Title: Local and Global Beta Regression
Description: Fit a regression model for when the response variable is presented as a ratio or proportion. This adjustment can occur globally, with the same estimate for the entire study space, or locally, where a beta regression model is fitted for each region, considering only influential locations for that area. Da Silva, A. R. and Lima, A. O. (2017) <doi:10.1016/j.spasta.2017.07.011>.
Author: Roberto Marques [aut, cre],
Alan da Silva [aut]
Maintainer: Roberto Marques <robertomarques_23@yahoo.com.br>
Diff between gwbr versions 1.0.4 dated 2023-06-11 and 1.0.5 dated 2023-06-26
DESCRIPTION | 6 +++--- MD5 | 11 ++++++----- NEWS.md |only R/betareg_gwbr.R | 5 ++++- R/gwbr.R | 6 ++++-- man/betareg_gwbr.Rd | 2 +- man/gwbr.Rd | 2 +- 7 files changed, 19 insertions(+), 13 deletions(-)
Title: Bayesian Network Modeling and Analysis
Description: A "Shiny"" web application for creating interactive Bayesian Network models,
learning the structure and parameters of Bayesian networks, and utilities for classic
network analysis.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <pgovan1@aggienetwork.com>
Diff between BayesianNetwork versions 0.1.5 dated 2018-12-02 and 0.3 dated 2023-06-26
BayesianNetwork-0.1.5/BayesianNetwork/LICENSE |only BayesianNetwork-0.1.5/BayesianNetwork/README.md |only BayesianNetwork-0.1.5/BayesianNetwork/build |only BayesianNetwork-0.1.5/BayesianNetwork/inst/doc |only BayesianNetwork-0.1.5/BayesianNetwork/vignettes |only BayesianNetwork-0.3/BayesianNetwork/DESCRIPTION | 22 +++---- BayesianNetwork-0.3/BayesianNetwork/MD5 | 26 +++----- BayesianNetwork-0.3/BayesianNetwork/NEWS.md | 9 +++ BayesianNetwork-0.3/BayesianNetwork/R/BayesianNetwork.R | 1 BayesianNetwork-0.3/BayesianNetwork/inst/bn/dependencies.R | 3 - BayesianNetwork-0.3/BayesianNetwork/inst/bn/figure/unnamed-chunk-3-1.png |binary BayesianNetwork-0.3/BayesianNetwork/inst/bn/figure/unnamed-chunk-6-1.png |binary BayesianNetwork-0.3/BayesianNetwork/inst/bn/figure/unnamed-chunk-8-1.png |binary BayesianNetwork-0.3/BayesianNetwork/inst/bn/server.R | 25 +++++--- BayesianNetwork-0.3/BayesianNetwork/inst/bn/ui.R | 30 +++++----- BayesianNetwork-0.3/BayesianNetwork/inst/bn/www/favicon.png |binary 16 files changed, 63 insertions(+), 53 deletions(-)
More information about BayesianNetwork at CRAN
Permanent link
Title: Easy Installation of the 'ped suite' Packages for Pedigree
Analysis
Description: The 'ped suite' is a collection of packages for pedigree
analysis, covering applications in forensic genetics, medical genetics
and more. A detailed presentation of the 'ped suite' is given in the
book 'Pedigree Analysis in R' (Vigeland, 2021, ISBN: 9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
,
Thore Egeland [aut]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedsuite versions 1.1.0 dated 2022-01-07 and 1.2.0 dated 2023-06-26
pedsuite-1.1.0/pedsuite/R/pedsuite.R |only pedsuite-1.1.0/pedsuite/man/pedsuite.Rd |only pedsuite-1.2.0/pedsuite/DESCRIPTION | 8 pedsuite-1.2.0/pedsuite/MD5 | 13 pedsuite-1.2.0/pedsuite/NEWS.md | 9 pedsuite-1.2.0/pedsuite/R/pedsuite-package.R |only pedsuite-1.2.0/pedsuite/build/vignette.rds |binary pedsuite-1.2.0/pedsuite/inst/CITATION |only pedsuite-1.2.0/pedsuite/inst/doc/pedsuite.html | 561 +++++++++++++++++------- pedsuite-1.2.0/pedsuite/man/pedsuite-package.Rd |only 10 files changed, 425 insertions(+), 166 deletions(-)
Title: Take Screenshots of Web Pages
Description: Takes screenshots of web pages, including Shiny applications and R
Markdown documents.
Author: Winston Chang [aut, cre],
Yihui Xie [ctb],
Francois Guillem [ctb],
Barret Schloerke [ctb],
Nicolas Perriault [ctb]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between webshot versions 0.5.4 dated 2022-09-26 and 0.5.5 dated 2023-06-26
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/webshot.R | 2 +- README.md | 12 ++++++------ 5 files changed, 21 insertions(+), 16 deletions(-)
Title: Project Management Tools
Description: Tools for data importation, recoding, and inspection.
There are functions to create new project
folders, R code templates, create uniquely named output
directories, and to quickly obtain a visual summary for each
variable in a data frame. The main feature here is the systematic
implementation of the "variable key" framework for data
importation and recoding. We are eager to have community feedback
about the variable key and the vignette about it. In version 1.7,
the function 'semTable' is removed. It was deprecated since 1.67.
That is provided in a separate package, 'semTable'.
Author: Paul Johnson [aut, cre],
Benjamin Kite [aut],
Charles Redmon [aut],
Jared Harpole [ctb],
Kenna Whitley [ctb],
Po-Yi Chen [ctb],
Shadi Pirhosseinloo [ctb]
Maintainer: Paul Johnson <pauljohn@ku.edu>
Diff between kutils versions 1.70 dated 2020-04-29 and 1.72 dated 2023-06-26
DESCRIPTION | 11 +++-- MD5 | 88 +++++++++++++++++++++++----------------------- R/data.R | 4 +- R/textUtils.R | 6 +-- R/variableKey.R | 2 - build/vignette.rds |binary data/natlongsurv.RData |binary inst/doc/variablekey.R | 11 ++--- inst/doc/variablekey.Rnw | 5 +- inst/doc/variablekey.pdf |binary man/all.equal.keylong.Rd | 3 - man/alphaOnly.Rd | 6 +-- man/checkCoercion.Rd | 3 - man/colnamesReplace.Rd | 10 ++++- man/deleteBogusColumns.Rd | 3 - man/deleteBogusRows.Rd | 3 - man/dir.create.unique.Rd | 9 +++- man/escape.Rd | 2 - man/file.backup.Rd | 3 - man/importQualtrics.Rd | 11 ++++- man/initProject.Rd | 15 ++++++- man/keyApply.Rd | 12 +++++- man/keyCheck.Rd | 7 ++- man/keyCrossRef.Rd | 3 - man/keyDiagnostic.Rd | 11 ++++- man/keyImport.Rd | 14 +++++-- man/keyTemplate.Rd | 15 ++++++- man/keysPool.Rd | 12 ++++-- man/likert.Rd | 3 - man/long2wide.Rd | 7 ++- man/makeKeylist.Rd | 9 +++- man/mergeCheck.Rd | 10 ++++- man/n2NA.Rd | 2 - man/naLast.Rd | 8 +++- man/natlongsurv.Rd | 10 +++-- man/peek.Rd | 16 ++++++-- man/safeInteger.Rd | 9 +++- man/sortStanza.Rd | 7 ++- man/starsig.Rd | 3 - man/truncsmart.Rd | 9 +++- man/updatePackages.Rd | 9 +++- man/wide2long.Rd | 7 ++- man/writeCSV.Rd | 2 - man/zapspace.Rd | 2 - vignettes/variablekey.Rnw | 5 +- 45 files changed, 246 insertions(+), 141 deletions(-)
Title: Matched Samples that are Balanced and Representative by Design
Description: Includes functions for the construction of matched samples that are balanced and representative by design. Among others, these functions can be used for matching in observational studies with treated and control units, with cases and controls, in related settings with instrumental variables, and in discontinuity designs. Also, they can be used for the design of randomized experiments, for example, for matching before randomization. By default, 'designmatch' uses the 'highs' optimization solver, but its performance is greatly enhanced by the 'Gurobi' optimization solver and its associated R interface. For their installation, please follow the instructions at <https://www.gurobi.com/documentation/quickstart.html> and <https://www.gurobi.com/documentation/7.0/refman/r_api_overview.html>. We have also included directions in the gurobi_installation file in the inst folder.
