Title: Integrated Interface of Bayesian Single Index Models using
'nimble'
Description: Provides tools for fitting Bayesian single index models with
flexible choices of priors for both the index and the link function.
The package implements model estimation and posterior inference using
efficient MCMC algorithms built on the 'nimble' framework, allowing
users to specify, extend, and simulate models in a unified and
reproducible manner. The following methods are implemented in the
package: Antoniadis et al. (2004)
<https://www.jstor.org/stable/24307224>, Wang (2009)
<doi:10.1016/j.csda.2008.12.010>, Choi et al. (2011)
<doi:10.1080/10485251003768019>, Dhara et al. (2019)
<doi:10.1214/19-BA1170>, McGee et al. (2023) <doi:10.1111/biom.13569>.
Author: Seowoo Jung [aut, cre],
Eun-kyung Lee [aut]
Maintainer: Seowoo Jung <jsw1347@ewha.ac.kr>
Diff between BayesSIM versions 1.0.3 dated 2026-04-07 and 1.0.4 dated 2026-05-13
BayesSIM-1.0.3/BayesSIM/man/as_bsim.Rd |only BayesSIM-1.0.3/BayesSIM/man/genBasic.Rd |only BayesSIM-1.0.3/BayesSIM/man/gof.Rd |only BayesSIM-1.0.3/BayesSIM/man/plot.Rd |only BayesSIM-1.0.3/BayesSIM/man/predict.Rd |only BayesSIM-1.0.4/BayesSIM/DESCRIPTION | 7 BayesSIM-1.0.4/BayesSIM/MD5 | 60 BayesSIM-1.0.4/BayesSIM/NAMESPACE | 6 BayesSIM-1.0.4/BayesSIM/R/aa_bspline_ver3.R | 16 BayesSIM-1.0.4/BayesSIM/R/bsFisher-functions.R | 6 BayesSIM-1.0.4/BayesSIM/R/bsFisher.R | 6 BayesSIM-1.0.4/BayesSIM/R/bsPolar.R | 4 BayesSIM-1.0.4/BayesSIM/R/bsSphere.R | 4 BayesSIM-1.0.4/BayesSIM/R/bsSpike.R | 4 BayesSIM-1.0.4/BayesSIM/R/generics.R | 4476 +++++++++--------- BayesSIM-1.0.4/BayesSIM/R/gpFisher.R | 4 BayesSIM-1.0.4/BayesSIM/R/gpPolar-functions.R | 23 BayesSIM-1.0.4/BayesSIM/R/gpPolar.R | 4 BayesSIM-1.0.4/BayesSIM/R/gpPolarTemp.R | 7 BayesSIM-1.0.4/BayesSIM/R/gpSphere-functions.R | 8 BayesSIM-1.0.4/BayesSIM/R/gpSphere-united.R | 4 BayesSIM-1.0.4/BayesSIM/R/gpspike-functions.R | 8 BayesSIM-1.0.4/BayesSIM/R/gpspike-sampler.R | 2 BayesSIM-1.0.4/BayesSIM/R/gpspike.R | 4 BayesSIM-1.0.4/BayesSIM/R/zzz.R | 64 BayesSIM-1.0.4/BayesSIM/build/partial.rdb |binary BayesSIM-1.0.4/BayesSIM/man/BayesSIM-package.Rd | 1 BayesSIM-1.0.4/BayesSIM/man/BayesSIM.Rd | 3 BayesSIM-1.0.4/BayesSIM/man/GOF.bsim.Rd |only BayesSIM-1.0.4/BayesSIM/man/as.data.frame.bsimPred.Rd | 13 BayesSIM-1.0.4/BayesSIM/man/as_bsim.bsimSetup.Rd |only BayesSIM-1.0.4/BayesSIM/man/plot.bsim.Rd |only BayesSIM-1.0.4/BayesSIM/man/plot.bsimSetup.Rd |only BayesSIM-1.0.4/BayesSIM/man/predict.bsim.Rd |only BayesSIM-1.0.4/BayesSIM/man/residuals.bsim.Rd |only BayesSIM-1.0.4/BayesSIM/man/summary.bsimSetup.Rd |only BayesSIM-1.0.4/BayesSIM/tests/testthat/test-generic.R | 26 37 files changed, 2432 insertions(+), 2328 deletions(-)
Title: Non-Negative Matrix Factorization with Kernel Covariates
Description: Performs Non-negative Matrix Factorization (NMF)
with Kernel Covariates. Given an observation matrix and kernel
covariates, it optimizes both a basis matrix and a parameter matrix.
Notably, if the kernel matrix is an identity matrix, the method
simplifies to standard NMF. Also provides NMF with Random Effects
(NMF-RE) via nmfre(), which estimates a mixed-effects model combining
covariate-driven scores with unit-specific random effects together
with wild bootstrap inference, and NMF-based Structural Equation
Modeling (NMF-SEM) via nmf.sem(), which fits a two-block input-output
model for blind source separation and path analysis.
References: Satoh (2025) <doi:10.48550/arXiv.2403.05359>;
Satoh (2025) <doi:10.48550/arXiv.2510.10375>;
Satoh (2025) <doi:10.48550/arXiv.2512.18250>;
Satoh (2026) <doi:10.48550/arXiv.2603.01468>;
Satoh (2026) <doi:10.1007/s42081-025-00314-0>.
Author: Kenichi Satoh [aut, cre]
Maintainer: Kenichi Satoh <kenichi-satoh@biwako.shiga-u.ac.jp>
Diff between nmfkc versions 0.6.7 dated 2026-04-15 and 0.7.3 dated 2026-05-13
DESCRIPTION | 8 MD5 | 110 NAMESPACE | 33 NEWS.md | 115 R/nmf.ffb.R |only R/nmf.sem.R | 3959 ++++++++------- R/nmfae.R | 3859 +++++++-------- R/nmfae.signed.R |only R/nmfkc.R | 6988 ++++++++++++++-------------- R/nmfkc.net.R |only R/nmfkc.signed.R |only R/nmfre.R | 24 R/s3methods.R | 794 +-- README.md | 197 build/vignette.rds |binary inst/CITATION | 10 inst/WORDLIST | 34 inst/doc/classification-with-nmfkc.html | 51 inst/doc/nmf-re-with-nmfkc.html | 4 inst/doc/nmf-sem-with-nmfkc.R | 6 inst/doc/nmf-sem-with-nmfkc.Rmd | 22 inst/doc/nmf-sem-with-nmfkc.html | 26 inst/doc/timeseries-with-nmfkc.html | 10 inst/doc/topic-modeling-with-nmfkc.html | 2 man/nmf.sem.DOT.Rd | 208 man/nmf.sem.Rd | 329 - man/nmf.sem.cv.Rd | 159 man/nmf.sem.inference.Rd | 234 man/nmf.sem.split.Rd | 160 man/nmfae.DOT.Rd | 196 man/nmfae.Rd | 223 man/nmfae.cv.Rd | 110 man/nmfae.ecv.Rd | 124 man/nmfae.heatmap.Rd | 106 man/nmfae.inference.Rd | 120 man/nmfae.signed.Rd |only man/nmfae.signed.ecv.Rd |only man/nmfae.signed.heatmap.Rd |only man/nmfae.signed.inference.Rd |only man/nmfae.signed.rename.Rd |only man/nmfkc.Rd | 382 - man/nmfkc.criterion.Rd | 117 man/nmfkc.cv.Rd | 154 man/nmfkc.kernel.beta.nearest.med.Rd | 220 man/nmfkc.net.DOT.Rd |only man/nmfkc.net.Rd |only man/nmfkc.net.ecv.Rd |only man/nmfkc.net.inference.Rd |only man/nmfkc.signed.Rd |only man/nmfkc.signed.cv.Rd |only man/nmfkc.signed.ecv.Rd |only man/nmfre.Rd | 454 - man/plot.nmfae.signed.Rd |only man/plot.nmfkc.signed.Rd |only man/plot.nmfre.Rd | 84 man/predict.nmfae.signed.Rd |only man/predict.nmfkc.signed.Rd |only man/print.summary.nmfae.signed.Rd |only man/print.summary.nmfae.signed.inference.Rd |only man/print.summary.nmfkc.net.Rd |only man/print.summary.nmfkc.net.inference.Rd |only man/print.summary.nmfkc.net.signed.Rd |only man/print.summary.nmfkc.signed.Rd |only man/summary.nmf.sem.Rd | 64 man/summary.nmfae.signed.Rd |only man/summary.nmfae.signed.inference.Rd |only man/summary.nmfkc.net.Rd |only man/summary.nmfkc.net.inference.Rd |only man/summary.nmfkc.net.signed.Rd |only man/summary.nmfkc.signed.Rd |only tests/testthat/test-nmfkc.kernel.beta.R |only tests/testthat/test-nmfkc.net.R |only vignettes/nmf-sem-with-nmfkc.Rmd | 22 73 files changed, 10468 insertions(+), 9250 deletions(-)
Title: Speaker Recognition, Voice Analysis and Mood Inference via Music
Theory
Description: Provides tools for audio data analysis, including feature extraction, pitch detection, and speaker identification. Designed for voice research and signal processing applications.
Author: Zabala Filipe J. [cre, aut]
Maintainer: Zabala Filipe J. <filipezabala@gmail.com>
Diff between voice versions 0.5.4 dated 2025-07-14 and 0.5.6 dated 2026-05-13
DESCRIPTION | 17 - MD5 | 44 ++- NAMESPACE | 1 NEWS.md | 26 ++ R/diarize.R | 2 R/extract_features.R | 7 R/notes.R | 2 R/notes_freq.R | 2 R/piano_plot.R | 91 +++++-- R/splitw.R | 86 ++++--- R/transcribe.R |only README.md | 470 ++++++++++++++++++++++++++++++++++++++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/voicegnette_CRAN.Rmd | 12 - inst/doc/voicegnette_CRAN.html | 42 +-- man/diarize.Rd | 2 man/extract_features.Rd | 7 man/notes.Rd | 2 man/notes_freq.Rd | 2 man/piano_plot.Rd | 14 - man/splitw.Rd | 12 - man/transcribe.Rd |only vignettes/voicegnette_CRAN.Rmd | 12 - 24 files changed, 710 insertions(+), 143 deletions(-)
Title: Minimal Matrix Client-Server API
Description: A minimal-dependency client for the 'Matrix' Client-Server
HTTP API <https://spec.matrix.org/>, suitable for talking to a
'Synapse' <https://element-hq.github.io/synapse/> or 'Conduit'
<https://conduit.rs/> homeserver. Covers login, room management,
message send and history, media upload or download, and the
transport endpoints needed to coordinate end-to-end encryption
(device-key and one-time-key publication, key query and claim,
to-device events). Encryption itself is out of scope;
pair with a separate crypto package.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between mx.api versions 0.1.0 dated 2026-04-21 and 0.2.0 dated 2026-05-13
DESCRIPTION | 19 +++++++++++-------- MD5 | 16 +++++++++++++--- NAMESPACE | 5 +++++ NEWS.md | 10 ++++++++++ R/canonical_json.R |only R/keys.R |only README.md |only inst/tinytest/test_canonical_json.R |only inst/tinytest/test_keys.R |only man/mx_canonical_json.Rd |only man/mx_keys_claim.Rd |only man/mx_keys_query.Rd |only man/mx_keys_upload.Rd |only man/mx_send_to_device.Rd |only 14 files changed, 39 insertions(+), 11 deletions(-)
Title: Generalized Boosted Regression Models
Description: Extensions to Freund and Schapire's AdaBoost algorithm, Y. Freund
and R. Schapire (1997) <doi:10.1006/jcss.1997.1504> and Friedman's gradient
boosting machine, J.H. Friedman (2001) <doi:10.1214/aos/1013203451>.
Includes regression methods for least squares, absolute loss,
t-distribution loss, quantile regression, logistic, Poisson,
Cox proportional hazards partial likelihood, AdaBoost
exponential loss, Huberized hinge loss,
and Learning to Rank measures (LambdaMART).
