Title: Construction of Genetic Maps in Experimental Crosses
Description: Analysis of molecular marker data from model and non-model systems.
For the later, it allows statistical analysis by simultaneously estimating
linkage and linkage phases (genetic map construction) according to Wu and
colleagues (2002)
<doi:10.1006/tpbi.2002.1577>. All analysis are based on multi-point
approaches using hidden Markov models.
Author: Cristiane Taniguti [aut, cre],
Marcelo Mollinari [aut],
Rodrigo Amadeu [ctb],
Getulio Ferreira [ctb],
Gabriel Margarido [aut],
Jeekin Lau [ctb],
Karl Broman [ctb],
Katharine Preedy [ctb, cph] ,
Bastian Schiffthaler [ctb, cph] ,
Augusto Garcia [aut, c [...truncated...]
Maintainer: Cristiane Taniguti <ctaniguti@ufl.edu>
Diff between onemap versions 3.2.4 dated 2026-01-12 and 3.2.6 dated 2026-07-11
DESCRIPTION | 10 ++--- MD5 | 24 ++++++------- NEWS.md | 10 +++++ R/create_probs.R | 56 +++++++++++++------------------- R/onemap_read_vcfR.R | 57 +++++++++++++++++++++++---------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Inbred_Based_Populations.html | 9 ++--- inst/doc/Introduction_R.Rmd | 2 - inst/doc/Introduction_R.html | 57 +++++++++++++++++---------------- inst/doc/Outcrossing_Populations.html | 9 ++--- inst/doc/Overview.html | 4 +- vignettes/Introduction_R.Rmd | 2 - 13 files changed, 136 insertions(+), 104 deletions(-)
Title: Healthcare Analysis Methods
Description: Conducts analyses for healthcare program evaluations or intervention
studies. Calculates regression analyses for standard ordinary least squares
(OLS or linear) or logistic models. Performs regression models used for
causal modeling such as differences-in-differences (DID) and interrupted
time series (ITS) models. Provides limited interpretations of model
results and a ranking of variable importance in models. Performs
propensity score models, top-coding of model outcome variables, and
can return new data with the newly formed variables. Conducts Bayesian
analysis summaries and graphs, decision curve analysis, and produces some
Shewhart control charts. Also performs Cronbach's alpha for various scale
items (e.g., survey questions). See Github URL for examples in the README
file. For more details on the statistical methods, see
Allen & Yen (1979, ISBN:0-8185-0283-5),
Angrist & Pischke (2009, ISBN:9780691120355),
Cohen (1988, ISBN:0-8058-0283-5),
Gebski (2012) <doi:10.1017/S0 [...truncated...]
Author: Stephen Zuniga [aut, cre, cph]
Maintainer: Stephen Zuniga <rms.shiny@gmail.com>
Diff between ham versions 1.2.0 dated 2026-03-19 and 1.3.0 dated 2026-07-11
DESCRIPTION | 12 MD5 | 120 +-- NAMESPACE | 179 ++-- NEWS.md | 2 R/Bayes.R | 391 ++++++++-- R/alpha.R | 2 R/assess.R | 230 +++++- R/control.R | 10 R/data.R | 25 R/decide.R | 3 R/group.R | 9 R/importance.R | 6 R/interpret.R | 511 ++++++++++++- R/itsEffect.R | 16 R/plot.Bayes.R | 51 - R/plot.assess.R | 2 R/plot.control.R | 32 R/plot.decide.R | 3 R/plot.group.R | 64 + R/plot.importance.R | 7 R/plot.review.R |only R/print.alpha.R | 3 R/print.interpret.R | 72 + R/print.review.R |only R/review.R |only README.md | 325 +++++++- data/NHSN.rda |only data/co2multi.rda |binary inst/doc/Bayes.R | 18 inst/doc/Bayes.Rmd | 70 + inst/doc/Bayes.html | 429 ++++++++--- inst/doc/control.R | 4 inst/doc/control.Rmd | 4 inst/doc/control.html | 8 inst/doc/ham-package.R | 81 ++ inst/doc/ham-package.Rmd | 151 +++- inst/doc/ham-package.html | 1251 ++++++++++++++++++++++------------ man/Bayes.Rd | 61 + man/NHSN.Rd |only man/alpha.Rd | 3 man/assess.Rd | 57 + man/control.Rd | 6 man/decide.Rd | 3 man/figures/README-chartU1-1.png |binary man/figures/README-plotreview2b-1.png |only man/group.Rd | 3 man/importance.Rd | 7 man/interpret.Rd | 30 man/itsEffect.Rd | 17 man/plot.Bayes.Rd | 3 man/plot.assess.Rd | 3 man/plot.control.Rd | 9 man/plot.decide.Rd | 3 man/plot.group.Rd | 16 man/plot.importance.Rd | 7 man/plot.review.Rd |only man/print.alpha.Rd | 3 man/print.interpret.Rd | 7 man/print.review.Rd |only man/review.Rd |only tests/testthat/test-Bayes.R | 2 tests/testthat/test-interpret.R | 2 tests/testthat/test-review.R |only vignettes/Bayes.Rmd | 70 + vignettes/control.Rmd | 4 vignettes/ham-package.Rmd | 151 +++- 66 files changed, 3481 insertions(+), 1077 deletions(-)
Title: Tree-Spatial Scan Statistic for Cluster Detection
Description: Implements the tree-spatial scan statistic for detecting clusters
that combine both spatial and hierarchical structures, as proposed by
Cancado et al. (2025) <doi:10.1007/s10651-025-00670-w>. The method extends
Kulldorff (1997) <doi:10.1080/03610929708831995> circular spatial scan
statistic and the tree-based scan statistic of Kulldorff et al. (2003)
<doi:10.1111/1541-0420.00039> by searching for anomalies in both
geographic regions and branches of hierarchical trees simultaneously. The
package also provides standalone implementations of Kulldorff's circular
spatial scan statistic and the tree-based scan statistic. Statistical
significance is assessed via Monte Carlo simulation under a Poisson or
binomial model, with optional 'OpenMP' parallelization.
Author: Allan Quadros [aut, cre] ,
Andre L. F. Cancado [aut] ,
Geiziane S. Oliveira [aut],
Luiz H. Duczmal [aut]
Maintainer: Allan Quadros <allanvcq@gmail.com>
Diff between treeSS versions 0.2.4 dated 2026-07-02 and 0.2.5 dated 2026-07-11
DESCRIPTION | 6 MD5 | 12 NEWS.md | 33 ++ R/build_zones.R | 58 +++- R/csr_helpers.R | 53 ++- inst/doc/florida.html | 636 +++++++++++++++++++-------------------------- inst/doc/introduction.html | 504 ++++++++++++++--------------------- 7 files changed, 597 insertions(+), 705 deletions(-)
Title: An IMAP Client for R
Description: A session-based IMAP client that implements the full functionality of
the IMAP4rev1 protocol (RFC 3501), allowing virtually all e-mail operations to be
performed from within R, paving the way for e-mail data analysis.
Author: Allan Quadros [aut, cre] ,
Paul Smith [ctb],
Kurt Hornik [ctb]
Maintainer: Allan Quadros <allanvcq@gmail.com>
Diff between mRpostman versions 1.1.4 dated 2024-09-17 and 1.2.2 dated 2026-07-11
mRpostman-1.1.4/mRpostman/inst/doc/code_migration.R |only mRpostman-1.1.4/mRpostman/inst/doc/code_migration.Rmd |only mRpostman-1.1.4/mRpostman/inst/doc/code_migration.html |only mRpostman-1.1.4/mRpostman/vignettes/code_migration.Rmd |only mRpostman-1.1.4/mRpostman/vignettes/figures/xoauth |only mRpostman-1.2.2/mRpostman/DESCRIPTION | 20 mRpostman-1.2.2/mRpostman/MD5 | 194 - mRpostman-1.2.2/mRpostman/R/AND.R | 4 mRpostman-1.2.2/mRpostman/R/OR.R | 4 mRpostman-1.2.2/mRpostman/R/R6.R | 400 ++- mRpostman-1.2.2/mRpostman/R/add-flags-int.R | 6 mRpostman-1.2.2/mRpostman/R/adjust-folder-name.R | 2 mRpostman-1.2.2/mRpostman/R/adjust_repeated_filenames.R | 2 mRpostman-1.2.2/mRpostman/R/append-int.R |only mRpostman-1.2.2/mRpostman/R/apply-charset.R |only mRpostman-1.2.2/mRpostman/R/assert-capability.R |only mRpostman-1.2.2/mRpostman/R/check-args.R | 6 mRpostman-1.2.2/mRpostman/R/clean-msg-text.R | 15 mRpostman-1.2.2/mRpostman/R/close-folder-int.R |only mRpostman-1.2.2/mRpostman/R/config-con-handle-and-params.R | 4 mRpostman-1.2.2/mRpostman/R/create-folder-int.R | 2 mRpostman-1.2.2/mRpostman/R/decode-mime-header.R | 11 mRpostman-1.2.2/mRpostman/R/decode-mime-text.R | 11 mRpostman-1.2.2/mRpostman/R/decode-quoted-printable-header.R | 59 mRpostman-1.2.2/mRpostman/R/decode-quoted-printable-text.R | 51 mRpostman-1.2.2/mRpostman/R/define-searchrequest-custom.R | 12 mRpostman-1.2.2/mRpostman/R/define-searchrequest-size.R | 4 mRpostman-1.2.2/mRpostman/R/define-searchrequest-string.R | 14 mRpostman-1.2.2/mRpostman/R/delete-folder-int.R |only mRpostman-1.2.2/mRpostman/R/esearch-count-int.R | 8 mRpostman-1.2.2/mRpostman/R/esearch-max-id-int.R | 10 mRpostman-1.2.2/mRpostman/R/esearch-min-id-int.R | 10 mRpostman-1.2.2/mRpostman/R/examine-folder-int.R | 17 mRpostman-1.2.2/mRpostman/R/execute-attachment-fetch.R | 6 mRpostman-1.2.2/mRpostman/R/execute-ordered-search.R |only mRpostman-1.2.2/mRpostman/R/execute-search.R | 22 mRpostman-1.2.2/mRpostman/R/expunge-int.R | 2 mRpostman-1.2.2/mRpostman/R/extract-MIME-level-and-filenames.R | 2 mRpostman-1.2.2/mRpostman/R/fetch-attachments-int.R | 4 mRpostman-1.2.2/mRpostman/R/fetch-body-int.R | 2 mRpostman-1.2.2/mRpostman/R/fetch-header-int.R | 2 mRpostman-1.2.2/mRpostman/R/fetch-metadata-int.R | 2 mRpostman-1.2.2/mRpostman/R/fetch-text-int.R | 2 mRpostman-1.2.2/mRpostman/R/get-attachments-int.R | 4 mRpostman-1.2.2/mRpostman/R/get-quota-int.R |only mRpostman-1.2.2/mRpostman/R/get-quota-root-int.R |only mRpostman-1.2.2/mRpostman/R/id-int.R |only mRpostman-1.2.2/mRpostman/R/list-attachments.R | 2 mRpostman-1.2.2/mRpostman/R/list-mail-folders-int.R | 122 mRpostman-1.2.2/mRpostman/R/list-special-use-folders-int.R |only mRpostman-1.2.2/mRpostman/R/list-subscribed-folders-int.R |only mRpostman-1.2.2/mRpostman/R/modify-con-handle.R | 2 mRpostman-1.2.2/mRpostman/R/move-msg-int.R | 6 mRpostman-1.2.2/mRpostman/R/namespace-int.R |only mRpostman-1.2.2/mRpostman/R/noop-int.R |only mRpostman-1.2.2/mRpostman/R/parse-esearch-all.R |only mRpostman-1.2.2/mRpostman/R/parse-examine-counts.R |only mRpostman-1.2.2/mRpostman/R/parse-folder-list.R |only mRpostman-1.2.2/mRpostman/R/parse-id.R |only mRpostman-1.2.2/mRpostman/R/parse-namespace.R |only mRpostman-1.2.2/mRpostman/R/parse-quota.R |only mRpostman-1.2.2/mRpostman/R/parse-sort.R |only mRpostman-1.2.2/mRpostman/R/parse-special-use.R |only mRpostman-1.2.2/mRpostman/R/parse-status-counts.R |only mRpostman-1.2.2/mRpostman/R/parse-thread.R |only mRpostman-1.2.2/mRpostman/R/remove-flags-int.R | 6 mRpostman-1.2.2/mRpostman/R/rename-folder-int.R | 2 mRpostman-1.2.2/mRpostman/R/replace-flags-int.R | 6 mRpostman-1.2.2/mRpostman/R/search-int.R | 2 mRpostman-1.2.2/mRpostman/R/sent-before.R | 4 mRpostman-1.2.2/mRpostman/R/sent-on.R | 2 mRpostman-1.2.2/mRpostman/R/serialize-filename.R | 2 mRpostman-1.2.2/mRpostman/R/smaller-than.R | 2 mRpostman-1.2.2/mRpostman/R/sort-int.R |only mRpostman-1.2.2/mRpostman/R/status-int.R |only mRpostman-1.2.2/mRpostman/R/subscribe-folder-int.R |only mRpostman-1.2.2/mRpostman/R/thread-int.R |only mRpostman-1.2.2/mRpostman/R/unselect-folder-int.R |only mRpostman-1.2.2/mRpostman/R/unsubscribe-folder-int.R |only mRpostman-1.2.2/mRpostman/R/zzz.R | 2 mRpostman-1.2.2/mRpostman/README.md | 247 + mRpostman-1.2.2/mRpostman/build/vignette.rds |binary mRpostman-1.2.2/mRpostman/inst/doc/basics.R | 73 mRpostman-1.2.2/mRpostman/inst/doc/basics.Rmd | 191 + mRpostman-1.2.2/mRpostman/inst/doc/basics.html | 1271 ++++------ mRpostman-1.2.2/mRpostman/inst/doc/xoauth2.0.R | 110 mRpostman-1.2.2/mRpostman/inst/doc/xoauth2.0.Rmd | 367 +- mRpostman-1.2.2/mRpostman/inst/doc/xoauth2.0.html | 528 +--- mRpostman-1.2.2/mRpostman/man/AND.Rd | 4 mRpostman-1.2.2/mRpostman/man/ImapCon.Rd | 918 ++++++- mRpostman-1.2.2/mRpostman/man/OR.Rd | 4 mRpostman-1.2.2/mRpostman/man/decode_mime_header.Rd | 4 mRpostman-1.2.2/mRpostman/man/larger_than.Rd | 2 mRpostman-1.2.2/mRpostman/man/list_attachments.Rd | 2 mRpostman-1.2.2/mRpostman/man/mRpostman-package.Rd | 6 mRpostman-1.2.2/mRpostman/man/sent_before.Rd | 4 mRpostman-1.2.2/mRpostman/man/sent_on.Rd | 2 mRpostman-1.2.2/mRpostman/man/smaller_than.Rd | 2 mRpostman-1.2.2/mRpostman/tests |only mRpostman-1.2.2/mRpostman/vignettes/basics.Rmd | 191 + mRpostman-1.2.2/mRpostman/vignettes/xoauth2.0.Rmd | 367 +- 101 files changed, 3442 insertions(+), 1925 deletions(-)
Title: A Lightweight Version of R Markdown
Description: Render R Markdown to Markdown (without using 'knitr'), and Markdown
to lightweight HTML or 'LaTeX' documents with the 'commonmark' package (instead
of 'Pandoc'). Some missing Markdown features in 'commonmark' are also
supported, such as raw HTML or 'LaTeX' blocks, 'LaTeX' math, superscripts,
subscripts, footnotes, element attributes, and appendices,
but not all 'Pandoc' Markdown features are (or will be) supported. With
additional JavaScript and CSS, you can also create HTML slides and articles.
