Title: Dynamic Relational Event Analysis and Modeling
Description: A set of tools for relational and event analysis, including two- and one-mode network brokerage and structural measures, and helper functions optimized for relational event analysis with large datasets, including creating relational risk sets, computing network statistics, estimating relational event models, and simulating relational event sequences. For more information on relational event models, see Butts (2008) <doi:10.1111/j.1467-9531.2008.00203.x>, Lerner and Lomi (2020) <doi:10.1017/nws.2019.57>, Bianchi et al. (2024) <doi:10.1146/annurev-statistics-040722-060248>, and Butts et al. (2023) <doi:10.1017/nws.2023.9>. In terms of the structural measures in this package, see Leal (2025) <doi:10.1177/00491241251322517>, Burchard and Cornwell (2018) <doi:10.1016/j.socnet.2018.04.001>, and Fujimoto et al. (2018) <doi:10.1017/nws.2018.11>. This package was developed with support from the National Science Foundation’s (NSF) Human Networks and Data [...truncated...]
Author: Kevin A. Carson [aut, cre] ,
Diego F. Leal [aut]
Maintainer: Kevin A. Carson <kacarson@arizona.edu>
Diff between dream versions 2.1.2 dated 2026-06-03 and 2.1.3 dated 2026-06-10
DESCRIPTION | 6 - MD5 | 73 ++++++------- NAMESPACE | 1 NEWS.md | 7 + R/RcppExports.R | 8 + R/dream_estimate.R | 58 ++++++---- R/dream_process.R | 198 +++++++++++++++++++++--------------- R/dream_remstats.R | 38 ++++-- man/as.data.frame.dream_sequence.Rd | 3 man/coef.dream_rem.Rd | 3 man/create_res.Rd | 102 ++++++++++-------- man/dream_sequence.Rd | 3 man/dreamstats_actor.Rd | 3 man/dreamstats_actorfe.Rd | 3 man/dreamstats_degree.Rd | 3 man/dreamstats_dyadfe.Rd | 2 man/dreamstats_dyadic.Rd | 3 man/dreamstats_event.Rd | 3 man/dreamstats_fourcycles.Rd | 3 man/dreamstats_persistence.Rd | 3 man/dreamstats_prefattachment.Rd | 3 man/dreamstats_recency.Rd | 3 man/dreamstats_reciprocity.Rd | 3 man/dreamstats_repetition.Rd | 3 man/dreamstats_triads.Rd | 3 man/estimate_rem.Rd | 5 man/gof_rem.Rd | 3 man/logLik.dream_rem.Rd | 3 man/new_dream_sequence.Rd | 3 man/plot.dream_rem.Rd | 7 - man/predict.dream_rem.Rd | 3 man/residuals.dream_rem.Rd | 3 man/vcov.dream_rem.Rd | 3 src/RcppExports.cpp | 36 ++++++ src/actorvarying_risksets.cpp | 41 ++++--- src/cumulative_full_riskset.cpp |only src/fullriskset.cpp | 34 +++--- src/onemoderiskset_temporal.cpp | 21 ++- 38 files changed, 444 insertions(+), 256 deletions(-)
Title: Open Perimetry Interface
Description: Implementation of the Open Perimetry Interface (OPI) for simulating and controlling visual field machines using R. The OPI is a standard for interfacing with visual field testing machines (perimeters) first started as an open source project with support of Haag-Streit in 2010. It specifies basic functions that allow many visual field tests to be constructed. As of February 2022 it is fully implemented on the Haag-Streit Octopus 900 and 'CrewT ImoVifa' ('Topcon Tempo') with partial implementations on the Centervue Compass, Kowa AP 7000 and Android phones. It also has a cousin: the R package 'visualFields', which has tools for analysing and manipulating visual field data.
Author: Andrew Turpin [cre, aut, cph] ,
David Lawson [ctb, cph],
Ivan Marin-Franch [ctb, cph],
Matthias Muller [ctb],
Jonathan Denniss [ctb, cph],
Astrid Zeman [ctb],
Giovanni Montesano [ctb]
Maintainer: Andrew Turpin <andrew.turpin@lei.org.au>
Diff between OPI versions 3.1.0 dated 2026-03-03 and 3.1.1 dated 2026-06-10
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 4 ++++ tests/testthat/test-opiPresent.r | 2 +- 4 files changed, 12 insertions(+), 8 deletions(-)
Title: Likelihood Based Inference
Description: Maximum likelihood estimation and likelihood ratio test are essential for modern statistics. This package supports in calculating likelihood based inference.
Reference: Pawitan Y. (2001, ISBN:0-19-850765-8).
Author: Kyun-Seop Bae [aut, cre, cph]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between LBI versions 0.2.4 dated 2026-05-22 and 0.2.5 dated 2026-06-10
DESCRIPTION | 6 ++-- MD5 | 8 ++--- R/LIvRatio.R | 85 +++++++++++++++++++++++++++++++++-------------------------- R/LIvtest.R | 80 +++++++++++++++++++++++++++++++------------------------ inst/NEWS.Rd | 6 ++++ 5 files changed, 106 insertions(+), 79 deletions(-)
Title: Item Response Theory Modeling and Scoring for Judgment Data
Description: Psychometric analysis and scoring of judgment data using polytomous Item-Response Theory (IRT) models, as described in Myszkowski and Storme (2019) <doi:10.1037/aca0000225> and Myszkowski (2021) <doi:10.1037/aca0000287>. A function is used to automatically compare and select models, as well as to present a variety of model-based statistics. Plotting functions are used to present category curves, as well as information, reliability and standard error functions.
Author: Nils Myszkowski [aut, cre]
Maintainer: Nils Myszkowski <nilsmyszkowskiscience@gmail.com>
Diff between jrt versions 1.1.3 dated 2025-07-31 and 1.2.0 dated 2026-06-10
DESCRIPTION | 14 - MD5 | 24 +- NEWS.md | 7 R/info.plot.R | 11 - R/jcc.plot.R | 3 R/jrt.R | 38 --- build/partial.rdb |binary build/vignette.rds |binary inst/doc/my-vignette.R | 14 - inst/doc/my-vignette.Rmd | 40 --- inst/doc/my-vignette.html | 477 +++++++++++++++++++++------------------------- man/jrt.Rd | 6 vignettes/my-vignette.Rmd | 40 --- 13 files changed, 281 insertions(+), 393 deletions(-)
Title: Fit Zeta Distributions to Forensic Data
Description: Fits Zeta distributions (discrete power laws) to data that arises
from forensic surveys of clothing on the presence of glass and paint in
various populations. The general method is described to some extent in
Coulson, S.A., Buckleton, J.S., Gummer, A.B., and Triggs, C.M. (2001)
<doi:10.1016/S1355-0306(01)71847-3>, although the implementation differs.
Author: James Curran [aut, cre]
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between fitPS versions 1.0.1 dated 2024-03-19 and 1.0.6 dated 2026-06-10
fitPS-1.0.1/fitPS/inst/doc/examples.Rnw |only fitPS-1.0.1/fitPS/inst/doc/simple_P_fit.Rnw |only fitPS-1.0.1/fitPS/vignettes/bootconfregion.pdf |only fitPS-1.0.1/fitPS/vignettes/examples.Rnw |only fitPS-1.0.1/fitPS/vignettes/simple_P_fit.Rnw |only fitPS-1.0.6/fitPS/DESCRIPTION | 18 fitPS-1.0.6/fitPS/MD5 | 94 ++- fitPS-1.0.6/fitPS/NAMESPACE | 21 fitPS-1.0.6/fitPS/NEWS.md |only fitPS-1.0.6/fitPS/R/add.R |only fitPS-1.0.6/fitPS/R/bayesOptions.R |only fitPS-1.0.6/fitPS/R/confint.psFit.R | 22 fitPS-1.0.6/fitPS/R/credint.R |only fitPS-1.0.6/fitPS/R/fitDist.R | 422 +++++++++------ fitPS-1.0.6/fitPS/R/fitDistBayes.R |only fitPS-1.0.6/fitPS/R/fitDistBayesIntegrate.R |only fitPS-1.0.6/fitPS/R/fitZIDist.R | 666 ++++++++++++++----------- fitPS-1.0.6/fitPS/R/fitZIDistBayes.R |only fitPS-1.0.6/fitPS/R/fitdistLaplace.R |only fitPS-1.0.6/fitPS/R/internalfunctions.R |only fitPS-1.0.6/fitPS/R/logLik.psFit.R |only fitPS-1.0.6/fitPS/R/makePrior.R |only fitPS-1.0.6/fitPS/R/plot.psFit.R | 8 fitPS-1.0.6/fitPS/R/plotPosterior.R |only fitPS-1.0.6/fitPS/R/predict.psFit.R | 20 fitPS-1.0.6/fitPS/R/print.psData.R | 58 +- fitPS-1.0.6/fitPS/R/print.psFit.R | 119 ++-- fitPS-1.0.6/fitPS/R/probfun.R | 92 +-- fitPS-1.0.6/fitPS/R/profileLikelihoodZIZ.R | 84 +-- fitPS-1.0.6/fitPS/R/rZIzeta.R | 10 fitPS-1.0.6/fitPS/R/rzeta.R | 22 fitPS-1.0.6/fitPS/R/zetaParameterisation.R |only fitPS-1.0.6/fitPS/R/zizPosteriorGrid.R |only fitPS-1.0.6/fitPS/R/zizPosteriorImportance.R |only fitPS-1.0.6/fitPS/R/zizPosteriorLaplace.R |only fitPS-1.0.6/fitPS/README.md |only fitPS-1.0.6/fitPS/build/partial.rdb |binary fitPS-1.0.6/fitPS/build/vignette.rds |binary fitPS-1.0.6/fitPS/inst/doc/examples.R | 119 +--- fitPS-1.0.6/fitPS/inst/doc/examples.Rmd |only fitPS-1.0.6/fitPS/inst/doc/examples.pdf |binary fitPS-1.0.6/fitPS/inst/doc/simple_P_fit.R | 41 - fitPS-1.0.6/fitPS/inst/doc/simple_P_fit.Rmd |only fitPS-1.0.6/fitPS/inst/doc/simple_P_fit.pdf |binary fitPS-1.0.6/fitPS/man/add.Rd |only fitPS-1.0.6/fitPS/man/confint.psFit.Rd | 14 fitPS-1.0.6/fitPS/man/credint.Rd |only fitPS-1.0.6/fitPS/man/fitDist.Rd | 153 ++++- fitPS-1.0.6/fitPS/man/fitZIDist.Rd | 146 +++-- fitPS-1.0.6/fitPS/man/logLik.psFit.Rd |only fitPS-1.0.6/fitPS/man/makePrior.Rd |only fitPS-1.0.6/fitPS/man/plotPosterior.Rd |only fitPS-1.0.6/fitPS/man/predict.psFit.Rd | 8 fitPS-1.0.6/fitPS/man/rZIzeta.Rd | 8 fitPS-1.0.6/fitPS/man/rzeta.Rd | 2 fitPS-1.0.6/fitPS/tests |only fitPS-1.0.6/fitPS/vignettes/examples.Rmd |only fitPS-1.0.6/fitPS/vignettes/simple_P_fit.Rmd |only 58 files changed, 1261 insertions(+), 886 deletions(-)
Title: Linear Discriminant Function and Canonical Correlation Analysis
Description: Produces SPSS- and SAS-like output for linear discriminant
function analysis and canonical correlation analysis. The methods are described in
Manly & Alberto (2017, ISBN:9781498728966),
Rencher (2002, ISBN:0-471-41889-7), and
Tabachnik & Fidell (2019, ISBN:9780134790541).
Author: Brian P. O'Connor [aut, cre]
Maintainer: Brian P. O'Connor <brian.oconnor@ubc.ca>
Diff between DFA.CANCOR versions 0.3.9 dated 2025-09-08 and 0.4.3 dated 2026-06-10
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/DESCRIPTIVES.R | 4 ++-- R/GROUP.DIFFS.R | 6 +++--- R/GROUP.PROFILES.R | 50 ++++++++++++++++++++++++++++++++------------------ R/umvn.R | 4 +++- R/utilities_boc.R | 13 +++++++++++++ man/GROUP.PROFILES.Rd | 10 ++++------ 8 files changed, 68 insertions(+), 41 deletions(-)
Title: Approximate Bayesian Regularization for Parsimonious Estimates
Description: Approximate Bayesian regularization using Gaussian approximations. The input is a vector of estimates
and a Gaussian error covariance matrix of the key parameters. Bayesian shrinkage is then applied
to obtain parsimonious solutions. The method is described on
Karimova, van Erp, Leenders, and Mulder (2025) <DOI:10.1016/j.jmp.2025.102925>. Gibbs samplers are used
for model fitting. The shrinkage priors that are supported are Gaussian (ridge) priors, Laplace
(lasso) priors (Park and Casella, 2008 <DOI:10.1198/016214508000000337>), and horseshoe priors
(Carvalho, et al., 2010; <DOI:10.1093/biomet/asq017>). These priors include an option
for grouped regularization of different subsets of parameters (Meier et al., 2008;
<DOI:10.1111/j.1467-9868.2007.00627.x>). F priors are used for the penalty
parameters lambda^2 (Mulder and Pericchi, 2018 <DOI:10.1214/17-BA1092>). This correspond to
half-Cauchy priors on lambda (Carvalho, Polson, Scott, 2010 <DOI:10.1093/bio [...truncated...]
Author: Joris Mulder [aut, cre],
Diana Karimova [aut, ctb],
Sara van Erp [ctb],
Roger Leenders [ctb]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between shrinkem versions 0.2.0 dated 2024-10-05 and 0.3.0 dated 2026-06-10
DESCRIPTION | 28 +- MD5 | 15 - NAMESPACE | 7 R/RcppExports.R |only R/shrinkem_main_functions.R | 508 +++++++++----------------------------------- inst |only man/shrinkem.Rd | 6 src |only tests |only 9 files changed, 144 insertions(+), 420 deletions(-)
Title: Transformation Boosting Machines
Description: Boosting the likelihood of conditional and shift transformation models as introduced in <DOI:10.1007/s11222-019-09870-4>.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tbm versions 0.3-10 dated 2025-12-02 and 0.3-11 dated 2026-06-10
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- build/vignette.rds |binary inst/NEWS.Rd | 7 +++++++ inst/doc/tbm_supplement.Rnw | 5 ++--- inst/doc/tbm_supplement.pdf |binary vignettes/mlt.bib | 8 ++++---- vignettes/tbm_supplement.Rnw | 5 ++--- 8 files changed, 27 insertions(+), 22 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 0.2.0 dated 2026-05-13 and 0.3.0 dated 2026-06-10
DESCRIPTION | 8 - MD5 | 46 +++++++-- NAMESPACE | 20 ++++ NEWS.md | 30 ++++++ R/account.R |only R/devices.R |only R/http.R | 28 +++++ R/media.R | 167 ++++++++++++++++++++++++++++++++-- R/messages.R | 165 +++++++++++++++++++++++++++++++++ R/profile.R |only R/rooms.R | 25 +++++ README.md | 87 ++++++++++++++--- build |only inst/tinytest/test_devices.R |only inst/tinytest/test_errors.R |only inst/tinytest/test_media.R | 20 ++++ inst/tinytest/test_profile_room_ops.R |only inst/tinytest/test_state_account.R |only man/mx.api-package.Rd | 15 +-- man/mx_canonical_json.Rd | 3 man/mx_delete_device.Rd |only man/mx_devices.Rd |only man/mx_get_account_data.Rd |only man/mx_get_state.Rd |only man/mx_guess_mime.Rd |only man/mx_media_config.Rd |only man/mx_profile.Rd |only man/mx_redact.Rd |only man/mx_room_invite.Rd |only man/mx_send_event.Rd |only man/mx_send_media.Rd |only man/mx_set_account_data.Rd |only man/mx_set_avatar_url.Rd |only man/mx_set_displayname.Rd |only man/mx_set_state.Rd |only man/mx_typing.Rd |only 36 files changed, 564 insertions(+), 50 deletions(-)
Title: Tidy Tools for Joinpoint Regression Models
Description: Provides tools to fit joinpoint regression models with a log-linear
specification by levels of a categorical variable. The package acts as a
wrapper around the 'segmented' package, facilitating model fitting, selection,
and interpretation. It includes functions to estimate the Annual Percent Change
(APC) and the Average Annual Percent Change (AAPC), along with their 95%
confidence intervals, and to generate formatted summary tables and plots of results.
