Title: Tipping Point Analysis for Survival Endpoints
Description: Implements tipping point sensitivity analysis for time-to-event endpoints under different missing data scenarios, as described in Oodally et al. (2025) <doi:10.48550/arXiv.2506.19988>. Supports both model-based and model-free imputation, multiple imputation workflows, plausibility assessment and visualizations. Enables robust assessment for regulatory and exploratory analyses.
Author: Ajmal Oodally [cre, aut] ,
Craig Wang [aut] ,
Zheng Li [ctb]
Maintainer: Ajmal Oodally <ajmaloodally@hotmail.com>
Diff between tipse versions 2.0 dated 2026-05-12 and 2.1 dated 2026-08-21
DESCRIPTION | 13 +++++++------ MD5 | 38 +++++++++++++++++++------------------- NAMESPACE | 28 +++++++++++++++++----------- NEWS.md | 5 +++++ R/assess_plausibility.R | 4 ++-- R/plot_tipse.R | 2 +- R/pool_results.R | 2 +- R/summary_tipse.R | 2 +- R/tipping_point_model_based.R | 2 +- R/tipping_point_model_free.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/analysis_examples.html | 27 +++++++++++++++++---------- man/assess_plausibility.Rd | 2 +- man/plot.tipse.Rd | 2 +- man/pool_results.Rd | 2 +- man/summary.tipse.Rd | 2 +- man/tipping_point_model_based.Rd | 2 +- man/tipping_point_model_free.Rd | 2 +- man/tipse-package.Rd | 10 +++++++++- 20 files changed, 87 insertions(+), 60 deletions(-)
Title: Targeted Inference
Description: Various methods for targeted and semiparametric inference including
augmented inverse probability weighted (AIPW) estimators for missing data and
causal inference (Bang and Robins (2005) <doi:10.1111/j.1541-0420.2005.00377.x>),
one-step imputation (Nordland et al (2026)) <doi:10.48550/arXiv.2606.07174>),
variable importance and conditional average treatment effects (CATE)
(van der Laan (2006) <doi:10.2202/1557-4679.1008>),
estimators for risk differences and relative risks (Richardson et al. (2017)
<doi:10.1080/01621459.2016.1192546>), assumption lean inference for generalized
linear model parameters (Vansteelandt et al. (2022) <doi:10.1111/rssb.12504>).
Author: Klaus K. Holst [aut, cre],
Benedikt Sommer [aut],
Andreas Nordland [aut],
Christian B. Pipper [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between targeted versions 0.8 dated 2026-07-15 and 0.9.0 dated 2026-08-21
DESCRIPTION | 11 - MD5 | 36 +-- NAMESPACE | 142 +++++++----- NEWS.md | 9 R/aipw.R | 50 ++-- R/cate.R | 296 ++++++++++++++++++++++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ate.html | 50 ++-- inst/doc/predictionclass.html | 29 +- inst/doc/riskregression.html | 62 +++-- inst/misc/Dockerfile |only inst/slowtest/test_cate.R | 216 +++++++++++++++++++ inst/tinytest/test_aipw.R |only inst/tinytest/test_cate_missing.R |only inst/tinytest/test_cate_missing_crosscheck.R |only inst/tinytest/test_moi.R | 14 - man/aipw.Rd | 27 -- man/cate.Rd | 57 ++++- man/moi.Rd | 3 man/targeted-package.Rd | 2 21 files changed, 758 insertions(+), 246 deletions(-)
Title: Bioacoustic Analysis and Publication Tools
Description: Provides tools for manipulating sound files for bioacoustic
analysis, and preparing analyses these for publication. The package validates
that values are physically possible wherever feasible.
Author: Ed Baker [aut, cre] ,
Quentin Geissman [ctb]
Maintainer: Ed Baker <ed@ebaker.me.uk>
This is a re-admission after prior archival of version 0.0.7 dated 2024-05-11
Diff between sonicscrewdriver versions 0.0.7 dated 2024-05-11 and 0.0.7.1 dated 2026-08-21
sonicscrewdriver-0.0.7.1/sonicscrewdriver/DESCRIPTION | 12 sonicscrewdriver-0.0.7.1/sonicscrewdriver/MD5 | 341 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/NAMESPACE | 352 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/NEWS.md | 13 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/STP.R | 8 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/Wave-methods.R | 182 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/ab_seqss.R | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/audio_filesize.R | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/autoBandPass.R | 92 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/beatComplexity.R | 80 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/beatSpectrum.R | 102 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/birdnetReticulate.R | 284 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/convertPressures.R | 102 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/convertTemperatures.R | 150 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/convertTime.R | 186 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/cutws.R | 80 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/dayPhase.R | 338 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/defaultCluster.R | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/directionPlot.R | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/dolbear.R | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/exponential_backoff.R | 26 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/frequency.R | 124 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/generateNoise.R | 180 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/generateTimeMask.R | 92 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/generateTimeShift.R | 152 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/googleSpeech.R | 116 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/jitter.R | 88 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/labels.R | 144 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/ntd.R | 64 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/packageManagement.R | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/parseFilename.R | 368 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/pulseDetection.R | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/pulseDetection_dietrich.R | 192 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/pulseDetection_simple.R | 74 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/pulseDetection_threshold.R | 88 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/pulseIntervals.R | 70 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/pulseStats.R | 20 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/radar.R | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/rainfallDetection.R | 50 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/rainfall_bedoya2017.R | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/respeaker6.R | 42 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/reticulate.R | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/sDuration.R | 122 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/sheepFrequencyStats.R | 8 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/shimmer.R | 82 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/soundSpeed.R | 274 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/specStats.R | 166 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/ste.R | 72 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/time.R | 14 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/upsample.R | 104 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/utils-plot.R | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/wavelength.R | 20 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/zerocrossing.R | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/build/partial.rdb |binary sonicscrewdriver-0.0.7.1/sonicscrewdriver/build/vignette.rds |binary sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/CITATION | 14 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/REFERENCES.bib | 88 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/audioblast.R | 18 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/audioblast.Rmd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/audioblast.html | 761 ++++---- sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/manage_audio.R | 100 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/manage_audio.Rmd | 206 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/manage_audio.html | 927 +++++----- sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/sonicscrewdriver.R | 18 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/sonicscrewdriver.html | 737 +++---- sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/PseudoWave-class.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/STP.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/TaggedWave-class.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/TaggedWaveMC-class.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/TimeRegion-class.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/WaveFilter-class.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/ab_diel_traits.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/addSpectra.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/allChannels.Rd | 76 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/audio_filesize.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/audioblast.Rd | 108 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/audioblastDownload.Rd | 64 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/autoBandPass.Rd | 64 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/bandpass.Rd | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/beatComplexity.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/beatSpectrum.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/birdNetAnalyse.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/birdNetInstall.Rd | 42 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/circularise.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/concat-methods.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Celsius.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Fahrenheit.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Kelvin.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Pascals.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2bytes.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2dyne_cm2.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2seconds.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/corWaveMC.Rd | 52 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/cutws.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/data2Wave.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dayPhase.Rd | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dayPhases.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/daysPhases.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/defaultCluster.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielFraction.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielHistogram.Rd | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielLabels.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielPlot.Rd | 74 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielPositions.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielRings.Rd | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dolbear.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dutyCycle.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/emptyDiel.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/emptyYearly.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/entropyStats.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/frequencySound.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/frequencyStats.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/generateNoise.Rd | 76 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/generateTimeMask.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/gs_transcribe.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/humanBytes.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/jitter.Rd | 52 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/labelPadding.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/labelReduction.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/naturalFrequency.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/ntd.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/parseFilename.Rd | 130 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pd_dietrich2004.Rd | 74 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pd_simple.Rd | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/plus-PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/plus-numeric-PseudoWave-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pulseDetection.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pulseIntervals.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/radarRange.Rd | 52 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/radialPolygon.Rd | 88 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/rainfallDetection.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/readAudio.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/readBirdNet.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/readRespeaker6.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/referenceIntensity.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/referencePressure.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/resonantFrequency.Rd | 50 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/sDuration.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/sheepFrequencyStats.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/shimmer.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/slash-PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/soundSpeed.Rd | 140 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/specStats.Rd | 50 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/ste.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/subtractSpectra.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/sweptsine.Rd | 110 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/tSamples.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/tagWave.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/times-PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/times-numeric-PseudoWave-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/typicalVolume.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/upsample.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/validateIsWave.Rd | 28 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/windowing.Rd | 100 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/yearlyLabels.Rd | 22 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/yearlyPositions.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/zeroSpectrum.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/zerocross.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/spelling.R | 6 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-Wave-methods.R | 216 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-WaveFilter.R | 204 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-allChannels.R | 260 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-audioblastProcessors.R | 96 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-birdnetReticulate.R | 76 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-convertTime.R | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-generateTimeMasked.R | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-parseFilename.R | 298 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-soundSpeed.R | 70 sonicscrewdriver-0.0.7.1/sonicscrewdriver/vignettes/audioblast.Rmd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/vignettes/manage_audio.Rmd | 206 +- sonicscrewdriver-0.0.7/sonicscrewdriver/tests/testthat/Rplots.pdf |only 172 files changed, 7682 insertions(+), 7627 deletions(-)
More information about sonicscrewdriver at CRAN
Permanent link
Title: Analysis and Visualisation of Benchmark Experiments
Description: Implements methods for post-hoc analysis and
visualisation of benchmark experiments, for 'mlr3' and beyond.
Author: Sonabend Raphael [aut] ,
Florian Pfisterer [aut] ,
Michel Lang [ctb] ,
Bernd Bischl [ctb] ,
Sebastian Fischer [cre, ctb]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Diff between mlr3benchmark versions 0.1.7 dated 2024-12-02 and 0.1.8 dated 2026-08-21
DESCRIPTION | 20 +- MD5 | 20 +- NEWS.md | 7 R/BenchmarkAggr.R | 6 R/autoplot.BenchmarkAggr.R | 14 - man/BenchmarkAggr.Rd | 310 ++++++++++++++++++------------------ man/as.BenchmarkAggr.Rd | 2 man/as_benchmark_aggr.Rd | 2 man/autoplot.BenchmarkAggr.Rd | 14 - man/mlr3benchmark-package.Rd | 2 tests/testthat/test_BenchmarkAggr.R | 2 11 files changed, 208 insertions(+), 191 deletions(-)
Title: Extended Agglomerative Hierarchical Clustering
Description: A comprehensive collection of linkage methods for agglomerative
hierarchical clustering on a matrix of proximity data (distances or
similarities), returning a multifurcated dendrogram or multidendrogram.
Multidendrograms can group more than two clusters when ties in proximity data
occur, and therefore they do not depend on the order of the input data.
Descriptive measures to analyze the resulting dendrogram are additionally
provided. <doi:10.18637/jss.v114.i02>.
Author: Alberto Fernandez [aut, cre] ,
Sergio Gomez [aut]
Maintainer: Alberto Fernandez <alberto.fernandez@urv.cat>
Diff between mdendro versions 2.2.3 dated 2025-09-04 and 2.3.0 dated 2026-08-21
DESCRIPTION | 12 MD5 | 39 - NAMESPACE | 6 R/RcppExports.R | 4 R/linkage.R | 12 R/mfnj.R |only build/vignette.rds |binary inst/CITATION | 119 ++- inst/doc/Introduction.R | 214 ++++-- inst/doc/Introduction.Rmd | 388 +++++++++--- inst/doc/Introduction.html | 1056 ++++++++++++++++++++++------------ man/linkage.Rd | 4 man/mfnj.Rd |only src/Matrix.h | 2 src/MergerNJ.cpp |only src/MergerNJ.h |only src/Phylogeny.cpp |only src/Phylogeny.h |only src/RcppExports.cpp | 14 src/RcppLinkage.cpp | 2 src/RcppMfnj.cpp |only vignettes/Introduction-bibstyle.csl | 376 ++++++------ vignettes/Introduction-references.bib | 217 ++++-- vignettes/Introduction.Rmd | 388 +++++++++--- 24 files changed, 1877 insertions(+), 976 deletions(-)
Title: 'SAS'-Style 'PROC FORMAT' for R
Description: Provides 'SAS' 'PROC FORMAT'-like functionality for creating and applying
value formats in R. Supports discrete and range-based mapping of values to labels,
reverse formatting (invalue), date/time/datetime formatting with built-in 'SAS' format
names, multi-label formats, expression labels evaluated at apply-time,
case-insensitive matching, import/export of format definitions, and proper handling
of missing values (NA, NULL, NaN).
Author: Vladimir Larchenko [aut, cre],
Igor Aleschenkov [aut]
Maintainer: Vladimir Larchenko <vladimir.larchenko@keystatsolutions.com>
Diff between ksformat versions 0.8.2 dated 2026-07-06 and 0.8.4 dated 2026-08-21
DESCRIPTION | 16 +-- MD5 | 46 +++++---- NAMESPACE | 8 - NEWS.md | 14 ++ R/format_apply.R | 144 ++++++++++++++++++++++++++++ R/format_create.R | 55 ++++++++++ R/format_invalue.R | 30 +++++ R/format_parse.R | 107 +++++++++++++++++++++ R/utilities.R | 10 + README.md | 7 - build/vignette.rds |binary inst/doc/ksformat-cheatsheet.pdf |binary inst/doc/nonstandard-applications.R |only inst/doc/nonstandard-applications.html |only inst/doc/nonstandard-applications.qmd |only inst/doc/usage_examples.R | 45 ++++++++ inst/doc/usage_examples.Rmd | 67 +++++++++++++ inst/doc/usage_examples.html | 106 +++++++++++++++++--- man/dot-apply_numeric_pattern.Rd |only man/dot-parse_num_pattern.Rd |only man/fnew.Rd | 23 ++++ man/fnew_bid.Rd | 21 +++- man/fparse.Rd | 12 ++ man/fput.Rd | 5 tests/testthat/test-formats.R | 167 +++++++++++++++++++++++++++++++++ vignettes/nonstandard-applications.qmd |only vignettes/usage_examples.Rmd | 67 +++++++++++++ 27 files changed, 894 insertions(+), 56 deletions(-)
Title: Divisive Latent Class Analysis
Description: Provides algorithms for estimating divisive and standard latent
class models. The divisive latent class method follows van der Palm,
van der Ark and Vermunt (2016) <doi:10.1007/s00357-016-9195-5>.
Both algorithms use expectation-maximization and Newton-Raphson
optimization and are implemented in 'C++' for speed through 'Rcpp'.
Author: Daniel W. van der Palm [aut, cre],
L. Andries van der Ark [ctb]
Maintainer: Daniel W. van der Palm <danielvdpalm@gmail.com>
Diff between DLCA versions 1.0 dated 2026-08-07 and 1.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 42 ++--- R/02-validation-control.R | 70 ++++---- R/03-fit-statistics.R | 40 ++-- R/05-prepare.R | 68 ++++---- R/06-dlca.R | 34 ++-- R/07-lca.R | 126 +++++++-------- R/08-slca.R | 76 ++++----- inst/WORDLIST | 4 man/DLC.Rd | 14 - man/DLCA-native.Rd | 162 +++++++++---------- man/LCA.Rd | 28 +-- man/checkDLCAInstall.Rd | 40 ++-- man/prepareData.Rd | 16 - man/runDLCA.Rd | 20 +- man/runLCA.Rd | 26 +-- man/runLCAPrepared.Rd | 86 +++++----- man/runSLCA.Rd | 114 ++++++------- man/simDataLCM.Rd | 124 +++++++------- src/dlcFunctions.h | 8 src/sourceCppDLC.cpp | 6 tests/regression.R | 382 +++++++++++++++++++++++----------------------- 22 files changed, 747 insertions(+), 747 deletions(-)
Title: R Bindings to the 'Anime.js' Animation Library
Description: Provides low-level R bindings to the 'Anime.js' library
(<https://animejs.com>), enabling the creation of browser-native SVG
and HTML animations via the 'htmlwidgets' framework.
Author: Long Nguyen [aut, cre]
Maintainer: Long Nguyen <nguyen@dezim-institut.de>
Diff between animejs versions 1.0.0 dated 2026-07-20 and 1.1.0 dated 2026-08-21
DESCRIPTION | 6 - MD5 | 24 ++-- NAMESPACE | 1 NEWS.md | 28 ++++ R/text.R |only R/utils.R | 2 build/vignette.rds |binary inst/doc/animejs.html | 252 +++++++++++++++++++++++++++++++++++++++--- inst/htmlwidgets/animejs.css | 121 +++++++++++++++++++- inst/htmlwidgets/animejs.js | 142 ++++++++++++++++++++++- inst/htmlwidgets/animejs.yaml | 8 + man/anime_text.Rd |only tests/manual/smoke_test.R | 11 + tests/testthat/_snaps/text.md |only tests/testthat/test-text.R |only 15 files changed, 552 insertions(+), 43 deletions(-)
Title: Client for the 'World Bank' APIs
Description: Download and search data from the 'World Bank' APIs,
including the 'Indicators' API, the 'Poverty and Inequality Platform
(PIP)' API, the 'Finances One' API, and the 'Projects' API. See
<https://datahelpdesk.worldbank.org/knowledgebase/articles/889386-developer-information-overview>
for further details.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between worldbank versions 0.9.1 dated 2026-06-29 and 0.10.0 dated 2026-08-21
DESCRIPTION | 10 ++--- MD5 | 51 +++++++++++++++------------ NAMESPACE | 42 +++++++++++----------- NEWS.md | 18 +++++++++ R/assertions.R | 19 +++++++++- R/fone.R | 16 +++++--- R/httr2.R | 2 - R/indicators.R | 64 +++++++++++++++++++++++++--------- R/pip.R | 58 +++++++++++++++---------------- R/projects.R | 56 +++++++++++++++++++----------- README.md | 8 ++-- man/figures/README-demo-1.png |binary man/pip_aux.Rd | 4 +- man/pip_citation.Rd | 4 +- man/pip_cp.Rd | 10 ++--- man/pip_data.Rd | 15 ++++---- man/pip_group.Rd | 15 ++++---- man/pip_valid_params.Rd | 4 +- man/wb_data.Rd | 18 ++++++++- man/wb_project.Rd | 32 ++++++++++------- tests/testthat/_snaps/pip.md |only tests/testthat/_snaps/projects.md |only tests/testthat/helper-indicators.R |only tests/testthat/test-assertions.R |only tests/testthat/test-fone.R | 27 +++++++++++++- tests/testthat/test-httr2.R |only tests/testthat/test-indicators.R | 68 +++++++++++++++++++++++++++++++++++-- tests/testthat/test-pip.R | 47 +++++++++++++++++++++++++ tests/testthat/test-projects.R | 68 ++++++++++++++++++++++++++++++++++++- 29 files changed, 484 insertions(+), 172 deletions(-)
Title: Curriculum Vitae for R Markdown
Description: Provides templates and functions to simplify the production and maintenance of curriculum vitae.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Rob Hyndman [aut] ,
Yihui Xie [ctb] ,
Albert Krewinkel [cph] ,
JooYoung Seo [ctb] ,
Isabelle Greco [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between vitae versions 0.6.0 dated 2024-06-12 and 0.7.0 dated 2026-08-21
DESCRIPTION | 22 ++-- MD5 | 51 +++++----- NEWS.md | 26 +++++ R/awesomecv.R | 49 +++++++++ R/cv_document.R | 3 R/markdowncv.R | 8 + README.md | 14 ++ build/vignette.rds |binary inst/doc/data.html | 3 inst/doc/extending.R | 10 - inst/doc/extending.Rmd | 2 inst/doc/extending.html | 7 - inst/doc/vitae.html | 3 inst/multiple-bibliographies.lua | 1 inst/rmarkdown/templates/hyndman/resources/hyndmantemplate.tex | 11 +- inst/rmarkdown/templates/markdowncv/skeleton/media/davewhipp-print.css | 8 - inst/rmarkdown/templates/markdowncv/skeleton/media/davewhipp-screen.css | 9 - inst/rmarkdown/templates/markdowncv/skeleton/media/kjhealy-print.css | 8 - inst/rmarkdown/templates/markdowncv/skeleton/media/kjhealy-screen.css | 8 - inst/rmarkdown/templates/moderncv/skeleton/moderncv.cls | 11 ++ inst/rmarkdown/templates/twentyseconds/resources/twentysecondstemplate.tex | 2 man/awesomecv.Rd | 6 - man/bibliography_entries.Rd | 2 man/reexports.Rd | 2 man/vitae-package.Rd | 1 tests/testthat/test-font-scale.R |only vignettes/extending.Rmd | 2 27 files changed, 195 insertions(+), 74 deletions(-)
Title: Unsupervised Learning Based Definition of Microbial Rare
Biosphere
Description: A tool to define the rare biosphere. 'ulrb' solves the problem of the
definition of rarity by replacing arbitrary thresholds with an unsupervised machine
learning algorithm (partitioning around medoids, or k-medoids). This algorithm
works for any type of microbiome data, provided there is an abundance table.
This method also works for non-microbiome data.
Author: Francisco Pascoal [aut, cre] ,
Paula Branco [aut] ,
Luis Torgo [aut] ,
Rodrigo Costa [aut] ,
Catarina Magalhaes [aut]
Maintainer: Francisco Pascoal <fpascoal1996@gmail.com>
Diff between ulrb versions 0.1.8 dated 2025-07-07 and 0.1.9 dated 2026-08-21
DESCRIPTION | 10 MD5 | 16 R/define_rb.R | 29 README.md | 11 build/vignette.rds |binary inst/doc/Glossary.html | 107 --- inst/doc/eco-analysis.html | 813 +++++++++++------------ inst/doc/explore-classifications.html | 1177 +++++++++++++++------------------- inst/doc/ulrb-vignet.html | 722 ++++++++------------ 9 files changed, 1270 insertions(+), 1615 deletions(-)
Title: Snapshots for Unit Tests using the 'tinytest' Framework
Description: Snapshots for unit tests using the 'tinytest' framework for R. Includes expectations to test base R and 'ggplot2' plots as well as console output from print().
Author: Vincent Arel-Bundock [aut, cre]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between tinysnapshot versions 0.2.0 dated 2025-07-18 and 0.3.0 dated 2026-08-21
DESCRIPTION | 8 +-- MD5 | 23 ++++---- NEWS.md | 8 +++ R/expect_snapshot_plot.R | 45 ++++++++++++----- R/expect_snapshot_print.R | 18 +++--- R/utils.R | 6 ++ build/partial.rdb |binary inst/tinytest/_tinysnapshot/png-ggplot2_theme_dark.png |only inst/tinytest/helpers.R | 5 + inst/tinytest/test-png.R | 8 +++ inst/tinytest/test-svg.R | 4 - man/expect_snapshot_plot.Rd | 11 +++- man/expect_snapshot_print.Rd | 3 + 13 files changed, 100 insertions(+), 39 deletions(-)
Title: Functions to Help in your Coding Etiquette
Description: Adds some functions to help in your coding etiquette.
'tinycodet' primarily focuses on 4 aspects.
1) Safer decimal (in)equality testing,
standard-evaluated alternatives to with() and aes(),
and other functions for safer coding.
2) A new package import system,
that attempts to combine the benefits of using a package without attaching it,
with the benefits of attaching a package.
3) Extending the string manipulation capabilities of the 'stringi' R package.
4) Reducing repetitive code.
Besides linking to 'Rcpp', 'tinycodet' has only one other dependency, namely 'stringi'.
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tonywilkes.nl@gmail.com>
Diff between tinycodet versions 0.7.0 dated 2026-06-08 and 0.7.1 dated 2026-08-21
DESCRIPTION | 12 ++--- MD5 | 38 ++++++++-------- NEWS.md | 96 ++++++++++++++++++++++++++++++++++------- R/aaa0_tinycodet_help.R | 2 R/import_as.R | 10 ++-- R/pkgs.R | 17 ++----- R/pro.R | 17 ++----- build/partial.rdb |binary inst/tinytest/safer/test-pro.R | 45 +++++++++++++++++-- man/aaa0_tinycodet_help.Rd | 2 man/aaa2_tinycodet_import.Rd | 2 man/import_as.Rd | 12 ++--- man/pkgs.Rd | 19 ++------ man/pro.Rd | 7 +- man/pversion.Rd | 2 man/reexports.Rd | 2 man/safer_partialmatch.Rd | 2 src/C_do_stri_locate_ith0.c | 2 src/C_do_stri_locate_ith1.c | 3 - tests/tinytest.R | 3 + 20 files changed, 189 insertions(+), 104 deletions(-)
Title: Publication-Ready Summary Tables and Forest Plots
Description: A comprehensive framework for descriptive statistics and regression
analysis that produces publication-ready tables and forest plots. Provides a
unified interface from descriptive statistics through multivariable modeling,
with support for linear models, generalized linear models, Cox proportional
hazards, and mixed-effects models. Also includes univariable screening,
multivariate regression, model comparison, and export to multiple formats
including PDF, DOCX, PPTX, 'LaTeX', HTML, and RTF. Built on 'data.table'
for computational efficiency.
Author: Paul Hsin-ti McClelland [aut, cre, cph]
Maintainer: Paul Hsin-ti McClelland <PaulHMcClelland@protonmail.com>
Diff between summata versions 0.11.5 dated 2026-05-07 and 0.12.0 dated 2026-08-21
summata-0.11.5/summata/R/autotable.R |only summata-0.11.5/summata/man/autotable.Rd |only summata-0.11.5/summata/man/format_count_forest.Rd |only summata-0.11.5/summata/tests/testthat/test_compfit.R |only summata-0.11.5/summata/tests/testthat/test_desctable.R |only summata-0.11.5/summata/tests/testthat/test_fit.R |only summata-0.11.5/summata/tests/testthat/test_forest.R |only summata-0.11.5/summata/tests/testthat/test_fullfit.R |only summata-0.11.5/summata/tests/testthat/test_m2dt.R |only summata-0.11.5/summata/tests/testthat/test_multivariate.R |only summata-0.11.5/summata/tests/testthat/test_number_format.R |only summata-0.11.5/summata/tests/testthat/test_survtable.R |only summata-0.11.5/summata/tests/testthat/test_table2.R |only summata-0.12.0/summata/DESCRIPTION | 23 summata-0.12.0/summata/MD5 | 281 +- summata-0.12.0/summata/NAMESPACE | 7 summata-0.12.0/summata/NEWS.md | 25 summata-0.12.0/summata/R/autoforest.R | 14 summata-0.12.0/summata/R/comp_utils.R | 632 ++--- summata-0.12.0/summata/R/compfit.R | 93 summata-0.12.0/summata/R/coxforest.R | 129 - summata-0.12.0/summata/R/desc_utils.R | 21 summata-0.12.0/summata/R/desctable.R | 62 summata-0.12.0/summata/R/fit.R | 94 summata-0.12.0/summata/R/fit_utils.R | 103 summata-0.12.0/summata/R/forest_utils.R | 289 +- summata-0.12.0/summata/R/forestsave.R |only summata-0.12.0/summata/R/fullfit.R | 158 - summata-0.12.0/summata/R/glmforest.R | 149 - summata-0.12.0/summata/R/globals.R | 1 summata-0.12.0/summata/R/imports.R | 7 summata-0.12.0/summata/R/lmforest.R | 100 summata-0.12.0/summata/R/m2dt.R | 164 + summata-0.12.0/summata/R/m2dt_utils.R | 496 +++- summata-0.12.0/summata/R/multifit.R | 403 +-- summata-0.12.0/summata/R/multiforest.R | 62 summata-0.12.0/summata/R/number_utils.R | 306 +- summata-0.12.0/summata/R/recdims.R |only summata-0.12.0/summata/R/surv_utils.R | 320 +- summata-0.12.0/summata/R/survtable.R | 236 + summata-0.12.0/summata/R/table2_utils.R | 869 +++---- summata-0.12.0/summata/R/table2docx.R | 16 summata-0.12.0/summata/R/table2html.R | 31 summata-0.12.0/summata/R/table2pdf.R | 275 +- summata-0.12.0/summata/R/table2pptx.R | 16 summata-0.12.0/summata/R/table2rtf.R | 16 summata-0.12.0/summata/R/table2tex.R | 46 summata-0.12.0/summata/R/tablesave.R |only summata-0.12.0/summata/R/uniforest.R | 77 summata-0.12.0/summata/R/uniscreen.R | 69 summata-0.12.0/summata/README.md | 25 summata-0.12.0/summata/build/vignette.rds |binary summata-0.12.0/summata/inst/WORDLIST | 1 summata-0.12.0/summata/inst/doc/advanced_workflows.R | 64 summata-0.12.0/summata/inst/doc/advanced_workflows.Rmd | 72 summata-0.12.0/summata/inst/doc/advanced_workflows.html | 767 +++--- summata-0.12.0/summata/inst/doc/descriptive_tables.R | 8 summata-0.12.0/summata/inst/doc/descriptive_tables.Rmd | 12 summata-0.12.0/summata/inst/doc/descriptive_tables.html | 20 summata-0.12.0/summata/inst/doc/forest_plots.R | 174 - summata-0.12.0/summata/inst/doc/forest_plots.Rmd | 182 - summata-0.12.0/summata/inst/doc/forest_plots.html | 645 ++--- summata-0.12.0/summata/inst/doc/installation_setup.R | 26 summata-0.12.0/summata/inst/doc/installation_setup.Rmd | 32 summata-0.12.0/summata/inst/doc/installation_setup.html | 34 summata-0.12.0/summata/inst/doc/model_comparison.R | 6 summata-0.12.0/summata/inst/doc/model_comparison.Rmd | 10 summata-0.12.0/summata/inst/doc/model_comparison.html | 32 summata-0.12.0/summata/inst/doc/multivariate_regression.R | 81 summata-0.12.0/summata/inst/doc/multivariate_regression.Rmd | 115 summata-0.12.0/summata/inst/doc/multivariate_regression.html | 527 ++-- summata-0.12.0/summata/inst/doc/regression_modeling.R | 10 summata-0.12.0/summata/inst/doc/regression_modeling.Rmd | 31 summata-0.12.0/summata/inst/doc/regression_modeling.html | 1203 +++++----- summata-0.12.0/summata/inst/doc/survival_tables.R | 15 summata-0.12.0/summata/inst/doc/survival_tables.Rmd | 19 summata-0.12.0/summata/inst/doc/survival_tables.html | 57 summata-0.12.0/summata/inst/doc/table_export.R | 99 summata-0.12.0/summata/inst/doc/table_export.Rmd | 131 - 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summata-0.12.0/summata/vignettes/installation_setup.Rmd | 32 summata-0.12.0/summata/vignettes/model_comparison.Rmd | 10 summata-0.12.0/summata/vignettes/multivariate_regression.Rmd | 115 summata-0.12.0/summata/vignettes/regression_modeling.Rmd | 31 summata-0.12.0/summata/vignettes/survival_tables.Rmd | 19 summata-0.12.0/summata/vignettes/table_export.Rmd | 131 - 169 files changed, 6994 insertions(+), 5046 deletions(-)
Title: Sequential Change-Point Detection via Nonparametric Inference
Description: Detects change points in long univariate time series using the SCAN
framework. The implementation uses a native Rust backend exposed to R via 'extendr'.
Author: Ashoka Prabashwara [aut, cre],
Patricia Menendez [aut],
Liam Hodgkinson [aut],
Stuart Lee [aut]
Maintainer: Ashoka Prabashwara <smashoka123@gmail.com>
Diff between scanr versions 0.1.0 dated 2026-08-20 and 0.1.1 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ README.md | 9 ++++++--- inst/doc/scanr-introduction.html | 2 +- src/Makevars | 14 ++++++-------- src/rust/Cargo.lock | 2 +- src/rust/Cargo.toml | 2 +- 7 files changed, 24 insertions(+), 23 deletions(-)
Title: Matched-Null Tests for Cluster-Count Claims
Description: Builds matched nulls for cluster-count claims: synthetic twins of a
dataset that preserve every marginal distribution and the full correlation
matrix while containing no cluster structure by construction. A reported
number of clusters or "types" can then be tested against what the data's own
margins and covariance already produce, using any clustering pipeline. A
t-copula option adds tail dependence to the null, so that an apparent excess
of clusters can be checked against a heavier-tailed alternative before it is
read as evidence of types. Implements the matched-null procedure of Meng
(2026) "Types Without Taxa" <doi:10.17605/OSF.IO/2EKCG>.
Author: Miura Meng [aut, cre]
Maintainer: Miura Meng <haomeng797@gmail.com>
Diff between matchednull versions 0.1.0 dated 2026-07-21 and 0.2.1 dated 2026-08-21
DESCRIPTION | 34 ++++++++-------- MD5 | 28 +++++++------ NEWS.md | 19 ++++++++ R/copula_null.R | 37 ++++++++++++++--- R/matched_null_test.R | 60 ++++++++++++++++++++++++---- README.md | 68 +++++++++++++++++++++++++------- inst/doc/matchednull.R | 4 + inst/doc/matchednull.Rmd | 40 ++++++++++++++++++ inst/doc/matchednull.html | 43 +++++++++++++++++++- man/copula_null.Rd | 34 +++++++++++++--- man/figures |only man/matched_null_test.Rd | 40 ++++++++++++++++-- tests/testthat/test-matched_null_test.R | 38 +++++++++++++++++ tests/testthat/test-t_copula.R |only vignettes/matchednull.Rmd | 40 ++++++++++++++++++ 15 files changed, 417 insertions(+), 68 deletions(-)
Title: Model-Averaged Renewal Process
Description: To implement a model-averaging approach with different renewal
models, with a primary focus on forecasting large earthquakes. Based on
six renewal models (i.e., Poisson, Gamma, Log-Logistics, Weibull,
Log-Normal and BPT), model-averaged point estimates are calculated using
AIC weights. Additionally, both percentile and studentized
bootstrapped model-averaged confidence intervals are constructed. In
comparison, point and interval estimation from the individual or "best"
model (determined via model selection) can be retrieved.
