Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Models
Description: Provides the core framework for a discrete event system to
implement a complete data-to-decisions, reproducible workflow.
The core components facilitate the development of modular pieces,
and enable the user to include additional functionality by running user-built modules.
Includes conditional scheduling, restart after interruption, packaging of
reusable modules, tools for developing arbitrary automated workflows,
automated interweaving of modules of different temporal resolution,
and tools for visualizing and understanding the within-project dependencies.
The suggested package 'NLMR' can be installed from the repository
(<https://PredictiveEcology.r-universe.dev>).
Author: Alex M Chubaty [aut] ,
Eliot J B McIntire [aut, cre] ,
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb] ,
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between SpaDES.core versions 2.0.4 dated 2024-04-16 and 2.0.5 dated 2024-04-25
DESCRIPTION | 8 - MD5 | 22 +-- NEWS.md | 4 build/vignette.rds |binary inst/doc/i-introduction.html | 2 inst/doc/ii-modules.html | 58 ++++----- inst/doc/iii-cache.html | 240 +++++++++++++++++++------------------- inst/doc/iv-advanced.html | 2 inst/doc/v-automated-testing.html | 2 tests/testthat/test-cache.R | 14 +- tests/testthat/test-checkpoint.R | 1 tests/testthat/test-save.R | 4 12 files changed, 184 insertions(+), 173 deletions(-)
Title: 'caret' Applications for Spatial-Temporal Models
Description: Supporting functionality to run 'caret' with spatial or spatial-temporal data. 'caret' is a frequently used package for model training and prediction using machine learning. CAST includes functions to improve spatial or spatial-temporal modelling tasks using 'caret'. It includes the newly suggested 'Nearest neighbor distance matching' cross-validation to estimate the performance of spatial prediction models and allows for spatial variable selection to selects suitable predictor variables in view to their contribution to the spatial model performance. CAST further includes functionality to estimate the (spatial) area of applicability of prediction models. Methods are described in Meyer et al. (2018) <doi:10.1016/j.envsoft.2017.12.001>; Meyer et al. (2019) <doi:10.1016/j.ecolmodel.2019.108815>; Meyer and Pebesma (2021) <doi:10.1111/2041-210X.13650>; Milà et al. (2022) <doi:10.1111/2041-210X.13851>; Meyer and Pebesma (2022) <doi:10.1038/s41467-022-29838-9>; L [...truncated...]
Author: Hanna Meyer [cre, aut],
Carles Mila [aut],
Marvin Ludwig [aut],
Jan Linnenbrink [aut],
Fabian Schumacher [aut],
Philipp Otto [ctb],
Chris Reudenbach [ctb],
Thomas Nauss [ctb],
Edzer Pebesma [ctb]
Maintainer: Hanna Meyer <hanna.meyer@uni-muenster.de>
Diff between CAST versions 1.0.0 dated 2024-04-08 and 1.0.1 dated 2024-04-25
DESCRIPTION | 8 +- MD5 | 44 +++++------ NEWS.md | 3 R/CAST-package.R | 2 README.md | 4 + inst/doc/cast01-CAST-intro.R | 2 inst/doc/cast01-CAST-intro.Rmd | 4 - inst/doc/cast01-CAST-intro.html | 43 +++++------ inst/doc/cast02-plotgeodist.R | 25 ------ inst/doc/cast02-plotgeodist.Rmd | 34 +------- inst/doc/cast02-plotgeodist.html | 102 ++++++++++---------------- inst/doc/cast03-CV.html | 4 - inst/doc/cast04-AOA-tutorial.R | 2 inst/doc/cast04-AOA-tutorial.Rmd | 2 inst/doc/cast04-AOA-tutorial.html | 6 - inst/doc/cast05-parallel.html | 4 - man/CAST.Rd | 2 tests/testthat/test-errorProfiles.R | 13 ++- tests/testthat/test-fss.R | 124 +++++++++++++++++--------------- tests/testthat/test-global_validation.R | 11 +- vignettes/cast01-CAST-intro.Rmd | 4 - vignettes/cast02-plotgeodist.Rmd | 34 +------- vignettes/cast04-AOA-tutorial.Rmd | 2 23 files changed, 212 insertions(+), 267 deletions(-)
Title: Utilities from 'Seminar fuer Statistik' ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH Zurich,
some of which were ported from S-plus in the 1990s.
For graphics, have pretty (Log-scale) axes eaxis(), an enhanced Tukey-Anscombe
plot, combining histogram and boxplot, 2d-residual plots, a 'tachoPlot()',
pretty arrows, etc.
For robustness, have a robust F test and robust range().
For system support, notably on Linux, provides 'Sys.*()' functions with
more access to system and CPU information.
Finally, miscellaneous utilities such as simple efficient prime numbers,
integer codes, Duplicated(), toLatex.numeric() and is.whole().
Author: Martin Maechler [aut, cre] ,
Werner Stahel [ctb] , f.robftest, last,
p.scales, p.dnorm),
Andreas Ruckstuhl [ctb] , p.profileTraces,
p.res.2x),
Christian Keller [ctb] , p.tachoPlot),
Kjetil Halvorsen [ctb] , ecdf.ksCI),
Alain Hauser [ctb] , is.whole,
[...truncated...]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between sfsmisc versions 1.1-17 dated 2024-02-01 and 1.1-18 dated 2024-04-25
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- R/misc-goodies.R | 10 +++++++--- R/p.goodies.R | 1 - R/sessionInfo-ext.R | 5 +++++ build/partial.rdb |binary inst/NEWS.Rd | 14 ++++++++++++++ man/f.robftest.Rd | 2 +- man/integrate.xy.Rd | 2 +- man/polyn.eval.Rd | 6 ++++++ man/sessionInfoX.Rd | 1 + man/xy.grid.Rd | 2 +- 12 files changed, 52 insertions(+), 23 deletions(-)
Title: Estimation of the Weights Attached to the Two-Way Fixed Effects
Regressions
Description: Estimates the weights and measure of robustness to treatment effect heterogeneity attached to two-way fixed effects regressions.
Clément de Chaisemartin, Xavier D'Haultfœuille (2020) <DOI: 10.1257/aer.20181169>.
Author: Diego Ciccia [aut, cre],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Shuo Zhang [aut],
Clement de Chaisemartin [aut],
Grant McDermott [ctb]
Maintainer: Diego Ciccia <diego.ciccia@sciencespo.fr>
Diff between TwoWayFEWeights versions 2.0.2 dated 2024-04-15 and 2.0.3 dated 2024-04-25
DESCRIPTION | 6 ++-- MD5 | 10 +++---- R/print.R | 55 +++++++++++++----------------------------- R/twowayfeweights_calculate.R | 3 -- R/twowayfeweights_result.R | 11 ++++++++ R/utils.R | 2 - 6 files changed, 39 insertions(+), 48 deletions(-)
More information about TwoWayFEWeights at CRAN
Permanent link
Title: Runs Monte Carlo Markov Chain - With Either 'JAGS', 'nimble' or
'greta' - While Adjusting Burn-in and Thinning Parameters
Description: The function runMCMC_btadjust() returns a mcmc.list object which is the output of a
Markov Chain Monte Carlo obtained - from either 'JAGS', 'nimble' or 'greta' - after adjusting burn-in and thinning parameters to meet
pre-specified criteria in terms of convergence & effective sample size.
Author: Frederic Gosselin [cre, aut] ,
Institut national de recherche pour l'agriculture, l'alimentation et
l'environnement [cph]
Maintainer: Frederic Gosselin <frederic.gosselin@inrae.fr>
Diff between runMCMCbtadjust versions 1.0.5 dated 2023-12-13 and 1.1.0 dated 2024-04-25
DESCRIPTION | 9 MD5 | 31 NAMESPACE | 1 NEWS.md | 47 R/findMCMC_strong_corrs.R |only R/runMCMC_btadjust.r | 3884 +++++++++++++++++++---------- build/vignette.rds |binary inst/doc/runMCMCbtadjust_Presentation.R | 69 inst/doc/runMCMCbtadjust_Presentation.Rmd | 7 inst/doc/runMCMCbtadjust_Presentation.html | 1198 ++++++-- man/findMCMC_strong_corrs.Rd |only man/fragments/Greta_fragment.Rmd | 20 man/fragments/Jags_fragment.Rmd | 12 man/fragments/Nimble&Jags2_fragment.rmd |only man/fragments/Nimble1_alone_fragment.Rmd | 91 man/runMCMC_btadjust.Rd | 150 - tests/testthat/test-runMCMC_btadjust.R | 7 vignettes/runMCMCbtadjust_Presentation.Rmd | 7 18 files changed, 3810 insertions(+), 1723 deletions(-)
More information about runMCMCbtadjust at CRAN
Permanent link
Title: Graph/Network Analysis Based on L1 Centrality
Description: Analyze graph/network data using L1 centrality and prestige. Functions for deriving global and local L1 centrality/prestige and L1 centrality/prestige-based neighborhoods of vertices are provided. Routines for visual inspection of a graph/network are also provided. Details are in Kang and Oh (2024) <doi:10.48550/arXiv.2404.13233>.
Author: Seungwoo Kang [aut, cre] ,
Hee-Seok Oh [aut]
Maintainer: Seungwoo Kang <kangsw0401@snu.ac.kr>
Diff between L1centrality versions 0.0.3 dated 2024-01-09 and 0.1.1 dated 2024-04-25
DESCRIPTION | 10 +- MD5 | 40 +++++------ NEWS.md | 18 +++++ R/L1cent.R | 150 ++++++++++++++++++++++++++++++-------------- R/L1centEDGE.R | 5 + R/L1centLOC.R | 66 +++++++++++-------- R/L1centMDS.R | 14 ++-- R/L1centNB.R | 63 +++++++++++++----- R/L1centrality-package.R | 35 ++++++++-- R/MCUmovie.R | 6 - R/rokassembly21.R | 4 - R/validate.R | 10 +- man/L1cent.Rd | 121 ++++++++++++++++++++++++----------- man/L1centEDGE.Rd | 4 - man/L1centLOC.Rd | 66 +++++++++++++------ man/L1centMDS.Rd | 10 +- man/L1centNB.Rd | 64 ++++++++++++++---- man/L1centrality-package.Rd | 36 ++++++++-- man/Lorenz_plot.Rd | 2 man/MCUmovie.Rd | 6 - man/rokassembly21.Rd | 4 - 21 files changed, 509 insertions(+), 225 deletions(-)
Title: Methods for High-Dimensional Repeated Measures Data
Description: A toolkit for the analysis of high-dimensional repeated measurements, providing functions
for outlier detection, differential expression analysis, gene-set tests, and binary random data generation.
Author: Klaus Jung [aut, cre],
Jochen Kruppa [aut],
Sergej Ruff [aut]
Maintainer: Klaus Jung <klaus.jung@tiho-hannover.de>
Diff between RepeatedHighDim versions 2.2.0 dated 2023-06-29 and 2.3.0 dated 2024-04-25
DESCRIPTION | 15 - MD5 | 96 +++++------ NAMESPACE | 107 ++++++------ R/GA_diagplot.R | 128 +++++++-------- R/GlobTestMissing.R | 148 ++++++++--------- R/RepeatedHighDim-package.R | 220 +++++++++++++------------- R/RepeatedHighDim.R | 84 +++++----- R/TestStatSP.R | 134 ++++++++-------- R/TestStatSimple.R | 58 +++--- R/bag.R | 367 ++++++++++++++++++++++---------------------- R/check_limma.R | 50 +++-- R/depmed.R | 139 ++++++++-------- R/fc_ci.R | 172 ++++++++++---------- R/fc_plot.R | 196 +++++++++++------------ R/gem.R | 229 +++++++++++++-------------- R/gridfun.R | 92 +++++------ R/hldepth.R | 177 ++++++++++----------- R/iter_matrix.R | 172 ++++++++++---------- R/loop.R | 241 ++++++++++++++-------------- R/netRNA.R |only R/rho_bounds.R | 96 +++++------ R/rmvbinary_EP.R | 116 +++++++------ R/rmvbinary_QA.R | 100 ++++++----- R/sequence_probs.R | 80 ++++----- R/start_matrix.R | 70 ++++---- R/summary_RHD.R | 62 +++---- build/partial.rdb |binary man/GA_diagplot.Rd | 5 man/GlobTestMissing.Rd | 3 man/RHighDim.Rd | 3 man/RepeatedHighDim.Rd | 9 - man/TestStatSP.Rd | 3 man/TestStatSimple.Rd | 3 man/bag.Rd | 114 +++++++------ man/check_limma.Rd | 3 man/depmed.Rd | 28 +-- man/fc_ci.Rd | 3 man/fc_plot.Rd | 3 man/gem.Rd | 158 +++++++++--------- man/gridfun.Rd | 3 man/hldepth.Rd | 26 +-- man/iter_matrix.Rd | 3 man/loop.Rd | 116 +++++++------ man/netRNA.Rd |only man/rho_bounds.Rd | 3 man/rmvbinary_EP.Rd | 3 man/rmvbinary_QA.Rd | 3 man/sequence_probs.Rd | 3 man/start_matrix.Rd | 3 man/summary_RHD.Rd | 3 50 files changed, 1991 insertions(+), 1859 deletions(-)
More information about RepeatedHighDim at CRAN
Permanent link
Title: Mobility Network Analysis
Description: Implements the method to analyse weighted mobility networks or distribution networks as outlined in:
Block, P., Stadtfeld, C., & Robins, G. (2022) <doi:10.1016/j.socnet.2021.08.003>.
The purpose of the model is to analyse the structure of mobility,
incorporating exogenous predictors pertaining to individuals and locations
known from classical mobility analyses, as well as modelling emergent mobility
patterns akin to structural patterns known from the statistical analysis of social networks.
Author: Per Block [cre, aut, cph] ,
Christoph Stadtfeld [aut] ,
Nico Keiser [aut],
Marion Hoffman [aut]
Maintainer: Per Block <block@soziologie.uzh.ch>
Diff between MoNAn versions 0.1.3 dated 2024-02-05 and 1.0.0 dated 2024-04-25
MoNAn-0.1.3/MoNAn/data/myCache.rda |only MoNAn-1.0.0/MoNAn/DESCRIPTION | 10 MoNAn-1.0.0/MoNAn/MD5 | 99 +-- MoNAn-1.0.0/MoNAn/NAMESPACE | 38 - MoNAn-1.0.0/MoNAn/NEWS.md | 51 + MoNAn-1.0.0/MoNAn/R/1_hiddenFunctions.R | 160 ++++ MoNAn-1.0.0/MoNAn/R/2_effectFunctions.R | 214 ------ MoNAn-1.0.0/MoNAn/R/2c_effectFunctions_concentration.R | 198 +++++- MoNAn-1.0.0/MoNAn/R/2f_effectFunctions_endogenousCovariateBased.R |only MoNAn-1.0.0/MoNAn/R/2x_effects_test.R | 40 - MoNAn-1.0.0/MoNAn/R/3_coreFunctions.R | 298 +++++---- MoNAn-1.0.0/MoNAn/R/3b_wrapperFunctions.R |only MoNAn-1.0.0/MoNAn/R/4_auxiliaryFunctions.R | 276 +++++++- MoNAn-1.0.0/MoNAn/R/myOutcomeObjects.R | 10 MoNAn-1.0.0/MoNAn/R/sysdata.rda |binary MoNAn-1.0.0/MoNAn/R/zzz.R |only MoNAn-1.0.0/MoNAn/README.md | 327 +++++++--- MoNAn-1.0.0/MoNAn/data/myAlg.rda |binary MoNAn-1.0.0/MoNAn/data/myEffects.rda |binary MoNAn-1.0.0/MoNAn/data/myResDN.rda |binary MoNAn-1.0.0/MoNAn/data/mySimDN.rda |binary MoNAn-1.0.0/MoNAn/data/myState.rda |binary MoNAn-1.0.0/MoNAn/man/addEffect.Rd |only MoNAn-1.0.0/MoNAn/man/avoiding_dissimilar_covar_bin.Rd |only MoNAn-1.0.0/MoNAn/man/avoiding_dissimilar_covar_cont.Rd |only MoNAn-1.0.0/MoNAn/man/concentration_GW_resource_covar_bin.Rd |only MoNAn-1.0.0/MoNAn/man/concentration_basic_squared.Rd |only MoNAn-1.0.0/MoNAn/man/concentration_norm.Rd |only MoNAn-1.0.0/MoNAn/man/concentration_norm_squared.Rd |only MoNAn-1.0.0/MoNAn/man/createAlgorithm.Rd | 20 MoNAn-1.0.0/MoNAn/man/createEdgelist.Rd | 11 MoNAn-1.0.0/MoNAn/man/createEffects.Rd |only MoNAn-1.0.0/MoNAn/man/createNetwork.Rd | 15 MoNAn-1.0.0/MoNAn/man/createNodeSet.Rd | 6 MoNAn-1.0.0/MoNAn/man/createNodeVariable.Rd | 25 MoNAn-1.0.0/MoNAn/man/createWeightedCache.Rd | 21 MoNAn-1.0.0/MoNAn/man/crowding_out_prop_covar_bin.Rd | 2 MoNAn-1.0.0/MoNAn/man/estimateMobilityNetwork.Rd | 55 + MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-18-1.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-18-2.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-18-3.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-19-1.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-19-2.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-19-3.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-20-1.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-20-2.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-21-1.png |binary MoNAn-1.0.0/MoNAn/man/figures/README-unnamed-chunk-21-2.png |binary MoNAn-1.0.0/MoNAn/man/getMultinomialStatistics.Rd | 10 MoNAn-1.0.0/MoNAn/man/gofMobilityNetwork.Rd | 30 MoNAn-1.0.0/MoNAn/man/joining_similar_avoiding_dissimilar_covar_bin.Rd |only MoNAn-1.0.0/MoNAn/man/joining_similar_avoiding_dissimilar_covar_cont.Rd |only MoNAn-1.0.0/MoNAn/man/monanDataCreate.Rd |only MoNAn-1.0.0/MoNAn/man/myOutcomeObjects.Rd | 7 MoNAn-1.0.0/MoNAn/man/print.effectsList.monan.Rd |only MoNAn-1.0.0/MoNAn/man/print.processState.monan.Rd |only MoNAn-1.0.0/MoNAn/man/scoreTest.Rd | 14 MoNAn-1.0.0/MoNAn/man/simulateMobilityNetworks.Rd | 26 MoNAn-1.0.0/MoNAn/man/staying_by_prop_bin_inflow.Rd | 2 59 files changed, 1327 insertions(+), 638 deletions(-)
Title: Cross-Platform File System Operations Based on 'libuv'
Description: A cross-platform interface to file system operations, built
on top of the 'libuv' C library.
Author: Jim Hester [aut],
Hadley Wickham [aut],
Gabor Csardi [aut, cre],
libuv project contributors [cph] ,
Joyent, Inc. and other Node contributors [cph] ,
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between fs versions 1.6.3 dated 2023-07-20 and 1.6.4 dated 2024-04-25
DESCRIPTION | 18 ++++++------- LICENSE | 2 - MD5 | 27 ++++++++++--------- NEWS.md | 4 ++ R/file.R | 2 - R/path.R | 2 - R/tree.R | 2 - README.md | 71 ++++++++++++++++++++++++---------------------------- build/vignette.rds |binary inst/WORDLIST | 2 - man/figures |only man/file_info.Rd | 2 - man/fs-package.Rd | 6 ++-- src/CollectorList.h | 12 +++++++- src/Makevars | 2 - 15 files changed, 81 insertions(+), 71 deletions(-)
Title: Continuous Time Meta-Analysis ('CoTiMA')
Description: The 'CoTiMA' package performs meta-analyses of correlation matrices of repeatedly measured variables taken from
studies that used different time intervals. Different time intervals between measurement occasions impose problems for
meta-analyses because the effects (e.g. cross-lagged effects) cannot be simply aggregated, for example, by means of common
fixed or random effects analysis. However, continuous time math, which is applied in 'CoTiMA', can be used to extrapolate or
intrapolate the results from all studies to any desired time lag. By this, effects obtained in studies that used different
time intervals can be meta-analyzed. 'CoTiMA' fits models to empirical data using the structural equation model (SEM) package
'ctsem', the effects specified in a SEM are related to parameters that are not directly included in the model (i.e.,
continuous time parameters; together, they represent the continuous time structural equation model, CTSEM). Statistical
model comparisons and significance [...truncated...]
Author: Christian Dormann [aut, cph],
Markus Homberg [aut, com, cre],
Olga Diener [ctb],
Christina Guthier [ctb],
Manuel Voelkle [ctb]
Maintainer: Markus Homberg <cotima@uni-mainz.de>
Diff between CoTiMA versions 0.7.0 dated 2023-12-16 and 0.8.0 dated 2024-04-25
CoTiMA-0.7.0/CoTiMA/data/CoTiMAStanctArgs.rda |only CoTiMA-0.7.0/CoTiMA/data/CoTiMAoptimFit313.rda |only CoTiMA-0.7.0/CoTiMA/data/addedByResearcher2.rda |only CoTiMA-0.7.0/CoTiMA/data/addedByResearcher3.rda |only CoTiMA-0.7.0/CoTiMA/data/addedByResearcher313.rda |only CoTiMA-0.7.0/CoTiMA/data/ageM2.rda |only CoTiMA-0.7.0/CoTiMA/data/ageM3.rda |only CoTiMA-0.7.0/CoTiMA/data/ageSD2.rda |only CoTiMA-0.7.0/CoTiMA/data/ageSD3.rda |only CoTiMA-0.7.0/CoTiMA/data/burnout2.rda |only CoTiMA-0.7.0/CoTiMA/data/burnout3.rda |only CoTiMA-0.7.0/CoTiMA/data/country2.rda |only CoTiMA-0.7.0/CoTiMA/data/country3.rda |only CoTiMA-0.7.0/CoTiMA/data/delta_t2.rda |only CoTiMA-0.7.0/CoTiMA/data/delta_t3.rda |only CoTiMA-0.7.0/CoTiMA/data/demands2.rda |only CoTiMA-0.7.0/CoTiMA/data/demands3.rda |only CoTiMA-0.7.0/CoTiMA/data/empcov2.rda |only CoTiMA-0.7.0/CoTiMA/data/empcov3.rda |only CoTiMA-0.7.0/CoTiMA/data/malePercent2.rda |only CoTiMA-0.7.0/CoTiMA/data/malePercent3.rda |only CoTiMA-0.7.0/CoTiMA/data/moderator2.rda |only CoTiMA-0.7.0/CoTiMA/data/moderator3.rda |only CoTiMA-0.7.0/CoTiMA/data/occupation2.rda |only CoTiMA-0.7.0/CoTiMA/data/occupation3.rda |only CoTiMA-0.7.0/CoTiMA/data/rawdata128.rda |only CoTiMA-0.7.0/CoTiMA/data/rawdata128.txt |only CoTiMA-0.7.0/CoTiMA/data/sampleSize2.rda |only CoTiMA-0.7.0/CoTiMA/data/sampleSize3.rda |only CoTiMA-0.7.0/CoTiMA/data/source2.rda |only CoTiMA-0.7.0/CoTiMA/data/source3.rda |only CoTiMA-0.7.0/CoTiMA/data/targetVariables2.rda |only CoTiMA-0.7.0/CoTiMA/data/targetVariables3.rda |only CoTiMA-0.7.0/CoTiMA/man/CoTiMAoptimFit313.Rd |only CoTiMA-0.7.0/CoTiMA/man/addedByResearcher2.Rd |only CoTiMA-0.7.0/CoTiMA/man/addedByResearcher3.Rd |only CoTiMA-0.7.0/CoTiMA/man/addedByResearcher313.Rd |only CoTiMA-0.7.0/CoTiMA/man/ageM2.Rd |only CoTiMA-0.7.0/CoTiMA/man/ageM3.Rd |only CoTiMA-0.7.0/CoTiMA/man/ageSD2.Rd |only CoTiMA-0.7.0/CoTiMA/man/ageSD3.Rd |only CoTiMA-0.7.0/CoTiMA/man/burnout2.Rd |only CoTiMA-0.7.0/CoTiMA/man/burnout3.Rd |only CoTiMA-0.7.0/CoTiMA/man/country2.Rd |only CoTiMA-0.7.0/CoTiMA/man/country3.Rd |only CoTiMA-0.7.0/CoTiMA/man/delta_t2.Rd |only CoTiMA-0.7.0/CoTiMA/man/delta_t3.Rd |only CoTiMA-0.7.0/CoTiMA/man/demands2.Rd |only CoTiMA-0.7.0/CoTiMA/man/demands3.Rd |only CoTiMA-0.7.0/CoTiMA/man/empcov2.Rd |only CoTiMA-0.7.0/CoTiMA/man/empcov3.Rd |only CoTiMA-0.7.0/CoTiMA/man/malePercent2.Rd |only CoTiMA-0.7.0/CoTiMA/man/malePercent3.Rd |only CoTiMA-0.7.0/CoTiMA/man/moderator2.Rd |only CoTiMA-0.7.0/CoTiMA/man/moderator3.Rd |only CoTiMA-0.7.0/CoTiMA/man/occupation2.Rd |only CoTiMA-0.7.0/CoTiMA/man/occupation3.Rd |only CoTiMA-0.7.0/CoTiMA/man/rawData128.Rd |only CoTiMA-0.7.0/CoTiMA/man/sampleSize2.Rd |only CoTiMA-0.7.0/CoTiMA/man/sampleSize3.Rd |only CoTiMA-0.7.0/CoTiMA/man/source2.Rd |only CoTiMA-0.7.0/CoTiMA/man/source3.Rd |only CoTiMA-0.7.0/CoTiMA/man/targetVariables2.Rd |only CoTiMA-0.7.0/CoTiMA/man/targetVariables3.Rd |only CoTiMA-0.8.0/CoTiMA/DESCRIPTION | 21 CoTiMA-0.8.0/CoTiMA/MD5 | 416 +-- CoTiMA-0.8.0/CoTiMA/R/ctmaAllInvFit.R | 53 CoTiMA-0.8.0/CoTiMA/R/ctmaBiG.R | 1 CoTiMA-0.8.0/CoTiMA/R/ctmaEmpCov.R | 12 CoTiMA-0.8.0/CoTiMA/R/ctmaEqual.R | 19 CoTiMA-0.8.0/CoTiMA/R/ctmaFit.R | 1406 ++++++---- CoTiMA-0.8.0/CoTiMA/R/ctmaFitToPrep.R | 2 CoTiMA-0.8.0/CoTiMA/R/ctmaInit.R | 1477 ++++++----- CoTiMA-0.8.0/CoTiMA/R/ctmaLabels.R | 18 CoTiMA-0.8.0/CoTiMA/R/ctmaOptimizeFit.R | 486 ++- CoTiMA-0.8.0/CoTiMA/R/ctmaPlotCtsemMod.R | 131 CoTiMA-0.8.0/CoTiMA/R/ctmaPower.R | 8 CoTiMA-0.8.0/CoTiMA/R/ctmaPrep.R | 762 +++-- CoTiMA-0.8.0/CoTiMA/R/ctmaPub.R | 2 CoTiMA-0.8.0/CoTiMA/R/ctmaRedHet.R | 1861 +++++--------- CoTiMA-0.8.0/CoTiMA/R/ctmaShapeRawData.R | 10 CoTiMA-0.8.0/CoTiMA/R/ctmaStanctArgs.R | 38 CoTiMA-0.8.0/CoTiMA/R/data.R | 236 - CoTiMA-0.8.0/CoTiMA/build/vignette.rds |binary CoTiMA-0.8.0/CoTiMA/data/A128.rda |binary CoTiMA-0.8.0/CoTiMA/data/A313.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMABiG_D_BO.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAFullFit_3.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAFullFit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAFullFit_6_new.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAFullInv23Fit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAFullInvEq23Fit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAInitFit_3.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAInitFit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAInitFit_6_NUTS.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAInitFit_6_new.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAInitFit_D_BO.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAMod1onFullFit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAMod1onFullFit_6_cats12.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAMod2on23Fit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAPart134Inv3Fit_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAPower_D_BO.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAstudyList_3.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAstudyList_6.rda |binary CoTiMA-0.8.0/CoTiMA/data/CoTiMAstudyList_6_new.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageM1.rda |only CoTiMA-0.8.0/CoTiMA/data/ageM128.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageM18.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageM201.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageM313.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageM32.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageM4.rda |only CoTiMA-0.8.0/CoTiMA/data/ageSD1.rda |only CoTiMA-0.8.0/CoTiMA/data/ageSD128.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageSD18.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageSD201.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageSD313.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageSD32.rda |binary CoTiMA-0.8.0/CoTiMA/data/ageSD4.rda |only CoTiMA-0.8.0/CoTiMA/data/alphas128.rda |binary CoTiMA-0.8.0/CoTiMA/data/alphas313.rda |binary CoTiMA-0.8.0/CoTiMA/data/burnout1.rda |only CoTiMA-0.8.0/CoTiMA/data/burnout128.rda |binary CoTiMA-0.8.0/CoTiMA/data/burnout18.rda |binary CoTiMA-0.8.0/CoTiMA/data/burnout201.rda |binary CoTiMA-0.8.0/CoTiMA/data/burnout313.rda |binary CoTiMA-0.8.0/CoTiMA/data/burnout32.rda |binary CoTiMA-0.8.0/CoTiMA/data/burnout4.rda |only CoTiMA-0.8.0/CoTiMA/data/combineVariables128.rda |binary CoTiMA-0.8.0/CoTiMA/data/combineVariablesNames128.rda |binary CoTiMA-0.8.0/CoTiMA/data/country1.rda |only CoTiMA-0.8.0/CoTiMA/data/country128.rda |binary CoTiMA-0.8.0/CoTiMA/data/country18.rda |binary CoTiMA-0.8.0/CoTiMA/data/country201.rda |binary CoTiMA-0.8.0/CoTiMA/data/country313.rda |binary CoTiMA-0.8.0/CoTiMA/data/country32.rda |binary CoTiMA-0.8.0/CoTiMA/data/country4.rda |only CoTiMA-0.8.0/CoTiMA/data/delta_t1.rda |only CoTiMA-0.8.0/CoTiMA/data/delta_t128.rda |binary CoTiMA-0.8.0/CoTiMA/data/delta_t18.rda |binary CoTiMA-0.8.0/CoTiMA/data/delta_t201.rda |binary CoTiMA-0.8.0/CoTiMA/data/delta_t228.rda |only CoTiMA-0.8.0/CoTiMA/data/delta_t313.rda |binary CoTiMA-0.8.0/CoTiMA/data/delta_t32.rda |binary CoTiMA-0.8.0/CoTiMA/data/delta_t4.rda |only CoTiMA-0.8.0/CoTiMA/data/demands1.rda |only CoTiMA-0.8.0/CoTiMA/data/demands128.rda |binary CoTiMA-0.8.0/CoTiMA/data/demands18.rda |binary CoTiMA-0.8.0/CoTiMA/data/demands201.rda |binary CoTiMA-0.8.0/CoTiMA/data/demands313.rda |binary CoTiMA-0.8.0/CoTiMA/data/demands32.rda |binary CoTiMA-0.8.0/CoTiMA/data/demands4.rda |only CoTiMA-0.8.0/CoTiMA/data/dl_link.rda |binary CoTiMA-0.8.0/CoTiMA/data/empcov1.rda |only CoTiMA-0.8.0/CoTiMA/data/empcov128.rda |binary CoTiMA-0.8.0/CoTiMA/data/empcov18.rda |binary CoTiMA-0.8.0/CoTiMA/data/empcov201.rda |binary CoTiMA-0.8.0/CoTiMA/data/empcov313.rda |binary CoTiMA-0.8.0/CoTiMA/data/empcov32.rda |binary CoTiMA-0.8.0/CoTiMA/data/empcov4.rda |only CoTiMA-0.8.0/CoTiMA/data/malePercent1.rda |only CoTiMA-0.8.0/CoTiMA/data/malePercent128.rda |binary CoTiMA-0.8.0/CoTiMA/data/malePercent18.rda |binary CoTiMA-0.8.0/CoTiMA/data/malePercent201.rda |binary CoTiMA-0.8.0/CoTiMA/data/malePercent313.rda |binary CoTiMA-0.8.0/CoTiMA/data/malePercent32.rda |binary CoTiMA-0.8.0/CoTiMA/data/malePercent4.rda |only CoTiMA-0.8.0/CoTiMA/data/moderator1.rda |only CoTiMA-0.8.0/CoTiMA/data/moderator128.rda |binary CoTiMA-0.8.0/CoTiMA/data/moderator18.rda |binary CoTiMA-0.8.0/CoTiMA/data/moderator201.rda |binary CoTiMA-0.8.0/CoTiMA/data/moderator313.rda |binary CoTiMA-0.8.0/CoTiMA/data/moderator32.rda |binary CoTiMA-0.8.0/CoTiMA/data/moderator4.rda |only CoTiMA-0.8.0/CoTiMA/data/moderatorLabels.rda |binary CoTiMA-0.8.0/CoTiMA/data/moderatorValues.rda |binary CoTiMA-0.8.0/CoTiMA/data/occupation1.rda |only CoTiMA-0.8.0/CoTiMA/data/occupation128.rda |binary CoTiMA-0.8.0/CoTiMA/data/occupation18.rda |binary CoTiMA-0.8.0/CoTiMA/data/occupation201.rda |binary CoTiMA-0.8.0/CoTiMA/data/occupation313.rda |binary CoTiMA-0.8.0/CoTiMA/data/occupation32.rda |binary CoTiMA-0.8.0/CoTiMA/data/occupation4.rda |only CoTiMA-0.8.0/CoTiMA/data/pairwiseN128.rda |binary CoTiMA-0.8.0/CoTiMA/data/pubList_8.rda |binary CoTiMA-0.8.0/CoTiMA/data/rawData228.rda |only CoTiMA-0.8.0/CoTiMA/data/recodeVariables128.rda |binary CoTiMA-0.8.0/CoTiMA/data/results128.rda |binary CoTiMA-0.8.0/CoTiMA/data/sampleSize1.rda |only CoTiMA-0.8.0/CoTiMA/data/sampleSize128.rda |binary CoTiMA-0.8.0/CoTiMA/data/sampleSize18.rda |binary CoTiMA-0.8.0/CoTiMA/data/sampleSize201.rda |binary CoTiMA-0.8.0/CoTiMA/data/sampleSize313.rda |binary CoTiMA-0.8.0/CoTiMA/data/sampleSize32.rda |binary CoTiMA-0.8.0/CoTiMA/data/sampleSize4.rda |only CoTiMA-0.8.0/CoTiMA/data/source1.rda |only CoTiMA-0.8.0/CoTiMA/data/source128.rda |binary CoTiMA-0.8.0/CoTiMA/data/source18.rda |only CoTiMA-0.8.0/CoTiMA/data/source201.rda |binary CoTiMA-0.8.0/CoTiMA/data/source313.rda |binary CoTiMA-0.8.0/CoTiMA/data/source4.rda |only CoTiMA-0.8.0/CoTiMA/data/targetVariables1.rda |only CoTiMA-0.8.0/CoTiMA/data/targetVariables128.rda |binary CoTiMA-0.8.0/CoTiMA/data/targetVariables313.rda |binary CoTiMA-0.8.0/CoTiMA/data/targetVariables4.rda |only CoTiMA-0.8.0/CoTiMA/data/variableNames128.rda |binary CoTiMA-0.8.0/CoTiMA/data/variableNames18.rda |only CoTiMA-0.8.0/CoTiMA/data/variableNames201.rda |only CoTiMA-0.8.0/CoTiMA/data/variableNames32.rda |only CoTiMA-0.8.0/CoTiMA/inst/doc/CoTiMA_User_Guide.pdf |binary CoTiMA-0.8.0/CoTiMA/man/CoTiMAFullFit_3.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAFullFit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAFullFit_6_new.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAFullInv23Fit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAFullInvEq23Fit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAInitFit_3.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAInitFit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAInitFit_6_NUTS.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAInitFit_6_new.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAMod1onFullFit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAMod1onFullFit_6_cats12.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAMod2on23Fit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAPart134Inv3Fit_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAStanctArgs.Rd | 4 CoTiMA-0.8.0/CoTiMA/man/CoTiMAstudyList_6.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/CoTiMAstudyList_6_new.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/ageM1.Rd |only CoTiMA-0.8.0/CoTiMA/man/ageM4.Rd |only CoTiMA-0.8.0/CoTiMA/man/ageSD1.Rd |only CoTiMA-0.8.0/CoTiMA/man/ageSD4.Rd |only CoTiMA-0.8.0/CoTiMA/man/burnout1.Rd |only CoTiMA-0.8.0/CoTiMA/man/burnout4.Rd |only CoTiMA-0.8.0/CoTiMA/man/country1.Rd |only CoTiMA-0.8.0/CoTiMA/man/country4.Rd |only CoTiMA-0.8.0/CoTiMA/man/ctmaAllInvFit.Rd | 9 CoTiMA-0.8.0/CoTiMA/man/ctmaEmpCov.Rd | 6 CoTiMA-0.8.0/CoTiMA/man/ctmaFit.Rd | 19 CoTiMA-0.8.0/CoTiMA/man/ctmaInit.Rd | 22 CoTiMA-0.8.0/CoTiMA/man/ctmaOptimizeFit.Rd | 55 CoTiMA-0.8.0/CoTiMA/man/ctmaPlotCtsemMod.Rd | 14 CoTiMA-0.8.0/CoTiMA/man/ctmaPower.Rd | 4 CoTiMA-0.8.0/CoTiMA/man/ctmaPrep.Rd | 13 CoTiMA-0.8.0/CoTiMA/man/ctmaPub.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/ctmaRedHet.Rd | 6 CoTiMA-0.8.0/CoTiMA/man/ctmaShapeRawData.Rd | 10 CoTiMA-0.8.0/CoTiMA/man/delta_t1.Rd |only CoTiMA-0.8.0/CoTiMA/man/delta_t228.Rd |only CoTiMA-0.8.0/CoTiMA/man/delta_t4.Rd |only CoTiMA-0.8.0/CoTiMA/man/demands1.Rd |only CoTiMA-0.8.0/CoTiMA/man/demands4.Rd |only CoTiMA-0.8.0/CoTiMA/man/empcov1.Rd |only CoTiMA-0.8.0/CoTiMA/man/empcov128.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/empcov4.Rd |only CoTiMA-0.8.0/CoTiMA/man/malePercent1.Rd |only CoTiMA-0.8.0/CoTiMA/man/malePercent4.Rd |only CoTiMA-0.8.0/CoTiMA/man/moderator1.Rd |only CoTiMA-0.8.0/CoTiMA/man/moderator4.Rd |only CoTiMA-0.8.0/CoTiMA/man/occupation1.Rd |only CoTiMA-0.8.0/CoTiMA/man/occupation4.Rd |only CoTiMA-0.8.0/CoTiMA/man/pairwiseN128.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/rawData228.Rd |only CoTiMA-0.8.0/CoTiMA/man/results128.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/sampleSize1.Rd |only CoTiMA-0.8.0/CoTiMA/man/sampleSize128.Rd | 2 CoTiMA-0.8.0/CoTiMA/man/sampleSize4.Rd |only CoTiMA-0.8.0/CoTiMA/man/source1.Rd |only CoTiMA-0.8.0/CoTiMA/man/source18.Rd |only CoTiMA-0.8.0/CoTiMA/man/source4.Rd |only CoTiMA-0.8.0/CoTiMA/man/targetVariables1.Rd |only CoTiMA-0.8.0/CoTiMA/man/targetVariables4.Rd |only CoTiMA-0.8.0/CoTiMA/man/variableNames18.Rd |only CoTiMA-0.8.0/CoTiMA/man/variableNames201.Rd |only CoTiMA-0.8.0/CoTiMA/man/variableNames32.Rd |only 273 files changed, 3748 insertions(+), 3413 deletions(-)
Title: R Interface to the 'QuantLib' Library
Description: The 'RQuantLib' package makes parts of 'QuantLib' accessible from R
The 'QuantLib' project aims to provide a comprehensive software framework
for quantitative finance. The goal is to provide a standard open source library
for quantitative analysis, modeling, trading, and risk management of financial
assets.
Author: Dirk Eddelbuettel, Khanh Nguyen , Terry Leitch
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RQuantLib versions 0.4.21 dated 2024-02-01 and 0.4.22 dated 2024-04-25
ChangeLog | 30 ++++++++++++++++++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- R/asian.R | 20 -------------------- R/zzz.R | 4 ++-- configure | 18 +++++++++--------- configure.ac | 2 +- data/tsQuotes.RData |binary data/vcube.RData |binary inst/NEWS.Rd | 11 ++++++++++- inst/tinytest/test_schedule.R | 4 ++-- src/Makevars.in | 2 +- src/bonds.cpp | 18 ++++++++++++++++-- src/zero.cpp | 8 ++++++-- 14 files changed, 94 insertions(+), 57 deletions(-)
Title: A Tool for Creating Custom Neural Networks in C++ and using Them
in R
Description: Contains a module to define neural networks from custom components and versions of Autoencoder, BP, LVQ, MAM NN.
Author: Vasilis Nikolaidis [aut, cph, cre]
Maintainer: Vasilis Nikolaidis <v.nikolaidis@uop.gr>
Diff between nnlib2Rcpp versions 0.2.5 dated 2024-03-09 and 0.2.6 dated 2024-04-25
DESCRIPTION | 6 MD5 | 24 +-- inst/doc/intro.ltx | 1 inst/doc/intro.pdf |binary man/LVQs-class.Rd | 267 ++++++++++++++++++++++++++----------- src/Rcpp_LVQ_supervised_module.cpp | 128 +++++++++++++++-- src/Rcpp_NN_module.cpp | 7 src/nn_lvq.cpp | 188 ++++++++++++++++++++------ src/nn_lvq.h | 150 ++++++++++++-------- src/nnlib2.h | 2 src/nnlib2_error.cpp | 5 src/nnlib2_error.h | 1 vignettes/intro.ltx | 1 13 files changed, 573 insertions(+), 207 deletions(-)
Title: Functions for Calculating Fit-Robustness of CNA-Solutions
Description: Functions for automatically performing
a reanalysis series
on a data set using CNA, and for calculating the fit-robustness
of the resulting models, as described in
Parkkinen and Baumgartner (2021) <doi:10.1177/0049124120986200>.
Author: Veli-Pekka Parkkinen [aut, cre, cph],
Michael Baumgartner [aut, cph],
Mathias Ambuehl [aut, cph]
Maintainer: Veli-Pekka Parkkinen <parkkinenv@gmail.com>
Diff between frscore versions 0.3.1 dated 2023-04-28 and 0.4.0 dated 2024-04-25
DESCRIPTION | 10 - MD5 | 28 +-- NEWS.md | 39 +++- R/causal_submodel.R | 2 R/frscore.R | 311 ++++++++++++++++++++-------------- R/frscored_cna.R | 22 +- README.md | 56 ------ build/partial.rdb |binary man/frscore-package.Rd | 1 man/frscored_cna.Rd | 7 man/rean_cna.Rd | 8 tests/testthat/_snaps/frscore.md | 95 ++++++++++ tests/testthat/_snaps/frscored_cna.md | 51 +++++ tests/testthat/test_frscore.R | 17 + tests/testthat/test_frscored_cna.R | 37 ++++ 15 files changed, 459 insertions(+), 225 deletions(-)
Title: Tools for Survey Statistics in Educational Assessment
Description: Contains tools for survey statistics (especially in educational
assessment) for datasets with replication designs (jackknife,
bootstrap, replicate weights; see Kolenikov, 2010;
Pfefferman & Rao, 2009a, 2009b, <doi:10.1016/S0169-7161(09)70003-3>,
<doi:10.1016/S0169-7161(09)70037-9>); Shao, 1996,
<doi:10.1080/02331889708802523>).
Descriptive statistics, linear and logistic regression,
path models for manifest variables with measurement error
correction and two-level hierarchical regressions for weighted
samples are included. Statistical inference can be conducted for
multiply imputed datasets and nested multiply imputed datasets
and is in particularly suited for the analysis of plausible values
(for details see George, Oberwimmer & Itzlinger-Bruneforth, 2016;
Bruneforth, Oberwimmer & Robitzsch, 2016; Robitzsch, Pham &
Yanagida, 2016). The package development was supported by BIFIE
(Federal Institute for Educational Research, Innovation and Development
of [...truncated...]
Author: BIFIE [aut], Alexander Robitzsch [aut, cre],
Konrad Oberwimmer [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between BIFIEsurvey versions 3.5-19 dated 2024-02-18 and 3.6-6 dated 2024-04-25
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/RcppExports.R | 2 +- build/partial.rdb |binary inst/NEWS | 9 +++++++++ src/RcppExports.cpp | 2 +- src/bifiesurvey_rcpp_logistreg.cpp | 8 +++++--- 7 files changed, 26 insertions(+), 15 deletions(-)
Title: Character String Operations and Interpolation, Magic Edition
Description: Performs complex string operations compactly and efficiently. Supports string interpolation jointly with over 50 string operations. Also enhances regular string functions (like grep() and co). See an introduction at <https://lrberge.github.io/stringmagic/>.
