Title: Joint Modelling of Multivariate Longitudinal Data and
Time-to-Event Outcomes
Description: Fits the joint model proposed by Henderson and colleagues (2000)
<doi:10.1093/biostatistics/1.4.465>, but extended to the case of multiple
continuous longitudinal measures. The time-to-event data is modelled using a
Cox proportional hazards regression model with time-varying covariates. The
multiple longitudinal outcomes are modelled using a multivariate version of the
Laird and Ware linear mixed model. The association is captured by a multivariate
latent Gaussian process. The model is estimated using a Monte Carlo Expectation
Maximization algorithm. This project was funded by the Medical Research Council
(Grant number MR/M013227/1).
Author: Graeme L. Hickey [cre, aut] ,
Pete Philipson [aut] ,
Andrea Jorgensen [ctb] ,
Ruwanthi Kolamunnage-Dona [aut]
,
Paula Williamson [ctb] ,
Dimitris Rizopoulos [ctb, dtc] ,
Alessandro Gasparini [aut] ,
Medical Research Council [fnd]
Maintainer: Graeme L. Hickey <graemeleehickey@gmail.com>
Diff between joineRML versions 0.4.5 dated 2021-01-05 and 0.4.6 dated 2023-01-19
DESCRIPTION | 7 MD5 | 40 ++-- NEWS.md | 199 ++++++++++++----------- R/bootSE.R | 4 R/dynLong.R | 2 R/mjoint.R | 3 R/mjoint.object.R | 92 ++++++---- R/plotConvergence.R | 2 R/process_newdata.R | 2 README.md | 14 - build/vignette.rds |binary inst/doc/joineRML-tidy.html | 270 ++++++++++++++++++-------------- inst/doc/joineRML.R | 14 + inst/doc/joineRML.Rmd | 17 +- inst/doc/joineRML.html | 370 +++++++++++++++++++++++++++++--------------- inst/doc/technical.pdf |binary man/mjoint.object.Rd | 92 ++++++---- src/Makevars | 8 src/Makevars.win | 7 src/RcppExports.cpp | 5 vignettes/joineRML.Rmd | 17 +- 21 files changed, 699 insertions(+), 466 deletions(-)
Title: Gene Analysis Toolkit
Description: An analysis toolkit focused on genes. It mainly includes five
features (search, convert, analysis, plot, and export).
The user just needs to input feature id ('entrez', 'symbol', 'ensembl' or
'uniprot') to retrieve feature information and 'PubMed'<https://pubmed.ncbi.nlm.nih.gov/> records,
to convert id types, to easily handle gene enrichment analysis and publication-level figures,
to plot group interaction and export results as sheets in one 'excel'
file to easily share and communicate with others.
Author: Yunze Liu [aut, cre]
Maintainer: Yunze Liu <jieandze1314@gmail.com>
Diff between genekitr versions 1.0.8 dated 2022-11-23 and 1.1.0 dated 2023-01-19
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/genInfo.R | 10 +++++++++- R/plotEnrich.R | 16 ++++++++++++++-- R/zzz.R | 3 --- README.md | 2 +- 6 files changed, 32 insertions(+), 15 deletions(-)
Title: RNA-Seq Profile Classifier
Description: We developed a lightweight machine learning tool for RNA profiling of acute lymphoblastic leukemia (ALL), however, it can be used for any problem where multiple classes need to be identified from multi-dimensional data. The methodology is described in Makinen V-P, Rehn J, Breen J, Yeung D, White DL (2022) Multi-cohort transcriptomic subtyping of B-cell acute lymphoblastic leukemia, International Journal of Molecular Sciences 23:4574, <doi:10.3390/ijms23094574>. The classifier contains optimized mean profiles of the classes (centroids) as observed in the training data, and new samples are matched to these centroids using the shortest Euclidean distance. Centroids derived from a dataset of 1,598 ALL patients are included, but users can train the models with their own data as well. The output includes both numerical and visual presentations of the classification results. Samples with mixed features from multiple classes or atypical values are also identified.
Author: Ville-Petteri Makinen [aut, cre]
Maintainer: Ville-Petteri Makinen <vpmakine@gmail.com>
Diff between Allspice versions 1.0.6 dated 2022-12-15 and 1.0.7 dated 2023-01-19
DESCRIPTION | 8 MD5 | 42 - R/Asset.R | 3 R/Asset.assemble.R | 8 R/Asset.export.R | 4 R/local.distances.R | 2 R/local.makematrix.R | 2 R/local.reference.R | 13 inst/doc/intro.html | 158 ++-- inst/doc/intro.rmd | 2 inst/drivers/centroids.txt | 74 +- inst/drivers/coefficients.txt | 96 +-- inst/drivers/reference.txt | 1308 ++++++++++++++++++++--------------------- inst/simulation/centroids.txt | 45 - inst/simulation/statistics.txt | 45 - inst/subtypes/centroids.txt | 46 - inst/subtypes/coefficients.txt | 70 +- inst/subtypes/reference.txt | 1274 +++++++++++++++++++-------------------- inst/tissues/centroids.txt | 80 +- inst/tissues/coefficients.txt | 190 ++--- inst/tissues/reference.txt | 1258 +++++++++++++++++++-------------------- vignettes/intro.rmd | 2 22 files changed, 2322 insertions(+), 2408 deletions(-)
Title: Classes and Methods for Spatial Data
Description: Classes and methods for spatial
data; the classes document where the spatial location information
resides, for 2D or 3D data. Utility functions are provided, e.g. for
plotting data as maps, spatial selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
Author: Edzer Pebesma [aut, cre],
Roger Bivand [aut],
Barry Rowlingson [ctb],
Virgilio Gomez-Rubio [ctb],
Robert Hijmans [ctb],
Michael Sumner [ctb],
Don MacQueen [ctb],
Jim Lemon [ctb],
Finn Lindgren [ctb],
Josh O'Brien [ctb],
Joseph O'Rourke [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sp versions 1.5-1 dated 2022-11-07 and 1.6-0 dated 2023-01-19
DESCRIPTION | 6 - MD5 | 50 ++++----- NAMESPACE | 2 R/AAA.R | 6 - R/CRS-methods.R | 4 R/aggregate.R | 2 R/disaggregate.R | 13 +- R/over.R | 1 R/projected.R | 8 - R/spOptions.R | 14 ++ build/vignette.rds |binary inst/doc/CRS_warnings.html | 30 ++--- inst/doc/csdacm.pdf |binary inst/doc/intro_sp.pdf |binary inst/doc/over.pdf |binary inst/include/sp.h | 2 inst/include/sp_xports.c | 16 +-- man/CRS-class.Rd | 4 man/aggregate.Rd | 25 ++-- man/spTransform.Rd | 6 + src/sp.h | 2 src/sp_xports.c | 16 +-- tests/agg.R | 46 ++++---- tests/agg.Rout.save | 85 ++++++++-------- tests/over2.Rout.save | 231 +++++++++------------------------------------ tests/spDists.Rout.save | 18 +-- 26 files changed, 247 insertions(+), 340 deletions(-)
Title: Client Library for SpatioTemporal Asset Catalog
Description: Provides functions to access, search and download spacetime earth
observation data via SpatioTemporal Asset Catalog (STAC). This package
supports the version 1.0.0 (and older) of the STAC specification
(<https://github.com/radiantearth/stac-spec>).
For further details see Simoes et al. (2021) <doi:10.1109/IGARSS47720.2021.9553518>.
Author: Rolf Simoes [aut],
Felipe Carvalho [aut, cre],
Brazil Data Cube Team [aut],
National Institute for Space Research [cph]
Maintainer: Felipe Carvalho <lipecaso@gmail.com>
Diff between rstac versions 0.9.1-5 dated 2021-10-31 and 0.9.2 dated 2023-01-19
rstac-0.9.1-5/rstac/man/assets_download.Rd |only rstac-0.9.1-5/rstac/man/assets_function.Rd |only rstac-0.9.1-5/rstac/man/items_bands.Rd |only rstac-0.9.1-5/rstac/man/pipe.Rd |only rstac-0.9.1-5/rstac/man/utilities.Rd |only rstac-0.9.1-5/rstac/tests/fixtures |only rstac-0.9.1-5/rstac/tests/testthat/helper-rstac.R |only rstac-0.9.1-5/rstac/tests/testthat/test-stac_obj.R |only rstac-0.9.2/rstac/DESCRIPTION | 50 rstac-0.9.2/rstac/MD5 | 143 +- rstac-0.9.2/rstac/NAMESPACE | 146 ++ rstac-0.9.2/rstac/NEWS.md | 45 rstac-0.9.2/rstac/R/assets-funs.R | 809 ++++++++------- rstac-0.9.2/rstac/R/assets-utils.R |only rstac-0.9.2/rstac/R/check-utils.R |only rstac-0.9.2/rstac/R/collections-query.R | 23 rstac-0.9.2/rstac/R/conformance-query.R |only rstac-0.9.2/rstac/R/cql2-adv_comp.R |only rstac-0.9.2/rstac/R/cql2-core.R |only rstac-0.9.2/rstac/R/cql2-env.R |only rstac-0.9.2/rstac/R/cql2-expr-funs.R |only rstac-0.9.2/rstac/R/cql2-funs.R |only rstac-0.9.2/rstac/R/cql2-json.R |only rstac-0.9.2/rstac/R/cql2-text.R |only rstac-0.9.2/rstac/R/cql2-types.R |only rstac-0.9.2/rstac/R/cql2-utils.R |only rstac-0.9.2/rstac/R/deprec-funs.R | 167 ++- rstac-0.9.2/rstac/R/document-funs.R | 26 rstac-0.9.2/rstac/R/ext_filter.R |only rstac-0.9.2/rstac/R/ext_query.R | 38 rstac-0.9.2/rstac/R/extensions.R | 59 - rstac-0.9.2/rstac/R/items-funs.R | 612 +++++------ rstac-0.9.2/rstac/R/items-query.R | 55 - rstac-0.9.2/rstac/R/items-utils.R |only rstac-0.9.2/rstac/R/message-utils.R |only rstac-0.9.2/rstac/R/parse-utils.R |only rstac-0.9.2/rstac/R/preview-utils.R |only rstac-0.9.2/rstac/R/print.R | 124 +- rstac-0.9.2/rstac/R/query-funs.R | 37 rstac-0.9.2/rstac/R/queryables-query.R |only rstac-0.9.2/rstac/R/request.R | 29 rstac-0.9.2/rstac/R/rstac.R | 43 rstac-0.9.2/rstac/R/signatures.R | 185 ++- rstac-0.9.2/rstac/R/stac-query.R | 16 rstac-0.9.2/rstac/R/stac_search.R | 55 - rstac-0.9.2/rstac/R/stac_version.R |only rstac-0.9.2/rstac/R/url-utils.R |only rstac-0.9.2/rstac/R/utils.R | 518 --------- rstac-0.9.2/rstac/README.md | 181 ++- rstac-0.9.2/rstac/build |only rstac-0.9.2/rstac/inst/doc |only rstac-0.9.2/rstac/man/RSTACDocument.Rd |only rstac-0.9.2/rstac/man/assets_filter.Rd |only rstac-0.9.2/rstac/man/assets_functions.Rd |only rstac-0.9.2/rstac/man/collections.Rd | 20 rstac-0.9.2/rstac/man/conformance.Rd |only rstac-0.9.2/rstac/man/cql2_helpers.Rd |only rstac-0.9.2/rstac/man/doc_query.Rd | 1 rstac-0.9.2/rstac/man/ext_filter.Rd |only rstac-0.9.2/rstac/man/ext_query.Rd | 22 rstac-0.9.2/rstac/man/extensions.Rd | 77 - rstac-0.9.2/rstac/man/figures/logo.png |only rstac-0.9.2/rstac/man/items.Rd | 30 rstac-0.9.2/rstac/man/items_functions.Rd | 255 ++-- rstac-0.9.2/rstac/man/preview_plot.Rd |only rstac-0.9.2/rstac/man/print.Rd | 46 rstac-0.9.2/rstac/man/queryables.Rd |only rstac-0.9.2/rstac/man/reexports.Rd |only rstac-0.9.2/rstac/man/request.Rd | 12 rstac-0.9.2/rstac/man/rstac.Rd | 45 rstac-0.9.2/rstac/man/sign_bdc.Rd | 17 rstac-0.9.2/rstac/man/sign_planetary_computer.Rd | 31 rstac-0.9.2/rstac/man/stac.Rd | 10 rstac-0.9.2/rstac/man/stac_search.Rd | 45 rstac-0.9.2/rstac/man/stac_version.Rd |only rstac-0.9.2/rstac/tests/testthat.R | 5 rstac-0.9.2/rstac/tests/testthat/test-assets_functions.R | 535 +++++++-- rstac-0.9.2/rstac/tests/testthat/test-examples.R | 68 - rstac-0.9.2/rstac/tests/testthat/test-ext_filter.R |only rstac-0.9.2/rstac/tests/testthat/test-internals.R | 53 rstac-0.9.2/rstac/tests/testthat/test-items_functions.R | 195 +++ rstac-0.9.2/rstac/tests/testthat/test-rstac_objs.R |only rstac-0.9.2/rstac/tests/testthat/test-signatures.R | 15 rstac-0.9.2/rstac/vignettes |only 84 files changed, 2740 insertions(+), 2103 deletions(-)
Title: Dynamic Documents for R
Description: Convert R Markdown documents into a variety of formats.
