Title: Exact Variable-Subset Selection in Linear Regression
Description: Exact and approximation algorithms for variable-subset
selection in ordinary linear regression models. Either compute all
submodels with the lowest residual sum of squares, or determine the
single-best submodel according to a pre-determined statistical
criterion. Hofmann et al. (2020) <doi:10.18637/jss.v093.i03>.
Author: Marc Hofmann [aut, cre],
Cristian Gatu [aut],
Erricos J. Kontoghiorghes [aut],
Ana Colubi [aut],
Achim Zeileis [aut] ,
Martin Moene [cph] ,
Microsoft Corporation [cph]
Maintainer: Marc Hofmann <marc.hofmann@gmail.com>
Diff between lmSubsets versions 0.5-2 dated 2021-02-07 and 0.5-3 dated 2026-01-12
lmSubsets-0.5-2/lmSubsets/src/include/cxx11.inc |only lmSubsets-0.5-2/lmSubsets/src/include/mcs/util/detail/function_traits.hh |only lmSubsets-0.5-2/lmSubsets/src/include/mcs/util/function_traits.hh |only lmSubsets-0.5-3/lmSubsets/DESCRIPTION | 23 ++---- lmSubsets-0.5-3/lmSubsets/MD5 | 37 ++++------ lmSubsets-0.5-3/lmSubsets/build/partial.rdb |binary lmSubsets-0.5-3/lmSubsets/build/vignette.rds |binary lmSubsets-0.5-3/lmSubsets/inst/doc/lmSubsets.Rnw | 2 lmSubsets-0.5-3/lmSubsets/inst/doc/lmSubsets.pdf |binary lmSubsets-0.5-3/lmSubsets/man/AirPollution.Rd | 2 lmSubsets-0.5-3/lmSubsets/man/lmSubsets-package.Rd | 2 lmSubsets-0.5-3/lmSubsets/src/Makevars | 2 lmSubsets-0.5-3/lmSubsets/src/include/mcs/subset/detail/dca_state.hh | 14 +-- lmSubsets-0.5-3/lmSubsets/src/lmSubsets.cc | 3 lmSubsets-0.5-3/lmSubsets/vignettes/bm-01.RData |binary lmSubsets-0.5-3/lmSubsets/vignettes/bm-02.RData |binary lmSubsets-0.5-3/lmSubsets/vignettes/bm-03.RData |binary lmSubsets-0.5-3/lmSubsets/vignettes/bm-04.RData |binary lmSubsets-0.5-3/lmSubsets/vignettes/bm-05.RData |binary lmSubsets-0.5-3/lmSubsets/vignettes/lmSubsets.Rnw | 2 lmSubsets-0.5-3/lmSubsets/vignettes/lmSubsets.bib | 2 21 files changed, 37 insertions(+), 52 deletions(-)
Title: Statistical Methods for Psychologists
Description: Implements confidence interval and sample size methods that
are especially useful in psychological research. The methods can be
applied in 1-group, 2-group, paired-samples, and multiple-group designs
and to a variety of parameters including means, medians, proportions,
slopes, standardized mean differences, standardized linear contrasts
of means, plus several measures of correlation and association.
Confidence interval and sample size functions are given for single
parameters as well as differences, ratios, and linear contrasts of
parameters. The sample size functions can be used to approximate the
sample size needed to estimate a parameter or function of parameters
with desired confidence interval precision or to perform a variety of
hypothesis tests (directional two-sided, equivalence, superiority,
noninferiority) with desired power. For details see: Statistical Methods
for Psychologists, Volumes 1 – 4, <https://dgbonett.sites.ucsc.edu/>.
Author: Douglas G. Bonett [aut, cre],
Robert J. Calin-Jageman [ctb]
Maintainer: Douglas G. Bonett <dgbonett@ucsc.edu>
Diff between statpsych versions 1.8.0 dated 2025-06-10 and 1.9.0 dated 2026-01-12
statpsych-1.8.0/statpsych/man/size.test.slope.gen.Rd |only statpsych-1.9.0/statpsych/DESCRIPTION | 8 statpsych-1.9.0/statpsych/MD5 | 433 +- statpsych-1.9.0/statpsych/NAMESPACE | 13 statpsych-1.9.0/statpsych/NEWS.md | 38 statpsych-1.9.0/statpsych/R/statpsych1.R | 1565 ++++++---- statpsych-1.9.0/statpsych/R/statpsych2.R | 1500 +++++++-- statpsych-1.9.0/statpsych/R/statpsych3.R | 1005 ++++-- statpsych-1.9.0/statpsych/build/partial.rdb |binary statpsych-1.9.0/statpsych/inst/REFERENCES.bib | 49 statpsych-1.9.0/statpsych/man/adj.se.Rd | 13 statpsych-1.9.0/statpsych/man/ci.2x2.mean.bs.Rd | 21 statpsych-1.9.0/statpsych/man/ci.2x2.mean.mixed.Rd | 23 statpsych-1.9.0/statpsych/man/ci.2x2.mean.ws.Rd | 21 statpsych-1.9.0/statpsych/man/ci.2x2.median.bs.Rd | 4 statpsych-1.9.0/statpsych/man/ci.2x2.median.mixed.Rd | 2 statpsych-1.9.0/statpsych/man/ci.2x2.prop.bs.Rd | 22 statpsych-1.9.0/statpsych/man/ci.2x2.prop.mixed.Rd | 21 statpsych-1.9.0/statpsych/man/ci.2x2.stdmean.bs.Rd | 16 statpsych-1.9.0/statpsych/man/ci.2x2.stdmean.mixed.Rd | 20 statpsych-1.9.0/statpsych/man/ci.2x2.stdmean.ws.Rd | 18 statpsych-1.9.0/statpsych/man/ci.agree.3rater.Rd | 16 statpsych-1.9.0/statpsych/man/ci.agree.Rd | 10 statpsych-1.9.0/statpsych/man/ci.agree2.Rd | 16 statpsych-1.9.0/statpsych/man/ci.bayes.cor.Rd | 117 statpsych-1.9.0/statpsych/man/ci.bayes.normal.Rd | 8 statpsych-1.9.0/statpsych/man/ci.bayes.prop.Rd | 10 statpsych-1.9.0/statpsych/man/ci.bayes.spcor.Rd | 9 statpsych-1.9.0/statpsych/man/ci.biphi.Rd | 10 statpsych-1.9.0/statpsych/man/ci.bscor.Rd | 4 statpsych-1.9.0/statpsych/man/ci.cod.Rd | 4 statpsych-1.9.0/statpsych/man/ci.condslope.Rd | 5 statpsych-1.9.0/statpsych/man/ci.condslope.log.Rd | 11 statpsych-1.9.0/statpsych/man/ci.cor.Rd | 16 statpsych-1.9.0/statpsych/man/ci.cor.dep.Rd | 8 statpsych-1.9.0/statpsych/man/ci.cor2.Rd | 10 statpsych-1.9.0/statpsych/man/ci.cor2.gen.Rd | 14 statpsych-1.9.0/statpsych/man/ci.cqv.Rd | 4 statpsych-1.9.0/statpsych/man/ci.cramer.Rd | 8 statpsych-1.9.0/statpsych/man/ci.cronbach.Rd | 12 statpsych-1.9.0/statpsych/man/ci.cronbach2.Rd | 10 statpsych-1.9.0/statpsych/man/ci.cv.Rd | 5 statpsych-1.9.0/statpsych/man/ci.diversity.Rd |only statpsych-1.9.0/statpsych/man/ci.etasqr.Rd | 11 statpsych-1.9.0/statpsych/man/ci.fisher.Rd | 6 statpsych-1.9.0/statpsych/man/ci.icc.Rd |only statpsych-1.9.0/statpsych/man/ci.indirect.Rd | 5 statpsych-1.9.0/statpsych/man/ci.kappa.Rd | 13 statpsych-1.9.0/statpsych/man/ci.lc.glm.Rd | 9 statpsych-1.9.0/statpsych/man/ci.lc.mean.bs.Rd | 29 statpsych-1.9.0/statpsych/man/ci.lc.mean.scheffe.Rd |only statpsych-1.9.0/statpsych/man/ci.lc.median.bs.Rd | 4 statpsych-1.9.0/statpsych/man/ci.lc.prop.bs.Rd | 19 statpsych-1.9.0/statpsych/man/ci.lc.prop.scheffe.Rd |only statpsych-1.9.0/statpsych/man/ci.lc.reg.Rd | 9 statpsych-1.9.0/statpsych/man/ci.lc.stdmean.bs.Rd | 18 statpsych-1.9.0/statpsych/man/ci.lc.stdmean.ws.Rd | 10 statpsych-1.9.0/statpsych/man/ci.mad.Rd | 4 statpsych-1.9.0/statpsych/man/ci.mann.Rd | 10 statpsych-1.9.0/statpsych/man/ci.mape.Rd | 5 statpsych-1.9.0/statpsych/man/ci.mean.Rd | 8 statpsych-1.9.0/statpsych/man/ci.mean.fpc.Rd | 5 statpsych-1.9.0/statpsych/man/ci.mean.gen.Rd |only statpsych-1.9.0/statpsych/man/ci.mean.ps.Rd | 11 statpsych-1.9.0/statpsych/man/ci.mean2.Rd | 19 statpsych-1.9.0/statpsych/man/ci.median.Rd | 11 statpsych-1.9.0/statpsych/man/ci.median.ps.Rd | 4 statpsych-1.9.0/statpsych/man/ci.median2.Rd | 14 statpsych-1.9.0/statpsych/man/ci.oddsratio.Rd | 4 statpsych-1.9.0/statpsych/man/ci.pairs.mult.Rd | 17 statpsych-1.9.0/statpsych/man/ci.pairs.prop.bs.Rd | 12 statpsych-1.9.0/statpsych/man/ci.pbcor.Rd | 10 statpsych-1.9.0/statpsych/man/ci.phi.Rd | 8 statpsych-1.9.0/statpsych/man/ci.poisson.Rd | 4 statpsych-1.9.0/statpsych/man/ci.popsize.Rd | 11 statpsych-1.9.0/statpsych/man/ci.prop.Rd | 14 statpsych-1.9.0/statpsych/man/ci.prop.fpc.Rd | 11 statpsych-1.9.0/statpsych/man/ci.prop.inv.Rd | 10 statpsych-1.9.0/statpsych/man/ci.prop.ps.Rd | 4 statpsych-1.9.0/statpsych/man/ci.prop2.Rd | 10 statpsych-1.9.0/statpsych/man/ci.pv.Rd | 4 statpsych-1.9.0/statpsych/man/ci.random.anova.Rd | 5 statpsych-1.9.0/statpsych/man/ci.ratio.mad.ps.Rd | 4 statpsych-1.9.0/statpsych/man/ci.ratio.mad2.Rd | 4 statpsych-1.9.0/statpsych/man/ci.ratio.mean.ps.Rd | 12 statpsych-1.9.0/statpsych/man/ci.ratio.mean2.Rd | 5 statpsych-1.9.0/statpsych/man/ci.ratio.median.ps.Rd | 12 statpsych-1.9.0/statpsych/man/ci.ratio.median2.Rd | 8 statpsych-1.9.0/statpsych/man/ci.ratio.poisson2.Rd | 8 statpsych-1.9.0/statpsych/man/ci.ratio.prop.ps.Rd | 4 statpsych-1.9.0/statpsych/man/ci.ratio.prop2.Rd | 8 statpsych-1.9.0/statpsych/man/ci.rel2.Rd | 8 statpsych-1.9.0/statpsych/man/ci.reliability.Rd | 11 statpsych-1.9.0/statpsych/man/ci.rsqr.Rd | 10 statpsych-1.9.0/statpsych/man/ci.sd.Rd |only statpsych-1.9.0/statpsych/man/ci.sign.Rd | 4 statpsych-1.9.0/statpsych/man/ci.slope.Rd |only statpsych-1.9.0/statpsych/man/ci.slope.mean.bs.Rd | 17 statpsych-1.9.0/statpsych/man/ci.slope.median.bs.Rd | 6 statpsych-1.9.0/statpsych/man/ci.slope.prop.bs.Rd | 14 statpsych-1.9.0/statpsych/man/ci.spcor.Rd | 10 statpsych-1.9.0/statpsych/man/ci.spear.Rd | 14 statpsych-1.9.0/statpsych/man/ci.spear2.Rd | 6 statpsych-1.9.0/statpsych/man/ci.stdmean.Rd | 4 statpsych-1.9.0/statpsych/man/ci.stdmean.ps.Rd | 14 statpsych-1.9.0/statpsych/man/ci.stdmean.strat.Rd | 8 statpsych-1.9.0/statpsych/man/ci.stdmean2.Rd | 16 statpsych-1.9.0/statpsych/man/ci.tetra.Rd | 10 statpsych-1.9.0/statpsych/man/ci.theil.Rd | 4 statpsych-1.9.0/statpsych/man/ci.tukey.Rd | 18 statpsych-1.9.0/statpsych/man/ci.var.upper.Rd | 9 statpsych-1.9.0/statpsych/man/ci.yule.Rd | 13 statpsych-1.9.0/statpsych/man/etasqr.adj.Rd | 7 statpsych-1.9.0/statpsych/man/etasqr.gen.2way.Rd | 5 statpsych-1.9.0/statpsych/man/expon.slope.Rd | 85 statpsych-1.9.0/statpsych/man/fitindices.Rd | 9 statpsych-1.9.0/statpsych/man/iqv.Rd | 1 statpsych-1.9.0/statpsych/man/pi.cor.Rd | 30 statpsych-1.9.0/statpsych/man/pi.cronbach.Rd |only statpsych-1.9.0/statpsych/man/pi.prop.Rd | 27 statpsych-1.9.0/statpsych/man/pi.score.Rd | 5 statpsych-1.9.0/statpsych/man/pi.score.ps.Rd | 5 statpsych-1.9.0/statpsych/man/pi.score2.Rd | 14 statpsych-1.9.0/statpsych/man/pi.var.Rd | 26 statpsych-1.9.0/statpsych/man/signal.Rd | 8 statpsych-1.9.0/statpsych/man/sim.ci.stdmean.ps.Rd | 10 statpsych-1.9.0/statpsych/man/sim.ci.stdmean2.Rd | 6 statpsych-1.9.0/statpsych/man/size.ci.agree.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.ancova2.Rd | 117 statpsych-1.9.0/statpsych/man/size.ci.biphi.Rd | 78 statpsych-1.9.0/statpsych/man/size.ci.condmean.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.cor.Rd | 8 statpsych-1.9.0/statpsych/man/size.ci.cor.prior.Rd | 35 statpsych-1.9.0/statpsych/man/size.ci.cronbach.Rd | 11 statpsych-1.9.0/statpsych/man/size.ci.cronbach.prior.Rd |only statpsych-1.9.0/statpsych/man/size.ci.cronbach2.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.etasqr.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.icc.Rd |only statpsych-1.9.0/statpsych/man/size.ci.icc.prior.Rd |only statpsych-1.9.0/statpsych/man/size.ci.indirect.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.lc.ancova.Rd | 11 statpsych-1.9.0/statpsych/man/size.ci.lc.mean.bs.Rd | 11 statpsych-1.9.0/statpsych/man/size.ci.lc.mean.ws.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.lc.median.bs.Rd | 4 statpsych-1.9.0/statpsych/man/size.ci.lc.prop.bs.Rd | 11 statpsych-1.9.0/statpsych/man/size.ci.lc.stdmean.bs.Rd | 12 statpsych-1.9.0/statpsych/man/size.ci.lc.stdmean.ws.Rd | 12 statpsych-1.9.0/statpsych/man/size.ci.mean.Rd | 7 statpsych-1.9.0/statpsych/man/size.ci.mean.prior.Rd | 30 statpsych-1.9.0/statpsych/man/size.ci.mean.ps.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.mean2.Rd | 22 statpsych-1.9.0/statpsych/man/size.ci.median.Rd | 4 statpsych-1.9.0/statpsych/man/size.ci.median2.Rd | 4 statpsych-1.9.0/statpsych/man/size.ci.oddsratio.Rd | 70 statpsych-1.9.0/statpsych/man/size.ci.pbcor.Rd | 4 statpsych-1.9.0/statpsych/man/size.ci.phi.Rd | 74 statpsych-1.9.0/statpsych/man/size.ci.prop.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.prop.prior.Rd | 31 statpsych-1.9.0/statpsych/man/size.ci.prop.ps.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.prop2.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.ratio.mean.ps.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.ratio.mean2.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.ratio.prop.ps.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.ratio.prop2.Rd | 13 statpsych-1.9.0/statpsych/man/size.ci.rsqr.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.sd.Rd |only statpsych-1.9.0/statpsych/man/size.ci.second.Rd | 9 statpsych-1.9.0/statpsych/man/size.ci.slope.Rd | 11 statpsych-1.9.0/statpsych/man/size.ci.slope.gen.Rd | 5 statpsych-1.9.0/statpsych/man/size.ci.stdmean.ps.Rd | 4 statpsych-1.9.0/statpsych/man/size.ci.stdmean2.Rd | 19 statpsych-1.9.0/statpsych/man/size.ci.tetra.Rd | 4 statpsych-1.9.0/statpsych/man/size.ci.yule.Rd | 74 statpsych-1.9.0/statpsych/man/size.equiv.mean.ps.Rd | 9 statpsych-1.9.0/statpsych/man/size.equiv.mean2.Rd | 5 statpsych-1.9.0/statpsych/man/size.equiv.prop.ps.Rd | 5 statpsych-1.9.0/statpsych/man/size.equiv.prop2.Rd | 9 statpsych-1.9.0/statpsych/man/size.interval.cor.Rd | 9 statpsych-1.9.0/statpsych/man/size.supinf.mean.ps.Rd | 5 statpsych-1.9.0/statpsych/man/size.supinf.mean2.Rd | 5 statpsych-1.9.0/statpsych/man/size.supinf.prop.ps.Rd | 5 statpsych-1.9.0/statpsych/man/size.supinf.prop2.Rd | 5 statpsych-1.9.0/statpsych/man/size.test.ancova2.Rd | 121 statpsych-1.9.0/statpsych/man/size.test.cor.Rd | 15 statpsych-1.9.0/statpsych/man/size.test.cronbach.Rd | 4 statpsych-1.9.0/statpsych/man/size.test.gen.Rd | 5 statpsych-1.9.0/statpsych/man/size.test.gen2.Rd | 2 statpsych-1.9.0/statpsych/man/size.test.lc.ancova.Rd | 11 statpsych-1.9.0/statpsych/man/size.test.lc.mean.bs.Rd | 12 statpsych-1.9.0/statpsych/man/size.test.lc.mean.ws.Rd | 11 statpsych-1.9.0/statpsych/man/size.test.lc.prop.bs.Rd | 11 statpsych-1.9.0/statpsych/man/size.test.mann.Rd | 4 statpsych-1.9.0/statpsych/man/size.test.mean.Rd | 9 statpsych-1.9.0/statpsych/man/size.test.mean.ps.Rd | 5 statpsych-1.9.0/statpsych/man/size.test.mean2.Rd | 9 statpsych-1.9.0/statpsych/man/size.test.prop.Rd | 4 statpsych-1.9.0/statpsych/man/size.test.prop.ps.Rd | 9 statpsych-1.9.0/statpsych/man/size.test.prop2.Rd | 14 statpsych-1.9.0/statpsych/man/size.test.sign.Rd | 5 statpsych-1.9.0/statpsych/man/size.test.slope.Rd | 5 statpsych-1.9.0/statpsych/man/slope.contrast.Rd | 5 statpsych-1.9.0/statpsych/man/spearmanbrown.Rd | 5 statpsych-1.9.0/statpsych/man/test.anova.bs.Rd | 9 statpsych-1.9.0/statpsych/man/test.cor.Rd | 13 statpsych-1.9.0/statpsych/man/test.cor2.Rd | 4 statpsych-1.9.0/statpsych/man/test.kurtosis.Rd | 9 statpsych-1.9.0/statpsych/man/test.mean.Rd | 10 statpsych-1.9.0/statpsych/man/test.mono.mean.bs.Rd | 5 statpsych-1.9.0/statpsych/man/test.mono.median.bs.Rd | 5 statpsych-1.9.0/statpsych/man/test.mono.prop.bs.Rd | 5 statpsych-1.9.0/statpsych/man/test.prop.Rd | 10 statpsych-1.9.0/statpsych/man/test.prop.bs.Rd | 12 statpsych-1.9.0/statpsych/man/test.prop.ps.Rd | 10 statpsych-1.9.0/statpsych/man/test.prop2.Rd | 10 statpsych-1.9.0/statpsych/man/test.skew.Rd | 9 statpsych-1.9.0/statpsych/man/test.spear.Rd | 10 statpsych-1.9.0/statpsych/man/test.spear2.Rd | 4 statpsych-1.9.0/statpsych/tests/testthat/_snaps/statpsych1.md | 206 - statpsych-1.9.0/statpsych/tests/testthat/_snaps/statpsych2.md | 173 - statpsych-1.9.0/statpsych/tests/testthat/_snaps/statpsych3.md | 123 statpsych-1.9.0/statpsych/tests/testthat/_snaps/statpsych4.md | 124 statpsych-1.9.0/statpsych/tests/testthat/test_statpsych1.R | 31 statpsych-1.9.0/statpsych/tests/testthat/test_statpsych2.R | 53 statpsych-1.9.0/statpsych/tests/testthat/test_statpsych3.R | 20 224 files changed, 5408 insertions(+), 2513 deletions(-)
Title: Simple Features for R
Description: Support for simple feature access, a standardized way to
encode and analyze spatial vector data. Binds to 'GDAL'
<doi:10.5281/zenodo.5884351> for reading and writing data, to 'GEOS'
<doi:10.5281/zenodo.11396894> for geometrical operations,
and to 'PROJ' <doi:10.5281/zenodo.5884394> for projection
conversions and datum transformations. Uses by default the 's2'
package for geometry operations on geodetic (long/lat degree)
coordinates.
Author: Edzer Pebesma [aut, cre] ,
Roger Bivand [ctb] ,
Etienne Racine [ctb],
Michael Sumner [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb] ,
Kirill Mueller [ctb],
Thomas Lin Pedersen [ctb],
Dan Baston [c [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 1.0-23 dated 2025-11-28 and 1.0-24 dated 2026-01-12
DESCRIPTION | 6 +++--- MD5 | 44 ++++++++++++++++++++++---------------------- NEWS.md | 10 ++++++++++ R/cast_sfc.R | 3 ++- R/crs.R | 4 ++-- R/graticule.R | 21 +++++++++++++++++++-- R/plot.R | 29 +++++++++++++++++++---------- R/sf.R | 8 ++++++-- R/stars.R | 2 +- inst/doc/sf1.html | 6 +++--- inst/doc/sf2.html | 6 +++--- inst/doc/sf4.html | 6 ++---- inst/doc/sf7.Rmd | 4 ++-- inst/doc/sf7.html | 14 +++++++------- man/plot.Rd | 4 +++- man/st_crs.Rd | 2 +- man/st_graticule.Rd | 4 ++-- src/Makevars.in | 1 - src/Makevars.ucrt | 3 --- src/Makevars.win | 2 -- src/proj.cpp | 2 +- src/stars.cpp | 21 ++++++++++++--------- vignettes/sf7.Rmd | 4 ++-- 23 files changed, 122 insertions(+), 84 deletions(-)
Title: Construction of Genetic Maps in Experimental Crosses
Description: Analysis of molecular marker data from model and non-model systems.
For the later, it allows statistical analysis by simultaneously estimating
linkage and linkage phases (genetic map construction) according to Wu and
colleagues (2002)
<doi:10.1006/tpbi.2002.1577>. All analysis are based on multi-point
approaches using hidden Markov models.
Author: Cristiane Taniguti [aut, cre],
Marcelo Mollinari [aut],
Rodrigo Amadeu [ctb],
Getulio Ferreira [ctb],
Gabriel Margarido [aut],
Jeekin Lau [ctb],
Karl Broman [ctb],
Katharine Preedy [ctb, cph] ,
Bastian Schiffthaler [ctb, cph] ,
Augusto Garcia [aut, c [...truncated...]
Maintainer: Cristiane Taniguti <chtaniguti@hotmail.com>
This is a re-admission after prior archival of version 3.2.2 dated 2025-05-16
Diff between onemap versions 3.2.2 dated 2025-05-16 and 3.2.4 dated 2026-01-12
DESCRIPTION | 54 - MD5 | 34 NAMESPACE | 1 NEWS.md | 9 R/filters.R | 2 R/onemap_read_vcfR.R | 1635 ++++++++++++++++----------------- R/zzz.R | 35 inst/CITATION | 10 inst/doc/Inbred_Based_Populations.html | 6 inst/doc/Introduction_R.html | 39 inst/doc/Outcrossing_Populations.html | 6 inst/doc/Overview.Rmd | 1 inst/doc/Overview.html | 6 src/find_bins.cpp | 1 src/find_bins.h | 1 src/out_est.cpp | 1 src/out_est.h | 1 vignettes/Overview.Rmd | 1 18 files changed, 918 insertions(+), 925 deletions(-)
Title: Morphometrics using R
Description: The goal of 'Momocs' is to provide a complete, convenient,
reproducible and open-source toolkit for 2D morphometrics.
It includes most common 2D morphometrics approaches on outlines, open outlines,
configurations of landmarks, traditional morphometrics, and facilities for data preparation,
manipulation and visualization with a consistent grammar throughout.
It allows reproducible, complex morphometrics analyses and other morphometrics approaches
should be easy to plug in, or develop from, on top of this canvas. Companion paper is published
in JSS Bonhomme V, Picq S, Gaucherel C and Claude J (2014) <doi:10.18637/jss.v056.i13>.
Now superseded by 'Momocs2' and the 'MomX' ecosystem.
'Momocs' should be considered retired and will no longer be supported someday.