Author: Laurent R Berge [aut, cre] ,
Morgan Jacob [ctb]
Maintainer: Laurent R Berge <laurent.berge@u-bordeaux.fr>
Diff between stringmagic versions 1.1.0 dated 2024-03-06 and 1.1.1 dated 2024-04-25
DESCRIPTION | 6 - MD5 | 28 ++++---- NEWS.md | 6 + R/check.R | 7 +- R/string_magic_main.R | 8 ++ R/test_funs.R | 73 +++++++++++++--------- build/vignette.rds |binary inst/doc/guide_customization.R | 4 - inst/doc/guide_customization.html | 10 +-- inst/doc/guide_string_magic.html | 4 - inst/doc/guide_string_tools.html | 4 - inst/doc/ref_operations.html | 10 +-- inst/doc/ref_regex_flags.html | 4 - inst/doc/ref_regex_logic.html | 4 - inst/doc/ref_string_magic_special_operations.html | 26 +++---- 15 files changed, 113 insertions(+), 81 deletions(-)
Title: Policy Learning
Description: Framework for evaluating user-specified finite stage policies and learning realistic policies via doubly robust loss functions. Policy learning methods include doubly robust Q-learning, sequential policy tree learning, and outcome weighted learning. See Nordland and Holst (2022) <doi:10.48550/arXiv.2212.02335> for documentation and references.
Author: Andreas Nordland [aut, cre],
Klaus Holst [aut]
Maintainer: Andreas Nordland <andreasnordland@gmail.com>
Diff between polle versions 1.3 dated 2023-07-06 and 1.4 dated 2024-04-25
DESCRIPTION | 15 +++++---- MD5 | 70 ++++++++++++++++++++++++++------------------ NAMESPACE | 17 ++++++++++ NEWS.md | 15 +++++---- R/Q_function.R | 1 R/blip.R | 3 - R/drql.R | 2 - R/g_function.R | 3 + R/g_models.R | 18 +++++++---- R/nuisance_functions.R | 2 - R/policy_data.R | 22 ++++++------- R/policy_data_functions.R | 1 R/policy_def.R | 2 - R/policy_eval.R | 12 +++---- R/policy_learn.R | 48 +++++++++++++++--------------- R/policy_object_functions.R | 12 ++++++- R/polle-package.R | 16 ++-------- R/q_models.R | 20 ++++++------ R/sl_models.R | 4 +- build/partial.rdb |binary build/vignette.rds |only inst/doc |only man/g_model.Rd | 4 +- man/get_policy_functions.Rd | 2 + man/nuisance_functions.Rd | 2 - man/policy.Rd | 2 - man/policy_data.Rd | 22 ++++++------- man/policy_eval.Rd | 12 +++---- man/policy_learn.Rd | 46 ++++++++++++++-------------- man/polle-package.Rd | 27 +++++++++++----- man/q_model.Rd | 4 +- vignettes |only 32 files changed, 229 insertions(+), 175 deletions(-)
Title: Open System Files, 'URLs', Anything
Description: Cross platform solution to open files, directories or 'URLs'
with their associated programs.
Author: Gabor Csardi [aut, cre],
Fathi Boudra [aut],
Rex Dieter [aut],
Kevin Krammer [aut],
Jeremy White [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between xopen versions 1.0.0 dated 2018-09-17 and 1.0.1 dated 2024-04-25
DESCRIPTION | 27 ++++++++++++++++----------- LICENSE | 4 ++-- MD5 | 16 +++++++++------- NEWS.md | 5 ++++- R/xopen-package.R |only README.md | 18 +++++++++++++----- man/xopen-package.Rd |only man/xopen.Rd | 6 ++++-- tests/testthat.R | 8 ++++++++ tests/testthat/test.R | 3 --- 10 files changed, 56 insertions(+), 31 deletions(-)
Title: Visualization of Structures in High-Dimensional Data
Description: By gaining the property of emergence through self-organization, the enhancement of SOMs(self organizing maps) is called Emergent SOM (ESOM). The result of the projection by ESOM is a grid of neurons which can be visualised as a three dimensional landscape in form of the Umatrix. Further details can be found in the referenced publications (see url). This package offers tools for calculating and visualising the ESOM as well as Umatrix, Pmatrix and UStarMatrix. All the functionality is also available through graphical user interfaces implemented in 'shiny'. Based on the recognized data structures, the method can be used to generate new data.
Author: Florian Lerch[aut,cre], Michael Thrun[aut], Felix Pape[ctb], Jorn Lotsch[aut], Raphael Paebst[ctb], Alfred Ultsch[aut]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between Umatrix versions 3.4.1 dated 2023-11-25 and 4.0 dated 2024-04-25
DESCRIPTION | 12 +- MD5 | 26 +++- NAMESPACE | 2 R/calculate_Delauny_radius.R |only R/esomInit.R | 4 R/esomTrain.R | 10 + R/esomTrainOnline.R | 212 +++++++++++++++++++++------------------- R/generate_data.R |only R/iEsomTrain.R | 7 - data/BMUHepta.rda |only man/BMUHepta.Rd |only man/Hepta.Rd | 4 man/Umatrix-package.Rd | 6 - man/calculate_Delauny_radius.Rd |only man/esomTrain.Rd | 3 man/generate_data.Rd |only man/iEsomTrain.Rd | 1 17 files changed, 160 insertions(+), 127 deletions(-)
Title: Models of Decision Confidence and Metacognition
Description: Provides fitting functions and other tools for decision confidence
and metacognition researchers, including meta-d'/d', often considered to be
the gold standard to measure metacognitive efficiency.
Also allows to fit several static models of decision making and confidence
to test the assumptions underlying meta-d'/d' and which may serve as an
alternative when the assumptions of meta-d'/d' do not hold. See also Rausch
et al. (2023) <doi:10.1037/met0000634>.
Author: Manuel Rausch [aut, cre] ,
Sebastian Hellmann [aut]
Maintainer: Manuel Rausch <manuel.rausch@hochschule-rhein-waal.de>
Diff between statConfR versions 0.0.1 dated 2023-09-22 and 0.1.1 dated 2024-04-25
statConfR-0.0.1/statConfR/R/int_fitSDTvarS.R |only statConfR-0.0.1/statConfR/R/int_rCEV.R |only statConfR-0.1.1/statConfR/DESCRIPTION | 22 +- statConfR-0.1.1/statConfR/MD5 | 51 +++-- statConfR-0.1.1/statConfR/NAMESPACE | 4 statConfR-0.1.1/statConfR/R/MaskOri-data.R | 12 - statConfR-0.1.1/statConfR/R/fitConf.R | 217 +++++++++++++++-------- statConfR-0.1.1/statConfR/R/fitConfModels.R | 223 ++++++++++++++++-------- statConfR-0.1.1/statConfR/R/fitMetaDprime.R | 20 +- statConfR-0.1.1/statConfR/R/int_fit2Chan.R | 80 +++----- statConfR-0.1.1/statConfR/R/int_fitCEV.R | 65 ++---- statConfR-0.1.1/statConfR/R/int_fitITG.R | 136 ++++++-------- statConfR-0.1.1/statConfR/R/int_fitLogWEV.R |only statConfR-0.1.1/statConfR/R/int_fitLognorm.R |only statConfR-0.1.1/statConfR/R/int_fitMetaDprime.R | 53 +++-- statConfR-0.1.1/statConfR/R/int_fitNoisy.R | 72 +++---- statConfR-0.1.1/statConfR/R/int_fitPDA.R | 73 +++---- statConfR-0.1.1/statConfR/R/int_fitSDT.R | 68 +++---- statConfR-0.1.1/statConfR/R/int_ll2Chan.R | 2 statConfR-0.1.1/statConfR/R/int_llITG.R | 2 statConfR-0.1.1/statConfR/R/int_llLogWEV.R |only statConfR-0.1.1/statConfR/R/int_llLognorm.R |only statConfR-0.1.1/statConfR/R/int_simulateConf.R |only statConfR-0.1.1/statConfR/R/simulateConf.R |only statConfR-0.1.1/statConfR/README.md | 165 ++++++++--------- statConfR-0.1.1/statConfR/data/MaskOri.RData |binary statConfR-0.1.1/statConfR/man/MaskOri.Rd | 8 statConfR-0.1.1/statConfR/man/fitConf.Rd | 164 +++++++++++------ statConfR-0.1.1/statConfR/man/fitConfModels.Rd | 177 ++++++++++++------- statConfR-0.1.1/statConfR/man/fitMetaDprime.Rd | 168 +++++++++--------- statConfR-0.1.1/statConfR/man/simConf.Rd |only 31 files changed, 998 insertions(+), 784 deletions(-)
Title: Package Admix for Admixture (aka Contamination) Models
Description: Implements techniques to estimate the unknown quantities related
to two-component admixture models, where the two components can belong to any
distribution (note that in the case of multinomial mixtures, the two components
must belong to the same family). Estimation methods depend on the assumptions
made on the unknown component density (see Bordes and Vandekerkhove (2010) <doi:10.3103/S1066530710010023>;
Patra and Sen (2016) <doi:10.1111/rssb.12148>); Milhaud, Pommeret, Salhi and Vandekerkhove
(2022) <doi:10.1016/j.jspi.2021.05.010>). In practice, one can estimate both the
mixture weight and the unknown component density in a wide variety of frameworks.
On top of that, hypothesis tests can be performed in one and two-sample contexts
to test the unknown component density (see Milhaud, Pommeret, Salhi, Vandekerkhove (2023)).
Finally, clustering of unknown mixture components is also feasible in a K-samples setting.
Author: Xavier Milhaud [aut, cre],
Pierre Vandekerkhove [ctb],
Denys Pommeret [ctb],
Yahia Salhi [ctb]
Maintainer: Xavier Milhaud <xavier.milhaud.research@gmail.com>
Diff between admix versions 2.1-2 dated 2023-07-12 and 2.1-3 dated 2024-04-25
DESCRIPTION | 8 - MD5 | 45 ++++--- R/IBM_2samples_test.R | 6 - R/IBM_estimProp.R | 8 - R/IBM_k_samples_test.R | 27 +++- R/IBM_tabul_stochasticInteg.R | 2 R/admix_clustering.R | 45 ++++--- R/admix_estim.R | 8 + R/admix_test.R | 7 - R/mortality_sample.R |only R/orthoBasis_test_H0.R | 8 - build/partial.rdb |binary build/vignette.rds |binary data/mortality_sample.rda |only inst/WORDLIST | 6 - inst/doc/admixture-clustering.R | 2 inst/doc/admixture-clustering.html | 142 +++++++++++-------------- inst/doc/admixture-weight-estimation.R | 2 inst/doc/admixture-weight-estimation.html | 170 +++++++++++++++--------------- inst/doc/test-hypothesis.R | 2 inst/doc/test-hypothesis.html | 124 ++++++++++----------- man/admix_clustering.Rd | 26 +++- man/admix_test.Rd | 5 man/mortality_sample.Rd |only man/orthoBasis_test_H0.Rd | 6 - 25 files changed, 347 insertions(+), 302 deletions(-)
Title: Fake Web Apps for HTTP Testing
Description: Create a web app that makes it easier to test web clients
without using the internet. It includes a web app framework with path
matching, parameters and templates. Can parse various 'HTTP' request
bodies. Can send 'JSON' data or files from the disk. Includes a web
app that implements the 'httpbin.org' web service.
Author: Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd],
Civetweb contributors [ctb] ,
Redoc contributors [ctb] ,
L. Peter Deutsch [ctb] ,
Martin Purschke [ctb] ,
Aladdin Enterprises [cph] ,
Maelle Salmon [ctb]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between webfakes versions 1.3.0 dated 2023-12-10 and 1.3.1 dated 2024-04-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 6 +++++- src/rweb.c | 4 ++++ 4 files changed, 15 insertions(+), 7 deletions(-)
Title: Remote Sensing Data Analysis
Description: Toolbox for remote sensing image processing and analysis such as
calculating spectral indexes, principal component transformation, unsupervised
and supervised classification or fractional cover analyses.
Author: Benjamin Leutner [aut] ,
Ned Horning [aut],
Jakob Schwalb-Willmann [aut] ,
Robert J. Hijmans [ctb] ,
Konstantin Mueller [aut, cre]
Maintainer: Konstantin Mueller <konstantinfinn.mueller@gmx.de>
Diff between RStoolbox versions 0.4.0 dated 2024-01-17 and 1.0.0 dated 2024-04-25
RStoolbox-0.4.0/RStoolbox/R/RStoolbox.R |only RStoolbox-0.4.0/RStoolbox/inst/external/srtm.rds |only RStoolbox-0.4.0/RStoolbox/inst/external/trainingPoints.rds |only RStoolbox-0.4.0/RStoolbox/inst/external/trainingPolygons.rds |only RStoolbox-1.0.0/RStoolbox/DESCRIPTION | 20 RStoolbox-1.0.0/RStoolbox/MD5 | 141 +++--- RStoolbox-1.0.0/RStoolbox/NAMESPACE | 4 RStoolbox-1.0.0/RStoolbox/NEWS.md | 22 RStoolbox-1.0.0/RStoolbox/R/RStoolbox-package.R |only RStoolbox-1.0.0/RStoolbox/R/classifyQA.R | 2 RStoolbox-1.0.0/RStoolbox/R/cloudMask.R | 2 RStoolbox-1.0.0/RStoolbox/R/coregisterImages.R | 4 RStoolbox-1.0.0/RStoolbox/R/estimateHaze.R | 2 RStoolbox-1.0.0/RStoolbox/R/fCover.R | 4 RStoolbox-1.0.0/RStoolbox/R/getValidation.R | 2 RStoolbox-1.0.0/RStoolbox/R/ggR.R | 16 RStoolbox-1.0.0/RStoolbox/R/ggRGB.R | 6 RStoolbox-1.0.0/RStoolbox/R/histMatch.R | 4 RStoolbox-1.0.0/RStoolbox/R/internalFunctions.R | 2 RStoolbox-1.0.0/RStoolbox/R/mesma.R | 149 +++++- RStoolbox-1.0.0/RStoolbox/R/oneHotEncode.R | 2 RStoolbox-1.0.0/RStoolbox/R/panSharpen.R | 4 RStoolbox-1.0.0/RStoolbox/R/pifMatch.R | 4 RStoolbox-1.0.0/RStoolbox/R/radCor.R | 3 RStoolbox-1.0.0/RStoolbox/R/rasterCVA.R | 4 RStoolbox-1.0.0/RStoolbox/R/rasterEntropy.R | 2 RStoolbox-1.0.0/RStoolbox/R/rasterPCA.R | 4 RStoolbox-1.0.0/RStoolbox/R/rescaleImage.R | 2 RStoolbox-1.0.0/RStoolbox/R/sam.R | 2 RStoolbox-1.0.0/RStoolbox/R/spectralIndices.R | 2 RStoolbox-1.0.0/RStoolbox/R/superClass.R | 39 - RStoolbox-1.0.0/RStoolbox/R/tasseledCap.R | 2 RStoolbox-1.0.0/RStoolbox/R/unsuperClass.R | 3 RStoolbox-1.0.0/RStoolbox/R/validateMap.R | 4 RStoolbox-1.0.0/RStoolbox/R/zzz.R | 18 RStoolbox-1.0.0/RStoolbox/README.md | 222 +++++++++- RStoolbox-1.0.0/RStoolbox/inst/external/sen2.rds |only RStoolbox-1.0.0/RStoolbox/inst/external/srtm_lsat.rds |only RStoolbox-1.0.0/RStoolbox/inst/external/srtm_sen2.rds |only RStoolbox-1.0.0/RStoolbox/inst/external/trainingPoints_rlogo.rds |only RStoolbox-1.0.0/RStoolbox/inst/external/trainingPolygons_lsat.rds |only RStoolbox-1.0.0/RStoolbox/inst/external/trainingPolygons_sen2.rds |only RStoolbox-1.0.0/RStoolbox/man/RStoolbox.Rd | 20 RStoolbox-1.0.0/RStoolbox/man/classifyQA.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/cloudMask.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/coregisterImages.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/estimateHaze.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/fCover.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/getValidation.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/ggR.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/ggRGB.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/histMatch.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/lsat.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/mesma.Rd | 83 ++- RStoolbox-1.0.0/RStoolbox/man/oneHotEncode.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/panSharpen.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/pifMatch.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/radCor.Rd | 1 RStoolbox-1.0.0/RStoolbox/man/rasterCVA.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/rasterEntropy.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/rasterPCA.Rd | 4 RStoolbox-1.0.0/RStoolbox/man/rescaleImage.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/rlogo.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/sam.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/sen2.Rd |only RStoolbox-1.0.0/RStoolbox/man/spectralIndices.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/srtm.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/srtm_sen2.Rd |only RStoolbox-1.0.0/RStoolbox/man/superClass.Rd | 3 RStoolbox-1.0.0/RStoolbox/man/tasseledCap.Rd | 2 RStoolbox-1.0.0/RStoolbox/man/validateMap.Rd | 4 RStoolbox-1.0.0/RStoolbox/tests/testthat/test-getValidation.R | 2 RStoolbox-1.0.0/RStoolbox/tests/testthat/test-ggplot.R | 8 RStoolbox-1.0.0/RStoolbox/tests/testthat/test-internalFunctions.R | 2 RStoolbox-1.0.0/RStoolbox/tests/testthat/test-mesma.R | 63 ++ RStoolbox-1.0.0/RStoolbox/tests/testthat/test-saveReadRSTBX.R | 2 RStoolbox-1.0.0/RStoolbox/tests/testthat/test-superClass.R | 16 RStoolbox-1.0.0/RStoolbox/tests/testthat/test-validateMap.R | 2 78 files changed, 662 insertions(+), 301 deletions(-)
Title: Cryptographic Hash and Extendable-Output Functions
Description: Fast and memory-efficient streaming hash functions. Performs direct
hashing of strings, raw bytes, and files potentially larger than memory, as
well as hashing in-memory objects through R's serialization mechanism,
without requiring allocation of the serialized object. Implementations
include the SHA-256, SHA-3 and 'Keccak' cryptographic hash functions,
SHAKE256 extendable-output function (XOF), and 'SipHash' pseudo-random
function. The SHA-3 Secure Hash Standard was published by the National
Institute of Standards and Technology (NIST) in 2015 at
<doi:10.6028/NIST.FIPS.202>. The SHA-256 Secure Hash Standard was published
by NIST in 2002 at
<https://csrc.nist.gov/publications/fips/fips180-2/fips180-2.pdf>.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between secretbase versions 0.4.0 dated 2024-04-04 and 0.5.0 dated 2024-04-25
DESCRIPTION | 17 +++-- MD5 | 32 +++++----- NAMESPACE | 2 NEWS.md | 6 ++ R/base.R | 135 ++++++++++++++++++++++++++++++++++++++-------- README.md | 33 ++++++----- man/keccak.Rd |only man/secretbase-package.Rd | 2 man/sha256.Rd | 29 +++++---- man/sha3.Rd | 47 +++++++--------- man/shake256.Rd |only man/siphash13.Rd | 35 ++++++----- src/init.c | 4 + src/secret.c | 84 ++++++++++++++++++++++++---- src/secret.h | 31 +++------- src/secret2.c | 4 - src/secret3.c | 4 - tests/tests.R | 23 +++++++ 18 files changed, 335 insertions(+), 153 deletions(-)
Title: Debug R Packages
Description: Specify debug messages as special string constants, and
control debugging of packages via environment variables.
Author: Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between debugme versions 1.1.0 dated 2017-10-22 and 1.2.0 dated 2024-04-25
debugme-1.1.0/debugme/inst |only debugme-1.2.0/debugme/DESCRIPTION | 26 ++++-- debugme-1.2.0/debugme/LICENSE | 4 debugme-1.2.0/debugme/MD5 | 39 +++++---- debugme-1.2.0/debugme/NEWS.md | 33 +++++++- debugme-1.2.0/debugme/R/colors.R | 40 +++++++++ debugme-1.2.0/debugme/R/compat-defer.R |only debugme-1.2.0/debugme/R/debug.R | 69 +++++++++++++---- debugme-1.2.0/debugme/R/debugme-package.R |only debugme-1.2.0/debugme/R/instrument.R | 37 ++++++--- debugme-1.2.0/debugme/R/package.R | 61 +++++++++++---- debugme-1.2.0/debugme/R/rematch.R |only debugme-1.2.0/debugme/README.md |only debugme-1.2.0/debugme/man/debug.Rd | 6 - debugme-1.2.0/debugme/man/debugme-package.Rd |only debugme-1.2.0/debugme/man/debugme.Rd | 54 +++++++++---- debugme-1.2.0/debugme/tests/testthat.R | 8 + debugme-1.2.0/debugme/tests/testthat/test-colors.R | 3 debugme-1.2.0/debugme/tests/testthat/test-debug.R | 12 -- debugme-1.2.0/debugme/tests/testthat/test-dynamic.R | 3 debugme-1.2.0/debugme/tests/testthat/test-instrument.R | 17 +++- debugme-1.2.0/debugme/tests/testthat/test-levels.R |only debugme-1.2.0/debugme/tests/testthat/test-package.R | 15 ++- 23 files changed, 315 insertions(+), 112 deletions(-)
Title: Interface for the 'Finnish Biodiversity Information Facility'
API
Description: A programmatic interface to the 'Finnish Biodiversity Information
Facility' ('FinBIF') API (<https://api.laji.fi>). 'FinBIF' aggregates
Finnish biodiversity data from multiple sources in a single open access
portal for researchers, citizen scientists, industry and government.
'FinBIF' allows users of biodiversity information to find, access, combine
and visualise data on Finnish plants, animals and microorganisms. The
'finbif' package makes the publicly available data in 'FinBIF' easily
accessible to programmers. Biodiversity information is available on taxonomy
and taxon occurrence. Occurrence data can be filtered by taxon, time,
location and other variables. The data accessed are conveniently
preformatted for subsequent analyses.
Author: Finnish Museum of Natural History - Luomus [cph],
William K. Morris [aut, cre]
Maintainer: William K. Morris <willi@mmorris.email>
Diff between finbif versions 0.9.5 dated 2024-03-15 and 0.9.6 dated 2024-04-25
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 12 ++++++++++++ R/finbif_occurrence.R | 8 +++++++- R/finbif_occurrence_load.R | 24 +++++++++++++++--------- R/finbif_records.R | 4 ++-- R/sysdata.rda |binary README.md | 2 +- inst/NEWS.Rd | 15 +++++++++++++++ tests/testthat/test-metadata.R | 2 +- 10 files changed, 65 insertions(+), 26 deletions(-)
Title: C++ Header Files for Stan
Description: The C++ header files of the Stan project are provided by this package, but it contains little R code or documentation. The main reference is the vignette. There is a shared object containing part of the 'CVODES' library, but its functionality is not accessible from R. 'StanHeaders' is primarily useful for developers who want to utilize the 'LinkingTo' directive of their package's DESCRIPTION file to build on the Stan library without incurring unnecessary dependencies. The Stan project develops a probabilistic programming language that implements full or approximate Bayesian statistical inference via Markov Chain Monte Carlo or 'variational' methods and implements (optionally penalized) maximum likelihood estimation via optimization. The Stan library includes an advanced automatic differentiation scheme, 'templated' statistical and linear algebra functions that can handle the automatically 'differentiable' scalar types (and doubles, 'ints', etc.), and a parser for the Stan language. The [...truncated...]
Author: Ben Goodrich [cre, aut],
Joshua Pritikin [ctb],
Andrew Gelman [aut],
Bob Carpenter [aut],
Matt Hoffman [aut],
Daniel Lee [aut],
Michael Betancourt [aut],
Marcus Brubaker [aut],
Jiqiang Guo [aut],
Peter Li [aut],
Allen Riddell [aut],
Marco Inacio [aut [...truncated...]
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>
Diff between StanHeaders versions 2.32.6 dated 2024-03-01 and 2.32.7 dated 2024-04-25
DESCRIPTION | 10 MD5 | 35 - inst/doc/stanmath.html | 6 inst/include/stan/math/memory/stack_alloc.hpp | 3 inst/include/stan/math/prim/fun/max.hpp | 2 inst/include/stan/math/prim/fun/min.hpp | 2 inst/include/stan/math/prim/fun/value_of.hpp | 24 - inst/include/stan/math/prim/meta/is_eigen_dense_base.hpp | 16 inst/include/stan/math/prim/meta/promote_scalar_type.hpp | 14 inst/include/stan/math/rev/core/arena_matrix.hpp | 308 ++++++++++++- inst/include/stan/math/rev/core/var.hpp | 12 inst/include/stan/math/rev/core/var_value_fwd_declare.hpp | 10 inst/include/stan/math/rev/core/vari.hpp | 48 +- inst/include/stan/math/rev/fun.hpp | 1 inst/include/stan/math/rev/fun/csr_matrix_times_vector.hpp | 104 ++-- inst/include/stan/math/rev/fun/to_soa_sparse_matrix.hpp |only inst/include/stan/math/rev/fun/to_var_value.hpp | 7 inst/include/stan/math/rev/meta/arena_type.hpp | 6 inst/include/stan/math/rev/meta/conditional_var_value.hpp | 2 19 files changed, 484 insertions(+), 126 deletions(-)
Title: Tools for Gaussian Process Modeling in Uncertainty
Quantification
Description: Gaussian processes ('GPs') have been widely used to model spatial data, 'spatio'-temporal data, and computer experiments in diverse areas of statistics including spatial statistics, 'spatio'-temporal statistics, uncertainty quantification, and machine learning. This package creates basic tools for fitting and prediction based on 'GPs' with spatial data, 'spatio'-temporal data, and computer experiments. Key characteristics for this GP tool include: (1) the comprehensive implementation of various covariance functions including the 'Matérn' family and the Confluent 'Hypergeometric' family with isotropic form, tensor form, and automatic relevance determination form, where the isotropic form is widely used in spatial statistics, the tensor form is widely used in design and analysis of computer experiments and uncertainty quantification, and the automatic relevance determination form is widely used in machine learning; (2) implementations via Markov chain Monte Carlo ('MCMC') algorithms and [...truncated...]
Author: Pulong Ma [aut, cre]
Maintainer: Pulong Ma <mpulong@gmail.com>
Diff between GPBayes versions 0.1.0-5.1 dated 2023-02-01 and 0.1.0-6 dated 2024-04-24
DESCRIPTION | 10 +- MD5 | 64 ++++++------- NAMESPACE | 1 R/AllClass.R | 4 R/GaSPUtils.R | 166 ++++++++++++++++++++++++++++++---- R/RcppExports.R | 19 ++- R/utils.R | 4 build |only configure | 18 +-- configure.ac | 2 inst/CITATION | 6 - inst/NEWS.Rd | 9 + man/CH.Rd | 7 - man/GPBayes-package.Rd | 4 man/GaSP.Rd | 2 man/cor.to.par.Rd | 4 man/deriv_kernel.Rd | 2 man/gp-class.Rd | 4 man/gp.Rd | 2 man/gp.condsim.Rd |only man/gp.fisher.Rd | 21 ++-- man/gp.model.adequacy.Rd | 2 man/gp.predict.Rd | 2 man/gp.sim.Rd | 2 man/ikernel.Rd | 2 man/kernel.Rd | 2 man/loglik.Rd | 2 src/RcppExports.cpp | 25 +++++ src/SPtool.cpp | 123 +++++++++++++++++++++++++ src/SPtool.h | 7 + src/UQtool.cpp | 226 ++++++++++++++++++++++++++++++++++++++++++++++- src/UQtool.h | 11 ++ src/utils.cpp | 7 - src/wrapper.cpp | 88 +++++++++++++++++- 34 files changed, 733 insertions(+), 115 deletions(-)
Title: Standard TLGs for Clinical Trials Reporting
Description: Provide standard tables, listings, and graphs (TLGs)
libraries used in clinical trials. This package implements a structure
to reformat the data with 'dunlin', create reporting tables using
'rtables' and 'tern' with standardized input arguments to enable quick
generation of standard outputs. In addition, it also provides
comprehensive data checks and script generation functionality.
Author: Liming Li [aut, cre],
Benoit Falquet [aut],
Xiaoli Duan [aut],
Adrian Waddell [ctb],
Chenkai Lv [ctb],
Pawel Rucki [ctb],
Tim Barnett [ctb],
Tian Fang [ctb],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Liming Li <liming.li@roche.com>
Diff between chevron versions 0.2.5 dated 2024-02-01 and 0.2.6 dated 2024-04-24
DESCRIPTION | 25 MD5 | 75 NEWS.md | 7 R/ael01_nollt.R | 18 R/dmt01.R | 1 R/fstg01.R | 5 R/fstg02.R | 5 R/kmg01.R | 26 R/mng01.R | 7 R/ttet01.R | 2 R/utils.R | 54 build/vignette.rds |binary data/syn_data.rda |binary inst/WORDLIST | 4 inst/doc/chevron.html | 423 - inst/doc/chevron_catalog.R | 60 inst/doc/chevron_catalog.html | 7394 ++++++++++++--------------- inst/doc/chevron_catalog.rmd | 65 inst/doc/script_generator.html | 237 man/ael01_nollt.Rd | 4 man/gg_list.Rd | 2 man/grob_list.Rd | 2 man/kmg01.Rd | 18 man/mng01.Rd | 2 tests/testthat/_snaps/ael01_nollt.md | 47 tests/testthat/_snaps/chevron_tlg-methods.md | 275 - tests/testthat/_snaps/lbt14.md | 551 -- tests/testthat/_snaps/rspt01.md | 533 - tests/testthat/setup-options.R |only tests/testthat/test-ael01_nollt.R | 33 tests/testthat/test-chevron_tlg-methods.R | 23 tests/testthat/test-dmt01.R | 14 tests/testthat/test-fstg01.R | 14 tests/testthat/test-fstg02.R | 16 tests/testthat/test-kmg01.R | 85 tests/testthat/test-lbt14.R | 40 tests/testthat/test-mng01.R | 188 tests/testthat/test-utils.R | 46 vignettes/chevron_catalog.rmd | 65 39 files changed, 4619 insertions(+), 5747 deletions(-)
Title: A Compilation of Applicability Domain Methods
Description: A modeling package compiling applicability domain methods in
R. It combines different methods to measure the amount of
extrapolation new samples can have from the training set. See Gadaleta
et al (2016) <doi:10.4018/IJQSPR.2016010102> for an overview of
applicability domains.
Author: Marly Gotti [aut, cre],
Max Kuhn [aut],
RStudio [cph]
Maintainer: Marly Gotti <marlygotti@gmail.com>
Diff between applicable versions 0.1.0 dated 2022-08-20 and 0.1.1 dated 2024-04-24
applicable-0.1.0/applicable/build/vignette.rds |only applicable-0.1.0/applicable/inst/doc |only applicable-0.1.0/applicable/vignettes |only applicable-0.1.1/applicable/DESCRIPTION | 27 +++--- applicable-0.1.1/applicable/MD5 | 39 +++------ applicable-0.1.1/applicable/R/data.R | 2 applicable-0.1.1/applicable/README.md | 40 +++------- applicable-0.1.1/applicable/build/partial.rdb |binary applicable-0.1.1/applicable/man/okc_binary.Rd | 2 applicable-0.1.1/applicable/tests/testthat/_snaps/hat_values-fit.md | 20 +++-- applicable-0.1.1/applicable/tests/testthat/_snaps/hat_values-score.md | 15 ++- applicable-0.1.1/applicable/tests/testthat/_snaps/isolation-fit.md | 4 - applicable-0.1.1/applicable/tests/testthat/_snaps/misc.md | 5 - applicable-0.1.1/applicable/tests/testthat/_snaps/pca-fit.md | 10 +- applicable-0.1.1/applicable/tests/testthat/_snaps/pca-score.md | 15 ++- applicable-0.1.1/applicable/tests/testthat/_snaps/similarity.md | 38 +++++---- applicable-0.1.1/applicable/tests/testthat/test-hat_values-fit.R | 1 applicable-0.1.1/applicable/tests/testthat/test-isolation-fit.R | 4 - applicable-0.1.1/applicable/tests/testthat/test-pca-fit.R | 1 19 files changed, 112 insertions(+), 111 deletions(-)
Title: Fast, Easy, and Visual Bayesian Inference
Description: Accelerate Bayesian analytics workflows in 'R' through interactive modelling,
visualization, and inference. Define probabilistic graphical models using directed
acyclic graphs (DAGs) as a unifying language for business stakeholders, statisticians,
and programmers. This package relies on interfacing with the 'numpyro' python package.
Author: Adam Fleischhacker [aut, cre, cph],
Daniela Dapena [ctb],
Rose Nguyen [ctb],
Jared Sharpe [ctb]
Maintainer: Adam Fleischhacker <ajf@udel.edu>
Diff between causact versions 0.5.4 dated 2024-02-24 and 0.5.5 dated 2024-04-24
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 3 +++ R/causact-package.R | 2 +- R/data.R | 6 +++--- R/install_causact_deps.R | 6 +++++- README.md | 20 ++++++++++---------- build/vignette.rds |binary man/figures/chimpsGraphPost-1.png |binary man/figures/gretaPost-1.png |binary man/houseDF.Rd | 2 +- man/houseDFDescr.Rd | 6 +++--- 12 files changed, 40 insertions(+), 33 deletions(-)
Title: Tools for 'CRAN'-Like Repositories
Description: A set of functions to manage 'CRAN'-like repositories
efficiently.
Author: Gabor Csardi
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between cranlike versions 1.0.2 dated 2018-11-26 and 1.0.3 dated 2024-04-24
DESCRIPTION | 9 ++++----- MD5 | 31 ++++++++++++++++--------------- NEWS.md | 13 ++++++++++--- R/cranlike.R | 31 ++++++++++++++++++++++--------- R/db.R | 34 ++++++++++++---------------------- R/parse.R | 3 +++ README.md | 15 ++++++++------- man/add_PACKAGES.Rd | 11 ++++++++--- man/cranlike.Rd | 10 +++++++++- man/create_empty_PACKAGES.Rd | 6 +++++- man/remove_PACKAGES.Rd | 5 +++-- man/update_PACKAGES.Rd | 21 +++++++++++++++------ tests/testthat/test-cranlike.R | 21 +++++++++++++-------- tests/testthat/test-db.R | 30 +++--------------------------- tests/testthat/test-edge-cases.R | 3 ++- tests/testthat/test-extra-cols.R |only tests/testthat/test-old.R | 4 ++-- 17 files changed, 135 insertions(+), 112 deletions(-)
Title: Clinical Data Review Tool
Description: Creation of interactive tables, listings and figures ('TLFs')
and associated report for exploratory analysis of data in a clinical trial,
e.g. for clinical oversight activities.
Interactive figures include sunburst, treemap, scatterplot, line plot and
barplot of counts data.
Interactive tables include table of summary statistics
(as counts of adverse events, enrollment table) and listings.
Possibility to compare data (summary table or listing) across two data batches/sets.
A clinical data review report is created via study-specific configuration
files and template 'R Markdown' reports contained in the package.
Author: Laure Cougnaud [aut, cre],
Michela Pasetto [aut],
Lennart Tuijnder [aut],
Adriaan Blommaert [aut],
Arne De Roeck [ctb, rev] ,
Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between clinDataReview versions 1.5.0 dated 2023-12-11 and 1.5.1 dated 2024-04-24
clinDataReview-1.5.0/clinDataReview/inst/skeleton/config/config-adverseEvents-all-countsVisualization.yml |only clinDataReview-1.5.1/clinDataReview/DESCRIPTION | 10 - clinDataReview-1.5.1/clinDataReview/MD5 | 65 +++---- clinDataReview-1.5.1/clinDataReview/R/reporting-render-html.R | 4 clinDataReview-1.5.1/clinDataReview/R/reporting-skeleton.R | 11 - clinDataReview-1.5.1/clinDataReview/build/vignette.rds |binary clinDataReview-1.5.1/clinDataReview/inst/NEWS | 11 + clinDataReview-1.5.1/clinDataReview/inst/doc/clinDataReview-dataPreprocessing.html | 20 +- clinDataReview-1.5.1/clinDataReview/inst/doc/clinDataReview-dataVisualization.html | 92 ++++------ clinDataReview-1.5.1/clinDataReview/inst/doc/clinDataReview-reporting.html | 36 +-- clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-adverseEvents-countsVisualization.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-adverseEvents-listing-comparison.yml | 9 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-adverseEvents-summaryTable-comparison.yml | 8 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-adverseEvents-summaryTable.yml | 8 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-adverseEvents-timeProfiles.yml | 10 - clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-alert-death.yml | 5 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-concomitantMedications-listing.yml | 4 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-cumulativeEnrollment.yml | 9 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-demographics-summaryTable.yml | 9 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-discontinuation-listing.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-efficacy-division.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-efficacy-errorBar.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-enrollment-countsVisualization.yml | 3 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-division.yml | 2 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-eDISH-ALT.yml | 6 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-errorBar.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-shiftPlot.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-spaghettiPlot-byVisit.yml | 22 +- clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-spaghettiPlot.yml | 18 + clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-laboratory-summaryBarplot.yml | 14 + clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-patientProfiles.yml | 2 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-subjectDisposition-division.yml | 2 clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-subjectVisits-summaryBarplot.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/config/config-summaryDisposition.yml |only clinDataReview-1.5.1/clinDataReview/inst/skeleton/index.Rmd | 2 clinDataReview-1.5.1/clinDataReview/inst/template/patientProfilesTemplate.Rmd | 2 clinDataReview-1.5.1/clinDataReview/tests/testthat/test_render_clinDataReviewReport.R | 8 clinDataReview-1.5.1/clinDataReview/tests/testthat/test_skeleton.R | 47 ++++- 38 files changed, 271 insertions(+), 168 deletions(-)
More information about clinDataReview at CRAN
Permanent link
Title: Create Rich Command Line Applications
Description: Create rich command line applications, with colors, headings,
lists, alerts, progress bars, etc. It uses CSS for custom themes.
This package is now superseded by the 'cli' package. Please use 'cli'
instead in new projects.
Author: Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between cliapp versions 0.1.1 dated 2020-10-07 and 0.1.2 dated 2024-04-24
cliapp-0.1.1/cliapp/man/cliapp.Rd |only cliapp-0.1.2/cliapp/DESCRIPTION | 21 ++++++++++++++------- cliapp-0.1.2/cliapp/LICENSE | 4 ++-- cliapp-0.1.2/cliapp/MD5 | 21 +++++++++++---------- cliapp-0.1.2/cliapp/NEWS.md | 3 +++ cliapp-0.1.2/cliapp/R/cliapp-package.R |only cliapp-0.1.2/cliapp/R/package.R | 23 ++--------------------- cliapp-0.1.2/cliapp/README.md | 29 ++++++++++++++++++++++++----- cliapp-0.1.2/cliapp/man/cliapp-package.Rd |only cliapp-0.1.2/cliapp/man/inline-markup.Rd | 18 ++++++++++++------ cliapp-0.1.2/cliapp/man/simple_theme.Rd | 10 ++++++---- cliapp-0.1.2/cliapp/man/start_app.Rd | 4 ++-- cliapp-0.1.2/cliapp/man/themes.Rd | 12 ++++++++---- 13 files changed, 84 insertions(+), 61 deletions(-)
Title: Optimized Integer Risk Score Models
Description: Implements an optimized approach to learning risk score models, where sparsity and integer constraints are integrated into the model-fitting process.
Author: Hannah Eglinton [aut, cre],
Alice Paul [aut, cph],
Oscar Yan [aut],
R Core Team [ctb, cph] ,
Robert Gentleman [ctb, cph] ,
Ross Ihaka [ctb, cph] ,
Simon Davies [ctb] ),
Thomas Lumley [ctb] )
Maintainer: Hannah Eglinton <eglintonh@gmail.com>
Diff between riskscores versions 1.1.0 dated 2024-04-16 and 1.1.1 dated 2024-04-24
riskscores-1.1.0/riskscores/src |only riskscores-1.1.1/riskscores/DESCRIPTION | 8 ++-- riskscores-1.1.1/riskscores/MD5 | 16 ++------ riskscores-1.1.1/riskscores/NAMESPACE | 1 riskscores-1.1.1/riskscores/R/risk_mod.R | 3 - riskscores-1.1.1/riskscores/R/utils.R | 35 ++++--------------- riskscores-1.1.1/riskscores/inst/doc/riskscores.html | 6 +-- 7 files changed, 21 insertions(+), 48 deletions(-)
Title: Basic R Input Output
Description: Functions to handle basic input output, these functions
always read and write UTF-8 (8-bit Unicode Transformation Format)
files and provide more explicit control over line endings.
Author: Jim Hester [aut] ,
Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between brio versions 1.1.4 dated 2023-12-10 and 1.1.5 dated 2024-04-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ src/read_lines.c | 19 ++++++++++++++----- 4 files changed, 24 insertions(+), 11 deletions(-)
Title: Statistical Inference in High Dimensional Regression
Description: The goal of SIHR is to provide inference procedures in the high-dimensional generalized linear regression setting for:
(1) linear functionals <doi:10.48550/arXiv.1904.12891> <doi:10.48550/arXiv.2012.07133>,
(2) conditional average treatment effects,
(3) quadratic functionals <doi:10.48550/arXiv.1909.01503>,
(4) inner product,
(5) distance.
Author: Zhenyu Wang [aut],
Prabrisha Rakshit [aut],
Tony Cai [aut],
Zijian Guo [aut, cre]
Maintainer: Zijian Guo <zijguo@stat.rutgers.edu>
Diff between SIHR versions 2.0.1 dated 2023-04-09 and 2.1.0 dated 2024-04-24
DESCRIPTION | 38 +- MD5 | 70 +++-- R/CATE.R | 104 +++---- R/Dist.R | 263 +++++++++---------- R/InnProd.R | 258 +++++++++--------- R/LF.R | 310 ++++++++-------------- R/Methods.R | 529 ++++++++++++++++++++------------------ R/QF.R | 312 ++++++++-------------- R/check.R | 251 ++++++++---------- R/helpers.R | 350 ++++++++++++++++--------- README.md | 593 ++++--------------------------------------- build |only inst |only man/CATE.Rd | 37 +- man/Dist.Rd | 86 +++--- man/InnProd.Rd | 82 +++-- man/LF.Rd | 28 -- man/QF.Rd | 26 - man/ci.CATE.Rd | 22 - man/ci.Dist.Rd | 13 man/ci.InnProd.Rd | 13 man/ci.LF.Rd | 22 - man/ci.QF.Rd | 22 - man/ci.Rd | 10 man/figures |only man/print.summary.Dist.Rd | 3 man/print.summary.InnProd.Rd | 3 man/summary.CATE.Rd | 7 man/summary.Dist.Rd | 7 man/summary.InnProd.Rd | 7 man/summary.LF.Rd | 7 man/summary.QF.Rd | 7 vignettes |only 33 files changed, 1514 insertions(+), 1966 deletions(-)
Title: Fast and Simple 'MongoDB' Client for R
Description: High-performance MongoDB client based on 'mongo-c-driver' and 'jsonlite'.
Includes support for aggregation, indexing, map-reduce, streaming, encryption,
enterprise authentication, and GridFS. The online user manual provides an overview
of the available methods in the package: <https://jeroen.github.io/mongolite/>.
