Title: Sequential Test and Change-Point Detection Algorithms Based on
E-Values / E-Detectors
Description: Algorithms of nonparametric sequential test and online
change-point detection for streams of univariate (sub-)Gaussian, binary,
and bounded random variables, introduced in following publications -
Shin et al. (2024) <doi:10.48550/arXiv.2203.03532>,
Shin et al. (2021) <doi:10.48550/arXiv.2010.08082>.
Author: Jaehyeok Shin [aut, cre]
Maintainer: Jaehyeok Shin <shinjaehyeok@gmail.com>
Diff between stcpR6 versions 0.9.6 dated 2024-04-08 and 0.9.7 dated 2024-09-07
stcpR6-0.9.6/stcpR6/tests/testthat/test-sr_ber.R |only stcpR6-0.9.7/stcpR6/DESCRIPTION | 8 stcpR6-0.9.7/stcpR6/MD5 | 20 - stcpR6-0.9.7/stcpR6/NAMESPACE | 1 stcpR6-0.9.7/stcpR6/NEWS.md | 8 stcpR6-0.9.7/stcpR6/R/compute_baseline.R | 4 stcpR6-0.9.7/stcpR6/R/helper_functions.R | 277 ++++++++++++++++ stcpR6-0.9.7/stcpR6/R/stcp.R | 359 ++++++--------------- stcpR6-0.9.7/stcpR6/README.md | 9 stcpR6-0.9.7/stcpR6/man/Stcp.Rd | 26 - stcpR6-0.9.7/stcpR6/man/checkDeltaRange.Rd |only stcpR6-0.9.7/stcpR6/man/convertDeltaToExpParams.Rd |only stcpR6-0.9.7/stcpR6/tests/testthat/test-glrcu.R |only 13 files changed, 428 insertions(+), 284 deletions(-)
Title: Generalised Linear Mixed Models in R
Description: Specification, analysis, simulation, and fitting of generalised linear mixed models.
Includes Markov Chain Monte Carlo Maximum likelihood and Laplace approximation model fitting for a range of models,
non-linear fixed effect specifications, a wide range of flexible covariance functions that can be combined arbitrarily,
robust and bias-corrected standard error estimation, power calculation, data simulation, and more.
See <https://samuel-watson.github.io/glmmr-web/> for a detailed manual.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
Diff between glmmrBase versions 0.9.2 dated 2024-06-19 and 0.10.5 dated 2024-09-07
DESCRIPTION | 8 - MD5 | 124 +++++++++-------- NAMESPACE | 2 R/R6Model.R | 99 ++++++++++---- R/RcppExports.R | 33 ++++ R/extrafunctions.R | 2 R/quantiledist.R |only R/stanmodels.R | 3 build/partial.rdb |binary inst/cmdstan/mcml_quantile.stan |only inst/include/glmmr/calculator.hpp | 2 inst/include/glmmr/covariance.hpp | 4 inst/include/glmmr/family.hpp | 7 inst/include/glmmr/formula.hpp | 2 inst/include/glmmr/formulaparse.h | 2 inst/include/glmmr/general.h | 12 + inst/include/glmmr/interpreter.h | 233 +++++++++++++++------------------ inst/include/glmmr/linearpredictor.hpp | 4 inst/include/glmmr/maths.h | 86 ++++++++++-- inst/include/glmmr/matrixw.hpp | 12 + inst/include/glmmr/model.hpp | 2 inst/include/glmmr/modelmatrix.hpp | 143 ++++++++++++++++++++ inst/include/glmmr/modelmcmc.hpp | 6 inst/include/glmmr/modeloptim.hpp | 40 ++++- inst/stan/mcml_bernoulli.stan | 4 inst/stan/mcml_quantile.stan |only man/Beta.Rd | 34 ++-- man/Model.Rd | 78 ++++++++--- man/Quantile.Rd |only man/coef.Model.Rd | 38 ++--- man/coef.mcml.Rd | 38 ++--- man/confint.mcml.Rd | 38 ++--- man/cross_df.Rd | 52 +++---- man/cycles.Rd | 34 ++-- man/family.Model.Rd | 40 ++--- man/family.mcml.Rd | 38 ++--- man/fitted.Model.Rd | 44 +++--- man/fitted.mcml.Rd | 40 ++--- man/fixed.effects.Rd | 34 ++-- man/formula.Model.Rd | 40 ++--- man/formula.mcml.Rd | 44 +++--- man/glmmrBase-package.Rd | 6 man/hessian_from_formula.Rd |only man/lme4_to_glmmr.Rd | 60 ++++---- man/logLik.Model.Rd | 38 ++--- man/logLik.mcml.Rd | 50 +++---- man/match_rows.Rd | 64 ++++----- man/mcml_glmer.Rd | 138 +++++++++---------- man/mcml_lmer.Rd | 132 +++++++++--------- man/nest_df.Rd | 54 +++---- man/predict.Model.Rd | 62 ++++---- man/predict.mcml.Rd | 40 ++--- man/progress_bar.Rd | 48 +++--- man/random.effects.Rd | 34 ++-- man/residuals.Model.Rd | 56 +++---- man/residuals.mcml.Rd | 50 +++---- man/setParallel.Rd | 42 ++--- man/summary.Model.Rd | 42 ++--- man/vcov.Model.Rd | 44 +++--- man/vcov.mcml.Rd | 46 +++--- src/RcppExports.cpp | 30 ++++ src/heckman.cpp |only src/model_module.cpp | 10 + src/model_module_extension.cpp | 51 +++++++ src/stanExports_mcml_bernoulli.h | 22 +-- src/stanExports_mcml_quantile.cc |only src/stanExports_mcml_quantile.h |only 67 files changed, 1504 insertions(+), 1037 deletions(-)
Title: Automatically Position Non-Overlapping Text Labels with
'ggplot2'
Description: Provides text and label geoms for 'ggplot2' that help to avoid
overlapping text labels. Labels repel away from each other and away from the
data points.
