated 2025-09-17 and 0.9.0 dated 2026-05-05
DESCRIPTION | 8 MD5 | 158 ++++++------- NAMESPACE | 15 - NEWS.md | 54 ++++ R/aggregate.piar_index.R | 70 ++--- R/aggregation_structure-class.R | 7 R/as_index.R | 46 +-- R/chain.R | 72 +++-- R/coerce-index.R | 13 - R/combine_classifications.R |only R/contrib.R | 130 +++++----- R/elementary_index.R | 66 ++--- R/expand_classification.R | 7 R/extract.piar_index.R | 187 ++++++++------- R/head.piar_index.R | 39 --- R/helpers.R | 65 +++-- R/impute_prices.R | 314 ++++++++++++++++---------- R/index-class.R | 76 +++--- R/is.na.piar_index.R | 2 R/levels.piar_index.R | 2 R/mean.piar_index.R | 57 ++-- R/merge.piar_index.R | 24 + R/price_relative.R | 9 R/split.piar_index.R | 22 - R/split_classification.R | 7 R/stack.piar_index.R | 31 +- R/time.piar_index.R | 4 R/update.aggregation_structure.R | 12 R/window.piar_index.R | 13 - README.md | 16 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 2 inst/doc/imputation.R | 7 inst/doc/imputation.Rmd | 7 inst/doc/imputation.html | 23 + inst/doc/multiple-baskets.R | 4 inst/doc/multiple-baskets.Rmd | 4 inst/doc/multiple-baskets.html | 4 inst/doc/multiple-data-sources.R | 2 inst/doc/multiple-data-sources.Rmd | 2 inst/doc/multiple-data-sources.html | 2 inst/doc/piar.html | 28 +- inst/doc/subperiods.R | 4 inst/doc/subperiods.Rmd | 4 inst/doc/subperiods.html | 4 man/aggregate.piar_index.Rd | 17 - man/chain.Rd | 15 - man/combine_classifications.Rd |only man/contrib.Rd | 22 - man/elementary_index.Rd | 15 - man/expand_classification.Rd | 5 man/figures/logo-highres.png |only man/figures/logo.png |binary man/impute_prices.Rd | 133 ++++++----- man/mean.piar_index.Rd | 17 - man/piar_index.Rd | 11 man/price_relative.Rd | 9 man/split.piar_index.Rd | 10 man/split_classification.Rd | 7 man/sub-.piar_index.Rd | 14 - man/update.piar_aggregation_structure.Rd | 6 man/window.piar_index.Rd | 2 tests/Examples/piar-Ex.Rout.save | 98 ++++++-- tests/test-making-price-indexes.R | 52 ++-- tests/test-making-price-indexes.Rout.save | 56 ++-- tests/testthat/test-aggregate.R | 25 -- tests/testthat/test-as_index.R | 3 tests/testthat/test-chain.R | 25 +- tests/testthat/test-combine_classifications.R |only tests/testthat/test-elemental_index.R | 12 tests/testthat/test-extract-index.R | 37 ++- tests/testthat/test-impute-prices.R | 95 ++++++- tests/testthat/test-known-values.R | 8 tests/testthat/test-mean.R | 2 tests/testthat/test-merge.R | 1 tests/testthat/test-split.R | 8 tests/testthat/test-stack.R | 8 vignettes/imputation.Rmd | 7 vignettes/multiple-baskets.Rmd | 4 vignettes/multiple-data-sources.Rmd | 2 vignettes/subperiods.Rmd | 4 82 files changed, 1412 insertions(+), 941 deletions(-)
Title: An API Client for the Environmental Data Initiative Repository
Description: A client for the Environmental Data Initiative repository REST API. The 'EDI' data repository <https://portal.edirepository.org/nis/home.jsp> is for publication and reuse of ecological data with emphasis on metadata accuracy and completeness. It is built upon the 'PASTA+' software stack <https://pastaplus-core.readthedocs.io/en/latest/index.html#> and was developed in collaboration with the US 'LTER' Network <https://lternet.edu/>. 'EDIutils' includes functions to search and access existing data, evaluate and upload new data, and assist other data management tasks common to repository users.
Author: Colin Smith [aut, cre] ,
Corinna Gries [ctb] ,
Jasmine Lai [rev] ,
Rodrigo Pires [rev]
Maintainer: Colin Smith <colin.smith@wisc.edu>
Diff between EDIutils versions 2.0.0 dated 2026-01-09 and 2.1.0 dated 2026-05-05
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 10 +++++++++- R/login.R | 9 ++++----- R/logout.R | 6 +++--- R/utilities.R | 6 +++--- build/vignette.rds |binary tests/testthat/setup-EDIutils.R | 1 - tests/testthat/test_utilities.R | 3 --- 9 files changed, 31 insertions(+), 28 deletions(-)
Title: Taxonomic Distance and Phylogenetic Lineage Computation
Description: Computes phylogenetic distances between any two taxa using
hierarchical lineage data retrieved from The Taxonomicon
<http://taxonomicon.taxonomy.nl>, a comprehensive curated classification
of all life based on Systema Naturae 2000 (Brands, 1989
<http://taxonomicon.taxonomy.nl>). Given any two taxon names, retrieves their
full lineages, identifies the most recent common ancestor (MRCA),
and computes a dissimilarity index based on lineage depth. Outputs
native dist objects, enabling direct integration with the R statistical
ecosystem for hierarchical clustering, principal coordinate analysis (PCoA),
and multivariate ecological analyses. Supports individual distance queries,
pairwise distance matrices, clade filtering, and lineage utilities.
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between taxodist versions 0.2.0 dated 2026-04-21 and 0.3.0 dated 2026-05-05
DESCRIPTION | 6 MD5 | 24 +-- NAMESPACE | 1 NEWS.md | 33 ++++ R/distance.R | 24 ++- R/fetch.R | 235 +++++++++++++++++++++++++-------- R/utils.R | 15 +- man/plot.taxodist_cluster.Rd | 2 man/plot.taxodist_ord.Rd | 2 man/taxo_cluster.Rd | 4 man/taxo_ordinate.Rd | 8 - man/taxo_search.Rd |only tests/testthat/Rplots.pdf |only tests/testthat/test-distance.R | 291 ++++++++++++++++++++++++++++++++++++++--- 14 files changed, 542 insertions(+), 103 deletions(-)
Title: Test, Document, Containerise, and Deploy R Packages
Description: Reproducibility is essential to the progress of research,
yet achieving it remains elusive even in computational fields.
Continuous Integration (CI) platforms offer a powerful way to launch automated workflows
to check and document code, but often require considerable time, effort,
and technical expertise to setup. We therefore developed the rworkflows suite
to make robust CI workflows easy and freely accessible to all R package developers.
rworkflows consists of 1) a CRAN/Bioconductor-compatible R package template,
2) an R package to quickly implement a standardised workflow, and
3) a centrally maintained GitHub Action.
Author: Brian Schilder [aut] ,
Alan Murphy [aut, ctb] ,
Hiranyamaya Dash [ctb, cre] ,
Nathan Skene [aut]
Maintainer: Hiranyamaya (Hiru) Dash <hdash.work@gmail.com>
Diff between rworkflows versions 1.0.11 dated 2026-03-26 and 1.0.12 dated 2026-05-05
rworkflows-1.0.11/rworkflows/inst/rworkflows_1.0.8.pdf |only rworkflows-1.0.12/rworkflows/DESCRIPTION | 8 rworkflows-1.0.12/rworkflows/MD5 | 123 ++++------ rworkflows-1.0.12/rworkflows/NEWS.md | 80 ++++++ rworkflows-1.0.12/rworkflows/R/bioc_r_versions.R | 8 rworkflows-1.0.12/rworkflows/R/construct_runners.R | 8 rworkflows-1.0.12/rworkflows/R/fill_description.R | 40 +-- rworkflows-1.0.12/rworkflows/R/fill_yaml.R | 8 rworkflows-1.0.12/rworkflows/R/get_description.R | 8 rworkflows-1.0.12/rworkflows/R/get_hex.R | 8 rworkflows-1.0.12/rworkflows/R/infer_deps.R | 18 - rworkflows-1.0.12/rworkflows/R/use_badges.R | 6 rworkflows-1.0.12/rworkflows/R/use_vignette_docker.R | 9 rworkflows-1.0.12/rworkflows/R/use_vignette_getstarted.R | 8 rworkflows-1.0.12/rworkflows/R/use_workflow.R | 23 + rworkflows-1.0.12/rworkflows/README.md | 30 +- rworkflows-1.0.12/rworkflows/inst/doc/bioconductor.R | 28 +- rworkflows-1.0.12/rworkflows/inst/doc/bioconductor.Rmd | 30 +- rworkflows-1.0.12/rworkflows/inst/doc/bioconductor.html | 64 ++--- rworkflows-1.0.12/rworkflows/inst/doc/depgraph.Rmd | 2 rworkflows-1.0.12/rworkflows/inst/doc/depgraph.html | 39 +-- rworkflows-1.0.12/rworkflows/inst/doc/docker.R | 2 rworkflows-1.0.12/rworkflows/inst/doc/docker.Rmd | 4 rworkflows-1.0.12/rworkflows/inst/doc/docker.html | 39 +-- rworkflows-1.0.12/rworkflows/inst/doc/repos.Rmd | 2 rworkflows-1.0.12/rworkflows/inst/doc/repos.html | 39 +-- rworkflows-1.0.12/rworkflows/inst/doc/rworkflows.R | 39 +-- rworkflows-1.0.12/rworkflows/inst/doc/rworkflows.Rmd | 43 ++- rworkflows-1.0.12/rworkflows/inst/doc/rworkflows.html | 90 +++---- rworkflows-1.0.12/rworkflows/inst/templates/docker.Rmd | 4 rworkflows-1.0.12/rworkflows/inst/templates/rworkflows_template.yml | 2 rworkflows-1.0.12/rworkflows/inst/templates/templateR.Rmd | 4 rworkflows-1.0.12/rworkflows/man/bioc_r_versions.Rd | 6 rworkflows-1.0.12/rworkflows/man/construct_runners.Rd | 6 rworkflows-1.0.12/rworkflows/man/fill_description.Rd | 38 +-- rworkflows-1.0.12/rworkflows/man/get_description.Rd | 6 rworkflows-1.0.12/rworkflows/man/get_hex.Rd | 8 rworkflows-1.0.12/rworkflows/man/infer_deps.Rd | 14 - rworkflows-1.0.12/rworkflows/man/use_badges.Rd | 6 rworkflows-1.0.12/rworkflows/man/use_workflow.Rd | 15 + rworkflows-1.0.12/rworkflows/tests/testthat/test-bioc_r_versions.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-check_bioc_version.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-check_cont.R | 6 rworkflows-1.0.12/rworkflows/tests/testthat/test-check_r_version.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-construct_conda_yml.R | 5 rworkflows-1.0.12/rworkflows/tests/testthat/test-construct_cont.R | 23 - rworkflows-1.0.12/rworkflows/tests/testthat/test-construct_runners.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-fill_description.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-get_authors.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-get_description.R | 71 ++--- rworkflows-1.0.12/rworkflows/tests/testthat/test-get_hex.R | 19 - rworkflows-1.0.12/rworkflows/tests/testthat/test-get_yaml.R | 2 rworkflows-1.0.12/rworkflows/tests/testthat/test-gha_python_versions.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-infer_biocviews.R | 37 +-- rworkflows-1.0.12/rworkflows/tests/testthat/test-infer_deps.R | 4 rworkflows-1.0.12/rworkflows/tests/testthat/test-url_exists.R | 3 rworkflows-1.0.12/rworkflows/tests/testthat/test-use_badges.R | 2 rworkflows-1.0.12/rworkflows/tests/testthat/test-use_workflow.R | 2 rworkflows-1.0.12/rworkflows/vignettes/bioconductor.Rmd | 30 +- rworkflows-1.0.12/rworkflows/vignettes/depgraph.Rmd | 2 rworkflows-1.0.12/rworkflows/vignettes/docker.Rmd | 4 rworkflows-1.0.12/rworkflows/vignettes/repos.Rmd | 2 rworkflows-1.0.12/rworkflows/vignettes/rworkflows.Rmd | 43 ++- 63 files changed, 698 insertions(+), 493 deletions(-)
Title: R Client for the BIODATACR Biodiversity Data Platform of Costa
Rica
Description: Provides functions to query occurrence records, species
information, and datasets from BIODATACR
<https://biodiversidad.go.cr>, the national biodiversity information
platform of Costa Rica managed by the Technical Office of CONAGEBIO, Costa Rica.
Built on the Atlas of Living Australia (ALA) API infrastructure.
Author: Manuel Spinola [aut, cre]
Maintainer: Manuel Spinola <mspinola10@gmail.com>
Diff between rbiodatacr versions 0.1.0 dated 2026-04-29 and 0.1.1 dated 2026-05-05
DESCRIPTION | 6 - MD5 | 34 ++++---- NEWS.md | 7 + R/bdcr_count.R | 7 + R/bdcr_occurrences.R | 18 +++- R/bdcr_occurrences_batch.R | 11 ++ R/bdcr_species_search.R | 12 ++- R/utils.R | 57 ++++++++------ build/vignette.rds |binary inst/doc/introduccion.R | 163 +++++++++++++++++++++--------------------- inst/doc/introduccion.Rmd | 5 - inst/doc/introduccion.html | 60 ++------------- man/bdcr_count.Rd | 3 man/bdcr_occurrences.Rd | 3 man/bdcr_occurrences_batch.Rd | 3 man/bdcr_species_search.Rd | 3 tests/testthat/test-utils.R | 9 ++ vignettes/introduccion.Rmd | 5 - 18 files changed, 208 insertions(+), 198 deletions(-)
More information about vegetablesSriLanka at CRAN
Permanent link
Title: Power Analyses using Monte Carlo Simulations
Description: Provides a general purpose simulation-based power analysis
API for routine and customized simulation experimental designs.
The package focuses exclusively on Monte Carlo simulation experiment variants of
(expected) prospective power analyses,
criterion analyses, compromise analyses, sensitivity analyses, and
a priori/post-hoc analyses. The default simulation experiment functions defined within the package
provide stochastic variants of the power analysis subroutines in
G*Power 3.1 (Faul, Erdfelder, Buchner, and Lang, 2009) <doi:10.3758/brm.41.4.1149>,
along with various other parametric and non-parametric power analysis
applications (e.g., mediation analyses) and support for Bayesian power analysis
by way of Bayes factors or posterior probability evaluations.
Additional functions for building
empirical power curves, reanalyzing simulation information, and
for increasing the precision of the resulting power
estimates are also included, each of which utilize similar API structures. [...truncated...]
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between Spower versions 0.6 dated 2026-02-13 and 0.6.2 dated 2026-05-05
Spower-0.6.2/Spower/DESCRIPTION | 10 Spower-0.6.2/Spower/MD5 | 47 Spower-0.6.2/Spower/NAMESPACE | 3 Spower-0.6.2/Spower/R/Spower.R | 72 - Spower-0.6.2/Spower/R/SpowerBatch.R | 17 Spower-0.6.2/Spower/R/SpowerCurve.R | 14 Spower-0.6.2/Spower/R/p_mediation.R | 36 Spower-0.6.2/Spower/R/p_r.R | 7 Spower-0.6.2/Spower/README.md | 13 Spower-0.6.2/Spower/build/vignette.rds |binary Spower-0.6.2/Spower/inst/doc/SpowerIntro.html | 326 ++--- Spower-0.6.2/Spower/inst/doc/SpowerIntro_logicals.html | 358 +++--- Spower-0.6.2/Spower/inst/doc/Spower_TypeSM.html | 186 +-- Spower-0.6.2/Spower/inst/doc/gpower_examples.R |only Spower-0.6.2/Spower/inst/doc/gpower_examples.Rmd | 917 +++------------ Spower-0.6.2/Spower/inst/doc/gpower_examples.html | 1002 ++++++++--------- Spower-0.6.2/Spower/inst/gpower.rds |only Spower-0.6.2/Spower/inst/intro.rds |binary Spower-0.6.2/Spower/inst/intro2.rds |binary Spower-0.6.2/Spower/inst/intro3.rds |binary Spower-0.6.2/Spower/man/Spower.Rd | 8 Spower-0.6.2/Spower/man/p_mediation.Rd | 21 Spower-0.6.2/Spower/man/p_r.Rd | 5 Spower-0.6.2/Spower/vignettes/gpower_examples.Rmd | 917 +++------------ Spower-0.6.2/Spower/vignettes/precompile.R | 4 Spower-0.6/Spower/vignettes/precompileGpower.R |only 26 files changed, 1585 insertions(+), 2378 deletions(-)
Title: Shiny Apps for Lateral Flow Assays
Description: Shiny apps for the quantitative analysis of images from lateral flow assays (LFAs). The images are segmented and background corrected and color intensities are extracted. The apps can be used to import and export intensity data and to calibrate LFAs by means of linear, loess, or gam models. The calibration models can further be saved and applied to intensity data from new images for determining concentrations.
Author: Filip Paskali [aut, cre] ,
Weronika Schary [aut] ,
Matthias Kohl [aut]
Maintainer: Filip Paskali <Filip.Paskali@gmail.com>
Diff between LFApp versions 1.4.1 dated 2024-05-27 and 1.4.2 dated 2026-05-05
DESCRIPTION | 17 MD5 | 74 NAMESPACE | 50 NEWS | 96 - R/analysis_mobile_server.R | 2198 ++++++++++++------------ R/analysis_mobile_ui.R | 834 ++++----- R/analysis_server.R | 2425 ++++++++++++++------------- R/analysis_ui.R | 699 +++---- R/cal_mobile_server.R | 2078 +++++++++++------------ R/cal_mobile_ui.R | 760 ++++---- R/cal_server.R | 2299 +++++++++++++------------ R/cal_ui.R | 633 +++---- R/core_mobile_server.R | 1269 +++++++------- R/core_mobile_ui.R | 366 ++-- R/core_server.R | 1455 ++++++++-------- R/core_ui.R | 336 +-- R/quan_mobile_server.R | 1408 +++++++-------- R/quan_mobile_ui.R | 444 ++-- R/quan_server.R | 1571 ++++++++--------- R/quan_ui.R | 414 ++-- R/run_functions.R | 54 R/thresholding_li.R | 98 - R/triangle.R | 94 - build/vignette.rds |binary inst/CITATION | 26 inst/doc/LFApp.R | 102 - inst/doc/LFApp.Rmd | 772 +++----- inst/doc/LFApp.html | 1993 +++++++++++----------- inst/markdown/CalibrationAnalysis(gam).Rmd | 229 +- inst/markdown/CalibrationAnalysis(lm).Rmd | 223 +- inst/markdown/CalibrationAnalysis(loess).Rmd | 232 +- man/0LFApp-package.Rd | 64 man/run_functions.Rd | 82 man/threshold_li.Rd | 80 man/triangle.Rd | 72 vignettes/LFApp.Rmd | 772 +++----- vignettes/Opt2Calibration.png |binary vignettes/lit.bib | 356 +-- 38 files changed, 12509 insertions(+), 12166 deletions(-)
Title: Statistical Metrics and Reporting Tool
Description: A 'Shiny'-based toolkit for item/test analysis. It is
designed for multiple-choice, true-false, and open-ended questions.
The toolkit is usable with datasets in 1-0 or other formats. Key
analyses include difficulty, discrimination, response-option analysis,
and reports. The classical test theory methods used are described in
Ebel and Frisbie (1991, ISBN:978-0132892314).
Author: Ahmet Caliskan [aut, cre],
Abdullah Faruk Kilic [aut]
Maintainer: Ahmet Caliskan <ahmetcaliskan1987@gmail.com>
Diff between examly versions 0.2.0 dated 2025-12-15 and 0.3 dated 2026-05-05
examly-0.2.0/examly/man/color_badge.Rd |only examly-0.2.0/examly/man/comment_overall_keys.Rd |only examly-0.2.0/examly/man/d_mode.Rd |only examly-0.2.0/examly/man/detect_id_cols.Rd |only examly-0.2.0/examly/man/difficulty_label_key.Rd |only examly-0.2.0/examly/man/discrimination_decision_key.Rd |only examly-0.2.0/examly/man/get_itemexam_quant.Rd |only examly-0.2.0/examly/man/grapes-or-or-grapes.Rd |only examly-0.2.0/examly/man/i18n_load.Rd |only examly-0.2.0/examly/man/i18n_t.Rd |only examly-0.2.0/examly/man/is_scored_01.Rd |only examly-0.2.0/examly/man/kr20.Rd |only examly-0.2.0/examly/man/norm_cols.Rd |only examly-0.2.0/examly/man/norm_letter.Rd |only examly-0.2.0/examly/man/parse_lc_bin.Rd |only examly-0.2.0/examly/man/parse_lc_raw.Rd |only examly-0.2.0/examly/man/parse_mc_bin.Rd |only examly-0.2.0/examly/man/parse_tf_bin.Rd |only examly-0.2.0/examly/man/pbiserial_rest.Rd |only examly-0.2.0/examly/man/pipe.Rd |only examly-0.2.0/examly/man/q_index.Rd |only examly-0.2.0/examly/man/student_counts.Rd |only examly-0.3/examly/DESCRIPTION | 24 examly-0.3/examly/MD5 | 47 examly-0.3/examly/NAMESPACE | 22 examly-0.3/examly/NEWS.md | 10 examly-0.3/examly/R/i18n.R | 146 examly-0.3/examly/R/utils-pipe.R | 28 examly-0.3/examly/R/utils.R | 753 +-- examly-0.3/examly/build/vignette.rds |binary examly-0.3/examly/inst/WORDLIST |only examly-0.3/examly/inst/doc/examly.R | 8 examly-0.3/examly/inst/doc/examly.html | 736 +-- examly-0.3/examly/inst/shinyapp/app.R | 4118 +++++++++-------- examly-0.3/examly/inst/shinyapp/i18n/en.json | 22 examly-0.3/examly/inst/shinyapp/i18n/tr.json | 22 36 files changed, 3220 insertions(+), 2716 deletions(-)
Title: Spectral Clustering-Based Method for Identifying B Cell Clones
Description: Provides a computational framework for identification of B cell clones from
Adaptive Immune Receptor Repertoire sequencing (AIRR-Seq) data. Three main
functions are included (identicalClones, hierarchicalClones, and spectralClones)
that perform clustering among sequences of BCRs/IGs (B cell receptors/immunoglobulins)
which share the same V gene, J gene and junction length.