This package can be viewed as a trimmed-down version of R Markdown and
'knitr'. It does not aim at rich Markdown features or a large variety of
output formats (the primary formats are HTML and 'LaTeX'). Book and website
projects of multiple input documents are also supported.
Author: Yihui Xie [aut, cre] ,
Tim Taylor [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between litedown versions 0.9 dated 2025-12-18 and 0.10 dated 2026-07-11
litedown-0.10/litedown/DESCRIPTION | 10 +- litedown-0.10/litedown/LICENSE | 2 litedown-0.10/litedown/MD5 | 64 +++++++++++------- litedown-0.10/litedown/NAMESPACE | 1 litedown-0.10/litedown/NEWS.md | 38 ++++++++-- litedown-0.10/litedown/R/format.R | 4 - litedown-0.10/litedown/R/fuse.R | 70 +++++++++++++++++++- litedown-0.10/litedown/R/mark.R | 46 ++++++++----- litedown-0.10/litedown/R/package.R | 2 litedown-0.10/litedown/R/site.R | 61 ++++++++++++++--- litedown-0.10/litedown/R/utils.R | 24 +++++- litedown-0.10/litedown/build/vignette.rds |binary litedown-0.10/litedown/inst/doc/slides.Rmd | 2 litedown-0.10/litedown/inst/doc/slides.html | 36 +++++----- litedown-0.10/litedown/inst/resources/default.css | 14 ++-- litedown-0.10/litedown/inst/resources/litedown.html | 2 litedown-0.10/litedown/inst/rstudio |only litedown-0.10/litedown/man/fuse_book.Rd | 9 ++ litedown-0.10/litedown/man/fuse_exit.Rd |only litedown-0.10/litedown/man/fuse_site.Rd | 9 ++ litedown-0.10/litedown/man/html_format.Rd | 2 litedown-0.10/litedown/man/litedown-package.Rd | 7 +- litedown-0.10/litedown/man/mark.Rd | 9 ++ litedown-0.10/litedown/man/markdown_options.Rd | 2 litedown-0.10/litedown/tests/test-cran |only litedown-0.10/litedown/tests/test-cran.R |only litedown-0.10/litedown/vignettes/slides.Rmd | 2 litedown-0.9/litedown/tests/empty.R |only litedown-0.9/litedown/tests/fig_path.R |only litedown-0.9/litedown/tests/smartypants.R |only 30 files changed, 309 insertions(+), 107 deletions(-)
Title: R Interface to the 'QuantLib' Library
Description: The 'RQuantLib' package makes parts of 'QuantLib' accessible from R
The 'QuantLib' project aims to provide a comprehensive software framework
for quantitative finance. The goal is to provide a standard open source library
for quantitative analysis, modeling, trading, and risk management of financial
assets.
Author: Dirk Eddelbuettel [aut, cre] ,
Khanh Nguyen [aut] ,
Terry Leitch [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RQuantLib versions 0.4.27 dated 2026-06-07 and 0.4.28 dated 2026-07-10
ChangeLog | 21 +++++++++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- configure | 18 +++++++++--------- configure.ac | 2 +- data/tsQuotes.RData |binary data/vcube.RData |binary inst/NEWS.Rd | 7 +++++++ man/Enum.Rd | 4 +++- src/calendars.cpp | 15 +++++++++++---- 10 files changed, 65 insertions(+), 28 deletions(-)
Title: Quadrangle Mesh
Description: Create surface forms from matrix or 'raster' data for flexible plotting and
conversion to other mesh types. The functions 'quadmesh' or 'triangmesh'
produce a continuous surface as a 'mesh3d' object as used by the 'rgl'
package. This is used for plotting raster data in 3D (optionally with
texture), and allows the application of a map projection without data loss and
many processing applications that are restricted by inflexible regular grid rasters.
There are discrete forms of these continuous surfaces available with
'dquadmesh' and 'dtriangmesh' functions.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between quadmesh versions 0.5.5 dated 2022-08-31 and 0.6.0 dated 2026-07-10
DESCRIPTION | 10 MD5 | 46 ++-- NAMESPACE | 4 NEWS.md | 17 + R/mesh-plot.R | 318 +++++++++++++++---------------- R/qsc.R | 4 R/quadmesh.R | 39 ++- R/triangmesh.R | 5 README.md | 19 + build/vignette.rds |binary inst/doc/quadmesh.html | 267 +++++++++++++------------- inst/doc/topography.R | 8 inst/doc/topography.html | 203 ++++++++++--------- man/cmip6.Rd | 2 man/etopo.Rd | 2 man/figures/README-unnamed-chunk-9-2.png |binary man/mesh_plot.Rd | 51 +++- man/quadmesh-package.Rd | 6 man/quadmesh.Rd | 43 +++- man/triangmesh.Rd | 2 man/worldll.Rd | 2 man/xymap.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/test-triangle-mesh.R | 2 24 files changed, 594 insertions(+), 458 deletions(-)
Title: Psychometric Modeling Infrastructure
Description: Infrastructure for psychometric modeling such as data classes (for
item response data and paired comparisons), basic model fitting functions (for
Bradley-Terry, Rasch, parametric logistic IRT, generalized partial credit,
rating scale, multinomial processing tree models), extractor functions for
different types of parameters (item, person, threshold, discrimination,
guessing, upper asymptotes), unified inference and visualizations, and various
datasets for illustration. Intended as a common lightweight and efficient
toolbox for psychometric modeling and a common building block for fitting
psychometric mixture models in package "psychomix" and trees based on
psychometric models in package "psychotree".
Author: Achim Zeileis [aut, cre] ,
Carolin Strobl [aut] ,
Florian Wickelmaier [aut],
Basil Komboz [aut],
Julia Kopf [aut],
Lennart Schneider [aut] ,
Rudolf Debelak [aut]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between psychotools versions 0.7-6 dated 2026-02-11 and 0.7-7 dated 2026-07-10
DESCRIPTION | 8 ++++---- MD5 | 32 ++++++++++++++++---------------- NEWS.md | 6 +++++- R/btmodel.R | 2 +- R/gpcmodel.R | 4 ++-- R/itemresp.R | 2 +- R/mptmodel.R | 2 +- R/nplmodel.R | 4 ++-- R/paircomp.R | 2 +- R/pcmodel.R | 6 +++--- R/raschmodel.R | 6 +++--- R/rsmodel.R | 6 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/toolbox-simulation.Rnw | 1 - inst/doc/toolbox-simulation.pdf |binary vignettes/toolbox-simulation.Rnw | 1 - 17 files changed, 42 insertions(+), 40 deletions(-)
Title: Psychometric Mixture Models
Description: Psychometric mixture models based on 'flexmix' infrastructure. At the moment Rasch mixture models
with different parameterizations of the score distribution (saturated vs. mean/variance specification),
Bradley-Terry mixture models, and MPT mixture models are implemented. These mixture models can be estimated
with or without concomitant variables. See Frick et al. (2012) <doi:10.18637/jss.v048.i07> and
Frick et al. (2015) <doi:10.1177/0013164414536183> for details on the Rasch mixture models.
Author: Hannah Frick [aut] ,
Friedrich Leisch [aut] ,
Carolin Strobl [aut] ,
Florian Wickelmaier [aut],
Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between psychomix versions 1.1-9 dated 2024-09-10 and 1.1-10 dated 2026-07-10
DESCRIPTION | 17 +++++++++-------- MD5 | 28 ++++++++++++++-------------- NEWS.md | 8 ++++++++ R/raschmix.R | 5 ++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/raschmix.R | 2 -- inst/doc/raschmix.Rnw | 8 +++----- inst/doc/raschmix.pdf |binary inst/doc/scores.R | 2 -- inst/doc/scores.Rnw | 7 +++---- inst/doc/scores.pdf |binary vignettes/psychomix.bib | 19 +++++++++---------- vignettes/raschmix.Rnw | 8 +++----- vignettes/scores.Rnw | 7 +++---- 15 files changed, 56 insertions(+), 55 deletions(-)
Title: A Shiny App to Visualize Genetic Maps and QTL Analysis in
Polyploid Species
Description: Provides a graphical user interface to integrate, visualize and explore results
from linkage and quantitative trait loci analysis, together with genomic information for autopolyploid
species. The app is meant for interactive use and allows users to optionally upload different sources
of information, including gene annotation and alignment files, enabling the exploitation and search for
candidate genes in a genome browser. In its current version, 'VIEWpoly' supports inputs from 'MAPpoly',
'polymapR', 'diaQTL', 'QTLpoly', 'polyqtlR', 'GWASpoly', and 'HIDECAN' packages.
Author: Cristiane Taniguti [aut, cre],
Gabriel de Siqueira Gesteira [aut],
Jeekin Lau [aut],
Olivia Angelin-Bonnet [aut],
Susan Thomson [ctb],
Guilherme da Silva Pereira [ctb],
David Byrne [ctb],
Zhao-Bang Zeng [ctb],
Oscar Riera-Lizarazu [ctb],
Marcelo Moll [...truncated...]