Author: Vincent Bonhomme [aut, cre],
Julien Claude [aut]
Maintainer: Vincent Bonhomme <bonhomme.vincent@gmail.com>
This is a re-admission after prior archival of version 1.4.1 dated 2023-11-13
Diff between Momocs versions 1.4.1 dated 2023-11-13 and 1.5.0 dated 2026-01-12
DESCRIPTION | 17 +-- MD5 | 215 +++++++++++++++++++++--------------------- NEWS.md | 5 R/Momocs-package.R | 3 R/babel-import.R | 2 R/coo-ldk-utilities.R | 2 R/gr-LDA.R | 19 +-- R/gr-PCA.R | 4 R/gr-domesticplotters.R | 4 R/mult-LDA.R | 6 - R/mult-clust.R | 7 - man/CLUST.Rd | 2 man/Coe.Rd | 4 man/Coo.Rd | 4 man/KMEANS.Rd | 2 man/KMEDOIDS.Rd | 2 man/LDA.Rd | 6 - man/Ldk.Rd | 4 man/MDS.Rd | 2 man/MSHAPES.Rd | 2 man/Momocs.Rd | 10 + man/NMDS.Rd | 2 man/Opn.Rd | 2 man/OpnCoe.Rd | 2 man/Out.Rd | 2 man/OutCoe.Rd | 2 man/PCA.Rd | 2 man/TraCoe.Rd | 6 - man/babel.Rd | 4 man/classification_metrics.Rd | 2 man/coo_align.Rd | 10 - man/coo_aligncalliper.Rd | 16 +-- man/coo_alignminradius.Rd | 16 +-- man/coo_alignxax.Rd | 16 +-- man/coo_baseline.Rd | 12 +- man/coo_bookstein.Rd | 12 +- man/coo_boundingbox.Rd | 12 +- man/coo_calliper.Rd | 12 +- man/coo_centdist.Rd | 12 +- man/coo_center.Rd | 12 +- man/coo_centpos.Rd | 12 +- man/coo_close.Rd | 24 ++-- man/coo_down.Rd | 12 +- man/coo_dxy.Rd | 12 +- man/coo_extract.Rd | 16 +-- man/coo_flip.Rd | 12 +- man/coo_force2close.Rd | 12 +- man/coo_interpolate.Rd | 16 +-- man/coo_is_closed.Rd | 12 +- man/coo_jitter.Rd | 12 +- man/coo_left.Rd | 12 +- man/coo_likely_clockwise.Rd | 12 +- man/coo_nb.Rd | 12 +- man/coo_perim.Rd | 12 +- man/coo_range.Rd | 12 +- man/coo_rev.Rd | 12 +- man/coo_right.Rd | 12 +- man/coo_rotate.Rd | 10 - man/coo_rotatecenter.Rd | 10 - man/coo_sample.Rd | 10 - man/coo_sample_prop.Rd | 16 +-- man/coo_samplerr.Rd | 16 +-- man/coo_scale.Rd | 12 +- man/coo_shear.Rd | 12 +- man/coo_slice.Rd | 12 +- man/coo_slide.Rd | 10 - man/coo_slidedirection.Rd | 16 +-- man/coo_slidegap.Rd | 16 +-- man/coo_smooth.Rd | 10 - man/coo_smoothcurve.Rd | 10 - man/coo_template.Rd | 12 +- man/coo_trans.Rd | 12 +- man/coo_trim.Rd | 10 - man/coo_trimbottom.Rd | 16 +-- man/coo_trimtop.Rd | 16 +-- man/coo_untiltx.Rd | 12 +- man/coo_up.Rd | 12 +- man/dfourier_i.Rd | 4 man/dfourier_shape.Rd | 4 man/drawers.Rd | 2 man/efourier_i.Rd | 4 man/efourier_shape.Rd | 4 man/figures |only man/img_plot.Rd | 2 man/import_Conte.Rd | 2 man/import_StereoMorph.Rd | 8 - man/import_tps.Rd | 4 man/import_txt.Rd | 2 man/is_equallyspacedradii.Rd | 12 +- man/ldk_contour.Rd | 4 man/links_delaunay.Rd | 2 man/mosaic.Rd | 2 man/npoly.Rd | 4 man/papers.Rd | 2 man/pile.Rd | 2 man/plot.LDA.Rd | 4 man/plot.PCA.Rd | 4 man/plot_CV.Rd | 10 - man/plot_LDA.Rd | 2 man/plot_NMDS.Rd | 2 man/plot_PCA.Rd | 2 man/reLDA.Rd | 2 man/reexports.Rd | 2 man/rfourier_i.Rd | 4 man/rfourier_shape.Rd | 4 man/sfourier_i.Rd | 4 man/sfourier_shape.Rd | 4 man/tfourier_i.Rd | 4 man/tfourier_shape.Rd | 4 109 files changed, 535 insertions(+), 531 deletions(-)
Title: Package About Data Manipulation in Pure Base R
Description: A lightweight, dependency-free data engine for R that provides
a grammar for tabular and time-series manipulation. Built entirely on
Base R, 'm61r' offers a fluent, chainable API inspired by modern data
tools while prioritizing memory efficiency and speed. It includes
optimized versions of common data verbs such as filtering, mutation,
grouped aggregation, and approximate temporal joins, making it an
ideal choice for environments where external dependencies are
restricted or where performance in pure R is required.
Author: Jean-Marie Lepioufle [aut, cre]
Maintainer: Jean-Marie Lepioufle <pv71u98h1@gmail.com>
Diff between m61r versions 0.0.3 dated 2022-05-06 and 0.1.0 dated 2026-01-12
m61r-0.0.3/m61r/R/arrange.R |only m61r-0.0.3/m61r/R/bind.R |only m61r-0.0.3/m61r/R/expression.R |only m61r-0.0.3/m61r/R/filter.R |only m61r-0.0.3/m61r/R/group_by.R |only m61r-0.0.3/m61r/R/join.R |only m61r-0.0.3/m61r/R/m61r.R |only m61r-0.0.3/m61r/R/m61r_utils.R |only m61r-0.0.3/m61r/R/mutate.R |only m61r-0.0.3/m61r/R/reshape.R |only m61r-0.0.3/m61r/R/select.R |only m61r-0.0.3/m61r/R/summarise.R |only m61r-0.0.3/m61r/R/value.R |only m61r-0.0.3/m61r/inst/doc/base_r.R |only m61r-0.0.3/m61r/inst/doc/base_r.Rnw |only m61r-0.0.3/m61r/inst/doc/base_r.pdf |only m61r-0.0.3/m61r/inst/doc/m61r.R |only m61r-0.0.3/m61r/inst/doc/m61r.Rnw |only m61r-0.0.3/m61r/inst/doc/m61r.pdf |only m61r-0.0.3/m61r/man/group_by.Rd |only m61r-0.0.3/m61r/man/m61r.Rd |only m61r-0.0.3/m61r/vignettes/base_r.Rnw |only m61r-0.0.3/m61r/vignettes/m61r.Rnw |only m61r-0.1.0/m61r/DESCRIPTION | 24 +- m61r-0.1.0/m61r/LICENSE | 2 m61r-0.1.0/m61r/MD5 | 87 ++++--- m61r-0.1.0/m61r/NAMESPACE | 37 ++- m61r-0.1.0/m61r/NEWS.md |only m61r-0.1.0/m61r/R/io.R |only m61r-0.1.0/m61r/R/m61r_class.R |only m61r-0.1.0/m61r/R/operators.R |only m61r-0.1.0/m61r/R/primitives.R |only m61r-0.1.0/m61r/R/temporal.R |only m61r-0.1.0/m61r/R/utils.R | 122 ++++++++++ m61r-0.1.0/m61r/R/zzz.R |only m61r-0.1.0/m61r/README.md | 317 +++++++++------------------- m61r-0.1.0/m61r/build/vignette.rds |binary m61r-0.1.0/m61r/inst/doc/m61r_advanced.R |only m61r-0.1.0/m61r/inst/doc/m61r_advanced.Rmd |only m61r-0.1.0/m61r/inst/doc/m61r_advanced.html |only m61r-0.1.0/m61r/inst/doc/m61r_object.R |only m61r-0.1.0/m61r/inst/doc/m61r_object.Rmd |only m61r-0.1.0/m61r/inst/doc/m61r_object.html |only m61r-0.1.0/m61r/inst/doc/m61r_temporal.R |only m61r-0.1.0/m61r/inst/doc/m61r_temporal.Rmd |only m61r-0.1.0/m61r/inst/doc/m61r_temporal.html |only m61r-0.1.0/m61r/inst/doc/primitives.R |only m61r-0.1.0/m61r/inst/doc/primitives.Rmd |only m61r-0.1.0/m61r/inst/doc/primitives.html |only m61r-0.1.0/m61r/man/across.Rd |only m61r-0.1.0/m61r/man/arrange.Rd | 35 +-- m61r-0.1.0/m61r/man/case_when.Rd |only m61r-0.1.0/m61r/man/create_keys.Rd |only m61r-0.1.0/m61r/man/cut_time.Rd |only m61r-0.1.0/m61r/man/explode.Rd |only m61r-0.1.0/m61r/man/expression.Rd | 32 +- m61r-0.1.0/m61r/man/filter.Rd | 14 + m61r-0.1.0/m61r/man/group.Rd |only m61r-0.1.0/m61r/man/io.Rd |only m61r-0.1.0/m61r/man/join.Rd | 59 ++++- m61r-0.1.0/m61r/man/join_asof.Rd |only m61r-0.1.0/m61r/man/m61r-package.Rd |only m61r-0.1.0/m61r/man/m61r_class.Rd |only m61r-0.1.0/m61r/man/mutate.Rd | 33 ++ m61r-0.1.0/m61r/man/reshape.Rd | 51 +++- m61r-0.1.0/m61r/man/select.Rd | 20 + m61r-0.1.0/m61r/man/select_cols.Rd |only m61r-0.1.0/m61r/man/summarise.Rd | 29 ++ m61r-0.1.0/m61r/man/value.Rd | 5 m61r-0.1.0/m61r/vignettes/m61r_advanced.Rmd |only m61r-0.1.0/m61r/vignettes/m61r_object.Rmd |only m61r-0.1.0/m61r/vignettes/m61r_temporal.Rmd |only m61r-0.1.0/m61r/vignettes/primitives.Rmd |only 73 files changed, 528 insertions(+), 339 deletions(-)
Title: Bivariate Correlated Frailty Models with Varied Variances
Description: Fit and simulate bivariate correlated frailty models with
proportional hazard structure. Frailty distributions, such as gamma and
lognormal models are supported semiparametric procedures. Frailty
variances of the two subjects can be varied or equal. Details on the models are available in book of
Wienke (2011,ISBN:978-1-4200-7388-1). Bivariate gamma fit is obtained using the approach given
in Kifle et al (2023) <DOI: 10.4310/22-SII738> with modifications. Lognormal fit is based on the approach
by Ripatti and Palmgren (2000) <doi:10.1111/j.0006-341X.2000.01016.x>. Frailty distributions,
such as gamma, inverse gaussian and power variance frailty models are supported
for parametric approach.
Author: Mesfin Haileyesus [aut, cre]
Maintainer: Mesfin Haileyesus <mesfinh1@umbc.edu>
This is a re-admission after prior archival of version 0.1.1 dated 2022-12-14
Diff between bcfrailphdv versions 0.1.1 dated 2022-12-14 and 0.1.2 dated 2026-01-12
DESCRIPTION | 30 MD5 | 26 R/bcfraildv.R | 160 - R/bcfraildv.control.R | 2 R/bcfrailpar.R | 24 R/print.bcfrailpar.R | 4 R/simbcfraildv.R | 13 R/summary.bcfraildv.R | 10 R/summary.bcfrailpar.R | 3 R/utilities.R | 5856 +++++++++++++++++++++++------------------------ man/bcfraildv.Rd | 28 man/bcfrailpar.Rd | 20 man/simbcfraildv.Rd | 12 man/summary.bcfraildv.Rd | 2 14 files changed, 3090 insertions(+), 3100 deletions(-)
Title: Spatial Point Patterns Analysis
Description: Perform first- and second-order multi-scale analyses derived from Ripley K-function (Ripley B. D. (1977) <doi:10.1111/j.2517-6161.1977.tb01615.x>), for univariate,
multivariate and marked mapped data in rectangular, circular or irregular shaped sampling windows, with tests of
statistical significance based on Monte Carlo simulations.
Author: Raphael Pelissier [aut],
Francois Goreaud [aut],
Philippe Verley [ctb],
Dominique Lamonica [cre]
Maintainer: Dominique Lamonica <dominique.lamonica@ird.fr>
This is a re-admission after prior archival of version 1.5-11 dated 2025-10-10
Diff between ads versions 1.5-11 dated 2025-10-10 and 1.5-12 dated 2026-01-12
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/adssub.h | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Health Economic Simulation Modeling and Decision Analysis
Description: A modular and computationally efficient R package for
parameterizing, simulating, and analyzing health economic simulation
models. The package supports cohort discrete time state transition models
(Briggs et al. 1998) <doi:10.2165/00019053-199813040-00003>,
N-state partitioned survival models (Glasziou et al. 1990)
<doi:10.1002/sim.4780091106>, and individual-level continuous
time state transition models (Siebert et al. 2012) <doi:10.1016/j.jval.2012.06.014>,
encompassing both Markov (time-homogeneous and time-inhomogeneous) and
semi-Markov processes. Decision uncertainty from a cost-effectiveness analysis is
quantified with standard graphical and tabular summaries of a probabilistic
sensitivity analysis (Claxton et al. 2005, Barton et al. 2008) <doi:10.1002/hec.985>,
<doi:10.1111/j.1524-4733.2008.00358.x>. Use of C++ and data.table
make individual-patient simulation, probabilistic sensitivity analysis,
and incorporation of patient heterogeneity fast.
Author: Devin Incerti [aut, cre],
Jeroen P. Jansen [aut],
Mark Clements [aut],
R Core Team [ctb]
Maintainer: Devin Incerti <devin.incerti@gmail.com>
Diff between hesim versions 0.5.7 dated 2025-10-11 and 0.5.8 dated 2026-01-12
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Title: Complement to 'Modern Data Science with R'
Description: A complement to all editions of *Modern Data
Science with R*
(ISBN: 978-0367191498, publisher URL:
<https://www.routledge.com/Modern-Data-Science-with-R/Baumer-Kaplan-Horton/p/book/9780367191498>).
This package contains data and code to complete exercises and
reproduce examples from the text. It also facilitates connections
to the SQL database server used in the book. All editions of the book are
supported by this package.
Author: Benjamin S. Baumer [aut, cre] ,
Nicholas Horton [aut] ,
Daniel Kaplan [aut]
Maintainer: Benjamin S. Baumer <ben.baumer@gmail.com>
Diff between mdsr versions 0.2.8 dated 2024-08-19 and 0.2.9 dated 2026-01-12
DESCRIPTION | 13 +++++++------ MD5 | 19 +++++++++++-------- NEWS.md | 32 +++++++++++++++++--------------- R/BabynameDist.R | 2 +- R/data.R | 16 +++++++++++++--- build/partial.rdb |binary data/BP_narrow.rda |only data/BP_wide.rda |only man/BP_narrow.Rd |only man/Cherry.Rd | 4 ++-- man/save_webshot.Rd | 17 +++++++++-------- tests/testthat/tests.R | 2 +- 12 files changed, 61 insertions(+), 44 deletions(-)
Title: Utilities for Producing Maps
Description: Provides a minimal, light-weight set of tools for producing nice looking maps in R, with support for map projections. See Brown (2016) <doi:10.32614/RJ-2016-005>.
Author: Patrick Brown [aut, cre, cph]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between mapmisc versions 2.1.0 dated 2024-04-16 and 2.1.2 dated 2026-01-12
mapmisc-2.1.0/mapmisc/inst/extdoc/mapLayers.html |only mapmisc-2.1.0/mapmisc/vignettes/Makefile |only mapmisc-2.1.2/mapmisc/DESCRIPTION | 8 mapmisc-2.1.2/mapmisc/MD5 | 28 - mapmisc-2.1.2/mapmisc/R/crs.R | 6 mapmisc-2.1.2/mapmisc/R/getTiles.R | 476 +++++++++++------------ mapmisc-2.1.2/mapmisc/R/omerc.R | 18 mapmisc-2.1.2/mapmisc/R/openmap.R | 355 ++++++++--------- mapmisc-2.1.2/mapmisc/build/vignette.rds |binary mapmisc-2.1.2/mapmisc/inst/CITATION | 2 mapmisc-2.1.2/mapmisc/inst/doc/mapmisc.Rnw | 2 mapmisc-2.1.2/mapmisc/inst/doc/mapmisc.pdf |binary mapmisc-2.1.2/mapmisc/inst/doc/north.html | 101 ++-- mapmisc-2.1.2/mapmisc/inst/doc/perspective.html | 219 +++------- mapmisc-2.1.2/mapmisc/tests/omerc.R | 7 mapmisc-2.1.2/mapmisc/vignettes/mapmisc.Rnw | 2 16 files changed, 595 insertions(+), 629 deletions(-)
Title: Collection of Data Sets for Teaching Purposes
Description: Collection (syllogi in greek) of real and fictitious data sets for teaching purposes.
The datasets were manually entered by the author from the respective references as listed in the individual dataset documentation.
The fictions datasets are the creation of the author, that he has found useful for teaching statistics.
Author: Jared Studyvin [aut, cre]
Maintainer: Jared Studyvin <studyvinstat@gmail.com>
Diff between syllogi versions 1.0.4 dated 2025-01-10 and 1.0.5 dated 2026-01-12
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++++++++-- R/alligatorDiet.R | 7 +++---- R/frogs.R |only R/homicide.R |only R/soreThroat.R |only R/volDiamTree.R |only data/frogs.RData |only data/homicide.RData |only data/soreThroat.RData |only data/volDiamTree.RData |only man/frogs.Rd |only man/homicide.Rd |only man/soreThroat.Rd |only man/volDiamTree.Rd |only 15 files changed, 21 insertions(+), 10 deletions(-)
More information about Styperidge.reg at CRAN
Permanent link
Title: Fast 1d Bin Packing
Description: Implements the First Fit Decreasing algorithm to achieve one dimensional heuristic bin packing. Runtime is of order O(n log(n)) where n is the number of items to pack. See "The Art of Computer Programming Vol. 1" by Donald E. Knuth (1997, ISBN: 0201896834) for more details.
Author: Lukas Schneiderbauer [aut, cre, cph]
Maintainer: Lukas Schneiderbauer <lukas.schneiderbauer@gmail.com>
Diff between binpackr versions 0.1.1 dated 2023-12-06 and 0.2.0 dated 2026-01-12
binpackr-0.1.1/binpackr/man/figures/README-pressure-1.png |only binpackr-0.2.0/binpackr/DESCRIPTION | 13 +-- binpackr-0.2.0/binpackr/MD5 | 17 ++-- binpackr-0.2.0/binpackr/NEWS.md | 11 ++ binpackr-0.2.0/binpackr/R/bin_pack.R | 38 ++++++---- binpackr-0.2.0/binpackr/README.md | 10 +- binpackr-0.2.0/binpackr/man/bin_pack_ffd.Rd | 16 ++-- binpackr-0.2.0/binpackr/man/figures/README-benchmark_runtime-1.png |binary binpackr-0.2.0/binpackr/src/first_fit_fast.cpp | 28 +++---- binpackr-0.2.0/binpackr/tests/testthat/test-bin_pack_ffd.R | 35 +++++++++ 10 files changed, 113 insertions(+), 55 deletions(-)
Title: Read and Manipulate Data from 'RiverWare'
Description: A tool to read and manipulate data generated from 'RiverWare'(TM)
<https://www.riverware.org/> simulations. 'RiverWare' and 'RiverSMART'
generate data in "rdf", "csv", and "nc" format. This package provides an
interface to read, aggregate, and summarize data from one or more
simulations in a 'dplyr' pipeline.
Author: Alan Butler [aut, cre],
Cameron Bracken [aut]
Maintainer: Alan Butler <rabutler@usbr.gov>
Diff between RWDataPlyr versions 0.6.5 dated 2025-12-01 and 0.6.6 dated 2026-01-12
RWDataPlyr-0.6.5/RWDataPlyr/src/Makevars |only RWDataPlyr-0.6.5/RWDataPlyr/src/Makevars.win |only RWDataPlyr-0.6.6/RWDataPlyr/DESCRIPTION | 6 +++--- RWDataPlyr-0.6.6/RWDataPlyr/MD5 | 8 +++----- RWDataPlyr-0.6.6/RWDataPlyr/NEWS.md | 6 ++++++ RWDataPlyr-0.6.6/RWDataPlyr/inst/doc/rwdataplyr-workflow.html | 4 ++-- 6 files changed, 14 insertions(+), 10 deletions(-)
More information about ggskewboxplots at CRAN
Permanent link
Title: Helper Functions for Working with 'REDCap' Data
Description: Helper functions for processing 'REDCap' data in R. 'REDCap' is a
web-enabled application for building and managing surveys and databases
developed at Vanderbilt University.
Author: Raymond Balise [aut, cre] ,
Gabriel Odom [aut] ,
Kyle Grealis [aut] ,
Anna Calderon [aut] ,
Layla Bouzoubaa [aut] ,
Wayne DeFreitas [aut] ,
Lauren Nahodyl [ctb] ,
Daniel Maya [ctb]
Maintainer: Raymond Balise <balise@miami.edu>
Diff between tidyREDCap versions 1.1.2 dated 2024-09-16 and 1.1.3 dated 2026-01-12
DESCRIPTION | 45 +++++++++------ MD5 | 64 ++++++++++----------- NEWS.md | 7 ++ R/import_instruments.R | 2 README.md | 4 - build/vignette.rds |binary inst/doc/dropLabels.R | 14 ++-- inst/doc/dropLabels.Rmd | 8 +- inst/doc/dropLabels.html | 89 +++++++++++++++-------------- inst/doc/import_instruments.R | 24 ++++---- inst/doc/import_instruments.Rmd | 12 ++-- inst/doc/import_instruments.html | 19 +++--- inst/doc/makeBinaryWord.Rmd | 4 - inst/doc/makeBinaryWord.html | 19 +++--- inst/doc/makeChooseAllTable.R | 14 ++-- inst/doc/makeChooseAllTable.Rmd | 2 inst/doc/makeChooseAllTable.html | 9 +-- inst/doc/makeChooseOneTable.Rmd | 2 inst/doc/makeChooseOneTable.html | 9 +-- inst/doc/makeInstrument.Rmd | 4 - inst/doc/makeInstrument.html | 11 ++- inst/doc/useAPI.R | 16 ++--- inst/doc/useAPI.Rmd | 47 ++++----------- inst/doc/useAPI.html | 92 +++++++++++-------------------- man/import_instruments.Rd | 2 tests/testthat/test-import_instruments.R | 9 ++- vignettes/dropLabels.Rmd | 8 +- vignettes/import_instruments.Rmd | 12 ++-- vignettes/makeBinaryWord.Rmd | 4 - vignettes/makeChooseAllTable.Rmd | 2 vignettes/makeChooseOneTable.Rmd | 2 vignettes/makeInstrument.Rmd | 4 - vignettes/useAPI.Rmd | 47 ++++----------- 33 files changed, 287 insertions(+), 320 deletions(-)
Title: A Tidy Framework for Changepoint Detection Analysis
Description: Changepoint detection algorithms for R are widespread but have
different interfaces and reporting conventions.
This makes the comparative analysis of results difficult.
We solve this problem by providing a tidy, unified interface for several
different changepoint detection algorithms.
We also provide consistent numerical and graphical reporting leveraging
the 'broom' and 'ggplot2' packages.
Author: Benjamin S. Baumer [aut, cre, cph] ,
Biviana Marcela Suarez Sierra [aut] ,
Arrigo Coen [aut] ,
Carlos A. Taimal [aut] ,
Xueheng Shi [ctb]
Maintainer: Benjamin S. Baumer <ben.baumer@gmail.com>
Diff between tidychangepoint versions 1.0.2 dated 2025-10-16 and 1.0.3 dated 2026-01-12
DESCRIPTION | 16 ++++----- MD5 | 53 ++++++++++++++++-------------- NAMESPACE | 29 +++++++--------- NEWS.md | 10 +++++ R/class-mod_cpt.R | 13 +++++-- R/class-seg_basket.R | 14 +++++--- R/class-tidycpt.R | 24 ++++++++------ R/imports.R |only R/pkg-strucchange.R |only R/reexports.R | 65 +++----------------------------------- R/segment.R | 5 ++ R/tidychangepoint-package.R | 2 + R/utils.R | 4 +- README.md | 12 ++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/tidychangepoint.html | 6 +-- man/as.segmenter.Rd | 6 ++- man/changepoints.Rd | 9 ++++- man/diagnose.Rd | 2 - man/fitness.Rd | 12 ++++++- man/model_args.Rd | 8 +++- man/model_name.Rd | 6 ++- man/reexports.Rd | 31 +++++------------- man/seg_params.Rd | 8 +++- man/segment.Rd | 2 + man/vec_ptype2.logLik.logLik.Rd | 4 +- tests/testthat/test-strucchange.R |only tests/testthat/test-tidycpt.R | 12 +++++-- 29 files changed, 182 insertions(+), 171 deletions(-)
More information about tidychangepoint at CRAN
Permanent link
Title: Embedding FusionCharts in R
Description: FusionCharts provides awesome and minimalist functions to make beautiful interactive charts <https://www.fusioncharts.com/>.