Author: Jie Kang [aut],
Chris Scott [aut],
Vanessa Huang [aut],
Veronica Tsou [aut, cre],
Albert Savary [ctb]
Maintainer: Veronica Tsou <wantungtsou@gmail.com>
This is a re-admission after prior archival of version 0.1.0 dated 2022-08-11
Diff between marp versions 0.1.0 dated 2022-08-11 and 0.1.1 dated 2026-08-21
marp-0.1.0/marp/inst/extdata/large.txt |only marp-0.1.0/marp/inst/extdata/medium.txt |only marp-0.1.0/marp/inst/extdata/small.txt |only marp-0.1.1/marp/DESCRIPTION | 30 - marp-0.1.1/marp/MD5 | 138 +++-- marp-0.1.1/marp/NAMESPACE | 16 marp-0.1.1/marp/NEWS.md | 17 marp-0.1.1/marp/R/bpt_bstrp.R | 57 +- marp-0.1.1/marp/R/bpt_logl.R | 8 marp-0.1.1/marp/R/bpt_rp.R | 99 ++- marp-0.1.1/marp/R/dllog.R | 10 marp-0.1.1/marp/R/gamma_bstrp.R | 39 - marp-0.1.1/marp/R/gamma_logl.R | 7 marp-0.1.1/marp/R/gamma_rp.R | 49 + marp-0.1.1/marp/R/loglogis_bstrp.R | 35 - marp-0.1.1/marp/R/loglogis_logl.R | 7 marp-0.1.1/marp/R/loglogis_rp.R | 47 + marp-0.1.1/marp/R/lognorm_bstrp.R | 34 - marp-0.1.1/marp/R/lognorm_rp.R | 42 - marp-0.1.1/marp/R/lowerT.R | 23 marp-0.1.1/marp/R/marp.R | 96 ++- marp-0.1.1/marp/R/marp_bstrp.R | 39 - marp-0.1.1/marp/R/marp_classes.R |only marp-0.1.1/marp/R/marp_confint.R | 142 +++-- marp-0.1.1/marp/R/marp_methods.R |only marp-0.1.1/marp/R/percent_confint.R | 63 +- marp-0.1.1/marp/R/pllog.R | 22 marp-0.1.1/marp/R/poisson_bstrp.R | 34 - marp-0.1.1/marp/R/poisson_rp.R | 44 - marp-0.1.1/marp/R/student_confint.R | 258 ++++++++-- marp-0.1.1/marp/R/upperT.R | 23 marp-0.1.1/marp/R/weibull_bstrp.R | 35 - marp-0.1.1/marp/R/weibull_logl.R | 7 marp-0.1.1/marp/R/weibull_rp.R | 49 + marp-0.1.1/marp/README.md | 87 +-- marp-0.1.1/marp/build |only marp-0.1.1/marp/inst/doc |only marp-0.1.1/marp/man/bpt_bstrp.Rd | 36 - marp-0.1.1/marp/man/bpt_logl.Rd | 8 marp-0.1.1/marp/man/bpt_rp.Rd | 46 - marp-0.1.1/marp/man/coef.marp_model_fit.Rd |only marp-0.1.1/marp/man/confint.marp_fit.Rd |only marp-0.1.1/marp/man/dllog.Rd | 10 marp-0.1.1/marp/man/gamma_bstrp.Rd | 39 - marp-0.1.1/marp/man/gamma_logl.Rd | 7 marp-0.1.1/marp/man/gamma_rp.Rd | 38 - marp-0.1.1/marp/man/logLik.marp_model_fit.Rd |only marp-0.1.1/marp/man/loglogis_bstrp.Rd | 35 - marp-0.1.1/marp/man/loglogis_logl.Rd | 7 marp-0.1.1/marp/man/loglogis_rp.Rd | 36 - marp-0.1.1/marp/man/lognorm_bstrp.Rd | 34 - marp-0.1.1/marp/man/lognorm_rp.Rd | 31 - marp-0.1.1/marp/man/lowerT.Rd | 23 marp-0.1.1/marp/man/marp.Rd | 56 +- marp-0.1.1/marp/man/marp_bstrp.Rd | 39 - marp-0.1.1/marp/man/marp_confint.Rd | 121 ++-- marp-0.1.1/marp/man/nobs.marp_fit.Rd |only marp-0.1.1/marp/man/nobs.marp_model_fit.Rd |only marp-0.1.1/marp/man/percent_confint.Rd | 51 + marp-0.1.1/marp/man/pllog.Rd | 22 marp-0.1.1/marp/man/poisson_bstrp.Rd | 34 - marp-0.1.1/marp/man/poisson_rp.Rd | 33 - marp-0.1.1/marp/man/print.marp_confint.Rd |only marp-0.1.1/marp/man/print.marp_fit.Rd |only marp-0.1.1/marp/man/print.marp_model_fit.Rd |only marp-0.1.1/marp/man/print.summary_marp_fit.Rd |only marp-0.1.1/marp/man/print.summary_marp_model_fit.Rd |only marp-0.1.1/marp/man/student_confint.Rd | 65 +- marp-0.1.1/marp/man/summary.marp_fit.Rd |only marp-0.1.1/marp/man/summary.marp_model_fit.Rd |only marp-0.1.1/marp/man/upperT.Rd | 23 marp-0.1.1/marp/man/weibull_bstrp.Rd | 35 - marp-0.1.1/marp/man/weibull_logl.Rd | 7 marp-0.1.1/marp/man/weibull_rp.Rd | 40 - marp-0.1.1/marp/tests/testthat/test-bootstrap-orchestration.R |only marp-0.1.1/marp/tests/testthat/test-bpt_bstrp.R | 6 marp-0.1.1/marp/tests/testthat/test-bpt_rp.R | 2 marp-0.1.1/marp/tests/testthat/test-percent_confint.R | 10 marp-0.1.1/marp/tests/testthat/test-s3-interface.R |only marp-0.1.1/marp/vignettes |only 80 files changed, 1462 insertions(+), 989 deletions(-)
Title: Visualize Spatiotemporal Tumor Evolution with Jellyfish Plots
Description: Generates interactive Jellyfish plots to visualize spatiotemporal tumor
evolution by integrating sample and phylogenetic trees into a unified plot.
This approach provides an intuitive way to analyze tumor heterogeneity and
evolution over time and across anatomical locations. The Jellyfish plot
visualization design was first introduced by Lahtinen, Lavikka, et al.
(2023, <doi:10.1016/j.ccell.2023.04.017>).
This package also supports visualizing ClonEvol results, a tool developed
by Dang, et al. (2017, <doi:10.1093/annonc/mdx517>), for analyzing clonal
evolution from multi-sample sequencing data. The 'clonevol' package is not
available on CRAN but can be installed from its GitHub
repository (<https://github.com/hdng/clonevol>).
Author: Kari Lavikka [cph, aut, cre]
Maintainer: Kari Lavikka <kari@karilavikka.fi>
Diff between jellyfisher versions 1.1.1 dated 2025-11-26 and 1.1.2 dated 2026-08-21
DESCRIPTION | 10 +++---- MD5 | 7 ++--- NEWS.md | 4 ++ inst/CITATION |only inst/doc/jellyfisher.html | 64 +++++++++++++++++++++++----------------------- 5 files changed, 45 insertions(+), 40 deletions(-)
Title: A GUI for Dual and Bulk RNA-Sequencing Analysis
Description: A 'shiny' app that supports both dual and bulk RNA-seq, with the dual
RNA-seq functionality offering the flexibility to perform either a
sequential approach (where reads are mapped separately to each genome)
or a combined approach (where reads are aligned to a single merged
genome). The user-friendly interface automates the analysis process,
providing step-by-step guidance, making it easy for users to navigate
between different analysis steps, and download intermediate results
and publication-ready plots.
Author: Carmine Fruggiero [aut, cre],
Gaetano Aufiero [aut]
Maintainer: Carmine Fruggiero <fruggierocarmine3@gmail.com>
Diff between inDAGO versions 1.0.3 dated 2025-10-21 and 1.0.4 dated 2026-08-21
DESCRIPTION | 27 +++++++++++----------- MD5 | 14 +++++------ NAMESPACE | 1 R/Saturation.R | 36 +++++++++++++++++++----------- R/app.R | 1 R/globals.R | 1 man/Saturation.Rd | 4 --- tests/testthat/test-inDAGO_shiny.R | 44 ++++++++++++++++++------------------- 8 files changed, 67 insertions(+), 61 deletions(-)
Title: Compute Scores for Different Implicit Measures
Description: A tool for computing the scores for the Implicit Association Test
(IAT; Greenwald, McGhee & Schwartz (1998) <doi:10.1037/0022-3514.74.6.1464>)
and the Single Category-IAT (SC-IAT: Karpinski & Steinman
(2006) <doi:10.1037/0022-3514.91.1.16>). Functions for preparing the data
(both for the IAT and the SC-IAT), plotting the results, and obtaining a
table with the scores of implicit measures descriptive statistics are
provided.
Author: Ottavia M. Epifania [aut, cre],
Pasquale Anselmi [ctb],
Egidio Robusto [ctb]
Maintainer: Ottavia M. Epifania <otta.epifania@gmail.com>
This is a re-admission after prior archival of version 0.3.1 dated 2025-08-22
Diff between implicitMeasures versions 0.3.1 dated 2025-08-22 and 1.0.0 dated 2026-08-21
implicitMeasures-0.3.1/implicitMeasures/R/d_density.R |only implicitMeasures-0.3.1/implicitMeasures/R/d_point.R |only implicitMeasures-0.3.1/implicitMeasures/R/descript_d.R |only implicitMeasures-0.3.1/implicitMeasures/R/multi_dsciat.R |only implicitMeasures-0.3.1/implicitMeasures/R/multi_dscore.R |only implicitMeasures-0.3.1/implicitMeasures/man/d_density.Rd |only implicitMeasures-0.3.1/implicitMeasures/man/d_point.Rd |only implicitMeasures-0.3.1/implicitMeasures/man/descript_d.Rd |only implicitMeasures-0.3.1/implicitMeasures/man/multi_dsciat.Rd |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-IAT_rel_descript_d.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-compute_iat-replicate.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-compute_sciat-replicate.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-d_density_d_plot.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-multi_dscore_multi_dsciat.R |only implicitMeasures-1.0.0/implicitMeasures/DESCRIPTION | 10 implicitMeasures-1.0.0/implicitMeasures/MD5 | 86 - implicitMeasures-1.0.0/implicitMeasures/NAMESPACE | 14 implicitMeasures-1.0.0/implicitMeasures/NEWS.md | 12 implicitMeasures-1.0.0/implicitMeasures/R/IAT_rel.R | 118 +- implicitMeasures-1.0.0/implicitMeasures/R/clean_iat.R | 7 implicitMeasures-1.0.0/implicitMeasures/R/clean_sciat.R | 23 implicitMeasures-1.0.0/implicitMeasures/R/compute_iat.R | 40 implicitMeasures-1.0.0/implicitMeasures/R/compute_sciat.R | 38 implicitMeasures-1.0.0/implicitMeasures/R/multi-dscore-clean-iat.R |only implicitMeasures-1.0.0/implicitMeasures/R/multi-dscore-clean-sciat.R |only implicitMeasures-1.0.0/implicitMeasures/R/multi-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-dsciat.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-helpers.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-multi-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/summary-dsciat.R |only implicitMeasures-1.0.0/implicitMeasures/R/summary-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/summary-multi-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/build/vignette.rds |binary implicitMeasures-1.0.0/implicitMeasures/inst/doc/IAT-example.R | 32 implicitMeasures-1.0.0/implicitMeasures/inst/doc/IAT-example.Rmd | 72 - implicitMeasures-1.0.0/implicitMeasures/inst/doc/IAT-example.html | 236 +---- implicitMeasures-1.0.0/implicitMeasures/inst/doc/SC-IAT-example.R | 39 implicitMeasures-1.0.0/implicitMeasures/inst/doc/SC-IAT-example.Rmd | 77 - implicitMeasures-1.0.0/implicitMeasures/inst/doc/SC-IAT-example.html | 169 --- implicitMeasures-1.0.0/implicitMeasures/inst/doc/implicitMeasures.Rmd | 3 implicitMeasures-1.0.0/implicitMeasures/inst/doc/implicitMeasures.html | 19 implicitMeasures-1.0.0/implicitMeasures/man/IAT_rel.Rd | 69 - implicitMeasures-1.0.0/implicitMeasures/man/compute_iat.Rd | 2 implicitMeasures-1.0.0/implicitMeasures/man/multi_dscore.Rd | 189 +++- implicitMeasures-1.0.0/implicitMeasures/man/plot.multi_dscore.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/plotScores.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/summary.dsciat.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/summary.dscore.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/summary.multi_dscore.Rd |only implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-IAT_rel.R |only implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-clean_iat.R | 424 +++++---- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-clean_sciat.R | 458 +++++----- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-compute_iat.R | 159 +-- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-compute_sciat.R | 143 +-- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-multi-dscore-iat.R |only implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-multi-dscore-sciat.R |only implicitMeasures-1.0.0/implicitMeasures/vignettes/IAT-example.Rmd | 72 - implicitMeasures-1.0.0/implicitMeasures/vignettes/SC-IAT-example.Rmd | 77 - implicitMeasures-1.0.0/implicitMeasures/vignettes/implicitMeasures.Rmd | 3 60 files changed, 1273 insertions(+), 1318 deletions(-)
More information about implicitMeasures at CRAN
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Title: Visually Exploring Random Forests
Description: Graphic elements for exploring Random Forests using the
'randomForest' or 'randomForestSRC' package for survival, regression
and classification forests and 'ggplot2' package plotting. Implements
visualizations of the methods described in Breiman (2001)
<doi:10.1023/A:1010933404324> and Ishwaran, Kogalur, Blackstone, and
Lauer (2008) <doi:10.1214/08-AOAS169>.
Author: John Ehrlinger [aut, cre]
Maintainer: John Ehrlinger <john.ehrlinger@gmail.com>
Diff between ggRandomForests versions 3.5.0 dated 2026-08-04 and 3.5.2 dated 2026-08-21
ggRandomForests-3.5.0/ggRandomForests/tests/testthat/test_lint.R |only ggRandomForests-3.5.2/ggRandomForests/DESCRIPTION | 10 ggRandomForests-3.5.2/ggRandomForests/MD5 | 150 +++++----- ggRandomForests-3.5.2/ggRandomForests/NAMESPACE | 128 ++++---- ggRandomForests-3.5.2/ggRandomForests/NEWS.md | 107 +++++++ ggRandomForests-3.5.2/ggRandomForests/R/calc_roc.R | 32 +- ggRandomForests-3.5.2/ggRandomForests/R/gg_brier.R | 4 ggRandomForests-3.5.2/ggRandomForests/R/gg_error.R | 54 --- ggRandomForests-3.5.2/ggRandomForests/R/gg_isopro.R | 2 ggRandomForests-3.5.2/ggRandomForests/R/gg_partial_rfsrc.R | 11 ggRandomForests-3.5.2/ggRandomForests/R/gg_partial_varpro.R | 68 ++++ ggRandomForests-3.5.2/ggRandomForests/R/gg_roc.R | 20 + ggRandomForests-3.5.2/ggRandomForests/R/gg_vimp.R | 47 --- ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_brier.R | 2 ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_error.R | 47 --- ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_isopro.R | 2 ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_rfsrc.R | 41 -- ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_roc.R | 19 + ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_vimp.R | 4 ggRandomForests-3.5.2/ggRandomForests/R/quantile_pts.R | 2 ggRandomForests-3.5.2/ggRandomForests/README.md | 64 ++++ ggRandomForests-3.5.2/ggRandomForests/build/partial.rdb |binary ggRandomForests-3.5.2/ggRandomForests/build/vignette.rds |binary ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-classification.R | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-classification.html | 58 +-- ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-classification.qmd | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-regression.R | 8 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-regression.html | 60 ++-- ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-regression.qmd | 14 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-survival.R | 6 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-survival.html | 62 ++-- ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-survival.qmd | 12 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests.R | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests.html | 20 - ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests.qmd | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/uvarpro.html | 10 ggRandomForests-3.5.2/ggRandomForests/inst/doc/varpro.html | 30 +- ggRandomForests-3.5.2/ggRandomForests/inst/examples |only ggRandomForests-3.5.2/ggRandomForests/man/calc_auc.Rd | 4 ggRandomForests-3.5.2/ggRandomForests/man/calc_roc.rfsrc.Rd | 8 ggRandomForests-3.5.2/ggRandomForests/man/gg_brier.Rd | 4 ggRandomForests-3.5.2/ggRandomForests/man/gg_error.Rd | 65 ++-- ggRandomForests-3.5.2/ggRandomForests/man/gg_isopro.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/gg_partial_rfsrc.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/gg_partial_varpro.Rd | 68 ++++ ggRandomForests-3.5.2/ggRandomForests/man/gg_roc.rfsrc.Rd | 22 + ggRandomForests-3.5.2/ggRandomForests/man/gg_vimp.Rd | 20 - ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_brier.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_error.Rd | 58 ++- ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_isopro.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_rfsrc.Rd | 14 ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_roc.Rd | 19 + ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_vimp.Rd | 4 ggRandomForests-3.5.2/ggRandomForests/man/quantile_pts.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/helper-varpro-fixtures.R | 21 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_autoplot_equivalence.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_cran_comments.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_determinism.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_extractor_contracts.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_brier.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_error.R | 9 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_isopro.R | 16 - ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_partial_rfsrc.R | 14 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_partial_varpro.R | 19 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_rfsrc.R | 4 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_roc.R | 26 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_shap.R | 18 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_udependent.R | 24 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_variable.R | 41 ++ ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_varpro.R | 33 ++ ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_varpro_empty_importance.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_vimp.R | 61 +--- ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_namespace_hygiene.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_quantile_pts.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_randomForest_helpers.R | 4 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests-classification.qmd | 4 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests-regression.qmd | 14 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests-survival.qmd | 12 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests.qmd | 4 79 files changed, 1094 insertions(+), 640 deletions(-)
More information about ggRandomForests at CRAN
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Title: Bayesian Reconciliation in the 'fable' Framework
Description: Implements the 'bayesRecon' probabilistic reconciliation methods
within the 'fable' framework for hierarchical time series forecasting.
Bayesian reconciliation (bayesRecon) methods are accessed via the 'reconcile' verb, following
'fable' conventions. For methodological background, see Corani et al. (2021)
<doi:10.1007/978-3-030-67664-3_13>, Zambon et al. (2024a)
<doi:10.1007/s11222-023-10343-y>, Zambon et al. (2024b)
<https://proceedings.mlr.press/v244/zambon24a.html>, and Carrara et al.
(2026) <doi:10.1016/j.ijforecast.2026.07.003>.
Author: Dario Azzimonti [aut, cre, cph] ,
Stefano Damato [aut] ,
Lorenzo Zambon [aut] ,
Chiara Carrara [aut] ,
Giorgio Corani [aut]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between fable.bayesRecon versions 0.1.0 dated 2026-05-28 and 0.2.0 dated 2026-08-21
DESCRIPTION | 16 - MD5 | 39 +- NAMESPACE | 90 +++--- NEWS.md | 10 R/bayesRecon_BUIS.R | 2 R/bayesRecon_MixCond.R | 84 ++++-- R/bayesRecon_TDcond.R | 13 R/bayesRecon_t.R | 7 README.md | 405 ++++++++++++++++++++++++++++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/fable.bayesRecon.Rmd | 4 inst/doc/fable.bayesRecon.html | 11 man/bayesRecon_MixCond.Rd | 90 ++++-- man/bayesRecon_t.Rd | 7 man/figures/README-unnamed-chunk-15-1.png |only man/figures/README-unnamed-chunk-18-1.png |only man/figures/README-unnamed-chunk-25-1.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/README-unnamed-chunk-7-1.png |only man/figures/hier_large_README.png |only man/figures/hier_small_README.png |only vignettes/fable.bayesRecon.Rmd | 4 vignettes/references.bib | 12 24 files changed, 632 insertions(+), 162 deletions(-)
More information about fable.bayesRecon at CRAN
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Title: Pattern Estimation and Identification for Dyadic Sequences Using
Transition Matrices in R
Description: Provides methods for analyzing categorical dyadic sequences using transition matrices within the Longitudinal Actor-Partner Interdependence Model and Markov-chain framework. The package supports empirical transition counts, maximum likelihood estimation of transition probabilities, and identification of univariate and bivariate patterns of interaction in dyadic sequences.
Author: Mattia Boellenruecher [aut, cre, cph] ,
Megane Bollenruecher [aut] ,
Jean-Philippe Antonietti [aut]
Maintainer: Mattia Boellenruecher <mboellenruec@student.ethz.ch>
Diff between dyadicMarkov versions 0.1.1 dated 2026-06-21 and 0.1.2 dated 2026-08-21
DESCRIPTION | 14 MD5 | 59 NEWS.md | 57 R/apim-bivariate.R | 955 +++++++------- R/apim-univariate.R | 19 R/dyadicMarkov-package.R | 189 +- R/helpers-core.R | 1571 ++++++++++++------------ R/srr-stats-standards.R | 154 +- R/utils-validation.R | 347 ++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/bivariate-workflow.R | 2 inst/doc/bivariate-workflow.Rmd | 302 ++-- inst/doc/bivariate-workflow.html | 149 +- inst/doc/dyadicMarkov-introduction.Rmd | 129 + inst/doc/dyadicMarkov-introduction.html | 141 +- inst/doc/univariate-workflow.Rmd | 242 +-- inst/doc/univariate-workflow.html | 64 man/bivariateCase.Rd | 18 man/completePattern.Rd | 8 man/countEmpBivariate.Rd | 6 man/dyadicMarkov-package.Rd | 31 man/partialPattern.Rd | 8 man/univariatePattern.Rd | 11 tests/testthat/test-bivariate-alpha-boundary.R |only tests/testthat/test-example-data.R | 2 tests/testthat/test-statistic-identity.R |only tests/testthat/test-univariate-alpha-boundary.R |only tests/testthat/test-validation-errors.R | 630 ++++++--- vignettes/bivariate-workflow.Rmd | 302 ++-- vignettes/dyadicMarkov-introduction.Rmd | 129 + vignettes/univariate-workflow.Rmd | 242 +-- 32 files changed, 3186 insertions(+), 2595 deletions(-)
Title: Interactive Clustered Graph for French Scientific Preparatory
Classes
Description: To help French students from scientific preparatory classes for the Grandes Ecoles (CPGE) in their choice of field of study and career options, this package provides an interactive tool and data visualization of a graph clustered by different competitive exams and sectors of activity for French selective engineering schools and selective higher education institutions like Ecoles Normales Superieures (ENS) or specialized university programs (magisteres). Besides, there are two drop-down menus to select on the graph many fields or more than 200 engineering schools or ENS or magisteres. It gives the opportunity to expand, collapse clusters of selective exams interactively too. For more information, see the demonstration video: <https://valerierobert-maths.re/index.php/maths-en-cpge/>. The data was collected via the official French website: <https://www.scei-concours.fr/statistiques.html>.
Author: Valerie Robert [aut, cre]
Maintainer: Valerie Robert <valerie.robert.math@gmail.com>
Diff between cpge versions 1.0.1 dated 2026-08-08 and 1.0.2 dated 2026-08-21
DESCRIPTION | 12 ++-- MD5 | 18 +++--- NEWS.md | 6 +- R/data_graph.R | 104 ++++++++++++++++++++++----------------- R/run_graph.R | 30 ++--------- inst/quarto/cpge_fr.html | 19 +++---- inst/quarto/cpge_fr.qmd | 16 ++---- man/data_graph.Rd | 25 +++++++-- man/run_graph.Rd | 22 +------- tests/testthat/test-data_graph.R | 8 +-- 10 files changed, 130 insertions(+), 130 deletions(-)
Title: Bayesian SVARs with Sign, Zero, and Narrative Restrictions
Description: Implements state-of-the-art algorithms for the Bayesian analysis of Structural Vector Autoregressions (SVARs) identified by sign, zero, and narrative restrictions. The core model is based on a flexible Vector Autoregression with estimated hyper-parameters of the Minnesota prior and the dummy observation priors as in Giannone, Lenza, Primiceri (2015) <doi:10.1162/REST_a_00483> extended by the COVID-specific heteroskedasticity proposed by Lenza, Primiceri (2022) <doi:10.1002/jae.2895>. The sign restrictions are implemented employing the methods proposed by Rubio-Ramírez, Waggoner & Zha (2010) <doi:10.1111/j.1467-937X.2009.00578.x>, while identification through sign and zero restrictions follows the approach developed by Arias, Rubio-Ramírez, & Waggoner (2018) <doi:10.3982/ECTA14468>. Furthermore, our toolset provides algorithms for identification via sign and narrative restrictions, in line with the methods introduced by Antolín-Díaz and Rubio-Ramírez (201 [...truncated...]
Author: Xiaolei Wang [aut, cre] ,
Tomasz Wozniak [aut] ,
Fei Shang [ctb]
Maintainer: Xiaolei Wang <adamwang15@gmail.com>
Diff between bsvarSIGNs versions 2.0 dated 2025-01-29 and 3.0 dated 2026-08-21
bsvarSIGNs-2.0/bsvarSIGNs/src/utils.cpp |only bsvarSIGNs-2.0/bsvarSIGNs/src/utils.h |only bsvarSIGNs-3.0/bsvarSIGNs/DESCRIPTION | 29 bsvarSIGNs-3.0/bsvarSIGNs/MD5 | 76 - bsvarSIGNs-3.0/bsvarSIGNs/NAMESPACE | 8 bsvarSIGNs-3.0/bsvarSIGNs/NEWS.md | 10 bsvarSIGNs-3.0/bsvarSIGNs/R/RcppExports.R | 52 bsvarSIGNs-3.0/bsvarSIGNs/R/bsvarSIGNs-package.R | 52 bsvarSIGNs-3.0/bsvarSIGNs/R/compute.R | 5 bsvarSIGNs-3.0/bsvarSIGNs/R/estimate.R | 175 ++ bsvarSIGNs-3.0/bsvarSIGNs/R/forecast.R | 161 +- bsvarSIGNs-3.0/bsvarSIGNs/R/specify.R | 281 ++- bsvarSIGNs-3.0/bsvarSIGNs/R/utils.R | 16 bsvarSIGNs-3.0/bsvarSIGNs/README.md | 107 + bsvarSIGNs-3.0/bsvarSIGNs/inst/doc/bsvarSIGNs_vignette.pdf |binary bsvarSIGNs-3.0/bsvarSIGNs/inst/include/bsvarSIGNs_RcppExports.h | 411 +++++ bsvarSIGNs-3.0/bsvarSIGNs/inst/tinytest/test_specify.R | 8 bsvarSIGNs-3.0/bsvarSIGNs/man/bsvarSIGNs-package.Rd | 46 bsvarSIGNs-3.0/bsvarSIGNs/man/forecast.PosteriorBSVARSIGN.Rd | 17 bsvarSIGNs-3.0/bsvarSIGNs/man/reexports.Rd |only bsvarSIGNs-3.0/bsvarSIGNs/man/specify_bsvarSIGN.Rd | 119 + bsvarSIGNs-3.0/bsvarSIGNs/man/specify_forecasts.Rd |only bsvarSIGNs-3.0/bsvarSIGNs/man/specify_prior_bsvarSIGN.Rd | 79 - bsvarSIGNs-3.0/bsvarSIGNs/src/Makevars | 4 bsvarSIGNs-3.0/bsvarSIGNs/src/Makevars.win | 4 bsvarSIGNs-3.0/bsvarSIGNs/src/RcppExports.cpp | 710 ++++++++-- bsvarSIGNs-3.0/bsvarSIGNs/src/bsvars_sign.cpp | 299 ++-- bsvarSIGNs-3.0/bsvarSIGNs/src/bsvars_sign.h | 39 bsvarSIGNs-3.0/bsvarSIGNs/src/forecast_bsvarSIGNs.cpp | 54 bsvarSIGNs-3.0/bsvarSIGNs/src/forecast_bsvarSIGNs.h | 3 bsvarSIGNs-3.0/bsvarSIGNs/src/mcmc.cpp | 20 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_narrative.cpp | 6 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_narrative.h | 2 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_zero.cpp | 6 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_zero.h | 2 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_NIW.cpp | 8 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_Q.cpp | 26 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_Q.h | 1 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_SOE.cpp |only bsvarSIGNs-3.0/bsvarSIGNs/src/sample_SOE.h |only bsvarSIGNs-3.0/bsvarSIGNs/src/sample_hyper.cpp | 98 + bsvarSIGNs-3.0/bsvarSIGNs/src/utils_bsvarsigns.cpp |only bsvarSIGNs-3.0/bsvarSIGNs/src/utils_bsvarsigns.h |only 43 files changed, 2252 insertions(+), 682 deletions(-)
Title: Broadcasted Array Operations Like 'NumPy'
Description: Implements efficient 'NumPy'-like broadcasted operations for atomic and recursive arrays.
In the context of operations involving 2 (or more) arrays,
“broadcasting” (AKA singleton expansion) refers to efficiently recycling array dimensions,
without making copies.
Besides linking to 'Rcpp',
'broadcast' does not use any external libraries in any way;
'broadcast' was essentially made from scratch and can be installed out-of-the-box.
The implementations available in 'broadcast' include, but are not limited to, the following.
1) Broadcasted element-wise operations on any 2 arrays;
they support a large set of
relational, arithmetic, Boolean, string, and bit-wise operations.
2) A faster, more memory efficient, and broadcasted abind-like function,
for binding arrays along an arbitrary dimension.
3) Broadcasted ifelse-like and apply-like functions.
4) Casting functions,
that cast subset-groups of an array to a new dimension, cast nested lists to dimensional lists, and vice-versa.
5) A few linear [...truncated...]
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tonywilkes.nl@gmail.com>
Diff between broadcast versions 0.1.9.5 dated 2026-08-20 and 0.1.9.6 dated 2026-08-21
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 6 inst/tinytest/aaa_binary_prep_part1/test-part1-outlen.R | 2 inst/tinytest/aaa_binary_prep_part2/test-drop_dims-drop_ones.R | 120 ++++------ inst/tinytest/aaa_binary_prep_part2/test-mergedims.R | 6 inst/tinytest/aaa_binary_prep_part3/test-PBR.R | 4 inst/tinytest/aaa_binary_prep_part3/test-outdim_simp.R | 4 8 files changed, 81 insertions(+), 81 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-23 0.5.0
2020-06-08 0.4.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-21 0.1.8.8
2026-02-04 0.1.8.6
2024-06-06 0.1.8.4
2023-12-18 0.1.8.1
2023-09-07 0.1.7.9
2023-03-17 0.1.7.7
2023-01-11 0.1.7.6
2022-02-06 0.1.7.4
2021-09-05 0.1.7.3
2021-02-05 0.1.7.2
2020-07-20 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-08-02 1.2
2026-05-03 1.1
2026-04-29 1.0
2025-12-15 0.5
2025-12-06 0.4
2025-05-23 0.3
2024-07-09 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-29 1.4
2020-02-17 1.3
2019-12-20 1.2
2019-02-08 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-31 11.0.5.2
2024-02-01 11.0.4.1
2023-01-26 11.0.4
2022-03-09 11.0.2
2022-02-21 11.0.0
2020-02-04 10-1.2
2020-01-10 10-1.1
2019-05-26 0.9-48.1
2018-06-03 0.9-48
2018-01-22 0.9-46
2016-05-22 0.9-44
2015-04-24 0.9-43
2014-08-26 0.9-41
2014-03-29 0.9-33
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-23 1.0.0
2026-07-07 0.8.0
2026-05-08 0.7.1
2026-04-30 0.7.0
2025-07-30 0.6.1
2025-06-19 0.6.0
2025-05-23 0.5.0
2025-03-21 0.4.6
2024-12-22 0.4.5
2023-01-06 0.4.4
2022-10-02 0.4.3
2022-09-27 0.4.2
2022-04-24 0.4.1
2022-03-21 0.4.0
2021-03-27 0.3.1
2020-11-04 0.3.0
2020-09-17 0.2.0
2020-07-13 0.1.1
2020-07-07 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-06-13 0.2.0
Title: 'Stata' Markdown
Description: Settings and functions to extend the 'knitr' 'Stata' engine.