Author: Kamil Slowikowski [aut, cre] ,
Alicia Schep [ctb] ,
Sean Hughes [ctb] ,
Trung Kien Dang [ctb] ,
Saulius Lukauskas [ctb],
Jean-Olivier Irisson [ctb] ,
Zhian N Kamvar [ctb] ,
Thompson Ryan [ctb] ,
Dervieux Christophe [ctb] ,
Yutani Hiroaki [ctb],
Pierr [...truncated...]
Maintainer: Kamil Slowikowski <kslowikowski@gmail.com>
Diff between ggrepel versions 0.9.5 dated 2024-01-10 and 0.9.6 dated 2024-09-07
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 19 +++++++++++++++++++ R/geom-label-repel.R | 3 --- R/geom-text-repel.R | 3 --- R/utilities.R | 20 ++++++++++++-------- inst/doc/ggrepel.html | 6 +++--- man/ggrepel.Rd | 1 - src/repel_boxes.cpp | 6 ++++++ vignettes/examples.html | 48 ++++++++++++++++++++++++++++++++---------------- 10 files changed, 85 insertions(+), 47 deletions(-)
Title: Datasets and Functions to Accompany Analisis De Datos Con R
Description: Datasets and functions to accompany the book 'Analisis de datos con el programa
estadistico R: una introduccion aplicada' by Salas-Eljatib (2021, ISBN: 9789566086109).
The package helps carry out data management, exploratory analyses, and model fitting.
Author: Christian Salas-Eljatib [aut, cre]
,
Pino Nicolas [ctb] ,
Riquelme Joaquin [ctb]
Maintainer: Christian Salas-Eljatib <cseljatib@gmail.com>
Diff between datana versions 1.0.4 dated 2024-08-26 and 1.0.5 dated 2024-09-07
datana-1.0.4/datana/R/xyBoxplot.R |only datana-1.0.4/datana/R/xyHist.R |only datana-1.0.4/datana/data/fertilizaexpe.rda |only datana-1.0.4/datana/data/fertilizaexpe2.rda |only datana-1.0.4/datana/data/hgrowthDfir.rda |only datana-1.0.4/datana/data/hgrowthDfir2.rda |only datana-1.0.4/datana/data/orange.rda |only datana-1.0.4/datana/data/orange2.rda |only datana-1.0.4/datana/data/treegrowth.rda |only datana-1.0.4/datana/data/treegrowth2.rda |only datana-1.0.4/datana/man/fertilizaexpe.Rd |only datana-1.0.4/datana/man/fertilizaexpe2.Rd |only datana-1.0.4/datana/man/hgrowthDfir.Rd |only datana-1.0.4/datana/man/hgrowthDfir2.Rd |only datana-1.0.4/datana/man/orange.Rd |only datana-1.0.4/datana/man/orange2.Rd |only datana-1.0.4/datana/man/treegrowth.Rd |only datana-1.0.4/datana/man/treegrowth2.Rd |only datana-1.0.4/datana/man/xyBoxplot.Rd |only datana-1.0.4/datana/man/xyHist.Rd |only datana-1.0.5/datana/DESCRIPTION | 10 datana-1.0.5/datana/MD5 | 406 +++++---- datana-1.0.5/datana/NAMESPACE | 4 datana-1.0.5/datana/R/cdf.R |only datana-1.0.5/datana/R/contrast.R |only datana-1.0.5/datana/R/deleteRight.R |only datana-1.0.5/datana/R/describe_datas.R | 861 +++++++++++---------- datana-1.0.5/datana/R/descstat.R | 39 datana-1.0.5/datana/R/findColumn.byname.R |only datana-1.0.5/datana/R/gmean.R |only datana-1.0.5/datana/R/kurto.R |only datana-1.0.5/datana/R/lrt.R |only datana-1.0.5/datana/R/moda.R |only datana-1.0.5/datana/R/pvalt.R |only datana-1.0.5/datana/R/pvalz.R |only datana-1.0.5/datana/R/skew.R |only datana-1.0.5/datana/R/timeserplot.R |only datana-1.0.5/datana/R/xyboxplot.R |only datana-1.0.5/datana/R/xyhist.R |only datana-1.0.5/datana/R/xymultiplot.R |only datana-1.0.5/datana/build/partial.rdb |binary datana-1.0.5/datana/data/aboutrsq.rda |binary datana-1.0.5/datana/data/aboutrsq2.rda |binary datana-1.0.5/datana/data/airnyc.rda |binary datana-1.0.5/datana/data/airnyc2.rda |binary datana-1.0.5/datana/data/annualppCities.rda |binary datana-1.0.5/datana/data/annualppCities2.rda |binary datana-1.0.5/datana/data/araucaria.rda |binary datana-1.0.5/datana/data/araucaria2.rda |binary datana-1.0.5/datana/data/baiTreelines.rda |binary datana-1.0.5/datana/data/baiTreelines2.rda |binary datana-1.0.5/datana/data/bears.rda |binary datana-1.0.5/datana/data/bears2.rda |binary datana-1.0.5/datana/data/bearsDepu.rda |binary datana-1.0.5/datana/data/bearsDepu2.rda |binary datana-1.0.5/datana/data/beetles.rda |binary datana-1.0.5/datana/data/beetles2.rda |binary datana-1.0.5/datana/data/biomass.rda |binary datana-1.0.5/datana/data/biomass2.rda |binary datana-1.0.5/datana/data/carbohydrateTreelines.rda |binary datana-1.0.5/datana/data/chicksw.rda |binary datana-1.0.5/datana/data/corkoak.rda |binary datana-1.0.5/datana/data/corkoak2.rda |binary datana-1.0.5/datana/data/crown.rda |binary datana-1.0.5/datana/data/crown2.rda |binary datana-1.0.5/datana/data/deadForestCA.rda |binary datana-1.0.5/datana/data/deadForestCA2.rda |binary datana-1.0.5/datana/data/deadLianas.rda |binary datana-1.0.5/datana/data/deadLianas2.rda |binary datana-1.0.5/datana/data/demograph.rda |binary datana-1.0.5/datana/data/election.rda |binary datana-1.0.5/datana/data/election2.rda |binary datana-1.0.5/datana/data/eucaleaf.rda |binary datana-1.0.5/datana/data/eucaleaf2.rda |binary datana-1.0.5/datana/data/eucaleafAll.rda |binary datana-1.0.5/datana/data/eucaleafAll2.rda |binary