Nouri N and Kleinstein SH (2018) <doi: 10.1093/bioinformatics/bty235>.
Nouri N and Kleinstein SH (2019) <doi: 10.1101/788620>.
Gupta NT, et al. (2017) <doi: 10.4049/jimmunol.1601850>.
Author: Nima Nouri [aut],
Edel Aron [ctb],
Robert Bjornson [ctb],
Gisela Gabernet [ctb],
Cole Jensen [ctb],
Huimin Lyu [ctb],
Susanna Marquez [ctb, cre],
Jason Vander Heiden [aut],
Steven Kleinstein [aut, cph]
Maintainer: Susanna Marquez <susanna.marquez@yale.edu>
Diff between scoper versions 1.4.0 dated 2026-01-08 and 1.5.0 dated 2026-05-05
DESCRIPTION | 13 ++- MD5 | 25 +++--- NEWS.md | 22 +++++ R/Functions.R | 164 +++++++++++++++++++++++++++++++++++-------- R/RcppExports.R | 8 ++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/Scoper-Vignette.pdf |binary man/hierarchicalClones.Rd | 84 ++++++++++++++++++++-- man/identicalClones.Rd | 9 +- man/scoper-package.Rd | 1 man/spectralClones.Rd | 8 +- src/RcppExports.cpp | 24 ++++++ src/fastDist.cpp |only 14 files changed, 301 insertions(+), 57 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-05-05 0.1.2
2024-08-26 0.1.0
Title: Join Gridded Weather Data to Event Tables
Description: High-level tools to attach gridded weather data from the NASA POWER Project
to event-based datasets. The package plans efficient spatio-temporal API calls via the 'nasapower'
R package, caches downloaded segments locally, and joins weather variables back to the input
table using exact or rolling joins. This package is not affiliated with or endorsed by NASA.
Author: Przemek Dolowy [aut, cre]
Maintainer: Przemek Dolowy <phdolowy@gmail.com>
Diff between weatherjoin versions 0.2.2 dated 2026-02-04 and 0.2.3 dated 2026-05-05
DESCRIPTION | 10 MD5 | 12 NEWS.md | 4 inst/doc/weatherjoin_vignette.Rmd | 636 ++++++++++++++++++------------------- inst/doc/weatherjoin_vignette.html | 8 man/weatherjoin-package.Rd | 2 vignettes/weatherjoin_vignette.Rmd | 636 ++++++++++++++++++------------------- 7 files changed, 657 insertions(+), 651 deletions(-)
Title: Interactive Analysis of UCSC Xena Data
Description: Provides functions and a Shiny application for downloading,
analyzing and visualizing datasets from UCSC Xena
(<http://xena.ucsc.edu/>), which is a collection of UCSC-hosted public
databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Author: Shixiang Wang [aut, cre] ,
Shensuo Li [aut],
Yi Xiong [aut] ,
Longfei Zhao [aut] ,
Kai Gu [aut] ,
Yin Li [aut],
Fei Zhao [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaShiny versions 2.2.0 dated 2025-08-01 and 2.2.1 dated 2026-05-05
DESCRIPTION | 8 ++-- MD5 | 24 ++++++------ NAMESPACE | 1 NEWS.md | 4 +- R/get_nonomics_value.R |only README.md | 18 ++++++--- build/vignette.rds |binary inst/doc/api.html | 28 +++++++-------- inst/shinyapp/modules/02_quick/modules-3-ccle-03-DrugT.R | 2 - inst/shinyapp/modules/02_quick/modules-3-ccle-04-DrugR.R | 2 - inst/shinyapp/server/global.R | 17 --------- inst/shinyapp/ui/global.R | 1 inst/shinyapp/utils_pkgs.R | 14 ++++++- man/get_nonomics_value.Rd |only 14 files changed, 63 insertions(+), 56 deletions(-)
Title: Wicked Fast, Accurate Quantiles Using t-Digests
Description: The t-Digest construction algorithm, by
Dunning, (2019) <doi:10.48550/arXiv.1902.04023>, uses a variant of 1-dimensional
k-means clustering to produce a very compact data structure that allows
accurate estimation of quantiles. This t-Digest data structure can be used
to estimate quantiles, compute other rank statistics or even to estimate
related measures like trimmed means. The advantage of the t-Digest over
previous digests for this purpose is that the t-Digest handles data with
full floating point resolution. The accuracy of quantile estimates produced
by t-Digests can be orders of magnitude more accurate than those produced
by previous digest algorithms. Methods are provided to create and update
t-Digests and retrieve quantiles from the accumulated distributions.
Author: Bob Rudis [aut, cre] ,
Ted Dunning [aut] ,
Andrew Werner [aut]
Maintainer: Bob Rudis <bob@rud.is>
This is a re-admission after prior archival of version 0.4.2 dated 2024-06-19
Diff between tdigest versions 0.4.2 dated 2024-06-19 and 0.4.3 dated 2026-05-05
DESCRIPTION | 34 +++++++++++++++++----------------- MD5 | 6 +++--- R/create.R | 2 +- src/tdigest-main.c | 32 ++++++++++++++++---------------- 4 files changed, 37 insertions(+), 37 deletions(-)
Title: LLM-Powered Code Generation, Error Fixing, and Chat for
'RStudio'
Description: An 'RStudio' addin that integrates large language model (LLM)
assistance directly into the code-editing workflow. Features include:
(1) generate R code from inline comments; (2) obtain LLM-assisted fixes for
console errors; (3) insert plain-English explanations of selected code
blocks; (4) a multi-turn Chat Panel with session-context awareness
(loaded packages, global objects, source editor contents, console history).
Supports 'OpenAI', 'Anthropic' (Claude), 'DeepSeek', 'Groq',
'Together AI', 'OpenRouter', 'Ollama' (fully local, no API key required),
and any 'OpenAI'-compatible custom endpoint (e.g. 'LM Studio', 'vLLM',
'llama.cpp').
Author: Shiyang Zheng [aut, cre]
Maintainer: Shiyang Zheng <shiyang.zheng@nottingham.ac.uk>
Diff between llmcoder versions 1.0.0 dated 2026-04-29 and 1.2.0 dated 2026-05-05
DESCRIPTION | 37 ++--- MD5 | 25 ++- NAMESPACE | 10 + R/api.R | 254 +++++++++++++++++++++++++++++++++++++- R/chat.R |only R/session-context.R |only inst/CITATION | 4 inst/rstudio/addins.dcf | 5 inst/www |only man/addin_chat_panel.Rd |only man/call_anthropic_history.Rd |only man/call_llm_history.Rd |only man/call_ollama_history.Rd |only man/call_openai_compat_history.Rd |only man/chat_js_handlers.Rd |only man/dot-get_console_history.Rd |only man/dot-js_esc.Rd |only man/escape_html.Rd |only man/safe_call_llm_history.Rd |only man/session_context_prompt.Rd |only man/session_context_report.Rd |only 21 files changed, 310 insertions(+), 25 deletions(-)
Title: Fitting Hidden Markov Models to Financial Data
Description: Fitting (hierarchical) hidden Markov models to financial data
via maximum likelihood estimation. See Oelschläger, L. and Adam, T.
"Detecting Bearish and Bullish Markets in Financial Time Series Using
Hierarchical Hidden Markov Models" (2021, Statistical Modelling)
<doi:10.1177/1471082X211034048> for a reference on the method. A user guide
is provided by the accompanying software paper "fHMM: Hidden Markov Models
for Financial Time Series in R", Oelschläger, L., Adam, T., and Michels, R.
(2024, Journal of Statistical Software) <doi:10.18637/jss.v109.i09>.
Author: Lennart Oelschlaeger [aut, cre] ,
Timo Adam [aut] ,
Rouven Michels [aut]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between fHMM versions 1.4.2 dated 2025-03-23 and 1.4.3 dated 2026-05-05
DESCRIPTION | 22 MD5 | 270 NAMESPACE | 236 NEWS.md | 294 R/RcppExports.R | 22 R/compare_models.R | 154 R/compute_T_star.R | 174 R/compute_ci.R | 136 R/compute_residuals.R | 248 R/data_and_models.R | 612 R/decode_states.R | 402 R/download_data.R | 336 R/fHMM-package.R | 192 R/fHMM_colors.R | 175 R/fHMM_controls.R | 2000 +- R/fHMM_data.R | 442 R/fHMM_events.R | 133 R/fHMM_likelihood.R | 480 R/fHMM_model.R | 928 - R/fHMM_parameters.R | 2283 +-- R/fHMM_sdds.R | 361 R/fit_model.R | 517 R/get_initial_values.R | 694 R/helpers.R | 134 R/parameter_labels.R | 156 R/plot.R | 1656 +- R/read_data.R | 510 R/reorder_states.R | 290 R/simulate_hmm.R | 436 README.md | 635 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 40 inst/doc/fHMM.R | 14 inst/doc/fHMM.Rmd | 108 inst/doc/fHMM.html | 934 - inst/doc/v01_model_definition.R | 14 inst/doc/v01_model_definition.Rmd | 104 inst/doc/v01_model_definition.html | 866 - inst/doc/v02_controls.R | 86 inst/doc/v02_controls.Rmd | 176 inst/doc/v02_controls.html | 1003 - inst/doc/v03_data_management.R | 94 inst/doc/v03_data_management.Rmd | 190 inst/doc/v03_data_management.html | 929 - inst/doc/v04_model_estimation.R | 84 inst/doc/v04_model_estimation.Rmd | 254 inst/doc/v04_model_estimation.html | 1139 - inst/doc/v05_state_decoding_and_prediction.R | 52 inst/doc/v05_state_decoding_and_prediction.Rmd | 148 inst/doc/v05_state_decoding_and_prediction.html | 949 - inst/doc/v06_model_checking.R | 46 inst/doc/v06_model_checking.Rmd | 132 inst/doc/v06_model_checking.html | 920 - inst/doc/v07_model_selection.R | 32 inst/doc/v07_model_selection.Rmd | 108 inst/doc/v07_model_selection.html | 915 - inst/extdata/dax.csv |18024 ++++++++++++------------ man/check_date.Rd | 42 man/compare_models.Rd | 60 man/compute_T_star.Rd | 62 man/compute_ci.Rd | 57 man/compute_residuals.Rd | 50 man/dax.Rd | 70 man/dax_model_2n.Rd | 82 man/dax_model_3t.Rd | 92 man/dax_vw_model.Rd | 94 man/decode_states.Rd | 149 man/download_data.Rd | 139 man/fHMM-package.Rd | 91 man/fHMM_colors.Rd | 84 man/fHMM_data.Rd | 151 man/fHMM_events.Rd | 84 man/fHMM_model.Rd | 192 man/fHMM_parameters.Rd | 336 man/fHMM_sdds.Rd | 128 man/find_closest_year.Rd | 38 man/fit_model.Rd | 352 man/get_initial_values.Rd | 103 man/list_to_vector.Rd | 40 man/ll_hmm.Rd | 265 man/nLL_hhmm.Rd | 47 man/nLL_hmm.Rd | 47 man/parameter_labels.Rd | 42 man/parameter_transformations.Rd | 473 man/plot.fHMM_data.Rd | 75 man/plot.fHMM_model.Rd | 126 man/plot_ll.Rd | 48 man/plot_pr.Rd | 42 man/plot_sdds.Rd | 56 man/plot_ts.Rd | 93 man/prepare_data.Rd | 63 man/read_data.Rd | 61 man/reorder_states.Rd | 98 man/set_controls.Rd | 675 man/sim_model_2gamma.Rd | 78 man/simulate_hmm.Rd | 278 man/simulate_observations.Rd | 89 man/spx.Rd | 72 man/unemp.Rd | 54 man/unemp_spx_model_3_2.Rd | 86 man/vw.Rd | 70 src/ll.cpp | 11 tests/testthat.R | 8 tests/testthat/test-compare_models.R | 40 tests/testthat/test-compute_T_star.R | 99 tests/testthat/test-compute_ci.R | 26 tests/testthat/test-compute_residuals.R | 46 tests/testthat/test-data_and_models.R | 88 tests/testthat/test-decode_states.R | 60 tests/testthat/test-download_data.R | 170 tests/testthat/test-fHMM_colors.R | 70 tests/testthat/test-fHMM_controls.R | 1260 - tests/testthat/test-fHMM_data.R | 120 tests/testthat/test-fHMM_events.R | 56 tests/testthat/test-fHMM_likelihood.R | 66 tests/testthat/test-fHMM_model.R | 96 tests/testthat/test-fHMM_parameters.R | 513 tests/testthat/test-fHMM_sdds.R | 214 tests/testthat/test-fit_model.R | 178 tests/testthat/test-get_initial_values.R | 118 tests/testthat/test-helpers.R | 88 tests/testthat/test-parameter_labels.R | 68 tests/testthat/test-plot.R | 232 tests/testthat/test-read_data.R | 42 tests/testthat/test-reorder_states.R | 12 tests/testthat/test-simulate_hmm.R | 100 vignettes/fHMM.Rmd | 108 vignettes/ref.bib | 662 vignettes/v01_model_definition.Rmd | 104 vignettes/v02_controls.Rmd | 176 vignettes/v03_data_management.Rmd | 190 vignettes/v04_model_estimation.Rmd | 254 vignettes/v05_state_decoding_and_prediction.Rmd | 148 vignettes/v06_model_checking.Rmd | 132 vignettes/v07_model_selection.Rmd | 108 136 files changed, 27276 insertions(+), 26110 deletions(-)
Title: Causal Graph Interface
Description: Create, query, and modify causal graphs. 'caugi' (Causal Graph
Interface) is a causality-first, high performance graph package that
provides a simple interface to build, structure, and examine causal
relationships.
Author: Frederik Fabricius-Bjerre [aut, cre, cph],
Johan Larsson [aut] ,
Michael Sachs [aut] ,
Bjarke Hautop Kristensen [aut]
Maintainer: Frederik Fabricius-Bjerre <frederik@fabriciusbjerre.dk>
Diff between caugi versions 1.1.0 dated 2026-03-20 and 1.2.0 dated 2026-05-05
caugi-1.1.0/caugi/man/dot-getter_output.Rd |only caugi-1.1.0/caugi/man/minimal_d_separator.Rd |only caugi-1.1.0/caugi/vignettes/performance.html |only caugi-1.1.0/caugi/vignettes/plotting.html |only caugi-1.2.0/caugi/DESCRIPTION | 6 caugi-1.2.0/caugi/MD5 | 149 - caugi-1.2.0/caugi/NAMESPACE | 3 caugi-1.2.0/caugi/NEWS.md | 36 caugi-1.2.0/caugi/R/adjustment.R | 86 caugi-1.2.0/caugi/R/as_caugi.R | 22 caugi-1.2.0/caugi/R/caugi.R | 10 caugi-1.2.0/caugi/R/caugi_to.R | 5 caugi-1.2.0/caugi/R/extendr-wrappers.R | 40 caugi-1.2.0/caugi/R/layout.R | 56 caugi-1.2.0/caugi/R/operations.R | 179 - caugi-1.2.0/caugi/R/queries.R | 512 ---- caugi-1.2.0/caugi/R/registry.R | 42 caugi-1.2.0/caugi/README.md | 4 caugi-1.2.0/caugi/build/partial.rdb |binary caugi-1.2.0/caugi/build/vignette.rds |binary caugi-1.2.0/caugi/inst/WORDLIST | 10 caugi-1.2.0/caugi/inst/doc/caugi.html | 11 caugi-1.2.0/caugi/inst/doc/package_use.html | 4 caugi-1.2.0/caugi/inst/doc/visualization.R | 101 caugi-1.2.0/caugi/inst/doc/visualization.Rmd | 291 +- caugi-1.2.0/caugi/inst/doc/visualization.html | 985 ++++----- caugi-1.2.0/caugi/man/add-caugi_plot-caugi_plot.Rd | 1 caugi-1.2.0/caugi/man/adjustment_set.Rd | 2 caugi-1.2.0/caugi/man/all_adjustment_sets_admg.Rd | 2 caugi-1.2.0/caugi/man/all_backdoor_sets.Rd | 2 caugi-1.2.0/caugi/man/as_caugi.Rd | 4 caugi-1.2.0/caugi/man/caugi.Rd | 10 caugi-1.2.0/caugi/man/caugi_layout.Rd | 14 caugi-1.2.0/caugi/man/caugi_layout_bipartite.Rd | 1 caugi-1.2.0/caugi/man/caugi_layout_circle.Rd |only caugi-1.2.0/caugi/man/caugi_layout_fruchterman_reingold.Rd | 1 caugi-1.2.0/caugi/man/caugi_layout_kamada_kawai.Rd | 1 caugi-1.2.0/caugi/man/caugi_layout_sugiyama.Rd | 1 caugi-1.2.0/caugi/man/caugi_layout_tiered.Rd | 1 caugi-1.2.0/caugi/man/caugi_plot.Rd | 1 caugi-1.2.0/caugi/man/d_separated.Rd | 2 caugi-1.2.0/caugi/man/districts.Rd | 2 caugi-1.2.0/caugi/man/divide-caugi_plot-caugi_plot.Rd | 1 caugi-1.2.0/caugi/man/figures/README-unnamed-chunk-5-1.png |binary caugi-1.2.0/caugi/man/is_acyclic.Rd | 3 caugi-1.2.0/caugi/man/is_valid_adjustment_admg.Rd | 2 caugi-1.2.0/caugi/man/is_valid_backdoor.Rd | 2 caugi-1.2.0/caugi/man/minimal_separator.Rd |only caugi-1.2.0/caugi/man/neighbors.Rd | 14 caugi-1.2.0/caugi/man/plot.Rd | 1 caugi-1.2.0/caugi/man/registry.Rd | 12 caugi-1.2.0/caugi/src/rust/Cargo.lock | 195 - caugi-1.2.0/caugi/src/rust/Cargo.toml | 3 caugi-1.2.0/caugi/src/rust/src/graph/admg/adjustment.rs | 40 caugi-1.2.0/caugi/src/rust/src/graph/admg/mod.rs | 46 caugi-1.2.0/caugi/src/rust/src/graph/admg/msep.rs | 278 ++ caugi-1.2.0/caugi/src/rust/src/graph/ag/msep.rs | 114 + caugi-1.2.0/caugi/src/rust/src/graph/alg.rs | 1 caugi-1.2.0/caugi/src/rust/src/graph/alg/min_msep.rs |only caugi-1.2.0/caugi/src/rust/src/graph/builder.rs | 110 - caugi-1.2.0/caugi/src/rust/src/graph/dag/transforms.rs | 404 +++ caugi-1.2.0/caugi/src/rust/src/graph/layout/circle.rs |only caugi-1.2.0/caugi/src/rust/src/graph/layout/force_directed.rs | 131 - caugi-1.2.0/caugi/src/rust/src/graph/layout/mod.rs | 14 caugi-1.2.0/caugi/src/rust/src/graph/session.rs | 188 + caugi-1.2.0/caugi/src/rust/src/graph/view.rs | 29 caugi-1.2.0/caugi/src/rust/src/lib.rs | 1062 ++++++++-- caugi-1.2.0/caugi/src/rust/vendor.tar.xz |binary caugi-1.2.0/caugi/tests/testthat/test-admg.R | 25 caugi-1.2.0/caugi/tests/testthat/test-as_caugi.R | 8 caugi-1.2.0/caugi/tests/testthat/test-builder-rust.R | 87 caugi-1.2.0/caugi/tests/testthat/test-caugi_graph.R | 22 caugi-1.2.0/caugi/tests/testthat/test-caugi_to.R | 16 caugi-1.2.0/caugi/tests/testthat/test-circle-layout.R |only caugi-1.2.0/caugi/tests/testthat/test-normalize-latent-structure.R | 106 caugi-1.2.0/caugi/tests/testthat/test-operations.R | 239 ++ caugi-1.2.0/caugi/tests/testthat/test-queries.R | 105 caugi-1.2.0/caugi/tests/testthat/test-registry.R | 46 caugi-1.2.0/caugi/tests/testthat/test-separation.R | 261 +- caugi-1.2.0/caugi/vignettes/visualization.Rmd | 291 +- 80 files changed, 4296 insertions(+), 2157 deletions(-)
Title: Fit Bounded Continuous Item Response Theory Models to Data
Description: Bounded continuous data are encountered in many areas of test application.