Maintainer: Cristiane Taniguti <ctaniguti@ufl.edu>
Diff between viewpoly versions 0.4.1 dated 2024-03-28 and 1.0.2 dated 2026-07-10
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Title: Search, Inspect, and Replace Text Across Files
Description: An inspectable and composable workflow for search-and-replace in text
files. Files can be listed, filtered, and searched separately, with
inspectable exclusions showing what was excluded and why. Matches are
represented as structured vectors that can be printed with context,
summarized, and filtered. Replacements can be defined at search time or set
and updated after the search. Only matches present in the vector are modified
when files are written. Backup and restore helpers are provided for file
workflows. Text that has already been read can also be searched and updated
directly, giving users control over input, output, and encoding when needed.
Author: Sacha Martingay [aut, cre, cph]
Maintainer: Sacha Martingay <martingay.sacha@hotmail.com>
Diff between seekr versions 0.1.4 dated 2026-02-08 and 0.2.0 dated 2026-07-10
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Title: Evaluate Partitioned Survival and State Transition Models
Description: Fits and evaluates three-state partitioned survival analyses
(PartSAs) and Markov models (clock forward or clock reset) to
progression and overall survival data typically collected in oncology clinical trials. These model structures are typically considered in
cost-effectiveness modeling in advanced/metastatic cancer indications.
Muston (2024). "Informing structural assumptions for three state oncology cost-effectiveness models through model efficiency and fit". Applied Health Economics and Health Policy.
Author: Dominic Muston [aut, cre] ,
Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph, fnd]
Maintainer: Dominic Muston <dom.muston@gmail.com>
Diff between psm3mkv versions 0.3.2 dated 2024-06-07 and 0.3.3 dated 2026-07-10
DESCRIPTION | 17 ++++---- MD5 | 28 ++++++------- NEWS.md | 6 ++ R/datasets.R | 74 +++++++++++------------------------- R/discrmd.R | 6 +- R/lhoods.R | 12 ++--- R/ltablesurv.R | 6 +- R/resmeans.R | 34 ++++++++-------- build/vignette.rds |binary inst/doc/example.html | 34 ++++++++-------- inst/doc/mortality-adjustments.R | 40 +++++++++---------- inst/doc/mortality-adjustments.html | 27 ++++++------- man/create_dummydata.Rd | 4 - man/psm3mkv-package.Rd | 7 ++- man/vlookup.Rd | 2 15 files changed, 140 insertions(+), 157 deletions(-)
Title: Network Estimation, Bootstrap, and Higher-Order Analysis
Description: Estimate, compare, and analyze dynamic and psychological networks
using a unified interface. Provides transition network analysis
estimation (transition, frequency, co-occurrence, attention-weighted)
Saqr et al. (2025) <doi:10.1145/3706468.3706513>, psychological
network methods (correlation, partial correlation, 'graphical lasso',
'Ising') Saqr, Beck, and Lopez-Pernas (2024)
<doi:10.1007/978-3-031-54464-4_19>,
and higher-order network methods including higher-order networks,
higher-order network embedding, hyper-path anomaly, and multi-order
generative model. Supports bootstrap inference, permutation testing,
split-half reliability, centrality stability analysis, mixed Markov
models, multi-cluster multi-layer networks and clustering.
Author: Mohammed Saqr [aut, cre, cph],
Sonsoles Lopez-Pernas [aut],
Kamila Misiejuk [aut]
Maintainer: Mohammed Saqr <saqr@saqr.me>
Diff between Nestimate versions 0.6.0 dated 2026-05-31 and 0.8.0 dated 2026-07-10
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Nestimate-0.8.0/Nestimate/man/mosaic_plot.Rd | 20 Nestimate-0.8.0/Nestimate/man/net_centrality.Rd | 48 Nestimate-0.8.0/Nestimate/man/net_deprune.Rd |only Nestimate-0.8.0/Nestimate/man/net_edge_betweenness.Rd |only Nestimate-0.8.0/Nestimate/man/net_prune.Rd |only Nestimate-0.8.0/Nestimate/man/net_pruning_details.Rd |only Nestimate-0.8.0/Nestimate/man/net_reprune.Rd |only Nestimate-0.8.0/Nestimate/man/permutation.Rd | 31 Nestimate-0.8.0/Nestimate/man/persistent_homology.Rd | 4 Nestimate-0.8.0/Nestimate/man/plot.chain_structure.Rd | 2 Nestimate-0.8.0/Nestimate/man/plot.mcml_pc.Rd |only Nestimate-0.8.0/Nestimate/man/plot.mosaic_analysis.Rd |only Nestimate-0.8.0/Nestimate/man/plot.net_bayes.Rd |only Nestimate-0.8.0/Nestimate/man/plot.net_centrality.Rd |only Nestimate-0.8.0/Nestimate/man/plot.net_centrality_group.Rd |only Nestimate-0.8.0/Nestimate/man/plot.net_comparison.Rd | 2 Nestimate-0.8.0/Nestimate/man/plot.net_edge_betweenness.Rd |only Nestimate-0.8.0/Nestimate/man/plot.net_markov_order.Rd | 15 Nestimate-0.8.0/Nestimate/man/plot.net_sequence_comparison.Rd | 6 Nestimate-0.8.0/Nestimate/man/plot.net_vertex_bootstrap.Rd |only Nestimate-0.8.0/Nestimate/man/plot.net_vertex_comparison.Rd |only Nestimate-0.8.0/Nestimate/man/plot.pc_loading_stability.Rd |only Nestimate-0.8.0/Nestimate/man/predict_links.Rd | 2 Nestimate-0.8.0/Nestimate/man/print.chain_structure.Rd | 2 Nestimate-0.8.0/Nestimate/man/print.chain_structure_group.Rd | 2 Nestimate-0.8.0/Nestimate/man/print.mcml_pc.Rd |only Nestimate-0.8.0/Nestimate/man/print.mosaic_analysis.Rd |only Nestimate-0.8.0/Nestimate/man/print.net_bayes.Rd |only Nestimate-0.8.0/Nestimate/man/print.net_bayes_group.Rd |only Nestimate-0.8.0/Nestimate/man/print.net_certainty.Rd |only Nestimate-0.8.0/Nestimate/man/print.net_pruning_details.Rd |only Nestimate-0.8.0/Nestimate/man/print.net_vertex_bootstrap.Rd |only Nestimate-0.8.0/Nestimate/man/print.net_vertex_comparison.Rd |only Nestimate-0.8.0/Nestimate/man/print.pc_loading_stability.Rd |only Nestimate-0.8.0/Nestimate/man/print.summary_chain_structure.Rd | 2 Nestimate-0.8.0/Nestimate/man/sequence_plot.Rd | 53 Nestimate-0.8.0/Nestimate/man/subtract_networks.Rd |only Nestimate-0.8.0/Nestimate/man/summary.chain_structure.Rd | 2 Nestimate-0.8.0/Nestimate/man/summary.chain_structure_group.Rd | 2 Nestimate-0.8.0/Nestimate/man/summary.mcml_pc.Rd |only Nestimate-0.8.0/Nestimate/man/summary.mosaic_analysis.Rd |only Nestimate-0.8.0/Nestimate/man/summary.net_bayes.Rd |only Nestimate-0.8.0/Nestimate/man/summary.net_bayes_group.Rd |only Nestimate-0.8.0/Nestimate/man/summary.net_vertex_bootstrap.Rd |only Nestimate-0.8.0/Nestimate/man/summary.net_vertex_comparison.Rd |only Nestimate-0.8.0/Nestimate/man/validate_netobject.Rd |only Nestimate-0.8.0/Nestimate/man/vertex_bootstrap.Rd |only Nestimate-0.8.0/Nestimate/man/vertex_compare.Rd |only Nestimate-0.8.0/Nestimate/man/wtna.Rd | 2 Nestimate-0.8.0/Nestimate/tests/testthat/test-as_htna.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-as_netobject.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-bayes_compare.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-build_clusters.R | 6 Nestimate-0.8.0/Nestimate/tests/testthat/test-build_network.R | 59 Nestimate-0.8.0/Nestimate/tests/testthat/test-centrality_stability.R | 145 + Nestimate-0.8.0/Nestimate/tests/testthat/test-certainty.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-contract-htna.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-edge-betweenness.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-fix-FIX2.R | 51 Nestimate-0.8.0/Nestimate/tests/testthat/test-glasso-pure.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-mcml.R | 53 Nestimate-0.8.0/Nestimate/tests/testthat/test-mcml_pc.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-mmm.R | 52 Nestimate-0.8.0/Nestimate/tests/testthat/test-mosaic_analysis.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-mosaic_plot.R | 29 Nestimate-0.8.0/Nestimate/tests/testthat/test-permutation.R | 39 Nestimate-0.8.0/Nestimate/tests/testthat/test-plot_state_frequencies.R | 58 Nestimate-0.8.0/Nestimate/tests/testthat/test-prepare.R | 41 Nestimate-0.8.0/Nestimate/tests/testthat/test-prune.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-sequence_plot.R | 118 + Nestimate-0.8.0/Nestimate/tests/testthat/test-sequence_plot_mcml.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-subtract_networks.R |only Nestimate-0.8.0/Nestimate/tests/testthat/test-vertex_bootstrap.R |only Nestimate-0.8.0/Nestimate/vignettes/clustering.Rmd | 14 188 files changed, 4038 insertions(+), 866 deletions(-)
Title: Instrumental-Variables Regression by '2SLS', '2SM', or '2SMM',
with Diagnostics
Description: Instrumental variable estimation for linear models by two-stage least-squares (2SLS) regression or by robust-regression via M-estimation (2SM) or MM-estimation (2SMM). The main ivreg() model-fitting function is designed to provide a workflow as similar as possible to standard lm() regression. A wide range of methods is provided for fitted ivreg model objects, including extensive functionality for computing and graphing regression diagnostics in addition to other standard model tools.
Author: John Fox [aut] ,
Christian Kleiber [aut] ,
Achim Zeileis [aut, cre] ,
Nikolas Kuschnig [ctb] ,
R Core Team [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between ivreg versions 0.6-7 dated 2026-03-02 and 0.6-8 dated 2026-07-10
DESCRIPTION | 8 MD5 | 16 NEWS.md | 5 R/ivreg.fit.R | 2 R/ivregMethods.R | 6 R/summary.ivreg.R | 4 build/vignette.rds |binary inst/doc/Diagnostics-for-2SLS-Regression.html | 259 +++++----- inst/doc/ivreg.html | 653 ++++++++++++++++++++------ 9 files changed, 672 insertions(+), 281 deletions(-)
Title: Bayesian Model Calibration
Description: Package provides tools for modular Bayesian model calibration. these tools allow for
posterior exploration with sampling methods including tempering and adaptive Markov Chain Monte Carlo (MCMC).
Allows for pooled calibration or hierarchal calibration of parameters.
For more information see Francom et al., 2025 <DOI:10.1137/24M1644092>.
Author: J. Derek Tucker [aut, cre] ,
Sandia National Laboratories [cph, fnd]
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between impala versions 0.1.0 dated 2026-06-19 and 0.1.2 dated 2026-07-10
DESCRIPTION | 6 +- MD5 | 18 +++---- NEWS.md | 4 + R/ModelmvBayes.R | 18 +++++-- R/UtilityFunctions.R | 3 - R/calibPool.R | 15 +++--- build/vignette.rds |binary inst/doc/example.html | 116 +++++++++++++++++++++++++------------------------- inst/small_example.R | 10 ++-- man/calibPool.Rd | 105 +++++++++++++++++++-------------------------- 10 files changed, 147 insertions(+), 148 deletions(-)
Title: Generalized Linear Models Extended
Description: Extended techniques for generalized linear models (GLMs), especially for binary responses,
including parametric links and heteroscedastic latent variables.
Author: Achim Zeileis [aut, cre] ,
Roger Koenker [aut] ,
Philipp Doebler [aut]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between glmx versions 0.2-2 dated 2026-06-12 and 0.2-3 dated 2026-07-10
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 5 +++++ R/glmx.R | 2 +- R/hetglm.R | 4 ++-- build/partial.rdb |binary 6 files changed, 18 insertions(+), 13 deletions(-)
Title: Interface to Download Meteorological (and Hydrological) Datasets
Description: Automatize downloading of meteorological and hydrological data from publicly available repositories:
OGIMET (<http://ogimet.com/index.phtml.en>),
University of Wyoming - atmospheric vertical profiling data (<http://weather.uwyo.edu/upperair/>),
Polish Institute of Meteorology and Water Management - National Research Institute (<https://danepubliczne.imgw.pl>),
and National Oceanic & Atmospheric Administration (NOAA).