datana-1.0.5/datana/data/eucaplot.rda |binary datana-1.0.5/datana/data/eucaplot2.rda |binary datana-1.0.5/datana/data/fertiliza.rda |only datana-1.0.5/datana/data/fertiliza2.rda |only datana-1.0.5/datana/data/ficdiamgr.rda |only datana-1.0.5/datana/data/ficdiamgr2.rda |only datana-1.0.5/datana/data/fishgrowth.rda |binary datana-1.0.5/datana/data/fishgrowth2.rda |binary datana-1.0.5/datana/data/floraChile.rda |binary datana-1.0.5/datana/data/floraChile2.rda |binary datana-1.0.5/datana/data/football.rda |binary datana-1.0.5/datana/data/football2.rda |binary datana-1.0.5/datana/data/forestFire.rda |binary datana-1.0.5/datana/data/forestFire2.rda |binary datana-1.0.5/datana/data/forestHawaii.rda |binary datana-1.0.5/datana/data/hawaii.rda |binary datana-1.0.5/datana/data/hawaii2.rda |binary datana-1.0.5/datana/data/hgrdfir.rda |only datana-1.0.5/datana/data/hgrdfir2.rda |only datana-1.0.5/datana/data/idahohd.rda |binary datana-1.0.5/datana/data/idahohd2.rda |binary datana-1.0.5/datana/data/invasivesRCI.rda |binary datana-1.0.5/datana/data/landCoverSantiago.rda |binary datana-1.0.5/datana/data/landCoverSantiago2.rda |binary datana-1.0.5/datana/data/lleuque.rda |binary datana-1.0.5/datana/data/pinaster.rda |binary datana-1.0.5/datana/data/pinaster2.rda |binary datana-1.0.5/datana/data/pinusContorta.rda |binary datana-1.0.5/datana/data/pinusContorta2.rda |binary datana-1.0.5/datana/data/pinusSpp.rda |binary datana-1.0.5/datana/data/pinusSpp2.rda |binary datana-1.0.5/datana/data/plantsHawaii.rda |binary datana-1.0.5/datana/data/presenceIce.rda |binary datana-1.0.5/datana/data/presidentChile.rda |binary datana-1.0.5/datana/data/presidentChile2.rda |binary datana-1.0.5/datana/data/primary.rda |binary datana-1.0.5/datana/data/primary2.rda |binary datana-1.0.5/datana/data/pspLlancahue.rda |binary datana-1.0.5/datana/data/pspLlancahue2.rda |binary datana-1.0.5/datana/data/pspRuca.rda |binary datana-1.0.5/datana/data/pspRuca2.rda |binary datana-1.0.5/datana/data/ptaeda.rda |binary datana-1.0.5/datana/data/ptaeda2.rda |only datana-1.0.5/datana/data/radiatapl.rda |binary datana-1.0.5/datana/data/radiatapl2.rda |only datana-1.0.5/datana/data/raulihg.rda |binary datana-1.0.5/datana/data/raulihg2.rda |binary datana-1.0.5/datana/data/regNothofagus.rda |binary datana-1.0.5/datana/data/simula.rda |binary datana-1.0.5/datana/data/slashpine.rda |binary datana-1.0.5/datana/data/slashpine2.rda |binary datana-1.0.5/datana/data/sludge.rda |binary datana-1.0.5/datana/data/snaspeChile.rda |binary datana-1.0.5/datana/data/snaspeChile2.rda |binary datana-1.0.5/datana/data/soiltreat.rda |binary datana-1.0.5/datana/data/soiltreat2.rda |binary datana-1.0.5/datana/data/spatAustria.rda |binary datana-1.0.5/datana/data/speciesList.rda |binary datana-1.0.5/datana/data/sppAbundance.rda |binary datana-1.0.5/datana/data/sppTraits.rda |binary datana-1.0.5/datana/data/standLleuque.rda |binary datana-1.0.5/datana/data/standLleuque2.rda |binary datana-1.0.5/datana/data/trailCameraTrap.rda |binary datana-1.0.5/datana/data/traits.rda |binary datana-1.0.5/datana/data/traits2.rda |binary datana-1.0.5/datana/data/treegr.rda |only datana-1.0.5/datana/data/treegr2.rda |only datana-1.0.5/datana/data/treelistinve.rda |binary datana-1.0.5/datana/data/treelistinve2.rda |binary datana-1.0.5/datana/data/treevol.rda |binary datana-1.0.5/datana/data/treevol2.rda |binary datana-1.0.5/datana/data/treevolroble.rda |binary datana-1.0.5/datana/data/treevolroble2.rda |binary datana-1.0.5/datana/data/treevolruca.rda |binary datana-1.0.5/datana/data/treevolruca2.rda |binary datana-1.0.5/datana/inst/CITATION | 4 datana-1.0.5/datana/man/aboutrsq2.Rd | 8 datana-1.0.5/datana/man/airnyc2.Rd | 2 datana-1.0.5/datana/man/araucaria.Rd | 2 datana-1.0.5/datana/man/araucaria2.Rd | 4 datana-1.0.5/datana/man/bears.Rd | 35 datana-1.0.5/datana/man/bears2.Rd | 40 datana-1.0.5/datana/man/bearsDepu.Rd | 37 datana-1.0.5/datana/man/bearsDepu2.Rd | 40 datana-1.0.5/datana/man/beetles.Rd | 2 datana-1.0.5/datana/man/beetles2.Rd | 6 datana-1.0.5/datana/man/biomass2.Rd | 2 datana-1.0.5/datana/man/cdf.Rd |only datana-1.0.5/datana/man/chicksw.Rd | 8 datana-1.0.5/datana/man/contrast.Rd |only datana-1.0.5/datana/man/corkoak.Rd | 2 datana-1.0.5/datana/man/corkoak2.Rd | 2 datana-1.0.5/datana/man/crown.Rd | 6 datana-1.0.5/datana/man/crown2.Rd | 4 datana-1.0.5/datana/man/datana-package.Rd | 7 datana-1.0.5/datana/man/deadForestCA2.Rd | 10 datana-1.0.5/datana/man/deadLianas2.Rd | 26 datana-1.0.5/datana/man/deleteRight.Rd |only datana-1.0.5/datana/man/demograph.Rd | 2 datana-1.0.5/datana/man/descstat.Rd | 23 datana-1.0.5/datana/man/election.Rd | 4 datana-1.0.5/datana/man/election2.Rd | 12 datana-1.0.5/datana/man/eucaleaf2.Rd | 2 datana-1.0.5/datana/man/eucaleafAll2.Rd | 4 datana-1.0.5/datana/man/eucaplot.Rd | 2 datana-1.0.5/datana/man/eucaplot2.Rd | 22 datana-1.0.5/datana/man/fertiliza.Rd |only datana-1.0.5/datana/man/fertiliza2.Rd |only datana-1.0.5/datana/man/ficdiamgr.Rd |only datana-1.0.5/datana/man/ficdiamgr2.Rd |only datana-1.0.5/datana/man/findColumn.byname.Rd |only datana-1.0.5/datana/man/floraChile.Rd | 2 datana-1.0.5/datana/man/floraChile2.Rd | 2 datana-1.0.5/datana/man/gmean.Rd |only datana-1.0.5/datana/man/hawaii.Rd | 2 datana-1.0.5/datana/man/hawaii2.Rd | 8 datana-1.0.5/datana/man/hgrdfir.Rd |only datana-1.0.5/datana/man/hgrdfir2.Rd |only datana-1.0.5/datana/man/idahohd.Rd | 15 datana-1.0.5/datana/man/idahohd2.Rd | 24 datana-1.0.5/datana/man/kurto.Rd |only datana-1.0.5/datana/man/lrt.Rd |only datana-1.0.5/datana/man/moda.Rd |only datana-1.0.5/datana/man/pinaster.Rd | 8 datana-1.0.5/datana/man/pinaster2.Rd | 18 datana-1.0.5/datana/man/pinusContorta2.Rd | 6 datana-1.0.5/datana/man/pinusSpp.Rd | 2 datana-1.0.5/datana/man/pinusSpp2.Rd | 8 datana-1.0.5/datana/man/presidentChile2.Rd | 6 datana-1.0.5/datana/man/primary.Rd | 2 datana-1.0.5/datana/man/primary2.Rd | 4 datana-1.0.5/datana/man/pspLlancahue.Rd | 6 datana-1.0.5/datana/man/pspLlancahue2.Rd | 23 datana-1.0.5/datana/man/pspRuca.Rd | 16 datana-1.0.5/datana/man/pspRuca2.Rd | 25 datana-1.0.5/datana/man/ptaeda.Rd | 13 datana-1.0.5/datana/man/ptaeda2.Rd |only datana-1.0.5/datana/man/pvalt.Rd |only datana-1.0.5/datana/man/pvalz.Rd |only datana-1.0.5/datana/man/radiatapl.Rd | 2 datana-1.0.5/datana/man/radiatapl2.Rd |only datana-1.0.5/datana/man/raulihg.Rd | 13 datana-1.0.5/datana/man/raulihg2.Rd | 14 datana-1.0.5/datana/man/skew.Rd |only datana-1.0.5/datana/man/slashpine2.Rd | 10 datana-1.0.5/datana/man/sludge.Rd | 2 datana-1.0.5/datana/man/snaspeChile2.Rd | 4 datana-1.0.5/datana/man/soiltreat.Rd | 2 datana-1.0.5/datana/man/sppTraits.Rd | 2 datana-1.0.5/datana/man/standLleuque2.Rd | 2 datana-1.0.5/datana/man/timeserplot.Rd |only datana-1.0.5/datana/man/treegr.Rd |only datana-1.0.5/datana/man/treegr2.Rd |only datana-1.0.5/datana/man/treelistinve.Rd | 2 datana-1.0.5/datana/man/treelistinve2.Rd | 14 datana-1.0.5/datana/man/treevol.Rd | 14 datana-1.0.5/datana/man/treevolroble.Rd | 6 datana-1.0.5/datana/man/treevolroble2.Rd | 14 datana-1.0.5/datana/man/treevolruca.Rd | 6 datana-1.0.5/datana/man/treevolruca2.Rd | 8 datana-1.0.5/datana/man/xyboxplot.Rd |only datana-1.0.5/datana/man/xyhist.Rd |only datana-1.0.5/datana/man/xymultiplot.Rd |only 239 files changed, 1023 insertions(+), 920 deletions(-)
Title: Parametric Linkage Analysis
Description: Parametric linkage analysis of monogenic traits in medical
pedigrees. Features include singlepoint analysis, multipoint analysis
via 'MERLIN' (Abecasis et al. (2002) <doi:10.1038/ng786>),
visualisation of log of the odds (LOD) scores and summaries of linkage
peaks. Disease models may be specified to accommodate phenocopies,
reduced penetrance and liability classes. 'paramlink2' is part of the
'pedsuite' package ecosystem, presented in 'Pedigree Analysis in R'
(Vigeland, 2021, ISBN:9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between paramlink2 versions 1.0.4 dated 2023-02-11 and 1.0.6 dated 2024-09-07
paramlink2-1.0.4/paramlink2/man/paramlink2.Rd |only paramlink2-1.0.6/paramlink2/DESCRIPTION | 10 ++-- paramlink2-1.0.6/paramlink2/MD5 | 24 +++++----- paramlink2-1.0.6/paramlink2/NEWS.md | 5 ++ paramlink2-1.0.6/paramlink2/R/data.R | 9 ++- paramlink2-1.0.6/paramlink2/R/paramlink2-package.R | 18 ++----- paramlink2-1.0.6/paramlink2/README.md | 18 +++---- paramlink2-1.0.6/paramlink2/build/partial.rdb |binary paramlink2-1.0.6/paramlink2/inst/WORDLIST | 3 + paramlink2-1.0.6/paramlink2/man/dominant1.Rd | 9 ++- paramlink2-1.0.6/paramlink2/man/figures/README-dominant1Ped-1.png |binary paramlink2-1.0.6/paramlink2/man/figures/README-multiLodGraph-1.png |binary paramlink2-1.0.6/paramlink2/man/figures/README-singleLodGraph-1.png |binary paramlink2-1.0.6/paramlink2/man/paramlink2-package.Rd |only 14 files changed, 51 insertions(+), 45 deletions(-)
Title: Provides Test Functions for Multivariate Integration
Description: Provides implementations of functions that can be used to
test multivariate integration routines. The package covers six
different integration domains (unit hypercube, unit ball, unit sphere,
standard simplex, non-negative real numbers and R^n). For each domain
several functions with different properties (smooth,
non-differentiable, ...) are available. The functions are available in
all dimensions n >= 1. For each function the exact value of the
integral is known and implemented to allow testing the accuracy of
multivariate integration routines. Details on the available test
functions can be found at on the development website.