Author: James Hickey [aut],
Paul Metcalfe [aut],
Greg Ridgeway [aut, cre],
Stefan Schroedl [aut],
Harry Southworth [aut],
Terry Therneau [aut]
Maintainer: Greg Ridgeway <gridge@upenn.edu>
This is a re-admission after prior archival of version 3.0 dated 2024-01-22
Diff between gbm3 versions 3.0 dated 2024-01-22 and 3.0.1 dated 2026-05-13
gbm3-3.0.1/gbm3/CHANGES | 16 gbm3-3.0.1/gbm3/DESCRIPTION | 12 gbm3-3.0.1/gbm3/MD5 | 222 +- gbm3-3.0.1/gbm3/NAMESPACE | 117 + gbm3-3.0.1/gbm3/R/adjust-prediction-scales.r | 14 gbm3-3.0.1/gbm3/R/available-distributions.r | 34 gbm3-3.0.1/gbm3/R/calibrate-plot.r | 302 +- gbm3-3.0.1/gbm3/R/check-dist-parameters.r | 46 gbm3-3.0.1/gbm3/R/check-response-values.r | 22 gbm3-3.0.1/gbm3/R/convert-factors.r | 40 gbm3-3.0.1/gbm3/R/create-cv-groups.r | 3 gbm3-3.0.1/gbm3/R/create-distributions.r | 13 gbm3-3.0.1/gbm3/R/create-strata.r | 240 +- gbm3-3.0.1/gbm3/R/create_dist_obj_for_gbmt_fit.R | 156 - gbm3-3.0.1/gbm3/R/determine-groups.r | 4 gbm3-3.0.1/gbm3/R/empty-distribution.r | 32 gbm3-3.0.1/gbm3/R/extract-obs-in-fold.r | 86 gbm3-3.0.1/gbm3/R/gbm-accessors.r | 102 gbm3-3.0.1/gbm3/R/gbm-baseline-hazard.r | 206 - gbm3-3.0.1/gbm3/R/gbm-call.r | 2 gbm3-3.0.1/gbm3/R/gbm-cross-val.r | 154 - gbm3-3.0.1/gbm3/R/gbm-cv-errors.r | 3 gbm3-3.0.1/gbm3/R/gbm-cv-predict.r | 104 gbm3-3.0.1/gbm3/R/gbm-data.r | 100 gbm3-3.0.1/gbm3/R/gbm-distribution.r | 170 - gbm3-3.0.1/gbm3/R/gbm-interactions.r | 390 +-- gbm3-3.0.1/gbm3/R/gbm-loss.r | 26 gbm3-3.0.1/gbm3/R/gbm-more.r | 350 +-- gbm3-3.0.1/gbm3/R/gbm-package.r | 15 gbm3-3.0.1/gbm3/R/gbm-parallel.r | 64 gbm3-3.0.1/gbm3/R/gbm-perf.r | 444 ++-- gbm3-3.0.1/gbm3/R/gbm-predict.r | 284 +- gbm3-3.0.1/gbm3/R/gbm-print.r | 324 +-- gbm3-3.0.1/gbm3/R/gbm-summary.r | 220 +- gbm3-3.0.1/gbm3/R/gbm.fit.r | 130 - gbm3-3.0.1/gbm3/R/gbm.r | 1077 ++++------ gbm3-3.0.1/gbm3/R/gbmt-fit.r | 276 +- gbm3-3.0.1/gbm3/R/gbmt-plot.r | 6 gbm3-3.0.1/gbm3/R/gbmt.r | 494 ++-- gbm3-3.0.1/gbm3/R/get-misc.r | 15 gbm3-3.0.1/gbm3/R/helpers.r | 453 ++-- gbm3-3.0.1/gbm3/R/ir-measures.r | 146 - gbm3-3.0.1/gbm3/R/order-methods.r | 5 gbm3-3.0.1/gbm3/R/perf-pairwise.r | 322 +- gbm3-3.0.1/gbm3/R/perf-plot.r | 13 gbm3-3.0.1/gbm3/R/permutation-relative-influence.r | 196 - gbm3-3.0.1/gbm3/R/plot-helpers.r | 6 gbm3-3.0.1/gbm3/R/predictor-order.r | 38 gbm3-3.0.1/gbm3/R/pretty-gbm-tree.r | 96 gbm3-3.0.1/gbm3/R/quantile-rug.r | 56 gbm3-3.0.1/gbm3/R/relative-influence.r | 188 - gbm3-3.0.1/gbm3/R/split-and-join.r | 134 - gbm3-3.0.1/gbm3/R/to-old-gbm.r | 170 - gbm3-3.0.1/gbm3/R/training-params.r | 194 - gbm3-3.0.1/gbm3/R/update-fold-dist-data.r | 3 gbm3-3.0.1/gbm3/R/update-num-train-groups.r | 4 gbm3-3.0.1/gbm3/R/validate-gbm-data.r | 76 gbm3-3.0.1/gbm3/R/variable-properties.r | 134 - gbm3-3.0.1/gbm3/R/verify-data.r | 72 gbm3-3.0.1/gbm3/R/weights-group-consistency.r | 3 gbm3-3.0.1/gbm3/README.md | 33 gbm3-3.0.1/gbm3/build/vignette.rds |binary gbm3-3.0.1/gbm3/demo/gaussian.r | 7 gbm3-3.0.1/gbm3/demo/gaussian_gbmt.r | 5 gbm3-3.0.1/gbm3/inst/doc/cox-proportional-hazards-guide.html | 9 gbm3-3.0.1/gbm3/inst/doc/gbm.html | 18 gbm3-3.0.1/gbm3/inst/doc/getting-started-with-gbm.R | 2 gbm3-3.0.1/gbm3/inst/doc/getting-started-with-gbm.Rmd | 4 gbm3-3.0.1/gbm3/inst/doc/getting-started-with-gbm.html | 13 gbm3-3.0.1/gbm3/inst/doc/model-specific-parameters.R | 7 gbm3-3.0.1/gbm3/inst/doc/model-specific-parameters.Rmd | 29 gbm3-3.0.1/gbm3/inst/doc/model-specific-parameters.html | 29 gbm3-3.0.1/gbm3/man/gbm.Rd | 11 gbm3-3.0.1/gbm3/man/gbm3-package.Rd |only gbm3-3.0.1/gbm3/src/adaboost.cpp | 101 gbm3-3.0.1/gbm3/src/bernoulli.cpp | 32 gbm3-3.0.1/gbm3/src/censored_cox_state.h | 12 gbm3-3.0.1/gbm3/src/counting_cox_state.h | 13 gbm3-3.0.1/gbm3/src/dataset.cpp | 9 gbm3-3.0.1/gbm3/src/gamma.cpp | 38 gbm3-3.0.1/gbm3/src/gbm_datadistcontainer.cpp | 4 gbm3-3.0.1/gbm3/src/gbm_engine.cpp | 10 gbm3-3.0.1/gbm3/src/laplace.cpp | 4 gbm3-3.0.1/gbm3/src/locationm.cpp | 3 gbm3-3.0.1/gbm3/src/locationm.h | 1 gbm3-3.0.1/gbm3/src/node.cpp | 2 gbm3-3.0.1/gbm3/src/pairwise.cpp | 10 gbm3-3.0.1/gbm3/src/poisson.cpp | 57 gbm3-3.0.1/gbm3/src/quantile.cpp | 5 gbm3-3.0.1/gbm3/src/tdist.cpp | 5 gbm3-3.0.1/gbm3/src/tweedie.cpp | 41 gbm3-3.0.1/gbm3/tests/testthat/Rplots.pdf |only gbm3-3.0.1/gbm3/tests/testthat/helper-valgrind.R |only gbm3-3.0.1/gbm3/tests/testthat/test-baseline-hazard.r | 23 gbm3-3.0.1/gbm3/tests/testthat/test-conversion-gbm-data.r | 57 gbm3-3.0.1/gbm3/tests/testthat/test-gbm-dist.r | 37 gbm3-3.0.1/gbm3/tests/testthat/test-gbm-more.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-gbm-perf.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-gbm-predict.r | 13 gbm3-3.0.1/gbm3/tests/testthat/test-group-determination-and-updates.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-helpers.r | 10 gbm3-3.0.1/gbm3/tests/testthat/test-interact.r | 89 gbm3-3.0.1/gbm3/tests/testthat/test-loss.r | 22 gbm3-3.0.1/gbm3/tests/testthat/test-offset.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-old-api.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-openmp.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-ordering-functionality.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-parallel.r | 4 gbm3-3.0.1/gbm3/tests/testthat/test-plotting.r | 6 gbm3-3.0.1/gbm3/vignettes/getting-started-with-gbm.Rmd | 4 gbm3-3.0.1/gbm3/vignettes/model-specific-parameters.Rmd | 29 gbm3-3.0/gbm3/man/gbm-package.Rd |only gbm3-3.0/gbm3/vignettes/gbm_cache |only 113 files changed, 4992 insertions(+), 4468 deletions(-)
More information about BagWhiskerPlot at CRAN
Permanent link
Title: Kriging Models using the 'libKriging' Library
Description: Interface to 'libKriging' 'C++' library <https://github.com/libKriging> that should
provide most standard Kriging / Gaussian process regression features
(like in 'DiceKriging', 'kergp' or 'RobustGaSP' packages).
'libKriging' relies on Armadillo linear algebra library (Apache 2 license) by Conrad Sanderson,
'lbfgsb_cpp' is a 'C++' port around by Pascal Have of 'lbfgsb' library (BSD-3 license) by
Ciyou Zhu, Richard Byrd, Jorge Nocedal and Jose Luis Morales used for hyperparameters optimization.
Author: Yann Richet [aut, cre] ,
Pascal Have [aut],
Yves Deville [aut],
Conrad Sanderson [ctb],
Ciyou Zhu [ctb],
Richard Byrd [ctb],
Jorge Nocedal [ctb],
Jose Luis Morales [ctb],
Mike Smith [ctb]
Maintainer: Yann Richet <yann.richet@asnr.fr>
Diff between rlibkriging versions 0.9-3 dated 2026-01-27 and 1.0-0 dated 2026-05-13
rlibkriging-0.9-3/rlibkriging/R/NoiseKrigingClass.R |only rlibkriging-0.9-3/rlibkriging/R/NuggetKrigingClass.R |only rlibkriging-0.9-3/rlibkriging/man/NoiseKM-class.Rd |only rlibkriging-0.9-3/rlibkriging/man/NoiseKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/NuggetKM-class.Rd |only rlibkriging-0.9-3/rlibkriging/man/NuggetKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/as.km.NoiseKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/as.km.NuggetKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/as.list.NoiseKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/as.list.NuggetKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/classNoiseKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/classNuggetKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/copy.NoiseKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/copy.NuggetKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/covMat.NoiseKriging.Rd |only rlibkriging-0.9-3/rlibkriging/man/covMat.NuggetKriging.Rd |only 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rlibkriging-0.9-3/rlibkriging/tests/test-NuggetKrigingUpdate.R |only rlibkriging-0.9-3/rlibkriging/tests/test-NuggetKrigingUpdateSimulate.R |only rlibkriging-1.0-0/rlibkriging/DESCRIPTION | 10 rlibkriging-1.0-0/rlibkriging/MD5 | 578 -- rlibkriging-1.0-0/rlibkriging/NAMESPACE | 133 rlibkriging-1.0-0/rlibkriging/R/KMClass.R | 26 rlibkriging-1.0-0/rlibkriging/R/KrigingClass.R | 318 - rlibkriging-1.0-0/rlibkriging/R/MLPKrigingClass.R |only rlibkriging-1.0-0/rlibkriging/R/NoiseKMClass.R | 550 -- rlibkriging-1.0-0/rlibkriging/R/NuggetKMClass.R | 555 -- rlibkriging-1.0-0/rlibkriging/R/RcppExports.R | 512 -- rlibkriging-1.0-0/rlibkriging/R/WarpKrigingClass.R |only rlibkriging-1.0-0/rlibkriging/R/allGenerics.R | 36 rlibkriging-1.0-0/rlibkriging/R/as.km-methods.R |only rlibkriging-1.0-0/rlibkriging/R/zzz.R |only rlibkriging-1.0-0/rlibkriging/man/F_.MLPKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/F_.Rd |only rlibkriging-1.0-0/rlibkriging/man/F_.WarpKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/KM.Rd | 6 rlibkriging-1.0-0/rlibkriging/man/Kriging.Rd | 19 rlibkriging-1.0-0/rlibkriging/man/M.MLPKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/M.Rd |only rlibkriging-1.0-0/rlibkriging/man/M.WarpKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/MLPKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/NoiseKM.Rd | 108 rlibkriging-1.0-0/rlibkriging/man/NuggetKM.Rd | 108 rlibkriging-1.0-0/rlibkriging/man/T_.MLPKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/T_.Rd |only rlibkriging-1.0-0/rlibkriging/man/T_.WarpKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/WarpKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/X.MLPKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/X.Rd |only rlibkriging-1.0-0/rlibkriging/man/activation.MLPKriging.Rd |only rlibkriging-1.0-0/rlibkriging/man/activation.Rd |only rlibkriging-1.0-0/rlibkriging/man/as.km.Kriging.Rd | 2 rlibkriging-1.0-0/rlibkriging/man/as.km.Rd | 2 rlibkriging-1.0-0/rlibkriging/man/beta.MLPKriging.Rd 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63 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/WarpKriging.cpp |only rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/AdamBFGS.hpp |only rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/Covariance.hpp | 59 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/Kriging.hpp | 190 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/KrigingImpl.hpp |only rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/KrigingLoader.hpp | 2 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/LinearAlgebra.hpp | 7 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/MLPKriging.hpp |only rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/Optim.hpp | 17 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/Trend.hpp | 4 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/WarpKriging.hpp |only rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/libKriging.hpp | 3 rlibkriging-1.0-0/rlibkriging/src/libK/src/lib/include/libKriging/utils/data_from_arma_vec.hpp | 6 rlibkriging-1.0-0/rlibkriging/src/libK/tools/checks |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/common |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/compat |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/dummy |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/linux-macos |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/octave-windows |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/r-linux-macos |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/r-windows |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/release |only rlibkriging-1.0-0/rlibkriging/src/libK/tools/windows |only rlibkriging-1.0-0/rlibkriging/src/load.cpp | 38 rlibkriging-1.0-0/rlibkriging/tests/test-AllKrigingConcistency.R | 41 rlibkriging-1.0-0/rlibkriging/tests/test-KrigingFit.R | 2 rlibkriging-1.0-0/rlibkriging/tests/test-KrigingLogLikGradHess.R | 3 rlibkriging-1.0-0/rlibkriging/tests/test-KrigingMethods.R | 7 rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoiseFit.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoiseLogLik.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoiseMethods.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoisePredict.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoiseSimulate.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoiseUpdate.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNoiseUpdateSimulate.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetFit.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetLogLik.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetLogMargPost.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetMethods.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetPredict.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetSimulate.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetUpdate.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingNuggetUpdateSimulate.R |only rlibkriging-1.0-0/rlibkriging/tests/test-KrigingPredict.R | 6 rlibkriging-1.0-0/rlibkriging/tests/test-KrigingUpdate.R | 8 rlibkriging-1.0-0/rlibkriging/tests/test-KrigingUpdateSimulate.R | 2 rlibkriging-1.0-0/rlibkriging/tests/test-MLPKriging.R |only rlibkriging-1.0-0/rlibkriging/tests/test-RobustGaSP-Nugget.R | 6 rlibkriging-1.0-0/rlibkriging/tests/test-RobustGaSPvsNuggetKrigingLMP.R | 2 rlibkriging-1.0-0/rlibkriging/tests/test-SaveLoad.R | 6 rlibkriging-1.0-0/rlibkriging/tests/test-WarpKriging.R |only rlibkriging-1.0-0/rlibkriging/tests/test-estimnone.R | 8 rlibkriging-1.0-0/rlibkriging/tests/test-new-features.R | 22 rlibkriging-1.0-0/rlibkriging/tests/test-rlibkriging-demo.R | 52 rlibkriging-1.0-0/rlibkriging/tools/build-submit-on-cran.sh | 9 rlibkriging-1.0-0/rlibkriging/tools/build.sh | 11 rlibkriging-1.0-0/rlibkriging/tools/gitmodules-shas | 2 rlibkriging-1.0-0/rlibkriging/tools/setup.sh | 120 rlibkriging-1.0-0/rlibkriging/tools/update_submodule_shas.sh | 10 267 files changed, 3518 insertions(+), 5002 deletions(-)
Title: Model-Free Sure Independent Screening Procedures
Description: An implementation of popular screening methods that are commonly
employed in ultra-high and high dimensional data. Through this publicly
available package, we provide a unified framework to carry out model-free
screening procedures including
SIS (Fan and Lv (2008) <doi:10.1111/j.1467-9868.2008.00674.x>),
SIRS(Zhu et al. (2011)<doi:10.1198/jasa.2011.tm10563>),
DC-SIS (Li et al. (2012) <doi:10.1080/01621459.2012.695654>),
MDC-SIS(Shao and Zhang (2014) <doi:10.1080/01621459.2014.887012>),
Bcor-SIS (Pan et al. (2019) <doi:10.1080/01621459.2018.1462709>),
PC-Screen (Liu et al. (2020) <doi:10.1080/01621459.2020.1783274>),
WLS (Zhong et al.(2021) <doi:10.1080/01621459.2021.1918554>),
Kfilter (Mai and Zou (2015) <doi:10.1214/14-AOS1303>),
MVSIS (Cui et al. (2015) <doi:10.1080/01621459.2014.920256>),
PSIS (Pan et al. (2016) <doi:10.1080/01621459.2014.998760>),
CAS (Xie et al. (2020) <doi:10.1080/01621459.2019.1573734>),
CI-SIS (C [...truncated...]
Author: Xuewei Cheng [aut, cre],
Hong Wang [aut],
Liping Zhu [aut],
Wei Zhong [aut],
Hanpu Zhou [aut]
Maintainer: Xuewei Cheng <xwcheng@hunnu.edu.cn>
Diff between MFSIS versions 0.3.0 dated 2025-03-18 and 0.3.1 dated 2026-05-13
DESCRIPTION | 27 +++++++------ MD5 | 89 +++++++++++++++++++++++--------------------- NAMESPACE | 4 + NEWS.md | 6 ++ R/BcorSIS.R | 2 R/CISIS.R | 2 R/CSIS.R | 2 R/GendataAFT.R | 2 R/GendataCox.R | 2 R/GendataGP.R | 8 +-- R/GendataIC.R |only R/GendataIM.R | 2 R/GendataLDA.R | 1 R/GendataLGM.R | 2 R/GendataLM.R | 2 R/GendataMRM.R | 2 R/GendataPM.R | 2 R/GendataTM.R | 2 R/Kfilter.R | 2 R/LogrankSIS.R |only R/MDCSIS.R | 9 +--- R/MFSIS.R | 8 +-- R/MVSIS.R | 2 R/PCSIS.R | 17 ++++---- R/Simdata.R | 5 +- README.md | 2 man/BcorSIS.Rd | 2 man/CISIS.Rd | 2 man/CSIS.Rd | 2 man/GendataAFT.Rd | 2 man/GendataCox.Rd | 2 man/GendataGP.Rd | 8 +-- man/GendataIC.Rd |only man/GendataIM.Rd | 2 man/GendataLGM.Rd | 2 man/GendataLM.Rd | 2 man/GendataMRM.Rd | 2 man/GendataPM.Rd | 2 man/GendataTM.Rd | 2 man/LogrankSIS.Rd |only man/MDCSIS.Rd | 99 ++++++++++++++++++++++++------------------------- man/MFSIS.Rd | 8 +-- man/MVSIS.Rd | 2 man/PCSIS.Rd | 5 +- man/Simdata.Rd | 5 +- man/logrank_globals.Rd |only man/logrank_score.Rd |only man/req_py.Rd | 28 ++++++------- man/turnbull_em.Rd |only 49 files changed, 201 insertions(+), 178 deletions(-)
Title: Fast, Sensitive, and Accurate Integration of Single Cell Data
Description: Implementation of the Harmony algorithm for single cell integration, described in Patikas, Yao, et al. <doi:10.64898/2026.03.16.711825>. Package includes a standalone Harmony function and interfaces to external frameworks.