Author: Doug Hemken [aut] ),
Tom Palmer [aut, cre] ,
Philipp Lepert [ctb]
Maintainer: Tom Palmer <remlapmot@hotmail.com>
Diff between Statamarkdown versions 0.9.7 dated 2026-07-19 and 1.0.0 dated 2026-08-21
Statamarkdown-0.9.7/Statamarkdown/inst/doc/1_Basic_Use_of_Statamarkdown.html |only Statamarkdown-0.9.7/Statamarkdown/inst/doc/2_Linking_Stata_Code_Chunks.html |only Statamarkdown-0.9.7/Statamarkdown/inst/doc/3_Combining_Stata_and_R.html |only Statamarkdown-0.9.7/Statamarkdown/man/Statamarkdown-package.rd |only Statamarkdown-0.9.7/Statamarkdown/man/stata_engine.rd |only Statamarkdown-1.0.0/Statamarkdown/DESCRIPTION | 27 - Statamarkdown-1.0.0/Statamarkdown/MD5 | 53 ++- Statamarkdown-1.0.0/Statamarkdown/NAMESPACE | 8 Statamarkdown-1.0.0/Statamarkdown/NEWS.md | 84 ++++ Statamarkdown-1.0.0/Statamarkdown/R/Statamarkdown-package.R |only Statamarkdown-1.0.0/Statamarkdown/R/engine_output.R | 6 Statamarkdown-1.0.0/Statamarkdown/R/find_stata.r | 70 +++- Statamarkdown-1.0.0/Statamarkdown/R/misc.r | 5 Statamarkdown-1.0.0/Statamarkdown/R/purl_stata.R |only Statamarkdown-1.0.0/Statamarkdown/R/spinstata.R | 111 ++++-- Statamarkdown-1.0.0/Statamarkdown/R/stata_collectcode.r | 83 +++- Statamarkdown-1.0.0/Statamarkdown/R/stata_engine.r | 169 +++++++++- Statamarkdown-1.0.0/Statamarkdown/README.md | 7 Statamarkdown-1.0.0/Statamarkdown/build |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/basicuse.html |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/basicuse.qmd |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/linkblocks.html |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/linkblocks.qmd |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/randstata.html |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/randstata.qmd |only Statamarkdown-1.0.0/Statamarkdown/man/Statamarkdown-package.Rd |only Statamarkdown-1.0.0/Statamarkdown/man/find_stata.Rd | 61 ++- Statamarkdown-1.0.0/Statamarkdown/man/purl_stata.Rd |only Statamarkdown-1.0.0/Statamarkdown/man/spinstata.Rd | 72 ++-- Statamarkdown-1.0.0/Statamarkdown/man/stata_engine.Rd |only Statamarkdown-1.0.0/Statamarkdown/tests |only Statamarkdown-1.0.0/Statamarkdown/vignettes |only 32 files changed, 594 insertions(+), 162 deletions(-)
Title: Single-Species, Multi-Species, and Integrated Spatial Occupancy
Models
Description: Fits single-species, multi-species, and integrated non-spatial and spatial occupancy models using Markov Chain Monte Carlo (MCMC). Models are fit using Polya-Gamma data augmentation detailed in Polson, Scott, and Windle (2013) <doi:10.1080/01621459.2013.829001>. Spatial models are fit using either Gaussian processes or Nearest Neighbor Gaussian Processes (NNGP) for large spatial datasets. Details on NNGP models are given in Datta, Banerjee, Finley, and Gelfand (2016) <doi:10.1080/01621459.2015.1044091> and Finley, Datta, and Banerjee (2022) <doi:10.18637/jss.v103.i05>. Provides functionality for data integration of multiple single-species occupancy data sets using a joint likelihood framework. Details on data integration are given in Miller, Pacifici, Sanderlin, and Reich (2019) <doi:10.1111/2041-210X.13110>. Details on single-species and multi-species models are found in MacKenzie, Nichols, Lachman, Droege, Royle, and Langtimm (2002) <doi:10.1890/0012-9658(2 [...truncated...]
Author: Jeffrey Doser [aut, cre],
Andrew Finley [aut],
Marc Kery [ctb]
Maintainer: Jeffrey Doser <jwdoser@ncsu.edu>
Diff between spOccupancy versions 0.8.0 dated 2024-12-14 and 0.8.1 dated 2026-08-21
DESCRIPTION | 12 MD5 | 174 +- NAMESPACE | 2 NEWS.md | 19 R/generics.R | 306 ++--- R/getSVCSamples.R | 6 R/intPGOcc.R | 2558 ++++++++++++++++++++++---------------------- R/postHocLM.R | 6 R/spIntPGOcc.R | 8 R/stIntPGOcc.R | 6 R/stMsPGOcc.R | 8 R/stPGOcc.R | 6 R/svcTIntPGOcc.R | 10 R/svcTMsPGOcc.R | 8 R/svcTPGBinom.R | 2 R/svcTPGOcc.R | 6 R/tIntPGOcc.R | 6 R/tMsPGOcc.R | 6 R/tPGOcc.R | 6 R/updateMCMC.R | 291 ++++- build/partial.rdb |binary man/PGOcc.Rd | 2 man/getSVCSamples.Rd | 2 man/intMsPGOcc.Rd | 2 man/intPGOcc.Rd | 2 man/lfJSDM.Rd | 2 man/lfMsPGOcc.Rd | 2 man/msPGOcc.Rd | 2 man/postHocLM.Rd | 2 man/ppcOcc.Rd | 2 man/predict.PGOcc.Rd | 2 man/predict.intMsPGOcc.Rd | 2 man/predict.intPGOcc.Rd | 2 man/predict.lfJSDM.Rd | 2 man/predict.lfMsPGOcc.Rd | 2 man/predict.msPGOcc.Rd | 2 man/predict.sfJSDM.Rd | 2 man/predict.sfMsPGOcc.Rd | 2 man/predict.spIntPGOcc.Rd | 2 man/predict.spMsPGOcc.Rd | 2 man/predict.spPGOcc.Rd | 2 man/predict.stIntPGOcc.Rd | 2 man/predict.stMsPGOcc.Rd | 2 man/predict.stPGOcc.Rd | 2 man/predict.svcMsPGOcc.Rd | 2 man/predict.svcPGBinom.Rd | 2 man/predict.svcPGOcc.Rd | 2 man/predict.svcTIntPGOcc.Rd | 2 man/predict.svcTMsPGOcc.Rd | 2 man/predict.svcTPGBinom.Rd | 2 man/predict.svcTPGOcc.Rd | 2 man/predict.tIntPGOcc.Rd | 2 man/predict.tMsPGOcc.Rd | 2 man/predict.tPGOcc.Rd | 2 man/residuals.PGOcc.Rd | 2 man/residuals.spPGOcc.Rd | 2 man/residuals.svcPGOcc.Rd | 2 man/sfJSDM.Rd | 2 man/sfMsPGOcc.Rd | 2 man/simBinom.Rd | 2 man/simIntMsOcc.Rd | 2 man/simIntOcc.Rd | 2 man/simMsOcc.Rd | 2 man/simOcc.Rd | 2 man/simTBinom.Rd | 2 man/simTIntOcc.Rd | 4 man/simTMsOcc.Rd | 2 man/simTOcc.Rd | 6 man/spIntPGOcc.Rd | 2 man/spMsPGOcc.Rd | 2 man/spPGOcc.Rd | 5 man/stIntPGOcc.Rd | 2 man/stMsPGOcc.Rd | 2 man/stPGOcc.Rd | 2 man/svcMsPGOcc.Rd | 2 man/svcPGBinom.Rd | 2 man/svcPGOcc.Rd | 2 man/svcTIntPGOcc.Rd | 2 man/svcTMsPGOcc.Rd | 2 man/svcTPGBinom.Rd | 2 man/svcTPGOcc.Rd | 2 man/tIntPGOcc.Rd | 2 man/tMsPGOcc.Rd | 2 man/tPGOcc.Rd | 2 man/updateMCMC.Rd | 4 man/waicOcc.Rd | 2 src/svcPGOccNNGP.cpp | 91 - src/svcTIntPGOccNNGP.cpp | 6 88 files changed, 1982 insertions(+), 1702 deletions(-)
Title: Calculate vs-SOVs and SOVs for Assemblies with D-Dimensional
Voting
Description: Calculates vote-specific and traditional Shapley-Owen power indices (vs-SOVs and SOVs) for spatial voting games in one to four dimensions. Evaluates voter influence through an a posteriori analysis of relative preferences. Supports weighted voting and various voting thresholds. Compatible with ideal point estimates from NOMINATE, Optimal Classification, and 'MCMCpack'. The method builds on Bibina and Dougherty (2025) <doi:10.2139/ssrn.6324519>.
Author: Keith Dougherty [aut],
Emma Bibina [aut, cre]
Maintainer: Emma Bibina <emma.bibina@uga.edu>
Diff between sov versions 1.0.3 dated 2026-04-04 and 2.0.0 dated 2026-08-21
DESCRIPTION | 6 LICENSE | 2 MD5 | 26 ++- NAMESPACE | 1 NEWS.md | 4 R/plot_sov_geometry.R | 185 ++++++++++++++++++++++++++-- R/utils.R | 8 - R/vs_sov.R | 2 README.md | 21 +-- man/plot_sov_geometry.Rd |only tests/testthat/test_2d_cases.R | 24 +-- tests/testthat/test_estimate_constructors.R | 4 tests/testthat/test_plot_sov_geometry.R |only tests/testthat/test_validation.R | 8 - tests/testthat/test_vs_sov_user.R | 6 15 files changed, 239 insertions(+), 58 deletions(-)
Title: Stochastic Multi-Criteria Acceptability Analysis
Description: Implementation of the Stochastic Multi-Criteria Acceptability Analysis (SMAA) family of Multiple Criteria Decision Analysis (MCDA) methods. Tervonen, T. and Figueira, J. R. (2008) <doi:10.1002/mcda.407>.
Author: Gert van Valkenhoef [aut, cre, cph]
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between smaa versions 0.3-3 dated 2024-09-06 and 0.3-4 dated 2026-08-21
smaa-0.3-3/smaa/inst/extdata/thrombo-meas.txt.gz |only smaa-0.3-3/smaa/inst/extdata/thrombo-ranks-nopref.txt.gz |only smaa-0.3-3/smaa/inst/extdata/thrombo-values-nopref.txt.gz |only smaa-0.3-3/smaa/inst/extdata/thrombo-weights-nopref.txt.gz |only smaa-0.3-4/smaa/DESCRIPTION | 10 +- smaa-0.3-4/smaa/MD5 | 32 ++++---- smaa-0.3-4/smaa/build/partial.rdb |binary smaa-0.3-4/smaa/inst/extdata/thrombo-meas.rds |only smaa-0.3-4/smaa/inst/extdata/thrombo-ranks-nopref.rds |only smaa-0.3-4/smaa/inst/extdata/thrombo-values-nopref.rds |only smaa-0.3-4/smaa/inst/extdata/thrombo-weights-nopref.rds |only smaa-0.3-4/smaa/man/smaa-package.Rd | 4 - smaa-0.3-4/smaa/man/smaa.Rd | 4 - smaa-0.3-4/smaa/man/smaa.cf.Rd | 4 - smaa-0.3-4/smaa/man/smaa.cw.Rd | 4 - smaa-0.3-4/smaa/man/smaa.entropy.Rd | 4 - smaa-0.3-4/smaa/man/smaa.pwi.Rd | 4 - smaa-0.3-4/smaa/man/smaa.ra.Rd | 4 - smaa-0.3-4/smaa/man/smaa.ranks.Rd | 6 - smaa-0.3-4/smaa/man/smaa.values.Rd | 6 - smaa-0.3-4/smaa/tests/Examples/smaa-Ex.Rout.save | 48 ++++++------- 21 files changed, 66 insertions(+), 64 deletions(-)
Title: Simplex Regression Models with Parametric or Fixed Mean Link
Functions
Description: Fits and analyzes simplex regression models with either
fixed or parametric mean link functions. Implements the simplex
probability density function, cumulative distribution function,
quantile function, random number generation, and variance evaluation.
Offers several fixed and parametric link functions for the mean
submodel, tools for residual analysis and diagnostic plotting,
hypothesis testing procedures, and influence measures such as Cook's
distance and leverage (hat values). Includes the Scout Score (SS)
criterion for model selection, enabling comprehensive inference and
diagnostic analysis within the simplex regression framework.
For more details see Barndorff-Nielsen and Jorgensen (1991)
<doi:10.1016/0047-259X(91)90008-P> and Justino and Cribari-Neto (2026)
<doi:10.1016/j.apm.2025.116713>.
Author: Maria Eduarda da Cruz Justino [aut, cre] ,
Francisco Cribari-Neto [ctb, ths]
Maintainer: Maria Eduarda da Cruz Justino <eueduardacruz@gmail.com>
Diff between SimplexRegression versions 0.1.5 dated 2026-07-19 and 0.1.6 dated 2026-08-21
SimplexRegression-0.1.5/SimplexRegression/man/penalized.ic.Rd |only SimplexRegression-0.1.5/SimplexRegression/man/penalized.ss.Rd |only SimplexRegression-0.1.6/SimplexRegression/DESCRIPTION | 6 SimplexRegression-0.1.6/SimplexRegression/MD5 | 41 +- SimplexRegression-0.1.6/SimplexRegression/NAMESPACE | 21 - SimplexRegression-0.1.6/SimplexRegression/NEWS.md | 18 + SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_fit.R | 2 SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_ic.R |only SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_methods.R | 141 ---------- SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_penalized_ic.R | 26 - SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_sscriteria.R | 10 SimplexRegression-0.1.6/SimplexRegression/inst/WORDLIST | 10 SimplexRegression-0.1.6/SimplexRegression/inst/doc/relative-humidity.R | 11 SimplexRegression-0.1.6/SimplexRegression/inst/doc/relative-humidity.Rmd | 26 - SimplexRegression-0.1.6/SimplexRegression/inst/doc/relative-humidity.html | 72 ++--- SimplexRegression-0.1.6/SimplexRegression/man/ic.Rd |only SimplexRegression-0.1.6/SimplexRegression/man/ic.penalized.Rd |only SimplexRegression-0.1.6/SimplexRegression/man/simplexreg.fit.Rd | 2 SimplexRegression-0.1.6/SimplexRegression/man/simplexreg.methods.Rd | 47 --- SimplexRegression-0.1.6/SimplexRegression/man/ss.penalized.Rd |only SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_ic.R |only SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_methods.R | 100 ------- SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_penalized_ic.R | 54 +-- SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_sscriteria.R | 50 +-- SimplexRegression-0.1.6/SimplexRegression/vignettes/relative-humidity.Rmd | 26 - 25 files changed, 202 insertions(+), 461 deletions(-)
More information about SimplexRegression at CRAN
Permanent link
Title: Liquid Glass Design Themes for 'shiny' Applications
Description: Provides drop-in Liquid Glass themes for 'shiny'. Call
glass_theme() and pass the result as theme = to fluidPage(),
navbarPage(), or any 'bslib'-aware page function to get
translucent surfaces, backdrop blur, and system typography on
'Bootstrap' components. Includes light and dark presets with
runtime switching and an OS-following 'auto' mode, an iOS-style
intensity control from Ultra Clear to Tinted
(glass_intensity_slider()), and options for accent color, blur,
corner radius, and motion or tint behavior.
Author: Eric Anderson [aut, cre, cph]
Maintainer: Eric Anderson <eric.ray.anderson@gmail.com>
Diff between shinyglass versions 0.1.1 dated 2026-08-02 and 0.2.0 dated 2026-08-21
shinyglass-0.1.1/shinyglass/man/figures |only shinyglass-0.2.0/shinyglass/DESCRIPTION | 34 shinyglass-0.2.0/shinyglass/MD5 | 54 shinyglass-0.2.0/shinyglass/NAMESPACE | 8 shinyglass-0.2.0/shinyglass/NEWS.md | 138 shinyglass-0.2.0/shinyglass/R/glass-intensity.R |only shinyglass-0.2.0/shinyglass/R/glass-theme.R | 584 ++ shinyglass-0.2.0/shinyglass/R/shinyglass-package.R | 25 shinyglass-0.2.0/shinyglass/README.md | 116 shinyglass-0.2.0/shinyglass/build |only shinyglass-0.2.0/shinyglass/inst/WORDLIST | 66 shinyglass-0.2.0/shinyglass/inst/doc |only shinyglass-0.2.0/shinyglass/inst/examples/apple-glass-reference.R | 26 shinyglass-0.2.0/shinyglass/inst/examples/bslib-dashboard.R | 115 shinyglass-0.2.0/shinyglass/inst/examples/chrome-kitchen-sink.R |only shinyglass-0.2.0/shinyglass/inst/examples/demo-app.R | 46 shinyglass-0.2.0/shinyglass/inst/examples/inputs-gallery.R | 199 shinyglass-0.2.0/shinyglass/inst/examples/intensity-slider-demo.R |only shinyglass-0.2.0/shinyglass/inst/examples/plotly-gt-demo.R |only shinyglass-0.2.0/shinyglass/inst/js/shiny-glass.js | 1063 ++++ shinyglass-0.2.0/shinyglass/inst/scss/glass.scss | 2399 +++++++++- shinyglass-0.2.0/shinyglass/man/glass_intensity_slider.Rd |only shinyglass-0.2.0/shinyglass/man/glass_preset_input.Rd |only shinyglass-0.2.0/shinyglass/man/glass_resolved_preset.Rd |only shinyglass-0.2.0/shinyglass/man/glass_theme.Rd | 56 shinyglass-0.2.0/shinyglass/man/glass_theme_toggle.Rd |only shinyglass-0.2.0/shinyglass/man/observe_glass_intensity.Rd |only shinyglass-0.2.0/shinyglass/man/observe_glass_preset_input.Rd |only shinyglass-0.2.0/shinyglass/man/observe_glass_theme_toggle.Rd |only shinyglass-0.2.0/shinyglass/man/shinyglass-package.Rd | 29 shinyglass-0.2.0/shinyglass/man/update_glass_theme.Rd |only shinyglass-0.2.0/shinyglass/tests/testthat/test-glass-theme.R | 408 + shinyglass-0.2.0/shinyglass/vignettes |only 33 files changed, 4923 insertions(+), 443 deletions(-)
Title: qPCR Data Analysis
Description: Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, Wilcoxon-test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.
Author: Ghader Mirzaghaderi [aut, cre, cph]
Maintainer: Ghader Mirzaghaderi <mirzaghaderi@gmail.com>
Diff between rtpcr versions 2.1.8 dated 2026-05-21 and 2.1.9 dated 2026-08-21
rtpcr-2.1.8/rtpcr/man/figures/shiny_rtpcr.png |only rtpcr-2.1.8/rtpcr/vignettes/--find-assets.html |only rtpcr-2.1.9/rtpcr/DESCRIPTION | 9 rtpcr-2.1.9/rtpcr/MD5 | 31 rtpcr-2.1.9/rtpcr/NEWS.md | 5 rtpcr-2.1.9/rtpcr/R/ANOVA_DCt.R | 12 rtpcr-2.1.9/rtpcr/R/ANOVA_DDCt.R | 52 rtpcr-2.1.9/rtpcr/R/globalVariables.R | 3 rtpcr-2.1.9/rtpcr/inst/doc/Method.Rmd | 8 rtpcr-2.1.9/rtpcr/inst/doc/Method.html | 5 rtpcr-2.1.9/rtpcr/inst/doc/manual.R | 16 rtpcr-2.1.9/rtpcr/inst/doc/manual.Rmd | 70 - rtpcr-2.1.9/rtpcr/inst/doc/manual.html | 667 +++++----- rtpcr-2.1.9/rtpcr/inst/shinyapp/app.R | 285 +++- rtpcr-2.1.9/rtpcr/inst/shinyapp/rsconnect/shinyapps.io/mirzaghaderi/rtpcr.dcf | 4 rtpcr-2.1.9/rtpcr/inst/shinyapp/www/qPCR_Plot.jpg |only rtpcr-2.1.9/rtpcr/vignettes/Method.Rmd | 8 rtpcr-2.1.9/rtpcr/vignettes/manual.Rmd | 70 - 18 files changed, 698 insertions(+), 547 deletions(-)
Title: Distributions Compatible with Automatic Differentiation by
'RTMB'
Description: Extends the functionality of the 'RTMB' <https://kaskr.r-universe.dev/RTMB> package by providing a collection of non-standard probability distributions compatible with automatic differentiation (AD). While 'RTMB' enables flexible and efficient modelling, including random effects, its built-in support is limited to standard distributions. The package adds additional AD-compatible distributions, broadening the range of models that can be implemented and estimated using 'RTMB'. Automatic differentiation and Laplace approximation are described in Kristensen et al. (2016) <doi:10.18637/jss.v070.i05>.
Author: Jan-Ole Fischer [aut, cre]
Maintainer: Jan-Ole Fischer <jan-ole.fischer@mailbox.org>
Diff between RTMBdist versions 1.0.5 dated 2026-07-22 and 1.0.6 dated 2026-08-21
DESCRIPTION | 8 +++--- MD5 | 31 +++++++++++++---------- NAMESPACE | 7 +++++ NEWS.md | 2 + R/aaa_utils.R | 36 +++++++++++++-------------- R/combinom.R |only R/exgauss.R | 2 - R/laplace_check.R |only README.md | 5 +++ inst/doc/Examples.R | 21 +++------------ inst/doc/Examples.Rmd | 24 ++++-------------- inst/doc/Examples.html | 54 ++++++++++++++++------------------------- inst/doc/distlist.Rmd | 4 +++ inst/doc/distlist.html | 7 +++++ man/combinom.Rd |only man/laplace_check.Rd |only tests/testthat/test-combinom.R |only vignettes/Examples.Rmd | 24 ++++-------------- vignettes/distlist.Rmd | 4 +++ 19 files changed, 109 insertions(+), 120 deletions(-)
Title: A Comprehensive Interface for Accessing the Protein Data Bank
Description: Provides an R interface to the 'RCSB' Protein Data Bank ('PDB') Search
and Data APIs (<https://www.rcsb.org/>). Supports full-text, attribute,
sequence, motif, structure, and chemical searches; retrieval of entry-,
assembly-, polymer-entity-, and chemical-component-level metadata; and
conversion of API responses into analysis-ready tables and typed R objects for
reproducible structural bioinformatics workflows.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between rPDBapi versions 3.0.1 dated 2026-03-07 and 3.0.2 dated 2026-08-21
DESCRIPTION | 6 MD5 | 46 NEWS.md | 13 R/data_fetcher.R | 3 R/find_papers.R | 2 R/find_results.R | 3 R/get_fasta_from_rcsb_entry.R | 3 R/get_info.R | 2 R/get_pdb_file.R | 2 R/perform_search.R | 3 R/query_search.R | 2 build/vignette.rds |binary inst/doc/rPDBapi-structural-bioinformatics.R | 1251 +++---- inst/doc/rPDBapi-structural-bioinformatics.Rmd | 125 inst/doc/rPDBapi-structural-bioinformatics.html | 3952 ------------------------ man/data_fetcher.Rd | 2 man/find_papers.Rd | 2 man/find_results.Rd | 2 man/get_fasta_from_rcsb_entry.Rd | 2 man/get_info.Rd | 2 man/get_pdb_file.Rd | 2 man/perform_search.Rd | 2 man/query_search.Rd | 2 vignettes/rPDBapi-structural-bioinformatics.Rmd | 125 24 files changed, 927 insertions(+), 4627 deletions(-)
Title: Robust Effect Size Index (RESI) Estimation
Description: Summarize model output using a robust effect size index. The index is introduced in Vandekar, Tao, & Blume (2020, <doi:10.1007/s11336-020-09698-2>). Software paper available at <doi:10.18637/jss.v112.i03>.
Author: Megan Jones [aut],
Kaidi Kang [aut],
Simon Vandekar [aut, cre],
Gina Yu [ctb],
Xinyu Zhang [ctb]
Maintainer: Simon Vandekar <simon.vandekar@vumc.org>
Diff between RESI versions 1.4.2 dated 2026-07-24 and 1.5.1 dated 2026-08-21
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 13 + R/resi_asymptotic.R | 255 ++++++++++++++++++++++++++++++---- R/simulations.R | 55 ++++--- tests/testthat/test-resi.R | 10 - tests/testthat/test-resi_asymptotic.R | 174 +++++++++++++++++++++++ 7 files changed, 462 insertions(+), 63 deletions(-)
Title: Adds Subtotals to Data Reports
Description: Adds subtotal rows / sections (a la the 'SAS' 'Proc Tabulate' All option) to a Group By output by running a series of Group By functions with partial sets of the same variables and combining the results with the original. Can be used to add comprehensive information to a data report or to quickly aggregate Group By outputs used to gain a greater understanding of data.
Author: Yoni Aboody [aut, cre, cph]
Maintainer: Yoni Aboody <yoniaboody@gmail.com>
Diff between ReportSubtotal versions 0.1.2 dated 2024-12-02 and 0.2.1 dated 2026-08-21
DESCRIPTION | 12 +-- MD5 | 34 +++++--- NAMESPACE | 40 ++++++---- NEWS.md | 9 ++ R/ReportSubtotal-package.R | 54 +++++++------ R/subtotal_dupe_removal.R | 55 +++++++------- R/subtotal_row.R | 164 +++++++++++++----------------------------- R/subtotal_section.R | 140 +++++++++++++---------------------- R/utils.R |only README.md |only man/ReportSubtotal-package.Rd | 5 + man/subtotal_dupe_removal.Rd | 26 +++--- man/subtotal_row.Rd | 35 ++++---- man/subtotal_section.Rd | 38 +++++---- tests |only 15 files changed, 287 insertions(+), 325 deletions(-)
More information about ReportSubtotal at CRAN
Permanent link
Title: Relational Data Modeler
Description: The aim of this package is to manipulate relational
data models in R.
It provides functions to create, modify and export data models
in json format.
It also allows importing models created
with 'MySQL Workbench' (<https://www.mysql.com/products/workbench/>).
These functions are accessible through a graphical user
interface made with 'shiny'.
Constraints such as types, keys, uniqueness and mandatory fields are
automatically checked and corrected when editing a model.
Finally, real data can be confronted to a model to check their compatibility.
Author: Patrice Godard [aut, cre, cph],
Kai Lin [ctb]
Maintainer: Patrice Godard <patrice.godard@gmail.com>
Diff between ReDaMoR versions 1.0.0 dated 2026-05-19 and 1.0.1 dated 2026-08-21
DESCRIPTION | 8 ++--- MD5 | 22 ++++++++-------- NAMESPACE | 62 +++++++++++++++++++++++++++------------------- R/RelDataModel.R | 2 - R/RelTableModel.R | 2 - R/model_relational_data.R | 14 +++++----- build/vignette.rds |binary inst/doc/ReDaMoR.R | 41 +++++++++++++++++------------- inst/doc/ReDaMoR.Rmd | 41 +++++++++++++++++------------- inst/doc/ReDaMoR.html | 53 ++++++++++++++++++++------------------- inst/pkgdown.yml | 6 ++-- vignettes/ReDaMoR.Rmd | 41 +++++++++++++++++------------- 12 files changed, 161 insertions(+), 131 deletions(-)
Title: Access your Coletum's Data from API
Description: Get your data (forms, structures, answers) from Coletum
<https://coletum.com> to handle and analyse.
Author: Andre Smaniotto [aut, cre],
Marcelo Magnani [aut],
Rodrigo Sant'Ana [aut],
GeoSapiens [cph, fnd]
Maintainer: Andre Smaniotto <smaniotto@geosapiens.com.br>
Diff between RColetum versions 1.0.0 dated 2026-04-16 and 1.1.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- NEWS.md | 8 ++++++++ R/GetAnswers.R | 5 ++++- R/GetForm.R | 3 ++- R/GetForms.R | 4 ++-- R/utils.R | 2 +- man/GetAnswers.Rd | 2 +- man/GetForm.Rd | 3 ++- man/GetForms.Rd | 4 ++-- man/RColetum-package.Rd | 1 + tests/testthat/test-FlattenAnswers.R | 5 +++++ tests/testthat/test-GetAnswers.R | 6 ++++++ tests/testthat/test-GetAnswersComplexForm.R | 2 ++ tests/testthat/test-GetForms.R | 2 ++ 15 files changed, 56 insertions(+), 27 deletions(-)
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a
reparameterized and marginalized posterior sampling (RAMPS) algorithm
designed to lower autocorrelation in MCMC samples. Package performance is
tuned for large spatial datasets.
Author: Brian J Smith [aut, cre],
Jun Yan [aut],
Mary Kathryn Cowles [aut]
Maintainer: Brian J Smith <brian-j-smith@uiowa.edu>
Diff between ramps versions 0.6.18 dated 2023-03-13 and 0.6.19 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/DIC.R | 2 +- R/engine.R | 2 +- R/georamps.R | 4 ++-- R/predict.R | 4 ++-- R/utils.R | 2 +- data/NURE.R | 4 ++-- data/simJSS.R | 6 +++--- 9 files changed, 24 insertions(+), 24 deletions(-)
Title: Powerful 'SAS' Inspired Concepts for more Efficient Bigger
Outputs
Description: The main goal is to make descriptive evaluations easier to create bigger and more complex outputs in less time with less code. Introducing format containers with multilabels <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/p06ciqes4eaqo6n0zyqtz9p21nfb.htm>, a more powerful summarise which is capable to output every possible combination of the provided grouping variables in one go <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/p0jvbbqkt0gs2cn1lo4zndbqs1pe.htm>, tabulation functions which can create any table in different styles <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/n1ql5xnu0k3kdtn11gwa5hc7u435.htm> and other more readable functions. The code is optimized to work fast even with datasets of over a million observations.
Author: Tim Siebenmorgen [aut, cre, cph]
Maintainer: Tim Siebenmorgen <qol_package@proton.me>
Diff between qol versions 1.3.3 dated 2026-07-16 and 1.3.4 dated 2026-08-21
qol-1.3.3/qol/man/get_integer_length.Rd |only qol-1.3.4/qol/DESCRIPTION | 12 qol-1.3.4/qol/MD5 | 117 qol-1.3.4/qol/NAMESPACE | 7 qol-1.3.4/qol/NEWS.md | 92 qol-1.3.4/qol/R/any_table.R | 655 +++- qol-1.3.4/qol/R/apply_format.R | 23 qol-1.3.4/qol/R/build_master.R | 904 ++++- qol-1.3.4/qol/R/compute.R | 6 qol-1.3.4/qol/R/conversion.R | 6 qol-1.3.4/qol/R/crosstabs.R | 219 + qol-1.3.4/qol/R/dummy_data.R | 3 qol-1.3.4/qol/R/excel_helpers.R | 1291 +++++--- qol-1.3.4/qol/R/export_with_style.R | 62 qol-1.3.4/qol/R/frequencies.R | 314 + qol-1.3.4/qol/R/globals.R | 192 - qol-1.3.4/qol/R/html_helpers.R |only qol-1.3.4/qol/R/if_else.R | 3478 +++++++++++----------- qol-1.3.4/qol/R/import_export.R | 66 qol-1.3.4/qol/R/loading.R | 309 + qol-1.3.4/qol/R/multi_join.R | 46 qol-1.3.4/qol/R/options.R | 37 qol-1.3.4/qol/R/qol.R | 5 qol-1.3.4/qol/R/recode.R | 253 - qol-1.3.4/qol/R/renaming.R | 32 qol-1.3.4/qol/R/retain.R | 32 qol-1.3.4/qol/R/small_helpers.R | 90 qol-1.3.4/qol/R/split_by.R | 2 qol-1.3.4/qol/R/strings.R | 2 qol-1.3.4/qol/R/summarise_plus.R | 53 qol-1.3.4/qol/R/transpose_plus.R | 4 qol-1.3.4/qol/README.md | 4 qol-1.3.4/qol/inst/extdata/qol_table.min.css.txt |only qol-1.3.4/qol/inst/extdata/qol_table.min.js.txt |only qol-1.3.4/qol/inst/tinytest/test-any_table.R | 707 ++++ qol-1.3.4/qol/inst/tinytest/test-crosstabs.R | 84 qol-1.3.4/qol/inst/tinytest/test-frequencies.R | 17 qol-1.3.4/qol/inst/tinytest/test-if_else.R | 1261 ++++--- qol-1.3.4/qol/inst/tinytest/test-import_export.R | 22 qol-1.3.4/qol/inst/tinytest/test-loading.R | 123 qol-1.3.4/qol/inst/tinytest/test-multi_join.R | 18 qol-1.3.4/qol/inst/tinytest/test-options.R | 9 qol-1.3.4/qol/inst/tinytest/test-recode.R | 48 qol-1.3.4/qol/inst/tinytest/test-renaming.R | 14 qol-1.3.4/qol/inst/tinytest/test-retain.R | 4 qol-1.3.4/qol/inst/tinytest/test-small_helpers.R | 32 qol-1.3.4/qol/inst/tinytest/test-summarise_plus.R | 55 qol-1.3.4/qol/inst/tinytest/test-transpose_plus.R | 18 qol-1.3.4/qol/man/any_table.Rd | 56 qol-1.3.4/qol/man/build_master.Rd | 47 qol-1.3.4/qol/man/check_required_package.Rd |only qol-1.3.4/qol/man/combine_into_workbook.Rd | 96 qol-1.3.4/qol/man/create_table_of_contents.Rd |only qol-1.3.4/qol/man/crosstabs.Rd | 40 qol-1.3.4/qol/man/excel_output_style.Rd | 54 qol-1.3.4/qol/man/export_with_style.Rd | 27 qol-1.3.4/qol/man/frequencies.Rd | 40 qol-1.3.4/qol/man/import_export.Rd | 10 qol-1.3.4/qol/man/qol-package.Rd | 6 qol-1.3.4/qol/man/qol_options.Rd | 2 qol-1.3.4/qol/man/recode.Rd | 24 qol-1.3.4/qol/man/run_scripts.Rd |only qol-1.3.4/qol/man/save_load.Rd | 44 63 files changed, 7410 insertions(+), 3764 deletions(-)
Title: PubMed Pairwise Co-Occurrence Matrix Construction and
Visualization
Description: Queries the 'NCBI' (National Center for Biotechnology Information)
Entrez 'E-utilities' API to count pairwise co-occurrences between two sets
of terms in 'PubMed' or 'PubMed Central'. It returns a matrix-like data
frame of publication counts and can export hyperlink-enabled results in
CSV or ODS format. The package also provides heatmap helpers for
exploratory visualization of overlap patterns. Based on the method described
in Becker et al. (2003) "PubMatrix: a tool for multiplex literature mining"
<doi:10.1186/1471-2105-4-61>.