Author: Klaus Herrmann [aut, cre]
Maintainer: Klaus Herrmann <klaus.herrmann@usherbrooke.ca>
Diff between multIntTestFunc versions 0.2.0 dated 2023-04-19 and 0.3.0 dated 2024-09-07
DESCRIPTION | 18 - MD5 | 32 +- NAMESPACE | 8 R/unitCube_BFN1.R |only R/unitCube_BFN2.R |only R/unitCube_BFN3.R |only R/unitCube_BFN4.R | 2 R/unitCube_Genz1.R |only build/vignette.rds |binary inst/doc/Integration_Test_Rn.html | 340 ++++++++++++++++++--- inst/doc/MC_Integration_Test_Unit_Hypercube.html | 360 +++++++++++++++++++---- man/domainCheck.Rd | 17 - man/evaluate.Rd | 17 - man/exactIntegral.Rd | 17 - man/getIntegrationDomain.Rd | 17 - man/getReferences.Rd | 17 - man/getTags.Rd | 17 - man/unitCube_BFN1-class.Rd |only man/unitCube_BFN2-class.Rd |only man/unitCube_BFN3-class.Rd |only man/unitCube_Genz1-class.Rd |only 21 files changed, 715 insertions(+), 147 deletions(-)
More information about multIntTestFunc at CRAN
Permanent link
Title: Bayesian Linear Mixed-Effects Models
Description: Maximum a posteriori estimation for linear and generalized linear mixed-effects models in a Bayesian setting, implementing the methods of Chung, et al. (2013) <doi:10.1007/s11336-013-9328-2>. Extends package 'lme4' (Bates, Maechler, Bolker, and Walker (2015) <doi:10.18637/jss.v067.i01>).
Author: Vincent Dorie [aut, cre] ,
Douglas Bates [ctb] ,
Martin Maechler [ctb] ,
Ben Bolker [ctb] ,
Steven Walker [ctb]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between blme versions 1.0-5 dated 2021-01-05 and 1.0-6 dated 2024-09-07
ChangeLog | 8 ++++ DESCRIPTION | 8 ++-- MD5 | 17 ++++----- R/dist.R | 66 ++++++++++++++++++++++------------- man/blmer.Rd | 2 - man/bmerDist-class.Rd | 2 - man/bmerMod-class.Rd | 4 +- tests/testthat/test-07-lmm_fixef.R | 1 tests/testthat/test-09-glmm_priors.R | 13 ++++++ tests/testthat/test-11-prior_parse.R |only 10 files changed, 82 insertions(+), 39 deletions(-)
Title: Data Manipulation Functions Implemented in C
Description: Basic functions, implemented in C, for large data manipulation. Fast vectorised ifelse()/nested if()/switch() functions, psum()/pprod() functions equivalent to pmin()/pmax() plus others which are missing from base R. Most of these functions are callable at C level.
Author: Morgan Jacob [aut, cre, cph],
Sebastian Krantz [ctb]
Maintainer: Morgan Jacob <morgan.emailbox@gmail.com>
Diff between kit versions 0.0.18 dated 2024-06-10 and 0.0.19 dated 2024-09-07
DESCRIPTION | 8 +++--- MD5 | 24 +++++++++--------- R/call.R | 2 - inst/NEWS.Rd | 8 ++++++ src/dup.c | 74 +++++++++++++++++++++++++++++----------------------------- src/dupLen.c | 26 ++++++++++---------- src/iif.c | 14 +++++----- src/nswitch.c | 44 +++++++++++++++++----------------- src/psort.c | 36 ++++++++++++++-------------- src/psum.c | 10 +++---- src/share.c | 20 +++++++-------- src/utils.c | 19 +++++++------- src/vswitch.c | 64 +++++++++++++++++++++++++------------------------- 13 files changed, 178 insertions(+), 171 deletions(-)
Title: Dependencies for the 'jamovi' Framework
Description: A framework for creating rich interactive analyses for the jamovi
platform (see <https://www.jamovi.org> for more information).