Author: Nikolaos Patikas [aut, ctb] ,
Hongcheng Yao [aut, ctb] ,
Ilya Korsunsky [cre, aut] ,
Martin Hemberg [aut] ,
Nghia Millard [aut] ,
Jean Fan [aut, ctb] ,
Kamil Slowikowski [aut, ctb] ,
Miles Smith [ctb],
Soumya Raychaudhuri [aut]
Maintainer: Ilya Korsunsky <ilya.korsunsky@gmail.com>
Diff between harmony versions 2.0.2 dated 2026-04-25 and 2.0.3 dated 2026-05-13
DESCRIPTION | 6 - MD5 | 15 +-- configure | 177 +++++++++++++++++++++++++++++------- configure.win | 178 +++++++++++++++++++++++++++++-------- inst/doc/Seurat.html | 26 ++--- inst/doc/detailedWalkthrough.html | 2 inst/doc/quickstart.html | 2 src/types.h | 7 + tests/testthat/test_two_variable.R |only 9 files changed, 312 insertions(+), 101 deletions(-)
Title: Species Distribution Modeling with H3 Grids
Description: Provides tools for species distribution modeling using H3
hexagonal grids (Uber Technologies Inc., 2022, <https://h3geo.org>).
Facilitates retrieval of species occurrence records, generation of H3 grids,
computation of landscape metrics, and preparation of spatial data for modern
species distribution models workflows. Designed for biodiversity and landscape ecology research.
Author: Manuel Spinola [aut, cre]
Maintainer: Manuel Spinola <mspinola10@gmail.com>
Diff between h3sdm versions 0.1.0 dated 2026-04-15 and 0.1.1 dated 2026-05-13
DESCRIPTION | 8 ++-- MD5 | 38 ++++++++++--------- NAMESPACE | 2 + NEWS.md | 36 ++++++++++++++++++ R/h3sdm_count_from_records.R |only R/h3sdm_pa_from_records.R |only R/h3sdm_recipe.R | 42 ++++++++++++--------- R/h3sdm_recipe_gam.R | 76 +++++++++++++++++---------------------- R/h3sdm_workflow.R | 61 ++++++++++++++++++++----------- R/h3sdm_workflow_gam.R | 77 +++++++++++++++++++++++++++------------- R/h3sdm_workflows.R | 70 ++++++++++++++++++++++++------------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/h3sdm.html | 32 ++++++++-------- man/h3sdm_count_from_records.Rd |only man/h3sdm_pa_from_records.Rd |only man/h3sdm_recipe.Rd | 22 +++++++---- man/h3sdm_recipe_gam.Rd | 64 ++++++++++++++------------------- man/h3sdm_stack_fit.Rd | 6 +-- man/h3sdm_workflow.Rd | 53 ++++++++++++++++++--------- man/h3sdm_workflow_gam.Rd | 56 ++++++++++++++++++++--------- man/h3sdm_workflows.Rd | 55 ++++++++++++++++++++++------ 22 files changed, 441 insertions(+), 257 deletions(-)
Title: DTR Estimation and Inference via G-Estimation, Dynamic WOLS,
Q-Learning, and Dynamic Weighted Survival Modeling (DWSurv)
Description: Dynamic treatment regime estimation and inference via G-estimation,
dynamic weighted ordinary least squares (dWOLS) and Q-learning. Inference via
bootstrap and recursive sandwich estimation. Estimation and
inference for survival outcomes via Dynamic Weighted Survival Modeling (DWSurv).
Extension to continuous treatment variables. Wallace et al. (2017)
<DOI:10.18637/jss.v080.i02>; Simoneau et al. (2020)
<DOI:10.1080/00949655.2020.1793341>.
Author: Michael Wallace [aut],
Erica E M Moodie [aut],
David A Stephens [aut],
Gabrielle Simoneau [aut],
Shannon T. Holloway [aut, cre],
Juliana Schulz [aut]
Maintainer: Shannon T. Holloway <shannon.t.holloway@gmail.com>
Diff between DTRreg versions 2.3 dated 2025-05-03 and 2.4 dated 2026-05-13
DESCRIPTION | 62 ++-- MD5 | 67 +++- NAMESPACE | 88 +++--- NEWS | 9 R/Ahat.R | 7 R/DTRreg.R | 111 ++++++-- R/DWsurv.R | 78 ++++- R/bootstrapStep.R | 228 ++++++++++------ R/chooseM.R | 29 ++ R/dtrProcedure.R | 417 ++++++++++++++---------------- R/dwols.R | 21 - R/gest.R | 2 R/inputProcessing.R | 45 ++- R/s3-methods.R | 445 ++++++++++++++++++++++----------- R/sandwich.R | 5 R/treatmentClasses.R | 138 ++-------- R/varest.R | 6 R/variance.R |only R/weights.R | 172 ++++++++---- man/DTRreg.Rd | 47 ++- man/DWSurv.Rd | 33 +- man/autoplot.DTRreg.Rd |only man/chooseM.Rd | 10 man/confint.DTRreg.Rd | 62 ++-- man/data.Rd | 142 +++++----- man/plot.DTRreg.Rd | 177 +++++-------- man/predict.DTRreg.Rd | 204 +++++++-------- tests/testthat/test_Ahat.R |only tests/testthat/test_DTRreg.R |only tests/testthat/test_bootstrapStep.R |only tests/testthat/test_chooseM.R |only tests/testthat/test_dtrProcedure.R |only tests/testthat/test_dwols.R |only tests/testthat/test_gest.R |only tests/testthat/test_inputProcessing.R |only tests/testthat/test_s3_methods.R |only tests/testthat/test_sandwich.R |only tests/testthat/test_treatmentClasses.R |only tests/testthat/test_utils.R |only tests/testthat/test_varest.R |only tests/testthat/test_variance.R |only tests/testthat/test_weights.R |only tests/testthat/testthat_DWsurv.R | 50 ++- 43 files changed, 1502 insertions(+), 1153 deletions(-)
Title: Confusion Matrix
Description: Thematic quality indices are provided to facilitate the evaluation
and quality control of geospatial data products (e.g. thematic maps, remote
sensing classifications, etc.). The indices offered are based on the
so-called confusion matrix. This matrix is constructed by comparing the
assigned classes or attributes of a set of pairs of positions or objects
in the product and the ground truth. In this package it is considered that
the classes of the ground truth correspond to the columns and that the
classes of the product to be valued correspond to the rows. The package
offers two object classes with their methods: 'ConfMatrix' (Confusion
matrix) and 'QCCS' (Quality Control Columns Set). The 'ConfMatrix' class of
objects offers more than 20 methods based on the confusion matrix. The
'QCCS' class of objects offers a different perspective in which the ground
truth is considered to allow the values of the column marginals to be fixed,
see Ariza López et al. (2019) <doi:10.3390/app9204240 [...truncated...]
Author: Francisco Javier Ariza-Lopez [aut],
Paola Barba-Ceballos [aut],
Silverio Vilchez-Lopez [aut, cre],
Jose Rodriguez-Avi [aut],
Maria Virtudes Alba-Fernandez [aut],
Jose Luis Garcia-Balboa [aut]
Maintainer: Silverio Vilchez-Lopez <svilchez@ujaen.es>
Diff between ConfMatrix versions 0.1.0 dated 2024-11-03 and 0.2.0 dated 2026-05-13
ConfMatrix-0.1.0/ConfMatrix/README.md |only ConfMatrix-0.1.0/ConfMatrix/inst/doc/mi_vignette.R |only ConfMatrix-0.1.0/ConfMatrix/inst/doc/mi_vignette.Rmd |only ConfMatrix-0.1.0/ConfMatrix/inst/doc/mi_vignette.html |only ConfMatrix-0.1.0/ConfMatrix/inst/doc/my-vignette.R |only ConfMatrix-0.1.0/ConfMatrix/inst/doc/my-vignette.Rmd |only ConfMatrix-0.1.0/ConfMatrix/inst/doc/my-vignette.html |only ConfMatrix-0.1.0/ConfMatrix/vignettes/mi_vignette.Rmd |only ConfMatrix-0.1.0/ConfMatrix/vignettes/my-vignette.Rmd |only ConfMatrix-0.2.0/ConfMatrix/DESCRIPTION | 22 ConfMatrix-0.2.0/ConfMatrix/MD5 | 25 ConfMatrix-0.2.0/ConfMatrix/R/QCCS.R | 270 - ConfMatrix-0.2.0/ConfMatrix/build/partial.rdb |binary ConfMatrix-0.2.0/ConfMatrix/build/vignette.rds |binary ConfMatrix-0.2.0/ConfMatrix/inst/doc/QCCS-vignette.R |only ConfMatrix-0.2.0/ConfMatrix/inst/doc/QCCS-vignette.Rmd |only ConfMatrix-0.2.0/ConfMatrix/inst/doc/QCCS-vignette.html |only ConfMatrix-0.2.0/ConfMatrix/man/ConfMatrix.Rd | 2877 +++++++--------- ConfMatrix-0.2.0/ConfMatrix/man/QCCS.Rd | 751 ++-- ConfMatrix-0.2.0/ConfMatrix/vignettes/QCCS-vignette.Rmd |only 20 files changed, 1882 insertions(+), 2063 deletions(-)
Title: Philippine Statistical Classification Systems
Description: A unified interface to access and manipulate various Philippine statistical classifications. It allows users to retrieve, filter, and harmonize classification data, making it easier to work with Philippine statistical data in R.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
Diff between phscs versions 0.1.0 dated 2025-11-09 and 0.2.0 dated 2026-05-13
DESCRIPTION | 14 MD5 | 67 NAMESPACE | 2 NEWS.md |only R/helpers.R | 94 R/pcoicop.R | 157 - R/pcpc.R | 144 - R/psccs.R |only R/psced.R | 125 - R/psgc.R | 261 -- R/psgc_helpers.R | 72 R/psic.R | 133 - R/psoc.R | 127 - R/sysdata.rda |binary R/utils.R | 76 R/zzz.R | 138 - README.md | 88 build/vignette.rds |binary inst/doc/phscs.R | 174 - inst/doc/phscs.Rmd | 227 + inst/doc/phscs.html | 5065 ++++++++++++++++++++++++++++++++++++------ man/get_pcoicop.Rd | 41 man/get_pcpc.Rd | 42 man/get_psccs.Rd |only man/get_psced.Rd | 39 man/get_psgc.Rd | 50 man/get_psic.Rd | 39 man/get_psoc.Rd | 39 man/shorten_region_name.Rd | 11 tests/testthat/test-pcoicop.R | 4 tests/testthat/test-pcpc.R | 4 tests/testthat/test-psced.R | 2 tests/testthat/test-psgc.R | 42 tests/testthat/test-psic.R | 2 tests/testthat/test-psoc.R | 2 vignettes/phscs.Rmd | 227 + 36 files changed, 5130 insertions(+), 2378 deletions(-)
Title: Efficient Computations of Standard Clustering Comparison
Measures
Description: Implements an efficient O(n) algorithm based on bucket-sorting for
fast computation of standard clustering comparison measures. Available measures
include adjusted Rand index (ARI), normalized information distance (NID),
normalized mutual information (NMI), normalized variation information (NVI) and entropy, as described in Vinh et al (2009)
<doi:10.1145/1553374.1553511>. Include AMI (Adjusted Mutual Information) since version 0.1.2,
a modified version of ARI (MARI), as described in Sundqvist et al. <doi:10.1007/s00180-022-01230-7>
and simple Chi-square distance since version 1.0.0.
Author: Julien Chiquet [aut, cre] ,
Guillem Rigaill [aut],
Martina Sundqvist [aut],
Valentin Dervieux [ctb],
Florent Bersani [ctb]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between aricode versions 1.0.3 dated 2023-10-20 and 1.1.0 dated 2026-05-13
DESCRIPTION | 18 - MD5 | 58 ++- NAMESPACE | 5 NEWS.md | 7 R/RcppExports.R | 12 R/aricode-package.R | 25 + R/aricode.R | 603 ++++++++++++++++++++++----------------- build/partial.rdb |binary inst/WORDLIST | 197 ++++++++++++ inst/check_speed.R | 44 ++ man/AMI.Rd | 17 - man/ARI.Rd | 19 - man/Chi2.Rd | 21 - man/Frobenius.Rd |only man/MARI.Rd | 26 + man/MARIraw.Rd | 26 - man/NID.Rd | 17 - man/NMI.Rd | 22 + man/NVI.Rd | 17 - man/RI.Rd | 21 - man/aricode-package.Rd | 28 + man/clustComp.Rd | 27 - man/compare_clustering.Rd |only man/entropy.Rd | 19 - man/sortPairs.Rd | 17 - man/sort_pairs.Rd |only src/RcppExports.cpp | 41 +- src/aricode.cpp | 301 ++++++++++++------- tests/spelling.R | 9 tests/testthat/test_coherence.R | 177 +++++------ tests/testthat/test_deprecated.R |only tests/testthat/test_input.R | 63 ++-- 32 files changed, 1182 insertions(+), 655 deletions(-)
Title: Animated Biplots
Description: Create animated biplots that enables dynamic visualisation of temporal or sequential changes in multivariate data by animating a single biplot across the levels of a time variable. It builds on objects from the 'biplotEZ' package, Lubbe S, le Roux N, Nienkemper-Swanepoel J, Ganey R, Buys R, Adams Z, Manefeldt P (2024) <doi:10.32614/CRAN.package.biplotEZ>, allowing users to create animated biplots that reveal how both samples and variables evolve over time.
Author: Raeesa Ganey [aut, cre, cph] ,
Johane Nienkemper-Swanepoel [aut, cph]
Maintainer: Raeesa Ganey <raeesa.ganey@wits.ac.za>
Diff between moveEZ versions 1.1.1 dated 2025-09-08 and 1.2.0 dated 2026-05-13
DESCRIPTION | 10 MD5 | 38 - NAMESPACE | 8 NEWS.md | 6 R/evaluation_func.R | 2 R/plot.R | 342 ++++++++++++---- README.md | 127 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/moveEZ.R | 122 ++++- inst/doc/moveEZ.Rmd | 405 ++++++++++++++----- inst/doc/moveEZ.html | 883 +++++++++++++++++++++++++------------------ man/evaluation.Rd | 2 man/moveEZ-package.Rd | 1 man/moveplot.Rd | 34 + man/moveplot2.Rd | 2 man/moveplot3.Rd | 2 man/reexports.Rd |only vignettes/anim1_moveplot.gif |only vignettes/moveEZ.Rmd | 405 ++++++++++++++----- vignettes/references.bib | 24 + 21 files changed, 1614 insertions(+), 799 deletions(-)
Title: Add Uncertainty to Data Visualisations
Description: A 'ggplot2' extension for visualising uncertainty with the goal
of signal suppression. Usually, uncertainty visualisation focuses on
expressing uncertainty as a distribution or probability, whereas
'ggdibbler' differentiates itself by viewing an uncertainty
visualisation as an adjustment to an existing graphic that
incorporates the inherent uncertainty in the estimates. You provide
the code for an existing plot, but replace any of the variables with a
vector of distributions, and it will convert the visualisation into
it's signal suppression counterpart.
Author: Harriet Mason [aut, cre] ,
Dianne Cook [aut, ths] ,
Sarah Goodwin [aut, ths] ,
Susan VanderPlas [aut, ths]
Maintainer: Harriet Mason <harriet.m.mason@gmail.com>
Diff between ggdibbler versions 0.6.1 dated 2025-12-06 and 0.6.5 dated 2026-05-13
DESCRIPTION | 10 MD5 | 57 - NEWS.md | 13 R/position-subdivide.R | 32 data/smaller_diamonds.rda |binary data/smaller_uncertain_diamonds.rda |binary data/uncertain_mpg.rda |binary data/uncertain_mtcars.rda |binary inst/doc/A_how-to-guide.R | 4 inst/doc/A_how-to-guide.Rmd | 4 inst/doc/A_how-to-guide.html | 511 +++++++------- inst/doc/B_ggdibbler-philosophy.R | 34 inst/doc/B_ggdibbler-philosophy.Rmd | 84 +- inst/doc/B_ggdibbler-philosophy.html | 506 +++++++------ inst/doc/C_random-plots.R | 20 inst/doc/C_random-plots.Rmd | 30 inst/doc/C_random-plots.html | 165 ++-- inst/doc/D_extender-info.Rmd | 30 inst/doc/D_extender-info.html | 118 +-- inst/logo.png |only inst/ordereddata.R |only inst/thumbnail.R |only man/geom_boxplot_sample.Rd | 4 tests/testthat/_snaps/geom-density-sample/example5.svg | 69 - tests/testthat/_snaps/geom-freqpoly-sample/example-1.svg | 156 ++-- tests/testthat/_snaps/geom-freqpoly-sample/example-2.svg | 124 +-- tests/testthat/_snaps/geom-histogram-sample/example-3.svg | 104 +- vignettes/A_how-to-guide.Rmd | 4 vignettes/B_ggdibbler-philosophy.Rmd | 84 +- vignettes/C_random-plots.Rmd | 30 vignettes/D_extender-info.Rmd | 30 31 files changed, 1143 insertions(+), 1080 deletions(-)
Title: Estimate Survival from Common Data Model Cohorts
Description: Estimate survival using data mapped to the Observational Medical Outcomes Partnership common data model. Survival can be estimated based on user-defined study cohorts.