Author: Tamara Ricardo [aut, cre]
Maintainer: Tamara Ricardo <tamararicardo83@gmail.com>
Diff between joinpointR versions 0.6.2 dated 2026-05-28 and 1.0.0 dated 2026-06-10
DESCRIPTION | 14 +- MD5 | 40 ++++--- NAMESPACE | 1 NEWS.md | 10 + R/as_ft_jp.R |only R/get_aapc.R | 129 +++++++++++++++---------- R/get_apc.R | 113 +++++++++++++++------- R/gg_jpoint.R | 277 +++++++++++++++++++++++++++++++++++++++++++----------- R/hiv_data.R |only R/model_jp.R | 213 ++++++++++++++++++++++++++++------------- R/summary_jp.R | 220 ++++++++++++++++++------------------------ R/utils.R | 17 ++- README.md | 4 build |only data |only inst |only man/get_aapc.Rd | 49 ++++++--- man/get_apc.Rd | 42 +++++--- man/gg_jpoint.Rd | 97 ++++++++++++++++-- man/hiv_data.Rd |only man/jp_to_ft.Rd |only man/model_jp.Rd | 68 ++++++++----- man/summary_jp.Rd | 49 ++++----- vignettes |only 24 files changed, 887 insertions(+), 456 deletions(-)
Title: A Magical Framework for Collaborative & Reproducible Data
Analysis
Description: A comprehensive data analysis framework for NIH-funded research that streamlines workflows for both data cleaning and preparing NIH Data Archive ('NDA') submission templates. Provides unified access to multiple data sources ('REDCap', 'MongoDB', 'Qualtrics', 'SQL', 'ORACLE') through interfaces to their APIs, with specialized functions for data cleaning, filtering, merging, and parsing. Features automatic validation, field harmonization, and memory-aware processing to enhance reproducibility in multi-site collaborative research as described in Mittal et al. (2021) <doi:10.20900/jpbs.20210011>.
Author: Joshua G. Kenney [aut, cre],
Trevor F. Williams [aut],
Minerva K. Pappu [aut],
Michael J. Spilka [aut],
Danielle N. Pratt [ctb],
Victor J. Pokorny [ctb],
Santiago Castiello de Obeso [ctb],
Praveen Suthaharan [ctb],
Christian R. Horgan [ctb]
Maintainer: Joshua G. Kenney <joshua.kenney@yale.edu>
Diff between wizaRdry versions 0.6.8 dated 2026-05-12 and 0.6.16 dated 2026-06-10
DESCRIPTION | 6 MD5 | 45 ++--- R/checkQualtricsDuplicates.R | 4 R/createCsv.R | 11 + R/createNdaSubmissionTemplate.R | 11 + R/dataRequest.R | 38 ++-- R/getMongo.R | 359 ++++++++++++++++++++++++---------------- R/getOracle.R | 17 + R/getQualtrics.R | 15 + R/getRedcap.R | 60 ++++++ R/getSql.R | 12 + R/indexFilter.R |only R/ndaRequest.R | 337 +++++++++++++++++++++---------------- R/ndaTransformations.R | 242 ++++++++++++++++++++++---- R/ndaValidationHelpers.R | 8 R/ndaValidator.R | 134 +++++++------- R/testSuite.R | 10 - R/zzz.R | 10 + man/mongo.index.Rd | 5 man/nda.Rd | 16 - man/oracle.index.Rd | 5 man/qualtrics.index.Rd | 5 man/redcap.index.Rd | 6 man/sql.index.Rd | 5 24 files changed, 897 insertions(+), 464 deletions(-)
Title: Headless Venn Diagram Analysis and Rendering
Description: Headless companion to the 'Venn Diagram Lab' web tool
(<https://www.venndiagramlab.org/>). Build, render, and statistically
analyze Venn / 'UpSet' diagrams from 'CSV' / 'TSV' / 'GMT' / 'GMX'
inputs. Provides the same 44 SVG models, intersection / 'Jaccard' /
hypergeometric statistics, and PDF report layout as the web tool,
with byte-equivalent 'TSV' exports (parity-tested against the
published Python package). Integrates with 'ggplot2', 'tidygraph',
and 'broom'.
Author: Zoltan Dul [aut, cre] ,
Marton Oelbei [aut] ,
N. Shaun B. Thomas [aut],
Azeddine Si Ammour [aut] ,
Attila Csikasz-Nagy [aut]
Maintainer: Zoltan Dul <zoltan.dul@gmail.com>
Diff between vennDiagramLab versions 2.0.5 dated 2026-05-18 and 2.4.2 dated 2026-06-10
vennDiagramLab-2.0.5/vennDiagramLab/tests/testthat/fixtures |only vennDiagramLab-2.4.2/vennDiagramLab/DESCRIPTION | 20 vennDiagramLab-2.4.2/vennDiagramLab/MD5 | 103 vennDiagramLab-2.4.2/vennDiagramLab/NAMESPACE | 23 vennDiagramLab-2.4.2/vennDiagramLab/NEWS.md | 118 vennDiagramLab-2.4.2/vennDiagramLab/R/classes.R | 22 vennDiagramLab-2.4.2/vennDiagramLab/R/cluster.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/enrichment-plot-helpers.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/excel-workbook.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/io.R | 128 vennDiagramLab-2.4.2/vennDiagramLab/R/region-accessors.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/region-expression.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/render-enrichment-bar.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/render-enrichment-lollipop.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/render-pdf.R | 685 ++++ vennDiagramLab-2.4.2/vennDiagramLab/R/render-share-distribution.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/render-svg-items.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/render-svg.R | 33 vennDiagramLab-2.4.2/vennDiagramLab/R/render-upset.R | 105 vennDiagramLab-2.4.2/vennDiagramLab/R/share-distribution.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/zip-report.R |only vennDiagramLab-2.4.2/vennDiagramLab/R/zzz.R | 3 vennDiagramLab-2.4.2/vennDiagramLab/README.md | 128 vennDiagramLab-2.4.2/vennDiagramLab/inst/CITATION | 7 vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v01_quickstart.html | 356 +- vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v02_real_cancer_drivers.html | 429 ++ vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v03_proportional_diagrams.html | 437 ++ vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v04_upset_vs_venn_vs_network.html | 361 +- vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v05_statistics_deep_dive.html | 420 ++ vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v06_pipeline_integration.html | 390 +- vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v07_pdf_reports.html | 361 +- vennDiagramLab-2.4.2/vennDiagramLab/inst/doc/v08_custom_styling_and_export.html | 419 +- vennDiagramLab-2.4.2/vennDiagramLab/inst/extdata/samples/dataset_mock_gene_sets.csv | 551 --- vennDiagramLab-2.4.2/vennDiagramLab/inst/extdata/samples/dataset_mock_streaming_platforms.csv | 1602 +++++----- vennDiagramLab-2.4.2/vennDiagramLab/man/SvgImage-class.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/cluster_set_order.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/exclusive_items.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/intersection_items.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/item_share_distribution.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/parse_region_expression.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/render_cluster_heatmap.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/render_enrichment_bar.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/render_enrichment_lollipop.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/render_share_distribution.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/render_venn_svg.Rd | 22 vennDiagramLab-2.4.2/vennDiagramLab/man/to_excel_workbook.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/to_pdf_report.Rd | 10 vennDiagramLab-2.4.2/vennDiagramLab/man/to_zip_report.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/man/union_items.Rd |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-cluster.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-enrichment-plot-helpers.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-excel-workbook.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-parity-with-webtool-v222.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-phase11-integration.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-region-accessors.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-region-expression.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-enrichment-bar.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-enrichment-lollipop.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-pdf.R | 124 vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-share-distribution.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-svg-highlight.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-svg-items.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-render-upset.R | 4 vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-share-distribution.R |only vennDiagramLab-2.4.2/vennDiagramLab/tests/testthat/test-zip-report.R |only 65 files changed, 4605 insertions(+), 2256 deletions(-)
More information about vennDiagramLab at CRAN
Permanent link
Title: Extensible Framework for Data Pattern Exploration
Description: A framework for systematic exploration of
association rules (Agrawal et al., 1994, <https://www.vldb.org/conf/1994/P487.PDF>),
contrast patterns (Chen, 2022, <doi:10.48550/arXiv.2209.13556>),
emerging patterns (Dong et al., 1999, <doi:10.1145/312129.312191>),
subgroup discovery (Atzmueller, 2015, <doi:10.1002/widm.1144>),
and conditional correlations (Hájek, 1978, <doi:10.1007/978-3-642-66943-9>).
User-defined functions may also be supplied to guide custom pattern searches.
Supports both crisp (Boolean) and fuzzy data. Generates candidate conditions
expressed as elementary conjunctions, evaluates them on a dataset, and
inspects the induced sub-data for statistical, logical, or structural
properties such as associations, correlations, or contrasts. Includes methods
for visualization of logical structures and supports interactive exploration
through integrated Shiny applications.
Author: Michal Burda [aut, cre]
Maintainer: Michal Burda <michal.burda@osu.cz>
Diff between nuggets versions 2.2.0 dated 2026-03-11 and 2.2.1 dated 2026-06-10
DESCRIPTION | 11 MD5 | 50 +- NAMESPACE | 2 NEWS.md | 7 R/geom_diamond.R | 123 ++++-- R/is_subset.R | 2 R/nuggets-package.R | 2 R/partition.R | 454 ++++++++++++++++++------- R/testers.R | 11 R/ui-conditionFilterModule.R | 13 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/data-preparation.html | 16 inst/doc/nuggets.html | 2 man/association_matrix.Rd | 10 man/dig_ancestors.Rd | 3 man/is_subset.Rd | 2 man/nuggets-package.Rd | 5 man/partition.Rd | 409 ++++++++++++++++------ man/reexports.Rd | 2 tests/testthat/test-dig_complement_contrasts.R | 11 tests/testthat/test-geom_diamond.R | 48 +- tests/testthat/test-partition.R | 136 +++++++ tests/testthat/test-testers.R | 14 tests/testthat/test-wilcox_test.R | 8 26 files changed, 983 insertions(+), 360 deletions(-)
Title: Descriptive, Reliability, and Inferential Tables for
Psychometric Scales and Demographic Data
Description: Provides functions to format and summarise already computed
outputs from commonly used statistical and psychometric functions into
compact, single-row tables and simple graphs, with utilities to export
results to CSV, Word, and Excel formats. The package does not implement
new statistical methods or estimation procedures; instead, it organises
and presents results obtained from existing packages such as 'psych',
'stats', 'gtsummary', and 'lavaan' to streamline reporting workflows in
clinical and psychological research.
Author: Darshankumar Dharaiya [aut, cre]
Maintainer: Darshankumar Dharaiya <dharaiya.darshan@gmail.com>
Diff between scaledescr versions 0.2.6 dated 2026-04-25 and 0.2.7 dated 2026-06-10
DESCRIPTION | 17 ++++++++++++----- MD5 | 12 +++++++----- NAMESPACE | 2 ++ NEWS.md | 14 ++++++++++++++ R/make_dataframe_to_output.R | 2 +- R/make_lavaan_mediation_tables.R |only inst/CITATION | 25 +++++++++++++------------ man/make_lavaan_mediation_tables.Rd |only 8 files changed, 49 insertions(+), 23 deletions(-)
Title: OPTICS K-Xi Density-Based Clustering
Description: Density-based clustering methods are well adapted to the clustering of high-dimensional data and enable the discovery of core groups of various shapes despite large amounts of noise. This package provides a novel density-based cluster extraction method, OPTICS k-Xi, and a framework to compare k-Xi models using distance-based metrics to investigate datasets with unknown number of clusters. The vignette first introduces density-based algorithms with simulated datasets, then presents and evaluates the k-Xi cluster extraction method. Finally, the models comparison framework is described and experimented on 2 genetic datasets to identify groups and their discriminating features. The k-Xi algorithm is a novel OPTICS cluster extraction method that specifies directly the number of clusters and does not require fine-tuning of the steepness parameter as the OPTICS Xi method. Combined with a framework that compares models with varying parameters, the OPTICS k-Xi method can identify groups in nois [...truncated...]
Author: Thomas Charlon [aut, cre]
Maintainer: Thomas Charlon <charlon@protonmail.com>
Diff between opticskxi versions 1.2.1 dated 2025-03-09 and 1.2.2 dated 2026-06-10
DESCRIPTION | 9 +++---- MD5 | 26 +++++++++++--------- NEWS.md | 4 +++ R/dist_matrix.R | 12 +++++---- build/vignette.rds |binary inst/doc/ensemble_metrics.R | 2 - inst/doc/ensemble_metrics.pdf |binary inst/doc/opticskxi.R | 26 +++++++++----------- inst/doc/opticskxi.Rnw | 48 +++++++++++++++++++------------------- inst/doc/opticskxi.pdf |binary man/normalize.Rd | 2 - tests/testthat/Rplots.pdf |only tests/testthat/test-cosine_simi.R |only tests/testthat/test-opticskxi.R | 2 - vignettes/opticskxi.Rnw | 48 +++++++++++++++++++------------------- 15 files changed, 92 insertions(+), 87 deletions(-)
Title: Sequence Symmetry Analysis Using the Observational Medical
Outcomes Partnership Common Data Model
Description: Calculating crude sequence ratio, adjusted sequence ratio and
confidence intervals using data mapped to the Observational Medical
Outcomes Partnership Common Data Model.
Author: Danielle Newby [aut, cre] ,
Xihang Chen [aut] ,
Tyman Stanford [aut] ,
Berta Raventos [aut] ,
Nicole Pratt [aut] ,
Ed Burn [aut] ,
Marti Catala [aut] ,
Nuria Mercade-Besora [aut] ,
Mike Du [aut] ,
Yuchen Guo [aut] ,
Kim Lopez [aut] ,
Marta Alcalde-He [...truncated...]