Author: Jeroen Ooms [aut, cre] ,
MongoDB, Inc [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between mongolite versions 2.7.3 dated 2023-12-04 and 2.8.0 dated 2024-04-24
mongolite-2.7.3/mongolite/src/mongoc/mongoc-write-command-legacy-private.h |only mongolite-2.7.3/mongolite/src/mongoc/mongoc-write-command-legacy.c |only mongolite-2.7.3/mongolite/src/mongoc/op-compressed.def |only mongolite-2.7.3/mongolite/src/mongoc/op-delete.def |only mongolite-2.7.3/mongolite/src/mongoc/op-get-more.def |only mongolite-2.7.3/mongolite/src/mongoc/op-header.def |only mongolite-2.7.3/mongolite/src/mongoc/op-insert.def |only mongolite-2.7.3/mongolite/src/mongoc/op-kill-cursors.def |only mongolite-2.7.3/mongolite/src/mongoc/op-msg.def |only mongolite-2.7.3/mongolite/src/mongoc/op-query.def |only mongolite-2.7.3/mongolite/src/mongoc/op-reply-header.def |only mongolite-2.7.3/mongolite/src/mongoc/op-reply.def |only mongolite-2.7.3/mongolite/src/mongoc/op-update.def |only mongolite-2.8.0/mongolite/DESCRIPTION | 13 mongolite-2.8.0/mongolite/MD5 | 455 +- mongolite-2.8.0/mongolite/NEWS | 3 mongolite-2.8.0/mongolite/configure | 2 mongolite-2.8.0/mongolite/src/Makevars.in | 9 mongolite-2.8.0/mongolite/src/Makevars.win | 14 mongolite-2.8.0/mongolite/src/bson/bcon.c | 2 mongolite-2.8.0/mongolite/src/bson/bcon.h | 2 mongolite-2.8.0/mongolite/src/bson/bson-atomic.c | 6 mongolite-2.8.0/mongolite/src/bson/bson-atomic.h | 16 mongolite-2.8.0/mongolite/src/bson/bson-clock.c | 29 mongolite-2.8.0/mongolite/src/bson/bson-clock.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-cmp.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-compat.h | 140 mongolite-2.8.0/mongolite/src/bson/bson-context-private.h | 4 mongolite-2.8.0/mongolite/src/bson/bson-context.c | 16 mongolite-2.8.0/mongolite/src/bson/bson-context.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-decimal128.c | 42 mongolite-2.8.0/mongolite/src/bson/bson-decimal128.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-endian.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-error.c | 85 mongolite-2.8.0/mongolite/src/bson/bson-error.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-iso8601-private.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-iso8601.c | 12 mongolite-2.8.0/mongolite/src/bson/bson-iter.c | 15 mongolite-2.8.0/mongolite/src/bson/bson-iter.h | 50 mongolite-2.8.0/mongolite/src/bson/bson-json-private.h | 3 mongolite-2.8.0/mongolite/src/bson/bson-json.c | 73 mongolite-2.8.0/mongolite/src/bson/bson-json.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-keys.c | 9 mongolite-2.8.0/mongolite/src/bson/bson-keys.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-macros.h | 35 mongolite-2.8.0/mongolite/src/bson/bson-md5.c | 4 mongolite-2.8.0/mongolite/src/bson/bson-md5.h | 4 mongolite-2.8.0/mongolite/src/bson/bson-memory.c | 13 mongolite-2.8.0/mongolite/src/bson/bson-memory.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-oid.c | 10 mongolite-2.8.0/mongolite/src/bson/bson-oid.h | 14 mongolite-2.8.0/mongolite/src/bson/bson-private.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-reader.c | 4 mongolite-2.8.0/mongolite/src/bson/bson-reader.h | 8 mongolite-2.8.0/mongolite/src/bson/bson-string.c | 23 mongolite-2.8.0/mongolite/src/bson/bson-string.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-timegm-private.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-timegm.c | 172 - mongolite-2.8.0/mongolite/src/bson/bson-types.h | 13 mongolite-2.8.0/mongolite/src/bson/bson-utf8.c | 10 mongolite-2.8.0/mongolite/src/bson/bson-utf8.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-value.c | 11 mongolite-2.8.0/mongolite/src/bson/bson-value.h | 6 mongolite-2.8.0/mongolite/src/bson/bson-version-functions.c | 4 mongolite-2.8.0/mongolite/src/bson/bson-version-functions.h | 4 mongolite-2.8.0/mongolite/src/bson/bson-version.h | 13 mongolite-2.8.0/mongolite/src/bson/bson-writer.c | 4 mongolite-2.8.0/mongolite/src/bson/bson-writer.h | 2 mongolite-2.8.0/mongolite/src/bson/bson.c | 469 ++ mongolite-2.8.0/mongolite/src/bson/bson.h | 273 + mongolite-2.8.0/mongolite/src/common/bson-dsl.h |only mongolite-2.8.0/mongolite/src/common/common-prelude.h | 3 mongolite-2.8.0/mongolite/src/common/common-thread-private.h | 81 mongolite-2.8.0/mongolite/src/common/common-thread.c | 11 mongolite-2.8.0/mongolite/src/kms/hexlify.c | 28 mongolite-2.8.0/mongolite/src/kms/hexlify.h | 3 mongolite-2.8.0/mongolite/src/kms/kms_azure_request.c |only mongolite-2.8.0/mongolite/src/kms/kms_b64.c | 189 + mongolite-2.8.0/mongolite/src/kms/kms_caller_identity_request.c | 5 mongolite-2.8.0/mongolite/src/kms/kms_crypto.h | 16 mongolite-2.8.0/mongolite/src/kms/kms_crypto_apple.c | 102 mongolite-2.8.0/mongolite/src/kms/kms_crypto_libcrypto.c | 50 mongolite-2.8.0/mongolite/src/kms/kms_crypto_none.c | 15 mongolite-2.8.0/mongolite/src/kms/kms_crypto_windows.c | 136 mongolite-2.8.0/mongolite/src/kms/kms_decrypt_request.c | 5 mongolite-2.8.0/mongolite/src/kms/kms_encrypt_request.c | 5 mongolite-2.8.0/mongolite/src/kms/kms_endian_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_gcp_request.c |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_item_type_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_reader_writer.c |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_reader_writer_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_request.c |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_response.c |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_response_parser.c |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_response_parser_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_result_reason_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_result_status_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_kmip_tag_type_private.h |only mongolite-2.8.0/mongolite/src/kms/kms_message/kms_azure_request.h |only mongolite-2.8.0/mongolite/src/kms/kms_message/kms_b64.h | 25 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_caller_identity_request.h | 4 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_decrypt_request.h | 4 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_encrypt_request.h | 4 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_gcp_request.h |only mongolite-2.8.0/mongolite/src/kms/kms_message/kms_kmip_request.h |only mongolite-2.8.0/mongolite/src/kms/kms_message/kms_kmip_response.h |only mongolite-2.8.0/mongolite/src/kms/kms_message/kms_kmip_response_parser.h |only mongolite-2.8.0/mongolite/src/kms/kms_message/kms_message.h | 3 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_message_defines.h | 6 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_request.h | 21 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_request_opt.h | 24 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_response.h | 13 mongolite-2.8.0/mongolite/src/kms/kms_message/kms_response_parser.h | 10 mongolite-2.8.0/mongolite/src/kms/kms_message_private.h | 63 mongolite-2.8.0/mongolite/src/kms/kms_port.c | 4 mongolite-2.8.0/mongolite/src/kms/kms_port.h | 2 mongolite-2.8.0/mongolite/src/kms/kms_request.c | 190 + mongolite-2.8.0/mongolite/src/kms/kms_request_opt.c | 29 mongolite-2.8.0/mongolite/src/kms/kms_request_opt_private.h | 1 mongolite-2.8.0/mongolite/src/kms/kms_request_str.c | 22 mongolite-2.8.0/mongolite/src/kms/kms_request_str.h | 2 mongolite-2.8.0/mongolite/src/kms/kms_response.c | 14 mongolite-2.8.0/mongolite/src/kms/kms_response_parser.c | 111 mongolite-2.8.0/mongolite/src/mongoc/mcd-azure.c |only mongolite-2.8.0/mongolite/src/mongoc/mcd-azure.h |only mongolite-2.8.0/mongolite/src/mongoc/mcd-integer.h |only mongolite-2.8.0/mongolite/src/mongoc/mcd-rpc.c |only mongolite-2.8.0/mongolite/src/mongoc/mcd-rpc.h |only mongolite-2.8.0/mongolite/src/mongoc/mcd-time.h |only mongolite-2.8.0/mongolite/src/mongoc/mongoc-aggregate.c | 127 mongolite-2.8.0/mongolite/src/mongoc/mongoc-apm.c | 43 mongolite-2.8.0/mongolite/src/mongoc/mongoc-apm.h | 19 mongolite-2.8.0/mongolite/src/mongoc/mongoc-async-cmd-private.h | 8 mongolite-2.8.0/mongolite/src/mongoc/mongoc-async-cmd.c | 135 mongolite-2.8.0/mongolite/src/mongoc/mongoc-buffer-private.h | 6 mongolite-2.8.0/mongolite/src/mongoc/mongoc-buffer.c | 116 mongolite-2.8.0/mongolite/src/mongoc/mongoc-bulk-operation.c | 8 mongolite-2.8.0/mongolite/src/mongoc/mongoc-change-stream-private.h | 1 mongolite-2.8.0/mongolite/src/mongoc/mongoc-change-stream.c | 39 mongolite-2.8.0/mongolite/src/mongoc/mongoc-client-pool.c | 33 mongolite-2.8.0/mongolite/src/mongoc/mongoc-client-private.h | 57 mongolite-2.8.0/mongolite/src/mongoc/mongoc-client-session.c | 22 mongolite-2.8.0/mongolite/src/mongoc/mongoc-client-side-encryption-private.h | 44 mongolite-2.8.0/mongolite/src/mongoc/mongoc-client-side-encryption.c | 548 +++ mongolite-2.8.0/mongolite/src/mongoc/mongoc-client-side-encryption.h | 59 mongolite-2.8.0/mongolite/src/mongoc/mongoc-client.c | 374 +- mongolite-2.8.0/mongolite/src/mongoc/mongoc-cluster-aws-private.h | 92 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cluster-aws.c | 606 +++ mongolite-2.8.0/mongolite/src/mongoc/mongoc-cluster-private.h | 64 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cluster-sspi.c | 6 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cluster.c | 1608 ++++++---- mongolite-2.8.0/mongolite/src/mongoc/mongoc-cmd-private.h | 7 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cmd.c | 101 mongolite-2.8.0/mongolite/src/mongoc/mongoc-collection.c | 448 +- mongolite-2.8.0/mongolite/src/mongoc/mongoc-collection.h | 17 mongolite-2.8.0/mongolite/src/mongoc/mongoc-compression.c | 26 mongolite-2.8.0/mongolite/src/mongoc/mongoc-config.h | 19 mongolite-2.8.0/mongolite/src/mongoc/mongoc-counters-private.h | 25 mongolite-2.8.0/mongolite/src/mongoc/mongoc-counters.c | 18 mongolite-2.8.0/mongolite/src/mongoc/mongoc-crypt-private.h | 47 mongolite-2.8.0/mongolite/src/mongoc/mongoc-crypt.c | 580 +++ mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-array.c | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-change-stream.c | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-cmd-deprecated.c | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-cmd.c | 35 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-find.c | 11 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-legacy.c | 351 +- mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor-private.h | 6 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cursor.c | 269 - mongolite-2.8.0/mongolite/src/mongoc/mongoc-cyrus-private.h | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-cyrus.c | 148 mongolite-2.8.0/mongolite/src/mongoc/mongoc-database-private.h | 33 mongolite-2.8.0/mongolite/src/mongoc/mongoc-database.c | 174 - mongolite-2.8.0/mongolite/src/mongoc/mongoc-deprioritized-servers-private.h |only mongolite-2.8.0/mongolite/src/mongoc/mongoc-deprioritized-servers.c |only mongolite-2.8.0/mongolite/src/mongoc/mongoc-error-private.h | 14 mongolite-2.8.0/mongolite/src/mongoc/mongoc-error.c | 78 mongolite-2.8.0/mongolite/src/mongoc/mongoc-error.h | 9 mongolite-2.8.0/mongolite/src/mongoc/mongoc-flags.c |only mongolite-2.8.0/mongolite/src/mongoc/mongoc-gridfs-bucket-file-private.h | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-gridfs-bucket-file.c | 89 mongolite-2.8.0/mongolite/src/mongoc/mongoc-gridfs-bucket.c | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-gridfs-file.c | 73 mongolite-2.8.0/mongolite/src/mongoc/mongoc-gridfs.c | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-handshake-private.h | 93 mongolite-2.8.0/mongolite/src/mongoc/mongoc-handshake.c | 375 +- mongolite-2.8.0/mongolite/src/mongoc/mongoc-host-list-private.h | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-host-list.c | 47 mongolite-2.8.0/mongolite/src/mongoc/mongoc-http-private.h | 47 mongolite-2.8.0/mongolite/src/mongoc/mongoc-http.c | 181 - mongolite-2.8.0/mongolite/src/mongoc/mongoc-init.c | 13 mongolite-2.8.0/mongolite/src/mongoc/mongoc-linux-distro-scanner.c | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-log.c | 29 mongolite-2.8.0/mongolite/src/mongoc/mongoc-macros.h | 9 mongolite-2.8.0/mongolite/src/mongoc/mongoc-matcher-op.c | 21 mongolite-2.8.0/mongolite/src/mongoc/mongoc-matcher.c | 4 mongolite-2.8.0/mongolite/src/mongoc/mongoc-opcode.c |only mongolite-2.8.0/mongolite/src/mongoc/mongoc-openssl.c | 3 mongolite-2.8.0/mongolite/src/mongoc/mongoc-opts-helpers.c | 4 mongolite-2.8.0/mongolite/src/mongoc/mongoc-opts-private.h | 24 mongolite-2.8.0/mongolite/src/mongoc/mongoc-opts.c | 199 + mongolite-2.8.0/mongolite/src/mongoc/mongoc-rand-openssl.c | 1 mongolite-2.8.0/mongolite/src/mongoc/mongoc-read-prefs-private.h | 4 mongolite-2.8.0/mongolite/src/mongoc/mongoc-read-prefs.c | 6 mongolite-2.8.0/mongolite/src/mongoc/mongoc-rpc-private.h | 164 - mongolite-2.8.0/mongolite/src/mongoc/mongoc-rpc.c | 1281 +------ mongolite-2.8.0/mongolite/src/mongoc/mongoc-scram-private.h | 352 ++ mongolite-2.8.0/mongolite/src/mongoc/mongoc-scram.c | 797 +++- mongolite-2.8.0/mongolite/src/mongoc/mongoc-secure-channel-private.h | 11 mongolite-2.8.0/mongolite/src/mongoc/mongoc-secure-channel.c | 43 mongolite-2.8.0/mongolite/src/mongoc/mongoc-secure-transport.c | 4 mongolite-2.8.0/mongolite/src/mongoc/mongoc-server-description-private.h | 6 mongolite-2.8.0/mongolite/src/mongoc/mongoc-server-description.c | 87 mongolite-2.8.0/mongolite/src/mongoc/mongoc-server-monitor.c | 495 +-- mongolite-2.8.0/mongolite/src/mongoc/mongoc-server-stream-private.h | 14 mongolite-2.8.0/mongolite/src/mongoc/mongoc-server-stream.c | 1 mongolite-2.8.0/mongolite/src/mongoc/mongoc-set-private.h | 10 mongolite-2.8.0/mongolite/src/mongoc/mongoc-set.c | 35 mongolite-2.8.0/mongolite/src/mongoc/mongoc-shared.c | 30 mongolite-2.8.0/mongolite/src/mongoc/mongoc-sleep.h |only mongolite-2.8.0/mongolite/src/mongoc/mongoc-socket.c | 33 mongolite-2.8.0/mongolite/src/mongoc/mongoc-sspi.c | 44 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-file.c | 22 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-private.h | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-socket.c | 5 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-bio.c | 50 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-tls-openssl.c | 28 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-tls-private.h | 2 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel.c | 16 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream-tls.c | 14 mongolite-2.8.0/mongolite/src/mongoc/mongoc-stream.c | 32 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-background-monitoring.c | 38 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-description-apm.c | 5 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-description-private.h | 11 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-description.c | 314 + mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-private.h | 17 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-scanner-private.h | 8 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology-scanner.c | 103 mongolite-2.8.0/mongolite/src/mongoc/mongoc-topology.c | 250 - mongolite-2.8.0/mongolite/src/mongoc/mongoc-uri.c | 247 - mongolite-2.8.0/mongolite/src/mongoc/mongoc-util-private.h | 40 mongolite-2.8.0/mongolite/src/mongoc/mongoc-util.c | 221 + mongolite-2.8.0/mongolite/src/mongoc/mongoc-version.h | 13 mongolite-2.8.0/mongolite/src/mongoc/mongoc-write-command-private.h | 30 mongolite-2.8.0/mongolite/src/mongoc/mongoc-write-command.c | 845 +---- mongolite-2.8.0/mongolite/src/mongoc/mongoc.h | 1 mongolite-2.8.0/mongolite/src/mongoc/service-gcp.c |only mongolite-2.8.0/mongolite/src/mongoc/service-gcp.h |only mongolite-2.8.0/mongolite/src/osx/Makevars | 12 mongolite-2.8.0/mongolite/src/utf8proc |only 250 files changed, 10882 insertions(+), 5915 deletions(-)
Title: Extensible Style-Sheet Language Transformations
Description: An extension for the 'xml2' package to transform XML documents
by applying an 'xslt' style-sheet.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between xslt versions 1.4.4 dated 2023-02-21 and 1.4.5 dated 2024-04-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 3 +++ src/xslt_init.cpp | 6 +++++- 4 files changed, 14 insertions(+), 7 deletions(-)
Title: GSL Multi-Start Nonlinear Least-Squares Fitting
Description: An R interface to nonlinear least-squares optimization with the GNU Scientific Library (GSL), see M. Galassi et al. (2009, ISBN:0954612078). The available trust region methods include the Levenberg-Marquardt algorithm with and without geodesic acceleration, the Steihaug-Toint conjugate gradient algorithm for large systems and several variants of Powell's dogleg algorithm. Multi-start optimization based on quasi-random samples is implemented using a modified version of the algorithm in Hickernell and Yuan (1997, OR Transactions). Bindings are provided to tune a number of parameters affecting the low-level aspects of the trust region algorithms. The interface mimics R's nls() function and returns model objects inheriting from the same class.
Author: Joris Chau [aut, cre]
Maintainer: Joris Chau <joris.chau@openanalytics.eu>
Diff between gslnls versions 1.2.0 dated 2023-12-11 and 1.3.0 dated 2024-04-24
gslnls-1.2.0/gslnls/src/Makevars.ucrt |only gslnls-1.2.0/gslnls/src/Makevars.win |only gslnls-1.2.0/gslnls/tools |only gslnls-1.3.0/gslnls/DESCRIPTION | 13 gslnls-1.3.0/gslnls/MD5 | 77 gslnls-1.3.0/gslnls/NEWS.md | 12 gslnls-1.3.0/gslnls/R/nls.R | 439 ++- gslnls-1.3.0/gslnls/R/nls_large.R | 12 gslnls-1.3.0/gslnls/R/nls_methods.R | 39 gslnls-1.3.0/gslnls/R/nls_test.R | 229 + gslnls-1.3.0/gslnls/cleanup.win |only gslnls-1.3.0/gslnls/configure | 2073 +++++++++++----- gslnls-1.3.0/gslnls/configure.ac | 21 gslnls-1.3.0/gslnls/configure.win |only gslnls-1.3.0/gslnls/inst/unit_tests/unit_tests_gslnls.R | 271 +- gslnls-1.3.0/gslnls/man/anova.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/coef.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/confint.gsl_nls.Rd | 4 gslnls-1.3.0/gslnls/man/confintd.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/deviance.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/df.residual.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/fitted.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/formula.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/gsl_nls.Rd | 108 gslnls-1.3.0/gslnls/man/gsl_nls_control.Rd | 38 gslnls-1.3.0/gslnls/man/gsl_nls_large.Rd | 12 gslnls-1.3.0/gslnls/man/logLik.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/nls_test_list.Rd | 6 gslnls-1.3.0/gslnls/man/nls_test_problem.Rd | 5 gslnls-1.3.0/gslnls/man/nobs.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/predict.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/residuals.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/sigma.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/summary.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/man/vcov.gsl_nls.Rd | 2 gslnls-1.3.0/gslnls/src/Makevars.win.in |only gslnls-1.3.0/gslnls/src/gsl_nls.h | 96 gslnls-1.3.0/gslnls/src/init.c | 4 gslnls-1.3.0/gslnls/src/nls.c | 531 +++- gslnls-1.3.0/gslnls/src/nls_large.c | 139 + gslnls-1.3.0/gslnls/src/nls_test.c | 6 gslnls-1.3.0/gslnls/src/test_nls.f90 | 6 gslnls-1.3.0/gslnls/src/trust.c |only 43 files changed, 3008 insertions(+), 1161 deletions(-)
Title: Geometrically Designed Spline Regression
Description: Spline Regression, Generalized Additive Models, and Component-wise Gradient
Boosting, utilizing Geometrically Designed (GeD) Splines. GeDS regression is a
non-parametric method inspired by geometric principles, for fitting spline regression
models with variable knots in one or two independent variables. It efficiently estimates
the number of knots and their positions, as well as the spline order, assuming the
response variable follows a distribution from the exponential family. GeDS models
integrate the broader category of Generalized (Non-)Linear Models, offering a flexible
approach to modeling complex relationships. A description of the method can be found in
Kaishev et al. (2016) <doi:10.1007/s00180-015-0621-7> and Dimitrova et al. (2023)
<doi:10.1016/j.amc.2022.127493>. Further extending its capabilities, GeDS's implementation
includes Generalized Additive Models (GAM) and Functional Gradient Boosting (FGB),
enabling versatile multivariate predictor modeling, as discuss [...truncated...]
Author: Dimitrina S. Dimitrova <D.Dimitrova@city.ac.uk>,
Emilio S. Guillen <Emilio.Saenz-Guillen@bayes.city.ac.uk>,
Vladimir K. Kaishev <V.Kaishev@city.ac.uk>,
Andrea Lattuada <andrea.lattuada@hotmail.com> and
Richard J. Verrall <R.J.Verrall@city.ac.uk>
Maintainer: Emilio S. Guillen <Emilio.Saenz-Guillen@bayes.city.ac.uk>
Diff between GeDS versions 0.2.1 dated 2024-04-11 and 0.2.2 dated 2024-04-24
DESCRIPTION | 10 +-- MD5 | 34 ++++++----- NAMESPACE | 8 ++ R/BivariateFitter.R | 78 ++++++++++++++++---------- R/GGeDS.R | 9 ++- R/NGeDS.R | 9 ++- R/NGeDSboost.R | 38 ++++++------ R/NGeDSgam.R | 11 ++- R/S3methods_GeDSboost-GeDSgam.R | 93 ++++++++++++++++++------------- R/UnivariateFitter.R | 120 +++++++++++++++++++++++----------------- R/cv_GeDSMethod.R |only R/helpers_NGeDSboost-NGeDSgam.R | 61 +++++++++----------- R/plot_GeDSMethod.R | 11 +++ R/read.formula.R | 20 +++++- man/BivariateFitters.Rd | 10 ++- man/GGeDS.Rd | 7 ++ man/NGeDS.Rd | 7 ++ man/UnivariateFitters.Rd | 10 ++- man/crossv_GeDS.Rd |only 19 files changed, 321 insertions(+), 215 deletions(-)
Title: Use TauDEM
Description: Simple trustworthy utility functions to use TauDEM
(Terrain Analysis Using Digital Elevation Models <https://hydrology.usu.edu/taudem/taudem5/>) command-line interface.
This package provides a guide to installation of TauDEM and its dependencies GDAL (Geopatial Data Abstraction Library)
and MPI (Message Passing Interface) for different operating systems.
Moreover, it checks that TauDEM and its dependencies are correctly installed and included to the PATH,
and it provides wrapper commands for calling TauDEM methods from R.
Author: Luca Carraro [cre, aut],
University of Zurich [cph, fnd],
Maelle Salmon [aut] ,
Wael Sadek [aut],
Kirill Mueller [aut]
Maintainer: Luca Carraro <Luca.Carraro@eawag.ch>
Diff between traudem versions 1.0.2 dated 2024-02-06 and 1.0.3 dated 2024-04-24
DESCRIPTION | 7 - MD5 | 16 +- NEWS.md | 4 R/aread8.R | 190 +++++++++++++++++----------------- R/d8flowdir.R | 130 +++++++++++------------ R/moveoutletstostrm.R | 188 ++++++++++++++++----------------- R/pitremove.R | 134 ++++++++++++------------ R/taudem-exec.R | 277 +++++++++++++++++++++++++------------------------- R/threshold.R | 144 ++++++++++++------------- 9 files changed, 550 insertions(+), 540 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to safely and efficiently organize and execute
Monte Carlo simulation experiments in R.
The package controls the structure and back-end of Monte Carlo simulation experiments
by utilizing a generate-analyse-summarise workflow. The workflow safeguards against
common simulation coding issues, such as automatically re-simulating non-convergent results,
prevents inadvertently overwriting simulation files, catches error and warning messages
during execution, implicitly supports parallel processing with high-quality random number
generation, and provides tools for managing high-performance computing (HPC) array jobs
submitted to schedulers such as SLURM. For a pedagogical introduction to the package see
Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>. For a more in-depth overview of
the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] ,
Matthew Sigal [ctb],
Ogreden Oguzhan [ctb],
Mikko Ronkko [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 2.15 dated 2024-04-11 and 2.15.1 dated 2024-04-24
DESCRIPTION | 10 - MD5 | 50 +++---- NEWS.md | 13 + R/SimDesign.R | 4 R/analysis.R | 28 ++-- R/runSimulation.R | 126 +++++++++++-------- R/summary_functions.R | 8 + build/vignette.rds |binary inst/doc/Catch_errors.html | 16 +- inst/doc/Fixed_obj_fun.html | 10 - inst/doc/HPC-computing.R | 76 +++++++++-- inst/doc/HPC-computing.Rmd | 206 ++++++++++++++++++++++--------- inst/doc/HPC-computing.html | 257 ++++++++++++++++++++++++++------------- inst/doc/MultipleAnalyses.html | 4 inst/doc/Parallel-computing.R | 9 - inst/doc/Parallel-computing.Rmd | 38 ----- inst/doc/Parallel-computing.html | 28 +--- inst/doc/Saving-results.html | 8 - inst/doc/SimDesign-intro.html | 16 +- man/SimDesign.Rd | 4 man/bias.Rd | 8 + man/runSimulation.Rd | 59 ++++---- tests/tests/mpi/simulation.R | 19 +- tests/tests/test-03-array.R | 25 +++ vignettes/HPC-computing.Rmd | 206 ++++++++++++++++++++++--------- vignettes/Parallel-computing.Rmd | 38 ----- 26 files changed, 795 insertions(+), 471 deletions(-)
Title: Custom Inputs Widgets for Shiny
Description: Collection of custom input controls and user interface components for 'Shiny' applications.
Give your applications a unique and colorful style !
Author: Victor Perrier [aut, cre, cph],
Fanny Meyer [aut],
David Granjon [aut],
Ian Fellows [ctb] ,
Wil Davis [ctb] ,
Spencer Matthews [ctb] ,
JavaScript and CSS libraries authors [ctb, cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between shinyWidgets versions 0.8.5 dated 2024-04-17 and 0.8.6 dated 2024-04-24
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ README.md | 22 ++++++++++++++++++++++ inst/packer/air-datepicker.js | 2 +- inst/packer/virtual-select.js | 2 +- inst/packer/virtual-select.js.LICENSE.txt | 2 +- 7 files changed, 41 insertions(+), 12 deletions(-)
Title: '2bit' 'C' Library
Description: A trimmed down copy of the "kent-core source tree"
turned into a 'C' library for manipulation of '.2bit' files.
See <https://genome.ucsc.edu/FAQ/FAQformat.html#format7>
for a quick overview of the '2bit' format. The "kent-core source tree"
can be found here: <https://github.com/ucscGenomeBrowser/kent-core/>.
Only the '.c' and '.h' files from the source tree that are related
to manipulation of '.2bit' files were kept. Note that the package
is primarily useful to developers of other R packages who wish
to use the '2bit' 'C' library in their own 'C'/'C++' code.
Author: Herve Pages [aut, cre],
UC Regents [cph]
Maintainer: Herve Pages <hpages.on.github@gmail.com>
Diff between Rtwobitlib versions 0.3.5 dated 2024-04-22 and 0.3.6 dated 2024-04-24
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- inst/doc/Rtwobitlib.Rmd | 4 ++-- inst/doc/Rtwobitlib.html | 4 ++-- src/Makevars | 17 +++++++---------- src/Makevars.common | 28 +++++++++++++++------------- src/Makevars.win | 6 +++--- src/kent/Makefile.Rtwobitlib | 33 ++++++++++++++++++++++----------- src/kent/Makefile.Rtwobitlib.win | 28 +++++++++++++++++----------- vignettes/Rtwobitlib.Rmd | 4 ++-- 10 files changed, 82 insertions(+), 66 deletions(-)
Title: 'LuaJIT' Scripting
Description: An interface to 'LuaJIT' <https://luajit.org>, a just-in-time
compiler for the 'Lua' scripting language <https://www.lua.org>. Allows
users to run 'Lua' code from 'R'.
Author: Mike Pall [aut, cph] ,
Lua.org, PUC-Rio [cph] ,
Nicholas Davies [cre, ctb, cph]
Maintainer: Nicholas Davies <nicholas.davies@lshtm.ac.uk>
Diff between luajr versions 0.1.6 dated 2024-02-23 and 0.1.7 dated 2024-04-24
DESCRIPTION | 6 - MD5 | 72 +++++++++---------- NEWS.md | 24 ++++++ R/lua_func.R | 14 ++- inst/doc/luajr.R | 6 - inst/doc/luajr.Rmd | 18 +++- inst/doc/luajr.html | 28 ++++--- inst/include/luajr_luajit.h | 4 - man/lua_func.Rd | 14 ++- src/Makevars.in | 2 src/lua_api.cpp | 14 +-- src/luajit/dynasm/dasm_x86.h | 35 ++------- src/luajit/src/jit/bcsave.lua | 155 ++++++++--------------------------------- src/luajit/src/jit/dump.lua | 7 + src/luajit/src/jit/v.lua | 9 +- src/luajit/src/lib_ffi.c | 20 ----- src/luajit/src/lj_alloc.c | 2 src/luajit/src/lj_api.c | 1 src/luajit/src/lj_arch.h | 2 src/luajit/src/lj_asm_arm64.h | 2 src/luajit/src/lj_cdata.c | 2 src/luajit/src/lj_ctype.c | 12 +++ src/luajit/src/lj_ctype.h | 2 src/luajit/src/lj_ffrecord.c | 23 ++++-- src/luajit/src/lj_gc.c | 38 ++++------ src/luajit/src/lj_obj.h | 3 src/luajit/src/lj_record.c | 12 ++- src/luajit/src/lj_state.c | 3 src/luajit/src/lj_traceerr.h | 2 src/luajit/src/msvcbuild.bat | 20 +++-- src/luajit_build.h | 4 - src/parallel.cpp | 4 - src/push_to.cpp | 47 +++++++++--- src/setup.cpp | 2 tests/testthat/test-lua_func.R | 2 tools/luajit_relver.txt | 2 vignettes/luajr.Rmd | 18 +++- 37 files changed, 323 insertions(+), 308 deletions(-)
Title: Acceptance-Rejection Method for Generating Pseudo-Random
Observations
Description: Provides a function that implements the acceptance-rejection method in an optimized manner to generate pseudo-random observations for discrete or continuous random variables. The function is optimized to work in parallel on Unix-based operating systems and performs well on Windows systems. The acceptance-rejection method implemented optimizes the probability of generating observations from the desired random variable, by simply providing the probability function or probability density function, in the discrete and continuous cases, respectively. Implementation is based on references CASELLA, George at al. (2004) <https://www.jstor.org/stable/4356322>, NEAL, Radford M. (2003) <https://www.jstor.org/stable/3448413> and Bishop, Christopher M. (2006, ISBN: 978-0387310732).
Author: Pedro Rafael D. Marinho [aut, cre]
,
Vera Lucia Damasceno Tomazella [aut]
Maintainer: Pedro Rafael D. Marinho <pedro.rafael.marinho@gmail.com>
Diff between AcceptReject versions 0.1.0 dated 2024-04-11 and 0.1.1 dated 2024-04-24
DESCRIPTION | 16 - MD5 | 47 +++- NAMESPACE | 18 + NEWS.md | 22 ++ R/RcppExports.R |only R/accept_reject.r | 209 +++++++++++++-------- R/plot.r | 105 +++++----- R/plot_inspect.r |only R/print.r | 23 +- README.md | 173 +++++++++++++++-- build/vignette.rds |binary inst/doc/accept_reject.R | 50 ++--- inst/doc/accept_reject.Rmd | 50 ++--- inst/doc/accept_reject.html | 307 ++++++++++++++++--------------- inst/doc/inspect.R |only inst/doc/inspect.Rmd |only inst/doc/inspect.html |only man/accept_reject.Rd | 73 +++++-- man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |only man/figures/README-unnamed-chunk-5-1.png |only man/inspect.Rd |only man/plot.accept_reject.Rd | 27 +- man/print.accept_reject.Rd | 7 src |only tests |only vignettes/accept_reject.Rmd | 50 ++--- vignettes/inspect.Rmd |only 29 files changed, 758 insertions(+), 419 deletions(-)
Title: Quantitative Analysis of Textual Data
Description: A fast, flexible, and comprehensive framework for
quantitative text analysis in R. Provides functionality for corpus management,
creating and manipulating tokens and n-grams, exploring keywords in context,
forming and manipulating sparse matrices
of documents by features and feature co-occurrences, analyzing keywords, computing feature similarities and
distances, applying content dictionaries, applying supervised and unsupervised machine learning,
visually representing text and text analyses, and more.
Author: Kenneth Benoit [cre, aut, cph]
,
Kohei Watanabe [aut] ,
Haiyan Wang [aut] ,
Paul Nulty [aut] ,
Adam Obeng [aut] ,
Stefan Mueller [aut] ,
Akitaka Matsuo [aut] ,
William Lowe [aut] ,
Christian Mueller [ctb],
Olivier Delmarcelle [ctb] ,
European Research [...truncated...]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda versions 4.0.1 dated 2024-04-08 and 4.0.2 dated 2024-04-24
quanteda-4.0.1/quanteda/inst/include/recompile.h |only quanteda-4.0.1/quanteda/src/tokens_recompile.cpp |only quanteda-4.0.2/quanteda/DESCRIPTION | 6 quanteda-4.0.2/quanteda/MD5 | 51 quanteda-4.0.2/quanteda/NEWS.md | 6 quanteda-4.0.2/quanteda/R/RcppExports.R | 8 quanteda-4.0.2/quanteda/R/casechange-functions.R | 11 quanteda-4.0.2/quanteda/R/quanteda-documentation.R | 10 quanteda-4.0.2/quanteda/R/textstat.R | 2 quanteda-4.0.2/quanteda/R/tokens.R | 46 quanteda-4.0.2/quanteda/README.md | 16 quanteda-4.0.2/quanteda/configure | 874 +++++----- quanteda-4.0.2/quanteda/configure.ac | 85 quanteda-4.0.2/quanteda/inst/WORDLIST | 4 quanteda-4.0.2/quanteda/inst/include/lib.h | 10 quanteda-4.0.2/quanteda/inst/include/tokens.h | 158 - quanteda-4.0.2/quanteda/man/is.collocations.Rd | 2 quanteda-4.0.2/quanteda/man/quanteda-package.Rd | 10 quanteda-4.0.2/quanteda/man/tokens_recompile.Rd | 8 quanteda-4.0.2/quanteda/src/RcppExports.cpp | 23 quanteda-4.0.2/quanteda/src/fcm.cpp | 10 quanteda-4.0.2/quanteda/src/tokens_select.cpp | 1 quanteda-4.0.2/quanteda/src/tokens_xptr.cpp | 60 quanteda-4.0.2/quanteda/tests/testthat/test-fcm.R | 2 quanteda-4.0.2/quanteda/tests/testthat/test-tbb.R |only quanteda-4.0.2/quanteda/tests/testthat/test-tokens_recompile.R | 81 quanteda-4.0.2/quanteda/tests/testthat/test-tokens_xptr.R | 21 quanteda-4.0.2/quanteda/vignettes/fig1.png |only quanteda-4.0.2/quanteda/vignettes/fig2.png |only 29 files changed, 796 insertions(+), 709 deletions(-)
Title: Data for Package 'Qindex'
Description: Example data used in package 'Qindex'.
Author: Tingting Zhan [aut, cre, cph] ,
Misung Yi [aut, cph] ,
Inna Chervoneva [aut, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between Qindex.data versions 0.1.0 dated 2024-04-05 and 0.1.1 dated 2024-04-24
Qindex.data-0.1.0/Qindex.data/data/pkg_data.rda |only Qindex.data-0.1.1/Qindex.data/DESCRIPTION | 31 ++++++-------- Qindex.data-0.1.1/Qindex.data/MD5 | 11 ++--- Qindex.data-0.1.1/Qindex.data/R/0PACKAGE.R | 32 --------------- Qindex.data-0.1.1/Qindex.data/R/Ki67.R |only Qindex.data-0.1.1/Qindex.data/data/Ki67.rda |only Qindex.data-0.1.1/Qindex.data/man/Qindex.data-package.Rd | 9 +++- Qindex.data-0.1.1/Qindex.data/man/celldata.Rd | 2 8 files changed, 29 insertions(+), 56 deletions(-)
Title: Adaptive Parallel Tempering for 'NIMBLE'
Description: Functions for adaptive parallel tempering (APT) with NIMBLE models. Adapted from 'Lacki' & 'Miasojedow' (2016) <DOI:10.1007/s11222-015-9579-0> and 'Miasojedow, Moulines and Vihola' (2013) <DOI:10.1080/10618600.2013.778779>.
Author: David Pleydell [aut, cre, cph] ,
Daniel Turek [cph] ,
Perry de Valpine [cph] ,
Christopher Paciorek [cph] ,
Nick Michaud [cph]
Maintainer: David Pleydell <david.pleydell@inrae.fr>
Diff between nimbleAPT versions 1.0.5 dated 2024-04-22 and 1.0.6 dated 2024-04-24
DESCRIPTION | 6 ++--- MD5 | 14 ++++++------- R/APT_functions.R | 30 +++++++++++++++++++-------- inst/NEWS | 9 ++++++++ inst/doc/nimbleAPT-vignette.html | 42 +++++++++++++++++++-------------------- man/buildAPT.Rd | 9 ++++++-- man/nimbleAPT.Rd | 2 - man/samplers.Rd | 4 +-- 8 files changed, 71 insertions(+), 45 deletions(-)
Title: Machine Learning in R - Next Generation
Description: Efficient, object-oriented programming on the
building blocks of machine learning. Provides 'R6' objects for tasks,
learners, resamplings, and measures. The package is geared towards
scalability and larger datasets by supporting parallelization and
out-of-memory data-backends like databases. While 'mlr3' focuses on
the core computational operations, add-on packages provide additional
functionality.
Author: Michel Lang [cre, aut] ,
Bernd Bischl [aut] ,
Jakob Richter [aut] ,
Patrick Schratz [aut] ,
Giuseppe Casalicchio [ctb] ,
Stefan Coors [ctb] ,
Quay Au [ctb] ,
Martin Binder [aut],
Florian Pfisterer [aut] ,
Raphael Sonabend [aut] ,
Lennart Schneider [c [...truncated...]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3 versions 0.18.0 dated 2024-03-05 and 0.19.0 dated 2024-04-24
DESCRIPTION | 10 +- MD5 | 75 ++++++++--------- NAMESPACE | 13 ++ NEWS.md | 13 ++ R/BenchmarkResult.R | 14 +++ R/HotstartStack.R | 11 +- R/Learner.R | 42 ++++++++- R/LearnerClassifDebug.R | 88 +++++++++++++++----- R/LearnerRegrDebug.R | 1 R/Measure.R | 4 R/ResampleResult.R | 15 +++ R/ResultData.R | 21 ++++ R/benchmark.R | 15 ++- R/bibentries.R | 1 R/helper_exec.R | 3 R/marshal.R |only R/mlr_reflections.R | 2 R/resample.R | 14 ++- R/worker.R | 69 ++++++++++++++- inst/testthat/helper_expectations.R | 59 +++++++++++++ man/BenchmarkResult.Rd | 38 ++++++++ man/Learner.Rd | 2 man/LearnerClassif.Rd | 2 man/LearnerRegr.Rd | 2 man/ResampleResult.Rd | 38 ++++++++ man/ResultData.Rd | 40 +++++++++ man/benchmark.Rd | 9 +- man/marshaling.Rd |only man/mlr_learners_classif.debug.Rd | 48 ++++++++++ man/mlr_tasks_german_credit.Rd | 1 man/resample.Rd | 9 +- tests/testthat/test_HotstartStack.R | 8 + tests/testthat/test_Learner.R | 24 +++++ tests/testthat/test_Measure.R | 12 ++ tests/testthat/test_benchmark.R | 67 +++++++++++++++ tests/testthat/test_encapsulate.R | 70 +++++++++++++++ tests/testthat/test_marshal.R |only tests/testthat/test_mlr_learners.R | 6 + tests/testthat/test_mlr_learners_classif_debug.R | 12 ++ tests/testthat/test_resample.R | 101 +++++++++++++++++++++++ 40 files changed, 864 insertions(+), 95 deletions(-)
Title: Computing False Positive Rate from Inter-Rater Reliability
Description: Implements a 'Shiny Item Analysis' module and functions for computing false positive rate
and other binary classification metrics from inter-rater reliability based on Bartoš & Martinková (2024)
<doi:10.1111/bmsp.12343>.
Author: Frantisek Bartos [aut, cre]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between IRR2FPR versions 0.1 dated 2024-04-10 and 0.1.1 dated 2024-04-24
DESCRIPTION | 10 +++++----- MD5 | 11 ++++++----- NEWS.md | 3 +++ R/sm_IRR2FPR.R | 15 ++++++++------- README.md | 14 ++++++++++---- inst/CITATION |only man/IRR2FPR.Rd | 7 ++++--- 7 files changed, 36 insertions(+), 24 deletions(-)
Title: Crew Launcher Plugins for Traditional High-Performance Computing
Clusters
Description: In computationally demanding analysis projects,
statisticians and data scientists asynchronously
deploy long-running tasks to distributed systems,
ranging from traditional clusters to cloud services.
The 'crew.cluster' package extends the 'mirai'-powered
'crew' package with worker launcher plugins for traditional
high-performance computing systems.
Inspiration also comes from packages 'mirai' by Gao (2023)
<https://github.com/shikokuchuo/mirai>,
'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>,
'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>,
'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>),
and 'batchtools' by Lang, Bischl, and Surmann (2017).
<doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre]
,
Michael Gilbert Levin [aut] ,
Brendan Furneaux [aut] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between crew.cluster versions 0.3.0 dated 2024-02-07 and 0.3.1 dated 2024-04-24
DESCRIPTION | 19 ++++++++++++++----- MD5 | 19 ++++++++++++------- NAMESPACE | 3 +++ NEWS.md | 4 ++++ R/crew_monitor_slurm.R |only R/crew_package.R | 1 + man/crew_class_launcher_slurm.Rd | 4 +++- man/crew_class_monitor_slurm.Rd |only man/crew_controller_slurm.Rd | 4 +++- man/crew_launcher_slurm.Rd | 4 +++- man/crew_monitor_slurm.Rd |only tests/slurm/monitor.R |only tests/testthat/test-crew_monitor_slurm.R |only 13 files changed, 43 insertions(+), 15 deletions(-)
Title: A Distributed Worker Launcher Framework
Description: In computationally demanding analysis projects,
statisticians and data scientists asynchronously
deploy long-running tasks to distributed systems,
ranging from traditional clusters to cloud services.
The 'NNG'-powered 'mirai' R package by Gao (2023)
<doi:10.5281/zenodo.7912722> is a sleek
and sophisticated scheduler that
efficiently processes these intense workloads.
The 'crew' package extends 'mirai' with a unifying
interface for third-party worker launchers.
Inspiration also comes from packages.
'future' by Bengtsson (2021) <doi:10.32614/RJ-2021-048>,
'rrq' by FitzJohn and Ashton (2023) <https://github.com/mrc-ide/rrq>,
'clustermq' by Schubert (2019) <doi:10.1093/bioinformatics/btz284>),
and 'batchtools' by Lang, Bischel, and Surmann (2017)
<doi:10.21105/joss.00135>.
Author: William Michael Landau [aut, cre]
,
Daniel Woodie [ctb],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between crew versions 0.9.1 dated 2024-03-25 and 0.9.2 dated 2024-04-24
crew-0.9.1/crew/vignettes/figures/app.png |only crew-0.9.2/crew/DESCRIPTION | 6 crew-0.9.2/crew/MD5 | 51 - crew-0.9.2/crew/NAMESPACE | 4 crew-0.9.2/crew/NEWS.md | 8 crew-0.9.2/crew/R/crew_async.R | 12 crew-0.9.2/crew/R/crew_controller.R | 175 ++++- crew-0.9.2/crew/R/crew_controller_group.R | 108 ++- crew-0.9.2/crew/R/crew_package.R | 2 crew-0.9.2/crew/R/utils_promises.R | 30 crew-0.9.2/crew/inst/doc/plugins.Rmd | 2 crew-0.9.2/crew/inst/doc/plugins.html | 10 crew-0.9.2/crew/inst/doc/promises.Rmd | 7 crew-0.9.2/crew/inst/doc/promises.html | 15 crew-0.9.2/crew/inst/doc/shiny.Rmd | 296 +++++++++ crew-0.9.2/crew/inst/doc/shiny.html | 377 ++++++++++-- crew-0.9.2/crew/man/crew_class_controller.Rd | 122 +++ crew-0.9.2/crew/man/crew_class_controller_group.Rd | 111 ++- crew-0.9.2/crew/tests/interactive/test-promises-groups.R | 11 crew-0.9.2/crew/tests/interactive/test-promises.R | 9 crew-0.9.2/crew/tests/testthat/test-crew_controller.R | 67 ++ crew-0.9.2/crew/tests/testthat/test-crew_controller_group.R | 71 ++ crew-0.9.2/crew/tests/testthat/test-crew_controller_local.R | 4 crew-0.9.2/crew/vignettes/figures/art.png |only crew-0.9.2/crew/vignettes/figures/coins.png |only crew-0.9.2/crew/vignettes/plugins.Rmd | 2 crew-0.9.2/crew/vignettes/promises.Rmd | 7 crew-0.9.2/crew/vignettes/shiny.Rmd | 296 +++++++++ 28 files changed, 1537 insertions(+), 266 deletions(-)
Title: Test and Item Analysis via Shiny
Description: Package including functions and interactive shiny application
for the psychometric analysis of educational tests, psychological
assessments, health-related and other types of multi-item
measurements, or ratings from multiple raters.