Author: Kim Lopez-Gueell [aut, cre] ,
Edward Burn [aut] ,
Marti Catala [aut] ,
Xintong Li [aut] ,
Danielle Newby [aut] ,
Nuria Mercade-Besora [aut]
Maintainer: Kim Lopez-Gueell <kim.lopez@spc.ox.ac.uk>
Diff between CohortSurvival versions 1.1.0 dated 2025-12-04 and 1.1.1 dated 2026-05-13
DESCRIPTION | 18 MD5 | 44 NEWS.md | 10 R/addCohortSurvival.R | 46 R/asSurvivalResult.R | 46 R/estimateSurvival.R | 65 - R/inputValidation.R | 40 R/mockCohortSurvival.R | 1 R/mockMGUS2cdm.R | 1 R/plotSurvival.R | 8 build/vignette.rds |binary inst/doc/a01_Single_event_of_interest.html | 1276 ++++++++++---------- inst/doc/a02_Competing_risk_survival.html | 239 +-- inst/doc/a03_Further_survival_analyses.html | 11 man/CohortSurvival-package.Rd | 3 man/estimateCompetingRiskSurvival.Rd | 4 man/estimateSingleEventSurvival.Rd | 4 man/plotSurvival.Rd | 5 tests/testthat/test-addCohortSurvival.R | 104 + tests/testthat/test-asSurvivalResult.R | 22 tests/testthat/test-competing-risk-guard.R |only tests/testthat/test-estimateSurvival.R | 137 ++ tests/testthat/test-plotSurvival.R | 4 tests/testthat/test-validateExtractSurvivalInputs.R |only 24 files changed, 1250 insertions(+), 838 deletions(-)
More information about CohortSurvival at CRAN
Permanent link
Title: Advanced Toolset for Efficient Time Series Dissimilarity
Analysis
Description: Fast C++ implementation of Dynamic Time Warping for time series dissimilarity analysis, with applications in environmental monitoring and sensor data analysis, climate science, signal processing and pattern recognition, and financial data analysis. Built upon the ideas presented in Benito and Birks (2020) <doi:10.1111/ecog.04895>, provides tools for analyzing time series of varying lengths and structures, including irregular multivariate time series. Key features include individual variable contribution analysis, restricted permutation tests for statistical significance, and imputation of missing data via GAMs. Additionally, the package provides an ample set of tools to prepare and manage time series data.
Author: Blas M. Benito [aut, cre, cph]
Maintainer: Blas M. Benito <blasbenito@gmail.com>
Diff between distantia versions 2.0.2 dated 2025-02-01 and 2.0.3 dated 2026-05-13
distantia-2.0.2/distantia/tests/testthat/test-distantia_time_shift.R |only distantia-2.0.3/distantia/DESCRIPTION | 12 distantia-2.0.3/distantia/MD5 | 583 +++++----- distantia-2.0.3/distantia/NEWS.md | 67 + distantia-2.0.3/distantia/R/data.R | 50 distantia-2.0.3/distantia/R/distance.R | 3 distantia-2.0.3/distantia/R/distantia-package.R | 2 distantia-2.0.3/distantia/R/distantia.R | 6 distantia-2.0.3/distantia/R/distantia_aggregate.R | 12 distantia-2.0.3/distantia/R/distantia_boxplot.R | 2 distantia-2.0.3/distantia/R/distantia_cluster_kmeans.R | 2 distantia-2.0.3/distantia/R/distantia_dtw.R | 23 distantia-2.0.3/distantia/R/distantia_dtw_plot.R | 4 distantia-2.0.3/distantia/R/distantia_ls.R | 7 distantia-2.0.3/distantia/R/distantia_model_frame.R | 22 distantia-2.0.3/distantia/R/distantia_spatial.R | 36 distantia-2.0.3/distantia/R/distantia_stats.R | 26 distantia-2.0.3/distantia/R/distantia_time_delay.R | 170 +- distantia-2.0.3/distantia/R/momentum.R | 10 distantia-2.0.3/distantia/R/momentum_aggregate.R | 4 distantia-2.0.3/distantia/R/momentum_boxplot.R | 2 distantia-2.0.3/distantia/R/momentum_dtw.R | 2 distantia-2.0.3/distantia/R/momentum_ls.R | 2 distantia-2.0.3/distantia/R/momentum_model_frame.R | 20 distantia-2.0.3/distantia/R/momentum_spatial.R | 6 distantia-2.0.3/distantia/R/momentum_stats.R | 26 distantia-2.0.3/distantia/R/momentum_to_wide.R | 4 distantia-2.0.3/distantia/R/psi_auto_distance.R | 2 distantia-2.0.3/distantia/R/psi_auto_sum.R | 2 distantia-2.0.3/distantia/R/psi_cost_path.R | 2 distantia-2.0.3/distantia/R/psi_distance_lock_step.R | 9 distantia-2.0.3/distantia/R/psi_equation.R | 9 distantia-2.0.3/distantia/R/transformations.R | 22 distantia-2.0.3/distantia/R/tsl_aggregate.R | 2 distantia-2.0.3/distantia/R/tsl_burst.R | 2 distantia-2.0.3/distantia/R/tsl_colnames.R | 12 distantia-2.0.3/distantia/R/tsl_diagnose.R | 8 distantia-2.0.3/distantia/R/tsl_handle_NA.R | 1 distantia-2.0.3/distantia/R/tsl_initialize.R | 11 distantia-2.0.3/distantia/R/tsl_join.R | 2 distantia-2.0.3/distantia/R/tsl_names.R | 14 distantia-2.0.3/distantia/R/tsl_ncol.R | 4 distantia-2.0.3/distantia/R/tsl_nrow.R | 4 distantia-2.0.3/distantia/R/tsl_plot.R | 2 distantia-2.0.3/distantia/R/tsl_repair.R | 8 distantia-2.0.3/distantia/R/tsl_resample.R | 8 distantia-2.0.3/distantia/R/tsl_simulate.R | 2 distantia-2.0.3/distantia/R/tsl_smooth.R | 2 distantia-2.0.3/distantia/R/tsl_stats.R | 2 distantia-2.0.3/distantia/R/tsl_time.R | 4 distantia-2.0.3/distantia/R/utils_as_time.R | 4 distantia-2.0.3/distantia/R/utils_block_size.R | 6 distantia-2.0.3/distantia/R/utils_boxplot_common.R | 4 distantia-2.0.3/distantia/R/utils_check_args.R | 37 distantia-2.0.3/distantia/R/utils_check_list_class.R | 6 distantia-2.0.3/distantia/R/utils_clean_names.R | 18 distantia-2.0.3/distantia/R/utils_cluster_hclust_optimizer.R | 5 distantia-2.0.3/distantia/R/utils_cluster_kmeans_optimizer.R | 5 distantia-2.0.3/distantia/R/utils_cluster_silhouette.R | 24 distantia-2.0.3/distantia/R/utils_color_breaks.R | 2 distantia-2.0.3/distantia/R/utils_digits.R | 4 distantia-2.0.3/distantia/R/utils_distantia_df_split.R | 10 distantia-2.0.3/distantia/R/utils_drop_geometry.R | 8 distantia-2.0.3/distantia/R/utils_global_scaling_params.R | 2 distantia-2.0.3/distantia/R/utils_is_time.R | 2 distantia-2.0.3/distantia/R/utils_line_color.R | 2 distantia-2.0.3/distantia/R/utils_line_guide.R | 4 distantia-2.0.3/distantia/R/utils_matrix_guide.R | 2 distantia-2.0.3/distantia/R/utils_matrix_plot.R | 2 distantia-2.0.3/distantia/R/utils_optimize_loess.R | 4 distantia-2.0.3/distantia/R/utils_optimize_spline.R | 4 distantia-2.0.3/distantia/R/utils_prepare_df.R | 4 distantia-2.0.3/distantia/R/utils_prepare_matrix.R | 4 distantia-2.0.3/distantia/R/utils_prepare_matrix_list.R | 4 distantia-2.0.3/distantia/R/utils_prepare_time.R | 6 distantia-2.0.3/distantia/R/utils_prepare_vector_list.R | 4 distantia-2.0.3/distantia/R/utils_prepare_zoo_list.R | 6 distantia-2.0.3/distantia/R/utils_rescale_vector.R | 8 distantia-2.0.3/distantia/R/utils_time_keywords.R | 2 distantia-2.0.3/distantia/R/utils_time_keywords_translate.R | 4 distantia-2.0.3/distantia/R/utils_time_units.R | 2 distantia-2.0.3/distantia/R/utils_tsl_pairs.R | 7 distantia-2.0.3/distantia/R/zoo_aggregate.R | 4 distantia-2.0.3/distantia/R/zoo_names.R | 14 distantia-2.0.3/distantia/R/zoo_permute.R | 4 distantia-2.0.3/distantia/R/zoo_plot.R | 4 distantia-2.0.3/distantia/R/zoo_resample.R | 2 distantia-2.0.3/distantia/R/zoo_smooth_exponential.R | 2 distantia-2.0.3/distantia/R/zoo_smooth_window.R | 2 distantia-2.0.3/distantia/R/zoo_vector_to_matrix.R | 7 distantia-2.0.3/distantia/README.md | 51 distantia-2.0.3/distantia/build/partial.rdb |binary distantia-2.0.3/distantia/inst/CITATION | 3 distantia-2.0.3/distantia/inst/WORDLIST | 138 +- distantia-2.0.3/distantia/man/albatross.Rd | 16 distantia-2.0.3/distantia/man/auto_distance_cpp.Rd | 10 distantia-2.0.3/distantia/man/auto_sum_cpp.Rd | 10 distantia-2.0.3/distantia/man/auto_sum_full_cpp.Rd | 10 distantia-2.0.3/distantia/man/auto_sum_path_cpp.Rd | 10 distantia-2.0.3/distantia/man/cities_coordinates.Rd | 16 distantia-2.0.3/distantia/man/cities_temperature.Rd | 8 distantia-2.0.3/distantia/man/color_continuous.Rd | 18 distantia-2.0.3/distantia/man/color_discrete.Rd | 16 distantia-2.0.3/distantia/man/cost_matrix_diagonal_cpp.Rd | 10 distantia-2.0.3/distantia/man/cost_matrix_diagonal_weighted_cpp.Rd | 10 distantia-2.0.3/distantia/man/cost_matrix_orthogonal_cpp.Rd | 10 distantia-2.0.3/distantia/man/cost_path_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_diagonal_bandwidth_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_diagonal_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_orthogonal_bandwidth_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_orthogonal_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_slotting_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_sum_cpp.Rd | 16 distantia-2.0.3/distantia/man/cost_path_trim_cpp.Rd | 16 distantia-2.0.3/distantia/man/covid_counties.Rd | 4 distantia-2.0.3/distantia/man/covid_prevalence.Rd | 8 distantia-2.0.3/distantia/man/distance.Rd | 6 distantia-2.0.3/distantia/man/distance_bray_curtis_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_canberra_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_chebyshev_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_chi_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_cosine_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_euclidean_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_hamming_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_hellinger_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_jaccard_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_ls_cpp.Rd | 10 distantia-2.0.3/distantia/man/distance_manhattan_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_matrix.Rd | 4 distantia-2.0.3/distantia/man/distance_matrix_cpp.Rd | 10 distantia-2.0.3/distantia/man/distance_russelrao_cpp.Rd | 24 distantia-2.0.3/distantia/man/distance_sorensen_cpp.Rd | 24 distantia-2.0.3/distantia/man/distances.Rd | 10 distantia-2.0.3/distantia/man/distantia-package.Rd | 2 distantia-2.0.3/distantia/man/distantia.Rd | 14 distantia-2.0.3/distantia/man/distantia_aggregate.Rd | 32 distantia-2.0.3/distantia/man/distantia_boxplot.Rd | 28 distantia-2.0.3/distantia/man/distantia_cluster_hclust.Rd | 26 distantia-2.0.3/distantia/man/distantia_cluster_kmeans.Rd | 28 distantia-2.0.3/distantia/man/distantia_dtw.Rd | 14 distantia-2.0.3/distantia/man/distantia_dtw_plot.Rd | 12 distantia-2.0.3/distantia/man/distantia_ls.Rd | 11 distantia-2.0.3/distantia/man/distantia_matrix.Rd | 26 distantia-2.0.3/distantia/man/distantia_model_frame.Rd | 30 distantia-2.0.3/distantia/man/distantia_spatial.Rd | 28 distantia-2.0.3/distantia/man/distantia_stats.Rd | 30 distantia-2.0.3/distantia/man/distantia_time_delay.Rd | 54 distantia-2.0.3/distantia/man/eemian_coordinates.Rd | 16 distantia-2.0.3/distantia/man/eemian_pollen.Rd | 6 distantia-2.0.3/distantia/man/f_binary.Rd | 38 distantia-2.0.3/distantia/man/f_clr.Rd | 34 distantia-2.0.3/distantia/man/f_detrend_difference.Rd | 36 distantia-2.0.3/distantia/man/f_detrend_linear.Rd | 36 distantia-2.0.3/distantia/man/f_detrend_poly.Rd | 34 distantia-2.0.3/distantia/man/f_hellinger.Rd | 34 distantia-2.0.3/distantia/man/f_list.Rd | 34 distantia-2.0.3/distantia/man/f_log.Rd | 34 distantia-2.0.3/distantia/man/f_percent.Rd | 34 distantia-2.0.3/distantia/man/f_proportion.Rd | 34 distantia-2.0.3/distantia/man/f_proportion_sqrt.Rd | 34 distantia-2.0.3/distantia/man/f_rescale_global.Rd | 44 distantia-2.0.3/distantia/man/f_rescale_local.Rd | 44 distantia-2.0.3/distantia/man/f_scale_global.Rd | 34 distantia-2.0.3/distantia/man/f_scale_local.Rd | 34 distantia-2.0.3/distantia/man/f_trend_linear.Rd | 34 distantia-2.0.3/distantia/man/f_trend_poly.Rd | 36 distantia-2.0.3/distantia/man/fagus_coordinates.Rd | 4 distantia-2.0.3/distantia/man/fagus_dynamics.Rd | 6 distantia-2.0.3/distantia/man/honeycomb_climate.Rd | 2 distantia-2.0.3/distantia/man/honeycomb_polygons.Rd | 2 distantia-2.0.3/distantia/man/importance_dtw_cpp.Rd | 6 distantia-2.0.3/distantia/man/importance_dtw_legacy_cpp.Rd | 6 distantia-2.0.3/distantia/man/importance_ls_cpp.Rd | 6 distantia-2.0.3/distantia/man/momentum.Rd | 16 distantia-2.0.3/distantia/man/momentum_aggregate.Rd | 16 distantia-2.0.3/distantia/man/momentum_boxplot.Rd | 16 distantia-2.0.3/distantia/man/momentum_dtw.Rd | 8 distantia-2.0.3/distantia/man/momentum_ls.Rd | 8 distantia-2.0.3/distantia/man/momentum_model_frame.Rd | 34 distantia-2.0.3/distantia/man/momentum_spatial.Rd | 20 distantia-2.0.3/distantia/man/momentum_stats.Rd | 16 distantia-2.0.3/distantia/man/momentum_to_wide.Rd | 16 distantia-2.0.3/distantia/man/permute_free_by_row_cpp.Rd | 8 distantia-2.0.3/distantia/man/permute_free_cpp.Rd | 8 distantia-2.0.3/distantia/man/permute_restricted_by_row_cpp.Rd | 8 distantia-2.0.3/distantia/man/permute_restricted_cpp.Rd | 8 distantia-2.0.3/distantia/man/psi_auto_distance.Rd | 18 distantia-2.0.3/distantia/man/psi_auto_sum.Rd | 18 distantia-2.0.3/distantia/man/psi_cost_matrix.Rd | 16 distantia-2.0.3/distantia/man/psi_cost_path.Rd | 18 distantia-2.0.3/distantia/man/psi_cost_path_sum.Rd | 16 distantia-2.0.3/distantia/man/psi_distance_lock_step.Rd | 16 distantia-2.0.3/distantia/man/psi_distance_matrix.Rd | 16 distantia-2.0.3/distantia/man/psi_dtw_cpp.Rd | 10 distantia-2.0.3/distantia/man/psi_equation.Rd | 25 distantia-2.0.3/distantia/man/psi_equation_cpp.Rd | 10 distantia-2.0.3/distantia/man/psi_ls_cpp.Rd | 10 distantia-2.0.3/distantia/man/psi_null_dtw_cpp.Rd | 10 distantia-2.0.3/distantia/man/psi_null_ls_cpp.Rd | 10 distantia-2.0.3/distantia/man/subset_matrix_by_rows_cpp.Rd | 10 distantia-2.0.3/distantia/man/tsl_aggregate.Rd | 14 distantia-2.0.3/distantia/man/tsl_burst.Rd | 42 distantia-2.0.3/distantia/man/tsl_colnames_clean.Rd | 48 distantia-2.0.3/distantia/man/tsl_colnames_get.Rd | 44 distantia-2.0.3/distantia/man/tsl_colnames_prefix.Rd | 42 distantia-2.0.3/distantia/man/tsl_colnames_set.Rd | 44 distantia-2.0.3/distantia/man/tsl_colnames_suffix.Rd | 40 distantia-2.0.3/distantia/man/tsl_count_NA.Rd | 40 distantia-2.0.3/distantia/man/tsl_diagnose.Rd | 44 distantia-2.0.3/distantia/man/tsl_handle_NA.Rd | 44 distantia-2.0.3/distantia/man/tsl_initialize.Rd | 4 distantia-2.0.3/distantia/man/tsl_join.Rd | 44 distantia-2.0.3/distantia/man/tsl_names_clean.Rd | 46 distantia-2.0.3/distantia/man/tsl_names_get.Rd | 44 distantia-2.0.3/distantia/man/tsl_names_set.Rd | 40 distantia-2.0.3/distantia/man/tsl_names_test.Rd | 42 distantia-2.0.3/distantia/man/tsl_ncol.Rd | 44 distantia-2.0.3/distantia/man/tsl_nrow.Rd | 44 distantia-2.0.3/distantia/man/tsl_plot.Rd | 4 distantia-2.0.3/distantia/man/tsl_repair.Rd | 48 distantia-2.0.3/distantia/man/tsl_resample.Rd | 18 distantia-2.0.3/distantia/man/tsl_simulate.Rd | 6 distantia-2.0.3/distantia/man/tsl_smooth.Rd | 14 distantia-2.0.3/distantia/man/tsl_stats.Rd | 12 distantia-2.0.3/distantia/man/tsl_subset.Rd | 40 distantia-2.0.3/distantia/man/tsl_time.Rd | 44 distantia-2.0.3/distantia/man/tsl_to_df.Rd | 40 distantia-2.0.3/distantia/man/tsl_transform.Rd | 10 distantia-2.0.3/distantia/man/utils_as_time.Rd | 20 distantia-2.0.3/distantia/man/utils_block_size.Rd | 32 distantia-2.0.3/distantia/man/utils_boxplot_common.Rd | 42 distantia-2.0.3/distantia/man/utils_check_args_distantia.Rd | 40 distantia-2.0.3/distantia/man/utils_check_args_matrix.Rd | 44 distantia-2.0.3/distantia/man/utils_check_args_momentum.Rd | 40 distantia-2.0.3/distantia/man/utils_check_args_path.Rd | 44 distantia-2.0.3/distantia/man/utils_check_args_tsl.Rd | 44 distantia-2.0.3/distantia/man/utils_check_args_zoo.Rd | 44 distantia-2.0.3/distantia/man/utils_check_distance_args.Rd | 40 distantia-2.0.3/distantia/man/utils_check_list_class.Rd | 44 distantia-2.0.3/distantia/man/utils_clean_names.Rd | 56 distantia-2.0.3/distantia/man/utils_cluster_hclust_optimizer.Rd | 30 distantia-2.0.3/distantia/man/utils_cluster_kmeans_optimizer.Rd | 30 distantia-2.0.3/distantia/man/utils_cluster_silhouette.Rd | 38 distantia-2.0.3/distantia/man/utils_coerce_time_class.Rd | 16 distantia-2.0.3/distantia/man/utils_color_breaks.Rd | 14 distantia-2.0.3/distantia/man/utils_digits.Rd | 42 distantia-2.0.3/distantia/man/utils_distantia_df_split.Rd | 48 distantia-2.0.3/distantia/man/utils_drop_geometry.Rd | 16 distantia-2.0.3/distantia/man/utils_global_scaling_params.Rd | 12 distantia-2.0.3/distantia/man/utils_is_time.Rd | 20 distantia-2.0.3/distantia/man/utils_line_color.Rd | 16 distantia-2.0.3/distantia/man/utils_line_guide.Rd | 20 distantia-2.0.3/distantia/man/utils_matrix_guide.Rd | 16 distantia-2.0.3/distantia/man/utils_matrix_plot.Rd | 16 distantia-2.0.3/distantia/man/utils_new_time.Rd | 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distantia-2.0.3/distantia/man/zoo_name_set.Rd | 28 distantia-2.0.3/distantia/man/zoo_permute.Rd | 24 distantia-2.0.3/distantia/man/zoo_plot.Rd | 30 distantia-2.0.3/distantia/man/zoo_resample.Rd | 26 distantia-2.0.3/distantia/man/zoo_simulate.Rd | 4 distantia-2.0.3/distantia/man/zoo_smooth_exponential.Rd | 26 distantia-2.0.3/distantia/man/zoo_smooth_window.Rd | 26 distantia-2.0.3/distantia/man/zoo_time.Rd | 24 distantia-2.0.3/distantia/man/zoo_to_tsl.Rd | 24 distantia-2.0.3/distantia/man/zoo_vector_to_matrix.Rd | 26 distantia-2.0.3/distantia/src/distance_methods.cpp | 4 distantia-2.0.3/distantia/src/psi.cpp | 7 distantia-2.0.3/distantia/tests/testthat/test-distance.R | 20 distantia-2.0.3/distantia/tests/testthat/test-distantia.R | 47 distantia-2.0.3/distantia/tests/testthat/test-distantia_spatial.R | 93 + distantia-2.0.3/distantia/tests/testthat/test-distantia_stats.R |only distantia-2.0.3/distantia/tests/testthat/test-distantia_time_delay.R |only distantia-2.0.3/distantia/tests/testthat/test-psi_equation.R | 14 distantia-2.0.3/distantia/tests/testthat/test-tsl_initialize.R | 12 distantia-2.0.3/distantia/tests/testthat/test-utils_cluster.R | 16 distantia-2.0.3/distantia/tests/testthat/test-utils_rescale_vector.R | 7 distantia-2.0.3/distantia/tests/testthat/test-zoo_vector_to_matrix.R | 8 294 files changed, 3454 insertions(+), 2956 deletions(-)
Title: Clinical Trial Simulator
Description: Simulate phase II and/or phase III clinical trials. It supports various types of endpoints and adaptive strategies. Tools for carrying out graphical testing procedure and combination test under group sequential design are also provided.
Author: Han Zhang [cre, aut]
Maintainer: Han Zhang <zhangh.ustc@gmail.com>
Diff between TrialSimulator versions 1.17.1 dated 2026-04-27 and 1.18.4 dated 2026-05-13
DESCRIPTION | 14 +- MD5 | 40 +++++--- NAMESPACE | 6 + NEWS.md | 18 +++ R/CorrelatedPfsAndOs2.R | 38 ++++--- R/RcppExports.R |only R/Trials.R | 133 ++++++++++++++++++--------- R/cpp-toggle.R |only R/package-imports.R | 2 R/reexports.R |only inst/doc/simulatePfsAndOsGumbel.R | 3 inst/doc/simulatePfsAndOsGumbel.Rmd | 3 inst/doc/simulatePfsAndOsGumbel.html | 12 +- inst/doc/simulatePfsAndOsIdm.html | 22 ++-- man/CorrelatedPfsAndOs2.Rd | 2 man/reexports.Rd |only src |only tests/testthat/fixtures |only tests/testthat/test-cpp-rollback.R |only tests/testthat/test-partial-coverage.R | 48 +++++++++ tests/testthat/test-unreachable-conditions.R |only vignettes/simulatePfsAndOsGumbel.Rmd | 3 22 files changed, 238 insertions(+), 106 deletions(-)
More information about TrialSimulator at CRAN
Permanent link
Title: Deal with Check Outputs
Description: Deal with packages 'check' outputs and reduce the risk of
rejection by 'CRAN' by following policies.
Author: Vincent Guyader [aut, cre] ,
Sebastien Rochette [aut] ,
Arthur Breant [aut] ,
Murielle Delmotte [aut] ,
ThinkR [cph]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between checkhelper versions 0.1.1 dated 2024-01-22 and 1.0.0 dated 2026-05-13
checkhelper-0.1.1/checkhelper/R/ch_list_globals.R |only checkhelper-0.1.1/checkhelper/R/check_as_cran.R |only checkhelper-0.1.1/checkhelper/R/check_clean_userspace.R |only checkhelper-0.1.1/checkhelper/R/find_missing_tags.R |only checkhelper-0.1.1/checkhelper/R/get_data_info.R |only checkhelper-0.1.1/checkhelper/R/use_data_doc.R |only checkhelper-0.1.1/checkhelper/R/utils-pipe.R |only checkhelper-0.1.1/checkhelper/inst/doc/check-with-real-cran-settings.R |only checkhelper-0.1.1/checkhelper/inst/doc/check-with-real-cran-settings.Rmd |only checkhelper-0.1.1/checkhelper/inst/doc/check-with-real-cran-settings.html |only checkhelper-0.1.1/checkhelper/inst/doc/deal-with-check-outputs.Rmd |only checkhelper-0.1.1/checkhelper/inst/doc/deal-with-check-outputs.html |only checkhelper-0.1.1/checkhelper/inst/doc/no-files-left-after-check.R |only checkhelper-0.1.1/checkhelper/inst/doc/no-files-left-after-check.Rmd |only checkhelper-0.1.1/checkhelper/inst/doc/no-files-left-after-check.html |only 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Title: Retrieve Data from the Census APIs
Description: A wrapper for the U.S. Census Bureau APIs that returns data frames of
Census data and metadata. Available datasets include the
Decennial Census, American Community Survey, Small Area Health Insurance Estimates,
Small Area Income and Poverty Estimates, Population Estimates and Projections, and more.
Author: Hannah Recht [aut, cre]
Maintainer: Hannah Recht <censusapi.rstats@gmail.com>
Diff between censusapi versions 0.9.0 dated 2025-03-05 and 0.10.0 dated 2026-05-13
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- NEWS.md | 6 ++++++ R/api-key.R | 24 +++++++++++++++++++++++- R/getcensus_functions.R | 9 ++++----- R/metadata_functions.R | 30 +++++++++++++++++++++++------- README.md | 27 +++++++++++++++++++++++++++ build/vignette.rds |binary inst/doc/censusapi.html | 5 +++-- man/getCensus.Rd | 4 ++-- man/get_api_key.Rd | 4 ++-- man/has_api_key.Rd | 4 ++-- man/listCensusApis.Rd | 15 ++++++++++----- man/listCensusMetadata.Rd | 14 ++++++++++---- man/makeVarlist.Rd | 8 ++++---- 15 files changed, 134 insertions(+), 52 deletions(-)
Title: Organize, Handle, and Explore Ecological Multilayer Networks
Description: Data and analysis of ecological multilayer networks, including standardization of data structures and functions to convert between them. Includes an interactive multilayer network visualizer (beta, paper forthcoming), and a collection of 78 empirical ecological multilayer network datasets. This work was supported by research grant ISF (Israel Science Foundation) 1281/20 to Shai Pilosof. Noa Frydman (2023) <doi:10.1111/2041-210X.14225>.
Author: Noa Frydman [aut],
Shai Pilosof [aut, fnd],
Shirly Freilikhman [aut],
Geut Galai [cre]
Maintainer: Geut Galai <geutg@post.bgu.ac.il>
Diff between emln versions 1.1.0 dated 2026-05-05 and 1.2.0 dated 2026-05-13
emln-1.1.0/emln/inst/multilayer_viz |only emln-1.1.0/emln/man/dot-resolve_viz_path.Rd |only emln-1.2.0/emln/DESCRIPTION | 8 - emln-1.2.0/emln/MD5 | 66 ++++++++------ emln-1.2.0/emln/NEWS.md | 23 +++-- emln-1.2.0/emln/R/multilayer_to_csv.R | 65 +++++++++++--- emln-1.2.0/emln/R/multilayer_to_json.R | 122 +++++++++++++++++++-------- emln-1.2.0/emln/R/plot_multilayer.R | 122 ++++++++++++++++----------- emln-1.2.0/emln/README.md | 24 +---- emln-1.2.0/emln/inst/MiRA |only emln-1.2.0/emln/man/dot-resolve_mira_path.Rd |only emln-1.2.0/emln/man/multilayer_to_csv.Rd | 34 +++++-- emln-1.2.0/emln/man/multilayer_to_json.Rd | 67 +++++++++++--- emln-1.2.0/emln/man/plot_multilayer.Rd | 60 +++++++++---- 14 files changed, 402 insertions(+), 189 deletions(-)
Title: Fast Numerical Maximum Likelihood Estimation for Latent Markov
Models
Description: A variety of latent Markov models, including hidden Markov models, hidden semi-Markov models,
state-space models and continuous-time variants can be formulated and estimated within the same framework via directly maximising the likelihood function using the so-called forward algorithm.
Applied researchers often need custom models that standard software does not easily support.
Writing tailored 'R' code offers flexibility but suffers from slow estimation speeds.
We address these issues by providing easy-to-use functions (written in 'C++' for speed) for common tasks like the forward algorithm.
These functions can be combined into custom models in a Lego-type approach, offering up to 10-20 times faster estimation via standard numerical optimisers.
To aid in building fully custom likelihood functions, several vignettes are included that show how to simulate data from and estimate all the above model classes.
Author: Jan-Ole Fischer [aut, cre]
Maintainer: Jan-Ole Fischer <jan-ole.fischer@mailbox.org>
Diff between LaMa versions 2.1.0 dated 2026-03-16 and 2.1.1 dated 2026-05-13
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Title: Space-Time Change of Support
Description: Spatio-temporal change of support (STCOS) methods are designed for
statistical inference on geographic and time domains which differ from
those on which the data were observed. In particular, a parsimonious class
of STCOS models supporting Gaussian outcomes was introduced by Bradley,
Wikle, and Holan <doi:10.1002/sta4.94>. The 'stcos' package contains tools
which facilitate use of STCOS models.
Author: Andrew M. Raim [aut, cre],
Scott H. Holan [aut, res],
Jonathan R. Bradley [aut, res],
Christopher K. Wikle [aut, res]
Maintainer: Andrew M. Raim <andrew.raim@gmail.com>
Diff between stcos versions 0.3.1 dated 2023-08-21 and 0.3.2 dated 2026-05-13
stcos-0.3.1/stcos/inst/columbia/README.txt |only stcos-0.3.2/stcos/DESCRIPTION | 22 +++++---- stcos-0.3.2/stcos/MD5 | 36 +++++++-------- stcos-0.3.2/stcos/NAMESPACE | 1 stcos-0.3.2/stcos/R/areal_spacetime_bisquare.R | 9 +-- stcos-0.3.2/stcos/R/areal_spatial_bisquare.R | 9 +-- stcos-0.3.2/stcos/R/package.R | 13 ++--- stcos-0.3.2/stcos/R/spacetime_bisquare.R | 5 -- stcos-0.3.2/stcos/R/spatial_bisquare.R | 5 -- stcos-0.3.2/stcos/build/partial.rdb |binary stcos-0.3.2/stcos/data/acs_sf.rda |binary stcos-0.3.2/stcos/data/columbia_neighbs.rda |binary stcos-0.3.2/stcos/inst/columbia/README.md |only stcos-0.3.2/stcos/man/areal_spacetime_bisquare.Rd | 9 ++- stcos-0.3.2/stcos/man/areal_spatial_bisquare.Rd | 9 ++- stcos-0.3.2/stcos/man/spacetime_bisquare.Rd | 9 ++- stcos-0.3.2/stcos/man/spatial_bisquare.Rd | 9 ++- stcos-0.3.2/stcos/man/stcos.Rd | 27 ++++++++++- stcos-0.3.2/stcos/src/RcppExports.cpp | 12 ++--- stcos-0.3.2/stcos/src/bisquare_basis.cpp | 52 +++++++++------------- 20 files changed, 120 insertions(+), 107 deletions(-)
Title: Single-Source Capture-Recapture Models
Description: Implementation of single-source capture-recapture methods for population size estimation using zero-truncated, zero-one truncated and zero-truncated one-inflated Poisson, Geometric and Negative Binomial regression as well as Zelterman's, Chao's and ratio-regression estimators. Package includes point and interval estimators for the population size with variances estimated using analytical or bootstrap method. Details can be found in: van der Heijden et all. (2003) <doi:10.1191/1471082X03st057oa>, Böhning and van der Heijden (2019) <doi:10.1214/18-AOAS1232>, Böhning et al. (2020) Capture-Recapture Methods for the Social and Medical Sciences or Böhning and Friedl (2021) <doi:10.1007/s10260-021-00556-8>.