Author: Tyler Laird [aut],
Enrique Toledo [aut, cre]
Maintainer: Enrique Toledo <enriquetoledo@gmail.com>
Diff between PubMatrixR versions 1.0.0 dated 2026-03-12 and 1.0.1 dated 2026-08-21
DESCRIPTION | 16 +-- MD5 | 41 ++++--- NAMESPACE | 24 ++-- NEWS.md | 26 ++++ R/PubMatrix.R | 139 +++++++++++++++++++++----- R/heatmap_functions.R | 143 ++++++++++++++++++--------- README.md | 41 ++++--- build/vignette.rds |binary inst/WORDLIST | 23 ++++ inst/doc/WntExample.R |only inst/doc/WntExample.Rmd |only inst/doc/WntExample.html |only inst/doc/vignette.R | 15 +- inst/doc/vignette.Rmd | 18 ++- inst/doc/vignette.html | 104 +++++++++---------- man/PubMatrix.Rd | 17 +++ man/PubMatrixR-package.Rd | 2 man/plot_pubmatrix_heatmap.Rd | 42 ++++++-- man/pubmatrix_heatmap.Rd | 9 + tests/testthat/setup.R |only tests/testthat/test-heatmap.R | 130 ++++++++++++++++++++++++ tests/testthat/test-pubmatrix.R | 209 +++++++++++++++++++++++++++++++++++++--- vignettes/WntExample.Rmd |only vignettes/vignette.Rmd | 18 ++- 24 files changed, 788 insertions(+), 229 deletions(-)
Title: PS-Integrated Methods for Incorporating Real-World Evidence in
Clinical Studies
Description: High-quality real-world data can be transformed into scientific
real-world evidence for regulatory and healthcare decision-making
using proven analytical methods and techniques. For example, propensity
score (PS) methodology can be applied to select a subset of real-world
data containing patients that are similar to those in the current clinical
study in terms of baseline covariates, and to stratify the selected
patients together with those in the current study into more homogeneous
strata. Then, statistical methods such as the power prior approach or
composite likelihood approach can be applied in each stratum to draw
inference for the parameters of interest. This package provides
functions that implement the PS-integrated real-world
evidence analysis methods such as
Wang et al. (2019) <doi:10.1080/10543406.2019.1657133>,
Wang et al. (2020) <doi:10.1080/10543406.2019.1684309>, and
Chen et al. (2020) <doi:10.1080/10543406.2020.1730877>.
Author: Chenguang Wang [aut],
Trustees of Columbia University [cph] ,
Wei-Chen Chen [aut, cre]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between psrwe versions 3.2-1 dated 2026-02-18 and 3.2-2 dated 2026-08-21
DESCRIPTION | 8 +- MD5 | 35 ++++++------ NAMESPACE | 114 ++++++++++++++++++++++------------------- NEWS.md | 7 ++ R/psrwe_powerprior.R | 18 +++++- R/psrwe_powerprior_watt.R | 26 ++++++--- R/stanmodels.R | 4 - build/partial.rdb |binary demo/00Index | 2 demo/sec_7_1_ex.r |only demo/sec_7_2_ex.r |only inst/stan/powerp.stan | 8 ++ inst/stan/powerps.stan | 7 ++ inst/stan/powerps_wattcon.stan | 7 ++ inst/stan/powerpsbinary.stan | 7 ++ man/psrwe-package.Rd | 1 man/psrwe_powerp.Rd | 4 + man/psrwe_powerp_watt.Rd | 4 + man/rwe_stan.Rd | 1 src/RcppExports.cpp |only 20 files changed, 163 insertions(+), 90 deletions(-)
Title: Quantifying Animal Movement and Space-Use Patterns with
Statistical Physics
Description: Provides tools to analyse animal movement and space-use patterns from
telemetry data using methods derived from statistical physics. Methods
span displacement-based approaches, distribution fitting, space-use
metrics (including the influence of correlations on space-use), network-based
community detection, and measures of entropy and predictability.
The package enables characterisation of these patterns across spatial
and temporal scales, including variation within and among individuals
(inter- and intraspecific analyses). Outputs include interpretable
metrics and visualisations to support ecological analysis and the
investigation of fundamental movement processes. For applications of
these methods in ecological studies see Rodríguez et al. (2017)
<doi:10.1038/s41598-017-00165-0> and Sequeira et al. (2018)
<doi:10.1073/pnas.1716137115>.
Author: Hannah J. Calich [aut, cre, cph] ,
Jorge Rodriguez [aut] ,
Victor Eguiluz [aut] ,
Ana M. M. Sequeira [aut]
Maintainer: Hannah J. Calich <hannah.calich@gmail.com>
Diff between PhysMove versions 1.2.4 dated 2026-08-04 and 1.2.5 dated 2026-08-21
DESCRIPTION | 8 ++-- MD5 | 50 +++++++++++++++--------------- NEWS.md | 11 +++++- R/infomapCommunities.R | 2 - R/plotDispPDF.R | 8 ++-- R/randomise.R | 8 ++-- R/turningAngles.R | 2 - README.md | 13 +++---- inst/WORDLIST | 4 +- inst/doc/pt1_introduction.R | 7 ++-- inst/doc/pt1_introduction.Rmd | 13 ++++--- inst/doc/pt1_introduction.html | 24 ++++++++------ inst/doc/pt2_movement_patterns.R | 4 +- inst/doc/pt2_movement_patterns.Rmd | 16 ++++----- inst/doc/pt2_movement_patterns.html | 22 ++++++------- inst/doc/pt3_space_use_patterns.Rmd | 2 - inst/doc/pt3_space_use_patterns.html | 4 +- inst/doc/pt4_intraspecific_movements.Rmd | 2 - inst/doc/pt4_intraspecific_movements.html | 4 +- man/plotDispPDF.Rd | 4 +- man/randomise.Rd | 6 +-- man/turningAngles.Rd | 2 - vignettes/pt1_introduction.Rmd | 13 ++++--- vignettes/pt2_movement_patterns.Rmd | 16 ++++----- vignettes/pt3_space_use_patterns.Rmd | 2 - vignettes/pt4_intraspecific_movements.Rmd | 2 - 26 files changed, 131 insertions(+), 118 deletions(-)
Title: Parallel Factor Analysis Modelling of Longitudinal Microbiome
Data
Description: Creation and selection of PARAllel FACtor Analysis (PARAFAC)
models of longitudinal microbiome data. You can import your own data with
our import functions or use one of the example datasets to create your own
PARAFAC models. Selection of the optimal number of components can be done
using assessModelQuality() and assessModelStability(). The selected model can
then be plotted using plotPARAFACmodel(). The Parallel Factor
Analysis method was originally described by Caroll and Chang (1970)
<doi:10.1007/BF02310791> and Harshman (1970)
<https://www.psychology.uwo.ca/faculty/harshman/wpppfac0.pdf>.
Author: Geert Roelof van der Ploeg [aut, cre] ,
Johan Westerhuis [ctb] ,
Anna Heintz-Buschart [ctb] ,
Age Smilde [ctb] ,
University of Amsterdam [cph, fnd]
Maintainer: Geert Roelof van der Ploeg <roel@simula.no>
Diff between parafac4microbiome versions 1.3.2 dated 2025-07-31 and 1.3.3 dated 2026-08-21
DESCRIPTION | 12 MD5 | 62 ++-- NEWS.md | 5 R/multiwayCLR.R | 46 +-- R/multiwayCenter.R | 42 +-- R/multiwayScale.R | 44 +-- R/parafac4microbiome-package.R | 14 - R/plotModelMetric.R | 104 ++++---- R/plotModelStability.R | 236 +++++++++---------- R/plotModelTCCs.R | 112 ++++----- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Fujita2023.html | 17 - inst/doc/Introduction.html | 7 inst/doc/Shao2019.html | 19 - inst/doc/vanderPloeg2024.html | 11 man/corcondia.Rd | 48 +-- man/figures/lifecycle-deprecated.svg | 42 +-- man/figures/lifecycle-experimental.svg | 42 +-- man/figures/lifecycle-stable.svg | 58 ++-- man/figures/lifecycle-superseded.svg | 42 +-- man/importTreeSummarizedExperiment.Rd | 104 ++++---- man/parafac_core_als.Rd | 66 ++--- man/plotModelStability.Rd | 108 ++++---- man/plotModelTCCs.Rd | 44 +-- tests/testthat/test-importTreeSummarizedExperiment.R | 208 ++++++++-------- tests/testthat/test-initializePARAFAC.R | 172 ++++++------- tests/testthat/test-multiwayCLR.R | 30 +- tests/testthat/test-multiwayScale.R | 48 +-- tests/testthat/test-plotModelMetric.R | 8 tests/testthat/test-plotModelStability.R | 10 tests/testthat/test-plotModelTCCs.R | 22 - 32 files changed, 896 insertions(+), 887 deletions(-)
More information about parafac4microbiome at CRAN
Permanent link
Title: Helper Functions for Org Files
Description: Helper functions for Org files (<https://orgmode.org/>):
a generic function 'toOrg' for transforming R objects into Org
markup (most useful for data frames; there are also methods for
Dates/POSIXt) and a function to read Org tables into data frames.
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between orgutils versions 0.5-3 dated 2025-12-22 and 0.5-4 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 21 +++++++++++---------- NEWS | 6 ++++++ R/toOrg.R | 4 ++-- build/vignette.rds |binary inst/doc/orgutils_examples.R | 18 +++++++++--------- inst/doc/orgutils_examples.Rnw | 11 +++++++---- inst/doc/orgutils_examples.pdf |binary inst/tinytest/orgtable4.org | 2 ++ inst/tinytest/orgtable4b.org |only inst/tinytest/test_readOrg.R | 30 ++++++++++++++++++++++++++++++ vignettes/orgutils_examples.Rnw | 11 +++++++---- 12 files changed, 78 insertions(+), 33 deletions(-)
Title: Automated Analysis of Phenotypic Data
Description: Provides functions to analyze and visualize meristic, mensural, and categorical
phenotypic data in a comparative framework. The package implements an
automated pipeline that summarizes traits, identifies diagnostic variables
among groups, performs multivariate and univariate statistical analyses, and
produces publication-ready graphics. Earlier implementation are
described in Torres (2025) <doi:10.64898/2025.12.18.695244> (v1.0.0)
and Torres (2026) <doi:10.1002/ece3.73111> (v2.0.0).
Author: Javier Torres [aut, cre]
Maintainer: Javier Torres <metalofis@gmail.com>
Diff between Orangutan versions 2.1.0 dated 2026-03-31 and 2.2.0 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 14 - NAMESPACE | 2 R/Orangutan.R | 360 ++++++++++++++++++++++++++++++++++++++++++++++++--- R/html_report.R | 105 ++++++++++++-- R/imports.R | 4 README.md | 53 +++++-- man/run_orangutan.Rd | 16 +- 8 files changed, 494 insertions(+), 68 deletions(-)
Title: N-Way Partial Least Squares Modelling of Multi-Way Data
Description: Creation and selection of N-way Partial Least Squares (NPLS) models. Selection of the optimal number of components can be done using ncrossreg(). NPLS was originally described by Rasmus Bro, see <doi:10.1002/%28SICI%291099-128X%28199601%2910%3A1%3C47%3A%3AAID-CEM400%3E3.0.CO%3B2-C>.
Author: Geert Roelof van der Ploeg [aut, cre] ,
Johan Westerhuis [ctb] ,
Anna Heintz-Buschart [ctb] ,
Age Smilde [ctb] ,
University of Amsterdam [cph, fnd]
Maintainer: Geert Roelof van der Ploeg <roel@simula.no>
Diff between NPLStoolbox versions 1.1.0 dated 2025-07-31 and 1.1.1 dated 2026-08-21
DESCRIPTION | 13 ++++---- MD5 | 10 +++--- NEWS.md | 5 +++ R/data.R | 66 ++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/Introduction.html | 5 ++- 6 files changed, 53 insertions(+), 46 deletions(-)
Title: Derivation of Regression-Based Normative Data
Description: Normative data are often used to estimate the relative position of a raw test score in the population. This package allows for deriving regression-based normative data. It includes functions that enable the fitting of regression models for the mean and residual (or variance) structures, test the model assumptions, derive the normative data in the form of normative tables or automatic scoring sheets, and estimate confidence intervals for the norms. This package accompanies the book Van der Elst, W. (2024). Regression-based normative data for psychological assessment. A hands-on approach using R. Springer Nature.
Author: Wim Van der Elst [aut, cre]
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between NormData versions 1.1 dated 2024-04-12 and 1.2 dated 2026-08-21
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- R/Bootstrap.Stage.2.NormScore.R | 2 +- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Tools for Creating Publication-Ready Regression Tables
Description: Simplifies regression modeling in R by integrating multiple modeling and summarization
tools into a cohesive, user-friendly interface. Designed to be accessible for researchers,
particularly those in Low- and Middle-Income Countries (LMIC). Built upon widely accepted
statistical methods, including logistic regression (Hosmer et al. 2013, ISBN:9781118548429),
log-binomial regression (Spiegelman and Hertzmark 2005 <doi:10.1093/aje/kwi188>),
Firth penalized logistic regression (Firth 1993 <doi:10.1093/biomet/80.1.27>),
Poisson and robust Poisson regression (Zou 2004 <doi:10.1093/aje/kwh090>),
negative binomial regression (Hilbe 2011, ISBN:9780521179515), Cox proportional
hazards regression, parametric survival regression, causal mediation analysis,
and linear regression
(Kutner et al. 2005, ISBN:9780071122214). Leverages multiple dependencies to ensure
high-quality output and generate reproducible, publication-ready tables in alignment with
best practices in epidemiology [...truncated...]
Author: Rubeshkumar Polani [aut, cre] ,
Salin K Eliyas [aut] ,
Manikandanesan Sakthivel [aut] ,
Mogan Kaviprawin [aut] ,
Yuvaraj Krishnamoorthy [aut] ,
Marie Gilbert Majella [aut]
Maintainer: Rubeshkumar Polani <rubesh@thinkdenominator.com>
Diff between gtregression versions 1.0.0 dated 2025-08-18 and 1.1.0 dated 2026-08-21
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gtregression-1.1.0/gtregression/man/uni_reg.Rd | 106 gtregression-1.1.0/gtregression/tests/testthat/test-app-reference-levels.R |only gtregression-1.1.0/gtregression/tests/testthat/test-check_collinearity.R | 320 ++ gtregression-1.1.0/gtregression/tests/testthat/test-check_convergence.R | 365 ++- gtregression-1.1.0/gtregression/tests/testthat/test-check_ph.R |only gtregression-1.1.0/gtregression/tests/testthat/test-compare_models.R |only gtregression-1.1.0/gtregression/tests/testthat/test-cox_reg.R |only gtregression-1.1.0/gtregression/tests/testthat/test-data-prep-operations.R |only gtregression-1.1.0/gtregression/tests/testthat/test-data_diabetes_mediation.R |only gtregression-1.1.0/gtregression/tests/testthat/test-data_endometrial.R |only gtregression-1.1.0/gtregression/tests/testthat/test-descriptive_table.R | 539 ++-- gtregression-1.1.0/gtregression/tests/testthat/test-dissect.R | 161 - gtregression-1.1.0/gtregression/tests/testthat/test-fit_multi_model.R | 153 - gtregression-1.1.0/gtregression/tests/testthat/test-fit_uni_model.R | 140 - gtregression-1.1.0/gtregression/tests/testthat/test-forest_reg.R |only gtregression-1.1.0/gtregression/tests/testthat/test-gtregression_app.R |only gtregression-1.1.0/gtregression/tests/testthat/test-helper_labels.R | 50 gtregression-1.1.0/gtregression/tests/testthat/test-helpers_validation.R | 195 + gtregression-1.1.0/gtregression/tests/testthat/test-identify_confounder.R | 446 +++ gtregression-1.1.0/gtregression/tests/testthat/test-interaction_models.R | 425 ++- gtregression-1.1.0/gtregression/tests/testthat/test-km_plot.R |only gtregression-1.1.0/gtregression/tests/testthat/test-km_risk_table.R |only gtregression-1.1.0/gtregression/tests/testthat/test-logrank_test.R |only gtregression-1.1.0/gtregression/tests/testthat/test-mediation_analysis.R |only gtregression-1.1.0/gtregression/tests/testthat/test-merge_tables.R | 492 +++- gtregression-1.1.0/gtregression/tests/testthat/test-modify_table.R | 459 +++ gtregression-1.1.0/gtregression/tests/testthat/test-multi_reg.R | 567 +++- gtregression-1.1.0/gtregression/tests/testthat/test-option_args.R |only gtregression-1.1.0/gtregression/tests/testthat/test-plot_mediation.R |only gtregression-1.1.0/gtregression/tests/testthat/test-plot_model_fit.R |only gtregression-1.1.0/gtregression/tests/testthat/test-plot_reg.R | 536 +++- gtregression-1.1.0/gtregression/tests/testthat/test-plot_reg_combine.R | 283 +- gtregression-1.1.0/gtregression/tests/testthat/test-plot_surv_fit.R |only gtregression-1.1.0/gtregression/tests/testthat/test-reg_check_linear.R | 74 gtregression-1.1.0/gtregression/tests/testthat/test-rmst_table.R |only gtregression-1.1.0/gtregression/tests/testthat/test-save_functions.R | 399 ++- gtregression-1.1.0/gtregression/tests/testthat/test-select_models.R | 407 ++- gtregression-1.1.0/gtregression/tests/testthat/test-stratified_multi_reg.R | 532 ++-- gtregression-1.1.0/gtregression/tests/testthat/test-stratified_uni_reg.R | 410 +-- gtregression-1.1.0/gtregression/tests/testthat/test-surv_model_compare.R |only gtregression-1.1.0/gtregression/tests/testthat/test-surv_predict.R |only gtregression-1.1.0/gtregression/tests/testthat/test-surv_reg.R |only gtregression-1.1.0/gtregression/tests/testthat/test-survival_prob.R |only gtregression-1.1.0/gtregression/tests/testthat/test-survival_quantiles.R |only gtregression-1.1.0/gtregression/tests/testthat/test-survival_summary.R |only gtregression-1.1.0/gtregression/tests/testthat/test-uni_reg.R | 395 ++- gtregression-1.1.0/gtregression/tests/testthat/test-variable_labels.R |only gtregression-1.1.0/gtregression/vignettes/causal-mediation.Rmd |only gtregression-1.1.0/gtregression/vignettes/confounding-interaction.Rmd |only gtregression-1.1.0/gtregression/vignettes/customize-export.Rmd |only gtregression-1.1.0/gtregression/vignettes/descriptive-tables.Rmd |only gtregression-1.1.0/gtregression/vignettes/diagnostics-selection.Rmd |only gtregression-1.1.0/gtregression/vignettes/function-options.Rmd |only gtregression-1.1.0/gtregression/vignettes/gtregression-app.Rmd |only gtregression-1.1.0/gtregression/vignettes/gtregression-intro.Rmd | 507 +--- gtregression-1.1.0/gtregression/vignettes/regression-tables.Rmd |only gtregression-1.1.0/gtregression/vignettes/stratified-analysis.Rmd |only gtregression-1.1.0/gtregression/vignettes/survival-analysis.Rmd |only gtregression-1.1.0/gtregression/vignettes/visualise-results.Rmd |only 232 files changed, 17081 insertions(+), 6895 deletions(-)
Title: Alternative Meta-Analysis Methods
Description: Provides alternative statistical methods for meta-analysis, including:
- bivariate generalized linear mixed models for synthesizing odds ratios, relative risks,
and risk differences
(Chu et al., 2012 <doi:10.1177/0962280210393712>)
- tests and measures for between-study heterogeneity
(Lin et al., 2017 <doi:10.1111/biom.12543>;
Wang et al., 2022 <doi:10.1002/sim.9261>;
Yu et al., 2025 <doi:10.1186/s12874-025-02719-7>);
- measures, tests, and visualization tools for publication bias, small-study effects, or related bias
(Lin and Chu, 2018 <doi:10.1111/biom.12817>;
Lin, 2019 <doi:10.1002/jrsm.1340>;
Lin, 2020 <doi:10.1177/0962280220910172>;
Shi et al., 2020 <doi:10.1002/jrsm.1415>);
- meta-analysis of combining standardized mean differences and odds ratios
(Jing et al., 2023 <doi:10.1080/10543406.2022.2105345>);
- meta-analysis of diagnostic tests for synthesizing sensitivities, specificities, etc.
(Reitsma et al., 2005 <doi:10.1016 [...truncated...]
Author: Lifeng Lin [aut, cre] ,
Yaqi Jing [ctb],
Kristine J. Rosenberger [ctb],
Linyu Shi [ctb],
Yipeng Wang [ctb],
Xing Xing [ctb] ,
Zhiyuan Yu [ctb],
Haitao Chu [aut]
Maintainer: Lifeng Lin <lifenglin@arizona.edu>
Diff between altmeta versions 4.3.1 dated 2026-04-30 and 4.4 dated 2026-08-21
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++++------ NAMESPACE | 2 +- R/meta.or.smd.R | 2 +- R/pb.timelag.R |only data/dat.sherrington.rda |only man/dat.sherrington.Rd |only man/pb.bayesian.binary.Rd | 2 +- man/pb.hybrid.binary.Rd | 6 +++--- man/pb.hybrid.generic.Rd | 6 +++--- man/pb.timelag.Rd |only 11 files changed, 24 insertions(+), 20 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-11 1.1.9
2016-02-18 1.1.5
2015-10-22 1.1.4
2013-11-05 1.1.2
2013-04-01 1.1.1
2012-09-17 1.1.0
2010-07-24 1.0.13
2010-06-09 1.0.11
2010-05-10 1.0.10
2010-05-06 1.0.8
Title: Understanding Nonlinear Mixed Effects Modeling for Population
Pharmacokinetics
Description: This shows how 'NONMEM' (Beal SL, Sheiner LB, Boeckmann AJ,
Bauer RJ. NONMEM 7.5 Users Guides. Icon plc, 2020) software works.
'NONMEM' classical estimation methods such as 'First Order (FO)
approximation', 'First Order Conditional Estimation (FOCE)', and
'Laplacian approximation' are explained. Functions are also provided
for post-run processing of NONMEM output files, generating PDF
diagnostic reports including objective function value analysis,
parameter estimates, prediction and residual diagnostics, empirical
Bayes estimate (EBE) analysis, input data summary, and individual
pharmacokinetic parameter distributions. Helper utilities for
building NONMEM-ready datasets from SDTM-style source tables are
also included.
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between nmw versions 0.3.1 dated 2026-06-09 and 0.5.1 dated 2026-08-21
nmw-0.3.1/nmw/man/AddPage.Rd |only nmw-0.3.1/nmw/man/ClosePDF.Rd |only nmw-0.3.1/nmw/man/PrepPDF.Rd |only nmw-0.3.1/nmw/man/PrinMTxt.Rd |only nmw-0.3.1/nmw/man/PrinTxt.Rd |only nmw-0.5.1/nmw/DESCRIPTION | 14 nmw-0.5.1/nmw/MD5 | 90 +-- nmw-0.5.1/nmw/NAMESPACE | 16 nmw-0.5.1/nmw/R/AddCox.R | 4 nmw-0.5.1/nmw/R/CombDmExPc.R | 6 nmw-0.5.1/nmw/R/CovStep.R | 1 nmw-0.5.1/nmw/R/InitStep.R | 14 nmw-0.5.1/nmw/R/TabStep.R | 2 nmw-0.5.1/nmw/R/ctl2nmw.R |only nmw-0.5.1/nmw/R/nm_parse.R | 36 - nmw-0.5.1/nmw/R/nm_read.R | 9 nmw-0.5.1/nmw/R/nm_stats.R | 4 nmw-0.5.1/nmw/R/nm_summary.R | 71 -- nmw-0.5.1/nmw/R/pdf_report.R | 221 +------ nmw-0.5.1/nmw/R/plot_pairs.R | 2 nmw-0.5.1/nmw/R/report_ebe.R | 908 +++++++++++++++----------------- nmw-0.5.1/nmw/R/report_indipk.R | 109 ++- nmw-0.5.1/nmw/R/report_input.R | 183 ++++-- nmw-0.5.1/nmw/R/report_ofv.R | 396 +++++++------ nmw-0.5.1/nmw/R/report_output.R | 61 +- nmw-0.5.1/nmw/R/report_param.R | 267 +++------ nmw-0.5.1/nmw/R/report_pred.R | 438 ++++++++------- nmw-0.5.1/nmw/R/report_resid.R | 710 ++++++++++++++++--------- nmw-0.5.1/nmw/R/utils_data.R | 18 nmw-0.5.1/nmw/R/utils_report.R | 58 +- nmw-0.5.1/nmw/inst/NEWS.Rd | 119 ++++ nmw-0.5.1/nmw/man/ClassifyCovariates.Rd |only nmw-0.5.1/nmw/man/GetNRecFromXML.Rd |only nmw-0.5.1/nmw/man/OFV_SCREEN_LAYOUT.Rd | 4 nmw-0.5.1/nmw/man/ReadLastTable.Rd |only nmw-0.5.1/nmw/man/SumOut.Rd | 14 nmw-0.5.1/nmw/man/TrimOut.Rd | 5 nmw-0.5.1/nmw/man/ctl2nmw.Rd |only nmw-0.5.1/nmw/man/e.Rd | 27 nmw-0.5.1/nmw/man/nmw_report_ebe.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_indipk.Rd | 11 nmw-0.5.1/nmw/man/nmw_report_input.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_ofv.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_output.Rd | 11 nmw-0.5.1/nmw/man/nmw_report_param.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_pred.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_resid.Rd | 10 nmw-0.5.1/nmw/tests |only 48 files changed, 2174 insertions(+), 1715 deletions(-)
Title: Latent Interaction (and Moderation) Analysis in Structural
Equation Models (SEM)
Description: Estimation of interaction (i.e., moderation) effects between latent variables
in structural equation models (SEM).
The supported methods are:
The constrained approach (Algina & Moulder, 2001).
The unconstrained approach (Marsh et al., 2004).
The residual centering approach (Little et al., 2006).
The double centering approach (Lin et al., 2010).
The latent moderated structural equations (LMS) approach (Klein & Moosbrugger, 2000).
The quasi-maximum likelihood (QML) approach (Klein & Muthén, 2007)
The constrained- unconstrained, residual- and double centering- approaches
are estimated via 'lavaan' (Rosseel, 2012), whilst the LMS- and QML- approaches
are estimated via 'modsem' it self. Alternatively model can be
estimated via 'Mplus' (Muthén & Muthén, 1998-2017).
References:
Algina, J., & Moulder, B. C. (2001).
<doi:10.1207/S15328007SEM0801_3>.
"A note on estimating the Jöreskog-Yang model for latent variable interaction using 'LISREL' 8.3."
Klein, A., & Moosb [...truncated...]
Author: Kjell Solem Slupphaug [aut, cre] ,
Mehmet Mehmetoglu [ctb] ,
Matthias Mittner [ctb]
Maintainer: Kjell Solem Slupphaug <slupphaugkjell@gmail.com>
Diff between modsem versions 1.0.21 dated 2026-07-02 and 1.0.22 dated 2026-08-21
modsem-1.0.21/modsem/tests/testthat/mplusResults_a38cc9c25f40845079c9955f90f260f0.dat |only modsem-1.0.21/modsem/tests/testthat/mplusResults_f3bccb91f6126be98dccff864043cccd.dat |only modsem-1.0.21/modsem/vignettes/set_eval_false.bash |only modsem-1.0.21/modsem/vignettes/set_eval_true.bash |only modsem-1.0.22/modsem/DESCRIPTION | 9 modsem-1.0.22/modsem/MD5 | 123 - modsem-1.0.22/modsem/NAMESPACE | 10 modsem-1.0.22/modsem/R/RcppExports.R | 4 modsem-1.0.22/modsem/R/bootstrap.R | 32 modsem-1.0.22/modsem/R/calc_se_da.R | 4 modsem-1.0.22/modsem/R/construct_matrices_da.R | 17 modsem-1.0.22/modsem/R/cov_model.R | 134 - modsem-1.0.22/modsem/R/equations_lms.R | 250 ++ modsem-1.0.22/modsem/R/est_lms.R | 697 +++++-- modsem-1.0.22/modsem/R/generics_modsem_da.R | 1 modsem-1.0.22/modsem/R/inspect_da.R | 8 modsem-1.0.22/modsem/R/lavaan_labels.R | 12 modsem-1.0.22/modsem/R/model_da.R | 35 modsem-1.0.22/modsem/R/model_parameters_da.R | 94 modsem-1.0.22/modsem/R/optimize_da.R | 20 modsem-1.0.22/modsem/R/plot_interaction.R | 21 modsem-1.0.22/modsem/R/quadrature.R | 120 - modsem-1.0.22/modsem/R/reliablity_single_item.R | 29 modsem-1.0.22/modsem/R/simulate_partable.R | 184 - modsem-1.0.22/modsem/R/utils_da.R | 20 modsem-1.0.22/modsem/build/partial.rdb |binary modsem-1.0.22/modsem/build/vignette.rds |binary modsem-1.0.22/modsem/inst/doc/composites.html | 357 ++- modsem-1.0.22/modsem/inst/doc/customize_plot_interactions.html | 476 +++- modsem-1.0.22/modsem/inst/doc/customizing.html | 434 +++- modsem-1.0.22/modsem/inst/doc/estimation_lms.html | 423 +++- modsem-1.0.22/modsem/inst/doc/fit_measures_da.html | 382 +++ modsem-1.0.22/modsem/inst/doc/higher_order_interactions.html | 519 +++-- modsem-1.0.22/modsem/inst/doc/interaction_two_etas.html | 433 +++- modsem-1.0.22/modsem/inst/doc/lavaan.html | 345 ++- modsem-1.0.22/modsem/inst/doc/lms_qml.html | 430 +++- modsem-1.0.22/modsem/inst/doc/mc-lms-ord.html | 379 ++- modsem-1.0.22/modsem/inst/doc/meanstructure_lms_qml.html | 382 +++ modsem-1.0.22/modsem/inst/doc/methods.html | 377 ++- modsem-1.0.22/modsem/inst/doc/missing_lms_qml.html | 379 +++ modsem-1.0.22/modsem/inst/doc/modsem.html | 515 +++-- modsem-1.0.22/modsem/inst/doc/observed_lms_qml.html | 955 ++++++--- modsem-1.0.22/modsem/inst/doc/plot_interactions.html | 686 ++++--- modsem-1.0.22/modsem/inst/doc/quadratic.html | 399 +++- modsem-1.0.22/modsem/inst/doc/relcorr_items.html | 394 +++- modsem-1.0.22/modsem/inst/doc/simple_slopes.html | 430 +++- modsem-1.0.22/modsem/man/bootstrap_modsem.Rd | 10 modsem-1.0.22/modsem/man/modsem-package.Rd | 5 modsem-1.0.22/modsem/man/modsem_inspect.Rd | 1 modsem-1.0.22/modsem/man/relcorr_single_item.Rd | 3 modsem-1.0.22/modsem/src/RcppExports.cpp | 22 modsem-1.0.22/modsem/src/equations_lms.cpp | 365 +++ modsem-1.0.22/modsem/tests/testthat/mplusResults.inp | 49 modsem-1.0.22/modsem/tests/testthat/mplusResults.out | 974 ---------- modsem-1.0.22/modsem/tests/testthat/mplusResults_034950db9f6a046dcbf4348715ec98cb.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_1902fe5a594fdff027c6f333f1b42374.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_1d99a51710dbe72680bd2167846dfc39.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_3d0f8823f6af05dbc789d0ed60a54090.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_6507283a847451aff127c84c87ebd81b.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_6bb11f99c9f63d831155403fa8debc11.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_ad18af3b9c89a45fac7dc52df3607909.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_c0d691516a85482200cebd668c136807.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_cef7da5bcf84a819ec0f66c18d6ea355.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_d4fd46d7e74eb5a0b73e2cb1369c4b51.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_e8725a6185cbe0286c28c26f935f24e2.dat |only modsem-1.0.22/modsem/tests/testthat/test_grad_lms.R | 12 modsem-1.0.22/modsem/tests/testthat/test_labels_h0_pi.R | 2 modsem-1.0.22/modsem/tests/testthat/test_lms.R | 3 modsem-1.0.22/modsem/tests/testthat/test_ordered_da.R | 6 modsem-1.0.22/modsem/tests/testthat/test_rescov_eta_xi_lms.R | 46 70 files changed, 8049 insertions(+), 3968 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 0.22.0 dated 2026-06-10 and 0.23.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 23 ++++++++++++----------- NAMESPACE | 34 ++++++++++++++++++++++------------ NEWS.md | 5 +++++ R/calculate_hash.R | 24 ++++++++++++++++++++---- R/leanify.R | 2 +- R/zzz.R | 2 +- man/calculate_hash.Rd | 2 +- man/figures/logo.png |binary man/hash_input.Rd | 11 +++++++++-- man/leanify_r6.Rd | 2 +- tests/testthat/test_calculate_hash.R |only tests/testthat/test_map.R | 2 +- 13 files changed, 77 insertions(+), 38 deletions(-)
Title: Inference on the Generalization Error
Description: Confidence interval and resampling methods for inference on
the generalization error.