Author: Patricia Martinkova [aut, cre],
Adela Hladka [aut],
Jan Netik [aut],
Ondrej Leder [ctb],
Jakub Houdek [ctb],
Lubomir Stepanek [ctb],
Tomas Jurica [ctb],
Jana Vorlickova [ctb]
Maintainer: Patricia Martinkova <martinkova@cs.cas.cz>
Diff between ShinyItemAnalysis versions 1.5.0 dated 2023-05-08 and 1.5.1 dated 2024-04-24
DESCRIPTION | 17 +- MD5 | 54 ++++---- NAMESPACE | 5 NEWS.md | 19 ++ R/blis.R | 2 R/cronbach_alpha.R | 10 - R/package_options.R |only R/startShinyItemAnalysis.R | 69 ++++++++++ README.md | 14 +- build/partial.rdb |binary inst/CITATION | 3 inst/ShinyItemAnalysis/reporthtml.Rmd | 7 - inst/ShinyItemAnalysis/reportpdf.Rmd | 26 ++- inst/ShinyItemAnalysis/server.R | 7 - inst/ShinyItemAnalysis/server/Data.R | 147 ++++++++++------------ inst/ShinyItemAnalysis/server/IRT.R | 61 +++++---- inst/ShinyItemAnalysis/server/IRT/polytomous.R | 4 inst/ShinyItemAnalysis/server/Modules.R | 140 +++++++++++--------- inst/ShinyItemAnalysis/server/Validity.R | 39 ++--- inst/ShinyItemAnalysis/titlepage.sty | 5 inst/ShinyItemAnalysis/ui.R | 6 inst/ShinyItemAnalysis/ui/uiAbout.R | 85 ++++++++++-- inst/ShinyItemAnalysis/ui/uiData.R | 4 inst/ShinyItemAnalysis/ui/uiReferences.R | 10 - inst/ShinyItemAnalysis/ui/uiSetting.R | 10 - inst/ShinyItemAnalysis/ui/uiTraditionalAnalysis.R | 2 man/ShinyItemAnalysis-package.Rd | 3 man/ShinyItemAnalysis_options.Rd |only man/fit_blis.Rd | 13 + 29 files changed, 473 insertions(+), 289 deletions(-)
More information about ShinyItemAnalysis at CRAN
Permanent link
Title: Keyword Assisted Topic Models
Description: Fits keyword assisted topic models (keyATM) using collapsed Gibbs samplers. The keyATM combines the latent dirichlet allocation (LDA) models with a small number of keywords selected by researchers in order to improve the interpretability and topic classification of the LDA. The keyATM can also incorporate covariates and directly model time trends. The keyATM is proposed in Eshima, Imai, and Sasaki (2024) <doi:10.1111/ajps.12779>.
Author: Shusei Eshima [aut, cre] ,
Tomoya Sasaki [aut],
Kosuke Imai [aut],
Chung-hong Chan [ctb] ,
Romain Francois [ctb] ,
William Lowe [ctb],
Seo-young Silvia Kim [ctb]
Maintainer: Shusei Eshima <shuseieshima@gmail.com>
Diff between keyATM versions 0.5.1 dated 2024-02-04 and 0.5.2 dated 2024-04-24
keyATM-0.5.1/keyATM/man/save.keyATM_output.Rd |only keyATM-0.5.2/keyATM/DESCRIPTION | 8 - keyATM-0.5.2/keyATM/MD5 | 25 ++-- keyATM-0.5.2/keyATM/NAMESPACE | 1 keyATM-0.5.2/keyATM/NEWS.md | 5 keyATM-0.5.2/keyATM/R/keyATM.R | 4 keyATM-0.5.2/keyATM/R/posterior.R | 12 -- keyATM-0.5.2/keyATM/inst/CITATION | 9 + keyATM-0.5.2/keyATM/man/keyATM.Rd | 2 keyATM-0.5.2/keyATM/man/weightedLDA.Rd | 2 keyATM-0.5.2/keyATM/tests/testthat/test-diagnosis.R | 22 +--- keyATM-0.5.2/keyATM/tests/testthat/test-keyATMBase.R | 7 + keyATM-0.5.2/keyATM/tests/testthat/test-keyATMCovDirMulti.R | 52 ---------- keyATM-0.5.2/keyATM/tests/testthat/test-keyATMHeterogeneity.R | 8 - 14 files changed, 50 insertions(+), 107 deletions(-)
More information about CalcThemAll.PRM at CRAN
Permanent link
Title: Tools for Handling Indices and Proportions in Small Area
Estimation
Description: It allows for mapping proportions and indicators defined on the unit interval. It implements Beta-based small area methods comprising the classical Beta regression models, the Flexible Beta model and Zero and/or One Inflated extensions (Janicki 2020 <doi:10.1080/03610926.2019.1570266>). Such methods, developed within a Bayesian framework through Stan <https://mc-stan.org/>, come equipped with a set of diagnostics and complementary tools, visualizing and exporting functions. A Shiny application with a user-friendly interface can be launched to further simplify the process. For further details, refer to De Nicolò and Gardini (2024 <doi:10.18637/jss.v108.i01>).
Author: Silvia De Nicolo [aut, cre] ,
Aldo Gardini [aut]
Maintainer: Silvia De Nicolo <silvia.denicolo@unibo.it>
Diff between tipsae versions 1.0.0 dated 2024-03-26 and 1.0.1 dated 2024-04-24
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/util_fit.R | 6 +++++- build/partial.rdb |binary 4 files changed, 11 insertions(+), 7 deletions(-)
Title: Subset Partitioning via Anticlustering
Description: The method of anticlustering partitions a pool of elements
into groups (i.e., anticlusters) with the goal of maximizing
between-group similarity or within-group heterogeneity. The
anticlustering approach thereby reverses the logic of cluster analysis
that strives for high within-group homogeneity and clear separation
between groups. Computationally, anticlustering is accomplished by
maximizing instead of minimizing a clustering objective function, such
as the intra-cluster variance (used in k-means clustering) or the sum
of pairwise distances within clusters. The main function
anticlustering() gives access to exact and heuristic anticlustering
methods described in Papenberg and Klau (2021;
<doi:10.1037/met0000301>), Brusco et al. (2020;
<doi:10.1111/bmsp.12186>), and Papenberg (2024;
<doi:10.1111/bmsp.12315>). The exact algorithms require that an
integer linear programming solver is installed, either the GNU linear
programming kit (<https://www.gnu.org/software/g [...truncated...]
Author: Martin Papenberg [aut, cre] ,
Meik Michalke [ctb] ,
Gunnar W. Klau [ths],
Juliane V. Nagel [ctb] ,
Martin Breuer [ctb] ,
Marie L. Schaper [ctb] ,
Max Diekhoff [ctb]
Maintainer: Martin Papenberg <martin.papenberg@hhu.de>
Diff between anticlust versions 0.8.1 dated 2023-10-26 and 0.8.3 dated 2024-04-24
anticlust-0.8.1/anticlust/R/anticlust.R |only anticlust-0.8.1/anticlust/R/exchange-method-kmeans-anticlustering.R |only anticlust-0.8.1/anticlust/man/anticlust.Rd |only anticlust-0.8.3/anticlust/DESCRIPTION | 15 anticlust-0.8.3/anticlust/LICENSE | 4 anticlust-0.8.3/anticlust/MD5 | 89 - anticlust-0.8.3/anticlust/NAMESPACE | 1 anticlust-0.8.3/anticlust/R/Optimal_Dispersion.R | 3 anticlust-0.8.3/anticlust/R/c-anticlustering.R | 20 anticlust-0.8.3/anticlust/R/categories_to_binary.R | 7 anticlust-0.8.3/anticlust/R/fast_anticlustering.R |only anticlust-0.8.3/anticlust/R/objective-kplus.R | 9 anticlust-0.8.3/anticlust/R/wrapper-anticlustering.R | 34 anticlust-0.8.3/anticlust/R/wrapper-k-plus-anticlustering.R | 11 anticlust-0.8.3/anticlust/build/vignette.rds |binary anticlust-0.8.3/anticlust/inst/doc/Best_practices.R | 5 anticlust-0.8.3/anticlust/inst/doc/Best_practices.Rmd | 23 anticlust-0.8.3/anticlust/inst/doc/Best_practices.html | 155 --- anticlust-0.8.3/anticlust/inst/doc/Categorical_vars.R | 2 anticlust-0.8.3/anticlust/inst/doc/Categorical_vars.Rmd | 1 anticlust-0.8.3/anticlust/inst/doc/Categorical_vars.html | 486 ++++------ anticlust-0.8.3/anticlust/inst/doc/Speeding_up_anticlustering.R | 83 - anticlust-0.8.3/anticlust/inst/doc/Speeding_up_anticlustering.Rmd | 152 +-- anticlust-0.8.3/anticlust/inst/doc/Speeding_up_anticlustering.html | 416 ++++---- anticlust-0.8.3/anticlust/inst/doc/stimulus-selection.R | 6 anticlust-0.8.3/anticlust/inst/doc/stimulus-selection.Rmd | 1 anticlust-0.8.3/anticlust/inst/doc/stimulus-selection.html | 370 +++---- anticlust-0.8.3/anticlust/inst/render.sh | 2 anticlust-0.8.3/anticlust/man/anticlustering.Rd | 32 anticlust-0.8.3/anticlust/man/categories_to_binary.Rd | 7 anticlust-0.8.3/anticlust/man/fast_anticlustering.Rd | 225 +++- anticlust-0.8.3/anticlust/man/figures/clustering-1.png |binary anticlust-0.8.3/anticlust/man/figures/matching-1.png |binary anticlust-0.8.3/anticlust/man/generate_exchange_partners.Rd |only anticlust-0.8.3/anticlust/man/kplus_anticlustering.Rd | 11 anticlust-0.8.3/anticlust/man/kplus_moment_variables.Rd | 9 anticlust-0.8.3/anticlust/man/optimal_dispersion.Rd | 3 anticlust-0.8.3/anticlust/src/anticlust_init.c | 2 anticlust-0.8.3/anticlust/src/declarations.h | 22 anticlust-0.8.3/anticlust/src/fast-kmeans-anticlustering.c |only anticlust-0.8.3/anticlust/src/misc-array-methods.c | 9 anticlust-0.8.3/anticlust/tests/testthat/test-equivalent-preclustering.R | 9 anticlust-0.8.3/anticlust/tests/testthat/test-exchange-method.R | 24 anticlust-0.8.3/anticlust/tests/testthat/test-exchange-partner-generation.R | 31 anticlust-0.8.3/anticlust/tests/testthat/test-new-kmeans-c-implementation.R |only anticlust-0.8.3/anticlust/vignettes/Best_practices.Rmd | 23 anticlust-0.8.3/anticlust/vignettes/Categorical_vars.Rmd | 1 anticlust-0.8.3/anticlust/vignettes/Speeding_up_anticlustering.Rmd | 152 +-- anticlust-0.8.3/anticlust/vignettes/stimulus-selection.Rmd | 1 49 files changed, 1186 insertions(+), 1270 deletions(-)
Title: Statistical Process Control -- Calculation of ARL and Other
Control Chart Performance Measures
Description: Evaluation of control charts by means of
the zero-state, steady-state ARL (Average Run Length) and RL quantiles.
Setting up control charts for given in-control ARL. The control charts
under consideration are one- and two-sided EWMA, CUSUM, and
Shiryaev-Roberts schemes for monitoring the mean or variance of normally
distributed independent data. ARL calculation of the same set of schemes under drift (in the mean) are added.
Eventually, all ARL measures for the multivariate EWMA (MEWMA) are provided.
Author: Sven Knoth
Maintainer: Sven Knoth <Sven.Knoth@gmx.de>
Diff between spc versions 0.6.7 dated 2022-10-24 and 0.6.8 dated 2024-04-24
DESCRIPTION | 8 - MD5 | 26 ++--- NAMESPACE | 2 R/xewma.arl.R | 26 +++-- R/xewma.crit.R | 42 +++++++- man/dphat.Rd | 9 + man/pois.crit.L0L1.Rd | 3 man/quadrature.nodes.weights.Rd | 2 man/xewma.arl.Rd | 70 +++++++------- man/xewma.crit.Rd | 3 man/xshewhartrunsrules.arl.Rd | 2 src/allspc.c | 187 +++++++++++++++++++++++++++++++++++++++- src/xewma_arl.c | 6 + src/xewma_crit.c | 15 ++- 14 files changed, 316 insertions(+), 85 deletions(-)
Title: Bivariate Segmentation/Clustering Methods and Tools
Description: Provides two methods for segmentation and joint segmentation/clustering of
bivariate time-series. Originally intended for ecological segmentation
(home-range and behavioural modes) but easily applied on other series,
the package also provides tools for analysing outputs from R packages 'moveHMM' and 'marcher'.
The segmentation method is a bivariate extension of Lavielle's method available in 'adehabitatLT'
(Lavielle, 1999 <doi:10.1016/S0304-4149(99)00023-X> and 2005 <doi:10.1016/j.sigpro.2005.01.012>).
This method rely on dynamic programming for efficient segmentation.
The segmentation/clustering method alternates steps of dynamic programming with an Expectation-Maximization algorithm.
This is an extension of Picard et al (2007) <doi:10.1111/j.1541-0420.2006.00729.x> method
(formerly available in 'cghseg' package) to the bivariate case.
The method is fully described in Patin et al (2018) <doi:10.1101/444794>.
Author: Remi Patin [aut, cre],
Marie-Pierre Etienne [aut],
Emilie Lebarbier [aut],
Simon Benhamou [aut]
Maintainer: Remi Patin <remi.patin@normale.fr>
Diff between segclust2d versions 0.3.1 dated 2023-08-21 and 0.3.3 dated 2024-04-24
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 16 ++++++++++++++++ R/prepare_covariates.R | 23 ++++++++++++----------- R/segTraj_Gmixt_simultanee.R | 35 +++++++++++++++++++---------------- R/segclust2d.R | 6 ++---- build/vignette.rds |binary inst/CITATION | 8 ++++---- inst/doc/v01_preparing_data.html | 4 ++-- inst/doc/v02_run_segclust2d.html | 20 ++++++++++---------- inst/doc/v03_explore_outputs.R | 2 +- inst/doc/v03_explore_outputs.html | 14 +++++++------- man/Gmixt_simultanee.Rd | 14 ++++++-------- man/segclust2d.Rd | 23 +++++++++++++++++++++-- 14 files changed, 117 insertions(+), 82 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-01 0.2.0
2024-02-13 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-02 0.1.4
2023-08-18 0.1.1
2023-07-08 0.0.7
Title: Survival Analysis
Description: Contains the core survival analysis routines, including
definition of Surv objects,
Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models,
and parametric accelerated failure time models.
Author: Terry M Therneau [aut, cre],
Thomas Lumley [ctb, trl] ,
Atkinson Elizabeth [ctb],
Crowson Cynthia [ctb]
Maintainer: Terry M Therneau <therneau.terry@mayo.edu>
Diff between survival versions 3.5-8 dated 2024-02-14 and 3.6-4 dated 2024-04-24
survival-3.5-8/survival/R/residcsum.R |only survival-3.5-8/survival/R/residuals.survfitcoxms.R |only survival-3.5-8/survival/R/survfitCI.R |only survival-3.5-8/survival/inst/NEWS.Rd.orig |only survival-3.5-8/survival/inst/doc/discrim.R |only survival-3.5-8/survival/inst/doc/discrim.Rnw |only survival-3.5-8/survival/inst/doc/discrim.pdf |only survival-3.5-8/survival/noweb/code.nw |only survival-3.5-8/survival/noweb/code.toc |only survival-3.5-8/survival/noweb/concordance.Rnw.orig |only survival-3.5-8/survival/noweb/noweb.sty |only survival-3.5-8/survival/noweb/score.Rnw |only survival-3.5-8/survival/noweb/survfitCI.Rnw |only survival-3.5-8/survival/noweb/survfitKM.Rnw |only survival-3.5-8/survival/src/coxfit7.c |only survival-3.5-8/survival/src/survfitci.c |only survival-3.5-8/survival/tests/plot1.pdf |only survival-3.5-8/survival/vignettes/.install_extras |only survival-3.5-8/survival/vignettes/discrim.Rnw |only survival-3.6-4/survival/DESCRIPTION | 8 survival-3.6-4/survival/MD5 | 194 - survival-3.6-4/survival/R/aeqSurv.R | 1 survival-3.6-4/survival/R/brier.R | 2 survival-3.6-4/survival/R/concordance.R | 2 survival-3.6-4/survival/R/parsecovar.R | 2 survival-3.6-4/survival/R/print.survfit.R | 48 survival-3.6-4/survival/R/pseudo.R | 274 -- survival-3.6-4/survival/R/residuals.survfit.R | 1115 ++--------- survival-3.6-4/survival/R/rsurvpart2.R |only survival-3.6-4/survival/R/survdiff.R | 2 survival-3.6-4/survival/R/survfit.R | 47 survival-3.6-4/survival/R/survfit.coxph.R | 5 survival-3.6-4/survival/R/survfit.coxphms.R | 15 survival-3.6-4/survival/R/survfit0.R | 61 survival-3.6-4/survival/R/survfitAJ.R |only survival-3.6-4/survival/R/survfitKM.R | 186 + survival-3.6-4/survival/R/survfitTurnbull.R | 2 survival-3.6-4/survival/R/survfitms.R | 40 survival-3.6-4/survival/R/xtras.R | 35 survival-3.6-4/survival/build/vignette.rds |binary survival-3.6-4/survival/data/survexp.rda |binary survival-3.6-4/survival/inst/NEWS.Rd | 57 survival-3.6-4/survival/inst/doc/adjcurve.pdf |binary survival-3.6-4/survival/inst/doc/approximate.pdf |binary survival-3.6-4/survival/inst/doc/compete.pdf |binary survival-3.6-4/survival/inst/doc/concordance.pdf |binary survival-3.6-4/survival/inst/doc/matrix.pdf |binary survival-3.6-4/survival/inst/doc/methods.R |only survival-3.6-4/survival/inst/doc/methods.Rnw |only survival-3.6-4/survival/inst/doc/methods.pdf |only survival-3.6-4/survival/inst/doc/multi.pdf |binary survival-3.6-4/survival/inst/doc/other.pdf |binary survival-3.6-4/survival/inst/doc/population.pdf |binary survival-3.6-4/survival/inst/doc/redistribute.pdf |binary survival-3.6-4/survival/inst/doc/splines.pdf |binary survival-3.6-4/survival/inst/doc/survival.pdf |binary survival-3.6-4/survival/inst/doc/tiedtimes.pdf |binary survival-3.6-4/survival/inst/doc/timedep.pdf |binary survival-3.6-4/survival/inst/doc/validate.pdf |binary survival-3.6-4/survival/man/basehaz.Rd | 33 survival-3.6-4/survival/man/pbcseq.Rd | 6 survival-3.6-4/survival/man/pseudo.Rd | 53 survival-3.6-4/survival/man/reliability.Rd | 19 survival-3.6-4/survival/man/residuals.survfit.Rd | 55 survival-3.6-4/survival/man/survcheck.Rd | 11 survival-3.6-4/survival/man/survfit.coxph.Rd | 33 survival-3.6-4/survival/man/survfit.formula.Rd | 145 + survival-3.6-4/survival/man/survfit.object.Rd | 54 survival-3.6-4/survival/man/survfit0.Rd | 64 survival-3.6-4/survival/man/survival-internal.Rd | 12 survival-3.6-4/survival/noweb/Makefile | 14 survival-3.6-4/survival/noweb/concordance.Rnw | 2 survival-3.6-4/survival/noweb/coxsurv.Rnw | 5 survival-3.6-4/survival/noweb/coxsurv3.Rnw | 14 survival-3.6-4/survival/noweb/parse.Rnw | 4 survival-3.6-4/survival/noweb/residuals.survfit.Rnw | 3 survival-3.6-4/survival/noweb/residuals.survfit2.Rnw | 2 survival-3.6-4/survival/src/init.c | 5 survival-3.6-4/survival/src/survfitaj.c |only survival-3.6-4/survival/src/survfitkm.c | 499 ++-- survival-3.6-4/survival/src/survfitresid.c | 27 survival-3.6-4/survival/src/survproto.h | 22 survival-3.6-4/survival/src/twoclust.c |only survival-3.6-4/survival/tests/Examples/survival-Ex.Rout.save | 102 - survival-3.6-4/survival/tests/coxsurv5.R | 6 survival-3.6-4/survival/tests/coxsurv5.Rout.save | 14 survival-3.6-4/survival/tests/coxsurv6.R | 4 survival-3.6-4/survival/tests/coxsurv6.Rout.save | 12 survival-3.6-4/survival/tests/ekm.R |only survival-3.6-4/survival/tests/ekm.Rout.save |only survival-3.6-4/survival/tests/mstate.R | 240 +- survival-3.6-4/survival/tests/mstate.Rout.save | 251 +- survival-3.6-4/survival/tests/mstate2.R |only survival-3.6-4/survival/tests/mstate2.Rout.save |only survival-3.6-4/survival/tests/mstrata.R | 14 survival-3.6-4/survival/tests/mstrata.Rout.save | 22 survival-3.6-4/survival/tests/pseudo.R | 124 - survival-3.6-4/survival/tests/pseudo.Rout.save | 151 - survival-3.6-4/survival/tests/ratetable.Rout.save | 10 survival-3.6-4/survival/tests/residsf.R | 58 survival-3.6-4/survival/tests/residsf.Rout.save | 66 survival-3.6-4/survival/tests/rttright.R | 12 survival-3.6-4/survival/tests/rttright.Rout.save | 20 survival-3.6-4/survival/tests/summary_survfit.R | 9 survival-3.6-4/survival/tests/summary_survfit.Rout.save | 17 survival-3.6-4/survival/tests/survfit1.R | 81 survival-3.6-4/survival/tests/survfit1.Rout.save | 104 - survival-3.6-4/survival/tests/testci.R | 47 survival-3.6-4/survival/tests/testci.Rout.save | 62 survival-3.6-4/survival/tests/testci2.R | 34 survival-3.6-4/survival/tests/testci2.Rout.save | 55 survival-3.6-4/survival/tests/tt2.Rout.save | 6 survival-3.6-4/survival/vignettes/methods.Rnw |only survival-3.6-4/survival/vignettes/refer.bib | 11 114 files changed, 2460 insertions(+), 2250 deletions(-)
Title: Computation and Visualization of Package Download Counts and
Percentiles
Description: Compute and visualize the cross-sectional and longitudinal number
and rank percentile of package downloads from Posit/RStudio's CRAN mirror.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between packageRank versions 0.8.3 dated 2023-11-09 and 0.9.0 dated 2024-04-23
packageRank-0.8.3/packageRank/man/archivePackages.Rd |only packageRank-0.8.3/packageRank/man/cranPackages.Rd |only packageRank-0.8.3/packageRank/man/extractArchiveDate.Rd |only packageRank-0.8.3/packageRank/man/fetchCranLog.Rd |only packageRank-0.8.3/packageRank/man/fetchRLog.Rd |only packageRank-0.8.3/packageRank/man/ipFilter.Rd |only packageRank-0.8.3/packageRank/man/packageArchive.Rd |only packageRank-0.8.3/packageRank/man/packageCRAN.Rd |only packageRank-0.8.3/packageRank/man/packages_in_Archive.Rd |only packageRank-0.8.3/packageRank/man/packages_observed_in_logs.Rd |only packageRank-0.8.3/packageRank/man/packages_on_CRAN.Rd |only packageRank-0.8.3/packageRank/man/packages_partitioned.Rd |only packageRank-0.8.3/packageRank/man/sequenceFilter.Rd |only packageRank-0.8.3/packageRank/man/sizeFilter.Rd |only packageRank-0.8.3/packageRank/man/smallFilter.Rd |only packageRank-0.8.3/packageRank/man/tripletFilter.Rd |only packageRank-0.9.0/packageRank/DESCRIPTION | 13 packageRank-0.9.0/packageRank/MD5 | 155 - packageRank-0.9.0/packageRank/NAMESPACE | 53 packageRank-0.9.0/packageRank/NEWS.md | 85 packageRank-0.9.0/packageRank/R/annualDownloads.R | 176 - packageRank-0.9.0/packageRank/R/archivePackages.R | 4 packageRank-0.9.0/packageRank/R/bioconductorDownloads.R | 140 - packageRank-0.9.0/packageRank/R/bioconductorRank.R | 58 packageRank-0.9.0/packageRank/R/checkPackage.R | 19 packageRank-0.9.0/packageRank/R/countryDistribution.R | 82 packageRank-0.9.0/packageRank/R/countryPackage.R | 86 packageRank-0.9.0/packageRank/R/cranDownloads.R | 55 packageRank-0.9.0/packageRank/R/cranDownloadsPlotAuxilliary.R | 12 packageRank-0.9.0/packageRank/R/cranDownloadsPlotFunctions.R | 1272 +++++----- packageRank-0.9.0/packageRank/R/cranMirrors.R | 23 packageRank-0.9.0/packageRank/R/cranPackageSize.R | 19 packageRank-0.9.0/packageRank/R/cranPackages.R | 10 packageRank-0.9.0/packageRank/R/fetchLog.R | 5 packageRank-0.9.0/packageRank/R/fetchRLog.R | 2 packageRank-0.9.0/packageRank/R/filteredDownloads.R | 49 packageRank-0.9.0/packageRank/R/importFrom.R |only packageRank-0.9.0/packageRank/R/ipCount.R | 10 packageRank-0.9.0/packageRank/R/ipDownloads.R | 4 packageRank-0.9.0/packageRank/R/ipFilter.R | 172 - packageRank-0.9.0/packageRank/R/ipPackage.R | 99 packageRank-0.9.0/packageRank/R/logInfo.R | 40 packageRank-0.9.0/packageRank/R/packageCountry.R | 20 packageRank-0.9.0/packageRank/R/packageDistribution.R | 54 packageRank-0.9.0/packageRank/R/packageHistory.R | 151 - packageRank-0.9.0/packageRank/R/packageLog.R | 109 packageRank-0.9.0/packageRank/R/packageRank-package.R |only packageRank-0.9.0/packageRank/R/packageRank.R | 142 - packageRank-0.9.0/packageRank/R/packageSample.R | 4 packageRank-0.9.0/packageRank/R/packageVersionPercent.R | 79 packageRank-0.9.0/packageRank/R/packagesFunctions.R | 17 packageRank-0.9.0/packageRank/R/populationPlot.R | 45 packageRank-0.9.0/packageRank/R/rLog.R |only packageRank-0.9.0/packageRank/R/resolveDate.R | 20 packageRank-0.9.0/packageRank/R/sequenceFilter.R | 187 - packageRank-0.9.0/packageRank/R/sizeFilter.R | 146 - packageRank-0.9.0/packageRank/R/smallFilter.R | 31 packageRank-0.9.0/packageRank/R/topCountry.R | 78 packageRank-0.9.0/packageRank/R/tripletFilter.R | 19 packageRank-0.9.0/packageRank/R/utilities.R | 26 packageRank-0.9.0/packageRank/R/validatePackage.R | 14 packageRank-0.9.0/packageRank/R/versionPlot.R | 27 packageRank-0.9.0/packageRank/R/weeklyDownloads.R | 34 packageRank-0.9.0/packageRank/README.md | 442 +-- packageRank-0.9.0/packageRank/man/annualDownloads.Rd | 5 packageRank-0.9.0/packageRank/man/countryDistribution.Rd | 9 packageRank-0.9.0/packageRank/man/countryPackage.Rd | 15 packageRank-0.9.0/packageRank/man/downloadsCountry.Rd | 2 packageRank-0.9.0/packageRank/man/figures/README-annualDownloads-1.png |only packageRank-0.9.0/packageRank/man/filteredDownloads.Rd | 10 packageRank-0.9.0/packageRank/man/ipCount.Rd | 4 packageRank-0.9.0/packageRank/man/ipPackage.Rd | 13 packageRank-0.9.0/packageRank/man/logInfo.Rd | 7 packageRank-0.9.0/packageRank/man/packageCountry.Rd | 13 packageRank-0.9.0/packageRank/man/packageDistribution.Rd | 7 packageRank-0.9.0/packageRank/man/packageHistory.Rd | 2 packageRank-0.9.0/packageRank/man/packageLog.Rd | 14 packageRank-0.9.0/packageRank/man/packageRank-package.Rd |only packageRank-0.9.0/packageRank/man/packageRank.Rd | 7 packageRank-0.9.0/packageRank/man/packageVersionPercent.Rd | 2 packageRank-0.9.0/packageRank/man/plot.annualDownloads.Rd | 16 packageRank-0.9.0/packageRank/man/plot.bioconductorRank.Rd | 4 packageRank-0.9.0/packageRank/man/plot.countryDistribution.Rd | 6 packageRank-0.9.0/packageRank/man/plot.cranDownloads.Rd | 2 packageRank-0.9.0/packageRank/man/plot.packageRank.Rd | 4 packageRank-0.9.0/packageRank/man/plot.packageVersionPercent.Rd | 2 packageRank-0.9.0/packageRank/man/print.countryDistribution.Rd |only packageRank-0.9.0/packageRank/man/rLog.Rd |only packageRank-0.9.0/packageRank/man/topCountryCodes.Rd | 2 packageRank-0.9.0/packageRank/man/weeklyDownloads.Rd | 2 90 files changed, 2248 insertions(+), 2188 deletions(-)
Title: NHANES Data Retrieval
Description: Utility to retrieve data from the National Health and Nutrition
Examination Survey (NHANES) website <https://www.cdc.gov/nchs/nhanes/index.htm>.
Author: Christopher Endres [aut, cre],
Laha Ale [aut] ,
Robert Gentleman [aut],
Deepayan Sarkar [aut]
Maintainer: Christopher Endres <cjendres1@gmail.com>
Diff between nhanesA versions 1.0 dated 2024-01-09 and 1.1 dated 2024-04-23
DESCRIPTION | 10 ++--- MD5 | 23 ++++++----- R/nhanes.R | 10 ++--- R/nhanes_codebook.R | 4 +- R/nhanes_constants.R | 1 R/nhanes_search.R | 33 +++------------- R/nhanes_tables.R | 75 +++++++++++++++++++++++++++++++++++--- R/nhanes_translate.R | 15 +++++++ build/vignette.rds |binary inst/CITATION |only inst/doc/Introducing_nhanesA.html | 4 +- inst/doc/UsingSurveyWeights.html | 8 ++-- man/nhanesManifest.Rd | 5 ++ 13 files changed, 127 insertions(+), 61 deletions(-)
Title: Causal Moderated Mediation Analysis
Description: Causal moderated mediation analysis using the methods proposed by Qin and Wang (2023) <doi:10.3758/s13428-023-02095-4>. Causal moderated mediation analysis is crucial for investigating how, for whom, and where a treatment is effective by assessing the heterogeneity of mediation mechanism across individuals and contexts. This package enables researchers to estimate and test the conditional and moderated mediation effects, assess their sensitivity to unmeasured pre-treatment confounding, and visualize the results. The package is built based on the quasi-Bayesian Monte Carlo method, because it has relatively better performance at small sample sizes, and its running speed is the fastest. The package is applicable to a treatment of any scale, a binary or continuous mediator, a binary or continuous outcome, and one or more moderators of any scale.
Author: Xu Qin [aut, cre, cph],
Lijuan Wang [ctb]
Maintainer: Xu Qin <xuqin@pitt.edu>
Diff between moderate.mediation versions 0.0.8 dated 2024-02-29 and 0.0.9 dated 2024-04-23
DESCRIPTION | 8 +++---- MD5 | 8 +++---- R/moderate.mediation.R | 54 +++++++++++++++++++++++++++++++++++++------------ man/modmed.Rd | 2 - man/modmed.sens.Rd | 2 - 5 files changed, 51 insertions(+), 23 deletions(-)
More information about moderate.mediation at CRAN
Permanent link
Title: Experimental Statistics and Graphics for Agricultural Sciences
Description: Performs the analysis of completely randomized experimental designs (CRD), randomized blocks (RBD) and Latin square (LSD), experiments in double and triple factorial scheme (in CRD and RBD), experiments in subdivided plot scheme (in CRD and RBD), subdivided and joint analysis of experiments in CRD and RBD, linear regression analysis, test for two samples. The package performs analysis of variance, ANOVA assumptions and multiple comparison test of means or regression, according to Pimentel-Gomes (2009, ISBN: 978-85-7133-055-9), nonparametric test (Conover, 1999, ISBN: 0471160687), test for two samples, joint analysis of experiments according to Ferreira (2018, ISBN: 978-85-7269-566-4) and generalized linear model (glm) for binomial and Poisson family in CRD and RBD (Carvalho, FJ (2019), <doi:10.14393/ufu.te.2019.1244>). It can also be used to obtain descriptive measures and graphics, in addition to correlations and creative graphics used in agricultural sciences (Agronomy, Zootech [...truncated...]
Author: Gabriel Danilo Shimizu [aut, cre]
,
Rodrigo Yudi Palhaci Marubayashi [aut, ctb]
,
Leandro Simoes Azeredo Goncalves [aut, ctb]
Maintainer: Gabriel Danilo Shimizu <gabrield.shimizu@gmail.com>
Diff between AgroR versions 1.3.5 dated 2023-09-13 and 1.3.6 dated 2024-04-23
DESCRIPTION | 8 MD5 | 84 +++++----- NAMESPACE | 3 NEWS.md | 14 + R/DBCglm_function.R | 4 R/DICglm_function.R | 4 R/FAT2DBC_function.R | 18 +- R/FAT2DBCad_function.R | 25 +-- R/FAT2DIC_function.R | 18 +- R/FAT2DICad_function.R | 25 +-- R/FAT3DBC_function.R | 8 R/FAT3DBCad_function.R | 10 - R/FAT3DIC_function.R | 8 R/FAT3DICad_function.R | 10 - R/PSUBDBC_function.R | 25 +-- R/PSUBDIC_function.R | 27 +-- R/bargraph_function.R | 10 - R/conjdbc_function.R | 9 - R/conjdic_function.R | 33 ++-- R/correlation_function.R | 34 ++-- R/dbc_function.R | 12 - R/dic_function.R | 16 + R/dql_function.R | 12 - R/dunnet_function.R | 11 - R/fat2_table.R |only R/grid_onefactor.R |only R/polynomial2color_function.R | 2 R/seggraph2_function.R | 6 R/seggraph_function.R | 8 R/sk_graph_function.R | 56 +++--- R/summarise_conj.R |only R/summarise_function.R | 337 +++++++++++++++++++++++++++++++++++------- R/tabledesc_function.R | 2 README.md | 4 build/partial.rdb |binary man/DBC.Rd | 3 man/DIC.Rd | 3 man/DQL.Rd | 3 man/bar_graph.Rd | 10 + man/corgraph.Rd | 20 ++ man/fat2_table.Rd |only man/grid.onefactor.Rd |only man/polynomial2_color.Rd | 2 man/sk_graph.Rd | 4 man/summarise_anova.Rd | 3 man/summarise_conj.Rd |only 46 files changed, 628 insertions(+), 263 deletions(-)
Title: Pediatric Blood Pressure
Description: Data and utilities for estimating pediatric blood pressure
percentiles by sex, age, and optionally height (stature) as described in
Martin et.al. (2022) <doi:10.1001/jamanetworkopen.2022.36918>.
Blood pressure percentiles for children under one year of age come from Gemelli
et.al. (1990) <doi:10.1007/BF02171556>. Estimates of blood pressure
percentiles for children at least one year of age are informed by
data from the National Heart, Lung, and Blood Institute (NHLBI) and the
Centers for Disease Control and Prevention (CDC)
<doi:10.1542/peds.2009-2107C> or from Lo et.al. (2013)
<doi:10.1542/peds.2012-1292>. The flowchart for selecting the informing
data source comes from Martin et.al. (2022)
<doi:10.1542/hpeds.2021-005998>.
Author: Peter DeWitt [aut, cre] ,
Blake Martin [ctb] ,
David Albers [ctb] ,
Tell Bennett [ctb]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between pedbp versions 1.0.2 dated 2022-11-23 and 2.0.0 dated 2024-04-23
pedbp-1.0.2/pedbp/man/pediatric_vital_sign_distributions.Rd |only pedbp-1.0.2/pedbp/tests/test-head_circ_for_age.R |only pedbp-1.0.2/pedbp/tests/test-length_for_age_inf.R |only pedbp-1.0.2/pedbp/tests/test-stature_for_age.R |only pedbp-1.0.2/pedbp/tests/test-weight_for_age_inf.R |only pedbp-1.0.2/pedbp/tests/test-weight_for_length_inf.R |only pedbp-1.0.2/pedbp/tests/test-weight_for_stature.R |only pedbp-2.0.0/pedbp/DESCRIPTION | 21 pedbp-2.0.0/pedbp/MD5 | 143 + pedbp-2.0.0/pedbp/NAMESPACE | 37 pedbp-2.0.0/pedbp/NEWS.md | 52 pedbp-2.0.0/pedbp/R/RcppExports.R |only pedbp-2.0.0/pedbp/R/bmi_for_age.R |only pedbp-2.0.0/pedbp/R/bp_cdf_plot.R | 137 + pedbp-2.0.0/pedbp/R/bp_charts.R |only pedbp-2.0.0/pedbp/R/bp_distribution.R | 282 +-- pedbp-2.0.0/pedbp/R/datasets.R | 12 pedbp-2.0.0/pedbp/R/est_norm.R | 35 pedbp-2.0.0/pedbp/R/growth-standard-charts.R |only pedbp-2.0.0/pedbp/R/growth-standards.R |only pedbp-2.0.0/pedbp/R/gs_cdf.R |only pedbp-2.0.0/pedbp/R/head_circumference_for_age.R |only pedbp-2.0.0/pedbp/R/lms.R | 532 +------ pedbp-2.0.0/pedbp/R/pedbp-defunct.R |only pedbp-2.0.0/pedbp/R/pedbp-package.R |only pedbp-2.0.0/pedbp/R/stature_for_age.R |only pedbp-2.0.0/pedbp/R/sysdata.rda |binary pedbp-2.0.0/pedbp/R/weight_for_age.R |only pedbp-2.0.0/pedbp/R/weight_for_stature.R |only pedbp-2.0.0/pedbp/R/zzz.R |only pedbp-2.0.0/pedbp/README.md | 177 +- pedbp-2.0.0/pedbp/build/partial.rdb |only pedbp-2.0.0/pedbp/build/vignette.rds |binary pedbp-2.0.0/pedbp/data/bp_parameters.rda |binary pedbp-2.0.0/pedbp/data/flynn2017.rda |only pedbp-2.0.0/pedbp/data/gemelli1990.rda |binary pedbp-2.0.0/pedbp/data/lo2013.rda |binary pedbp-2.0.0/pedbp/data/nhlbi_bp_norms.rda |binary pedbp-2.0.0/pedbp/inst/CITATION | 11 pedbp-2.0.0/pedbp/inst/WORDLIST | 36 pedbp-2.0.0/pedbp/inst/doc/bp-distributions.R | 365 ---- pedbp-2.0.0/pedbp/inst/doc/bp-distributions.Rmd | 731 +--------- pedbp-2.0.0/pedbp/inst/doc/bp-distributions.html | 693 ++------- pedbp-2.0.0/pedbp/inst/doc/growth-standards.R |only pedbp-2.0.0/pedbp/inst/doc/growth-standards.Rmd |only pedbp-2.0.0/pedbp/inst/doc/growth-standards.html |only pedbp-2.0.0/pedbp/inst/images/bp_cdf_example-1.png |binary pedbp-2.0.0/pedbp/inst/shinyapps/pedbp/overview.md | 33 pedbp-2.0.0/pedbp/inst/shinyapps/pedbp/server.R | 731 +++++++++- pedbp-2.0.0/pedbp/inst/shinyapps/pedbp/ui.R | 656 +++++++- pedbp-2.0.0/pedbp/man/bmi_for_age.Rd |only pedbp-2.0.0/pedbp/man/bp_cdf.Rd | 60 pedbp-2.0.0/pedbp/man/bp_chart.Rd |only pedbp-2.0.0/pedbp/man/bp_distribution.Rd | 176 ++ pedbp-2.0.0/pedbp/man/bpdata.Rd | 17 pedbp-2.0.0/pedbp/man/cppBP.Rd |only pedbp-2.0.0/pedbp/man/cppPGSF.Rd |only pedbp-2.0.0/pedbp/man/distribution-quantile-zscores-by-lms.Rd |only pedbp-2.0.0/pedbp/man/est_norm.Rd | 19 pedbp-2.0.0/pedbp/man/figures |only pedbp-2.0.0/pedbp/man/growth-standards.Rd |only pedbp-2.0.0/pedbp/man/gs_cdf.Rd |only pedbp-2.0.0/pedbp/man/gs_chart.Rd |only pedbp-2.0.0/pedbp/man/head_circumference_for_age.Rd |only pedbp-2.0.0/pedbp/man/pedbp-defunct.Rd |only pedbp-2.0.0/pedbp/man/pedbp-package.Rd |only pedbp-2.0.0/pedbp/man/stature_for_age.Rd |only pedbp-2.0.0/pedbp/man/weight_for_age.Rd |only pedbp-2.0.0/pedbp/man/weight_for_stature.Rd |only pedbp-2.0.0/pedbp/src |only pedbp-2.0.0/pedbp/tests/test-bmi_for_age.R | 350 +--- pedbp-2.0.0/pedbp/tests/test-bp-by-source.R |only pedbp-2.0.0/pedbp/tests/test-bp_cdf.R |only pedbp-2.0.0/pedbp/tests/test-bp_chart.R |only pedbp-2.0.0/pedbp/tests/test-bp_distributions.R | 453 ++++-- pedbp-2.0.0/pedbp/tests/test-bp_parameters.R | 28 pedbp-2.0.0/pedbp/tests/test-cppBP.R |only pedbp-2.0.0/pedbp/tests/test-cppPGSF.R |only pedbp-2.0.0/pedbp/tests/test-est_norm.R | 93 + pedbp-2.0.0/pedbp/tests/test-gemelli1990.R | 13 pedbp-2.0.0/pedbp/tests/test-gs_chart.R |only pedbp-2.0.0/pedbp/tests/test-head_circumference_for_age.R |only pedbp-2.0.0/pedbp/tests/test-height_for_age.R |only pedbp-2.0.0/pedbp/tests/test-internal-data.R |only pedbp-2.0.0/pedbp/tests/test-length_for_age.R |only pedbp-2.0.0/pedbp/tests/test-lms.R |only pedbp-2.0.0/pedbp/tests/test-lo2013.R | 16 pedbp-2.0.0/pedbp/tests/test-nhlbi_bp_norms.R | 12 pedbp-2.0.0/pedbp/tests/test-weight_for_age.R | 353 +--- pedbp-2.0.0/pedbp/tests/test-weight_for_height.R |only pedbp-2.0.0/pedbp/tests/test-weight_for_length.R |only pedbp-2.0.0/pedbp/vignettes/bp-distributions.Rmd | 731 +--------- pedbp-2.0.0/pedbp/vignettes/growth-standards.Rmd |only pedbp-2.0.0/pedbp/vignettes/references.bib | 41 94 files changed, 3328 insertions(+), 3718 deletions(-)
Title: A Framework for Data-Driven Stochastic Disease Spread
Simulations
Description: Provides an efficient and very flexible framework to
conduct data-driven epidemiological modeling in realistic large
scale disease spread simulations. The framework integrates
infection dynamics in subpopulations as continuous-time Markov
chains using the Gillespie stochastic simulation algorithm and
incorporates available data such as births, deaths and movements
as scheduled events at predefined time-points. Using C code for
the numerical solvers and 'OpenMP' (if available) to divide work
over multiple processors ensures high performance when simulating
a sample outcome. One of our design goals was to make the package
extendable and enable usage of the numerical solvers from other R
extension packages in order to facilitate complex epidemiological
research. The package contains template models and can be extended
with user-defined models. For more details see the paper by
Widgren, Bauer, Eriksson and Engblom (2019)
<doi:10.18637/jss.v091.i12>. The package also provides
function [...truncated...]