Author: Piotr Chlebicki [aut, ctb] ,
Maciej Beresewicz [aut, cre] ,
Cyprian Jurkowski [ctb]
Maintainer: Maciej Beresewicz <maciej.beresewicz@ue.poznan.pl>
Diff between singleRcapture versions 1.0.0 dated 2026-01-21 and 1.1.0 dated 2026-05-13
singleRcapture-1.0.0/singleRcapture/inst/tinytest/test_inflated_hurdle.R |only singleRcapture-1.0.0/singleRcapture/inst/tinytest/test_zerotruncated.R |only singleRcapture-1.1.0/singleRcapture/DESCRIPTION | 18 singleRcapture-1.1.0/singleRcapture/MD5 | 126 +- singleRcapture-1.1.0/singleRcapture/NAMESPACE | 13 singleRcapture-1.1.0/singleRcapture/NEWS.md | 34 singleRcapture-1.1.0/singleRcapture/R/bootstrapParametric.R | 8 singleRcapture-1.1.0/singleRcapture/R/chao.R | 2 singleRcapture-1.1.0/singleRcapture/R/control.R | 6 singleRcapture-1.1.0/singleRcapture/R/data.R | 2 singleRcapture-1.1.0/singleRcapture/R/documentationFiles.R | 25 singleRcapture-1.1.0/singleRcapture/R/estimatePopsize.R | 54 - singleRcapture-1.1.0/singleRcapture/R/estimatePopsizeFit.R | 10 singleRcapture-1.1.0/singleRcapture/R/globals.R |only singleRcapture-1.1.0/singleRcapture/R/hurdleztnegbin.R | 152 ++- singleRcapture-1.1.0/singleRcapture/R/hurdleztpoisson.R | 4 singleRcapture-1.1.0/singleRcapture/R/internals.R | 8 singleRcapture-1.1.0/singleRcapture/R/linkFunctions.R | 22 singleRcapture-1.1.0/singleRcapture/R/oichao.R |only singleRcapture-1.1.0/singleRcapture/R/oiztnegbin.R | 13 singleRcapture-1.1.0/singleRcapture/R/oiztpoisson.R | 4 singleRcapture-1.1.0/singleRcapture/R/plots.R | 4 singleRcapture-1.1.0/singleRcapture/R/predict.R | 4 singleRcapture-1.1.0/singleRcapture/R/ratioReg.R |only singleRcapture-1.1.0/singleRcapture/R/simulate.R | 8 singleRcapture-1.1.0/singleRcapture/R/smallMethods.R | 8 singleRcapture-1.1.0/singleRcapture/R/zelterman.R | 2 singleRcapture-1.1.0/singleRcapture/R/zotnegbin.R | 7 singleRcapture-1.1.0/singleRcapture/R/zotpoisson.R | 4 singleRcapture-1.1.0/singleRcapture/R/ztHurdlenegbin.R | 290 +++--- singleRcapture-1.1.0/singleRcapture/R/ztHurdlepoisson.R | 4 singleRcapture-1.1.0/singleRcapture/R/ztnegbin.R | 9 singleRcapture-1.1.0/singleRcapture/R/ztoinegbin.R | 19 singleRcapture-1.1.0/singleRcapture/R/ztoipoisson.R | 4 singleRcapture-1.1.0/singleRcapture/R/ztpoisson.R | 4 singleRcapture-1.1.0/singleRcapture/README.md | 90 + singleRcapture-1.1.0/singleRcapture/build/singleRcapture.pdf |binary singleRcapture-1.1.0/singleRcapture/build/stage23.rdb |binary singleRcapture-1.1.0/singleRcapture/inst/CITATION | 2 singleRcapture-1.1.0/singleRcapture/inst/doc/singleRcapture.Rmd | 22 singleRcapture-1.1.0/singleRcapture/inst/doc/singleRcapture.html | 147 +-- singleRcapture-1.1.0/singleRcapture/inst/tinytest/helper_families.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_developer_only.R | 479 +++++----- singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_Hurdleztgeom.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_Hurdleztnegbin.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_Hurdleztpoisson.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_chao.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_oichao.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_oiztgeom.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_oiztnegbin.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_oiztpoisson.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztHurdlegeom.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztHurdlenegbin.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztHurdlepoisson.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztgeom.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztnegbin.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztoigeom.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztoinegbin.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztoipoisson.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_fam_ztpoisson.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_methods.R | 257 +++++ singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_ratioreg.R |only singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_simulate.R | 11 singleRcapture-1.1.0/singleRcapture/inst/tinytest/test_singleRcapture.R | 86 + singleRcapture-1.1.0/singleRcapture/man/controlMethod.Rd | 2 singleRcapture-1.1.0/singleRcapture/man/controlPopVar.Rd | 2 singleRcapture-1.1.0/singleRcapture/man/estimatePopsize.Rd | 13 singleRcapture-1.1.0/singleRcapture/man/estimatePopsizeFit.Rd | 6 singleRcapture-1.1.0/singleRcapture/man/figures/README-ratioReg-plot-1.png |only singleRcapture-1.1.0/singleRcapture/man/netherlandsimmigrant.Rd | 2 singleRcapture-1.1.0/singleRcapture/man/plot.singleRRatioReg.Rd |only singleRcapture-1.1.0/singleRcapture/man/plot.singleRStaticCountData.Rd | 4 singleRcapture-1.1.0/singleRcapture/man/popSizeEst.Rd | 11 singleRcapture-1.1.0/singleRcapture/man/ratioReg.Rd |only singleRcapture-1.1.0/singleRcapture/man/singleRmodels.Rd | 38 singleRcapture-1.1.0/singleRcapture/man/summary.singleRRatioReg.Rd |only singleRcapture-1.1.0/singleRcapture/tests/tinytest.R | 2 singleRcapture-1.1.0/singleRcapture/vignettes/singleRcapture.Rmd | 22 78 files changed, 1411 insertions(+), 653 deletions(-)
More information about singleRcapture at CRAN
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More information about CircularBoxplots at CRAN
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Title: MST-kNN Clustering Algorithm
Description: Implements the MST-kNN clustering algorithm proposed by
Inostroza-Ponta (2008) <https://trove.nla.gov.au/work/28729389>.
The algorithm determines the number of clusters automatically by
recursively intersecting the Minimum Spanning Tree (MST) and the
k-Nearest Neighbor (kNN) proximity graphs constructed from a pairwise
distance matrix. The value of k is selected via a connectivity
criterion (the smallest k such that the kNN graph is connected,
bounded by floor(log(n))). The package requires only a distance
matrix as input and returns cluster assignments, an 'igraph' network,
and partition metadata.
Author: Jorge Parraga-Alava [aut, cre] ,
Pablo Moscato [aut],
Mario Inostroza-Ponta [aut]
Maintainer: Jorge Parraga-Alava <jorge.parraga@utm.edu.ec>
Diff between mstknnclust versions 0.3.2 dated 2023-01-27 and 1.0.0 dated 2026-05-13
mstknnclust-0.3.2/mstknnclust/R/main.R |only mstknnclust-0.3.2/mstknnclust/data/dslanguages.RData |only mstknnclust-0.3.2/mstknnclust/data/dsyeastexpression.RData |only mstknnclust-0.3.2/mstknnclust/inst/bibliography.bib |only mstknnclust-0.3.2/mstknnclust/man/compute.costs.proximity.graph.Rd |only mstknnclust-0.3.2/mstknnclust/man/generate.complete.graph.Rd |only mstknnclust-0.3.2/mstknnclust/man/generate.intersections.mst.knn.Rd |only mstknnclust-0.3.2/mstknnclust/man/generate.knn.Rd |only mstknnclust-0.3.2/mstknnclust/man/generate.mst.Rd |only mstknnclust-0.3.2/mstknnclust/vignettes/guide_files |only mstknnclust-1.0.0/mstknnclust/DESCRIPTION | 54 ++++++--- mstknnclust-1.0.0/mstknnclust/MD5 | 41 +++--- mstknnclust-1.0.0/mstknnclust/NAMESPACE | 14 -- mstknnclust-1.0.0/mstknnclust/NEWS.md |only mstknnclust-1.0.0/mstknnclust/R/dsyeastexpression.R | 34 ++--- mstknnclust-1.0.0/mstknnclust/R/generate_results.R |only mstknnclust-1.0.0/mstknnclust/R/internals.R |only mstknnclust-1.0.0/mstknnclust/R/mst_knn.R |only mstknnclust-1.0.0/mstknnclust/R/only_single_graphs.R |only mstknnclust-1.0.0/mstknnclust/README.md |only mstknnclust-1.0.0/mstknnclust/build/vignette.rds |binary mstknnclust-1.0.0/mstknnclust/data/dslanguages.rda |only mstknnclust-1.0.0/mstknnclust/data/dsyeastexpression.rda |only mstknnclust-1.0.0/mstknnclust/inst/doc/guide.R | 6 - mstknnclust-1.0.0/mstknnclust/inst/doc/guide.html | 59 ++++++--- mstknnclust-1.0.0/mstknnclust/inst/extdata |only mstknnclust-1.0.0/mstknnclust/man/dsyeastexpression.Rd | 2 mstknnclust-1.0.0/mstknnclust/man/generate.results.Rd | 15 -- mstknnclust-1.0.0/mstknnclust/man/mst.knn.Rd | 60 +++------- mstknnclust-1.0.0/mstknnclust/man/only.single.graphs.Rd | 8 - mstknnclust-1.0.0/mstknnclust/tests |only 31 files changed, 153 insertions(+), 140 deletions(-)
Title: Project MOSAIC Statistics and Mathematics Teaching Utilities
Description: Data sets and utilities from Project MOSAIC (<http://www.mosaic-web.org>) used
to teach mathematics, statistics, computation and modeling. Funded by the
NSF, Project MOSAIC is a community of educators working to tie together
aspects of quantitative work that students in science, technology,
engineering and mathematics will need in their professional lives, but
which are usually taught in isolation, if at all.
Author: Randall Pruim [aut, cre],
Daniel T. Kaplan [aut],
Nicholas J. Horton [aut]
Maintainer: Randall Pruim <rpruim@gmail.com>
Diff between mosaic versions 1.9.2 dated 2025-07-30 and 1.10.2 dated 2026-05-13
DESCRIPTION | 12 - MD5 | 146 ++++++++++--- NEWS.md | 4 R/aggregatingMeta.R | 11 - R/confint.R | 205 ++++++++++--------- R/do.R | 209 ++++++++++--------- R/dpqrdist.R | 21 + build/vignette.rds |binary inst/CITATION | 2 inst/doc/MinimalRgg.R | 14 - inst/doc/MinimalRgg.Rnw | 80 +++---- inst/doc/MinimalRgg.pdf |binary inst/doc/Resampling.html | 59 ++--- inst/doc/mosaic-resources.Rmd | 2 inst/doc/mosaic-resources.html | 8 man/bargraph.Rd | 12 - man/cdist.Rd | 9 man/chisq.Rd | 2 man/cnorm.Rd | 4 man/confint.Rd | 6 man/do.Rd | 4 man/freqpolygon.Rd | 2 man/leaflet_map.Rd | 2 man/pdist.Rd | 9 man/plotCumfreq.Rd | 2 man/qdist.Rd | 9 man/read.file.Rd | 4 man/reexports.Rd | 4 man/themes.Rd | 8 man/value.Rd | 2 tests/testthat/Rplots.pdf |only tests/testthat/_snaps |only tests/testthat/bootstrap.Rda |only tests/testthat/test-confint.R | 243 ++++++++++++----------- tests/testthat/test-do.R | 6 tests/testthat/test-read.file.R | 34 +-- vignettes/MinimalRgg.Rnw | 80 +++---- vignettes/mosaic-resources.Rmd | 2 vignettes/web-only/LessVolume-MoreCreativity.Rmd | 17 - vignettes/web-only/ggformula-lattice.Rmd | 8 40 files changed, 693 insertions(+), 549 deletions(-)
Title: Power and Sample Size Calculation for Non-Proportional Hazards
and Beyond
Description: Performs power and sample size calculation for non-proportional hazards model using the Fleming-Harrington family of weighted log-rank tests. The sequentially calculated log-rank test score statistics are assumed to have independent increments as characterized in Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean and variance of log-rank test score statistics are calculated based on Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities are calculated using the recursive integration algorithm described in Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168). The package can also be used for continuous, binary, and count data. For continuous data, it can handle missing data through mixed-model for repeated measures (MMRM). In crossover designs, it can estimate direct treatment effects while accounting for carryover effects. For binary data, it can design Simon's 2-stage, modified toxicity probability-2 (mTPI-2), a [...truncated...]