Author: JJ Allaire [aut],
Yihui Xie [aut, cre] ,
Jonathan McPherson [aut],
Javier Luraschi [aut],
Kevin Ushey [aut],
Aron Atkins [aut],
Hadley Wickham [aut],
Joe Cheng [aut],
Winston Chang [aut],
Richard Iannone [aut] ,
Andrew Dunning [ctb] ,
Atsushi Yasumot [...truncated...]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between rmarkdown versions 2.19 dated 2022-12-15 and 2.20 dated 2023-01-19
rmarkdown-2.19/rmarkdown/R/tufte_handout.R |only rmarkdown-2.19/rmarkdown/man/tufte_handout.Rd |only rmarkdown-2.20/rmarkdown/DESCRIPTION | 12 +- rmarkdown-2.20/rmarkdown/MD5 | 45 +++++----- rmarkdown-2.20/rmarkdown/NAMESPACE | 1 rmarkdown-2.20/rmarkdown/NEWS.md | 12 ++ rmarkdown-2.20/rmarkdown/R/context_document.R | 4 rmarkdown-2.20/rmarkdown/R/draft.R | 3 rmarkdown-2.20/rmarkdown/R/html_document.R | 4 rmarkdown-2.20/rmarkdown/R/html_resource_copy.R | 14 ++- rmarkdown-2.20/rmarkdown/R/includes.R | 6 - rmarkdown-2.20/rmarkdown/R/ioslides_presentation.R | 15 ++- rmarkdown-2.20/rmarkdown/R/pandoc.R | 4 rmarkdown-2.20/rmarkdown/R/powerpoint_presentation.R | 2 rmarkdown-2.20/rmarkdown/R/relative_to.R | 6 - rmarkdown-2.20/rmarkdown/R/render_site.R | 2 rmarkdown-2.20/rmarkdown/R/shiny.R | 4 rmarkdown-2.20/rmarkdown/R/shiny_prerendered.R | 2 rmarkdown-2.20/rmarkdown/R/util.R | 2 rmarkdown-2.20/rmarkdown/tests/testthat/_snaps/pandoc-3 |only rmarkdown-2.20/rmarkdown/tests/testthat/test-formats.R | 3 rmarkdown-2.20/rmarkdown/tests/testthat/test-github_document.R | 8 + rmarkdown-2.20/rmarkdown/tests/testthat/test-ioslides.R | 28 ++++++ rmarkdown-2.20/rmarkdown/tests/testthat/test-lua-filters.R | 4 24 files changed, 119 insertions(+), 62 deletions(-)
Title: Sensitivity Analysis for Publication Bias in Meta-Analyses
Description: Performs sensitivity analysis for publication bias in meta-analyses
(per Mathur & VanderWeele, 2020 [<doi:10.31219/osf.io/s9dp6>]). These analyses
enable statements such as: "For publication bias to shift the observed point
estimate to the null, 'significant' results would need to be at least
30-fold more likely to be published than negative or 'nonsignificant'
results." Comparable statements can be made regarding shifting to a chosen
non-null value or shifting the confidence interval. Provides a worst-case
meta-analytic point estimate under maximal publication bias obtained simply
by conducting a standard meta-analysis of only the negative and
"nonsignificant" studies.
Author: Mika Braginsky [aut, cre],
Maya Mathur [aut],
Tyler J. VanderWeele [aut]
Maintainer: Mika Braginsky <mika.br@gmail.com>
Diff between PublicationBias versions 2.2.0 dated 2020-07-22 and 2.3.0 dated 2023-01-19
PublicationBias-2.2.0/PublicationBias/R/functions.R |only PublicationBias-2.2.0/PublicationBias/man/corrected_meta.Rd |only PublicationBias-2.2.0/PublicationBias/man/svalue.Rd |only PublicationBias-2.2.0/PublicationBias/tests/testthat/testthat.R |only PublicationBias-2.3.0/PublicationBias/DESCRIPTION | 45 ++- PublicationBias-2.3.0/PublicationBias/MD5 | 34 ++ PublicationBias-2.3.0/PublicationBias/NAMESPACE | 23 + PublicationBias-2.3.0/PublicationBias/NEWS.md |only PublicationBias-2.3.0/PublicationBias/R/PublicationBias-package.R |only PublicationBias-2.3.0/PublicationBias/R/meta.R |only PublicationBias-2.3.0/PublicationBias/R/metabias-names.R |only PublicationBias-2.3.0/PublicationBias/R/plots.R |only PublicationBias-2.3.0/PublicationBias/R/svalue.R |only PublicationBias-2.3.0/PublicationBias/R/worst.R |only PublicationBias-2.3.0/PublicationBias/README.md |only PublicationBias-2.3.0/PublicationBias/build |only PublicationBias-2.3.0/PublicationBias/inst |only PublicationBias-2.3.0/PublicationBias/man/PublicationBias-package.Rd |only PublicationBias-2.3.0/PublicationBias/man/pubbias_meta.Rd |only PublicationBias-2.3.0/PublicationBias/man/pubbias_svalue.Rd |only PublicationBias-2.3.0/PublicationBias/man/pval_plot.Rd | 50 ++-- PublicationBias-2.3.0/PublicationBias/man/significance_funnel.Rd | 125 ++++------ PublicationBias-2.3.0/PublicationBias/tests/testthat.R |only PublicationBias-2.3.0/PublicationBias/tests/testthat/setup.R |only PublicationBias-2.3.0/PublicationBias/tests/testthat/test-meta.R |only PublicationBias-2.3.0/PublicationBias/tests/testthat/test-outputs.R |only PublicationBias-2.3.0/PublicationBias/tests/testthat/test-plots.R |only PublicationBias-2.3.0/PublicationBias/tests/testthat/test-svalue.R |only PublicationBias-2.3.0/PublicationBias/tests/testthat/test-worst.R |only 29 files changed, 158 insertions(+), 119 deletions(-)
More information about PublicationBias at CRAN
Permanent link
Title: Extended Structural Equation Modelling
Description: Create structural equation models that can be manipulated programmatically.
Models may be specified with matrices or paths (LISREL or RAM)
Example models include confirmatory factor, multiple group, mixture
distribution, categorical threshold, modern test theory, differential
Fit functions include full information maximum likelihood, maximum likelihood, and weighted least squares.
equations, state space, and many others.
Support and advanced package binaries available at <http://openmx.ssri.psu.edu>.
The software is described in Neale, Hunter, Pritikin, Zahery, Brick,
Kirkpatrick, Estabrook, Bates, Maes, & Boker (2016) <doi:10.1007/s11336-014-9435-8>.
Author: Steven M. Boker [aut],
Michael C. Neale [aut],
Hermine H. Maes [aut],
Michael J. Wilde [ctb],
Michael Spiegel [aut],
Timothy R. Brick [aut],
Ryne Estabrook [aut],
Timothy C. Bates [aut],
Paras Mehta [ctb],
Timo von Oertzen [ctb],
Ross J. Gore [aut],
[...truncated...]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between OpenMx versions 2.20.7 dated 2022-10-19 and 2.21.1 dated 2023-01-19
OpenMx-2.20.7/OpenMx/data/Bollen.txt.gz |only OpenMx-2.20.7/OpenMx/data/HS.ability.data.txt.gz |only OpenMx-2.20.7/OpenMx/data/demoOneFactor.csv.gz |only OpenMx-2.20.7/OpenMx/data/demoTwoFactor.csv.gz |only OpenMx-2.20.7/OpenMx/data/dzfData.txt.gz |only OpenMx-2.20.7/OpenMx/data/dzmData.txt.gz |only OpenMx-2.20.7/OpenMx/data/dzoData.txt.gz |only OpenMx-2.20.7/OpenMx/data/example1.csv.gz |only OpenMx-2.20.7/OpenMx/data/example2.csv.gz |only OpenMx-2.20.7/OpenMx/data/factorExample1.csv.gz |only OpenMx-2.20.7/OpenMx/data/factorScaleExample1.csv.gz |only OpenMx-2.20.7/OpenMx/data/factorScaleExample2.csv.gz |only OpenMx-2.20.7/OpenMx/data/latentMultipleRegExample1.csv.gz |only OpenMx-2.20.7/OpenMx/data/latentMultipleRegExample2.csv.gz |only OpenMx-2.20.7/OpenMx/data/multiData1.txt.gz |only OpenMx-2.20.7/OpenMx/data/myAutoregressiveData.txt.gz |only OpenMx-2.20.7/OpenMx/data/myFADataRaw.txt.gz |only OpenMx-2.20.7/OpenMx/data/myGrowthKnownClassData.txt.gz |only 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OpenMx-2.21.1/OpenMx/R/MxFitFunctionWLS.R | 4 OpenMx-2.21.1/OpenMx/R/MxModel.R | 6 OpenMx-2.21.1/OpenMx/R/MxOptions.R | 16 OpenMx-2.21.1/OpenMx/R/MxSaturatedModel.R | 15 OpenMx-2.21.1/OpenMx/R/MxTryHard.R | 97 +- OpenMx-2.21.1/OpenMx/R/MxVersion.R | 2 OpenMx-2.21.1/OpenMx/R/sysdata.rda |binary OpenMx-2.21.1/OpenMx/README.md | 239 +++++ OpenMx-2.21.1/OpenMx/build/OpenMx.pdf |binary OpenMx-2.21.1/OpenMx/build/vignette.rds |binary OpenMx-2.21.1/OpenMx/configure | 6 OpenMx-2.21.1/OpenMx/data/Bollen.txt.bz2 |only OpenMx-2.21.1/OpenMx/data/HS.ability.data.txt.bz2 |only OpenMx-2.21.1/OpenMx/data/LongitudinalOverdispersedCounts.rda |binary OpenMx-2.21.1/OpenMx/data/demoOneFactor.csv.bz2 |only OpenMx-2.21.1/OpenMx/data/demoTwoFactor.csv.bz2 |only OpenMx-2.21.1/OpenMx/data/dzfData.txt.bz2 |only OpenMx-2.21.1/OpenMx/data/dzmData.txt.bz2 |only OpenMx-2.21.1/OpenMx/data/dzoData.txt.bz2 |only OpenMx-2.21.1/OpenMx/data/example1.csv.bz2 |only OpenMx-2.21.1/OpenMx/data/example2.csv.bz2 |only 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OpenMx-2.21.1/OpenMx/data/nuclear_twin_design_data.txt.bz2 |only OpenMx-2.21.1/OpenMx/data/ordinalTwinData.rda |binary OpenMx-2.21.1/OpenMx/data/twinData.rda |binary OpenMx-2.21.1/OpenMx/data/twin_NA_dot.txt.xz |only OpenMx-2.21.1/OpenMx/inst/CITATION | 4 OpenMx-2.21.1/OpenMx/inst/doc/deriv.html | 152 +-- OpenMx-2.21.1/OpenMx/inst/doc/factor_analysis.html | 422 ++-------- OpenMx-2.21.1/OpenMx/inst/doc/reg_mimic.html | 182 ++-- OpenMx-2.21.1/OpenMx/inst/doc/regularization.html | 313 +------ OpenMx-2.21.1/OpenMx/inst/models/failing/test-weight.R |only OpenMx-2.21.1/OpenMx/inst/models/nightly/SimpleMix.R | 28 OpenMx-2.21.1/OpenMx/inst/models/passing/BukinN2_regressiontest.R | 1 OpenMx-2.21.1/OpenMx/inst/models/passing/StateSpaceErrorCheck.R | 25 OpenMx-2.21.1/OpenMx/inst/models/passing/SummaryCheck.R | 3 OpenMx-2.21.1/OpenMx/inst/models/passing/WLSCompare.R |only OpenMx-2.21.1/OpenMx/inst/models/passing/jointFactorWls.R | 18 OpenMx-2.21.1/OpenMx/man/as.statusCode.Rd | 34 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OpenMx-2.21.1/OpenMx/src/omxWLSFitFunction.cpp | 10 OpenMx-2.21.1/OpenMx/tests/testthat/test-plus-overloading.R |only OpenMx-2.21.1/OpenMx/tests/testthat/test-wls-binary.R | 5 119 files changed, 1027 insertions(+), 1120 deletions(-)
Title: Kernel Change Point Detection on the Running Statistics
Description: The running statistics of interest is first extracted using a time window which is slid across the time series, and in each window, the running statistics value is computed. KCP (Kernel Change Point) detection proposed by Arlot et al. (2012) <arXiv:1202.3878> is then implemented to flag the change points on the running statistics (Cabrieto et al., 2018, <doi:10.1016/j.ins.2018.03.010>). Change points are located by minimizing a variance criterion based on the pairwise similarities between running statistics which are computed via the Gaussian kernel. KCP can locate change points for a given k number of change points. To determine the optimal k, the KCP permutation test is first carried out by comparing the variance of the running statistics extracted from the original data to that of permuted data. If this test is significant, then there is sufficient evidence for at least one change point in the data. Model selection is then used to determine the optimal k>0.