Author: Stefan Widgren [aut, cre] ,
Robin Eriksson [aut] ,
Stefan Engblom [aut] ,
Pavol Bauer [aut] ,
Thomas Rosendal [ctb] ,
Ivana Rodriguez Ewerloef [ctb] ,
Attractive Chaos [cph]
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between SimInf versions 9.6.0 dated 2023-12-20 and 9.7.0 dated 2024-04-23
DESCRIPTION | 8 MD5 | 93 ++--- NAMESPACE | 2 NEWS.md | 23 + R/C-generator.R | 144 +++++++- R/SimInf.R | 6 R/SimInf_indiv_events.R | 396 +++++++++++++++++++++-- R/check_arguments.R | 57 +++ R/distance.R | 15 R/mparse.R | 453 ++++++++++++++++++++------ R/prevalence.R | 26 + R/u0.R | 115 ++++-- R/v0.R | 15 README.md | 22 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/SimInf.pdf |binary inst/doc/post-process-data.R |only inst/doc/post-process-data.Rmd |only inst/doc/post-process-data.html |only inst/doc/scheduled-events.R | 39 ++ inst/doc/scheduled-events.Rmd | 96 +++++ inst/doc/scheduled-events.html | 102 +++++- man/SEIR.Rd | 8 man/SIR.Rd | 8 man/SIS.Rd | 8 man/SISe.Rd | 8 man/SISe3.Rd | 8 man/SISe3_sp.Rd | 8 man/SISe_sp.Rd | 8 man/SimInf.Rd | 28 + man/distance_matrix.Rd | 11 man/events.Rd | 22 - man/figures |only man/individual_events.Rd | 3 man/mparse.Rd | 89 +++-- man/node_events.Rd |only man/prevalence-SimInf_pfilter-method.Rd |only man/u0.Rd | 24 - man/v0-set.Rd | 13 src/init.c | 6 src/misc/SimInf_clean_indiv_events.c | 38 +- src/misc/SimInf_distance_matrix.c | 37 +- tests/SimInf_model.R | 4 tests/indiv_events.R | 540 +++++++++++++++++++++++++++++++- tests/ldata_sp.R | 23 + tests/mparse.R | 167 +++++++++ tests/pfilter.R | 12 tests/v0.R | 9 vignettes/post-process-data.Rmd |only vignettes/scheduled-events.Rmd | 96 +++++ 51 files changed, 2368 insertions(+), 422 deletions(-)
Title: Get Silhouettes of Organisms from PhyloPic
Description: Work with the PhyloPic Web Service (<http://api-docs.phylopic.org/v2/>)
to fetch silhouette images of organisms. Includes functions for adding
silhouettes to both base R plots and ggplot2 plots.
Author: William Gearty [aut, cre] ,
Lewis A. Jones [aut] ,
Scott Chamberlain [aut] ,
David Miller [ctb]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between rphylopic versions 1.3.0 dated 2023-12-20 and 1.4.0 dated 2024-04-23
DESCRIPTION | 8 MD5 | 94 ++++----- NAMESPACE | 4 NEWS.md | 5 R/add_phylopic_legend.R |only R/get_attribution.R | 103 +++++++--- R/pick_phylopic.R | 16 + R/zzz.r | 20 + build/vignette.rds |binary inst/doc/a-getting-started.Rmd | 27 +- inst/doc/a-getting-started.html | 27 +- inst/doc/b-advanced-ggplot.Rmd | 36 ++- inst/doc/b-advanced-ggplot.html | 73 +++---- inst/doc/c-advanced-base.Rmd | 2 inst/doc/c-advanced-base.html | 16 - man/add_phylopic_legend.Rd |only man/get_attribution.Rd | 13 + man/pick_phylopic.Rd | 6 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/add_phylopic_base/phylopic-in-background.svg | 11 - tests/testthat/_snaps/add_phylopic_legend |only tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph-with-img.svg | 13 - tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph-with-larger-glyphs.svg | 26 +- tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph-with-uuid.svg | 13 - tests/testthat/_snaps/geom_phylopic/phylopic-key-glyph.svg | 24 +- tests/testthat/test-add_phylopic_legend.R |only tests/testthat/test-get_attribution.R | 11 - tests/testthat/test-pick_phylo.R | 5 tests/testthat/test-resolve_phylopic.R | 6 vignettes/a-getting-started.Rmd | 27 +- vignettes/b-advanced-ggplot.Rmd | 36 ++- vignettes/base-geog-plot-2-1.png |binary vignettes/base-penguin-plot-2-1.png |binary vignettes/base-penguin-plot-3-1.png |binary vignettes/base-penguin-plot-4-1.png |binary vignettes/base-penguin-plot-5-1.png |binary vignettes/base-phylo-plot-3-1.png |binary vignettes/base-phylo-plot-4-1.png |binary vignettes/c-advanced-base.Rmd | 2 vignettes/ggplot-geog-plot-2-1.png |binary vignettes/ggplot-geog-plot-3-1.png |binary vignettes/ggplot-penguin-plot-2-1.png |binary vignettes/ggplot-penguin-plot-3-1.png |binary vignettes/ggplot-penguin-plot-4-1.png |binary vignettes/ggplot-penguin-plot-5-1.png |binary vignettes/ggplot-penguin-plot-6-1.png |binary vignettes/ggplot-phylo-plot-2-1.png |binary vignettes/ggplot-phylo-plot-3-1.png |binary vignettes/ggplot-phylo-plot-4-1.png |binary 49 files changed, 391 insertions(+), 233 deletions(-)
Title: Infrastructure for Partially Observable Markov Decision
Processes (POMDP)
Description: Provides the infrastructure to define and analyze the solutions of Partially Observable Markov Decision Process (POMDP) models. Interfaces for various exact and approximate solution algorithms are available including value iteration, point-based value iteration and SARSOP. Smallwood and Sondik (1973) <doi:10.1287/opre.21.5.1071>.
Author: Michael Hahsler [aut, cph, cre]
,
Hossein Kamalzadeh [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between pomdp versions 1.2.1 dated 2024-04-09 and 1.2.2 dated 2024-04-23
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- NEWS.md | 7 +++++++ R/round_stochchastic.R | 5 ++--- R/simulate_MDP.R | 2 +- R/simulate_POMDP.R | 7 +++++-- inst/doc/gridworlds.html | 46 +++++++++++++++++++++++----------------------- inst/doc/pomdp.Rmd | 2 +- inst/doc/pomdp.html | 14 +++++++------- man/round_stochastic.Rd | 6 ++---- man/simulate_MDP.Rd | 2 +- man/simulate_POMDP.Rd | 1 + src/POMDP.cpp | 20 ++++++++++++++++---- src/math.cpp | 3 --- tests/testthat/test-cpp.R | 1 + vignettes/pomdp.Rmd | 2 +- 16 files changed, 87 insertions(+), 69 deletions(-)
Title: Preprocessing Operators and Pipelines for 'mlr3'
Description: Dataflow programming toolkit that enriches 'mlr3' with a diverse
set of pipelining operators ('PipeOps') that can be composed into graphs.
Operations exist for data preprocessing, model fitting, and ensemble
learning. Graphs can themselves be treated as 'mlr3' 'Learners' and can
therefore be resampled, benchmarked, and tuned.
Author: Martin Binder [aut, cre],
Florian Pfisterer [aut] ,
Lennart Schneider [aut] ,
Bernd Bischl [aut] ,
Michel Lang [aut] ,
Sebastian Fischer [ctb] ,
Susanne Dandl [aut]
Maintainer: Martin Binder <mlr.developer@mb706.com>
Diff between mlr3pipelines versions 0.5.1 dated 2024-03-26 and 0.5.2 dated 2024-04-23
mlr3pipelines-0.5.1/mlr3pipelines/tests/testthat/helper_compat.R |only mlr3pipelines-0.5.1/mlr3pipelines/tests/testthat/helper_functions.R |only mlr3pipelines-0.5.1/mlr3pipelines/tests/testthat/helper_test_pipeops.R |only mlr3pipelines-0.5.2/mlr3pipelines/DESCRIPTION | 18 mlr3pipelines-0.5.2/mlr3pipelines/MD5 | 320 +++++----- mlr3pipelines-0.5.2/mlr3pipelines/NAMESPACE | 1 mlr3pipelines-0.5.2/mlr3pipelines/NEWS.md | 8 mlr3pipelines-0.5.2/mlr3pipelines/R/GraphLearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpBoxCox.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpClassifAvg.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpEncode.R | 14 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpEncodeLmer.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpFilter.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpICA.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpImputeLearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpKernelPCA.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpLearner.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpLearnerCV.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpNMF.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpOVR.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpProxy.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpRandomResponse.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpRegrAvg.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpSmote.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpTextVectorizer.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpThreshold.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpTrafo.R | 6 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpTuneThreshold.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpVtreat.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/PipeOpYeoJohnson.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/mlr_graphs.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/mlr_pipeops.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_bagging.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_convert_types.R |only mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_ovr.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_robustify.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_stacking.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/pipeline_targettrafo.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/po.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/R/ppl.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/inst/testthat |only mlr3pipelines-0.5.2/mlr3pipelines/man/Graph.Rd | 8 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOp.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpEnsemble.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpImpute.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpTargetTrafo.Rd | 20 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpTaskPreproc.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/PipeOpTaskPreprocSimple.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs.Rd | 10 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_bagging.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_convert_types.Rd |only mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_ovr.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_robustify.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_stacking.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_graphs_targettrafo.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_learners_graph.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_boxcox.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_branch.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_chunk.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_classbalancing.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_classifavg.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_classweights.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_colapply.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_collapsefactors.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_colroles.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_copy.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_datefeatures.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_encode.Rd | 24 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_encodeimpact.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_encodelmer.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_featureunion.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_filter.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_fixfactors.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_histbin.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_ica.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputeconstant.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputehist.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputelearner.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputemean.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputemedian.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputemode.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputeoor.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_imputesample.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_kernelpca.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_learner.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_learner_cv.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_missind.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_modelmatrix.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_multiplicityexply.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_multiplicityimply.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_mutate.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_nmf.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_nop.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_ovrsplit.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_ovrunite.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_pca.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_proxy.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_quantilebin.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_randomprojection.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_randomresponse.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_regravg.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_removeconstants.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_renamecolumns.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_replicate.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_scale.Rd | 10 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_scalemaxabs.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_scalerange.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_select.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_smote.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_spatialsign.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_subsample.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_targetinvert.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_targetmutate.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_targettrafoscalerange.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_textvectorizer.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_threshold.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_tunethreshold.Rd | 16 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_unbranch.Rd | 12 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_updatetarget.Rd | 18 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_vtreat.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/mlr_pipeops_yeojohnson.Rd | 14 mlr3pipelines-0.5.2/mlr3pipelines/man/po.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/man/ppl.Rd | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/helper_mlr3pipelines.R |only mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_Graph.R | 5 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_GraphLearner.R | 9 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_conversion.R | 7 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_dictionary.R | 4 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_learner_weightedaverage.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_bagging.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_branching.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_convert_types.R |only mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_ovr.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_mlr_graphs_robustify.R | 3 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mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_ovr.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_proxy.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_randomresponse.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_smote.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_targetmutate.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_targettrafoscalerange.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_textvectorizer.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_threshold.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_tunethreshold.R | 3 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_updatetarget.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_pipeop_yeojohnson.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_po.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_ppl.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_resample.R | 1 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_typecheck.R | 2 mlr3pipelines-0.5.2/mlr3pipelines/tests/testthat/test_usecases.R | 11 164 files changed, 912 insertions(+), 615 deletions(-)
Title: Download Flight and Airport Data from Brazil
Description: Download flight and airport data from Brazil’s Civil Aviation Agency
(ANAC) <https://www.gov.br/anac>. The data includes detailed
information on all aircrafts, aerodromes, airports, and airport
movements registered in ANAC, on airfares and on every international
flight to and from Brazil, as well as domestic flights within the country.
Author: Rafael H. M. Pereira [aut, cre]
,
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between flightsbr versions 0.4.0 dated 2023-12-04 and 0.4.1 dated 2024-04-23
DESCRIPTION | 8 +- MD5 | 46 ++++++------- NAMESPACE | 36 +++++----- NEWS.md | 8 ++ R/utils.R | 8 +- README.md | 4 - man/download_aircrafts_data.Rd | 64 +++++++++--------- man/download_airfares_data.Rd | 70 ++++++++++---------- man/download_airport_movement_data.Rd | 70 ++++++++++---------- man/download_flightsbr_file.Rd | 76 ++++++++++----------- man/flightsbr.Rd | 75 ++++++++++----------- man/get_aircrafts_dates_available.Rd | 42 ++++++------ man/get_aircrafts_url.Rd | 52 +++++++------- man/get_airfares_dates_available.Rd | 52 +++++++------- man/get_airfares_url.Rd | 60 ++++++++--------- man/get_airport_movement_dates_available.Rd | 52 +++++++------- man/get_airport_movements_url.Rd | 52 +++++++------- man/get_flight_dates_available.Rd | 42 ++++++------ man/get_flights_url.Rd | 60 ++++++++--------- man/latest_flights_date.Rd | 44 ++++++------ man/read_aircrafts.Rd | 74 ++++++++++----------- man/read_airfares.Rd | 98 ++++++++++++++-------------- man/read_airport_movements.Rd | 78 +++++++++++----------- man/read_airports.Rd | 74 ++++++++++----------- 24 files changed, 628 insertions(+), 617 deletions(-)
Title: Collapsed Latent Position Cluster Model for Social Networks
Description: Markov chain Monte Carlo based inference routines for collapsed latent position cluster models or social networks, which includes searches over the model space (number of clusters in the latent position cluster model). The label switching algorithm used is that of Nobile and Fearnside (2007) <doi:10.1007/s11222-006-9014-7> which relies on the algorithm of Carpaneto and Toth (1980) <doi:10.1145/355873.355883>.
Author: Jason Wyse [aut, cre],
Caitriona Ryan [aut],
Nial Friel [ths]
Maintainer: Jason Wyse <wyseja@tcd.ie>
Diff between collpcm versions 1.3 dated 2024-01-09 and 1.4 dated 2024-04-23
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/collpcm.undo.label.switching.R | 19 +++++++++++-------- build/vignette.rds |binary inst/doc/collpcm.pdf |binary 6 files changed, 26 insertions(+), 17 deletions(-)
Title: General Utility Functions for Analysis of Clinical Data
Description: Utility functions to facilitate the import,
the reporting and analysis of clinical data.
Example datasets in 'SDTM' and 'ADaM' format, containing a subset of patients/domains
from the 'CDISC Pilot 01 study' are also available as R datasets to demonstrate
the package functionalities.
Author: Laure Cougnaud [aut, cre],
Michela Pasetto [aut],
Arne De Roeck [rev] ,
Open Analytics [cph]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between clinUtils versions 0.1.4 dated 2023-01-06 and 0.1.5 dated 2024-04-23
DESCRIPTION | 10 MD5 | 81 R/compareTables.R | 90 R/data.R | 61 R/loadDataADaMSDTM.R | 13 R/plots-palettes.R | 1 R/plots-palettesCDISC.R | 36 R/plots-utility.R | 13 R/roundHalfUp.R | 8 R/table-getClinDT.R | 30 build/vignette.rds |binary data/dataADaMCDISCP01.RData |binary data/dataSDTMCDISCP01.RData |binary inst/NEWS | 6 inst/doc/clinUtils-vignette.html |90262 ++++++++++++++++++------------ inst/extdata/cdiscpilot01/SDTM/ae.xpt |binary inst/extdata/cdiscpilot01/SDTM/cm.xpt |binary inst/extdata/cdiscpilot01/SDTM/dm.xpt |binary inst/extdata/cdiscpilot01/SDTM/ds.xpt |only inst/extdata/cdiscpilot01/SDTM/ex.xpt |binary inst/extdata/cdiscpilot01/SDTM/lb.xpt |binary inst/extdata/cdiscpilot01/SDTM/mh.xpt |binary inst/extdata/cdiscpilot01/SDTM/qs.xpt |only inst/extdata/cdiscpilot01/SDTM/suppdm.xpt |only inst/extdata/cdiscpilot01/SDTM/sv.xpt |binary inst/extdata/cdiscpilot01/SDTM/vs.xpt |binary man/clinColors.Rd | 13 man/colorPaletteNRIND.Rd | 12 man/compareDiff.Rd | 40 man/compareTables.Rd | 38 man/comparisonTables-common-args.Rd | 22 man/dataADaMCDISCP01.Rd | 32 man/dataSDTMCDISCP01.Rd | 29 man/exportDiffData.Rd | 16 man/formatDTBarVar.Rd | 12 man/formatVarForPlotLabel.Rd | 13 man/getClinDT.Rd | 24 man/getClinDTButtons.Rd | 6 man/getLabelVar.Rd | 13 man/getPaletteCDISC.Rd | 12 man/mergeDiffWithData.Rd | 12 man/roundHalfUpTextFormat.Rd | 8 man/shapePaletteNRIND.Rd | 12 43 files changed, 56895 insertions(+), 34030 deletions(-)
Title: A Program for Missing Data
Description: A tool that "multiply imputes" missing data in a single cross-section
(such as a survey), from a time series (like variables collected for
each year in a country), or from a time-series-cross-sectional data
set (such as collected by years for each of several countries).
Amelia II implements our bootstrapping-based algorithm that gives
essentially the same answers as the standard IP or EMis approaches,
is usually considerably faster than existing approaches and can
handle many more variables. Unlike Amelia I and other statistically
rigorous imputation software, it virtually never crashes (but please
let us know if you find to the contrary!). The program also
generalizes existing approaches by allowing for trends in time series
across observations within a cross-sectional unit, as well as priors
that allow experts to incorporate beliefs they have about the values
of missing cells in their data. Amelia II also includes useful
diagnostics of the fit of multiple imputation models. The p [...truncated...]
Author: James Honaker [aut],
Gary King [aut],
Matthew Blackwell [aut, cre]
Maintainer: Matthew Blackwell <mblackwell@gov.harvard.edu>
Diff between Amelia versions 1.8.1 dated 2022-11-19 and 1.8.2 dated 2024-04-23
Amelia-1.8.1/Amelia/man/amelia.package.Rd |only Amelia-1.8.2/Amelia/DESCRIPTION | 10 Amelia-1.8.2/Amelia/MD5 | 37 +- Amelia-1.8.2/Amelia/R/amelia-package.R |only Amelia-1.8.2/Amelia/R/ameliagui.r | 10 Amelia-1.8.2/Amelia/R/diag.r | 8 Amelia-1.8.2/Amelia/R/emb.r | 6 Amelia-1.8.2/Amelia/R/prep.r | 2 Amelia-1.8.2/Amelia/build/partial.rdb |binary Amelia-1.8.2/Amelia/build/vignette.rds |binary Amelia-1.8.2/Amelia/inst/doc/ameliaview.html | 183 +++++------ Amelia-1.8.2/Amelia/inst/doc/diagnostics.html | 175 +++++------ Amelia-1.8.2/Amelia/inst/doc/intro-mi.Rmd | 2 Amelia-1.8.2/Amelia/inst/doc/intro-mi.html | 86 ++--- Amelia-1.8.2/Amelia/inst/doc/using-amelia.Rmd | 4 Amelia-1.8.2/Amelia/inst/doc/using-amelia.html | 387 ++++++++++++------------- Amelia-1.8.2/Amelia/man/Amelia-package.Rd |only Amelia-1.8.2/Amelia/src/Makevars | 1 Amelia-1.8.2/Amelia/src/Makevars.win | 1 Amelia-1.8.2/Amelia/vignettes/intro-mi.Rmd | 2 Amelia-1.8.2/Amelia/vignettes/using-amelia.Rmd | 4 21 files changed, 455 insertions(+), 463 deletions(-)
Title: Dynamic OpenAPI/Swagger Client
Description: Access services specified in OpenAPI (formerly Swagger) format.
It is not a code generator. Client is generated dynamically as a list of R
functions.
Author: Darko Bergant [aut, cre],
Marcel Ramos [ctb],
Sean Davis [ctb],
Martin Morgan [ctb]
Maintainer: Darko Bergant <darko.bergant@gmail.com>
Diff between rapiclient versions 0.1.3 dated 2020-01-17 and 0.1.4 dated 2024-04-23
DESCRIPTION | 25 ++++++++++++++++--------- MD5 | 26 +++++++++++++------------- R/operations.R | 12 +++++++++--- R/print.R | 6 +++--- R/rapiclient.R | 3 +-- man/get_operation_definitions.Rd | 2 +- man/get_operations.Rd | 3 +-- man/get_parameters.Rd | 2 -- man/get_schema_graphviz_dot.Rd | 9 +++++++-- man/print.rapi_api.Rd | 2 +- man/print.rapi_operation.Rd | 2 +- man/print.rapi_schema_function.Rd | 2 +- man/rapiclient-package.Rd | 19 +++++++++++++++++++ man/result_handlers.Rd | 6 +++--- 14 files changed, 76 insertions(+), 43 deletions(-)
Title: Interfaces to Phylogenetic Software in R
Description: Functions that wrap popular phylogenetic software for sequence
alignment, masking of sequence alignments, and estimation of phylogenies and
ancestral character states.
Author: Christoph Heibl [aut, cre],
Natalie Cusimano [aut],
Franz-Sebastian Krah [aut]
Maintainer: Christoph Heibl <christoph.heibl@gmx.net>
Diff between ips versions 0.0.11 dated 2019-07-04 and 0.0.12 dated 2024-04-23
ips-0.0.11/ips/inst/NEWS.Rd |only ips-0.0.11/ips/man/deleteEmptyCells.Rd |only ips-0.0.12/ips/DESCRIPTION | 15 - ips-0.0.12/ips/MD5 | 132 ++++++++------- ips-0.0.12/ips/NAMESPACE | 19 ++ ips-0.0.12/ips/NEWS.md |only ips-0.0.12/ips/R/EmptyCells.R |only ips-0.0.12/ips/R/aliscore.R | 2 ips-0.0.12/ips/R/assembleDataNode.R | 29 ++- ips-0.0.12/ips/R/assembleDistributionNode.R | 115 ------------- ips-0.0.12/ips/R/assembleInitNode.R | 64 +++++-- ips-0.0.12/ips/R/assembleLikelihoodNode.R |only ips-0.0.12/ips/R/assembleLoggers.R | 189 ++++++++++++++++------ ips-0.0.12/ips/R/assembleOperators.R | 237 ++++++++++++++++++---------- ips-0.0.12/ips/R/assemblePriorNode.R |only ips-0.0.12/ips/R/assembleStateNode.R | 160 +++++++++++++++--- ips-0.0.12/ips/R/assembleTaxonSetPrior.R |only ips-0.0.12/ips/R/assembleTreeNode.R |only ips-0.0.12/ips/R/beastLog.R |only ips-0.0.12/ips/R/blastn.R |only ips-0.0.12/ips/R/combMyTree.R |only ips-0.0.12/ips/R/deleteEmptyCells.R | 37 ---- ips-0.0.12/ips/R/descendants.R | 1 ips-0.0.12/ips/R/extractBEASTstats.R | 1 ips-0.0.12/ips/R/gammaPrior.R |only ips-0.0.12/ips/R/gblocks.R | 4 ips-0.0.12/ips/R/identifyEmptyCells.R |only ips-0.0.12/ips/R/mafft.R | 18 +- ips-0.0.12/ips/R/mrbayes.R | 59 ++++++ ips-0.0.12/ips/R/multistateML.R | 6 ips-0.0.12/ips/R/operator.R |only ips-0.0.12/ips/R/parameter.R |only ips-0.0.12/ips/R/phylo2mafft.R | 2 ips-0.0.12/ips/R/pis.R | 30 +++ ips-0.0.12/ips/R/prank.R | 4 ips-0.0.12/ips/R/raxml.R | 6 ips-0.0.12/ips/R/rbeauti.R | 200 +++++++++++++++++++---- ips-0.0.12/ips/R/rbeauti.taxonset.R | 10 - ips-0.0.12/ips/R/rc.R | 90 +++++++--- ips-0.0.12/ips/R/read.beast.R | 176 ++++++++++---------- ips-0.0.12/ips/R/read.beast.table.R | 2 ips-0.0.12/ips/R/read.fas.R | 3 ips-0.0.12/ips/R/sister.R | 2 ips-0.0.12/ips/R/trimEnds.R | 26 ++- ips-0.0.12/ips/R/write.nex.R | 1 ips-0.0.12/ips/README.md | 2 ips-0.0.12/ips/data/log_list.rda |only ips-0.0.12/ips/data/operator_list.rda |only ips-0.0.12/ips/inst/CITATION | 11 - ips-0.0.12/ips/man/EmptyCells.Rd |only ips-0.0.12/ips/man/aliscore.Rd | 2 ips-0.0.12/ips/man/beastLog.Rd |only ips-0.0.12/ips/man/blastn.Rd |only ips-0.0.12/ips/man/combMyTree.Rd |only ips-0.0.12/ips/man/gblocks.Rd | 16 + ips-0.0.12/ips/man/ips-internal.Rd | 6 ips-0.0.12/ips/man/ips-package.Rd | 4 ips-0.0.12/ips/man/ips.16S.Rd | 2 ips-0.0.12/ips/man/ips.28S.Rd | 2 ips-0.0.12/ips/man/ips.cox1.Rd | 2 ips-0.0.12/ips/man/ips.tree.Rd | 2 ips-0.0.12/ips/man/mafft.Rd | 24 ++ ips-0.0.12/ips/man/mafft.merge.Rd | 3 ips-0.0.12/ips/man/mrbayes.Rd | 130 ++++++++------- ips-0.0.12/ips/man/mrbayes.lset.Rd | 4 ips-0.0.12/ips/man/mrbayes.mcmc.Rd | 2 ips-0.0.12/ips/man/mrbayes.prset.Rd | 2 ips-0.0.12/ips/man/multistate.Rd | 6 ips-0.0.12/ips/man/oi.Rd | 3 ips-0.0.12/ips/man/partitionfinder.Rd | 12 + ips-0.0.12/ips/man/phylo2mafft.Rd | 2 ips-0.0.12/ips/man/pis.Rd | 46 ++--- ips-0.0.12/ips/man/prank.Rd | 2 ips-0.0.12/ips/man/raxml.Rd | 24 ++ ips-0.0.12/ips/man/rbeauti.Rd | 112 +++++++------ ips-0.0.12/ips/man/rc.Rd |only ips-0.0.12/ips/man/read.beast.Rd | 12 - ips-0.0.12/ips/man/read.beast.table.Rd | 2 78 files changed, 1310 insertions(+), 765 deletions(-)
Title: 'R' Bindings for 'TMB'
Description: Native 'R' interface to 'TMB' (Template Model Builder) so models can be written entirely in 'R' rather than 'C++'. Automatic differentiation, to any order, is available for a rich subset of 'R' features, including linear algebra for dense and sparse matrices, complex arithmetic, Fast Fourier Transform, probability distributions and special functions. 'RTMB' provides easy access to model fitting and validation following the principles of Kristensen, K., Nielsen, A., Berg, C. W., Skaug, H., & Bell, B. M. (2016) <DOI:10.18637/jss.v070.i05> and Thygesen, U.H., Albertsen, C.M., Berg, C.W. et al. (2017) <DOI:10.1007/s10651-017-0372-4>.
Author: Kasper Kristensen [aut, cre]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between RTMB versions 1.4 dated 2023-12-01 and 1.5 dated 2024-04-23
DESCRIPTION | 8 MD5 | 64 +++--- NAMESPACE | 5 R/00roxygen.R | 18 + R/RcppExports.R | 36 ++- R/adjoint.R |only R/advector.R | 101 ++++++--- R/methods.R | 75 ++++++- R/mvgauss.R | 15 + build/vignette.rds |binary inst/doc/RTMB-advanced.R | 46 ++++ inst/doc/RTMB-advanced.html | 207 +++++++++++++------- inst/doc/RTMB-advanced.rmd | 92 ++++++++ inst/doc/RTMB-introduction.html | 6 inst/include |only inst/tinytest/test-distributions.R | 27 ++ inst/tinytest/test-tape.R | 50 ++++ man/ADapply.Rd | 6 man/ADconstruct.Rd | 5 man/ADjoint.Rd |only man/ADmatrix.Rd | 7 man/ADvector.Rd | 10 man/Distributions.Rd | 24 ++ man/RTMB-package.Rd | 8 man/TMB-interface.Rd | 3 man/Tape.Rd | 28 ++ src/RTMB.cpp | 382 ------------------------------------- src/RTMB.h | 11 - src/RTMB_tape.cpp |only src/RcppExports.cpp | 103 +++++++-- src/math.cpp | 20 + src/misc.cpp | 76 ++++++- vignettes/RTMB-advanced.rmd | 92 ++++++++ 33 files changed, 940 insertions(+), 585 deletions(-)
Title: Routines for L1 Estimation
Description: L1 estimation for linear regression using Barrodale and Roberts' method
<doi:10.1145/355616.361024> and the EM algorithm <doi:10.1023/A:1020759012226>.
Estimation of mean and covariance matrix using the multivariate Laplace distribution,
density, distribution function, quantile function and random number generation
for univariate and multivariate Laplace distribution <doi:10.1080/03610929808832115>.
Author: Felipe Osorio [aut, cre] ,
Tymoteusz Wolodzko [aut]
Maintainer: Felipe Osorio <felipe.osorios@usm.cl>
Diff between L1pack versions 0.41-24 dated 2023-05-18 and 0.41-245 dated 2024-04-23
ChangeLog | 17 +++++++++++++---- DESCRIPTION | 15 ++++++++------- MD5 | 46 +++++++++++++++++++++++++++------------------- NAMESPACE | 9 +++++---- R/LaplaceFit.R |only R/distn.R | 21 +++++++++++++-------- R/lad.R | 16 +++++++++------- R/wilson_hilferty.R |only data |only inst/CITATION | 8 ++++---- man/Laplace.Rd | 19 ++++++++----------- man/LaplaceFit.Rd |only man/confint.lad.Rd | 4 ++-- man/ereturns.Rd |only man/l1fit.Rd | 4 ++-- man/lad.Rd | 18 +++++++++--------- man/mLaplace.Rd | 16 ++++++++++------ man/vcov.lad.Rd | 2 +- man/wilson.hilferty.Rd |only src/R_init_L1pack.c | 30 ++++++++++++++++++++---------- src/base.h | 5 +++-- src/distn.c | 33 ++++++++++++++++++++++++++++++++- src/interface.c | 46 +++++++++++++++++++++++++++++++++++++++++++++- src/interface.h | 12 +++++++++++- src/lad.h | 6 ++---- src/lad_EM.c | 15 ++++++++++----- src/laplace_fitter.c |only src/wilson-hilferty.c |only 28 files changed, 234 insertions(+), 108 deletions(-)
Title: Send Email Messages
Description: A light, simple tool for sending emails with minimal dependencies.
Author: Andrew B. Collier [aut, cre, cph],
Matt Dennis [ctb],
Antoine Bichat [ctb] ,
Daniel Fahey [ctb],
Johann R. Kleinbub [ctb],
Panagiotis Moulos [ctb],
Swechhya Bista [ctb],
Colin Fay [ctb]
Maintainer: Andrew B. Collier <andrew.b.collier@gmail.com>
Diff between emayili versions 0.7.18 dated 2023-08-30 and 0.8.0 dated 2024-04-23
emayili-0.7.18/emayili/inst/shiny/send-message/rsconnect |only emayili-0.8.0/emayili/DESCRIPTION | 8 +-- emayili-0.8.0/emayili/MD5 | 13 ++--- emayili-0.8.0/emayili/NAMESPACE | 3 + emayili-0.8.0/emayili/R/encodable.R | 1 emayili-0.8.0/emayili/R/header.R | 1 emayili-0.8.0/emayili/R/server.R | 39 +++++++++++++-- emayili-0.8.0/emayili/man/server.Rd | 15 +++++ 8 files changed, 64 insertions(+), 16 deletions(-)
Title: Testing Randomness in R
Description: Provides several non parametric randomness tests for numeric sequences.
Author: Frederico Caeiro [aut, cre] ,
Ayana Mateus [aut]
Maintainer: Frederico Caeiro <fac@fct.unl.pt>
Diff between randtests versions 1.0.1 dated 2022-06-20 and 1.0.2 dated 2024-04-23
randtests-1.0.1/randtests/NEWS |only randtests-1.0.2/randtests/Changes |only randtests-1.0.2/randtests/DESCRIPTION | 8 +-- randtests-1.0.2/randtests/MD5 | 6 +- randtests-1.0.2/randtests/man/randtests-package.Rd | 56 ++++++++++----------- 5 files changed, 35 insertions(+), 35 deletions(-)
Title: Support Technical Processes Following 'Maelstrom Research'
Standards
Description: Functions to support rigorous processes in data cleaning,
evaluation, and documentation across datasets from different studies based
on Maelstrom Research guidelines. The package includes the core functions
to evaluate and format the main inputs that define the process, diagnose
errors, and summarize and evaluate datasets and their associated
data dictionaries. The main outputs are clean datasets and associated
metadata, and tabular and visual summary reports. As described in
Maelstrom Research guidelines for rigorous retrospective data
harmonization (Fortier I and al. (2017) <doi:10.1093/ije/dyw075>).
Author: Guillaume Fabre [aut, cre] ,
Maelstrom-research group [cph, fnd]
Maintainer: Guillaume Fabre <guijoseph.fabre@gmail.com>
Diff between madshapR versions 1.0.3 dated 2023-12-19 and 1.1.0 dated 2024-04-23
madshapR-1.0.3/madshapR/R/07-data_summarise.R |only madshapR-1.0.3/madshapR/man/madshapR_help.Rd |only madshapR-1.1.0/madshapR/DESCRIPTION | 6 madshapR-1.1.0/madshapR/MD5 | 78 - madshapR-1.1.0/madshapR/NAMESPACE | 1 madshapR-1.1.0/madshapR/NEWS.md | 516 ++++++----- madshapR-1.1.0/madshapR/R/01-utils.R | 4 madshapR-1.1.0/madshapR/R/02-dictionaries_functions.R | 60 - madshapR-1.1.0/madshapR/R/03-dataset_functions.R | 13 madshapR-1.1.0/madshapR/R/04-catalogue_functions.R | 302 ++++-- madshapR-1.1.0/madshapR/R/05-unit_checks.R | 230 +--- madshapR-1.1.0/madshapR/R/06-data_evaluate.R | 118 +- madshapR-1.1.0/madshapR/R/07-data_summarize.R |only madshapR-1.1.0/madshapR/R/08-data_visualize.R | 199 ++-- madshapR-1.1.0/madshapR/R/deprecated.R | 23 madshapR-1.1.0/madshapR/README.md | 2 madshapR-1.1.0/madshapR/build/partial.rdb |binary madshapR-1.1.0/madshapR/build/vignette.rds |binary madshapR-1.1.0/madshapR/data/madshapR_DEMO.rda |binary madshapR-1.1.0/madshapR/data/valueType_list.rda |binary madshapR-1.1.0/madshapR/inst/WORDLIST | 14 madshapR-1.1.0/madshapR/inst/doc/madshapR-vignette.R | 2 madshapR-1.1.0/madshapR/inst/doc/madshapR-vignette.Rmd | 2 madshapR-1.1.0/madshapR/inst/doc/madshapR-vignette.html | 2 madshapR-1.1.0/madshapR/man/check_dataset_categories.Rd | 13 madshapR-1.1.0/madshapR/man/data_dict_evaluate.Rd | 3 madshapR-1.1.0/madshapR/man/dataset_evaluate.Rd | 19 madshapR-1.1.0/madshapR/man/dataset_preprocess.Rd | 4 madshapR-1.1.0/madshapR/man/dataset_summarize.Rd | 5 madshapR-1.1.0/madshapR/man/dataset_visualize.Rd | 8 madshapR-1.1.0/madshapR/man/deprecated.Rd | 7 madshapR-1.1.0/madshapR/man/dossier_evaluate.Rd | 12 madshapR-1.1.0/madshapR/man/dossier_summarize.Rd | 2 madshapR-1.1.0/madshapR/man/madshapR_website.Rd |only madshapR-1.1.0/madshapR/man/summary_variables.Rd | 12 madshapR-1.1.0/madshapR/man/summary_variables_categorical.Rd | 12 madshapR-1.1.0/madshapR/man/summary_variables_date.Rd | 19 madshapR-1.1.0/madshapR/man/summary_variables_datetime.Rd | 10 madshapR-1.1.0/madshapR/man/summary_variables_numeric.Rd | 12 madshapR-1.1.0/madshapR/man/summary_variables_text.Rd | 12 madshapR-1.1.0/madshapR/man/variable_visualize.Rd | 7 madshapR-1.1.0/madshapR/vignettes/madshapR-vignette.Rmd | 2 42 files changed, 1029 insertions(+), 702 deletions(-)
Title: Nonparametric Change Point Detection for Multivariate Time
Series
Description: Implements the nonparametric moving sum procedure for detecting
changes in the joint characteristic function (NP-MOJO) for multiple change
point detection in multivariate time series. See McGonigle, E. T., Cho, H.
(2023) <doi:10.48550/arXiv.2305.07581> for description of the NP-MOJO methodology.
Author: Euan T. McGonigle [aut, cre],
Haeran Cho [aut]
Maintainer: Euan T. McGonigle <e.t.mcgonigle@soton.ac.uk>
Diff between CptNonPar versions 0.1.1 dated 2023-06-13 and 0.2.1 dated 2024-04-23
DESCRIPTION | 10 - MD5 | 29 ++- NAMESPACE | 1 NEWS.md | 13 + R/multilag.cpts.merge.R | 14 + R/multiscale.np.mojo.R |only R/np.mojo.R | 45 +++-- R/np.mojo.multilag.R | 52 +++--- R/utils.R | 2 man/multilag.cpts.merge.Rd | 8 - man/multiscale.np.mojo.Rd |only man/np.mojo.Rd | 41 ++--- man/np.mojo.multilag.Rd | 46 +++-- tests/testthat/test-multilag.R | 22 +- tests/testthat/test-multiscale.np.mojo.R |only tests/testthat/test-np.R | 240 ++++++++++++++++++------------- tests/testthat/test-np.mojo.R | 28 ++- 17 files changed, 318 insertions(+), 233 deletions(-)
Title: Multiple Data Analysis Tools for Property Listing Tasks
Description: Application to estimate statistical values using properties provided by a group of individuals to describe
concepts using 'shiny'. It estimates the underlying distribution to generate new descriptive words
Canessa et al. (2023) <doi:10.3758/s13428-022-01811-w>, applies a new clustering model, and uses simulations to estimate
the probability that two persons describe the same words based on their descriptions
Canessa et al. (2022) <doi:10.3758/s13428-022-02030-z>.
Author: Sebastian Moreno [aut, cre],
Cristobal Heredia [aut],
Enrique Canessa [ths],
Sergio Chaigneau [ths]
Maintainer: Sebastian Moreno <sebastian.moreno.araya@gmail.com>
Diff between WordListsAnalytics versions 0.2.0 dated 2024-04-18 and 0.2.1 dated 2024-04-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/PLT_server.R | 9 +++++---- 3 files changed, 10 insertions(+), 9 deletions(-)
More information about WordListsAnalytics at CRAN
Permanent link
Title: Manipulating Labelled Data
Description: Work with labelled data imported from 'SPSS'
or 'Stata' with 'haven' or 'foreign'. This package
provides useful functions to deal with "haven_labelled" and
"haven_labelled_spss" classes introduced by 'haven' package.
Author: Joseph Larmarange [aut, cre] ,
Daniel Ludecke [ctb],
Hadley Wickham [ctb],
Michal Bojanowski [ctb],
Francois Briatte [ctb]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between labelled versions 2.12.0 dated 2023-06-21 and 2.13.0 dated 2024-04-23
DESCRIPTION | 13 - MD5 | 105 +++++------ NAMESPACE | 5 NEWS.md | 18 + R/copy_labels.R | 49 +++-- R/is_prefixed.R | 3 R/lookfor.R | 115 +++++++----- R/na_values.R | 77 +++++--- R/recode.R | 32 +-- R/recode_if.R | 14 - R/remove_attributes.R | 3 R/remove_labels.R | 30 +-- R/retrocompatibility.R | 12 - R/tagged_na.R | 44 +++- R/to_character.R | 46 ++-- R/to_factor.R | 146 ++++++++------- R/to_labelled.R | 117 +++++++----- R/to_na.R | 6 R/update_with.R |only R/val_labels.R | 347 +++++++++++++++++++++++++------------ R/var_label.R | 35 ++- README.md | 2 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/intro_labelled.R | 46 ++-- inst/doc/intro_labelled.Rmd | 42 ++-- inst/doc/intro_labelled.html | 40 ++-- inst/doc/look_for.R | 2 inst/doc/look_for.html | 292 +++++++++++++------------------ inst/doc/missing_values.R | 2 inst/doc/packed_columns.Rmd | 2 inst/doc/packed_columns.html | 4 man/copy_labels.Rd | 12 - man/look_for.Rd | 4 man/na_values.Rd | 5 man/recode.haven_labelled.Rd | 7 man/recode_if.Rd | 2 man/remove_attributes.Rd | 3 man/sort_val_labels.Rd | 4 man/to_character.Rd | 5 man/to_factor.Rd | 15 - man/to_labelled.Rd | 32 +-- man/update_variable_labels_with.Rd |only man/val_labels.Rd | 51 ++++- man/var_label.Rd | 15 - tests/spelling.R | 3 tests/testthat/test-copy_labels.r | 4 tests/testthat/test-labelled.r | 50 ++++- tests/testthat/test-miscellanous.R | 2 tests/testthat/test-na_values.R | 21 +- tests/testthat/test-to_labelled.r | 35 +-- tests/testthat/test-update_with.r |only tests/testthat/test_lookfor.R | 13 - vignettes/intro_labelled.Rmd | 42 ++-- vignettes/packed_columns.Rmd | 2 55 files changed, 1148 insertions(+), 829 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 0.5.1 dated 2024-03-26 and 0.5.3 dated 2024-04-23
grattanInflators-0.5.1/grattanInflators/src/C_fastIDate.c |only grattanInflators-0.5.3/grattanInflators/DESCRIPTION | 6 grattanInflators-0.5.3/grattanInflators/MD5 | 22 - grattanInflators-0.5.3/grattanInflators/NEWS.md | 7 grattanInflators-0.5.3/grattanInflators/R/fast_as_idate.R | 16 grattanInflators-0.5.3/grattanInflators/inst/tinytest/test_cpi_inflator.R | 2 grattanInflators-0.5.3/grattanInflators/inst/tinytest/test_guess_format.R |only grattanInflators-0.5.3/grattanInflators/inst/tinytest/test_lf_inflator.R | 43 +- grattanInflators-0.5.3/grattanInflators/man/fast_as_idate.Rd | 79 ++- grattanInflators-0.5.3/grattanInflators/src/check_input.c | 2 grattanInflators-0.5.3/grattanInflators/src/grattanInflator.h | 1 grattanInflators-0.5.3/grattanInflators/src/idate_YearMonth.c | 203 +++++++++- grattanInflators-0.5.3/grattanInflators/src/init.c | 24 - 13 files changed, 303 insertions(+), 102 deletions(-)
More information about grattanInflators at CRAN
Permanent link
Title: Estimation in Difference-in-Difference Designs with Multiple
Groups and Periods
Description: Estimation of event-study Difference-in-Difference (DID) estimators in designs with multiple groups and periods, and with a potentially non-binary treatment that may increase or decrease multiple times.
Author: Diego Ciccia [aut, cre],
Felix Knau [aut],
Melitine Malezieux [aut],
Doulo Sow [aut],
Clement de Chaisemartin [aut]
Maintainer: Diego Ciccia <diego.ciccia@sciencespo.fr>
Diff between DIDmultiplegtDYN versions 1.0.5 dated 2024-03-01 and 1.0.8 dated 2024-04-23
DESCRIPTION | 8 +- MD5 | 27 +++--- NAMESPACE | 3 NEWS.md | 18 ++++ R/did_multiplegt_bootstrap.R | 13 ++- R/did_multiplegt_by_path.R |only R/did_multiplegt_dyn.R | 89 +++++++++++++++++----- R/did_multiplegt_dyn_core.R | 10 ++ R/did_multiplegt_dyn_design.R | 1 R/did_multiplegt_dyn_graph.R | 60 +++++++++------ R/did_multiplegt_main.R | 155 ++++++++++++++++++++++++++++++++------- R/print.R | 18 +++- R/progressBar.R | 7 + R/rnames.R |only man/did_multiplegt_dyn.Rd | 41 ++++++---- man/rnames.did_multiplegt_dyn.Rd |only 16 files changed, 338 insertions(+), 112 deletions(-)
More information about DIDmultiplegtDYN at CRAN
Permanent link
Title: Variance Dispersion Graphs and Fraction of Design Space Plots
Description: Facilities for constructing variance dispersion graphs, fraction-
of-design-space plots and similar graphics for exploring the properties of
experimental designs. The design region is explored via random sampling, which
allows for more flexibility than traditional variance dispersion graphs. A
formula interface is leveraged to provide access to complex model formulae.