Maintainer: Danielle Newby <danielle.newby@ndorms.ox.ac.uk>
Diff between CohortSymmetry versions 0.2.4 dated 2025-03-24 and 0.3.0 dated 2026-06-10
DESCRIPTION | 41 MD5 | 102 - NAMESPACE | 28 R/CohortSymmetry-package.R | 22 R/crudeSequenceRatio.R | 30 R/generateSequenceCohortSet.R | 770 +++++----- R/getConfidenceInterval.R | 78 - R/getSummarisedResult.R | 134 - R/helpers.R | 338 ++-- R/mockCohortSymmetry.R | 186 +- R/nullSequenceRatio.R | 188 +- R/tableSequenceratios.R | 128 - README.md | 362 ++-- build/vignette.rds |binary inst/WORDLIST | 132 - inst/doc/a01_Introduction.R | 150 +- inst/doc/a01_Introduction.Rmd | 260 +-- inst/doc/a01_Introduction.html | 941 ++++++------ inst/doc/a02_Generate_a_sequence_cohort.R | 296 ++-- inst/doc/a02_Generate_a_sequence_cohort.Rmd | 562 +++---- inst/doc/a02_Generate_a_sequence_cohort.html | 1297 ++++++++--------- inst/doc/a03_Summarise_sequence_ratios.R | 126 - inst/doc/a03_Summarise_sequence_ratios.Rmd | 174 +- inst/doc/a03_Summarise_sequence_ratios.html | 821 +++++------ inst/doc/a04_Visualise_sequence_ratios.R | 166 +- inst/doc/a04_Visualise_sequence_ratios.Rmd | 260 +-- inst/doc/a04_Visualise_sequence_ratios.html | 851 +++++------ inst/doc/a05_Summarise_temporal_symmetry.R | 152 +- inst/doc/a05_Summarise_temporal_symmetry.Rmd | 224 +-- inst/doc/a05_Summarise_temporal_symmetry.html | 961 ++++++------- inst/doc/a06_Visualise_temporal_symmetry.R | 132 - inst/doc/a06_Visualise_temporal_symmetry.Rmd | 190 +- inst/doc/a06_Visualise_temporal_symmetry.html | 787 +++++----- man/CohortSymmetry-package.Rd | 80 - man/generateSequenceCohortSet.Rd | 148 +- man/mockCohortSymmetry.Rd | 86 - man/plotSequenceRatios.Rd | 96 - man/plotTemporalSymmetry.Rd | 98 - man/summariseSequenceRatios.Rd | 70 man/summariseTemporalSymmetry.Rd | 72 man/tableSequenceRatios.Rd | 96 - man/tableTemporalSymmetry.Rd | 96 - tests/testthat.R | 24 tests/testthat/test-attrition.R | 1886 +++++++++++++------------- tests/testthat/test-dbs.R | 182 +- tests/testthat/test-eunomia.R | 138 - vignettes/a01_Introduction.Rmd | 260 +-- vignettes/a02_Generate_a_sequence_cohort.Rmd | 562 +++---- vignettes/a03_Summarise_sequence_ratios.Rmd | 174 +- vignettes/a04_Visualise_sequence_ratios.Rmd | 260 +-- vignettes/a05_Summarise_temporal_symmetry.Rmd | 224 +-- vignettes/a06_Visualise_temporal_symmetry.Rmd | 190 +- 52 files changed, 7820 insertions(+), 7811 deletions(-)
More information about CohortSymmetry at CRAN
Permanent link
Title: Cross-Platform 'zip' Compression
Description: Cross-Platform 'zip' Compression Library. A replacement for
the 'zip' function, that does not require any additional external
tools on any platform.
Author: Gabor Csardi [aut, cre],
Kuba Podgorski [ctb],
Rich Geldreich [ctb],
Arm Limited [ctb, cph] ),
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between zip versions 2.3.3 dated 2025-05-13 and 3.0.0 dated 2026-06-10
DESCRIPTION | 18 MD5 | 176 NEWS.md | 68 R/compat-vctrs.R | 2 R/http.R |only R/inflate.R | 18 R/process.R | 181 R/threaded.R |only R/utils.R | 168 R/zip.R | 269 README.md | 86 man/inflate.Rd | 8 man/internal |only man/unzip.Rd | 47 man/unzip_process.Rd | 25 man/zip-package.Rd | 6 man/zip.Rd | 54 man/zip_list.Rd | 21 man/zip_process.Rd | 5 src/Makevars | 22 src/Makevars.win | 29 src/cleancall.c |only src/cleancall.h |only src/cmdunzip_lib.c |only src/crypto.c |only src/crypto.h |only src/errors.c |only src/errors.h |only src/init.c | 42 src/install.libs.R | 2 src/mbedtls |only src/miniz.c |11477 ++++++++++----------- src/miniz.h | 1946 +-- src/rzip.c | 358 src/tools/cmdunzip.c | 57 src/tools/cmdzip.c | 57 src/zip.c | 1229 ++ src/zip.h | 69 tests/testthat/_snaps/errors.md | 26 tests/testthat/_snaps/http.md |only tests/testthat/_snaps/threaded-unzip.md |only tests/testthat/_snaps/unzip.md | 2 tests/testthat/_snaps/weird-paths.md | 2 tests/testthat/fixtures/aes128.zip |only tests/testthat/fixtures/aes192.zip |only tests/testthat/fixtures/aes256.zip |only tests/testthat/fixtures/cp437.zip |only tests/testthat/fixtures/cp932.zip |only tests/testthat/fixtures/http-nodirs.zip |only tests/testthat/fixtures/http.zip |only tests/testthat/fixtures/make-encrypted-fixtures.sh |only tests/testthat/fixtures/make-zip64-fixtures.sh |only tests/testthat/fixtures/stored-zero-compsize.zip |only tests/testthat/fixtures/zip64-extra.zip |only tests/testthat/fixtures/zip64.zip |only tests/testthat/fixtures/zipcrypto.zip |only tests/testthat/helper-encryption.R |only tests/testthat/helper.R | 243 tests/testthat/test-crypto.R |only tests/testthat/test-errors.R | 40 tests/testthat/test-http.R |only tests/testthat/test-keys.R |only tests/testthat/test-large-files.R | 4 tests/testthat/test-threaded-unzip.R |only tests/testthat/test-unzip-process.R | 34 tests/testthat/test-unzip.R | 126 tests/testthat/test-zip-encrypt.R |only tests/testthat/test-zip-list.R | 59 tests/testthat/test-zip.R | 194 tests/testthat/test-zip64.R |only tools/extra |only tools/getzipexe.R | 4 tools/valgrind.supp |only 73 files changed, 10482 insertions(+), 6692 deletions(-)
Title: Calculate and Map Distances Between Phylogenetic Trees
Description: Implements measures of tree similarity, including
information-based generalized Robinson-Foulds distances
(Phylogenetic Information Distance, Clustering Information Distance,
Matching Split Information Distance; Smith 2020)
<doi:10.1093/bioinformatics/btaa614>;
Jaccard-Robinson-Foulds distances (Bocker et al. 2013)
<doi:10.1007/978-3-642-40453-5_13>,
including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>;
the Matching Split Distance (Bogdanowicz & Giaro 2012)
<doi:10.1109/TCBB.2011.48>;
the Hierarchical Mutual Information (Perotti et al. 2015)
<doi:10.1103/PhysRevE.92.062825>;
Maximum Agreement Subtree distances;
the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the
Nearest Neighbour Interchange (NNI) distance, approximated per Li et al.
(1996) <doi:10.1007/3-540-61332-3_168>.
Includes tools for visualizing mappings of tree space (Smith 2022)
<doi:10.1093/sysbio/syab100>,
for identifying islands o [...truncated...]
Author: Martin R. Smith [aut, cre, cph, prg] ,
Roy Jonker [prg, cph] ,
Yong Yang [ctb, cph] ,
Yi Cao [ctb, cph] ,
Neil Kaye [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeDist versions 2.14.0 dated 2026-05-09 and 2.14.1 dated 2026-06-10
DESCRIPTION | 6 MD5 | 355 NAMESPACE | 464 - NEWS.md | 101 R/3Dplot.R | 202 R/HPart.R | 352 R/Information.R | 760 - R/Islands.R | 156 R/MSTSegments.R | 158 R/Plot3.R | 168 R/RcppExports.R | 618 - R/Reduce.R | 134 R/TreeDist-package.R | 286 R/VisualizeMatching.R | 450 R/cluster_stats.R | 548 - R/hierarchical_mutual_information.R | 374 R/kmeanspp.R | 52 R/lap.R | 130 R/median.R | 172 R/parallel.R | 238 R/plot.R | 150 R/shiny.R | 258 R/spectral_clustering.R | 162 R/transfer_consensus.R | 1161 +- R/tree_distance.R | 592 - R/tree_distance_info.R | 882 - R/tree_distance_kendall-colijn.R | 432 R/tree_distance_mast.R | 232 R/tree_distance_msd.R | 126 R/tree_distance_msi.R | 158 R/tree_distance_nni.R | 342 R/tree_distance_nye.R | 416 R/tree_distance_path.R | 216 R/tree_distance_rf.R | 446 R/tree_distance_spr.R | 1050 +- R/tree_distance_transfer.R | 8 R/tree_distance_utilities.R | 1554 +-- R/tree_information.R | 946 +- R/trustworthiness.R | 154 R/zzz.R | 56 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 148 inst/REFERENCES.bib | 1496 +-- inst/TreeDist.svg | 88 inst/WORDLIST | 275 inst/apa-old-doi-prefix.csl | 4546 +++++----- inst/doc/Generalized-RF.Rmd | 586 - inst/doc/Robinson-Foulds.Rmd | 718 - inst/doc/Using-TreeDist.Rmd | 304 inst/doc/Using-TreeDist.html | 6 inst/doc/compare-treesets.Rmd | 354 inst/doc/different-leaves.Rmd | 194 inst/doc/information.Rmd | 580 - inst/doc/landscapes.Rmd | 256 inst/doc/treespace.Rmd | 942 +- inst/doc/using-distances.Rmd | 856 - inst/include/TreeDist/lap_impl.h | 13 inst/treespace/app.R | 57 man/AllSplitPairings.Rd | 78 man/CalculateTreeDistance.Rd | 60 man/CompareAll.Rd | 106 man/Entropy.Rd | 66 man/GeneralizedRF.Rd | 128 man/HH.Rd | 24 man/HPart.Rd | 130 man/HierarchicalMutualInfo.Rd | 280 man/HierarchicalMutualInformation.Rd | 24 man/Islands.Rd | 158 man/JaccardRobinsonFoulds.Rd | 292 man/KMeansPP.Rd | 110 man/KendallColijn.Rd | 290 man/LAPJV.Rd | 126 man/MASTSize.Rd | 164 man/MCITree.Rd | 114 man/MSTSegments.Rd | 170 man/MapTrees.Rd | 250 man/MappingQuality.Rd | 112 man/MatchingSplitDistance.Rd | 208 man/MeilaVariationOfInformation.Rd | 118 man/NNIDist.Rd | 242 man/NormalizeInfo.Rd | 192 man/NyeSimilarity.Rd | 284 man/PathDist.Rd | 176 man/ReduceTrees.Rd | 102 man/ReportMatching.Rd | 54 man/Robinson-Foulds.Rd | 328 man/SPRDist.Rd | 188 man/SpectralEigens.Rd | 102 man/SplitEntropy.Rd | 102 man/SplitSharedInformation.Rd | 196 man/StartParallel.Rd | 210 man/TransferConsensus.Rd | 132 man/TransferDist.Rd | 236 man/TreeDist-package.Rd | 302 man/TreeDistance.Rd | 676 - man/TreeInfo.Rd | 432 man/VisualizeMatching.Rd | 178 man/clone.Rd | 66 man/cluster-statistics.Rd | 212 man/cpp_mutual_clustering_all_pairs.Rd | 54 man/cpp_transfer_consensus.Rd | 70 man/cpp_transfer_dist.Rd | 52 man/cpp_transfer_dist_all_pairs.Rd | 48 man/cpp_transfer_dist_cross_pairs.Rd | 48 man/dot-SPRPairDeO.Rd | 44 man/dot-ThreeDPlotServer.Rd | 50 man/dot-TreeDistance.Rd | 46 man/entropy_int.Rd | 40 man/median.multiPhylo.Rd | 188 src/lap.cpp | 295 src/pairwise_distances.cpp | 4 src/tree_distances.cpp | 2 src/tree_distances.h | 6 tests/benchmark/benchmark.R | 36 tests/benchmark/kmeanspp_streaming.R |only tests/testthat.R | 8 tests/testthat/_snaps/HPart/plot-hpart.svg | 96 tests/testthat/_snaps/MSTSegments/mst-example-plot.svg | 622 - tests/testthat/_snaps/Plot3/plotting-order.svg | 134 tests/testthat/_snaps/Plot3/simple-plot.svg | 134 tests/testthat/_snaps/VisualizeMatching/hidden-edge-labels.svg | 500 - tests/testthat/_snaps/VisualizeMatching/jrf-vm-matchzeros-false.svg | 348 tests/testthat/_snaps/VisualizeMatching/rf-collapse-a-node.svg | 566 - tests/testthat/_snaps/VisualizeMatching/rf-collapse-and-change.svg | 554 - tests/testthat/_snaps/VisualizeMatching/rf-vm-single-splits-plainedges.svg | 352 tests/testthat/_snaps/VisualizeMatching/test-vm.svg | 396 tests/testthat/_snaps/VisualizeMatching/test-vmr.svg | 368 tests/testthat/_snaps/VisualizeMatching/visualize-mci-matching.svg | 566 - tests/testthat/_snaps/VisualizeMatching/vm-one-rooted.svg | 196 tests/testthat/_snaps/VisualizeMatching/vm-unrooted.svg | 182 tests/testthat/_snaps/plot/test-lc-letters.svg | 162 tests/testthat/_snaps/plot/test-uc-letters.svg | 162 tests/testthat/_snaps/plot/test-with-space.svg | 162 tests/testthat/_snaps/plot/test-without-space.svg | 162 tests/testthat/setup.R | 14 tests/testthat/test-HPart.R | 150 tests/testthat/test-Islands.R | 38 tests/testthat/test-MCITree.R | 104 tests/testthat/test-MSTSegments.R | 94 tests/testthat/test-Plot3.R | 56 tests/testthat/test-Reduce.R | 132 tests/testthat/test-VisualizeMatching.R | 310 tests/testthat/test-batch_coverage.R | 892 - tests/testthat/test-binary_entropy_counts.R | 12 tests/testthat/test-cluster_stats.R | 170 tests/testthat/test-day_1985.cpp.r | 154 tests/testthat/test-different-tips.R | 166 tests/testthat/test-hierarchical_mutual_information.R | 124 tests/testthat/test-hmi.cpp.R | 318 tests/testthat/test-information.R | 196 tests/testthat/test-kmeanspp.R | 35 tests/testthat/test-lap.R | 720 - tests/testthat/test-large-trees.R | 254 tests/testthat/test-mast.R | 158 tests/testthat/test-mci_impl.R | 106 tests/testthat/test-pairwise_distances.R | 606 - tests/testthat/test-parallel.R | 50 tests/testthat/test-plot.R | 74 tests/testthat/test-spectral_clustering.R | 36 tests/testthat/test-split_info.R | 142 tests/testthat/test-transfer_consensus.R | 1428 +-- tests/testthat/test-tree_distance.R | 2044 ++-- tests/testthat/test-tree_distance_kc.R | 120 tests/testthat/test-tree_distance_nni.R | 416 tests/testthat/test-tree_distance_path.R | 66 tests/testthat/test-tree_distance_spr.R | 860 - tests/testthat/test-tree_distance_transfer.R | 1014 +- tests/testthat/test-tree_distance_utilities.R | 838 - tests/testthat/test-tree_information.R | 316 vignettes/Generalized-RF.Rmd | 586 - vignettes/Robinson-Foulds.Rmd | 718 - vignettes/Using-TreeDist.Rmd | 304 vignettes/compare-treesets.Rmd | 354 vignettes/different-leaves.Rmd | 194 vignettes/information.Rmd | 580 - vignettes/landscapes.Rmd | 256 vignettes/treespace.Rmd | 942 +- vignettes/using-distances.Rmd | 856 - 179 files changed, 28653 insertions(+), 28905 deletions(-)
Title: A Framework for Enterprise Shiny Applications
Description: A framework that supports creating and extending enterprise Shiny applications using best practices.