Author: Jedelyn Cabrieto [aut],
Kristof Meers [aut, cre],
Evelien Schat [ctb],
Janne Adolf [ctb],
Peter Kuppens [ctb],
Francis Tuerlinckx [ctb],
Eva Ceulemans [ctb]
Maintainer: Kristof Meers <kristof.meers+cran@kuleuven.be>
Diff between kcpRS versions 1.0.0 dated 2019-05-06 and 1.1.0 dated 2023-01-19
DESCRIPTION | 41 +++++++++--- MD5 | 53 ++++++++------- NAMESPACE | 2 NEWS.md |only R/CO2Inhalation-data.R | 2 R/MentalLoad-data.R | 4 - R/RcppExports.R | 3 R/Utilities.R |only R/kcpRS.R | 20 +++-- R/kcpRS.default.R | 160 ++++++++++++++++++++++++++++++----------------- R/kcpRS_workflow.R | 4 - R/kcpa.R | 56 +++++++++------- R/permTest.R | 79 ++++++++++++++--------- R/print.kcpRS.R | 106 +++++++++++++++++-------------- R/print.kcpRS_workflow.R | 8 +- R/runCorr.R | 2 R/summary.kcpRS.R | 2 man/CO2Inhalation.Rd | 8 +- man/MentalLoad.Rd | 10 +- man/getScatterMatrix.Rd |only man/kcpRS-package.Rd | 20 ++--- man/kcpRS.Rd | 32 ++++++--- man/kcpRS_workflow.Rd | 18 +++-- man/kcpa.Rd | 7 -- man/permTest.Rd | 16 +++- man/runCorr.Rd | 2 src/RcppExports.cpp | 5 + src/getScatterMatrix.cpp | 127 ++++++++++++++++--------------------- tests |only 29 files changed, 466 insertions(+), 321 deletions(-)
Title: Population Genetic Data Analysis Using Genepop
Description: Makes the Genepop software available in R. This software implements a mixture of traditional population genetic methods and some more focused developments: it computes exact tests for Hardy-Weinberg equilibrium, for population differentiation and for genotypic disequilibrium among pairs of loci; it computes estimates of F-statistics, null allele frequencies, allele size-based statistics for microsatellites, etc.; and it performs analyses of isolation by distance from pairwise comparisons of individuals or population samples.
Author: Francois Rousset [aut, cre, cph]
,
Jimmy Lopez [ctb],
Alexandre Genin [ctb],
Khalid Belkhir [ctb]
Maintainer: Francois Rousset <francois.rousset@umontpellier.fr>
Diff between genepop versions 1.1.7 dated 2020-02-23 and 1.2.2 dated 2023-01-19
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Title: Easy Handling Discrete Time Markov Chains
Description: Functions and S4 methods to create and manage discrete time Markov
chains more easily. In addition functions to perform statistical (fitting
and drawing random variates) and probabilistic (analysis of their structural
proprieties) analysis are provided. See Spedicato (2017) <doi:10.32614/RJ-2017-036>.
Author: Giorgio Alfredo Spedicato [aut, cre]
,
Tae Seung Kang [aut],
Sai Bhargav Yalamanchi [aut],
Mildenberger Thoralf [ctb] ,
Deepak Yadav [aut],
Ignacio Cordon [aut] ,
Vandit Jain [ctb],
Toni Giorgino [ctb] ,
Richel J.C. Bilderbeek [ctb] ,
Daniel Ebbert [ [...truncated...]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between markovchain versions 0.9.0 dated 2022-07-01 and 0.9.1 dated 2023-01-19
markovchain-0.9.0/markovchain/ChangeLog |only markovchain-0.9.0/markovchain/NEWS |only markovchain-0.9.1/markovchain/DESCRIPTION | 14 +++++----- markovchain-0.9.1/markovchain/MD5 | 13 ++++----- markovchain-0.9.1/markovchain/NEWS.md |only markovchain-0.9.1/markovchain/README.md | 3 ++ markovchain-0.9.1/markovchain/inst/doc/an_introduction_to_markovchain_package.pdf |binary markovchain-0.9.1/markovchain/inst/doc/gsoc_2017_additions.pdf |binary markovchain-0.9.1/markovchain/inst/doc/higher_order_markov_chains.pdf |binary 9 files changed, 16 insertions(+), 14 deletions(-)
Title: Interpretable Subgroups Identification Through Ensemble Learning
of Causal Rules
Description: Provides an interpretable identification of subgroups with
heterogeneous causal effect. The heterogeneous subgroups are
discovered through ensemble learning of causal rules. Causal rules are
highly interpretable if-then statement that recursively partition the
features space into heterogeneous subgroups. A small number of
significant causal rules are selected through Stability Selection to
control for family-wise error rate in the finite sample setting. It
proposes various estimation methods for the conditional causal effects
for each discovered causal rule. It is highly flexible and multiple
causal estimands and imputation methods are implemented. Lee, K.,
Bargagli-Stoffi, F. J., & Dominici, F. (2020). Causal rule ensemble:
Interpretable inference of heterogeneous treatment effects. arXiv
preprint <arXiv:2009.09036>.
Author: Naeem Khoshnevis [aut, cre] ,
Daniela Maria Garcia [aut] ,
Riccardo Cadei [aut] ,
Kwonsang Lee [aut] ,
Falco Joannes Bargagli Stoffi [aut]
Maintainer: Naeem Khoshnevis <nkhoshnevis@g.harvard.edu>
Diff between CRE versions 0.1.1 dated 2022-10-22 and 0.2.0 dated 2023-01-19
CRE-0.1.1/CRE/R/discard_anomalous_rules.R |only CRE-0.1.1/CRE/R/discard_correlated_rules.R |only CRE-0.1.1/CRE/R/estimate_ite_ipw.R |only CRE-0.1.1/CRE/R/estimate_ite_oreg.R |only CRE-0.1.1/CRE/R/estimate_ite_poisson.R |only CRE-0.1.1/CRE/R/estimate_ite_sipw.R |only CRE-0.1.1/CRE/R/generate_causal_rules.R |only CRE-0.1.1/CRE/R/interpret_select_rules.R |only CRE-0.1.1/CRE/R/lasso_rules_filter.R |only CRE-0.1.1/CRE/R/prune_rules.R |only CRE-0.1.1/CRE/R/split_data.R |only CRE-0.1.1/CRE/man/discard_anomalous_rules.Rd |only CRE-0.1.1/CRE/man/discard_correlated_rules.Rd |only CRE-0.1.1/CRE/man/estimate_ite_ipw.Rd |only CRE-0.1.1/CRE/man/estimate_ite_oreg.Rd |only CRE-0.1.1/CRE/man/estimate_ite_poisson.Rd |only CRE-0.1.1/CRE/man/estimate_ite_sipw.Rd |only CRE-0.1.1/CRE/man/generate_causal_rules.Rd |only CRE-0.1.1/CRE/man/interpret_select_rules.Rd |only CRE-0.1.1/CRE/man/lasso_rules_filter.Rd |only CRE-0.1.1/CRE/man/prune_rules.Rd |only CRE-0.1.1/CRE/man/split_data.Rd |only CRE-0.1.1/CRE/tests/testthat/test-discard_anomalous_rules.R |only CRE-0.1.1/CRE/tests/testthat/test-discard_correlated_rules.R |only CRE-0.1.1/CRE/tests/testthat/test-estimate_ite_ipw.R |only CRE-0.1.1/CRE/tests/testthat/test-estimate_ite_oreg.R |only CRE-0.1.1/CRE/tests/testthat/test-estimate_ite_sipw.R |only CRE-0.1.1/CRE/tests/testthat/test-generate_causal_rules.R |only CRE-0.1.1/CRE/tests/testthat/test-interpret_select_rules.R |only CRE-0.1.1/CRE/tests/testthat/test-prune_rules.R |only CRE-0.1.1/CRE/tests/testthat/test-split_data.R |only CRE-0.2.0/CRE/DESCRIPTION | 6 CRE-0.2.0/CRE/MD5 | 209 +-- CRE-0.2.0/CRE/NEWS.md | 242 ++- CRE-0.2.0/CRE/R/CRE_package.R | 2 CRE-0.2.0/CRE/R/check_hyper_params.R | 186 ++ CRE-0.2.0/CRE/R/check_input_data.R | 121 + CRE-0.2.0/CRE/R/check_method_params.R | 206 +-- CRE-0.2.0/CRE/R/cre.R | 341 ++--- CRE-0.2.0/CRE/R/discover_rules.R |only CRE-0.2.0/CRE/R/estimate_cate.R | 338 ----- CRE-0.2.0/CRE/R/estimate_ite.R | 153 -- CRE-0.2.0/CRE/R/estimate_ite_aipw.R | 50 CRE-0.2.0/CRE/R/estimate_ite_bart.R | 40 CRE-0.2.0/CRE/R/estimate_ite_bcf.R | 30 CRE-0.2.0/CRE/R/estimate_ite_cf.R | 25 CRE-0.2.0/CRE/R/estimate_ite_slearner.R |only CRE-0.2.0/CRE/R/estimate_ite_tlearner.R |only CRE-0.2.0/CRE/R/estimate_ite_tpoisson.R |only CRE-0.2.0/CRE/R/estimate_ite_xlearner.R |only CRE-0.2.0/CRE/R/estimate_ps.R | 19 CRE-0.2.0/CRE/R/evaluate.R |only CRE-0.2.0/CRE/R/extract_effect_modifiers.R |only CRE-0.2.0/CRE/R/extract_rules.R | 46 CRE-0.2.0/CRE/R/filter_correlated_rules.R |only CRE-0.2.0/CRE/R/filter_extreme_rules.R |only CRE-0.2.0/CRE/R/filter_irrelevant_rules.R |only CRE-0.2.0/CRE/R/generate_cre_dataset.R | 138 +- CRE-0.2.0/CRE/R/generate_rules.R | 126 - CRE-0.2.0/CRE/R/generate_rules_matrix.R | 18 CRE-0.2.0/CRE/R/honest_splitting.R |only CRE-0.2.0/CRE/R/interpret_rules.R |only CRE-0.2.0/CRE/R/logger_utils.R | 20 CRE-0.2.0/CRE/R/plot.R | 140 -- CRE-0.2.0/CRE/R/print.R | 127 + CRE-0.2.0/CRE/R/select_rules.R |only CRE-0.2.0/CRE/R/utils.R | 11 CRE-0.2.0/CRE/R/zzz.R | 8 CRE-0.2.0/CRE/README.md | 240 ++- CRE-0.2.0/CRE/inst/doc/CRE.R | 8 CRE-0.2.0/CRE/inst/doc/CRE.Rmd | 244 ++- CRE-0.2.0/CRE/inst/doc/CRE.html | 424 +++--- CRE-0.2.0/CRE/inst/doc/Contribution.html | 111 - CRE-0.2.0/CRE/inst/doc/Testing-the-Package.R | 141 -- CRE-0.2.0/CRE/inst/doc/Testing-the-Package.Rmd | 145 -- CRE-0.2.0/CRE/inst/doc/Testing-the-Package.html | 254 +-- CRE-0.2.0/CRE/man/CRE-package.Rd | 2 CRE-0.2.0/CRE/man/check_hyper_params.Rd | 9 CRE-0.2.0/CRE/man/check_input_data.Rd | 8 CRE-0.2.0/CRE/man/check_method_params.Rd | 4 CRE-0.2.0/CRE/man/cre.Rd | 157 +- CRE-0.2.0/CRE/man/discover_rules.Rd |only CRE-0.2.0/CRE/man/estimate_cate.Rd | 61 CRE-0.2.0/CRE/man/estimate_ite.Rd | 76 - 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CRE-0.2.0/CRE/tests/testthat/test-filter_correlated_rules.R |only CRE-0.2.0/CRE/tests/testthat/test-filter_extreme_rules.R |only CRE-0.2.0/CRE/tests/testthat/test-filter_irrelevant_rules.R |only CRE-0.2.0/CRE/tests/testthat/test-generate_cre_dataset.R | 66 CRE-0.2.0/CRE/tests/testthat/test-generate_rules.R | 53 CRE-0.2.0/CRE/tests/testthat/test-generate_rules_matrix.R | 24 CRE-0.2.0/CRE/tests/testthat/test-honest_splitting.R |only CRE-0.2.0/CRE/tests/testthat/test-interpret_rules.R |only CRE-0.2.0/CRE/tests/testthat/test-utils.R | 2 CRE-0.2.0/CRE/vignettes/CRE.Rmd | 244 ++- CRE-0.2.0/CRE/vignettes/Testing-the-Package.Rmd | 145 -- 140 files changed, 3039 insertions(+), 3543 deletions(-)
Title: Weighted and Directed Networks
Description: Implementations of network analysis including
(1) assortativity coefficient of weighted and directed networks,
Yuan, Yan and Zhang (2021) <doi:10.1093/comnet/cnab017>,
(2) centrality measures for weighted and directed networks,
Opsahl, Agneessens and Skvoretz (2010) <doi:10.1016/j.socnet.2010.03.006>,
Zhang, Wang and Yan (2022) <doi:10.1016/j.physa.2021.126438>,
(3) clustering coefficient of weighted and directed networks,
Fagiolo (2007) <doi:10.1103/PhysRevE.76.026107> and
Clemente and Grassi (2018) <doi:10.1016/j.chaos.2017.12.007>,
(4) rewiring networks with given assortativity coefficients,
Wang, Yan, Yuan and Zhang (2022) <doi:10.1007/s11222-022-10161-8>,
(5) preferential attachment network generation.