Graphics can be constructed simultaneously for multiple experimental designs
and/or multiple model formulae. Instead of using pointwise optimization to
find the minimum and maximum scaled prediction variance curves, which can be
inaccurate and time consuming, this package uses quantile regression as an
alternative.
Author: Pieter Schoonees [aut, cre, cph],
Niel le Roux [ctb]
Maintainer: Pieter Schoonees <schoonees@gmail.com>
Diff between vdg versions 1.2.2 dated 2022-07-07 and 1.2.3 dated 2024-04-23
vdg-1.2.2/vdg/R/vdg-package.R |only vdg-1.2.3/vdg/DESCRIPTION | 14 +++++++------- vdg-1.2.3/vdg/MD5 | 11 +++++------ vdg-1.2.3/vdg/build/partial.rdb |binary vdg-1.2.3/vdg/build/vignette.rds |binary vdg-1.2.3/vdg/inst/doc/vdg.pdf |binary vdg-1.2.3/vdg/man/vdg-package.Rd | 7 +------ 7 files changed, 13 insertions(+), 19 deletions(-)
More information about bayesMeanScale at CRAN
Permanent link
Title: Available Light Within the Water Column and Seafloor of Arctic
Fjords
Description: Satellite data collected between 2003 and 2022,
in conjunction with gridded bathymetric data (50-150 m resolution),
are used to estimate the irradiance reaching the bottom of a series of representative EU Arctic fjords.
An Earth System Science Data (ESSD) manuscript, Schlegel et al. (2023, in review),
that provides a detailed explanation of the methodology is currently in review.
Author: Bernard Gentili [aut],
Jean-Pierre Gattuso [aut] ,
Robert W. Schlegel [aut, cre]
Maintainer: Robert W. Schlegel <robert.schlegel@imev-mer.fr>
Diff between FjordLight versions 0.7.0 dated 2023-12-02 and 0.8 dated 2024-04-23
DESCRIPTION | 16 MD5 | 57 +-- NAMESPACE | 1 NEWS.md | 39 ++ R/fl_DownloadFjord.R | 40 +- R/fl_ListFjords.R | 15 R/fl_LoadFjord.R | 24 + R/flget_KPARMonthlyTS.R |only R/flget_PARbottomMonthlyTS.R | 90 ++-- R/flplot_KPARMonthlyTS.R |only R/flplot_PARbottomMonthlyTS.R | 2 R/flplot_climatology.R | 4 README.md | 11 build/vignette.rds |binary inst/CITATION |only inst/doc/fl_example.R | 114 +++++- inst/doc/fl_example.Rmd | 150 +++++++- inst/doc/fl_example.html | 455 +++++++++++++++++++------ inst/extdata/test_ClimSD.nc |only inst/extdata/test_MonthlyKpar.nc |only inst/extdata/test_YearlySD.nc |only man/fl_DownloadFjord.Rd | 19 - man/fl_ListFjords.Rd | 4 man/fl_LoadFjord.Rd | 16 man/flget_KPARMonthlyTS.Rd |only man/flplot_KPARMonthlyTS.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test-fl_DownloadFjord.R | 38 +- tests/testthat/test-fl_LoadFjord.R | 27 + tests/testthat/test-flget_KPARMonthlyTS.R |only tests/testthat/test-flget_PARbottomMonthlyTS.R | 2 tests/testthat/test-flget_Pfunction.R | 2 tests/testthat/test-flget_climatology.R | 2 vignettes/fl_example.Rmd | 150 +++++++- 34 files changed, 1031 insertions(+), 247 deletions(-)
Title: Modules for 'ShinyItemAnalysis'
Description: Package including additional modules for interactive
'ShinyItemAnalysis' application for the psychometric analysis of
educational tests, psychological assessments, health-related and other
types of multi-item measurements, or ratings from multiple raters.
Author: Patricia Martinkova [aut, cre]
,
Jan Netik [aut]
Maintainer: Patricia Martinkova <martinkova@cs.cas.cz>
Diff between SIAmodules versions 0.1.0 dated 2023-03-29 and 0.1.1 dated 2024-04-23
SIAmodules-0.1.0/SIAmodules/inst/modules |only SIAmodules-0.1.1/SIAmodules/DESCRIPTION | 15 +- SIAmodules-0.1.1/SIAmodules/MD5 | 54 +------- SIAmodules-0.1.1/SIAmodules/NAMESPACE | 2 SIAmodules-0.1.1/SIAmodules/NEWS.md |only SIAmodules-0.1.1/SIAmodules/R/sm_cat.R | 115 +++++++++++++----- SIAmodules-0.1.1/SIAmodules/R/sm_dif_c.R | 10 - SIAmodules-0.1.1/SIAmodules/R/sm_irr.R | 6 SIAmodules-0.1.1/SIAmodules/README.md | 5 SIAmodules-0.1.1/SIAmodules/build/partial.rdb |binary SIAmodules-0.1.1/SIAmodules/inst/sc/cat.R |only SIAmodules-0.1.1/SIAmodules/man/SIAmodules-package.Rd | 2 12 files changed, 121 insertions(+), 88 deletions(-)
Title: Marker-Based Cell Type Purification for Single-Cell Sequencing
Data
Description: A common bioinformatics task in single-cell data analysis is to purify a cell type or cell population of interest from heterogeneous datasets. 'scGate' automatizes marker-based purification of specific cell populations, without requiring training data or reference gene expression profiles. Briefly, 'scGate' takes as input: i) a gene expression matrix stored in a 'Seurat' object and ii) a “gating model” (GM), consisting of a set of marker genes that define the cell population of interest. The GM can be as simple as a single marker gene, or a combination of positive and negative markers. More complex GMs can be constructed in a hierarchical fashion, akin to gating strategies employed in flow cytometry. 'scGate' evaluates the strength of signature marker expression in each cell using the rank-based method 'UCell', and then performs k-nearest neighbor (kNN) smoothing by calculating the mean 'UCell' score across neighboring cells. kNN-smoothing aims at compensating for the large degree of s [...truncated...]
Author: Massimo Andreatta [aut, cre] ,
Ariel Berenstein [aut] ,
Josep Garnica [aut],
Santiago Carmona [aut]
Maintainer: Massimo Andreatta <massimo.andreatta@unil.ch>
Diff between scGate versions 1.6.0 dated 2023-11-06 and 1.6.2 dated 2024-04-23
DESCRIPTION | 12 ++-- MD5 | 16 +++--- NAMESPACE | 1 R/main.R | 35 ++++++++++--- R/utils.R | 100 +++++++++++++++++++++++++++++++++++++-- build/vignette.rds |binary inst/NEWS.Rd | 8 +++ man/combine_scGate_multiclass.Rd | 2 man/scGate.Rd | 8 ++- 9 files changed, 153 insertions(+), 29 deletions(-)
Title: Multivariate Polynomials with Rational Coefficients
Description: Symbolic calculation and evaluation of multivariate
polynomials with rational coefficients. This package is strongly
inspired by the 'spray' package. It provides a function to
compute Gröbner bases (reference <doi:10.1007/978-3-319-16721-3>).
The header file of the C++ code can be used by other packages. It
provides the templated class 'Qspray' that can be used to represent and
to deal with multivariate polynomials with another type of coefficients.
Author: Stephane Laurent [aut, cre],
Robin Hankin [ctb, cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between qspray versions 2.1.1 dated 2023-09-07 and 3.0.0 dated 2024-04-23
DESCRIPTION | 24 - MD5 | 113 ++++- NAMESPACE | 45 ++ NEWS.md | 33 + R/RcppExports.R | 20 - R/characteristicPolynomial.R |only R/creation.R |only R/evaluation.R |only R/groebner.R | 266 +++++++------ R/integrateOnSimplex.R |only R/internal.R | 96 ++++ R/qspray.R | 576 ++++++++--------------------- R/qsprayDivision.R |only R/queries.R |only R/show.R |only R/symmetricPolynomials.R |only R/transformation.R |only R/yacas.R | 48 +- README.md | 370 +++++++++++++++++-- configure | 12 inst/include |only man/ESFpoly.Rd | 4 man/HallInnerProduct.Rd |only man/MSFpoly.Rd | 2 man/MSPcombination.Rd |only man/PSFpoly.Rd |only man/PSPexpression.Rd |only man/as.function.qspray.Rd | 17 man/as.qspray.Rd | 3 man/changeVariables.Rd |only man/characteristicPolynomial.Rd |only man/collinearQsprays.Rd |only man/compactSymmetricQspray.Rd |only man/composeQspray.Rd |only man/dQspray.Rd | 9 man/derivQspray.Rd | 9 man/evalQspray.Rd | 6 man/getCoefficient.Rd |only man/getConstantTerm.Rd |only man/integratePolynomialOnSimplex.Rd | 2 man/isConstant.Rd |only man/isPolynomialOf.Rd |only man/isQone.Rd |only man/isQzero.Rd |only man/isSymmetricQspray.Rd |only man/isUnivariate.Rd |only man/numberOfTerms.Rd |only man/numberOfVariables.Rd |only man/orderedQspray.Rd |only man/permuteVariables.Rd |only man/qdivision.Rd | 12 man/qlone.Rd | 11 man/qone.Rd | 6 man/qsprayDivision.Rd |only man/qsprayMaker.Rd | 4 man/qspray_from_list.Rd |only man/qzero.Rd | 6 man/rQspray.Rd |only man/showMonomialOld.Rd |only man/showMonomialX1X2X3.Rd |only man/showMonomialXYZ.Rd |only man/showQspray.Rd |only man/showQsprayOption-set.Rd |only man/showQsprayX1X2X3.Rd |only man/showQsprayXYZ.Rd |only man/substituteQspray.Rd |only man/swapVariables.Rd |only src/Makevars.in | 2 src/Makevars.win | 3 src/RcppExports.cpp | 70 ++- src/division.cpp |only src/evaluation.cpp |only src/qspray.cpp | 577 ++---------------------------- tests/testthat/helper-00.R |only tests/testthat/test-HallInnerProduct.R |only tests/testthat/test-basic.R | 7 tests/testthat/test-collinear.R |only tests/testthat/test-composeQspray.R |only tests/testthat/test-division.R | 3 tests/testthat/test-getCoefficient.R |only tests/testthat/test-groebner.R |only tests/testthat/test-permuteVariables.R |only tests/testthat/test-show.R |only tests/testthat/test-substitute.R |only tests/testthat/test-symmetricPolynomial.R |only 85 files changed, 1119 insertions(+), 1237 deletions(-)
Title: Preparation, Checking and Post-Processing Data for PK/PD
Modeling
Description: Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem. Attention is paid to ensure consistency, traceability, and Nonmem compatibility of Data. Rigorously checks final Nonmem datasets. Implemented in 'data.table', but easily integrated with 'base' and 'tidyverse'.
Author: Philip Delff [aut, cre],
Eric Anderson [ctb]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMdata versions 0.1.5 dated 2024-02-21 and 0.1.6 dated 2024-04-23
DESCRIPTION | 16 ++-- MD5 | 71 +++++++++++------- NAMESPACE | 5 + NEWS.md | 102 ++++++++++++++++---------- R/NMcheckData.R | 72 ++++++++++-------- R/NMexpandDoses.R | 21 +++-- R/NMextractDataFile.R | 1 R/NMinfo.R | 12 +-- R/NMreadExt.R | 16 ++-- R/NMreadShk.R |only R/NMreadTab.R | 2 R/NMreadTabSlow.R |only R/NMscanData.R | 17 ---- R/NMwriteSection.R | 22 ++--- R/addOmegaCorr.R |only R/addTAPD.R | 45 ++++++----- R/colLabels.R | 1 R/dt2mat.R |only R/flagsAssign.R | 5 - R/fnAppend.R | 12 ++- R/mat2dt.R |only R/uniquePresent.R | 27 +++++- man/NMcheckData.Rd | 59 +++++++-------- man/NMinfo.Rd | 12 +-- man/NMreadExt.Rd | 14 +-- man/NMreadShk.Rd |only man/NMreadTabSlow.Rd |only man/NMwriteSection.Rd | 22 ++--- man/addOmegaCorr.Rd |only man/addTAPD.Rd | 30 +++---- man/colLabels.Rd | 3 man/dt2mat.Rd |only man/fnAppend.Rd | 2 man/mat2dt.Rd |only man/uniquePresent.Rd |only tests/testthat/testReference/NMreadExt_01.rds |only tests/testthat/testReference/NMreadExt_03.rds |only tests/testthat/testReference/NMreadExt_04.rds |only tests/testthat/testReference/NMreadShk_01.rds |only tests/testthat/testReference/addTAPD_04.rds |only tests/testthat/testReference/fnAppend_02.rds |only tests/testthat/test_NMreadShk.R |only tests/testthat/test_NMscanData.R | 11 +- tests/testthat/test_addTAPD.R | 40 +++++++++- tests/testthat/test_fnAppend.R | 14 +++ tests/testthat/test_uniquePresent.R |only 46 files changed, 394 insertions(+), 260 deletions(-)
More information about GregoryQuadrature at CRAN
Permanent link
Title: Functions for Extreme Value Distributions
Description: Extends simulation, distribution, quantile and density
functions to univariate and multivariate parametric extreme
value distributions, and provides fitting functions which
calculate maximum likelihood estimates for univariate and
bivariate maxima models, and for univariate and bivariate
threshold models.
Author: Alec Stephenson. Function fbvpot by Chris Ferro.
Maintainer: Alec Stephenson <alec_stephenson@hotmail.com>
Diff between evd versions 2.3-6.1 dated 2022-07-04 and 2.3-7 dated 2024-04-23
DESCRIPTION | 8 +-- MD5 | 14 ++--- R/mvdist.R | 91 ++++++++++++++++++++----------------- build/vignette.rds |binary inst/CHANGES | 16 ++++++ inst/CITATION | 15 ++---- inst/doc/Multivariate_Extremes.pdf |binary man/uccle.Rd | 4 - 8 files changed, 85 insertions(+), 63 deletions(-)
Title: Young Tableaux
Description: Deals with Young tableaux (field of combinatorics). For standard
Young tabeaux, performs enumeration, counting, random generation, the
Robinson-Schensted correspondence, and conversion to and from paths on
the Young lattice. Also performs enumeration and counting of
semistandard Young tableaux, enumeration of skew semistandard Young
tableaux, and computation of Kostka numbers.
Author: Stephane Laurent
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between syt versions 0.3.0 dated 2023-12-06 and 0.4.0 dated 2024-04-23
DESCRIPTION | 19 ++++----- MD5 | 51 ++++++++++++++++-------- NAMESPACE | 15 +++++++ NEWS.md | 15 +++++-- R/Kostka.R |only R/ballot.R | 10 ++-- R/dualsyt.R | 2 R/enumeration.R | 3 - R/hooks.R | 2 R/internal.R | 37 ++++++++++++----- R/isSYT.R |only R/skewTableaux.R |only R/ssyt.R | 78 ++++++++++++++----------------------- R/syt2matrix.R | 41 ++++++++++++++++--- R/tableaux.R |only man/KostkaNumber.Rd |only man/all_ssSkewTableaux.Rd |only man/all_ssytx.Rd | 3 - man/all_sytx.Rd | 3 - man/dualSkewTableau.Rd |only man/dualTableau.Rd |only man/isSSYT.Rd |only man/isSYT.Rd |only man/isSemistandardSkewTableau.Rd |only man/isSkewTableau.Rd |only man/isStandardSkewTableau.Rd |only man/prettySkewTableau.Rd |only man/prettyTableau.Rd |only man/syt2matrix.Rd | 4 + man/tableau2matrix.Rd |only man/tableauShape.Rd |only tests/testthat/test-Kostka.R |only tests/testthat/test-dual.R | 10 +++- tests/testthat/test-enumeration.R | 1 tests/testthat/test-skewTableaux.R |only tests/testthat/test-ssyt.R | 10 ++++ 36 files changed, 198 insertions(+), 106 deletions(-)
Title: Some Datetime Pickers for 'Shiny'
Description: Provides three types of datetime pickers for usage in a
'Shiny' UI. A datetime picker is an input field for selecting both a
date and a time.
Author: Stephane Laurent [aut, cre],
Wojciech Maj [cph] ),
Porinn [cph] ),
Dmitriy Kovalenko [cph] )
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between shinyDatetimePickers versions 1.1.0 dated 2023-08-07 and 1.2.0 dated 2024-04-23
DESCRIPTION | 8 MD5 | 19 NAMESPACE | 3 NEWS.md | 5 R/datetimeMaterialPicker.R | 24 - R/datetimePicker.R | 24 - R/datetimeSliderPicker.R | 24 - inst/www/datetimePicker/datetimePicker.js | 573 +++++++++++++++++++++++--- inst/www/datetimePicker/datetimePicker.js.map | 2 man/updateDatetimeMaterialPickerInput.Rd |only man/updateDatetimePickerInput.Rd |only man/updateDatetimeSliderPickerInput.Rd |only 12 files changed, 576 insertions(+), 106 deletions(-)
More information about shinyDatetimePickers at CRAN
Permanent link
Title: Mixed Model Association Test for GEne-Environment Interaction
Description: Use a 'glmmkin' class object (GMMAT package) from the null model to perform generalized linear mixed model-based single-variant and variant set main effect tests, gene-environment interaction tests, and joint tests for association, as proposed in Wang et al. (2020) <DOI:10.1002/gepi.22351>.
Author: Xinyu Wang [aut],
Han Chen [aut, cre],
Duy Pham [aut],
Kenneth Westerman [ctb],
Cong Pan [aut],
Eric Biggers [ctb, cph] ,
Tino Reichardt [ctb, cph] library),
Meta Platforms, Inc. and affiliates [cph] library)
Maintainer: Han Chen <han.chen.2@uth.tmc.edu>
Diff between MAGEE versions 1.3.2 dated 2023-11-17 and 1.4.0 dated 2024-04-23
DESCRIPTION | 8 - MD5 | 32 ++--- R/glmm.gei.R | 261 +++++++++++++++++++++++------------------ R/glmm.gei.meta.R | 36 ++--- inst/doc/MAGEE.Rnw | 25 +++ inst/doc/MAGEE.pdf |binary inst/extdata/meta1.txt | 2 inst/extdata/meta2.txt | 2 inst/extdata/meta3.txt | 2 inst/extdata/meta4.txt | 2 inst/extdata/meta5.txt | 2 inst/extdata/readme | 2 man/MAGEE-package.Rd | 4 man/glmm.gei.Rd | 22 ++- src/fitglmm.cpp | 257 ++++++++++++++-------------------------- tests/testthat/test_glmm.gei.R | 72 +++++------ vignettes/MAGEE.Rnw | 25 +++ 17 files changed, 380 insertions(+), 374 deletions(-)
Title: Kantorovich Distance Between Probability Measures
Description: Computes the Kantorovich distance between two probability
measures on a finite set. The Kantorovich distance is also known as
the Monge-Kantorovich distance or the first Wasserstein distance.
Author: Stephane Laurent
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between kantorovich versions 3.1.0 dated 2023-08-22 and 3.2.0 dated 2024-04-23
DESCRIPTION | 10 ++--- MD5 | 32 +++++++++--------- NEWS.md | 7 ++++ R/kantorovich_CVX.R | 27 +++++++-------- R/kantorovich_glpk.R | 33 +++++++++---------- R/kantorovich_lpsolve.R | 26 +++++++-------- R/kantorovich_ompr.R | 37 ++++++++++----------- inst/doc/kantorovich.R | 6 +-- inst/doc/kantorovich.html | 4 +- man/kantorovich_CVX.Rd | 14 ++++---- man/kantorovich_glpk.Rd | 21 ++++-------- man/kantorovich_lp.Rd | 14 ++++---- man/kantorovich_ompr.Rd | 72 +++++++++++++++++++++--------------------- tests/testthat/test-CVX.R | 2 - tests/testthat/test-glpk.R | 2 - tests/testthat/test-lpSolve.R | 4 +- tests/testthat/test-ompr.R | 2 - 17 files changed, 157 insertions(+), 156 deletions(-)
Title: Sensitivities of Prices of Financial Options and Implied
Volatilities
Description: Methods to calculate sensitivities of financial option prices for
European, geometric and arithmetic Asian, and American options, with various
payoff functions in the Black Scholes model, and in more general jump diffusion
models. A shiny app to interactively plot the results is included. Furthermore,
methods to compute implied volatilities are provided for a wide range of option
types and custom payoff functions. Classical formulas are implemented for
European options in the Black Scholes Model, as is presented in Hull, J. C.
(2017), Options, Futures, and Other Derivatives.
In the case of Asian options, Malliavin Monte Carlo Greeks are implemented, see
Hudde, A. & Rüschendorf, L. (2023). European and Asian Greeks for exponential
Lévy processes. <doi:10.1007/s11009-023-10014-5>. For American
options, the Binomial Tree Method is implemented, as is presented in Hull,
J. C. (2017).
Author: Anselm Hudde [aut, cre]
Maintainer: Anselm Hudde <anselmhudde@gmx.de>
Diff between greeks versions 1.3.5 dated 2024-03-03 and 1.4.2 dated 2024-04-23
DESCRIPTION | 6 - MD5 | 14 +- NEWS.md | 33 ++++-- R/Malliavin_Geometric_Asian_Greeks.R | 32 ++---- README.md | 2 tests/testthat/test-Binomial_American_Greeks.R | 9 + tests/testthat/test-Malliavin_European_Greeks.R | 29 +++--- tests/testthat/test-Malliavin_Geometric_Asian_Greeks.R | 81 +++++++---------- 8 files changed, 103 insertions(+), 103 deletions(-)
Title: Create Elegant Data Visualisations Using the Grammar of Graphics
Description: A system for 'declaratively' creating graphics, based on "The
Grammar of Graphics". You provide the data, tell 'ggplot2' how to map
variables to aesthetics, what graphical primitives to use, and it
takes care of the details.
Author: Hadley Wickham [aut] ,
Winston Chang [aut] ,
Lionel Henry [aut],
Thomas Lin Pedersen [aut, cre]
,
Kohske Takahashi [aut],
Claus Wilke [aut] ,
Kara Woo [aut] ,
Hiroaki Yutani [aut] ,
Dewey Dunnington [aut] ,
Teun van den Brand [aut] ,
Posit, PBC [cph, [...truncated...]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between ggplot2 versions 3.5.0 dated 2024-02-23 and 3.5.1 dated 2024-04-23
DESCRIPTION | 32 - MD5 | 432 +++++++++++++------------- NEWS.md | 48 ++ R/aes.R | 2 R/annotation.R | 17 - R/autolayer.R | 2 R/autoplot.R | 114 ++++++ R/axis-secondary.R | 10 R/bin.R | 8 R/coord-.R | 2 R/coord-flip.R | 13 R/coord-map.R | 20 + R/coord-polar.R | 12 R/coord-radial.R | 58 ++- R/coord-transform.R | 2 R/data.R | 2 R/docs_layer.R |only R/facet-.R | 4 R/facet-grid-.R | 6 R/facet-wrap.R | 6 R/fortify.R | 1 R/geom-.R | 2 R/geom-bar.R | 3 R/geom-bin2d.R | 4 R/geom-blank.R | 1 R/geom-boxplot.R | 6 R/geom-count.R | 4 R/geom-density.R | 4 R/geom-density2d.R | 4 R/geom-dotplot.R | 2 R/geom-errorbar.R | 2 R/geom-errorbarh.R | 2 R/geom-function.R | 16 R/geom-hex.R | 7 R/geom-histogram.R | 4 R/geom-path.R | 9 R/geom-point.R | 30 + R/geom-quantile.R | 4 R/geom-raster.R | 4 R/geom-sf.R | 8 R/geom-smooth.R | 4 R/geom-text.R | 15 R/geom-tile.R | 4 R/geom-violin.R | 6 R/ggproto.R | 12 R/guide-axis-logticks.R | 59 ++- R/guide-bins.R | 12 R/guide-colorbar.R | 2 R/guide-colorsteps.R | 55 +-- R/guide-legend.R | 18 + R/labels.R | 3 R/layer.R | 48 ++ R/plot-build.R | 18 - R/plot.R | 2 R/position-.R | 2 R/position-jitter.R | 4 R/position-jitterdodge.R | 2 R/save.R | 3 R/scale-.R | 25 + R/scale-alpha.R | 9 R/scale-binned.R | 2 R/scale-brewer.R | 2 R/scale-colour.R | 2 R/scale-continuous.R | 2 R/scale-date.R | 4 R/scale-discrete-.R | 4 R/scale-gradient.R | 2 R/scale-grey.R | 4 R/scale-hue.R | 6 R/scale-identity.R | 2 R/scale-linetype.R | 4 R/scale-linewidth.R | 2 R/scale-manual.R | 4 R/scale-shape.R | 4 R/scale-size.R | 12 R/scale-steps.R | 11 R/stat-.R | 5 R/stat-boxplot.R | 2 R/stat-contour.R | 8 R/stat-count.R | 2 R/stat-smooth.R | 5 R/stat-summary-bin.R | 2 R/theme-defaults.R | 3 R/theme-elements.R | 5 R/theme.R | 11 R/utilities-help.R | 10 R/utilities-resolution.R | 10 R/utilities.R | 6 README.md | 4 inst/doc/extending-ggplot2.R | 8 inst/doc/extending-ggplot2.Rmd | 8 inst/doc/extending-ggplot2.html | 21 - inst/doc/ggplot2-in-packages.R | 24 - inst/doc/ggplot2-in-packages.Rmd | 24 - inst/doc/ggplot2-in-packages.html | 24 - inst/doc/ggplot2-specs.Rmd | 3 inst/doc/ggplot2-specs.html | 14 man/aes_colour_fill_alpha.Rd | 4 man/aes_group_order.Rd | 4 man/aes_linetype_size_shape.Rd | 4 man/aes_position.Rd | 4 man/annotate.Rd | 34 +- man/autolayer.Rd | 6 man/automatic_plotting.Rd |only man/autoplot.Rd | 6 man/binned_scale.Rd | 10 man/borders.Rd | 32 + man/continuous_scale.Rd | 4 man/coord_flip.Rd | 14 man/coord_map.Rd | 3 man/coord_polar.Rd | 17 - man/coord_trans.Rd | 3 man/discrete_scale.Rd | 6 man/facet_grid.Rd | 3 man/facet_wrap.Rd | 3 man/fortify.Rd | 6 man/geom_abline.Rd | 31 + man/geom_bar.Rd | 52 ++- man/geom_bin_2d.Rd | 53 ++- man/geom_blank.Rd | 63 +++ man/geom_boxplot.Rd | 53 ++- man/geom_contour.Rd | 82 +++- man/geom_count.Rd | 53 ++- man/geom_density.Rd | 53 ++- man/geom_density_2d.Rd | 20 - man/geom_dotplot.Rd | 47 ++ man/geom_errorbarh.Rd | 63 +++ man/geom_function.Rd | 98 ++++- man/geom_hex.Rd | 52 ++- man/geom_histogram.Rd | 53 ++- man/geom_jitter.Rd | 63 +++ man/geom_linerange.Rd | 63 +++ man/geom_map.Rd | 47 ++ man/geom_path.Rd | 63 +++ man/geom_point.Rd | 63 +++ man/geom_polygon.Rd | 63 +++ man/geom_qq.Rd | 62 +++ man/geom_quantile.Rd | 53 ++- man/geom_ribbon.Rd | 82 +++- man/geom_rug.Rd | 63 +++ man/geom_segment.Rd | 63 +++ man/geom_smooth.Rd | 58 ++- man/geom_spoke.Rd | 63 +++ man/geom_text.Rd | 69 +++- man/geom_tile.Rd | 63 +++ man/geom_violin.Rd | 53 ++- man/ggplot.Rd | 3 man/ggplot2-ggproto.Rd | 15 man/ggplot_build.Rd | 2 man/ggplot_gtable.Rd | 2 man/ggproto.Rd | 15 man/ggsave.Rd | 3 man/ggsf.Rd | 82 +++- man/ggtheme.Rd | 3 man/guide_axis_logticks.Rd | 29 + man/guide_colourbar.Rd | 2 man/guide_coloursteps.Rd | 2 man/guide_legend.Rd | 2 man/labs.Rd | 3 man/layer.Rd | 58 ++- man/layer_geoms.Rd |only man/layer_positions.Rd |only man/layer_sf.Rd | 49 ++ man/layer_stats.Rd |only man/position_dodge.Rd | 2 man/position_identity.Rd | 2 man/position_nudge.Rd | 2 man/position_stack.Rd | 2 man/register_theme_elements.Rd | 3 man/resolution.Rd | 5 man/scale_alpha.Rd | 9 man/scale_binned.Rd | 9 man/scale_brewer.Rd | 2 man/scale_colour_continuous.Rd | 2 man/scale_colour_discrete.Rd | 3 man/scale_continuous.Rd | 3 man/scale_date.Rd | 4 man/scale_discrete.Rd | 7 man/scale_gradient.Rd | 9 man/scale_grey.Rd | 15 man/scale_hue.Rd | 15 man/scale_identity.Rd | 2 man/scale_linetype.Rd | 7 man/scale_linewidth.Rd | 3 man/scale_manual.Rd | 10 man/scale_shape.Rd | 7 man/scale_size.Rd | 16 man/scale_steps.Rd | 35 -- man/sec_axis.Rd | 2 man/stat_ecdf.Rd | 62 +++ man/stat_ellipse.Rd | 62 +++ man/stat_identity.Rd | 62 +++ man/stat_sf_coordinates.Rd | 64 +++ man/stat_summary.Rd | 71 +++- man/stat_summary_2d.Rd | 62 +++ man/stat_unique.Rd | 62 +++ man/theme.Rd | 7 man/txhousing.Rd | 2 tests/testthat/_snaps/annotate.md | 4 tests/testthat/_snaps/coord-map.md | 4 tests/testthat/_snaps/coord-polar.md | 4 tests/testthat/_snaps/guides.md | 2 tests/testthat/_snaps/layer.md | 2 tests/testthat/_snaps/prohibited-functions.md |only tests/testthat/_snaps/sec-axis.md | 2 tests/testthat/test-annotate.R | 6 tests/testthat/test-coord-map.R | 6 tests/testthat/test-coord-polar.R | 22 + tests/testthat/test-coord-train.R | 2 tests/testthat/test-coord_sf.R | 2 tests/testthat/test-draw-key.R | 5 tests/testthat/test-guides.R | 51 ++- tests/testthat/test-prohibited-functions.R | 27 + tests/testthat/test-scales.R | 14 tests/testthat/test-stat-bin.R | 7 tests/testthat/test-theme.R | 2 tests/testthat/test-utilities.R | 3 vignettes/extending-ggplot2.Rmd | 8 vignettes/ggplot2-in-packages.Rmd | 24 - vignettes/ggplot2-specs.Rmd | 3 220 files changed, 3395 insertions(+), 1108 deletions(-)
Title: Interpret Tree Ensembles
Description: For tree ensembles such as random forests, regularized random forests and gradient boosted trees, this package provides functions for: extracting, measuring and pruning rules; selecting a compact rule set; summarizing rules into a learner; calculating frequent variable interactions; formatting rules in latex code. Reference: Interpreting tree ensembles with inTrees (Houtao Deng, 2019, <doi:10.1007/s41060-018-0144-8>).
Author: Houtao Deng [aut, cre],
Xin Guan [aut],
Vadim Khotilovich [aut]
Maintainer: Houtao Deng <softwaredeng@gmail.com>
Diff between inTrees versions 1.3 dated 2022-05-31 and 1.4 dated 2024-04-23
inTrees-1.3/inTrees/R/XGB2List.R |only inTrees-1.4/inTrees/DESCRIPTION | 8 ++++---- inTrees-1.4/inTrees/MD5 | 8 ++++---- inTrees-1.4/inTrees/NEWS | 5 ++++- inTrees-1.4/inTrees/R/XGB2LIST.R |only inTrees-1.4/inTrees/man/selectRuleRRF.Rd | 1 + 6 files changed, 13 insertions(+), 9 deletions(-)
Title: Antarctic Spatial Data Manipulation
Description: Loads and creates spatial data, including layers and tools that are relevant
to the activities of the Commission for the Conservation of Antarctic Marine Living
Resources. Provides two categories of functions: load functions and create functions.
Load functions are used to import existing spatial layers from the online CCAMLR GIS
such as the ASD boundaries. Create functions are used to create layers from user data
such as polygons and grids.
Author: Stephane Thanassekos [aut, cre],
Keith Reid [aut],
Lucy Robinson [aut],
Michael D. Sumner [ctb],
Roger Bivand [ctb]
Maintainer: Stephane Thanassekos <stephane.thanassekos@ccamlr.org>
Diff between CCAMLRGIS versions 4.0.7 dated 2024-02-05 and 4.0.8 dated 2024-04-23
DESCRIPTION | 8 - MD5 | 58 ++++---- NAMESPACE | 2 NEWS.md | 5 R/CCAMLRGIS-package.R | 1 R/add_Cscale.R | 2 R/add_Legend.R |only R/add_RefGrid.R | 2 R/add_col.R | 3 R/add_labels.R | 2 R/create.R | 11 - R/create_Arrow.R | 3 R/create_Hashes.R |only R/get_iso_polys.R | 111 +++++++++------- README.md | 317 +++++++++++++++++++++++++++++++++++++++-------- build/vignette.rds |binary inst/doc/CCAMLRGIS.html | 4 man/CCAMLRGIS-package.Rd | 1 man/add_Cscale.Rd | 2 man/add_Legend.Rd |only man/add_RefGrid.Rd | 2 man/add_col.Rd | 3 man/add_labels.Rd | 2 man/create_Arrow.Rd | 3 man/create_Hashes.Rd |only man/create_Lines.Rd | 2 man/create_Points.Rd | 2 man/create_PolyGrids.Rd | 3 man/create_Polys.Rd | 2 man/create_Stations.Rd | 2 man/figures |only man/get_iso_polys.Rd | 46 ++++-- 32 files changed, 428 insertions(+), 171 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-08 0.7.3
Title: Visualize Simon's Two-Stage Design
Description: To visualize the probabilities of early
termination, fail and success of Simon's two-stage
design. To evaluate and visualize the operating
characteristics of Simon's two-stage design.
Author: Tingting Zhan [aut, cre, cph]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between VisualizeSimon2Stage versions 0.1.3 dated 2024-03-20 and 0.1.4 dated 2024-04-22
VisualizeSimon2Stage-0.1.3/VisualizeSimon2Stage/R/0info.R |only VisualizeSimon2Stage-0.1.3/VisualizeSimon2Stage/inst |only VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/DESCRIPTION | 21 +- VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/MD5 | 37 +-- VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/NAMESPACE | 3 VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/NEWS.md | 2 VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/R/0PACKAGE.R |only VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/R/Simon_oc.R | 45 ++-- VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/R/Simon_pr.R | 72 ------- VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/R/autoplot.ph2simon.R |only VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/R/ph2simon_etc.R | 99 ---------- VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/R/r_simon.R |only VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/Simon_oc.Rd | 25 +- VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/Simon_pr.Rd | 19 - VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/Sprintf.Simon_oc.Rd | 1 VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/Sprintf.ph2simon.Rd | 3 VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/VisualizeSimon2Stage-package.Rd | 11 - VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/autoplot.ph2simon.Rd | 32 +++ VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/print_ph2simon.Rd | 2 VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/r_simon.Rd | 16 - VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/show-Simon_oc-method.Rd | 1 VisualizeSimon2Stage-0.1.4/VisualizeSimon2Stage/man/show-Simon_pr-method.Rd | 1 22 files changed, 135 insertions(+), 255 deletions(-)
More information about VisualizeSimon2Stage at CRAN
Permanent link
Title: Soil Database Interface
Description: A collection of functions for reading soil data from U.S. Department of Agriculture Natural Resources Conservation Service (USDA-NRCS) and National Cooperative Soil Survey (NCSS) databases.
Author: Dylan Beaudette [aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
Andrew Brown [aut, cre]
Maintainer: Andrew Brown <andrew.g.brown@usda.gov>
Diff between soilDB versions 2.8.1 dated 2024-01-09 and 2.8.2 dated 2024-04-22
soilDB-2.8.1/soilDB/man/dot-get_SRI_gdb_names.Rd |only soilDB-2.8.2/soilDB/DESCRIPTION | 8 soilDB-2.8.2/soilDB/MD5 | 81 soilDB-2.8.2/soilDB/NAMESPACE | 3 soilDB-2.8.2/soilDB/NEWS.md | 24 soilDB-2.8.2/soilDB/R/ISSR800.R | 9 soilDB-2.8.2/soilDB/R/ROSETTA.R | 16 soilDB-2.8.2/soilDB/R/SDA-spatial.R | 236 - soilDB-2.8.2/soilDB/R/WCS-utils.R | 10 soilDB-2.8.2/soilDB/R/fetchLDM.R | 2 soilDB-2.8.2/soilDB/R/fetchSDA_spatial.R | 36 soilDB-2.8.2/soilDB/R/fetchSRI.R | 3 soilDB-2.8.2/soilDB/R/fetchSoilGrids.R | 66 soilDB-2.8.2/soilDB/R/get_SDA_coecoclass.R | 2 soilDB-2.8.2/soilDB/R/get_ecosite_history_from_NASIS_db.R | 5 soilDB-2.8.2/soilDB/R/get_mapunit_from_NASIS.R | 15 soilDB-2.8.2/soilDB/R/get_site_data_from_NASIS_db.R | 44 soilDB-2.8.2/soilDB/R/get_soilseries_from_NASIS.R | 33 soilDB-2.8.2/soilDB/R/mukey-WCS.R | 22 soilDB-2.8.2/soilDB/R/seriesExtent.R | 2 soilDB-2.8.2/soilDB/R/simplifyArtifactData.R | 15 soilDB-2.8.2/soilDB/R/simplifyFragmentData.R | 11 soilDB-2.8.2/soilDB/R/soilColorWCS.R | 13 soilDB-2.8.2/soilDB/R/soilDB-package.R | 6 soilDB-2.8.2/soilDB/R/utils.R | 8 soilDB-2.8.2/soilDB/build/partial.rdb |binary soilDB-2.8.2/soilDB/build/vignette.rds |binary soilDB-2.8.2/soilDB/inst/doc/fetchNASIS.R | 2 soilDB-2.8.2/soilDB/inst/doc/fetchNASIS.html | 144 + soilDB-2.8.2/soilDB/inst/doc/wcs-ssurgo.R | 29 soilDB-2.8.2/soilDB/inst/doc/wcs-ssurgo.Rmd | 23 soilDB-2.8.2/soilDB/inst/doc/wcs-ssurgo.html | 1361 +++++------ soilDB-2.8.2/soilDB/man/ROSETTA.Rd | 4 soilDB-2.8.2/soilDB/man/SDA_spatialQuery.Rd | 5 soilDB-2.8.2/soilDB/man/fetchSoilGrids.Rd | 12 soilDB-2.8.2/soilDB/man/get_ecosite_history_from_NASIS_db.Rd | 9 soilDB-2.8.2/soilDB/man/get_soilseries_from_NASIS.Rd | 12 soilDB-2.8.2/soilDB/man/soilColor.wcs.Rd | 2 soilDB-2.8.2/soilDB/man/soilDB-package.Rd | 1 soilDB-2.8.2/soilDB/tests/testthat/test-fetchSDA_spatial.R | 1 soilDB-2.8.2/soilDB/tests/testthat/test-fetchSoilGrids.R | 2 soilDB-2.8.2/soilDB/vignettes/wcs-ssurgo.Rmd | 23 42 files changed, 1242 insertions(+), 1058 deletions(-)
Title: Weighted Confusion Matrix
Description: Allows users to create weighted confusion matrices and accuracy
metrics that help with the model selection process for classification
problems, where distance from the correct category is important. The
package includes several weighting schemes which can be parameterized, as
well as custom configuration options. Furthermore, users can decide
whether they wish to positively or negatively affect the accuracy score
as a result of applying weights to the confusion matrix. Functions are
included to calculate accuracy metrics for imbalanced data. Finally,
'wconf' integrates well with the 'caret' package, but it can also work
standalone when provided data in matrix form.
References:
Kuhn, M. (2008) "Building Perspective Models in R Using the caret Package"
<doi:10.18637/jss.v028.i05>
Monahov, A. (2021) "Model Evaluation with Weighted Threshold Optimization
(and the mewto R package)" <doi:10.2139/ssrn.3805911>
Starovoitov, V., Golub, Y. (2020). New Function for Estimating Imbalanc [...truncated...]
Author: Alexandru Monahov [aut, cre, cph]
Maintainer: Alexandru Monahov <alexandru.monahov@proton.me>
Diff between wconf versions 1.0.0 dated 2023-12-12 and 1.1.0 dated 2024-04-22
DESCRIPTION | 17 +- MD5 | 30 ++-- NAMESPACE | 1 NEWS.md | 17 ++ R/balancedaccuracy.R |only R/wconf-package.R | 9 + R/wconfusionmatrix.R | 58 +++++++- R/weightmatrix.R | 75 +++++++++- README.md | 22 +++ inst/doc/wconf_guide.R | 35 +++++ inst/doc/wconf_guide.Rmd | 201 ++++++++++++++++++++++++++++ inst/doc/wconf_guide.html | 320 +++++++++++++++++++++++++++++++++++++++++----- man/balancedaccuracy.Rd |only man/wconf-package.Rd | 10 + man/wconfusionmatrix.Rd | 19 ++ man/weightmatrix.Rd | 25 +++ vignettes/wconf_guide.Rmd | 201 ++++++++++++++++++++++++++++ 17 files changed, 965 insertions(+), 75 deletions(-)
Title: 'tidyverse' Methods and 'ggplot2' Helpers for 'terra' Objects
Description: Extension of the 'tidyverse' for 'SpatRaster' and
'SpatVector' objects of the 'terra' package. It includes also new
'geom_' functions that provide a convenient way of visualizing 'terra'
objects with 'ggplot2'.