Author: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>, Cinar Kilcioglu <ckilcioglu16@gsb.columbia.edu>, Juan P. Vielma <jvielma@mit.edu>, Eric R. Cohn <ericcohn@g.harvard.edu>
Maintainer: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>
Diff between designmatch versions 0.4.1 dated 2022-08-25 and 0.5.1 dated 2023-06-26
DESCRIPTION | 17 MD5 | 34 NAMESPACE | 16 R/bmatch.r | 881 ++++++++++--------- R/cardmatch.r | 113 ++ R/constraintmatrix.r | 908 +++++++++---------- R/nmatch.r | 1836 ++++++++++++++++++++-------------------- R/oneprob_profmatch.r | 98 +- R/problemparameters_cardmatch.r | 1 R/problemparameters_profmatch.R | 3 R/relaxation_b.r | 100 +- R/relaxation_n.r | 122 +- man/bmatch.Rd | 2 man/cardmatch.Rd | 8 man/designmatch-package.Rd | 126 +- man/distmatch.Rd | 4 man/nmatch.Rd | 6 man/profmatch.Rd | 4 18 files changed, 2345 insertions(+), 1934 deletions(-)
Title: Calculating Bilateral and Multilateral Price Indexes
Description: Preparing a scanner data set for price dynamics calculations (data selecting, data classification, data matching, data filtering). Computing bilateral and multilateral indexes. For details on these methods see: Diewert and Fox (2020)
<doi:10.1080/07350015.2020.1816176>, Białek (2019) <doi:10.2478/jos-2019-0014> or Białek (2020) <doi:10.2478/jos-2020-0037>.
Author: Jacek Bialek [aut, cre]
Maintainer: Jacek Bialek <jacek.bialek@uni.lodz.pl>
Diff between PriceIndices versions 0.1.7 dated 2023-04-11 and 0.1.8 dated 2023-06-26
DESCRIPTION | 6 ++-- MD5 | 42 +++++++++++++++++----------------- NEWS.md | 6 ++++ R/f_extensions_multilateral_indices.R | 24 +++++++++++++++++++ R/f_full_multilateral_indices.R | 8 ++++++ R/f_internal.R | 3 ++ man/geksaqi.Rd | 2 + man/geksaqi_fbew.Rd | 2 + man/geksaqi_fbmw.Rd | 2 + man/geksaqi_splice.Rd | 2 + man/geksaqu.Rd | 2 + man/geksaqu_fbew.Rd | 2 + man/geksaqu_fbmw.Rd | 2 + man/geksaqu_splice.Rd | 2 + man/wgeksaqi.Rd | 2 + man/wgeksaqi_fbew.Rd | 2 + man/wgeksaqi_fbmw.Rd | 2 + man/wgeksaqi_splice.Rd | 2 + man/wgeksaqu.Rd | 2 + man/wgeksaqu_fbew.Rd | 2 + man/wgeksaqu_fbmw.Rd | 2 + man/wgeksaqu_splice.Rd | 2 + 22 files changed, 97 insertions(+), 24 deletions(-)
Title: Segregation Analysis for Variant Interpretation
Description: An implementation of the full-likelihood Bayes factor (FLB)
for evaluating segregation evidence in clinical medical genetics. The method
was introduced by Thompson et al. (2003) <doi:10.1086/378100>, and further
popularised by Bayrak-Toydemir et al. (2008) <doi:10.1016/j.yexmp.2008.03.006>.
This implementation allows custom penetrance values and liability classes, and
includes specialised pedigree visualisations.
Author: Magnus Dehli Vigeland [aut, cre]
,
Christian Carrizosa [aut]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between segregatr versions 0.2.0 dated 2021-04-15 and 0.3.0 dated 2023-06-26
DESCRIPTION | 23 +- MD5 | 26 +-- NEWS.md | 15 + R/FLB.R | 268 ++++++++++++++++++++++++--------- R/penetrances.R |only R/plotSegregation.R | 158 +++++++++++++++---- R/startdata_causative_X.R |only R/utils.R | 36 ---- README.md | 31 ++- build/partial.rdb |binary man/FLB.Rd | 194 ++++++++++++++--------- man/figures/README-sibex-1.png |binary man/plotSegregation.Rd | 132 ++++++++++------ tests/testthat/Rplots.pdf |only tests/testthat/test-intro-errors.R |only tests/testthat/test-other-examples.R |only tests/testthat/test-segregation-plot.R |only 17 files changed, 596 insertions(+), 287 deletions(-)
Title: Client for Delphi's 'COVIDcast Epidata' API
Description: Tools for Delphi's 'COVIDcast Epidata' API: data access, maps and
time series plotting, and basic signal processing. The API includes a
collection of numerous indicators relevant to the COVID-19 pandemic in the
United States, including official reports, de-identified aggregated medical
claims data, large-scale surveys of symptoms and public behavior, and
mobility data, typically updated daily and at the county level. All data
sources are documented at
<https://cmu-delphi.github.io/delphi-epidata/api/covidcast.html>.
Author: Taylor Arnold [aut],
Jacob Bien [aut],
Logan Brooks [aut],
Sarah Colquhoun [aut],
David Farrow [aut],
Jed Grabman [ctb],
Pedrito Maynard-Zhang [ctb],
Kathryn Mazaitis [aut],
Alex Reinhart [aut, cre] ,
Ryan Tibshirani [aut]
Maintainer: Alex Reinhart <areinhar@stat.cmu.edu>
Diff between covidcast versions 0.5.0 dated 2023-06-01 and 0.5.1 dated 2023-06-26
DESCRIPTION | 8 MD5 | 40 ++-- NEWS.md | 10 + R/covidcast.R | 2 inst/doc/covidcast.R | 16 - inst/doc/covidcast.Rmd | 16 - inst/doc/covidcast.html | 352 ++++++++++++++++++------------------ inst/doc/external-data.R | 2 inst/doc/external-data.Rmd | 2 inst/doc/external-data.html | 84 ++++---- inst/doc/multi-signals.R | 6 inst/doc/multi-signals.Rmd | 6 inst/doc/multi-signals.html | 392 +++++++++++++++++++++-------------------- inst/doc/plotting-signals.R | 64 +++--- inst/doc/plotting-signals.Rmd | 89 ++++----- inst/doc/plotting-signals.html | 108 +++++------ man/covidcast_signals.Rd | 5 vignettes/covidcast.Rmd | 16 - vignettes/external-data.Rmd | 2 vignettes/multi-signals.Rmd | 6 vignettes/plotting-signals.Rmd | 89 ++++----- 21 files changed, 670 insertions(+), 645 deletions(-)
Title: Analysis of Honeycomb Selection Designs
Description: A useful statistical tool for the construction and analysis of Honeycomb Selection Designs. More information about this type of designs: Fasoula V. (2013) <doi:10.1002/9781118497869.ch6> Fasoula V.A., and Tokatlidis I.S. (2012) <doi:10.1007/s13593-011-0034-0> Fasoulas A.C., and Fasoula V.A. (1995) <doi:10.1002/9780470650059.ch3> Tokatlidis I. (2016) <doi:10.1017/S0014479715000150> Tokatlidis I., and Vlachostergios D. (2016) <doi:10.3390/d8040029>.
Author: Anastasios Katsileros [aut],
Nikos Antonetsis [aut, cre],
Marietta Gkika [aut],
Eleni Tani [aut],
Ioannis Tokatlidis [aut],
Penelope Bebeli [aut]
Maintainer: Nikos Antonetsis <stud610027@aua.gr>
Diff between rhoneycomb versions 2.0.0 dated 2023-02-11 and 2.3.3 dated 2023-06-26
DESCRIPTION | 6 - MD5 | 26 ++-- NEWS.md | 58 ++++++++++ R/analysis.R | 184 ++++++++++++++++++++++++++++++--- R/blocks.R | 7 + R/main.R | 2 inst/doc/rhoneycomb_documentation.R | 2 inst/doc/rhoneycomb_documentation.Rmd | 4 inst/doc/rhoneycomb_documentation.html | 169 ++++++++++++++---------------- man/HSD.Rd | 4 man/HSD0.Rd | 2 man/HSD01.Rd | 2 man/analysis.Rd | 4 vignettes/rhoneycomb_documentation.Rmd | 4 14 files changed, 348 insertions(+), 126 deletions(-)
Title: Managing and Visualizing Brain Surface Data
Description: Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' <http://freesurfer.net/> on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.