Examples include visual analogue scales used in the measurement of personality, mood,
depression, and quality of life; item response times from tests with item deadlines;
confidence ratings; and pain intensity ratings. Using this package, item response theory (IRT)
models suitable for bounded continuous item scores can be fitted to data within a Bayesian framework.
The package draws on posterior sampling facilities provided by R-package 'rstan' (Stan Development Team, 2025)<https://mc-stan.org/>.
Available models include the Beta IRT model by Noel and Dauvier (2007)<doi:10.1177/0146621605287691>, the continuous response
model by Samejima (1973)<doi:10.1007/BF03372160>, the unbounded normal model by Mellenbergh (1994)<doi:10.1207/s15327906mbr2903_2>,
and the Simplex IRT model by Flores et al. (2020)<doi:10.1007/978-3-030-43469-4_8>. All models can be
fitted with or without zero-one i [...truncated...]
Author: Dylan Molenaar [aut, cre]
Maintainer: Dylan Molenaar <d.molenaar@uva.nl>
Diff between BoundIRT versions 0.0.1 dated 2026-04-20 and 0.5.0 dated 2026-05-05
DESCRIPTION | 16 - MD5 | 79 ++--- NAMESPACE | 2 R/BoundIRT-package.R | 102 +++--- R/SB_mean.R |only R/bridgeBIRT.R | 2 R/bridgeBIRTinf.R | 166 +++++----- R/bridgeBIRTno.R | 97 +++--- R/cov_pairwise.R |only R/fitBIRT.R | 341 +++++++++++---------- R/iccBIRT.R | 7 R/latregBIRT.R | 176 +++++------ R/loglikBIRT.R |only R/plot.BoundIRT.R | 172 +++++----- R/print.bridgeBIRT.R | 2 R/rBIRT.R | 2 R/repBIRT.R |only R/rsimpl.R |only data/female.rda |only data/out_beta.rda |binary inst/stan/BetaIRT.stan | 15 inst/stan/BetaIRT_inf.stan | 49 +-- inst/stan/NormalIRT.stan | 14 inst/stan/NormalIRT_inf.stan | 46 +- inst/stan/SimplexIRT.stan | 14 inst/stan/SimplexIRT_inf.stan | 46 +- man/Abasement.Rd | 84 ++--- man/BoundIRT-package.Rd | 8 man/bridgeBIRT.Rd | 146 ++++----- man/coef.BoundIRT.Rd | 98 +++--- man/fitBIRT.Rd | 344 +++++++++++---------- man/latregBIRT.Rd | 154 ++++----- man/loglikBIRT.Rd |only man/out_beta.Rd | 97 +++--- man/plot.BoundIRT.Rd | 180 +++++------ man/rBIRT.Rd | 225 +++++++------- man/repBIRT.Rd |only src/RcppExports.cpp | 2 src/psimplex.c |only src/stanExports_BetaIRT.h | 203 ++++++++---- src/stanExports_BetaIRT_inf.h | 615 ++++++++++++++++++++++----------------- src/stanExports_NormalIRT.h | 100 ++++-- src/stanExports_NormalIRT_inf.h | 412 ++++++++++++++------------ src/stanExports_SimplexIRT.h | 102 ++++-- src/stanExports_SimplexIRT_inf.h | 414 ++++++++++++++------------ 45 files changed, 2482 insertions(+), 2050 deletions(-)
Title: Thematic Cartography
Description: Create and integrate thematic maps in your workflow. This package
helps to design various cartographic representations such as proportional
symbols, choropleth or typology maps. It also offers several functions to
display layout elements that improve the graphic presentation of maps
(e.g. scale bar, north arrow, title, labels). 'mapsf' maps 'sf' objects on
'base' graphics.
Author: Timothee Giraud [cre, aut] ,
Hugues Pecout [ctb] ,
Ronan Ysebaert [ctb] ,
Elina Marveaux [ctb] ,
Ian Fellows [cph] ,
Jim Lemon [cph] ,
Danielle Navarro [cph]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between mapsf versions 1.1.0 dated 2026-01-10 and 1.2.0 dated 2026-05-05
DESCRIPTION | 23 +- MD5 | 262 ++++++++++++----------- NAMESPACE | 67 +++++- NEWS.md | 62 ++++- R/deprecated.R |only R/mf_annotation.R | 52 ++-- R/mf_arrow.R | 10 R/mf_background.R | 46 +--- R/mf_base.R | 18 + R/mf_choro.R | 122 ++++++++--- R/mf_credits.R | 3 R/mf_distr.R | 151 +++++++++---- R/mf_doc_utils.R | 36 ++- R/mf_export.R | 35 +-- R/mf_frame.R | 2 R/mf_get_borders.R | 11 - R/mf_get_breaks.R | 46 ++-- R/mf_get_leg_pos.R | 20 - R/mf_get_links.R | 8 R/mf_get_mtq.R | 39 +++ R/mf_get_pal.R | 9 R/mf_get_pencil.R | 32 +- R/mf_get_ratio.R | 7 R/mf_grad.R | 50 ++-- R/mf_graticule.R | 18 + R/mf_init.R | 54 +++- R/mf_inset.R | 84 ------- R/mf_label.R | 7 R/mf_layout.R | 4 R/mf_legend.R | 59 +++-- R/mf_logo.R |only R/mf_map.R | 426 +++++++-------------------------------- R/mf_map_help.R |only R/mf_map_utils.R | 52 +++- R/mf_pkg_utils.R | 164 ++++++++++++++- R/mf_png.R | 13 - R/mf_prop.R | 28 +- R/mf_prop_choro.R | 54 +++- R/mf_prop_typo.R | 58 +++-- R/mf_raster.R | 89 +++++--- R/mf_raster_utils.R | 25 -- R/mf_scale.R | 16 - R/mf_shadow.R | 22 +- R/mf_svg.R | 16 - R/mf_symb.R | 35 ++- R/mf_symb_choro.R | 67 ++++-- R/mf_text.R |only R/mf_text_utils.R |only R/mf_theme.R | 60 ++++- R/mf_theme_utils.R | 14 - R/mf_title.R | 6 R/mf_typo.R | 28 +- R/mf_worldmap.R | 5 R/package.R | 1 README.md | 2 build/vignette.rds |binary inst/doc/mapsf.html | 20 - inst/gpkg/mtq.gpkg |binary inst/tinytest/test_annotation.R | 20 - inst/tinytest/test_arrow.R | 2 inst/tinytest/test_background.R | 1 inst/tinytest/test_breaks.R | 1 inst/tinytest/test_credits.R | 1 inst/tinytest/test_distr.R | 5 inst/tinytest/test_export.R | 27 -- inst/tinytest/test_frame.R | 1 inst/tinytest/test_get_borders.R | 5 inst/tinytest/test_get_links.R | 13 - inst/tinytest/test_get_mtq.R |only inst/tinytest/test_get_pencil.R | 1 inst/tinytest/test_get_ratio.R | 5 inst/tinytest/test_graticule.R | 1 inst/tinytest/test_init.R | 18 + inst/tinytest/test_inset.R | 1 inst/tinytest/test_label.R | 3 inst/tinytest/test_layout.R | 1 inst/tinytest/test_legend.R | 4 inst/tinytest/test_logo.R |only inst/tinytest/test_map.R | 2 inst/tinytest/test_map_b.R | 9 inst/tinytest/test_map_c.R | 16 - inst/tinytest/test_map_g.R | 14 - inst/tinytest/test_map_p.R | 57 +++-- inst/tinytest/test_map_pc.R | 30 +- inst/tinytest/test_map_pt.R | 27 +- inst/tinytest/test_map_s.R | 3 inst/tinytest/test_map_sc.R | 12 - inst/tinytest/test_map_t.R | 14 - inst/tinytest/test_pal.R | 1 inst/tinytest/test_scale.R | 1 inst/tinytest/test_shadow.R | 3 inst/tinytest/test_text.R |only inst/tinytest/test_theme.R | 3 inst/tinytest/test_title.R | 4 inst/tinytest/tests_worldmap.R | 1 man/figures/example1-1.png |binary man/mapsf-deprecated.Rd |only man/mapsf.Rd | 1 man/mf_annotation.Rd | 32 +- man/mf_arrow.Rd | 6 man/mf_background.Rd | 18 - man/mf_base.Rd | 12 - man/mf_choro.Rd | 28 +- man/mf_credits.Rd | 3 man/mf_distr.Rd | 52 ++++ man/mf_export.Rd | 14 - man/mf_frame.Rd | 2 man/mf_get_breaks.Rd | 49 +++- man/mf_get_mtq.Rd | 46 +++- man/mf_get_pal.Rd | 4 man/mf_grad.Rd | 23 +- man/mf_graticule.Rd | 10 man/mf_init.Rd | 17 + man/mf_label.Rd | 2 man/mf_layout.Rd | 4 man/mf_legend.Rd | 59 +++-- man/mf_logo.Rd |only man/mf_map.Rd | 382 ++++++---------------------------- man/mf_map_base.Rd |only man/mf_map_choro.Rd |only man/mf_map_grad.Rd |only man/mf_map_prop.Rd |only man/mf_map_prop_choro.Rd |only man/mf_map_prop_typo.Rd |only man/mf_map_symb.Rd |only man/mf_map_symb_choro.Rd |only man/mf_map_typo.Rd |only man/mf_png.Rd | 2 man/mf_prop.Rd | 18 + man/mf_prop_choro.Rd | 28 +- man/mf_prop_typo.Rd | 26 +- man/mf_raster.Rd | 62 +++-- man/mf_scale.Rd | 2 man/mf_shadow.Rd | 22 +- man/mf_svg.Rd | 2 man/mf_symb.Rd | 22 +- man/mf_symb_choro.Rd | 20 + man/mf_text.Rd |only man/mf_theme.Rd | 39 ++- man/mf_title.Rd | 5 man/mf_typo.Rd | 26 +- man/mf_worldmap.Rd | 4 142 files changed, 2101 insertions(+), 1786 deletions(-)
Title: Standardized Git Repository Data
Description: Obtain standardized data from multiple 'Git' services, including 'GitHub' and 'GitLab'.
Designed to be 'Git' service-agnostic, this package assists teams with activities spread across various
'Git' platforms by providing a unified way to access repository data.
Author: Maciej Banas [aut, cre],
Kamil Koziej [aut],
Karolina Marcinkowska [aut],
Matt Secrest [aut]
Maintainer: Maciej Banas <banasmaciek@gmail.com>
Diff between GitStats versions 2.5.1 dated 2026-04-23 and 2.5.2 dated 2026-05-05
DESCRIPTION | 6 - MD5 | 44 ++++---- NEWS.md | 11 ++ R/EngineGraphQLGitHub.R | 47 ++++++-- R/EngineGraphQLGitLab.R | 84 ++++++++++++--- R/EngineRest.R | 60 +++++++++++ R/EngineRestGitLab.R | 10 - R/GQLQueryGitLab.R | 9 + R/GitHost.R | 7 - R/GitHostGitLab.R | 18 +-- R/GitStats.R | 14 +- R/set_host.R | 12 ++ inst/doc/store_data.html | 84 ++++++++------- tests/testthat/_snaps/00-get_orgs-GitLab.md | 20 +-- tests/testthat/_snaps/01-get_repos-GitHub.md | 7 + tests/testthat/_snaps/01-get_repos-GitLab.md | 7 + tests/testthat/_snaps/set_host.md | 94 ----------------- tests/testthat/helper-fixtures-orgs.R | 8 - tests/testthat/test-00-get_orgs-GitLab.R | 53 ++++++--- tests/testthat/test-01-get_repos-GitHub.R | 9 + tests/testthat/test-01-get_repos-GitLab.R | 48 ++++++-- tests/testthat/test-GitHost-helpers.R | 65 +++--------- tests/testthat/test-set_host.R | 145 +++++++++++++++------------ 23 files changed, 492 insertions(+), 370 deletions(-)
Title: Fast and Stable Fitting of Generalized Linear Models using
'RcppEigen'
Description: Fits generalized linear models efficiently using 'RcppEigen'. The iteratively reweighted least squares
implementation utilizes the step-halving approach of Marschner (2011) <doi:10.32614/RJ-2011-012> to help safeguard
against convergence issues.
Author: Jared Huling [aut, cre],
Douglas Bates [cph],
Dirk Eddelbuettel [cph],
Romain Francois [cph],
Yixuan Qiu [cph],
Noah Greifer [ctb]
Maintainer: Jared Huling <jaredhuling@gmail.com>
Diff between fastglm versions 0.0.4 dated 2025-12-16 and 0.1.0 dated 2026-05-05
fastglm-0.0.4/fastglm/R/glm_methods.R |only fastglm-0.0.4/fastglm/inst/doc/quick-usage-guide-to-the-fastglm-package.R |only fastglm-0.0.4/fastglm/inst/doc/quick-usage-guide-to-the-fastglm-package.Rmd |only fastglm-0.0.4/fastglm/inst/doc/quick-usage-guide-to-the-fastglm-package.html |only fastglm-0.0.4/fastglm/man/deviance.Rd |only fastglm-0.0.4/fastglm/man/family.Rd |only fastglm-0.0.4/fastglm/man/logLik.Rd |only fastglm-0.0.4/fastglm/man/print.Rd |only fastglm-0.0.4/fastglm/man/residuals.Rd |only fastglm-0.0.4/fastglm/man/summary.Rd |only fastglm-0.0.4/fastglm/vignettes/gen_data-1.png |only fastglm-0.0.4/fastglm/vignettes/quick-usage-guide-to-the-fastglm-package.Rmd |only fastglm-0.1.0/fastglm/DESCRIPTION | 28 fastglm-0.1.0/fastglm/MD5 | 111 +- fastglm-0.1.0/fastglm/NAMESPACE | 26 fastglm-0.1.0/fastglm/R/RcppExports.R | 32 fastglm-0.1.0/fastglm/R/fastglm-hurdle.R |only fastglm-0.1.0/fastglm/R/fastglm-methods.R |only fastglm-0.1.0/fastglm/R/fastglm-nb.R |only fastglm-0.1.0/fastglm/R/fastglm-zi.R |only fastglm-0.1.0/fastglm/R/fastglm.R | 1 fastglm-0.1.0/fastglm/R/fastglm_fit.R |only fastglm-0.1.0/fastglm/R/fit_glm.R | 266 ++++- fastglm-0.1.0/fastglm/R/negbin.R |only fastglm-0.1.0/fastglm/R/streaming.R |only fastglm-0.1.0/fastglm/R/zzz.R |only fastglm-0.1.0/fastglm/README.md | 86 - fastglm-0.1.0/fastglm/build/vignette.rds |binary fastglm-0.1.0/fastglm/inst/doc/benchmarks-fastglm.Rmd |only fastglm-0.1.0/fastglm/inst/doc/benchmarks-fastglm.html |only fastglm-0.1.0/fastglm/inst/doc/count-firth-fastglm.R |only fastglm-0.1.0/fastglm/inst/doc/count-firth-fastglm.Rmd |only fastglm-0.1.0/fastglm/inst/doc/count-firth-fastglm.html |only fastglm-0.1.0/fastglm/inst/doc/fastglm-overview.R |only fastglm-0.1.0/fastglm/inst/doc/fastglm-overview.Rmd |only fastglm-0.1.0/fastglm/inst/doc/fastglm-overview.html |only fastglm-0.1.0/fastglm/inst/doc/fastglm.R |only fastglm-0.1.0/fastglm/inst/doc/fastglm.Rmd |only fastglm-0.1.0/fastglm/inst/doc/fastglm.html |only fastglm-0.1.0/fastglm/inst/doc/large-data-fastglm.R |only fastglm-0.1.0/fastglm/inst/doc/large-data-fastglm.Rmd |only fastglm-0.1.0/fastglm/inst/doc/large-data-fastglm.html |only fastglm-0.1.0/fastglm/inst/include/chunk_source.h |only fastglm-0.1.0/fastglm/inst/include/families.h |only fastglm-0.1.0/fastglm/inst/include/glm.h | 512 ++++++---- fastglm-0.1.0/fastglm/inst/include/glm_base.h | 12 fastglm-0.1.0/fastglm/inst/include/glm_sparse.h |only fastglm-0.1.0/fastglm/inst/include/nb_theta.h |only fastglm-0.1.0/fastglm/inst/include/trunc_count.h |only fastglm-0.1.0/fastglm/inst/include/zi.h |only fastglm-0.1.0/fastglm/man/fastglm-sandwich.Rd |only fastglm-0.1.0/fastglm/man/fastglm.Rd | 13 fastglm-0.1.0/fastglm/man/fastglmPure.Rd | 22 fastglm-0.1.0/fastglm/man/fastglm_fit.Rd |only fastglm-0.1.0/fastglm/man/fastglm_hurdle.Rd |only fastglm-0.1.0/fastglm/man/fastglm_nb.Rd |only fastglm-0.1.0/fastglm/man/fastglm_streaming.Rd |only fastglm-0.1.0/fastglm/man/fastglm_zi.Rd |only fastglm-0.1.0/fastglm/man/figures |only fastglm-0.1.0/fastglm/man/negbin.Rd |only fastglm-0.1.0/fastglm/man/predict.fastglm.Rd | 6 fastglm-0.1.0/fastglm/man/summary.fastglm.Rd |only fastglm-0.1.0/fastglm/man/vcov.fastglm.Rd |only fastglm-0.1.0/fastglm/man/vcovHC.fastglm.Rd |only fastglm-0.1.0/fastglm/src/RcppExports.cpp | 206 +++- fastglm-0.1.0/fastglm/src/fit_glm_dense.cpp | 226 +++- fastglm-0.1.0/fastglm/src/fit_glm_firth.cpp |only fastglm-0.1.0/fastglm/src/fit_glm_hurdle.cpp |only fastglm-0.1.0/fastglm/src/fit_glm_nb.cpp |only fastglm-0.1.0/fastglm/src/fit_glm_zi.cpp |only fastglm-0.1.0/fastglm/src/fit_streaming_glm.cpp |only fastglm-0.1.0/fastglm/tests |only fastglm-0.1.0/fastglm/vignettes/benchmarks-fastglm.Rmd |only fastglm-0.1.0/fastglm/vignettes/benchmarks-figs |only fastglm-0.1.0/fastglm/vignettes/count-firth-fastglm.Rmd |only fastglm-0.1.0/fastglm/vignettes/fastglm-overview.Rmd |only fastglm-0.1.0/fastglm/vignettes/fastglm.Rmd |only fastglm-0.1.0/fastglm/vignettes/large-data-fastglm.Rmd |only 78 files changed, 1174 insertions(+), 373 deletions(-)
Title: Tools for Spatial Data
Description: For curve, surface and function fitting with an emphasis
on splines, spatial data, geostatistics, and spatial statistics. The major methods
include cubic, and thin plate splines, Kriging, and compactly supported
covariance functions for large data sets. The splines and Kriging methods are
supported by functions that can determine the smoothing parameter
(nugget and sill variance) and other covariance function parameters by cross
validation and also by restricted maximum likelihood. For Kriging
there is an easy to use function that also estimates the correlation
scale (range parameter). A major feature is that any covariance function
implemented in R and following a simple format can be used for
spatial prediction. There are also many useful functions for plotting
and working with spatial data as images. This package also contains
an implementation of sparse matrix methods for large spatial data
sets and currently requires the sparse matrix (spam) package. Use
help(fields) to get star [...truncated...]