Author: Jonathon Love [aut, cre, cph]
Maintainer: Jonathon Love <jon@thon.cc>
Diff between jmvcore versions 2.4.7 dated 2023-08-15 and 2.6.3 dated 2024-09-07
DESCRIPTION | 14 +++++++------- MD5 | 32 ++++++++++++++++---------------- R/action.R | 4 ++-- R/analysis.R | 20 +++++--------------- R/array.R | 9 ++++----- R/cell.R | 6 +----- R/column.R | 2 -- R/group.R | 8 +++----- R/html.R | 4 ++-- R/image.R | 4 ++-- R/notice.R | 4 ++-- R/options.R | 31 ++++++++++++++++++------------- R/output.R | 4 ++-- R/preformatted.R | 6 +++--- R/results.R | 6 ++++-- R/table.R | 9 ++------- R/utils.R | 14 -------------- 17 files changed, 73 insertions(+), 104 deletions(-)
Title: Weighted BACON Algorithms
Description: The BACON algorithms are methods for multivariate outlier
nomination (detection) and robust linear regression by Billor, Hadi,
and Velleman (2000) <doi:10.1016/S0167-9473(99)00101-2>. The extension
to weighted problems is due to Beguin and Hulliger (2008)
<https://www150.statcan.gc.ca/n1/en/catalogue/12-001-X200800110616>; see
also <doi:10.21105/joss.03238>.
Author: Tobias Schoch [aut, cre] ,
R-core [cph]
Maintainer: Tobias Schoch <tobias.schoch@gmail.com>
Diff between wbacon versions 0.6-1 dated 2024-02-08 and 0.6-2 dated 2024-09-07
.Rinstignore | 4 +--- DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 9 +++++++++ inst/doc/doc_c_functions.pdf |binary inst/doc/methods.pdf |binary inst/doc/wbacon.html | 14 +++++++------- src/wbacon.c | 24 ++++++++++++------------ src/wbacon_reg.c | 32 ++++++++++++++++---------------- src/wquantile.c | 6 +++--- 12 files changed, 61 insertions(+), 54 deletions(-)
Title: Geographically-Weighted Models
Description: Techniques from a particular branch of spatial statistics,termed geographically-weighted (GW) models. GW models suit situations when data are not described well by some global model, but where there are spatial regions where a suitably localised calibration provides a better description. 'GWmodel' includes functions to calibrate: GW summary statistics (Brunsdon et al., 2002)<doi: 10.1016/s0198-9715(01)00009-6>, GW principal components analysis (Harris et al., 2011)<doi: 10.1080/13658816.2011.554838>, GW discriminant analysis (Brunsdon et al., 2007)<doi: 10.1111/j.1538-4632.2007.00709.x> and various forms of GW regression (Brunsdon et al., 1996)<doi: 10.1111/j.1538-4632.1996.tb00936.x>; some of which are provided in basic and robust (outlier resistant) forms.
Author: Binbin Lu [aut, cre],
Paul Harris [aut],
Martin Charlton [aut],
Chris Brunsdon [aut],
Tomoki Nakaya [aut],
Daisuke Murakami [ctb],
Yigong Hu [ctb],
Fiona H Evans [ctb],
Hjalmar H<c3><b6>glund [ctb]
Maintainer: Binbin Lu <binbinlu@whu.edu.cn>
Diff between GWmodel versions 2.3-3 dated 2024-07-29 and 2.4-1 dated 2024-09-07
DESCRIPTION | 8 +-- MD5 | 108 ++++++++++++++++++++++----------------------- R/BootstrapGWR.r | 48 +++++++++++++++----- R/GeneralizedGWR.r | 95 ++++++++++++++++++++++++++++++--------- R/Model.selection.r | 14 ++++- R/MontCarlo.r | 22 +++++++-- R/bw.ggwr.r | 16 +++++- R/bw.gtwr.R | 16 +++++- R/bw.gwda.r | 18 +++++-- R/bw.sel.r | 16 +++++- R/collinearity.r | 73 ++++++++++++++++++++++++++---- R/gtwr.R | 57 +++++++++++++++++++---- R/gwda.r | 41 +++++++++++++++-- R/gwpca.mc.r | 40 +++++++++++----- R/gwpca.r | 75 +++++++++++++++++++++++++------ R/gwpca.visualization.r | 8 ++- R/gwr.basic.r | 97 ++++++++++++++++++++++++++++++---------- R/gwr.collin.diagno.r | 34 ++++++++++---- R/gwr.hetero.r | 49 +++++++++++++++++--- R/gwr.mixed.r | 47 +++++++++++++------ R/gwr.multiscale.R | 22 +++++++-- R/gwr.predict.r | 34 ++++++++++++-- R/gwr.scalable.r | 25 ++++++++-- R/gwr.t.adjust.r | 13 ++++- R/mink.pvals.R | 27 ++++++++++- R/minkovski.approach.r | 18 ++++++- R/writeGWR.r | 10 +++- R/zzz.r | 2 build/partial.rdb |binary man/GWmodel-package.Rd | 12 ++++- man/bw.ggwr.Rd | 2 man/bw.gtwr.Rd | 2 man/bw.gwda.rd | 2 man/bw.gwpca.rd | 2 man/bw.gwr.Rd | 2 man/bw.gwr.lcr.rd | 2 man/ggwr.basic.Rd | 7 +- man/gtwr.Rd | 6 +- man/gw.pcplot.rd | 2 man/gwda.rd | 4 - man/gwpca.rd | 5 +- man/gwr.basic.rd | 7 +- man/gwr.bootstrap.rd | 7 +- man/gwr.collin.diagno.Rd | 7 +- man/gwr.hetero.rd | 7 +- man/gwr.lcr.rd | 7 +- man/gwr.mink.approach.rd | 2 man/gwr.mixed.rd | 7 +- man/gwr.model.selection.Rd | 2 man/gwr.montecarlo.Rd | 2 man/gwr.multiscale.rd | 8 ++- man/gwr.predict.Rd | 8 ++- man/gwr.robust.Rd | 8 ++- man/gwr.scalable.rd | 7 +- man/gwss.montecarlo.Rd | 2 55 files changed, 865 insertions(+), 297 deletions(-)
Title: Calculate and Map Distances Between Phylogenetic Trees
Description: Implements measures of tree similarity, including
information-based generalized Robinson-Foulds distances
(Phylogenetic Information Distance, Clustering Information Distance,
Matching Split Information Distance; Smith 2020)
<doi:10.1093/bioinformatics/btaa614>;
Jaccard-Robinson-Foulds distances (Bocker et al. 2013)
<doi:10.1007/978-3-642-40453-5_13>,
including the Nye et al. (2006) metric <doi:10.1093/bioinformatics/bti720>;
the Matching Split Distance (Bogdanowicz & Giaro 2012)
<doi:10.1109/TCBB.2011.48>;
Maximum Agreement Subtree distances;
the Kendall-Colijn (2016) distance <doi:10.1093/molbev/msw124>, and the
Nearest Neighbour Interchange (NNI) distance, approximated per Li et al.