Author: Tim Schaefer [aut, cre]
Maintainer: Tim Schaefer <ts+code@rcmd.org>
Diff between fsbrain versions 0.5.3 dated 2022-02-12 and 0.5.4 dated 2023-06-26
fsbrain-0.5.3/fsbrain/man/merge.hemi.annots.Rd |only fsbrain-0.5.3/fsbrain/man/sort.coloredmeshes.by.hemi.Rd |only fsbrain-0.5.4/fsbrain/DESCRIPTION | 8 fsbrain-0.5.4/fsbrain/MD5 | 82 fsbrain-0.5.4/fsbrain/NAMESPACE | 5 fsbrain-0.5.4/fsbrain/R/cbar.R | 56 fsbrain-0.5.4/fsbrain/R/cbar_magick.R | 20 fsbrain-0.5.4/fsbrain/R/coloredmesh.R | 12 fsbrain-0.5.4/fsbrain/R/fsdir_abstraction_subject.R | 2 fsbrain-0.5.4/fsbrain/R/highlight.R | 2 fsbrain-0.5.4/fsbrain/R/morph_atlas_agg.R | 2 fsbrain-0.5.4/fsbrain/R/optdata.R | 12 fsbrain-0.5.4/fsbrain/R/rglactions.R | 7 fsbrain-0.5.4/fsbrain/R/seg_stats.R | 102 fsbrain-0.5.4/fsbrain/R/spherical.R | 8 fsbrain-0.5.4/fsbrain/R/vis_meshes.R | 4 fsbrain-0.5.4/fsbrain/R/vis_multiview.R | 63 fsbrain-0.5.4/fsbrain/R/vis_volume_3d.R | 6 fsbrain-0.5.4/fsbrain/build/vignette.rds |binary fsbrain-0.5.4/fsbrain/inst/CITATION | 20 fsbrain-0.5.4/fsbrain/inst/doc/fsbrain.html | 1379 ++++++---- fsbrain-0.5.4/fsbrain/inst/doc/fsbrain_faq.R | 6 fsbrain-0.5.4/fsbrain/inst/doc/fsbrain_faq.Rmd | 51 fsbrain-0.5.4/fsbrain/inst/doc/fsbrain_faq.html | 994 +++++-- fsbrain-0.5.4/fsbrain/inst/doc/fsbrain_vol.html | 501 ++- fsbrain-0.5.4/fsbrain/man/check.subjects.files.Rd | 4 fsbrain-0.5.4/fsbrain/man/coloredmesh.plot.colorbar.separate.Rd | 9 fsbrain-0.5.4/fsbrain/man/combine.colorbar.with.brainview.image.Rd | 5 fsbrain-0.5.4/fsbrain/man/combine.colorbar.with.brainview.image.vertical.Rd | 5 fsbrain-0.5.4/fsbrain/man/draw.colorbar.Rd | 2 fsbrain-0.5.4/fsbrain/man/mergehemi.annots.Rd |only fsbrain-0.5.4/fsbrain/man/qc.from.regionwise.df.Rd | 2 fsbrain-0.5.4/fsbrain/man/qc.report.html.Rd |only fsbrain-0.5.4/fsbrain/man/rglvoxels.Rd | 2 fsbrain-0.5.4/fsbrain/man/sjld.Rd |only fsbrain-0.5.4/fsbrain/man/sortcoloredmeshes.by.hemi.Rd |only fsbrain-0.5.4/fsbrain/man/subject.report.html.Rd |only fsbrain-0.5.4/fsbrain/man/vis.symmetric.data.on.subject.Rd | 3 fsbrain-0.5.4/fsbrain/tests/testthat/helper-functions.R | 4 fsbrain-0.5.4/fsbrain/tests/testthat/test-curvature.R | 1 fsbrain-0.5.4/fsbrain/tests/testthat/test-issue50.R |only fsbrain-0.5.4/fsbrain/tests/testthat/test-morph_atlas_agg.R | 2 fsbrain-0.5.4/fsbrain/tests/testthat/test-spherical.R | 10 fsbrain-0.5.4/fsbrain/tests/testthat/test-volume.R | 8 fsbrain-0.5.4/fsbrain/tests/testthat/test-y_vis_multiview.R | 4 fsbrain-0.5.4/fsbrain/vignettes/fsbrain_faq.Rmd | 51 46 files changed, 2468 insertions(+), 986 deletions(-)
Title: Dynamic Web-Based Analytics for the Energy Industry
Description: A 'Shiny' web application for energy industry analytics.
Take an overview of the industry, measure Key Performance Indicators,
identify changes in the industry over time, and discover new relationships in the data.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <pgovan1@aggienetwork.com>
Diff between eAnalytics versions 0.1.4 dated 2018-12-02 and 0.3 dated 2023-06-26
eAnalytics-0.1.4/eAnalytics/build |only eAnalytics-0.1.4/eAnalytics/inst/doc |only eAnalytics-0.1.4/eAnalytics/vignettes |only eAnalytics-0.3/eAnalytics/DESCRIPTION | 20 ++++++------ eAnalytics-0.3/eAnalytics/MD5 | 20 ++++-------- eAnalytics-0.3/eAnalytics/NAMESPACE | 1 eAnalytics-0.3/eAnalytics/NEWS.md | 8 ++++ eAnalytics-0.3/eAnalytics/R/eAnalytics.R | 1 eAnalytics-0.3/eAnalytics/README.md | 35 +++++++-------------- eAnalytics-0.3/eAnalytics/inst/app/dependencies.r | 2 - eAnalytics-0.3/eAnalytics/inst/app/ui.r | 18 +++------- eAnalytics-0.3/eAnalytics/inst/app/www/favicon.png |binary 12 files changed, 44 insertions(+), 61 deletions(-)
Title: Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
Description: Pipeline tools coordinate the pieces of computationally
demanding analysis projects.
The 'targets' package is a 'Make'-like pipeline tool for statistics and
data science in R. The package skips costly runtime for tasks
that are already up to date,
orchestrates the necessary computation with implicit parallel computing,
and abstracts files as R objects. If all the current output matches
the current upstream code and data, then the whole pipeline is up
to date, and the results are more trustworthy than otherwise.
The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre]
,
Matthew T. Warkentin [ctb],
Mark Edmondson [ctb] ,
Samantha Oliver [rev] ,
Tristan Mahr [rev] ,
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between targets versions 1.1.2 dated 2023-05-23 and 1.2.0 dated 2023-06-26
DESCRIPTION | 26 ++-- MD5 | 81 +++++++-------- NEWS.md | 19 +++ R/class_active.R | 1 R/class_builder.R | 12 -- R/class_clustermq.R | 2 R/class_crew.R | 53 ++++------ R/class_database.R | 126 ++++++++++-------------- R/class_future.R | 2 R/class_local.R | 2 R/class_runtime.R | 9 + R/class_target.R | 4 R/tar_config_get.R | 6 + R/tar_config_set.R | 44 ++++++++ R/tar_crew.R | 1 R/tar_deps.R | 1 R/tar_glimpse.R | 2 R/tar_make.R | 27 +++-- R/tar_visnetwork.R | 4 R/tar_watch.R | 22 +--- R/tar_watch_ui.R | 6 - R/utils_time.R | 16 +-- inst/doc/overview.Rmd | 29 +---- inst/doc/overview.html | 183 +++++++++++++++++++++++------------ inst/pipelines/use_targets.R | 39 +++++-- man/tar_config_set.Rd | 13 ++ man/tar_crew.Rd | 1 man/tar_deps.Rd | 2 man/tar_glimpse.Rd | 2 man/tar_make.Rd | 10 + man/tar_visnetwork.Rd | 4 tests/testthat/helper-utils.R | 15 -- tests/testthat/test-class_aws.R | 1 tests/testthat/test-class_crew.R | 58 +++++++---- tests/testthat/test-class_gcp.R | 1 tests/testthat/test-class_options.R | 8 + tests/testthat/test-class_runtime.R | 8 + tests/testthat/test-tar_config_set.R | 44 ++++++++ tests/testthat/test-tar_make.R | 16 +-- tests/testthat/test-tar_option_set.R | 4 tests/testthat/test-utils_time.R |only vignettes/overview.Rmd | 29 +---- 42 files changed, 564 insertions(+), 369 deletions(-)
Title: A Simulation Framework for Spatiotemporal Population Genetics
Description: A framework for simulating spatially explicit genomic data which
leverages real cartographic information for programmatic and visual encoding
of spatiotemporal population dynamics on real geographic landscapes. Population
genetic models are then automatically executed by the 'SLiM' software by Haller
et al. (2019) <doi:10.1093/molbev/msy228> behind the scenes, using a custom
built-in simulation 'SLiM' script. Additionally, fully abstract spatial models
not tied to a specific geographic location are supported, and users can also
simulate data from standard, non-spatial, random-mating models. These can be
simulated either with the 'SLiM' built-in back-end script, or using an efficient
coalescent population genetics simulator 'msprime' by Baumdicker et al. (2022)
<doi:10.1093/genetics/iyab229> with a custom-built 'Python' script bundled with the
R package. Simulated genomic data is saved in a tree-sequence format and can be
loaded, manipulated, and summarised using tree-sequen [...truncated...]