Author: Sebastian Fischer [cre, aut] ,
Hannah Schulz-Kuempel [aut]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Diff between mlr3inferr versions 0.2.1 dated 2025-11-26 and 0.2.2 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 26 ++--- NEWS.md | 4 man/mlr3inferr-package.Rd | 3 man/mlr_measures_abstract_ci.Rd | 152 ++++++++++++++---------------- man/mlr_measures_ci.Rd | 119 ++++++++++++----------- man/mlr_measures_ci.con_z.Rd | 85 ++++++++-------- man/mlr_measures_ci.cor_t.Rd | 87 ++++++++--------- man/mlr_measures_ci.holdout.Rd | 85 ++++++++-------- man/mlr_measures_ci.ncv.Rd | 85 ++++++++-------- man/mlr_measures_ci.wald_cv.Rd | 85 ++++++++-------- man/mlr_resamplings_ncv.Rd | 114 +++++++++++----------- man/mlr_resamplings_paired_subsampling.Rd | 116 +++++++++++----------- tests/testthat/test_MeasureCiWaldCV.R | 9 + 14 files changed, 506 insertions(+), 472 deletions(-)
Title: Estimation and Diagnostics for Many-Facet Measurement Models
Description: Native R implementation of many-facet ordered-response
measurement models with arbitrary facet counts, rating-scale and
partial-credit parameterizations, a bounded generalized partial-credit
extension, and both marginal and joint maximum likelihood estimation.
The package provides a fit / diagnose / report pipeline covering
anchoring, linking, bias and differential-functioning screening, and
publication-oriented reporting summaries, with reproducibility manifests
for replay. See 'Andrich'
(1978) <doi:10.1007/BF02293814>, 'Masters' (1982)
<doi:10.1007/BF02296272>, and 'Muraki' (1992)
<doi:10.1177/014662169201600206> for the underlying ordered-response
models.
Author: Ryuya Komuro [aut, cre, cph]
Maintainer: Ryuya Komuro <ryuya.komuro.c4@tohoku.ac.jp>
Diff between mfrmr versions 0.2.2 dated 2026-07-27 and 0.2.3 dated 2026-08-21
mfrmr-0.2.2/mfrmr/R/utils-file-integrity.R |only mfrmr-0.2.3/mfrmr/DESCRIPTION | 18 mfrmr-0.2.3/mfrmr/MD5 | 395 +-- mfrmr-0.2.3/mfrmr/NAMESPACE | 171 - mfrmr-0.2.3/mfrmr/NEWS.md | 110 mfrmr-0.2.3/mfrmr/R/api-advanced.R | 568 ++++ mfrmr-0.2.3/mfrmr/R/api-as-ggplot.R | 76 mfrmr-0.2.3/mfrmr/R/api-bias-collection.R | 63 mfrmr-0.2.3/mfrmr/R/api-estimation.R | 1219 ++++++++- mfrmr-0.2.3/mfrmr/R/api-export-bundles.R | 489 +++ mfrmr-0.2.3/mfrmr/R/api-import.R | 176 + mfrmr-0.2.3/mfrmr/R/api-methods.R | 1181 ++++++++- mfrmr-0.2.3/mfrmr/R/api-plotting-extras.R | 13 mfrmr-0.2.3/mfrmr/R/api-plotting-fit-family.R | 672 ++++- mfrmr-0.2.3/mfrmr/R/api-plotting-wright-facets.R | 11 mfrmr-0.2.3/mfrmr/R/api-plotting.R | 123 mfrmr-0.2.3/mfrmr/R/api-prediction.R | 16 mfrmr-0.2.3/mfrmr/R/api-q3.R | 2 mfrmr-0.2.3/mfrmr/R/api-quadrature-sensitivity.R |only mfrmr-0.2.3/mfrmr/R/api-reporting-checklist.R | 69 mfrmr-0.2.3/mfrmr/R/api-reports.R | 409 +++ mfrmr-0.2.3/mfrmr/R/api-results.R | 269 +- 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Title: A Set of Tools for Sound Localization
Description: A set of functions and tools to conduct acoustic source localization, as well as organize and check localization data and results. The localization functions implement the modified steered response power algorithm described by Cobos et al. (2011) <doi:10.1109/LSP.2010.2091502>.
Author: Richard Hedley [cre, aut] ,
Marcus Becker [aut],
Tim Huang [aut]
Maintainer: Richard Hedley <rwhedley@gmail.com>
Diff between locaR versions 0.2.0 dated 2026-02-23 and 0.3.0 dated 2026-08-21
DESCRIPTION | 13 ++-- MD5 | 22 +++---- NAMESPACE | 1 NEWS.md | 34 ++++++---- R/spatialEntropy.R |only README.md | 21 ++++++ inst/doc/V2_Detecting_sound_sources.html | 2 inst/doc/V3_Intro_to_localize.R | 9 ++ inst/doc/V3_Intro_to_localize.Rmd | 13 ++++ inst/doc/V3_Intro_to_localize.html | 96 ++++++++++++++++++------------- man/locaR-package.Rd | 4 - man/spatialEntropy.Rd |only vignettes/V3_Intro_to_localize.Rmd | 13 ++++ 13 files changed, 154 insertions(+), 74 deletions(-)
Title: Estimation of Marginal Treatment Effects using Local
Instrumental Variables
Description: In the generalized Roy model, the marginal treatment effect (MTE) can be used as
a building block for constructing conventional causal parameters such as the average treatment
effect (ATE) and the average treatment effect on the treated (ATT). Given a treatment selection
equation and an outcome equation, the function mte() estimates the MTE via the semiparametric
local instrumental variables method or the normal selection model. The function mte_at() evaluates
MTE at different values of the latent resistance u with a given X = x, and the function mte_tilde_at()
evaluates MTE projected onto the estimated propensity score. The function ace() estimates
population-level average causal effects such as ATE, ATT, or the marginal policy relevant
treatment effect.
Author: Xiang Zhou [aut, cre]
Maintainer: Xiang Zhou <xiang_zhou@fas.harvard.edu>
Diff between localIV versions 0.3.1 dated 2020-06-26 and 0.3.2 dated 2026-08-21
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 2 +- NEWS.md | 6 ++++++ R/mte_tilde_at.R | 17 ++++++++--------- man/figures/README-mte_tilde_at-1.png |binary man/mte_tilde_at.Rd | 17 ++++++++--------- man/toydata.Rd | 32 +++++++++++++++++--------------- 8 files changed, 52 insertions(+), 46 deletions(-)
Title: L-Infinity Normalization and Dominant Community State Types
Description: Implements L-infinity normalization for compositional matrices,
assigns samples to dominant features, constructs truncated and
hierarchically refined dominant community state types, and computes
representative landmark profiles. The methods are described in the
accompanying publication <doi:10.48550/arXiv.2503.21543>. Bundled vaginal
and gut microbiome data support reproducible demonstrations of the package
interface; phenotype fields in the stratified gut subset are illustrative
and are not suitable for population-level inference.
Author: Pawel Gajer [aut, cre]
Maintainer: Pawel Gajer <pgajer@gmail.com>
Diff between linf versions 0.1.0 dated 2026-08-05 and 0.2.0 dated 2026-08-21
linf-0.1.0/linf/man/collapse.rare.Rd |only linf-0.1.0/linf/man/expand.rare.Rd |only linf-0.1.0/linf/man/linf.cells.Rd |only linf-0.2.0/linf/DESCRIPTION | 6 linf-0.2.0/linf/MD5 | 71 - linf-0.2.0/linf/NAMESPACE | 5 linf-0.2.0/linf/NEWS.md |only linf-0.2.0/linf/R/backend_helpers.R | 16 linf-0.2.0/linf/R/dcst_landmark_pipeline.R | 16 linf-0.2.0/linf/R/landmarks.R | 100 - linf-0.2.0/linf/R/linf.R | 619 ++++------- linf-0.2.0/linf/R/transfer_dcsts.R | 10 linf-0.2.0/linf/README.md | 109 - linf-0.2.0/linf/build/partial.rdb |binary linf-0.2.0/linf/build/vignette.rds |binary linf-0.2.0/linf/inst/doc/linf-intro.R | 14 linf-0.2.0/linf/inst/doc/linf-intro.Rmd | 14 linf-0.2.0/linf/inst/doc/linf-intro.html | 16 linf-0.2.0/linf/inst/doc/linf-vaginal.R | 24 linf-0.2.0/linf/inst/doc/linf-vaginal.Rmd | 26 linf-0.2.0/linf/inst/doc/linf-vaginal.html | 28 linf-0.2.0/linf/man/dcst.view.Rd |only linf-0.2.0/linf/man/figures/readme-dcst-barplot.png |binary linf-0.2.0/linf/man/latex.linf.csts.Rd | 8 linf-0.2.0/linf/man/linf.csts.Rd | 22 linf-0.2.0/linf/man/linf.dcst.landmark.pipeline.Rd | 11 linf-0.2.0/linf/man/linf.dominant.features.Rd |only linf-0.2.0/linf/man/linf.landmarks.Rd | 10 linf-0.2.0/linf/man/refine.linf.csts.Rd | 9 linf-0.2.0/linf/man/refine.linf.csts.iter.Rd | 12 linf-0.2.0/linf/man/transfer.dcsts.Rd | 6 linf-0.2.0/linf/tests/testthat/test-dcst-landmark-pipeline.R | 24 linf-0.2.0/linf/tests/testthat/test-filter.asv.R | 32 linf-0.2.0/linf/tests/testthat/test-label-formatting.R | 18 linf-0.2.0/linf/tests/testthat/test-landmarks.R | 35 linf-0.2.0/linf/tests/testthat/test-public-terminology.R |only linf-0.2.0/linf/tests/testthat/test-sparse-backend.R | 18 linf-0.2.0/linf/tests/testthat/test-transfer-dcsts.R | 6 linf-0.2.0/linf/vignettes/linf-intro.Rmd | 14 linf-0.2.0/linf/vignettes/linf-vaginal.Rmd | 26 40 files changed, 621 insertions(+), 704 deletions(-)
Title: Post-Estimation Utilities for 'lavaan' Fitted Models
Description: Companion toolbox for structural equation models fitted with 'lavaan'. Provides post-estimation diagnostics and graphics that operate directly on a fitted object using its estimates and covariance, and refits auxiliary models when needed. The package relies on 'lavaan' (Rosseel, 2012) <doi:10.18637/jss.v048.i02>.
Author: Giuseppe Corbelli [aut, cre]
Maintainer: Giuseppe Corbelli <giuseppe.corbelli@uninettunouniversity.net>
Diff between lavinteract versions 0.5.1 dated 2026-04-28 and 0.5.3 dated 2026-08-21
DESCRIPTION | 6 - MD5 | 10 +- NEWS.md | 13 +++ R/lav_cv.R | 221 +++++++++++++++++++++++++++++++++++++--------------------- inst/WORDLIST | 2 man/lav_cv.Rd | 54 +++++++++++--- 6 files changed, 209 insertions(+), 97 deletions(-)
Title: List Things to Do
Description: Manage a 'GitHub' problem using R: wrangle issues, labels and
milestones. It includes functions for storing, prioritizing (sorting),
displaying, adding, deleting, and selecting (filtering) issues based
on qualitative and quantitative information. Issues (labels and
milestones) are written in lists and categorized into the S3 class to
be easily manipulated as datasets in R.
Author: Tanguy Barthelemy [aut, cre, art, cph]
Maintainer: Tanguy Barthelemy <tanguy.barthelemy@insee.fr>
Diff between IssueTrackeR versions 1.4.1 dated 2026-07-31 and 1.5.0 dated 2026-08-21
IssueTrackeR-1.4.1/IssueTrackeR/man/format_issues.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/format_labels.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/format_milestones.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/generate_age_mat.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/github_errors.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/plot.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/print.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/rbind.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/DESCRIPTION | 13 IssueTrackeR-1.5.0/IssueTrackeR/MD5 | 105 - IssueTrackeR-1.5.0/IssueTrackeR/NAMESPACE | 98 - IssueTrackeR-1.5.0/IssueTrackeR/NEWS.md | 29 IssueTrackeR-1.5.0/IssueTrackeR/R/check.R | 34 IssueTrackeR-1.5.0/IssueTrackeR/R/contributor.R |only IssueTrackeR-1.5.0/IssueTrackeR/R/finding-objects.R | 95 + IssueTrackeR-1.5.0/IssueTrackeR/R/format.R | 107 + IssueTrackeR-1.5.0/IssueTrackeR/R/options.R | 21 IssueTrackeR-1.5.0/IssueTrackeR/R/plot.R | 411 ++++ IssueTrackeR-1.5.0/IssueTrackeR/R/print.R | 24 IssueTrackeR-1.5.0/IssueTrackeR/R/summary.R | 8 IssueTrackeR-1.5.0/IssueTrackeR/R/update_database.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/R/utils.R | 9 IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_dataset_issues.R | 152 - IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_dataset_labels.R | 27 IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_dataset_milestones.R | 65 IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_issues.R | 145 + IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_repo.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/R/write.R | 14 IssueTrackeR-1.5.0/IssueTrackeR/R/zzz.R | 2 IssueTrackeR-1.5.0/IssueTrackeR/inst/WORDLIST | 1 IssueTrackeR-1.5.0/IssueTrackeR/inst/data_issues/closed_issues.yaml | 846 ++++++---- IssueTrackeR-1.5.0/IssueTrackeR/inst/data_issues/list_milestones.yaml | 14 IssueTrackeR-1.5.0/IssueTrackeR/inst/data_issues/open_issues.yaml | 634 +++++-- IssueTrackeR-1.5.0/IssueTrackeR/man/author_last_comment.Rd | 11 IssueTrackeR-1.5.0/IssueTrackeR/man/count_issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/extract_nth.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/get.Rd | 27 IssueTrackeR-1.5.0/IssueTrackeR/man/get_all_repos.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/new_issue.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/new_issues.Rd | 12 IssueTrackeR-1.5.0/IssueTrackeR/man/plot-issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/print-issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/rbind-issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/reset_options.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/summary.Rd | 2 IssueTrackeR-1.5.0/IssueTrackeR/man/update_database.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/with_comments.Rd | 6 IssueTrackeR-1.5.0/IssueTrackeR/man/with_labels.Rd | 2 IssueTrackeR-1.5.0/IssueTrackeR/man/with_text.Rd | 2 IssueTrackeR-1.5.0/IssueTrackeR/man/write.Rd | 13 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/data/closed_issues.yaml | 31 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/helper.R | 58 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-add_n_years.R | 4 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-bin_count.R | 34 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-count_issues.R |only IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-extract.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-finding.R | 37 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-get.R | 21 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-isDark.R | 4 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-plot.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-summary.R | 24 61 files changed, 2203 insertions(+), 1011 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington', 'Ludwig' and Omnivariant Generalised Least-Squares ('OGLS') approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isoch [...truncated...]
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 6.8 dated 2025-10-27 and 7.0 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 77 +++++++-------- R/LRisochron.R |only R/ThU.R | 14 ++ R/UPb.R | 15 +- R/age.R | 2 R/agespectrum.R | 51 +++++---- R/bayes.R | 20 +-- R/cad.R | 46 ++++++-- R/central.R | 13 ++ R/ci.R | 1 R/concordia.R | 266 ++++++++++++++++++++++++++++++++++++++++------------ R/discordia.R | 134 ++++++++++++++------------ R/diseq.R | 21 ++-- R/errorellipse.R | 14 +- R/evolution.R | 36 ++++--- R/flipper.R | 41 ++++++-- R/helioplot.R | 13 +- R/io.R | 8 - R/isochron.R | 236 +++++++++++++++++++++------------------------- R/ludwig.R | 4 R/mds.R | 7 - R/peakfit.R | 7 - R/radialplot.R | 135 ++++++++++++++++---------- R/regression.R | 7 + R/toolbox.R | 15 +- R/weightedmean.R | 99 ++++++++++++------- R/york.R | 54 ++++------ R/york2ludwig.R | 64 ++++++++---- man/agespectrum.Rd | 12 ++ man/cad.Rd | 32 ++++-- man/concordia.Rd | 28 +++++ man/data2york.Rd | 30 ++--- man/diss.Rd | 3 man/evolution.Rd | 6 - man/helioplot.Rd | 7 + man/isochron.Rd | 14 +- man/radialplot.Rd | 17 +++ man/scatterplot.Rd | 10 + man/weightedmean.Rd | 17 +++ 40 files changed, 1014 insertions(+), 570 deletions(-)
Title: ISO 3166-1 Country Codes
Description: ISO 3166-1 country codes and ISO 4217 currency codes provided
by the International Organization for Standardization.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between isocountry versions 0.6.1 dated 2026-06-29 and 0.7.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/data.R | 11 ++++++++--- data/isocurrency.rda |binary man/isocountry.Rd | 7 +++++-- man/isocurrency.Rd | 5 ++++- 7 files changed, 31 insertions(+), 16 deletions(-)
Title: Interpretable Contextual-Accountable and Responsible Machine
Learning
Description: A general-purpose framework for Interpretable Contextual-Accountable
and Responsible Machine Learning (ICARM) that works with any clean tabular
data across any application domain including healthcare, finance, social
science, business, and education. Automatically detects whether a prediction
task is binary classification, multi-class classification, or regression
from the target variable type. Provides a unified entry point icarm_fit()
supporting both interpretable learners (Classification and Regression Trees
(CART), logistic regression, linear regression, Generalized Additive Models
(GAM)) and extended learners (random forest, 'XGBoost', Support Vector
Machines (SVM)) with consistent interfaces for global and local model
explanation including approximate SHapley Additive exPlanations (SHAP)
values and Partial Dependence Profiles (PDPs), learning curve diagnostics,
group-level fairness auditing across protected attributes, probability
calibration, threshold analysis, multi-model comp [...truncated...]
Author: Olushina Olawale Awe [aut, cre],
Ludwigsburg University of Education [fnd]
Maintainer: Olushina Olawale Awe <olawaleawe@gmail.com>
Diff between icarm versions 0.2.0 dated 2026-07-09 and 0.3.0 dated 2026-08-21
DESCRIPTION | 13 +- MD5 | 26 ++-- NAMESPACE | 9 + R/data.R | 2 R/icarm_ale.R |only R/icarm_core.R | 4 R/icarm_cv.R |only R/icarm_drift.R |only R/icarm_fit.R | 300 ++++++++++++++++++++++++++++++++++++++++++------ R/icarm_shap.R | 2 R/plots.R | 164 ++++++++++++++++++++++++-- R/utils_internal.R | 266 +++++++++++++++++++++--------------------- build |only man/icarm_ale.Rd |only man/icarm_cv.Rd |only man/icarm_drift.Rd |only man/icarm_plot_ale.Rd |only man/icarm_plot_cv.Rd |only man/icarm_plot_drift.Rd |only 19 files changed, 592 insertions(+), 194 deletions(-)
Title: Reproducible and Flexible Label Design
Description: An open-source R package to deploys reproducible and flexible labels using layers.
The 'huito' package is part of the 'inkaverse' project for developing different procedures and
tools used in plant science and experimental designs.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
Victor-Hugo Baldera-Chaponan [aut] ,
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flozanoisla@gmail.com>
Diff between huito versions 0.2.6 dated 2025-10-18 and 0.2.7 dated 2026-08-21
huito-0.2.6/huito/inst/doc/germinar.R |only huito-0.2.6/huito/inst/doc/germinar.Rmd |only huito-0.2.6/huito/inst/doc/germinar.html |only huito-0.2.6/huito/inst/doc/huito.Rmd |only huito-0.2.6/huito/inst/doc/labels.R |only huito-0.2.6/huito/inst/doc/labels.html |only huito-0.2.6/huito/inst/doc/labels.qmd |only huito-0.2.6/huito/inst/doc/stickers.R |only huito-0.2.6/huito/inst/doc/stickers.Rmd |only huito-0.2.6/huito/inst/doc/stickers.html |only huito-0.2.6/huito/vignettes/germinar.Rmd |only huito-0.2.6/huito/vignettes/huito |only huito-0.2.6/huito/vignettes/huito.Rmd |only huito-0.2.6/huito/vignettes/huito.zip |only huito-0.2.6/huito/vignettes/labels.qmd |only huito-0.2.6/huito/vignettes/stickers.Rmd |only huito-0.2.7/huito/DESCRIPTION | 14 - huito-0.2.7/huito/MD5 | 69 +++--- huito-0.2.7/huito/NEWS.md | 7 huito-0.2.7/huito/R/image_import.R | 43 ++-- huito-0.2.7/huito/R/include_image.R | 64 +++--- huito-0.2.7/huito/R/label_print.R | 192 +++++++++++------- huito-0.2.7/huito/README.md | 41 ++- huito-0.2.7/huito/build/vignette.rds |binary huito-0.2.7/huito/inst/doc/GerminaR.R |only huito-0.2.7/huito/inst/doc/GerminaR.html |only huito-0.2.7/huito/inst/doc/GerminaR.qmd |only huito-0.2.7/huito/inst/doc/horizontal.R |only huito-0.2.7/huito/inst/doc/horizontal.html |only huito-0.2.7/huito/inst/doc/horizontal.qmd |only huito-0.2.7/huito/inst/doc/huito.R | 97 +++++++-- huito-0.2.7/huito/inst/doc/huito.html | 260 +++++++++++++++---------- huito-0.2.7/huito/inst/doc/huito.qmd |only huito-0.2.7/huito/inst/doc/inkaverse.R |only huito-0.2.7/huito/inst/doc/inkaverse.html |only huito-0.2.7/huito/inst/doc/inkaverse.qmd |only huito-0.2.7/huito/inst/doc/package.R |only huito-0.2.7/huito/inst/doc/package.html |only huito-0.2.7/huito/inst/doc/package.qmd |only huito-0.2.7/huito/inst/doc/vertical.R |only huito-0.2.7/huito/inst/doc/vertical.html |only huito-0.2.7/huito/inst/doc/vertical.qmd |only huito-0.2.7/huito/man/image_import.Rd | 4 huito-0.2.7/huito/man/include_image.Rd | 14 + huito-0.2.7/huito/man/label_print.Rd | 11 - huito-0.2.7/huito/man/reexports.Rd | 2 huito-0.2.7/huito/vignettes/GerminaR.qmd |only huito-0.2.7/huito/vignettes/horizontal.qmd |only huito-0.2.7/huito/vignettes/huito-package.md |only huito-0.2.7/huito/vignettes/huito.qmd |only huito-0.2.7/huito/vignettes/inkaverse.qmd |only huito-0.2.7/huito/vignettes/logo_inkaverse.jpg |only huito-0.2.7/huito/vignettes/package.qmd |only huito-0.2.7/huito/vignettes/vertical.qmd |only 54 files changed, 520 insertions(+), 298 deletions(-)
Title: Fit the Meta-D' Model of Confidence Ratings Using 'brms'
Description: Implementation of Bayesian regressions over the meta-d' model of
psychological data from two alternative forced choice tasks with
ordinal confidence ratings. For more information, see
Maniscalco & Lau (2012) <doi:10.1016/j.concog.2011.09.021>.
The package is a front-end to the 'brms' package, which facilitates a wide
range of regression designs, as well as tools for efficiently extracting
posterior estimates, plotting, and significance testing.
Author: Kevin O'Neill [aut, cre, cph] ,
Stephen Fleming [aut, cph]
Maintainer: Kevin O'Neill <kevin.o'neill@ucl.ac.uk>
Diff between hmetad versions 0.1.2 dated 2026-05-15 and 0.2.0 dated 2026-08-21
hmetad-0.1.2/hmetad/R/roc_draws.R |only hmetad-0.1.2/hmetad/man/response_probabilities.Rd |only hmetad-0.2.0/hmetad/DESCRIPTION | 8 hmetad-0.2.0/hmetad/MD5 | 108 +-- hmetad-0.2.0/hmetad/NAMESPACE | 60 + hmetad-0.2.0/hmetad/NEWS.md | 14 hmetad-0.2.0/hmetad/R/auroc1_draws.R |only hmetad-0.2.0/hmetad/R/auroc2_draws.R |only hmetad-0.2.0/hmetad/R/epred_draws_metad.R | 142 +++- hmetad-0.2.0/hmetad/R/hmetad-package.R | 1 hmetad-0.2.0/hmetad/R/hmetad.R | 288 ++++---- hmetad-0.2.0/hmetad/R/linpred_draws_metad.R | 1 hmetad-0.2.0/hmetad/R/mean_confidence_draws.R | 114 ++- hmetad-0.2.0/hmetad/R/metacognitive_bias_draws.R | 23 hmetad-0.2.0/hmetad/R/metad_family.R | 26 hmetad-0.2.0/hmetad/R/predicted_draws_metad.R | 91 +- hmetad-0.2.0/hmetad/R/roc1_draws.R |only hmetad-0.2.0/hmetad/R/roc2_draws.R |only hmetad-0.2.0/hmetad/R/simulate.R | 205 +++--- hmetad-0.2.0/hmetad/R/type1_draws.R |only hmetad-0.2.0/hmetad/R/type2_draws.R |only hmetad-0.2.0/hmetad/README.md | 288 ++++---- hmetad-0.2.0/hmetad/inst/doc/alternative_distributions.R | 8 hmetad-0.2.0/hmetad/inst/doc/alternative_distributions.Rmd | 8 hmetad-0.2.0/hmetad/inst/doc/alternative_distributions.html | 46 - hmetad-0.2.0/hmetad/inst/doc/categorical.Rmd | 244 +++---- hmetad-0.2.0/hmetad/inst/doc/categorical.html | 248 +++---- hmetad-0.2.0/hmetad/inst/doc/hmetad.R | 45 - hmetad-0.2.0/hmetad/inst/doc/hmetad.Rmd | 49 - hmetad-0.2.0/hmetad/inst/doc/hmetad.html | 385 ++++++------ hmetad-0.2.0/hmetad/inst/doc/parameterization.Rmd | 9 hmetad-0.2.0/hmetad/inst/doc/parameterization.html | 20 hmetad-0.2.0/hmetad/man/aggregate_metad.Rd | 8 hmetad-0.2.0/hmetad/man/auroc1.Rd |only hmetad-0.2.0/hmetad/man/auroc1_draws.Rd |only hmetad-0.2.0/hmetad/man/auroc2.Rd |only hmetad-0.2.0/hmetad/man/auroc2_draws.Rd |only hmetad-0.2.0/hmetad/man/bias_draws.Rd | 20 hmetad-0.2.0/hmetad/man/epred_draws_metad.Rd | 33 - hmetad-0.2.0/hmetad/man/fit_metad.Rd | 7 hmetad-0.2.0/hmetad/man/hmetad-package.Rd | 2 hmetad-0.2.0/hmetad/man/joint_probabilities.Rd |only hmetad-0.2.0/hmetad/man/mean_conf_draws.Rd | 14 hmetad-0.2.0/hmetad/man/mean_confidence.Rd |only hmetad-0.2.0/hmetad/man/metad.Rd | 12 hmetad-0.2.0/hmetad/man/predicted_draws_metad.Rd | 30 hmetad-0.2.0/hmetad/man/roc1.Rd |only hmetad-0.2.0/hmetad/man/roc1_draws.Rd | 36 - hmetad-0.2.0/hmetad/man/roc2.Rd |only hmetad-0.2.0/hmetad/man/roc2_draws.Rd | 56 + hmetad-0.2.0/hmetad/man/sim_metad.Rd | 24 hmetad-0.2.0/hmetad/man/sim_metad_condition.Rd | 20 hmetad-0.2.0/hmetad/man/sim_metad_participant.Rd | 51 - hmetad-0.2.0/hmetad/man/sim_metad_participant_condition.Rd | 48 - hmetad-0.2.0/hmetad/man/type1_draws.Rd |only hmetad-0.2.0/hmetad/man/type1_probabilities.Rd |only hmetad-0.2.0/hmetad/man/type2_draws.Rd |only hmetad-0.2.0/hmetad/man/type2_probabilities.Rd |only hmetad-0.2.0/hmetad/tests/testthat/test-draws.R | 272 +++++++- hmetad-0.2.0/hmetad/tests/testthat/test-hmetad.R | 9 hmetad-0.2.0/hmetad/vignettes/alternative_distributions.Rmd | 8 hmetad-0.2.0/hmetad/vignettes/categorical.Rmd | 244 +++---- hmetad-0.2.0/hmetad/vignettes/hmetad.Rmd | 49 - hmetad-0.2.0/hmetad/vignettes/parameterization.Rmd | 9 hmetad-0.2.0/hmetad/vignettes/src/_categorical.Rmd | 4 65 files changed, 2023 insertions(+), 1364 deletions(-)
Title: Convert Addresses to Standard Inputs
Description: Efficient tools for parsing and standardizing Australian
addresses from textual data. It utilizes optimized algorithms to accurately identify and
extract components of addresses, such as street names, types, and postcodes, especially
for large batched data in contexts where sending addresses to internet services may be
slow or inappropriate. The core functionality is built on fast string processing techniques
to handle variations in address formats and abbreviations commonly found in Australian
address data. Designed for data scientists, urban planners, and logistics analysts, the
package facilitates the cleaning and normalization of address information, supporting
better data integration and analysis in urban studies, geography, and related fields.
Author: Hugh Parsonage [aut, cre]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between healthyAddress versions 0.5.1 dated 2025-11-11 and 0.5.2 dated 2026-08-21
healthyAddress-0.5.1/healthyAddress/inst/extdata/street-names.txt |only healthyAddress-0.5.2/healthyAddress/DESCRIPTION | 8 healthyAddress-0.5.2/healthyAddress/MD5 | 135 - healthyAddress-0.5.2/healthyAddress/NAMESPACE | 84 healthyAddress-0.5.2/healthyAddress/NEWS.md | 7 healthyAddress-0.5.2/healthyAddress/R/HashStreetName.R | 94 - healthyAddress-0.5.2/healthyAddress/R/NumberSuffix2raw.R | 44 healthyAddress-0.5.2/healthyAddress/R/anyComma.R | 20 healthyAddress-0.5.2/healthyAddress/R/check_address_input.R | 6 healthyAddress-0.5.2/healthyAddress/R/concat_upper.R | 28 healthyAddress-0.5.2/healthyAddress/R/download_latlon_data.R | 2 healthyAddress-0.5.2/healthyAddress/R/encode_address.R | 106 - healthyAddress-0.5.2/healthyAddress/R/extract_flatNumberFirstLast.R | 64 healthyAddress-0.5.2/healthyAddress/R/extract_postcode.R | 50 healthyAddress-0.5.2/healthyAddress/R/extract_standard_address.R | 76 healthyAddress-0.5.2/healthyAddress/R/followed_by_STE_POSTCODE.R | 8 healthyAddress-0.5.2/healthyAddress/R/get_StreetType.R | 52 healthyAddress-0.5.2/healthyAddress/R/has_SaintName.R | 12 healthyAddress-0.5.2/healthyAddress/R/healthyAddress-package.R | 54 healthyAddress-0.5.2/healthyAddress/R/isPostcode.R | 14 healthyAddress-0.5.2/healthyAddress/R/latlon.R | 116 - healthyAddress-0.5.2/healthyAddress/R/match_StreetType.R | 76 healthyAddress-0.5.2/healthyAddress/R/match_word.R | 38 healthyAddress-0.5.2/healthyAddress/R/max_nchar.R | 12 healthyAddress-0.5.2/healthyAddress/R/multistate_postcodes.R | 6 healthyAddress-0.5.2/healthyAddress/R/mutate_latlon.R | 80 healthyAddress-0.5.2/healthyAddress/R/n_words.R | 8 healthyAddress-0.5.2/healthyAddress/R/nany_lowercase.R | 62 healthyAddress-0.5.2/healthyAddress/R/postcode2ste.R | 106 - healthyAddress-0.5.2/healthyAddress/R/read_locality_by_postcode.R | 10 healthyAddress-0.5.2/healthyAddress/R/standardize_address.R | 384 ++-- healthyAddress-0.5.2/healthyAddress/R/street-types.R | 908 +++++----- healthyAddress-0.5.2/healthyAddress/R/the_XXX.R | 78 healthyAddress-0.5.2/healthyAddress/R/toupper_basic.R | 24 healthyAddress-0.5.2/healthyAddress/R/unique_Postcodes.R | 64 healthyAddress-0.5.2/healthyAddress/README.md | 78 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_000_valgrind_esplanade.R | 12 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_HashStreetName.R | 16 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_NumberSuffix2Raw.R | 18 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_THE.R | 34 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_WordData.R | 22 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_anyComma.R | 14 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_check_address_input.R | 12 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_compress_latlon.R | 40 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_concat_upper.R | 24 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_extract_flatNumberFirstLast.R | 56 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_extract_postcode.R | 12 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_followed_by_STE_POSTCODE.R | 20 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_healthyAddress.R | 880 ++++----- healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_is_postcode.R | 8 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_match_word.R | 16 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_max_nchar.R | 8 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_multistate_postcodes.R | 2 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_n_words.R | 10 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_toupper_basic.R | 8 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_unique_Postcodes.R | 32 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_which_first_strstr.R | 6 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_xnumber.R | 20 healthyAddress-0.5.2/healthyAddress/man/HashStreetName.Rd | 58 healthyAddress-0.5.2/healthyAddress/man/compress_latlon.Rd | 96 - healthyAddress-0.5.2/healthyAddress/man/download_latlon_data.Rd | 64 healthyAddress-0.5.2/healthyAddress/man/healthyAddress-package.Rd | 51 healthyAddress-0.5.2/healthyAddress/man/match_StreetType.Rd | 56 healthyAddress-0.5.2/healthyAddress/man/mutate_latlon.Rd | 42 healthyAddress-0.5.2/healthyAddress/man/nany_lowercase.Rd | 56 healthyAddress-0.5.2/healthyAddress/man/standardize_address.Rd | 206 +- healthyAddress-0.5.2/healthyAddress/man/toupper_basic.Rd | 36 healthyAddress-0.5.2/healthyAddress/man/unique_Postcodes.Rd | 54 healthyAddress-0.5.2/healthyAddress/src/StandardAddress.c | 11 69 files changed, 2462 insertions(+), 2452 deletions(-)
More information about healthyAddress at CRAN
Permanent link
Title: Explore and Import 'Metopio' Health Atlas Data and Spatial
Layers
Description: Allows for painless use of the 'Metopio' health atlas APIs
<https://metopio.com/health-atlas> to explore and import data.