This package also allows for searching geographical coordinates for each observation and calculate distances to the nearest stations.
Author: Bartosz Czernecki [aut, cre] ,
Arkadiusz Glogowski [aut] ,
Jakub Nowosad [aut] ,
IMGW-PIB [ctb]
Maintainer: Bartosz Czernecki <nwp@amu.edu.pl>
Diff between climate versions 1.3.0 dated 2026-03-04 and 1.4.0 dated 2026-07-10
DESCRIPTION | 11 MD5 | 95 ++--- NAMESPACE | 8 NEWS.md | 43 ++ R/clean_metadata_hydro.R | 3 R/compute_relative_humidity.R |only R/globals.R | 4 R/hydro_imgw.R | 14 R/hydro_imgw_daily.R | 67 +-- R/hydro_imgw_monthly.R | 49 +- R/hydro_metadata_imgw.R | 2 R/meteo_imgw.R | 102 +++-- R/meteo_imgw_daily.R | 30 - R/meteo_imgw_datastore.R | 2 R/meteo_imgw_hourly.R | 25 - R/meteo_imgw_monthly.R | 13 R/meteo_ogimet.R | 286 +++++++++++---- R/meteo_ogimet_synop.R |only R/meteo_shortening_imgw.R | 1 R/nearest_stations_noaa.R | 1 R/nearest_stations_ogimet.R | 7 R/ogimet_daily.R | 242 ++++-------- R/ogimet_hourly.R | 169 +++------ R/parse_html_table.R |only R/sounding_wyoming.R | 113 ++---- R/stations_hydro_imgw_telemetry.R | 5 R/stations_meteo_imgw_telemetry.R | 4 R/stations_ogimet.R | 3 R/synop_parser.R |only R/utils.R | 25 + R/zzz.R | 2 README.md | 266 +++++++++----- inst/doc/getstarted.R | 41 +- inst/doc/getstarted.Rmd | 130 +++++- inst/doc/getstarted.html | 488 +++++++++++++++++++++----- man/compute_relative_humidity.Rd |only man/hydro_imgw.Rd | 18 man/hydro_imgw_daily.Rd | 16 man/hydro_imgw_monthly.Rd | 6 man/meteo_imgw.Rd | 59 ++- man/meteo_imgw_datastore.Rd | 2 man/meteo_ogimet.Rd | 178 ++++++--- man/meteo_ogimet_synop.Rd |only man/nearest_stations_ogimet.Rd | 2 man/ogimet_daily.Rd | 10 man/ogimet_hourly.Rd | 7 man/parse_html_table.Rd |only man/sounding_wyoming.Rd | 67 +-- man/stations_hydro_imgw_telemetry.Rd | 2 man/stations_meteo_imgw_telemetry.Rd | 2 man/synop_parser.Rd |only vignettes/Ogimet_meteorological_database.html |only vignettes/getstarted.Rmd | 130 +++++- 53 files changed, 1724 insertions(+), 1026 deletions(-)
Title: Client for Central Bank APIs
Description: A client for retrieving data and metadata from central bank
APIs including 'Banco Central do Brasil' (BCB), 'Banco de España'
(BdE), 'Banco de México' (Banxico), 'Banco de Portugal' (BdP), 'Bank
for International Settlements' (BIS), 'Bank of Canada' (BoC), 'Bank of
England' (BoE), 'Bank of Japan' (BoJ), 'Banque de France' (BdF),
'Czech National Bank' (CNB), 'Deutsche Bundesbank' (BBk), 'European
Central Bank' (ECB), 'National Bank of Poland' (NBP), 'Norges Bank'
(NoB), 'Oesterreichische Nationalbank' (OeNB), 'Sveriges Riksbank'
(SRb), and 'Swiss National Bank' (SNB).
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between bbk versions 0.11.0 dated 2026-06-11 and 0.12.0 dated 2026-07-10
DESCRIPTION | 22 +-- MD5 | 181 ++++++++++++++------------ NAMESPACE | 9 + NEWS.md | 6 R/assertions.R | 12 + R/banxico.R |only R/bbk-package.R | 4 R/bbk.R | 8 - R/bcb.R |only R/bde.R | 5 R/bdf.R | 5 R/bdp.R | 7 - R/boc.R | 5 R/boe.R | 5 R/boj.R | 7 - R/cache.R | 10 - R/cnb.R | 26 --- R/fx-rates.R | 5 R/httr2.R |only R/nbp.R | 21 ++- R/onb.R | 5 R/sdmx.R | 5 R/snb.R | 5 R/srb.R | 5 README.md | 14 +- man/banxico_data.Rd |only man/banxico_metadata.Rd |only man/bbk-package.Rd | 2 man/bbk_data.Rd | 9 + man/bbk_dimension.Rd | 4 man/bbk_metadata.Rd | 4 man/bbk_series.Rd | 9 + man/bcb_currencies.Rd |only man/bcb_data.Rd |only man/bcb_expectations.Rd |only man/bcb_fx_rates.Rd |only man/bcb_inflation.Rd |only man/bcb_selic.Rd |only man/bcb_top5.Rd |only man/bde_data.Rd | 7 + man/bde_latest.Rd | 7 + man/bdf_codelist.Rd | 7 + man/bdf_data.Rd | 7 + man/bdf_dataset.Rd | 7 + man/bdf_dimension.Rd | 2 man/bdp_data.Rd | 7 + man/bdp_dataset.Rd | 2 man/bdp_dimension.Rd | 2 man/bdp_domain.Rd | 2 man/bdp_series.Rd | 2 man/bis_data.Rd | 7 + man/bis_dimension.Rd | 2 man/bis_metadata.Rd | 2 man/boc_data.Rd | 7 + man/boe_data.Rd | 7 + man/boj_data.Rd | 7 + man/boj_metadata.Rd | 2 man/cache.Rd | 6 man/cnb_czeonia.Rd | 7 + man/cnb_data.Rd | 7 + man/cnb_dimension.Rd | 2 man/cnb_fx_other_rates.Rd | 7 + man/cnb_fx_rates.Rd | 7 + man/cnb_indicators.Rd | 2 man/cnb_pribor.Rd | 7 + man/cnb_snapshots.Rd | 2 man/cnb_tree.Rd | 2 man/ecb_data.Rd | 7 + man/ecb_dimension.Rd | 2 man/ecb_metadata.Rd | 2 man/figures/README-plotting-1.png |binary man/nbp_fx_rates.Rd | 7 + man/nbp_gold.Rd | 7 + man/nob_data.Rd | 7 + man/nob_dimension.Rd | 2 man/nob_metadata.Rd | 2 man/onb_data.Rd | 7 + man/onb_dimension.Rd | 2 man/onb_frequency.Rd | 2 man/onb_hierarchy.Rd | 2 man/onb_metadata.Rd | 2 man/onb_toc.Rd | 2 man/snb_data.Rd | 7 + man/snb_dimension.Rd | 2 man/snb_metadata.Rd | 2 man/snb_toc.Rd | 2 man/srb_calendar.Rd | 2 man/srb_cross_rates.Rd | 7 + man/srb_data.Rd | 7 + man/srb_series.Rd | 2 tests/testthat/_snaps |only tests/testthat/fixtures/banxico-data.json |only tests/testthat/fixtures/banxico-metadata.json |only tests/testthat/fixtures/bcb-currencies.json |only tests/testthat/fixtures/bcb-data.json |only tests/testthat/fixtures/bcb-expectations.json |only tests/testthat/fixtures/bcb-fx-rates.json |only tests/testthat/fixtures/bcb-inflation.json |only tests/testthat/fixtures/bcb-selic.json |only tests/testthat/fixtures/bcb-top5-selic.json |only tests/testthat/fixtures/bcb-top5.json |only tests/testthat/test-banxico.R |only tests/testthat/test-bcb.R |only tests/testthat/test-nbp.R | 22 +++ 104 files changed, 460 insertions(+), 181 deletions(-)
Title: R-ArcGIS Bridge Utility Functions
Description: Developer oriented utility functions designed to be used as
the building blocks of R packages that work with ArcGIS Location
Services. It provides functionality for authorization, Esri JSON
construction and parsing, as well as other utilities pertaining to
geometry and Esri type conversions. To support 'ArcGIS Pro' users,
authorization can be done via 'arcgisbinding'. Installation
instructions for 'arcgisbinding' can be found at
<https://developers.arcgis.com/r-bridge/installation/>.
Author: Josiah Parry [aut, cre] ,
Kenneth Vernon [ctb] ,
Martha Bass [ctb] ,
Eli Pousson [ctb] ,
Ryan Zomorrodi [ctb]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcgisutils versions 0.5.0 dated 2026-03-04 and 0.6.0 dated 2026-07-10
DESCRIPTION | 13 +++-- MD5 | 65 ++++++++++++++-------------- NEWS.md | 18 +++++++ R/geoprocessing-class.R | 25 ++++++++++ R/geoprocessing-types.R | 6 ++ R/user-group-content.R | 2 R/user-self.R | 2 README.md | 31 ++++++++----- man/arc_group.Rd | 2 man/arc_item.Rd | 2 man/arc_item_data.Rd | 2 man/arc_portal_urls.Rd | 2 man/arc_user.Rd | 2 man/content.Rd | 6 ++ man/gp_job.Rd | 11 ++++ man/rbind_results.Rd | 2 man/search_items.Rd | 2 src/Makevars.in | 26 ++++++----- src/Makevars.win.in | 14 ++++-- src/rust/Cargo.lock | 57 ++++++++++++++---------- src/rust/Cargo.toml | 6 +- src/rust/src/to/attributes.rs | 21 ++++++--- src/rust/src/to/features/linestring.rs | 2 src/rust/src/to/features/multilinestring.rs | 2 src/rust/src/to/features/multipoint.rs | 2 src/rust/src/to/features/multipolygon.rs | 2 src/rust/src/to/features/point.rs | 2 src/rust/src/to/features/polygon.rs | 2 src/rust/src/to/point.rs | 24 +++++----- src/rust/vendor-config.toml | 4 - src/rust/vendor.tar.xz |binary tests/testthat/test-form-params.R |only tests/testthat/test-geoprocessing-types.R |only tests/testthat/test-json-na.R |only tools/config.R | 7 ++- 35 files changed, 234 insertions(+), 130 deletions(-)
Title: Extended Vasicek Credit Loss Model with Macroeconomic Factors
Description: Fits the extended Vasicek single-factor credit loss model where
the probability of default depends on macroeconomic covariates. Maximum
likelihood estimates of all parameters, including asset value correlation,
are obtained via closed-form probit-transformed OLS regression; see
Mayorov (2026) <doi:10.2139/ssrn.6506378> for derivation.
Author: Dmitriy Mayorov [aut, cre]
Maintainer: Dmitriy Mayorov <cran@dimview.org>
Diff between vasicekfit versions 0.1.0 dated 2026-04-28 and 0.2.0 dated 2026-07-10
DESCRIPTION | 8 +-- MD5 | 25 ++++++----- NEWS.md |only R/distribution.R | 6 +- R/methods.R | 49 ++++++++++++++++------- R/predict.vasicekfit.R | 44 +++++++++++++------- R/vasicekfit.R | 25 +++++++++-- README.md | 7 ++- man/predict.vasicekfit.Rd | 19 ++++++++- man/vasicekfit-methods.Rd | 44 +++++++++++++++++--- man/vasicekfit.Rd | 10 +++- tests/testthat/test-predict.R | 24 +++++++++-- tests/testthat/test-vasicekfit.R | 21 +++++++++ tests/testthat/test-vcov-confint.R | 78 +++++++++++++++++++++++++++++++++++++ 14 files changed, 291 insertions(+), 69 deletions(-)
More information about stepwedgepower at CRAN
Permanent link
Title: Least Squares Sparse Principal Components Analysis
Description: Implements least-squares sparse principal component analysis (LS-SPCA). The approach follows Merola (2015) <doi:10.1111/anzs.12128> and Merola and Chen (2019) <doi:10.1016/j.jmva.2019.04.001>.