Author: Alex Yahiaoui Martinez [aut, cre]
Maintainer: Alex Yahiaoui Martinez <yahiaoui-martinez.alex@outlook.com>
Diff between fusionchartsR versions 1.1.0 dated 2024-12-19 and 1.2.0 dated 2026-01-12
fusionchartsR-1.1.0/fusionchartsR/R/ggfusionPlot.R |only fusionchartsR-1.1.0/fusionchartsR/inst/htmlwidgets/lib/fusioncharts-3.14.1 |only fusionchartsR-1.2.0/fusionchartsR/DESCRIPTION | 12 fusionchartsR-1.2.0/fusionchartsR/MD5 | 82 ++--- fusionchartsR-1.2.0/fusionchartsR/NAMESPACE | 3 fusionchartsR-1.2.0/fusionchartsR/R/fusionGrid.R |only fusionchartsR-1.2.0/fusionchartsR/R/fusionTheme.R | 2 fusionchartsR-1.2.0/fusionchartsR/R/ggfusionplot.R |only fusionchartsR-1.2.0/fusionchartsR/R/global.R |only fusionchartsR-1.2.0/fusionchartsR/R/runDemo.R | 155 +++++++--- fusionchartsR-1.2.0/fusionchartsR/README.md | 9 fusionchartsR-1.2.0/fusionchartsR/inst/htmlwidgets/fusionGrid.js |only fusionchartsR-1.2.0/fusionchartsR/inst/htmlwidgets/fusionGrid.yaml |only fusionchartsR-1.2.0/fusionchartsR/inst/htmlwidgets/fusionMultiPlot.yaml | 6 fusionchartsR-1.2.0/fusionchartsR/inst/htmlwidgets/fusionPlot.yaml | 6 fusionchartsR-1.2.0/fusionchartsR/inst/htmlwidgets/lib/fusioncharts-4.2.0 |only fusionchartsR-1.2.0/fusionchartsR/inst/htmlwidgets/lib/fusiongrid-1.0.0 |only fusionchartsR-1.2.0/fusionchartsR/man/fusionGrid-shiny.Rd |only fusionchartsR-1.2.0/fusionchartsR/man/fusionGrid.Rd |only fusionchartsR-1.2.0/fusionchartsR/man/fusionTheme.Rd | 3 fusionchartsR-1.2.0/fusionchartsR/man/ggfusionPlot.Rd | 2 21 files changed, 192 insertions(+), 88 deletions(-)
Title: Extended Dynamic Quantile Linear Models
Description: Routines for Bayesian estimation and analysis of dynamic quantile linear models utilizing the extended asymmetric Laplace error distribution, also known as extended dynamic quantile linear models (exDQLM) described in Barata et al (2020) <doi:10.1214/21-AOAS1497>.
Author: Raquel Barata [aut, cre],
Raquel Prado [ths],
Bruno Sanso [ths],
Antonio Aguirre [aut]
Maintainer: Raquel Barata <raquel.a.barata@gmail.com>
Diff between exdqlm versions 0.1.4 dated 2025-09-11 and 0.2.0 dated 2026-01-12
exdqlm-0.1.4/exdqlm/R/combineMods.R |only exdqlm-0.1.4/exdqlm/R/dlmMod.R |only exdqlm-0.1.4/exdqlm/R/exdqlmChecks.R |only exdqlm-0.1.4/exdqlm/man/combineMods.Rd |only exdqlm-0.1.4/exdqlm/man/dlmMod.Rd |only exdqlm-0.1.4/exdqlm/man/exdqlmChecks.Rd |only exdqlm-0.2.0/exdqlm/DESCRIPTION | 17 ++- exdqlm-0.2.0/exdqlm/MD5 | 85 +++++++++++++------ exdqlm-0.2.0/exdqlm/NAMESPACE | 31 ++++++- exdqlm-0.2.0/exdqlm/NEWS.md | 30 ++++++ exdqlm-0.2.0/exdqlm/R/RcppExports.R |only exdqlm-0.2.0/exdqlm/R/compPlot.R | 22 ++--- exdqlm-0.2.0/exdqlm/R/exal.R |only exdqlm-0.2.0/exdqlm/R/exdqlm-package.R |only exdqlm-0.2.0/exdqlm/R/exdqlmDiagnostics.R |only exdqlm-0.2.0/exdqlm/R/exdqlmForecast.R | 41 +++------ exdqlm-0.2.0/exdqlm/R/exdqlmISVB.R | 28 +++--- exdqlm-0.2.0/exdqlm/R/exdqlmMCMC.R | 29 +++--- exdqlm-0.2.0/exdqlm/R/exdqlmPlot.R | 23 ++--- exdqlm-0.2.0/exdqlm/R/generics_etc.R |only exdqlm-0.2.0/exdqlm/R/polytrendMod.R | 26 ++--- exdqlm-0.2.0/exdqlm/R/seasMod.R | 19 ++-- exdqlm-0.2.0/exdqlm/R/transfn_exdqlmISVB.R | 9 +- exdqlm-0.2.0/exdqlm/R/utils.R | 40 ++++++--- exdqlm-0.2.0/exdqlm/man/as.exdqlm.Rd |only exdqlm-0.2.0/exdqlm/man/compPlot.Rd | 25 ++--- exdqlm-0.2.0/exdqlm/man/dexal.Rd |only exdqlm-0.2.0/exdqlm/man/exdqlm-package.Rd |only exdqlm-0.2.0/exdqlm/man/exdqlmDiagnostics.Rd |only exdqlm-0.2.0/exdqlm/man/exdqlmForecast.Rd | 12 +- exdqlm-0.2.0/exdqlm/man/exdqlmISVB.Rd | 87 ++++++++++---------- exdqlm-0.2.0/exdqlm/man/exdqlmMCMC.Rd | 69 ++++++++------- exdqlm-0.2.0/exdqlm/man/exdqlmPlot.Rd | 22 ++--- exdqlm-0.2.0/exdqlm/man/is.exdqlm.Rd |only exdqlm-0.2.0/exdqlm/man/is.exdqlmDiagnostic.Rd |only exdqlm-0.2.0/exdqlm/man/is.exdqlmForecast.Rd |only exdqlm-0.2.0/exdqlm/man/is.exdqlmISVB.Rd |only exdqlm-0.2.0/exdqlm/man/is.exdqlmMCMC.Rd |only exdqlm-0.2.0/exdqlm/man/pexal.Rd |only exdqlm-0.2.0/exdqlm/man/plot.exdqlmDiagnostic.Rd |only exdqlm-0.2.0/exdqlm/man/plot.exdqlmForecast.Rd |only exdqlm-0.2.0/exdqlm/man/plot.exdqlmISVB.Rd |only exdqlm-0.2.0/exdqlm/man/plot.exdqlmMCMC.Rd |only exdqlm-0.2.0/exdqlm/man/plus-exdqlm.Rd |only exdqlm-0.2.0/exdqlm/man/polytrendMod.Rd | 15 +-- exdqlm-0.2.0/exdqlm/man/print.exdqlm.Rd |only exdqlm-0.2.0/exdqlm/man/print.exdqlmDiagnostic.Rd |only exdqlm-0.2.0/exdqlm/man/print.exdqlmForecast.Rd |only exdqlm-0.2.0/exdqlm/man/print.exdqlmISVB.Rd |only exdqlm-0.2.0/exdqlm/man/print.exdqlmMCMC.Rd |only exdqlm-0.2.0/exdqlm/man/qexal.Rd |only exdqlm-0.2.0/exdqlm/man/rexal.Rd |only exdqlm-0.2.0/exdqlm/man/seasMod.Rd | 10 +- exdqlm-0.2.0/exdqlm/man/summary.exdqlm.Rd |only exdqlm-0.2.0/exdqlm/man/summary.exdqlmDiagnostic.Rd |only exdqlm-0.2.0/exdqlm/man/summary.exdqlmForecast.Rd |only exdqlm-0.2.0/exdqlm/man/summary.exdqlmISVB.Rd |only exdqlm-0.2.0/exdqlm/man/summary.exdqlmMCMC.Rd |only exdqlm-0.2.0/exdqlm/man/transfn_exdqlmISVB.Rd | 84 +++++++++---------- exdqlm-0.2.0/exdqlm/src |only exdqlm-0.2.0/exdqlm/tests/testthat/test-exal.R |only 61 files changed, 414 insertions(+), 310 deletions(-)
Title: Access the 'Strava' API
Description: Functions to access data from the 'Strava v3 API' <https://developers.strava.com/>.
Author: Marcus W. Beck [cre],
Pedro Villarroel [aut],
Daniel Padfield [aut],
Lorenzo Gaborini [aut],
Niklas von Maltzahn [aut]
Maintainer: Marcus W. Beck <mbafs2012@gmail.com>
Diff between rStrava versions 1.3.3 dated 2025-08-28 and 1.3.4 dated 2026-01-12
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/athl_fun.R | 2 ++ R/strava_oauth.R | 12 ++++++++---- man/athl_fun.Rd | 2 ++ man/strava_oauth.Rd | 9 +++++---- 7 files changed, 35 insertions(+), 19 deletions(-)
Title: Computational Geometry
Description: R interface to (some of) cddlib
(<https://github.com/cddlib/cddlib>).
Converts back and forth between two representations of a convex polytope:
as solution of a set of linear equalities and inequalities and as
convex hull of set of points and rays.
Also does linear programming and redundant generator elimination
(for example, convex hull in n dimensions). All functions can use exact
infinite-precision rational arithmetic.
Author: Charles J. Geyer [aut, cre] ,
Glen D. Meeden [aut],
Komei Fukuda [aut] , which this package
incorporates)
Maintainer: Charles J. Geyer <geyer@umn.edu>
Diff between rcdd versions 1.6 dated 2023-12-15 and 1.6-1 dated 2026-01-12
CHANGES | 2 ++ DESCRIPTION | 25 ++++++++++++++++--------- MD5 | 18 +++++++++--------- build/vignette.rds |binary inst/doc/vinny.Rnw | 25 +++++++++++++++++++++++-- inst/doc/vinny.pdf |binary src/d2q.c | 8 +++----- src/q2d.c | 7 ++----- src/qsign.c | 7 ++----- vignettes/vinny.Rnw | 25 +++++++++++++++++++++++-- 10 files changed, 80 insertions(+), 37 deletions(-)
Title: Utility Functions for Production R Code
Description: A suite of utility functions providing functionality commonly
needed for production level projects such as logging, error handling,
cache management and date-time parsing. Functions for date-time parsing and
formatting require that time zones be specified explicitly, avoiding a common
source of error when working with environmental time series.
Author: Jonathan Callahan [aut, cre],
Eli Grosman [ctb],
Spencer Pease [ctb],
Thomas Bergamaschi [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaCoreUtils versions 0.5.3 dated 2024-12-03 and 0.6.0 dated 2026-01-12
MazamaCoreUtils-0.5.3/MazamaCoreUtils/R/utils-flog.logger.R |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/flog.appender.Rd |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/flog.layout.Rd |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/man/flog.logger.Rd |only MazamaCoreUtils-0.5.3/MazamaCoreUtils/tests/testthat/test-pylogger.R |only MazamaCoreUtils-0.6.0/MazamaCoreUtils/DESCRIPTION | 11 MazamaCoreUtils-0.6.0/MazamaCoreUtils/MD5 | 58 - MazamaCoreUtils-0.6.0/MazamaCoreUtils/NAMESPACE | 32 MazamaCoreUtils-0.6.0/MazamaCoreUtils/NEWS.md | 6 MazamaCoreUtils-0.6.0/MazamaCoreUtils/R/initializeLogging.R | 4 MazamaCoreUtils-0.6.0/MazamaCoreUtils/R/utils-logging.R | 502 ++++------ MazamaCoreUtils-0.6.0/MazamaCoreUtils/README.md | 4 MazamaCoreUtils-0.6.0/MazamaCoreUtils/build/vignette.rds |binary MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/cache-management.html | 183 +-- MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/date-parsing.Rmd | 4 MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/date-parsing.html | 16 MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/error-handling.html | 219 ++-- MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/logging.R | 2 MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/logging.Rmd | 6 MazamaCoreUtils-0.6.0/MazamaCoreUtils/inst/doc/logging.html | 254 ++--- MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logLevels.Rd | 2 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.debug.Rd | 21 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.error.Rd | 21 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.fatal.Rd | 21 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.info.Rd | 21 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.isInitialized.Rd | 3 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.setLevel.Rd | 4 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.setup.Rd | 4 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.trace.Rd | 21 MazamaCoreUtils-0.6.0/MazamaCoreUtils/man/logger.warn.Rd | 21 MazamaCoreUtils-0.6.0/MazamaCoreUtils/tests/testthat/test-logging.R |only MazamaCoreUtils-0.6.0/MazamaCoreUtils/vignettes/date-parsing.Rmd | 4 MazamaCoreUtils-0.6.0/MazamaCoreUtils/vignettes/logging.Rmd | 6 33 files changed, 652 insertions(+), 798 deletions(-)
More information about MazamaCoreUtils at CRAN
Permanent link
Title: Iota Inter Coder Reliability for Content Analysis
Description: Routines and tools for assessing the quality of content
analysis on the basis of the Iota Reliability Concept. The concept is
inspired by item response theory and can be applied to any kind of
content analysis which uses a standardized coding scheme and discrete
categories. It is also applicable for content analysis conducted by
artificial intelligence. The package provides reliability measures
for a complete scale as well as for every single category. Analysis of
subgroup-invariance and error corrections are implemented. This
information can support the development process of a coding scheme and
allows a detailed inspection of the quality of the generated data.
Equations and formulas working in this package are part of Berding et
al. (2022)<doi:10.3389/feduc.2022.818365> and Berding and Pargmann
(2022) <doi:10.30819/5581>.
Author: Berding Florian [aut, cre] ,
Pargmann Julia [ctb]
Maintainer: Berding Florian <florian.berding@uni-hamburg.de>
Diff between iotarelr versions 0.1.6 dated 2025-07-18 and 0.1.7 dated 2026-01-12
DESCRIPTION | 8 - MD5 | 22 ++--- NEWS.md | 14 +++ R/plots.R | 3 build/vignette.rds |binary inst/doc/Old_01_How_to_use_Iota1.html | 9 +- inst/doc/V_02_Estimating_Consequences_for_Subsequent_Analyses.html | 9 +- inst/doc/V_03_Different_Guidance_Functioning.html | 43 +++++----- inst/doc/V_04_Error_Correction.html | 23 ++--- inst/doc/V_05_Test_New_Raters.html | 13 +-- inst/doc/iotarelr.html | 25 +++-- man/plot_iota.Rd | 5 - 12 files changed, 93 insertions(+), 81 deletions(-)
Title: Utilities for Data Analysis in Agriculture
Description: Utilities designed to make the analysis of field trials easier and
more accessible for everyone working in plant breeding. It provides a simple
and intuitive interface for conducting single and multi-environmental trial
analysis, with minimal coding required. Whether you're a beginner or an
experienced user, 'agriutilities' will help you quickly and easily carry out
complex analyses with confidence. With built-in functions for fitting Linear
Mixed Models, 'agriutilities' is the ideal choice for anyone who wants to save
time and focus on interpreting their results.
Some of the functions require the R package 'asreml' for the 'ASReml' software,
this can be obtained upon purchase from 'VSN' international <https://vsni.co.uk/software/asreml-r/>.
Author: Johan Aparicio [aut, cre],
Alexia Bornhorst [aut],
The Alliance of Bioversity International and CIAT [cph]
Maintainer: Johan Aparicio <johanstevenapa@gmail.com>
Diff between agriutilities versions 1.2.2 dated 2025-10-17 and 1.2.3 dated 2026-01-12
DESCRIPTION | 6 - MD5 | 8 - R/global.R | 3 inst/doc/how-to-start.html | 27 ++--- inst/doc/repeated_measurements.html | 170 ++++++++++++++++++------------------ 5 files changed, 108 insertions(+), 106 deletions(-)
Title: Interactive Maps with 'Mapbox GL JS' and 'MapLibre GL JS'
Description: Provides an interface to the 'Mapbox GL JS' (<https://docs.mapbox.com/mapbox-gl-js/guides>)
and the 'MapLibre GL JS' (<https://maplibre.org/maplibre-gl-js/docs/>) interactive mapping libraries to help users
create custom interactive maps in R. Users can create interactive globe visualizations; layer 'sf' objects to create
filled maps, circle maps, 'heatmaps', and three-dimensional graphics; and customize map styles and views. The package
also includes utilities to use 'Mapbox' and 'MapLibre' maps in 'Shiny' web applications.
Author: Kyle Walker [aut, cre]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between mapgl versions 0.4.3 dated 2025-11-20 and 0.4.4 dated 2026-01-12
DESCRIPTION | 10 MD5 | 56 +-- NAMESPACE | 1 NEWS.md | 31 + R/controls.R | 136 ++++++++ R/layers.R | 12 R/legends.R | 197 +++++++++++- R/legends_compare.R | 16 - R/mapboxgl.R | 23 + R/maplibre.R | 169 +++++----- R/quickview.R | 245 ++++++++------- R/style_helpers.R | 59 +++ inst/htmlwidgets/lib/html2canvas |only inst/htmlwidgets/lib/legend-interactivity |only inst/htmlwidgets/lib/maplibre-gl/maplibre-gl.js | 8 inst/htmlwidgets/mapboxgl.js | 384 ++++++++++++++++++++++-- inst/htmlwidgets/mapboxgl.yaml | 16 - inst/htmlwidgets/mapboxgl_compare.js | 33 ++ inst/htmlwidgets/mapboxgl_compare.yaml | 6 inst/htmlwidgets/maplibregl.js | 375 ++++++++++++++++++++++- inst/htmlwidgets/maplibregl.yaml | 14 inst/htmlwidgets/maplibregl_compare.js | 47 ++ inst/htmlwidgets/maplibregl_compare.yaml | 2 man/add_h3j_source.Rd | 2 man/add_screenshot_control.Rd |only man/map_legends.Rd | 46 ++ man/mapboxgl.Rd | 25 + man/mapboxgl_view.Rd | 5 man/maplibre.Rd | 25 + man/maplibre_view.Rd | 5 30 files changed, 1641 insertions(+), 307 deletions(-)
Title: Bindings to Selected 'liblwgeom' Functions for Simple Features
Description: Access to selected functions found in 'liblwgeom' <https://github.com/postgis/postgis/tree/master/liblwgeom>, the light-weight geometry library used by 'PostGIS' <http://postgis.net/>.
Author: Edzer Pebesma [aut, cre] ,
Colin Rundel [ctb],
Andy Teucher [ctb],
liblwgeom developers [cph]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between lwgeom versions 0.2-14 dated 2024-02-21 and 0.2-15 dated 2026-01-12
DESCRIPTION | 11 MD5 | 55 ++-- NAMESPACE | 5 NEWS.md | 8 R/RcppExports.R | 8 R/bearing.R | 12 - R/bounding_circle.R | 37 +++ R/geohash.R | 38 +++ R/perimeter.R | 1 R/split.R | 3 R/wkt.R | 4 configure | 487 ++++++++++++++++++++++++++++++++++++++----- configure.ac | 13 - man/bounding_circle.Rd | 7 man/perimeter-deprecated.Rd |only man/perimeter.Rd | 7 man/st_astext.Rd | 4 man/st_geod_azimuth.Rd | 4 man/st_geohash.Rd | 26 ++ src/Makevars.in | 1 src/Makevars.ucrt | 4 src/Makevars.win | 4 src/RcppExports.cpp | 22 + src/geodetic.cpp | 44 ++- src/lwgeom.cpp | 18 + src/postgis_config.h | 3 src/postgis_config.h.in | 4 tests/testthat.Rout.save | 10 tests/testthat/test_lwgeom.R | 48 ++++ 29 files changed, 747 insertions(+), 141 deletions(-)
Title: 'shiny' App for TRAPD/ISPOR Survey Translation with LLMs
Description: A 'shiny' application to automate forward and back survey translation
with optional reconciliation using large language models (LLMs). Supports
both item-by-item and batch translation modes for optimal performance and
context-aware translations. Handles multi-sheet Excel files and supports
OpenAI (GPT), Google Gemini, and Anthropic Claude models. Follows the
TRAPD (Translation, Review, Adjudication, Pretesting, Documentation)
framework and ISPOR (International Society for Pharmacoeconomics and
Outcomes Research) recommendations. See Harkness et al. (2010)
<doi:10.1002/9780470609927.ch7> and Wild et al. (2005)
<doi:10.1111/j.1524-4733.2005.04054.x>.
Author: Jonas R. Kunst [aut, cre]
Maintainer: Jonas R. Kunst <jonas.r.kunst@bi.no>
Diff between LLMTranslate versions 0.2.0 dated 2025-10-17 and 0.3.0 dated 2026-01-12
DESCRIPTION | 14 MD5 | 12 NEWS.md | 35 ++ R/internal-helpers.R | 136 +++++++++ README.md | 49 +++ inst/CITATION | 2 inst/app/app.R | 738 +++++++++++++++++++++++++++++++++++++++++++++++++-- 7 files changed, 951 insertions(+), 35 deletions(-)
Title: Client for 'LaminDB'
Description: Interact with 'LaminDB'. 'LaminDB' is an open-source data
framework for biology. This package allows you to query and download
data from 'LaminDB' instances.
Author: Robrecht Cannoodt [aut, cre] ,
Luke Zappia [aut] ,
Data Intuitive [aut],
Lamin Labs [aut, cph]
Maintainer: Robrecht Cannoodt <robrecht@lamin.ai>
Diff between laminr versions 1.2.1 dated 2025-12-15 and 1.2.2 dated 2026-01-12
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/install.R | 2 +- R/lamindb.R | 4 ++-- R/require.R | 4 ++-- man/require_module.Rd | 2 +- 6 files changed, 14 insertions(+), 14 deletions(-)
Title: An Implementation of the RESTK Algorithm
Description: Implementation of the RESTK algorithm based on Markov's Inequality from Vilardell, Sergi, Serra, Isabel, Mezzetti, Enrico, Abella, Jaume, Cazorla, Francisco J. and Del Castillo, J. (2022). "Using Markov's Inequality with Power-Of-k Function for Probabilistic WCET Estimation". In 34th Euromicro Conference on Real-Time Systems (ECRTS 2022). Leibniz International Proceedings in Informatics (LIPIcs) 231 20:1-20:24. <doi:10.4230/LIPIcs.ECRTS.2022.20>. This work has been supported by the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (grant agreement No. 772773).
Author: Sergi Vilardell [aut, cre]
Maintainer: Sergi Vilardell <sergi.vilardell@bsc.es>
Diff between RESTK versions 1.0.1 dated 2025-03-12 and 1.0.2 dated 2026-01-12
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/RESTK.R | 5 ++--- R/RESTK_training.R | 4 ++-- R/RESTK_validation.R | 20 +++++++++++++------- man/RESTK.Rd | 1 - man/RESTK_training.Rd | 2 +- man/RESTK_validation.Rd | 10 +++++----- 8 files changed, 34 insertions(+), 30 deletions(-)
Title: Personalised Synthetic Controls
Description: Allows the comparison of data cohorts (DC) against a Counter
Factual Model (CFM) and measures the difference in terms of an efficacy
parameter. Allows the application of Personalised Synthetic Controls.
Author: Richard Jackson [cre, aut, cph]
Maintainer: Richard Jackson <richJ23@liverpool.ac.uk>
This is a re-admission after prior archival of version 2.0.0 dated 2025-11-13
Diff between psc versions 2.0.0 dated 2025-11-13 and 2.0.1 dated 2026-01-12
DESCRIPTION | 6 +-- MD5 | 18 +++++----- NEWS.md | 2 + R/pscData_structure.R | 2 - README.md | 24 ++++++-------- inst/doc/psc.R | 4 -- inst/doc/psc.Rmd | 4 -- inst/doc/psc.html | 63 +++++++++++--------------------------- man/figures/README-pressure-1.png |binary vignettes/psc.Rmd | 4 -- 10 files changed, 44 insertions(+), 83 deletions(-)
Title: Sparse Principal Component Analysis with Multiple Principal
Components
Description: Implements an algorithm for computing multiple sparse principal
components of a dataset. The method is based on Cory-Wright and Pauphilet
"Sparse PCA with Multiple Principal Components" (2022)
<doi:10.48550/arXiv.2209.14790>. The algorithm uses an iterative deflation
heuristic with a truncated power method applied at each iteration to compute
sparse principal components with controlled sparsity.
Author: Ryan Cory-Wright [aut, cph] ,
Jean Pauphilet [aut, cre, cph]
Maintainer: Jean Pauphilet <jpauphilet@london.edu>
Diff between msPCA versions 0.1.0 dated 2025-12-09 and 0.2.0 dated 2026-01-12
DESCRIPTION | 8 ++-- MD5 | 19 +++++----- NAMESPACE | 1 NEWS.md | 13 ++++++- R/RcppExports.R | 4 +- R/main.R | 23 ++++++++++--- README.md | 6 +-- man/mspca.Rd | 9 +++-- man/pairwise_correlation.Rd |only src/RcppExports.cpp | 11 +++--- src/msPCA_R_CPP.cpp | 77 ++++++++++++++++++++++++++++++++++---------- 11 files changed, 123 insertions(+), 48 deletions(-)
Title: Latent Binary Bayesian Neural Networks Using 'torch'
Description: Latent binary Bayesian neural networks (LBBNNs) are implemented using
'torch', an R interface to the LibTorch backend. Supports mean-field variational
inference as well as flexible variational posteriors using normalizing flows.
The standard LBBNN implementation follows Hubin and Storvik (2024) <doi:10.3390/math12060788>,
using the local reparametrization trick as in Skaaret-Lund et al. (2024)
<https://openreview.net/pdf?id=d6kqUKzG3V>. Input-skip connections are also supported,
as described in Høyheim et al. (2025) <doi:10.48550/arXiv.2503.10496>.
Author: Lars Skaaret-Lund [aut, cre],
Aliaksandr Hubin [aut],
Eirik Hoeyheim [aut]
Maintainer: Lars Skaaret-Lund <lars.skaaret-lund@nmbu.no>
Diff between LBBNN versions 0.1.3 dated 2026-01-07 and 0.1.4 dated 2026-01-12
DESCRIPTION | 6 +-- MD5 | 14 +++---- NEWS.md | 6 ++- R/LBBNN_Model.R | 5 +- R/custom_activation_functions.R | 13 ++++-- README.md | 60 +++++++++++++++---------------- man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary 8 files changed, 56 insertions(+), 48 deletions(-)
Title: Calculates the Density-Based Clustering Validation (DBCV) Index
Description: A metric called 'Density-Based Clustering Validation index' (DBCV) index to evaluate clustering results, following the <https://github.com/pajaskowiak/clusterConfusion/blob/main/R/dbcv.R> 'R' implementation by Pablo Andretta Jaskowiak. Original 'DBCV' index article: Moulavi, D., Jaskowiak, P. A., Campello, R. J., Zimek, A., and Sander, J. (April 2014), "Density-based clustering validation", Proceedings of SDM 2014 -- the 2014 SIAM International Conference on Data Mining (pp. 839-847), <doi:10.1137/1.9781611973440.96>. A more recent article on the 'DBCV' index: Chicco, D., Sabino, G.; Oneto, L.; Jurman, G. (August 2025), "The DBCV index is more informative than DCSI, CDbw, and VIASCKDE indices for unsupervised clustering internal assessment of concave-shaped and density-based clusters", PeerJ Computer Science 11:e3095 (pp. 1-), <doi:10.7717/peerj-cs.3095>.