'Metopio' health atlases store open public health data. See what topics
(or indicators) are available among specific populations, periods, and
geographic layers. Download relevant data along with geographic
boundaries or point datasets. Spatial datasets are returned as 'sf'
objects.
Author: Ryan Zomorrodi [aut, cre, cph]
Maintainer: Ryan Zomorrodi <rzomor2@uic.edu>
Diff between healthatlas versions 0.2.2 dated 2025-07-22 and 0.2.3 dated 2026-08-21
healthatlas-0.2.2/healthatlas/tests/testthat/_snaps |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_coverage |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_data |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_layer |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_point |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_subcategories |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_topics |only healthatlas-0.2.2/healthatlas/tests/testthat/helpers.R |only healthatlas-0.2.2/healthatlas/tests/testthat/setup.R |only healthatlas-0.2.2/healthatlas/tests/testthat/test-ha_subcategories.R |only healthatlas-0.2.2/healthatlas/vignettes/healthatlas |only healthatlas-0.2.3/healthatlas/DESCRIPTION | 11 healthatlas-0.2.3/healthatlas/MD5 | 72 -- healthatlas-0.2.3/healthatlas/NEWS.md | 4 healthatlas-0.2.3/healthatlas/R/ha_layer.R | 30 healthatlas-0.2.3/healthatlas/R/helpers.R | 8 healthatlas-0.2.3/healthatlas/README.md | 71 +- healthatlas-0.2.3/healthatlas/build/vignette.rds |binary healthatlas-0.2.3/healthatlas/inst/doc/healthatlas.R | 182 ++--- healthatlas-0.2.3/healthatlas/inst/doc/healthatlas.Rmd | 32 healthatlas-0.2.3/healthatlas/inst/doc/healthatlas.html | 346 ---------- healthatlas-0.2.3/healthatlas/man/figures/README-unnamed-chunk-9-1.png |binary healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_coverage.R | 79 -- healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_data.R | 101 +- healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_layer.R | 44 - healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_point_layer.R | 38 - healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_subcategory.R |only healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_topics.R | 54 - healthatlas-0.2.3/healthatlas/vignettes/healthatlas.Rmd | 32 29 files changed, 334 insertions(+), 770 deletions(-)
Title: Graph Drawing with Intelligent Placement (GRIP)
Description: Implements GRIP multiscale graph layout with a unified choice
between hop-count and geometry-aware edge-length graph metrics in 2D and
3D. Provides layout scoring, candidate
comparison, multiscale trace diagnostics, synthetic graph families,
and advanced experimental geodesic-KK utilities for weighted-layout
evaluation and polish. Based on Gajer and Kobourov (2002)
<doi:10.7155/jgaa.00052> and Gajer, Goodrich and Kobourov (2004)
<doi:10.1016/j.comgeo.2004.03.014>.
Author: Pawel Gajer [aut, cre]
Maintainer: Pawel Gajer <pgajer@gmail.com>
Diff between grip versions 0.1.2 dated 2026-08-05 and 0.1.3 dated 2026-08-21
grip-0.1.2/grip/man/trace.weighted.grip.Rd |only grip-0.1.2/grip/man/weighted.grip.Rd |only grip-0.1.3/grip/DESCRIPTION | 12 grip-0.1.3/grip/MD5 | 92 +-- grip-0.1.3/grip/NAMESPACE | 2 grip-0.1.3/grip/NEWS.md | 11 grip-0.1.3/grip/R/deprecated_api.R | 8 grip-0.1.3/grip/R/gmds_layout_interface.R | 19 grip-0.1.3/grip/R/grip-package.R | 10 grip-0.1.3/grip/R/grip_geodesic_misf_kk.R | 22 grip-0.1.3/grip/R/grip_layout.R | 240 +++++++++- grip-0.1.3/grip/R/grip_layout_weighted.R | 106 +--- grip-0.1.3/grip/R/grip_quality.R | 3 grip-0.1.3/grip/README.md | 51 +- grip-0.1.3/grip/inst/doc/grip-examples.Rmd | 14 grip-0.1.3/grip/inst/doc/grip-examples.html | 25 - grip-0.1.3/grip/inst/doc/grip-real-data.R | 4 grip-0.1.3/grip/inst/doc/grip-real-data.Rmd | 14 grip-0.1.3/grip/inst/doc/grip-real-data.html | 33 - grip-0.1.3/grip/inst/doc/grip-trace-and-diagnostics.R | 2 grip-0.1.3/grip/inst/doc/grip-trace-and-diagnostics.Rmd | 14 grip-0.1.3/grip/inst/doc/grip-trace-and-diagnostics.html | 20 grip-0.1.3/grip/inst/doc/weighted-grip-intro.R | 10 grip-0.1.3/grip/inst/doc/weighted-grip-intro.Rmd | 40 - grip-0.1.3/grip/inst/doc/weighted-grip-intro.html | 58 +- grip-0.1.3/grip/man/edge.kk.Rd | 7 grip-0.1.3/grip/man/globalrep.grip.Rd | 18 grip-0.1.3/grip/man/globalrep.weighted.grip.Rd | 19 grip-0.1.3/grip/man/grip-package.Rd | 10 grip-0.1.3/grip/man/grip.Rd | 90 +++ grip-0.1.3/grip/man/misf.geodesic.kk.Rd | 14 grip-0.1.3/grip/man/prepare.edge.kk.Rd | 3 grip-0.1.3/grip/man/score.misf.geodesic.kk.Rd | 8 grip-0.1.3/grip/man/trace.grip.Rd | 98 ++-- grip-0.1.3/grip/src/DrawGraph.h | 3 grip-0.1.3/grip/src/MishEngine.cpp | 2 grip-0.1.3/grip/src/MishSupport.cpp | 10 grip-0.1.3/grip/src/MishWeighted.cpp | 6 grip-0.1.3/grip/src/Point.h | 3 grip-0.1.3/grip/src/Rounding.h |only grip-0.1.3/grip/tests/testthat/helper-weighted-nd-trace-parity.R | 3 grip-0.1.3/grip/tests/testthat/test-edge-isometric-gkk.R | 7 grip-0.1.3/grip/tests/testthat/test-layout-metric-dispatch.R |only grip-0.1.3/grip/tests/testthat/test-layout-weighted-globalrep.R | 42 - grip-0.1.3/grip/tests/testthat/test-layout-weighted-trace.R | 40 - grip-0.1.3/grip/vignettes/grip-examples.Rmd | 14 grip-0.1.3/grip/vignettes/grip-real-data.Rmd | 14 grip-0.1.3/grip/vignettes/grip-trace-and-diagnostics.Rmd | 14 grip-0.1.3/grip/vignettes/weighted-grip-intro.Rmd | 40 - 49 files changed, 779 insertions(+), 496 deletions(-)
Title: Import, Inspect, Analyse, and Report Gazepoint GP3 Exports
Description: Tools for importing, inspecting, cleaning, summarising,
modelling, and reporting Gazepoint GP3 and Gazepoint Analysis CSV
exports. The package supports offline workflows for all-gaze,
fixation, pupil, area-of-interest, transition, time-course, quality-audit, and
manuscript-reporting analyses.
The package methodology is described in the peer-reviewed
software paper <doi:10.3390/jemr19040076>.
Author: Stefanos Balaskas [aut, cre]
Maintainer: Stefanos Balaskas <s.balaskas@ac.upatras.gr>
Diff between gp3tools versions 2.0.1 dated 2026-07-14 and 2.3.0 dated 2026-08-21
DESCRIPTION | 10 - MD5 | 100 ++++++++++ NAMESPACE | 59 ++++++ NEWS.md | 169 ++++++++++++++++++ R/advanced_aoi_assignment.R |only R/binocular_pupil_reconstruction.R |only R/binocular_pupil_validation.R |only R/event_detection_extensions.R |only R/event_detector_benchmarking.R |only R/event_detector_comparison.R |only R/gpbiometrics_bridge.R |only R/high_priority_signal_helpers.R |only R/naming_compatibility_aliases.R |only R/naming_policy.R |only R/performance_benchmarking.R |only R/plot_gazepoint_binocular_diagnostics.R |only R/pupil_signal_extensions.R |only R/scanpath_cluster_stability.R |only R/scanpath_clustering.R |only R/scanpath_clustering_workflow.R |only R/signal_preprocessing_workflow.R |only R/window_aoi_extensions.R |only README.md | 83 ++++++++ build/partial.rdb |only inst/CITATION | 2 inst/benchmarks |only man/add_gazepoint_aoi.Rd |only man/add_gazepoint_dynamic_aoi.Rd |only man/add_gazepoint_polygon_aoi.Rd |only man/analyse_gazepoint_binocular_sensitivity.Rd |only man/analyze_gazepoint_window.Rd |only man/audit_gazepoint_binocular_reconstruction.Rd |only man/audit_gazepoint_dynamic_aoi_coverage.Rd |only man/audit_gazepoint_naming_consistency.Rd |only man/benchmark_gazepoint_event_detectors.Rd |only man/benchmark_gazepoint_export_performance.Rd |only man/bootstrap_gazepoint_scanpath_clusters.Rd |only man/check_gazepoint_performance_regression.Rd |only man/cluster_gazepoint_scanpaths.Rd |only man/compare_gazepoint_event_detectors.Rd |only man/construct_gazepoint_combined_pupil.Rd |only man/create_gazepoint_cross_package_report.Rd |only man/create_gazepoint_event_review_template.Rd |only man/detect_gazepoint_blinks.Rd |only man/detect_gazepoint_fixations_velocity.Rd |only man/diagnose_gazepoint_binocular_pupil.Rd |only man/downsample_gazepoint_pupil.Rd |only man/extract_gazepoint_representative_scanpaths.Rd |only man/fit_gazepoint_binocular_calibration.Rd |only man/gp3tools_naming_policy.Rd |only man/gp3tools_performance_limits.Rd |only man/interpolate_gazepoint_blinks.Rd |only man/mean_gazepoint_pupil.Rd |only man/plot_gazepoint_binocular_diagnostics.Rd |only man/plot_gazepoint_event_detector_agreement.Rd |only man/plot_gazepoint_event_detector_benchmark.Rd |only man/plot_gazepoint_scanpath_cluster_stability.Rd |only man/plot_gazepoint_scanpath_clusters.Rd |only man/prepare_gazepoint_gpbiometrics_bridge.Rd |only man/preprocess_gazepoint_signals.Rd |only man/reconstruct_gazepoint_binocular_pupil.Rd |only man/regress_gazepoint_pupils.Rd |only man/run_gazepoint_gpbiometrics_workflow.Rd |only man/select_gazepoint_scanpath_clusters.Rd |only man/simulate_gazepoint_fixations.Rd |only man/smooth_gazepoint_coordinate.Rd |only man/stress_test_gazepoint_binocular_reconstruction.Rd |only man/summarise_gazepoint_binocular_reporting.Rd |only man/summarise_gazepoint_coordinate_coverage.Rd |only man/summarise_gazepoint_event_detector_agreement.Rd |only man/summarise_gazepoint_event_detector_benchmark.Rd |only man/summarise_gazepoint_face_reactivity.Rd |only man/summarise_gazepoint_face_windows.Rd |only man/summarise_gazepoint_pupil_response_features.Rd |only man/summarise_gazepoint_scanpath_cluster_stability.Rd |only man/summarise_gazepoint_time_clusters.Rd |only man/validate_gazepoint_binocular_reconstruction.Rd |only man/write_gazepoint_naming_audit.Rd |only man/write_gazepoint_performance_benchmark.Rd |only tests/testthat/helper-binocular.R |only tests/testthat/test-advanced-aoi-assignment.R |only tests/testthat/test-binocular-pupil-plots.R |only tests/testthat/test-binocular-pupil-reconstruction.R |only tests/testthat/test-binocular-pupil-validation.R |only tests/testthat/test-event-detector-benchmarking.R |only tests/testthat/test-event-detector-comparison.R |only tests/testthat/test-gpbiometrics-bridge.R |only tests/testthat/test-high-priority-signal-extensions.R |only tests/testthat/test-naming-compatibility-aliases.R |only tests/testthat/test-naming-policy.R |only tests/testthat/test-performance-benchmarking.R |only tests/testthat/test-scanpath-cluster-stability.R |only tests/testthat/test-scanpath-clustering-workflow.R |only tests/testthat/test-scanpath-clustering.R |only tests/testthat/test-signal-preprocessing-workflow.R |only 95 files changed, 405 insertions(+), 18 deletions(-)
Title: Generalized Least Squares with Measurement Error
Description: Performs linear regression with correlated predictors, responses and correlated measurement errors in predictors and responses, correcting for biased caused by these.
Author: Krzysztof Bartoszek [cre, aut, ths]
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Diff between GLSME versions 1.0.5 dated 2019-09-15 and 1.0.6 dated 2026-08-21
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ NAMESPACE | 6 +++++- inst/CITATION | 37 +++++++++++++------------------------ man/GLSME-package.Rd | 4 ++-- man/GLSME.Rd | 19 ++++++++++--------- man/GLSME.predict.Rd | 8 ++++---- 7 files changed, 46 insertions(+), 51 deletions(-)
Title: Network Meta-Analysis Using Bayesian Methods
Description: Network meta-analyses (mixed treatment comparisons) in the Bayesian
framework using JAGS. Includes methods to assess heterogeneity and
inconsistency, and a number of standard visualizations.
van Valkenhoef et al. (2012) <doi:10.1002/jrsm.1054>;
van Valkenhoef et al. (2015) <doi:10.1002/jrsm.1167>.
Author: Gert van Valkenhoef [aut, cre],
Joel Kuiper [aut]
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between gemtc versions 1.1-1 dated 2026-03-26 and 1.1-2 dated 2026-08-21
DESCRIPTION | 32 ++++++++++++++--------------- MD5 | 8 ++++--- R/inits.R | 10 ++++----- R/rtruncnorm.R |only tests/testthat/test-rturncnorm.R |only tests/testthat/test-unit-relative.effect.R | 11 +++------ 6 files changed, 30 insertions(+), 31 deletions(-)
Title: Create, Optimize, and Refine Data Nuggets
Description: Creating, optimizing and refining data nuggets.
Data nuggets reduce a large dataset into a small collection of nuggets of
data, each containing a center (location), weight (importance), and scale
(variability) parameter. Data nugget centers are selected based on a
space-filling maximum-entropy scheme. Data nugget weights are created by
counting the number observations closest to a given data nugget center.
We then say the data nugget 'contains' these observations and the data
nugget center is recalculated as the mean of these observations. Data nugget
scales are created by calculating the trace of the covariance matrix of the
observations contained within a data nugget divided by the dimension of the
dataset. The optimal number of data nuggets is determined data-driven based
on the relative second-order differences of propensity score indices. Data
nuggets are refined by 'splitting' data nuggets which have high scales or
elongated shapes (defined as the ratio of the two largest eigenva [...truncated...]
Author: Rituparna Dey [aut, cre],
Yajie Duan [aut],
Traymon Beavers [aut],
Javier Cabrera [aut],
Ge Cheng [aut],
Kunting Qi [aut],
Mariusz Lubomirski [aut]
Maintainer: Rituparna Dey <rituparnadey525@gmail.com>
Diff between datanugget versions 1.4.0 dated 2025-12-04 and 1.5.0 dated 2026-08-21
datanugget-1.4.0/datanugget/R/createDN.R |only datanugget-1.4.0/datanugget/R/create_refine.DN.R |only datanugget-1.4.0/datanugget/R/refineDN.R |only datanugget-1.4.0/datanugget/man/create_refine.DN.Rd |only datanugget-1.5.0/datanugget/DESCRIPTION | 44 +++-- datanugget-1.5.0/datanugget/MD5 | 26 +-- datanugget-1.5.0/datanugget/NAMESPACE | 6 datanugget-1.5.0/datanugget/R/create.DN.R |only datanugget-1.5.0/datanugget/R/create.DNcenters.R | 144 ++++++++++++------ datanugget-1.5.0/datanugget/R/getDN.means.R | 10 - datanugget-1.5.0/datanugget/R/optimal.DN.R |only datanugget-1.5.0/datanugget/R/refine.DN.R |only datanugget-1.5.0/datanugget/man/create.DN.Rd | 18 +- datanugget-1.5.0/datanugget/man/create.DNcenters.Rd | 2 datanugget-1.5.0/datanugget/man/datanugget-package.Rd | 4 datanugget-1.5.0/datanugget/man/getDN.means.Rd | 2 datanugget-1.5.0/datanugget/man/optimal.DN.Rd |only datanugget-1.5.0/datanugget/man/refine.DN.Rd | 71 ++++---- 18 files changed, 194 insertions(+), 133 deletions(-)
Title: Analysis of Semi-Competing Risks Data Using Copula-Based Models
Description: Simulate and analyze Semi-competing Risks Data using
copula-based models. The Semi-competing Risks Data consist of a
terminal event time and single or multiple intermediate event times.
The marginal survival functions of these event times are estimated
without parametric assumptions. The association parameters measuring dependency
among these event times involving the copula model are yielded from
solving a concordance estimating equations or maximizing a
pseudo-likelihood function. Details can be found in the article by
Tonghui Yu and Liming Xiang (2026) <doi:10.1093/biomtc/ujag087>.
Author: Tonghui Yu [aut, cre],
Binhui Zhang [aut]
Maintainer: Tonghui Yu <tonghui_yu@126.com>
Diff between CopulaSCR versions 1.0.1 dated 2026-06-12 and 1.0.2 dated 2026-08-21
DESCRIPTION | 14 +- MD5 | 86 ++++++++++------- NAMESPACE | 22 ++++ R/CalCopula.R | 2 R/CopulaSCR-package.R | 2 R/accessors.R |only R/data-doc.R | 32 +++++- R/mscr.R | 16 ++- R/plot.R | 210 +++++++++++++++++++++++++++++++++++++++++- R/plotBS.R | 29 +++-- R/predict.R | 75 +++++++++++---- R/predictscr.R | 122 ++++++++++++++++-------- R/print.R | 6 - R/scrasso.R | 20 ++-- R/scrsurv.R | 41 +++++--- R/simSCRnp.R | 4 R/simmulSCR.R | 3 R/summary.R | 191 +++++++++++++++++++++++++++++++++++++- build |only data/mimiv_demo.rda |only man/CopulaSCR-package.Rd | 2 man/SCRdata.Rd | 2 man/SCRdata_by_tr.Rd | 2 man/association_estimates.Rd |only man/brier_scores.Rd |only man/dyBS.Rd | 18 ++- man/integrated_brier_score.Rd |only man/logLik.mscr.Rd |only man/mSCRdata.Rd | 2 man/marginal_fit.Rd |only man/mimiv_demo.Rd |only man/mscr.Rd | 14 +- man/plot.mscr.Rd | 4 man/plot.scrassonp.Rd |only man/plot.scrsurv.Rd | 4 man/predict.mscr.Rd | 17 +-- man/predict.scrsurv.Rd | 12 +- man/predicted_values.Rd |only man/predictscr.Rd | 31 +++--- man/print.mscr.Rd | 2 man/print.scrassonp.Rd | 2 man/print.scrsurv.Rd | 2 man/scrassonp.Rd | 16 +-- man/scrsurv.Rd | 18 +-- man/simSCR.Rd | 2 man/simSCRmul.Rd | 2 man/simSCRtr.Rd | 2 man/summary.mscr.Rd |only man/summary.scrassonp.Rd | 2 man/summary.scrsurv.Rd |only man/terminal_survival.Rd |only 51 files changed, 799 insertions(+), 232 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. We further include functions for percentages (or proportions).
The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include:
a) Tsagris M.T., Preston S. and Wood A.T.A. (2011). "A data--based power transformation for compositional data". Fourth International International Workshop on Compositional Data Analysis. <doi:10.48550/arXiv.1106.1451>.
b) Tsagris M. (2014). "The k--NN algorithm for compositional data: a revised approach with and without zero values present". Journal of Data Science, 12(3): 519--534. <doi:10.6339/JDS.201407_12(3).0008>.
c) Tsagris M. (2015). "A novel, divergence based, regression for compositional data". Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444. <doi:10.48550/arXiv. [...truncated...]
Author: Michail Tsagris [aut, cre],
Giorgos Athineou [aut],
Abdulaziz Alenazi [ctb],
Christos Adam [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between Compositional versions 8.2 dated 2026-05-23 and 8.3 dated 2026-08-21
DESCRIPTION | 12 ++++++------ MD5 | 38 ++++++++++++++++++++++---------------- NAMESPACE | 2 +- R/bic.mixcompnorm.R | 4 +++- R/bic.mixdiri.R |only R/diri.reg.R | 2 +- R/diri.reg.irls.R |only R/fd.contour.R | 5 ----- R/mix.diri.R |only R/ternary.R | 4 ++-- R/zadr.R | 13 +++++++++---- R/zadr.irls.R |only man/Compositional-package.Rd | 4 ++-- man/bic.alfamixnorm.Rd | 2 +- man/bic.mixcompnorm.Rd | 9 ++++++--- man/bic.mixdiri.Rd |only man/diri.reg.Rd | 18 +++++++++++++++--- man/mix.diri.Rd |only man/probout.Rd | 13 ++++++------- man/tflr.Rd | 4 ++-- man/tflr.betest.Rd | 4 ++-- man/tflr.indeptest.Rd | 4 ++-- man/zadr.Rd | 12 ++++++++++++ 23 files changed, 92 insertions(+), 58 deletions(-)
Title: Oncology Extension Package for ADaM in 'R' Asset Library
Description: Programming oncology specific Clinical Data Interchange
Standards Consortium (CDISC) compliant Analysis Data Model (ADaM)
datasets in 'R'. ADaM datasets are a mandatory part of any New Drug or
Biologics License Application submitted to the United States Food and
Drug Administration (FDA). Analysis derivations are implemented in
accordance with the "Analysis Data Model Implementation Guide" (CDISC
Analysis Data Model Team (2021),
<https://www.cdisc.org/standards/foundational/adam>). The package is
an extension package of the 'admiral' package.
Author: Stefan Bundfuss [aut, cre],
Amit Jain [aut],
Vinh Nguyen [aut],
Olga Starostecka [aut],
Kiran Peddamudium [aut],
Tomoyuki Namai [aut],
Ross Farrugia [aut],
Yirong Cao [ctb],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline LLC [cph, fnd],
Bristol [...truncated...]
Maintainer: Stefan Bundfuss <stefan.bundfuss@external.roche.com>
Diff between admiralonco versions 1.4.1 dated 2026-05-21 and 1.5.0 dated 2026-08-21
DESCRIPTION | 16 - MD5 | 64 ++-- NAMESPACE | 140 ++++---- NEWS.md | 14 R/admiralonco-package.R | 25 - R/tte_sources.R | 2 README.md | 12 build/vignette.rds |binary inst/WORDLIST | 6 inst/doc/admiralonco.html | 8 inst/doc/adrs_basic.html | 34 +- inst/doc/adrs_gcig.Rmd | 2 inst/doc/adrs_gcig.html | 114 +++---- inst/doc/adrs_imwg.R | 2 inst/doc/adrs_imwg.Rmd | 2 inst/doc/adrs_imwg.html | 20 - inst/doc/adrs_lymphoma.R |only inst/doc/adrs_lymphoma.Rmd |only inst/doc/adrs_lymphoma.html |only inst/doc/adrs_pcwg3.Rmd | 2 inst/doc/adrs_pcwg3.html | 112 +++---- inst/doc/adtr.R | 4 inst/doc/adtr.Rmd | 6 inst/doc/adtr.html | 12 inst/doc/adtte.R | 127 +++++--- inst/doc/adtte.Rmd | 158 ++++++--- inst/doc/adtte.html | 696 ++++++++++++++++++++++++++++---------------- inst/templates/ad_adtr.R | 4 man/admiralonco-package.Rd | 2 vignettes/adrs_gcig.Rmd | 2 vignettes/adrs_imwg.Rmd | 2 vignettes/adrs_lymphoma.Rmd |only vignettes/adrs_pcwg3.Rmd | 2 vignettes/adtr.Rmd | 6 vignettes/adtte.Rmd | 158 ++++++--- 35 files changed, 1058 insertions(+), 696 deletions(-)
Title: Tidy, 'ggplot2'-Native Visualization for Genomic Variants
Description: A simple, opinionated toolkit for visualizing genomic variant
data using a 'ggplot2'-native grammar. Accepts VCF files or plain data
frames and produces lollipop plots, consequence summaries, mutational
spectrum charts, and cohort-level comparisons as standard 'ggplot2'
objects. Designed for both wet-lab biologists and experienced
bioinformaticians.
Author: Joash Joshua Ayo [aut, cre]
Maintainer: Joash Joshua Ayo <joashjoshua789@gmail.com>
Diff between ggvariant versions 0.1.0 dated 2026-02-27 and 0.2.0 dated 2026-08-21
ggvariant-0.1.0/ggvariant/inst/doc/introduction-to-ggvariant.R |only ggvariant-0.1.0/ggvariant/inst/doc/introduction-to-ggvariant.Rmd |only ggvariant-0.1.0/ggvariant/inst/doc/introduction-to-ggvariant.html |only ggvariant-0.1.0/ggvariant/vignettes/introduction-to-ggvariant.Rmd |only ggvariant-0.2.0/ggvariant/DESCRIPTION | 23 ggvariant-0.2.0/ggvariant/MD5 | 74 - ggvariant-0.2.0/ggvariant/NAMESPACE | 11 ggvariant-0.2.0/ggvariant/NEWS.md |only ggvariant-0.2.0/ggvariant/R/ggvariant-package.R | 19 ggvariant-0.2.0/ggvariant/R/gvf-methods.R |only ggvariant-0.2.0/ggvariant/R/plot_functions.R | 545 ++++---- ggvariant-0.2.0/ggvariant/R/plot_lollipop.R | 395 +++--- ggvariant-0.2.0/ggvariant/R/plot_oncoprint.R |only ggvariant-0.2.0/ggvariant/R/plot_tmb.R |only ggvariant-0.2.0/ggvariant/R/read_vcf.R | 653 +++++----- ggvariant-0.2.0/ggvariant/R/utils.R | 34 ggvariant-0.2.0/ggvariant/README.md | 232 +-- ggvariant-0.2.0/ggvariant/build/partial.rdb |only ggvariant-0.2.0/ggvariant/build/vignette.rds |binary ggvariant-0.2.0/ggvariant/inst/CITATION |only ggvariant-0.2.0/ggvariant/inst/REFERENCES.bib |only ggvariant-0.2.0/ggvariant/inst/doc/ggvariant.R |only ggvariant-0.2.0/ggvariant/inst/doc/ggvariant.Rmd |only ggvariant-0.2.0/ggvariant/inst/doc/ggvariant.html |only ggvariant-0.2.0/ggvariant/man/coerce_variants.Rd | 139 +- ggvariant-0.2.0/ggvariant/man/figures |only ggvariant-0.2.0/ggvariant/man/ggvariant-package.Rd | 56 ggvariant-0.2.0/ggvariant/man/gv_palette.Rd | 54 ggvariant-0.2.0/ggvariant/man/gvf-methods.Rd |only ggvariant-0.2.0/ggvariant/man/plot_consequence_summary.Rd | 134 +- ggvariant-0.2.0/ggvariant/man/plot_lollipop.Rd | 172 +- ggvariant-0.2.0/ggvariant/man/plot_oncoprint.Rd |only ggvariant-0.2.0/ggvariant/man/plot_tmb.Rd |only ggvariant-0.2.0/ggvariant/man/plot_variant_spectrum.Rd | 148 +- ggvariant-0.2.0/ggvariant/man/read_vcf.Rd | 118 + ggvariant-0.2.0/ggvariant/tests/testthat/_snaps |only ggvariant-0.2.0/ggvariant/tests/testthat/test-coerce-variants.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-core.R | 29 ggvariant-0.2.0/ggvariant/tests/testthat/test-gvf-methods.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-parse-ann-csq.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-pivot-samples-genotype.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-consequence-summary.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-lollipop.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-oncoprint.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-tmb.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-variant-spectrum.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-read-vcf-malformed.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-utils.R |only ggvariant-0.2.0/ggvariant/vignettes/ggvariant.Rmd |only 49 files changed, 1570 insertions(+), 1266 deletions(-)
Title: Visualization of 'exametrika' Output Using 'ggplot2'
Description: Provides 'ggplot2'-based visualization functions for output objects
from the 'exametrika' package, which implements test data engineering methods
described in Shojima (2022, ISBN:978-981-16-9547-1). Supports a wide range of
psychometric models including Item Response Theory, Latent Class Analysis,
Latent Rank Analysis, Biclustering (binary, ordinal, and nominal),
Bayesian Network Models, and related network models. All plot functions
return 'ggplot2' objects that can be further customized by the user.
Author: Koji Kosugi [aut, cre] ,
Daichi Kamimura [aut]
Maintainer: Koji Kosugi <kosugitti@gmail.com>
Diff between ggExametrika versions 1.1.1 dated 2026-06-15 and 1.1.2 dated 2026-08-21
ggExametrika-1.1.1/ggExametrika/tests/testthat/Rplots.pdf |only ggExametrika-1.1.1/ggExametrika/tools |only ggExametrika-1.1.2/ggExametrika/DESCRIPTION | 8 ggExametrika-1.1.2/ggExametrika/MD5 | 75 - ggExametrika-1.1.2/ggExametrika/NAMESPACE | 3 ggExametrika-1.1.2/ggExametrika/NEWS.md | 170 ++ ggExametrika-1.1.2/ggExametrika/R/Biclustering.R | 352 +---- ggExametrika-1.1.2/ggExametrika/R/GRM.R | 67 ggExametrika-1.1.2/ggExametrika/R/ICCtoTIC.R | 167 -- ggExametrika-1.1.2/ggExametrika/R/IRPtoCMPRMP.R | 693 ++-------- ggExametrika-1.1.2/ggExametrika/R/LRAordinal.R | 369 +---- ggExametrika-1.1.2/ggExametrika/R/PolyBiclustering.R | 52 ggExametrika-1.1.2/ggExametrika/R/ScoreField.R | 21 ggExametrika-1.1.2/ggExametrika/R/ScoreRank.R | 27 ggExametrika-1.1.2/ggExametrika/R/arraytoLDPSR.R | 65 ggExametrika-1.1.2/ggExametrika/R/option.R | 14 ggExametrika-1.1.2/ggExametrika/R/plotDistractor_gg.R | 21 ggExametrika-1.1.2/ggExametrika/R/plotFCBR_gg.R | 18 ggExametrika-1.1.2/ggExametrika/R/plotGraph_gg.R | 11 ggExametrika-1.1.2/ggExametrika/R/plotLDPSR_gg.R | 10 ggExametrika-1.1.2/ggExametrika/R/utils-internal.R |only ggExametrika-1.1.2/ggExametrika/R/zzz.R | 8 ggExametrika-1.1.2/ggExametrika/README.md | 158 +- ggExametrika-1.1.2/ggExametrika/man/ItemInformationFunc_GRM.Rd | 15 ggExametrika-1.1.2/ggExametrika/man/dot-apply_legend.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-axis_scaler.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_item_category.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_membership_profile.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_reference_vector.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_student_distribution.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-resolve_colors.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-resolve_title.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-validate_exametrika.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-variable_scaler.Rd |only ggExametrika-1.1.2/ggExametrika/man/plotArray_gg.Rd | 6 ggExametrika-1.1.2/ggExametrika/man/plotCRV_gg.Rd | 7 ggExametrika-1.1.2/ggExametrika/man/plotICBR_gg.Rd | 8 ggExametrika-1.1.2/ggExametrika/man/plotICRF_gg.Rd | 2 ggExametrika-1.1.2/ggExametrika/man/plotICRP_gg.Rd | 6 ggExametrika-1.1.2/ggExametrika/man/plotRRV_gg.Rd | 7 ggExametrika-1.1.2/ggExametrika/man/plotScoreFreq_gg.Rd | 2 ggExametrika-1.1.2/ggExametrika/man/plotScoreRank_gg.Rd | 2 ggExametrika-1.1.2/ggExametrika/tests/testthat/helper-setup.R | 29 ggExametrika-1.1.2/ggExametrika/tests/testthat/test-DAG-plots.R | 6 ggExametrika-1.1.2/ggExametrika/tests/testthat/test-fixtures.R |only ggExametrika-1.1.2/ggExametrika/tests/testthat/test-utility-functions.R |only 46 files changed, 957 insertions(+), 1442 deletions(-)
Title: G-Functions
Description: Modified versions of the lag() and summary() functions: glag() and gsummary(). The prefix 'g' is a reminder of who to blame if things do not work as they should.