Author: Giovanni Maria Merola [aut, cre]
Maintainer: Giovanni Maria Merola <merolagio@gmail.com>
This is a re-admission after prior archival of version 0.6.0 dated 2014-12-16
Diff between spca versions 0.6.0 dated 2014-12-16 and 1.1.1 dated 2026-07-10
spca-0.6.0/spca/R/PCA.R |only spca-0.6.0/spca/R/SPCA_B&B_all_Funcs.R |only spca-0.6.0/spca/R/SPCA_BE.R |only spca-0.6.0/spca/R/SPCA_Corr_And_Uncor_Funcs.R |only spca-0.6.0/spca/R/SPCA_Functions_forcard.R |only spca-0.6.0/spca/R/SPCA_Functions_support.R |only spca-0.6.0/spca/R/SPCA_Methods_For_Class.R |only spca-0.6.0/spca/data/anthrop.RData |only spca-0.6.0/spca/data/bsbl.RData |only spca-0.6.0/spca/data/bsbl_avg.RData |only spca-0.6.0/spca/data/bsbl_labels.RData |only spca-0.6.0/spca/inst/doc/Advanced_Example.R |only spca-0.6.0/spca/inst/doc/Advanced_Example.Rmd |only spca-0.6.0/spca/inst/doc/Advanced_Example.html |only spca-0.6.0/spca/inst/doc/BE_Algorithm.R |only spca-0.6.0/spca/inst/doc/BE_Algorithm.Rmd |only spca-0.6.0/spca/inst/doc/BE_Algorithm.html |only spca-0.6.0/spca/inst/doc/Introduction.R |only spca-0.6.0/spca/inst/doc/Introduction.Rmd |only spca-0.6.0/spca/inst/doc/Introduction.html |only spca-0.6.0/spca/inst/doc/manual.Rmd |only spca-0.6.0/spca/inst/doc/manual.html |only spca-0.6.0/spca/inst/manual.Rnw |only spca-0.6.0/spca/inst/manual.pdf |only spca-0.6.0/spca/man/anthrop.Rd |only spca-0.6.0/spca/man/bsbl.Rd |only spca-0.6.0/spca/man/bsbl_avg.Rd |only spca-0.6.0/spca/man/bsbl_labels.Rd |only spca-0.6.0/spca/man/choosecard.Rd |only spca-0.6.0/spca/man/compare.spca.Rd |only spca-0.6.0/spca/man/showload.Rd |only spca-0.6.0/spca/man/spcabb.Rd |only spca-0.6.0/spca/man/spcabe.Rd |only spca-0.6.0/spca/vignettes/Advanced_Example.Rmd |only spca-0.6.0/spca/vignettes/BE_Algorithm.Rmd |only spca-0.6.0/spca/vignettes/BE_flowchart |only spca-0.6.0/spca/vignettes/Introduction.Rmd |only spca-0.6.0/spca/vignettes/manual.Rmd |only spca-0.6.0/spca/vignettes/spca.bibtex |only spca-1.1.1/spca/DESCRIPTION | 40 +-- spca-1.1.1/spca/MD5 | 172 +++++++++---- spca-1.1.1/spca/NAMESPACE | 77 +++++- spca-1.1.1/spca/NEWS.md |only spca-1.1.1/spca/R/RcppExports.R |only spca-1.1.1/spca/R/compare_spca.R |only spca-1.1.1/spca/R/datasets.R |only spca-1.1.1/spca/R/helpers_and_validation.R |only spca-1.1.1/spca/R/imports.R |only spca-1.1.1/spca/R/pca.R |only spca-1.1.1/spca/R/plot.spca.R |only spca-1.1.1/spca/R/print.spca.R |only spca-1.1.1/spca/R/spca-package.R | 201 ++++++--------- spca-1.1.1/spca/R/spca.R |only spca-1.1.1/spca/R/summary.spca.R |only spca-1.1.1/spca/R/utilities_and_cpp_wrappers.R |only spca-1.1.1/spca/README.md |only spca-1.1.1/spca/build/partial.rdb |only spca-1.1.1/spca/build/vignette.rds |binary spca-1.1.1/spca/data/holzinger.rda |only spca-1.1.1/spca/data/holzinger_scales.rda |only spca-1.1.1/spca/inst/CITATION |only spca-1.1.1/spca/inst/doc/spca_extended_vignette.R |only spca-1.1.1/spca/inst/doc/spca_extended_vignette.Rmd |only spca-1.1.1/spca/inst/doc/spca_extended_vignette.html |only spca-1.1.1/spca/inst/doc/spca_intro.R |only spca-1.1.1/spca/inst/doc/spca_intro.Rmd |only spca-1.1.1/spca/inst/doc/spca_intro.html |only spca-1.1.1/spca/man/aggregate_by_group.Rd |only spca-1.1.1/spca/man/change_loadings_sign_spca.Rd |only spca-1.1.1/spca/man/compare_spca.Rd |only spca-1.1.1/spca/man/figures |only spca-1.1.1/spca/man/holzinger.Rd |only spca-1.1.1/spca/man/holzinger_scales.Rd |only spca-1.1.1/spca/man/is.spca.Rd | 64 +++-- spca-1.1.1/spca/man/new_spca.Rd |only spca-1.1.1/spca/man/pca.Rd | 157 ++++++++---- spca-1.1.1/spca/man/plot.spca.Rd | 239 ++++++++++++------- spca-1.1.1/spca/man/print.spca.Rd | 130 ++++++---- spca-1.1.1/spca/man/show_contributions_spca.Rd |only spca-1.1.1/spca/man/spca-package.Rd | 115 +++++---- spca-1.1.1/spca/man/spca.Rd | 225 ++++++++++++----- spca-1.1.1/spca/man/spca_object.Rd |only spca-1.1.1/spca/man/spca_screeplot.Rd |only spca-1.1.1/spca/man/summary.spca.Rd | 157 +++++++----- spca-1.1.1/spca/man/wachter_qqplot.Rd |only spca-1.1.1/spca/src |only spca-1.1.1/spca/tests |only spca-1.1.1/spca/vignettes/Extended_vignette_material |only spca-1.1.1/spca/vignettes/figures |only spca-1.1.1/spca/vignettes/spca_extended_vignette.Rmd |only spca-1.1.1/spca/vignettes/spca_intro.Rmd |only 91 files changed, 1007 insertions(+), 570 deletions(-)
Title: Harness ArcGIS Data Services
Description: Enables users of 'ArcGIS Enterprise', 'ArcGIS Online', or
'ArcGIS Platform' to read, write, publish, or manage vector and raster
data via ArcGIS location services REST API endpoints
<https://developers.arcgis.com/rest/>.
Author: Josiah Parry [aut, cre] ,
Eli Pousson [ctb] ,
Kenneth Vernon [ctb] ,
Martha Bass [ctb] ,
Antony Barja [ctb]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcgislayers versions 0.6.0 dated 2026-03-04 and 0.6.1 dated 2026-07-10
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NEWS.md | 8 ++++++-- R/add_item.R | 27 +++++++++++++++++++++++++-- R/arc-add-delete.R | 8 +++++--- tests/testthat/_snaps/json-correctness.md |only tests/testthat/test-json-correctness.R |only 7 files changed, 46 insertions(+), 15 deletions(-)
Title: Human 'Connectome' Project Interface
Description: Downloads and reads data from Human 'Connectome' Project
<https://balsa.wustl.edu/> using Amazon Web Services ('AWS')
'S3' buckets.
Author: John Muschelli [aut, cre],
Adi Gherman [ctb]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between neurohcp versions 0.11.0 dated 2025-04-01 and 0.12.0 dated 2026-07-10
DESCRIPTION | 18 ++++++------ MD5 | 52 +++++++++++++++++++----------------- NEWS.md | 5 +++ R/bucketlist.R | 22 +++++++++------ R/download_hcp_dir.R | 3 +- R/download_hcp_file.R | 57 +++++++++++++++++++-------------------- R/get_hcp_file.R | 39 ++++++++++++++------------- R/hcp_aws_url.R | 4 ++ R/hcp_ids.R | 3 +- R/hcp_list_files.R | 67 +++++++++++++++++++++-------------------------- R/make_aws_call.R | 4 ++ R/parse_list_files.R | 2 + R/s3_http.R |only README.md | 31 +++++---------------- inst/doc/hcp.R | 16 +++++------ inst/doc/hcp.Rmd | 5 +-- inst/doc/hcp.html | 34 +++++++++-------------- man/bucketlist.Rd | 14 ++++++++- man/download_hcp_dir.Rd | 2 + man/download_hcp_file.Rd | 2 + man/hcp_aws_url.Rd | 2 + man/hcp_ids.Rd | 2 + man/hcp_list_files.Rd | 8 +++++ man/make_aws_call.Rd | 2 + man/parse_list_files.Rd | 2 + tests |only vignettes/hcp.Rmd | 5 +-- 27 files changed, 213 insertions(+), 188 deletions(-)
Title: Cohort Generation for the OMOP Common Data Model
Description: Generate cohorts and subsets using an Observational
Medical Outcomes Partnership (OMOP) Common Data Model (CDM) Database.
Cohorts are defined using 'CIRCE' (<https://github.com/ohdsi/circe-be>) or
SQL compatible with 'SqlRender' (<https://github.com/OHDSI/SqlRender>).
Author: Anthony Sena [aut, cre],
Jamie Gilbert [aut],
Gowtham Rao [aut],
Freddy Avila Cruz [aut],
Martijn Schuemie [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Anthony Sena <sena@ohdsi.org>
Diff between CohortGenerator versions 1.1.0 dated 2026-03-03 and 1.1.1 dated 2026-07-10
DESCRIPTION | 10 MD5 | 43 +-- NEWS.md | 9 R/RunCohortGeneration.R | 11 R/Subsets.R | 8 inst/doc/CreatingCohortSubsetDefinitions.html | 6 inst/doc/GeneratingCohorts.pdf |binary inst/doc/SamplingCohorts.pdf |binary inst/doc/UsingTemplateCohorts.html | 8 man/CohortGenerator-package.Rd | 1 man/CohortSubsetDefinition.Rd | 292 +++++++++++++------------- man/CohortSubsetOperator.Rd | 140 ++++++------ man/CohortTemplateDefinition.Rd | 251 +++++++++++----------- man/DemographicSubsetOperator.Rd | 222 ++++++++++--------- man/LimitSubsetOperator.Rd | 112 +++++---- man/SubsetCohortWindow.Rd | 106 +++++---- man/SubsetOperator.Rd | 246 +++++++++++---------- man/createCohortSubsetOperator.Rd | 6 man/createDemographicSubsetOperator.Rd | 6 man/createLimitSubsetOperator.Rd | 6 tests/testthat/errorReportSql.txt |only tests/testthat/test-RunCohortGeneration.R | 19 + tests/testthat/test-Subsets.R | 46 ++++ 23 files changed, 859 insertions(+), 689 deletions(-)
More information about CohortGenerator at CRAN
Permanent link
Title: A Collection of ML Tools for Species Detection and
Classification in Camera Trap Images and Videos
Description: Functions required to classify subjects within camera trap field data. The package can handle both images and videos. The authors recommend a two-step approach using Microsoft's 'MegaDector' model and then a second model trained on the classes of interest.