Author: Yelie Yuan [aut, cre],
Tiandong Wang [aut],
Jun Yan [aut],
Panpan Zhang [aut]
Maintainer: Yelie Yuan <yelie.yuan@uconn.edu>
Diff between wdnet versions 0.0.5 dated 2022-09-12 and 1.0.0 dated 2023-01-19
wdnet-0.0.5/wdnet/R/rpactl.R |only wdnet-0.0.5/wdnet/R/rpanet_wan.R |only wdnet-0.0.5/wdnet/man/cvxr.control.Rd |only wdnet-0.0.5/wdnet/man/plus-.rpactl.Rd |only wdnet-0.0.5/wdnet/man/rpactl.edgeweight.Rd |only wdnet-0.0.5/wdnet/man/rpactl.newedge.Rd |only wdnet-0.0.5/wdnet/man/rpactl.preference.Rd |only wdnet-0.0.5/wdnet/man/rpactl.reciprocal.Rd |only wdnet-0.0.5/wdnet/man/rpactl.scenario.Rd |only wdnet-0.0.5/wdnet/man/rpanet_naive_directed_cpp.Rd |only wdnet-0.0.5/wdnet/man/rpanet_naive_undirected_cpp.Rd |only wdnet-0.0.5/wdnet/man/rpanet_nodelist_cpp.Rd |only wdnet-0.0.5/wdnet/man/rpanet_wan.Rd |only wdnet-0.0.5/wdnet/src/funcPtrD.h |only wdnet-0.0.5/wdnet/src/funcPtrUnd.h |only wdnet-0.0.5/wdnet/src/hello.cpp |only wdnet-0.0.5/wdnet/src/rpanet_naive_directed.cpp |only wdnet-0.0.5/wdnet/src/rpanet_naive_undirected.cpp |only wdnet-0.0.5/wdnet/src/rpanet_nodelist.cpp |only wdnet-0.0.5/wdnet/src/rpanet_wan.c |only wdnet-1.0.0/wdnet/DESCRIPTION | 19 wdnet-1.0.0/wdnet/MD5 | 143 ++-- wdnet-1.0.0/wdnet/NAMESPACE | 88 +-- wdnet-1.0.0/wdnet/NEWS.md | 16 wdnet-1.0.0/wdnet/R/RcppExports.R | 97 +-- wdnet-1.0.0/wdnet/R/assortativity.R | 8 wdnet-1.0.0/wdnet/R/centrality.R | 8 wdnet-1.0.0/wdnet/R/clustercoef.R | 2 wdnet-1.0.0/wdnet/R/compile_pref.R | 5 wdnet-1.0.0/wdnet/R/joint_dist.R | 93 --- wdnet-1.0.0/wdnet/R/rewire.R | 48 - wdnet-1.0.0/wdnet/R/rpa_control.R |only wdnet-1.0.0/wdnet/R/rpanet.R | 227 +++---- wdnet-1.0.0/wdnet/R/rpanet_general.R | 142 ++-- wdnet-1.0.0/wdnet/R/rpanet_simple.R | 66 +- wdnet-1.0.0/wdnet/R/utils.R | 6 wdnet-1.0.0/wdnet/R/wdnet-package.R | 6 wdnet-1.0.0/wdnet/README.md |only wdnet-1.0.0/wdnet/man/adj_to_edge.Rd | 1 wdnet-1.0.0/wdnet/man/assortcoef.Rd | 2 wdnet-1.0.0/wdnet/man/closeness_c.Rd | 1 wdnet-1.0.0/wdnet/man/compile_pref_func.Rd | 1 wdnet-1.0.0/wdnet/man/cvxr_control.Rd |only wdnet-1.0.0/wdnet/man/degree_c.Rd | 1 wdnet-1.0.0/wdnet/man/dprewire.Rd | 12 wdnet-1.0.0/wdnet/man/dprewire.range.Rd | 4 wdnet-1.0.0/wdnet/man/dprewire_directed.Rd | 1 wdnet-1.0.0/wdnet/man/dprewire_directed_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/dprewire_undirected.Rd | 1 wdnet-1.0.0/wdnet/man/dprewire_undirected_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/dw_assort.Rd | 1 wdnet-1.0.0/wdnet/man/dw_feature_assort.Rd | 1 wdnet-1.0.0/wdnet/man/edge_to_adj.Rd | 1 wdnet-1.0.0/wdnet/man/fill_weight_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/find_node_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/find_node_undirected_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/get_constr.Rd | 5 wdnet-1.0.0/wdnet/man/get_dist.Rd | 1 wdnet-1.0.0/wdnet/man/get_eta_directed.Rd | 3 wdnet-1.0.0/wdnet/man/get_eta_undirected.Rd | 3 wdnet-1.0.0/wdnet/man/get_values.Rd | 5 wdnet-1.0.0/wdnet/man/node_strength_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/plus-.rpacontrol.Rd |only wdnet-1.0.0/wdnet/man/rpa_control_edgeweight.Rd |only wdnet-1.0.0/wdnet/man/rpa_control_newedge.Rd |only wdnet-1.0.0/wdnet/man/rpa_control_preference.Rd |only wdnet-1.0.0/wdnet/man/rpa_control_reciprocal.Rd |only wdnet-1.0.0/wdnet/man/rpa_control_scenario.Rd |only wdnet-1.0.0/wdnet/man/rpanet.Rd | 113 ++- wdnet-1.0.0/wdnet/man/rpanet_bag_cpp.Rd |only wdnet-1.0.0/wdnet/man/rpanet_binary_directed.Rd | 1 wdnet-1.0.0/wdnet/man/rpanet_binary_undirected_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/rpanet_general.Rd | 42 - wdnet-1.0.0/wdnet/man/rpanet_linear_directed_cpp.Rd |only wdnet-1.0.0/wdnet/man/rpanet_linear_undirected_cpp.Rd |only wdnet-1.0.0/wdnet/man/rpanet_simple.Rd | 22 wdnet-1.0.0/wdnet/man/sample_node_cpp.Rd | 1 wdnet-1.0.0/wdnet/man/wdnet.Rd | 38 - wdnet-1.0.0/wdnet/man/wpr.Rd | 1 wdnet-1.0.0/wdnet/src/RcppExports.cpp | 80 +- wdnet-1.0.0/wdnet/src/init.c | 28 wdnet-1.0.0/wdnet/src/rewire.cpp | 4 wdnet-1.0.0/wdnet/src/rpanet_bag.cpp |only wdnet-1.0.0/wdnet/src/rpanet_binary_directed.cpp | 520 ++++++++++-------- wdnet-1.0.0/wdnet/src/rpanet_binary_linear.h |only wdnet-1.0.0/wdnet/src/rpanet_binary_linear_utils.cpp |only wdnet-1.0.0/wdnet/src/rpanet_binary_undirected.cpp | 299 ++++++---- wdnet-1.0.0/wdnet/src/rpanet_linear_directed.cpp |only wdnet-1.0.0/wdnet/src/rpanet_linear_undirected.cpp |only wdnet-1.0.0/wdnet/src/utils.cpp | 17 wdnet-1.0.0/wdnet/tests/testthat/test-rpanet.R | 97 ++- 91 files changed, 1233 insertions(+), 1055 deletions(-)
Title: Hidden State Speciation and Extinction
Description: Sets up and executes a HiSSE model (Hidden State Speciation and Extinction) on a phylogeny and character sets to test for hidden shifts in trait dependent rates of diversification. Beaulieu and O'Meara (2016) <doi:10.1093/sysbio/syw022>.
Author: Jeremy Beaulieu [aut, cre],
Brian O'Meara [aut],
Daniel Caetano [aut],
James Boyko [aut],
Thais Vasconcelos [aut]
Maintainer: Jeremy Beaulieu <jmbeauli@uark.edu>
Diff between hisse versions 2.1.9 dated 2022-06-15 and 2.1.10 dated 2023-01-19
DESCRIPTION | 8 ++-- MD5 | 42 +++++++++++------------ R/fossilUtilities.R | 2 - R/hisse.R | 48 ++++++++++++++------------ R/marginRecon.R | 34 ++++++++++++++++-- R/misse.R | 46 +++++++++++++------------ R/muhisse.R | 40 ++++++++++++---------- R/supportRegionHiSSE.R | 2 - R/supportRegionMiSSE.R | 6 +-- inst/doc/Clade-specific-sampling.pdf |binary inst/doc/GeoHiSSE-vignette.pdf |binary inst/doc/MiSSE-vignette.pdf |binary inst/doc/MuHiSSE-vignette.pdf |binary inst/doc/adding_fossils.R | 6 +-- inst/doc/adding_fossils.Rmd | 6 +-- inst/doc/adding_fossils.pdf |binary inst/doc/hisse-fisse-type1-vignette.pdf |binary inst/doc/hisse-new-vignette.pdf |binary inst/doc/hisse-vignette.pdf |binary src/registerDynamicSymbol.c | 32 ++++++++--------- tests/testthat/test_likelihood.R | 58 ++++++++++++++++---------------- vignettes/adding_fossils.Rmd | 6 +-- 22 files changed, 186 insertions(+), 150 deletions(-)
Title: Statistical Inference of Vine Copulas
Description: Provides tools for the statistical analysis of regular vine copula
models, see Aas et al. (2009) <doi:10.1016/j.insmatheco.2007.02.001> and
Dissman et al. (2013) <doi:10.1016/j.csda.2012.08.010>.