(1996) <doi:10.1007/3-540-61332-3_168>.
Includes tools for visualizing mappings of tree space (Smith 2022)
<doi:10.1093/sysbio/syab100>,
for identifying islands of trees (Silva and Wilkinson 2021)
<doi:10.1093/sysbio/syab015>,
for calculating the median [...truncated...]
Author: Martin R. Smith [aut, cre, cph, prg]
,
Roy Jonker [prg, cph],
Yong Yang [ctb, cph],
Yi Cao [ctb, cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeDist versions 2.9.0 dated 2024-09-03 and 2.9.1 dated 2024-09-07
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 5 build/partial.rdb |binary inst/WORDLIST | 281 +++++++++++++++--------------- inst/doc/Using-TreeDist.html | 6 tests/testthat/test-spectral_clustering.R | 23 +- 7 files changed, 170 insertions(+), 163 deletions(-)
Title: A Calculator for Single-Case Effect Sizes
Description: Provides R functions for calculating basic effect size indices for
single-case designs, including several non-overlap measures and parametric
effect size measures, and for estimating the gradual effects model developed
by Swan and Pustejovsky (2018) <DOI:10.1080/00273171.2018.1466681>.
Standard errors and confidence intervals (based on the assumption that the outcome
measurements are mutually independent) are provided for the subset of effect sizes
indices with known sampling distributions.
Author: James E. Pustejovsky [aut, cre],
Man Chen [aut],
Daniel M. Swan [aut],
Paulina Grekov [ctb]
Maintainer: James E. Pustejovsky <jepusto@gmail.com>
Diff between SingleCaseES versions 0.7.2 dated 2023-08-12 and 0.7.3 dated 2024-09-07
SingleCaseES-0.7.2/SingleCaseES/tests/spelling.R |only SingleCaseES-0.7.2/SingleCaseES/tests/spelling.Rout.save |only SingleCaseES-0.7.3/SingleCaseES/DESCRIPTION | 16 - SingleCaseES-0.7.3/SingleCaseES/MD5 | 42 +-- SingleCaseES-0.7.3/SingleCaseES/NAMESPACE | 1 SingleCaseES-0.7.3/SingleCaseES/NEWS.md | 8 SingleCaseES-0.7.3/SingleCaseES/R/calculate-effect-sizes.R | 61 ++--- SingleCaseES-0.7.3/SingleCaseES/R/non-overlap-measures.R | 2 SingleCaseES-0.7.3/SingleCaseES/inst/WORDLIST | 2 SingleCaseES-0.7.3/SingleCaseES/inst/doc/Effect-size-definitions.html | 6 SingleCaseES-0.7.3/SingleCaseES/inst/doc/Using-SingleCaseES.Rmd | 4 SingleCaseES-0.7.3/SingleCaseES/inst/doc/Using-SingleCaseES.html | 12 - SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/code-chunks/bcalc-aggregate-inputdata.R | 44 +-- SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/code-chunks/bcalc-noaggregate-inputdata.R | 38 +-- SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/code-chunks/dat-clean.R | 4 SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/code-chunks/load-data.R | 10 SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/code-chunks/load-excel.R | 2 SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/mappings.R | 1 SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/markdown/About.md | 6 SingleCaseES-0.7.3/SingleCaseES/inst/shiny-examples/SCD-effect-sizes/server.R | 118 ++++++---- SingleCaseES-0.7.3/SingleCaseES/man/NAP.Rd | 2 SingleCaseES-0.7.3/SingleCaseES/tests/testthat/test-SCD-effect-sizes.R | 2 SingleCaseES-0.7.3/SingleCaseES/vignettes/Using-SingleCaseES.Rmd | 4 23 files changed, 217 insertions(+), 168 deletions(-)
Title: Alternative Meta-Analysis Methods
Description: Provides alternative statistical methods for meta-analysis, including:
- bivariate generalized linear mixed models for synthesizing odds ratios, relative risks,
and risk differences
(Chu et al., 2012 <doi:10.1177/0962280210393712>)
- heterogeneity tests and measures and penalization methods that are robust to outliers
(Lin et al., 2017 <doi:10.1111/biom.12543>;
Wang et al., 2022 <doi:10.1002/sim.9261>);
- measures, tests, and visualization tools for publication bias or small-study effects
(Lin and Chu, 2018 <doi:10.1111/biom.12817>;
Lin, 2019 <doi:10.1002/jrsm.1340>;
Lin, 2020 <doi:10.1177/0962280220910172>;
Shi et al., 2020 <doi:10.1002/jrsm.1415>);
- meta-analysis of combining standardized mean differences and odds ratios
(Jing et al., 2023 <doi:10.1080/10543406.2022.2105345>);
- meta-analysis of diagnostic tests for synthesizing sensitivities, specificities, etc.
(Reitsma et al., 2005 <doi:10.1016/j.jclinepi.2005.02.022>;
Chu and [...truncated...]