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.3.1 dated 2026-04-08 and 0.3.2 dated 2026-05-13
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lrstat-0.3.2/lrstat/man/getDesignMeanDiffMMRM.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignMeanDiffXO.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignMeanRatio.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignMeanRatioXO.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignOddsRatio.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignOneMean.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignOneProportion.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignOneSlope.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignPairedMeanDiff.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignPairedMeanRatio.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignPairedPropMcNemar.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignRiskDiff.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignRiskRatio.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignRiskRatioFM.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignSlopeDiff.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignSlopeDiffMMRM.Rd | 8 lrstat-0.3.2/lrstat/man/getDesignWilcoxon.Rd | 8 lrstat-0.3.2/lrstat/man/getDesign_mams.Rd |only lrstat-0.3.2/lrstat/man/getDesign_seamless.Rd |only lrstat-0.3.2/lrstat/man/getNeventsFromHazardRatio.Rd | 16 lrstat-0.3.2/lrstat/man/getRCI.Rd | 54 lrstat-0.3.2/lrstat/man/kmpower.Rd | 24 lrstat-0.3.2/lrstat/man/kmpower1s.Rd | 24 lrstat-0.3.2/lrstat/man/kmsamplesize.Rd | 14 lrstat-0.3.2/lrstat/man/kmsamplesize1s.Rd | 14 lrstat-0.3.2/lrstat/man/kmsamplesizeequiv.Rd | 2 lrstat-0.3.2/lrstat/man/lrpower.Rd | 37 lrstat-0.3.2/lrstat/man/lrpowerequiv.Rd | 4 lrstat-0.3.2/lrstat/man/lrsamplesize.Rd | 19 lrstat-0.3.2/lrstat/man/lrsamplesizeequiv.Rd | 4 lrstat-0.3.2/lrstat/man/lrschoenfeld.Rd | 10 lrstat-0.3.2/lrstat/man/lrsim.Rd | 6 lrstat-0.3.2/lrstat/man/lrsim2e.Rd | 2 lrstat-0.3.2/lrstat/man/lrsim2e3a.Rd | 2 lrstat-0.3.2/lrstat/man/lrsim3a.Rd | 2 lrstat-0.3.2/lrstat/man/lrsim_mams.Rd |only lrstat-0.3.2/lrstat/man/lrsim_seamless.Rd |only lrstat-0.3.2/lrstat/man/lrsimsub.Rd | 2 lrstat-0.3.2/lrstat/man/nbpower.Rd | 24 lrstat-0.3.2/lrstat/man/nbpower1s.Rd | 24 lrstat-0.3.2/lrstat/man/nbpowerequiv.Rd | 2 lrstat-0.3.2/lrstat/man/nbsamplesize.Rd | 14 lrstat-0.3.2/lrstat/man/nbsamplesize1s.Rd | 14 lrstat-0.3.2/lrstat/man/nbsamplesizeequiv.Rd | 6 lrstat-0.3.2/lrstat/man/param_futilityBounds.Rd | 2 lrstat-0.3.2/lrstat/man/pmvnormr.Rd | 10 lrstat-0.3.2/lrstat/man/print.BOINTable.Rd | 2 lrstat-0.3.2/lrstat/man/print.adaptDesign_mams.Rd |only lrstat-0.3.2/lrstat/man/print.adaptDesign_seamless.Rd |only lrstat-0.3.2/lrstat/man/print.designANOVA.Rd | 2 lrstat-0.3.2/lrstat/man/print.designANOVAContrast.Rd | 2 lrstat-0.3.2/lrstat/man/print.designAgreement.Rd | 2 lrstat-0.3.2/lrstat/man/print.designLogistic.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiff.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiffCarryover.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiffCarryoverEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiffEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiffMMRM.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiffXO.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanDiffXOEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanRatio.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanRatioEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanRatioXO.Rd | 2 lrstat-0.3.2/lrstat/man/print.designMeanRatioXOEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOddsRatio.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOddsRatioEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOneMean.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOneMultinom.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOneProportion.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOneSlope.Rd | 2 lrstat-0.3.2/lrstat/man/print.designOrderedBinom.Rd | 2 lrstat-0.3.2/lrstat/man/print.designPairedMeanDiff.Rd | 2 lrstat-0.3.2/lrstat/man/print.designPairedMeanDiffEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designPairedMeanRatio.Rd | 2 lrstat-0.3.2/lrstat/man/print.designPairedMeanRatioEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designPairedPropMcNemar.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRepeatedANOVA.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRepeatedANOVAContrast.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRiskDiff.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRiskDiffEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRiskRatio.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRiskRatioEquiv.Rd | 2 lrstat-0.3.2/lrstat/man/print.designRiskRatioFM.Rd | 2 lrstat-0.3.2/lrstat/man/print.designSlopeDiff.Rd | 2 lrstat-0.3.2/lrstat/man/print.designSlopeDiffMMRM.Rd | 2 lrstat-0.3.2/lrstat/man/print.designTwoMultinom.Rd | 2 lrstat-0.3.2/lrstat/man/print.designTwoOrdinal.Rd | 2 lrstat-0.3.2/lrstat/man/print.designTwoWayANOVA.Rd | 2 lrstat-0.3.2/lrstat/man/print.designUnorderedBinom.Rd | 2 lrstat-0.3.2/lrstat/man/print.designUnorderedMultinom.Rd | 2 lrstat-0.3.2/lrstat/man/print.designWilcoxon.Rd | 2 lrstat-0.3.2/lrstat/man/print.lrsim_mams.Rd |only lrstat-0.3.2/lrstat/man/print.lrsim_seamless.Rd |only lrstat-0.3.2/lrstat/man/print.mTPI2Table.Rd | 2 lrstat-0.3.2/lrstat/man/print.mams.Rd |only lrstat-0.3.2/lrstat/man/print.seamless.Rd |only lrstat-0.3.2/lrstat/man/qmvnormr.Rd | 4 lrstat-0.3.2/lrstat/man/rmpower.Rd | 24 lrstat-0.3.2/lrstat/man/rmpower1s.Rd | 24 lrstat-0.3.2/lrstat/man/rmpowerequiv.Rd | 2 lrstat-0.3.2/lrstat/man/rmsamplesize.Rd | 14 lrstat-0.3.2/lrstat/man/rmsamplesize1s.Rd | 14 lrstat-0.3.2/lrstat/man/rmsamplesizeequiv.Rd | 2 lrstat-0.3.2/lrstat/man/simonBayesAnalysis.Rd | 2 lrstat-0.3.2/lrstat/man/simonBayesSim.Rd | 2 lrstat-0.3.2/lrstat/src/RcppExports.cpp | 906 lrstat-0.3.2/lrstat/src/conditional_power.cpp | 779 lrstat-0.3.2/lrstat/src/conditional_power_mams.cpp |only lrstat-0.3.2/lrstat/src/conditional_power_seamless.cpp |only lrstat-0.3.2/lrstat/src/confidence_intervals.cpp | 1091 - lrstat-0.3.2/lrstat/src/confidence_intervals_mams.cpp |only lrstat-0.3.2/lrstat/src/confidence_intervals_seamless.cpp |only lrstat-0.3.2/lrstat/src/generic_design.cpp | 2015 +- lrstat-0.3.2/lrstat/src/generic_design.h | 87 lrstat-0.3.2/lrstat/src/kmstat.cpp | 1238 - lrstat-0.3.2/lrstat/src/lrsim.cpp | 10 lrstat-0.3.2/lrstat/src/lrsim_mams.cpp |only lrstat-0.3.2/lrstat/src/lrsim_seamless.cpp |only lrstat-0.3.2/lrstat/src/lrstat.cpp | 1093 - lrstat-0.3.2/lrstat/src/mams_design.cpp |only lrstat-0.3.2/lrstat/src/mams_design.h |only lrstat-0.3.2/lrstat/src/multiplicity.cpp | 56 lrstat-0.3.2/lrstat/src/mvnormr.cpp | 181 lrstat-0.3.2/lrstat/src/mvnormr.h | 2 lrstat-0.3.2/lrstat/src/nbstat.cpp | 1342 - lrstat-0.3.2/lrstat/src/rmstat.cpp | 1248 - lrstat-0.3.2/lrstat/src/seamless_design.cpp |only lrstat-0.3.2/lrstat/src/seamless_design.h |only lrstat-0.3.2/lrstat/src/simon.cpp | 4 lrstat-0.3.2/lrstat/vignettes/maxcombo.Rmd | 5 195 files changed, 14641 insertions(+), 15628 deletions(-)
Title: Fast and Exact Computation of Gaussian Stochastic Process
Description: Implements fast and exact computation of Gaussian stochastic process with the Matern kernel using forward filtering and backward smoothing algorithm. It includes efficient implementations of the inverse Kalman filter, with applications such as estimating particle interaction functions. These tools support models with or without noise. Additionally, the package offers algorithms for fast parameter estimation in latent factor models, where the factor loading matrix is orthogonal, and latent processes are modeled by Gaussian processes. See the references: 1) Mengyang Gu and Yanxun Xu (2020), Journal of Computational and Graphical Statistics; 2) Xinyi Fang and Mengyang Gu (2024), <doi:10.48550/arXiv.2407.10089>; 3) Mengyang Gu and Weining Shen (2020), Journal of Machine Learning Research; 4) Yizi Lin, Xubo Liu, Paul Segall and Mengyang Gu (2025), <doi:10.48550/arXiv.2501.01324>.
Author: Mengyang Gu [aut, cre],
Xinyi Fang [aut],
Yizi Lin [aut]
Maintainer: Mengyang Gu <mengyang@pstat.ucsb.edu>
Diff between FastGaSP versions 0.6.3 dated 2026-03-08 and 0.6.4 dated 2026-05-13
CHANGELOG | 3 +++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/functions.R | 16 ++++++++-------- build/partial.rdb |binary 5 files changed, 19 insertions(+), 16 deletions(-)
Title: Profile Boosting Framework for Parametric Models
Description: A profile boosting framework for feature selection in parametric models.
It offers a unified interface pboost() and several wrapped models, including linear model, generalized linear models, quantile regression, Cox proportional hazards model, beta regression, spatial auto-regressive models.
Author: Zengchao Xu [aut, cre, cph]
Maintainer: Zengchao Xu <zengc.xu@aliyun.com>
Diff between pboost versions 0.2.1 dated 2026-01-08 and 0.4.8 dated 2026-05-13
DESCRIPTION | 16 ++-- MD5 | 61 ++++++++++----- NAMESPACE | 39 +++++++-- NEWS.md | 112 ++++++++++++++++++++++++++++ R/EBIC.R | 2 R/fbetareg.R |only R/fcoxph.R |only R/fglm.R |only R/flm.R |only R/frq.R |only R/frs.R |only R/fsar.R |only R/pbetareg.R | 134 +++++++++++++-------------------- R/pboost-package.R | 31 ++++++- R/pboost.R | 200 ++++++++++++++++++++++++-------------------------- R/pcoxph.R | 138 ++++++++++++++-------------------- R/penalization.R |only R/penalty-glmnet.R |only R/penalty-ncvreg.R |only R/penalty-rq.R |only R/penalty-sar.R |only R/pglm.R | 188 ++++++++++++++++++++++++++++------------------- R/plm.R | 166 ++++++++++++++++++++++++----------------- R/prq.R | 143 ++++++++++++++++------------------- R/psar.R |only R/sar.R |only man/EBIC.Rd | 21 ----- man/fbetareg.Rd |only man/fcoxph.Rd |only man/fglm.Rd |only man/flm.Rd |only man/frq.Rd |only man/frs.Rd |only man/fsar.Rd |only man/pbetareg.Rd | 50 ++++++------ man/pboost-package.Rd | 4 - man/pboost.Rd | 64 ++++------------ man/pcoxph.Rd | 55 +++++++------ man/pglm.Rd | 83 ++++++++++++++------ man/plm.Rd | 67 +++++++++++----- man/prq.Rd | 45 +++++------ man/psar.Rd |only man/sar.model.Rd |only 43 files changed, 899 insertions(+), 720 deletions(-)
Title: Generates Expectations for 'testthat' Unit Testing
Description: Helps systematize and ease the process of
building unit tests with the 'testthat' package by providing
tools for generating expectations.
Author: Ludvig Renbo Olsen [aut, cre] ,
R. Mark Sharp [ctb]
Maintainer: Ludvig Renbo Olsen <r-pkgs@ludvigolsen.dk>
Diff between xpectr versions 0.4.4 dated 2025-03-03 and 0.4.5 dated 2026-05-13
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ NEWS.md | 4 ++++ build/stage23.rdb |binary inst/doc/readme.html | 9 +++++---- tests/testthat/test_gxs_function.R | 5 +---- tests/testthat/test_gxs_selection.R | 4 ++-- 7 files changed, 24 insertions(+), 21 deletions(-)
Title: Weighted Random Sampling without Replacement
Description: A collection of implementations of classical and
novel algorithms for weighted sampling without replacement.
Author: Kirill Mueller [aut, cre]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between wrswoR versions 1.2.0 dated 2025-11-10 and 1.2.1 dated 2026-05-13
wrswoR-1.2.0/wrswoR/.aspell |only wrswoR-1.2.1/wrswoR/DESCRIPTION | 21 +++++++++------------ wrswoR-1.2.1/wrswoR/MD5 | 21 ++++++++++++--------- wrswoR-1.2.1/wrswoR/NAMESPACE | 1 - wrswoR-1.2.1/wrswoR/NEWS.md | 9 +++++++++ wrswoR-1.2.1/wrswoR/R/otel.R |only wrswoR-1.2.1/wrswoR/R/sample_int_rej.R | 14 ++++++++------ wrswoR-1.2.1/wrswoR/man/sample_int.Rd | 4 ++-- wrswoR-1.2.1/wrswoR/man/wrswoR-package.Rd | 4 ++-- wrswoR-1.2.1/wrswoR/src/Makevars | 3 --- wrswoR-1.2.1/wrswoR/src/Makevars.win | 2 -- wrswoR-1.2.1/wrswoR/src/sample_int_crank.cpp | 8 ++++++-- wrswoR-1.2.1/wrswoR/tests/testthat/_snaps |only wrswoR-1.2.1/wrswoR/tests/testthat/test-otel.R |only 14 files changed, 48 insertions(+), 39 deletions(-)
Title: A Simple Package for Testing R Packages
Description: A minimal, dependency-free testing framework for R packages.
Write tests as simple R expressions that return TRUE, using assert() for
assertions (with informative error messages on failure), has_error() /
has_warning() / has_message() for testing conditions, and test_pkg() to
run all tests with full access to internal (non-exported) package
functions. Snapshot testing via Markdown files is also supported.
Author: Yihui Xie [aut, cre] ,
Tomas Kalibera [ctb],
Steven Mortimer [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between testit versions 0.18 dated 2026-04-21 and 1.0 dated 2026-05-13
DESCRIPTION | 16 - MD5 | 29 +- NAMESPACE | 1 R/testit.R | 490 +++++++++++++++++++++++++--------------- R/utils.R | 285 +++++++++++++++-------- R/zzz.R | 11 man/assert.Rd | 100 ++++---- man/has_message.Rd | 40 ++- man/test_pkg.Rd | 87 ++++--- tests/test-all.R | 8 tests/test-error/test-error.R | 4 tests/test-r35 |only tests/testit/helper.R |only tests/testit/test-assert-msg.md |only tests/testit/test-testit.R | 140 ++++++++++- tests/testit/test-utils.R | 205 ++++++++++++++++ tests/testit/test-utils.md | 8 17 files changed, 1023 insertions(+), 401 deletions(-)
Title: Optimization Frameworks for Tie-Oriented and Actor-Oriented
Relational Event Models
Description: A comprehensive set of tools designed for optimizing likelihood within a tie-oriented (Butts, C., 2008, <doi:10.1111/j.1467-9531.2008.00203.x>) or an actor-oriented modelling framework (Stadtfeld, C., & Block, P., 2017, <doi:10.15195/v4.a14>) in relational event networks. The package accommodates both frequentist and Bayesian approaches. Maximum Likelihood Optimization (MLE) is supported. Bayesian estimation is done via Hamiltonian Monte Carlo (HMC).
Author: Giuseppe Arena [aut, cre] ,
Rumana Lakdawala [aut],
Fabio Generoso Vieira [aut],
Joris Mulder [aut],
Marlyne Meijerink-Bosman [ctb],
Diana Karimova [ctb],
Mahdi Shafiee Kamalabad [ctb],
Roger Leenders [ctb]
Maintainer: Giuseppe Arena <g.arena@uva.nl>
Diff between remstimate versions 2.3.14 dated 2025-09-26 and 3.0.0 dated 2026-05-13
remstimate-2.3.14/remstimate/R/remstimate.R |only remstimate-2.3.14/remstimate/inst/tinytest/test-remstimate-actor-oriented-pe.R |only remstimate-2.3.14/remstimate/inst/tinytest/test-remstimate-errors.R |only remstimate-2.3.14/remstimate/inst/tinytest/test-remstimate-tie-oriented-pe.R |only remstimate-2.3.14/remstimate/man/aic.Rd |only remstimate-2.3.14/remstimate/man/aicc.Rd |only remstimate-2.3.14/remstimate/man/bic.Rd |only remstimate-2.3.14/remstimate/man/waic.Rd |only remstimate-3.0.0/remstimate/DESCRIPTION | 36 remstimate-3.0.0/remstimate/MD5 | 68 - remstimate-3.0.0/remstimate/NAMESPACE | 19 remstimate-3.0.0/remstimate/R/RcppExports.R | 16 remstimate-3.0.0/remstimate/R/diagnostics.R |only remstimate-3.0.0/remstimate/R/plot.R |only remstimate-3.0.0/remstimate/R/remstimate2.R |only remstimate-3.0.0/remstimate/R/summary_ic.R |only remstimate-3.0.0/remstimate/build/partial.rdb |binary remstimate-3.0.0/remstimate/build/vignette.rds |binary remstimate-3.0.0/remstimate/data/ao_data.rda |binary remstimate-3.0.0/remstimate/data/tie_data.rda |binary remstimate-3.0.0/remstimate/inst/doc/remstimate.R | 157 --- remstimate-3.0.0/remstimate/inst/doc/remstimate.Rmd | 255 +---- remstimate-3.0.0/remstimate/inst/doc/remstimate.html | 442 ++------ remstimate-3.0.0/remstimate/inst/tinytest/test-plot-diagnostics.R |only remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate-actor-oriented-ordinal-pt.R |only remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate-actor-oriented-pt.R | 358 +------ remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate-actor-riskset.R |only remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate-tie-oriented-pt.R | 270 +---- remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate-warnings.R | 124 -- remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate2-glm-validation.R |only remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate2-sampled.R |only remstimate-3.0.0/remstimate/inst/tinytest/test_remstimate2.R |only remstimate-3.0.0/remstimate/man/AIC.remstimate.Rd |only remstimate-3.0.0/remstimate/man/AICC.Rd |only remstimate-3.0.0/remstimate/man/BIC.remstimate.Rd |only remstimate-3.0.0/remstimate/man/WAIC.Rd |only remstimate-3.0.0/remstimate/man/diagnostics.Rd | 44 remstimate-3.0.0/remstimate/man/plot.diagnostics.Rd |only remstimate-3.0.0/remstimate/man/plot.remstimate.Rd | 65 - remstimate-3.0.0/remstimate/man/print.remstimate.Rd | 42 remstimate-3.0.0/remstimate/man/remstimate-package.Rd | 4 remstimate-3.0.0/remstimate/man/remstimate.Rd | 78 - remstimate-3.0.0/remstimate/man/summary.remstimate.Rd | 24 remstimate-3.0.0/remstimate/src/RcppExports.cpp | 50 - remstimate-3.0.0/remstimate/src/remstimate.cpp | 492 ++++++---- remstimate-3.0.0/remstimate/src/remstimate_sampled_cpp.cpp |only remstimate-3.0.0/remstimate/vignettes/remstimate.Rmd | 255 +---- 47 files changed, 952 insertions(+), 1847 deletions(-)
Title: Extended Legends and Axes for 'ggplot2'
Description: A 'ggplot2' extension that focusses on expanding the
plotter's arsenal of guides. Guides in 'ggplot2' include axes and
legends. 'legendry' offers new axes and annotation options, as well as
new legends and colour displays.