Author: Jakub Nowicki [aut, cre],
Kamil Zyla [aut],
Leszek Sieminski [aut],
Marek Rogala [aut],
Recle Vibal [aut],
Tymoteusz Makowski [aut],
Rodrigo Basa [aut],
Eduardo Almeida [ctb],
Appsilon Sp. z o.o. [cph]
Maintainer: Jakub Nowicki <opensource+kuba@appsilon.com>
Diff between rhino versions 1.11.0 dated 2025-04-02 and 1.12.0 dated 2026-06-10
DESCRIPTION | 28 MD5 | 61 NAMESPACE | 5 NEWS.md | 16 R/init.R | 113 R/rhino.R | 57 R/tools.R | 76 inst/WORDLIST | 3 inst/rstudio/templates/project/init.dcf | 10 inst/templates/agents_md |only inst/templates/app_structure/app/main.R | 7 inst/templates/node/package-lock.json |13781 ++++++++----------------- inst/templates/node/package.json | 26 man/covr_r.Rd |only man/covr_report.Rd |only man/init.Rd | 7 man/log.Rd | 5 man/use_agents_md.Rd |only man/use_e2e_tests.Rd |only man/use_github_actions_ci.Rd |only tests/e2e/app-files/hello.cy.js | 4 tests/e2e/app-files/main.R | 2 tests/e2e/app-files/say_hello_module.R |only tests/e2e/app-files/test-say_hello_module.R |only tests/e2e/test-build-js.R | 71 tests/e2e/test-build-sass.R | 52 tests/e2e/test-covr_r.R |only tests/e2e/test-format-js.R | 51 tests/e2e/test-format-sass.R | 50 tests/e2e/test-lint-js.R | 42 tests/e2e/test-lint-sass.R | 42 tests/testthat/helpers/hello.R |only tests/testthat/helpers/main.R |only tests/testthat/helpers/say_hello_module.R |only tests/testthat/helpers/test-hello.R |only tests/testthat/helpers/test-say_hello_module.R |only tests/testthat/test-init.R |only tests/testthat/test-rhino.R | 97 tests/testthat/test-tools.R | 42 39 files changed, 5266 insertions(+), 9382 deletions(-)
Title: Neutrosophic Analysis of Row Column Designs
Description: Description: Provides methods for Neutrosophic Analysis of Variance (NANOVA)
and Neutrosophic Analysis of Covariance (NANCOVA) for row-column designs,
including Latin square designs and Youden square designs, using
interval-valued observations. The package computes neutrosophic sums of
squares, mean squares, interval-valued F-statistics, significance tests,
and multiple comparisons using Least Significant Difference (LSD)
procedures. For crisp data, users may enter identical lower and upper
values of responses to obtain classical Analysis of Variance (ANOVA)
results. Similarly, users may enter identical lower and upper values for
both responses and covariates to obtain classical Analysis of Covariance
(ANCOVA) results.
Author: Neethu R.S. [aut, ctb],
Boyina Devi Priyanka [aut, ctb],
Cini Varghese [aut, ctb],
Mohd Harun [aut, ctb],
Anindita Datta [aut, ctb],
Vinaykumar L.N. [aut, cre]
Maintainer: Vinaykumar L.N. <vinaymandya123@gmail.com>
Diff between NeutroRCDsAnalysis versions 0.1.0 dated 2026-06-08 and 0.1.1 dated 2026-06-10
DESCRIPTION | 10 +++++++--- MD5 | 2 +- 2 files changed, 8 insertions(+), 4 deletions(-)
More information about NeutroRCDsAnalysis at CRAN
Permanent link
Title: Tidy and Streamlined Metabolomics Data Workflows
Description: Facilitate tasks typically encountered during metabolomics data analysis including data import, filtering, missing value imputation (Stacklies et al. (2007) <doi:10.1093/bioinformatics/btm069>, Stekhoven et al. (2012) <doi:10.1093/bioinformatics/btr597>, Tibshirani et al. (2017) <doi:10.18129/B9.BIOC.IMPUTE>, Troyanskaya et al. (2001) <doi:10.1093/bioinformatics/17.6.520>), normalization (Bolstad et al. (2003) <doi:10.1093/bioinformatics/19.2.185>, Dieterle et al. (2006) <doi:10.1021/ac051632c>, Zhao et al. (2020) <doi:10.1038/s41598-020-72664-6>) transformation, centering and scaling (Van Den Berg et al. (2006) <doi:10.1186/1471-2164-7-142>) as well as statistical tests and plotting. 'metamorphr' introduces a tidy (Wickham et al. (2019) <doi:10.21105/joss.01686>) format for metabolomics data and is designed to make it easier to build elaborate analysis workflows and to integrate them with 'tidyverse' packages including 'dplyr' and [...truncated...]
Author: Yannik Schermer [aut, cre, cph]
Maintainer: Yannik Schermer <yannik.schermer@chem.rptu.de>
Diff between metamorphr versions 0.4.0 dated 2026-06-09 and 0.4.1 dated 2026-06-10
DESCRIPTION | 8 MD5 | 26 - NEWS.md | 5 R/io.R | 8 README.md | 6 build/partial.rdb |binary build/vignette.rds |binary inst/doc/conjugate-screening.html | 4 man/figures/README-example-dplyr-1-1.svg | 614 ++++++++++++------------- man/figures/README-example-dplyr-2-1.svg | 512 ++++++++++---------- man/figures/README-example-workflow-1.svg | 300 ++++++------ man/metamorphr-package.Rd | 5 tests/testthat/test-read_featuretable.R | 10 tests/testthat/test-read_featuretable_mzmine.R | 3 14 files changed, 772 insertions(+), 729 deletions(-)
Title: Laplace Factor Model Analysis and Evaluation
Description: Enables the generation of Laplace factor models across diverse Laplace distributions and facilitates the application of Sparse Online Principal Component (SOPC), Incremental Principal Component (IPC), Perturbation Principal Component (PPC), Stochastic Approximation Principal Component (SAPC), Sparse Principal Component (SPC) and other PC methods and Farm Test methods to these models. Evaluates the efficacy of these methods within the context of Laplace factor models by scrutinizing parameter estimation accuracy, mean square error, and the degree of sparsity.
Author: Guangbao Guo [aut, cre],
Siqi Liu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
This is a re-admission after prior archival of version 0.3.3 dated 2025-12-06
Diff between LFM versions 0.3.3 dated 2025-12-06 and 0.3.4 dated 2026-06-10
DESCRIPTION | 8 ++++---- MD5 | 6 ++++-- NAMESPACE | 1 + R/rlaplace.R |only man/rlaplace.Rd |only 5 files changed, 9 insertions(+), 6 deletions(-)
Title: Estimate Functional and Stochastic Parameters of Linear Models
with Correlated Residuals and Missing Data
Description: Implements the Generalized Method of Wavelet Moments with Exogenous Inputs estimator (GMWMX) presented in Voirol, L., Xu, H., Zhang, Y., Insolia, L., Molinari, R. and Guerrier, S. (2024) <doi:10.48550/arXiv.2409.05160>.
The GMWMX estimator allows to estimate functional and stochastic parameters of linear models with correlated residuals in presence of missing data.
The 'gmwmx2' package provides functions to load and plot Global Navigation Satellite System (GNSS) data from the Nevada Geodetic Laboratory and functions to estimate linear model model with correlated residuals in presence of missing data.
Author: Lionel Voirol [aut, cre] ,
Haotian Xu [aut] ,
Yuming Zhang [aut] ,
Luca Insolia [aut] ,
Roberto Molinari [aut] ,
Stephane Guerrier [aut]
Maintainer: Lionel Voirol <lionelvoirol@hotmail.com>
Diff between gmwmx2 versions 0.0.4 dated 2026-01-07 and 0.0.5 dated 2026-06-10
gmwmx2-0.0.4/gmwmx2/inst/doc/fit_model.R |only gmwmx2-0.0.4/gmwmx2/inst/doc/fit_model.Rmd |only gmwmx2-0.0.4/gmwmx2/inst/doc/fit_model.html |only gmwmx2-0.0.4/gmwmx2/man/plot.fit_gnss_ts_ngl.Rd |only gmwmx2-0.0.4/gmwmx2/man/summary.fit_gnss_ts_ngl.Rd |only gmwmx2-0.0.4/gmwmx2/vignettes/fit_model.Rmd |only gmwmx2-0.0.5/gmwmx2/DESCRIPTION | 12 gmwmx2-0.0.5/gmwmx2/MD5 | 136 gmwmx2-0.0.5/gmwmx2/NAMESPACE | 42 gmwmx2-0.0.5/gmwmx2/NEWS.md | 30 gmwmx2-0.0.5/gmwmx2/R/RcppExports.R | 8 gmwmx2-0.0.5/gmwmx2/R/constructor_time_series_model.R |only gmwmx2-0.0.5/gmwmx2/R/create_X_matrix.R |only gmwmx2-0.0.5/gmwmx2/R/fill_missing_parameters.R |only gmwmx2-0.0.5/gmwmx2/R/find_initial_values_wn_fl.R | 20 gmwmx2-0.0.5/gmwmx2/R/find_initial_values_wn_pl.R | 102 gmwmx2-0.0.5/gmwmx2/R/generate.R |only gmwmx2-0.0.5/gmwmx2/R/get_autocovariance.R |only gmwmx2-0.0.5/gmwmx2/R/get_variance_covariance_matrix.R |only gmwmx2-0.0.5/gmwmx2/R/gmwm2.R |only gmwmx2-0.0.5/gmwmx2/R/gmwmx2.R | 1546 +++++----- gmwmx2-0.0.5/gmwmx2/R/loss_functions_gmwmx.R |only gmwmx2-0.0.5/gmwmx2/R/misc.R |only gmwmx2-0.0.5/gmwmx2/R/ngl.R | 10 gmwmx2-0.0.5/gmwmx2/R/old_implementation_gmwmx2.R |only gmwmx2-0.0.5/gmwmx2/R/prepare_optim_layout.R |only gmwmx2-0.0.5/gmwmx2/R/time_series_model.R |only gmwmx2-0.0.5/gmwmx2/R/transformation_functions.R |only gmwmx2-0.0.5/gmwmx2/README.md | 4 gmwmx2-0.0.5/gmwmx2/build/vignette.rds |binary gmwmx2-0.0.5/gmwmx2/inst/doc/data_generation.R |only gmwmx2-0.0.5/gmwmx2/inst/doc/data_generation.Rmd |only gmwmx2-0.0.5/gmwmx2/inst/doc/data_generation.html |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_composite_stochastic_models.R |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_composite_stochastic_models.Rmd |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_composite_stochastic_models.html |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_geodetic_time_series_from_ngl.R |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_geodetic_time_series_from_ngl.Rmd |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_geodetic_time_series_from_ngl.html |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_linear_models_with_dependent_errors.R |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_linear_models_with_dependent_errors.Rmd |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_linear_models_with_dependent_errors.html |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_linear_models_with_dependent_errors_and_missing_observations.R |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_linear_models_with_dependent_errors_and_missing_observations.Rmd |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_linear_models_with_dependent_errors_and_missing_observations.html |only gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_small_network.R | 548 +-- gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_small_network.Rmd | 17 gmwmx2-0.0.5/gmwmx2/inst/doc/estimate_small_network.html | 522 +-- gmwmx2-0.0.5/gmwmx2/inst/doc/load_plot_data_ngl.R | 3 gmwmx2-0.0.5/gmwmx2/inst/doc/load_plot_data_ngl.Rmd | 11 gmwmx2-0.0.5/gmwmx2/inst/doc/load_plot_data_ngl.html | 48 gmwmx2-0.0.5/gmwmx2/inst/doc/plot_large_network.R | 349 +- gmwmx2-0.0.5/gmwmx2/inst/doc/plot_large_network.Rmd | 12 gmwmx2-0.0.5/gmwmx2/inst/doc/plot_large_network.html | 281 - gmwmx2-0.0.5/gmwmx2/inst/papers |only gmwmx2-0.0.5/gmwmx2/man/Ma.Rd |only gmwmx2-0.0.5/gmwmx2/man/ar1.Rd |only gmwmx2-0.0.5/gmwmx2/man/as_model_list.Rd |only gmwmx2-0.0.5/gmwmx2/man/dot-comp_prefix.Rd |only gmwmx2-0.0.5/gmwmx2/man/dot-gmwmx2_get_plot_colors.Rd |only gmwmx2-0.0.5/gmwmx2/man/download_estimated_velocities_ngl.Rd | 4 gmwmx2-0.0.5/gmwmx2/man/fill_missing_parameters.Rd |only gmwmx2-0.0.5/gmwmx2/man/flicker.Rd |only gmwmx2-0.0.5/gmwmx2/man/format_model_text.Rd |only gmwmx2-0.0.5/gmwmx2/man/format_params.Rd |only gmwmx2-0.0.5/gmwmx2/man/generate.Rd |only gmwmx2-0.0.5/gmwmx2/man/get_autocovariance.Rd |only gmwmx2-0.0.5/gmwmx2/man/get_theoretical_wv.Rd |only gmwmx2-0.0.5/gmwmx2/man/get_variance_covariance_matrix_model.Rd |only gmwmx2-0.0.5/gmwmx2/man/gmwm2.Rd |only gmwmx2-0.0.5/gmwmx2/man/gmwmx2.Rd | 58 gmwmx2-0.0.5/gmwmx2/man/gmwmx2_new_no_missing.Rd |only gmwmx2-0.0.5/gmwmx2/man/gmwmx2_new_with_missing.Rd |only gmwmx2-0.0.5/gmwmx2/man/gmwmx2_plot_colors.Rd |only gmwmx2-0.0.5/gmwmx2/man/inv_trans_alpha_matern.Rd |only gmwmx2-0.0.5/gmwmx2/man/inv_trans_from_real_to_minus_1_and_1.Rd |only gmwmx2-0.0.5/gmwmx2/man/loss_fn_gmwm.Rd |only gmwmx2-0.0.5/gmwmx2/man/loss_fn_gmwmx_no_missing.Rd |only gmwmx2-0.0.5/gmwmx2/man/loss_fn_gmwmx_with_missing.Rd |only gmwmx2-0.0.5/gmwmx2/man/markov_two_states.Rd |only gmwmx2-0.0.5/gmwmx2/man/matern.Rd |only gmwmx2-0.0.5/gmwmx2/man/pl.Rd |only gmwmx2-0.0.5/gmwmx2/man/plot.generated_composite_model_time_series.Rd |only gmwmx2-0.0.5/gmwmx2/man/plot.generated_missingness.Rd |only gmwmx2-0.0.5/gmwmx2/man/plot.generated_time_series.Rd |only gmwmx2-0.0.5/gmwmx2/man/plot.gmwm2_fit.Rd |only gmwmx2-0.0.5/gmwmx2/man/plot.gmwmx2_fit_gnss_ts_ngl.Rd |only gmwmx2-0.0.5/gmwmx2/man/plus-.sum_model.Rd |only gmwmx2-0.0.5/gmwmx2/man/plus-.time_series_model.Rd |only gmwmx2-0.0.5/gmwmx2/man/prepare_optim_layout.Rd |only gmwmx2-0.0.5/gmwmx2/man/print.gmwm2_fit.Rd |only gmwmx2-0.0.5/gmwmx2/man/print.gmwmx2_fit.Rd |only gmwmx2-0.0.5/gmwmx2/man/print.gmwmx2_fit_gnss_ts_ngl.Rd |only gmwmx2-0.0.5/gmwmx2/man/rw.Rd |only gmwmx2-0.0.5/gmwmx2/man/sum_model.Rd |only gmwmx2-0.0.5/gmwmx2/man/theta_to_domain.Rd |only gmwmx2-0.0.5/gmwmx2/man/trans_alpha_matern.Rd |only gmwmx2-0.0.5/gmwmx2/man/trans_from_real_to_minus_1_and_1.Rd |only gmwmx2-0.0.5/gmwmx2/man/wn.Rd |only gmwmx2-0.0.5/gmwmx2/src/RcppExports.cpp | 26 gmwmx2-0.0.5/gmwmx2/src/rw.cpp |only gmwmx2-0.0.5/gmwmx2/vignettes/REFERENCES.bib | 47 gmwmx2-0.0.5/gmwmx2/vignettes/data_generation.Rmd |only gmwmx2-0.0.5/gmwmx2/vignettes/estimate_composite_stochastic_models.Rmd |only gmwmx2-0.0.5/gmwmx2/vignettes/estimate_geodetic_time_series_from_ngl.Rmd |only gmwmx2-0.0.5/gmwmx2/vignettes/estimate_linear_models_with_dependent_errors.Rmd |only gmwmx2-0.0.5/gmwmx2/vignettes/estimate_linear_models_with_dependent_errors_and_missing_observations.Rmd |only gmwmx2-0.0.5/gmwmx2/vignettes/estimate_small_network.Rmd | 17 gmwmx2-0.0.5/gmwmx2/vignettes/load_plot_data_ngl.Rmd | 11 gmwmx2-0.0.5/gmwmx2/vignettes/plot_large_network.Rmd | 12 110 files changed, 2083 insertions(+), 1793 deletions(-)
Title: Assessing Package Test Reliability and Quality
Description: A reliable and validated tool that calculates unit test coverage for R packages with standard testing frameworks and non-standard testing frameworks.