Author: Douglas Nychka [aut, cre],
Reinhard Furrer [aut],
John Paige [aut],
Stephan Sain [aut],
Florian Gerber [aut],
Matthew Iverson [aut],
Rider Johnson [aut]
Maintainer: Douglas Nychka <douglasnychka@gmail.com>
Diff between fields versions 17.1 dated 2025-09-08 and 17.3 dated 2026-05-05
fields-17.1/fields/R/Mines.colors.R |only fields-17.3/fields/DESCRIPTION | 31 -- fields-17.3/fields/MD5 | 188 +++++++------- fields-17.3/fields/NAMESPACE | 4 fields-17.3/fields/R/Krig.R | 32 +- fields-17.3/fields/R/Krig.family.R | 70 ++--- fields-17.3/fields/R/augmentPredictionGrid.R | 11 fields-17.3/fields/R/envelopePlot.R | 10 fields-17.3/fields/R/mKrig.R | 102 ++++--- fields-17.3/fields/R/mKrigCheckXY.R | 42 +-- fields-17.3/fields/R/mKrigFastPredict.R | 30 +- fields-17.3/fields/R/mKrigMLEGrid.R | 14 - fields-17.3/fields/R/mKrigMLEJoint.R | 12 fields-17.3/fields/R/panelPlotExample.R |only fields-17.3/fields/R/predict.Krig.R | 48 ++- fields-17.3/fields/R/predict.fastTps.R | 16 - fields-17.3/fields/R/predict.mKrig.R | 38 ++ fields-17.3/fields/R/predictSE.mKrig.R | 24 - fields-17.3/fields/R/predictSurface.Krig.R | 36 +- fields-17.3/fields/R/predictSurface.mKrig.R | 41 +-- fields-17.3/fields/R/predictSurfaceSE.R | 16 - fields-17.3/fields/R/print.spatialProcessSummary.R | 26 + fields-17.3/fields/R/profileMLE.R | 2 fields-17.3/fields/R/sim.spatialProcess.R | 2 fields-17.3/fields/R/spatialProcess.R | 98 ++++--- fields-17.3/fields/R/spatialProcessSetDefaults.R | 16 + fields-17.3/fields/R/summary.mKrig.R | 6 fields-17.3/fields/R/summary.spatialProcess.R | 12 fields-17.3/fields/R/surface.family.R | 4 fields-17.3/fields/R/tim.colors.R | 49 ++- fields-17.3/fields/R/unrollZGrid.R | 26 - fields-17.3/fields/data/Mines.colors.rda |only fields-17.3/fields/data/NorthAmericanRainfall2.rda |binary fields-17.3/fields/data/datalist | 1 fields-17.3/fields/man/CO.Rd | 4 fields-17.3/fields/man/FORTRAN.internal.Rd | 8 fields-17.3/fields/man/Krig.Rd | 24 + fields-17.3/fields/man/Krig.engine.default.Rd | 4 fields-17.3/fields/man/Krig.null.function.Rd | 12 fields-17.3/fields/man/Krig.replicates.Rd | 12 fields-17.3/fields/man/NorthAmericanRainfall.Rd | 8 fields-17.3/fields/man/QTps.Rd | 4 fields-17.3/fields/man/Tps.Rd | 18 - fields-17.3/fields/man/envelopePlot.Rd | 7 fields-17.3/fields/man/grid.list.Rd | 16 - fields-17.3/fields/man/image.plot.Rd | 4 fields-17.3/fields/man/mKrig.Rd | 45 ++- fields-17.3/fields/man/mKrigMLE.Rd | 8 fields-17.3/fields/man/panelPlot.Rd |only fields-17.3/fields/man/predict.Krig.Rd | 22 + fields-17.3/fields/man/predictSE.Krig.Rd | 67 +++- fields-17.3/fields/man/predictSurface.Rd | 61 ++-- fields-17.3/fields/man/sim.Krig.Rd | 32 +- fields-17.3/fields/man/spatialProcess.Rd | 126 +++++++-- fields-17.3/fields/man/surface.Krig.Rd | 4 fields-17.3/fields/man/tim.colors.Rd | 69 ++--- fields-17.3/fields/src/fieldsF77Code.f | 23 + fields-17.3/fields/src/init.c | 9 fields-17.3/fields/tests/Krig.Z.test.R | 54 ++-- fields-17.3/fields/tests/Krig.Z.test.Rout.save | 10 fields-17.3/fields/tests/Krig.se.W.Rout.save | 8 fields-17.3/fields/tests/Krig.se.grid.test.Rout.save | 8 fields-17.3/fields/tests/Krig.se.test.Rout.save | 8 fields-17.3/fields/tests/Krig.test.Rout.save | 8 fields-17.3/fields/tests/Krig.test.W.R | 6 fields-17.3/fields/tests/Krig.test.W.Rout.save | 8 fields-17.3/fields/tests/KrigGCVREML.test.Rout.save | 8 fields-17.3/fields/tests/Likelihood.test.Rout.save | 8 fields-17.3/fields/tests/SEFixedParameters.R | 4 fields-17.3/fields/tests/SEFixedParameters.Rout.save | 8 fields-17.3/fields/tests/Tps.test.Rout.save | 8 fields-17.3/fields/tests/Wend.test.Rout.save | 8 fields-17.3/fields/tests/cov.test.Rout.save | 8 fields-17.3/fields/tests/cov.test2.Rout.save | 8 fields-17.3/fields/tests/derivative.test.Rout.save | 8 fields-17.3/fields/tests/diag.multiply.test.Rout.save | 8 fields-17.3/fields/tests/evlpoly.test.Rout.save | 8 fields-17.3/fields/tests/fastTpsPredict.test.Rout.save | 8 fields-17.3/fields/tests/mKrig.Z.R | 30 +- fields-17.3/fields/tests/mKrig.Z.Rout.save | 18 - fields-17.3/fields/tests/mKrig.parameters.test.Rout.save | 8 fields-17.3/fields/tests/mKrig.se.test.R | 2 fields-17.3/fields/tests/mKrig.se.test.Rout.save | 8 fields-17.3/fields/tests/mKrig.test.R | 20 + fields-17.3/fields/tests/mKrig.test.Rout.save | 10 fields-17.3/fields/tests/mKrigMLETest.Rout.save | 8 fields-17.3/fields/tests/mKrigREMLTest.Rout.save | 8 fields-17.3/fields/tests/misc.test.Rout.save | 8 fields-17.3/fields/tests/offGridWeights.test.Rout.save | 2 fields-17.3/fields/tests/offGridWeightsNEW.test.Rout.save | 2 fields-17.3/fields/tests/spam.test.Rout.save | 8 fields-17.3/fields/tests/sreg.test.Rout.save | 8 fields-17.3/fields/tests/testO3LocalExample.R | 17 - fields-17.3/fields/tests/testO3LocalExample.Rout.save | 10 fields-17.3/fields/tests/testZCommon.R | 42 +-- fields-17.3/fields/tests/testZCommon.Rout.save | 22 - fields-17.3/fields/tests/vgram.test.Rout.save | 8 97 files changed, 1186 insertions(+), 849 deletions(-)
Title: Linear Mixed Models - An Introduction with Applications in
Veterinary Research
Description: R Codes and Datasets for Duchateau, L. and Janssen, P. and Rowlands, G. J. (1998). Linear Mixed Models. An Introduction with applications in Veterinary Research. International Livestock Research Institute.
Author: Muhammad Yaseen [aut, cre] ,
Luc Duchateau [ctb],
Paul Janssen [ctb],
John Rowlands [ctb]
Maintainer: Muhammad Yaseen <myaseen208@gmail.com>
This is a re-admission after prior archival of version 1.0.0 dated 2018-04-22
Diff between VetResearchLMM versions 1.0.0 dated 2018-04-22 and 1.1.0 dated 2026-05-05
DESCRIPTION | 48 ++++-- MD5 | 114 ++++++++++------ NAMESPACE | 6 NEWS.md | 30 ++++ R/Examp1.3.2.R | 11 - R/Examp2.2.1.7.R | 28 +++- R/Examp2.4.2.2.R | 160 +++++++++++------------ R/Examp2.4.3.1.R | 46 +++--- R/Examp2.5.1.1.R | 52 +++---- R/Examp2.5.2.1.R | 51 +++---- R/Examp2.5.3.1.R | 92 ++++++------- R/Examp2.5.4.1.R | 79 +++++------ R/Examp2.6.1.R | 83 +++++------ R/Examp3.1.R | 156 +++++++++++----------- R/Examp3.2.R | 55 ++++--- R/Examp3.3.R | 291 ++++++++++++++++++------------------------ R/VetResearchLMM-package.R |only R/emmeans_mixed_model.R |only R/ex121.R | 20 +- R/ex124.R | 19 +- R/ex125.R | 19 +- R/ex127.R | 17 +- R/ex31.R | 23 +-- R/ex32.R | 20 +- R/ex33.R | 19 +- R/report_mixed_model.R |only README.md | 68 ++++++++- build |only inst |only man/Examp1.3.2.Rd | 9 - man/Examp2.2.1.7.Rd |only man/Examp2.4.2.2.Rd | 149 ++++++++++----------- man/Examp2.4.3.1.Rd | 40 ++--- man/Examp2.5.1.1.Rd | 46 +++--- man/Examp2.5.2.1.Rd | 48 +++--- man/Examp2.5.3.1.Rd | 85 ++++++------ man/Examp2.5.4.1.Rd | 74 +++++----- man/Examp2.6.1.Rd | 80 +++++------ man/Examp3.1.Rd | 153 +++++++++++----------- man/Examp3.2.Rd | 52 ++++--- man/Examp3.3.Rd | 278 ++++++++++++++++++---------------------- man/VetResearchLMM-package.Rd |only man/emmeans_mixed_model.Rd |only man/ex121.Rd | 21 +-- man/ex124.Rd | 20 +- man/ex125.Rd | 20 +- man/ex127.Rd | 18 +- man/ex31.Rd | 24 +-- man/ex32.Rd | 21 +-- man/ex33.Rd | 20 +- man/report_mixed_model.Rd |only tests/testthat |only tests/testthat.R | 4 vignettes |only 54 files changed, 1384 insertions(+), 1285 deletions(-)
More information about VetResearchLMM at CRAN
Permanent link
Title: Generate Publication-Ready Statistical Tables
Description: A collection of functions for generating frequency tables and cross-tabulations of categorical variables. The resulting tables can be exported to various formats (Excel, PDF, HTML, etc.) with extensive formatting and layout customization options.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
Diff between tsg versions 0.1.3 dated 2026-02-28 and 0.1.4 dated 2026-05-05
DESCRIPTION | 13 MD5 | 91 + NAMESPACE | 4 NEWS.md | 28 R/docx.R |only R/facade.R | 13 R/generate_crosstab.R | 1544 +++++++++++++++++++++++++------ R/generate_frequency.R | 402 ++++---- R/generate_helpers.R | 47 R/generate_modifiers.R | 37 R/generate_output.R | 23 R/helpers.R | 287 +++++ R/html.R |only R/tsg-package.R | 1 R/tsg_format.R | 12 R/utils.R | 17 R/xlsx_components.R | 52 - R/xlsx_facade.R | 72 - R/xlsx_helpers.R | 2 R/xlsx_writer.R | 103 +- R/zzz.R | 4 README.md | 62 + build/vignette.rds |binary inst/doc/advanced.R |only inst/doc/advanced.Rmd |only inst/doc/advanced.html |only inst/doc/facade.R |only inst/doc/facade.Rmd |only inst/doc/facade.html |only inst/doc/output-formats.R |only inst/doc/output-formats.Rmd |only inst/doc/output-formats.html |only inst/doc/tsg.R | 158 --- inst/doc/tsg.Rmd | 312 ++---- inst/doc/tsg.html | 1094 +++++++++------------ inst/extdata/facade/docx |only inst/extdata/facade/html |only man/add_footnote.Rd | 31 man/generate_crosstab.Rd | 35 man/generate_frequency.Rd | 19 man/generate_output.Rd | 15 man/get_tsg_facade.Rd | 2 man/gt_apply_numeric_format.Rd |only man/gt_apply_spanners.Rd |only man/gt_apply_text_decoration.Rd |only man/parse_excel_numfmt_decimals.Rd |only man/tsg_to_flextable.Rd |only man/tsg_to_gt.Rd |only man/write_docx.Rd |only man/write_html.Rd |only man/write_pdf.Rd |only tests/testthat/test-generate_crosstab.R | 583 +++++++++++ tests/testthat/test-generate_frequency.R | 119 +- tests/testthat/test-generate_helpers.R |only tests/testthat/test-generate_output.R |only tests/testthat/test-helpers.R | 139 ++ vignettes/advanced.Rmd |only vignettes/facade.Rmd |only vignettes/output-formats.Rmd |only vignettes/tsg.Rmd | 312 ++---- 60 files changed, 3716 insertions(+), 1917 deletions(-)
Title: A Tidy Framework for Changepoint Detection Analysis
Description: Changepoint detection algorithms for R are widespread but have
different interfaces and reporting conventions.
This makes the comparative analysis of results difficult.
We solve this problem by providing a tidy, unified interface for several
different changepoint detection algorithms.
We also provide consistent numerical and graphical reporting leveraging
the 'broom' and 'ggplot2' packages.
Author: Benjamin S. Baumer [aut, cre, cph] ,
Biviana Marcela Suarez Sierra [aut] ,
Arrigo Coen [aut] ,
Carlos A. Taimal [aut] ,
Xueheng Shi [ctb]
Maintainer: Benjamin S. Baumer <ben.baumer@gmail.com>
This is a re-admission after prior archival of version 1.0.4 dated 2026-02-05
Diff between tidychangepoint versions 1.0.4 dated 2026-02-05 and 1.0.5 dated 2026-05-05
DESCRIPTION | 8 +-- MD5 | 88 ++++++++++++++++++++--------------------- NEWS.md | 4 + R/pkg-stats.R | 2 R/segment_cptga.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/tidychangepoint.html | 37 +++++++---------- man/BMDL.Rd | 10 ++-- man/DataCPSim.Rd | 2 man/HQC.Rd | 12 ++--- man/MBIC.Rd | 12 ++--- man/MDL.Rd | 10 ++-- man/SIC.Rd | 14 +++--- man/as.model.Rd | 18 ++++---- man/as.segmenter.Rd | 26 ++++++------ man/as_year.Rd | 2 man/binary2tau.Rd | 2 man/build_gabin_population.Rd | 4 - man/changepoints.Rd | 16 +++---- man/compare_models.Rd | 6 +- man/diagnose.Rd | 14 +++--- man/evaluate_cpts.Rd | 2 man/file_name.Rd | 4 - man/fit_arima.Rd | 20 ++++----- man/fit_lmshift.Rd | 18 ++++---- man/fit_meanshift.Rd | 18 ++++---- man/fit_meanvar.Rd | 18 ++++---- man/fit_nhpp.Rd | 18 ++++---- man/fitness.Rd | 20 ++++----- man/fun_cpt.Rd | 18 ++++---- man/iweibull.Rd | 8 +-- man/model_args.Rd | 32 +++++++------- man/model_name.Rd | 30 ++++++------- man/model_variance.Rd | 2 man/reexports.Rd | 2 man/regions.Rd | 4 - man/seg_params.Rd | 12 ++--- man/segment.Rd | 4 - man/segment_coen.Rd | 2 man/tbl_coef.Rd | 2 man/test_set.Rd | 4 - man/tidychangepoint-package.Rd | 1 man/tidycpt-class.Rd | 2 man/whomademe.Rd | 18 ++++---- 45 files changed, 275 insertions(+), 273 deletions(-)
More information about tidychangepoint at CRAN
Permanent link
Title: Improved Score Tests for Generalized Linear Models
Description: A set of functions to obtain modified score test for generalized linear models.
Author: Iago Gine-Vazquez [cre] ,
Antonio Hermes M. da Silva-Junior [aut],
Damiao N. da Silva [aut],
Silvia L. P. Ferrari [ctb]
Maintainer: Iago Gine-Vazquez <iago.gin-vaz@protonmail.com>
This is a re-admission after prior archival of version 0.1-3 dated 2017-02-16
Diff between mdscore versions 0.1-3 dated 2017-02-16 and 0.1-4 dated 2026-05-05
DESCRIPTION | 28 +++++++++++++++++++--------- MD5 | 9 +++++---- README.md |only inst/CITATION | 8 ++++---- man/mdscore.Rd | 2 +- man/summary.mdscore.Rd | 2 +- 6 files changed, 30 insertions(+), 19 deletions(-)
Title: Monte Carlo Simulation-Based Sample-Size Planning for Item
Response Theory
Description: Provides a pipeline application programming interface (API) for
Monte Carlo simulation-based sample-size planning in item response theory
(IRT). Implements the 10-decision framework
from Schroeders and Gnambs (2025) <doi:10.1177/25152459251314798> as a
three-step workflow: specify the data-generating model with irt_design(),
add study conditions with irt_study(), and run simulations with
irt_simulate(). Supports one-parameter logistic (1PL), two-parameter
logistic (2PL), and graded response models with missing-completely-at-random
(MCAR), missing-at-random (MAR), booklet, and linking missingness
mechanisms. Results include mean squared error (MSE), bias, root mean
squared error (RMSE), standard error (SE), and coverage criteria with
summary and plot methods.
Author: Stephen Ward [aut, cre]
Maintainer: Stephen Ward <stephen_ward+irtsim@abhome.co>
Diff between irtsim versions 0.1.1 dated 2026-04-23 and 0.1.2 dated 2026-05-05
irtsim-0.1.1/irtsim/inst/doc/paper-reproduction-gaps.html |only irtsim-0.1.1/irtsim/inst/doc/paper-reproduction-gaps.html.asis |only irtsim-0.1.1/irtsim/vignettes/paper-reproduction-gaps.html.asis |only irtsim-0.1.2/irtsim/DESCRIPTION | 8 irtsim-0.1.2/irtsim/MD5 | 37 - irtsim-0.1.2/irtsim/NEWS.md | 47 + irtsim-0.1.2/irtsim/R/irt_design.R | 16 irtsim-0.1.2/irtsim/R/recommended_n.R | 82 ++- irtsim-0.1.2/irtsim/build/partial.rdb |binary irtsim-0.1.2/irtsim/build/vignette.rds |binary irtsim-0.1.2/irtsim/inst/doc/choosing-item-parameters.R |only irtsim-0.1.2/irtsim/inst/doc/choosing-item-parameters.Rmd |only irtsim-0.1.2/irtsim/inst/doc/choosing-item-parameters.html |only irtsim-0.1.2/irtsim/inst/doc/irtsim.R |only irtsim-0.1.2/irtsim/inst/doc/irtsim.Rmd |only irtsim-0.1.2/irtsim/inst/doc/irtsim.html |only irtsim-0.1.2/irtsim/inst/doc/paper-example-2-mcar.html | 7 irtsim-0.1.2/irtsim/inst/doc/paper-example-3-grm.html | 7 irtsim-0.1.2/irtsim/man/irt_design.Rd | 5 irtsim-0.1.2/irtsim/man/recommended_n.Rd | 37 + irtsim-0.1.2/irtsim/tests/testthat/test-grm_integration.R | 9 irtsim-0.1.2/irtsim/tests/testthat/test-irt_design.R | 45 + irtsim-0.1.2/irtsim/tests/testthat/test-recommended_n.R | 267 +++++++++- irtsim-0.1.2/irtsim/vignettes/choosing-item-parameters.Rmd |only irtsim-0.1.2/irtsim/vignettes/irtsim.Rmd |only 25 files changed, 496 insertions(+), 71 deletions(-)
Title: DRESS - A Continuous Framework for Structural Graph Refinement
Description: DRESS is a deterministic, parameter-free framework for
continuous structural graph refinement. It iterates a nonlinear dynamical
system on real-valued edge similarities and produces a graph fingerprint as
a sorted edge-value vector once the iteration reaches a prescribed stopping
criterion. The resulting
fingerprint is self-contained, isomorphism-invariant by construction,
reproducible across vertex labelings under the reference implementation,
numerically robust in practice, and efficient to compute with
straightforward parallelization and distribution.
Author: Eduar Castrillo Velilla [aut, cre]
Maintainer: Eduar Castrillo Velilla <velicast@outlook.com>
Diff between dress.graph versions 0.6.2 dated 2026-03-23 and 0.8.3 dated 2026-05-05
dress.graph-0.6.2/dress.graph/man/delta_dress_fit.Rd |only dress.graph-0.6.2/dress.graph/man/dress_fit.Rd |only dress.graph-0.6.2/dress.graph/src/dress/delta_dress.h |only dress.graph-0.8.3/dress.graph/DESCRIPTION | 28 dress.graph-0.8.3/dress.graph/MD5 | 71 - dress.graph-0.8.3/dress.graph/NAMESPACE | 6 dress.graph-0.8.3/dress.graph/R/cuda.R | 142 ++- dress.graph-0.8.3/dress.graph/R/dress.R | 216 ++++ dress.graph-0.8.3/dress.graph/R/mpi.R | 424 ++++++++ dress.graph-0.8.3/dress.graph/R/omp.R |only dress.graph-0.8.3/dress.graph/README.md | 4 dress.graph-0.8.3/dress.graph/configure | 4 dress.graph-0.8.3/dress.graph/man/DRESS.Rd | 8 dress.graph-0.8.3/dress.graph/man/cuda.Rd | 16 dress.graph-0.8.3/dress.graph/man/delta_fit.Rd |only dress.graph-0.8.3/dress.graph/man/dress_version.Rd |only dress.graph-0.8.3/dress.graph/man/fit.Rd |only dress.graph-0.8.3/dress.graph/man/mpi.Rd | 25 dress.graph-0.8.3/dress.graph/man/nabla_fit.Rd |only dress.graph-0.8.3/dress.graph/man/omp.Rd |only dress.graph-0.8.3/dress.graph/src/delta_dress.c | 83 + dress.graph-0.8.3/dress.graph/src/delta_dress_cuda.c | 84 + dress.graph-0.8.3/dress.graph/src/delta_dress_impl.c | 227 ++-- dress.graph-0.8.3/dress.graph/src/delta_dress_impl.h | 44 dress.graph-0.8.3/dress.graph/src/delta_dress_omp.c |only dress.graph-0.8.3/dress.graph/src/dress.c | 230 ++-- dress.graph-0.8.3/dress.graph/src/dress/cuda/dress.h | 10 dress.graph-0.8.3/dress.graph/src/dress/cuda/dress_cuda.h | 81 + dress.graph-0.8.3/dress.graph/src/dress/dress.h | 149 ++- dress.graph-0.8.3/dress.graph/src/dress/mpi/dress.h | 58 - dress.graph-0.8.3/dress.graph/src/dress/mpi/dress_mpi.h | 214 +++- dress.graph-0.8.3/dress.graph/src/dress/omp |only dress.graph-0.8.3/dress.graph/src/dress_cuda.cu | 131 +- dress.graph-0.8.3/dress.graph/src/dress_cuda_r.c | 241 ++++- dress.graph-0.8.3/dress.graph/src/dress_histogram.c |only dress.graph-0.8.3/dress.graph/src/dress_histogram.h |only dress.graph-0.8.3/dress.graph/src/dress_mpi.c | 661 +++++++++++++- dress.graph-0.8.3/dress.graph/src/dress_mpi_r.c | 580 +++++++++++- dress.graph-0.8.3/dress.graph/src/dress_omp.c |only dress.graph-0.8.3/dress.graph/src/dress_omp_r.c |only dress.graph-0.8.3/dress.graph/src/dress_r.c | 319 +++++- dress.graph-0.8.3/dress.graph/src/nabla_dress.c |only dress.graph-0.8.3/dress.graph/src/nabla_dress_cuda.c |only dress.graph-0.8.3/dress.graph/src/nabla_dress_impl.c |only dress.graph-0.8.3/dress.graph/src/nabla_dress_impl.h |only dress.graph-0.8.3/dress.graph/src/nabla_dress_omp.c |only 46 files changed, 3292 insertions(+), 764 deletions(-)
Title: Validate Brazilian Administrative Registers - Valida Documentos
Description: Contains functions to validate administrative register as
CPF (Cadastro de Pessoa Fisica), CNPJ (Cadastro de Pessoa Juridica),
PIS (Programa de Integracao Social),
CNES (Cadastro Nacional de Saude).