Author: Davide Chicco [cre] ,
Pablo Andretta Jaskowiak [aut]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Diff between DBCVindex versions 1.5 dated 2025-08-29 and 1.6 dated 2026-01-12
DESCRIPTION | 6 - MD5 | 24 ++--- NAMESPACE | 3 R/DBCV_function.r | 8 - build/vignette.rds |binary inst/doc/DBCVindex.R | 3 inst/doc/DBCVindex.Rmd | 24 ++++- inst/doc/DBCVindex.html | 124 ++++------------------------- man/MST_Edges.Rd | 1 man/dbcv_index.Rd | 2 man/matrix_mutual_reachability_distance.Rd | 2 man/norm_dbcv_index.Rd | 2 vignettes/DBCVindex.Rmd | 24 ++++- 13 files changed, 87 insertions(+), 136 deletions(-)
Title: Regression Modeling Using Vasicek Distribution
Description: Provides probability density, cumulative distribution,
quantile, and random number generation functions for the Vasicek
distribution. In addition, two functions are available for fitting
Generalized Additive Models for Location, Scale and Shape introduced
by Rigby and Stasinopoulos (2005,
<doi:10.1111/j.1467-9876.2005.00510.x>). Some functions are written in
'C++' using 'Rcpp', developed by Eddelbuettel and Francois (2011,
<doi:10.18637/jss.v040.i08>).
Author: Josmar Mazucheli [aut, cre],
Bruna Alves [ctb]
Maintainer: Josmar Mazucheli <jmazucheli@gmail.com>
Diff between vasicekreg versions 1.0.1 dated 2021-05-27 and 1.0.2 dated 2026-01-12
DESCRIPTION | 33 ++- MD5 | 23 +- NEWS.md | 20 +- R/bodyfat.R | 104 +++++------ R/dpqr-vasicekmean.R | 344 +++++++++++++++++++------------------- R/dpqr-vasicekquant.R | 412 ++++++++++++++++++++++++++-------------------- R/vasicekreg-package.R | 42 ++-- build |only man/VASIM.Rd | 154 +++++++++-------- man/VASIQ.Rd | 132 +++++++++----- man/bodyfat.Rd | 76 ++++---- man/vasicekreg-package.Rd | 16 + src/RcppExports.cpp | 5 13 files changed, 752 insertions(+), 609 deletions(-)
Title: Load Configuration Values
Description: A simple approach to configuring R projects with different
parameter values. Configurations are specified using a reduced subset of base
R and parsed accordingly.
Author: Tim Taylor [aut, cre, cph]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between ronfig versions 0.0.7 dated 2025-12-06 and 0.0.8 dated 2026-01-12
DESCRIPTION | 8 +-- MD5 | 18 ++++---- NEWS.md | 8 +++ R/load_config.R | 76 ++++++++++++++++++++++------------- inst/doc/ronfig.html | 3 - inst/doc/ronfig.qmd | 10 +++- man/load_config.Rd | 25 +++++++++-- tests/testthat/_snaps/load_config.md | 20 +++++++++ tests/testthat/test-load_config.R | 63 +++++++++++++++++++++++++++++ vignettes/ronfig.qmd | 10 +++- 10 files changed, 190 insertions(+), 51 deletions(-)
Title: Process and Visualize Evolve & Resequence Experiments
Description: Handle data from evolve and resequence experiments.
Measured allele frequencies (e.g., from variants called from high-throughput
sequencing data) are compared using an update of the PsiSeq algorithm
(Earley, Eric and Corbin Jones (2011) <doi:10.1534/genetics.111.129445>).
Functions for saving and loading important files are also included, as well
as functions for basic data visualization.
Author: Charles Soeder [aut, cre, cph]
Maintainer: Charles Soeder <csoeder@email.unc.edu>
This is a re-admission after prior archival of version 1.0.0 dated 2025-08-20
Diff between PopPsiSeqR versions 1.0.0 dated 2025-08-20 and 1.0.2 dated 2026-01-12
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS.md | 2 ++ README.md | 5 ++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/PopPsiSeq_and_Helpers.pdf |binary man/figures/README-windowed_example-1.png |binary tests/testthat/test-differ.R | 10 ++++++++++ 9 files changed, 27 insertions(+), 16 deletions(-)
Title: Open Source Diabetes Classifier for Danish Registers
Description: The algorithm first identifies a population of individuals from
Danish register data with any type of diabetes as individuals with two or
more inclusion events. Then, it splits this population into individuals with
either type 1 diabetes or type 2 diabetes by identifying individuals with
type 1 diabetes and classifying the remainder of the diabetes population as
having type 2 diabetes.
Author: Signe Kirk Broedbaek [aut] ,
Anders Aasted Isaksen [aut] ,
Luke William Johnston [aut, cre] ,
Steno Diabetes Center Aarhus [cph],
Aarhus University [cph]
Maintainer: Luke William Johnston <lwjohnst@gmail.com>
Diff between osdc versions 0.9.17 dated 2025-12-10 and 0.9.19 dated 2026-01-12
DESCRIPTION | 8 +++---- MD5 | 26 ++++++++++++------------ NEWS.md | 12 +++++++++++ R/simulate-registers.R | 8 ------- R/sysdata.rda |binary README.md | 21 ++++++++++++++----- inst/doc/algorithm.html | 2 - inst/doc/changes.html | 35 +++++++++++++++++++++++++++++--- inst/doc/changes.qmd | 12 ++++++----- inst/doc/osdc.html | 40 +++++++++++++++++-------------------- vignettes/changes.qmd | 12 ++++++----- vignettes/images/overview-flow.mmd | 2 - vignettes/images/overview-flow.svg | 2 - vignettes/references.bib | 6 +++++ 14 files changed, 120 insertions(+), 66 deletions(-)
Title: Nucleome Imaging Toolbox
Description: Tools for 4D nucleome imaging.
Quantitative analysis of the 3D nuclear landscape recorded with super-resolved fluorescence microscopy.
See Volker J. Schmid, Marion Cremer, Thomas Cremer (2017) <doi:10.1016/j.ymeth.2017.03.013>.
Author: Volker Schmid [aut, cre]
Maintainer: Volker Schmid <volker.schmid@lmu.de>
Diff between nucim versions 1.0.11 dated 2021-06-10 and 1.0.13 dated 2026-01-12
DESCRIPTION | 15 +- MD5 | 26 ++-- NEWS.md | 35 ++++-- R/classes.R | 2 R/compute_distance2border.R | 2 R/dapimask_file.R | 2 R/nearest_class_folder.R | 2 R/splitchannels.R | 2 README.md | 6 + build/vignette.rds |binary inst/CITATION | 10 - inst/doc/DAPIclassification.html | 221 ++++++++++++++++++++++++++++++++++++--- inst/doc/workflow.html | 1 inst/doc/workflow_many.html | 218 ++++++++++++++++++++++++++++++++++++-- 14 files changed, 476 insertions(+), 66 deletions(-)
Title: Pool Literature-Based and Individual Participant Data Based
Spline Estimates
Description: Pooling estimates reported in meta-analyses (literature-based, LB) and estimates based on individual participant data (IPD) is not straight-forward as the details of the LB nonlinear function estimate are not usually reported. This package pools the nonlinear IPD dose-response estimates based on a natural cubic spline from lm or glm with the pointwise LB estimates and their estimated variances. Details will be presented in Härkänen, Tapanainen, Sares-Jäske, Männistö, Kaartinen and Paalanen (2026) "Novel pooling method for nonlinear cohort analysis and meta-analysis estimates: Predicting health outcomes based on climate-friendly diets" Epidemiology <doi:10.1097/EDE.0000000000001932>.
Author: Tommi Haerkaenen [aut, cre]
Maintainer: Tommi Haerkaenen <tommi.harkanen@thl.fi>
Diff between metasplines versions 0.1.0 dated 2025-07-21 and 0.1.1 dated 2026-01-12
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/pool_splines.R | 2 +- build/vignette.rds |binary 4 files changed, 9 insertions(+), 9 deletions(-)
Title: HIC diffeREntial Analysis Method
Description: Perform Hi-C data differential analysis based on pixel-level
differential analysis and a post hoc inference strategy to quantify
signal in clusters of pixels. Clusters of pixels are obtained through
a connectivity-constrained two-dimensional hierarchical clustering.
Author: Elise Jorge [aut, cre],
Sylvain Foissac [aut] ,
Toby Hocking [aut] ,
Pierre Neuvial [aut] ,
Nathalie Vialaneix [aut] ,
Gilles Blanchard [ctb],
Guillermo Durand [ctb] ,
Nicolas Enjalbert-Courrech [ctb],
Etienne Roquain [ctb]
Maintainer: Elise Jorge <elise.jorge@inrae.fr>
Diff between hicream versions 0.0.2 dated 2025-11-19 and 0.0.3 dated 2026-01-12
DESCRIPTION | 8 +- MD5 | 14 +-- NEWS.md | 14 +++ R/postHoc.R | 8 +- README.md | 167 ++++++++++++++++++++++++++----------------- inst/doc/A-Installation.html | 14 +-- inst/doc/B-Introduction.html | 92 +++++++++++------------ man/postHoc.Rd | 2 8 files changed, 185 insertions(+), 134 deletions(-)
Title: Australian Tax Policy Analysis
Description: Utilities to cost and evaluate Australian tax policy, including fast
projections of personal income tax collections, high-performance tax and
transfer calculators, and an interface to common indices from the Australian
Bureau of Statistics. Written to support Grattan Institute's Australian
Perspectives program, and related projects. Access to the Australian Taxation
Office's sample files of personal income tax returns is assumed.
Author: Hugh Parsonage [aut, cre],
Tim Cameron [aut],
Brendan Coates [aut],
Matthew Katzen [aut],
William Young [aut],
Ittima Cherastidtham [dtc],
W. Karsten [ctb],
M. Enrique Garcia [ctb],
Matt Cowgill [aut]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between grattan versions 2025.5.0 dated 2025-06-18 and 2026.1.1 dated 2026-01-12
DESCRIPTION | 10 MD5 | 36 NEWS.md | 666 ++++++++-------- R/age_pension_age.R | 266 +++--- R/lf_inflator.R | 8 R/medicare_levy.R | 326 ++++---- R/model_income_tax.R | 8 R/project.R | 1113 ++++++++++++++-------------- R/small_business_tax_offset.R | 298 +++---- man/apply_super_caps_and_div293.Rd | 2 man/grattan-package.Rd | 80 +- man/inverse_average_rate.Rd | 2 man/model_income_tax.Rd | 8 man/model_new_caps_and_div293.Rd | 4 man/small_business_tax_offset.Rd | 132 +-- src/tax-system.c | 5 tests/testthat.R | 2 tests/testthat/test_compare_avg_tax_rates.R | 165 ++-- tests/testthat/test_validate_fys.R | 145 +-- 19 files changed, 1640 insertions(+), 1636 deletions(-)
Title: Assess Water Quality Trends with Generalized Additive Models
Description: Assess Water Quality Trends for Long-Term Monitoring Data in Estuaries using
Generalized Additive Models following Wood (2017) <doi:10.1201/9781315370279> and Error
Propagation with Mixed-Effects Meta-Analysis following Sera et al. (2019) <doi:10.1002/sim.8362>.
Methods are available for model fitting, assessment of fit, annual and seasonal trend tests, and
visualization of results.
Author: Marcus Beck [aut, cre] ,
Perry de Valpine [aut],
Rebecca Murphy [aut],
Ian Wren [aut],
Ariella Chelsky [aut],
Melissa Foley [aut] ,
David Senn [aut]
Maintainer: Marcus Beck <mbeck@tbep.org>
Diff between wqtrends versions 1.5.1 dated 2025-07-09 and 1.5.2 dated 2026-01-12
DESCRIPTION | 10 +- MD5 | 24 +++--- NEWS.md | 9 ++ R/show_mettrndseason.R | 3 R/show_prddoy.R | 6 - R/show_prdseason.R | 2 R/show_prdseries.R | 74 ++++++++++++++++++- R/show_trndseason.R | 8 +- build/vignette.rds |binary inst/doc/wqtrends.html | 132 ++++++++++++++++++++--------------- man/show_prddoy.Rd | 11 ++ man/show_prdseries.Rd | 9 ++ tests/testthat/test-show_prdseries.R | 30 +++++++ 13 files changed, 228 insertions(+), 90 deletions(-)
Title: 'Rcpp' Bindings for 'Annoy', a Library for Approximate Nearest
Neighbors
Description: 'Annoy' is a small C++ library for Approximate Nearest Neighbors
written for efficient memory usage as well an ability to load from / save to
disk. This package provides an R interface by relying on the 'Rcpp' package,
exposing the same interface as the original Python wrapper to 'Annoy'. See
<https://github.com/spotify/annoy> for more on 'Annoy'. 'Annoy' is released
under Version 2.0 of the Apache License. Also included is a small Windows
port of 'mmap' which is released under the MIT license.
Author: Dirk Eddelbuettel [aut, cre] ,
Erik Bernhardsson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppAnnoy versions 0.0.22 dated 2024-01-23 and 0.0.23 dated 2026-01-12
RcppAnnoy-0.0.22/RcppAnnoy/inst/doc/UsingAnnoyInCppWrapper.Rnw |only RcppAnnoy-0.0.22/RcppAnnoy/inst/doc/UsingAnnoyInCppWrapper.pdf |only RcppAnnoy-0.0.22/RcppAnnoy/vignettes/UsingAnnoyInCpp.pdf |only RcppAnnoy-0.0.22/RcppAnnoy/vignettes/UsingAnnoyInCppWrapper.Rnw |only RcppAnnoy-0.0.23/RcppAnnoy/ChangeLog | 104 +++++++++- RcppAnnoy-0.0.23/RcppAnnoy/DESCRIPTION | 22 +- RcppAnnoy-0.0.23/RcppAnnoy/MD5 | 41 ++- RcppAnnoy-0.0.23/RcppAnnoy/R/annoy.R | 18 - RcppAnnoy-0.0.23/RcppAnnoy/README.md | 8 RcppAnnoy-0.0.23/RcppAnnoy/build/vignette.rds |binary RcppAnnoy-0.0.23/RcppAnnoy/demo/00Index | 1 RcppAnnoy-0.0.23/RcppAnnoy/demo/irisExample.R |only RcppAnnoy-0.0.23/RcppAnnoy/inst/NEWS.Rd | 21 +- RcppAnnoy-0.0.23/RcppAnnoy/inst/doc/UsingAnnoyInCpp.pdf |only RcppAnnoy-0.0.23/RcppAnnoy/inst/doc/UsingAnnoyInCpp.pdf.asis |only RcppAnnoy-0.0.23/RcppAnnoy/inst/include/RcppAnnoy.h | 15 + RcppAnnoy-0.0.23/RcppAnnoy/inst/rmd/UsingAnnoyInCpp.Rmd | 5 RcppAnnoy-0.0.23/RcppAnnoy/inst/rmd/rcppannoy.bib | 28 +- RcppAnnoy-0.0.23/RcppAnnoy/inst/tinytest/testDotProduct.R |only RcppAnnoy-0.0.23/RcppAnnoy/man/AnnoyIndex.Rd | 11 - RcppAnnoy-0.0.23/RcppAnnoy/src/Makevars | 2 RcppAnnoy-0.0.23/RcppAnnoy/src/RcppExports.cpp | 5 RcppAnnoy-0.0.23/RcppAnnoy/src/annoy.cpp | 31 ++ RcppAnnoy-0.0.23/RcppAnnoy/src/init.c | 2 RcppAnnoy-0.0.23/RcppAnnoy/tests/tinytest.R | 15 - RcppAnnoy-0.0.23/RcppAnnoy/vignettes/UsingAnnoyInCpp.pdf.asis |only 26 files changed, 246 insertions(+), 83 deletions(-)
Title: A Toolkit for Behavioral Scientists
Description: A collection of functions for analyzing data typically collected
or used by behavioral scientists. Examples of the functions include
a function that compares groups in a factorial experimental design,
a function that conducts two-way analysis of variance (ANOVA),
and a function that cleans a data set generated by Qualtrics surveys.
Some of the functions will require installing additional package(s).
Such packages and other references are cited within the section
describing the relevant functions. Many functions in this package
rely heavily on these two popular R packages:
Dowle et al. (2021) <https://CRAN.R-project.org/package=data.table>.
Wickham et al. (2021) <https://CRAN.R-project.org/package=ggplot2>.
Author: Jin Kim [aut, cre]
Maintainer: Jin Kim <jinkim@aya.yale.edu>
Diff between kim versions 0.6.1 dated 2025-02-26 and 0.6.4 dated 2026-01-12
DESCRIPTION | 12 +- MD5 | 32 ++--- NAMESPACE | 1 NEWS.md | 8 + R/convert_to_numeric_if_ok.R |only R/histogram.R | 10 - R/loglinear_analysis.R | 36 ++---- R/merge_data_tables.R | 72 +++++++----- R/multiple_regression.R | 12 +- R/simple_slopes_analysis.R | 108 +++++++++++++++--- R/update_kim.R | 229 ++++++++++++++++++++-------------------- build/partial.rdb |binary man/convert_to_numeric_if_ok.Rd |only man/histogram.Rd | 8 - man/loglinear_analysis.Rd | 9 + man/merge_data_tables.Rd | 4 man/simple_slopes_analysis.Rd | 7 + man/update_kim.Rd | 42 ++----- 18 files changed, 346 insertions(+), 244 deletions(-)
Title: Download and Manipulate Data from Istat
Description: Download data from ISTAT (Italian Institute of Statistics) database, both old and new provider (respectively, <http://dati.istat.it/> and <https://esploradati.istat.it/databrowser/>). Additional functions for manipulating data are provided. Moreover, a 'shiny' application called 'shinyIstat' can be used to search, download and filter datasets more easily.
Author: Elena Gradi [aut, cre],
Alissa Lelli [aut],
Daniela Ichim [aut]
Maintainer: Elena Gradi <elenaagradi@gmail.com>
Diff between istat versions 1.1.1 dated 2025-12-04 and 1.1.2 dated 2026-01-12
DESCRIPTION | 8 +- MD5 | 48 ++++++------- R/filter_istat.R | 8 +- R/filter_istat_interactive.R | 4 - R/get_i_stat.R | 24 +++--- R/get_istatdata.R | 30 ++++---- R/list_i_stat.R | 2 R/list_istatdata.R | 14 ++-- R/plot_interactive.R | 2 R/search_i_stat.R | 12 +-- R/search_istatdata.R | 26 +++---- R/shinyIstat.R | 34 +++++---- inst/doc/Get_started_with_istat_package.Rmd | 60 ++++++++++------- inst/doc/Get_started_with_istat_package.html | 93 ++++++++++++++++----------- man/filter_istat.Rd | 8 +- man/filter_istat_interactive.Rd | 4 - man/get_i_stat.Rd | 18 ++--- man/get_istatdata.Rd | 12 +-- man/list_i_stat.Rd | 2 man/list_istatdata.Rd | 2 man/plot_interactive.Rd | 2 man/search_i_stat.Rd | 10 +- man/search_istatdata.Rd | 10 +- man/shinyIstat.Rd | 2 vignettes/Get_started_with_istat_package.Rmd | 60 ++++++++++------- 25 files changed, 275 insertions(+), 220 deletions(-)
Title: Inflators for Australian Policy Analysis
Description: Using Australian Bureau of Statistics indices, provides functions
that convert historical, nominal statistics to real, contemporary values
without worrying about date input quality, performance, or the ABS catalogue.
Author: Hugh Parsonage [aut, cre]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between grattanInflators versions 0.5.4 dated 2024-08-21 and 0.5.7 dated 2026-01-12
DESCRIPTION | 8 MD5 | 30 +- NAMESPACE | 1 NEWS.md | 17 + R/Inflate.R | 427 +++++++++++++++++---------------- R/cpi_inflator.R | 465 ++++++++++++++++++------------------- R/download_data.R | 79 ++++-- R/lf_inflator.R | 227 +++++++++--------- R/wage_inflator.R | 217 ++++++++--------- inst/tinytest/test_fast_as_idate.R | 8 inst/tinytest/test_wage_inflator.R | 5 man/abs-conn.Rd | 7 src/grattanInflator.h | 12 src/idate_YearMonth.c | 40 ++- src/init.c | 16 - tests/tinytest.R | 4 16 files changed, 846 insertions(+), 717 deletions(-)
More information about grattanInflators at CRAN
Permanent link
Title: Comprehensive Analysis of 'GENCODE' Annotations and Splice Site
Motifs
Description: A comprehensive suite of helper functions designed to facilitate the analysis of genomic annotations from the 'GENCODE' database <https://www.gencodegenes.org/>, supporting both human and mouse genomes. This toolkit enables users to extract, filter, and analyze a wide range of annotation features including genes, transcripts, exons, and introns across different 'GENCODE' releases. It provides functionality for cross-version comparisons, allowing researchers to systematically track annotation updates, structural changes, and feature-level differences between releases. In addition, the package can generate high-quality FASTA files containing donor and acceptor splice site motifs, which are formatted for direct input into the 'MaxEntScan' tool (Yeo and Burge, 2004 <doi:10.1089/1066527041410418>), enabling accurate calculation of splice site strength scores.
Author: Monah Abou Alezz [aut, cre, cph] ,
Lorenzo Salviati [ctb],
Roberta Alfieri [ctb],
Silvia Bione [ctb]
Maintainer: Monah Abou Alezz <aboualezz.monah@hsr.it>
Diff between GencoDymo2 versions 1.0.3 dated 2025-08-21 and 1.0.4 dated 2026-01-12
DESCRIPTION | 8 +++--- MD5 | 10 ++++---- NEWS.md | 6 +++++ R/globals.R | 3 +- build/vignette.rds |binary inst/doc/GencoDymo2_vignette.html | 45 ++++++++++++++------------------------ 6 files changed, 34 insertions(+), 38 deletions(-)
Title: Globally-Applicable Area Disaggregated General Ecosystem Toolbox
V3
Description: A framework to assist creation of marine ecosystem models,
generating either 'R' or 'C++' code which can then be optimised using
the 'TMB' package and standard 'R' tools. Principally designed to
reproduce gadget2 models in 'TMB', but can be extended beyond
gadget2's capabilities.
Kasper Kristensen, Anders Nielsen, Casper W. Berg, Hans Skaug, Bradley M. Bell (2016) <doi:10.18637/jss.v070.i05> "TMB: Automatic Differentiation and Laplace Approximation.".
Begley, J., & Howell, D. (2004) <https://files01.core.ac.uk/download/pdf/225936648.pdf> "An overview of Gadget, the globally applicable area-disaggregated general ecosystem toolbox. ICES.".
Author: Jamie Lentin [aut, cre] ,
Bjarki Thor Elvarsson [aut] ,
William Butler [aut] ,
Marine and Freshwater Research Institute [cph]
Maintainer: Jamie Lentin <lentinj@shuttlethread.com>
Diff between gadget3 versions 0.14-0 dated 2025-10-15 and 0.15-1 dated 2026-01-12
gadget3-0.14-0/gadget3/vignettes/multi-species-predation.html |only gadget3-0.14-0/gadget3/vignettes/random-effect-recruitment.R |only gadget3-0.14-0/gadget3/vignettes/random-effect-recruitment.html |only gadget3-0.15-1/gadget3/DESCRIPTION | 10 - gadget3-0.15-1/gadget3/MD5 | 60 +++---- gadget3-0.15-1/gadget3/NEWS.md | 12 + gadget3-0.15-1/gadget3/R/action_age.R | 61 ++++--- gadget3-0.15-1/gadget3/R/action_predate.R | 85 +++++----- gadget3-0.15-1/gadget3/R/formula_utils.R | 17 +- gadget3-0.15-1/gadget3/R/likelihood_bounds.R | 17 +- gadget3-0.15-1/gadget3/R/quota.R | 22 +- gadget3-0.15-1/gadget3/R/run_tmb.R | 32 +++ gadget3-0.15-1/gadget3/README.md | 6 gadget3-0.15-1/gadget3/build/vignette.rds |binary gadget3-0.15-1/gadget3/inst/doc/incorporating-observation-data.html | 49 ++--- gadget3-0.15-1/gadget3/inst/doc/introduction-single-stock.html | 61 +++---- gadget3-0.15-1/gadget3/inst/doc/model-customisation.html | 14 - gadget3-0.15-1/gadget3/inst/doc/model-debugging.html | 35 ++-- gadget3-0.15-1/gadget3/inst/doc/model-structure.html | 56 +++--- gadget3-0.15-1/gadget3/inst/doc/multiple-substocks.html | 39 ++-- gadget3-0.15-1/gadget3/inst/doc/writing_actions.html | 39 ++-- gadget3-0.15-1/gadget3/man/action_predate.Rd | 11 + gadget3-0.15-1/gadget3/man/likelihood_bounds.Rd | 4 gadget3-0.15-1/gadget3/man/quota.Rd | 19 +- gadget3-0.15-1/gadget3/tests/test-action_age-multiarea.R |only gadget3-0.15-1/gadget3/tests/test-formula_utils.R | 11 + gadget3-0.15-1/gadget3/tests/test-likelihood_bounds.R | 11 + gadget3-0.15-1/gadget3/tests/test-param_project-logar1.R | 4 gadget3-0.15-1/gadget3/tests/test-quota-assess.R | 7 gadget3-0.15-1/gadget3/tests/test-quota-hockeyfleet.R | 81 ++++----- gadget3-0.15-1/gadget3/tests/test-quota.R | 13 - gadget3-0.15-1/gadget3/tests/test-run_tmb.R | 7 gadget3-0.15-1/gadget3/tests/test-timevariable.R | 2 33 files changed, 451 insertions(+), 334 deletions(-)
Title: Easily Load and Install the 'EconDataverse'
Description: The 'EconDataverse' is a universe of open-source packages to work
seamlessly with economic data. This package is designed to make it easy to
install and load multiple 'EconDataverse' packages in a single step. Learn
more about the 'EconDataverse' at <https://www.econdataverse.org>.