Author: Edward Gillian [cre, aut] ,
Hugo Bottois [aut] ,
Paulin Charliquart [aut],
Andre Couturier [aut],
Sanofi [cph, fnd]
Maintainer: Edward Gillian <edward.gillian-ext@sanofi.com>
Diff between test.assessr versions 2.1.0 dated 2026-04-30 and 2.1.2 dated 2026-06-10
DESCRIPTION | 22 +- MD5 | 22 +- NEWS.md | 15 + R/install_package_local.R | 8 R/set_up_pkg.R | 4 R/unpack_tarball.R | 99 ++++++++-- README.md | 8 tests/testthat/helper-skip_conditions.R |only tests/testthat/test-install_package_local.R | 31 +++ tests/testthat/test-set_up_pkg.R | 28 ++ tests/testthat/test-skip_conditions.R |only tests/testthat/test-unpack_tarball.R | 276 ++++++++++++++++++++++++++-- tests/testthat/test-utils.R | 66 ++++++ 13 files changed, 507 insertions(+), 72 deletions(-)
Title: Synthetic Control Methods
Description: Implementation of prediction and inference procedures for Synthetic Control methods using least square, lasso, ridge, or simplex-type constraints. Uncertainty is quantified with prediction intervals as developed in Cattaneo, Feng, and Titiunik (2021) <doi:10.1080/01621459.2021.1979561> for a single treated unit and in Cattaneo, Feng, Palomba, and Titiunik (2027) <doi:10.1162/rest_a_01588> for multiple treated units and staggered adoption. More details about the software implementation can be found in Cattaneo, Feng, Palomba, and Titiunik (2025) <doi:10.18637/jss.v113.i01>.
Author: Matias D. Cattaneo [aut, cre],
Yingjie Feng [aut],
Filippo Palomba [aut],
Rocio Titiunik [aut]
Maintainer: Matias D. Cattaneo <matias.d.cattaneo@gmail.com>
Diff between scpi versions 4.0.0 dated 2026-06-03 and 4.0.1 dated 2026-06-10
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NAMESPACE | 2 +- R/scpi-package.R | 2 +- build/partial.rdb |binary 5 files changed, 14 insertions(+), 14 deletions(-)
Title: Utility Functions and Development Tools for the Admiral Package
Family
Description: Utility functions to check data, variables and conditions for
functions used in 'admiral' and 'admiral' extension packages.
Additional utility helper functions to assist developers with
maintaining documentation, testing and general upkeep of 'admiral' and
'admiral' extension packages.
Author: Edoardo Mancini [aut, cre] ,
Stefan Bundfuss [aut] ,
Arianna Cascone [aut] ,
Kristin Dahnert [aut],
Jeffrey Dickinson [aut],
Ross Farrugia [aut],
Fanny Gautier [aut] ,
Liam Hobby [aut],
Gordon Miller [aut],
Lina Patil [aut],
Ben Straub [aut],
F. Hoff [...truncated...]
Maintainer: Edoardo Mancini <edoardo.mancini@roche.com>
Diff between admiraldev versions 1.4.1 dated 2026-05-27 and 1.5.0 dated 2026-06-10
DESCRIPTION | 29 - MD5 | 167 +++--- NAMESPACE | 6 NEWS.md | 47 + R/admiraldev-package.R | 63 +- R/assertions.R | 12 R/is.R | 51 + R/roclet_rdx.R | 9 R/roxygen_helpers.R |only inst/WORDLIST | 4 inst/doc/package_extensions.Rmd | 2 inst/doc/package_extensions.html | 4 inst/doc/writing_custom_examples.R | 2 inst/doc/writing_custom_examples.Rmd | 4 inst/doc/writing_custom_examples.html | 4 man/add_suffix_to_vars.Rd | 6 man/admiraldev-package.Rd | 8 man/arg_name.Rd | 12 man/assert_atomic_vector.Rd | 44 - man/assert_character_scalar.Rd | 44 - man/assert_character_vector.Rd | 44 - man/assert_data_frame.Rd | 44 - man/assert_date_vector.Rd | 44 - man/assert_expr.Rd | 44 - man/assert_expr_list.Rd | 44 - man/assert_filter_cond.Rd | 44 - man/assert_function.Rd | 44 - man/assert_integer_scalar.Rd | 44 - man/assert_list_element.Rd | 44 - man/assert_list_of.Rd | 44 - man/assert_logical_scalar.Rd | 44 - man/assert_named.Rd | 44 - man/assert_numeric_vector.Rd | 44 - man/assert_one_to_one.Rd | 44 - man/assert_param_does_not_exist.Rd | 44 - man/assert_s3_class.Rd | 44 - man/assert_same_type.Rd | 44 - man/assert_symbol.Rd | 44 - man/assert_unit.Rd | 44 - man/assert_vars.Rd | 44 - man/assert_varval_list.Rd | 44 - man/backquote.Rd | 4 man/capture_output.Rd | 4 man/contains_vars.Rd | 10 man/convert_dtm_to_dtc.Rd | 10 man/dquote.Rd | 4 man/enumerate.Rd | 12 man/execute_example.Rd | 4 man/expr_c.Rd | 6 man/extract_vars.Rd | 10 man/figures/gsk_logo.png |binary man/figures/roche_logo.png |binary man/filter_if.Rd | 10 man/friendly_type_of.Rd | 12 man/get_constant_vars.Rd | 6 man/get_dataset.Rd | 6 man/get_duplicates.Rd | 6 man/get_source_vars.Rd | 6 man/grapes-notin-grapes.Rd | 10 man/grapes-or-grapes.Rd | 12 man/is_auto.Rd | 4 man/is_order_vars.Rd | 4 man/is_valid_dtc.Rd | 44 + man/replace_symbol_in_expr.Rd | 6 man/replace_values_by_names.Rd | 6 man/roxygen/rdx_meta.R | 1 man/roxygen_order_na_handling.Rd |only man/roxygen_param_by_vars.Rd |only man/roxygen_param_dataset.Rd |only man/roxygen_save_memory.Rd |only man/squote.Rd | 4 man/suppress_warning.Rd | 10 man/valid_time_units.Rd | 12 man/vars2chr.Rd | 10 man/warn_if_incomplete_dtc.Rd | 10 man/warn_if_inconsistent_list.Rd | 10 man/warn_if_invalid_dtc.Rd | 10 man/warn_if_vars_exist.Rd | 10 man/what_is_it.Rd | 12 tests/testthat/_snaps/assertions.md | 186 +++--- tests/testthat/_snaps/roclet_rdx/test_class.Rd | 68 +- tests/testthat/_snaps/roxygen2.md |only tests/testthat/test-assertions.R | 667 +++++++++---------------- tests/testthat/test-is.R | 23 tests/testthat/test-roclet_rdx.R | 2 tests/testthat/test-roxygen2.R |only vignettes/package_extensions.Rmd | 2 vignettes/writing_custom_examples.Rmd | 4 88 files changed, 1360 insertions(+), 1319 deletions(-)
Title: Simultaneous Selection by Trait and WAASB Index
Description: This tool proposes a new ranking algorithm that utilizes a "Y*WAASB" biplot generated by the 'metan'. The aim of the current package is to effectively distinguish the top-ranked genotypes in MET (Multi-Environmental Trials). For a detailed explanation of the process of obtaining "WAASB", "WAASBY" indices, and a "Y*WAASB" biplot, refer to the manual included in this package as well as the study by Olivoto & Lúcio (2020) <doi:10.1111/2041-210X.13384>. In this context, "WAASB" refers to the "Weighted Average of Absolute Scores" provided by Olivoto et al. (2019) <doi:10.2134/agronj2019.03.0220>, which quantifies the stability of genotypes across different environments using linear mixed-effect models. To run the package, you need to extract the "WAASB" and "WAASBY" coefficients using the 'metan' and apply them. This tool utilizes PCA (Principal Component Analysis) and differentiates the entries which may be genotypes, hybrids, varieties, etc using "WAASB", "WAASBY", and a c [...truncated...]
Author: Ali Arminian [aut, cre, cph]
Maintainer: Ali Arminian <abeyran@gmail.com>
Diff between rYWAASB versions 0.3 dated 2025-05-23 and 0.4 dated 2026-06-10
DESCRIPTION | 10 +-- MD5 | 14 ++--- NEWS.md | 4 + R/ranki.R | 2 build/stage23.rdb |binary inst/doc/rYWAASB_manual.html | 114 +++++++++++++++++++++---------------------- inst/extdata/dm.xls |binary inst/extdata/maize.xls |binary 8 files changed, 74 insertions(+), 70 deletions(-)
Title: Response Time Distributions
Description: Provides response time distributions (density/PDF,
distribution function/CDF, quantile function, and random
generation): (a) Ratcliff diffusion model (Ratcliff &
McKoon, 2008, <doi:10.1162/neco.2008.12-06-420>) based on C
code by Andreas and Jochen Voss and (b) linear ballistic
accumulator (LBA; Brown & Heathcote, 2008,
<doi:10.1016/j.cogpsych.2007.12.002>) with different
distributions underlying the drift rate.
Author: Henrik Singmann [aut, cre] ,
Scott Brown [aut],
Matthew Gretton [aut],
Andrew Heathcote [aut],
Andreas Voss [ctb],
Jochen Voss [ctb],
Andrew Terry [ctb]
Maintainer: Henrik Singmann <singmann@gmail.com>
Diff between rtdists versions 0.11-5 dated 2022-01-07 and 0.11-6 dated 2026-06-10
DESCRIPTION | 11 MD5 | 85 - NAMESPACE | 94 - NEWS | 354 ++-- R/RcppExports.R | 38 R/deprecated.R | 54 R/diffusion.R | 992 +++++------ R/lba.r | 1246 +++++++------- R/lba_race.R | 872 +++++----- R/rr98-data.R | 182 +- R/rtdists-package.R | 50 R/single-lba.r | 1374 ++++++++-------- R/speed_acc-data.R | 64 build/vignette.rds |binary inst/doc/reanalysis_rr98.R | 1406 ++++++++-------- inst/doc/reanalysis_rr98.Rmd | 1870 +++++++++++----------- inst/doc/reanalysis_rr98.html | 2924 ++++++++++++++++++++--------------- inst/extdata/AUTHORS | 44 inst/extdata/lba-math.R | 344 ++-- man/Diffusion.Rd | 578 +++--- man/LBA-race.Rd | 334 ++- man/LBA.Rd | 693 ++++---- man/deprecated.Rd | 50 man/rr98.Rd | 222 +- man/rtdists-package.Rd | 69 man/single-LBA.Rd | 236 +- man/speed_acc.Rd | 122 - src/Sampling.h | 7 tests/testthat.R | 6 tests/testthat/test-diffusion-bugs.R | 224 +- tests/testthat/test-diffusion-math.R | 222 +- tests/testthat/test-diffusion-rcpp.R | 268 +-- tests/testthat/test-diffusion.R | 340 ++-- tests/testthat/test-lba-bugs.R | 1360 ++++++++-------- tests/testthat/test-lba-math.R | 258 +-- tests/testthat/test-lba_basics.R | 1096 ++++++------- tests/testthat/test-lba_input.R | 498 ++--- tests/testthat/test-lba_race-basic.R | 110 - tests/testthat/test-lba_race.R | 668 +++---- tests/testthat/test-lba_race_input.R | 650 +++---- tests/testthat/test-pdiffusion_rng.R | 288 +-- tests/testthat/test-rdiffusion.R |only tests/testthat/test-rrd.R | 84 - vignettes/reanalysis_rr98.Rmd | 1870 +++++++++++----------- 44 files changed, 11436 insertions(+), 10821 deletions(-)
Title: Model-Based Standardisation for Indirect Treatment Comparison
with Limited Subject-Level Data
Description: For the problem of indirect treatment comparison with limited subject-level data, this
package provides tools for model-based standardisation with several different computation approaches.
See Remiro‐Azócar A, Heath A, Baio G (2022) ``Parametric G‐computation for compatible
indirect treatment comparisons with limited individual patient data'',
Res. Synth. Methods, 1–31. ISSN 1759-2879, <doi:10.1002/jrsm.1565>.
Author: Nathan Green [aut, cre, cph] ,
Chengyang Gao [aut],
Antonio Remiro-Azocar [aut]
Maintainer: Nathan Green <n.green@ucl.ac.uk>
Diff between outstandR versions 1.0.0 dated 2026-01-21 and 2.0.0 dated 2026-06-10
DESCRIPTION | 17 - MD5 | 105 +++---- NAMESPACE | 12 NEWS.md | 164 ++++++++++- R/calc_ALD_stats.R | 2 R/calc_IPD_stats.R | 14 R/calc_stc.R | 37 +- R/check_formula.R | 88 ++++-- R/estimate_var_sandwich.R | 12 R/gcomp_bayes.R | 170 +++-------- R/gcomp_ml.R | 239 +++++++++------- R/get_var_method.R | 9 R/maic.R | 344 ++++++++++++++++++------ R/mim.R | 81 +++-- R/outstandR.R | 51 +++ R/parse_formula.R | 2 R/prep_data.R | 10 R/print-strategies.R | 15 - R/result_stats.R | 2 R/simulate_ALD_pseudo_pop.R |only R/strategy_.R | 180 ++++++++++-- R/validate_outstandr.R | 1 README.md | 81 +++-- build/partial.rdb |binary man/AC_IPD_binY_contX.Rd | 68 ++-- man/AC_IPD_contY_mixedX.Rd | 70 ++-- man/BC_ALD_binY_contX.Rd | 60 ++-- man/BC_ALD_contY_mixedX.Rd | 62 ++-- man/IPD_stat_factory.Rd | 36 +- man/calc_ALD_stats.Rd | 2 man/calc_IPD_stats.Rd | 8 man/calc_gcomp_bayes.Rd | 23 - man/calc_gcomp_ml.Rd | 6 man/calc_mim.Rd | 8 man/check_balance_formula.Rd |only man/check_formula.Rd | 6 man/check_formula_base.Rd |only man/figures |only man/gcomp_ml.boot.Rd | 9 man/gcomp_ml_means.Rd | 7 man/maic.boot.Rd | 112 ++++--- man/maic_weights.Rd | 46 +-- man/outstandR-package.Rd | 5 man/outstandR.Rd | 3 man/prep_ipd.Rd | 3 man/result_stats.Rd | 2 man/simulate_ALD_pseudo_pop.Rd | 85 +++++ man/strategy.Rd | 35 ++ tests/testthat/test-IPD_stats.R | 18 - tests/testthat/test-auto_marginals.R | 4 tests/testthat/test-copula_userdefined_distns.R | 9 tests/testthat/test-gcomp.R | 76 +++-- tests/testthat/test-maic_moments.R |only tests/testthat/test-maicstc.R | 116 +++++--- tests/testthat/test-mim.R | 33 +- tests/testthat/test-sandwich_estimator.R | 26 + 56 files changed, 1719 insertions(+), 855 deletions(-)
More information about CircularRegression at CRAN
Permanent link
Title: Factor Model Estimation with Latent Variables
Description: A flexible framework for estimating factor models with multiple
latent variables. Supports linear, probit, ordered probit, and multinomial
logit model components. Features include multi-stage estimation, automatic
parameter initialization, analytical gradients and Hessians, and parallel
estimation. Methods are described in Heckman, Humphries, and Veramendi
(2016) <doi:10.1016/j.jeconom.2015.12.001>, Heckman, Humphries, and
Veramendi (2018) <doi:10.1086/698760>, and Humphries, Joensen, and
Veramendi (2024) <doi:10.1257/pandp.20241026>.