The package includes tools for parameter estimation, model selection,
simulation, goodness-of-fit tests, and visualization. Tools for estimation,
selection and exploratory data analysis of bivariate copula models are also
provided.
Author: Thomas Nagler [aut, cre],
Ulf Schepsmeier [aut],
Jakob Stoeber [aut],
Eike Christian Brechmann [aut],
Benedikt Graeler [aut],
Tobias Erhardt [aut],
Carlos Almeida [ctb],
Aleksey Min [ctb, ths],
Claudia Czado [ctb, ths],
Mathias Hofmann [ctb],
Matthia [...truncated...]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between VineCopula versions 2.4.4 dated 2022-05-24 and 2.4.5 dated 2023-01-19
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 12 ++++++++++++ R/pobs.R | 10 +++++++--- R/preprocessors.R | 15 ++++++++++++--- README.md | 2 +- build/partial.rdb |binary src/gof.c | 2 +- 8 files changed, 43 insertions(+), 18 deletions(-)
Title: Plotting Multi-Dimensional Data - Using 'rgl'
Description: The 'rgl' implementation of plot3D functions.
Author: Karline Soetaert <karline.soetaert@nioz.nl>
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Diff between plot3Drgl versions 1.0.3 dated 2022-06-21 and 1.0.4 dated 2023-01-19
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/cutrgl.R | 6 +++--- R/plot2Drgl.R | 4 ++-- R/plot3Drgl.R | 4 ++-- R/plotrgl.R | 4 ++-- 6 files changed, 17 insertions(+), 17 deletions(-)
Title: Interface to 'Zenodo' REST API
Description: Provides an Interface to 'Zenodo' (<https://zenodo.org>) REST API,
including management of depositions, attribution of DOIs by 'Zenodo' and
upload and download of files.
Author: Emmanuel Blondel [aut, cre] ,
Julien Barde [ctb] ,
Stephen Eglen [ctb] ,
Hans Van Calster [ctb] ,
Floris Vanderhaeghe [ctb]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between zen4R versions 0.7-1 dated 2023-01-09 and 0.8 dated 2023-01-19
DESCRIPTION | 8 ++-- MD5 | 12 +++--- NEWS.md | 21 +++++++++- R/ZenodoManager.R | 98 +++++++++++++++++++++++++++++++++++++-------------- R/ZenodoRequest.R | 2 - README.md | 4 +- man/ZenodoManager.Rd | 66 ++++++++++++++++++++++++++++++++-- 7 files changed, 166 insertions(+), 45 deletions(-)
Title: Rational Approximations of Fractional Stochastic Partial
Differential Equations
Description: Functions that compute rational approximations of fractional elliptic stochastic partial differential equations. The package also contains functions for common statistical usage of these approximations.
Author: David Bolin [cre, aut],
Alexandre Simas [aut],
Finn Lindgren [ctb]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between rSPDE versions 1.2.0 dated 2022-09-16 and 2.1.0 dated 2023-01-19
rSPDE-1.2.0/rSPDE/R/zzz.R |only rSPDE-1.2.0/rSPDE/man/bru_mapper.inla_rspde.Rd |only rSPDE-1.2.0/rSPDE/man/get.inital.values.rSPDE.Rd |only rSPDE-1.2.0/rSPDE/man/get.sparsity.graph.rspde.Rd |only rSPDE-1.2.0/rSPDE/man/plot.rspde.result.Rd |only rSPDE-1.2.0/rSPDE/man/rspde.precision.Rd |only rSPDE-1.2.0/rSPDE/man/summary.rspde.result.Rd |only rSPDE-1.2.0/rSPDE/tests/testthat/test.inla_rspde.R |only rSPDE-2.1.0/rSPDE/DESCRIPTION | 17 rSPDE-2.1.0/rSPDE/MD5 | 109 rSPDE-2.1.0/rSPDE/NAMESPACE | 20 rSPDE-2.1.0/rSPDE/NEWS.md | 30 rSPDE-2.1.0/rSPDE/R/fractional.computations.R | 888 ++ rSPDE-2.1.0/rSPDE/R/fractional.operators.R | 381 - rSPDE-2.1.0/rSPDE/R/inla_rspde.R | 3715 ++++++----- rSPDE-2.1.0/rSPDE/R/inlabru_rspde.R | 54 rSPDE-2.1.0/rSPDE/R/markov.approx.R |only rSPDE-2.1.0/rSPDE/R/rSPDE.R | 6 rSPDE-2.1.0/rSPDE/R/util.R | 758 +- rSPDE-2.1.0/rSPDE/build/vignette.rds |binary rSPDE-2.1.0/rSPDE/inst/CITATION | 2 rSPDE-2.1.0/rSPDE/inst/doc/build_source.html |only rSPDE-2.1.0/rSPDE/inst/doc/build_source.html.asis |only rSPDE-2.1.0/rSPDE/inst/doc/rSPDE.html | 840 +- rSPDE-2.1.0/rSPDE/inst/doc/rSPDE.html.asis | 36 rSPDE-2.1.0/rSPDE/inst/doc/rspde_base.html | 741 +- rSPDE-2.1.0/rSPDE/inst/doc/rspde_base.html.asis | 36 rSPDE-2.1.0/rSPDE/inst/doc/rspde_cov.html | 1176 ++- rSPDE-2.1.0/rSPDE/inst/doc/rspde_cov.html.asis | 36 rSPDE-2.1.0/rSPDE/inst/doc/rspde_inla.html | 2297 ++++-- rSPDE-2.1.0/rSPDE/inst/doc/rspde_inla.html.asis | 36 rSPDE-2.1.0/rSPDE/inst/doc/rspde_inlabru.html | 1160 ++- rSPDE-2.1.0/rSPDE/inst/doc/rspde_inlabru.html.asis | 12 rSPDE-2.1.0/rSPDE/man/bru_get_mapper.inla_rspde.Rd |only rSPDE-2.1.0/rSPDE/man/construct.spde.matern.loglike.Rd |only rSPDE-2.1.0/rSPDE/man/get.initial.values.rSPDE.Rd |only rSPDE-2.1.0/rSPDE/man/gg_df.Rd |only rSPDE-2.1.0/rSPDE/man/gg_df.rspde_result.Rd |only rSPDE-2.1.0/rSPDE/man/matern.operators.Rd | 18 rSPDE-2.1.0/rSPDE/man/precision.CBrSPDEobj.Rd | 7 rSPDE-2.1.0/rSPDE/man/precision.inla_rspde.Rd |only rSPDE-2.1.0/rSPDE/man/rSPDE.construct.matern.loglike.Rd | 45 rSPDE-2.1.0/rSPDE/man/rSPDE.matern.loglike.Rd | 11 rSPDE-2.1.0/rSPDE/man/rspde.make.A.Rd | 10 rSPDE-2.1.0/rSPDE/man/rspde.make.index.Rd | 17 rSPDE-2.1.0/rSPDE/man/rspde.matern.Rd | 246 rSPDE-2.1.0/rSPDE/man/rspde.matern.precision.Rd | 6 rSPDE-2.1.0/rSPDE/man/rspde.matern.precision.opt.Rd | 4 rSPDE-2.1.0/rSPDE/man/rspde.mesh.project.Rd | 8 rSPDE-2.1.0/rSPDE/man/rspde.metric_graph.Rd |only rSPDE-2.1.0/rSPDE/man/rspde.result.Rd | 31 rSPDE-2.1.0/rSPDE/man/simulate.CBrSPDEobj.Rd | 12 rSPDE-2.1.0/rSPDE/man/spde.matern.loglike.Rd | 81 rSPDE-2.1.0/rSPDE/man/spde.matern.operators.Rd | 50 rSPDE-2.1.0/rSPDE/man/summary.rspde_result.Rd |only rSPDE-2.1.0/rSPDE/man/update.CBrSPDEobj.Rd | 10 rSPDE-2.1.0/rSPDE/man/update.rSPDEobj.Rd | 15 rSPDE-2.1.0/rSPDE/tests/testthat/test.fem.R |only rSPDE-2.1.0/rSPDE/tests/testthat/test.fractional.operators.R | 8 rSPDE-2.1.0/rSPDE/tests/testthat/test.operator.operations.R | 2 rSPDE-2.1.0/rSPDE/vignettes/build_source.html.asis |only rSPDE-2.1.0/rSPDE/vignettes/rSPDE.html.asis | 36 rSPDE-2.1.0/rSPDE/vignettes/rspde_base.html.asis | 36 rSPDE-2.1.0/rSPDE/vignettes/rspde_cov.html.asis | 36 rSPDE-2.1.0/rSPDE/vignettes/rspde_inla.html.asis | 36 rSPDE-2.1.0/rSPDE/vignettes/rspde_inlabru.html.asis | 12 66 files changed, 8388 insertions(+), 4699 deletions(-)
Title: Downloading, Reading and Analyzing PNS Microdata
Description: Provides tools for downloading, reading and analyzing the PNS,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between PNSIBGE versions 0.1.7 dated 2022-03-25 and 0.1.8 dated 2023-01-19
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/get_pns.R | 24 ++++++++++++------------ README.md | 2 ++ man/get_pns.Rd | 4 ++-- 5 files changed, 24 insertions(+), 22 deletions(-)
Title: Downloading, Reading and Analyzing PNADC Microdata
Description: Provides tools for downloading, reading and analyzing the PNADC,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Douglas Braga [aut],
Gabriel Assuncao [aut, cre],
Luna Hidalgo [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between PNADcIBGE versions 0.7.1 dated 2022-12-01 and 0.7.2 dated 2023-01-19
DESCRIPTION | 8 ++-- MD5 | 20 ++++++------ R/get_pnadc.R | 82 +++++++++++++++++++++++++++++++++----------------- R/pnadc_deflator.R | 5 +-- R/pnadc_design.R | 5 +-- R/pnadc_labeller.R | 5 +-- README.md | 2 + man/get_pnadc.Rd | 22 +++++++++---- man/pnadc_deflator.Rd | 5 +-- man/pnadc_design.Rd | 5 +-- man/pnadc_labeller.Rd | 5 +-- 11 files changed, 104 insertions(+), 60 deletions(-)
Title: Parametric Bootstrap, Kenward-Roger and Satterthwaite Based
Methods for Test in Mixed Models
Description: Computes p-values based on (a) Satterthwaite or
Kenward-Rogers degree of freedom methods and (b) parametric bootstrap
for mixed effects models as implemented in the 'lme4'
package. Implements parametric bootstrap test for generalized linear
mixed models as implemented in 'lme4' and generalized linear
models. The package is documented in the paper by Halekoh and
Højsgaard, (2012, <doi:10.18637/jss.v059.i09>). Please see
'citation("pbkrtest")' for citation details.