Author: Kyra Swanson [aut, cre] ,
Mathias Tobler [aut]
Maintainer: Kyra Swanson <tswanson@sdzwa.org>
Diff between animl versions 3.3.0 dated 2026-06-16 and 3.3.1 dated 2026-07-10
DESCRIPTION | 6 LICENSE | 2 MD5 | 163 ++--- NAMESPACE | 112 ++-- NEWS.md | 88 +-- R/classification.R | 268 ++++----- R/detection.R | 330 ++++++----- R/export.R | 624 +++++++++++----------- R/file_management.R | 719 +++++++++++++------------- R/install.R | 666 ++++++++++++------------ R/reid.R | 276 ++++----- R/sequence_classification.R | 518 +++++++++--------- R/train.R | 132 ++-- R/video_processing.R | 110 +-- R/visualization.R | 168 +++--- R/zzz.R | 56 +- README.md | 329 +++++------ man/WorkingDirectory.Rd | 48 - man/active_times.Rd | 66 +- man/animl_install.Rd | 44 - man/animl_install_instructions.Rd | 22 man/build_file_manifest.Rd | 92 +-- man/check_animl_py.Rd | 22 man/check_file.Rd | 50 - man/check_python.Rd | 44 - man/classify.Rd | 104 +-- man/compute_batched_distance_matrix.Rd | 66 +- man/compute_distance_matrix.Rd | 48 - man/cosine_distance.Rd | 44 - man/create_pyenv.Rd | 38 - man/delete_pyenv.Rd | 40 - man/detect.Rd | 116 ++-- man/download_model.Rd | 50 - man/euclidean_squared_distance.Rd | 44 - man/export_camptrapdp.Rd | 62 +- man/export_camtrapR.Rd | 96 +-- man/export_coco.Rd | 56 +- man/export_folders.Rd | 96 +-- man/export_megadetector.Rd | 62 +- man/export_timelapse.Rd | 48 - man/export_train_val_test.Rd | 90 +-- man/export_yolo.Rd | 92 +-- man/extract_frames.Rd | 90 +-- man/extract_major_minor.Rd |only man/extract_miew_embeddings.Rd | 74 +- man/get_animals.Rd | 44 - man/get_empty.Rd | 44 - man/get_frame_as_image.Rd | 44 - man/list_models.Rd | 40 - man/load_animl.Rd | 48 - man/load_class_list.Rd | 40 - man/load_classifier.Rd | 74 +- man/load_data.Rd | 44 - man/load_detector.Rd | 56 +- man/load_json.Rd | 44 - man/load_miew.Rd | 44 - man/load_yaml.Rd | 44 - man/parse_detections.Rd | 72 +- man/plot_all_bounding_boxes.Rd | 100 +-- man/plot_box.Rd | 98 +-- man/remove_diagonal.Rd | 40 - man/remove_link.Rd | 48 - man/save_classifier.Rd | 74 +- man/save_data.Rd | 52 - man/save_json.Rd | 52 - man/save_yaml.Rd | 52 - man/sequence_calculation.Rd | 78 +- man/sequence_classification.Rd | 146 ++--- man/single_classification.Rd | 86 +-- man/test_classifier.Rd | 40 - man/train_classifier.Rd | 48 - man/update_animl_py.Rd | 40 - man/update_labels_from_folders.Rd | 52 - tests/testthat.R | 24 tests/testthat/helper-animl.R | 6 tests/testthat/test-classification.R | 140 ++--- tests/testthat/test-detection.R | 164 ++--- tests/testthat/test-export.R | 370 ++++++------- tests/testthat/test-file_management.R | 406 +++++++------- tests/testthat/test-reid.R | 240 ++++---- tests/testthat/test-sequence_classification.R | 160 ++--- tests/testthat/test-split.R | 234 ++++---- tests/testthat/test-visualization.R | 80 +- 83 files changed, 4884 insertions(+), 4855 deletions(-)
Title: An Interface to 'nVenn2'
Description: Creates quasi-proportional Venn diagrams with an arbitrary number of sets.
It is related to the old 'nVennR' package, but the algorithm and use have been reworked.
Author: Victor Quesada [aut, cre, cph]
Maintainer: Victor Quesada <quesadavictor@uniovi.es>
Diff between nVennR2 versions 2.0.1 dated 2026-06-01 and 2.0.2 dated 2026-07-10
DESCRIPTION | 8 MD5 | 20 NEWS.md | 8 R/nVenn2.R | 4 inst/CITATION | 8 inst/doc/nVennR2.R | 4 inst/doc/nVennR2.Rmd | 8 inst/doc/nVennR2.html | 3770 ++++++++++++++++++++----------------------- tests/testthat/Rplots.pdf |only tests/testthat/test-nVenn2.R | 19 vignettes/error.svg |only vignettes/nVennR2.Rmd | 8 12 files changed, 1819 insertions(+), 2038 deletions(-)
Title: Interface for Large Language Model APIs in R
Description: Provides a unified interface to large language models across multiple
providers. Supports text generation, tidy data workflows, structured output
with optional JSON Schema validation, XML-like tag extraction, and embeddings.
Includes chat sessions, consistent error handling, and parallel batch tools.
Author: Ali Sanaei [aut, cre]
Maintainer: Ali Sanaei <sanaei@uchicago.edu>
Diff between LLMR versions 0.8.6 dated 2026-06-17 and 0.8.10 dated 2026-07-10
DESCRIPTION | 14 MD5 | 167 +++++---- NAMESPACE | 12 NEWS.md | 522 +++++------------------------- R/LLMR.R | 109 +++++- R/LLMR_response.R | 22 - R/LLMR_tidy.R | 134 +++++-- R/LLM_parallel_utils.R | 126 ++++++- R/LLM_robust_utils.R | 4 R/audit_log.R | 85 ++++ R/batch_mode.R | 67 ++- R/data.R |only R/hash.R | 40 ++ R/json_mode.R | 89 ++++- R/log_messages.R | 38 +- R/log_read.R | 12 R/personas.R |only R/render_messages.R | 25 + R/replicate.R | 98 +++++ R/response_record.R | 2 R/stream.R | 45 ++ R/tags_mode.R | 35 +- R/tools.R | 27 + R/transcript_messages.R |only R/usage.R | 8 README.md | 2 build/vignette.rds |binary data |only inst/CITATION |only inst/anes-data-prep |only inst/doc/about-schema.Rmd | 2 inst/doc/about-schema.html | 6 inst/doc/chat-basics.html | 2 inst/doc/experiments.html | 2 inst/doc/interactive-calls.html | 2 inst/doc/presidential_embeddings.Rmd | 2 inst/doc/presidential_embeddings.html | 6 inst/doc/quickstart.html | 2 inst/doc/reproducibility-and-cost.Rmd | 6 inst/doc/reproducibility-and-cost.html | 9 inst/doc/tidy-and-structured.html | 2 inst/doc/trolley-dilemma-experiment.Rmd | 10 inst/doc/trolley-dilemma-experiment.html | 24 - man/anes_2024_personas.Rd |only man/call_llm_broadcast.Rd | 2 man/call_llm_par.Rd | 8 man/call_llm_par_structured.Rd | 5 man/call_llm_par_tags.Rd | 5 man/call_llm_stream.Rd | 7 man/call_llm_sweep.Rd | 2 man/disable_structured_output.Rd | 3 man/ensure_alternating_messages.Rd |only man/expand_llm_config.Rd | 2 man/get_batched_embeddings.Rd | 13 man/llm_add_request_hash.Rd |only man/llm_agreement.Rd | 16 man/llm_batch_submit.Rd | 13 man/llm_cross_design.Rd | 2 man/llm_fn.Rd | 15 man/llm_fn_structured.Rd | 6 man/llm_fn_tags.Rd | 5 man/llm_log_enable.Rd | 24 + man/llm_mutate.Rd | 8 man/llm_mutate_structured.Rd | 6 man/llm_mutate_tags.Rd | 6 man/llm_persona_demographic_fields.Rd |only man/llm_persona_dictionary.Rd |only man/llm_persona_overview.Rd |only man/llm_persona_split.Rd |only man/llm_tool_signature.Rd |only man/llm_uuid.Rd |only man/llm_validate_persona_frame.Rd |only man/llm_validate_structured_col.Rd | 4 man/llmr_response.Rd | 22 - man/log_llm_error.Rd | 4 man/transcript_as_messages.Rd |only tests/testthat/test-083-core.R | 25 + tests/testthat/test-083-features.R | 101 +++++ tests/testthat/test-audit-fixes-2.R | 33 + tests/testthat/test-audit-fixes.R | 13 tests/testthat/test-batch_mode.R | 58 +++ tests/testthat/test-call_llm.R | 17 tests/testthat/test-canonical-hash.R | 55 +++ tests/testthat/test-enrichment.R |only tests/testthat/test-json-mode.R | 13 tests/testthat/test-log-read.R | 59 +++ tests/testthat/test-personas.R |only tests/testthat/test-render-messages.R | 25 + tests/testthat/test-transcript-messages.R |only tests/testthat/test-usage.R | 22 + vignettes/about-schema.Rmd | 2 vignettes/presidential_embeddings.Rmd | 2 vignettes/reproducibility-and-cost.Rmd | 6 vignettes/trolley-dilemma-experiment.Rmd | 10 94 files changed, 1610 insertions(+), 767 deletions(-)
Title: Comprehensive Statistical Tools for Agricultural Research
Description: A comprehensive suite of statistical and analytical tools for
agricultural research. Includes complete analysis of variance (ANOVA)
functions for all experimental designs: Completely Randomized Design (CRD),
Randomized Block Design (RBD), Pooled RBD, Split Plot with all variations,
Split-Split Plot, Strip Plot, Latin Square, Factorial, Augmented, and Alpha
Lattice, with proper error terms and comprehensive Standard Error (SE) and
Critical Difference (CD) calculations. Features multiple post-hoc tests:
Least Significant Difference (LSD), Duncan Multiple Range Test (DMRT),
Tukey Honestly Significant Difference (HSD), Student-Newman-Keuls (SNK),
Scheffe, Bonferroni, and Dunnett, along with assumption checking and
publication-ready output. Advanced methods include stability analysis using
Eberhart-Russell regression, Additive Main Effects and Multiplicative
Interaction (AMMI), Finlay-Wilkinson regression, Shukla stability variance,
Wricke ecovalence, Coefficient of Variation (CV), and Cult [...truncated...]
Author: Lalit Kumar Rolaniya [aut, cre] ,
Ram Lal Jat [aut] ,
Monika Punia [aut] ,
Raja Ram Choudhary [aut]
Maintainer: Lalit Kumar Rolaniya <lalitrolaniya@gmail.com>
Diff between aridagri versions 2.0.3 dated 2026-02-24 and 2.0.4 dated 2026-07-10
aridagri-2.0.3/aridagri/man/get_sig_symbol.Rd |only aridagri-2.0.3/aridagri/man/imports.Rd |only aridagri-2.0.4/aridagri/DESCRIPTION | 8 aridagri-2.0.4/aridagri/MD5 | 39 - aridagri-2.0.4/aridagri/NAMESPACE | 2 aridagri-2.0.4/aridagri/NEWS.md |only aridagri-2.0.4/aridagri/R/agronomic_analysis.R | 131 +++-- aridagri-2.0.4/aridagri/R/aridagri-package.R | 184 +++++++ aridagri-2.0.4/aridagri/R/aridagri-spd-core.R |only aridagri-2.0.4/aridagri/R/design_additional.R | 111 ++-- aridagri-2.0.4/aridagri/R/design_basic.R | 33 + aridagri-2.0.4/aridagri/R/design_split_plot.R | 548 +++++----------------- aridagri-2.0.4/aridagri/R/imports.R | 2 aridagri-2.0.4/aridagri/R/posthoc_helpers.R | 180 ++++--- aridagri-2.0.4/aridagri/R/statistical_functions.R | 103 ---- aridagri-2.0.4/aridagri/README.md | 235 ++++++--- aridagri-2.0.4/aridagri/man/arid_plot.Rd | 7 aridagri-2.0.4/aridagri/man/export_results.Rd | 2 aridagri-2.0.4/aridagri/man/figures |only aridagri-2.0.4/aridagri/tests |only 20 files changed, 798 insertions(+), 787 deletions(-)
Title: Working with Rotation Data
Description: Tools for working with rotational data, including
simulation from the most commonly used distributions on SO(3),
methods for different Bayes, mean and median type estimators for
the central orientation of a sample, confidence/credible
regions for the central orientation based on those estimators and
a novel visualization technique for rotation data. Most recently,
functions to identify potentially discordant (outlying) values
have been added. References: Bingham, Melissa A. and Nordman, Dan J. and Vardeman, Steve B. (2009),
Bingham, Melissa A and Vardeman, Stephen B and Nordman, Daniel J (2009),
Bingham, Melissa A and Nordman, Daniel J and Vardeman, Stephen B (2010),
Leon, C.A. and Masse, J.C. and Rivest, L.P. (2006),
Hartley, R and Aftab, K and Trumpf, J. (2011),
Stanfill, Bryan and Genschel, Ulrike and Hofmann, Heike (2013),
Maonton, Jonathan (2004),
Mardia, KV and Jupp, PE (2000, ISBN:9780471953333),
Rancourt, D. and Rivest, L.P. and Asselin, J. (2000),
Chang, Ted and Rivest, Loui [...truncated...]