Author: Diego Hernangomez [aut, cre, cph]
,
Dewey Dunnington [ctb] ,
ggplot2 authors [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between tidyterra versions 0.5.2 dated 2024-01-19 and 0.6.0 dated 2024-04-22
tidyterra-0.5.2/tidyterra/man/drop_na.SpatRaster.Rd |only tidyterra-0.5.2/tidyterra/man/drop_na.SpatVector.Rd |only tidyterra-0.6.0/tidyterra/DESCRIPTION | 18 tidyterra-0.6.0/tidyterra/MD5 | 264 - tidyterra-0.6.0/tidyterra/NAMESPACE | 13 tidyterra-0.6.0/tidyterra/NEWS.md | 72 tidyterra-0.6.0/tidyterra/R/arrange-SpatVector.R | 20 tidyterra-0.6.0/tidyterra/R/as_coordinates.R | 16 tidyterra-0.6.0/tidyterra/R/as_sf.R | 20 tidyterra-0.6.0/tidyterra/R/as_spatraster.R | 56 tidyterra-0.6.0/tidyterra/R/as_spatvector.R | 41 tidyterra-0.6.0/tidyterra/R/as_tibble-Spat.R | 71 tidyterra-0.6.0/tidyterra/R/autoplot-Spat.R | 19 tidyterra-0.6.0/tidyterra/R/bind-cols-SpatVector.R | 38 tidyterra-0.6.0/tidyterra/R/bind-rows-SpatVector.R | 32 tidyterra-0.6.0/tidyterra/R/compare_spatrasters.R | 26 tidyterra-0.6.0/tidyterra/R/count-tally-SpatVector.R | 18 tidyterra-0.6.0/tidyterra/R/data.R | 61 tidyterra-0.6.0/tidyterra/R/distinct-SpatVector.R | 16 tidyterra-0.6.0/tidyterra/R/drop_na-Spat.R | 122 tidyterra-0.6.0/tidyterra/R/fill-SpatVector.R |only tidyterra-0.6.0/tidyterra/R/filter-Spat.R | 39 tidyterra-0.6.0/tidyterra/R/fortify-Spat.R | 104 tidyterra-0.6.0/tidyterra/R/geom_spat_contour.R | 94 tidyterra-0.6.0/tidyterra/R/geom_spat_contour_fill.R | 1 tidyterra-0.6.0/tidyterra/R/geom_spat_contour_text.R |only tidyterra-0.6.0/tidyterra/R/geom_spatraster.R | 78 tidyterra-0.6.0/tidyterra/R/geom_spatraster_rgb.R | 595 +-- tidyterra-0.6.0/tidyterra/R/geom_spatvector.R | 20 tidyterra-0.6.0/tidyterra/R/glimpse-Spat.R | 428 +- tidyterra-0.6.0/tidyterra/R/group-by-SpatVector.R | 30 tidyterra-0.6.0/tidyterra/R/group-data-SpatVector.R | 10 tidyterra-0.6.0/tidyterra/R/grouped-SpatVector.R | 12 tidyterra-0.6.0/tidyterra/R/join-SpatVector.R | 23 tidyterra-0.6.0/tidyterra/R/mutate-Spat.R | 35 tidyterra-0.6.0/tidyterra/R/pivot-long-SpatVector.R |only tidyterra-0.6.0/tidyterra/R/pivot-wide-SpatVector.R |only tidyterra-0.6.0/tidyterra/R/pull-Spat.R | 26 tidyterra-0.6.0/tidyterra/R/pull_crs.R | 31 tidyterra-0.6.0/tidyterra/R/relocate-Spat.R | 22 tidyterra-0.6.0/tidyterra/R/rename-Spat.R | 25 tidyterra-0.6.0/tidyterra/R/replace_na-Spat.R | 11 tidyterra-0.6.0/tidyterra/R/rowwise-SpatVector.R | 34 tidyterra-0.6.0/tidyterra/R/scales_coltab.R | 28 tidyterra-0.6.0/tidyterra/R/scales_cross_blended.R | 1510 +++++----- tidyterra-0.6.0/tidyterra/R/scales_hypso.R | 1484 ++++----- tidyterra-0.6.0/tidyterra/R/scales_terrain.R | 509 +-- tidyterra-0.6.0/tidyterra/R/scales_whitebox.R | 711 ++-- tidyterra-0.6.0/tidyterra/R/scales_wiki.R | 604 ++-- tidyterra-0.6.0/tidyterra/R/select-Spat.R | 31 tidyterra-0.6.0/tidyterra/R/slice-Spat.R | 56 tidyterra-0.6.0/tidyterra/R/stat_spat_coordinates.R | 6 tidyterra-0.6.0/tidyterra/R/stat_spatraster.R | 16 tidyterra-0.6.0/tidyterra/R/summarise-SpatVector.R | 21 tidyterra-0.6.0/tidyterra/R/sysdata.rda |binary tidyterra-0.6.0/tidyterra/R/tidyterra-package.R | 5 tidyterra-0.6.0/tidyterra/README.md | 174 - 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tidyterra-0.6.0/tidyterra/tests/testthat/test-as_spatvector.R | 1252 ++++---- tidyterra-0.6.0/tidyterra/tests/testthat/test-fill-SpatVector.R |only tidyterra-0.6.0/tidyterra/tests/testthat/test-fortify-Spat.R | 48 tidyterra-0.6.0/tidyterra/tests/testthat/test-geom_spat_contour_text.R |only tidyterra-0.6.0/tidyterra/tests/testthat/test-geom_spatraster_1lyr_coltab.R | 16 tidyterra-0.6.0/tidyterra/tests/testthat/test-glimpse-Spat.R | 41 tidyterra-0.6.0/tidyterra/tests/testthat/test-pivot-long-SpatVector.R |only tidyterra-0.6.0/tidyterra/tests/testthat/test-pivot-wide-SpatVector.R |only tidyterra-0.6.0/tidyterra/vignettes/aggregate-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/aggregate-2.png |binary tidyterra-0.6.0/tidyterra/vignettes/contourfilled-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/contourlines-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/faceted-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/hypso-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/lux_ggplot-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/paper.bib | 512 +-- tidyterra-0.6.0/tidyterra/vignettes/rgb-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/spatraster-example1-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/spatraster-example2-1.png |binary tidyterra-0.6.0/tidyterra/vignettes/tidyterra.Rmd | 165 - 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Title: Analyses of Text using Transformers Models from HuggingFace,
Natural Language Processing and Machine Learning
Description: Link R with Transformers from Hugging Face to transform text variables to word embeddings; where the word embeddings are used to statistically test the mean difference between set of texts, compute semantic similarity scores between texts, predict numerical variables, and visual statistically significant words according to various dimensions etc. For more information see <https://www.r-text.org>.
Author: Oscar Kjell [aut, cre] ,
Salvatore Giorgi [aut] ,
Andrew Schwartz [aut]
Maintainer: Oscar Kjell <oscar.kjell@psy.lu.se>
Diff between text versions 1.2.0 dated 2024-02-13 and 1.2.1 dated 2024-04-22
text-1.2.0/text/tests/testthat/notrun/test_6_finetune.R |only text-1.2.0/text/tests/testthat/test_1_Analyses_flow.R |only text-1.2.0/text/tests/testthat/test_2_1_textTrain_strata.R |only text-1.2.0/text/tests/testthat/test_2_textTrain.R |only text-1.2.0/text/tests/testthat/test_99_textEmbed.R |only text-1.2.1/text/DESCRIPTION | 8 text-1.2.1/text/MD5 | 104 +-- text-1.2.1/text/NAMESPACE | 3 text-1.2.1/text/NEWS.md | 5 text-1.2.1/text/R/0_0_text_install.R | 234 +++---- text-1.2.1/text/R/0_1_globals.R | 4 text-1.2.1/text/R/0_2_privateFunctions.R | 324 ++++++---- text-1.2.1/text/R/0_3_textModels.R | 18 text-1.2.1/text/R/1_1_textEmbed.R | 269 +++++--- text-1.2.1/text/R/2_1_textTrain.R | 13 text-1.2.1/text/R/2_2_textTrainRegression.R | 142 ++-- text-1.2.1/text/R/2_3_textTrainRandomForest.R | 199 ++++-- text-1.2.1/text/R/2_4_textPredict.R | 288 +++++--- text-1.2.1/text/R/2_5_textTrainN.R | 226 +++--- text-1.2.1/text/R/3_1_textSimilarity.R | 2 text-1.2.1/text/R/4_0_textPlot.R | 5 text-1.2.1/text/R/4_1_textPlotCentrality.R | 2 text-1.2.1/text/R/4_3_textPlotProjection.R | 2 text-1.2.1/text/R/6_1_textFineTune.R | 10 text-1.2.1/text/R/6_2_textFineTuneDomain.R | 3 text-1.2.1/text/R/7_1_textTopics.R | 114 +++ text-1.2.1/text/R/7_2_textTopicsAnalysis.R | 4 text-1.2.1/text/R/zzz.R | 2 text-1.2.1/text/build/vignette.rds |binary text-1.2.1/text/inst/doc/pre_trained_models.R |only text-1.2.1/text/inst/doc/pre_trained_models.Rmd |only text-1.2.1/text/inst/doc/pre_trained_models.html |only text-1.2.1/text/inst/extdata/text_models_info.csv |only text-1.2.1/text/inst/python/__pycache__/run_mlm.cpython-39.pyc |binary text-1.2.1/text/inst/python/bert_topic.py | 56 + text-1.2.1/text/inst/python/huggingface_Interface3.py | 109 ++- text-1.2.1/text/inst/python/huggingface_Interface4.py | 11 text-1.2.1/text/man/textEmbed.Rd | 18 text-1.2.1/text/man/textEmbedLayerAggregation.Rd | 6 text-1.2.1/text/man/textEmbedRawLayers.Rd | 9 text-1.2.1/text/man/textFineTuneTask.Rd | 6 text-1.2.1/text/man/textModelLayers.Rd | 13 text-1.2.1/text/man/textPredict.Rd | 50 + text-1.2.1/text/man/textTopics.Rd | 3 text-1.2.1/text/man/textTopicsReduce.Rd |only text-1.2.1/text/man/textTopicsTree.Rd |only text-1.2.1/text/man/textTrainNPlot.Rd | 45 - text-1.2.1/text/man/textTrainRandomForest.Rd | 3 text-1.2.1/text/man/textTrainRegression.Rd | 9 text-1.2.1/text/man/textrpp_install.Rd | 9 text-1.2.1/text/tests/testthat/test_0_install_test.R | 32 text-1.2.1/text/tests/testthat/test_1_1_Analyses_flow.R |only text-1.2.1/text/tests/testthat/test_1_2_textEmbed.R |only text-1.2.1/text/tests/testthat/test_2_1_textTrainRegression.R |only text-1.2.1/text/tests/testthat/test_2_2_textTrainRandomForest.R |only text-1.2.1/text/tests/testthat/test_2_3_textTrain_strata.R |only text-1.2.1/text/tests/testthat/test_2_4_textTrainN.R |only text-1.2.1/text/tests/testthat/test_2_5_textPredict.R |only text-1.2.1/text/tests/testthat/test_4_textPlot.R | 19 text-1.2.1/text/tests/testthat/test_6_textFineTune.R |only text-1.2.1/text/tests/testthat/test_7_textTopics.R | 15 text-1.2.1/text/tests/testthat/test_zz_UNinstall_test.R |only text-1.2.1/text/tests/testthat/test_zzz_install_virtualenv_test.R |only text-1.2.1/text/vignettes/pre_trained_models.Rmd |only 64 files changed, 1637 insertions(+), 757 deletions(-)
Title: Topic Inference to Identify Tissue Architecture in Multiplexed
Images
Description: A novel spatial topic model to integrate both cell type and spatial information to identify the complex spatial tissue architecture on multiplexed tissue images without human intervention. The Package implements a collapsed Gibbs sampling algorithm for inference. 'SpaTopic' is scalable to large-scale image datasets without extracting neighborhood information for every single cell. For more details on the methodology, see <https://xiyupeng.github.io/SpaTopic/>.
Author: Xiyu Peng [aut, cre]
Maintainer: Xiyu Peng <pansypeng124@gmail.com>
Diff between SpaTopic versions 1.0.1 dated 2024-01-17 and 1.1.0 dated 2024-04-22
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 2 ++ R/Gibbs_sampler.R | 28 +++++++++++++++++++++++----- README.md | 40 ++++++++++++++++++++++++++++++---------- inst/doc/Intro_SpaTopic.Rmd | 2 +- inst/doc/Intro_SpaTopic.html | 28 +++++++++++++++++++++------- vignettes/Intro_SpaTopic.Rmd | 2 +- 8 files changed, 90 insertions(+), 36 deletions(-)
Title: Standard and Nonstandard Statistical Models and Methods for Test
Equating
Description: Contains functions to perform various models and
methods for test equating (Kolen and Brennan, 2014
<doi:10.1007/978-1-4939-0317-7> ; Gonzalez and Wiberg, 2017
<doi:10.1007/978-3-319-51824-4> ; von Davier et. al, 2004
<doi:10.1007/b97446>). It currently implements the traditional mean, linear
and equipercentile equating methods. Both IRT observed-score and true-score
equating are also supported, as well as the mean-mean, mean-sigma, Haebara
and Stocking-Lord IRT linking methods. It also supports newest methods such
that local equating, kernel equating (using Gaussian, logistic,
Epanechnikov, uniform and adaptive kernels) with presmoothing, and IRT
parameter linking methods based on asymmetric item characteristic functions.
Functions to obtain both standard error of equating (SEE) and standard error
of equating differences between two equating functions (SEED) are also
implemented for the kernel method of equating.
Author: Jorge Gonzalez [cre, aut],
Daniel Leon Acuna [ctb]
Maintainer: Jorge Gonzalez <jorge.gonzalez@mat.uc.cl>
Diff between SNSequate versions 1.3-4 dated 2022-12-20 and 1.3-5 dated 2024-04-22
DESCRIPTION | 35 MD5 | 30 NAMESPACE | 141 +- R/BB.smooth.R |only R/bandwidth.R | 652 +++++----- R/discrete.smooth.R |only R/epan.R | 22 R/irt.eq.R | 8 R/kefJG.R |only R/ker.eq.R | 2978 +++++++++++++++++++++++------------------------ R/kpmfeJG.R |only R/loglin.smooth.R | 903 +++++++------- build/partial.rdb |binary inst/CITATION | 24 man/BB.smooth.Rd |only man/SNSequate-package.Rd | 160 +- man/bandwidth.Rd | 4 man/discrete.smooth.Rd |only man/ker.eq.Rd | 6 19 files changed, 2510 insertions(+), 2453 deletions(-)
Title: Web Interface to 'R' Functions
Description: Web front end for your 'R' functions producing plots or tables.
If you have a function or set of related functions, you can make them
available over the internet through a web browser. This is the same
motivation as the 'shiny' package, but note that the development of
'shinylight' is not in any way linked to that of 'shiny' (beyond the use of
the 'httpuv' package). You might prefer 'shinylight' to 'shiny' if you want
a lighter weight deployment with easier horizontal scaling, or if you want
to develop your front end yourself in JavaScript and HTML just using
a lightweight remote procedure call interface to your R code on the
server.
Author: Pieter Vermeesch [aut],
Tim Band [aut, cre]
Maintainer: Tim Band <t.band@ucl.ac.uk>
Diff between shinylight versions 1.1.2 dated 2022-11-30 and 1.2 dated 2024-04-22
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/shinylight.R | 22 +++++++++------------- README.md | 3 +-- inst/www/js/dataentrygrid.min.js | 2 +- inst/www/js/shinylight-framework.js | 26 ++++++++++++++++++++++++-- inst/www/locales/en/framework.json | 4 ++++ 7 files changed, 50 insertions(+), 29 deletions(-)
Title: Technical Data Sets by Ruijter et al. (2013)
Description: The real-time quantitative polymerase chain reaction
(qPCR) technical data sets by Ruijter et al. (2013)
<doi:10.1016/j.ymeth.2012.08.011>: (i) the four-point 10-fold dilution
series; (ii) 380 replicates; and (iii) the competimer data set. These
three data sets can be used to benchmark qPCR methods. Original data set
is available at
<https://medischebiologie.nl/wp-content/uploads/2019/02/qpcrdatamethods.zip>.
This package fixes incorrect annotations in the original data sets.
Author: Ramiro Magno [aut, cre] ,
Pattern Institute [cph, fnd]
Maintainer: Ramiro Magno <rmagno@pattern.institute>
Diff between ruijter versions 0.1.2 dated 2023-02-08 and 0.1.3 dated 2024-04-22
.aspell |only DESCRIPTION | 23 ++++++++++++----------- MD5 | 16 ++++++++++------ NAMESPACE | 1 + NEWS.md |only R/ruijter-package.R |only README.md | 20 +++++++++++++++++--- build |only man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/ruijter-package.Rd |only 12 files changed, 40 insertions(+), 20 deletions(-)
Title: Biomarker Data Set by Vermeulen et al. (2009)
Description: The biomarker data set by Vermeulen et al. (2009)
<doi:10.1016/S1470-2045(09)70154-8> is provided. The data
source, however, is by Ruijter et al. (2013)
<doi:10.1016/j.ymeth.2012.08.011>. The original data set may
be downloaded from
<https://medischebiologie.nl/wp-content/uploads/2019/02/qpcrdatamethods.zip>.
This data set is for a real-time quantitative polymerase chain reaction
(PCR) experiment that comprises the raw fluorescence data of 24,576
amplification curves. This data set comprises 59 genes of interest and 5
reference genes. Each gene was assessed on 366 neuroblastoma complementary
DNA (cDNA) samples and on 18 standard dilution series samples (10-fold
5-point dilution series x 3 replicates + no template controls (NTC) x 3
replicates).
Author: Ramiro Magno [aut, cre] ,
Pattern Institute [cph, fnd]
Maintainer: Ramiro Magno <rmagno@pattern.institute>
Diff between vermeulen versions 0.1.1 dated 2022-11-10 and 0.1.2 dated 2024-04-22
.aspell |only DESCRIPTION | 22 +++++++++++----------- MD5 | 12 ++++++------ NEWS.md | 4 ++++ README.md | 36 ++++++++++++++++++------------------ build/partial.rdb |binary inst/WORDLIST | 17 ++++++----------- man/vermeulen-package.Rd | 6 +++--- 8 files changed, 48 insertions(+), 49 deletions(-)
Title: Real-Time PCR Data Sets by Rutledge et al. (2004)
Description: Real-time quantitative polymerase chain reaction (qPCR) data
by Rutledge et al. (2004) <doi:10.1093/nar/gnh177> in tidy format. The
data comprises a six-point, ten-fold dilution series, repeated in five
independent runs, for two different amplicons. In each run, each standard
concentration is replicated four times. For the original raw data file see
the Supplementary Data section:
<https://academic.oup.com/nar/article/32/22/e178/2375678#supplementary-data>.
Author: Ramiro Magno [aut, cre] ,
Pattern Institute [cph, fnd]
Maintainer: Ramiro Magno <rmagno@pattern.institute>
Diff between rutledge versions 0.1.0 dated 2023-02-27 and 0.1.1 dated 2024-04-22
rutledge-0.1.0/rutledge/R/utils-pipe.R |only rutledge-0.1.0/rutledge/man/pipe.Rd |only rutledge-0.1.1/rutledge/DESCRIPTION | 22 +++++----- rutledge-0.1.1/rutledge/MD5 | 15 +++--- rutledge-0.1.1/rutledge/NAMESPACE | 2 rutledge-0.1.1/rutledge/NEWS.md |only rutledge-0.1.1/rutledge/README.md | 15 ++++-- rutledge-0.1.1/rutledge/build/partial.rdb |binary rutledge-0.1.1/rutledge/man/figures/README-unnamed-chunk-3-1.png |binary rutledge-0.1.1/rutledge/man/rutledge-package.Rd | 6 +- 10 files changed, 31 insertions(+), 29 deletions(-)
Title: Retrieve Global River Gauge Data
Description: Provides access to global river gauge data from a variety of national-level river agencies. The package interfaces with the national-level agency websites to provide access to river gauge locations, river discharge, and river stage. Currently, the package is available for the following countries: Australia, Brazil, Canada, Chile, France, Japan, South Africa, the United Kingdom, and the United States.
Author: Ryan Riggs [aut, cre] ,
Simon Moulds [aut] ,
Michel Wortmann [aut] ,
Louise Slater [aut] ,
George Allen [aut]
Maintainer: Ryan Riggs <ryanriggs7@gmail.com>
Diff between RivRetrieve versions 0.1.4 dated 2024-03-02 and 0.1.5 dated 2024-04-22
DESCRIPTION | 10 ++++----- MD5 | 16 +++++++-------- NEWS.md | 4 +++ build/vignette.rds |binary inst/doc/my-vignette.html | 14 ++++++------- man/RivRetrieve-package.Rd | 2 - man/get_timeseries_id.Rd | 48 ++++++++++++++++++++++----------------------- man/make_bom_request.Rd | 44 ++++++++++++++++++++--------------------- tests/testthat.R | 24 +++++++++++----------- 9 files changed, 83 insertions(+), 79 deletions(-)
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: Tomasz Kalinowski [ctb, cre],
Kevin Ushey [aut],
JJ Allaire [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] ,
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Sigrid Keydana [ctb],
Ryan Hafen [ctb, cph],
Marcus Geelnard [ctb, cph]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between reticulate versions 1.36.0 dated 2024-04-15 and 1.36.1 dated 2024-04-22
DESCRIPTION | 6 - MD5 | 22 ++--- NEWS.md | 16 +++- R/conda.R | 45 ++++++++--- R/conversion.R | 6 - inst/doc/python_dependencies.Rmd | 113 ++++++++++++++--------------- inst/doc/python_dependencies.html | 137 ++++++++++++++++++------------------ inst/doc/python_primer.html | 28 +++---- man/conda-tools.Rd | 11 ++ src/python.cpp | 4 - tests/testthat/test-python-pandas.R | 26 ++++++ vignettes/python_dependencies.Rmd | 113 ++++++++++++++--------------- 12 files changed, 300 insertions(+), 227 deletions(-)
Title: Real-Time PCR Data Sets by Batsch et al. (2008)
Description: Real-time quantitative polymerase chain reaction (qPCR) data
sets by Batsch et al. (2008) <doi:10.1186/1471-2105-9-95>. This package
provides five data sets, one for each PCR target: (i) rat SLC6A14,
(ii) human SLC22A13, (iii) pig EMT, (iv) chicken ETT, and (v) human
GAPDH. Each data set comprises a five-point, four-fold dilution series.
For each concentration there are three replicates. Each amplification curve
is 45 cycles long. Original raw data file:
<https://static-content.springer.com/esm/art%3A10.1186%2F1471-2105-9-95/MediaObjects/12859_2007_2080_MOESM5_ESM.xls>.
Author: Ramiro Magno [aut, cre] ,
Pattern Institute [cph, fnd]
Maintainer: Ramiro Magno <rmagno@pattern.institute>
Diff between batsch versions 0.1.0 dated 2023-02-14 and 0.1.1 dated 2024-04-22
batsch-0.1.0/batsch/R/utils-pipe.R |only batsch-0.1.0/batsch/man/pipe.Rd |only batsch-0.1.1/batsch/DESCRIPTION | 16 +++---- batsch-0.1.1/batsch/MD5 | 23 +++++------ batsch-0.1.1/batsch/NAMESPACE | 2 batsch-0.1.1/batsch/NEWS.md |only batsch-0.1.1/batsch/README.md | 11 ++--- batsch-0.1.1/batsch/build/partial.rdb |binary batsch-0.1.1/batsch/man/batsch-package.Rd | 4 - batsch-0.1.1/batsch/man/figures/README-unnamed-chunk-2-1.png |binary batsch-0.1.1/batsch/man/figures/README-unnamed-chunk-3-1.png |binary batsch-0.1.1/batsch/man/figures/README-unnamed-chunk-4-1.png |binary batsch-0.1.1/batsch/man/figures/README-unnamed-chunk-5-1.png |binary batsch-0.1.1/batsch/man/figures/README-unnamed-chunk-6-1.png |binary 14 files changed, 27 insertions(+), 29 deletions(-)
Title: Exploratory Graph Analysis – a Framework for Estimating the
Number of Dimensions in Multivariate Data using Network
Psychometrics
Description: Implements the Exploratory Graph Analysis (EGA) framework for dimensionality
and psychometric assessment. EGA estimates the number of dimensions in
psychological data using network estimation methods and community detection
algorithms. A bootstrap method is provided to assess the stability of dimensions
and items. Fit is evaluated using the Entropy Fit family of indices. Unique
Variable Analysis evaluates the extent to which items are locally dependent (or
redundant). Network loadings provide similar information to factor loadings and
can be used to compute network scores. A bootstrap and permutation approach are
available to assess configural and metric invariance. Hierarchical structures
can be detected using Hierarchical EGA. Time series and intensive longitudinal
data can be analyzed using Dynamic EGA, supporting individual, group, and
population level assessments.
Author: Hudson Golino [aut, cre] ,
Alexander Christensen [aut] ,
Robert Moulder [ctb] ,
Luis E. Garrido [ctb] ,
Laura Jamison [ctb] ,
Dingjing Shi [ctb]
Maintainer: Hudson Golino <hfg9s@virginia.edu>
Diff between EGAnet versions 2.0.5 dated 2024-03-15 and 2.0.6 dated 2024-04-22
DESCRIPTION | 16 - MD5 | 30 +-- NEWS | 19 ++ R/EBICglasso.qgraph.R | 8 R/TMFG.R | 231 ++++++++++++------------ R/auto.correlate.R | 33 ++- R/bootEGA.R | 83 +++++--- R/helpers.R | 24 +- R/invariance.R | 53 +++-- R/itemStability.R | 427 ++++++++++++++++++++++++--------------------- R/net.loads.R | 67 ++----- R/network.predictability.R | 10 - man/TMFG.Rd | 6 man/invariance.Rd | 2 man/itemStability.Rd | 14 - man/net.loads.Rd | 7 16 files changed, 574 insertions(+), 456 deletions(-)
Title: Common Plots for Analysis
Description: Select data analysis plots, under a standardized calling interface implemented on top of 'ggplot2' and 'plotly'.
Plots of interest include: 'ROC', gain curve, scatter plot with marginal distributions,
conditioned scatter plot with marginal densities,
box and stem with matching theoretical distribution, and density with matching theoretical distribution.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between WVPlots versions 1.3.7 dated 2023-08-19 and 1.3.8 dated 2024-04-22
DESCRIPTION | 8 +- MD5 | 10 +-- NEWS.md | 5 + R/ScatterHist.R | 6 +- inst/doc/WVPlots_concept.html | 113 +++++++++++++++++++---------------------- inst/doc/WVPlots_examples.html | 29 +++++----- 6 files changed, 85 insertions(+), 86 deletions(-)
Title: Variable Selection in Partial Least Squares
Description: Interfaces and methods for variable selection in Partial Least
Squares. The methods include filter methods, wrapper methods and embedded
methods. Both regression and classification is supported.
Author: Kristian Hovde Liland [aut, cre]
,
Tahir Mehmood [ctb],
Solve Saeboe [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between plsVarSel versions 0.9.10 dated 2023-01-12 and 0.9.11 dated 2024-04-22
DESCRIPTION | 12 ++--- MD5 | 16 +++---- NAMESPACE | 9 +++- NEWS | 4 + R/T2.R | 7 ++- R/mvrV.R | 26 ++++++----- R/utilities.R | 127 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ README.md | 44 +++++++++++++++++++- inst/CITATION | 7 ++- 9 files changed, 220 insertions(+), 32 deletions(-)
Title: Analytics & Machine Learning Sidekick
Description: Auxiliary package for better/faster analytics, visualization, data mining, and machine
learning tasks. With a wide variety of family functions, like Machine Learning, Data Wrangling,
Exploratory, API, and Scrapper, it helps the analyst or data scientist to get quick and robust
results, without the need of repetitive coding or extensive R programming skills.
Author: Bernardo Lares [aut, cre]
Maintainer: Bernardo Lares <laresbernardo@gmail.com>
Diff between lares versions 5.2.5 dated 2024-01-22 and 5.2.7 dated 2024-04-22
DESCRIPTION | 6 - MD5 | 92 +++++++++++++-------------- R/chatgpt.R | 4 - R/correlations.R | 9 +- R/credentials.R | 2 R/currency.R | 2 R/dalex_explainers.R | 10 +-- R/dim_reduction.R | 4 - R/facebook.R | 6 - R/gemini.R | 2 R/lares.R | 2 R/mails.R | 2 R/maze.R | 6 - R/onehotencoding.R | 2 R/other_functions.R | 150 +++++++++++++++++++++++---------------------- R/robyn.R | 48 +++++++------- R/stocks.R | 10 +-- R/text_mining.R | 2 R/theme_lares.R | 18 +++-- R/tictoc.R | 4 - R/trees.R | 2 R/wordle.R | 2 R/wrangling.R | 100 +++++++++++++++++++----------- R/zzz.R | 2 man/categ_reducer.Rd | 2 man/corr_cross.Rd | 2 man/daily_stocks.Rd | 2 man/dalex_variable.Rd | 4 - man/etf_sector.Rd | 2 man/fb_accounts.Rd | 2 man/fb_ads.Rd | 2 man/fb_insights.Rd | 2 man/font_exists.Rd | 8 +- man/gemini_ask.Rd | 2 man/get_currency.Rd | 2 man/gpt_ask.Rd | 2 man/num_abbr.Rd | 14 +++- man/ohse.Rd | 2 man/reduce_pca.Rd | 2 man/reduce_tsne.Rd | 2 man/robyn_hypsbuilder.Rd | 14 ++-- man/robyn_modelselector.Rd | 4 - man/stocks_hist.Rd | 4 - man/theme_lares.Rd | 2 man/try_require.Rd | 2 man/weighted_value.Rd | 2 man/wordle.Rd | 2 47 files changed, 311 insertions(+), 258 deletions(-)
Title: Arrange 'Grobs' in Tables
Description: Tools to make it easier to work with "tables" of 'grobs'. The
'gtable' package defines a 'gtable' grob class that specifies a grid
along with a list of grobs and their placement in the grid. Further
the package makes it easy to manipulate and combine 'gtable' objects
so that complex compositions can be built up sequentially.
Author: Hadley Wickham [aut],
Thomas Lin Pedersen [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between gtable versions 0.3.4 dated 2023-08-21 and 0.3.5 dated 2024-04-22
DESCRIPTION | 44 +++++++++++++++-------------------- LICENSE | 2 - MD5 | 28 +++++++++++----------- NEWS.md | 2 + R/gtable.R | 2 - README.md | 44 +++++++++++++++++++---------------- build/vignette.rds |binary inst/doc/profiling.R | 2 - inst/doc/profiling.html | 17 +++++++++---- man/figures/lifecycle-superseded.svg | 2 - man/gtable-package.Rd | 3 -- man/gtable_col.Rd | 4 +-- man/gtable_matrix.Rd | 4 +-- man/gtable_row.Rd | 4 +-- man/gtable_spacer.Rd | 4 +-- 15 files changed, 84 insertions(+), 78 deletions(-)
Title: Bayesian Preference Learning with the Mallows Rank Model
Description: An implementation of the Bayesian version of the Mallows rank model
(Vitelli et al., Journal of Machine Learning Research, 2018 <https://jmlr.org/papers/v18/15-481.html>;
Crispino et al., Annals of Applied Statistics, 2019 <doi:10.1214/18-AOAS1203>;
Sorensen et al., R Journal, 2020 <doi:10.32614/RJ-2020-026>;
Stein, PhD Thesis, 2023 <https://eprints.lancs.ac.uk/id/eprint/195759>). Both Metropolis-Hastings
and sequential Monte Carlo algorithms for estimating the models are available. Cayley, footrule,
Hamming, Kendall, Spearman, and Ulam distances are supported in the models. The rank data to be
analyzed can be in the form of complete rankings, top-k rankings, partially missing rankings, as well
as consistent and inconsistent pairwise preferences. Several functions for plotting and studying the
posterior distributions of parameters are provided. The package also provides functions for estimating
the partition function (normalizing constant) of the Mallows rank mo [...truncated...]
Author: Oystein Sorensen [aut, cre] ,
Waldir Leoncio [aut],
Valeria Vitelli [aut] ,
Marta Crispino [aut],
Qinghua Liu [aut],
Cristina Mollica [aut],
Luca Tardella [aut],
Anja Stein [aut]
Maintainer: Oystein Sorensen <oystein.sorensen.1985@gmail.com>
Diff between BayesMallows versions 2.2.0 dated 2024-04-19 and 2.2.1 dated 2024-04-22
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ build/partial.rdb |binary tests/testthat/test-smc_update_correctness.R | 1 + 5 files changed, 12 insertions(+), 7 deletions(-)
Title: Import, Manipulate and Explore the Results of an 'Antares'
Simulation
Description: Import, manipulate and explore results generated by 'Antares', a
powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems
(more information about 'Antares' here : <https://antares-simulator.org/>).
Author: Tatiana Vargas [aut, cre],
Jalal-Edine ZAWAM [aut],
Frederic Breant [ctb],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
Victor Perrier [ctb],
Etienne Sanchez [ctb],
Assil Mansouri [ctb],
Clement Berthet [ctb],
Kamel Kemiha [c [...truncated...]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresRead versions 2.6.0 dated 2023-08-30 and 2.6.1 dated 2024-04-22
antaresRead-2.6.0/antaresRead/man/aggregatate_mc_all_old.Rd |only antaresRead-2.6.1/antaresRead/DESCRIPTION | 13 - antaresRead-2.6.1/antaresRead/MD5 | 43 ++-- antaresRead-2.6.1/antaresRead/NEWS.md | 17 + antaresRead-2.6.1/antaresRead/R/API-methods.R | 21 +- antaresRead-2.6.1/antaresRead/R/aggregateResult.R | 18 - antaresRead-2.6.1/antaresRead/R/giveSize.R | 2 antaresRead-2.6.1/antaresRead/R/importOutput.R | 96 +++++++--- antaresRead-2.6.1/antaresRead/R/readAntaresClusters.R | 2 antaresRead-2.6.1/antaresRead/R/readClusterDesc.R | 50 +++-- antaresRead-2.6.1/antaresRead/R/readIniFile.R | 24 +- antaresRead-2.6.1/antaresRead/R/readInputClusters.R | 4 antaresRead-2.6.1/antaresRead/R/setSimulationPath.R | 9 antaresRead-2.6.1/antaresRead/R/utils_api.R | 32 ++- antaresRead-2.6.1/antaresRead/build/vignette.rds |binary antaresRead-2.6.1/antaresRead/inst/doc/antaresH5.Rmd | 1 antaresRead-2.6.1/antaresRead/inst/doc/antaresH5.html | 6 antaresRead-2.6.1/antaresRead/inst/doc/antaresRead.html | 4 antaresRead-2.6.1/antaresRead/man/API-methods.Rd | 23 +- antaresRead-2.6.1/antaresRead/man/aggregatate_mc_all.Rd | 6 antaresRead-2.6.1/antaresRead/tests/testthat/test-readAntares.R | 10 + antaresRead-2.6.1/antaresRead/tests/testthat/test-readClusterDesc.R | 40 +++- antaresRead-2.6.1/antaresRead/vignettes/antaresH5.Rmd | 1 23 files changed, 294 insertions(+), 128 deletions(-)
Title: Worldwide or Coordinates-Based Heat Maps
Description: Easily plot heat maps of the world, based on continuous or categorical data. Country labels can also be added to the map.
Author: Luigi Annicchiarico [cre, aut]
Maintainer: Luigi Annicchiarico <luigi.annic@gmail.com>
Diff between WorldMapR versions 0.1.0 dated 2024-02-13 and 0.1.1 dated 2024-04-22
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NAMESPACE | 3 +++ NEWS.md | 7 +++++++ R/geometries_data.R | 13 ++++++++++--- R/worldplot.R | 12 ++++++++++-- R/worldplotCat.R | 27 ++++++++++++++++++++++----- man/worldplotCat.Rd | 2 +- tests/testthat/testCat2.R | 24 ++++++++++++++++++++++++ 9 files changed, 89 insertions(+), 23 deletions(-)
Title: Download Data from Bank of Spain
Description: Tools to download data series from 'Banco de España' ('BdE')
on 'tibble' format. 'Banco de España' is the national central bank
and, within the framework of the Single Supervisory Mechanism ('SSM'),
the supervisor of the Spanish banking system along with the European
Central Bank. This package is in no way sponsored endorsed or
administered by 'Banco de España'.
Author: Diego H. Herrero [aut, cre, cph]
Maintainer: Diego H. Herrero <dev.dieghernan@gmail.com>
Diff between tidyBdE versions 0.3.5 dated 2024-01-29 and 0.3.6 dated 2024-04-22
DESCRIPTION | 10 - MD5 | 60 ++++----- NEWS.md | 227 ++++++++++++++++------------------- R/bde_check_access.R | 120 +++++++++--------- R/catalogs.R | 46 ++++--- R/indicators.R | 2 R/scales.R | 15 -- R/series.R | 13 +- R/theme_tidybde.R | 4 R/utils.R | 2 README.md | 13 -- build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/tidyBdE.Rmd | 9 - inst/doc/tidyBdE.html | 18 +- inst/schemaorg.json | 4 man/bde_catalog_load.Rd | 14 +- man/bde_catalog_search.Rd | 2 man/bde_catalog_update.Rd | 12 - man/bde_check_access.Rd | 2 man/bde_indicators.Rd | 2 man/bde_parse_dates.Rd | 2 man/bde_series_load.Rd | 13 +- man/figures/README-chart-1.png |binary man/figures/README-macroseries-1.png |binary man/scales_bde.Rd | 7 - man/theme_tidybde.Rd | 4 tests/testthat/test-series.R | 2 vignettes/chart-1.png |binary vignettes/macroseries-1.png |binary vignettes/tidyBdE.Rmd | 9 - 31 files changed, 314 insertions(+), 300 deletions(-)
Title: Simple Functions to Save Time and Memory
Description: Fast and memory-efficient (or 'cheap') tools to facilitate
efficient programming, saving time and memory. It aims to provide
'cheaper' alternatives to common base R functions, as well as some
additional functions.
Author: Nick Christofides [aut, cre]
Maintainer: Nick Christofides <nick.christofides.r@gmail.com>
Diff between cheapr versions 0.8.0 dated 2024-04-12 and 0.9.0 dated 2024-04-22
DESCRIPTION | 6 - MD5 | 38 ++++---- NAMESPACE | 1 NEWS.md | 8 + R/cpp11.R | 8 + R/lag.R |only R/sset.R | 14 --- README.md | 179 +++++++++++++++++++++++++++-------------- man/lag_.Rd |only src/attrs.cpp | 2 src/cheapr_cpp.h | 22 +---- src/cpp11.cpp | 16 +++ src/gcd.cpp | 2 src/lag.cpp |only src/nas.cpp | 2 src/sequences.cpp | 2 src/set_math.cpp | 58 ++++++------- src/sset.cpp | 2 src/utils.cpp | 7 + src/which.cpp | 2 tests/testthat/test-lag.R |only tests/testthat/test-set_math.R | 172 +++++++++++++++++++-------------------- 22 files changed, 302 insertions(+), 239 deletions(-)
Title: Genome Interval Arithmetic
Description: Read and manipulate genome intervals and signals. Provides
functionality similar to command-line tool suites within R, enabling
interactive analysis and visualization of genome-scale data. Riemondy
et al. (2017) <doi:10.12688/f1000research.11997.1>.
Author: Jay Hesselberth [aut] ,
Kent Riemondy [aut, cre] ,
RNA Bioscience Initiative [fnd, cph]
Maintainer: Kent Riemondy <kent.riemondy@cuanschutz.edu>
Diff between valr versions 0.8.0 dated 2024-04-04 and 0.8.1 dated 2024-04-22
DESCRIPTION | 7 ++++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ inst/doc/valr.html | 4 ++-- tests/testthat.R | 1 - 5 files changed, 14 insertions(+), 10 deletions(-)
Title: Asymptotic Timing
Description: Computing and visualizing comparative
asymptotic timings of different algorithms and code versions.
Also includes functionality for comparing empirical timings with
expected references such as linear or quadratic,
<https://en.wikipedia.org/wiki/Asymptotic_computational_complexity>
Also includes functionality for measuring asymptotic memory and other
quantities.
Author: Toby Hocking [aut, cre]
Maintainer: Toby Hocking <toby.hocking@r-project.org>
Diff between atime versions 2024.4.12 dated 2024-04-13 and 2024.4.17 dated 2024-04-22
DESCRIPTION | 6 MD5 | 78 +- NAMESPACE | 38 - NEWS | 203 +++---- R/atime.R | 475 +++++++++-------- R/predict.R | 233 ++++---- R/references.R | 355 ++++++------ R/versions.R | 745 +++++++++++++-------------- build/vignette.rds |binary inst/doc/Custom_Plots.R | 144 ++--- inst/doc/Custom_Plots.Rmd | 202 +++---- inst/doc/Custom_Plots.html | 506 +++++++++--------- inst/doc/Custom_References.R | 114 ++-- inst/doc/Custom_References.Rmd | 248 ++++----- inst/doc/Custom_References.html | 545 +++++++++---------- inst/doc/Custom_Units.R | 123 ++-- inst/doc/Custom_Units.Rmd | 270 +++++---- inst/doc/Custom_Units.html | 578 +++++++++++---------- inst/doc/cum_median.R | 62 +- inst/doc/cum_median.Rmd | 106 +-- inst/doc/cum_median.html | 406 +++++++------- inst/doc/regex.R | 128 ++-- inst/doc/regex.Rmd | 194 +++---- inst/doc/regex.html | 523 +++++++++---------- man/atime.Rd | 135 ++-- man/atime_grid.Rd | 172 +++--- man/atime_pkg.Rd | 116 ++-- man/atime_versions.Rd | 172 +++--- man/atime_versions_exprs.Rd | 174 +++--- man/atime_versions_remove.Rd | 26 man/glob_find_replace.Rd | 38 - man/references_best.Rd | 86 +-- tests/testthat.R | 2 tests/testthat/test-CRAN.R | 770 ++++++++++++++-------------- vignettes/Custom_Plots.Rmd | 202 +++---- vignettes/Custom_References.Rmd | 248 ++++----- vignettes/Custom_Units.Rmd | 270 +++++---- vignettes/binseg.html |only vignettes/compare-data.table-tidyverse.html |only vignettes/cum_median.Rmd | 106 +-- vignettes/regex.Rmd | 194 +++---- 41 files changed, 4628 insertions(+), 4365 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-16 0.3.0
2017-02-19 0.2.1
2017-01-01 0.1.1
Title: Create Native 'Excel' Charts and Work with Microsoft 'Excel'
Files
Description: An R interface to the 'OpenPyXL' 'Python' library to create
native 'Excel' charts and work with Microsoft 'Excel' files.
Author: Felix Luginbuhl [aut, cre, cph]
,
Eric Gazoni [ctb, cph] ),
Charlie Clark [ctb, cph] ),
openpyxl authors [ctb, cph] )
Maintainer: Felix Luginbuhl <felix.luginbuhl@protonmail.ch>
Diff between xlcharts versions 0.0.1 dated 2024-04-18 and 0.0.2 dated 2024-04-22
DESCRIPTION | 10 ++++++---- MD5 | 6 ++++-- NEWS.md |only README.md | 22 +++++++++++++++++----- man/figures/logo.png |only 5 files changed, 27 insertions(+), 11 deletions(-)
Title: Statistical Inference for Box-Cox Based Receiver Operating
Characteristic Curves
Description: Generation of Box-Cox based ROC curves and several aspects of inferences and hypothesis testing. Can be used when inferences for one biomarker (Bantis LE, Nakas CT, Reiser B. (2018)<doi:10.1002/bimj.201700107>) are of interest or when comparisons of two correlated biomarkers (Bantis LE, Nakas CT, Reiser B. (2021)<doi:10.1002/bimj.202000128>) are of interest. Provides inferences and comparisons around the AUC, the Youden index, the sensitivity at a given specificity level (and vice versa), the optimal operating point of the ROC curve (in the Youden sense), and the Youden based cutoff.
Author: Leonidas Bantis [aut],
Benjamin Brewer [cre, ctb],
Christos Nakas [ctb],
Benjamin Reiser [ctb]
Maintainer: Benjamin Brewer <tennisbenj@gmail.com>
Diff between rocbc versions 3.0.0 dated 2024-03-25 and 3.1.0 dated 2024-04-22
DESCRIPTION | 8 MD5 | 18 R/threerocs.R | 6 R/threerocs2.R |only build/vignette.rds |binary inst/doc/documentation_rocbc.R | 256 ++++++-- inst/doc/documentation_rocbc.Rmd | 278 +++++++- inst/doc/documentation_rocbc.html | 1206 +++++++++++++++++++++----------------- man/threerocs.Rd | 4 man/threerocs2.Rd |only vignettes/documentation_rocbc.Rmd | 278 +++++++- 11 files changed, 1386 insertions(+), 668 deletions(-)
Title: Adaptive Parallel Tempering for 'NIMBLE'
Description: Functions for adaptive parallel tempering (APT) with NIMBLE models. Adapted from 'Lacki' & 'Miasojedow' (2016) <DOI:10.1007/s11222-015-9579-0> and 'Miasojedow, Moulines and Vihola' (2013) <DOI:10.1080/10618600.2013.778779>.
Author: David Pleydell [aut, cre, cph] ,
Daniel Turek [cph] ,
Perry de Valpine [cph] ,
Christopher Paciorek [cph] ,
Nick Michaud [cph]
Maintainer: David Pleydell <david.pleydell@inrae.fr>
Diff between nimbleAPT versions 1.0.4 dated 2021-11-22 and 1.0.5 dated 2024-04-22
DESCRIPTION | 10 - MD5 | 20 +-- R/APT_functions.R | 52 +++++---- R/nimbleAPT-package.r | 8 - build/vignette.rds |binary inst/CITATION | 2 inst/NEWS | 7 + inst/doc/nimbleAPT-vignette.R | 2 inst/doc/nimbleAPT-vignette.html | 203 ++++++++++++++++++++------------------- man/buildAPT.Rd | 7 + man/nimbleAPT.Rd | 2 11 files changed, 173 insertions(+), 140 deletions(-)
Title: Evidential Regression
Description: An implementation of the 'Evidential Neural Network for Regression' model recently introduced in Denoeux (2023) <doi:10.1109/TFUZZ.2023.3268200>. In this model, prediction uncertainty is quantified by Gaussian random fuzzy numbers as introduced in Denoeux (2023) <doi:10.1016/j.fss.2022.06.004>. The package contains functions for training the network, tuning hyperparameters by cross-validation or the hold-out method, and making predictions. It also contains utilities for making calculations with Gaussian random fuzzy numbers (such as, e.g., computing the degrees of belief and plausibility of an interval, or combining Gaussian random fuzzy numbers).