Author: Martin Petr [aut, cre]
Maintainer: Martin Petr <contact@bodkan.net>
Diff between slendr versions 0.6.0 dated 2023-06-07 and 0.7.0 dated 2023-06-26
DESCRIPTION | 6 MD5 | 112 ++++++------ NEWS.md | 12 + R/interface.R | 9 + R/tree-sequences.R | 112 ++++-------- R/visualization.R | 5 R/zzz.R | 2 README.md | 2 inst/doc/vignette-01-tutorial.html | 208 ++++++++++++------------ inst/doc/vignette-02-grid-model.R | 2 inst/doc/vignette-02-grid-model.Rmd | 2 inst/doc/vignette-02-grid-model.html | 10 - inst/doc/vignette-05-tree-sequences.Rmd | 2 inst/doc/vignette-05-tree-sequences.html | 26 +-- inst/doc/vignette-06-locations.html | 14 - inst/doc/vignette-07-backends.html | 2 inst/doc/vignette-08-nonslendr-tskit.html | 4 inst/doc/vignette-09-paper.html | 8 inst/extdata/models/introgression.trees |binary inst/extdata/models/introgression/checksums.tsv | 4 inst/extdata/models/introgression/script.py | 4 inst/extdata/models/introgression/script.slim | 2 inst/extdata/models/msprime.trees |binary man/plot_model.Rd | 10 + man/ts_afs.Rd | 2 man/ts_ancestors.Rd | 2 man/ts_coalesced.Rd | 2 man/ts_descendants.Rd | 2 man/ts_divergence.Rd | 2 man/ts_diversity.Rd | 2 man/ts_draw.Rd | 2 man/ts_edges.Rd | 2 man/ts_f4ratio.Rd | 4 man/ts_fst.Rd | 2 man/ts_genotypes.Rd | 8 man/ts_ibd.Rd | 2 man/ts_load.Rd | 51 +---- man/ts_nodes.Rd | 2 man/ts_phylo.Rd | 4 man/ts_recapitate.Rd | 3 man/ts_samples.Rd | 2 man/ts_segregating.Rd | 2 man/ts_simplify.Rd | 7 man/ts_table.Rd | 5 man/ts_tajima.Rd | 2 man/ts_tree.Rd | 2 tests/testthat/helper-functions.R | 12 - tests/testthat/test-geneflow.R | 2 tests/testthat/test-msprime-geneflow.R | 22 +- tests/testthat/test-population.R | 39 ++++ tests/testthat/test-trees.R | 23 +- tests/testthat/test-ts-ancestors-descendants.R | 5 tests/testthat/test-ts-pure-nonspatial.R | 9 - tests/testthat/test-ts-pure-spatial.R | 6 tests/testthat/test-ts.R | 130 +++++++-------- vignettes/vignette-02-grid-model.Rmd | 2 vignettes/vignette-05-tree-sequences.Rmd | 2 57 files changed, 470 insertions(+), 452 deletions(-)
Title: Hyperparameter Optimization for 'mlr3'
Description: Hyperparameter optimization package of the 'mlr3' ecosystem. It
features highly configurable search spaces via the 'paradox' package and
finds optimal hyperparameter configurations for any 'mlr3' learner.
'mlr3tuning' works with several optimization algorithms e.g. Random
Search, Iterated Racing, Bayesian Optimization (in 'mlr3mbo') and
Hyperband (in 'mlr3hyperband'). Moreover, it can automatically optimize
learners and estimate the performance of optimized models with nested
resampling.
Author: Marc Becker [cre, aut] ,
Michel Lang [aut] ,
Jakob Richter [aut] ,
Bernd Bischl [aut] ,
Daniel Schalk [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3tuning versions 0.18.0 dated 2023-03-08 and 0.19.0 dated 2023-06-26
DESCRIPTION | 12 ++++--- MD5 | 55 ++++++++++++++++++--------------- NEWS.md | 7 ++++ R/AutoTuner.R | 14 ++++++-- R/Tuner.R | 2 - R/TuningInstanceMulticrit.R | 2 - R/TuningInstanceSingleCrit.R | 6 +-- R/mlr_callbacks.R | 65 ++++++++++++++++++++++++++++++++++++++++ R/tune.R | 4 +- R/zzz.R | 1 README.md | 38 +++++++++++------------ build/partial.rdb |binary build/vignette.rds |only inst/doc |only man/AutoTuner.Rd | 7 +++- man/Tuner.Rd | 2 - man/TuningInstanceMultiCrit.Rd | 2 - man/TuningInstanceSingleCrit.Rd | 6 +-- man/auto_tuner.Rd | 4 +- man/mlr3tuning.measures.Rd |only man/mlr_tuners_cmaes.Rd | 2 - man/mlr_tuners_design_points.Rd | 2 - man/mlr_tuners_gensa.Rd | 2 - man/mlr_tuners_grid_search.Rd | 2 - man/mlr_tuners_irace.Rd | 2 - man/mlr_tuners_nloptr.Rd | 2 - man/mlr_tuners_random_search.Rd | 2 - man/ti.Rd | 6 +-- man/tune.Rd | 4 +- vignettes |only 30 files changed, 170 insertions(+), 81 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 2.12.0 dated 2023-05-22 and 2.13.0 dated 2023-06-26
DESCRIPTION | 8 MD5 | 35 ++- NAMESPACE | 3 NEWS.md | 5 R/mrs_data_display.R | 24 ++ R/mrs_data_proc.R | 67 +++++-- R/utils.R | 82 +++++++- R/varpro_basic.R | 63 +++--- inst/doc/abfit-baseline-opts.html | 50 ++--- inst/doc/spant-basis-simulation.html | 42 ++-- inst/doc/spant-intro.html | 284 +++++++++++++++--------------- inst/doc/spant-metabolite-simulation.html | 234 ++++++++++++------------ inst/doc/spant-preprocessing.html | 40 ++-- man/auto_phase.Rd | 4 man/crop_basis.Rd |only man/plot_spec_sd.Rd |only man/scale_basis_amp.Rd |only man/sim_brain_1h.Rd | 10 - man/varpro_basic_opts.Rd | 6 tests/testthat/test_fitting.R | 3 20 files changed, 560 insertions(+), 400 deletions(-)
Title: Conducts Mokken Scale Analysis
Description: Contains functions for performing Mokken
scale analysis on test and questionnaire data.
It includes an automated item selection algorithm, and various checks of model assumptions.
Author: L. Andries van der Ark [aut, cre],
Letty Koopman [aut],
J. Hendrik Straat [ctb],
Don van den Bergh [ctb]
Maintainer: L. Andries van der Ark <L.A.vanderArk@uva.nl>
Diff between mokken versions 3.0.6 dated 2021-03-08 and 3.1.0 dated 2023-06-26
mokken-3.0.6/mokken/inst/doc |only mokken-3.1.0/mokken/DESCRIPTION | 8 mokken-3.1.0/mokken/MD5 | 93 +++--- mokken-3.1.0/mokken/R/ICC.R | 3 mokken-3.1.0/mokken/R/MLcoefH.R | 2 mokken-3.1.0/mokken/R/MLweight.R | 10 mokken-3.1.0/mokken/R/aisp.R | 2 mokken-3.1.0/mokken/R/check.ca.R | 4 mokken-3.1.0/mokken/R/check.iio.R | 135 ++++++++- mokken-3.1.0/mokken/R/check.monotonicity.R | 141 +++++++++ mokken-3.1.0/mokken/R/check.restscore.R | 2 mokken-3.1.0/mokken/R/coefH.R | 31 +- mokken-3.1.0/mokken/R/internalFunctions.R | 145 ++++------ mokken-3.1.0/mokken/R/plot.iio.class.R | 79 ++++- mokken-3.1.0/mokken/R/plot.monotonicity.class.R | 127 +++++++- mokken-3.1.0/mokken/R/search.normal.R | 271 +++++++++++++++++-- mokken-3.1.0/mokken/R/summary.iio.class.R | 171 ++++++++--- mokken-3.1.0/mokken/R/summary.monotonicity.class.R | 84 ++++- mokken-3.1.0/mokken/R/twoway.R | 5 mokken-3.1.0/mokken/build/partial.rdb |binary mokken-3.1.0/mokken/inst/CITATION | 20 - mokken-3.1.0/mokken/man/ICC.Rd | 9 mokken-3.1.0/mokken/man/MLcoefH.Rd | 82 +++-- mokken-3.1.0/mokken/man/MLcoefZ.Rd | 30 +- mokken-3.1.0/mokken/man/MLweight.Rd | 2 mokken-3.1.0/mokken/man/SWMD.Rd | 7 mokken-3.1.0/mokken/man/SWMDK.Rd | 17 - mokken-3.1.0/mokken/man/acl.Rd | 3 mokken-3.1.0/mokken/man/aisp.Rd | 40 +- mokken-3.1.0/mokken/man/check.errors.Rd | 3 mokken-3.1.0/mokken/man/check.iio.Rd | 31 +- mokken-3.1.0/mokken/man/check.monotonicity.Rd | 25 + mokken-3.1.0/mokken/man/check.pmatrix.Rd | 3 mokken-3.1.0/mokken/man/check.reliability.Rd | 3 mokken-3.1.0/mokken/man/check.restscore.Rd | 3 mokken-3.1.0/mokken/man/coefH.Rd | 32 +- mokken-3.1.0/mokken/man/coefZ.Rd | 31 +- mokken-3.1.0/mokken/man/mokken-package.Rd | 83 +++-- mokken-3.1.0/mokken/man/plot.iio.class.Rd | 21 + mokken-3.1.0/mokken/man/plot.monotonicity.class.Rd | 19 + mokken-3.1.0/mokken/man/plot.pmatrix.class.Rd | 3 mokken-3.1.0/mokken/man/plot.restscore.class.Rd | 3 mokken-3.1.0/mokken/man/summary.iio.class.Rd | 20 + mokken-3.1.0/mokken/man/summary.monotonicity.cass.Rd | 19 + mokken-3.1.0/mokken/man/summary.pmatrix.class.Rd | 3 mokken-3.1.0/mokken/man/summary.restscore.class.Rd | 3 mokken-3.1.0/mokken/src/Makevars | 1 mokken-3.1.0/mokken/src/Makevars.win | 1 48 files changed, 1345 insertions(+), 485 deletions(-)
Title: Analyze Big Files Without Loading Them in Memory
Description: A simple set of wrapper functions for data.table::fread() that allows subsetting or
filtering rows and selecting columns of table-formatted files too large for the available RAM.