Builds from and improves on previous package from IPEA validaRA <https://github.com/ipea/validaRA>.
It can check individual registers or help creating a table summarizing validity of a set.
Author: Gustavo Coelho [aut],
Lucas Mation [aut] ,
Rodrigo Borges [ctb, cre] ,
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Rodrigo Borges <rodrigo.borges@ipea.gov.br>
Diff between documentosbr versions 0.1.8 dated 2026-04-27 and 0.2.0 dated 2026-05-05
DESCRIPTION | 6 +- MD5 | 12 ++--- NEWS.md | 3 + inst/doc/documentosbr.html | 4 - src/Makevars | 2 src/convert2int.cpp | 10 +++- src/ra/Cnpj.hpp | 93 +++++++++++++++++++++++---------------------- 7 files changed, 72 insertions(+), 58 deletions(-)
Title: Calculation of IBD Probabilities
Description: For biparental, three and four-way crosses Identity by Descent
(IBD) probabilities can be calculated using Hidden Markov Models and
inheritance vectors following Lander and Green
(<https://www.jstor.org/stable/29713>) and Huang
(<doi:10.1073/pnas.1100465108>). One of a series of statistical genetic
packages for streamlining the analysis of typical plant breeding experiments
developed by Biometris.
Author: Martin Boer [aut] ,
Bart-Jan van Rossum [aut, cre] ,
Wenhao Li [ctb] ,
Johannes Kruisselbrink [ctb]
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between statgenIBD versions 1.0.10 dated 2026-03-02 and 1.0.11 dated 2026-05-05
DESCRIPTION | 10 ++-- MD5 | 20 ++++----- NEWS.md | 5 ++ R/readRABBIT.R | 87 +++++++++++++++++++++++++++++++++++++++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/IBDCalculations.html | 64 ++++++++++++++---------------- inst/doc/IBDFileFormat.html | 4 - man/statgenIBD-package.Rd | 1 src/RcppExports.cpp | 6 +- src/calcIBD.cpp | 12 ++--- 11 files changed, 146 insertions(+), 63 deletions(-)
Title: Policy Learning
Description: Package for learning and evaluating (subgroup) policies via doubly robust loss functions. Policy learning methods include doubly robust blip/conditional average treatment effect learning and sequential policy tree learning. Methods for (subgroup) policy evaluation include doubly robust cross-fitting and online estimation/sequential validation. See Nordland and Holst (2022) <doi:10.48550/arXiv.2212.02335> for documentation and references.
Author: Andreas Nordland [aut, cre],
Klaus Holst [aut]
Maintainer: Andreas Nordland <andreasnordland@gmail.com>
Diff between polle versions 1.6.2 dated 2025-12-04 and 1.6.3 dated 2026-05-05
DESCRIPTION | 6 ++-- MD5 | 26 +++++++++---------- NEWS.md | 4 +++ R/c_models.R | 27 ++++++++++++-------- R/policy_def.R | 30 ++++++++++++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/doc/policy_data.html | 52 +++++++++++++++++++-------------------- inst/doc/policy_eval.html | 52 +++++++++++++++++++-------------------- inst/doc/policy_learn.html | 52 +++++++++++++++++++-------------------- man/policy_def.Rd | 15 ++++++++++- man/policy_eval.Rd | 2 - man/reexports.Rd | 2 - tests/testthat/test-policy_def.R | 51 ++++++++++++++++++++++++++++++++++++++ 14 files changed, 206 insertions(+), 113 deletions(-)
Title: Bayesian Nonparametric Conditional Density Modeling in Causal
Inference and Clustering with a Heavy-Tail Extension
Description: The presence of a heavy tail is a feature of many scenarios when risk management
involves extremely rare events. While parametric distributions may give adequate
representation of the mode of data, they are likely to misrepresent heavy tails,
and completely nonparametric approaches lack a rigorous mechanism for
tail extrapolation; see Pickands (1975) <doi:10.1214/aos/1176343003>. The
package 'CausalMixGPD' implements tools for Bayesian analysis of heavy-tailed
outcomes by combining Dirichlet process mixture models for the body of the
distribution with optional generalized Pareto tails. The method allows
for unconditional and covariate-modulated mixtures, implements MCMC estimation
using 'nimble', and extends to mixtures of different arms' outcomes with
application to causal inference in the Rubin (1974)
<doi:10.1037/h0037350> framework. Posterior summaries include density
functions, quantiles, expected values, survival functions, and causal effects,
with an emphasis on tail [...truncated...]
Author: Arnab Aich [aut, cre]
Maintainer: Arnab Aich <aaich@fsu.edu>
Diff between CausalMixGPD versions 0.7.0 dated 2026-04-21 and 0.8.0 dated 2026-05-05
CausalMixGPD-0.7.0/CausalMixGPD/man/ate.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/cate.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/cqte.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.causalmixgpd_ate.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.causalmixgpd_causal_fit.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.causalmixgpd_causal_predict.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.dpmixgpd_cluster_bundle.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.dpmixgpd_cluster_labels.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.dpmixgpd_cluster_psm.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/plot.mixgpd_fitted.Rd |only CausalMixGPD-0.7.0/CausalMixGPD/man/qte.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/DESCRIPTION | 20 CausalMixGPD-0.8.0/CausalMixGPD/MD5 | 125 CausalMixGPD-0.8.0/CausalMixGPD/NAMESPACE | 19 CausalMixGPD-0.8.0/CausalMixGPD/R/build-run.R | 14 CausalMixGPD-0.8.0/CausalMixGPD/R/causal.R | 6519 +++++----- CausalMixGPD-0.8.0/CausalMixGPD/R/cluster.R | 109 CausalMixGPD-0.8.0/CausalMixGPD/R/data-datasets.R | 24 CausalMixGPD-0.8.0/CausalMixGPD/R/glue.R | 16 CausalMixGPD-0.8.0/CausalMixGPD/R/internal.R | 43 CausalMixGPD-0.8.0/CausalMixGPD/R/methods.R | 404 CausalMixGPD-0.8.0/CausalMixGPD/R/wrappers.R | 56 CausalMixGPD-0.8.0/CausalMixGPD/inst/CITATION | 8 CausalMixGPD-0.8.0/CausalMixGPD/inst/doc/cmgpd_causal.html | 22 CausalMixGPD-0.8.0/CausalMixGPD/inst/doc/cmgpd_clustering.R | 7 CausalMixGPD-0.8.0/CausalMixGPD/inst/doc/cmgpd_clustering.Rmd | 44 CausalMixGPD-0.8.0/CausalMixGPD/inst/doc/cmgpd_clustering.html | 43 CausalMixGPD-0.8.0/CausalMixGPD/inst/doc/cmgpd_one_arm.html | 22 CausalMixGPD-0.8.0/CausalMixGPD/inst/replication |only CausalMixGPD-0.8.0/CausalMixGPD/man/ate.causalmixgpd_causal_fit.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/man/build_causal_bundle.Rd | 360 CausalMixGPD-0.8.0/CausalMixGPD/man/build_code_from_spec.Rd | 1 CausalMixGPD-0.8.0/CausalMixGPD/man/build_constants_from_spec.Rd | 1 CausalMixGPD-0.8.0/CausalMixGPD/man/build_dimensions_from_spec.Rd | 1 CausalMixGPD-0.8.0/CausalMixGPD/man/build_inits_from_spec.Rd | 1 CausalMixGPD-0.8.0/CausalMixGPD/man/build_monitors_from_spec.Rd | 1 CausalMixGPD-0.8.0/CausalMixGPD/man/build_nimble_bundle.Rd | 246 CausalMixGPD-0.8.0/CausalMixGPD/man/cate.causalmixgpd_causal_fit.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/man/causal_alt_pos500_p3_k3.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/causal_alt_pos500_p5_k4_tail.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/causal_alt_real500_p4_k2.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/causal_pos500_p3_k2.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/cluster_profiles.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/man/cqte.causalmixgpd_causal_fit.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/man/dpmgpd.causal.Rd | 17 CausalMixGPD-0.8.0/CausalMixGPD/man/dpmgpd.cluster.Rd | 20 CausalMixGPD-0.8.0/CausalMixGPD/man/dpmix.causal.Rd | 17 CausalMixGPD-0.8.0/CausalMixGPD/man/dpmix.cluster.Rd | 20 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_pos200_k3.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_posX100_p3_k2.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_posX100_p4_k3.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_posX100_p5_k4.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_pos_tail200_k4.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_real200_k2.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_realX100_p3_k2.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/nc_realX100_p5_k3.Rd | 2 CausalMixGPD-0.8.0/CausalMixGPD/man/plot.causalmixgpd_qte.Rd | 65 CausalMixGPD-0.8.0/CausalMixGPD/man/plot.dpmixgpd_cluster_fit.Rd | 156 CausalMixGPD-0.8.0/CausalMixGPD/man/plot.mixgpd_fit.Rd | 62 CausalMixGPD-0.8.0/CausalMixGPD/man/plot.mixgpd_predict.Rd | 25 CausalMixGPD-0.8.0/CausalMixGPD/man/predict.dpmixgpd_cluster_fit.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/print.dpmixgpd_cluster_bundle.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/print.dpmixgpd_cluster_fit.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/print.dpmixgpd_cluster_labels.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/print.dpmixgpd_cluster_psm.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/print.mixgpd_predict.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/man/qte.causalmixgpd_causal_fit.Rd |only CausalMixGPD-0.8.0/CausalMixGPD/man/summary.dpmixgpd_cluster_bundle.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/summary.dpmixgpd_cluster_fit.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/summary.dpmixgpd_cluster_labels.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/man/summary.dpmixgpd_cluster_psm.Rd | 4 CausalMixGPD-0.8.0/CausalMixGPD/tests/testthat/test-reviewer-fixes.R |only CausalMixGPD-0.8.0/CausalMixGPD/vignettes/cmgpd_clustering.Rmd | 44 73 files changed, 4637 insertions(+), 3955 deletions(-)
Title: Sumerian Cuneiform Text Analysis
Description: Provides functions for converting transliterated Sumerian texts to sign names and cuneiform characters,
creating and querying dictionaries, analyzing the structure of
Sumerian words, and creating translations. Includes a built-in dictionary and supports both
forward lookup (Sumerian to English) and reverse lookup (English to
Sumerian).
Author: Robin Wellmann [aut, cre]
Maintainer: Robin Wellmann <ro.wellmann@gmail.com>
Diff between sumer versions 1.5.0 dated 2026-04-07 and 1.6.0 dated 2026-05-05
DESCRIPTION | 6 MD5 | 20 R/beautify_translations.R | 6 R/plot_sign_grammar.R | 1 inst/doc/getting-started.R | 4 inst/doc/getting-started.Rmd | 4 inst/doc/getting-started.html | 125 - inst/doc/translating-texts.html | 6 inst/extdata/etcsl_mapping.txt | 2 inst/extdata/sumer-dictionary.txt | 2984 ++++++++++++++++++++++++++------------ vignettes/getting-started.Rmd | 4 11 files changed, 2171 insertions(+), 991 deletions(-)
Title: Soil Organic Carbon and CN Ratio Driven Nitrogen Modelling
Framework
Description: Can be used to model the fate of soil organic carbon and soil organic nitrogen and to calculate N mineralisation rates. Provides a framework that numerically solves differential equations of soil organic carbon models based on first-order kinetics and extends these models to include the nitrogen component. The name 'sorcering' is an acronym for 'Soil ORganic Carbon & CN Ratio drIven Nitrogen modellinG framework'.
Author: Marc Scherstjanoi [aut, cre],
Rene Dechow [aut]
Maintainer: Marc Scherstjanoi <marc.scherstjanoi@thuenen.de>
Diff between sorcering versions 1.2.2 dated 2026-02-17 and 1.2.3 dated 2026-05-05
DESCRIPTION | 8 ++-- MD5 | 22 ++++++------ NEWS.md | 9 +++++ build/partial.rdb |binary build/sorcering.pdf |binary build/stage23.rdb |binary inst/REFERENCES.bib | 3 - inst/doc/sorcering.pdf |binary src/Makevars.win | 2 - src/RcppExports.cpp | 60 ++++++++++++++++----------------- src/sorcering.cpp | 70 +++++++++++++++++++-------------------- vignettes/sorcering_vignette.pdf |binary 12 files changed, 90 insertions(+), 84 deletions(-)
Title: Additional Functions for 'GeoPAT' 2
Description: Supports analysis of spatial data processed with the 'GeoPAT' 2
software <https://github.com/Nowosad/geopat2>.
Available features include creation of a grid based on the 'GeoPAT' 2
grid header file and reading a 'GeoPAT' 2 text outputs.
Author: Jakub Nowosad [aut, cre] ,
Space Informatics Lab [cph]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between rgeopat2 versions 0.4.0 dated 2023-09-18 and 0.4.1 dated 2026-05-05
DESCRIPTION | 13 +++++++------ MD5 | 16 ++++++++-------- NAMESPACE | 1 - R/gpat_create_grid.R | 32 ++++++++++++++++---------------- R/gpat_read_txt.R | 20 ++++++++++++-------- README.md | 2 +- man/figures/README-example-1.png |binary man/gpat_st_make_grid.Rd | 6 +++--- man/rgeopat2-package.Rd | 5 +++++ 9 files changed, 52 insertions(+), 43 deletions(-)
Title: Analysis of Surface Plasmon Resonance Data
Description: Analysis of Surface Plasmon Resonance (SPR) and Biolayer Interferometry data, with automations for high-throughput SPR. This version of the package fits the 1: 1 binding model, with and without bulkshift. It offers optional local or global Rmax fitting. The user must provide a sample sheet and a Carterra output file in Carterra's current format. There is a utility function to convert from Carterra's old output format. The user may run a custom pipeline or use the provided 'Runscript', which will produce a pdf file containing fitted Rmax, ka, kd and standard errors, a plot of the sensorgram and fits, and a plot of residuals. The script will also produce a .csv file with all of the relevant parameters for each spot on the SPR chip.
Author: Janice McCarthy Developer [aut, cre, cph],
Kan Li Dev [aut],
S. Moses Dennison [aut],
Georgia D. Tomaras [aut]
Maintainer: Janice McCarthy Developer <janice.mccarthy@duke.edu>
This is a re-admission after prior archival of version 0.1.0 dated 2024-08-26
Diff between htrSPRanalysis versions 0.1.0 dated 2024-08-26 and 0.1.2 dated 2026-05-05
htrSPRanalysis-0.1.0/htrSPRanalysis/vignettes/htrSPRanalysis-vignette_files |only htrSPRanalysis-0.1.2/htrSPRanalysis/DESCRIPTION | 8 htrSPRanalysis-0.1.2/htrSPRanalysis/MD5 | 91 --- htrSPRanalysis-0.1.2/htrSPRanalysis/R/InputProcessingFunctions.R | 28 - htrSPRanalysis-0.1.2/htrSPRanalysis/R/RTFunctions.R | 35 - htrSPRanalysis-0.1.2/htrSPRanalysis/R/UserFunctions.R | 18 htrSPRanalysis-0.1.2/htrSPRanalysis/inst/doc/htrSPRanalysis-vignette.R | 38 + htrSPRanalysis-0.1.2/htrSPRanalysis/inst/doc/htrSPRanalysis-vignette.Rmd | 43 + htrSPRanalysis-0.1.2/htrSPRanalysis/inst/doc/htrSPRanalysis-vignette.html | 275 ++++------ htrSPRanalysis-0.1.2/htrSPRanalysis/man/process_input.Rd | 4 htrSPRanalysis-0.1.2/htrSPRanalysis/vignettes/htrSPRanalysis-vignette.Rmd | 43 + 11 files changed, 290 insertions(+), 293 deletions(-)
More information about htrSPRanalysis at CRAN
Permanent link
Title: Functions and Data Sets for "That's Weird: Anomaly Detection
Using R" by Rob J Hyndman
Description: All functions and data sets required for the examples in the book
Hyndman (2026) "That's Weird: Anomaly Detection Using R" <https://OTexts.com/weird/>.
All packages needed to run the examples are also loaded.
Author: Rob Hyndman [aut, cre, cph] ,
RStudio [cph]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between weird versions 2.0.0 dated 2026-01-27 and 2.1.0 dated 2026-05-05
weird-2.0.0/weird/tests/testthat/surprisals.R |only weird-2.1.0/weird/DESCRIPTION | 15 - weird-2.1.0/weird/MD5 | 138 +++++++------ weird-2.1.0/weird/NAMESPACE | 5 weird-2.1.0/weird/NEWS.md | 45 ++-- weird-2.1.0/weird/R/bagplot.R | 6 weird-2.1.0/weird/R/datasets.R | 22 +- weird-2.1.0/weird/R/dist_density.R | 51 +++-- weird-2.1.0/weird/R/dist_kde.R | 91 +++++++-- weird-2.1.0/weird/R/gg_density.R | 10 weird-2.1.0/weird/R/gg_density_layer.R | 7 weird-2.1.0/weird/R/grubbs.R | 18 + weird-2.1.0/weird/R/hampel.R | 9 weird-2.1.0/weird/R/hdr.R | 16 + weird-2.1.0/weird/R/kde_bandwidth.R | 19 + weird-2.1.0/weird/R/lof_scores.R | 2 weird-2.1.0/weird/R/mvscale.R |only weird-2.1.0/weird/R/peirce.R | 14 - weird-2.1.0/weird/R/stray.R | 4 weird-2.1.0/weird/R/surprisal_utils.R | 34 +-- weird-2.1.0/weird/R/surprisals.R | 14 - weird-2.1.0/weird/R/surprisals_data.R | 15 - weird-2.1.0/weird/R/surprisals_models.R | 141 +++++++++++--- weird-2.1.0/weird/R/utils.R | 7 weird-2.1.0/weird/R/weird.R | 3 weird-2.1.0/weird/R/wine_reviews.R | 5 weird-2.1.0/weird/README.md | 51 ++--- weird-2.1.0/weird/data/cricket_batting.rda |binary weird-2.1.0/weird/man/bagplot.Rd | 6 weird-2.1.0/weird/man/cricket_batting.Rd | 5 weird-2.1.0/weird/man/dist_density.Rd | 3 weird-2.1.0/weird/man/dist_kde.Rd | 7 weird-2.1.0/weird/man/fetch_wine_reviews.Rd | 2 weird-2.1.0/weird/man/figures/README-of-boxplot-1.png |binary weird-2.1.0/weird/man/figures/README-of-boxplot-2.png |binary weird-2.1.0/weird/man/figures/README-of-boxplot-3.png |binary weird-2.1.0/weird/man/figures/README-of-boxplot2-1.png |binary weird-2.1.0/weird/man/figures/README-of-boxplot2-2.png |binary weird-2.1.0/weird/man/figures/README-of-boxplot3-1.png |binary weird-2.1.0/weird/man/figures/README-of-boxplot3-2.png |binary weird-2.1.0/weird/man/figures/README-of-density-1.png |binary weird-2.1.0/weird/man/figures/README-of-density2-1.png |binary weird-2.1.0/weird/man/figures/weird-hex.png |binary weird-2.1.0/weird/man/fr_mortality.Rd | 5 weird-2.1.0/weird/man/gg_density.Rd | 4 weird-2.1.0/weird/man/gg_hdrboxplot.Rd | 2 weird-2.1.0/weird/man/grubbs_anomalies.Rd | 6 weird-2.1.0/weird/man/hampel_anomalies.Rd | 6 weird-2.1.0/weird/man/hdr_table.Rd | 8 weird-2.1.0/weird/man/kde_bandwidth.Rd | 15 - weird-2.1.0/weird/man/lof_scores.Rd | 2 weird-2.1.0/weird/man/mvscale.Rd |only weird-2.1.0/weird/man/n01.Rd | 5 weird-2.1.0/weird/man/oldfaithful.Rd | 5 weird-2.1.0/weird/man/peirce_anomalies.Rd | 6 weird-2.1.0/weird/man/reexports.Rd | 5 weird-2.1.0/weird/man/stray_anomalies.Rd | 2 weird-2.1.0/weird/man/stray_scores.Rd | 2 weird-2.1.0/weird/man/surprisals.Rd | 15 - weird-2.1.0/weird/man/surprisals_data.Rd | 21 +- weird-2.1.0/weird/man/surprisals_model.Rd | 32 ++- weird-2.1.0/weird/man/weird-package.Rd | 5 weird-2.1.0/weird/tests/testthat/test_bagplot.R |only weird-2.1.0/weird/tests/testthat/test_datasets.R |only weird-2.1.0/weird/tests/testthat/test_dist_density.R | 14 + weird-2.1.0/weird/tests/testthat/test_dist_kde1.R | 55 +++++ weird-2.1.0/weird/tests/testthat/test_dist_kde2.R | 15 + weird-2.1.0/weird/tests/testthat/test_grubbs.R |only weird-2.1.0/weird/tests/testthat/test_hampel.R |only weird-2.1.0/weird/tests/testthat/test_hdr.R |only weird-2.1.0/weird/tests/testthat/test_interpolation.R |only weird-2.1.0/weird/tests/testthat/test_kde_bandwidth.R |only weird-2.1.0/weird/tests/testthat/test_lof_glosh.R |only weird-2.1.0/weird/tests/testthat/test_mvscale.R |only weird-2.1.0/weird/tests/testthat/test_peirce.R |only weird-2.1.0/weird/tests/testthat/test_stray.R |only weird-2.1.0/weird/tests/testthat/test_surprisals_data.R |only weird-2.1.0/weird/tests/testthat/test_surprisals_models.R |only 78 files changed, 676 insertions(+), 319 deletions(-)
Title: Unified Interface for Machine Learning Models
Description: Provides a unified R6-based interface for various machine learning models with automatic interface detection, consistent cross-validation, model interpretations via numerical derivatives, and visualization. Supports both regression and classification tasks with any model function that follows R's standard modeling conventions (formula or matrix interface).