Author: Genaro Sucarrat [aut, cre]
Maintainer: Genaro Sucarrat <gsucarrat@gmail.com>
Diff between gfunctions versions 1.1 dated 2025-07-23 and 1.2 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 10 +- NEWS | 16 +++ R/gfunctions-source-code.R | 189 +++++++++++++++++++-------------------------- man/gfunctions-package.Rd | 4 man/gsummary.Rd | 8 + 6 files changed, 114 insertions(+), 121 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre, cph],
Victor Morales-Onate [ctb],
Francisco Cuevas-Pacheco [ctb],
Christian Caamano-Carrillo [ctb]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 2.2.7 dated 2026-07-29 and 2.2.8 dated 2026-08-21
DESCRIPTION | 17 MD5 | 241 - NAMESPACE | 15 R/BivariateUtils.R |only R/BuildInfo.R |only R/CVUtils.R |only R/CoordinateValidation.R |only R/Geo3DUtils.R |only R/GeoAniso.R | 125 R/GeoCV.R | 967 +++--- R/GeoCompositeLik.r | 37 R/GeoCompositeLik2.R | 333 +- R/GeoCorrFct.r | 526 +-- R/GeoCorrFct_Cop.R | 388 -- R/GeoCovDisplay.R | 493 +++ R/GeoCovariogram.r | 933 ++++-- R/GeoCovmatrix.r | 387 +- R/GeoDistances.R | 216 + R/GeoDoScores.R | 144 R/GeoFit.R | 591 +++ R/GeoFit2.R | 101 R/GeoIndCompositeLik2.R | 28 R/GeoKrig.r | 2243 ++++++++------ R/GeoKrigWeights.R | 147 R/GeoKrigloc.R | 609 ++- R/GeoKriglocWeights.R | 996 ++++-- R/GeoLik.r | 103 R/GeoNA.R | 18 R/GeoNeighIndex.R | 241 + R/GeoNeighbSelect.R | 578 ++- R/GeoNeighborhood.R | 1157 +++++-- R/GeoPit.R | 523 +-- R/GeoQQ.R | 212 - R/GeoResiduals.r | 189 - R/GeoScatterplot.R | 2444 +++++++++++++++ R/GeoScores.R | 373 +- R/GeoSim.r | 896 +---- R/GeoSimCopula.R | 421 +- R/GeoSimapprox.r | 966 +++--- R/GeoSimcond.R | 2384 ++++----------- R/GeoSpoutlier.R | 209 - R/GeoTest.r | 501 ++- R/GeoTestIndependence.R | 231 - R/GeoTestIsotropy.R | 779 ++--- R/GeoTestsupp_space.R | 247 - R/GeoVarest.R | 1166 +++++-- R/GeoVarestbootstrap.R | 942 +++--- R/GeoVariogram.r | 1565 ++++++---- R/GeoVariogramDir.R | 23 R/GeoWls.r | 663 ++-- R/KrigUtils.R |only R/MarginalUtils.R |only R/MeanUtils.R |only R/Optimize1D.R |only R/ParallelUtils.R |only R/SimCE.R | 543 ++- R/SimcondUtils.R |only R/SimulationUtils.R |only R/TB.R | 107 R/TestUtils.R |only R/Utility.r | 611 +++ R/Utility_cov.R | 2124 +++++++++++++ R/VarestUtils.R |only R/sp2Geo.R | 4 man/CkInput.Rd | 6 man/CkType.Rd | 6 man/CompIndLik2.Rd | 4 man/CompLik.Rd | 3 man/CompLik2.Rd | 4 man/GeoCV.Rd | 77 man/GeoCorrFct.Rd | 9 man/GeoCorrFct_Cop.Rd | 136 man/GeoCovariogram.Rd | 127 man/GeoCovmatrix.Rd | 69 man/GeoDosocores.Rd | 19 man/GeoFit.Rd | 124 man/GeoFit2.Rd | 74 man/GeoKrig.Rd | 239 + man/GeoKrigWeights.Rd | 93 man/GeoKrigloc.Rd | 183 - man/GeoKriglocWeights.Rd | 114 man/GeoModels-3D.Rd |only man/GeoModels-spacetime-ordering.Rd |only man/GeoNA.Rd | 20 man/GeoNeighIndex.Rd | 252 - man/GeoNeighbSelect.Rd | 146 man/GeoNeighborhood.Rd | 21 man/GeoOutlier.Rd | 37 man/GeoPit.Rd | 132 man/GeoQQ.Rd | 12 man/GeoResiduals.Rd | 42 man/GeoScatterplot.Rd | 489 ++- man/GeoScores.Rd | 215 - man/GeoSim.Rd | 130 man/GeoSimCopula.Rd | 102 man/GeoSimapprox.Rd | 153 man/GeoSimcond.Rd | 256 + man/GeoTestIndependence.Rd | 11 man/GeoTestIsotropy.Rd | 233 - man/GeoTestsupp_space.Rd | 11 man/GeoVarest.Rd | 39 man/GeoVarestbootstrap.Rd | 54 man/GeoVariogram.Rd | 158 - man/GeoWls.Rd | 50 man/GeovariogramDir.Rd | 7 man/Lik.Rd | 4 man/SimCE.Rd | 54 man/StartParam.Rd | 6 man/WlsStart.Rd | 6 man/plot.GeoVariogram.Rd | 12 man/sp2Geo.Rd | 11 src/2gammainc.c | 17 src/2kummer.c | 156 - src/CompositeLikelihood2.c | 899 +---- src/CompositeLikelihood2_ani.c | 382 +- src/CompositeLikelihoodCond2.c | 439 +- src/CompositeLikelihoodCond2_ani.c | 197 - src/CorrelationFunction.c | 1432 ++++++--- src/Distributions.c | 5578 +++++++++++++++++++++++------------- src/DuplicateCoordinates.c |only src/GeoBivDensity.c |only src/GeoModels_init.c | 200 + src/KrigSolve.c |only src/PairCache.c |only src/TB.c | 162 - src/Utility.c | 503 --- src/clayton_gibbs.c |only src/count_conditional_gibbs.c |only src/covariance_series.c |only src/gamma_gibbs.c | 34 src/header.h | 166 - src/skewgaussian_gibbs.c | 28 src/weightedleastsquare.c | 546 ++- 133 files changed, 28381 insertions(+), 16065 deletions(-)
Title: Exact Tree
Description: Grows optimally global trees based on the algorithm defined in the thesis by van Os, B.J. (2001, ISBN:9789090144795). It is possible to obtain both classification and regression trees depending on the measurement level of the outcome variable. The algorithm is based on the dynamic programming principle and guarantees that the resulting tree is optimal with respect to the chosen impurity measure. The package also includes a function to visualize the resulting trees, a function that summarizes the tree with its splitting information and leaf information, and a predict function that provides estimates for a new dataset given a model fit.
Author: Juan Claramunt Gonzalez [aut, cre, cph],
Bart Jan van Os [aut],
Elise Dusseldorp [aut]
Maintainer: Juan Claramunt Gonzalez <j.claramunt.gonzalez@fsw.leidenuniv.nl>
Diff between ExactTree versions 0.1.1 dated 2026-08-07 and 0.1.2 dated 2026-08-21
ExactTree-0.1.1/ExactTree/src/Timer.f95 |only ExactTree-0.1.2/ExactTree/DESCRIPTION | 10 +++++----- ExactTree-0.1.2/ExactTree/MD5 | 17 ++++++++--------- ExactTree-0.1.2/ExactTree/R/ETree.R | 1 + ExactTree-0.1.2/ExactTree/R/SelectVar.R | 4 ++++ ExactTree-0.1.2/ExactTree/R/plot.ETree.R | 6 ++---- ExactTree-0.1.2/ExactTree/src/Makevars | 7 +++---- ExactTree-0.1.2/ExactTree/src/Makevars.win | 7 +++---- ExactTree-0.1.2/ExactTree/src/OptimalTrees.f95 | 10 +++++----- ExactTree-0.1.2/ExactTree/src/init.c | 4 ++-- 10 files changed, 33 insertions(+), 33 deletions(-)
Title: Download and Process Environmental Variables
Description: Provides a unified interface to download, harmonise and extract a
wide range of environmental and socio-economic variables from established
open data web services (such as 'WorldClim' <https://www.worldclim.org/>,
'CHELSA' <https://chelsa-climate.org/> and 'Bio-ORACLE'
<https://www.bio-oracle.org/>, among others) for use in macroecology and
biogeography. The package handles
spatial subsetting to a study area, reprojection to a common coordinate
reference system, and extraction of values at sampling points, so that
predictors from heterogeneous sources can be assembled within a single
reproducible workflow. Helper functions for collinearity checking and
variable exploration are also included.
Author: Andrea Simoncini [aut, cre] ,
Michele Bertoncini [aut] ,
Andrea Cerofolini [aut] ,
Andrea Dalpasso [aut] ,
Mattia Falaschi [aut] ,
Gentile Francesco Ficetola [aut] ,
Elia Lo Parrino [aut]
Maintainer: Andrea Simoncini <simonciniandre@gmail.com>
Diff between envar versions 0.1.0 dated 2026-07-31 and 0.1.1 dated 2026-08-21
DESCRIPTION | 6 MD5 | 320 - NAMESPACE | 72 NEWS.md | 50 R/accessibility.R | 820 +-- R/aridity.R | 926 +-- R/biooracle.R | 638 +- R/cache_utils.R | 196 R/chelsa.R | 1496 +++--- R/cleanup_temp.R | 16 R/climatezones.R | 880 +-- R/cloudcover.R | 818 +-- R/corr_check.R | 693 +- R/create_target_grid.R | 80 R/data.R | 82 R/download_file.R | 178 R/download_file_figshare.R | 215 R/earthenvlandcover.R | 768 +-- R/envar-package.R | 23 R/extr_check.R | 1022 ++-- R/extract_layer_name.R | 38 R/freshwater.R | 972 ++-- R/gcamlandcover.R | 796 +-- R/gdppast.R | 908 +-- R/geososlandcover.R | 810 +-- R/get_par.R | 454 - R/habitat.R | 1118 ++-- R/heterogeneity.R | 832 +-- R/hybridlandcover.R | 772 +-- R/melc.R | 840 +-- R/metadata.R |only R/par_set.R | 983 ++-- R/pftlandcover.R | 946 ++-- R/population.R | 812 +-- R/process_extent.R | 2560 +++++----- R/process_points.R | 92 R/process_raster_layer.R | 560 +- R/protection.R | 768 +-- R/provenance.R |only R/roads.R |only R/soil.R | 806 +-- R/soilclimate.R | 914 +-- R/spectre.R | 822 +-- R/ssp_rcp.R | 122 R/topography.R | 828 +-- R/utils-pipe.R | 32 R/validate_helpers.R | 150 R/worldclim.R | 1042 ++-- R/zzz.R | 12 README.md | 314 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 38 inst/doc/intro.Rmd | 406 - inst/doc/intro.html | 1381 ++--- inst/doc/package_overview.Rmd | 2136 ++++----- inst/doc/package_overview.html | 3097 ++++++------- inst/doc/sdm.Rmd | 646 +- inst/doc/sdm.html | 1615 +++--- inst/doc/variables.Rmd | 2490 +++++----- inst/doc/variables.html | 4016 ++++++++--------- man/Alps.Rd | 50 man/Apollo.Rd | 50 man/Europe.Rd | 46 man/accessibility.Rd | 132 man/aridity.Rd | 114 man/biooracle.Rd | 196 man/chelsa.Rd | 438 - man/clear_cache.Rd | 43 man/climatezones.Rd | 154 man/cloudcover.Rd | 146 man/corr_check.Rd | 197 man/earthenvlandcover.Rd | 120 man/envar-package.Rd | 72 man/extr_check.Rd | 208 man/figures/Fig1.png |binary man/figures/logo.png |binary man/freshwater.Rd | 220 man/gcamlandcover.Rd | 150 man/gdppast.Rd | 124 man/geososlandcover.Rd | 124 man/habitat.Rd | 160 man/heterogeneity.Rd | 130 man/hybridlandcover.Rd | 94 man/melc.Rd | 132 man/metadata.Rd |only man/par_set.Rd | 587 +- man/pftlandcover.Rd | 104 man/pipe.Rd | 44 man/population.Rd | 100 man/protection.Rd | 112 man/roads.Rd |only man/soil.Rd | 90 man/soilclimate.Rd | 150 man/spectre.Rd | 162 man/topography.Rd | 138 man/worldclim.Rd | 186 vignettes/figs/intro-unnamed-chunk-11-1.png |binary vignettes/figs/intro-unnamed-chunk-6-1.png |binary vignettes/figs/package_overview-unnamed-chunk-12-1.png |binary vignettes/figs/package_overview-unnamed-chunk-14-1.png |binary vignettes/figs/package_overview-unnamed-chunk-16-1.png |binary vignettes/figs/package_overview-unnamed-chunk-18-1.png |binary vignettes/figs/package_overview-unnamed-chunk-20-1.png |binary vignettes/figs/package_overview-unnamed-chunk-22-1.png |binary vignettes/figs/package_overview-unnamed-chunk-24-1.png |binary vignettes/figs/package_overview-unnamed-chunk-26-1.png |binary vignettes/figs/package_overview-unnamed-chunk-28-1.png |binary vignettes/figs/package_overview-unnamed-chunk-30-1.png |binary vignettes/figs/package_overview-unnamed-chunk-32-1.png |binary vignettes/figs/package_overview-unnamed-chunk-34-1.png |binary vignettes/figs/package_overview-unnamed-chunk-36-1.png |binary vignettes/figs/package_overview-unnamed-chunk-38-1.png |binary vignettes/figs/package_overview-unnamed-chunk-40-1.png |binary vignettes/figs/package_overview-unnamed-chunk-42-1.png |binary vignettes/figs/package_overview-unnamed-chunk-46-1.png |binary vignettes/figs/package_overview-unnamed-chunk-5-1.png |binary vignettes/figs/package_overview-unnamed-chunk-51-1.png |binary vignettes/figs/package_overview-unnamed-chunk-53-1.png |binary vignettes/figs/package_overview-unnamed-chunk-56-1.png |binary vignettes/figs/package_overview-unnamed-chunk-58-1.png |binary vignettes/figs/package_overview-unnamed-chunk-60-1.png |binary vignettes/figs/package_overview-unnamed-chunk-62-1.png |binary vignettes/figs/package_overview-unnamed-chunk-64-1.png |binary vignettes/figs/package_overview-unnamed-chunk-66-1.png |binary vignettes/figs/package_overview-unnamed-chunk-7-1.png |binary vignettes/figs/package_overview-unnamed-chunk-76-1.png |binary vignettes/figs/package_overview-unnamed-chunk-80-1.png |binary vignettes/figs/package_overview-unnamed-chunk-82-1.png |binary vignettes/figs/package_overview-unnamed-chunk-9-1.png |binary vignettes/figs/sdm-unnamed-chunk-16-1.png |binary vignettes/figs/sdm-unnamed-chunk-7-1.png |binary vignettes/figs/variables-roads-plot-1.png |only vignettes/figs/variables-unnamed-chunk-10-1.png |binary vignettes/figs/variables-unnamed-chunk-12-1.png |binary vignettes/figs/variables-unnamed-chunk-14-1.png |binary vignettes/figs/variables-unnamed-chunk-16-1.png |binary vignettes/figs/variables-unnamed-chunk-18-1.png |binary vignettes/figs/variables-unnamed-chunk-20-1.png |binary vignettes/figs/variables-unnamed-chunk-22-1.png |binary vignettes/figs/variables-unnamed-chunk-24-1.png |binary vignettes/figs/variables-unnamed-chunk-26-1.png |binary vignettes/figs/variables-unnamed-chunk-28-1.png |binary vignettes/figs/variables-unnamed-chunk-30-1.png |binary vignettes/figs/variables-unnamed-chunk-32-1.png |binary vignettes/figs/variables-unnamed-chunk-34-1.png |binary vignettes/figs/variables-unnamed-chunk-36-1.png |binary vignettes/figs/variables-unnamed-chunk-38-1.png |binary vignettes/figs/variables-unnamed-chunk-40-1.png |binary vignettes/figs/variables-unnamed-chunk-42-1.png |binary vignettes/figs/variables-unnamed-chunk-44-1.png |binary vignettes/figs/variables-unnamed-chunk-48-1.png |binary vignettes/figs/variables-unnamed-chunk-5-1.png |binary vignettes/figs/variables-unnamed-chunk-50-1.png |binary vignettes/figs/variables-unnamed-chunk-8-1.png |binary vignettes/images/Corr_plot_apollo.png |binary vignettes/images/Corr_plot_example.png |binary vignettes/images/Prediction.png |binary vignettes/intro.Rmd | 406 - vignettes/package_overview.Rmd | 2136 ++++----- vignettes/reference-style.csl | 402 - vignettes/references.bib | 870 +-- vignettes/sdm.Rmd | 646 +- vignettes/variables.Rmd | 2490 +++++----- 164 files changed, 28365 insertions(+), 27785 deletions(-)
Title: Objects for Predicting Energy Expenditure
Description: This is a data-only package containing model objects that predict
human energy expenditure from wearable sensor data. Supported methods include
the neural networks of Montoye et al. (2017) <doi:10.1080/1091367X.2017.1337638>
and the models of Staudenmayer et al. (2015) <doi:10.1152/japplphysiol.00026.2015>,
one a linear model and the other a random forest. The package is intended as
a spoke for the hub-package 'accelEE', which brings together the above methods
and others from packages such as 'Sojourn' and 'TwoRegression.'
Author: Paul R. Hibbing [aut, cre],
Alexander H.K. Montoye [ctb],
John Staudenmayer [ctb],
Children's Mercy Kansas City [cph]
Maintainer: Paul R. Hibbing <paulhibbing@gmail.com>
Diff between EE.Data versions 0.1.1 dated 2026-04-01 and 0.2.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ R/data_doc.R | 2 +- data/montoye_lw.rda |binary data/montoye_rw.rda |binary man/montoye.Rd | 4 ++-- 7 files changed, 20 insertions(+), 13 deletions(-)
Title: Tools for Dyadic Multilevel Models
Description: Provides tools for dyadic multilevel modeling with linear and
generalized linear mixed-effects models. It validates and prepares
long-format cross-sectional and intensive longitudinal data, including
ecological momentary assessment designs, for distinguishable and
exchangeable dyads. It also supports datasets containing multiple observed
dyad compositions. It constructs composition-aware,
model-ready variables for Actor-Partner Interdependence Models (APIMs),
Dyadic Score Models (DSMs), and Dyad-Individual Models (DIMs). Prepared data
can be used with model engines such as 'glmmTMB' and 'brms' for Gaussian and
non-Gaussian outcomes, including counts, proportions, and skewed continuous
responses. Post-estimation tools compare compatible fitted models and
back-transform exchangeable sum-and-difference random-effect covariance
structures into member-level quantities. The APIM and DSM specifications
and their relationships follow Iida et al. (2018)
<doi:10.1177/0265407517725407>; the [...truncated...]
Author: Pascal Kueng [aut, cre, cph]
Maintainer: Pascal Kueng <kueng.pascal@gmail.com>
Diff between dyadMLM versions 0.1.0 dated 2026-07-30 and 0.2.0 dated 2026-08-21
dyadMLM-0.1.0/dyadMLM/R/compare_dyad_models.R |only dyadMLM-0.1.0/dyadMLM/man/compare_nested_glmmTMB_models.Rd |only dyadMLM-0.1.0/dyadMLM/man/print.exchangeable_rescov.Rd |only dyadMLM-0.1.0/dyadMLM/tests/testthat/test-compare_dyad_models.R |only dyadMLM-0.2.0/dyadMLM/DESCRIPTION | 7 dyadMLM-0.2.0/dyadMLM/MD5 | 151 dyadMLM-0.2.0/dyadMLM/NAMESPACE | 5 dyadMLM-0.2.0/dyadMLM/NEWS.md | 64 dyadMLM-0.2.0/dyadMLM/R/add_actor_partner_columns.R | 15 dyadMLM-0.2.0/dyadMLM/R/add_dyad_individual_columns.R | 30 dyadMLM-0.2.0/dyadMLM/R/add_dyadic_score_columns.R | 25 dyadMLM-0.2.0/dyadMLM/R/add_temporal_lag_columns.R | 26 dyadMLM-0.2.0/dyadMLM/R/backtransform_residual_covariance.R | 167 - dyadMLM-0.2.0/dyadMLM/R/center_predictors.R | 66 dyadMLM-0.2.0/dyadMLM/R/compare_nested_models.R |only dyadMLM-0.2.0/dyadMLM/R/data.R | 22 dyadMLM-0.2.0/dyadMLM/R/dyad-generated-columns.R | 331 -- dyadMLM-0.2.0/dyadMLM/R/dyadMLM-package.R |only dyadMLM-0.2.0/dyadMLM/R/infer_dyad_compositions.R | 240 + dyadMLM-0.2.0/dyadMLM/R/prepare_dyad_data.R | 145 dyadMLM-0.2.0/dyadMLM/R/print_dyadMLM_data.R | 84 dyadMLM-0.2.0/dyadMLM/R/summary_dyadMLM_data.R |only dyadMLM-0.2.0/dyadMLM/R/temporary_dyad_occasion_completion.R |only dyadMLM-0.2.0/dyadMLM/R/utils-compositions.R | 49 dyadMLM-0.2.0/dyadMLM/R/validate_dyad_data.R | 39 dyadMLM-0.2.0/dyadMLM/README.md | 172 - dyadMLM-0.2.0/dyadMLM/data/dyads_cross.rda |binary dyadMLM-0.2.0/dyadMLM/data/dyads_ild.rda |binary dyadMLM-0.2.0/dyadMLM/data/dyads_nbinom_cross.rda |binary dyadMLM-0.2.0/dyadMLM/data/dyads_nbinom_ild.rda |binary dyadMLM-0.2.0/dyadMLM/inst/CITATION | 10 dyadMLM-0.2.0/dyadMLM/inst/WORDLIST | 9 dyadMLM-0.2.0/dyadMLM/inst/doc/apim.R | 337 +- dyadMLM-0.2.0/dyadMLM/inst/doc/apim.Rmd | 508 +-- dyadMLM-0.2.0/dyadMLM/inst/doc/apim.html | 1516 +++++----- dyadMLM-0.2.0/dyadMLM/inst/doc/dim.R | 71 dyadMLM-0.2.0/dyadMLM/inst/doc/dim.Rmd | 160 - dyadMLM-0.2.0/dyadMLM/inst/doc/dim.html | 634 ++-- dyadMLM-0.2.0/dyadMLM/inst/doc/dsm.R | 119 dyadMLM-0.2.0/dyadMLM/inst/doc/dsm.Rmd | 195 - dyadMLM-0.2.0/dyadMLM/inst/doc/dsm.html | 542 +-- dyadMLM-0.2.0/dyadMLM/inst/doc/getting-started.R | 41 dyadMLM-0.2.0/dyadMLM/inst/doc/getting-started.Rmd | 235 - dyadMLM-0.2.0/dyadMLM/inst/doc/getting-started.html | 1422 ++++----- dyadMLM-0.2.0/dyadMLM/man/add_actor_partner_columns.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/add_temporal_lag_columns.Rd | 7 dyadMLM-0.2.0/dyadMLM/man/center_predictors.Rd | 5 dyadMLM-0.2.0/dyadMLM/man/compare_nested_models.Rd |only dyadMLM-0.2.0/dyadMLM/man/dyadMLM-package.Rd |only dyadMLM-0.2.0/dyadMLM/man/dyad_generated_columns.Rd | 12 dyadMLM-0.2.0/dyadMLM/man/dyads_cross.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/dyads_ild.Rd | 10 dyadMLM-0.2.0/dyadMLM/man/dyads_nbinom_cross.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/dyads_nbinom_ild.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/infer_dyad_compositions.Rd | 23 dyadMLM-0.2.0/dyadMLM/man/prepare_dyad_data.Rd | 66 dyadMLM-0.2.0/dyadMLM/man/print.exchangeable_covariance.Rd |only dyadMLM-0.2.0/dyadMLM/man/recover_exchangeable_covariance.Rd | 33 dyadMLM-0.2.0/dyadMLM/man/restore_observed_dyad_rows.Rd |only dyadMLM-0.2.0/dyadMLM/man/summary.dyadMLM_data.Rd |only dyadMLM-0.2.0/dyadMLM/man/temporarily_complete_dyad_occasions.Rd |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_actor_partner_columns.R | 70 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_dyad_individual_columns.R | 67 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_dyadic_score_columns.R | 123 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_temporal_lag_columns.R | 108 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-apim-gmc-predictors.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-assign_arbitrary_member_roles.R | 26 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-backtransform-residual-covariance.R | 259 + dyadMLM-0.2.0/dyadMLM/tests/testthat/test-center_predictors.R | 28 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-compare_nested_models.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-dsm-model-equivalence.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-dyad_generated_columns.R | 205 + dyadMLM-0.2.0/dyadMLM/tests/testthat/test-example-data.R | 21 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-infer_dyad_compositions.R | 205 - dyadMLM-0.2.0/dyadMLM/tests/testthat/test-prepare_dyad_data.R | 315 +- dyadMLM-0.2.0/dyadMLM/tests/testthat/test-print-dyadMLM_data.R | 257 + dyadMLM-0.2.0/dyadMLM/tests/testthat/test-public-api-cleanup.R | 132 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-summary-dyadMLM_data.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-temporary_dyad_occasion_completion.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-validate_dyad_data.R | 73 dyadMLM-0.2.0/dyadMLM/vignettes/apim.Rmd | 508 +-- dyadMLM-0.2.0/dyadMLM/vignettes/diagram-helpers.Rinc | 144 dyadMLM-0.2.0/dyadMLM/vignettes/dim.Rmd | 160 - dyadMLM-0.2.0/dyadMLM/vignettes/dsm.Rmd | 195 - dyadMLM-0.2.0/dyadMLM/vignettes/getting-started.Rmd | 235 - dyadMLM-0.2.0/dyadMLM/vignettes/references.bib | 440 ++ 86 files changed, 6833 insertions(+), 4347 deletions(-)
Title: Dynamic and Interactive EEG Graphics
Description: Allows to visualize high-density electroencephalography (HD-EEG) data through interactive plots and animations, enabling exploratory and communicative analysis of temporal-spatial brain signals. Funder: Masaryk University (Grant No. MUNI/A/1457/2023).
Author: Zdeňka Gerslova [aut, cre] ,
Stanislav Katina [rev] ,
Martin Lamos [ctb]
Maintainer: Zdeňka Gerslova <gerslovaz@math.muni.cz>
Diff between diegr versions 0.2.0 dated 2026-01-24 and 0.3.1 dated 2026-08-21
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Title: Toolkit for Analyzing Curricular Complexity
Description: Enables educational researchers and practitioners to calculate the curricular complexity of a plan of study, visualize its prerequisite structure at scale, and conduct customizable analyses. The original tool can be found at <https://curricularanalytics.org>. Additional functions to explore curriculum complexity from the literature are also included.
Author: David Reeping [aut, cre]
Maintainer: David Reeping <reepindp@ucmail.uc.edu>
Diff between CurricularComplexity versions 1.0.3 dated 2026-07-08 and 1.1.0 dated 2026-08-21
DESCRIPTION | 6 MD5 | 18 + NEWS.md | 31 +++ R/generate_curricular_complexity_scorecard.R |only R/topic_cruciality.R |only build/vignette.rds |binary inst/doc/CurricularComplexity-demo.R | 45 ++++ inst/doc/CurricularComplexity-demo.Rmd | 87 +++++++++ inst/doc/CurricularComplexity-demo.html | 229 ++++++++++++++++++------ man/generate_curricular_complexity_scorecard.Rd |only man/topic_cruciality.Rd |only vignettes/CurricularComplexity-demo.Rmd | 87 +++++++++ 12 files changed, 435 insertions(+), 68 deletions(-)
More information about CurricularComplexity at CRAN
Permanent link
Title: R Interface for the RAPIDS cuML Suite of Libraries
Description: R interface for RAPIDS cuML (<https://github.com/NVIDIA/cuml>),
a suite of GPU-accelerated machine learning libraries powered by CUDA
(<https://en.wikipedia.org/wiki/CUDA>).
Author: Yitao Li [aut, cph] ,
Tomasz Kalinowski [aut, cre, cph],
Daniel Falbel [aut, cph],
RStudio [cph, fnd]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between cuda.ml versions 0.3.3 dated 2026-04-29 and 0.4.0 dated 2026-08-21
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cuda.ml-0.4.0/cuda.ml/tests/testthat/test-runtime-functional.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-runtime-loader.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-sgd.R | 37 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-source-install.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-svm-serde.R | 38 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-svm.R | 113 - cuda.ml-0.4.0/cuda.ml/tests/testthat/test-tsne.R | 23 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-tsvd.R | 110 + cuda.ml-0.4.0/cuda.ml/tests/testthat/test-umap.R | 14 cuda.ml-0.4.0/cuda.ml/tools/audit-backend.R |only cuda.ml-0.4.0/cuda.ml/tools/audit-nvforest-cpu-backend.R |only cuda.ml-0.4.0/cuda.ml/tools/config.R | 6 cuda.ml-0.4.0/cuda.ml/tools/config/Makefile.cmake.in |only cuda.ml-0.4.0/cuda.ml/tools/config/cleanup.R | 20 cuda.ml-0.4.0/cuda.ml/tools/config/configure.R | 302 ++- cuda.ml-0.4.0/cuda.ml/tools/config/utils/native-symbols.R |only cuda.ml-0.4.0/cuda.ml/tools/diff-api.R |only cuda.ml-0.4.0/cuda.ml/tools/merge-backend-lock.R |only cuda.ml-0.4.0/cuda.ml/tools/nvrtc-probe.c |only cuda.ml-0.4.0/cuda.ml/tools/package-backend.R |only cuda.ml-0.4.0/cuda.ml/tools/package-nvforest-cpu-backend.R |only cuda.ml-0.4.0/cuda.ml/vignettes |only 143 files changed, 5229 insertions(+), 3509 deletions(-)
Title: Statistical Tools for Ranks
Description: Account for uncertainty when working with ranks. Estimate
standard errors consistently in linear regression with ranked
variables. Construct confidence sets of various kinds for positions
of populations in a ranking based on values of a certain feature and
their estimation errors. Theory based on Mogstad, Romano, Shaikh, and
Wilhelm (2023)<doi:10.1093/restud/rdad006> and Chetverikov and Wilhelm
(2023) <doi:10.48550/arXiv.2310.15512>.