Author: Bryan Stanfill [aut, cre],
Heike Hofmann [aut],
Ulrike Genschel [aut],
Aymeric Stamm [ctb] ,
Luciano Selzer [ctb]
Maintainer: Bryan Stanfill <bstanfill2003@gmail.com>
Diff between rotations versions 1.6.6 dated 2025-09-28 and 1.6.7 dated 2026-07-10
DESCRIPTION | 10 +-- MD5 | 38 ++++++------- NEWS | 8 ++ R/Q4-class.R | 1 build/vignette.rds |binary inst/CITATION | 4 - inst/REFERENCES.bib | 1 inst/doc/rotations-intro.R | 8 ++ inst/doc/rotations-intro.Rnw | 11 +++- inst/doc/rotations-intro.pdf |binary man/Q4.Rd | 5 - man/SO3.Rd | 4 - man/head.Rd | 30 ++++++---- man/rotations.Rd | 1 man/tail.Rd | 30 ++++++---- src/RcppExports.cpp | 88 ++++++++++++++++---------------- tests/testthat/test_conversions.R | 2 vignettes/RJournal_edited.sty | 6 +- vignettes/rotations-intro.Rnw | 11 +++- vignettes/stanfill-hofmann-genschel.bib | 15 ++--- 20 files changed, 151 insertions(+), 122 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Data
Description: Datasets for 'nlmixr2' and 'rxode2'. 'nlmixr2' is used for fitting and comparing
nonlinear mixed-effects models in differential
equations with flexible dosing information commonly seen in pharmacokinetics
and pharmacodynamics (Almquist, Leander, and Jirstrand 2015
<doi:10.1007/s10928-015-9409-1>). Differential equation solving is
by compiled C code provided in the 'rxode2' package
(Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut, cre] ,
Rik Schoemaker [ctb] ,
Kyle Baron [ctb],
Thierry Wendling [ctb],
Ted Grasella [ctb],
C Weil [ctb],
Yaning Wang [ctb],
R O'Reilly [ctb],
David D'Argenio [ctb],
Rodriguez-Vera [ctb],
D Gaver [ctb],
Yuan Xiong [ctb],
Jan Rohl [...truncated...]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between nlmixr2data versions 2.0.9 dated 2024-01-31 and 2.0.10 dated 2026-07-10
DESCRIPTION | 17 ++++++++++------- MD5 | 49 ++++++++++++++++++++++++++----------------------- R/data_neonatal_wt.R |only data/neonatal_wt.rda |only man/Bolus_1CPT.Rd | 13 +++++++------ man/Bolus_1CPTMM.Rd | 13 +++++++------ man/Bolus_2CPT.Rd | 13 +++++++------ man/Bolus_2CPTMM.Rd | 13 +++++++------ man/Infusion_1CPT.Rd | 13 +++++++------ man/Infusion_1CPTMM.Rd | 13 +++++++------ man/Infusion_2CPT.Rd | 13 +++++++------ man/Infusion_2CPTMM.Rd | 13 +++++++------ man/Oral_1CPT.Rd | 13 +++++++------ man/Oral_1CPTMM.Rd | 13 +++++++------ man/Oral_2CPT.Rd | 13 +++++++------ man/Oral_2CPTMM.Rd | 13 +++++++------ man/Wang2007.Rd | 15 ++++++++------- man/mavoglurant.Rd | 15 ++++++++------- man/neonatal_wt.Rd |only man/nimoData.Rd | 15 ++++++++------- man/nmtest.Rd | 15 ++++++++------- man/pheno_sd.Rd | 15 ++++++++------- man/rats.Rd | 15 ++++++++------- man/theo_md.Rd | 15 ++++++++------- man/theo_sd.Rd | 15 ++++++++------- man/warfarin.Rd | 15 ++++++++------- man/wbcSim.Rd | 15 ++++++++------- 27 files changed, 200 insertions(+), 172 deletions(-)
Title: Cluster Extension for 'mlr3'
Description: Extends the 'mlr3' package with cluster analysis.
Author: Maximilian Muecke [aut, cre] ,
Damir Pulatov [aut],
Michel Lang [aut] ,
Marc Becker [ctb]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between mlr3cluster versions 0.4.0 dated 2026-06-11 and 0.4.1 dated 2026-07-10
DESCRIPTION | 8 MD5 | 147 +++++++++-------- NEWS.md | 22 ++ R/LearnerClustAffinityPropagation.R | 2 R/LearnerClustAgnes.R | 7 R/LearnerClustBICO.R | 22 ++ R/LearnerClustBIRCH.R | 2 R/LearnerClustCLARA.R | 9 + R/LearnerClustCobweb.R | 4 R/LearnerClustDBSCAN.R | 2 R/LearnerClustDBSCANfpc.R | 10 + R/LearnerClustDiana.R | 7 R/LearnerClustEM.R | 2 R/LearnerClustFarthestFirst.R | 2 R/LearnerClustFlexmix.R | 44 +++-- R/LearnerClustGenie.R | 11 + R/LearnerClustHDBSCAN.R | 7 R/LearnerClustHclust.R | 11 - R/LearnerClustKCCA.R | 2 R/LearnerClustKKMeans.R | 54 ++++-- R/LearnerClustKProto.R | 6 R/LearnerClustMclust.R | 2 R/LearnerClustMiniBatchKMeans.R | 2 R/LearnerClustMovMF.R | 9 - R/LearnerClustOPTICS.R | 4 R/LearnerClustPAM.R | 4 R/LearnerClustProtoclust.R | 11 - R/LearnerClustSKMeans.R | 4 R/LearnerClustSOM.R | 9 - R/LearnerClustSTDBSCAN.R | 16 + R/LearnerClustSimpleKMeans.R | 6 R/LearnerClustSpectral.R | 2 R/LearnerClustTclust.R | 1 R/LearnerClustXMeans.R | 4 R/MeasureClustSimple.R | 3 R/PredictionClust.R | 7 R/PredictionDataClust.R | 24 ++ R/helper.R | 6 README.md | 25 ++ build/partial.rdb |binary man/PredictionClust.Rd | 3 man/mlr_learners_clust.SimpleKMeans.Rd | 4 man/mlr_learners_clust.bico.Rd | 3 man/mlr_learners_clust.cobweb.Rd | 2 man/mlr_learners_clust.flexmix.Rd | 4 man/mlr_learners_clust.genie.Rd | 1 man/mlr_learners_clust.kkmeans.Rd | 15 + man/mlr_learners_clust.kproto.Rd | 1 man/mlr_learners_clust.movMF.Rd | 2 man/mlr_learners_clust.optics.Rd | 2 man/mlr_learners_clust.pam.Rd | 2 man/mlr_learners_clust.skmeans.Rd | 2 man/mlr_learners_clust.som.Rd | 2 man/mlr_learners_clust.specc.Rd | 2 man/mlr_learners_clust.stdbscan.Rd | 3 man/mlr_learners_clust.tclust.Rd | 1 man/mlr_learners_clust.xmeans.Rd | 2 tests/testthat/_snaps/PredictionClust.md |only tests/testthat/_snaps/mlr_learners_clust_bico.md |only tests/testthat/_snaps/mlr_learners_clust_clara.md |only tests/testthat/_snaps/mlr_learners_clust_dbscan_fpc.md |only tests/testthat/_snaps/mlr_learners_clust_flexmix.md |only tests/testthat/_snaps/mlr_learners_clust_genie.md |only tests/testthat/_snaps/mlr_learners_clust_kkmeans.md |only tests/testthat/_snaps/mlr_learners_clust_kproto.md |only tests/testthat/_snaps/mlr_learners_clust_stdbscan.md |only tests/testthat/test_LearnerClust.R | 58 ++++++ tests/testthat/test_MeasureClust.R | 10 + tests/testthat/test_PredictionClust.R | 78 ++++++++- tests/testthat/test_mlr_learners_clust_bico.R | 18 ++ tests/testthat/test_mlr_learners_clust_clara.R | 11 + tests/testthat/test_mlr_learners_clust_dbscan_fpc.R | 7 tests/testthat/test_mlr_learners_clust_flexmix.R | 26 +++ tests/testthat/test_mlr_learners_clust_genie.R | 6 tests/testthat/test_mlr_learners_clust_kkmeans.R | 29 +++ tests/testthat/test_mlr_learners_clust_kproto.R | 6 tests/testthat/test_mlr_learners_clust_movMF.R | 8 tests/testthat/test_mlr_learners_clust_som.R | 9 + tests/testthat/test_mlr_learners_clust_stdbscan.R | 5 79 files changed, 657 insertions(+), 185 deletions(-)
Title: Analysis and Visualization of Complex Networks
Description: Provides tools for the analysis, visualization, and manipulation
of dynamical, social (Saqr et al. (2024) <doi:10.1007/978-3-031-54464-4_10>) and
complex networks (Saqr et al. (2025) <doi:10.1145/3706468.3706513>). The package
supports multiple network formats and offers flexible tools for heterogeneous,
multi-layer, and hierarchical network analysis with simple syntax and
extensive toolset.