Author: Lifeng Lin [aut, cre] ,
Yaqi Jing [ctb],
Kristine J. Rosenberger [ctb],
Linyu Shi [ctb],
Yipeng Wang [ctb],
Haitao Chu [aut]
Maintainer: Lifeng Lin <lifenglin@arizona.edu>
Diff between altmeta versions 4.1 dated 2022-08-29 and 4.2 dated 2024-09-07
DESCRIPTION | 12 ++++++++---- MD5 | 15 ++++++++++----- NAMESPACE | 2 +- R/meta.or.smd.R |only R/meta.or.smd.model.R |only R/nma.icdf.R | 30 +++++++++++++----------------- build/partial.rdb |binary data/dat.dep.rda |only man/dat.dep.Rd |only man/meta.or.smd.Rd |only man/nma.icdf.Rd | 2 +- 11 files changed, 33 insertions(+), 28 deletions(-)
Title: Bayesian Age-Depth Modelling of Cores Dated by Pb-210
Description: An approach to age-depth modelling that uses Bayesian statistics to reconstruct accumulation histories for 210Pb-dated deposits using prior information. It can combine 210Pb, radiocarbon, and other dates in the chronologies. See Aquino et al. (2018) <doi:10.1007/s13253-018-0328-7>. Note that parts of the code underlying 'rplum' are derived from the 'rbacon' package by the same authors, and there remains a degree of overlap between the two packages.
Author: Maarten Blaauw [aut, cre] ,
J. Andres Christen [aut, ctb, cph]
,
Marco A. Aquino Lopez [aut] ,
Judith Esquivel Vazquez [ctb],
Oscar M. Gonzalez V. [ctb],
Ted Belding [cph],
James Theiler [cph],
Brian Gough [cph],
Charles Karney [cph]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rplum versions 0.4.0 dated 2023-12-01 and 0.5.0 dated 2024-09-07
DESCRIPTION | 12 +++---- MD5 | 22 +++++++------- NAMESPACE | 1 NEWS.md | 6 +++ R/read_write_plum.R | 80 +++++++++++++++++++++++++++++----------------------- R/rplum-package.R | 2 - R/rplum.R | 78 ++++++++++++++++++++++++++++++++++++++++---------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/rplum.html | 4 +- man/Plum.Rd | 30 +++++++++++++++---- man/rplum.Rd | 2 - 12 files changed, 159 insertions(+), 78 deletions(-)
Title: Graph Community Detection Methods into Systematic Conservation
Planning
Description: An innovative tool-set that incorporates graph community detection
methods into systematic conservation planning. It is designed to
enhance spatial prioritization by focusing on the protection of
areas with high ecological connectivity. Unlike traditional
approaches that prioritize individual planning units, 'priorCON'
focuses on clusters of features that exhibit strong ecological
linkages. The 'priorCON' package is built upon the 'prioritizr'
package <doi:10.32614/CRAN.package.prioritizr>, using commercial
and open-source exact algorithm solvers that ensure optimal
solutions to prioritization problems.
Author: Christos Adam [aut, cre],
Nikolaos Nagkoulis [aut],
Aggeliki Doxa [aut]
Maintainer: Christos Adam <econp266@econ.soc.uoc.gr>
Diff between priorCON versions 0.1.0 dated 2024-08-19 and 0.1.1 dated 2024-09-07
DESCRIPTION | 8 ++-- MD5 | 36 ++++++++++++--------- NAMESPACE | 11 ++++-- NEWS.md | 17 +++++++++- R/functions_connect.R | 6 ++- README.md | 48 +++++++++++++++++----------- inst/doc/Introduction.R | 3 + inst/doc/Introduction.Rmd | 33 ++++++++++++------- inst/doc/Introduction.html | 28 ++++++++-------- man/basic_scenario.Rd | 24 +++++++------- man/connectivity_scenario.Rd | 26 ++++++++------- man/figures/basic_output.png |only man/figures/connectivity_output.png |only man/figures/cost_raster.png |only man/figures/features.png |only man/figures/priorCON_fig2.png |only man/figures/priorCON_flowchart.png |only man/get_metrics.Rd | 20 ++++++----- man/get_outputs.Rd | 23 +++++++------ man/preprocess_graphs.Rd | 10 ++--- tests/testthat/test-get_metrics.r | 61 ++++++++++++++++++++++++++---------- vignettes/Introduction.Rmd | 33 ++++++++++++------- 22 files changed, 243 insertions(+), 144 deletions(-)
Title: Programming with Big Data -- Interface to 'ZeroMQ'
Description: 'ZeroMQ' is a well-known library for high-performance
asynchronous messaging in scalable, distributed applications. This
package provides high level R wrapper functions to easily utilize
'ZeroMQ'. We mainly focus on interactive client/server programming
frameworks. For convenience, a minimal 'ZeroMQ' library (4.2.2)
is shipped with 'pbdZMQ', which can be used if no system installation
of 'ZeroMQ' is available. A few wrapper functions compatible with
'rzmq' are also provided.
Author: Wei-Chen Chen [aut, cre],
Drew Schmidt [aut],
Christian Heckendorf [aut] ,
George Ostrouchov [aut] ,
Whit Armstrong [ctb] ,
Brian Ripley [ctb] ,
R Core team [ctb] ,
Philipp A. [ctb] ,
Elliott Sales de Andrade [ctb] ,
Spencer Aiello [ctb] ,
Paul Andre [...truncated...]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between pbdZMQ versions 0.3-11 dated 2024-01-15 and 0.3-12 dated 2024-09-07
ChangeLog | 3 +++ DESCRIPTION | 15 ++++++++------- MD5 | 12 ++++++------ R/shellexec_wcc.r | 13 ++++++++++++- src/R_zmq_sendrecv.c | 4 ++-- src/shellexec_wcc.c | 17 ++++++++++++++--- src/zzz.c | 4 ++-- 7 files changed, 47 insertions(+), 21 deletions(-)