Author: T. Moudiki [aut, cre]
Maintainer: T. Moudiki <thierry.moudiki@gmail.com>
Diff between unifiedml versions 0.2.1 dated 2026-04-03 and 0.3.0 dated 2026-05-05
unifiedml-0.2.1/unifiedml/inst/doc/unifiedml-vignette.R |only unifiedml-0.2.1/unifiedml/inst/doc/unifiedml-vignette.Rmd |only unifiedml-0.2.1/unifiedml/inst/doc/unifiedml-vignette.html |only unifiedml-0.2.1/unifiedml/vignettes/unifiedml-vignette.Rmd |only unifiedml-0.3.0/unifiedml/DESCRIPTION | 10 unifiedml-0.3.0/unifiedml/MD5 | 44 + unifiedml-0.3.0/unifiedml/NAMESPACE | 6 unifiedml-0.3.0/unifiedml/NEWS.md | 25 unifiedml-0.3.0/unifiedml/R/benchmark.R |only unifiedml-0.3.0/unifiedml/R/cross_val_score.R | 273 +++++----- unifiedml-0.3.0/unifiedml/R/model.R | 39 + unifiedml-0.3.0/unifiedml/R/probs_classif.R |only unifiedml-0.3.0/unifiedml/R/train_test_split.R |only unifiedml-0.3.0/unifiedml/build/partial.rdb |binary unifiedml-0.3.0/unifiedml/build/vignette.rds |binary unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-benchmark.R |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-benchmark.Rmd |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-benchmark.html |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-caret.R |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-caret.Rmd |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-caret.html |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-predict-proba.R |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-predict-proba.Rmd |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml-predict-proba.html |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml.R |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml.Rmd |only unifiedml-0.3.0/unifiedml/inst/doc/unifiedml.html |only unifiedml-0.3.0/unifiedml/man/Model.Rd | 25 unifiedml-0.3.0/unifiedml/man/benchmark.Rd |only unifiedml-0.3.0/unifiedml/man/cross_val_score.Rd | 59 +- unifiedml-0.3.0/unifiedml/man/extract_probabilities.Rd |only unifiedml-0.3.0/unifiedml/man/train_test_split.Rd |only unifiedml-0.3.0/unifiedml/vignettes/unifiedml-benchmark.Rmd |only unifiedml-0.3.0/unifiedml/vignettes/unifiedml-caret.Rmd |only unifiedml-0.3.0/unifiedml/vignettes/unifiedml-predict-proba.Rmd |only unifiedml-0.3.0/unifiedml/vignettes/unifiedml.Rmd |only 36 files changed, 308 insertions(+), 173 deletions(-)
Title: Parametric Mortality Models, Life Tables and HMD
Description: Fit the most popular human mortality 'laws', and construct
full and abridge life tables given various input indices. A mortality
law is a parametric function that describes the dying-out process of
individuals in a population during a significant portion of their
life spans. For a comprehensive review of the most important mortality
laws see Tabeau (2001) <doi:10.1007/0-306-47562-6_1>.
Practical functions for downloading data from various human mortality
databases are provided as well.
Author: Marius D. Pascariu [aut, cre, cph] ,
Vladimir Canudas-Romo [ctb]
Maintainer: Marius D. Pascariu <mpascariu@outlook.com>
Diff between MortalityLaws versions 2.1.3 dated 2025-04-16 and 2.2.0 dated 2026-05-05
MortalityLaws-2.1.3/MortalityLaws/inst/doc/Installation.R |only MortalityLaws-2.1.3/MortalityLaws/inst/doc/Installation.Rmd |only MortalityLaws-2.1.3/MortalityLaws/inst/doc/Installation.pdf |only MortalityLaws-2.1.3/MortalityLaws/inst/doc/Intro.pdf |only MortalityLaws-2.1.3/MortalityLaws/vignettes/Installation.Rmd |only MortalityLaws-2.2.0/MortalityLaws/DESCRIPTION | 16 MortalityLaws-2.2.0/MortalityLaws/MD5 | 116 ++-- MortalityLaws-2.2.0/MortalityLaws/NAMESPACE | 2 MortalityLaws-2.2.0/MortalityLaws/R/LawTable.R | 154 +++-- MortalityLaws-2.2.0/MortalityLaws/R/LifeTable.R | 167 +++-- MortalityLaws-2.2.0/MortalityLaws/R/MortalityLaw_S3.R | 11 MortalityLaws-2.2.0/MortalityLaws/R/MortalityLaw_check.R | 15 MortalityLaws-2.2.0/MortalityLaws/R/MortalityLaw_main.R | 288 ++++++---- MortalityLaws-2.2.0/MortalityLaws/R/MortalityLaw_models.R | 13 MortalityLaws-2.2.0/MortalityLaws/R/MortalityLaws-data.R | 12 MortalityLaws-2.2.0/MortalityLaws/R/MortalityLaws-package.R | 9 MortalityLaws-2.2.0/MortalityLaws/R/availableHMD.R | 14 MortalityLaws-2.2.0/MortalityLaws/R/availableLF.R | 21 MortalityLaws-2.2.0/MortalityLaws/R/availableLaws.R | 16 MortalityLaws-2.2.0/MortalityLaws/R/convertFx.R | 89 ++- MortalityLaws-2.2.0/MortalityLaws/R/graphics.R | 16 MortalityLaws-2.2.0/MortalityLaws/R/readCHMD.R | 14 MortalityLaws-2.2.0/MortalityLaws/R/readHMD.R | 16 MortalityLaws-2.2.0/MortalityLaws/R/readJMD.R | 12 MortalityLaws-2.2.0/MortalityLaws/build/partial.rdb |binary MortalityLaws-2.2.0/MortalityLaws/build/vignette.rds |binary MortalityLaws-2.2.0/MortalityLaws/inst/doc/Installing-MortalityLaws.R |only MortalityLaws-2.2.0/MortalityLaws/inst/doc/Installing-MortalityLaws.Rmd |only MortalityLaws-2.2.0/MortalityLaws/inst/doc/Installing-MortalityLaws.html |only MortalityLaws-2.2.0/MortalityLaws/inst/doc/Intro.R | 93 +-- MortalityLaws-2.2.0/MortalityLaws/inst/doc/Intro.Rmd | 286 +++++---- MortalityLaws-2.2.0/MortalityLaws/inst/doc/Intro.html |only MortalityLaws-2.2.0/MortalityLaws/man/LawTable.Rd | 203 ++++--- MortalityLaws-2.2.0/MortalityLaws/man/LifeTable.Rd | 158 +++-- MortalityLaws-2.2.0/MortalityLaws/man/LifeTable.core.Rd | 75 +- MortalityLaws-2.2.0/MortalityLaws/man/MortalityLaw.Rd | 173 +++--- MortalityLaws-2.2.0/MortalityLaws/man/ReadAHMD.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/ReadCHMD.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/ReadHMD.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/ReadHMD.core.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/ReadJMD.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/addDetails.Rd | 34 - MortalityLaws-2.2.0/MortalityLaws/man/ahmd.Rd | 4 MortalityLaws-2.2.0/MortalityLaws/man/availableHMD.Rd | 6 MortalityLaws-2.2.0/MortalityLaws/man/availableLF.Rd | 6 MortalityLaws-2.2.0/MortalityLaws/man/availableLaws.Rd | 9 MortalityLaws-2.2.0/MortalityLaws/man/bring_parameters.Rd | 5 MortalityLaws-2.2.0/MortalityLaws/man/check.MortalityLaw.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/check_input_ReadCHMD.Rd | 36 - MortalityLaws-2.2.0/MortalityLaws/man/check_input_ReadJMD.Rd | 6 MortalityLaws-2.2.0/MortalityLaws/man/choose_optim.Rd | 25 MortalityLaws-2.2.0/MortalityLaws/man/coale.demeny.ax.Rd | 30 - MortalityLaws-2.2.0/MortalityLaws/man/compute.ax.Rd | 12 MortalityLaws-2.2.0/MortalityLaws/man/convertFx.Rd | 88 ++- MortalityLaws-2.2.0/MortalityLaws/man/find.my.case.Rd | 26 MortalityLaws-2.2.0/MortalityLaws/man/logLik.MortalityLaw.Rd | 2 MortalityLaws-2.2.0/MortalityLaws/man/mx_qx.Rd | 5 MortalityLaws-2.2.0/MortalityLaws/man/objective_fun.Rd | 77 +- MortalityLaws-2.2.0/MortalityLaws/man/plot.MortalityLaw.Rd | 10 MortalityLaws-2.2.0/MortalityLaws/man/scale_x.Rd | 11 MortalityLaws-2.2.0/MortalityLaws/man/uxAbove100.Rd | 5 MortalityLaws-2.2.0/MortalityLaws/vignettes/Installing-MortalityLaws.Rmd |only MortalityLaws-2.2.0/MortalityLaws/vignettes/Intro.Rmd | 286 +++++---- MortalityLaws-2.2.0/MortalityLaws/vignettes/Mlaw_Refrences.bib | 2 64 files changed, 1630 insertions(+), 1056 deletions(-)
Title: Functional Data Sets
Description: Functional data sets.
Author: Han Lin Shang [aut, cre, cph] ,
Rob Hyndman [aut]
Maintainer: Han Lin Shang <hanlin.shang@mq.edu.au>
Diff between fds versions 1.8 dated 2018-10-31 and 1.9 dated 2026-05-05
CHANGELOG | 5 +++++ DESCRIPTION | 19 +++++++++++++------ MD5 | 36 ++++++++++++++++++++---------------- NAMESPACE | 3 --- R/read.jpn.R |only R/read.jpn_death.R |only man/Cancerrate.Rd | 2 +- man/ECBYieldcurve.Rd | 2 +- man/Electricityconsumption.Rd | 4 ++-- man/Fat.Rd | 4 ++-- man/FedYieldcurve.Rd | 4 +--- man/Phoneme.Rd | 4 ++-- man/SOI.Rd | 2 +- man/Satellite.Rd | 2 +- man/Spanishmigration.Rd | 2 +- man/Yieldcurve.Rd | 2 +- man/hmdcountry.Rd | 2 +- man/hmdstatistic.Rd | 2 +- man/read.hmd.Rd | 2 +- man/read.jpn.Rd |only man/read.jpn_death.Rd |only 21 files changed, 54 insertions(+), 43 deletions(-)
Title: Easily Extracting Information About Your Data
Description: Makes it easy to display descriptive information on a data
set. Getting an easy overview of a data set by displaying and
visualizing sample information in different tables (e.g., time and
scope conditions). The package also provides publishable 'LaTeX' code
to present the sample information.
Author: Cosima Meyer [cre, aut],
Dennis Hammerschmidt [aut]
Maintainer: Cosima Meyer <cosima.meyer@gmail.com>
Diff between overviewR versions 0.0.13 dated 2023-02-15 and 0.0.14 dated 2026-05-05
DESCRIPTION | 12 MD5 | 36 +- NAMESPACE | 2 NEWS.md | 24 + R/overview_markdown.R |only R/overview_na.R | 22 + R/overview_overlap.R | 38 ++ R/overview_plot.R | 202 ++++++++----- README.md | 42 ++ build/vignette.rds |binary inst/doc/getting-started.R | 10 inst/doc/getting-started.html | 20 - inst/doc/overviewR_vignette.R | 347 +++++++++++++--------- inst/doc/overviewR_vignette.Rmd | 164 +++++++++- inst/doc/overviewR_vignette.html | 573 ++++++++++++++++++++++--------------- man/overview_markdown.Rd |only man/overview_overlap.Rd | 12 man/overview_plot.Rd | 7 tests/testthat/test-check_output.R | 87 +++++ vignettes/overviewR_vignette.Rmd | 164 +++++++++- 20 files changed, 1265 insertions(+), 497 deletions(-)
Title: Embedding 'exams' Exercises as Forms in 'rmarkdown' or 'quarto'
Documents
Description: Automatic generation of quizzes or individual questions as (interactive) forms within 'rmarkdown' or 'quarto' documents based on 'R/exams' exercises.
Author: Achim Zeileis [aut, cre] ,
Reto Stauffer [aut] ,
Dale Barr [ctb] ,
Lisa DeBruine [ctb] ,
Florian Stampfer [ctb] ,
Jonas Tscholl [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between exams2forms versions 0.2-0 dated 2025-05-02 and 0.2-1 dated 2026-05-05
exams2forms-0.2-0/exams2forms/inst/forms/questions.html |only exams2forms-0.2-0/exams2forms/inst/forms/quiz.html |only exams2forms-0.2-1/exams2forms/DESCRIPTION | 8 exams2forms-0.2-1/exams2forms/MD5 | 18 - exams2forms-0.2-1/exams2forms/NEWS.md | 13 + exams2forms-0.2-1/exams2forms/R/exams2forms.R | 2 exams2forms-0.2-1/exams2forms/build/vignette.rds |binary exams2forms-0.2-1/exams2forms/inst/doc/exams2forms.html | 169 ++++++++-------- exams2forms-0.2-1/exams2forms/inst/webex/webex.css | 1 exams2forms-0.2-1/exams2forms/inst/webex/webex.js | 44 ++-- exams2forms-0.2-1/exams2forms/man/exams2forms.Rd | 4 11 files changed, 151 insertions(+), 108 deletions(-)
Title: Biometric Exploratory Analysis Creation House
Description: A platform for interactive data analysis designed to simplify development, deployment, interaction, and exploration (TEDDIE). The package enables users to create customized analyses and deploy them to end users, who can perform interactive analyses and export results to RTF or HTML files. It allows developers to focus on R code for analysis rather than managing HTML or Shiny application code.
Author: Danni Yu [aut, cre],
Michael Man [aut],
ChenChen Yu [ctb]
Maintainer: Danni Yu <danni.yu@gmail.com>
Diff between BEACH versions 1.3.1 dated 2019-02-11 and 1.3.2 dated 2026-05-05
BEACH-1.3.1/BEACH/R/runBEACH.R |only BEACH-1.3.1/BEACH/build |only BEACH-1.3.1/BEACH/inst |only BEACH-1.3.1/BEACH/man |only BEACH-1.3.2/BEACH/DESCRIPTION | 26 +++++-------- BEACH-1.3.2/BEACH/LICENSE |only BEACH-1.3.2/BEACH/MD5 | 81 +++++++++++++++++++++++++---------------- BEACH-1.3.2/BEACH/NAMESPACE | 12 +----- BEACH-1.3.2/BEACH/R/inst |only BEACH-1.3.2/BEACH/R/run_app.R |only BEACH-1.3.2/BEACH/README.md |only 11 files changed, 63 insertions(+), 56 deletions(-)
Title: Recursive Non-Additive Emulator for Multi-Fidelity Data
Description: Performs RNA emulation and active learning proposed by Heo and Sung (2025) <doi:10.1080/00401706.2024.2376173> for multi-fidelity computer experiments. The RNA emulator is particularly useful when the simulations with different fidelity level are nonlinearly correlated. The hyperparameters in the model are estimated by maximum likelihood estimation.
Author: Junoh Heo [aut, cre],
Chih-Li Sung [aut]
Maintainer: Junoh Heo <heojunoh@msu.edu>
Diff between RNAmf versions 1.1.3 dated 2026-01-29 and 1.1.4 dated 2026-05-05
DESCRIPTION | 8 +- MD5 | 10 +-- NAMESPACE | 12 +--- R/AL_RNAmf.R | 16 ++--- R/RNAmf.R | 163 +++++++++++++++++++++++++++++++++++++++-------------------- man/RNAmf.Rd | 2 6 files changed, 130 insertions(+), 81 deletions(-)
Title: Running Local LLMs with 'llama.cpp' Backend
Description: Provides R bindings to the 'llama.cpp' library for running large language models.
The package uses a lightweight architecture where the C++ backend library is downloaded
at runtime rather than bundled with the package.
Package features include text generation, reproducible generation, and parallel inference.
Author: Eddie Yang [aut] ,
Yaosheng Xu [aut, cre]
Maintainer: Yaosheng Xu <xu2009@purdue.edu>
Diff between localLLM versions 1.2.1 dated 2026-02-26 and 1.3.0 dated 2026-05-05
DESCRIPTION | 10 - MD5 | 91 ++++++------ NEWS.md | 95 ++++++++++++ R/annotations.R | 4 R/api.R | 150 +++++++++++++++----- R/documentation.R | 4 R/gemma_chat_template.R | 8 - R/install.R | 138 +++++++++++++++--- R/quick_llama.R | 53 +++---- R/zzz.R | 4 inst/doc/faq.R | 19 ++ inst/doc/faq.Rmd | 53 +++++-- inst/doc/faq.html | 168 +++++++++++++++------- inst/doc/get-started.R | 10 + inst/doc/get-started.Rmd | 22 ++ inst/doc/get-started.html | 62 ++++++-- inst/doc/tutorial-basic-generation.R | 16 ++ inst/doc/tutorial-basic-generation.Rmd | 41 +++++ inst/doc/tutorial-basic-generation.html | 105 ++++++++++++-- inst/doc/tutorial-model-comparison.R | 14 + inst/doc/tutorial-model-comparison.Rmd | 18 +- inst/doc/tutorial-model-comparison.html | 102 +++++++------ inst/doc/tutorial-parallel-processing.R | 8 - inst/doc/tutorial-parallel-processing.Rmd | 51 +++++- inst/doc/tutorial-parallel-processing.html | 216 +++++++++++++++++++---------- man/apply_chat_template.Rd | 3 man/document_start.Rd | 4 man/explore.Rd | 4 man/generate.Rd | 20 ++ man/generate_parallel.Rd | 27 +++ man/install_localLLM.Rd | 24 ++- man/localLLM-package.Rd | 4 man/model_load.Rd | 10 + man/model_metadata.Rd |only man/quick_llama.Rd | 12 - man/quick_llama_reset.Rd | 4 man/smart_chat_template.Rd | 9 - src/init.cpp | 14 + src/interface.cpp | 89 ++++++++--- src/localllm_capi.h | 8 - src/proxy.cpp | 8 - src/proxy.h | 6 vignettes/faq.Rmd | 53 +++++-- vignettes/get-started.Rmd | 22 ++ vignettes/tutorial-basic-generation.Rmd | 41 +++++ vignettes/tutorial-model-comparison.Rmd | 18 +- vignettes/tutorial-parallel-processing.Rmd | 51 +++++- 47 files changed, 1432 insertions(+), 461 deletions(-)
Title: A Unified and Longitudinally Aware Framework for ICD-Based
Comorbidity Assessment
Description: Provides comorbidity classification algorithms such as the
Pediatric Complex Chronic Conditions (PCCC), Charlson, and Elixhauser indices,
supports longitudinal comorbidity flagging across encounters, and includes
utilities for working with medical coding schemas such as the International
Classification of Diseases (ICD).
Author: Peter DeWitt [aut, cre, cov] ,
Tell Bennett [ctb] ,
Seth Russell [ctb] ,
Meg Rebull [ctb] ,
Vincent Rubinetti [cov]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between medicalcoder versions 0.8.0 dated 2026-02-22 and 0.8.1 dated 2026-05-05
DESCRIPTION | 8 MD5 | 54 +-- NEWS.md | 14 R/comorbidities.R | 20 + R/lookup_icd_codes.R | 32 +- R/summary.R | 17 - R/sysdata.rda |binary R/utilities.R | 2 README.md | 13 build/vignette.rds |binary data/mdcr.rda |binary data/mdcr_longitudinal.rda |binary inst/doc/charlson.html | 14 inst/doc/comorbidities.html | 14 inst/doc/elixhauser.html | 2 inst/doc/icd.html | 662 +++++++++++++++++++++--------------------- inst/doc/pccc.html | 42 +- man/icd_compact_to_full.Rd | 6 man/is_icd.Rd | 6 man/lookup_icd_codes.Rd | 6 man/mdcr.Rd | 2 man/mdcr_longitudinal.Rd | 2 man/medicalcoder-package.Rd | 5 tests/results_pccc_1.0.7.rds |binary tests/test-comorbidities.R | 61 +++ tests/test-lookup_icd_codes.R | 12 tests/test-pccc-deltas.R | 4 tests/test-summary-charlson.R | 38 ++ 28 files changed, 604 insertions(+), 432 deletions(-)
Title: Pathwise Estimation of Covariate Balancing Propensity Scores
Description: Provides pathwise estimation of regularized logistic propensity
score models using covariate balancing loss functions rather than maximum
likelihood. Regularization paths are fit via the 'adelie' elastic-net
solver with a 'glmnet'-like interface, yielding balancing weights that target
covariate balance for the ATE and ATT.