Author: Ulrich Halekoh [aut, cph],
Soeren Hoejsgaard [aut, cre, cph]
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between pbkrtest versions 0.5.1 dated 2021-03-09 and 0.5.2 dated 2023-01-19
pbkrtest-0.5.1/pbkrtest/R/NAMESPACE.R |only pbkrtest-0.5.1/pbkrtest/inst/doc/coercion.R |only pbkrtest-0.5.1/pbkrtest/inst/doc/coercion.Rnw |only pbkrtest-0.5.1/pbkrtest/inst/doc/coercion.pdf |only pbkrtest-0.5.1/pbkrtest/inst/doc/pbkrtest.R |only pbkrtest-0.5.1/pbkrtest/inst/doc/pbkrtest.Rnw |only pbkrtest-0.5.1/pbkrtest/inst/doc/pbkrtest.pdf |only pbkrtest-0.5.1/pbkrtest/man/compute_auxillary.Rd |only pbkrtest-0.5.1/pbkrtest/man/getkr.Rd |only pbkrtest-0.5.1/pbkrtest/man/kr-vcov.Rd |only pbkrtest-0.5.1/pbkrtest/vignettes/coercion.Rnw |only pbkrtest-0.5.1/pbkrtest/vignettes/pbkrtest.Rnw |only pbkrtest-0.5.2/pbkrtest/DESCRIPTION | 37 +-- pbkrtest-0.5.2/pbkrtest/MD5 | 93 +++++---- pbkrtest-0.5.2/pbkrtest/NAMESPACE | 33 ++- pbkrtest-0.5.2/pbkrtest/NEWS | 21 +- pbkrtest-0.5.2/pbkrtest/R/KR-Sigma-G2.R | 74 +++---- pbkrtest-0.5.2/pbkrtest/R/KR-modcomp.R | 81 ++++---- pbkrtest-0.5.2/pbkrtest/R/KR-utils.R | 18 + pbkrtest-0.5.2/pbkrtest/R/KR-vcovAdj.R | 38 ++-- pbkrtest-0.5.2/pbkrtest/R/NAMESPACE-pbkrtest.R |only pbkrtest-0.5.2/pbkrtest/R/PB-modcomp.R | 100 ++++++---- pbkrtest-0.5.2/pbkrtest/R/PB-refdist.R | 45 +++- pbkrtest-0.5.2/pbkrtest/R/PB-utils.R | 46 +++- pbkrtest-0.5.2/pbkrtest/R/SAT-modcomp.R | 185 +++++-------------- pbkrtest-0.5.2/pbkrtest/R/data-beets.R | 1 pbkrtest-0.5.2/pbkrtest/R/data-budworm.R | 26 +- pbkrtest-0.5.2/pbkrtest/R/getKR.R | 19 +- pbkrtest-0.5.2/pbkrtest/R/get_ddf_Lb.R | 20 +- pbkrtest-0.5.2/pbkrtest/R/init-modcomp.R | 23 +- pbkrtest-0.5.2/pbkrtest/R/internal-pbkrtest.R | 2 pbkrtest-0.5.2/pbkrtest/R/model-coerce.R | 177 +++++++++++++----- pbkrtest-0.5.2/pbkrtest/R/utilities.R |only pbkrtest-0.5.2/pbkrtest/README.md | 190 ++++++++------------ pbkrtest-0.5.2/pbkrtest/build/vignette.rds |binary pbkrtest-0.5.2/pbkrtest/inst/WORDLIST |only pbkrtest-0.5.2/pbkrtest/inst/doc/a01-pbkrtest.R |only pbkrtest-0.5.2/pbkrtest/inst/doc/a01-pbkrtest.html |only pbkrtest-0.5.2/pbkrtest/inst/doc/a01-pbkrtest.rmd |only pbkrtest-0.5.2/pbkrtest/inst/doc/a02-coercion.R |only pbkrtest-0.5.2/pbkrtest/inst/doc/a02-coercion.html |only pbkrtest-0.5.2/pbkrtest/inst/doc/a02-coercion.rmd |only pbkrtest-0.5.2/pbkrtest/man/compare_column_space.Rd |only pbkrtest-0.5.2/pbkrtest/man/compute_auxiliary.Rd |only pbkrtest-0.5.2/pbkrtest/man/data-beets.Rd | 23 +- pbkrtest-0.5.2/pbkrtest/man/data-budworm.Rd | 25 +- pbkrtest-0.5.2/pbkrtest/man/devfun_vp.Rd | 4 pbkrtest-0.5.2/pbkrtest/man/get_Fstat_ddf.Rd | 17 - pbkrtest-0.5.2/pbkrtest/man/get_covbeta.Rd | 8 pbkrtest-0.5.2/pbkrtest/man/get_ddf_Lb.Rd | 32 +-- pbkrtest-0.5.2/pbkrtest/man/get_modcomp.Rd |only pbkrtest-0.5.2/pbkrtest/man/internal-pbkrtest.Rd | 3 pbkrtest-0.5.2/pbkrtest/man/internal.Rd | 3 pbkrtest-0.5.2/pbkrtest/man/kr-modcomp.Rd | 29 +-- pbkrtest-0.5.2/pbkrtest/man/kr-vcovAdj.Rd |only pbkrtest-0.5.2/pbkrtest/man/model-coerce.Rd | 58 +++--- pbkrtest-0.5.2/pbkrtest/man/pb-modcomp.Rd | 43 ++-- pbkrtest-0.5.2/pbkrtest/man/pb-refdist.Rd | 50 ++--- pbkrtest-0.5.2/pbkrtest/man/sat-modcomp.Rd | 14 - pbkrtest-0.5.2/pbkrtest/vignettes/a01-pbkrtest.rmd |only pbkrtest-0.5.2/pbkrtest/vignettes/a02-coercion.rmd |only 61 files changed, 810 insertions(+), 728 deletions(-)
Title: Data Analysis for Censored Environmental Data
Description: Contains methods described by Dennis Helsel in
his book "Statistics for Censored Environmental Data
using Minitab and R" (2011) and courses and videos at
<https://practicalstats.com>. This package adds new functions to
the `NADA` Package.
Author: Paul Julian [aut, cre],
Dennis Helsel [aut, cph]
Maintainer: Paul Julian <pauljulianphd@gmail.com>
Diff between NADA2 versions 1.1.0 dated 2022-09-05 and 1.1.1 dated 2023-01-19
DESCRIPTION | 8 +- MD5 | 18 +++--- NEWS.md | 7 ++ R/cen_paired.R | 4 - R/cencorreg.R | 4 - build/partial.rdb |binary inst/doc/DataAnalysis.Rmd | 2 inst/doc/DataAnalysis.html | 127 +++++++++++++++++++++------------------------ man/cencorreg.Rd | 4 - vignettes/DataAnalysis.Rmd | 2 10 files changed, 89 insertions(+), 87 deletions(-)
Title: Open Source Geometry Engine ('GEOS') C API
Description: Provides the Open Source Geometry Engine ('GEOS') as a
C API that can be used to write high-performance C and C++
geometry operations using R as an interface. Headers are provided
to make linking to and using these functions from C++ code as
easy and as safe as possible. This package contains an internal
copy of the 'GEOS' library to guarantee the best possible
consistency on multiple platforms.
Author: Dewey Dunnington [aut, cre] ,
GEOS authors [aut],
Martin Davis [ctb, cph],
Benjamin Campbell [ctb, cph],
Tomasz Sowa [ctb, cph],
Christian Kaiser [ctb, cph],
David Skea [ctb, cph],
Daniel Baston [ctb, cph],
Sandro Santilli [ctb, cph],
Mateusz Loskot [...truncated...]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between libgeos versions 3.11.0-2 dated 2022-10-08 and 3.11.1-1 dated 2023-01-19
DESCRIPTION | 6 MD5 | 100 +++++----- NEWS.md | 5 README.md | 4 inst/include/libgeos.h | 8 src/Makevars | 3 src/Makevars.win | 5 src/geos/algorithm/ConvexHull.cpp | 37 ++- src/geos/algorithm/PointLocator.cpp | 2 src/geos/algorithm/locate/IndexedPointInAreaLocator.cpp | 14 - src/geos/geom/GeometryFactory.cpp | 11 + src/geos/geom/LineSegment.cpp | 4 src/geos/geom/LineString.cpp | 16 - src/geos/geom/MultiLineString.cpp | 10 - src/geos/geom/prep/PreparedPolygonPredicate.cpp | 6 src/geos/geom/util/ComponentCoordinateExtracter.cpp | 5 src/geos/geom/util/GeometryEditor.cpp | 4 src/geos/geos_ts_c.cpp | 2 src/geos/noding/MCIndexSegmentSetMutualIntersector.cpp | 6 src/geos/operation/BoundaryOp.cpp |only src/geos/operation/buffer/SubgraphDepthLocater.cpp | 55 ++--- src/geos/operation/overlay/ElevationMatrix.cpp | 4 src/geos/operation/overlayng/OverlayMixedPoints.cpp | 58 +++-- src/geos/operation/overlayng/OverlayPoints.cpp | 83 ++++---- src/geos/operation/relate/RelateComputer.cpp | 28 ++ src/geos/simplify/TopologyPreservingSimplifier.cpp | 74 ------- src/geos/triangulate/quadedge/QuadEdgeSubdivision.cpp | 16 - src/geos_include/geos/geom/GeometryFactory.h | 2 src/geos_include/geos/geom/LineSegment.h | 47 ++-- src/geos_include/geos/geomgraph/Depth.h | 1 src/geos_include/geos/geomgraph/Label.h | 1 src/geos_include/geos/geomgraph/TopologyLocation.h | 1 src/geos_include/geos/index/SpatialIndex.h | 1 src/geos_include/geos/index/VertexSequencePackedRtree.h | 1 src/geos_include/geos/io/WKTWriter.h | 1 src/geos_include/geos/noding/SegmentNodeList.h | 3 src/geos_include/geos/operation/BoundaryOp.h |only src/geos_include/geos/operation/buffer/OffsetCurve.h | 1 src/geos_include/geos/operation/overlayng/OverlayLabel.h | 2 src/geos_include/geos/operation/overlayng/OverlayNG.h | 17 + src/geos_include/geos/operation/overlayng/OverlayPoints.h | 5 src/geos_include/geos/operation/relate/RelateComputer.h | 21 ++ src/geos_include/geos/precision/CommonBitsRemover.h | 1 src/geos_include/geos/shape/fractal/HilbertCode.h | 1 src/geos_include/geos/shape/fractal/HilbertEncoder.h | 1 src/geos_include/geos/shape/fractal/MortonCode.h | 1 src/geos_include/geos/triangulate/polygon/PolygonEarClipper.h | 1 src/geos_include/geos/triangulate/quadedge/QuadEdgeSubdivision.h | 4 src/geos_include/geos/version.h | 4 src/geos_include/geos_c.h | 8 src/libgeos-init.c | 8 tests/testthat/test-version.R | 2 52 files changed, 362 insertions(+), 339 deletions(-)
Title: Downloading, Reading and Analyzing PNAD COVID19 Microdata
Description: Provides tools for downloading, reading and analyzing the PNAD COVID19,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between COVIDIBGE versions 0.1.8 dated 2021-11-30 and 0.1.9 dated 2023-01-19
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/covid_deflator.R | 6 +++--- R/get_covid.R | 8 ++++---- README.md | 2 ++ 5 files changed, 17 insertions(+), 15 deletions(-)
Title: A Collection of Statistical Tools for Biologists
Description: Contains functions from: Aho, K. (2014) Foundational and Applied Statistics for Biologists using R. CRC/Taylor and Francis, Boca Raton, FL, ISBN: 978-1-4398-7338-0.
Author: Ken Aho
Maintainer: Ken Aho <kenaho1@gmail.com>
Diff between asbio versions 1.8-3 dated 2022-11-18 and 1.8-4 dated 2023-01-19
DESCRIPTION | 8 +++---- MD5 | 12 +++++------ R/selftest.prob.r | 50 ++++++++++++++++++++++++++++++++++++++-------- R/selftest_science_tck1.R | 6 ++--- inst/doc/ranef.cov.pdf |binary inst/doc/simpson.pdf |binary man/C.isotope.rd | 16 ++++---------- 7 files changed, 60 insertions(+), 32 deletions(-)
Title: Universal Storage Engine for Sparse and Dense Multidimensional
Arrays
Description: The universal storage engine 'TileDB' introduces a
powerful on-disk format for multi-dimensional arrays. It supports
dense and sparse arrays, dataframes and key-values stores, cloud
storage ('S3', 'GCS', 'Azure'), chunked arrays, multiple compression,
encryption and checksum filters, uses a fully multi-threaded
implementation, supports parallel I/O, data versioning ('time
travel'), metadata and groups. It is implemented as an embeddable
cross-platform C++ library with APIs from several languages, and
integrations.