Author: Christoph Scheuch [aut, cre, cph]
Maintainer: Christoph Scheuch <christoph@tidy-intelligence.com>
Diff between econdataverse versions 0.1.1 dated 2025-11-28 and 0.1.2 dated 2026-01-12
DESCRIPTION | 16 ++++++++++------ MD5 | 6 +++--- NEWS.md | 7 ++++++- README.md | 12 ++++++------ 4 files changed, 25 insertions(+), 16 deletions(-)
Title: Assess Study Cohorts Using a Common Data Model
Description: Phenotype study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model. Diagnostics
are run at the database, code list, cohort, and population level to assess
whether study cohorts are ready for research.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Xihang Chen [aut] ,
Marta Alcalde-Herraiz [aut] ,
Nuria Mercade-Besora [aut] ,
Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between PhenotypeR versions 0.2.0 dated 2025-07-31 and 0.3.0 dated 2026-01-12
PhenotypeR-0.2.0/PhenotypeR/R/mockPhenotypeR.R |only PhenotypeR-0.2.0/PhenotypeR/man/mockPhenotypeR.Rd |only PhenotypeR-0.3.0/PhenotypeR/DESCRIPTION | 20 PhenotypeR-0.3.0/PhenotypeR/MD5 | 96 PhenotypeR-0.3.0/PhenotypeR/NAMESPACE | 1 PhenotypeR-0.3.0/PhenotypeR/R/addCodelistAttribute.R | 11 PhenotypeR-0.3.0/PhenotypeR/R/codelistDiagnostics.R | 54 PhenotypeR-0.3.0/PhenotypeR/R/cohortDiagnostics.R | 182 PhenotypeR-0.3.0/PhenotypeR/R/databaseDiagnostics.R | 198 PhenotypeR-0.3.0/PhenotypeR/R/documentationHelper.R | 7 PhenotypeR-0.3.0/PhenotypeR/R/phenotypeDiagnostics.R | 82 PhenotypeR-0.3.0/PhenotypeR/R/populationDiagnostics.R | 39 PhenotypeR-0.3.0/PhenotypeR/R/shinyDiagnostics.R | 32 PhenotypeR-0.3.0/PhenotypeR/build/vignette.rds |binary PhenotypeR-0.3.0/PhenotypeR/inst/doc/CodelistDiagnostics.R | 8 PhenotypeR-0.3.0/PhenotypeR/inst/doc/CodelistDiagnostics.Rmd | 8 PhenotypeR-0.3.0/PhenotypeR/inst/doc/CodelistDiagnostics.html | 4416 ++++++---- PhenotypeR-0.3.0/PhenotypeR/inst/doc/CohortDiagnostics.R | 1 PhenotypeR-0.3.0/PhenotypeR/inst/doc/CohortDiagnostics.Rmd | 1 PhenotypeR-0.3.0/PhenotypeR/inst/doc/CohortDiagnostics.html | 5 PhenotypeR-0.3.0/PhenotypeR/inst/doc/DatabaseDiagnostics.R | 19 PhenotypeR-0.3.0/PhenotypeR/inst/doc/DatabaseDiagnostics.Rmd | 32 PhenotypeR-0.3.0/PhenotypeR/inst/doc/DatabaseDiagnostics.html | 3001 ++++++ PhenotypeR-0.3.0/PhenotypeR/inst/doc/PhenotypeDiagnostics.R | 13 PhenotypeR-0.3.0/PhenotypeR/inst/doc/PhenotypeDiagnostics.Rmd | 16 PhenotypeR-0.3.0/PhenotypeR/inst/doc/PhenotypeDiagnostics.html | 36 PhenotypeR-0.3.0/PhenotypeR/inst/doc/PhenotypeExpectations.html | 24 PhenotypeR-0.3.0/PhenotypeR/inst/doc/PopulationDiagnostics.html | 1296 +- PhenotypeR-0.3.0/PhenotypeR/inst/doc/ShinyDiagnostics.html | 24 PhenotypeR-0.3.0/PhenotypeR/inst/shiny/data/raw/results.csv |only PhenotypeR-0.3.0/PhenotypeR/inst/shiny/global.R | 20 PhenotypeR-0.3.0/PhenotypeR/inst/shiny/scripts/preprocess.R | 54 PhenotypeR-0.3.0/PhenotypeR/inst/shiny/server.R | 821 + PhenotypeR-0.3.0/PhenotypeR/inst/shiny/ui.R | 729 - PhenotypeR-0.3.0/PhenotypeR/man/addCodelistAttribute.Rd | 11 PhenotypeR-0.3.0/PhenotypeR/man/codelistDiagnostics.Rd | 14 PhenotypeR-0.3.0/PhenotypeR/man/cohortDiagnostics.Rd | 21 PhenotypeR-0.3.0/PhenotypeR/man/cohortSampleDoc.Rd |only PhenotypeR-0.3.0/PhenotypeR/man/databaseDiagnostics.Rd | 14 PhenotypeR-0.3.0/PhenotypeR/man/phenotypeDiagnostics.Rd | 15 PhenotypeR-0.3.0/PhenotypeR/man/populationDiagnostics.Rd | 20 PhenotypeR-0.3.0/PhenotypeR/man/shinyDiagnostics.Rd | 24 PhenotypeR-0.3.0/PhenotypeR/tests/testthat/test-codelistDiagnostics.R | 56 PhenotypeR-0.3.0/PhenotypeR/tests/testthat/test-cohortDiagnostics.R | 47 PhenotypeR-0.3.0/PhenotypeR/tests/testthat/test-databaseDiagnostics.R | 31 PhenotypeR-0.3.0/PhenotypeR/tests/testthat/test-phenotypeDiagnostics.R | 62 PhenotypeR-0.3.0/PhenotypeR/tests/testthat/test-shinyDiagnostics.R | 10 PhenotypeR-0.3.0/PhenotypeR/vignettes/CodelistDiagnostics.Rmd | 8 PhenotypeR-0.3.0/PhenotypeR/vignettes/CohortDiagnostics.Rmd | 1 PhenotypeR-0.3.0/PhenotypeR/vignettes/DatabaseDiagnostics.Rmd | 32 PhenotypeR-0.3.0/PhenotypeR/vignettes/PhenotypeDiagnostics.Rmd | 16 51 files changed, 8166 insertions(+), 3462 deletions(-)
Title: A Performance-Focused Package for Clinical Trial Tables
Description: Create high-performance clinical reporting tables (TLGs) from
ADaM-like inputs. The package provides a consistent, programmatic API
to generate common tables such as demographics, adverse event incidence,
and laboratory summaries, using 'data.table' for fast aggregation over
large populations. Functions support flexible target-variable selection,
stratification by treatment, and customizable summary statistics, and
return tidy, machine-readable results ready to render with downstream
table/formatting packages in analysis pipelines.
Author: Max Ebenezer-Brown [aut],
Max Norman [aut],
Xinye Li [aut],
Anja Peebles-Brown [aut],
Ashley Baldry [aut],
Ramiro Magno [aut, cre]
Maintainer: Ramiro Magno <ramiro.morgado@ascent.io>
Diff between dtlg versions 0.0.2 dated 2025-09-23 and 0.0.3 dated 2026-01-12
DESCRIPTION | 21 ++++++++++++--------- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/dt-helpers.R | 4 ++-- README.md | 4 ++++ man/dtlg-package.Rd | 1 + 6 files changed, 28 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-08-22 0.7.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-03-12 2.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-07-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-04-23 1.4
2022-05-31 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-10-18 1.2.6
2021-02-11 1.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-07 0.9.0
2020-02-28 0.8.0
2020-01-07 0.7.0
2019-11-23 0.6.0
2019-10-09 0.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-11 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-05 0.5.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-04 0.4.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-16 1.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-23 1.0.1
2019-09-27 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-17 0.8.0
2025-10-31 0.7.3
2025-10-22 0.7.2
2025-10-07 0.6.2
2025-10-01 0.5.1
2025-09-22 0.4.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-04-15 0.2.4
2024-03-02 0.2.3
2024-02-16 0.2.2
2023-03-15 0.2.1
2023-01-22 0.2.0
2022-07-02 0.1.0
Title: Measure Climate Scenario Alignment of Corporate Loans
Description: These tools help you to assess if a corporate lending
portfolio aligns with climate goals. They summarize key climate
indicators attributed to the portfolio (e.g. production, emission
factors), and calculate alignment targets based on climate scenarios.
They implement in R the last step of the free software 'PACTA' (Paris
Agreement Capital Transition Assessment;
<https://www.transitionmonitor.com/>). Financial institutions use 'PACTA'
to study how their capital allocation decisions align with climate
change mitigation goals.
Author: Jacob Kastl [aut, cre, ctr] ,
Alex Axthelm [aut, ctr] ,
Jackson Hoffart [aut, ctr] ,
Mauro Lepore [aut, ctr] ,
Klaus Hogedorn [aut],
Nicky Halterman [aut],
RMI [cph, fnd]
Maintainer: Jacob Kastl <jacob.kastl@gmail.com>
Diff between r2dii.analysis versions 0.5.2 dated 2025-06-17 and 0.5.3 dated 2026-01-12
DESCRIPTION | 6 +-- MD5 | 14 +++---- NEWS.md | 5 ++ R/join_abcd_scenario.R | 22 +++++++++--- R/target_sda.R | 2 - README.md | 42 +++++++++++------------ man/target_sda.Rd | 2 - tests/testthat/test-target_market_share.R | 53 ++++++++++++++++++++++++++++++ 8 files changed, 107 insertions(+), 39 deletions(-)
More information about r2dii.analysis at CRAN
Permanent link
Title: Lightweight Framework for Orchestrating Multi-Agent Large
Language Models
Description: Provides tools for creating agents with persistent state using
R6 classes <https://cran.r-project.org/package=R6> and the 'ellmer'
package <https://cran.r-project.org/package=ellmer>. Tracks prompts,
messages, and agent metadata for reproducible, multi-turn large language
model sessions.
Author: Mohamed El Fodil Ihaddaden [aut, cre]
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Diff between mini007 versions 0.2.2 dated 2025-12-04 and 0.3.0 dated 2026-01-12
DESCRIPTION | 10 MD5 | 16 NAMESPACE | 3 NEWS.md | 12 R/Agent.R | 240 ++++++++++++++ R/LeadAgent.R | 221 +++++++++++++ README.md | 918 +++++++++++++++++++++++++++++++++++++++++++++++++------ man/Agent.Rd | 228 +++++++++++++ man/LeadAgent.Rd | 142 ++++++++ 9 files changed, 1685 insertions(+), 105 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining
Description: Exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical, Multiple Factor Analysis when variables are structured in groups, etc. and hierarchical cluster analysis. F. Husson, S. Le and J. Pages (2017).
Author: Francois Husson [aut, cre] ,
Julie Josse [aut],
Sebastien Le [aut],
Jeremy Mazet [aut]
Maintainer: Francois Husson <francois.husson@institut-agro.fr>
Diff between FactoMineR versions 2.12 dated 2025-07-23 and 2.13 dated 2026-01-12
DESCRIPTION | 6 ++--- MD5 | 18 +++++++-------- R/coord.ellipse.R | 55 ++++++++++++++++++++++++---------------------- R/ellipseCA.R | 44 ++++++++++++++++++++++++++++++------ R/plot.MFA.R | 47 +++++++++++++++++++++++++++++++++++---- R/plot.PCA.R | 52 +++++++++++++++++++++++++++---------------- inst/doc/FactoMineR.Rmd | 2 - inst/doc/FactoMineR.pdf |binary vignettes/FactoMineR.Rmd | 2 - vignettes/FactoMineR.html | 2 - 10 files changed, 155 insertions(+), 73 deletions(-)
Title: Explain Interactions in 'XGBoost'
Description: Structure mining from 'XGBoost' and 'LightGBM' models.
Key functionalities of this package cover: visualisation of tree-based ensembles models,
identification of interactions, measuring of variable importance,
measuring of interaction importance, explanation of single prediction
with break down plots (based on 'xgboostExplainer' and 'iBreakDown' packages).
To download the 'LightGBM' use the following link: <https://github.com/Microsoft/LightGBM>.
'EIX' is a part of the 'DrWhy.AI' universe.
Author: Szymon Maksymiuk [aut, cre],
Ewelina Karbowiak [aut],
Przemyslaw Biecek [aut, ths]
Maintainer: Szymon Maksymiuk <sz.maksymiuk@gmail.com>
Diff between EIX versions 1.2.0 dated 2021-03-23 and 1.2.1 dated 2026-01-12
DESCRIPTION | 8 MD5 | 52 +-- NAMESPACE | 2 NEWS.md | 5 R/calculateGain.R | 26 - R/importance.R | 23 - R/interactions.R | 2 R/lollipop.R | 9 R/plot_importance.R | 3 R/plot_interactions.R | 3 R/plot_lollipop.R | 13 R/waterfall.R | 24 - build/vignette.rds |binary inst/doc/EIX.R | 12 inst/doc/EIX.Rmd | 6 inst/doc/EIX.html | 711 ++++++++++++++++++++++++++------------------- inst/doc/titanic_data.R | 7 inst/doc/titanic_data.Rmd | 3 inst/doc/titanic_data.html | 424 +++++++++++++------------- man/importance.Rd | 3 man/interactions.Rd | 2 man/lollipop.Rd | 3 man/plot.importance.Rd | 3 man/plot.interactions.Rd | 3 man/plot.lollipop.Rd | 3 vignettes/EIX.Rmd | 6 vignettes/titanic_data.Rmd | 3 27 files changed, 744 insertions(+), 615 deletions(-)
Title: MASCOTNUM / RT-UQ Algorithms Template Tools
Description: Helper functions for MASCOTNUM / RT-UQ <https://uq.math.cnrs.fr/> algorithm template, for design of numerical experiments practice:
algorithm template parser to support MASCOTNUM specification <https://github.com/MASCOTNUM/algorithms>,
'ask & tell' decoupling injection (inspired by <https://search.r-project.org/CRAN/refmans/sensitivity/html/decoupling.html>)
to use "crimped" algorithms (like uniroot(), optim(), ...) from outside R,
basic template examples: Brent algorithm for 1 dim root finding and L-BFGS-B from base optim().
Author: Yann Richet [aut, cre]
Maintainer: Yann Richet <yann.richet@asnr.fr>
Diff between templr versions 0.2-1 dated 2025-07-26 and 0.2-2 dated 2026-01-12
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/algorithm.R | 8 ++++---- R/import.R | 2 +- 4 files changed, 12 insertions(+), 12 deletions(-)
Title: Optimize and Compress Image Files with 'reSmush.it'
Description: Compress local and online images using the 'reSmush.it' API
service <https://resmush.it/>.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between resmush versions 0.2.1 dated 2024-12-18 and 0.2.2 dated 2026-01-12
resmush-0.2.1/resmush/vignettes/jpg_example_compress.jpg |only resmush-0.2.1/resmush/vignettes/jpg_example_compress_low.jpg |only resmush-0.2.2/resmush/DESCRIPTION | 14 resmush-0.2.2/resmush/MD5 | 78 resmush-0.2.2/resmush/NAMESPACE | 16 resmush-0.2.2/resmush/NEWS.md | 6 resmush-0.2.2/resmush/R/resmush-package.R | 14 resmush-0.2.2/resmush/R/resmush_clean_dir.R | 3 resmush-0.2.2/resmush/R/resmush_dir.R | 210 - resmush-0.2.2/resmush/R/resmush_file.R | 528 ++-- resmush-0.2.2/resmush/R/resmush_url.R | 556 ++-- resmush-0.2.2/resmush/R/show_report.R | 219 - resmush-0.2.2/resmush/R/sysdata.rda |binary resmush-0.2.2/resmush/R/utils.R | 31 resmush-0.2.2/resmush/README.md | 469 +-- resmush-0.2.2/resmush/build/vignette.rds |binary resmush-0.2.2/resmush/inst/CITATION | 42 resmush-0.2.2/resmush/inst/REFERENCES.bib | 14 resmush-0.2.2/resmush/inst/WORDLIST | 51 resmush-0.2.2/resmush/inst/doc/resmush.Rmd | 314 +- resmush-0.2.2/resmush/inst/doc/resmush.html | 1260 +++++----- resmush-0.2.2/resmush/inst/schemaorg.json | 90 resmush-0.2.2/resmush/man/figures/logo.png |binary resmush-0.2.2/resmush/man/resmush-package.Rd | 52 resmush-0.2.2/resmush/man/resmush_clean_dir.Rd | 126 - resmush-0.2.2/resmush/man/resmush_dir.Rd | 214 - resmush-0.2.2/resmush/man/resmush_file.Rd | 213 - resmush-0.2.2/resmush/man/resmush_url.Rd | 200 - resmush-0.2.2/resmush/man/roxygen/meta.R | 12 resmush-0.2.2/resmush/tests/testthat.R | 24 resmush-0.2.2/resmush/tests/testthat/_snaps/remush_url.md | 8 resmush-0.2.2/resmush/tests/testthat/test-formats-local.R | 189 - resmush-0.2.2/resmush/tests/testthat/test-formats.R | 268 +- resmush-0.2.2/resmush/tests/testthat/test-remush_url.R | 51 resmush-0.2.2/resmush/tests/testthat/test-resmuh_dir.R | 472 +-- resmush-0.2.2/resmush/tests/testthat/test-resmush_clean_dir.R | 15 resmush-0.2.2/resmush/tests/testthat/test-resmush_file.R | 803 +++--- resmush-0.2.2/resmush/tests/testthat/test-show_report.R | 3 resmush-0.2.2/resmush/tests/testthat/test-utils.R | 18 resmush-0.2.2/resmush/vignettes/REFERENCES.bib | 14 resmush-0.2.2/resmush/vignettes/resmush.Rmd | 314 +- 41 files changed, 3551 insertions(+), 3360 deletions(-)
Title: Business Analytics using R and Shiny
Description: A platform-independent browser-based interface for business
analytics in R, based on the shiny package. The application combines the
functionality of 'radiant.data', 'radiant.design', 'radiant.basics',
'radiant.model', and 'radiant.multivariate'.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
This is a re-admission after prior archival of version 1.6.6 dated 2024-05-21
Diff between radiant versions 1.6.6 dated 2024-05-21 and 1.6.7 dated 2026-01-12
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- README.md | 2 +- build/vignette.rds |binary inst/doc/programming.R | 6 +++--- inst/doc/programming.html | 29 +++++++++++++++-------------- 6 files changed, 28 insertions(+), 27 deletions(-)
Title: Genetic Linkage Maps in Autopolyploids
Description: Constructs genetic linkage maps in autopolyploid full-sib populations.
Uses pairwise recombination fraction estimation as the first
source of information to sequentially position allelic variants
in specific homologous chromosomes. For situations where pairwise
analysis has limited power, the algorithm relies on the multilocus
likelihood obtained through a hidden Markov model (HMM).
Methods are described in Mollinari and Garcia (2019)
<doi:10.1534/g3.119.400378> and Mollinari et al. (2020)
<doi:10.1534/g3.119.400620>.
Author: Marcelo Mollinari [aut, cre] ,
Gabriel Gesteira [aut] ,
Cristiane Taniguti [aut] ,
Jeekin Lau [aut] ,
Oscar Riera-Lizarazu [ctb] ,
Guilherme Pereira [ctb] ,
Augusto Garcia [ctb] ,
Zhao-Bang Zeng [ctb] ,
Katharine Preedy [ctb, cph] ,
Robert Gentleman [...truncated...]