'b stands for 'big files'.
bread makes heavy use of Unix commands like 'grep', 'sed', 'wc', 'awk' and 'cut'. They are available
by default in all Unix environments.
For Windows, you need to install those commands externally in order to simulate a
Unix environment and make sure that the executables are in the Windows PATH variable.
To my knowledge, the simplest ways are to install 'RTools', 'Git' or 'Cygwin'. If they have been
correctly installed (with the expected registry entries), they should be detected on loading
the package and the correct directories will be added automatically to the PATH.
Author: Vincent Guegan [aut, cre]
Maintainer: Vincent Guegan <vincent.guegan@banque-france.fr>
Diff between bread versions 0.3.1 dated 2022-11-15 and 0.4.1 dated 2023-06-26
DESCRIPTION | 6 MD5 | 36 +- R/bcolnames.R | 82 +++-- R/bfile_split.R | 684 +++++++++++++++++++++++++------------------------- R/bfilter.R | 172 ++++++------ R/bnrow.R | 68 ++-- R/bnumrange.R | 137 +++++----- R/bread.R | 487 ++++++++++++++++++----------------- R/bselect.R | 89 +++--- R/bsep.R | 109 ++++--- R/bsubset.R | 123 ++++---- R/helper_functions.R | 65 ---- README.md | 64 ++-- inst/extdata/test.csv | 58 ++-- man/bfile_split.Rd | 152 +++++------ man/bfilter.Rd | 118 ++++---- man/bread.Rd | 232 ++++++++-------- man/bsep.Rd | 54 +-- man/bsubset.Rd | 112 ++++---- 19 files changed, 1425 insertions(+), 1423 deletions(-)
Title: Extended Joint Models for Longitudinal and Time-to-Event Data
Description: Fit joint models for longitudinal and time-to-event data under the Bayesian approach. Multiple longitudinal outcomes of mixed type (continuous/categorical) and multiple event times (competing risks and multi-state processes) are accommodated. Rizopoulos (2012, ISBN:9781439872864).
Author: Dimitris Rizopoulos [aut, cre]
,
Grigorios Papageorgiou [aut],
Pedro Miranda Afonso [aut]
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between JMbayes2 versions 0.4-0 dated 2023-03-13 and 0.4-5 dated 2023-06-26
DESCRIPTION | 11 - MD5 | 34 ++-- NAMESPACE | 5 NEWS.md | 8 R/accuracy_measures.R | 404 +++++++++++++++++++++++++++++++++++++++---------- R/basic_methods.R | 71 ++++++-- R/help_functions.R | 71 ++++++-- R/jm.R | 30 ++- R/jm_fit.R | 54 ++++-- R/predict_funs.R | 92 +++++++---- man/JMbayes2.Rd | 4 man/accuracy.Rd | 17 +- man/jm.Rd | 6 man/predict.Rd | 12 - src/JMbayes2_Funs.h | 2 src/JMbayes2_LogDens.h | 8 src/JMbayes2_Surv.h | 94 +++++------ src/mcmc_fit.cpp | 25 +-- 18 files changed, 682 insertions(+), 266 deletions(-)
Title: Create Compact Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation of hash
digests of arbitrary R objects (using the 'md5', 'sha-1', 'sha-256', 'crc32',
'xxhash', 'murmurhash', 'spookyhash' and 'blake3' algorithms) permitting easy
comparison of R language objects, as well as functions such as'hmac()' to
create hash-based message authentication code. Please note that this package
is not meant to be deployed for cryptographic purposes for which more
comprehensive (and widely tested) libraries such as 'OpenSSL' should be
used.
Author: Dirk Eddelbuettel <edd@debian.org> with contributions
by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek,
Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen,
Duncan Murdoch, Jim Hester, Wush Wu, Qiang Kou, Thierry Onkelinx,
[...truncated...]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between digest versions 0.6.31 dated 2022-12-11 and 0.6.32 dated 2023-06-26
ChangeLog | 50 ++++++ DESCRIPTION | 10 - MD5 | 41 +++-- R/AES.R | 23 ++ R/digest.R | 9 - R/init.R | 6 R/vdigest.R | 8 - README.md | 20 +- build/vignette.rds |binary inst/doc/sha1.html | 371 ++++++++++++++++++++++++----------------------- inst/tinytest/test_aes.R | 55 ++++++ man/AES.Rd | 12 + man/digest.Rd | 17 +- man/vdigest.Rd | 4 src/Makevars | 2 src/Makevars.win |only src/crc32c |only src/crc32c.cpp |only src/crc32c.h |only src/crc32c_portable.cpp |only src/digest.c | 29 +++ src/init.c | 2 22 files changed, 420 insertions(+), 239 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)
<https://CRAN.R-project.org/package=mirai> 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@gmail.com>
Diff between crew versions 0.2.1 dated 2023-05-22 and 0.3.0 dated 2023-06-26
crew-0.2.1/crew/R/crew_router.R |only crew-0.2.1/crew/R/utils_data.R |only crew-0.2.1/crew/inst/doc/controller_groups.R |only crew-0.2.1/crew/inst/doc/controller_groups.Rmd |only crew-0.2.1/crew/inst/doc/controller_groups.html |only crew-0.2.1/crew/inst/doc/launcher_plugins.R |only crew-0.2.1/crew/inst/doc/launcher_plugins.Rmd |only crew-0.2.1/crew/inst/doc/launcher_plugins.html |only crew-0.2.1/crew/man/crew_class_router.Rd |only crew-0.2.1/crew/man/crew_router.Rd |only crew-0.2.1/crew/tests/testthat/test-crew_router.R |only crew-0.2.1/crew/vignettes/controller_groups.Rmd |only crew-0.2.1/crew/vignettes/launcher_plugins.Rmd |only crew-0.3.0/crew/DESCRIPTION | 8 crew-0.3.0/crew/MD5 | 126 +- crew-0.3.0/crew/NAMESPACE | 7 crew-0.3.0/crew/NEWS.md | 18 crew-0.3.0/crew/R/class_monad.R | 41 crew-0.3.0/crew/R/crew_client.R |only crew-0.3.0/crew/R/crew_controller.R | 554 ++++------- crew-0.3.0/crew/R/crew_controller_group.R | 82 - crew-0.3.0/crew/R/crew_controller_local.R | 11 crew-0.3.0/crew/R/crew_eval.R | 14 crew-0.3.0/crew/R/crew_launcher.R | 286 ++++- crew-0.3.0/crew/R/crew_launcher_local.R | 40 crew-0.3.0/crew/R/crew_package.R | 2 crew-0.3.0/crew/R/crew_random_name.R | 5 crew-0.3.0/crew/R/crew_schedule.R |only crew-0.3.0/crew/R/utils_daemons.R |only crew-0.3.0/crew/R/utils_names.R | 4 crew-0.3.0/crew/R/utils_packages.R | 40 crew-0.3.0/crew/build/vignette.rds |binary crew-0.3.0/crew/inst/WORDLIST | 1 crew-0.3.0/crew/inst/doc/groups.R |only crew-0.3.0/crew/inst/doc/groups.Rmd |only crew-0.3.0/crew/inst/doc/groups.html |only crew-0.3.0/crew/inst/doc/plugins.R |only crew-0.3.0/crew/inst/doc/plugins.Rmd |only crew-0.3.0/crew/inst/doc/plugins.html |only crew-0.3.0/crew/inst/doc/shiny.Rmd | 24 crew-0.3.0/crew/inst/doc/shiny.html | 466 +++++---- crew-0.3.0/crew/man/crew-package.Rd | 7 crew-0.3.0/crew/man/crew_class_client.Rd |only crew-0.3.0/crew/man/crew_class_controller.Rd | 247 ++-- crew-0.3.0/crew/man/crew_class_controller_group.Rd | 45 crew-0.3.0/crew/man/crew_class_launcher.Rd | 288 ++++- crew-0.3.0/crew/man/crew_class_launcher_local.Rd | 40 crew-0.3.0/crew/man/crew_class_schedule.Rd |only crew-0.3.0/crew/man/crew_client.Rd |only crew-0.3.0/crew/man/crew_controller.Rd | 26 crew-0.3.0/crew/man/crew_controller_group.Rd | 11 crew-0.3.0/crew/man/crew_controller_local.Rd | 14 crew-0.3.0/crew/man/crew_eval.Rd | 9 crew-0.3.0/crew/man/crew_launcher.Rd | 28 crew-0.3.0/crew/man/crew_launcher_local.Rd | 24 crew-0.3.0/crew/man/crew_random_name.Rd | 5 crew-0.3.0/crew/man/crew_schedule.Rd |only crew-0.3.0/crew/tests/launchers/test-launcher-system2.R | 12 crew-0.3.0/crew/tests/mirai |only crew-0.3.0/crew/tests/testthat/helper-utils.R | 14 crew-0.3.0/crew/tests/testthat/test-class_monad.R | 7 crew-0.3.0/crew/tests/testthat/test-crew_client.R |only crew-0.3.0/crew/tests/testthat/test-crew_controller.R | 12 crew-0.3.0/crew/tests/testthat/test-crew_controller_group.R | 71 - crew-0.3.0/crew/tests/testthat/test-crew_controller_local.R | 155 +-- crew-0.3.0/crew/tests/testthat/test-crew_launcher.R | 142 ++ crew-0.3.0/crew/tests/testthat/test-crew_launcher_local.R | 101 -- crew-0.3.0/crew/tests/testthat/test-crew_random_name.R | 1 crew-0.3.0/crew/tests/testthat/test-crew_schedule.R |only crew-0.3.0/crew/tests/testthat/test-crew_worker.R | 1 crew-0.3.0/crew/tests/testthat/test-utils_packages.R | 17 crew-0.3.0/crew/tests/throughput/test-backlog-seconds_idle.R | 11 crew-0.3.0/crew/tests/throughput/test-backlog-tasks_max.R | 10 crew-0.3.0/crew/tests/throughput/test-persistent-autoscale.R | 5 crew-0.3.0/crew/tests/throughput/test-schedule.R |only crew-0.3.0/crew/tests/throughput/test-transient-wait.R | 15 crew-0.3.0/crew/tests/throughput/test-transient.R | 9 crew-0.3.0/crew/vignettes/groups.Rmd |only crew-0.3.0/crew/vignettes/plugins.Rmd |only crew-0.3.0/crew/vignettes/shiny.Rmd | 24 80 files changed, 1781 insertions(+), 1299 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)