Author: Greg Veramendi [aut, cre],
Jess Xiong [aut]
Maintainer: Greg Veramendi <greg.veramendi@gmail.com>
Diff between factorana versions 1.3.4 dated 2026-05-12 and 1.7.1 dated 2026-06-10
DESCRIPTION | 8 MD5 | 156 +++ NAMESPACE | 11 NEWS.md | 167 ++++ R/RcppExports.R | 18 R/bootstrap_factorana.R |only R/define_factor_model.R | 72 + R/define_model_component.R | 92 ++ R/define_model_system.R | 5 R/fix_factor_param.R | 16 R/initialize_parameters.R | 176 +--- R/optimize_model.R | 56 + R/simulate_factor_model.R |only R/vcov_factorana.R |only inst/doc/dynamic_structural.R | 36 inst/doc/dynamic_structural.Rmd | 76 + inst/doc/dynamic_structural.html | 76 + inst/doc/measurement_system.R | 26 inst/doc/measurement_system.Rmd | 70 + inst/doc/measurement_system.html | 148 +++ inst/doc/roy_model.R | 11 inst/doc/roy_model.Rmd | 22 inst/doc/roy_model.html | 94 +- man/bootstrap_factorana.Rd |only man/bootstrap_factorana_multistage.Rd |only man/bootstrap_fit_sample.Rd |only man/collect_bootstrap.Rd |only man/define_factor_model.Rd | 16 man/define_model_component.Rd | 38 man/estimate_model_rcpp.Rd | 6 man/evaluate_obs_scores_cpp.Rd |only man/generate_bootstrap_samples.Rd |only man/robust_se.Rd |only man/simulate_factor_model.Rd |only man/vcov_factorana.Rd |only src/FactorModel.cpp | 393 +++++++--- src/FactorModel.h | 65 + src/RcppExports.cpp | 13 src/rcpp_interface.cpp | 132 ++- tests/testthat/test-bootstrap.R |only tests/testthat/test-component-ergonomics.R |only tests/testthat/test-mlogit-category-coding.R |only tests/testthat/test-oprobit-category-coding.R |only tests/testthat/test-se-interactions.R |only tests/testthat/test-simulate-factor-model.R |only tests/testthat/test-vcov-robust.R |only tests/testthat/test_logs/test_A_measurement_system_20260529_092814.txt |only tests/testthat/test_logs/test_A_measurement_system_20260529_152148.txt |only tests/testthat/test_logs/test_A_measurement_system_20260531_153721.txt |only tests/testthat/test_logs/test_A_measurement_system_20260605_080051.txt |only tests/testthat/test_logs/test_A_measurement_system_20260605_085754.txt |only tests/testthat/test_logs/test_A_measurement_system_20260605_100223.txt |only tests/testthat/test_logs/test_A_measurement_system_20260606_141035.txt |only tests/testthat/test_logs/test_A_measurement_system_20260608_071404.txt |only tests/testthat/test_logs/test_A_measurement_system_20260610_081254.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260529_092815.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260529_152149.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260531_153723.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260605_080051.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260605_085755.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260605_100224.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260606_141036.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260608_071405.txt |only tests/testthat/test_logs/test_B_measurement_plus_probit_20260610_081255.txt |only 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tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260605_080054.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260605_085757.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260605_100226.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260606_141038.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260608_071408.txt |only tests/testthat/test_logs/test_D_measurement_plus_mlogit_20260610_081257.txt |only tests/testthat/test_logs/test_E_roy_model_20260529_092823.txt |only tests/testthat/test_logs/test_E_roy_model_20260529_152158.txt |only tests/testthat/test_logs/test_E_roy_model_20260531_153735.txt |only tests/testthat/test_logs/test_E_roy_model_20260605_080100.txt |only tests/testthat/test_logs/test_E_roy_model_20260605_085803.txt |only tests/testthat/test_logs/test_E_roy_model_20260605_100232.txt |only tests/testthat/test_logs/test_E_roy_model_20260606_141044.txt |only tests/testthat/test_logs/test_E_roy_model_20260608_071414.txt |only tests/testthat/test_logs/test_E_roy_model_20260610_081303.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260529_092825.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260529_152200.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260531_153739.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260605_080102.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260605_085806.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260605_100234.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260606_141047.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260608_071416.txt |only tests/testthat/test_logs/test_F_exploded_logit_20260610_081306.txt |only tests/testthat/test_logs/test_G_se_linear_20260529_092948.txt |only tests/testthat/test_logs/test_G_se_linear_20260529_152324.txt |only tests/testthat/test_logs/test_G_se_linear_20260531_153939.txt |only tests/testthat/test_logs/test_G_se_linear_20260605_080226.txt |only tests/testthat/test_logs/test_G_se_linear_20260605_085928.txt |only tests/testthat/test_logs/test_G_se_linear_20260605_100358.txt |only tests/testthat/test_logs/test_G_se_linear_20260606_141210.txt |only tests/testthat/test_logs/test_G_se_linear_20260608_071539.txt |only tests/testthat/test_logs/test_G_se_linear_20260610_081431.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260529_093129.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260529_152504.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260531_154205.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260605_080410.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260605_090108.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260605_100540.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260606_141350.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260608_071720.txt |only tests/testthat/test_logs/test_H_se_quadratic_20260610_081615.txt |only tests/testthat/test_logs/test_parallelization_roy_20260529_085705.txt |only tests/testthat/test_logs/test_parallelization_roy_20260531_145249.txt |only tests/testthat/test_logs/test_parallelization_roy_20260605_072924.txt |only tests/testthat/test_logs/test_parallelization_roy_20260605_093125.txt |only tests/testthat/test_logs/test_parallelization_roy_20260606_133933.txt |only tests/testthat/test_logs/test_parallelization_roy_20260608_063824.txt |only tests/testthat/test_logs/test_parallelization_roy_20260610_073853.txt |only vignettes/dynamic_structural.Rmd | 76 + vignettes/measurement_system.Rmd | 70 + vignettes/roy_model.Rmd | 22 128 files changed, 1779 insertions(+), 388 deletions(-)
More information about clusterindices at CRAN
Permanent link
Title: Neutrosophic Analysis Crossover Designs
Description: Provides methods for Neutrosophic Analysis of Variance
(NANOVA) for crossover designs and multi-session designs with
direct and residual effects using interval-valued observations.
The package computes neutrosophic sums of squares, mean squares,
interval-valued F-statistics, significance tests, and multiple
comparisons using Least Significant Difference (LSD) procedures.
For crisp data, users may enter identical lower and upper response
values to obtain classical Analysis of Variance (ANOVA) results.
The basic idea of neutrosophic statistics is obtained from
Smarandache (2014) <https://fs.unm.edu/NeutrosophicStatistics.pdf>,
while the analysis procedures implemented in this package are newly developed.
Author: Boyina Devi Priyanka [aut, ctb],
Neethu R.S [aut, ctb],
Cini Varghese [aut, ctb],
Mohd Harun [aut, ctb],
Anindita Datta [aut, ctb],
Vinaykumar L.N. [aut, cre]
Maintainer: Vinaykumar L.N. <vinaymandya123@gmail.com>
Diff between NeutroCODsAnalysis versions 0.0.1 dated 2026-06-09 and 0.1.0 dated 2026-06-10
DESCRIPTION | 18 +++++++++--------- MD5 | 2 +- 2 files changed, 10 insertions(+), 10 deletions(-)
More information about NeutroCODsAnalysis at CRAN
Permanent link
Title: Goldilocks Adaptive Trial Designs for Time-to-Event Endpoints
Description: Implements the Goldilocks adaptive trial design for a time to event
outcome using a piecewise exponential model and conjugate Gamma prior
distributions. The method closely follows the article by Broglio and
colleagues <doi:10.1080/10543406.2014.888569>, which allows users to explore
the operating characteristics of different trial designs.
Author: Graeme L. Hickey [aut, cre] ,
Ying Wan [aut],
Thevaa Chandereng [aut] ,
Becton, Dickinson and Company [cph],
Tim Kacprowski [ctb]
Maintainer: Graeme L. Hickey <graemeleehickey@gmail.com>
Diff between goldilocks versions 0.4.0 dated 2025-01-08 and 0.5.0 dated 2026-06-10
DESCRIPTION | 24 ++- MD5 | 78 +++++++---- NAMESPACE | 2 NEWS.md | 52 +++++++ R/analyse_data.R | 37 ++++- R/enrollment.R | 2 R/impute_data.R | 3 R/posterior.R | 62 +++++++-- R/randomization.R | 2 R/sim_comp_data.R | 7 - R/summarise_sims.R | 4 R/survival_adapt.R | 103 +++++++++++---- R/test_final.R | 9 + README.md | 17 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/architecture.R |only inst/doc/architecture.Rmd |only inst/doc/architecture.html |only inst/doc/bayes-piecewise.R |only inst/doc/bayes-piecewise.Rmd |only inst/doc/bayes-piecewise.html |only inst/doc/broglio.R | 21 ++- inst/doc/broglio.Rmd | 43 +++++- inst/doc/broglio.html | 234 +++++++++++++++++++++++++++------- inst/doc/single-arm.R |only inst/doc/single-arm.Rmd |only inst/doc/single-arm.html |only man/goldilocks-package.Rd | 2 man/sim_comp_data.Rd | 7 - man/sim_trials.Rd | 31 +++- man/survival_adapt.Rd | 77 ++++++++--- src/logrank_r.cpp | 17 -- tests/testthat/test-analyse_data.R |only tests/testthat/test-enrollment.R |only tests/testthat/test-posterior.R |only tests/testthat/test-prop_to_haz.R |only tests/testthat/test-pwe.R |only tests/testthat/test-randomization.R |only tests/testthat/test-sim_comp_data.R |only tests/testthat/test-summarise_sims.R |only tests/testthat/test-survival_adapt.R | 236 ++++++++++++++++++++++++++++++++++- vignettes/architecture.Rmd |only vignettes/bayes-piecewise.Rmd |only vignettes/bayes-piecewise_cache |only vignettes/broglio.Rmd | 43 +++++- vignettes/single-arm.Rmd |only vignettes/single-arm_cache |only 48 files changed, 908 insertions(+), 205 deletions(-)
Title: Ab Initio Uncertainty Quantification
Description: Uncertainty quantification and inverse estimation by probabilistic generative models from the beginning of the data analysis. An example is a Fourier basis method for inverse estimation in scattering analysis of microscopy videos. It does not require specifying a certain range of Fourier bases and it substantially reduces computational cost via the generalized Schur algorithm. See the reference: Mengyang Gu, Yue He, Xubo Liu and Yimin Luo (2023), <doi:10.48550/arXiv.2309.02468>, and Tong Lin, Jinseok Lee, Matt Helgeson, Megan T Valentine, Yimin Luo, Mengyang Gu (2026), <doi:10.48550/arXiv.2605.29424>.
Author: Yue He [aut],
Xubo Liu [aut],
Tong Lin [aut],
Mengyang Gu [aut, cre]
Maintainer: Mengyang Gu <mengyang@pstat.ucsb.edu>
Diff between AIUQ versions 0.5.4 dated 2026-05-25 and 0.5.5 dated 2026-06-10
AIUQ-0.5.4/AIUQ/inst/extdata |only AIUQ-0.5.5/AIUQ/CHANGELOG | 4 + AIUQ-0.5.5/AIUQ/DESCRIPTION | 10 ++-- AIUQ-0.5.5/AIUQ/MD5 | 25 +++++------- AIUQ-0.5.5/AIUQ/R/SAM_model_free_workflow.R | 2 AIUQ-0.5.5/AIUQ/R/functions_model_free.R | 2 AIUQ-0.5.5/AIUQ/build/partial.rdb |binary AIUQ-0.5.5/AIUQ/build/vignette.rds |binary AIUQ-0.5.5/AIUQ/inst/doc/AIUQ.R | 58 ++++++++++++---------------- AIUQ-0.5.5/AIUQ/inst/doc/AIUQ.Rmd | 14 +----- AIUQ-0.5.5/AIUQ/inst/doc/AIUQ.html | 50 ++++++++++-------------- AIUQ-0.5.5/AIUQ/man/SAM.Rd | 2 AIUQ-0.5.5/AIUQ/man/l2_fixedAB.Rd | 5 +- AIUQ-0.5.5/AIUQ/vignettes/AIUQ.Rmd | 14 +----- 14 files changed, 83 insertions(+), 103 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-05-04 0.1.2
2026-03-26 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-10 0.8.2
2025-03-10 0.8.0
2024-11-27 0.7.12
2024-08-16 0.7.10
2024-07-04 0.7.9
2024-03-13 0.7.8
2024-01-30 0.7.4
2023-12-04 0.7.3
2023-10-26 0.7.0
2023-08-22 0.6.9
2023-07-02 0.6.7
2023-06-07 0.6.6
2023-05-30 0.6.4
2023-05-15 0.6.2
2023-04-16 0.6.1
2022-12-05 0.4.4
2022-10-23 0.4.0
2022-09-10 0.3.0
2022-07-07 0.2.3
Title: Spatial Statistical Modeling and Prediction
Description: Fit, summarize, and predict for a variety of spatial statistical models applied to point-referenced and areal (lattice) data. Parameters are estimated using various methods. Additional modeling features include anisotropy, non-spatial random effects, partition factors, big data approaches, and more. Model-fit statistics are used to summarize, visualize, and compare models. Predictions at unobserved locations are readily obtainable. For additional details, see Dumelle et al. (2023) <doi:10.1371/journal.pone.0282524>.
Author: Michael Dumelle [aut, cre] ,
Matt Higham [aut] ,
Ryan A. Hill [ctb] ,
Michael Mahon [ctb] ,
Jay M. Ver Hoef [aut]
Maintainer: Michael Dumelle <Dumelle.Michael@epa.gov>
Diff between spmodel versions 0.12.0 dated 2026-01-24 and 0.13.0 dated 2026-06-10
DESCRIPTION | 6 MD5 | 44 NEWS.md | 20 R/cov_initial_search.R | 2282 ++++++++++++++++++------------------- R/covmatrix.R | 20 R/get_model_stats.R | 5 R/get_optim_dotlist.R | 3 R/laploglik_products.R | 1057 ++++++++--------- R/loocv.R | 21 R/predict.R | 35 R/predict_glm.R | 23 R/spcov_matrix.R | 426 +++--- R/spcov_vector.R | 308 ++-- R/sprnorm.R | 726 +++++------ R/tidy.R | 4 R/tidy_glm.R | 4 R/transform_anis.R | 60 inst/doc/introduction.html | 155 +- tests/testthat/test-extras-spglm.R | 278 ++-- tests/testthat/test-extras-splm.R | 16 tests/testthat/test-extras.R | 4 tests/testthat/test-spglm.R | 4 tests/testthat/test-splm.R | 4 23 files changed, 2827 insertions(+), 2678 deletions(-)
Title: Easily Create Production-Ready Rich Text Format (RTF) Tables and
Figures
Description: Create production-ready Rich Text Format (RTF) tables and figures
with flexible format.
Author: Yilong Zhang [aut],
Siruo Wang [aut],
Simiao Ye [aut],
Fansen Kong [aut],
Brian Lang [aut],
Benjamin Wang [aut],
Nan Xiao [ctb],
Madhusudhan Ginnaram [ctb],
Ruchitbhai Patel [aut, cre],
Huei-Ling Chen [ctb],
Peikun Wu [ctb],
Uday Preetham Palukuru [c [...truncated...]
Maintainer: Ruchitbhai Patel <ruchitbhai.patel@merck.com>
Diff between r2rtf versions 1.3.0 dated 2026-01-09 and 1.3.1 dated 2026-06-10
DESCRIPTION | 16 ++++++++-------- MD5 | 4 ++-- NEWS.md | 6 ++++++ 3 files changed, 16 insertions(+), 10 deletions(-)
Title: High-Level Plotting Built Upon 'ggplot2' and Other Plotting
Packages
Description: Provides high-level API and a wide range of options to create stunning, publication-quality plots effortlessly.
It is built upon 'ggplot2' and other plotting packages, and is designed to be easy to use and to work seamlessly with 'ggplot2' objects.
It is particularly useful for creating complex plots with multiple layers, facets, and annotations.