Author: Thierry Denoeux [aut, cre]
Maintainer: Thierry Denoeux <tdenoeux@utc.fr>
Diff between evreg versions 1.0.3 dated 2023-11-09 and 1.0.4 dated 2024-04-22
DESCRIPTION | 10 +++++----- MD5 | 32 ++++++++++++++++---------------- NEWS | 7 +++++++ R/ENNreg.R | 9 +++------ R/ENNreg_cv.R | 2 +- R/ENNreg_holdout.R | 2 +- R/ENNreg_init.R | 2 +- R/combination_GRFN.R | 2 +- R/evreg.R | 4 ++-- inst/doc/Introduction.R | 14 +++++++------- inst/doc/Introduction.html | 37 +++++++++++++++++++------------------ man/ENNreg.Rd | 2 +- man/ENNreg_cv.Rd | 2 +- man/ENNreg_holdout.Rd | 2 +- man/combination_GRFN.Rd | 2 +- man/evreg.Rd | 5 +++-- vignettes/tdenoeux.bib | 7 ++++--- 17 files changed, 74 insertions(+), 67 deletions(-)
Title: Feature Stores for the 'diseasy' Framework
Description: Simple feature stores and tools for creating personalised feature stores.
'diseasystore' powers feature stores which can automatically link and aggregate features to a given stratification
level. These feature stores are automatically time-versioned (powered by the 'SCDB' package) and allows you to easily
and dynamically compute features as part of your continuous integration.
Author: Rasmus Skytte Randloev [aut, cre]
,
Marcus Munch Gruenewald [ctb] ,
Kaare Graesboell [rev] ,
Kasper Schou Telkamp [rev] ,
Lasse Engbo Christiansen [rev]
,
Sofia Myrup Otero [rev],
Statens Serum Institut, SSI [cph, fnd]
Maintainer: Rasmus Skytte Randloev <rske@ssi.dk>
Diff between diseasystore versions 0.2.0 dated 2024-03-20 and 0.2.1 dated 2024-04-22
DESCRIPTION | 12 MD5 | 38 NAMESPACE | 1 NEWS.md | 4 R/0_locks.R | 8 R/DiseasystoreBase.R | 96 - R/drop_diseasystore.R | 169 --- R/test_diseasystore.R | 978 +++++++++----------- R/truncate_interlace.R | 7 README.md | 2 build/vignette.rds |binary inst/doc/diseasystore-ecdc-respiratory-viruses.Rmd | 5 inst/doc/diseasystore-ecdc-respiratory-viruses.html | 9 inst/doc/diseasystore-google-covid-19.html | 4 inst/doc/diseasystore.html | 81 + tests/testthat/helper-setup.R | 10 tests/testthat/test-0_linters.R | 8 tests/testthat/test-DiseasystoreBase.R | 525 +++++----- tests/testthat/test-drop_diseasystore.R | 79 - vignettes/diseasystore-ecdc-respiratory-viruses.Rmd | 5 20 files changed, 944 insertions(+), 1097 deletions(-)
More information about ConfidenceEllipse at CRAN
Permanent link
Title: Sparse-Group Boosting
Description: Sparse-group boosting to be used in conjunction with the 'mboost' for modeling grouped data.
Applicable to all sparse-group lasso type problems where within-group and between-group sparsity is desired.
Interprets and visualizes individual variables and groups.
Author: Fabian Obster [aut, cre, cph]
Maintainer: Fabian Obster <fabian.obster@unibw.de>
Diff between sgboost versions 0.1.0 dated 2024-04-11 and 0.1.2 dated 2024-04-22
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 2 inst/doc/sgboost.R | 3 inst/doc/sgboost.Rmd | 39 ++--- inst/doc/sgboost.html | 302 ++++++++++++++++++++--------------------- tests/testthat/test-get_coef.R | 12 - vignettes/sgboost.Rmd | 39 ++--- 8 files changed, 213 insertions(+), 204 deletions(-)
Title: The Rainfall-Runoff Erosivity Factor
Description: Determination of rainfall-runoff erosivity factor.
Author: Dione Pereira Cardoso [aut, cre], Edilson Marcelino Silva [aut], Paulo Cesar Ossani [aut], Marx Leandro Naves Silva [ctb],
Joel Augusto Muniz [ctb], Daniel Furtado Ferreira [ctb], Junior Cesar Avanzi [ctb]
Maintainer: Dione Pereira Cardoso <cardoso.dione@gmail.com>
Diff between RainfallErosivityFactor versions 0.1.0 dated 2018-11-18 and 1.0.0 dated 2024-04-22
DESCRIPTION | 8 - MD5 | 6 R/RainfallErosivityFactor.R | 291 ++++++++++++++++++++++------------------- man/RainfallErosivityFactor.Rd | 7 4 files changed, 168 insertions(+), 144 deletions(-)
More information about RainfallErosivityFactor at CRAN
Permanent link
Title: Power and Sample Size Calculation for Non-Proportional Hazards
and Beyond
Description: Performs power and sample size calculation for non-proportional hazards model using the Fleming-Harrington family of weighted log-rank tests. The sequentially calculated log-rank test score statistics are assumed to have independent increments as characterized in Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean and variance of log-rank test score statistics are calculated based on Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities are calculated using the recursive integration algorithm described in Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168). The package can also be used for continuous, binary, and count data. For continuous data, it can handle missing data through mixed-model for repeated measures (MMRM). In crossover designs, it can estimate direct treatment effects while accounting for carryover effects. For binary data, it can design Simon's 2-stage, modified toxicity probability-2 (mTPI-2), a [...truncated...]
Author: Kaifeng Lu
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.2.4 dated 2024-03-19 and 0.2.5 dated 2024-04-22
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Title: Effective Reproduction Number Estimation
Description: Estimate the effective reproduction number from wastewater
and clinical data sources.
Author: David Champredon [aut, cre] ,
Warsame Yusuf [aut] ,
Irena Papst [aut]
Maintainer: David Champredon <david.champredon@canada.ca>
Diff between ern versions 1.3.1 dated 2024-01-29 and 2.0.0 dated 2024-04-22
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Title: Elegant Tools for Processing and Visualization of Lipidomics
Data
Description: An elegant tool for processing and visualizing lipidomics data generated by mass spectrometry. 'LipidomicsR' simplifies channel and replicate handling while providing thorough lipid species annotation. Its visualization capabilities encompass principal components analysis plots, heatmaps, volcano plots, and radar plots, enabling concise data summarization and quality assessment. Additionally, it can generate bar plots and line plots to visualize the abundance of each lipid species.
Author: Mingshi Li [aut, com],
Hengyu Zhu [aut, cre]
Maintainer: Hengyu Zhu <hengyu.21@intl.zju.edu.cn>
Diff between LipidomicsR versions 0.1.6 dated 2024-03-16 and 0.3.6 dated 2024-04-22
LipidomicsR-0.1.6/LipidomicsR/R/lineplot.R |only LipidomicsR-0.1.6/LipidomicsR/man/cleanXpert.Rd |only LipidomicsR-0.1.6/LipidomicsR/man/paramWizard.Rd |only LipidomicsR-0.3.6/LipidomicsR/DESCRIPTION | 16 LipidomicsR-0.3.6/LipidomicsR/LICENSE | 4 LipidomicsR-0.3.6/LipidomicsR/MD5 | 70 LipidomicsR-0.3.6/LipidomicsR/NAMESPACE | 128 - LipidomicsR-0.3.6/LipidomicsR/R/abundance.R | 187 ++ LipidomicsR-0.3.6/LipidomicsR/R/channel_cleaner.R |only LipidomicsR-0.3.6/LipidomicsR/R/data_cleaner.R | 732 +++------- LipidomicsR-0.3.6/LipidomicsR/R/delRep.R | 123 + LipidomicsR-0.3.6/LipidomicsR/R/extract.R | 160 +- LipidomicsR-0.3.6/LipidomicsR/R/heatmap.R | 69 LipidomicsR-0.3.6/LipidomicsR/R/importer_group.R |only LipidomicsR-0.3.6/LipidomicsR/R/qc.R | 583 +++---- LipidomicsR-0.3.6/LipidomicsR/R/rsd_del.R |only LipidomicsR-0.3.6/LipidomicsR/R/volcano_master.R | 45 LipidomicsR-0.3.6/LipidomicsR/README.md |only LipidomicsR-0.3.6/LipidomicsR/data |only LipidomicsR-0.3.6/LipidomicsR/man/QCplot.Rd | 10 LipidomicsR-0.3.6/LipidomicsR/man/absolute.calculator.Rd | 4 LipidomicsR-0.3.6/LipidomicsR/man/abundance.lineplot.Rd | 28 LipidomicsR-0.3.6/LipidomicsR/man/abundance.signif.Rd | 3 LipidomicsR-0.3.6/LipidomicsR/man/abundance.summary.Rd | 3 LipidomicsR-0.3.6/LipidomicsR/man/channel.delete.Rd | 13 LipidomicsR-0.3.6/LipidomicsR/man/delRep.Rd | 13 LipidomicsR-0.3.6/LipidomicsR/man/groupXpert.Rd |only LipidomicsR-0.3.6/LipidomicsR/man/heatmap.Rd | 18 LipidomicsR-0.3.6/LipidomicsR/man/importer.Rd | 4 LipidomicsR-0.3.6/LipidomicsR/man/lEa.Rd | 9 LipidomicsR-0.3.6/LipidomicsR/man/lEr.Rd | 2 LipidomicsR-0.3.6/LipidomicsR/man/nor.absolute.Rd | 6 LipidomicsR-0.3.6/LipidomicsR/man/nor.relative.Rd | 6 LipidomicsR-0.3.6/LipidomicsR/man/noridx.Rd | 17 LipidomicsR-0.3.6/LipidomicsR/man/normalization_calculator.Rd | 57 LipidomicsR-0.3.6/LipidomicsR/man/percent.calculator.Rd | 12 LipidomicsR-0.3.6/LipidomicsR/man/relative_calculator.Rd | 4 LipidomicsR-0.3.6/LipidomicsR/man/rsd_calculator.Rd |only LipidomicsR-0.3.6/LipidomicsR/man/sepclass.Rd | 7 LipidomicsR-0.3.6/LipidomicsR/man/toGroup.calculator.Rd |only LipidomicsR-0.3.6/LipidomicsR/man/total.abundance.Rd |only LipidomicsR-0.3.6/LipidomicsR/man/volcano.Rd | 9 42 files changed, 1215 insertions(+), 1127 deletions(-)
Title: Core Tools for Packages in the 'fable' Framework
Description: Provides tools, helpers and data structures for
developing models and time series functions for 'fable' and extension
packages. These tools support a consistent and tidy interface for time
series modelling and analysis.
Author: Mitchell O'Hara-Wild [aut, cre]
,
Rob Hyndman [aut],
Earo Wang [aut] ,
Di Cook [ctb],
George Athanasopoulos [ctb],
David Holt [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between fabletools versions 0.4.1 dated 2024-03-02 and 0.4.2 dated 2024-04-22
DESCRIPTION | 6 +++--- MD5 | 15 ++++++++------- NEWS.md | 4 ++++ R/plot.R | 2 +- build/fabletools.pdf |binary build/stage23.rdb |only build/vignette.rds |binary inst/WORDLIST | 1 + inst/doc/extension_models.html | 18 +++++++++--------- 9 files changed, 26 insertions(+), 20 deletions(-)
Title: Download and Tidy IPC and CH Data
Description: Utilities to access Integrated Food Security Phase Classification
(IPC) and Cadre Harmonisé (CH) food security data. Wrapper functions are
available for all of the 'IPC-CH' Public API (<https://docs.api.ipcinfo.org>)
simplified and advanced endpoints to easily download the data in a clean and
tidy format.
Author: Seth Caldwell [aut, cre, cph]
Maintainer: Seth Caldwell <caldwellst@gmail.com>
Diff between ripc versions 0.2.1 dated 2024-03-15 and 0.3.0 dated 2024-04-22
ripc-0.2.1/ripc/R/ripc-package.R |only ripc-0.2.1/ripc/R/utils-imports.R |only ripc-0.3.0/ripc/DESCRIPTION | 10 ripc-0.3.0/ripc/MD5 | 46 ++- ripc-0.3.0/ripc/NAMESPACE | 2 ripc-0.3.0/ripc/NEWS.md | 12 ripc-0.3.0/ripc/R/Ripc-package.R |only ripc-0.3.0/ripc/R/create_areas_df.R |only ripc-0.3.0/ripc/R/create_base_df.R |only ripc-0.3.0/ripc/R/create_groups_df.R |only ripc-0.3.0/ripc/R/ipc_get.R | 81 ++---- ripc-0.3.0/ripc/R/ipc_get_analyses.R | 30 +- ripc-0.3.0/ripc/R/ipc_get_areas.R | 113 +++------ ripc-0.3.0/ripc/R/ipc_get_country.R | 54 ---- ripc-0.3.0/ripc/R/ipc_get_icons.R | 7 ripc-0.3.0/ripc/R/ipc_get_points.R | 50 ---- ripc-0.3.0/ripc/R/ipc_get_population.R | 281 +---------------------- ripc-0.3.0/ripc/R/null_converter.R |only ripc-0.3.0/ripc/R/population_utils.R |only ripc-0.3.0/ripc/README.md | 47 ++- ripc-0.3.0/ripc/build/vignette.rds |binary ripc-0.3.0/ripc/inst/WORDLIST |only ripc-0.3.0/ripc/man/figures/README-geojson-1.png |only ripc-0.3.0/ripc/man/ipc_get.Rd | 10 ripc-0.3.0/ripc/man/ipc_get_analyses.Rd | 3 ripc-0.3.0/ripc/man/ipc_get_areas.Rd | 16 - ripc-0.3.0/ripc/man/ipc_get_country.Rd | 4 ripc-0.3.0/ripc/man/ipc_get_points.Rd | 5 ripc-0.3.0/ripc/man/ipc_get_population.Rd | 3 29 files changed, 217 insertions(+), 557 deletions(-)
Title: R Markdown and Bookdown Templates to Publish Documents
Description: Producing high-quality documents suitable for publication directly from R is made possible by the R Markdown ecosystem.
'memoiR' makes it easy.
It provides templates to knit memoirs, articles and slideshows with helpers to publish the documents on GitHub Pages and activate continuous integration.
Author: Eric Marcon [aut, cre]
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between memoiR versions 1.2-7 dated 2024-02-26 and 1.2-9 dated 2024-04-22
DESCRIPTION | 6 MD5 | 28 - NEWS.md | 7 R/memoiR.R | 190 +++++----- build/vignette.rds |binary inst/doc/memoiR.Rmd | 2 inst/doc/memoiR.html | 2 inst/rmarkdown/templates/memoir/skeleton/82-syntax.Rmd | 8 inst/rmarkdown/templates/simple_article/skeleton/skeleton.Rmd | 10 inst/rmarkdown/templates/stylish_article/skeleton/skeleton.Rmd | 10 man/build_ghworkflow.Rd | 2 man/build_githubpages.Rd | 10 man/build_gitignore.Rd | 2 man/build_readme.Rd | 2 vignettes/memoiR.Rmd | 2 15 files changed, 146 insertions(+), 135 deletions(-)
Title: Automated Retrieval of ACLED Conflict Event Data
Description: Access and manage the application programming interface (API) of the Armed Conflict Location & Event Data Project (ACLED) at <https://acleddata.com/>. The package makes it easy to retrieve a user-defined sample (or all of the available data) of ACLED, enabling a seamless integration of regular data updates into the research work flow. It requires a minimal number of dependencies. See the package's README file for a note on replicability when drawing on ACLED data. When using this package, you acknowledge that you have read ACLED's terms and conditions of use, and that you agree with their attribution requirements.
Author: Christoph Dworschak [aut, cre]
,
Rob Williams [ctb]
Maintainer: Christoph Dworschak <dworschak@posteo.de>
Diff between acled.api versions 1.1.7 dated 2024-01-10 and 1.1.8 dated 2024-04-22
DESCRIPTION | 8 ++-- MD5 | 16 ++++----- NEWS.md | 11 ++++++ R/acled.api.R | 75 ++++++++++++++++++++++++++---------------- R/acled.api.internal.R | 8 +--- R/supp.fun.R | 6 +-- README.md | 77 ++++++++++++++++++++++++++++---------------- man/acled.api.Rd | 31 +++++++++++------ tests/testthat/test-acled.R | 5 +- 9 files changed, 146 insertions(+), 91 deletions(-)
Title: Functions Used for SAiVE Group Research, Collaborations, and
Publications
Description: Holds functions developed by the University of Ottawa's SAiVE
(Spatio-temporal Analysis of isotope Variations in the Environment)
research group with the intention of facilitating the re-use of code,
foster good code writing practices, and to allow others to benefit
from the work done by the SAiVE group. Contributions are welcome via
the 'GitHub' repository <https://github.com/UO-SAiVE/SAiVE> by group members as well as non-members.
Author: Ghislain de Laplante [aut, cre, cph]
Maintainer: Ghislain de Laplante <ghislain.delaplante@yukon.ca>
Diff between SAiVE versions 1.0.4 dated 2024-02-07 and 1.0.5 dated 2024-04-22
DESCRIPTION | 6 MD5 | 26 +- NEWS.md | 15 + R/createStreams.R | 16 - R/drainageBasins.R | 64 +++---- R/hydroProcess.R | 20 +- R/modelMatch.R | 6 R/spatPredict.R | 309 ++++++++++++++++++++++++----------- R/thinFeatures.R | 16 - R/wbtCheck.R | 2 man/spatPredict.Rd | 48 +++-- tests/testthat/test-createStreams.R | 2 tests/testthat/test-drainageBasins.R | 2 tests/testthat/test-hydroProcess.R | 2 14 files changed, 346 insertions(+), 188 deletions(-)
Title: Robust Rank Correlation Coefficient and Test
Description: Provides the robust gamma rank correlation coefficient as introduced by
Bodenhofer, Krone, and Klawonn (2013) <DOI:10.1016/j.ins.2012.11.026>
along with a permutation-based rank correlation test.
The rank correlation coefficient and the test are explicitly
designed for dealing with noisy numerical data.
Author: Martin Krone [aut], Ulrich Bodenhofer [aut,cre]
Maintainer: Ulrich Bodenhofer <ulrich@bodenhofer.com>
Diff between rococo versions 1.1.7 dated 2018-10-12 and 1.1.8 dated 2024-04-22
rococo-1.1.7/rococo/vignettes/JKU_EN_noName.pdf |only rococo-1.1.7/rococo/vignettes/bioinf-article.txi |only rococo-1.1.7/rococo/vignettes/bioinf-bar.png |only rococo-1.1.7/rococo/vignettes/bioinf.cls |only rococo-1.1.8/rococo/DESCRIPTION | 15 ++-- rococo-1.1.8/rococo/MD5 | 21 ++---- rococo-1.1.8/rococo/README.md | 31 ++++++--- rococo-1.1.8/rococo/build/vignette.rds |binary rococo-1.1.8/rococo/inst/CITATION | 14 ++-- rococo-1.1.8/rococo/inst/NEWS | 7 +- rococo-1.1.8/rococo/inst/doc/rococo.Rnw | 78 ++--------------------- rococo-1.1.8/rococo/inst/doc/rococo.pdf |binary rococo-1.1.8/rococo/vignettes/rococo.Rnw | 78 ++--------------------- rococo-1.1.8/rococo/vignettes/ubmanual.cls |only 14 files changed, 71 insertions(+), 173 deletions(-)
Title: Interface to the 'OpenGWAS' Database API
Description: Interface to the 'OpenGWAS' database API <https://gwas-api.mrcieu.ac.uk/>. Includes a wrapper
to make generic calls to the API, plus convenience functions for
specific queries.
Author: Gibran Hemani [aut, cre, cph] ,
Ben Elsworth [aut] ,
Tom Palmer [aut] ,
Rita Rasteiro [aut]
Maintainer: Gibran Hemani <g.hemani@bristol.ac.uk>
Diff between ieugwasr versions 0.2.2 dated 2024-03-28 and 1.0.0 dated 2024-04-22
ieugwasr-0.2.2/ieugwasr/R/utils-pipe.R |only ieugwasr-0.2.2/ieugwasr/inst/doc/timings.R |only ieugwasr-0.2.2/ieugwasr/inst/doc/timings.Rmd |only ieugwasr-0.2.2/ieugwasr/inst/doc/timings.html |only ieugwasr-0.2.2/ieugwasr/man/dot-data.Rd |only ieugwasr-0.2.2/ieugwasr/man/get_access_token.Rd |only ieugwasr-0.2.2/ieugwasr/man/pipe.Rd |only ieugwasr-0.2.2/ieugwasr/man/revoke_access_token.Rd |only ieugwasr-0.2.2/ieugwasr/vignettes/timings.Rmd |only ieugwasr-1.0.0/ieugwasr/DESCRIPTION | 10 ieugwasr-1.0.0/ieugwasr/MD5 | 94 ++++----- ieugwasr-1.0.0/ieugwasr/NAMESPACE | 7 ieugwasr-1.0.0/ieugwasr/NEWS.md | 10 ieugwasr-1.0.0/ieugwasr/R/afl2.r | 47 +--- ieugwasr-1.0.0/ieugwasr/R/api.R | 82 +++---- ieugwasr-1.0.0/ieugwasr/R/globals.R |only ieugwasr-1.0.0/ieugwasr/R/ld_clump.R | 23 -- ieugwasr-1.0.0/ieugwasr/R/ld_matrix.R | 9 ieugwasr-1.0.0/ieugwasr/R/query.R | 120 ++++------- ieugwasr-1.0.0/ieugwasr/R/variants.R | 20 + ieugwasr-1.0.0/ieugwasr/R/zzz.R | 21 -- ieugwasr-1.0.0/ieugwasr/README.md | 19 + ieugwasr-1.0.0/ieugwasr/build/vignette.rds |binary ieugwasr-1.0.0/ieugwasr/inst/doc/guide.Rmd | 37 +-- ieugwasr-1.0.0/ieugwasr/inst/doc/guide.html | 176 +++++++++-------- ieugwasr-1.0.0/ieugwasr/man/afl2_chrpos.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/afl2_list.Rd | 7 ieugwasr-1.0.0/ieugwasr/man/afl2_rsid.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/api_query.Rd | 6 ieugwasr-1.0.0/ieugwasr/man/associations.Rd | 7 ieugwasr-1.0.0/ieugwasr/man/batches.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/check_access_token.Rd | 5 ieugwasr-1.0.0/ieugwasr/man/editcheck.Rd | 7 ieugwasr-1.0.0/ieugwasr/man/fill_n.Rd | 12 - ieugwasr-1.0.0/ieugwasr/man/get_opengwas_jwt.Rd |only ieugwasr-1.0.0/ieugwasr/man/gwasinfo.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/infer_ancestry.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/ld_clump.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/ld_clump_api.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/ld_matrix.Rd | 3 ieugwasr-1.0.0/ieugwasr/man/ld_reflookup.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/phewas.Rd | 12 - ieugwasr-1.0.0/ieugwasr/man/tophits.Rd | 9 ieugwasr-1.0.0/ieugwasr/man/user.Rd |only ieugwasr-1.0.0/ieugwasr/man/variants_chrpos.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/variants_gene.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/variants_rsid.Rd | 4 ieugwasr-1.0.0/ieugwasr/man/variants_to_rsid.Rd | 4 ieugwasr-1.0.0/ieugwasr/tests/testthat/test_afl2.r | 2 ieugwasr-1.0.0/ieugwasr/tests/testthat/test_api.r | 4 ieugwasr-1.0.0/ieugwasr/tests/testthat/test_ld.r | 4 ieugwasr-1.0.0/ieugwasr/tests/testthat/test_query.r | 32 ++- ieugwasr-1.0.0/ieugwasr/tests/testthat/test_variants.r | 2 ieugwasr-1.0.0/ieugwasr/vignettes/guide.Rmd | 37 +-- 54 files changed, 422 insertions(+), 450 deletions(-)
Title: Color Science Methods and Data
Description: Methods and data for color science - color conversions by observer,
illuminant, and gamma. Color matching functions and chromaticity diagrams.
Color indices, color differences, and spectral data conversion/analysis.
This package is deprecated and will someday be removed; for reasons and details please see the README file.
Author: Jose Gama [aut],
Glenn Davis [aut, cre]
Maintainer: Glenn Davis <gdavis@gluonics.com>
Diff between colorscience versions 1.0.8 dated 2019-10-29 and 1.0.9 dated 2024-04-22
DESCRIPTION | 10 +- MD5 | 80 +++++++++++------------ NEWS.md | 8 ++ README.md | 2 man/CIE1931XYZ2CIE1931xyz.Rd | 4 - man/CIE1931XYZ2CIE1960uv.Rd | 4 - man/CIE1931XYZ2CIE1976uv.Rd | 4 - man/CIE1931xy2CIE1960uv.Rd | 4 - man/CIE1931xy2CIE1976uv.Rd | 4 - man/CIE1960UCS2CIE1964.Rd | 4 - man/CIE1960UCS2xy.Rd | 4 - man/CIELabtoDIN99.Rd | 4 - man/DIN99toCIELab.Rd | 4 - man/Hue.2.RGB.Rd | 4 - man/MaxChromaFromExtrapRenotationData.Rd | 4 - man/MaxChromasForStandardMunsellHuesAndValues.Rd | 4 - man/MunsellHues.Rd | 4 - man/MunsellNeutrals2sRGB.Rd | 4 - man/MunsellSpectral.Rd | 4 - man/PhotoYCC2RGB.Rd | 4 - man/RGB2PhotoYCC.Rd | 4 - man/RGB2YCbCr.Rd | 4 - man/RGB2YIQ.Rd | 4 - man/RGB2YPbPr.Rd | 4 - man/TCSdata.Rd | 4 - man/YCbCr2RGB.Rd | 4 - man/YIQ2RGB.Rd | 4 - man/YPbPr2RGB.Rd | 4 - man/compuphaseDifferenceRGB.Rd | 4 - man/createIsoTempLinesTable.Rd | 4 - man/footcandle2candela.steradian.sqmeter.Rd | 4 - man/footcandle2lux.Rd | 4 - man/footcandle2watt.sqcentimeter.Rd | 4 - man/huedegreemunsell.Rd | 4 - man/kelvin2xy.Rd | 4 - man/spectra2CCT.Rd | 4 - man/spectra2CRIGAIFSCI.Rd | 4 - man/spectra2lux.Rd | 4 - man/whitepointsRGB.Rd | 4 - man/whitepointsilluminants.Rd | 4 - man/xy2CCT.HernandezAndres.Rd | 4 - 41 files changed, 127 insertions(+), 121 deletions(-)
Title: An Implementation of the Bayesian Markov (Renewal) Mixed Models
Description: The Bayesian Markov renewal mixed models take sequentially observed categorical data with continuous duration times, being either state duration or inter-state duration. These models comprehensively analyze the stochastic dynamics of both state transitions and duration times under the influence of multiple exogenous factors and random individual effect. The default setting flexibly models the transition probabilities using Dirichlet mixtures and the duration times using gamma mixtures. It also provides the flexibility of modeling the categorical sequences using Bayesian Markov mixed models alone, either ignoring the duration times altogether or dividing duration time into multiples of an additional category in the sequence by a user-specific unit. The package allows extensive inference of the state transition probabilities and the duration times as well as relevant plots and graphs. It also includes a synthetic data set to demonstrate the desired format of input data set and the utilit [...truncated...]
Author: Yutong Wu [aut, cre],
Abhra Sarkar [aut]
Maintainer: Yutong Wu <yutong.wu@utexas.edu>
Diff between BMRMM versions 1.0.0 dated 2023-06-19 and 1.0.1 dated 2024-04-22
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/BMRMM.R | 12 +++++++----- R/model_cont_isi.R | 7 +++++-- R/model_transition.R | 6 +++++- R/print_and_plot_results.R | 12 ++++++------ R/print_and_plot_results_fn.R | 7 +++++-- man/BMRMM.Rd | 12 +++++++----- man/summary.BMRMM.Rd | 12 ++++++------ 9 files changed, 52 insertions(+), 38 deletions(-)
Title: Multiple-Scaled Clustering
Description: Model based clustering using
the multivariate multiple Scaled t (MST) and multivariate multiple
scaled contaminated normal (MSCN) distributions. The MST is an
extension of the multivariate Student-t distribution to include
flexible tail behaviors, Forbes, F. & Wraith, D. (2014) <doi:10.1007/s11222-013-9414-4>. The MSCN represents a heavy-tailed
generalization of the multivariate normal (MN) distribution to
model elliptical contoured scatters in the presence of mild outliers
(also referred to as "bad" points) and automatically detect bad points, Punzo, A. & Tortora, C. (2021) <doi:10.1177/1471082X19890935>.
Author: Cristina Tortora [aut, cre, cph]
,
Antonio Punzo [aut] ,
Louis Tran [aut]
Maintainer: Cristina Tortora <grikris1@gmail.com>
Diff between MSclust versions 1.0.3 dated 2023-05-04 and 1.0.4 dated 2024-04-21
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/PLRfactorization.R | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Extensible Markov Model for Modelling Temporal Relationships
Between Clusters
Description: Implements TRACDS (Temporal Relationships
between Clusters for Data Streams), a generalization of
Extensible Markov Model (EMM). TRACDS adds a temporal or order model
to data stream clustering by superimposing a dynamically adapting
Markov Chain. Also provides an implementation of EMM (TRACDS on top of tNN
data stream clustering). Development of this
package was supported in part by NSF IIS-0948893 and R21HG005912 from
the National Human Genome Research Institute. Hahsler and Dunham (2010) <doi:10.18637/jss.v035.i05>.
Author: Michael Hahsler [aut, cre, cph]
,
Margaret H. Dunham [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between rEMM versions 1.2.0 dated 2022-06-25 and 1.2.1 dated 2024-04-21
rEMM-1.2.0/rEMM/src |only rEMM-1.2.1/rEMM/DESCRIPTION | 14 ++--- rEMM-1.2.1/rEMM/MD5 | 33 +++++------ rEMM-1.2.1/rEMM/NAMESPACE | 2 rEMM-1.2.1/rEMM/NEWS.md | 5 + rEMM-1.2.1/rEMM/R/SimpleMC.R | 5 - rEMM-1.2.1/rEMM/README.md | 50 +++++++++++++----- rEMM-1.2.1/rEMM/build/partial.rdb |binary rEMM-1.2.1/rEMM/build/vignette.rds |binary rEMM-1.2.1/rEMM/data/16S.rda |binary rEMM-1.2.1/rEMM/data/Derwent.rda |binary rEMM-1.2.1/rEMM/data/EMMTraffic.rda |binary rEMM-1.2.1/rEMM/data/EMMsim.rda |binary rEMM-1.2.1/rEMM/inst/CITATION | 39 +++++++------- rEMM-1.2.1/rEMM/inst/README_files/example_model-1.png |binary rEMM-1.2.1/rEMM/inst/doc/rEMM.pdf |binary rEMM-1.2.1/rEMM/man/plot.EMM.Rd | 6 +- 17 files changed, 88 insertions(+), 66 deletions(-)
Title: Infrastructure for Data Stream Mining
Description: A framework for data stream modeling and associated data mining tasks such as clustering and classification. The development of this package was supported in part by NSF IIS-0948893, NSF CMMI 1728612, and NIH R21HG005912. Hahsler et al (2017) <doi:10.18637/jss.v076.i14>.
Author: Michael Hahsler [aut, cre, cph]
,
Matthew Bolanos [ctb],
John Forrest [ctb],
Matthias Carnein [ctb],
Dennis Assenmacher [ctb],
Dalibor Krleza [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between stream versions 2.0-1 dated 2023-02-28 and 2.0-2 dated 2024-04-21
DESCRIPTION | 14 +- MD5 | 164 ++++++++++++++++----------------- NAMESPACE | 5 + NEWS.md | 14 ++ R/AAA_stream-package.R | 17 ++- R/DSC_BIRCH.R | 2 R/DSC_DBSTREAM.R | 19 +++ R/DSC_DStream.R | 9 + R/DSC_R.R | 1 R/DSC_TwoStage.R | 4 R/DSF_Convolve.R | 2 R/DSF_FeaturesSelection.R |only R/DSF_Scale.R | 3 R/DST_Runner.R | 3 R/get_assignment.R | 6 + R/recluster.R | 1 README.md | 188 ++++---------------------------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/extending_stream.pdf |binary inst/doc/stream.Rnw | 2 inst/doc/stream.pdf |binary man/DSAggregate.Rd | 4 man/DSAggregate_Sample.Rd | 4 man/DSAggregate_Window.Rd | 4 man/DSC.Rd | 2 man/DSC_BIRCH.Rd | 2 man/DSC_DBSTREAM.Rd | 15 ++- man/DSC_DStream.Rd | 3 man/DSC_Macro.Rd | 2 man/DSC_Micro.Rd | 2 man/DSC_R.Rd | 2 man/DSC_SlidingWindow.Rd | 2 man/DSC_Static.Rd | 2 man/DSC_TwoStage.Rd | 2 man/DSClassifier.Rd | 2 man/DSD_BarsAndGaussians.Rd | 2 man/DSD_Benchmark.Rd | 2 man/DSD_Cubes.Rd | 2 man/DSD_Gaussians.Rd | 2 man/DSD_MG.Rd | 2 man/DSD_Memory.Rd | 2 man/DSD_Mixture.Rd | 2 man/DSD_NULL.Rd | 2 man/DSD_ReadDB.Rd | 2 man/DSD_ReadStream.Rd | 2 man/DSD_ScaleStream.Rd | 3 man/DSD_Target.Rd | 2 man/DSD_UniformNoise.Rd | 2 man/DSD_mlbenchData.Rd | 2 man/DSD_mlbenchGenerator.Rd | 2 man/DSF.Rd | 3 man/DSF_Convolve.Rd | 7 - man/DSF_Downsample.Rd | 5 - man/DSF_ExponentialMA.Rd | 5 - man/DSF_FeatureSelection.Rd |only man/DSF_Func.Rd | 5 - man/DSF_Scale.Rd | 5 - man/DSF_dplyr.Rd | 7 - man/DSOutlier.Rd | 4 man/DSRegressor.Rd | 4 man/DST.Rd | 2 man/DST_SlidingWindow.Rd | 4 man/DST_WriteStream.Rd | 4 man/animate_cluster.Rd | 6 - man/animate_data.Rd | 2 man/close_stream.Rd | 2 man/evaluate.DSC.Rd | 2 man/evaluate.Rd | 4 man/get_assignment.Rd | 2 man/get_points.Rd | 2 man/plot.DSC.Rd | 2 man/plot.DSD.Rd | 2 man/predict.Rd | 6 - man/prune_clusters.Rd | 2 man/read_saveDSC.Rd | 2 man/recluster.Rd | 2 man/reset_stream.Rd | 2 man/stream-package.Rd | 39 +++++++ man/stream_pipeline.Rd | 4 man/update.Rd | 4 tests/testthat/test-DSC_formula.R | 13 ++ tests/testthat/test-DSF.R | 20 ++++ vignettes/stream.Rnw | 2 84 files changed, 356 insertions(+), 352 deletions(-)
Title: The Uniform Manifold Approximation and Projection (UMAP) Method
for Dimensionality Reduction
Description: An implementation of the Uniform Manifold Approximation and
Projection dimensionality reduction by McInnes et al. (2018)
<doi:10.48550/arXiv.1802.03426>. It also provides means to transform new data and
to carry out supervised dimensionality reduction. An implementation of
the related LargeVis method of Tang et al. (2016) <doi:10.48550/arXiv.1602.00370>
is also provided. This is a complete re-implementation in R (and C++,
via the 'Rcpp' package): no Python installation is required. See the
uwot website (<https://github.com/jlmelville/uwot>) for more
documentation and examples.
Author: James Melville [aut, cre, cph],
Aaron Lun [ctb],
Mohamed Nadhir Djekidel [ctb],
Yuhan Hao [ctb],
Dirk Eddelbuettel [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between uwot versions 0.2.1 dated 2024-04-15 and 0.2.2 dated 2024-04-21
DESCRIPTION | 10 ++++---- MD5 | 36 ++++++++++++++--------------- NEWS.md | 17 +++++++++++++- R/init.R | 40 ++++++++++++++++++++++++++++----- R/rspectra_init.R | 12 +++++++++ R/uwot.R | 2 + inst/doc/uwot.R | 1 inst/doc/uwot.Rmd | 1 inst/doc/uwot.html | 5 ++-- man/load_uwot.Rd | 2 + tests/testthat/test_errors.R | 1 tests/testthat/test_neighbors.R | 1 tests/testthat/test_normlaplacian.R | 16 ++++++++----- tests/testthat/test_output.R | 18 +++++++++----- tests/testthat/test_saveload.R | 1 tests/testthat/test_similarity_graph.R | 1 tests/testthat/test_spectral.R | 1 tests/testthat/test_transform.R | 1 vignettes/uwot.Rmd | 1 19 files changed, 123 insertions(+), 44 deletions(-)
Title: Toolkit for Encryption, Signatures and Certificates Based on
OpenSSL
Description: Bindings to OpenSSL libssl and libcrypto, plus custom SSH key parsers.
Supports RSA, DSA and EC curves P-256, P-384, P-521, and curve25519. Cryptographic
signatures can either be created and verified manually or via x509 certificates.
AES can be used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric
(public key) encryption or EC for Diffie Hellman. High-level envelope functions
combine RSA and AES for encrypting arbitrary sized data. Other utilities include key
generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure random
number generator, and 'bignum' math methods for manually performing crypto
calculations on large multibyte integers.
Author: Jeroen Ooms [aut, cre] ,
Oliver Keyes [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between openssl versions 2.1.1 dated 2023-09-25 and 2.1.2 dated 2024-04-21
DESCRIPTION | 6 ++--- MD5 | 26 +++++++++++------------ NEWS | 3 ++ R/rsa.R | 11 ++++++--- build/vignette.rds |binary configure | 9 ++++++-- inst/doc/bignum.html | 32 ++++++++++++++-------------- inst/doc/crypto_hashing.R | 2 - inst/doc/crypto_hashing.html | 8 +++---- inst/doc/keys.html | 48 +++++++++++++++++++++---------------------- inst/doc/secure_rng.R | 2 - inst/doc/secure_rng.html | 18 ++++++++-------- man/rsa_encrypt.Rd | 6 +++-- src/rsa.c | 10 +++++--- 14 files changed, 98 insertions(+), 83 deletions(-)
Title: Spatial and Spatio-Temporal Models using 'INLA'
Description: Prepare objects to implement models over spatial and
spacetime domains with the 'INLA' package (<https://www.r-inla.org>).
These objects contain data to for the 'cgeneric' interface in
'INLA', enabling fast parallel computations.
We implemented the spatial barrier model, see Bakka et. al. (2019)
<doi:10.1016/j.spasta.2019.01.002>, and some of the spatio-temporal
models in Lindgren et. al. (2023) <doi:10.48550/arXiv.2006.04917>.
Details are provided in the available vignettes and from the URL bellow.
Author: Elias Teixeira Krainski [cre, aut, cph]
,
Finn Lindgren [aut] ,
Haavard Rue [aut]
Maintainer: Elias Teixeira Krainski <eliaskrainski@gmail.com>
Diff between INLAspacetime versions 0.1.7 dated 2023-08-27 and 0.1.8 dated 2024-04-21
DESCRIPTION | 18 ++--- MD5 | 85 ++++++++++++++------------- NAMESPACE | 5 + R/INLAspacetime.R | 12 +-- R/ar2cor.R | 17 ++++- R/ar2precision.R | 5 - R/barrierModel.define.R | 13 ++-- R/ghcndUtils.R | 55 ++++++++++++++---- R/mesh.dual.R | 41 +++++++++---- R/mesh2d.R | 6 + R/mesh2fem.R | 51 +++++++++++++--- R/mesh2projector.R | 10 --- R/paramsUtils.R | 107 ++++++++++++++++++----------------- R/polyUtils.R | 46 ++++++++++++--- R/spde2precision.R | 1 R/stModel.define.R | 7 +- R/stModel.matrices.R | 95 +++++++++++-------------------- R/stats.inla.R | 12 +-- R/upperPadding.R | 2 R/worldMap.R | 119 +++++++++++++++++++++++++++++++++------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/website_examples.R | 4 - inst/examples/test4.R | 4 - man/Earth_poly.Rd |only man/INLAspacetime.Rd | 5 - man/Jmatrices.Rd | 4 + man/ar2cor.Rd | 2 man/ar2precision.Rd | 5 - man/barrierModel.define.Rd | 12 ++- man/downloadUtilFiles.Rd | 4 - man/ghcndSelect.Rd | 3 man/mesh.dual.Rd | 15 +++- man/mesh2d.Rd | 6 + man/paramsUtils.Rd | 56 +++++++++++++----- man/polyUtils.Rd | 22 +++++-- man/spde2precision.Rd | 1 man/stats.inla.Rd | 3 man/upperPadding.Rd | 2 man/worldMap.Rd | 28 ++++----- man/world_grid.Rd |only src/INLAspacetime_init.c |only src/ar2cor.c |only src/ar2cor.h |only vignettes/web/barrierExample.Rmd | 4 - vignettes/web/piemonte.Rmd | 18 ----- 46 files changed, 568 insertions(+), 337 deletions(-)
Title: Nested Cross Validation for the Relaxed Lasso and Other Machine
Learning Models
Description: Cross validation informed Relaxed LASSO, Artificial Neural Network (ANN), gradient boosting machine ('xgboost'), Random Forest ('RandomForestSRC'), Recursive Partitioning ('RPART') or step wise regression models are fit. Nested cross validation (or analogous for the random forest) is used to estimate and compare performances between these models with results presented in tabular or graphical means. Calibration plots can also be generated, again based upon (nested) cross validation.
For some datasets, for example when the design matrix is not of full rank, 'glmnet' may have very long run times when fitting the relaxed lasso model, from our experience when fitting Cox models on data with many predictors and many patients, making it difficult to get solutions from either glmnet() or cv.glmnet(). This may be remedied with the 'path=TRUE' options when calling glmnet() and cv.glmnet(). Within the glmnetr package the approach of path=TRUE is taken by default.
When fitting not a relaxed la [...truncated...]
Author: Walter K Kremers [aut, cre] ,
Nicholas B Larson [ctb]
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>
Diff between glmnetr versions 0.4-5 dated 2024-04-19 and 0.4-6 dated 2024-04-21
glmnetr-0.4-5/glmnetr/R/calplot_240409.R |only glmnetr-0.4-5/glmnetr/R/nested.glmnetr_240418.R |only glmnetr-0.4-6/glmnetr/DESCRIPTION | 8 ++++---- glmnetr-0.4-6/glmnetr/MD5 | 18 +++++++++--------- glmnetr-0.4-6/glmnetr/NAMESPACE | 1 + glmnetr-0.4-6/glmnetr/R/calplot_240420.R |only glmnetr-0.4-6/glmnetr/R/nested.glmnetr_240420.R |only glmnetr-0.4-6/glmnetr/man/calplot.Rd | 2 +- glmnetr-0.4-6/glmnetr/man/calplot0.Rd | 2 +- glmnetr-0.4-6/glmnetr/man/myaxis.Rd | 2 +- glmnetr-0.4-6/glmnetr/man/myrug.Rd | 2 +- glmnetr-0.4-6/glmnetr/man/nested.glmnetr.Rd | 2 +- 12 files changed, 19 insertions(+), 18 deletions(-)
Title: Volumetric Analysis using Graphic Double Integration
Description: Tools implementing an automated version of the graphic double integration technique (GDI) for volume implementation, and some other related utilities for paleontological image-analysis. GDI was first employed by Jerison (1973) <ISBN:9780323141086> and Hurlburt (1999) <doi:10.1080/02724634.1999.10011145> and is primarily used for volume or mass estimation of (extinct) animals. The package 'gdi' aims to make this technique as convenient and versatile as possible. The core functions of 'gdi' provide utilities for automatically measuring diameters from digital silhouettes provided as image files and calculating volume via graphic double integration with simple elliptical, superelliptical (following Motani 2001 <doi:10.1666/0094-8373(2001)027%3C0735:EBMFST%3E2.0.CO;2>) or complex cross-sectional models. Additionally, the package provides functions for estimating the center of mass position (COM), the moment of inertia (I) for 3D shapes and the second moment of area (Ix, Iy [...truncated...]
Author: Darius Nau [aut, cre]
Maintainer: Darius Nau <dariusnau@gmx.at>
Diff between gdi versions 1.5.4 dated 2023-09-07 and 1.6.0 dated 2024-04-21
DESCRIPTION | 10 ++--- MD5 | 28 ++++++++-------- NAMESPACE | 5 ++ NEWS.md | 14 ++++++++ R/gdi.r | 49 ++++++++++++++++++++++++---- build/vignette.rds |binary inst/doc/estimating_COM.R | 6 +-- inst/doc/estimating_COM.Rmd | 6 +-- inst/doc/estimating_COM.html | 74 ++++++++++++++++++++++--------------------- inst/doc/misc.R | 2 - inst/doc/misc.Rmd | 2 - inst/doc/misc.html | 29 ++++++++++++++-- man/plot_sil.Rd | 31 ++++++++++++++++-- vignettes/estimating_COM.Rmd | 6 +-- vignettes/misc.Rmd | 2 - 15 files changed, 184 insertions(+), 80 deletions(-)