For details, see Sverdrup & Hastie (2026) <doi:10.48550/arXiv.2602.18577>.
Author: Erik Sverdrup [aut, cre],
Trevor Hastie [aut],
James Yang [ctb] )
Maintainer: Erik Sverdrup <erik.sverdrup@monash.edu>
Diff between balnet versions 0.0.1 dated 2026-04-03 and 0.0.2 dated 2026-05-04
DESCRIPTION | 13 +++++++------ MD5 | 36 ++++++++++++++++++------------------ R/balnet.R | 18 ++++++++++++++++-- R/balnet.fit.R | 6 ++++-- R/cv.balnet.R | 21 ++++++++++++++++----- inst/doc/balnet.Rmd | 12 ++++++++++-- inst/doc/balnet.html | 19 ++++++++++++++++--- man/balnet.Rd | 10 +++++++--- man/balweights.Rd | 2 ++ man/coef.balnet.Rd | 2 ++ man/coef.cv.balnet.Rd | 4 +++- man/cv.balnet.Rd | 5 ++++- man/plot.balnet.Rd | 2 ++ man/plot.cv.balnet.Rd | 4 +++- man/predict.balnet.Rd | 2 ++ man/predict.cv.balnet.Rd | 4 +++- man/print.balnet.Rd | 2 ++ man/print.cv.balnet.Rd | 4 +++- vignettes/balnet.Rmd | 12 ++++++++++-- 19 files changed, 130 insertions(+), 48 deletions(-)
Title: Spatial Sampling Design and Analysis
Description: A design-based approach to statistical inference, with a focus on spatial data. Spatially balanced samples are selected using the Generalized Random Tessellation Stratified (GRTS) algorithm. The GRTS algorithm can be applied to finite resources (point geometries) and infinite resources (linear / linestring and areal / polygon geometries) and flexibly accommodates a diverse set of sampling design features, including stratification, unequal inclusion probabilities, proportional (to size) inclusion probabilities, legacy (historical) sites, a minimum distance between sites, and two options for replacement sites (reverse hierarchical order and nearest neighbor). Data are analyzed using a wide range of analysis functions that perform categorical variable analysis, continuous variable analysis, attributable risk analysis, risk difference analysis, relative risk analysis, change analysis, and trend analysis. spsurvey can also be used to summarize objects, visualize objects, select samples that [...truncated...]
Author: Michael Dumelle [aut, cre] ,
Tom Kincaid [aut],
Anthony R. Olsen [aut],
Marc Weber [aut],
Don Stevens [ctb],
Denis White [ctb],
Amanda M. Nahlik [ctb],
Sarah Lehmann [ctb]
Maintainer: Michael Dumelle <Dumelle.Michael@epa.gov>
Diff between spsurvey versions 5.6.0 dated 2025-09-29 and 5.6.1 dated 2026-05-04
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 7 R/cont_cdftest.R | 2 inst/doc/start-here.R | 2 man/cont_cdftest.Rd | 2 man/figures/logo.png |binary tests/testthat/test-cont_cdftest.R | 286 ++++++++++++++++++------------------- 8 files changed, 163 insertions(+), 156 deletions(-)
Title: Automated Reporting of Results and Statistical Models
Description: The aim of the 'report' package is to bridge the gap between
R’s output and the formatted results contained in your manuscript.
This package converts statistical models and data frames into textual
reports suited for publication, ensuring standardization and quality
in results reporting.
Author: Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Indrajeet Patil [aut] ,
Remi Theriault [aut, cre] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Rudolf Siegel [ctb] ,
Camden Bock [ctb]
Maintainer: Remi Theriault <remi.theriault@mail.mcgill.ca>
Diff between report versions 0.6.3 dated 2026-01-08 and 0.6.4 dated 2026-05-04
DESCRIPTION | 14 MD5 | 26 - NEWS.md | 8 R/report.character.R | 13 R/report_parameters.R | 5 R/report_participants.R | 20 - build/vignette.rds |binary inst/doc/cite_packages.html | 10 inst/doc/report.html | 289 ++++++++++---------- man/reexports.Rd | 2 man/report-package.Rd | 1 man/report.compare.loo.Rd | 2 tests/testthat/_snaps/windows/report.data.frame.md | 299 ++++++++++----------- tests/testthat/test-report_basic_methods.R | 31 ++ 14 files changed, 384 insertions(+), 336 deletions(-)
Title: Quantitative Trait Locus Mapping in Experimental Crosses
Description: Provides a set of tools to perform quantitative
trait locus (QTL) analysis in experimental crosses. It is a
reimplementation of the 'R/qtl' package to better handle
high-dimensional data and complex cross designs.
Broman et al. (2019) <doi:10.1534/genetics.118.301595>.
Author: Karl W Broman [aut, cre] ,
R Core Team [ctb]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl2 versions 0.38 dated 2025-06-02 and 0.40 dated 2026-05-04
DESCRIPTION | 10 +++---- MD5 | 49 +++++++++++++++++++------------------ NAMESPACE | 3 ++ NEWS.md | 32 +++++++++++++++++++++--- R/dim_calc_genoprob.R | 2 + R/est_herit.R | 4 +-- R/fit1.R | 6 +++- R/grayplot.R |only R/plot_ci.R |only R/plot_coef.R | 2 - R/plot_peaks.R | 2 - R/plot_pxg.R | 2 - R/scan1.R | 6 ++-- build/partial.rdb |binary data/CCaltcolors.RData |binary data/CCcolors.RData |binary data/CCorigcolors.RData |binary man/est_herit.Rd | 4 +-- man/fit1.Rd | 6 +++- man/plot_ci.Rd |only man/plot_coef.Rd | 2 - man/plot_peaks.Rd | 2 - man/plot_pxg.Rd | 2 - man/qtl2-package.Rd | 5 +++ man/scan1.Rd | 6 ++-- src/matrix.cpp | 2 - tests/testthat/test-scan1coef_pg.R | 37 +++++++++++++++++++++++---- 27 files changed, 128 insertions(+), 56 deletions(-)
Title: Gathering Metadata About Publications, Grants, Clinical Trials
from 'PubMed' Database
Description: A set of tools to extract bibliographic content from 'PubMed' database
using 'NCBI' REST API <https://www.ncbi.nlm.nih.gov/home/develop/api/>.
It includes functions to search, download, and convert 'PubMed' bibliographic
records into data frames compatible with the 'bibliometrix' package.
Features include programmatic query building, batch downloading by PMID,
citation enrichment via 'NCBI' E-Link, and robust error handling with
automatic retry logic.
Author: Massimo Aria [aut, cre]
Maintainer: Massimo Aria <massimo.aria@gmail.com>
Diff between pubmedR versions 1.0.0 dated 2026-04-15 and 1.0.2 dated 2026-05-04
DESCRIPTION | 6 MD5 | 18 +- NAMESPACE | 1 NEWS | 39 ++++++ R/pmApi2df.R | 35 +++++ R/pmCitedBy.R | 211 +++++++++++++++++++++++++-------- R/pmExtractReferences.R |only R/utils.R | 267 ++++++++++++++++++++++++++++++++++++++++++ inst/doc/A_Brief_Example.html | 2 man/pmEnrichCitations.Rd | 76 ++++++++--- man/pmExtractReferences.Rd |only 11 files changed, 569 insertions(+), 86 deletions(-)
Title: Tools to Accompany the 'psych' Package for Psychological
Research
Description: Support functions, data sets, and vignettes for the 'psych' package. Contains several of the biggest data sets for the 'psych' package as well as four vignettes. A few helper functions for file manipulation are included as well. For more information, see the <https://personality-project.org/r/> web page.
Author: William Revelle [aut, cre]
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psychTools versions 2.5.7.22 dated 2025-06-22 and 2.6.4 dated 2026-05-04
DESCRIPTION | 10 +- MD5 | 58 ++++++++-------- NAMESPACE | 9 +- R/df2latex.R | 149 ------------------------------------------- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 4 - inst/NEWS.Rd | 17 ++++ inst/doc/factor.R | 163 +++++++++++++++++++++++++++++------------------ inst/doc/factor.Rnw | 155 +++++++++++++++++++++++++++++++++++---------- inst/doc/factor.pdf |binary inst/doc/intro.R | 60 ++++++++--------- inst/doc/intro.Rnw | 47 +++++++------ inst/doc/intro.pdf |binary inst/doc/mediation.R | 2 inst/doc/mediation.pdf |binary inst/doc/mediation.rnw | 25 +++---- inst/doc/omega.R | 2 inst/doc/omega.Rnw | 46 ++++++------- inst/doc/omega.pdf |binary inst/doc/overview.R | 165 +++++++++++++++++++++++++++++------------------- inst/doc/overview.Rnw | 114 ++++++++++++++++++++++++++++----- inst/doc/overview.pdf |binary man/df2latex.Rd | 44 ++---------- man/psychTools.Rd | 3 vignettes/factor.Rnw | 155 +++++++++++++++++++++++++++++++++++---------- vignettes/intro.Rnw | 47 +++++++------ vignettes/mediation.rnw | 25 +++---- vignettes/omega.Rnw | 46 ++++++------- vignettes/overview.Rnw | 114 ++++++++++++++++++++++++++++----- 30 files changed, 862 insertions(+), 598 deletions(-)
Title: Additional Binary Operators
Description: A set of binary operators for common tasks such as regex
manipulation.
Author: Romain Francois [cre, aut]
Maintainer: Romain Francois <romain@tada.science>
Diff between operators versions 0.1-8 dated 2015-07-11 and 0.2.0 dated 2026-05-04
operators-0.1-8/operators/man/o.Rd |only operators-0.1-8/operators/man/operators-package.Rd |only operators-0.1-8/operators/man/without.Rd |only operators-0.2.0/operators/DESCRIPTION | 16 - operators-0.2.0/operators/MD5 | 50 ++-- operators-0.2.0/operators/NAMESPACE | 71 +++--- operators-0.2.0/operators/NEWS.md |only operators-0.2.0/operators/R/etopt.R | 67 +++++- operators-0.2.0/operators/R/file.R | 109 +++++++--- operators-0.2.0/operators/R/operators.R | 77 ++++++- operators-0.2.0/operators/R/patternFilter.R |only operators-0.2.0/operators/R/patternMatching.R | 85 ++++++-- operators-0.2.0/operators/R/patternRemoving.R | 177 ++++++++++++++--- operators-0.2.0/operators/R/pipe.R |only operators-0.2.0/operators/R/plusEqual.R | 18 + operators-0.2.0/operators/R/withOption.R | 52 ++++ operators-0.2.0/operators/man/but.Rd | 74 +++---- operators-0.2.0/operators/man/decorator.Rd | 37 +-- operators-0.2.0/operators/man/files.Rd | 105 ++++------ operators-0.2.0/operators/man/grapes-without-grapes.Rd |only operators-0.2.0/operators/man/notIn.Rd | 26 +- operators-0.2.0/operators/man/of.Rd | 22 +- operators-0.2.0/operators/man/pattern.Rd | 133 +++++------- operators-0.2.0/operators/man/patternDivision.Rd | 50 ++-- operators-0.2.0/operators/man/patternFilter.Rd | 109 +++++----- operators-0.2.0/operators/man/patternRemoving.Rd |only operators-0.2.0/operators/man/patternSubstitution.Rd | 162 +++++++-------- operators-0.2.0/operators/man/pipe.Rd | 55 +---- operators-0.2.0/operators/man/plusEqual.Rd | 45 +--- operators-0.2.0/operators/man/withOption.Rd | 89 ++++---- 30 files changed, 982 insertions(+), 647 deletions(-)
Title: Shared Memory Multithreading
Description: This project extends 'R' with a mechanism for efficient parallel data access by utilizing 'C++' shared memory. Large data objects can be accessed and manipulated directly from 'R' without redundant copying, providing both speed and memory efficiency. Memshare was published in Thrun, M.C., Märte J.: "Memshare: Memory Sharing for Multicore Computation in R with an Application to Feature Selection by Mutual Information using PDE" (2026), R Journal, <DOI:10.32614/RJ-2025-043>.
Author: Julian Maerte [aut, ctr] ,
Romain Francois [ctb],
Michael Thrun [aut, ths, rev, cph, cre]
Maintainer: Michael Thrun <m.thrun@gmx.net>
Diff between memshare versions 1.1.0 dated 2025-12-05 and 1.1.1 dated 2026-05-04
DESCRIPTION | 14 MD5 | 20 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 45 inst/doc/memshare.Rmd | 2 inst/doc/memshare.html | 3672 ++++++++++++++++++++++++------------------------- man/memApply.Rd | 3 man/memLapply.Rd | 3 vignettes/memshare.Rmd | 2 11 files changed, 1888 insertions(+), 1875 deletions(-)
Title: Kernel Density Estimation with Parametric Starts and Asymmetric
Kernels
Description: Handles univariate non-parametric density estimation with
parametric starts and asymmetric kernels in a simple and flexible way.
Kernel density estimation with parametric starts involves fitting a
parametric density to the data before making a correction with kernel
density estimation, see Hjort & Glad (1995) <doi:10.1214/aos/1176324627>.
Asymmetric kernels make kernel density estimation more efficient on bounded
intervals such as (0, 1) and the positive half-line. Supported asymmetric
kernels are the gamma kernel of Chen (2000) <doi:10.1023/A:1004165218295>,
the beta kernel of Chen (1999) <doi:10.1016/S0167-9473(99)00010-9>, and the
copula kernel of Jones & Henderson (2007) <doi:10.1093/biomet/asm068>.
User-supplied kernels, parametric starts, and bandwidths are supported.
Author: Jonas Moss [aut, cre] ,
Martin Tveten [ctb]
Maintainer: Jonas Moss <jonas.gjertsen@gmail.com>
Diff between kdensity versions 1.1.1 dated 2025-03-04 and 1.2.0 dated 2026-05-04
kdensity-1.1.1/kdensity/R/builtin_bandwidths.R |only kdensity-1.1.1/kdensity/R/builtin_bandwidths_get_bw.R |only kdensity-1.1.1/kdensity/R/builtin_bandwidths_ucv_helpers.R |only kdensity-1.1.1/kdensity/R/builtin_kernels.R |only kdensity-1.1.1/kdensity/R/builtin_kernels_get_kernel.R |only kdensity-1.1.1/kdensity/R/builtin_starts_get_start.R |only kdensity-1.1.1/kdensity/R/builtin_starts_list.R |only kdensity-1.1.1/kdensity/R/cran.r |only kdensity-1.1.1/kdensity/R/kdensity_helpers.R |only kdensity-1.1.1/kdensity/R/utility_functions.R |only kdensity-1.1.1/kdensity/man/add_bw.Rd |only kdensity-1.1.1/kdensity/man/listmerge.Rd |only kdensity-1.1.1/kdensity/man/recycle.Rd |only kdensity-1.1.1/kdensity/tests/testthat/Rplots.pdf |only kdensity-1.2.0/kdensity/DESCRIPTION | 12 - kdensity-1.2.0/kdensity/MD5 | 74 ++---- kdensity-1.2.0/kdensity/NEWS.md | 16 + kdensity-1.2.0/kdensity/R/bandwidths.R |only kdensity-1.2.0/kdensity/R/generics.R | 17 - kdensity-1.2.0/kdensity/R/helpers.R |only kdensity-1.2.0/kdensity/R/kdensity.R | 29 -- kdensity-1.2.0/kdensity/R/kernels.R |only kdensity-1.2.0/kdensity/R/starts.R |only kdensity-1.2.0/kdensity/README.md | 115 +++++----- kdensity-1.2.0/kdensity/build/vignette.rds |binary kdensity-1.2.0/kdensity/inst/doc/tutorial.R | 19 - kdensity-1.2.0/kdensity/inst/doc/tutorial.Rmd | 30 -- kdensity-1.2.0/kdensity/inst/doc/tutorial.html | 57 +--- kdensity-1.2.0/kdensity/man/add_kernel.Rd | 2 kdensity-1.2.0/kdensity/man/add_start.Rd | 2 kdensity-1.2.0/kdensity/man/bandwidths.Rd | 7 kdensity-1.2.0/kdensity/man/figures/README-example-1.png |binary kdensity-1.2.0/kdensity/man/get_bw.Rd | 2 kdensity-1.2.0/kdensity/man/get_kernel.Rd | 2 kdensity-1.2.0/kdensity/man/get_kernel_start_support.Rd | 2 kdensity-1.2.0/kdensity/man/get_standard_bw.Rd | 2 kdensity-1.2.0/kdensity/man/get_start.Rd | 2 kdensity-1.2.0/kdensity/man/kdensity.Rd | 21 - kdensity-1.2.0/kdensity/man/kernels.Rd | 2 kdensity-1.2.0/kdensity/man/parametric_starts.Rd | 4 kdensity-1.2.0/kdensity/man/support_compatible.Rd | 2 kdensity-1.2.0/kdensity/tests/testthat/test_assignments.R | 13 + kdensity-1.2.0/kdensity/tests/testthat/test_bandwidth.r | 49 +++- kdensity-1.2.0/kdensity/tests/testthat/test_kdensity_helpers.R | 5 kdensity-1.2.0/kdensity/tests/testthat/test_univariateML.R | 15 + kdensity-1.2.0/kdensity/tests/testthat/test_utility_functions.R | 34 -- kdensity-1.2.0/kdensity/vignettes/tutorial.Rmd | 30 -- 47 files changed, 249 insertions(+), 316 deletions(-)
Title: Measuring Functional Diversity (FD) from Multiple Traits, and
Other Tools for Functional Ecology
Description: Computes different multidimensional FD indices. Implements a distance-based framework to measure FD that allows any number and type of functional traits, and can also consider species relative abundances. Also contains other useful tools for functional ecology.
Author: Etienne Laliberte [aut, cre],
Pierre Legendre [aut],
Bill Shipley [aut]
Maintainer: Etienne Laliberte <etiennelaliberte@gmail.com>
Diff between FD versions 1.0-12.3 dated 2023-11-26 and 1.0-12.5 dated 2026-05-04
FD-1.0-12.3/FD/src/gowdis.c |only FD-1.0-12.5/FD/DESCRIPTION | 26 ++++++++++++++++++------- FD-1.0-12.5/FD/MD5 | 39 +++++++++++++++++++------------------- FD-1.0-12.5/FD/NAMESPACE | 11 ++++++++-- FD-1.0-12.5/FD/R/dbFD.R | 1 FD-1.0-12.5/FD/R/gowdis.R | 2 - FD-1.0-12.5/FD/inst/CITATION | 38 +++++++++++++++++++++---------------- FD-1.0-12.5/FD/inst/NEWS | 4 +++ FD-1.0-12.5/FD/man/FD-package.Rd | 7 ++++-- FD-1.0-12.5/FD/man/dbFD.Rd | 8 +++++-- FD-1.0-12.5/FD/man/dummy.Rd | 4 ++- FD-1.0-12.5/FD/man/fdisp.Rd | 4 ++- FD-1.0-12.5/FD/man/functcomp.Rd | 5 +++- FD-1.0-12.5/FD/man/gowdis.Rd | 4 ++- FD-1.0-12.5/FD/man/mahaldis.Rd | 2 - FD-1.0-12.5/FD/man/maxent.Rd | 3 +- FD-1.0-12.5/FD/man/maxent.test.Rd | 3 +- FD-1.0-12.5/FD/man/simul.dbFD.Rd | 2 - FD-1.0-12.5/FD/man/tussock.Rd | 6 +++-- FD-1.0-12.5/FD/src/gowdisC.c |only FD-1.0-12.5/FD/src/init.c |only FD-1.0-12.5/FD/src/itscale5.f | 3 ++ 22 files changed, 113 insertions(+), 59 deletions(-)
Title: String Distance Calculation with Tidy Data Principles
Description: Calculation of string distance following the tidy
data principles. Built on top of the 'stringdist' package.
Author: Colin Fay [aut, cre] ,
Dmytro Perepolkin [ctb]
Maintainer: Colin Fay <contact@colinfay.me>
Diff between tidystringdist versions 0.1.4 dated 2019-03-20 and 0.1.6 dated 2026-05-04
tidystringdist-0.1.4/tidystringdist/inst/doc/tests_and_coverage.R |only tidystringdist-0.1.4/tidystringdist/inst/doc/tests_and_coverage.Rmd |only tidystringdist-0.1.4/tidystringdist/inst/doc/tests_and_coverage.html |only tidystringdist-0.1.4/tidystringdist/tests/README.md |only tidystringdist-0.1.4/tidystringdist/vignettes/tests_and_coverage.Rmd |only tidystringdist-0.1.6/tidystringdist/DESCRIPTION | 18 tidystringdist-0.1.6/tidystringdist/MD5 | 23 tidystringdist-0.1.6/tidystringdist/NEWS.md | 18 tidystringdist-0.1.6/tidystringdist/R/tidycomb.R | 4 tidystringdist-0.1.6/tidystringdist/README.md | 6 tidystringdist-0.1.6/tidystringdist/build/vignette.rds |binary tidystringdist-0.1.6/tidystringdist/inst/doc/Getting_started.R | 20 tidystringdist-0.1.6/tidystringdist/inst/doc/Getting_started.html | 322 +++++----- tidystringdist-0.1.6/tidystringdist/man/tidy_stringdist.Rd | 10 tidystringdist-0.1.6/tidystringdist/tests/testthat/test-tidy_string_dist.R | 24 15 files changed, 238 insertions(+), 207 deletions(-)
More information about tidystringdist at CRAN
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Title: A Stochastic Weather Generator with Seasonality
Description: A weather generator to simulate precipitation and temperature for regions with seasonality. Users input training data containing precipitation, temperature, and seasonality (up to 26 seasons). Including weather season as a training variable allows users to explore the effects of potential changes in season duration as well as average start- and end-time dates due to phenomena like climate change. Data for training should be a single time series but can originate from station data, basin averages, grid cells, etc.