Maintainer: Marcelo Mollinari <marcelo.mollinari@proton.me>
This is a re-admission after prior archival of version 0.4.1 dated 2024-03-06
Diff between mappoly versions 0.4.1 dated 2024-03-06 and 0.4.2 dated 2026-01-12
mappoly-0.4.1/mappoly/man/print_mrk.Rd |only mappoly-0.4.2/mappoly/DESCRIPTION | 64 mappoly-0.4.2/mappoly/MD5 | 473 - mappoly-0.4.2/mappoly/NAMESPACE | 445 - mappoly-0.4.2/mappoly/NEWS.md | 91 mappoly-0.4.2/mappoly/R/RcppExports.R | 70 mappoly-0.4.2/mappoly/R/add_drop.R | 1014 +-- mappoly-0.4.2/mappoly/R/build_map_by_steps.R | 1068 +-- mappoly-0.4.2/mappoly/R/cache_twopts.R | 344 - mappoly-0.4.2/mappoly/R/calc_genoprob.R | 316 - mappoly-0.4.2/mappoly/R/calc_genoprob_dist.R | 234 mappoly-0.4.2/mappoly/R/calc_genoprob_error.R | 294 mappoly-0.4.2/mappoly/R/calc_genoprob_single_parent.R | 254 mappoly-0.4.2/mappoly/R/check_phase_configurations.R | 1068 +-- mappoly-0.4.2/mappoly/R/cross_simulate.R | 236 mappoly-0.4.2/mappoly/R/data.R | 416 - mappoly-0.4.2/mappoly/R/eliminate_redundant.R | 140 mappoly-0.4.2/mappoly/R/est_map_hmm.R | 2264 +++---- mappoly-0.4.2/mappoly/R/export_map_list.R | 140 mappoly-0.4.2/mappoly/R/export_qtlpoly.R | 118 mappoly-0.4.2/mappoly/R/filters.R | 1420 ++-- mappoly-0.4.2/mappoly/R/find_blocks.R | 438 - mappoly-0.4.2/mappoly/R/get_counts.R | 420 - mappoly-0.4.2/mappoly/R/get_counts_from_web.R | 58 mappoly-0.4.2/mappoly/R/get_submap.R | 338 - mappoly-0.4.2/mappoly/R/group.R | 394 - mappoly-0.4.2/mappoly/R/haplotype_map_utils.R | 570 - mappoly-0.4.2/mappoly/R/homolog_probs.R | 366 - mappoly-0.4.2/mappoly/R/import_from_polymapR.R | 526 - mappoly-0.4.2/mappoly/R/import_from_updog.R | 386 - mappoly-0.4.2/mappoly/R/loglike_hmm.R | 110 mappoly-0.4.2/mappoly/R/make_mat.R | 114 mappoly-0.4.2/mappoly/R/make_pairs.R | 142 mappoly-0.4.2/mappoly/R/make_seq.R | 702 +- mappoly-0.4.2/mappoly/R/marker_info.R | 454 - mappoly-0.4.2/mappoly/R/mds.R | 544 - mappoly-0.4.2/mappoly/R/merge_maps.R | 588 - mappoly-0.4.2/mappoly/R/pairwise_rf.R | 1064 +-- mappoly-0.4.2/mappoly/R/plot_genome_vs_map.R | 172 mappoly-0.4.2/mappoly/R/plot_map_list.R | 280 mappoly-0.4.2/mappoly/R/plot_progeny_dosage_change.R | 438 - mappoly-0.4.2/mappoly/R/preferential_pairing.R | 562 - mappoly-0.4.2/mappoly/R/prior_dist_hmm.R | 84 mappoly-0.4.2/mappoly/R/read_fitpoly.R | 596 +- mappoly-0.4.2/mappoly/R/read_mappoly.R | 770 +- mappoly-0.4.2/mappoly/R/read_mappoly_csv.R | 400 - mappoly-0.4.2/mappoly/R/read_mappoly_prob.R | 624 +- mappoly-0.4.2/mappoly/R/read_mappoly_vcf.R | 720 +- mappoly-0.4.2/mappoly/R/reest_map_error.R | 674 +- mappoly-0.4.2/mappoly/R/reestimate_map.R | 290 mappoly-0.4.2/mappoly/R/rf_list_to_matrix.R | 640 +- mappoly-0.4.2/mappoly/R/segreg_poly.R | 114 mappoly-0.4.2/mappoly/R/sim_homologous.R | 210 mappoly-0.4.2/mappoly/R/simulation_utils.R | 310 - mappoly-0.4.2/mappoly/R/single_map_hmm.R | 124 mappoly-0.4.2/mappoly/R/single_paprent_single_phase_hmm.R | 140 mappoly-0.4.2/mappoly/R/split_and_rephase.R | 300 - mappoly-0.4.2/mappoly/R/utils.R | 2960 +++++----- mappoly-0.4.2/mappoly/R/zzz.R | 26 mappoly-0.4.2/mappoly/README.md | 330 - mappoly-0.4.2/mappoly/build/partial.rdb |binary mappoly-0.4.2/mappoly/build/vignette.rds |binary mappoly-0.4.2/mappoly/data/datalist | 8 mappoly-0.4.2/mappoly/inst/CITATION | 56 mappoly-0.4.2/mappoly/inst/doc/mappoly_startguide.R | 248 mappoly-0.4.2/mappoly/inst/doc/mappoly_startguide.Rmd | 490 - mappoly-0.4.2/mappoly/inst/doc/mappoly_startguide.html | 1214 ++-- mappoly-0.4.2/mappoly/man/add_marker.Rd | 298 - mappoly-0.4.2/mappoly/man/add_md_markers.Rd | 106 mappoly-0.4.2/mappoly/man/add_mrk_at_tail_ph_list.Rd | 24 mappoly-0.4.2/mappoly/man/aggregate_matrix.Rd | 24 mappoly-0.4.2/mappoly/man/cache_counts_twopt.Rd | 156 mappoly-0.4.2/mappoly/man/calc_genoprob.Rd | 104 mappoly-0.4.2/mappoly/man/calc_genoprob_dist.Rd | 114 mappoly-0.4.2/mappoly/man/calc_genoprob_error.Rd | 132 mappoly-0.4.2/mappoly/man/calc_genoprob_haplo.Rd | 48 mappoly-0.4.2/mappoly/man/calc_genoprob_single_parent.Rd | 166 mappoly-0.4.2/mappoly/man/calc_homologprob.Rd | 88 mappoly-0.4.2/mappoly/man/calc_prefpair_profiles.Rd | 80 mappoly-0.4.2/mappoly/man/cat_phase.Rd | 40 mappoly-0.4.2/mappoly/man/check_data_dist_sanity.Rd | 24 mappoly-0.4.2/mappoly/man/check_data_dose_sanity.Rd | 24 mappoly-0.4.2/mappoly/man/check_data_sanity.Rd | 64 mappoly-0.4.2/mappoly/man/check_if_rf_is_possible.Rd | 32 mappoly-0.4.2/mappoly/man/check_ls_phase.Rd | 28 mappoly-0.4.2/mappoly/man/check_pairwise.Rd | 48 mappoly-0.4.2/mappoly/man/compare_haplotypes.Rd | 50 mappoly-0.4.2/mappoly/man/compare_maps.Rd | 38 mappoly-0.4.2/mappoly/man/concatenate_new_marker.Rd | 60 mappoly-0.4.2/mappoly/man/concatenate_ph_list.Rd | 24 mappoly-0.4.2/mappoly/man/create_map.Rd | 24 mappoly-0.4.2/mappoly/man/cross_simulate.Rd | 166 mappoly-0.4.2/mappoly/man/detect_info_par.Rd | 28 mappoly-0.4.2/mappoly/man/dist_prob_to_class.Rd | 64 mappoly-0.4.2/mappoly/man/draw_cross.Rd | 44 mappoly-0.4.2/mappoly/man/draw_phases.Rd | 44 mappoly-0.4.2/mappoly/man/drop_marker.Rd | 68 mappoly-0.4.2/mappoly/man/edit_order.Rd | 92 mappoly-0.4.2/mappoly/man/elim_conf_using_two_pts.Rd | 48 mappoly-0.4.2/mappoly/man/elim_equiv.Rd | 46 mappoly-0.4.2/mappoly/man/elim_redundant.Rd | 82 mappoly-0.4.2/mappoly/man/est_full_hmm_with_global_error.Rd | 184 mappoly-0.4.2/mappoly/man/est_full_hmm_with_prior_prob.Rd | 172 mappoly-0.4.2/mappoly/man/est_haplo_hmm.Rd | 46 mappoly-0.4.2/mappoly/man/est_map_haplo_given_genoprob.Rd | 28 mappoly-0.4.2/mappoly/man/est_pairwise_rf.Rd | 194 mappoly-0.4.2/mappoly/man/est_pairwise_rf2.Rd | 116 mappoly-0.4.2/mappoly/man/est_rf_hmm.Rd | 337 - mappoly-0.4.2/mappoly/man/est_rf_hmm_sequential.Rd | 336 - mappoly-0.4.2/mappoly/man/est_rf_hmm_single_phase.Rd | 48 mappoly-0.4.2/mappoly/man/est_rf_hmm_single_phase_single_parent.Rd | 44 mappoly-0.4.2/mappoly/man/export_data_to_polymapR.Rd | 40 mappoly-0.4.2/mappoly/man/export_map_list.Rd | 64 mappoly-0.4.2/mappoly/man/export_qtlpoly.Rd | 76 mappoly-0.4.2/mappoly/man/extract_map.Rd | 44 mappoly-0.4.2/mappoly/man/filter_aneuploid.Rd | 82 mappoly-0.4.2/mappoly/man/filter_individuals.Rd | 78 mappoly-0.4.2/mappoly/man/filter_map_at_hmm_thres.Rd | 46 mappoly-0.4.2/mappoly/man/filter_missing.Rd | 88 mappoly-0.4.2/mappoly/man/filter_missing_ind.Rd | 38 mappoly-0.4.2/mappoly/man/filter_missing_mrk.Rd | 38 mappoly-0.4.2/mappoly/man/filter_non_conforming_classes.Rd | 24 mappoly-0.4.2/mappoly/man/filter_segregation.Rd | 80 mappoly-0.4.2/mappoly/man/find_blocks.Rd | 208 mappoly-0.4.2/mappoly/man/format_rf.Rd | 24 mappoly-0.4.2/mappoly/man/framework_map.Rd | 148 mappoly-0.4.2/mappoly/man/generate_all_link_phase_elim_equivalent.Rd | 70 mappoly-0.4.2/mappoly/man/generate_all_link_phases_elim_equivalent_haplo.Rd | 74 mappoly-0.4.2/mappoly/man/genetic-mapping-functions.Rd | 108 mappoly-0.4.2/mappoly/man/genotyping_global_error.Rd | 40 mappoly-0.4.2/mappoly/man/get_LOD.Rd | 42 mappoly-0.4.2/mappoly/man/get_cache_two_pts_from_web.Rd | 34 mappoly-0.4.2/mappoly/man/get_counts.Rd | 42 mappoly-0.4.2/mappoly/man/get_counts_all_phases.Rd | 46 mappoly-0.4.2/mappoly/man/get_counts_single_parent.Rd | 68 mappoly-0.4.2/mappoly/man/get_counts_two_parents.Rd | 42 mappoly-0.4.2/mappoly/man/get_dosage_type.Rd | 54 mappoly-0.4.2/mappoly/man/get_full_info_tail.Rd | 28 mappoly-0.4.2/mappoly/man/get_genomic_order.Rd | 74 mappoly-0.4.2/mappoly/man/get_ij.Rd | 40 mappoly-0.4.2/mappoly/man/get_indices_from_selected_phases.Rd | 50 mappoly-0.4.2/mappoly/man/get_ols_map.Rd | 24 mappoly-0.4.2/mappoly/man/get_ph_conf_ret_sh.Rd | 44 mappoly-0.4.2/mappoly/man/get_ph_list_subset.Rd | 24 mappoly-0.4.2/mappoly/man/get_rf_from_list.Rd | 74 mappoly-0.4.2/mappoly/man/get_rf_from_mat.Rd | 24 mappoly-0.4.2/mappoly/man/get_states_and_emission_single_parent.Rd | 24 mappoly-0.4.2/mappoly/man/get_submap.Rd | 186 mappoly-0.4.2/mappoly/man/get_tab_mrks.Rd | 34 mappoly-0.4.2/mappoly/man/get_w_m.Rd | 24 mappoly-0.4.2/mappoly/man/gg_color_hue.Rd | 24 mappoly-0.4.2/mappoly/man/group_mappoly.Rd | 170 mappoly-0.4.2/mappoly/man/hexafake.Rd | 84 mappoly-0.4.2/mappoly/man/hexafake.geno.dist.Rd | 102 mappoly-0.4.2/mappoly/man/import_data_from_polymapR.Rd | 136 mappoly-0.4.2/mappoly/man/import_from_updog.Rd | 214 mappoly-0.4.2/mappoly/man/import_phased_maplist_from_polymapR.Rd | 76 mappoly-0.4.2/mappoly/man/is.prob.data.Rd | 44 mappoly-0.4.2/mappoly/man/loglike_hmm.Rd | 74 mappoly-0.4.2/mappoly/man/ls_linkage_phases.Rd | 184 mappoly-0.4.2/mappoly/man/make_mat_mappoly.Rd | 96 mappoly-0.4.2/mappoly/man/make_pairs_mappoly.Rd | 96 mappoly-0.4.2/mappoly/man/make_seq_mappoly.Rd | 154 mappoly-0.4.2/mappoly/man/mappoly-color-palettes.Rd | 80 mappoly-0.4.2/mappoly/man/maps.hexafake.Rd | 36 mappoly-0.4.2/mappoly/man/mds_mappoly.Rd | 178 mappoly-0.4.2/mappoly/man/merge_datasets.Rd | 180 mappoly-0.4.2/mappoly/man/merge_maps.Rd | 210 mappoly-0.4.2/mappoly/man/merge_parental_maps.Rd | 76 mappoly-0.4.2/mappoly/man/mrk_chisq_test.Rd | 24 mappoly-0.4.2/mappoly/man/msg.Rd | 24 mappoly-0.4.2/mappoly/man/paralell_pairwise_discrete.Rd | 82 mappoly-0.4.2/mappoly/man/paralell_pairwise_discrete_rcpp.Rd | 50 mappoly-0.4.2/mappoly/man/paralell_pairwise_probability.Rd | 82 mappoly-0.4.2/mappoly/man/parallel_block.Rd | 46 mappoly-0.4.2/mappoly/man/perm_pars.Rd | 24 mappoly-0.4.2/mappoly/man/perm_tot.Rd | 24 mappoly-0.4.2/mappoly/man/ph_list_to_matrix.Rd | 44 mappoly-0.4.2/mappoly/man/ph_matrix_to_list.Rd | 40 mappoly-0.4.2/mappoly/man/plot.mappoly.homoprob.Rd | 82 mappoly-0.4.2/mappoly/man/plot.mappoly.prefpair.profiles.Rd | 80 mappoly-0.4.2/mappoly/man/plot_GIC.Rd | 54 mappoly-0.4.2/mappoly/man/plot_compare_haplotypes.Rd | 88 mappoly-0.4.2/mappoly/man/plot_genome_vs_map.Rd | 98 mappoly-0.4.2/mappoly/man/plot_map_list.Rd | 102 mappoly-0.4.2/mappoly/man/plot_mappoly.map2.Rd | 28 mappoly-0.4.2/mappoly/man/plot_mrk_info.Rd | 52 mappoly-0.4.2/mappoly/man/plot_one_map.Rd | 24 mappoly-0.4.2/mappoly/man/plot_progeny_dosage_change.Rd | 115 mappoly-0.4.2/mappoly/man/poly_hmm_est.Rd | 52 mappoly-0.4.2/mappoly/man/prepare_map.Rd | 24 mappoly-0.4.2/mappoly/man/print_ph.Rd | 24 mappoly-0.4.2/mappoly/man/read_fitpoly.Rd | 232 mappoly-0.4.2/mappoly/man/read_geno.Rd | 250 mappoly-0.4.2/mappoly/man/read_geno_csv.Rd | 206 mappoly-0.4.2/mappoly/man/read_geno_prob.Rd | 262 mappoly-0.4.2/mappoly/man/read_vcf.Rd | 264 mappoly-0.4.2/mappoly/man/reest_rf.Rd | 132 mappoly-0.4.2/mappoly/man/rev_map.Rd | 42 mappoly-0.4.2/mappoly/man/rf_list_to_matrix.Rd | 216 mappoly-0.4.2/mappoly/man/rf_snp_filter.Rd | 186 mappoly-0.4.2/mappoly/man/sample_data.Rd | 74 mappoly-0.4.2/mappoly/man/segreg_poly.Rd | 92 mappoly-0.4.2/mappoly/man/select_rf.Rd | 24 mappoly-0.4.2/mappoly/man/sim_cross_one_informative_parent.Rd | 46 mappoly-0.4.2/mappoly/man/sim_cross_two_informative_parents.Rd | 44 mappoly-0.4.2/mappoly/man/sim_homologous.Rd | 114 mappoly-0.4.2/mappoly/man/solcap.dose.map.Rd | 34 mappoly-0.4.2/mappoly/man/solcap.err.map.Rd | 34 mappoly-0.4.2/mappoly/man/solcap.mds.map.Rd | 34 mappoly-0.4.2/mappoly/man/solcap.prior.map.Rd | 34 mappoly-0.4.2/mappoly/man/split_and_rephase.Rd | 162 mappoly-0.4.2/mappoly/man/split_mappoly.Rd | 38 mappoly-0.4.2/mappoly/man/summary_maps.Rd | 54 mappoly-0.4.2/mappoly/man/table_to_mappoly.Rd | 36 mappoly-0.4.2/mappoly/man/tetra.solcap.Rd | 94 mappoly-0.4.2/mappoly/man/tetra.solcap.geno.dist.Rd | 112 mappoly-0.4.2/mappoly/man/update_framework_map.Rd | 114 mappoly-0.4.2/mappoly/man/update_map.Rd | 62 mappoly-0.4.2/mappoly/man/update_missing.Rd | 24 mappoly-0.4.2/mappoly/man/update_ph_list_at_hmm_thres.Rd | 28 mappoly-0.4.2/mappoly/man/v_2_m.Rd | 24 mappoly-0.4.2/mappoly/src/calc_genoprob.cpp | 2 mappoly-0.4.2/mappoly/src/calc_genoprob_based_on_phased_marker_blocks.cpp | 2 mappoly-0.4.2/mappoly/src/calc_genoprob_based_on_phased_marker_blocks.h | 2 mappoly-0.4.2/mappoly/src/calc_loglike_given_map.cpp | 2 mappoly-0.4.2/mappoly/src/calc_loglike_given_map.h | 2 mappoly-0.4.2/mappoly/src/combinatorial.cpp | 2 mappoly-0.4.2/mappoly/src/est_hmm_map_based_on_phased_mrk_blocks.cpp | 2 mappoly-0.4.2/mappoly/src/est_hmm_map_based_on_phased_mrk_blocks.h | 2 mappoly-0.4.2/mappoly/src/est_map_hmm_given_dose.cpp | 2 mappoly-0.4.2/mappoly/src/est_map_hmm_given_dose.h | 2 mappoly-0.4.2/mappoly/src/hmm_elements.cpp | 2 mappoly-0.4.2/mappoly/src/hmm_single_parent.cpp | 2 mappoly-0.4.2/mappoly/src/pairwise_estimation.cpp | 2 mappoly-0.4.2/mappoly/src/pairwise_estimation_rcppparallel.cpp | 2 mappoly-0.4.2/mappoly/src/read_mappoly_vcf.cpp | 2 mappoly-0.4.2/mappoly/vignettes/mappoly_startguide.Rmd | 490 - 238 files changed, 21947 insertions(+), 21912 deletions(-)
Title: Formal Concept Analysis
Description: Provides tools to perform fuzzy formal concept analysis, presented in Wille (1982) <doi:10.1007/978-3-642-01815-2_23> and in Ganter and Obiedkov (2016) <doi:10.1007/978-3-662-49291-8>. It provides functions to load and save a formal context, extract its concept lattice and implications. In addition, one can use the implications to compute semantic closures of fuzzy sets and, thus, build recommendation systems. Matrix factorization is provided by the GreConD+ algorithm (Belohlavek and Trneckova, 2024 <doi:10.1109/TFUZZ.2023.3330760>).
Author: Domingo Lopez Rodriguez [aut, cre] ,
Angel Mora [aut],
Jesus Dominguez [aut],
Ana Villalon [aut]
Maintainer: Domingo Lopez Rodriguez <dominlopez78@gmail.com>
Diff between fcaR versions 1.2.2 dated 2023-11-30 and 1.3.0 dated 2026-01-12
fcaR-1.2.2/fcaR/src/subsetting.cpp |only fcaR-1.3.0/fcaR/DESCRIPTION | 48 fcaR-1.3.0/fcaR/MD5 | 203 ++- fcaR-1.3.0/fcaR/NAMESPACE | 37 fcaR-1.3.0/fcaR/NEWS.md | 29 fcaR-1.3.0/fcaR/R/RcppExports.R | 156 ++ fcaR-1.3.0/fcaR/R/check_properties.R |only fcaR-1.3.0/fcaR/R/compute_closure.R | 149 +- fcaR-1.3.0/fcaR/R/compute_closure_fuzzy.R |only fcaR-1.3.0/fcaR/R/concept_lattice.R | 628 +++++++---- fcaR-1.3.0/fcaR/R/concept_miners_registry.R |only fcaR-1.3.0/fcaR/R/concept_set.R | 184 +-- fcaR-1.3.0/fcaR/R/formal_context.R | 799 ++++++--------- fcaR-1.3.0/fcaR/R/imp_to_basis.R | 63 - fcaR-1.3.0/fcaR/R/implication_set.R | 588 +++++------ fcaR-1.3.0/fcaR/R/labeling.R |only fcaR-1.3.0/fcaR/R/latex_exporter.R |only fcaR-1.3.0/fcaR/R/lattice_plot.R | 482 +++------ fcaR-1.3.0/fcaR/R/logics.R |only fcaR-1.3.0/fcaR/R/match_attributes.R | 46 fcaR-1.3.0/fcaR/R/metrics.R |only fcaR-1.3.0/fcaR/R/plot_auxiliary.R |only fcaR-1.3.0/fcaR/R/plot_context.R | 2 fcaR-1.3.0/fcaR/R/random_contexts.R |only fcaR-1.3.0/fcaR/R/reduce_transitivity.R | 17 fcaR-1.3.0/fcaR/R/repository.R |only fcaR-1.3.0/fcaR/R/scaling.R | 25 fcaR-1.3.0/fcaR/R/simplification.R | 57 - fcaR-1.3.0/fcaR/R/stability.R |only fcaR-1.3.0/fcaR/R/subsets.R | 156 ++ fcaR-1.3.0/fcaR/R/to_fraction.R | 2 fcaR-1.3.0/fcaR/R/utils.R |only fcaR-1.3.0/fcaR/R/zzz.R | 84 + fcaR-1.3.0/fcaR/README.md | 135 ++ fcaR-1.3.0/fcaR/build/vignette.rds |binary fcaR-1.3.0/fcaR/inst/doc/advanced_lattice_metrics.R |only fcaR-1.3.0/fcaR/inst/doc/advanced_lattice_metrics.Rmd |only fcaR-1.3.0/fcaR/inst/doc/advanced_lattice_metrics.html |only fcaR-1.3.0/fcaR/inst/doc/arules.R | 4 fcaR-1.3.0/fcaR/inst/doc/arules.Rmd | 2 fcaR-1.3.0/fcaR/inst/doc/arules.html | 81 - fcaR-1.3.0/fcaR/inst/doc/concept_lattice.R | 36 fcaR-1.3.0/fcaR/inst/doc/concept_lattice.Rmd | 30 fcaR-1.3.0/fcaR/inst/doc/concept_lattice.html | 615 +++++------ fcaR-1.3.0/fcaR/inst/doc/conceptual-scaling.R | 286 +++-- fcaR-1.3.0/fcaR/inst/doc/conceptual-scaling.Rmd | 246 ++-- fcaR-1.3.0/fcaR/inst/doc/conceptual-scaling.html | 447 ++++---- fcaR-1.3.0/fcaR/inst/doc/creating_contexts.R |only fcaR-1.3.0/fcaR/inst/doc/creating_contexts.Rmd |only fcaR-1.3.0/fcaR/inst/doc/creating_contexts.html |only fcaR-1.3.0/fcaR/inst/doc/extending_equivalence.R | 61 - 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fcaR-1.3.0/fcaR/src/MatrixFactorization.cpp |only fcaR-1.3.0/fcaR/src/Randomize.cpp |only fcaR-1.3.0/fcaR/src/RcppExports.cpp | 580 ++++++++++ fcaR-1.3.0/fcaR/src/Transitivity.cpp |only fcaR-1.3.0/fcaR/src/aux_functions.cpp | 113 +- fcaR-1.3.0/fcaR/src/aux_functions.h | 13 fcaR-1.3.0/fcaR/src/binary_next_closure.cpp |only fcaR-1.3.0/fcaR/src/binary_operations.cpp |only fcaR-1.3.0/fcaR/src/binary_operations.h |only fcaR-1.3.0/fcaR/src/fastcbo-binary.cpp |only fcaR-1.3.0/fcaR/src/fastcbo.cpp |only fcaR-1.3.0/fcaR/src/formatting.cpp |only fcaR-1.3.0/fcaR/src/fuzzy_do.cpp |only fcaR-1.3.0/fcaR/src/implication_tree.cpp | 45 fcaR-1.3.0/fcaR/src/inclose.cpp |only fcaR-1.3.0/fcaR/src/inclose_binary_final.cpp |only fcaR-1.3.0/fcaR/src/inclose_binary_old.cpp |only fcaR-1.3.0/fcaR/src/inclose_binary_old.h |only fcaR-1.3.0/fcaR/src/lattice_algorithms.cpp |only fcaR-1.3.0/fcaR/src/metrics.cpp |only fcaR-1.3.0/fcaR/src/metrics_advanced.cpp |only fcaR-1.3.0/fcaR/src/my_tests.cpp |only fcaR-1.3.0/fcaR/src/nextclosure.cpp | 414 ++++--- fcaR-1.3.0/fcaR/src/set_operations_galois.cpp | 798 ++++++-------- fcaR-1.3.0/fcaR/src/set_operations_galois.h | 133 +- fcaR-1.3.0/fcaR/src/subsetting_dispatcher.cpp |only fcaR-1.3.0/fcaR/src/subsetting_legacy.cpp |only fcaR-1.3.0/fcaR/src/vector_operations.cpp | 24 fcaR-1.3.0/fcaR/src/vector_operations.h | 19 fcaR-1.3.0/fcaR/tests/testthat/Rplots.pdf |binary fcaR-1.3.0/fcaR/tests/testthat/test-concept_lattice.R | 63 - fcaR-1.3.0/fcaR/tests/testthat/test-imp_to_basis_new.R |only fcaR-1.3.0/fcaR/tests/testthat/test-metrics.R |only fcaR-1.3.0/fcaR/tests/testthat/test-random_contexts.R |only fcaR-1.3.0/fcaR/tests/testthat/test-test_metrics.R |only fcaR-1.3.0/fcaR/tests/testthat/test-visualization.R |only fcaR-1.3.0/fcaR/vignettes/advanced_lattice_metrics.Rmd |only fcaR-1.3.0/fcaR/vignettes/arules.Rmd | 2 fcaR-1.3.0/fcaR/vignettes/concept_lattice.Rmd | 30 fcaR-1.3.0/fcaR/vignettes/conceptual-scaling.Rmd | 246 ++-- fcaR-1.3.0/fcaR/vignettes/creating_contexts.Rmd |only fcaR-1.3.0/fcaR/vignettes/extending_equivalence.Rmd | 42 fcaR-1.3.0/fcaR/vignettes/fuzzy_fca.Rmd |only fcaR-1.3.0/fcaR/vignettes/implications.Rmd | 32 fcaR-1.3.0/fcaR/vignettes/lattice_properties.Rmd |only fcaR-1.3.0/fcaR/vignettes/lattice_visualization.Rmd |only fcaR-1.3.0/fcaR/vignettes/matrix_factorization.Rmd |only fcaR-1.3.0/fcaR/vignettes/random_contexts.Rmd |only 145 files changed, 5550 insertions(+), 3694 deletions(-)
Title: Bayesian Hierarchical Analysis of Cognitive Models of Choice
Description: Fit Bayesian (hierarchical) cognitive models
using a linear modeling language interface using particle Metropolis Markov
chain Monte Carlo sampling with Gibbs steps. The diffusion decision model (DDM),
linear ballistic accumulator model (LBA), racing diffusion model (RDM), and the lognormal
race model (LNR) are supported. Additionally, users can specify their own likelihood
function and/or choose for non-hierarchical
estimation, as well as for a diagonal, blocked or full multivariate normal
group-level distribution to test individual differences. Prior specification
is facilitated through methods that visualize the (implied) prior.
A wide range of plotting functions assist in assessing model convergence and
posterior inference. Models can be easily evaluated using functions
that plot posterior predictions or using relative model comparison metrics
such as information criteria or Bayes factors.
References: Stevenson et al. (2024) <doi:10.31234/osf.io/2e4dq>.
Author: Niek Stevenson [aut, cre] ,
Michelle Donzallaz [aut],
Andrew Heathcote [aut],
Steven Miletic [aut],
Luke Strickland [ctb],
Frank Hezemans [ctb],
Raphael Hartmann [ctb],
Karl C. Klauer [ctb],
Steven G. Johnson [ctb],
Jean M. Linhart [ctb],
Brian Gough [...truncated...]
Maintainer: Niek Stevenson <niek.stevenson@gmail.com>
Diff between EMC2 versions 3.3.0 dated 2025-12-02 and 3.4.1 dated 2026-01-12
EMC2-3.3.0/EMC2/man/plot_ss_if.Rd |only EMC2-3.3.0/EMC2/man/plot_ss_srrt.Rd |only EMC2-3.4.1/EMC2/DESCRIPTION | 14 EMC2-3.4.1/EMC2/MD5 | 90 EMC2-3.4.1/EMC2/NAMESPACE | 9 EMC2-3.4.1/EMC2/NEWS.md | 101 EMC2-3.4.1/EMC2/R/EMC2-package.R | 1 EMC2-3.4.1/EMC2/R/RcppExports.R | 8 EMC2-3.4.1/EMC2/R/SBC.R | 107 EMC2-3.4.1/EMC2/R/design.R | 50 EMC2-3.4.1/EMC2/R/fitting.R | 1 EMC2-3.4.1/EMC2/R/map.R | 28 EMC2-3.4.1/EMC2/R/model_DDM.R | 4 EMC2-3.4.1/EMC2/R/model_SS.R | 1188 ++++++----- EMC2-3.4.1/EMC2/R/new_map.R | 20 EMC2-3.4.1/EMC2/R/plotting.R | 296 ++ EMC2-3.4.1/EMC2/R/plotting_ss.R | 221 +- EMC2-3.4.1/EMC2/R/s3_funcs.R | 12 EMC2-3.4.1/EMC2/R/sampling.R | 2 EMC2-3.4.1/EMC2/R/trend.R | 763 ++++++- EMC2-3.4.1/EMC2/R/utils.R | 10 EMC2-3.4.1/EMC2/inst/doc/Simulation-based-Calibration.R | 2 EMC2-3.4.1/EMC2/inst/doc/Simulation-based-Calibration.Rmd | 2 EMC2-3.4.1/EMC2/inst/doc/Simulation-based-Calibration.html | 18 EMC2-3.4.1/EMC2/inst/doc/trends.R | 4 EMC2-3.4.1/EMC2/inst/doc/trends.Rmd | 24 EMC2-3.4.1/EMC2/inst/doc/trends.html | 45 EMC2-3.4.1/EMC2/man/EMC2-package.Rd | 4 EMC2-3.4.1/EMC2/man/apply_kernel.Rd |only EMC2-3.4.1/EMC2/man/design.Rd | 3 EMC2-3.4.1/EMC2/man/fix_custom_kernel_pointers.Rd |only EMC2-3.4.1/EMC2/man/get_custom_kernel_pointers.Rd |only EMC2-3.4.1/EMC2/man/get_power_spectra.Rd |only EMC2-3.4.1/EMC2/man/make_trend.Rd | 142 + EMC2-3.4.1/EMC2/man/plot_sbc_ecdf.Rd | 12 EMC2-3.4.1/EMC2/man/plot_spectrum.Rd |only EMC2-3.4.1/EMC2/man/set_custom_kernel_pointers.Rd |only EMC2-3.4.1/EMC2/src/Makevars | 1 EMC2-3.4.1/EMC2/src/Makevars.win | 1 EMC2-3.4.1/EMC2/src/RcppExports.cpp | 37 EMC2-3.4.1/EMC2/src/particle_ll.cpp | 54 EMC2-3.4.1/EMC2/src/trend.h | 408 ++- EMC2-3.4.1/EMC2/tests/testthat/_snaps/Darwin/fMRI.md | 56 EMC2-3.4.1/EMC2/tests/testthat/_snaps/Darwin/fit.md | 60 EMC2-3.4.1/EMC2/tests/testthat/_snaps/Darwin/variant_funs.md | 190 - EMC2-3.4.1/EMC2/tests/testthat/_snaps/kernels.md |only EMC2-3.4.1/EMC2/tests/testthat/_snaps/trend.md | 141 + EMC2-3.4.1/EMC2/tests/testthat/test-kernels.R |only EMC2-3.4.1/EMC2/tests/testthat/test-trend.R | 147 + EMC2-3.4.1/EMC2/vignettes/Simulation-based-Calibration.Rmd | 2 EMC2-3.4.1/EMC2/vignettes/trends.Rmd | 24 51 files changed, 3057 insertions(+), 1245 deletions(-)
Title: An R Package for Evaluating Scholarly Expertise Indices for
Institutional Research Assessment
Description: Institutional performance assessment remains a key challenge to a multitude of stakeholders. Existing indicators such as h-type indicators, g-type indicators, and many others do not reflect expertise of institutions that defines their research portfolio. The package offers functionality to compute and visualise two novel indices: the x-index and the xd-index. The x-index evaluates an institution's scholarly expertise within a specific discipline or field, while the xd-index provides a broader assessment of overall scholarly expertise considering an institution's publication pattern and strengths across coarse thematic areas. These indices offer a nuanced understanding of institutional research capabilities, aiding stakeholders in research management and resource allocation decisions. Lathabai, H.H., Nandy, A., and Singh, V.K. (2021) <doi:10.1007/s11192-021-04188-3>. Nandy, A., Lathabai, H.H., and Singh, V.K. (2023) <doi:10.5281/zenodo.8305585>. This package provides the h-, [...truncated...]