It also provides a set of functions to create plots for specific types of data, such as Venn diagrams, alluvial diagrams, and phylogenetic trees.
The package is designed to be flexible and customizable, and to work well with the 'ggplot2' ecosystem.
The API can be found at <https://pwwang.github.io/plotthis/reference/index.html>.
Author: Panwen Wang [aut, cre]
Maintainer: Panwen Wang <pwwang@pwwang.com>
Diff between plotthis versions 0.12.0 dated 2026-04-28 and 0.12.1 dated 2026-06-10
plotthis-0.12.0/plotthis/man/gggrob.Rd |only plotthis-0.12.0/plotthis/tests/testthat/Rplots.pdf |only plotthis-0.12.1/plotthis/DESCRIPTION | 6 plotthis-0.12.1/plotthis/MD5 | 236 - plotthis-0.12.1/plotthis/R/areaplot.R | 8 plotthis-0.12.1/plotthis/R/barplot.R | 30 plotthis-0.12.1/plotthis/R/boxviolinplot.R | 62 plotthis-0.12.1/plotthis/R/chordplot.R | 8 plotthis-0.12.1/plotthis/R/clustreeplot.R | 14 plotthis-0.12.1/plotthis/R/common_args.R | 1 plotthis-0.12.1/plotthis/R/corplot.R | 18 plotthis-0.12.1/plotthis/R/densityplot.R | 22 plotthis-0.12.1/plotthis/R/dimplot.R | 30 plotthis-0.12.1/plotthis/R/dotplot.R | 30 plotthis-0.12.1/plotthis/R/enrich.R | 16 plotthis-0.12.1/plotthis/R/gsea.R | 4 plotthis-0.12.1/plotthis/R/heatmap-utils.R |only plotthis-0.12.1/plotthis/R/heatmap.R | 1541 ++--------- plotthis-0.12.1/plotthis/R/jitterplot.R | 8 plotthis-0.12.1/plotthis/R/lineplot.R | 18 plotthis-0.12.1/plotthis/R/manhattanplot.R | 1 plotthis-0.12.1/plotthis/R/network.R | 22 plotthis-0.12.1/plotthis/R/piechart.R | 8 plotthis-0.12.1/plotthis/R/qqplot.R | 8 plotthis-0.12.1/plotthis/R/radarplot.R | 12 plotthis-0.12.1/plotthis/R/rarefractionplot.R | 10 plotthis-0.12.1/plotthis/R/ringplot.R | 8 plotthis-0.12.1/plotthis/R/roccurve.R | 8 plotthis-0.12.1/plotthis/R/sankeyplot.R | 16 plotthis-0.12.1/plotthis/R/scatterplot.R | 19 plotthis-0.12.1/plotthis/R/spatialplot.R | 47 plotthis-0.12.1/plotthis/R/theming.R | 11 plotthis-0.12.1/plotthis/R/trendplot.R | 8 plotthis-0.12.1/plotthis/R/upsetplot.R | 8 plotthis-0.12.1/plotthis/R/utils.R | 3 plotthis-0.12.1/plotthis/R/velocityplot.R | 14 plotthis-0.12.1/plotthis/R/venndiagram.R | 10 plotthis-0.12.1/plotthis/R/volcanoplot.R | 10 plotthis-0.12.1/plotthis/R/wordcloudplot.R | 5 plotthis-0.12.1/plotthis/man/AreaPlot.Rd | 3 plotthis-0.12.1/plotthis/man/AreaPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/BarPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/BarPlotGrouped.Rd | 3 plotthis-0.12.1/plotthis/man/BarPlotSingle.Rd | 3 plotthis-0.12.1/plotthis/man/BoxViolinPlot-internal.Rd | 7 plotthis-0.12.1/plotthis/man/BoxViolinPlotAtomic.Rd | 7 plotthis-0.12.1/plotthis/man/ChordPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/ClustreePlot.Rd | 3 plotthis-0.12.1/plotthis/man/ClustreePlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/CorPairsPlot.Rd | 3 plotthis-0.12.1/plotthis/man/CorPairsPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/CorPlot.Rd | 5 plotthis-0.12.1/plotthis/man/CorPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/DensityHistoPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/DimPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/DimPlotAtomic3D.Rd | 1 plotthis-0.12.1/plotthis/man/DotPlotAtomic.Rd | 14 plotthis-0.12.1/plotthis/man/EnrichMapAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/EnrichNetworkAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/Heatmap.Rd | 154 - plotthis-0.12.1/plotthis/man/HeatmapAtomic.Rd | 77 plotthis-0.12.1/plotthis/man/JitterPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/LinePlot.Rd | 3 plotthis-0.12.1/plotthis/man/LinePlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/LinePlotGrouped.Rd | 3 plotthis-0.12.1/plotthis/man/LinePlotSingle.Rd | 3 plotthis-0.12.1/plotthis/man/ManhattanPlot.Rd | 2 plotthis-0.12.1/plotthis/man/ManhattanPlotAtomic.Rd | 2 plotthis-0.12.1/plotthis/man/Network.Rd | 3 plotthis-0.12.1/plotthis/man/NetworkAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/PieChart.Rd | 3 plotthis-0.12.1/plotthis/man/PieChartAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/QQPlot.Rd | 3 plotthis-0.12.1/plotthis/man/QQPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/ROCCurve.Rd | 3 plotthis-0.12.1/plotthis/man/ROCCurveAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/RadarPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/RarefactionPlot.Rd | 3 plotthis-0.12.1/plotthis/man/RarefactionPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/RidgePlot.Rd | 3 plotthis-0.12.1/plotthis/man/RidgePlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/RingPlot.Rd | 3 plotthis-0.12.1/plotthis/man/RingPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/SankeyPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/ScatterPlot.Rd | 4 plotthis-0.12.1/plotthis/man/ScatterPlotAtomic.Rd | 4 plotthis-0.12.1/plotthis/man/SplitBarPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/TrendPlot.Rd | 3 plotthis-0.12.1/plotthis/man/TrendPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/UpsetPlot.Rd | 3 plotthis-0.12.1/plotthis/man/UpsetPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/VelocityPlot.Rd | 3 plotthis-0.12.1/plotthis/man/VennDiagram.Rd | 3 plotthis-0.12.1/plotthis/man/VennDiagramAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/VolcanoPlot.Rd | 3 plotthis-0.12.1/plotthis/man/VolcanoPlotAtomic.Rd | 3 plotthis-0.12.1/plotthis/man/WordCloudPlot.Rd | 2 plotthis-0.12.1/plotthis/man/WordCloudPlotAtomic.Rd | 2 plotthis-0.12.1/plotthis/man/barplot.Rd | 5 plotthis-0.12.1/plotthis/man/boxviolinplot.Rd | 13 plotthis-0.12.1/plotthis/man/chordplot.Rd | 4 plotthis-0.12.1/plotthis/man/common_args.Rd | 2 plotthis-0.12.1/plotthis/man/densityhistoplot.Rd | 6 plotthis-0.12.1/plotthis/man/dimplot.Rd | 4 plotthis-0.12.1/plotthis/man/dot-anno_ggcat.Rd | 5 plotthis-0.12.1/plotthis/man/dot-check_annotation.Rd |only plotthis-0.12.1/plotthis/man/dot-gggrob.Rd |only plotthis-0.12.1/plotthis/man/dot-reorder_anno_side.Rd |only plotthis-0.12.1/plotthis/man/dot-resolve_anno_aliases.Rd |only plotthis-0.12.1/plotthis/man/dot-setup_annos.Rd |only plotthis-0.12.1/plotthis/man/dotplot.Rd | 18 plotthis-0.12.1/plotthis/man/enrichmap1.Rd | 4 plotthis-0.12.1/plotthis/man/gsea.Rd | 3 plotthis-0.12.1/plotthis/man/heatmap-anno.Rd | 50 plotthis-0.12.1/plotthis/man/heatmap-layer.Rd | 2 plotthis-0.12.1/plotthis/man/jitterplot.Rd | 3 plotthis-0.12.1/plotthis/man/join_heatmap_meta.Rd | 2 plotthis-0.12.1/plotthis/man/process_heatmap_data.Rd | 2 plotthis-0.12.1/plotthis/man/radarplot.Rd | 4 plotthis-0.12.1/plotthis/man/sankeyplot.Rd | 4 plotthis-0.12.1/plotthis/man/spatialplots.Rd | 16 plotthis-0.12.1/plotthis/tests/testthat/test-dotplot.R | 22 plotthis-0.12.1/plotthis/tests/testthat/test-manhattanplot.R | 2 123 files changed, 1177 insertions(+), 1693 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis (Balduzzi et al., 2023) <doi:10.18637/jss.v106.i02> and supporting Schwarzer et al. (2015) <doi:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <doi:10.1002/jrsm.1058>;
- additive network meta-analysis for combinations of treatments (Rücker et al., 2020) <doi:10.1002/bimj.201800167>;
- network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) <doi:10.1002/sim.8158>, or penalised logistic regression (Evrenoglou et al., 2022) <doi:10.1002/sim.9562>;
- rankograms and ranking of treatments by the Surface under the cumulative ranking curve (SUCRA) (Salanti et al., 2013) <doi:10.1016/j.jclinepi.2010.03.016>;
- ranking of treatments using P-scores (frequentist analogue of SUCRAs without resampling) according to [...truncated...]
Author: Gerta Ruecker [aut] ,
Ulrike Krahn [aut],
Jochem Koenig [aut] ,
Orestis Efthimiou [aut] ,
Annabel Davies [aut] ,
Theodoros Papakonstantinou [aut] ,
Theodoros Evrenoglou [ctb] ,
Krzysztof Ciomek [ctb] ,
Nana-adjoa Kwarteng [ctb] ,
Guido Schwarzer [aut, [...truncated...]
Maintainer: Guido Schwarzer <guido.schwarzer@uniklinik-freiburg.de>
Diff between netmeta versions 3.5-0 dated 2026-05-28 and 3.6-0 dated 2026-06-10
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 27 +++++++++++++++++++++++++++ R/crossnma2netmeta.R | 6 +++--- R/netgraph.netmeta.R | 18 +++++++++--------- R/netmeta.R | 14 +++++++++++++- R/nma.ruecker.R | 32 +++++++++++++++++++------------- R/print.netimpact.R | 15 +++++++++++++-- R/textmeth.R | 8 ++++++++ inst/doc/netmeta-workflow.pdf |binary inst/doc/netmeta.pdf |binary man/netmeta.Rd | 7 +++++++ man/print.netimpact.Rd | 3 +++ 13 files changed, 118 insertions(+), 44 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions used in
'mlr3' and its companion packages. Comes with helper functions for
functional programming, for printing, to work with 'data.table', as
well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Marc Becker [cre, aut] ,
Michel Lang [aut] ,
Patrick Schratz [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3misc versions 0.21.0 dated 2026-02-26 and 0.22.0 dated 2026-06-10
mlr3misc-0.21.0/mlr3misc/tests/testthat/test_set_pars.R |only mlr3misc-0.22.0/mlr3misc/DESCRIPTION | 8 mlr3misc-0.22.0/mlr3misc/MD5 | 153 ++-- mlr3misc-0.22.0/mlr3misc/NEWS.md | 11 mlr3misc-0.22.0/mlr3misc/R/Callback.R | 30 mlr3misc-0.22.0/mlr3misc/R/Context.R | 11 mlr3misc-0.22.0/mlr3misc/R/Dictionary.R | 18 mlr3misc-0.22.0/mlr3misc/R/as_short_string.R | 5 mlr3misc-0.22.0/mlr3misc/R/calculate_hash.R | 1 mlr3misc-0.22.0/mlr3misc/R/check_operators.R | 10 mlr3misc-0.22.0/mlr3misc/R/check_packages_installed.R | 12 mlr3misc-0.22.0/mlr3misc/R/chunk.R | 1 mlr3misc-0.22.0/mlr3misc/R/crate.R | 13 mlr3misc-0.22.0/mlr3misc/R/dictionary_sugar.R | 24 mlr3misc-0.22.0/mlr3misc/R/did_you_mean.R | 4 mlr3misc-0.22.0/mlr3misc/R/encapsulate.R | 122 ++- mlr3misc-0.22.0/mlr3misc/R/formulate.R | 4 mlr3misc-0.22.0/mlr3misc/R/get_seed.R | 2 mlr3misc-0.22.0/mlr3misc/R/has_element.R | 2 mlr3misc-0.22.0/mlr3misc/R/insert_named.R | 14 mlr3misc-0.22.0/mlr3misc/R/leanify.R | 14 mlr3misc-0.22.0/mlr3misc/R/load_dataset.R | 1 mlr3misc-0.22.0/mlr3misc/R/named_list.R | 2 mlr3misc-0.22.0/mlr3misc/R/purrr_map.R | 26 mlr3misc-0.22.0/mlr3misc/R/rcbind.R | 9 mlr3misc-0.22.0/mlr3misc/R/rd_info.R | 34 mlr3misc-0.22.0/mlr3misc/R/register_namespace_callback.R | 18 mlr3misc-0.22.0/mlr3misc/R/remove_named.R | 8 mlr3misc-0.22.0/mlr3misc/R/require_namespaces.R | 5 mlr3misc-0.22.0/mlr3misc/R/rowwise_table.R | 1 mlr3misc-0.22.0/mlr3misc/R/set_class.R | 2 mlr3misc-0.22.0/mlr3misc/R/set_params.R | 2 mlr3misc-0.22.0/mlr3misc/R/strip_srcrefs.R | 4 mlr3misc-0.22.0/mlr3misc/R/to_decimal.R | 2 mlr3misc-0.22.0/mlr3misc/R/topo_sort.R | 9 mlr3misc-0.22.0/mlr3misc/R/unnest.R | 29 mlr3misc-0.22.0/mlr3misc/R/warn_deprecated.R | 3 mlr3misc-0.22.0/mlr3misc/man/Callback.Rd | 195 ++--- mlr3misc-0.22.0/mlr3misc/man/Context.Rd | 123 +-- mlr3misc-0.22.0/mlr3misc/man/Dictionary.Rd | 376 +++++----- mlr3misc-0.22.0/mlr3misc/man/catn.Rd | 4 mlr3misc-0.22.0/mlr3misc/man/check_operators.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/compat-map.Rd | 4 mlr3misc-0.22.0/mlr3misc/man/cross_join.Rd | 6 mlr3misc-0.22.0/mlr3misc/man/encapsulate.Rd | 8 mlr3misc-0.22.0/mlr3misc/man/get_seed.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/leanify_r6.Rd | 4 mlr3misc-0.22.0/mlr3misc/man/map_values.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/mlr3misc-package.Rd | 1 mlr3misc-0.22.0/mlr3misc/man/mlr_callbacks.Rd | 5 mlr3misc-0.22.0/mlr3misc/man/register_namespace_callback.Rd | 4 mlr3misc-0.22.0/mlr3misc/man/require_namespaces.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/rowwise_table.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/sequence_helpers.Rd | 4 mlr3misc-0.22.0/mlr3misc/man/set_class.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/shuffle.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/strip_srcrefs.Rd | 4 mlr3misc-0.22.0/mlr3misc/man/to_decimal.Rd | 2 mlr3misc-0.22.0/mlr3misc/man/which_min.Rd | 2 mlr3misc-0.22.0/mlr3misc/src/keep_in_bounds.c | 15 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_Callback.R | 21 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_Context.R | 4 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_Dictionary.R | 42 - mlr3misc-0.22.0/mlr3misc/tests/testthat/test_as_short_string.R | 10 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_check_packages_installed.R | 6 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_chunk.R | 40 - mlr3misc-0.22.0/mlr3misc/tests/testthat/test_crate.R | 10 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_distinct_values.R | 1 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_encapsulate.R | 27 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_formulate.R | 4 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_get_private.R | 6 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_has_element.R | 3 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_leanify.R | 21 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_reorder_vector.R | 1 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_require_namespaces.R | 15 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_topo_sort.R | 72 + mlr3misc-0.22.0/mlr3misc/tests/testthat/test_warn_deprecated.R | 4 mlr3misc-0.22.0/mlr3misc/tests/testthat/test_with_package.R | 10 78 files changed, 979 insertions(+), 703 deletions(-)
Title: Machine Learning in R - Next Generation
Description: Efficient, object-oriented programming on the
building blocks of machine learning. Provides 'R6' objects for tasks,
learners, resamplings, and measures. The package is geared towards
scalability and larger datasets by supporting parallelization and
out-of-memory data-backends like databases. While 'mlr3' focuses on
the core computational operations, add-on packages provide additional
functionality.