Author: Teun van den Brand [aut, cre, cph]
Maintainer: Teun van den Brand <tahvdbrand@gmail.com>
Diff between legendry versions 0.2.4 dated 2025-09-14 and 0.3.0 dated 2026-05-13
legendry-0.2.4/legendry/R/utils-borrowed.R |only legendry-0.2.4/legendry/tests/testthat/test-utils-text.R |only legendry-0.3.0/legendry/DESCRIPTION | 16 legendry-0.3.0/legendry/MD5 | 335 ++- legendry-0.3.0/legendry/NAMESPACE | 17 legendry-0.3.0/legendry/NEWS.md | 36 legendry-0.3.0/legendry/R/aaa.R | 3 legendry-0.3.0/legendry/R/compose-.R | 48 legendry-0.3.0/legendry/R/compose-crux.R | 526 +++-- legendry-0.3.0/legendry/R/compose-ontop.R | 57 legendry-0.3.0/legendry/R/compose-sandwich.R | 41 legendry-0.3.0/legendry/R/compose-stack.R | 169 + legendry-0.3.0/legendry/R/gizmo-barcap.R | 117 - legendry-0.3.0/legendry/R/gizmo-density.R | 694 ++++--- legendry-0.3.0/legendry/R/gizmo-grob.R | 32 legendry-0.3.0/legendry/R/gizmo-histogram.R | 69 legendry-0.3.0/legendry/R/gizmo-stepcap.R | 80 legendry-0.3.0/legendry/R/guide-axis-annotation.R |only legendry-0.3.0/legendry/R/guide-axis-base.R | 64 legendry-0.3.0/legendry/R/guide-axis-dendro.R | 217 +- legendry-0.3.0/legendry/R/guide-axis-nested.R | 341 ++- legendry-0.3.0/legendry/R/guide-axis-plot.R |only legendry-0.3.0/legendry/R/guide-axis-symbols.R |only legendry-0.3.0/legendry/R/guide-circles.R | 850 +++++---- legendry-0.3.0/legendry/R/guide-colbar.R | 45 legendry-0.3.0/legendry/R/guide-colring.R | 187 +- legendry-0.3.0/legendry/R/guide-colsteps.R | 43 legendry-0.3.0/legendry/R/guide-legend-base.R | 97 - 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181 files changed, 11161 insertions(+), 8423 deletions(-)
Title: Design and Analysis of Hierarchical Composite Endpoints
Description: Simulate and analyze hierarchical composite endpoints. Includes implementation for the kidney hierarchical composite endpoint as defined in Heerspink HL et al (2023) “Development and validation of a new hierarchical composite end point for clinical trials of kidney disease progression” (Journal of the American Society of Nephrology 34 (2): 2025–2038, <doi:10.1681/ASN.0000000000000243>). Win odds, also called Wilcoxon-Mann-Whitney or success odds, is the main analysis method. Other win statistics (win probability, win ratio, net benefit) are also implemented in the univariate case, provided there is no censoring. The win probability analysis is based on the Brunner-Munzel test and uses the DeLong-DeLong-Clarke-Pearson variance estimator, as described by Brunner and Konietschke (2025) in “An unbiased rank-based estimator of the Mann–Whitney variance including the case of ties” (Statistical Papers 66 (1): 20, <doi:10.1007/s00362-024-01635-0>). Includes implementation of a new [...truncated...]
Author: Samvel B. Gasparyan [aut, cre]
Maintainer: Samvel B. Gasparyan <gasparyan.co@gmail.com>
Diff between hce versions 0.9.1 dated 2026-03-12 and 0.9.3 dated 2026-05-13
DESCRIPTION | 8 +- MD5 | 32 ++++++---- NAMESPACE | 7 ++ NEWS.md | 10 +++ R/GLL.R |only R/rweibullGF.R |only R/simKHCE.R | 133 +++++++++++++++++++++++++++++++++------------ R/simTTE.R | 24 +++++--- build/vignette.rds |binary inst/doc/Introduction.html | 23 ++++--- inst/doc/Wins.html | 9 +-- inst/doc/hce.Rmd | 8 +- inst/doc/hce.html | 22 ++++--- inst/doc/maraca.html | 9 +-- man/GLL.Rd |only man/rweibullGF.Rd |only man/simKHCE.Rd | 102 +++++++++++++++++++++++++--------- man/simTTE.Rd | 20 ++++-- vignettes/hce.Rmd | 8 +- 19 files changed, 285 insertions(+), 130 deletions(-)
Title: Evidence Accumulation Models
Description: Simulation-based evidence accumulation models for analyzing responses
and reaction times in single- and multi-response tasks. The package includes
simulation engines for five representative models: the Diffusion Decision
Model (DDM), Leaky Competing Accumulator (LCA), Linear Ballistic Accumulator
(LBA), Racing Diffusion Model (RDM), and Levy Flight Model (LFM), and
extends these frameworks to multi-response settings. The package supports
user-defined functions for item-level parameterization and the incorporation
of covariates, enabling flexible customization and the development of new
model variants based on existing architectures. Inference is performed using
simulation-based methods, including Approximate Bayesian Computation (ABC)
and Amortized Bayesian Inference (ABI), which allow parameter estimation
without requiring tractable likelihood functions. In addition to core
inference tools, the package provides modules for parameter recovery,
posterior predictive checks, and model com [...truncated...]
Author: Guangyu Zhu [aut] ,
Guang Yang [aut, cre]
Maintainer: Guang Yang <guang.spike.yang@gmail.com>
Diff between eam versions 1.2.0 dated 2026-03-29 and 1.2.2 dated 2026-05-13
DESCRIPTION | 10 MD5 | 138 - NEWS.md | 114 - R/abc_abc.R | 98 R/abc_cv.R | 114 - R/plot_rt.R | 2 R/posterior_predictive_check.R | 356 +-- R/simulation_config.R | 62 inst/julia/env/Manifest.toml | 2480 +++++++++++----------- inst/julia/env/Project.toml | 6 man/abc_abc.Rd | 148 - man/abc_cv.Rd | 166 - man/abc_posterior_bootstrap.Rd | 72 man/abc_posterior_predictive_check.Rd | 214 - man/abc_postpr.Rd | 88 man/abc_resample.Rd | 124 - man/abi_posterior_predictive_check.Rd | 268 +- man/accumulate_evidence_ddm.Rd | 44 man/accumulate_evidence_ddm_2b.Rd | 46 man/accumulate_evidence_lca_gi.Rd | 50 man/apply_summarise_by_spec.Rd | 40 man/build_abc_input.Rd | 188 - man/build_abi_input.Z.Rd | 52 man/build_abi_input.theta.Rd | 44 man/calculate_total_rows.Rd | 42 man/detect_backend_ddm.Rd | 40 man/detect_backend_ddm_2b.Rd | 40 man/detect_backend_lca_gi.Rd | 40 man/evaluate_with_dt.Rd | 46 man/extract_abc_param_values.Rd | 36 man/extract_resample_medians.Rd | 36 man/fill_data_table.Rd | 68 man/flatten_simulation_results.Rd | 48 man/get_backend_detectors.Rd | 30 man/get_column_names.Rd | 38 man/get_config_env_names.Rd | 36 man/init_simulation_output_dir.Rd | 40 man/load_simulation_output.Rd | 66 man/map_by_condition.Rd | 160 - man/map_by_condition.parallel.heuristic.Rd | 36 man/map_by_condition.process_chunk.Rd | 44 man/new_simulation_config.Rd | 460 ++-- man/new_simulation_config.chunk_size.heuristic.Rd | 64 man/new_simulation_output.Rd | 24 man/plot_accuracy.Rd | 92 man/plot_accuracy_ddm.Rd | 70 man/plot_accuracy_ddm_2b.Rd | 64 man/plot_accuracy_graph.Rd | 64 man/plot_cv_pair_correlation.Rd | 86 man/plot_resample_forest.Rd | 106 man/plot_resample_medians.Rd | 88 man/plot_rt.Rd | 116 - man/plus-.eam_summarise_by_spec.Rd | 40 man/plus-.eam_summarise_by_tbl.Rd | 44 man/preallocate_columns.Rd | 50 man/print.eam_simulation_config.Rd | 38 man/resolve_symbol.Rd | 44 man/route_model_to_backend.Rd | 44 man/run_chunk.Rd | 50 man/run_condition.Rd | 112 man/run_simulation.Rd | 232 +- man/run_simulation_parallel.Rd | 48 man/run_simulation_serial.Rd | 46 man/run_trial_ddm.Rd | 102 man/run_trial_ddm_2b.Rd | 108 man/run_trial_lca_gi.Rd | 100 man/summarise_by.Rd | 190 - man/summarise_by_impl.Rd | 48 man/summarise_resample_medians.Rd | 86 man/update_config_from_posterior.Rd | 166 - 70 files changed, 4282 insertions(+), 4270 deletions(-)
Title: An Abstracted System for Easily Working with Databases with
Large Datasets
Description: Provides object-oriented database management tools for working with large datasets across multiple database systems. Features include robust connection management for 'PostgreSQL' databases, advanced table operations with bulk data loading and upsert functionality, comprehensive data validation through customizable field type and content validators, efficient index management, and cross-database compatibility. Designed for high-performance data operations in surveillance systems and large-scale data processing workflows.
Author: Richard Aubrey White [aut, cre] ,
August Soerli Mathisen [aut]
Maintainer: Richard Aubrey White <hello@rwhite.no>
Diff between csdb versions 2026.2.2 dated 2026-03-31 and 2026.5.13 dated 2026-05-13
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/util_database.R | 10 +++++----- build/vignette.rds |binary 5 files changed, 17 insertions(+), 12 deletions(-)
Title: Get the Category of Content Hosted by a Domain
Description: Get the category of content hosted by a domain. Use Shallalist (service discontinued),
'VirusTotal' (which provides access to lots of services) <https://www.virustotal.com/>,
'DMOZ' <https://archive.org/details/dmoz-rdf-20150327>, University Domain list
<https://github.com/Hipo/university-domains-list>, 'OpenAI' 'GPT' models, 'Anthropic' 'Claude' models,
or validated machine learning classifiers based on 'Shallalist' data to learn about the kind
of content hosted by a domain.
Author: Gaurav Sood [aut, cre]
Maintainer: Gaurav Sood <gsood07@gmail.com>
Diff between rdomains versions 0.2.1 dated 2022-01-15 and 0.4.0 dated 2026-05-13
rdomains-0.2.1/rdomains/R/alexa_cat.R |only rdomains-0.2.1/rdomains/R/brightcloud_cat.R |only rdomains-0.2.1/rdomains/R/get_alexa_data.R |only rdomains-0.2.1/rdomains/README.md |only rdomains-0.2.1/rdomains/man/alexa_cat.Rd |only rdomains-0.2.1/rdomains/man/brightcloud_cat.Rd |only rdomains-0.2.1/rdomains/man/get_alexa_data.Rd |only rdomains-0.2.1/rdomains/tests/testthat/test-pkg-style.R |only rdomains-0.4.0/rdomains/DESCRIPTION | 28 rdomains-0.4.0/rdomains/LICENSE | 2 rdomains-0.4.0/rdomains/MD5 | 91 rdomains-0.4.0/rdomains/NAMESPACE | 112 rdomains-0.4.0/rdomains/NEWS.md | 134 rdomains-0.4.0/rdomains/R/adult_ml1_cat.R | 113 rdomains-0.4.0/rdomains/R/claude_cat.R |only rdomains-0.4.0/rdomains/R/data.R | 24 rdomains-0.4.0/rdomains/R/dmoz_cat.R | 110 rdomains-0.4.0/rdomains/R/get_dmoz_data.R | 79 rdomains-0.4.0/rdomains/R/get_shalla_data.R | 115 rdomains-0.4.0/rdomains/R/get_stevenblack_data.R |only rdomains-0.4.0/rdomains/R/not_news.R | 93 rdomains-0.4.0/rdomains/R/openai_cat.R |only rdomains-0.4.0/rdomains/R/rdomains.R | 66 rdomains-0.4.0/rdomains/R/shalla_cat.R | 85 rdomains-0.4.0/rdomains/R/stevenblack_cat.R |only rdomains-0.4.0/rdomains/R/uni_cat.R | 66 rdomains-0.4.0/rdomains/R/utils.R |only rdomains-0.4.0/rdomains/R/virustotal_cat.R | 126 rdomains-0.4.0/rdomains/build/vignette.rds |binary rdomains-0.4.0/rdomains/inst/CITATION | 28 rdomains-0.4.0/rdomains/inst/doc/rdomains.R | 84 rdomains-0.4.0/rdomains/inst/doc/rdomains.Rmd | 257 - rdomains-0.4.0/rdomains/inst/doc/rdomains.html | 946 ++-- rdomains-0.4.0/rdomains/inst/extdata/sample_domains.txt | 2000 +++++----- rdomains-0.4.0/rdomains/man/adult_ml1_cat.Rd | 48 rdomains-0.4.0/rdomains/man/claude_cat.Rd |only rdomains-0.4.0/rdomains/man/dmoz_cat.Rd | 56 rdomains-0.4.0/rdomains/man/get_dmoz_data.Rd | 51 rdomains-0.4.0/rdomains/man/get_shalla_data.Rd | 55 rdomains-0.4.0/rdomains/man/get_stevenblack_data.Rd |only rdomains-0.4.0/rdomains/man/glm_shalla.Rd | 46 rdomains-0.4.0/rdomains/man/not_news.Rd | 80 rdomains-0.4.0/rdomains/man/openai_cat.Rd |only rdomains-0.4.0/rdomains/man/rdomains-package.Rd | 37 rdomains-0.4.0/rdomains/man/shalla_cat.Rd | 52 rdomains-0.4.0/rdomains/man/stevenblack_cat.Rd |only rdomains-0.4.0/rdomains/man/uni_cat.Rd | 46 rdomains-0.4.0/rdomains/man/virustotal_cat.Rd | 69 rdomains-0.4.0/rdomains/tests/testthat.R | 8 rdomains-0.4.0/rdomains/tests/testthat/test-claude-cat.R |only rdomains-0.4.0/rdomains/tests/testthat/test-dmoz-cat.R | 27 rdomains-0.4.0/rdomains/tests/testthat/test-ml-cat.R | 20 rdomains-0.4.0/rdomains/tests/testthat/test-openai-cat.R |only rdomains-0.4.0/rdomains/tests/testthat/test-shalla-cat.R | 40 rdomains-0.4.0/rdomains/tests/testthat/test-stevenblack-cat.R |only rdomains-0.4.0/rdomains/tests/testthat/test-utils.R |only rdomains-0.4.0/rdomains/vignettes/rdomains.Rmd | 257 - 57 files changed, 2809 insertions(+), 2642 deletions(-)