Author: Nilabhra Rohan Das [cre, aut] ,
Abhirup Nandy [aut]
Maintainer: Nilabhra Rohan Das <nr.das@yahoo.com>
Diff between xxdi versions 1.2.4 dated 2025-06-16 and 1.3.1 dated 2026-01-12
DESCRIPTION | 16 +- MD5 | 29 +++-- NAMESPACE | 5 NEWS.md | 13 ++ R/data.R |only R/g_index.R | 80 +++++++------- R/h_index.R | 73 ++++++------- R/ivw_xd_index.R |only R/x_index.R | 121 ++++++++++++--------- R/xc_index.R |only R/xd_index.R | 287 +++++++++++++++++++++++++++++++++++----------------- data |only man/WoSdata.Rd |only man/g_index.Rd | 63 +++++------ man/h_index.Rd | 65 +++++------ man/ivw_xd_index.Rd |only man/x_index.Rd | 85 +++++++-------- man/xc_index.Rd |only man/xd_index.Rd | 115 +++++++++++++------- 19 files changed, 562 insertions(+), 390 deletions(-)
Title: Extreme Gradient Boosting
Description: Extreme Gradient Boosting, which is an efficient implementation
of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>.
This package is its R interface. The package includes efficient linear
model solver and tree learning algorithms. The package can automatically
do parallel computation on a single machine which could be more than 10
times faster than existing gradient boosting packages. It supports
various objective functions, including regression, classification and ranking.
The package is made to be extensible, so that users are also allowed to define
their own objectives easily.
Author: Tianqi Chen [aut],
Tong He [aut],
Michael Benesty [aut],
Vadim Khotilovich [aut],
Yuan Tang [aut] ,
Hyunsu Cho [aut],
Kailong Chen [aut],
Rory Mitchell [aut],
Ignacio Cano [aut],
Tianyi Zhou [aut],
Mu Li [aut],
Junyuan Xie [aut],
Min Lin [aut],
Yifen [...truncated...]
Maintainer: Jiaming Yuan <jm.yuan@outlook.com>
Diff between xgboost versions 3.1.2.1 dated 2025-12-03 and 3.1.3.1 dated 2026-01-12
DESCRIPTION | 8 +- MD5 | 36 ++++++------ R/xgb.train.R | 30 +++++----- configure | 18 +++--- configure.ac | 2 inst/doc/xgboost_introduction.Rmd | 2 inst/doc/xgboost_introduction.html | 21 +++---- man/xgb.params.Rd | 26 ++++----- man/xgboost.Rd | 18 +++--- src/config.h | 4 - src/include/xgboost/version_config.h | 2 src/include/xgboost/windefs.h | 4 + src/src/collective/tracker.cc | 2 src/src/common/deterministic.cuh | 8 +- src/src/tree/gpu_hist/histogram.cu | 12 ++-- src/src/tree/param.h | 8 +- src/xgboost_R.cc | 4 - tests/testthat/test_basic.R | 97 +++++++++++++++++++++++++++++++++++ vignettes/xgboost_introduction.Rmd | 2 19 files changed, 202 insertions(+), 102 deletions(-)
Title: Timing, Anatomical, Therapeutic and Chemical Based Medication
Clustering
Description: Agglomerative hierarchical clustering with a bespoke distance
measure based on medication similarities in the Anatomical Therapeutic
Chemical Classification System, medication timing and
medication amount or dosage. Tools for summarizing, illustrating and
manipulating the cluster objects are also available.
Author: Anna Laksafoss [aut, cre]
Maintainer: Anna Laksafoss <adls@ssi.dk>
Diff between tame versions 0.2.0 dated 2025-04-02 and 0.2.1 dated 2026-01-12
tame-0.2.0/tame/tests/testthat/test-ismedic.R |only tame-0.2.1/tame/DESCRIPTION | 18 - tame-0.2.1/tame/MD5 | 42 ++-- tame-0.2.1/tame/NAMESPACE | 1 tame-0.2.1/tame/R/RcppExports.R | 12 - tame-0.2.1/tame/R/crop.R | 42 ++-- tame-0.2.1/tame/R/employ.R | 156 ++++++++------- tame-0.2.1/tame/R/enrich.R | 2 tame-0.2.1/tame/R/extractors.R | 28 +- tame-0.2.1/tame/R/medic-utils.R | 226 ++++++++-------------- tame-0.2.1/tame/R/medic.R | 65 +++--- tame-0.2.1/tame/R/plot-utils.R | 3 tame-0.2.1/tame/R/plot.R | 5 tame-0.2.1/tame/R/refactor.R | 16 - tame-0.2.1/tame/R/summary-utils.R | 28 ++ tame-0.2.1/tame/R/summary.R | 24 +- tame-0.2.1/tame/R/tame_package.R | 1 tame-0.2.1/tame/man/construct_plot_data.Rd | 3 tame-0.2.1/tame/man/plot_summary.Rd | 3 tame-0.2.1/tame/man/regex_inner_join.Rd |only tame-0.2.1/tame/tests/testthat/test-employ.R | 42 +++- tame-0.2.1/tame/tests/testthat/test-medic-utils.R | 188 +++++++++++++++++- tame-0.2.1/tame/tests/testthat/test-medic.R | 73 ++++++- 23 files changed, 622 insertions(+), 356 deletions(-)
Title: Demographic Analysis and Data Manipulation
Description: Perform tasks commonly encountered when
preparing and analysing demographic data.
Some functions are intended for end users, and
others for developers. Includes functions for
working with life tables.
Author: John Bryant [aut, cre],
Bayesian Demography Limited [cph]
Maintainer: John Bryant <john@bayesiandemography.com>
Diff between poputils versions 0.4.2 dated 2025-07-12 and 0.5.0 dated 2026-01-12
poputils-0.4.2/poputils/data/iran_fertility.rda |only poputils-0.4.2/poputils/data/nzmort.rda |only poputils-0.4.2/poputils/data/nzmort_rvec.rda |only poputils-0.4.2/poputils/man/iran_fertility.Rd |only poputils-0.4.2/poputils/man/nzmort.Rd |only poputils-0.4.2/poputils/man/nzmort_rvec.Rd |only poputils-0.5.0/poputils/DESCRIPTION | 8 poputils-0.5.0/poputils/MD5 | 91 ++-- poputils-0.5.0/poputils/NAMESPACE | 3 poputils-0.5.0/poputils/NEWS.md | 20 + poputils-0.5.0/poputils/R/age-helpers.R | 28 + poputils-0.5.0/poputils/R/check-functions.R | 195 +++++++--- poputils-0.5.0/poputils/R/cpp11.R | 4 poputils-0.5.0/poputils/R/datasets.R | 71 ++- poputils-0.5.0/poputils/R/ex_to_lifetab.R | 28 - poputils-0.5.0/poputils/R/intrinsic_growth_rate.R |only poputils-0.5.0/poputils/R/lifetab.R | 5 poputils-0.5.0/poputils/R/logit.R | 2 poputils-0.5.0/poputils/R/poputils-package.R | 18 poputils-0.5.0/poputils/R/tfr.R | 16 poputils-0.5.0/poputils/R/tfr_to_asfr.R |only poputils-0.5.0/poputils/R/to_matrix.R | 3 poputils-0.5.0/poputils/R/util.R | 25 + poputils-0.5.0/poputils/README.md | 29 - poputils-0.5.0/poputils/build/vignette.rds |binary poputils-0.5.0/poputils/data/booth_standard.rda |only poputils-0.5.0/poputils/data/irn_fert.rda |only poputils-0.5.0/poputils/data/nzl_mort.rda |only poputils-0.5.0/poputils/data/nzl_mort_rvec.rda |only poputils-0.5.0/poputils/data/west_lifetab.rda |binary poputils-0.5.0/poputils/inst/doc/poputils.R | 18 poputils-0.5.0/poputils/inst/doc/poputils.Rmd | 22 - poputils-0.5.0/poputils/inst/doc/poputils.html | 67 +-- poputils-0.5.0/poputils/man/booth_standard.Rd |only poputils-0.5.0/poputils/man/dot-intrinsic_growth_rate.Rd |only poputils-0.5.0/poputils/man/ex_to_lifetab_brass.Rd | 16 poputils-0.5.0/poputils/man/figures/sticker |only poputils-0.5.0/poputils/man/irn_fert.Rd |only poputils-0.5.0/poputils/man/logit.Rd | 2 poputils-0.5.0/poputils/man/nzl_mort.Rd |only poputils-0.5.0/poputils/man/nzl_mort_rvec.Rd |only poputils-0.5.0/poputils/man/poputils-package.Rd | 17 poputils-0.5.0/poputils/man/tfr.Rd | 12 poputils-0.5.0/poputils/man/tfr_to_asfr_scale.Rd |only poputils-0.5.0/poputils/man/west_lifetab.Rd | 20 - poputils-0.5.0/poputils/src/cpp11.cpp | 36 + poputils-0.5.0/poputils/src/intrinsic_growth_rate.cpp |only poputils-0.5.0/poputils/tests/testthat/test-check-functions.R | 189 +++++++-- poputils-0.5.0/poputils/tests/testthat/test-ex_to_lifetab.R | 14 poputils-0.5.0/poputils/tests/testthat/test-intrinsic_growth_rate-src.R |only poputils-0.5.0/poputils/tests/testthat/test-intrinsic_growth_rate.R |only poputils-0.5.0/poputils/tests/testthat/test-lifetab.R | 41 +- poputils-0.5.0/poputils/tests/testthat/test-tfr.R | 12 poputils-0.5.0/poputils/tests/testthat/test-tfr_to_asfr.R |only poputils-0.5.0/poputils/tests/testthat/test-to_matrix.R | 42 ++ poputils-0.5.0/poputils/tests/testthat/test-util.R | 46 ++ poputils-0.5.0/poputils/vignettes/poputils.Rmd | 22 - 57 files changed, 797 insertions(+), 325 deletions(-)
Title: A Lightweight and Flexible Web Framework
Description: A very flexible framework for building server side logic in
R. The framework is unopinionated when it comes to how HTTP requests
and WebSocket messages are handled and supports all levels of app
complexity; from serving static content to full-blown dynamic
web-apps. Fiery does not hold your hand as much as e.g. the shiny
package does, but instead sets you free to create your web app the way
you want.
Author: Thomas Lin Pedersen [cre, aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between fiery versions 1.4.1 dated 2025-11-18 and 1.5.0 dated 2026-01-12
DESCRIPTION | 8 MD5 | 38 ++-- NAMESPACE | 3 NEWS.md | 14 + R/Fire.R | 310 ++++++++++++++++++++++--------------- R/HandlerStack.R | 105 +++++------- R/PromiseStack.R | 259 +++++++++++++++++------------- R/aaa.R | 10 - R/loggers.R | 109 +++++++------ R/request_store.R | 3 README.md | 3 man/Fire.Rd | 2 man/loggers.Rd | 25 +- man/random_port.Rd | 2 tests/testthat/_snaps/Fire.md | 20 -- tests/testthat/_snaps/loggers.md | 24 +- tests/testthat/test-Fire.R | 10 - tests/testthat/test-HandlerStack.R | 8 tests/testthat/test-PromiseStack.R | 4 tests/testthat/test-loggers.R | 8 20 files changed, 535 insertions(+), 430 deletions(-)
Title: Lightweight One-Line Resolving Microbial Ecology Program
Description: Provides a robust collection of functions tailored for microbial ecology analysis, encompassing both data analysis and visualization. It introduces an encapsulation feature that streamlines the process into a summary object. With the initial configuration of this summary object, users can execute a wide range of analyses with a single line of code, requiring only two essential parameters for setup. The package delivers comprehensive outputs including analysis objects, statistical outcomes, and visualization-ready data, enhancing the efficiency of research workflows. Designed with user-friendliness in mind, it caters to both novices and seasoned researchers, offering an intuitive interface coupled with adaptable customization options to meet diverse analytical needs.
Author: Ningqi Wang [aut, cre, cph],
Yaozhong Zhang [aut],
Gaofei Jiang [aut]
Maintainer: Ningqi Wang <2434066068@qq.com>
Diff between LorMe versions 2.0.1 dated 2025-11-17 and 2.0.2 dated 2026-01-12
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/0.LorMe_define.R | 2 -- R/LorMe_pipeline.R | 23 ++++++++++++++++++----- R/compare_plot.R | 4 ++-- R/indicator_analysis.R | 2 +- R/sub_tax_summary.R | 20 +++++++++++++------- man/LorMe_pipeline.Rd | 3 +++ 8 files changed, 47 insertions(+), 27 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with vector (points, lines, polygons) and raster (grid) data. Methods for vector data include geometric operations such as intersect and buffer. Raster methods include local, focal, global, zonal and geometric operations. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/> to get started.
Author: Robert J. Hijmans [cre, aut] ,
Marcia Barbosa [ctb] ,
Roger Bivand [ctb] ,
Andrew Brown [ctb] ,
Michael Chirico [ctb] ,
Emanuele Cordano [ctb] ,
Krzysztof Dyba [ctb] ,
Edzer Pebesma [ctb] ,
Barry Rowlingson [ctb] ,
Michael D. Sumner [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.8-86 dated 2025-11-28 and 1.8-93 dated 2026-01-12
terra-1.8-86/terra/R/clip.R |only terra-1.8-86/terra/R/polygons.R |only terra-1.8-93/terra/DESCRIPTION | 8 - terra-1.8-93/terra/MD5 | 105 ++++++++-------- terra-1.8-93/terra/NAMESPACE | 4 terra-1.8-93/terra/NEWS.md | 38 +++++ terra-1.8-93/terra/R/Agenerics.R | 4 terra-1.8-93/terra/R/Arith_generics.R | 68 ++++++---- terra-1.8-93/terra/R/RcppExports.R | 8 - terra-1.8-93/terra/R/aggregate.R | 2 terra-1.8-93/terra/R/app.R | 2 terra-1.8-93/terra/R/distance.R | 2 terra-1.8-93/terra/R/extract.R | 41 ++++-- terra-1.8-93/terra/R/extract_single.R | 2 terra-1.8-93/terra/R/gdal.R | 39 +++++- terra-1.8-93/terra/R/geom.R | 18 ++ terra-1.8-93/terra/R/lines.R | 2 terra-1.8-93/terra/R/plot_axes.R | 2 terra-1.8-93/terra/R/plot_cartogram.R | 27 ++-- terra-1.8-93/terra/R/plot_clip.R |only terra-1.8-93/terra/R/plot_let.R | 172 +++++++++++++++------------ terra-1.8-93/terra/R/plot_raster.R | 55 ++++---- terra-1.8-93/terra/R/plot_vector.R | 22 ++- terra-1.8-93/terra/R/sample.R | 26 ++-- terra-1.8-93/terra/R/show.R | 12 + terra-1.8-93/terra/R/vect.R | 114 +++++++++++++---- terra-1.8-93/terra/R/zonal.R | 2 terra-1.8-93/terra/R/zzz.R | 23 ++- terra-1.8-93/terra/man/aggregate.Rd | 2 terra-1.8-93/terra/man/app.Rd | 2 terra-1.8-93/terra/man/cartogram.Rd | 4 terra-1.8-93/terra/man/compare-generics.Rd | 2 terra-1.8-93/terra/man/datatype.Rd | 14 +- terra-1.8-93/terra/man/focal.Rd | 6 terra-1.8-93/terra/man/gdal.Rd | 30 ++++ terra-1.8-93/terra/man/plet.Rd | 36 +++-- terra-1.8-93/terra/man/rasterize.Rd | 6 terra-1.8-93/terra/man/sample.Rd | 5 terra-1.8-93/terra/man/split.Rd | 2 terra-1.8-93/terra/man/summarize-generics.Rd | 7 - terra-1.8-93/terra/man/tapp.Rd | 2 terra-1.8-93/terra/man/terrain.Rd | 2 terra-1.8-93/terra/man/vect.Rd | 11 + terra-1.8-93/terra/man/width.Rd | 4 terra-1.8-93/terra/src/Makevars.in | 2 terra-1.8-93/terra/src/Makevars.ucrt | 19 +- terra-1.8-93/terra/src/RcppExports.cpp | 24 ++- terra-1.8-93/terra/src/RcppFunctions.cpp | 66 +++++++--- terra-1.8-93/terra/src/RcppModule.cpp | 9 + terra-1.8-93/terra/src/arith.cpp | 31 ++++ terra-1.8-93/terra/src/read_ogr.cpp | 14 +- terra-1.8-93/terra/src/spatRaster.h | 8 - terra-1.8-93/terra/src/vecmath.cpp | 10 + terra-1.8-93/terra/src/vecmath.h | 35 +++++ terra-1.8-93/terra/src/vecmathse.cpp | 29 ++++ 55 files changed, 803 insertions(+), 377 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>),
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 0.7 dated 2025-12-10 and 0.7.1 dated 2026-01-12
DESCRIPTION | 9 +-- MD5 | 21 ++++--- NAMESPACE | 1 NEWS.md | 4 + R/superlearner.R | 13 +++- inst/doc/predictionclass.html | 26 ++++----- inst/doc/riskregression.html | 32 +++++------ inst/slowtest/test_cate.R |only inst/slowtest/test_sl.R | 8 ++ inst/tinytest/test_cate.R | 96 ----------------------------------- inst/tinytest/test_learner_xgboost.R | 22 +++++--- man/superlearner.Rd | 1 12 files changed, 81 insertions(+), 152 deletions(-)
Title: R Optimization Infrastructure
Description: The R Optimization Infrastructure ('ROI') <doi:10.18637/jss.v094.i15>
is a sophisticated framework for handling optimization problems in R.
Additional information can be found on the 'ROI' homepage <https://roi.r-forge.r-project.org/>.
Author: Kurt Hornik [aut] ,
David Meyer [aut],
Florian Schwendinger [aut] ,
Stefan Theussl [aut, cre] ,
Diethelm Wuertz [ctb]
Maintainer: Stefan Theussl <Stefan.Theussl@R-Project.org>
Diff between ROI versions 1.0-1 dated 2023-04-20 and 1.0-2 dated 2026-01-12
DESCRIPTION | 16 +++++++++------- MD5 | 22 +++++++++++----------- R/bounds.R | 20 +++++++++++++++++--- R/constraints.R | 21 +++++++++++++++++---- R/plugin.R | 4 ++-- R/roi.R | 4 ++-- R/types.R | 4 ++++ man/ROI_bound.Rd | 6 +++--- man/ROI_constraint.Rd | 4 ++-- man/ROI_plugin_build_equality_constraints.Rd | 2 +- man/ROI_plugin_build_inequality_constraints.Rd | 2 +- man/ROI_solve.Rd | 4 ++-- 12 files changed, 71 insertions(+), 38 deletions(-)
Title: Derivative-Free Optimization in R using C++
Description: Perform derivative-free optimization algorithms in R using C++.
A wrapper interface is provided to call C function of the 'bobyqa' implementation
(See <https://github.com/emmt/Algorithms/tree/master/bobyqa>).
Author: Sam Watson [aut, cre],
Yi Pan [aut],
Eric Thiebaut [aut],
Mike Powell [aut]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
Diff between rminqa versions 0.2.2 dated 2023-01-08 and 0.3.1 dated 2026-01-12
rminqa-0.2.2/rminqa/R/zzz.R |only rminqa-0.2.2/rminqa/man/rminqa.Rd |only rminqa-0.3.1/rminqa/DESCRIPTION | 24 +++++------ rminqa-0.3.1/rminqa/MD5 | 22 ++++++---- rminqa-0.3.1/rminqa/NAMESPACE | 5 +- rminqa-0.3.1/rminqa/R/RcppExports.R | 51 +++++++++++++++++++++++- rminqa-0.3.1/rminqa/inst/include/newuoa.h |only rminqa-0.3.1/rminqa/inst/include/newuoa_impl.h |only rminqa-0.3.1/rminqa/inst/include/optim.h |only rminqa-0.3.1/rminqa/man/bobyqa_rosen_test1.Rd |only rminqa-0.3.1/rminqa/man/bobyqa_rosen_test2.Rd |only rminqa-0.3.1/rminqa/src/Makevars | 2 rminqa-0.3.1/rminqa/src/Makevars.win | 2 rminqa-0.3.1/rminqa/src/RcppExports.cpp | 23 ++++++++++ rminqa-0.3.1/rminqa/src/rbobyqa_example.cpp | 4 + rminqa-0.3.1/rminqa/src/rbobyqa_example_new.cpp |only 16 files changed, 106 insertions(+), 27 deletions(-)
Title: A Glimpse at the Diversity of Peru's Endemic Plants
Description: Introducing a novel and updated database showcasing Peru's endemic plants. This meticulously compiled and revised botanical collection encompasses a remarkable assemblage of over 7,898 distinct species. The data for this resource was sourced from the work of Govaerts, R., Nic Lughadha, E., Black, N. et al., titled 'The World Checklist of Vascular Plants: A continuously updated resource for exploring global plant diversity', published in Sci Data 8, 215 (2021) <doi:10.1038/s41597-021-00997-6>.
Author: Paul E. Santos Andrade [aut, cre] ,
Lucely L. Vilca Bustamante [aut]
Maintainer: Paul E. Santos Andrade <paulefrens@gmail.com>
Diff between ppendemic versions 0.1.9 dated 2025-06-09 and 0.2.0 dated 2026-01-12
DESCRIPTION | 12 +-- MD5 | 14 ++- R/matching_ppendemic.R | 2 R/ppendemic_data.R | 109 +++++++++++++++++++++++++++++++ R/zzz.R | 97 ++++++++++++++++++--------- README.md | 14 +-- data/ppendemic_tab15.rda |only man/figures/README-unnamed-chunk-2-1.png |binary man/ppendemic_tab15.Rd |only 9 files changed, 196 insertions(+), 52 deletions(-)
Title: Download and Process Public Domain Works from Project Gutenberg
Description: Download and process public domain works in the Project
Gutenberg collection <https://www.gutenberg.org/>. Includes metadata
for all Project Gutenberg works, so that they can be searched and
retrieved.