<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) <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],
Aaron Lun [ctb],
Mohamed Nadhir Djekidel [ctb],
Yuhan Hao [ctb],
Dirk Eddelbuettel [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between uwot versions 0.1.14 dated 2022-08-22 and 0.1.15 dated 2023-06-26
DESCRIPTION | 13 MD5 | 69 +-- NAMESPACE | 3 NEWS.md | 94 ++++ R/RcppExports.R | 8 R/affinity.R | 19 R/init.R | 11 R/supervised.R | 56 +- R/transform.R | 155 ++++++- R/util.R | 22 - R/uwot.R | 712 ++++++++++++++++++++++++++++++--- build/partial.rdb |binary inst/include/uwot/gradient.h | 18 inst/include/uwot/perplexity.h | 4 inst/include/uwot/smooth_knn.h | 79 +++ inst/include/uwot/supervised.h | 34 + man/lvish.Rd | 30 + man/optimize_graph_layout.Rd |only man/simplicial_set_intersect.Rd |only man/simplicial_set_union.Rd |only man/tumap.Rd | 43 + man/umap.Rd | 46 +- man/umap_transform.Rd | 55 ++ src/Makevars | 3 src/RcppExports.cpp | 37 + src/nn_parallel.h | 32 + src/r_uwot.cpp | 14 src/smooth_knn.cpp | 25 + src/supervised.cpp | 33 + src/transform.cpp | 10 tests/testthat/test_errors.R | 31 + tests/testthat/test_output.R | 224 ++++++++++ tests/testthat/test_perplexity.R | 13 tests/testthat/test_similarity_graph.R | 12 tests/testthat/test_smooth_knn_dists.R | 41 - tests/testthat/test_supervised.R | 283 +++++++------ tests/testthat/test_transform.R | 175 +++++++- 37 files changed, 2021 insertions(+), 383 deletions(-)
Title: Trace Function Parameter Types
Description: The 'R' language includes a set of defined types, but the language
itself is "absurdly dynamic" (Turcotte & Vitek (2019)
<doi:10.1145/3340670.3342426>), and lacks any way to specify which types are
expected by any expression. The 'typetracer' package enables code to be
traced to extract detailed information on the properties of parameters
passed to 'R' functions. 'typetracer' can trace individual functions or
entire packages.
Author: Mark Padgham [aut, cre] ,
Filip Krikava [ctb] ,
covr authors [cph]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between typetracer versions 0.1.1 dated 2022-08-27 and 0.2.2 dated 2023-06-26
typetracer-0.1.1/typetracer/R/get-types.R |only typetracer-0.1.1/typetracer/R/inject-tracer.R |only typetracer-0.1.1/typetracer/R/typetracer.R |only typetracer-0.2.2/typetracer/DESCRIPTION | 10 typetracer-0.2.2/typetracer/MD5 | 44 +- typetracer-0.2.2/typetracer/NEWS.md |only typetracer-0.2.2/typetracer/R/directory-fns.R | 23 + typetracer-0.2.2/typetracer/R/load-and-clear-traces.R | 100 ++++ typetracer-0.2.2/typetracer/R/prepend-code.R | 9 typetracer-0.2.2/typetracer/R/testthat-fns.R |only typetracer-0.2.2/typetracer/R/trace-package.R | 209 +++++----- typetracer-0.2.2/typetracer/R/tracer-define.R |only typetracer-0.2.2/typetracer/R/tracer-inject.R |only typetracer-0.2.2/typetracer/R/typetracer-package.R |only typetracer-0.2.2/typetracer/R/utils.R | 14 typetracer-0.2.2/typetracer/R/zzz.R | 1 typetracer-0.2.2/typetracer/README.md | 195 ++++++--- typetracer-0.2.2/typetracer/build/vignette.rds |binary typetracer-0.2.2/typetracer/inst/doc/nse.html | 119 ++--- typetracer-0.2.2/typetracer/man/clear_traces.Rd | 16 typetracer-0.2.2/typetracer/man/inject_tracer.Rd | 32 + typetracer-0.2.2/typetracer/man/load_traces.Rd | 14 typetracer-0.2.2/typetracer/man/trace_package.Rd | 25 - typetracer-0.2.2/typetracer/man/uninject_tracer.Rd | 15 typetracer-0.2.2/typetracer/tests/testthat/_snaps/trace-fns.md | 69 +-- typetracer-0.2.2/typetracer/tests/testthat/test-trace-fns.R | 44 +- typetracer-0.2.2/typetracer/tests/testthat/test-trace-package.R | 42 +- 27 files changed, 647 insertions(+), 334 deletions(-)
Title: Probability Theory for Selecting Candidates in Plant Breeding
Description: Use probability theory under the Bayesian framework for calculating the risk of selecting candidates in a multi-environment context [Dias et al. (2022) <doi:10.1007/s00122-022-04041-y>]. Contained are functions used to fit a Bayesian multi-environment model (based on the available presets), extract posterior values and maximum posterior values, compute the variance components, check the model’s convergence, and calculate the probabilities. For both across and within-environments scopes, the package computes the probability of superior performance and the pairwise probability of superior performance. Furthermore, the probability of superior stability and the pairwise probability of superior stability across environments is estimated. A joint probability of superior performance and stability is also provided.
Author: Saulo Chaves [aut, cre] ,
Kaio Dias [aut, cph] ,
Matheus Krause [aut]
Maintainer: Saulo Chaves <saulo.chaves@ufv.br>
Diff between ProbBreed versions 1.0.0 dated 2023-06-20 and 1.0.1 dated 2023-06-26
DESCRIPTION | 17 ++++++++++------- MD5 | 12 ++++++------ NEWS.md | 10 +++++----- R/prob_sup.R | 8 ++++---- README.md | 24 +++++++++++++++++------- man/ProbBreed-package.Rd | 4 +++- man/prob_sup.Rd | 8 ++++---- 7 files changed, 49 insertions(+), 34 deletions(-)
Title: Find Tools Needed to Build R Packages
Description: Provides functions used to build R packages. Locates
compilers needed to build R packages on various platforms and ensures
the PATH is configured appropriately so R can use them.
Author: Hadley Wickham [aut],
Jim Hester [aut],
Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pkgbuild versions 1.4.1 dated 2023-06-14 and 1.4.2 dated 2023-06-26
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 5 +++++ R/build-bg.R | 4 ++-- 4 files changed, 14 insertions(+), 9 deletions(-)
Title: Process-Based Biogeographical Analysis
Description: Facilitates the incorporation of biological processes in biogeographical analyses. It offers conveniences in fitting, comparing and extrapolating models of biological processes such as physiology and phenology. These spatial extrapolations can be informative by themselves, but also complement traditional correlative species distribution models, by mixing environmental and process-based predictors. Caetano et al (2020) <doi:10.1111/oik.07123>.
Author: Gabriel Caetano [aut, cre],
Juan Santos [aut],
Barry Sinervo [aut]
Maintainer: Gabriel Caetano <gabrielhoc@gmail.com>
Diff between Mapinguari versions 2.0.0 dated 2023-04-24 and 2.0.1 dated 2023-06-26
DESCRIPTION | 9 ++++----- MD5 | 2 +- 2 files changed, 5 insertions(+), 6 deletions(-)
Title: Read and Write 'jamovi' Files ('.omv')
Description: The free and open a statistical spreadsheet 'jamovi'
(<https://www.jamovi.org>) aims to make statistical analyses easy and
intuitive. 'jamovi' produces syntax that can directly be used in R (in
connection with the R-package 'jmv'). Having import / export routines for
the data files 'jamovi' produces ('.omv') permits an easy transfer of
data and analyses between 'jamovi' and R.