Author: Michel Lang [aut] ,
Bernd Bischl [aut] ,
Jakob Richter [aut] ,
Patrick Schratz [aut] ,
Giuseppe Casalicchio [ctb] ,
Stefan Coors [ctb] ,
Quay Au [ctb] ,
Martin Binder [aut],
Florian Pfisterer [aut] ,
Raphael Sonabend [aut] ,
Lennart Schneider [ctb] , [...truncated...]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3 versions 1.6.0 dated 2026-04-02 and 1.7.0 dated 2026-06-10
DESCRIPTION | 14 MD5 | 357 ++++----- NEWS.md | 24 R/Learner.R | 33 R/LearnerClassif.R | 7 R/LearnerClassifDebug.R | 4 R/LearnerClassifRpart.R | 8 R/LearnerRegr.R | 6 R/LearnerRegrDebug.R | 4 R/LearnerRegrFeatureless.R | 4 R/LearnerRegrRpart.R | 6 R/Measure.R | 17 R/MeasureAIC.R | 4 R/MeasureClassifCosts.R | 4 R/MeasureElapsedTime.R | 5 R/MeasureRegrPinball.R | 7 R/MeasureRegrRQR.R | 15 R/MeasureRegrRSQ.R | 14 R/MeasureSimilarity.R | 2 R/MeasureSimple.R | 13 R/PredictionDataClassif.R | 2 R/PredictionDataRegr.R | 4 R/ResampleResult.R | 4 R/ResamplingCustom.R | 1 R/ResamplingCustomCV.R | 3 R/Task.R | 85 -- R/TaskClassif.R | 45 - R/TaskClassif_german_credit.R | 2 R/TaskGeneratorPeak.R | 4 R/TaskRegr_mtcars.R | 2 R/TaskUnsupervised.R | 2 R/as_measure.R | 2 R/as_task_classif.R | 2 R/as_task_regr.R | 2 R/as_task_unsupervised.R | 4 R/helper.R | 7 R/mlr_reflections.R | 5 R/worker.R | 13 build/partial.rdb |binary man/BenchmarkResult.Rd | 679 +++++++++--------- man/CallbackResample.Rd | 64 - man/ContextResample.Rd | 105 +- man/DataBackend.Rd | 109 +- man/DataBackendDataTable.Rd | 233 +++--- man/HotstartStack.Rd | 210 ++--- man/Learner.Rd | 592 ++++++++-------- man/LearnerClassif.Rd | 165 ++-- man/LearnerRegr.Rd | 179 ++-- man/Measure.Rd | 386 +++++----- man/MeasureClassif.Rd | 126 +-- man/MeasureRegr.Rd | 126 +-- man/MeasureSimilarity.Rd | 136 +-- man/Prediction.Rd | 255 +++--- man/PredictionClassif.Rd | 167 ++-- man/PredictionRegr.Rd | 136 +-- man/ResampleResult.Rd | 643 ++++++++--------- man/Resampling.Rd | 334 ++++----- man/ResultData.Rd | 802 ++++++++++----------- man/Task.Rd | 1068 ++++++++++++++--------------- man/TaskClassif.Rd | 233 +++--- man/TaskGenerator.Rd | 197 ++--- man/TaskRegr.Rd | 163 ++-- man/TaskSupervised.Rd | 162 ++-- man/TaskUnsupervised.Rd | 131 +-- man/as_data_backend.Rd | 2 man/benchmark.Rd | 9 man/benchmark_grid.Rd | 4 man/california_housing.Rd | 2 man/mlr3-package.Rd | 7 man/mlr_learners.Rd | 6 man/mlr_learners_classif.debug.Rd | 198 ++--- man/mlr_learners_classif.featureless.Rd | 122 +-- man/mlr_learners_classif.rpart.Rd | 122 +-- man/mlr_learners_regr.debug.Rd | 122 +-- man/mlr_learners_regr.featureless.Rd | 122 +-- man/mlr_learners_regr.rpart.Rd | 122 +-- man/mlr_measures.Rd | 6 man/mlr_measures_aic.Rd | 74 +- man/mlr_measures_bic.Rd | 74 +- man/mlr_measures_classif.acc.Rd | 4 man/mlr_measures_classif.auc.Rd | 23 man/mlr_measures_classif.bacc.Rd | 4 man/mlr_measures_classif.bbrier.Rd | 4 man/mlr_measures_classif.ce.Rd | 4 man/mlr_measures_classif.costs.Rd | 86 +- man/mlr_measures_classif.dor.Rd | 4 man/mlr_measures_classif.fbeta.Rd | 4 man/mlr_measures_classif.fdr.Rd | 4 man/mlr_measures_classif.fn.Rd | 4 man/mlr_measures_classif.fnr.Rd | 4 man/mlr_measures_classif.fomr.Rd | 4 man/mlr_measures_classif.fp.Rd | 4 man/mlr_measures_classif.fpr.Rd | 4 man/mlr_measures_classif.logloss.Rd | 9 man/mlr_measures_classif.mauc_au1p.Rd | 6 man/mlr_measures_classif.mauc_au1u.Rd | 6 man/mlr_measures_classif.mauc_aunp.Rd | 6 man/mlr_measures_classif.mauc_aunu.Rd | 4 man/mlr_measures_classif.mauc_mu.Rd | 6 man/mlr_measures_classif.mbrier.Rd | 4 man/mlr_measures_classif.mcc.Rd | 19 man/mlr_measures_classif.npv.Rd | 4 man/mlr_measures_classif.ppv.Rd | 4 man/mlr_measures_classif.prauc.Rd | 4 man/mlr_measures_classif.precision.Rd | 6 man/mlr_measures_classif.recall.Rd | 6 man/mlr_measures_classif.sensitivity.Rd | 6 man/mlr_measures_classif.specificity.Rd | 6 man/mlr_measures_classif.tn.Rd | 4 man/mlr_measures_classif.tnr.Rd | 4 man/mlr_measures_classif.tp.Rd | 4 man/mlr_measures_classif.tpr.Rd | 4 man/mlr_measures_debug_classif.Rd | 72 + man/mlr_measures_elapsed_time.Rd | 101 +- man/mlr_measures_internal_valid_score.Rd | 91 +- man/mlr_measures_oob_error.Rd | 72 + man/mlr_measures_regr.bias.Rd | 2 man/mlr_measures_regr.ktau.Rd | 5 man/mlr_measures_regr.mae.Rd | 2 man/mlr_measures_regr.mape.Rd | 2 man/mlr_measures_regr.maxae.Rd | 2 man/mlr_measures_regr.medae.Rd | 2 man/mlr_measures_regr.medse.Rd | 2 man/mlr_measures_regr.mse.Rd | 2 man/mlr_measures_regr.msle.Rd | 2 man/mlr_measures_regr.pbias.Rd | 2 man/mlr_measures_regr.pinball.Rd | 88 +- man/mlr_measures_regr.rmse.Rd | 2 man/mlr_measures_regr.rmsle.Rd | 2 man/mlr_measures_regr.rqr.Rd | 104 +- man/mlr_measures_regr.rsq.Rd | 101 +- man/mlr_measures_regr.sae.Rd | 2 man/mlr_measures_regr.smape.Rd | 4 man/mlr_measures_regr.srho.Rd | 2 man/mlr_measures_regr.sse.Rd | 2 man/mlr_measures_selected_features.Rd | 72 + man/mlr_measures_sim.jaccard.Rd | 2 man/mlr_measures_sim.phi.Rd | 2 man/mlr_reflections.Rd | 5 man/mlr_resamplings.Rd | 6 man/mlr_resamplings_bootstrap.Rd | 82 +- man/mlr_resamplings_custom.Rd | 116 +-- man/mlr_resamplings_custom_cv.Rd | 116 +-- man/mlr_resamplings_cv.Rd | 82 +- man/mlr_resamplings_holdout.Rd | 82 +- man/mlr_resamplings_insample.Rd | 82 +- man/mlr_resamplings_loo.Rd | 82 +- man/mlr_resamplings_repeated_cv.Rd | 154 ++-- man/mlr_resamplings_subsampling.Rd | 82 +- man/mlr_task_generators.Rd | 6 man/mlr_task_generators_2dnormals.Rd | 102 +- man/mlr_task_generators_cassini.Rd | 102 +- man/mlr_task_generators_circle.Rd | 102 +- man/mlr_task_generators_friedman1.Rd | 66 - man/mlr_task_generators_moons.Rd | 102 +- man/mlr_task_generators_peak.Rd | 66 - man/mlr_task_generators_simplex.Rd | 102 +- man/mlr_task_generators_smiley.Rd | 102 +- man/mlr_task_generators_spirals.Rd | 102 +- man/mlr_task_generators_xor.Rd | 102 +- man/mlr_tasks.Rd | 6 man/mlr_tasks_breast_cancer.Rd | 2 man/mlr_tasks_german_credit.Rd | 4 man/mlr_tasks_iris.Rd | 2 man/mlr_tasks_mtcars.Rd | 4 man/mlr_tasks_penguins.Rd | 2 man/mlr_tasks_pima.Rd | 4 man/mlr_tasks_sonar.Rd | 2 man/mlr_tasks_spam.Rd | 2 man/mlr_tasks_wine.Rd | 2 man/mlr_tasks_zoo.Rd | 2 man/reexports.Rd | 4 man/resample.Rd | 7 man/uhash.Rd | 2 tests/testthat/_snaps/Task.md | 2 tests/testthat/test_Learner.R | 159 ++++ tests/testthat/test_MeasureRegrPinball.R | 2 tests/testthat/test_PredictionDataRegr.R | 18 tests/testthat/test_as_task_unsupervised.R |only tests/testthat/test_convert_task.R | 22 180 files changed, 6281 insertions(+), 5951 deletions(-)
Title: Exact Post Selection Inference with Applications to the Lasso
Description: Implements the conditional estimation procedure of
Lee, Sun, Sun and Taylor (2016) <doi:10.1214/15-AOS1371>.
This procedure allows hypothesis testing on the mean of
a normal random vector subject to linear constraints.
Also supports computation of the MLE of the mean subject to the
same constraints.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between epsiwal versions 0.1.0 dated 2019-07-02 and 0.2.0 dated 2026-06-10
ChangeLog | 6 + DESCRIPTION | 19 ++-- MD5 | 43 ++++++--- NAMESPACE | 5 + R/ci_connorm.r | 156 ++++++++++++++++++++++++------------ R/epsiwal.r | 9 +- R/mle_connorm.r |only R/pconnorm.r | 53 ++++++++++-- R/ptruncnorm.r | 31 ++++--- R/utils.r | 134 ++++++++++++++++++++++++++---- README.md | 133 +++++++++++++++++++++++++++--- inst/CITATION | 21 ++-- man/NEWS.Rd | 9 ++ man/ci_connorm.Rd | 15 ++- man/ci_connorm_max.Rd |only man/epsiwal.Rd | 18 +++- man/mle_connorm.Rd |only man/mle_connorm_max.Rd |only man/pconnorm.Rd | 23 +++-- man/pconnorm_max.Rd |only man/ptruncnorm.Rd | 18 ++-- tests/testthat/test-issue-tail.r |only tests/testthat/test-max_functions.r |only tests/testthat/test-mle_connorm.r |only tests/testthat/test-pconnorm.r | 34 +++++++ tests/testthat/test-utils.r |only tools/figure/under_null_pvals-1.png |binary 27 files changed, 572 insertions(+), 155 deletions(-)
Title: Doubly Robust Difference-in-Differences Estimators
Description: Implements the locally efficient doubly robust difference-in-differences (DiD)
estimators for the average treatment effect proposed by Sant'Anna and Zhao (2020)
<doi:10.1016/j.jeconom.2020.06.003>. The estimator combines inverse probability weighting and outcome
regression estimators (also implemented in the package) to form estimators with
more attractive statistical properties. Two different estimation methods can be used
to estimate the nuisance functions.
Author: Pedro H. C. Sant'Anna [aut, cre, cph],
Jun Zhao [aut]
Maintainer: Pedro H. C. Sant'Anna <pedrohcgs@gmail.com>
Diff between DRDID versions 1.2.3 dated 2025-12-04 and 1.3.0 dated 2026-06-10
DESCRIPTION | 8 +- MD5 | 58 ++++++++--------- NEWS.md | 43 ++++++++++++ R/drdid_imp_rc.R | 20 ++--- R/drdid_panel.R | 55 +++++----------- R/drdid_rc.R | 115 ++++++++++++++++------------------ R/drdid_rc1.R | 28 +++----- R/fastglm_fit.R |only R/ipw_did_panel.R | 18 ++--- R/ipw_did_rc.R | 22 ++---- R/pre_process_drdid.R | 12 ++- R/pscore.cal.R | 9 -- R/reg_did_panel.R | 12 +-- R/reg_did_rc.R | 22 ++---- R/std_ipw_did_panel.R | 29 ++++---- R/std_ipw_did_rc.R | 47 +++++++------ R/wboot.dr.tr.panel.R | 17 +---- R/wboot.ipw.panel.R | 7 -- R/wboot.reg.panel.R | 10 +- R/wboot.std.ipw.panel.R | 7 -- R/wboot_drdid_imp_rc.R | 20 ++--- R/wboot_drdid_rc.R | 47 +++++-------- R/wboot_drdid_rc1.R | 27 ++----- R/wboot_ipw_rc.R | 7 -- R/wboot_reg_rc.R | 20 ++--- R/wboot_std_ipw_rc.R | 7 -- R/wols.br.panel.R | 10 +- R/wols_rc.R | 10 +- build/partial.rdb |binary inst/WORDLIST | 5 + tests/testthat/test_regression_lock.R |only 31 files changed, 321 insertions(+), 371 deletions(-)
Title: Automatic Toolkit for Construction, Optimization, Scoring and
Simulation of Forced-Choice Tests
Description: Forced-choice (FC) response has gained increasing popularity
and interest for its resistance to faking when well-designed (Cao &
Drasgow, 2019 <doi:10.1037/apl0000414>). To established well-designed
FC scales, typically each item within a block should measure different
trait and have similar level of social desirability (Zhang et al.,
2020 <doi:10.1177/1094428119836486>). Recent study also suggests the
importance of high inter-item agreement of social desirability between
items within a block (Pavlov et al., 2021
<doi:10.31234/osf.io/hmnrc>). In addition to this, FC developers may
also need to maximize factor loading differences (Brown &
Maydeu-Olivares, 2011 <doi:10.1177/0013164410375112>) or minimize item
location differences (Cao & Drasgow, 2019 <doi:10.1037/apl0000414>)
depending on scoring models. Decision of which items should be
assigned to the same block, also called as item pairing, is thus critical
to the quality of an FC test. Becau [...truncated...]
Author: Mengtong Li [cre, aut] ,
Tianjun Sun [aut] ,
Bo Zhang [aut]
Maintainer: Mengtong Li <mt_li@fudan.edu.cn>
Diff between autoFC versions 1.0.0.1000 dated 2026-05-27 and 1.0.0.1001 dated 2026-06-10
DESCRIPTION | 6 MD5 | 12 NEWS.md |only R/generate_tirt_mplus_syntax.R | 548 ++++++++++++++++++++--------------------- R/prepare_tirt_stan_data.R | 218 ++++++++-------- R/zzz.R |only inst/doc/intro-to-autoFC.html | 4 man/prepare_tirt_stan_data.Rd | 2 8 files changed, 396 insertions(+), 394 deletions(-)