Author: TileDB, Inc. [aut, cph],
Dirk Eddelbuettel [cre]
Maintainer: Dirk Eddelbuettel <dirk@tiledb.com>
Diff between tiledb versions 0.17.1 dated 2023-01-06 and 0.18.0 dated 2023-01-19
DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++++------ NEWS.md | 25 ++++++++++++++++++++++++- inst/include/tinyspdl |only inst/include/tinyspdl.h |only inst/tinytest/test_querycondition.R | 23 +++++++++++++++++++++++ src/libtiledb.h | 4 ++-- tools/ci/valgrind/buildTileDB.sh | 1 + tools/tiledbVersion.txt | 4 ++-- 9 files changed, 67 insertions(+), 15 deletions(-)
Title: Analysis of Physiologically Structured Population Models
Description: Performs demographic, bifurcation and evolutionary analysis of physiologically structured population models, which is a class of models that consistently translates continuous-time models of individual life history to the population level.
A model of individual life history has to be implemented specifying the individual-level functions that determine the life history, such as development and mortality rates and fecundity.
M.A. Kirkilionis, O. Diekmann, B. Lisser, M. Nool, B. Sommeijer & A.M. de Roos (2001) <doi:10.1142/S0218202501001264>.
O.Diekmann, M.Gyllenberg & J.A.J.Metz (2003) <doi:10.1016/S0040-5809(02)00058-8>.
A.M. de Roos (2008) <doi:10.1111/j.1461-0248.2007.01121.x>.
Author: Andre M. de Roos [aut, cre],
Ernst Hairer [ctb],
Gerhard Wanner [ctb]
Maintainer: Andre M. de Roos <A.M.deRoos@uva.nl>
Diff between PSPManalysis versions 0.3.8 dated 2022-04-08 and 0.3.9 dated 2023-01-19
DESCRIPTION | 8 +-- MD5 | 38 +++++++++--------- NEWS.md | 6 ++ build/vignette.rds |binary inst/C/PSPMRinterface.h | 4 - inst/C/PSPMdemo.c | 40 +++++++++---------- inst/C/PSPMecodyn.c | 58 +++++++++++++-------------- inst/C/PSPMequi.c | 82 +++++++++++++++++++-------------------- inst/C/PSPMevodyn.c | 68 ++++++++++++++++---------------- inst/C/PSPMind.c | 22 +++++----- inst/C/curve.c | 4 - inst/C/escbox/ebtbifstats.c | 4 - inst/C/escbox/ebtcohrt.c | 12 ++--- inst/C/escbox/ebtdopri5.c | 4 - inst/C/escbox/ebtinit.c | 4 - inst/C/escbox/ebtutils.c | 28 ++++++------- inst/C/escbox/ebtutils.h | 4 - inst/C/escbox/escbox.h | 4 - inst/C/io.c | 92 ++++++++++++++++++++++---------------------- src/csb2rlist.c | 24 +++++------ 20 files changed, 256 insertions(+), 250 deletions(-)
Title: Cluster Optimized Proximity Scaling
Description: Multidimensional scaling (MDS) methods that aim at pronouncing the clustered appearance of the configuration (Rusch, Mair & Hornik, 2021, <doi:10.1080/10618600.2020.1869027>). They achieve this by transforming proximities/distances with power functions and augment the fitting criterion with a clusteredness index, the OPTICS Cordillera (Rusch, Hornik & Mair, 2018, <doi:10.1080/10618600.2017.1349664>). There are two variants: One for finding the configuration directly (COPS-C) for ratio, power, interval and non-metric MDS (Borg & Groenen, 2005, ISBN:978-0-387-28981-6), and one for using the augmented fitting criterion to find optimal parameters (P-COPS). The package contains various functions, wrappers, methods and classes for fitting, plotting and displaying different MDS models in a COPS framework like ratio, interval and non-metric MDS for COPS-C and P-COPS with Torgerson scaling (Torgerson, 1958, ISBN:978-0471879459), scaling by majorizing a complex function ( [...truncated...]
Author: Thomas Rusch [aut, cre] ,
Jan de Leeuw [aut],
Patrick Mair [aut]
Maintainer: Thomas Rusch <thomas.rusch@wu.ac.at>
Diff between cops versions 1.2-0 dated 2021-03-23 and 1.3-1 dated 2023-01-19
cops-1.2-0/cops/man/plot3dstatic.cmdscale.Rd |only cops-1.2-0/cops/tests |only cops-1.3-1/cops/.Rinstignore | 3 cops-1.3-1/cops/DESCRIPTION | 17 - cops-1.3-1/cops/MD5 | 57 ++--- cops-1.3-1/cops/NAMESPACE | 2 cops-1.3-1/cops/NEWS | 9 cops-1.3-1/cops/R/cops.R | 259 ++++++++++++++------------ cops-1.3-1/cops/R/extras.R | 18 + cops-1.3-1/cops/build/partial.rdb |binary cops-1.3-1/cops/build/vignette.rds |binary cops-1.3-1/cops/man/cmdscale.Rd | 5 cops-1.3-1/cops/man/cop_apstress.Rd | 6 cops-1.3-1/cops/man/cop_cmdscale.Rd | 4 cops-1.3-1/cops/man/cop_elastic.Rd | 6 cops-1.3-1/cops/man/cop_powerelastic.Rd | 4 cops-1.3-1/cops/man/cop_powermds.Rd | 4 cops-1.3-1/cops/man/cop_powersammon.Rd | 6 cops-1.3-1/cops/man/cop_powerstress.Rd | 2 cops-1.3-1/cops/man/cop_rpowerstress.Rd | 8 cops-1.3-1/cops/man/cop_rstress.Rd | 4 cops-1.3-1/cops/man/cop_sammon.Rd | 8 cops-1.3-1/cops/man/cop_sammon2.Rd | 8 cops-1.3-1/cops/man/cop_smacofSphere.Rd | 6 cops-1.3-1/cops/man/cop_smacofSym.Rd | 10 - cops-1.3-1/cops/man/cop_sstress.Rd | 4 cops-1.3-1/cops/man/cops.Rd | 2 cops-1.3-1/cops/man/pcops.Rd | 23 +- cops-1.3-1/cops/man/plot3dstatic.cmdscaleE.Rd |only cops-1.3-1/cops/man/sammon.Rd | 5 30 files changed, 261 insertions(+), 219 deletions(-)
Title: Minimal and Uncluttered Package Documentation
Description: Generates simple and beautiful one-page HTML reference manuals
with package documentation. Math rendering and syntax highlighting are done
server-side in R such that no JavaScript libraries are needed in the
browser, which makes the documentation portable and fast to load.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between postdoc versions 1.1.0 dated 2022-12-05 and 1.2.0 dated 2023-01-19
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 3 +++ R/manual.R | 8 ++++---- man/html_manual.Rd | 4 ++-- 5 files changed, 17 insertions(+), 14 deletions(-)
Title: Spatial Objects of the Czech Republic
Description: Administrative regions and other spatial objects of the Czech Republic.
Author: Jindra Lacko [aut, cre]
Maintainer: Jindra Lacko <jindra.lacko@gmail.com>
Diff between RCzechia versions 1.10.0 dated 2022-11-24 and 1.10.1 dated 2023-01-19
DESCRIPTION | 16 +++++----- MD5 | 26 ++++++++--------- NEWS.md | 4 ++ R/volebni_okrsky.R | 10 +++--- R/vyskopis.R | 2 - README.md | 7 ++-- inst/doc/vignette.Rmd | 29 +++++++++++-------- inst/doc/vignette.html | 62 ++++++++++++++++++++++------------------- man/volebni_okrsky.Rd | 6 +-- man/vyskopis.Rd | 2 - tests/testthat/test-1-relief.R | 10 +++--- tests/testthat/test-1-volby.R | 6 +-- vignettes/relief-1.png |binary vignettes/vignette.Rmd | 29 +++++++++++-------- 14 files changed, 115 insertions(+), 94 deletions(-)
Title: Interface to 'ECMWF' and 'CDS' Data Web Services
Description: Programmatic interface to the European Centre for Medium-Range
Weather Forecasts dataset web services (ECMWF; <https://www.ecmwf.int/>)
and Copernicus's Climate Data Store (CDS;
<https://cds.climate.copernicus.eu>). Allows for easy downloads of weather
forecasts and climate reanalysis data in R.
Author: Koen Hufkens [aut, cre] ,
Reto Stauffer [ctb] ,
Elio Campitelli [ctb] ,
BlueGreen Labs [cph, fnd]
Maintainer: Koen Hufkens <koen.hufkens@gmail.com>
Diff between ecmwfr versions 1.4.0 dated 2022-08-17 and 1.5.0 dated 2023-01-19
DESCRIPTION | 14 +- MD5 | 65 +++++++------ R/service-cds-workflow.R |only R/service-cds.R | 101 ++++++++++++++------ R/service-webapi.R | 34 ++++++ R/service.R | 13 ++ R/wf_request.R | 95 ++++++++++--------- R/wf_request_batch.R | 12 ++ R/wf_transfer.R | 16 +-- R/zzz.R | 64 ++++++++++++ build/vignette.rds |binary inst/doc/ads_vignette.R | 25 ++--- inst/doc/ads_vignette.Rmd | 25 ++--- inst/doc/ads_vignette.html | 36 ++++--- inst/doc/advanced_vignette.R | 1 inst/doc/advanced_vignette.Rmd | 1 inst/doc/advanced_vignette.html | 17 ++- inst/doc/cds_vignette.R | 20 ++-- inst/doc/cds_vignette.Rmd | 20 ++-- inst/doc/cds_vignette.html | 31 ++++-- inst/doc/cds_workflow_vignette.R |only inst/doc/cds_workflow_vignette.Rmd |only inst/doc/cds_workflow_vignette.html |only inst/doc/webapi_vignette.R | 22 ++-- inst/doc/webapi_vignette.Rmd | 23 ++-- inst/doc/webapi_vignette.html | 40 ++++---- inst/extdata/cds_workflow.nc |only man/wf_request.Rd | 17 +++ tests/testthat/test_ads.R | 39 ++++--- tests/testthat/test_cds.R | 179 +++++++++++++++++++++--------------- tests/testthat/test_cds_workflows.R |only tests/testthat/test_webapi.r | 58 ++++++----- vignettes/ads_vignette.Rmd | 25 ++--- vignettes/advanced_vignette.Rmd | 1 vignettes/cds_vignette.Rmd | 20 ++-- vignettes/cds_workflow_vignette.Rmd |only vignettes/webapi_vignette.Rmd | 23 ++-- 37 files changed, 663 insertions(+), 374 deletions(-)
Title: Decode Draco Format 3D Mesh Data
Description: Decodes meshes and point cloud data encoded by the Draco mesh
compression library from Google. Note that this is only designed for basic
decoding and not intended as a full scale wrapping of the Draco library.
Author: Gregory Jefferis [aut, cre] ,
Google Inc [aut, cph]
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Diff between dracor versions 0.2.4 dated 2020-10-27 and 0.2.5 dated 2023-01-19
DESCRIPTION | 16 MD5 | 13 NEWS.md | 5 README.md | 4461 ----------------------------------- man/dracor-package.Rd | 8 man/figures |only src/RcppExports.cpp | 5 src/mesh_edgebreaker_decoder_impl.cc | 2 8 files changed, 72 insertions(+), 4438 deletions(-)
Title: Earth Observation Data Cubes from Satellite Image Collections
Description: Processing collections of Earth observation images as on-demand multispectral, multitemporal raster data cubes. Users
define cubes by spatiotemporal extent, resolution, and spatial reference system and let 'gdalcubes' automatically apply cropping, reprojection, and
resampling using the 'Geospatial Data Abstraction Library' ('GDAL'). Implemented functions on data cubes include reduction over space and time,
applying arithmetic expressions on pixel band values, moving window aggregates over time, filtering by space, time, bands, and predicates on pixel values,
exporting data cubes as 'netCDF' or 'GeoTIFF' files, plotting, and extraction from spatial and or spatiotemporal features.
All computational parts are implemented in C++, linking to the 'GDAL', 'netCDF', 'CURL', and 'SQLite' libraries.
See Appel and Pebesma (2019) <doi:10.3390/data4030092> for further details.
Author: Marius Appel [aut, cre] ,
Edzer Pebesma [ctb] ,
Roger Bivand [ctb],
Jeroen Ooms [ctb] ,
Lewis Van Winkle [cph],
Ole Christian Eidheim [cph],
Howard Hinnant [cph],
Adrian Colomitchi [cph],
Florian Dang [cph],
Paul Thompson [cph],
Tomasz Kaminski [cph] [...truncated...]