Author: Sebastian Jentschke [aut, cre]
Maintainer: Sebastian Jentschke <sebastian.jentschke@uib.no>
Diff between jmvReadWrite versions 0.3.5 dated 2023-05-27 and 0.3.6 dated 2023-06-26
DESCRIPTION | 8 - MD5 | 51 +++++----- NAMESPACE | 1 NEWS.md | 16 ++- R/arrange_cols_omv.R |only R/globals.R | 167 ++++++++------------------------- R/merge_cols_omv.R | 7 - R/read_omv.R | 2 R/sort_omv.R | 6 - R/write_omv.R | 2 README.md | 19 ++- inst/CITATION | 8 - inst/WORDLIST | 5 inst/doc/jmvReadWrite.Rmd | 15 +- inst/doc/jmvReadWrite.html | 15 +- man/arrange_cols_omv.Rd |only man/merge_cols_omv.Rd | 3 man/sort_omv.Rd | 3 man/write_omv.Rd | 2 tests/testthat/test-arrange_cols_omv.R |only tests/testthat/test-convert_to_omv.R | 6 - tests/testthat/test-globals.R | 4 tests/testthat/test-merge_cols_omv.R | 6 - tests/testthat/test-merge_rows_omv.R | 6 - tests/testthat/test-read_omv.R | 4 tests/testthat/test-sort_omv.R | 6 - tests/testthat/test-write_omv.R | 6 - vignettes/jmvReadWrite.Rmd | 15 +- 28 files changed, 172 insertions(+), 211 deletions(-)
Title: Asking GPT About R Stuff
Description: A chat package connecting to API endpoints by 'OpenAI'
(<https://platform.openai.com/>) to answer questions (about R).
Author: Johannes Gruber [aut, cre]
Maintainer: Johannes Gruber <johannesb.gruber@gmail.com>
Diff between askgpt versions 0.1.1 dated 2023-05-05 and 0.1.2 dated 2023-06-26
DESCRIPTION | 6 ++--- MD5 | 32 +++++++++++++++------------- NEWS.md | 4 +++ R/askgpt.r | 3 ++ R/code_prompts.r | 21 ++++++++++++++---- R/tutorial_addin.r | 6 ++--- R/utils.r | 5 +--- build/vignette.rds |binary inst/doc/Usage.Rmd | 12 +++++----- inst/doc/Usage.html | 10 ++++---- tests/testthat/_snaps |only tests/testthat/asgpt_log.jsonl | 46 +++++++++++++++++++++++++++++++++++++++++ tests/testthat/setup.R | 8 +++++++ tests/testthat/test-askgpt.R | 1 tests/testthat/test-auth.R | 3 +- tests/testthat/test-utils.R | 2 - vignettes/Usage.Rmd | 12 +++++----- vignettes/asgpt_log.jsonl |only 18 files changed, 122 insertions(+), 49 deletions(-)
Title: Sampling and Estimation Methods
Description: Functions to take samples of data, sample size estimation and getting useful estimators such as total, mean, proportion about its population using simple random, stratified, systematic and cluster sampling.
Author: Javier Estevez [aut, cre, cph]
Maintainer: Javier Estevez <javier.estase@gmail.com>
Diff between samplingR versions 1.0.0 dated 2023-06-19 and 1.0.1 dated 2023-06-26
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NAMESPACE | 1 + R/cluster.samplesize.R | 38 ++++++++++++++++++++++++++++++++++++++ R/strata.samplesize.R | 2 +- inst/doc/Strata.html | 8 ++++---- man/cluster.samplesize.Rd |only man/strata.samplesize.Rd | 2 +- 8 files changed, 56 insertions(+), 16 deletions(-)
Title: Robust Stepwise Split Regularized Regression
Description: Functions to perform robust stepwise split regularized regression. The approach first
uses a robust stepwise algorithm to split the variables into the models of an ensemble.
An adaptive robust regularized estimator is then applied to each subset of predictors
in the models of an ensemble.
Author: Anthony Christidis [aut, cre],
Gabriela Cohen-Freue [aut]
Maintainer: Anthony Christidis <anthony.christidis@stat.ubc.ca>
Diff between robStepSplitReg versions 1.0.1 dated 2023-06-06 and 1.0.2 dated 2023-06-26
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS | 7 ++++++- R/Coefficients.R | 8 ++++---- R/Predictions.R | 11 ++++++----- R/robStepSplitReg.R | 12 ++++++------ README.md | 4 +++- man/coef.robStepSplitReg.Rd | 8 ++++---- man/predict.robStepSplitReg.Rd | 8 ++++---- man/robStepSplitReg.Rd | 7 ++++--- 10 files changed, 50 insertions(+), 41 deletions(-)
More information about robStepSplitReg at CRAN
Permanent link
Title: Non Linear Least Squares with Inequality Constraints
Description: We solve non linear least squares problems with optional
equality and/or inequality constraints. Non linear iterations are
globalized with back-tracking method. Linear problems are solved by
dense QR decomposition from 'LAPACK' which can limit the size of
treated problems. On the other side, we avoid condition number
degradation which happens in classical quadratic programming approach.
Inequality constraints treatment on each non
linear iteration is based on 'NNLS' method (by Lawson and Hanson).
We provide an original function 'lsi_ln' for solving linear least squares
problem with inequality constraints in least norm sens. Thus if Jacobian of
the problem is rank deficient a solution still can be provided.
However, truncation errors are probable in this case.
Equality constraints are treated by using a basis of Null-space.
User defined function calculating residuals must return a list having
residual vector (not their squared sum) and Jacobian. If Jacobian is
not in the returned list, [...truncated...]
Author: Serguei Sokol [aut, cre]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between nlsic versions 1.0.2 dated 2022-04-12 and 1.0.4 dated 2023-06-26
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 12 +++++++++++- R/nlsic.R | 56 +++++++++++++++++++++++++++++++++++++++----------------- 4 files changed, 56 insertions(+), 24 deletions(-)
Title: USGS INL Project Office Publications
Description: Contains bibliographic information for the U.S. Geological Survey
(USGS) Idaho National Laboratory (INL) Project Office.
Author: Jason C. Fisher [aut, cre] ,
Kerri C. Treinen [aut] ,
Allison R. Trcka [aut]
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Diff between inlpubs versions 1.0.4 dated 2022-10-27 and 1.0.6 dated 2023-06-26
DESCRIPTION | 14 MD5 | 64 NAMESPACE | 8 NEWS.md | 47 R/make_word_cloud.R | 315 R/mine_text.R | 273 R/pubs.R | 141 R/sysdata.rda |only R/utils.R |only R/zzz.R | 19 README.md | 475 build/partial.rdb |binary build/vignette.rds |binary data/pubs.rda |binary inst/CITATION | 32 inst/REFERENCES.bib | 8028 +++--- inst/doc/inl-analysis.R | 428 inst/doc/inl-analysis.Rmd | 508 inst/doc/inl-analysis.html | 7138 ++--- inst/doc/inl-authors.R | 220 inst/doc/inl-authors.Rmd | 286 inst/doc/inl-authors.html | 6115 ++--- inst/doc/inl-bibliography.R | 220 inst/doc/inl-bibliography.Rmd | 266 inst/doc/inl-bibliography.html |49379 ++++++++++++++--------------------------- inst/tinytest/test_mine_text.R | 24 man/make_word_cloud.Rd | 138 man/mine_text.Rd | 122 man/pubs.Rd | 157 tests/tinytest.R | 8 vignettes/extra.css | 98 vignettes/inl-analysis.Rmd | 508 vignettes/inl-authors.Rmd | 286 vignettes/inl-bibliography.Rmd | 266 34 files changed, 30026 insertions(+), 45557 deletions(-)
Title: Text Conversion from Nexis Uni PDFs to R Data Frames
Description: Transform 'newswire' and earnings call transcripts as PDF obtained from 'Nexis Uni' to R data frames. Various 'newswires' and 'FairDisclosure' earnings call formats are supported. Further, users can apply several pre-defined dictionaries on the data based on Graffin et al. (2016)<doi:10.5465/amj.2013.0288> and Gamache et al. (2015)<doi:10.5465/amj.2013.0377>.
Author: Jonas Roettger [aut, cre]
Maintainer: Jonas Roettger <jonas.roettger@gmx.net>
Diff between disclosuR versions 0.4.0 dated 2023-06-24 and 0.5.0 dated 2023-06-26
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/2023-04-24_DisclosuR.R | 5 +++-- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Efficient Implementation of K-Means++ Algorithm
Description: Efficient implementation of K-Means++ algorithm. For more information see (1) "kmeans++ the advantages of the k-means++ algorithm" by David Arthur and Sergei Vassilvitskii (2007), Proceedings of the eighteenth annual ACM-SIAM symposium on Discrete algorithms, Society for Industrial and Applied Mathematics, Philadelphia, PA, USA, pp. 1027-1035, and (2) "The Effectiveness of Lloyd-Type Methods for the k-Means Problem" by Rafail Ostrovsky, Yuval Rabani, Leonard J. Schulman and Chaitanya Swamy <doi:10.1145/2395116.2395117>.