Author: Daniel Wilhelm [aut, cre],
Pawel Morgen [aut]
Maintainer: Daniel Wilhelm <d.wilhelm@lmu.de>
Diff between csranks versions 1.2.3 dated 2024-09-12 and 1.3.0 dated 2026-08-21
csranks-1.2.3/csranks/tests/testthat/testdata/generate_testdata.R |only csranks-1.3.0/csranks/DESCRIPTION | 36 csranks-1.3.0/csranks/MD5 | 144 ++- csranks-1.3.0/csranks/NAMESPACE | 16 csranks-1.3.0/csranks/NEWS.md | 7 csranks-1.3.0/csranks/R/argument_checks.R | 311 ++++-- csranks-1.3.0/csranks/R/data.R | 12 csranks-1.3.0/csranks/R/diffmeans.R | 91 +- csranks-1.3.0/csranks/R/formula_checks.R |only csranks-1.3.0/csranks/R/formula_parsing.R |only csranks-1.3.0/csranks/R/formula_processing.R |only csranks-1.3.0/csranks/R/ivregranks.R |only csranks-1.3.0/csranks/R/ivregranks_model_usage.R |only csranks-1.3.0/csranks/R/ivregranks_summary.R |only csranks-1.3.0/csranks/R/ivregranks_vcov.R |only csranks-1.3.0/csranks/R/lmranks.R | 383 +++----- csranks-1.3.0/csranks/R/lmranks_env.R |only csranks-1.3.0/csranks/R/lmranks_model_selection.R | 23 csranks-1.3.0/csranks/R/lmranks_model_usage.R | 20 csranks-1.3.0/csranks/R/lmranks_obs_influence.R | 32 csranks-1.3.0/csranks/R/lmranks_summary.R | 454 ++-------- csranks-1.3.0/csranks/R/plotranking.R | 41 csranks-1.3.0/csranks/R/rank_utils.R | 203 ++-- csranks-1.3.0/csranks/R/ranks.R | 113 +- csranks-1.3.0/csranks/R/ranks_multinom.R | 90 + csranks-1.3.0/csranks/R/utilityfunctions.R | 2 csranks-1.3.0/csranks/R/vcov_utils.R |only csranks-1.3.0/csranks/README.md | 1 csranks-1.3.0/csranks/build/partial.rdb |binary csranks-1.3.0/csranks/build/vignette.rds |binary csranks-1.3.0/csranks/inst/WORDLIST | 3 csranks-1.3.0/csranks/inst/doc/Inference-for-Ranks.R | 38 csranks-1.3.0/csranks/inst/doc/Inference-for-Ranks.html | 58 - csranks-1.3.0/csranks/inst/doc/Inference-for-Ranks.rmd | 40 csranks-1.3.0/csranks/inst/doc/Rank-Rank-Reg.R | 127 +- csranks-1.3.0/csranks/inst/doc/Rank-Rank-Reg.html | 347 +++---- csranks-1.3.0/csranks/inst/doc/Rank-Rank-Reg.rmd | 131 +- csranks-1.3.0/csranks/inst/vcov_edit.R |only csranks-1.3.0/csranks/man/csranks.Rd | 6 csranks-1.3.0/csranks/man/cstaubest.Rd | 10 csranks-1.3.0/csranks/man/irank.Rd | 35 csranks-1.3.0/csranks/man/irank_against.Rd | 24 csranks-1.3.0/csranks/man/ivregranks.Rd |only csranks-1.3.0/csranks/man/lmranks.Rd | 13 csranks-1.3.0/csranks/man/plotranking.Rd | 2 csranks-1.3.0/csranks/tests/setup.R | 4 csranks-1.3.0/csranks/tests/spelling.R | 9 csranks-1.3.0/csranks/tests/testthat/_problems |only csranks-1.3.0/csranks/tests/testthat/test_argument_checks.R | 260 +++-- csranks-1.3.0/csranks/tests/testthat/test_csranks_compare.R | 74 + csranks-1.3.0/csranks/tests/testthat/test_csranks_marg.R | 4 csranks-1.3.0/csranks/tests/testthat/test_csranks_multinom.R | 4 csranks-1.3.0/csranks/tests/testthat/test_diffmeans.R | 175 ++- csranks-1.3.0/csranks/tests/testthat/test_env.R |only csranks-1.3.0/csranks/tests/testthat/test_formula_processing.R |only csranks-1.3.0/csranks/tests/testthat/test_grouped_lmranks.R | 91 +- csranks-1.3.0/csranks/tests/testthat/test_grouped_lmranks_vcov.R | 322 +++---- csranks-1.3.0/csranks/tests/testthat/test_ivregranks.R |only csranks-1.3.0/csranks/tests/testthat/test_ivregranks_vcov.R |only csranks-1.3.0/csranks/tests/testthat/test_lmranks.R | 322 ++----- csranks-1.3.0/csranks/tests/testthat/test_lmranks_predict.R | 105 +- csranks-1.3.0/csranks/tests/testthat/test_lmranks_vcov.R | 392 +++----- csranks-1.3.0/csranks/tests/testthat/test_multinom_lowlevel.R | 254 +++-- csranks-1.3.0/csranks/tests/testthat/test_plotranking.R | 2 csranks-1.3.0/csranks/tests/testthat/test_rank_utils.R | 208 ++-- csranks-1.3.0/csranks/tests/testthat/test_utility_functions.R | 100 +- csranks-1.3.0/csranks/tests/testthat/test_vcov_utils.R |only csranks-1.3.0/csranks/tests/testthat/testdata/Markdown_vcov_sims.Rmd |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_ivregranks.R |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_ivregranks_empirical.R |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_lmranks.R |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_weights.R |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_covariates_FALSE.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_covariates_TRUE.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_increasing_FALSE.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_n_10.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_n_100.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_n_50.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_regressor_1.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_vcov_sims.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/lmranks_cov_sigmahat_weighted.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/vcov_sims_code_extracted.R |only csranks-1.3.0/csranks/tests/testthat/testthat-problems.rds |binary csranks-1.3.0/csranks/vignettes/Inference-for-Ranks.rmd | 40 csranks-1.3.0/csranks/vignettes/Rank-Rank-Reg.rmd | 131 +- 85 files changed, 2746 insertions(+), 2564 deletions(-)
Title: Flexible Modeling of Count Data
Description: For Bayesian and classical inference and prediction with count-valued data,
Simultaneous Transformation and Rounding (STAR) Models provide a flexible, interpretable,
and easy-to-use approach. STAR models the observed count data using a rounded
continuous data model and incorporates a transformation for greater flexibility.
Implicitly, STAR formalizes the commonly-applied yet incoherent procedure of
(i) transforming count-valued data and subsequently
(ii) modeling the transformed data using Gaussian models.
STAR is well-defined for count-valued data, which is reflected in predictive accuracy,
and is designed to account for zero-inflation, bounded or censored data, and over- or underdispersion.
Importantly, STAR is easy to combine with existing MCMC or point estimation
methods for continuous data, which allows seamless adaptation of continuous data
models (such as linear regressions, additive models, BART, random forests,
and gradient boosting machines) for count-valued data. The package [...truncated...]
Author: Brian King [aut, cre],
Dan Kowal [aut]
Maintainer: Brian King <brianking387@gmail.com>
Diff between countSTAR versions 1.2.0 dated 2026-04-03 and 1.2.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 178 NAMESPACE | 104 NEWS.md | 44 R/RcppExports.R | 466 +- R/STAR_Bayesian.R | 3054 +++++++-------- R/STAR_frequentist.R | 3488 ++++++++--------- R/data.R | 30 R/helper_functions.R | 1617 ++++---- R/internal_functions.R | 8420 +++++++++++++++++++++---------------------- R/warpDLM.R | 486 +- README.md | 144 build/partial.rdb |binary build/vignette.rds |binary inst/doc/countSTAR.R | 256 - inst/doc/countSTAR.Rmd | 676 +-- inst/doc/countSTAR.html | 1813 ++++----- man/BrentMethod.Rd | 62 man/HPDregion.Rd | 58 man/a_j.Rd | 64 man/bam_star.Rd | 282 - man/bart_star.Rd | 384 - man/bart_star_ispline.Rd | 216 - man/blm_star.Rd | 290 - man/blm_star_exact.Rd | 164 man/blm_star_exact_bnp.Rd | 184 man/blm_star_gibbs_bnp.Rd | 204 - man/computeTimeRemaining.Rd | 48 man/confint.lmstar.Rd | 86 man/credBands.Rd | 48 man/ergMean.Rd | 56 man/expectation2_gRcpp.Rd | 60 man/expectation_gRcpp.Rd | 60 man/expectation_identity.Rd | 60 man/expectation_log.Rd | 60 man/expectation_sqrt.Rd | 60 man/g_bc.Rd | 70 man/g_cdf.Rd | 96 man/g_inv.Rd | 64 man/g_inv_approx.Rd | 76 man/g_inv_bc.Rd | 64 man/gbm_star.Rd | 278 - man/genEM_star.Rd | 281 - man/genMCMC_star.Rd | 306 - man/genMCMC_star_ispline.Rd | 222 - man/getEffSize.Rd | 58 man/init_bam_orthog.Rd | 84 man/init_bam_thin.Rd | 84 man/init_lm_gprior.Rd | 94 man/init_lm_hs.Rd | 86 man/init_lm_ridge.Rd | 78 man/init_params_mean.Rd | 56 man/interval_gRcpp.Rd | 64 man/invlogit.Rd | 36 man/lm_star.Rd | 214 - man/logLikePointRcpp.Rd | 58 man/logLikeRcpp.Rd | 58 man/logit.Rd | 36 man/plot_coef.Rd | 62 man/plot_fitted.Rd | 54 man/plot_pmf.Rd | 54 man/pmaxRcpp.Rd | 46 man/pminRcpp.Rd | 46 man/predict.lmstar.Rd | 134 man/pvals.Rd | 72 man/randomForest_star.Rd | 277 - man/rdir.Rd | 54 man/roaches.Rd | 58 man/round_floor.Rd | 62 man/rtruncnormRcpp.Rd | 64 man/sampleFastGaussian.Rd | 52 man/sample_bam_orthog.Rd | 128 man/sample_bam_thin.Rd | 128 man/sample_lm_gprior.Rd | 110 man/sample_lm_hs.Rd | 94 man/sample_lm_ridge.Rd | 90 man/sample_params_mean.Rd | 62 man/simBaS.Rd | 58 man/simulate_nb_friedman.Rd | 116 man/simulate_nb_lm.Rd | 128 man/splineBasis.Rd | 62 man/spline_star.Rd | 260 - man/spline_star_exact.Rd | 166 man/spline_star_gibbs_bnp.Rd | 196 - man/truncnorm_mom.Rd | 54 man/uni.slice.Rd | 72 man/update_struct.Rd | 52 man/warpDLM.Rd | 128 vignettes/countSTAR.Rmd | 676 +-- vignettes/refs.bib | 144 90 files changed, 14748 insertions(+), 14704 deletions(-)
Title: Inference of Gene Regulatory Networks
Description: We present 'corto' (Correlation Tool), a simple package to infer
gene regulatory networks and visualize master regulators from gene expression
data using DPI (Data Processing Inequality) and bootstrapping to recover edges.
An initial step is performed to calculate all significant
edges between a list of source nodes (centroids) and target genes.
Then all triplets containing two centroids and one target are tested
in a DPI step which removes edges. A bootstrapping process then calculates
the robustness of the network, eventually re-adding edges previously removed by DPI.
The algorithm has been optimized to run outside a computing cluster, using a fast correlation
implementation. The package finally provides functions to calculate network enrichment
analysis from RNA-Seq and ATAC-Seq signatures as described in the article by
Giorgi lab (2020) <doi:10.1093/bioinformatics/btaa223>.
Author: Federico M. Giorgi [aut, cre],
Daniele Mercatelli [ctb],
Gonzalo Lopez-Garcia [ctb],
Hugo Tovar [ctb],
Hualin Wang [ctb]
Maintainer: Federico M. Giorgi <federico.giorgi@gmail.com>
Diff between corto versions 1.2.4 dated 2023-12-06 and 1.3.1 dated 2026-08-21
DESCRIPTION | 21 +++-- MD5 | 35 ++++---- NAMESPACE | 25 +++--- NEWS.md |only R/corto.R | 175 ++++++++++++++++--------------------------- R/functions.R | 145 +++++++++++++++++++++++++++++++---- R/gsea.R | 30 +++---- R/mra.R | 100 +++++++++++++++++++----- build/vignette.rds |binary inst/doc/corto_vignette.R | 16 +-- inst/doc/corto_vignette.Rmd | 14 +-- inst/doc/corto_vignette.html | 18 ++-- man/filter_regulon.Rd |only man/getregulon.Rd |only man/mra.Rd | 5 - man/plot_gsea2.Rd | 3 man/scatter.Rd | 2 man/textrepel.Rd | 4 man/val2col.Rd | 2 vignettes/corto_vignette.Rmd | 14 +-- 20 files changed, 376 insertions(+), 233 deletions(-)
Title: Contrast Analyses for Factorial Designs
Description: Contrast analysis for factorial designs provides an
alternative to the traditional ANOVA approach, offering the distinct
advantage of testing targeted hypotheses. The foundation of this
package is primarily rooted in the works of Rosenthal, Rosnow, and
Rubin (2000, ISBN: 978-0521659802) as well as Sedlmeier and Renkewitz
(2018, ISBN: 978-3868943214).
Author: Johannes Titz [aut, cre],
Markus Burkhardt [aut],
Mirka Henninger [ctb],
Simone Malejka [ctb]
Maintainer: Johannes Titz <johannes.titz@gmail.com>
Diff between cofad versions 0.3.3 dated 2025-05-15 and 0.4.0 dated 2026-08-21
DESCRIPTION | 17 MD5 | 100 +- NAMESPACE | 7 NEWS.md | 66 + R/calc_contrast.R | 184 ++-- R/calc_contrast_aggregated.R | 26 R/cofad-package.R | 1 R/data.R | 48 + R/design_detection.R |only R/examples.R |only R/helper.R | 1135 +++++++++++++++++++++++++-- R/print_methods.R | 75 + R/run_app.R | 7 R/server.R | 994 +++++++++++++++++++---- R/summary_methods.R | 5 R/ui.R | 277 +++++- R/utils-pipe.R | 4 README.md | 985 +++++++++++++++-------- build/partial.rdb |binary data/rosenthal_tbl54.rda |only data/rosenthal_tbl68_mixed.rda |only inst/CITATION |only inst/extdata/citation.txt | 14 inst/extdata/cofad-copy.js |only inst/extdata/intro.html | 11 inst/shinylive |only man/calc_contrast.Rd | 18 man/calc_contrast_aggregated.Rd | 18 man/cofad-package.Rd | 2 man/detect_design.Rd |only man/figures |only man/lambda_diff.Rd | 31 man/pipe.Rd | 11 man/print.cofad_mx.Rd | 2 man/print.cofad_wi.Rd | 2 man/rosenthal_tbl54.Rd |only man/rosenthal_tbl68.Rd | 2 man/rosenthal_tbl68_mixed.Rd |only man/run_app.Rd | 4 man/sedlmeier_p525.Rd | 5 man/summary.cofad_wi.Rd | 2 man/testing_effect.Rd | 4 tests/testthat/test-citation-formats.R |only tests/testthat/test-competing-ui.R |only tests/testthat/test-copy-button-layout.R |only tests/testthat/test-copyable-output.R |only tests/testthat/test-coverage-additions.R |only tests/testthat/test-design-detection.R |only tests/testthat/test-example-datasets.R |only tests/testthat/test-example-presets.R |only tests/testthat/test-export-controls.R |only tests/testthat/test-gui.R | 11 tests/testthat/test-mixed-choice-tooltips.R |only tests/testthat/test-partial-eta.R |only tests/testthat/test-r-code-panel.R |only tests/testthat/test-server-in-process.R |only tests/testthat/test-server-manual-fallback.R |only tests/testthat/test-variance-display.R |only tests/testthat/test-within-r-scores.R |only tools |only 60 files changed, 3243 insertions(+), 825 deletions(-)
Title: Diagnostic Tools for Logistic and Conditional Logistic
Regression
Description: Provides tools for fitting, assessing, and comparing logistic
and conditional logistic regression models. Includes residual diagnostics
and goodness of fit measures for model development and evaluation in
matched case control studies.
Author: Brenda Contla Hernandez [aut, cre],
Matthieu Vignes [ctb] ,
Chris Compton [ctb]
Maintainer: Brenda Contla Hernandez <B.Hernandez@massey.ac.nz>
Diff between CLRtools versions 0.1.1 dated 2026-03-16 and 0.1.2 dated 2026-08-21
DESCRIPTION | 8 MD5 | 135 +-- NAMESPACE | 178 ++- NEWS.md | 17 R/CLRtools-package.R | 68 - R/DRtest.R | 196 ++-- R/check_coef_change.R | 222 ++-- R/check_coef_significant.R | 202 ++-- R/check_interactions.R | 240 ++--- R/coeff.OR.R | 220 ++-- R/compare_models_loo.R | 136 +-- R/confidence.interval.R | 134 +-- R/cov.patterns.R | 138 +-- R/cutpoints.R | 238 ++--- R/delta.coefficient.R | 122 +- R/diagnostic_bayes.R | 94 +- R/diagnosticplots_class.R | 190 ++-- R/discordant.pairs.R | 176 +-- R/glow11m.R | 50 - R/glow500.R | 48 - R/helpers_functions.R | 176 +-- R/osius_rojek.R | 202 ++-- R/r_measures.R | 224 ++--- R/rcv_measures.R | 214 ++-- R/residuals_clog.R | 370 ++++---- R/residuals_logistic.R | 362 ++++---- R/stukels_test.R | 156 +-- R/summarize_results.R | 190 ++-- R/univariable.clogmodels.R | 234 ++--- R/univariable.models.R | 200 ++-- README.md |only build/vignette.rds |binary inst/doc/Bayesian_Logistic_regression.R | 8 inst/doc/Bayesian_Logistic_regression.Rmd | 1159 ++++++++++++-------------- inst/doc/Bayesian_Logistic_regression.html | 106 +- inst/doc/Conditional_Logistic_Regression.Rmd | 342 +++---- inst/doc/Logistic_Regression.Rmd | 478 +++++----- inst/doc/Logistic_Regression.html | 2 man/CLRtools-package.Rd | 63 - man/DRtest.Rd | 122 +- man/check_coef_change.Rd | 112 +- man/check_coef_significant.Rd | 96 +- man/check_interactions.Rd | 106 +- man/coeff.OR.Rd | 124 +- man/compare_bayesm.Rd | 84 - man/compare_bayesm_by_predictor.Rd | 110 +- man/compare_models_loo.Rd | 62 - man/confidence.interval.Rd | 96 +- man/cov.patterns.Rd | 110 +- man/cutpoints.Rd | 126 +- man/delta.coefficient.Rd | 82 - man/diagnostic_bayes.Rd | 62 - man/diagnosticplots_class.Rd | 120 +- man/discordant.pairs.Rd | 72 - man/glow11m.Rd | 74 - man/glow500.Rd | 72 - man/logit_prob_plot.Rd | 92 +- man/osius_rojek.Rd | 124 +- man/r_measures.Rd | 108 +- man/rcv_measures.Rd | 114 +- man/residuals_clog.Rd | 150 +-- man/residuals_logistic.Rd | 158 +-- man/stukels_test.Rd | 100 +- man/summarize_results.Rd | 108 +- man/univariable.clogmodels.Rd | 138 +-- man/univariable.models.Rd | 102 +- vignettes/Bayesian_Logistic_regression.Rmd | 1159 ++++++++++++-------------- vignettes/Conditional_Logistic_Regression.Rmd | 342 +++---- vignettes/Logistic_Regression.Rmd | 478 +++++----- 69 files changed, 6062 insertions(+), 6039 deletions(-)
Title: Interpretable Civic-Accountable and Responsible Machine Learning
Description: A general-purpose framework for Interpretable Civic-Accountable
and Responsible Machine Learning (ICARM). Works with any clean tabular
data and automatically detects whether a task is binary classification,
multi-class classification, or regression from the target variable type.
Provides a single unified entry point civic_fit() alongside tidy interfaces
for global and local model explanations, group-level fairness auditing,
probability calibration, multi-model comparison, threshold analysis, and
reproducible audit trails. Designed to support the DataCitizen-Pro research
agenda at Ludwigsburg University of Education: developing data literacy,
statistical reasoning, and democratic judgment formation in civic and
political teacher education.
References: Biecek (2018) <doi:10.18637/jss.v085.i04>,
Kuhn (2008) <doi:10.18637/jss.v028.i05>,
Awe (2025) <https://github.com/Olawaleawe/civic.icarm>.
Author: Olushina Olawale Awe [aut, cre],
Ludwigsburg University of Education [fnd]
Maintainer: Olushina Olawale Awe <olawaleawe@gmail.com>
Diff between civic.icarm versions 0.3.0 dated 2026-06-22 and 0.4.0 dated 2026-08-21
DESCRIPTION | 9 MD5 | 42 - NAMESPACE | 63 - R/civic.icarm-package.R | 42 - R/civic_data_utils.R | 480 ++++++------- R/civic_explain.R | 388 +++++------ R/civic_fairness.R | 538 +++++++-------- R/civic_fit.R | 825 +++++++++++++---------- R/civic_scorecard.R | 800 +++++++++++----------- R/data.R | 176 ++--- R/plots.R | 1568 ++++++++++++++++++++++----------------------- R/predict.R | 142 ++-- R/utils_internal.R | 148 ++-- README.md | 262 +++---- build |only inst/WORDLIST | 18 man/civic_dashboard.Rd | 70 +- man/civic_explain_local.Rd | 50 - man/civic_fit.Rd | 2 man/civic_plots.Rd | 28 man/plot.civic_model.Rd |only man/predict.civic_model.Rd | 64 - tests/testthat/test-all.R | 438 ++++++------ 23 files changed, 3125 insertions(+), 3028 deletions(-)
Title: Access and Harmonize Childfree Demographic Data
Description: Reads demographic data from a variety of public data sources, extracting and harmonizing variables useful for the study of childfree individuals. The identification of childfree individuals and those with other family statuses uses Neal & Neal's (2024) "A Framework for Studying Adults who Neither have Nor Want Children" <doi:10.1177/10664807231198869>; A pre-print is available at <doi:10.31234/osf.io/fa89m>.
Author: Zachary Neal [aut, cre] ,
Jennifer Watling Neal [aut]
Maintainer: Zachary Neal <zpneal@msu.edu>
Diff between childfree versions 0.0.5 dated 2026-02-26 and 0.0.6 dated 2026-08-21
DESCRIPTION | 6 +- MD5 | 18 +++---- NEWS.md | 4 + R/nsfg.R | 118 +++++++++++++++++++++++++++++++++++++----------- R/soss.R | 55 +++++++++++++--------- inst/doc/childfree.R | 5 ++ inst/doc/childfree.Rmd | 6 ++ inst/doc/childfree.html | 26 ++++++++-- man/soss.Rd | 12 ++-- vignettes/childfree.Rmd | 6 ++ 10 files changed, 185 insertions(+), 71 deletions(-)
Title: Advanced Continuous Glucose Monitoring Analysis with
High-Performance C++ Backend
Description: Tools for advanced analysis of continuous glucose monitoring (CGM)
time-series, implementing GRID (Glucose Rate Increase Detector) and GRID-based
algorithms for postprandial peak detection, and detection of hypoglycemic and
hyperglycemic episodes (Levels 1/2/Extended) aligned with international consensus
CGM metrics. Core algorithms are implemented in optimized C++ using 'Rcpp' to
provide accurate and fast analysis on large datasets.
Author: Sang Ho Park [aut, cre],
Rosa Oh [aut, ctb],
Sang-Man Jin [aut, ctb]
Maintainer: Sang Ho Park <shstat1729@gmail.com>
Diff between cgmguru versions 1.2.0 dated 2026-07-08 and 1.3.0 dated 2026-08-21
cgmguru-1.2.0/cgmguru/LICENSE |only cgmguru-1.3.0/cgmguru/DESCRIPTION | 8 cgmguru-1.3.0/cgmguru/LICENSE.note |only cgmguru-1.3.0/cgmguru/MD5 | 66 +-- cgmguru-1.3.0/cgmguru/NAMESPACE | 1 cgmguru-1.3.0/cgmguru/NEWS.md | 29 + cgmguru-1.3.0/cgmguru/R/RcppExports.R | 4 cgmguru-1.3.0/cgmguru/R/cgmguru-functions-docs.R | 16 cgmguru-1.3.0/cgmguru/R/cgmguru-package.R | 12 cgmguru-1.3.0/cgmguru/R/interval_down.R |only cgmguru-1.3.0/cgmguru/inst/doc/detect_all_events.Rmd | 10 cgmguru-1.3.0/cgmguru/inst/doc/detect_all_events.html | 35 - cgmguru-1.3.0/cgmguru/inst/doc/examples.R | 7 cgmguru-1.3.0/cgmguru/inst/doc/examples.Rmd | 12 cgmguru-1.3.0/cgmguru/inst/doc/examples.html | 10 cgmguru-1.3.0/cgmguru/inst/doc/grid.html | 4 cgmguru-1.3.0/cgmguru/inst/doc/intro.Rmd | 4 cgmguru-1.3.0/cgmguru/inst/doc/intro.html | 4 cgmguru-1.3.0/cgmguru/man/cgmguru-package.Rd | 12 cgmguru-1.3.0/cgmguru/man/detect_all_events.Rd | 8 cgmguru-1.3.0/cgmguru/man/detect_hyperglycemic_events.Rd | 4 cgmguru-1.3.0/cgmguru/man/detect_hypoglycemic_events.Rd | 4 cgmguru-1.3.0/cgmguru/man/interval_down.Rd |only cgmguru-1.3.0/cgmguru/src/RcppExports.cpp | 13 cgmguru-1.3.0/cgmguru/src/detect_all_events.cpp | 109 +---- cgmguru-1.3.0/cgmguru/src/detect_hyperglycemic_events.cpp | 194 +--------- cgmguru-1.3.0/cgmguru/src/detect_hypoglycemic_events.cpp | 151 ++----- cgmguru-1.3.0/cgmguru/src/event_preprocessing.h | 123 ++++++ cgmguru-1.3.0/cgmguru/src/interpolate_cgm.cpp | 6 cgmguru-1.3.0/cgmguru/src/interval_down.cpp |only cgmguru-1.3.0/cgmguru/src/rebound_events.cpp | 7 cgmguru-1.3.0/cgmguru/src/variability_metrics.cpp | 6 cgmguru-1.3.0/cgmguru/tests/testthat/test-iglu-episode-parity.R | 61 +++ cgmguru-1.3.0/cgmguru/tests/testthat/test-interval_down.R |only cgmguru-1.3.0/cgmguru/vignettes/detect_all_events.Rmd | 10 cgmguru-1.3.0/cgmguru/vignettes/examples.Rmd | 12 cgmguru-1.3.0/cgmguru/vignettes/intro.Rmd | 4 37 files changed, 483 insertions(+), 463 deletions(-)
Title: Visualization Package for CanvasXpress in R
Description: Enables creation of visualizations using the CanvasXpress framework
in R. CanvasXpress is a standalone JavaScript library for reproducible research
with complete tracking of data and end-user modifications stored in a single
PNG image that can be played back. See <https://www.canvasxpress.org> for more
information.
Author: Isaac Neuhaus [aut],
Connie Brett [aut, cre]
Maintainer: Connie Brett <connie@aggregate-genius.com>
Diff between canvasXpress versions 1.59.5 dated 2026-01-14 and 1.65.2 dated 2026-08-21
DESCRIPTION | 8 MD5 | 50 NEWS.md | 5 R/ggplot_as_list.R | 1404 ++++- R/html_functionality.R | 211 README.md | 2 inst/README-known_issues.md | 2 inst/doc/additional_examples.html | 4 inst/doc/getting_started.Rmd | 2 inst/doc/getting_started.html | 10 inst/htmlwidgets/canvasXpress.yaml | 2 inst/htmlwidgets/lib/canvasXpress/canvasXpress.css | 4422 ++++++++++-------- inst/htmlwidgets/lib/canvasXpress/canvasXpress.min.js | 285 - inst/shiny-examples/example2/ui.R | 10 inst/shiny-examples/example3/ui.R | 7 inst/shiny-examples/example4/server.R | 11 inst/shiny-examples/example4/ui.R | 59 inst/ui-examples/cX-function.R.gz |binary tests/testthat/test-other-cxHtmlPage.R | 216 tests/testthat/test-other-ggplot_as_list.R | 981 +++ tests/testthat/test-ui-bar.R | 14 tests/testthat/test-ui-bullet.R | 4 tests/testthat/test-ui-meter.R | 44 tests/testthat/test-ui-pie.R | 4 tests/testthat/test-ui-scatter3D.R | 12 vignettes/getting_started.Rmd | 2 26 files changed, 5268 insertions(+), 2503 deletions(-)
Title: Fit Bounded Continuous Item Response Theory Models to Data
Description: Bounded continuous data are encountered in many areas of test application.
Examples include visual analogue scales used in the measurement of personality, mood,
depression, and quality of life; item response times from tests with item deadlines;
confidence ratings; and pain intensity ratings. Using this package, item response theory (IRT)
models suitable for bounded continuous item scores can be fitted to data within a Bayesian framework.
The package draws on posterior sampling facilities provided by R-package 'rstan' (Stan Development Team, 2025)<https://mc-stan.org/>.
Available models include the Beta IRT model by Noel and Dauvier (2007)<doi:10.1177/0146621605287691>, the continuous response
model by Samejima (1973)<doi:10.1007/BF03372160>, the unbounded normal model by Mellenbergh (1994)<doi:10.1207/s15327906mbr2903_2>,
and the Simplex IRT model by Flores et al. (2020)<doi:10.1007/978-3-030-43469-4_8>. All models can be
fitted with or without zero-one i [...truncated...]
Author: Dylan Molenaar [aut, cre]
Maintainer: Dylan Molenaar <d.molenaar@uva.nl>
Diff between BoundIRT versions 0.5.0 dated 2026-05-05 and 0.6.0 dated 2026-08-21
BoundIRT-0.5.0/BoundIRT/data/female.rda |only BoundIRT-0.5.0/BoundIRT/man/Abasement.Rd |only BoundIRT-0.5.0/BoundIRT/man/out_beta.Rd |only BoundIRT-0.6.0/BoundIRT/DESCRIPTION | 6 BoundIRT-0.6.0/BoundIRT/MD5 | 11 - BoundIRT-0.6.0/BoundIRT/R/latregBIRT.R | 293 +++++++++++++++++++++++------- BoundIRT-0.6.0/BoundIRT/data/ACL.rda |only BoundIRT-0.6.0/BoundIRT/man/ACL.Rd |only BoundIRT-0.6.0/BoundIRT/man/latregBIRT.Rd | 197 ++++++++++++-------- 9 files changed, 353 insertions(+), 154 deletions(-)
Title: Binscatter Estimation and Inference
Description: Provides tools for statistical analysis using the binscatter methods developed by Cattaneo, Crump, Farrell and Feng (2024) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2024_AER.pdf>, Cattaneo, Crump, Farrell and Feng (2025) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2025_Stata.pdf> and Cattaneo, Crump, Farrell and Feng (2026) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2026_RESTAT.pdf>. Binscatter provides a flexible way of describing the relationship between two variables based on partitioning/binning of the independent variable of interest. binsreg(), binsqreg() and binsglm() implement binscatter least squares regression, quantile regression and generalized linear regression respectively, with particular focus on constructing binned scatter plots. They also implement robust (pointwise and uniform) inference of regression functions and derivatives thereof. binstest() implements hypothesis test [...truncated...]
Author: Matias D. Cattaneo [aut, cre],
Richard K. Crump [aut],
Max H. Farrell [aut],
Yingjie Feng [aut]
Maintainer: Matias D. Cattaneo <matias.d.cattaneo@gmail.com>
Diff between binsreg versions 2.1 dated 2026-05-22 and 2.2 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 6 ++++-- R/binstest.R | 12 +++++++++++- tests/testthat |only tests/testthat.R |only 5 files changed, 19 insertions(+), 7 deletions(-)
Title: Bayesian Quantile Regression Models for Complex Survey Data
Analysis
Description: Provides Bayesian quantile regression models for complex survey data
under informative sampling using survey-weighted estimators. Both single- and
multiple-output models are supported. To accelerate computation, all algorithms
are implemented in 'C++' using 'Rcpp', 'RcppArmadillo', and 'RcppEigen', and
are called from 'R'. See Nascimento and Gonçalves (2024) <doi:10.1093/jssam/smae015>
and Nascimento and Gonçalves (2026) <doi:10.1093/jssam/smaf040>.
Author: Tomas Rodriguez Taborda [aut, cre],
Johnatan Cardona Jimenez [aut],
Marcus L. Nascimento [aut],
Kelly Cristina Mota Goncalves [aut]
Maintainer: Tomas Rodriguez Taborda <torodriguezt@unal.edu.co>
Diff between bayesQRsurvey versions 0.3.0 dated 2026-07-07 and 0.3.1 dated 2026-08-21
DESCRIPTION | 9 - MD5 | 27 ++- NAMESPACE | 1 R/bqr.svy.R | 20 +- R/mo.bqr.svy.R | 2 R/plot_quantile.R | 312 +++++++++++++++++++++++++++------------------- R/plot_quantile_region.R | 184 +++++++++++---------------- R/summary_bqr_svy.R | 81 ++++++++++- build/vignette.rds |only data/Anthro.rda |binary inst/doc |only man/figures |only man/plot.bqr.svy.Rd | 35 +++-- man/plotQuantileRegion.Rd | 26 ++- vignettes |only 15 files changed, 417 insertions(+), 280 deletions(-)
Title: Automated Functions for Basic Statistical Tests
Description: Provides simple and intuitive functions for basic statistical analyses.
Methods include the t-test (Student 1908 <doi:10.1093/biomet/6.1.1>),
the Mann-Whitney U test (Mann and Whitney 1947 <doi:10.1214/aoms/1177730491>),
Pearson's correlation (Pearson 1895 <doi:10.1098/rspl.1895.0041>),
and analysis of variance (Fisher 1925, <doi:10.1007/978-1-4612-4380-9_5>).
Functions are compatible with 'ggplot2' and 'dplyr'.
Author: Luiz Garcia [aut, cre]
Maintainer: Luiz Garcia <luiz.cardoso@ufpr.br>
Diff between autotestR versions 1.2.15 dated 2026-04-28 and 1.2.16 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/utils_stats.R | 2 +- R/zzz.R | 14 ++++++++++++-- README.md | 8 +++++--- 5 files changed, 25 insertions(+), 13 deletions(-)
Title: Estimate Sleep from 'Accelerometry' Data
Description: Interfaces the 'asleep' python
module <https://github.com/OxWearables/asleep> from
Yuan (2024) <doi:10.1038/s41746-024-01148-y> to estimate
sleep from 'accelerometry' data.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between asleep versions 0.1.0 dated 2026-08-04 and 0.3.0 dated 2026-08-21
asleep-0.1.0/asleep/R/utils-pipe.R |only asleep-0.1.0/asleep/man/pipe.Rd |only asleep-0.3.0/asleep/DESCRIPTION | 13 asleep-0.3.0/asleep/MD5 | 25 - asleep-0.3.0/asleep/NAMESPACE | 4 asleep-0.3.0/asleep/NEWS.md | 10 asleep-0.3.0/asleep/R/asleep.R | 116 +++--- asleep-0.3.0/asleep/R/py_asleep.R |only asleep-0.3.0/asleep/R/py_require_asleep.R |only asleep-0.3.0/asleep/R/sl_load_model.R | 21 - asleep-0.3.0/asleep/R/zzz.R | 10 asleep-0.3.0/asleep/man/asleep.Rd | 101 +++-- asleep-0.3.0/asleep/man/py_require_asleep.Rd |only asleep-0.3.0/asleep/tests/testthat/test-asleep.R | 192 +++++++++- asleep-0.3.0/asleep/tests/testthat/test-model-and-read.R | 29 + asleep-0.3.0/asleep/tests/testthat/test-reticulate-wrappers.R | 25 + 16 files changed, 426 insertions(+), 120 deletions(-)