Bearup, L., Gangopadhyay, S., & Mikkelson, K. (2021). "Hydroclimate Analysis Lower Santa Cruz River Basin Study (Technical Memorandum No ENV-2020-056)." Bureau of Reclamation.
Gangopadhyay, S., Bearup, L. A., Verdin, A., Pruitt, T., Halper, E., & Shamir, E. (2019, December 1). "A collaborative stochastic weather generator for climate impacts assessment in the Lower Santa Cruz River Basin, Arizona." Fall Meeting 2019, American Geophysical Union. <https://ui.adsabs.ha [...truncated...]
Author: Subhrendu Gangopadhyay [aut],
Lindsay Bearup [aut],
David Woodson [aut, cre],
Marketa McGuire [aut],
Andrew Verdin [aut],
Eylon Shamir [aut],
Eve Halper [aut]
Maintainer: David Woodson <dwoodson@usbr.gov>
Diff between wxgenR versions 1.4.4 dated 2025-04-14 and 1.4.5 dated 2026-05-04
DESCRIPTION | 8 MD5 | 38 - NAMESPACE | 2 R/generate_TmaxTmin.R | 14 R/lib.R | 75 ++ R/multisite_shuffle.R | 663 ++++++++++++---------- R/prepData.R | 15 R/simPamt.R | 200 +++--- R/simTPocc.R | 37 - R/writeSim.R | 9 R/wx.R | 24 R/zzz.R | 10 build/vignette.rds |binary data/BlacksburgVA.rda |binary data/LowerSantaCruzRiverBasinAZ.rda |binary data/stationData.rda |binary inst/doc/Vignette_BlacksburgVA.html | 151 ++--- inst/doc/Vignette_LowerSantaCruzRiverBasinAZ.html | 112 ++- man/multisite_shuffle.Rd | 9 man/wxgenR-package.Rd | 1 20 files changed, 781 insertions(+), 587 deletions(-)
Title: Thurstonian CFA and Thurstonian IRT Modeling
Description: Fit Thurstonian forced-choice models (CFA (simple and factor) and IRT) in R. This package allows for the analysis of item response modeling (IRT) as well as confirmatory factor analysis (CFA) in the Thurstonian framework. Currently, estimation can be performed by 'Mplus' and 'lavaan'. References:
Brown & Maydeu-Olivares (2011) <doi:10.1177/0013164410375112>;
Jansen, M. T., & Schulze, R. (in review). The Thurstonian linked block design: Improving Thurstonian modeling for paired comparison and ranking data.;
Maydeu-Olivares & Böckenholt (2005) <doi:10.1037/1082-989X.10.3.285>.
Author: Markus Thomas Jansen [aut, cre]
Maintainer: Markus Thomas Jansen <mjansen@uni-wuppertal.de>
Diff between ThurMod versions 1.1.15 dated 2026-04-08 and 1.1.20 dated 2026-05-04
DESCRIPTION | 8 - MD5 | 20 +- R/fit.lavaan.R | 10 + R/fit.mplus.R | 11 + R/syntax.lavaan.R | 349 +++++++++++++++++++++++++++++++------------------ R/syntax.mplus.R | 231 +++++++++++++++++++++++++++----- inst/doc/vignette.html | 4 man/fit.lavaan.Rd | 10 + man/fit.mplus.Rd | 12 + man/syntax.lavaan.Rd | 16 ++ man/syntax.mplus.Rd | 12 + 11 files changed, 500 insertions(+), 183 deletions(-)
More information about PatientGenerator at CRAN
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Title: Harmonized Access to NHANES Survey Data
Description: Instant access to harmonized National Health and Nutrition Examination Survey (NHANES) data spanning 1999-2023. Retrieve pre-processed datasets from reliable cloud storage with automatic type reconciliation and integrated search tools for variables and datasets. Simplifies NHANES data workflows by handling cycle management and maintaining data consistency across survey waves. Data is sourced from <https://www.cdc.gov/nchs/nhanes/>.
Author: Kyle Grealis [aut, cre] ,
Amrit Baral [ctb] ,
Natalie Neugaard [ctb] ,
Raymond Balise [ctb] ,
Johannes Thrul [ctb] ,
Janardan Devkota [ctb]
Maintainer: Kyle Grealis <kyle@kylegrealis.com>
Diff between nhanesdata versions 0.2.1 dated 2026-02-28 and 0.2.2 dated 2026-05-04
DESCRIPTION | 10 MD5 | 70 NEWS.md | 18 R/create_design.R | 48 R/data.R | 4 build/vignette.rds |binary inst/CITATION | 2 inst/doc/covid-data-exclusion.R | 26 inst/doc/covid-data-exclusion.html | 926 ++++---- inst/doc/getting-started.R | 316 +- inst/doc/getting-started.html | 1192 +++++------ inst/doc/survey-design.R | 176 - inst/doc/survey-design.html | 1254 +++++------ inst/doc/the-datasets.R | 72 inst/doc/the-datasets.Rmd | 29 inst/doc/the-datasets.html | 3303 +++++++++++++++---------------- inst/extdata/audit_all_nhanes_tables.csv |only inst/extdata/datasets.yml | 1315 +++++++++--- inst/extdata/test_sample.csv |only inst/logs |only inst/scripts/audit_nhanes_datasets.R |only inst/scripts/create_random_sample.R |only inst/scripts/derived |only inst/scripts/pull_nhanes.R | 7 inst/scripts/workflow_update.R | 605 +++++ inst/slides |only man/create_design.Rd | 11 man/figures |only man/nhanesdata-package.Rd | 4 man/read_nhanes.Rd | 4 tests/testthat/test-create-design.R | 69 vignettes/the-datasets.Rmd | 29 32 files changed, 5472 insertions(+), 4018 deletions(-)
More information about DiversityStats at CRAN
Permanent link
Title: Credential Chain for Seamless 'OAuth 2.0' Authentication to
'Azure Services'
Description: Implements a credential chain for 'Azure OAuth 2.0' authentication
based on the package 'httr2''s 'OAuth' framework. Sequentially attempts authentication
methods until one succeeds. During development allows interactive
browser-based flows ('Device Code' and 'Auth Code' flows) and non-interactive
flow ('Client Secret') in batch mode.
Author: Pedro Baltazar [aut, cre]
Maintainer: Pedro Baltazar <pedrobtz@gmail.com>
Diff between azr versions 0.3.2 dated 2026-03-30 and 0.3.3 dated 2026-05-04
DESCRIPTION | 6 - MD5 | 28 ++-- NAMESPACE | 3 NEWS.md | 6 - R/constants.R | 13 ++ R/credential-azure-cli.R | 235 +++++++++++++++++++++++++++++++++++++++- R/credential-interactive.R | 52 ++++++-- R/defaults.R | 104 ++++++++++++++--- R/import-funs.R | 15 ++ man/InteractiveCredential.Rd | 11 + man/default_azure_client_id.Rd | 8 + man/default_azure_host.Rd | 8 + man/default_azure_tenant_id.Rd | 8 + man/default_msal_token_cache.Rd |only man/dot-azr_defaults.Rd |only man/set_azr_defaults.Rd |only man/write_msal_token.Rd |only 17 files changed, 434 insertions(+), 63 deletions(-)
Title: A Soil Survey Toolkit
Description: A collection of data processing, visualization, and export functions to support soil survey operations. Many of the functions build on the `SoilProfileCollection` S4 class provided by the aqp package, extending baseline visualization to more elaborate depictions in the context of spatial and taxonomic data. While this package is primarily developed by and for the USDA-NRCS, in support of the National Cooperative Soil Survey, the authors strive for generalization sufficient to support any soil survey operation. Many of the included functions are used by the SoilWeb suite of websites and movile applications. These functions are provided here, with additional documentation, to enable others to replicate high quality versions of these figures for their own purposes.
Author: Dylan Beaudette [cre, aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
Andrew Brown [aut],
USDA-NRCS Soil Survey Staff [ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between sharpshootR versions 2.4 dated 2025-09-26 and 2.5 dated 2026-05-04
DESCRIPTION | 10 ++-- MD5 | 58 ++++++++++++------------ NEWS.md | 17 ++++++- R/CDEC_StationInfo.R | 26 +++++++--- R/PCP_plot.R | 11 ++++ R/hydOrder.R | 39 +++++++++++----- R/iterateHydOrder.R | 12 ++--- R/plotGeomorphCrossSection.R | 96 +++++++++++++++++++++++++++++++--------- R/reconcileOSDGeomorph.R | 2 R/transect-functions.R | 19 ++++--- R/vizFlatsPosition.R | 77 ++++++++++++++++++++++---------- R/vizGeomorphicComponent.R | 77 ++++++++++++++++++++++---------- R/vizGeomorphons.R |only R/vizHillslopePosition.R | 80 ++++++++++++++++++++++----------- R/vizMountainPosition.R | 83 ++++++++++++++++++++++++---------- R/vizSurfaceShape.R | 55 ++++++++++++++++++---- R/vizTerracePosition.R | 91 +++++++++++++++++++++++++++---------- man/CDEC_StationInfo.Rd | 2 man/hydOrder.Rd | 11 ++-- man/iterateHydOrder.Rd | 8 +-- man/plotGeomorphCrossSection.Rd | 17 +++++-- man/plotTransect.Rd | 17 +++---- man/reconcileOSDGeomorph.Rd | 2 man/vizFlatsPosition.Rd | 20 ++++++-- man/vizGeomorphicComponent.Rd | 20 ++++++-- man/vizGeomorphons.Rd |only man/vizHillslopePosition.Rd | 20 ++++++-- man/vizMountainPosition.Rd | 20 ++++++-- man/vizSurfaceShape.Rd | 20 ++++++-- man/vizTerracePosition.Rd | 31 +++++++++++- tests/testthat/Rplots.pdf |binary 31 files changed, 672 insertions(+), 269 deletions(-)
Title: The Reinert Method for Textual Data Clustering
Description: An R implementation of the Reinert text clustering method. For more
details about the algorithm see the included vignettes or Reinert (1990)
<doi:10.1177/075910639002600103>.
Author: Julien Barnier [aut, cre],
Florian Prive [ctb]
Maintainer: Julien Barnier <julien.barnier@cnrs.fr>
Diff between rainette versions 0.3.2 dated 2026-01-08 and 0.3.3 dated 2026-05-04
rainette-0.3.2/rainette/tests/testthat/_snaps |only rainette-0.3.3/rainette/DESCRIPTION | 8 +-- rainette-0.3.3/rainette/MD5 | 34 +++--------- rainette-0.3.3/rainette/NEWS.md | 4 + rainette-0.3.3/rainette/R/plot.R | 7 ++ rainette-0.3.3/rainette/build/partial.rdb |binary rainette-0.3.3/rainette/build/vignette.rds |binary rainette-0.3.3/rainette/inst/doc/algorithmes.html | 4 - rainette-0.3.3/rainette/inst/doc/algorithms_en.html | 4 - rainette-0.3.3/rainette/inst/doc/introduction_en.html | 40 +++++++-------- rainette-0.3.3/rainette/inst/doc/introduction_usage.html | 8 +-- 11 files changed, 51 insertions(+), 58 deletions(-)
Title: Structure Learning with Copula Graphical Model
Description: Statistical tool for learning the structure of direct associations among variables for
continuous data, discrete data and mixed discrete-continuous data. The package is based
on the copula graphical model in Behrouzi and Wit (2017) <doi:10.1111/rssc.12287>.
Author: Pariya Behrouzi [aut, cre]
Maintainer: Pariya Behrouzi <pariya.behrouzi@gmail.com>
This is a re-admission after prior archival of version 0.2.0 dated 2025-11-09
Diff between nutriNetwork versions 0.2.0 dated 2025-11-09 and 0.2.1 dated 2026-05-04
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Gaussian Graphical Models with Nonconvex Regularization
Description: Estimate Gaussian graphical models with nonconvex penalties,
including methods described by Williams (2020) <doi:10.31234/osf.io/ad57p>.
Penalties include atan (Wang and Zhu, 2016) <doi:10.1155/2016/6495417>,
seamless L0 (Dicker, Huang and Lin, 2013) <doi:10.5705/ss.2011.074>,
exponential (Wang, Fan and Zhu, 2018) <doi:10.1007/s10463-016-0588-3>,
smooth integration of counting and absolute deviation (Lv and Fan, 2009)
<doi:10.1214/09-AOS683>, logarithm (Mazumder, Friedman and Hastie, 2011)
<doi:10.1198/jasa.2011.tm09738>, Lq, smoothly clipped absolute deviation
(Fan and Li, 2001) <doi:10.1198/016214501753382273>, and minimax concave
penalty (Zhang, 2010) <doi:10.1214/09-AOS729>. The package also provides
extensions for variable inclusion probabilities, multiple regression
coefficients, and statistical inference (Janková and van de Geer, 2015)
<doi:10.1214/15-EJS1031>.
Author: Donald Williams [aut],
Philippe Rast [cre]
Maintainer: Philippe Rast <rast.ph@gmail.com>
This is a re-admission after prior archival of version 2.1.1 dated 2021-12-15
Diff between GGMncv versions 2.1.1 dated 2021-12-15 and 2.1.2 dated 2026-05-04
GGMncv-2.1.1/GGMncv/build/GGMncv.pdf |only GGMncv-2.1.2/GGMncv/DESCRIPTION | 43 GGMncv-2.1.2/GGMncv/MD5 | 141 - GGMncv-2.1.2/GGMncv/NAMESPACE | 148 - GGMncv-2.1.2/GGMncv/NEWS.md |only GGMncv-2.1.2/GGMncv/R/GGMncv-package.R | 137 - GGMncv-2.1.2/GGMncv/R/RcppExports.R | 14 GGMncv-2.1.2/GGMncv/R/coef.ggmncv.R | 218 +- GGMncv-2.1.2/GGMncv/R/confirm_edges.R | 208 - GGMncv-2.1.2/GGMncv/R/datasets.R | 232 +- GGMncv-2.1.2/GGMncv/R/derivative.R | 304 +- GGMncv-2.1.2/GGMncv/R/desparsify.R | 208 - GGMncv-2.1.2/GGMncv/R/eip.R | 360 +-- GGMncv-2.1.2/GGMncv/R/gen_net.R | 262 +- GGMncv-2.1.2/GGMncv/R/ggm_compare.R | 298 +- GGMncv-2.1.2/GGMncv/R/ggmncv.R | 2192 ++++++++++----------- GGMncv-2.1.2/GGMncv/R/helpers.R | 540 ++--- GGMncv-2.1.2/GGMncv/R/htf.R | 224 +- GGMncv-2.1.2/GGMncv/R/inference.R | 298 +- GGMncv-2.1.2/GGMncv/R/kl.R | 144 - GGMncv-2.1.2/GGMncv/R/lw_estimator.R | 88 GGMncv-2.1.2/GGMncv/R/nct.R | 1434 ++++++------- GGMncv-2.1.2/GGMncv/R/pen_function.R | 208 - GGMncv-2.1.2/GGMncv/R/plot_graph.R | 316 +-- GGMncv-2.1.2/GGMncv/R/predict.R | 132 - GGMncv-2.1.2/GGMncv/R/score_binary.R | 230 +- GGMncv-2.1.2/GGMncv/README.md | 1301 +++++------- GGMncv-2.1.2/GGMncv/build/partial.rdb |binary GGMncv-2.1.2/GGMncv/build/stage23.rdb |only GGMncv-2.1.2/GGMncv/build/vignette.rds |binary GGMncv-2.1.2/GGMncv/configure | 1634 +++++++++------ GGMncv-2.1.2/GGMncv/configure.ac | 6 GGMncv-2.1.2/GGMncv/inst/REFERENCES.bib | 958 ++++----- GGMncv-2.1.2/GGMncv/inst/doc/cpu_time.R | 12 GGMncv-2.1.2/GGMncv/inst/doc/cpu_time.Rmd | 360 +-- GGMncv-2.1.2/GGMncv/inst/doc/cpu_time.html | 875 +++++--- GGMncv-2.1.2/GGMncv/inst/doc/high_dim.R | 200 - GGMncv-2.1.2/GGMncv/inst/doc/high_dim.Rmd | 358 +-- GGMncv-2.1.2/GGMncv/inst/doc/high_dim.html | 910 +++++--- GGMncv-2.1.2/GGMncv/inst/doc/nct_custom.R | 134 - GGMncv-2.1.2/GGMncv/inst/doc/nct_custom.Rmd | 232 +- GGMncv-2.1.2/GGMncv/inst/doc/nct_custom.html | 773 ++++--- GGMncv-2.1.2/GGMncv/inst/doc/null_dist.Rmd | 374 +-- GGMncv-2.1.2/GGMncv/inst/doc/null_dist.html | 879 +++++--- GGMncv-2.1.2/GGMncv/inst/doc/sign_restrict.R | 244 +- GGMncv-2.1.2/GGMncv/inst/doc/sign_restrict.Rmd | 376 +-- GGMncv-2.1.2/GGMncv/inst/doc/sign_restrict.html | 824 ++++--- GGMncv-2.1.2/GGMncv/man/GGMncv-package.Rd | 153 - GGMncv-2.1.2/GGMncv/man/coef.ggmncv.Rd | 160 - GGMncv-2.1.2/GGMncv/man/compare_edges.Rd | 160 - GGMncv-2.1.2/GGMncv/man/get_graph.Rd | 74 GGMncv-2.1.2/GGMncv/man/ggmncv.Rd | 610 ++--- GGMncv-2.1.2/GGMncv/man/head.eip.Rd | 6 GGMncv-2.1.2/GGMncv/man/inference.Rd | 150 - GGMncv-2.1.2/GGMncv/man/ledoit_wolf.Rd | 72 GGMncv-2.1.2/GGMncv/man/nct.Rd | 388 +-- GGMncv-2.1.2/GGMncv/man/penalty_derivative.Rd | 114 - GGMncv-2.1.2/GGMncv/man/penalty_function.Rd | 110 - GGMncv-2.1.2/GGMncv/man/plot.ggmncv.Rd | 92 GGMncv-2.1.2/GGMncv/man/plot.graph.Rd | 130 - GGMncv-2.1.2/GGMncv/man/plot.penalty_derivative.Rd | 58 GGMncv-2.1.2/GGMncv/man/plot.penalty_function.Rd | 58 GGMncv-2.1.2/GGMncv/man/predict.ggmncv.Rd | 96 GGMncv-2.1.2/GGMncv/man/print.eip.Rd | 5 GGMncv-2.1.2/GGMncv/man/print.ggmncv.Rd | 11 GGMncv-2.1.2/GGMncv/man/print.nct.Rd | 39 GGMncv-2.1.2/GGMncv/src/Makevars.in | 4 GGMncv-2.1.2/GGMncv/src/Makevars.win | 4 GGMncv-2.1.2/GGMncv/vignettes/cpu_time.Rmd | 360 +-- GGMncv-2.1.2/GGMncv/vignettes/high_dim.Rmd | 358 +-- GGMncv-2.1.2/GGMncv/vignettes/nct_custom.Rmd | 232 +- GGMncv-2.1.2/GGMncv/vignettes/null_dist.Rmd | 374 +-- GGMncv-2.1.2/GGMncv/vignettes/sign_restrict.Rmd | 376 +-- 73 files changed, 12235 insertions(+), 10788 deletions(-)
Title: Input/Output 'SomaScan' Data
Description: Load and export 'SomaScan' data via the
'SomaLogic Operating Co., Inc.' structured text file
called an ADAT ('*.adat'). For file format see
<https://github.com/SomaLogic/SomaLogic-Data/blob/main/README.md>.
The package also exports auxiliary functions for
manipulating, wrangling, and extracting relevant
information from an ADAT object once in memory.
Author: Stu Field [aut] ,
Caleb Scheidel [cre],
SomaLogic Operating Co., Inc. [cph, fnd]
Maintainer: Caleb Scheidel <calebjscheidel@gmail.com>
Diff between SomaDataIO versions 6.5.0 dated 2026-02-06 and 6.6.0 dated 2026-05-04
DESCRIPTION | 6 - MD5 | 23 ++-- NAMESPACE | 3 NEWS.md | 45 ++++++++ R/medianNormalize.R |only R/read-annotations.R | 137 +++------------------------ R/reverseMedianNormalize.R |only README.md | 2 inst/WORDLIST | 13 +- man/medianNormalize.Rd |only man/read_annotations.Rd | 7 - man/reverseMedianNormalize.Rd |only tests/testthat/_snaps/medianNormalize.md |only tests/testthat/test-medianNormalize.R |only tests/testthat/test-read-annotations.R | 45 +------- tests/testthat/test-reverseMedianNormalize.R |only 16 files changed, 101 insertions(+), 180 deletions(-)