Author: Aviezer Lifshitz [aut, cre],
Amos Tanay [aut],
Weizmann Institute of Science [cph]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between tglkmeans versions 0.3.8 dated 2023-03-21 and 0.3.10 dated 2023-06-26
DESCRIPTION | 8 MD5 | 12 NEWS.md | 14 R/TGL_kmeans.R | 31 inst/doc/usage.html | 2092 ++++++++++++++++++++++++------------------------- man/TGL_kmeans.Rd | 2 man/TGL_kmeans_tidy.Rd | 2 7 files changed, 1101 insertions(+), 1060 deletions(-)
Title: Robust Bayesian T-Test
Description: An implementation of Bayesian model-averaged t-test that allows
users to draw inference about the presence vs absence of the effect,
heterogeneity of variances, and outliers. The 'RoBTT' packages estimates model
ensembles of models created as a combination of the competing hypotheses and uses
Bayesian model-averaging to combine the models using posterior model probabilities.
Users can obtain the model-averaged posterior distributions and inclusion Bayes
factors which account for the uncertainty in the data generating process
(Maier et al., 2022, <doi:10.31234/osf.io/d5zwc>).
Users can define a wide range of informative priors for all parameters
of interest. The package provides convenient functions for summary, visualizations,
and fit diagnostics.
Author: Frantisek Bartos [aut, cre] ,
Maximilian Maier [aut]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between RoBTT versions 1.1.0 dated 2023-05-30 and 1.2.0 dated 2023-06-26
DESCRIPTION | 8 MD5 | 63 NAMESPACE | 1 NEWS.md | 8 R/check-input-and-settings.R | 6 R/check-priors-and-models.R | 82 R/diagnostics.R | 3 R/fit-and-marglik.R | 10 R/inference-and-model-averaging.R | 5 R/main.R | 14 R/plot.R | 10 R/priors.R | 7 R/summary.R | 1 R/utilities.R | 1 build/partial.rdb |binary inst/doc/Introduction_to_RoBTT.R | 12 inst/doc/Introduction_to_RoBTT.Rmd | 96 - inst/doc/Introduction_to_RoBTT.html | 482 ++--- man/RoBTT.Rd | 11 man/check_RoBTT.Rd | 40 man/check_setup.Rd | 10 man/diagnostics.Rd | 1 man/plot.RoBTT.Rd | 1 man/prior_none.Rd |only man/rho2logsdr.Rd | 40 man/summary.RoBTT.Rd | 1 src/stanExports_beta.h | 3082 +++++++++++++++++++------------- src/stanExports_gamma.h | 3074 +++++++++++++++++++------------- src/stanExports_lognormal.h | 3084 +++++++++++++++++++-------------- src/stanExports_normal.h | 2900 ++++++++++++++++++------------- src/stanExports_t.h | 3363 +++++++++++++++++++++--------------- tests/testthat/test-0-CRAN.R | 29 vignettes/Introduction_to_RoBTT.Rmd | 96 - 33 files changed, 9788 insertions(+), 6753 deletions(-)
Title: Sampling from k-th Order Statistics of New Families of
Distributions
Description: Set of tools to generate samples of k-th order statistics and others quantities of interest from new families of distributions.
The main references for this package are: C. Kleiber and S. Kotz (2003) Statistical size distributions in economics and actuarial sciences; Gentle, J. (2009), Computational Statistics, Springer-Verlag;
Naradajah, S. and Rocha, R. (2016), <DOI:10.18637/jss.v069.i10> and Stasinopoulos, M. and Rigby, R. (2015), <DOI:10.1111/j.1467-9876.2005.00510.x>.
The families of distributions are: Benini distributions, Burr distributions, Dagum distributions, Feller-Pareto distributions, Generalized Pareto distributions, Inverse Pareto distributions, The Inverse Paralogistic distributions, Marshall-Olkin G distributions, exponentiated G distributions, beta G distributions,
gamma G distributions, Kumaraswamy G distributions, generalized beta G distributions,
beta extended G distributions, gamma G distributions, gamma uniform G distributions, beta exponential G dist [...truncated...]
Author: Carlos Alberto Cardozo Delgado
Maintainer: Carlos Alberto Cardozo Delgado <cardozorpackages@gmail.com>
Diff between orders versions 0.1.6 dated 2021-07-17 and 0.1.7 dated 2023-06-26
DESCRIPTION | 14 +++++++------- MD5 | 12 ++++++++++-- NAMESPACE | 12 ++++++++++++ R/order_benini.R |only R/order_dagum.R |only R/order_invpareto.R |only R/order_sm.R |only man/order_benini.Rd |only man/order_dagum.Rd |only man/order_invpareto.Rd |only man/order_sm.Rd |only 11 files changed, 29 insertions(+), 9 deletions(-)
Title: Set Axis Break for 'ggplot2'
Description: An implementation of scale functions for setting axis breaks of a 'gg' plot.
Author: Guangchuang Yu [aut, cre, cph]
,
Shuangbin Xu [aut]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggbreak versions 0.1.1 dated 2022-10-15 and 0.1.2 dated 2023-06-26
ggbreak-0.1.1/ggbreak/man/scale_wrap.Rd |only ggbreak-0.1.2/ggbreak/DESCRIPTION | 10 ggbreak-0.1.2/ggbreak/MD5 | 36 ggbreak-0.1.2/ggbreak/NAMESPACE | 85 +- ggbreak-0.1.2/ggbreak/NEWS.md | 125 +-- ggbreak-0.1.2/ggbreak/R/grid-draw-utilities.R | 532 ++++++------- ggbreak-0.1.2/ggbreak/R/method-ggplot-add.R | 152 +-- ggbreak-0.1.2/ggbreak/R/method-grid-draw.R | 670 ++++++++--------- ggbreak-0.1.2/ggbreak/R/method-plot.R | 30 ggbreak-0.1.2/ggbreak/R/method-print.R | 34 ggbreak-0.1.2/ggbreak/R/scales.R | 260 +++--- ggbreak-0.1.2/ggbreak/R/utilities.R | 583 +++++++-------- ggbreak-0.1.2/ggbreak/R/zzz.R | 44 - ggbreak-0.1.2/ggbreak/build/vignette.rds |binary ggbreak-0.1.2/ggbreak/inst/CITATION | 60 - ggbreak-0.1.2/ggbreak/inst/doc/ggbreak.R | 390 +++++----- ggbreak-0.1.2/ggbreak/inst/doc/ggbreak.html | 1008 ++++++++++++-------------- ggbreak-0.1.2/ggbreak/man/scale-wrap.Rd |only ggbreak-0.1.2/ggbreak/man/scale_break.Rd | 134 +-- ggbreak-0.1.2/ggbreak/man/scale_cut.Rd | 94 +- 20 files changed, 2119 insertions(+), 2128 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-07 2.1.8
2021-12-13 2.1.7
2021-06-25 2.1.6
Title: Statistical Tests of Familial Hypotheses
Description: Provides functionality for testing familial hypotheses. Supports testing centers
belonging to the Huber family. Testing is carried out using the Bayesian bootstrap. One- and
two-sample tests are supported, as are directional tests. Methods for visualizing output are
provided.
Author: Ryan Thompson [aut, cre]
Maintainer: Ryan Thompson <ryan.thompson1@unsw.edu.au>
Diff between familial versions 1.0.4 dated 2022-09-06 and 1.0.5 dated 2023-06-26
DESCRIPTION | 8 - MD5 | 30 +++---- NEWS.md | 5 + R/bayes-boot.R | 2 R/center-test.R | 7 - R/dirichlet.R | 2 R/fit-family.R | 12 +- R/weighted-stats.R | 2 build/vignette.rds |binary inst/CITATION | 14 +-- inst/doc/vignette.html | 209 ++++++++++++++++++++++++------------------------- man/bayes.boot.Rd | 2 man/center.test.Rd | 7 - man/fit.family.Rd | 2 man/rudirichlet.Rd | 2 man/weighted.Rd | 2 16 files changed, 155 insertions(+), 151 deletions(-)
Title: Bayesian Additive Regression Trees
Description: An advanced implementation of Bayesian Additive Regression Trees with expanded features for data analysis and visualization.
Author: Adam Kapelner and Justin Bleich
Maintainer: Adam Kapelner <kapelner@qc.cuny.edu>
Diff between bartMachine versions 1.3.3.1 dated 2023-02-27 and 1.3.4 dated 2023-06-26
CHANGELOG | 6 ++++- DESCRIPTION | 8 +++---- MD5 | 14 ++++++------ R/bart_package_builders.R | 11 +++++++-- R/bart_package_plots.R | 45 ++++++++++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/bartMachine.pdf |binary man/interaction_investigator.Rd | 6 ++++- 8 files changed, 63 insertions(+), 27 deletions(-)