Author: Jordan Bradford [aut, cre] ,
Jon Harmon [aut] ,
Myfanwy Johnston [aut],
David Robinson [aut, cph]
Maintainer: Jordan Bradford <jrdnbradford@gmail.com>
Diff between gutenbergr versions 0.3.1 dated 2025-12-14 and 0.4.0 dated 2026-01-12
DESCRIPTION | 25 MD5 | 127 NAMESPACE | 27 NEWS.md | 9 R/data.R | 417 R/globals.R | 33 R/gutenberg_cache.R |only R/gutenberg_download.R | 355 R/gutenberg_mirrors.R | 250 R/gutenberg_strip.R | 155 R/gutenberg_works.R | 241 R/gutenbergr-package.R | 20 R/utils.R | 165 R/zzz.R |only README.md | 518 build/vignette.rds |binary data/gutenberg_authors.rda |binary data/gutenberg_languages.rda |binary data/gutenberg_metadata.rda |binary data/gutenberg_subjects.rda |binary inst/WORDLIST | 70 inst/doc/gutenbergr.R | 154 inst/doc/gutenbergr.Rmd | 308 inst/doc/gutenbergr.html | 1352 - man/flatten_gutenberg_id.Rd | 2 man/gutenberg_add_metadata.Rd | 2 man/gutenberg_authors.Rd | 6 man/gutenberg_cache_clear_all.Rd |only man/gutenberg_cache_dir.Rd |only man/gutenberg_cache_files.Rd |only man/gutenberg_cache_list.Rd |only man/gutenberg_cache_remove_ids.Rd |only man/gutenberg_cache_set.Rd |only man/gutenberg_download.Rd | 135 man/gutenberg_ensure_cache_dir.Rd |only man/gutenberg_get_all_mirrors.Rd | 68 man/gutenberg_get_mirror.Rd | 50 man/gutenberg_languages.Rd | 6 man/gutenberg_metadata.Rd | 159 man/gutenberg_strip.Rd | 86 man/gutenberg_subjects.Rd | 138 man/gutenberg_url.Rd | 4 man/gutenberg_works.Rd | 172 man/gutenbergr-package.Rd | 63 man/is_working_gutenberg_mirror.Rd | 5 man/read_next.Rd | 4 man/sample_books.Rd | 4 man/try_gutenberg_download.Rd | 2 tests/README.md |only tests/testthat.R | 16 tests/testthat/fixtures/105-0-zip |17480 ++++++++++++------------ tests/testthat/fixtures/109-to-strip.txt | 802 - tests/testthat/fixtures/109-zip | 3252 ++-- tests/testthat/fixtures/2-zip | 528 tests/testthat/fixtures/MIRRORS-ALL | 42 tests/testthat/fixtures/README | 96 tests/testthat/fixtures/create_fixtures.R | 40 tests/testthat/fixtures/harvest-filetypes---txt | 424 tests/testthat/fixtures/pg68283-txt | 3208 ++-- tests/testthat/helper-cache.R |only tests/testthat/helper-integration-tests.R |only tests/testthat/helper-mocks.R | 28 tests/testthat/test-data.R | 128 tests/testthat/test-gutenberg_cache.R |only tests/testthat/test-gutenberg_download.R | 110 tests/testthat/test-gutenberg_mirrors.R | 194 tests/testthat/test-gutenberg_strip.R | 18 tests/testthat/test-gutenberg_works.R | 114 tests/testthat/test-integration-gutenberg_api.R |only tests/testthat/test-utils.R | 112 tests/testthat/test-zzz.R |only vignettes/gutenbergr.Rmd | 308 72 files changed, 16076 insertions(+), 15956 deletions(-)
Title: Descriptive Statistics, Transition Plots, and More
Description: Utilities for common medical-statistics graphics
and tables, including automatic creation of publication-ready "Table 1"
summaries; transition (Sankey) plots; flow-chart helpers that extend the
grid package; Bézier lines and arrows; and a singular-value-decomposition-
based variable-selection method.
Author: Max Gordon [aut, cre]
Maintainer: Max Gordon <max@gforge.se>
Diff between Gmisc versions 3.0.4 dated 2025-08-19 and 3.1.0 dated 2026-01-12
DESCRIPTION | 12 MD5 | 117 +- NAMESPACE | 25 NEWS.md | 919 +++++++-------- R/bezierArrowGradient.R | 10 R/bezierArrowSmpl.R | 2 R/boxGrob_prConvert2Coords.R | 117 +- R/boxGrob_spread_npc_norm_helpers.R |only R/boxGrobs_S3_fns.R | 1 R/boxGrobs_align.R | 212 ++- R/boxGrobs_boxGrob.R | 44 R/boxGrobs_boxPropGrob.R | 60 - R/boxGrobs_boxShapes.R |only R/boxGrobs_connect.R | 308 ++--- R/boxGrobs_connect_pr_helpers.R |only R/boxGrobs_connect_pr_many_to_one_boxes.R |only R/boxGrobs_connect_pr_many_to_one_fan_in_on_top_boxes.R |only R/boxGrobs_connect_pr_one_to_many_boxes.R |only R/boxGrobs_connect_pr_single_boxes.R |only R/boxGrobs_distance.R | 3 R/boxGrobs_labelConnector.R |only R/boxGrobs_move.R | 181 ++- R/boxGrobs_print.Gmisc_list_of_boxes.R | 15 R/boxGrobs_spread.R | 394 ++++-- R/transitionPlot.R | 4 build/vignette.rds |binary inst/doc/Descriptives.Rmd | 1 inst/doc/Descriptives.html | 9 inst/doc/Grid-based_flowcharts.R | 241 ++-- inst/doc/Grid-based_flowcharts.Rmd | 301 +++-- inst/doc/Grid-based_flowcharts.html | 930 ++++++++-------- inst/doc/Transition-class.Rmd | 1 inst/doc/Transition-class.html | 9 inst/doc/transitionPlot.Rmd | 1 inst/doc/transitionPlot.html | 9 inst/examples/alignBox_ex.R | 49 inst/examples/connectGrob_example.R | 39 inst/examples/moveBox_ex.R | 46 inst/examples/spreadBox_ex.R | 43 man/align.Rd | 63 - man/bezierArrowGradient.Rd | 2 man/bezierArrowSmpl.Rd | 2 man/box.Rd | 12 man/boxPropGrob.Rd | 3 man/boxShapes.Rd |only man/connect.Rd | 169 ++ man/coords.Rd | 1 man/distance.Rd | 1 man/labelConnector.Rd |only man/moveBox.Rd | 56 man/prConvert2Coords.Rd | 19 man/prGetBoxAxisDefaults.Rd |only man/print.Gmisc_connector_label.Rd |only man/setConnectorLabels.Rd |only man/spread.Rd | 103 + man/transitionPlot.Rd | 4 tests/testthat/Rplots.pdf |binary tests/testthat/test-align_pipe.R |only tests/testthat/test-boxGrob_move.R | 31 tests/testthat/test-boxShapes.R |only tests/testthat/test-connectGrob_N_centered.R |only tests/testthat/test-connectGrob_fan_in_top.R |only tests/testthat/test-getDescriptionStats_tidyselect.R | 102 - tests/testthat/test-labelConnector.R |only tests/testthat/test-setConnectorLabels.R |only vignettes/Descriptives.Rmd | 1 vignettes/Grid-based_flowcharts.Rmd | 301 +++-- vignettes/Transition-class.Rmd | 1 vignettes/transitionPlot.Rmd | 1 69 files changed, 3084 insertions(+), 1891 deletions(-)
Title: GeoServer REST API R Interface
Description: Provides an R interface to the GeoServer REST API, allowing to upload
and publish data in a GeoServer web-application and expose data to OGC Web-Services.
The package currently supports all CRUD (Create,Read,Update,Delete) operations
on GeoServer workspaces, namespaces, datastores (stores of vector data), featuretypes,
layers, styles, as well as vector data upload operations. For more information about
the GeoServer REST API, see <https://docs.geoserver.org/stable/en/user/rest/>.
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geosapi versions 0.7-2 dated 2025-09-01 and 0.8 dated 2026-01-12
DESCRIPTION | 10 - MD5 | 28 ++- NAMESPACE | 5 NEWS.md | 10 + R/GSAccessControlListManager.R |only R/GSLayerRule.R |only R/GSManager.R | 8 R/GSRESTResource.R | 10 + R/GSRestRule.R |only R/GSRule.R |only R/GSServiceRule.R |only README.md | 2 build/vignette.rds |binary inst/doc/geosapi.html | 329 +++++++++++++++++--------------------- man/GSAccessControlListManager.Rd |only man/GSLayerRule.Rd |only man/GSRESTResource.Rd | 2 man/GSRestRule.Rd |only man/GSRule.Rd |only man/GSServiceRule.Rd |only 20 files changed, 204 insertions(+), 200 deletions(-)
Title: Ditwah Storm Data and Tools for Storm Monitoring and Early
Warning November 2025, Sri Lanka
Description: The Ditwah storm began impacting Sri Lanka on 25 November 2025. Ditwah provides a collection of tidy, well-structured datasets to
support storm data management, monitoring, and early warning applications in Sri Lanka.
The publicly available data were converted to tidy data format for easy analysis.
The package processes weather data, flood data and situation report data (families affected, etc.).
The package also includes functions for analyzing river level progression and load dashboard visualizations to enhance situational awareness. This is also developed for educational purposes to support learning in data wrangling, visualization, and disaster analytics.
Author: Thiyanga S. Talagala [aut, cre]
Maintainer: Thiyanga S. Talagala <ttalagala@sjp.ac.lk>
Diff between Ditwah versions 1.0.0 dated 2025-12-05 and 1.0.1 dated 2026-01-12
DESCRIPTION | 6 +++--- MD5 | 4 ++-- data/realtime_waterlevel_kelani_ganga.rda |binary 3 files changed, 5 insertions(+), 5 deletions(-)
Title: Performs Tests for Cluster Tendency of a Data Set
Description: Test for cluster tendency (clusterability) of a data set.
The methods implemented - reducing the data set to a single dimension using principal component analysis or computing
pairwise distances, and performing a multimodality test like the Dip Test or Silverman's Critical Bandwidth Test -
are described in Adolfsson, Ackerman, and Brownstein (2019) <doi:10.1016/j.patcog.2018.10.026>. Such methods can inform whether clustering algorithms
are appropriate for a data set.
Author: Zachariah Neville [aut, cre],
Naomi Brownstein [aut],
Maya Ackerman [aut],
Andreas Adolfsson [aut]
Maintainer: Zachariah Neville <zachariahneville@outlook.com>
Diff between clusterability versions 0.2.1.0 dated 2025-09-29 and 0.2.2.0 dated 2026-01-12
clusterability-0.2.1.0/clusterability/R/dipsilverman.R |only clusterability-0.2.1.0/clusterability/R/paramchecks.R |only clusterability-0.2.1.0/clusterability/R/reducestandardize.R |only clusterability-0.2.1.0/clusterability/inst/doc/Rplots.R |only clusterability-0.2.1.0/clusterability/inst/doc/clusterability_timings.R |only clusterability-0.2.1.0/clusterability/tests/testthat/test_printsummary.R |only clusterability-0.2.1.0/clusterability/tests/testthat/test_reducestandardize.R |only clusterability-0.2.1.0/clusterability/tests/testthat/test_validateparams.R |only clusterability-0.2.2.0/clusterability/DESCRIPTION | 8 clusterability-0.2.2.0/clusterability/MD5 | 55 + clusterability-0.2.2.0/clusterability/NEWS.md | 3 clusterability-0.2.2.0/clusterability/R/clusterability.R | 117 ++-- clusterability-0.2.2.0/clusterability/R/clusterabilitytest.R | 288 +++++----- clusterability-0.2.2.0/clusterability/R/data_standardization.R |only clusterability-0.2.2.0/clusterability/R/dimension_reduction.R |only clusterability-0.2.2.0/clusterability/R/hypothesis_tests.R |only clusterability-0.2.2.0/clusterability/R/input_validation.R |only clusterability-0.2.2.0/clusterability/R/normals1.R | 11 clusterability-0.2.2.0/clusterability/R/normals2.R | 11 clusterability-0.2.2.0/clusterability/R/normals3.R | 11 clusterability-0.2.2.0/clusterability/R/normals4.R | 11 clusterability-0.2.2.0/clusterability/R/normals5.R | 11 clusterability-0.2.2.0/clusterability/README.md | 14 clusterability-0.2.2.0/clusterability/inst/doc/SupplementalFiles.md |only clusterability-0.2.2.0/clusterability/inst/doc/examples.R | 18 clusterability-0.2.2.0/clusterability/inst/doc/examples_performance_testing.R |only clusterability-0.2.2.0/clusterability/inst/doc/examples_plots.R |only clusterability-0.2.2.0/clusterability/man/clusterability.Rd | 105 ++- clusterability-0.2.2.0/clusterability/man/clusterabilitytest.Rd | 39 - clusterability-0.2.2.0/clusterability/man/normals1.Rd | 3 clusterability-0.2.2.0/clusterability/man/normals2.Rd | 13 clusterability-0.2.2.0/clusterability/man/normals3.Rd | 15 clusterability-0.2.2.0/clusterability/man/normals4.Rd | 13 clusterability-0.2.2.0/clusterability/man/normals5.Rd | 15 clusterability-0.2.2.0/clusterability/tests/testthat/test_clusterabilitytest.R |only clusterability-0.2.2.0/clusterability/tests/testthat/test_data_standardization.R |only clusterability-0.2.2.0/clusterability/tests/testthat/test_dimension_reduction.R |only clusterability-0.2.2.0/clusterability/tests/testthat/test_input_validation.R |only 38 files changed, 425 insertions(+), 336 deletions(-)
More information about clusterability at CRAN
Permanent link
Title: Generate Citation File Format ('cff') Metadata for R Packages
Description: The Citation File Format version 1.2.0
<doi:10.5281/zenodo.5171937> is a human and machine readable file
format which provides citation metadata for software. This package
provides core utilities to generate and validate this metadata.
Author: Diego Hernangomez [aut, cre, cph] ,
Joao Martins [rev] ,
Scott Chamberlain [rev]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between cffr versions 1.2.0 dated 2025-01-25 and 1.2.1 dated 2026-01-12
cffr-1.2.0/cffr/inst/doc/bibtex_cff.R |only cffr-1.2.0/cffr/inst/doc/bibtex_cff.Rmd |only cffr-1.2.0/cffr/inst/doc/bibtex_cff.html |only cffr-1.2.0/cffr/inst/doc/crosswalk.R |only cffr-1.2.0/cffr/inst/doc/crosswalk.Rmd |only cffr-1.2.0/cffr/inst/doc/crosswalk.html |only cffr-1.2.0/cffr/inst/doc/paper.Rmd |only cffr-1.2.0/cffr/inst/doc/paper.html |only cffr-1.2.0/cffr/man/chunks/cffclass.html |only cffr-1.2.0/cffr/vignettes/bibtex_cff.Rmd |only cffr-1.2.0/cffr/vignettes/crosswalk.Rmd |only cffr-1.2.0/cffr/vignettes/paper.Rmd |only cffr-1.2.1/cffr/DESCRIPTION | 17 cffr-1.2.1/cffr/MD5 | 163 - cffr-1.2.1/cffr/NEWS.md | 9 cffr-1.2.1/cffr/R/as_bibentry.R | 828 +++-- cffr-1.2.1/cffr/R/as_cff.R | 30 cffr-1.2.1/cffr/R/as_cff_person.R | 46 cffr-1.2.1/cffr/R/as_cff_reference.R | 8 cffr-1.2.1/cffr/R/assertions.R | 27 cffr-1.2.1/cffr/R/cff.R | 10 cffr-1.2.1/cffr/R/cff_create.R | 39 cffr-1.2.1/cffr/R/cff_gha_update.R | 154 - cffr-1.2.1/cffr/R/cff_git_hook.R | 4 cffr-1.2.1/cffr/R/cff_read.R | 583 ++-- cffr-1.2.1/cffr/R/cff_validate.R | 269 - cffr-1.2.1/cffr/R/cff_write.R | 52 cffr-1.2.1/cffr/R/cff_write_misc.R | 277 + cffr-1.2.1/cffr/R/deprecated.R | 67 cffr-1.2.1/cffr/R/encoded_utf_to_latex.R | 5 cffr-1.2.1/cffr/R/methods.R | 76 cffr-1.2.1/cffr/R/utils-alerts.R | 177 - cffr-1.2.1/cffr/R/utils-bib.R | 21 cffr-1.2.1/cffr/R/utils-cff_read.R | 766 ++--- cffr-1.2.1/cffr/R/utils-cff_ref.R | 48 cffr-1.2.1/cffr/R/utils-create.R | 443 +-- cffr-1.2.1/cffr/R/utils-methods.R | 17 cffr-1.2.1/cffr/R/utils-persons.R | 236 + cffr-1.2.1/cffr/R/utils-schema.R | 5 cffr-1.2.1/cffr/R/utils.R | 38 cffr-1.2.1/cffr/R/zzz.R | 2 cffr-1.2.1/cffr/README.md | 166 - cffr-1.2.1/cffr/build/partial.rdb |binary cffr-1.2.1/cffr/build/vignette.rds |binary cffr-1.2.1/cffr/data/cran_to_spdx.rda |binary cffr-1.2.1/cffr/inst/WORDLIST | 5 cffr-1.2.1/cffr/inst/doc/bibtex-cff.R |only cffr-1.2.1/cffr/inst/doc/bibtex-cff.Rmd |only cffr-1.2.1/cffr/inst/doc/bibtex-cff.html |only cffr-1.2.1/cffr/inst/doc/cffr.html | 29 cffr-1.2.1/cffr/inst/doc/joss-paper.Rmd |only cffr-1.2.1/cffr/inst/doc/joss-paper.html |only cffr-1.2.1/cffr/inst/doc/r-cff.R |only cffr-1.2.1/cffr/inst/doc/r-cff.Rmd |only cffr-1.2.1/cffr/inst/doc/r-cff.html |only cffr-1.2.1/cffr/inst/extdata/cran_licenses.csv | 314 +- cffr-1.2.1/cffr/inst/schemaorg.json | 4 cffr-1.2.1/cffr/inst/yaml/update-citation-cff.yaml | 6 cffr-1.2.1/cffr/man/as_bibentry.Rd | 2 cffr-1.2.1/cffr/man/as_cff_person.Rd | 2 cffr-1.2.1/cffr/man/cff_class.Rd | 51 cffr-1.2.1/cffr/man/cff_read.Rd | 2 cffr-1.2.1/cffr/man/chunks/cffclass.Rmd | 2 cffr-1.2.1/cffr/man/cran_to_spdx.Rd | 2 cffr-1.2.1/cffr/man/figures/logo.png |binary cffr-1.2.1/cffr/tests/testthat/_snaps/as_cff_person.md | 1 cffr-1.2.1/cffr/tests/testthat/_snaps/cff_create.md | 2 cffr-1.2.1/cffr/tests/testthat/_snaps/methods.md | 4 cffr-1.2.1/cffr/tests/testthat/_snaps/utils-create.md | 4 cffr-1.2.1/cffr/tests/testthat/test-as_bibentry.R | 10 cffr-1.2.1/cffr/tests/testthat/test-as_cff.R | 331 +- cffr-1.2.1/cffr/tests/testthat/test-as_cff_person.R | 35 cffr-1.2.1/cffr/tests/testthat/test-as_cff_reference.R | 1550 +++++------ cffr-1.2.1/cffr/tests/testthat/test-cff.R | 76 cffr-1.2.1/cffr/tests/testthat/test-cff_create.R | 147 - cffr-1.2.1/cffr/tests/testthat/test-cff_gha_update.R | 5 cffr-1.2.1/cffr/tests/testthat/test-cff_modify.R | 16 cffr-1.2.1/cffr/tests/testthat/test-cff_read.R | 38 cffr-1.2.1/cffr/tests/testthat/test-cff_validate.R | 20 cffr-1.2.1/cffr/tests/testthat/test-cff_write.R | 20 cffr-1.2.1/cffr/tests/testthat/test-cff_write_misc.R | 285 -- cffr-1.2.1/cffr/tests/testthat/test-deprecated.R | 10 cffr-1.2.1/cffr/tests/testthat/test-methods.R | 29 cffr-1.2.1/cffr/tests/testthat/test-mock-package.R | 25 cffr-1.2.1/cffr/tests/testthat/test-utils-alerts.R | 5 cffr-1.2.1/cffr/tests/testthat/test-utils-cff_create.R | 42 cffr-1.2.1/cffr/tests/testthat/test-utils-create.R | 13 cffr-1.2.1/cffr/tests/testthat/test-utils-persons.R | 1 cffr-1.2.1/cffr/tests/testthat/test-utils.R | 1 cffr-1.2.1/cffr/tests/testthat/test-xtra-check-bibtex-ruby.R | 55 cffr-1.2.1/cffr/vignettes/bibtex-cff.Rmd |only cffr-1.2.1/cffr/vignettes/joss-paper.Rmd |only cffr-1.2.1/cffr/vignettes/r-cff.Rmd |only cffr-1.2.1/cffr/vignettes/tweet-1.png |binary 94 files changed, 3891 insertions(+), 3836 deletions(-)
Title: Slide Automation for Tables, Listings and Figures
Description: The normal process of creating clinical study slides is that
a statistician manually type in the numbers from outputs and a
separate statistician to double check the typed in numbers. This
process is time consuming, resource intensive, and error prone.
Automatic slide generation is a solution to address these issues. It
reduces the amount of work and the required time when creating slides,
and reduces the risk of errors from manually typing or copying numbers
from the output to slides. It also helps users to avoid unnecessary
stress when creating large amounts of slide decks in a short time
window.
Author: Joe Zhu [cre, aut] ,
Heng Wang [aut],
Yinqi Zhao [aut],
Bo Ci [aut],
Liming Li [aut],
Laura Wang [ctb],
Xiaoli Duan [aut],
Stefan Pascal Thoma [aut],
Thomas Neitmann [ctb],
Miles Almond [aut],
Mahdi About [ctb],
Kai Lim [ctb],
Nolan Steed [ctb],
Daol [...truncated...]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between autoslider.core versions 0.3.1 dated 2025-09-25 and 0.3.2 dated 2026-01-12
DESCRIPTION | 24 +- MD5 | 24 +- NAMESPACE | 340 +++++++++++++++--------------- NEWS.md | 186 ++++++++-------- R/package.R | 115 +++++----- inst/doc/adding_templates.html | 4 inst/doc/autoslideR.html | 8 inst/doc/generate_placeholder_slides.html | 4 inst/doc/tlg_templates.html | 4 inst/doc/use_LLM.html | 4 inst/doc/using_formats.html | 4 tests/testthat/test-srep_outputs.R | 102 ++++----- tests/testthat/test_ai.R | 4 13 files changed, 415 insertions(+), 408 deletions(-)
More information about autoslider.core at CRAN
Permanent link
Title: Extract Circadian Rhythms Metrics from Actigraphy Data
Description: Circadian rhythms are rhythms that oscillate about every 24 h, which has been observed in multiple physiological processes including core body temperature, hormone secretion, heart rate, blood pressure, and many others. Measuring circadian rhythm with wearables is based on a principle that there is increased movement during wake periods and reduced movement during sleep periods, and has been shown to be reliable and valid. This package can be used to extract nonparametric circadian metrics like intradaily variability (IV), interdaily stability (IS), and relative amplitude (RA); and parametric cosinor model and extended cosinor model coefficient. Details can be found in Junrui Di et al (2019) <doi:10.1007/s12561-019-09236-4>.
Author: Junrui Di [aut, cre],
Vadim zipunnikov [aut],
Vincent van Hees [ctb]
Maintainer: Junrui Di <dijunrui@gmail.com>
Diff between ActCR versions 0.3.0 dated 2022-05-11 and 0.4.0 dated 2026-01-12
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS.md | 26 +++++++++++++++++++------- R/ActCosinor.R | 13 ++++++++++--- R/ActCosinor_long.R | 11 ++++++----- man/ActCosinor.Rd | 2 ++ man/ActCosinor_long.Rd | 3 ++- 8 files changed, 52 insertions(+), 28 deletions(-)
Title: Individual Conditional Expectation Plot Toolbox
Description: Implements Individual Conditional Expectation (ICE) plots, a tool for visualizing the model estimated by any supervised learning algorithm. ICE plots refine Friedman's partial dependence plot by graphing the functional relationship between the predicted response and a covariate of interest for individual observations. Specifically, ICE plots highlight the variation in the fitted values across the range of a covariate of interest, suggesting where and to what extent they may exist.
Author: Alex Goldstein [aut],
Adam Kapelner [aut, cre] ,
Justin Bleich [aut]
Maintainer: Adam Kapelner <kapelner@qc.cuny.edu>
Diff between ICEbox versions 1.1.5 dated 2022-08-22 and 1.2 dated 2026-01-12
CHANGELOG | 98 +++-- DESCRIPTION | 35 + MD5 | 74 ++-- NAMESPACE | 53 ++ R/RcppExports.R |only R/WhiteWine.R |only R/additivityLineup.R |only R/backfitter.R |only R/clusterICE.R | 334 +++++++++++------- R/dice.R | 250 +++++++++++-- R/ice.R | 693 ++++++++++++++++++++++++-------------- R/plot.dice.R | 586 +++++++++++++++++++------------- R/plot.ice.R | 722 ++++++++++++++++++++++++---------------- R/print.dice.R | 18 R/print.ice.R | 18 R/summary.dice.R | 16 R/summary.ice.R | 16 R/zzz.R |only inst/CITATION | 39 +- man/WhiteWine.Rd | 44 +- man/additivityLineup.Rd |only man/backfitter.Rd |only man/clusterICE.Rd | 186 +++++----- man/colSds_cpp.Rd |only man/derivative_cpp.Rd |only man/dice.Rd | 225 ++++++------ man/ice.Rd | 298 +++++++--------- man/melt_ice_curves_cpp.Rd |only man/plot.dice.Rd | 187 +++++----- man/plot.ice.Rd | 279 +++++++-------- man/print.dice.Rd | 36 - man/print.ice.Rd | 36 - man/rowCenter_cpp.Rd |only man/sg_smooth_cpp.Rd |only man/summary.dice.Rd | 37 -- man/summary.ice.Rd | 36 - man/transform_ice_curves_cpp.Rd |only src |only tests |only 39 files changed, 2556 insertions(+), 1760 deletions(-)
Title: The Fill-Mask Association Test
Description: The Fill-Mask Association Test ('FMAT')
<doi:10.1037/pspa0000396>
is an integrative, probability-based social computing method
using Masked Language Models to measure conceptual associations
(e.g., attitudes, biases, stereotypes, social norms, cultural values)
as propositional semantic representations in natural language.
Supported language models include 'BERT'
<doi:10.48550/arXiv.1810.04805> and its variants available at 'Hugging Face'
<https://huggingface.co/models?pipeline_tag=fill-mask>.
Methodological references and installation guidance are provided at
<https://psychbruce.github.io/FMAT/>.
Author: Han Wu Shuang Bao [aut, cre]
Maintainer: Han Wu Shuang Bao <baohws@foxmail.com>
Diff between FMAT versions 2025.12 dated 2025-12-15 and 2026.1 dated 2026-01-12
DESCRIPTION | 14 - MD5 | 24 +-- NAMESPACE | 2 NEWS.md | 13 + R/FMAT.R | 369 +++++++++++++++++++++++++++++++++++-------------- README.md | 90 ++++++----- man/BERT_vocab.Rd | 21 ++ man/FMAT-package.Rd | 2 man/FMAT_run.Rd | 40 +++-- man/ICC_models.Rd | 6 man/LPR_reliability.Rd | 2 man/fill_mask.Rd | 3 man/special_case.Rd |only man/weight_decay.Rd |only 14 files changed, 396 insertions(+), 190 deletions(-)