Maintainer: Marius Appel <marius.appel@uni-muenster.de>
Diff between gdalcubes versions 0.6.2 dated 2022-10-10 and 0.6.3 dated 2023-01-19
DESCRIPTION | 13 - MD5 | 35 ++-- NEWS.md | 7 R/stac.R | 38 ++++ build/vignette.rds |binary configure | 31 ++- configure.ac | 12 + inst/doc/gc01_MODIS.html | 222 +++++++++++++-------------- man/stac_image_collection.Rd | 5 src/Makevars.ucrt |only src/gdalcubes/src/coord_types.h | 2 src/gdalcubes/src/cube.cpp | 2 src/gdalcubes/src/datetime.h | 2 src/gdalcubes/src/external/json11/json11.cpp | 1 src/gdalcubes/src/filesystem.h | 1 src/gdalcubes/src/image_collection_ops.h | 1 src/gdalcubes/src/progress.h | 1 src/gdalcubes/src/utils.h | 1 src/gdalcubes/src/view.h | 2 19 files changed, 222 insertions(+), 154 deletions(-)
Title: Calibration Performance
Description: Plots calibration curves and computes statistics for assessing calibration performance. See Van Calster et al. (2016) <doi:10.1016/j.jclinepi.2015.12.005>.
Author: De Cock Bavo [aut, cre],
Nieboer Daan [aut],
Van Calster Ben [aut],
Steyerberg Ewout [aut],
Vergouwe Yvonne [aut]
Maintainer: De Cock Bavo <bavo.decock@kuleuven.be>
Diff between CalibrationCurves versions 0.1.5 dated 2022-08-13 and 1.0.0 dated 2023-01-19
DESCRIPTION | 13 +-- MD5 | 25 +++--- NAMESPACE | 5 + R/auc.nonpara.mw.R | 1 R/printFunction.R | 26 ++++++ R/rcspline.plot.noprint.R | 141 ++++++++++++++++++------------------ R/val.prob.ci.2.R | 52 +++++++++---- R/valProbggplot.R |only README.md | 4 - inst/CITATION | 9 +- man/auc.nonpara.mw.Rd | 3 man/dot-rcspline.plot.Rd | 3 man/print.ggplotCalibrationCurve.Rd |only man/val.prob.ci.2.Rd | 8 +- man/valProbggplot.Rd |only 15 files changed, 180 insertions(+), 110 deletions(-)
More information about CalibrationCurves at CRAN
Permanent link
Title: Steve's Toy Data for Teaching About a Variety of Methodological,
Social, and Political Topics
Description: This is a collection of various kinds of data with broad uses for teaching.
My students, and academics like me who teach the same topics I teach, should find
this useful if their teaching workflow is also built around the R programming
language. The applications are multiple but mostly cluster on topics of statistical
methodology, international relations, and political economy.
Author: Steve Miller [aut, cre]
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Diff between stevedata versions 0.8.0 dated 2022-11-18 and 0.9.0 dated 2023-01-19
DESCRIPTION | 6 +++--- MD5 | 36 +++++++++++++++++++++++------------- NEWS.md | 19 +++++++++++++++++-- R/rd-ESS10NO.R |only R/rd-PPGE.R |only R/rd-commodity_prices.R |only R/rd-election_turnout.R | 5 +++-- R/rd-steves_clothes.R | 2 +- R/rd-ukg_eeri.R | 8 ++++---- R/rd-usa_tradegdp.R | 7 ++++--- build |only data/ESS10NO.rda |only data/PPGE.rda |only data/commodity_prices.rda |only data/pwt_sample.rda |binary data/turnips.rda |binary data/ukg_eeri.rda |binary man/ESS10NO.Rd |only man/PPGE.Rd |only man/commodity_prices.Rd |only man/election_turnout.Rd | 5 +++-- man/steves_clothes.Rd | 2 +- man/ukg_eeri.Rd | 8 ++++---- man/usa_tradegdp.Rd | 7 ++++--- 24 files changed, 67 insertions(+), 38 deletions(-)
Title: Simulate Evapotranspiration and Soil Moisture with the SVAT
Model LWF-Brook90
Description: Provides a flexible and easy-to use interface for the soil vegetation
atmosphere transport (SVAT) model LWF-BROOK90, written in Fortran.
The model simulates daily transpiration, interception, soil and snow evaporation,
streamflow and soil water fluxes through a soil profile covered with vegetation,
as described in Hammel & Kennel (2001, ISBN:978-3-933506-16-0) and Federer et al. (2003)
<doi:10.1175/1525-7541(2003)004%3C1276:SOAETS%3E2.0.CO;2>. A set of high-level functions
for model set up, execution and parallelization provides easy access to plot-level SVAT
simulations, as well as multi-run and large-scale applications.
Author: Paul Schmidt-Walter [aut, cre]
,
Volodymyr Trotsiuk [aut] ,
Klaus Hammel [aut],
Martin Kennel [aut],
Anthony Federer [aut],
Robert Nuske [ctb] ,
Bavarian State Institute of Forestry [cph, fnd],
Northwest German Forest Research Institute [cph, fnd]
Maintainer: Paul Schmidt-Walter <paulsw@posteo.de>
Diff between LWFBrook90R versions 0.5.0 dated 2022-06-13 and 0.5.2 dated 2023-01-19
DESCRIPTION | 10 MD5 | 44 +-- NEWS.md | 20 + R/calc_globrad.R | 4 R/extract_layer_output.R | 54 ++- R/mrunLWFB90.R | 8 R/msiterunLWFB90.R | 8 R/process_outputs.R | 58 ++-- R/setparms_LWFB90.R | 4 build/vignette.rds |binary inst/doc/LWFBook90R-1-Intro.html | 325 ++++++++++++++++++++-- inst/doc/LWFBrook90R-2-Options_Param.html | 419 ++++++++++++++++++++++++++--- inst/doc/LWFBrook90R-3-Multiruns.html | 308 ++++++++++++++++++++- inst/doc/LWFBrook90R-4-Multisite-Runs.R | 2 inst/doc/LWFBrook90R-4-Multisite-Runs.Rmd | 4 inst/doc/LWFBrook90R-4-Multisite-Runs.html | 333 ++++++++++++++++++++--- inst/examples/extract_layer_output-help.R | 7 man/calc_globrad.Rd | 1 man/extract_layer_output.Rd | 40 +- man/process_outputs_LWFB90.Rd | 19 + man/set_paramLWFB90.Rd | 2 tests/testthat/test-runLWFB90.R | 8 vignettes/LWFBrook90R-4-Multisite-Runs.Rmd | 4 23 files changed, 1465 insertions(+), 217 deletions(-)
Title: Classifications and Codelists for Statistics Norway
Description: Functions to search, retrieve and apply classifications
and codelists using Statistics Norway's API <https://www.ssb.no/klass>
from the system 'KLASS'. Retrieves classifications by date with options
to choose language, hierarchical level and formatting.
Author: Susie Jentoft, Lisa Li, Diana-Cristina Iancu
Maintainer: Susie Jentoft <susie.jentoft@ssb.no>
Diff between klassR versions 0.1.11 dated 2022-06-08 and 0.2.0 dated 2023-01-19
DESCRIPTION | 10 +++++----- MD5 | 13 +++++++------ NEWS.md |only R/Hent_data.R | 23 +++++++++++++++++++++-- R/Klass_list.R | 3 +-- man/CorrespondList.Rd | 2 +- man/GetKlass.Rd | 5 ++++- tests/testthat/test_GetKlass.R | 15 +++++++++++++++ 8 files changed, 54 insertions(+), 17 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2022, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the included version of Eigen [ctb, cph],
Timot [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 0.8.0 dated 2022-12-01 and 0.8.1 dated 2023-01-19
gpboost-0.8.0/gpboost/tests/testthat/test_GPBoost_algorithm.R |only gpboost-0.8.0/gpboost/tests/testthat/test_GPBoost_algorithm_non_Gaussian_data.R |only gpboost-0.8.1/gpboost/DESCRIPTION | 8 gpboost-0.8.1/gpboost/MD5 | 92 gpboost-0.8.1/gpboost/R/GPModel.R | 325 + gpboost-0.8.1/gpboost/R/gpb.Booster.R | 16 gpboost-0.8.1/gpboost/R/gpb.cv.R | 52 gpboost-0.8.1/gpboost/configure.ac | 2 gpboost-0.8.1/gpboost/demo/generalized_linear_Gaussian_process_mixed_effects_models.R | 25 gpboost-0.8.1/gpboost/man/GPModel.Rd | 79 gpboost-0.8.1/gpboost/man/GPModel_shared_params.Rd | 61 gpboost-0.8.1/gpboost/man/fitGPModel.Rd | 85 gpboost-0.8.1/gpboost/man/predict.GPModel.Rd | 12 gpboost-0.8.1/gpboost/man/predict.gpb.Booster.Rd | 20 gpboost-0.8.1/gpboost/man/set_prediction_data.GPModel.Rd | 12 gpboost-0.8.1/gpboost/man/set_prediction_data.Rd | 12 gpboost-0.8.1/gpboost/src/DF_utils.cpp | 69 gpboost-0.8.1/gpboost/src/GP_utils.cpp | 132 gpboost-0.8.1/gpboost/src/Vecchia_utils.cpp | 41 gpboost-0.8.1/gpboost/src/c_api.cpp | 28 gpboost-0.8.1/gpboost/src/gpboost_R.cpp | 40 gpboost-0.8.1/gpboost/src/gpboost_R.h | 32 gpboost-0.8.1/gpboost/src/include/Eigen/src/Cholesky/LLT.h | 7 gpboost-0.8.1/gpboost/src/include/Eigen/src/SparseCholesky/SimplicialCholesky.h | 7 gpboost-0.8.1/gpboost/src/include/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h | 3 gpboost-0.8.1/gpboost/src/include/GPBoost/DF_utils.h | 23 gpboost-0.8.1/gpboost/src/include/GPBoost/GP_utils.h | 149 gpboost-0.8.1/gpboost/src/include/GPBoost/Vecchia_utils.h | 53 gpboost-0.8.1/gpboost/src/include/GPBoost/cov_fcts.h | 838 +++- gpboost-0.8.1/gpboost/src/include/GPBoost/likelihoods.h | 653 +-- gpboost-0.8.1/gpboost/src/include/GPBoost/re_comp.h | 413 +- gpboost-0.8.1/gpboost/src/include/GPBoost/re_model.h | 50 gpboost-0.8.1/gpboost/src/include/GPBoost/re_model_template.h | 1687 ++++------ gpboost-0.8.1/gpboost/src/include/GPBoost/sparse_matrix_utils.h | 344 +- gpboost-0.8.1/gpboost/src/include/GPBoost/type_defs.h | 15 gpboost-0.8.1/gpboost/src/include/GPBoost/utils.h | 48 gpboost-0.8.1/gpboost/src/include/LightGBM/c_api.h | 30 gpboost-0.8.1/gpboost/src/include/LightGBM/utils/log.h | 9 gpboost-0.8.1/gpboost/src/include/cs.h | 3 gpboost-0.8.1/gpboost/src/io/json11.cpp | 17 gpboost-0.8.1/gpboost/src/objective/regression_objective.hpp | 4 gpboost-0.8.1/gpboost/src/re_model.cpp | 376 +- gpboost-0.8.1/gpboost/src/sparse_matrix_utils.cpp | 93 gpboost-0.8.1/gpboost/tests/testthat/test_GPModel_combined_GP_random_effects.R | 18 gpboost-0.8.1/gpboost/tests/testthat/test_GPModel_gaussian_process.R | 724 ++-- gpboost-0.8.1/gpboost/tests/testthat/test_GPModel_grouped_random_effects.R | 63 gpboost-0.8.1/gpboost/tests/testthat/test_GPModel_non_Gaussian_data.R | 432 +- gpboost-0.8.1/gpboost/tests/testthat/test_z_GPBoost_algorithm.R |only gpboost-0.8.1/gpboost/tests/testthat/test_z_GPBoost_algorithm_non_Gaussian_data.R |only 49 files changed, 4309 insertions(+), 2893 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-22 1.0.2
2022-11-08 1.0.1
2022-10-05 1.0.0
2022-05-11 0.1.2
2021-12-20 0.1.1
2021-09-08 0.1.0