Author: Mohammed Saqr [aut, cph],
Sonsoles Lopez-Pernas [aut, cre, cph]
Maintainer: Sonsoles Lopez-Pernas <sonsoles.lopez@uef.fi>
Diff between cograph versions 2.3.6 dated 2026-05-31 and 2.4.4 dated 2026-07-10
cograph-2.3.6/cograph/man/COGRAPH_SCALE.Rd |only cograph-2.3.6/cograph/man/COGRAPH_SCALE_LEGACY.Rd |only cograph-2.3.6/cograph/man/QGRAPH_SCALE.Rd |only cograph-2.3.6/cograph/man/aes-scales.Rd |only cograph-2.3.6/cograph/man/aggregate_duplicate_edges.Rd |only cograph-2.3.6/cograph/man/arrow_base_midpoint.Rd |only cograph-2.3.6/cograph/man/arrow_head_points.Rd |only cograph-2.3.6/cograph/man/arrow_points.Rd |only cograph-2.3.6/cograph/man/arrow_radius.Rd |only cograph-2.3.6/cograph/man/atan2_usr.Rd |only cograph-2.3.6/cograph/man/bezier_points.Rd |only cograph-2.3.6/cograph/man/brain_vertices.Rd |only cograph-2.3.6/cograph/man/build_edge_labels_from_template.Rd |only cograph-2.3.6/cograph/man/build_mcml.Rd |only cograph-2.3.6/cograph/man/cent_to_edge.Rd |only cograph-2.3.6/cograph/man/check_duplicate_edges.Rd |only cograph-2.3.6/cograph/man/circle_vertices.Rd |only cograph-2.3.6/cograph/man/cloud_vertices.Rd |only cograph-2.3.6/cograph/man/cluster_summary.Rd |only cograph-2.3.6/cograph/man/compute_adaptive_esize.Rd |only cograph-2.3.6/cograph/man/compute_circular_layout.Rd |only cograph-2.3.6/cograph/man/compute_connectivity_jitter_horizontal.Rd |only cograph-2.3.6/cograph/man/compute_connectivity_jitter_vertical.Rd |only cograph-2.3.6/cograph/man/compute_edge_curvatures.Rd |only cograph-2.3.6/cograph/man/compute_layout_gephi_fr.Rd |only cograph-2.3.6/cograph/man/compute_plot_limits.Rd |only cograph-2.3.6/cograph/man/compute_polygon_layout.Rd |only cograph-2.3.6/cograph/man/create_edges_df.Rd |only cograph-2.3.6/cograph/man/create_grid_grob.Rd |only cograph-2.3.6/cograph/man/create_nodes_df.Rd |only cograph-2.3.6/cograph/man/cross_vertices.Rd |only cograph-2.3.6/cograph/man/curve_control_point.Rd |only cograph-2.3.6/cograph/man/detect_duplicate_edges.Rd |only cograph-2.3.6/cograph/man/diamond_vertices.Rd |only cograph-2.3.6/cograph/man/disparity.Rd |only cograph-2.3.6/cograph/man/dot-add_cluster_borders.Rd |only cograph-2.3.6/cograph/man/dot-add_cluster_labels.Rd |only cograph-2.3.6/cograph/man/dot-add_heatmap_values.Rd |only cograph-2.3.6/cograph/man/dot-as_mcml.Rd |only cograph-2.3.6/cograph/man/dot-auto_detect_clusters.Rd |only cograph-2.3.6/cograph/man/dot-build_cluster_lookup.Rd |only cograph-2.3.6/cograph/man/dot-build_from_transitions.Rd |only cograph-2.3.6/cograph/man/dot-build_heatmap_base.Rd |only cograph-2.3.6/cograph/man/dot-build_mcml_edgelist.Rd |only cograph-2.3.6/cograph/man/dot-build_mcml_sequence.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_cells.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_connections.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_labels.Rd |only cograph-2.3.6/cograph/man/dot-build_ml_shells.Rd |only cograph-2.3.6/cograph/man/dot-compute_modularity.Rd |only cograph-2.3.6/cograph/man/dot-create_cograph_network.Rd |only cograph-2.3.6/cograph/man/dot-decode_tna_data.Rd |only cograph-2.3.6/cograph/man/dot-detect_mcml_input.Rd |only cograph-2.3.6/cograph/man/dot-disparity_filter_matrix.Rd |only cograph-2.3.6/cograph/man/dot-draw_intra_arc.Rd |only cograph-2.3.6/cograph/man/dot-draw_intra_group_edges.Rd |only cograph-2.3.6/cograph/man/dot-edge_keys.Rd |only cograph-2.3.6/cograph/man/dot-extract_inits.Rd |only cograph-2.3.6/cograph/man/dot-extract_ml_layers.Rd |only cograph-2.3.6/cograph/man/dot-extract_weights.Rd |only cograph-2.3.6/cograph/man/dot-group_tna_to_mcml.Rd |only cograph-2.3.6/cograph/man/dot-heatmap_theme.Rd |only cograph-2.3.6/cograph/man/dot-matrix_to_long.Rd |only cograph-2.3.6/cograph/man/dot-normalize_clusters.Rd |only cograph-2.3.6/cograph/man/dot-plot_compare_all_pairs.Rd |only cograph-2.3.6/cograph/man/dot-plot_heatmap_clustered.Rd |only cograph-2.3.6/cograph/man/dot-plot_heatmap_group_tna.Rd |only cograph-2.3.6/cograph/man/dot-plot_heatmap_single.Rd |only cograph-2.3.6/cograph/man/dot-process_weights.Rd |only cograph-2.3.6/cograph/man/dot-psych_style_defaults.Rd |only cograph-2.3.6/cograph/man/dot-resolve_colors.Rd |only cograph-2.3.6/cograph/man/dot-resolve_ml_colors.Rd |only cograph-2.3.6/cograph/man/dot-resolve_weights.Rd |only cograph-2.3.6/cograph/man/dot-tna_style_defaults.Rd |only cograph-2.3.6/cograph/man/dot-transform_to_plane.Rd |only cograph-2.3.6/cograph/man/dot-translate_qgraph_dots.Rd |only cograph-2.3.6/cograph/man/dot-wrap_communities.Rd |only cograph-2.3.6/cograph/man/draw_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_brain.Rd |only cograph-2.3.6/cograph/man/draw_chip.Rd |only cograph-2.3.6/cograph/man/draw_chip_node_base.Rd |only cograph-2.3.6/cograph/man/draw_circle.Rd |only cograph-2.3.6/cograph/man/draw_circle_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_cloud.Rd |only cograph-2.3.6/cograph/man/draw_cross.Rd |only cograph-2.3.6/cograph/man/draw_curve_with_start_segment.Rd |only cograph-2.3.6/cograph/man/draw_curved_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_curved_edge.Rd |only cograph-2.3.6/cograph/man/draw_curved_edge_base.Rd |only cograph-2.3.6/cograph/man/draw_database.Rd |only cograph-2.3.6/cograph/man/draw_database_node_base.Rd |only cograph-2.3.6/cograph/man/draw_diamond.Rd |only cograph-2.3.6/cograph/man/draw_donut.Rd |only cograph-2.3.6/cograph/man/draw_donut_node_base.Rd |only cograph-2.3.6/cograph/man/draw_donut_pie.Rd |only cograph-2.3.6/cograph/man/draw_donut_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_double_donut_pie.Rd |only cograph-2.3.6/cograph/man/draw_double_donut_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_edge_label_base.Rd |only cograph-2.3.6/cograph/man/draw_ellipse.Rd |only cograph-2.3.6/cograph/man/draw_gear.Rd |only cograph-2.3.6/cograph/man/draw_heart.Rd |only cograph-2.3.6/cograph/man/draw_hexagon.Rd |only cograph-2.3.6/cograph/man/draw_network.Rd |only cograph-2.3.6/cograph/man/draw_network_node_base.Rd |only cograph-2.3.6/cograph/man/draw_neural.Rd |only cograph-2.3.6/cograph/man/draw_neural_node_base.Rd |only cograph-2.3.6/cograph/man/draw_node_base.Rd |only cograph-2.3.6/cograph/man/draw_node_label_base.Rd |only cograph-2.3.6/cograph/man/draw_open_arrow_base.Rd |only cograph-2.3.6/cograph/man/draw_pentagon.Rd |only cograph-2.3.6/cograph/man/draw_pie.Rd |only cograph-2.3.6/cograph/man/draw_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_polygon_donut.Rd |only cograph-2.3.6/cograph/man/draw_polygon_donut_node_base.Rd |only cograph-2.3.6/cograph/man/draw_polygon_donut_pie_node_base.Rd |only cograph-2.3.6/cograph/man/draw_robot.Rd |only cograph-2.3.6/cograph/man/draw_robot_node_base.Rd |only cograph-2.3.6/cograph/man/draw_self_loop.Rd |only cograph-2.3.6/cograph/man/draw_self_loop_base.Rd |only cograph-2.3.6/cograph/man/draw_square.Rd |only cograph-2.3.6/cograph/man/draw_star.Rd |only cograph-2.3.6/cograph/man/draw_straight_edge.Rd |only cograph-2.3.6/cograph/man/draw_straight_edge_base.Rd |only cograph-2.3.6/cograph/man/draw_svg_shape.Rd |only cograph-2.3.6/cograph/man/draw_svg_shape_base.Rd |only cograph-2.3.6/cograph/man/draw_triangle.Rd |only cograph-2.3.6/cograph/man/edge_endpoint.Rd |only cograph-2.3.6/cograph/man/ellipse_vertices.Rd |only cograph-2.3.6/cograph/man/expand_param.Rd |only cograph-2.3.6/cograph/man/filter_edges_by_weight.Rd |only cograph-2.3.6/cograph/man/find_curve_split_index.Rd |only cograph-2.3.6/cograph/man/fontface_to_numeric.Rd |only cograph-2.3.6/cograph/man/fontface_to_string.Rd |only cograph-2.3.6/cograph/man/format_ci_range.Rd |only cograph-2.3.6/cograph/man/format_edge_label_template.Rd |only cograph-2.3.6/cograph/man/format_pvalue.Rd |only cograph-2.3.6/cograph/man/gear_vertices.Rd |only cograph-2.3.6/cograph/man/get_donut_base_vertices.Rd |only cograph-2.3.6/cograph/man/get_edge_label_position.Rd |only cograph-2.3.6/cograph/man/get_edge_order.Rd |only cograph-2.3.6/cograph/man/get_node_order.Rd |only cograph-2.3.6/cograph/man/get_scale_constants.Rd |only cograph-2.3.6/cograph/man/get_shape_vertices.Rd |only cograph-2.3.6/cograph/man/get_significance_stars.Rd |only cograph-2.3.6/cograph/man/get_svg_shape.Rd |only cograph-2.3.6/cograph/man/get_template_from_style.Rd |only cograph-2.3.6/cograph/man/get_x_scale.Rd |only cograph-2.3.6/cograph/man/get_y_scale.Rd |only cograph-2.3.6/cograph/man/globals.Rd |only cograph-2.3.6/cograph/man/handle_deprecated_param.Rd |only cograph-2.3.6/cograph/man/heart_vertices.Rd |only cograph-2.3.6/cograph/man/hexagon_vertices.Rd |only cograph-2.3.6/cograph/man/in_to_usr_x.Rd |only cograph-2.3.6/cograph/man/in_to_usr_y.Rd |only cograph-2.3.6/cograph/man/init_registries.Rd |only cograph-2.3.6/cograph/man/input-parse.Rd |only cograph-2.3.6/cograph/man/inset_polygon_vertices.Rd |only cograph-2.3.6/cograph/man/is_cograph_network.Rd |only cograph-2.3.6/cograph/man/is_cograph_theme.Rd |only cograph-2.3.6/cograph/man/is_symmetric_matrix.Rd |only cograph-2.3.6/cograph/man/layout-registry.Rd |only cograph-2.3.6/cograph/man/layout_gephi_fr.Rd |only cograph-2.3.6/cograph/man/map_edge_colors.Rd |only cograph-2.3.6/cograph/man/map_node_colors.Rd |only cograph-2.3.6/cograph/man/map_qgraph_lty.Rd |only cograph-2.3.6/cograph/man/map_qgraph_shape.Rd |only cograph-2.3.6/cograph/man/offset_point.Rd |only cograph-2.3.6/cograph/man/parse_input.Rd |only cograph-2.3.6/cograph/man/parse_svg.Rd |only cograph-2.3.6/cograph/man/pentagon_vertices.Rd |only cograph-2.3.6/cograph/man/perp_mid.Rd |only cograph-2.3.6/cograph/man/plot-bootstrap.Rd |only cograph-2.3.6/cograph/man/plot-compare.Rd |only cograph-2.3.6/cograph/man/plot-heatmap.Rd |only cograph-2.3.6/cograph/man/plot-mlvar.Rd |only cograph-2.3.6/cograph/man/plot-nestimate.Rd |only cograph-2.3.6/cograph/man/plot-permutation.Rd |only cograph-2.3.6/cograph/man/plot-transitions.Rd |only cograph-2.3.6/cograph/man/point_angle.Rd |only cograph-2.3.6/cograph/man/point_distance.Rd |only cograph-2.3.6/cograph/man/point_on_circle.Rd |only cograph-2.3.6/cograph/man/qgraph_arrow_size.Rd |only cograph-2.3.6/cograph/man/qgraph_cent2edge.Rd |only cograph-2.3.6/cograph/man/qgraph_cent_to_edge_simple.Rd |only cograph-2.3.6/cograph/man/qgraph_default_esize.Rd |only cograph-2.3.6/cograph/man/qgraph_default_vsize.Rd |only cograph-2.3.6/cograph/man/qgraph_norm_curve.Rd |only cograph-2.3.6/cograph/man/qgraph_plot_info.Rd |only cograph-2.3.6/cograph/man/qgraph_scale_edge_widths.Rd |only cograph-2.3.6/cograph/man/qgraph_vsize_to_user.Rd |only cograph-2.3.6/cograph/man/rectangle_vertices.Rd |only cograph-2.3.6/cograph/man/recycle_to_length.Rd |only cograph-2.3.6/cograph/man/register_builtin_layouts.Rd |only cograph-2.3.6/cograph/man/register_builtin_palettes.Rd |only cograph-2.3.6/cograph/man/register_builtin_shapes.Rd |only cograph-2.3.6/cograph/man/register_builtin_themes.Rd |only cograph-2.3.6/cograph/man/regular_polygon_vertices.Rd |only cograph-2.3.6/cograph/man/render-edges.Rd |only cograph-2.3.6/cograph/man/render-legend-shared.Rd |only cograph-2.3.6/cograph/man/render-nodes.Rd |only cograph-2.3.6/cograph/man/render_edge_labels_grid.Rd |only cograph-2.3.6/cograph/man/render_edges_base.Rd |only cograph-2.3.6/cograph/man/render_edges_grid.Rd |only cograph-2.3.6/cograph/man/render_edges_splot.Rd |only cograph-2.3.6/cograph/man/render_legend_grid.Rd |only cograph-2.3.6/cograph/man/render_legend_splot.Rd |only cograph-2.3.6/cograph/man/render_node_labels_grid.Rd |only cograph-2.3.6/cograph/man/render_nodes_base.Rd |only cograph-2.3.6/cograph/man/render_nodes_grid.Rd |only cograph-2.3.6/cograph/man/render_nodes_splot.Rd |only cograph-2.3.6/cograph/man/rescale_layout.Rd |only cograph-2.3.6/cograph/man/resolve_aesthetic.Rd |only cograph-2.3.6/cograph/man/resolve_centrality_sizes.Rd |only cograph-2.3.6/cograph/man/resolve_donut_params.Rd |only cograph-2.3.6/cograph/man/resolve_edge_colors.Rd |only cograph-2.3.6/cograph/man/resolve_edge_labels.Rd |only cograph-2.3.6/cograph/man/resolve_edge_styles.Rd |only cograph-2.3.6/cograph/man/resolve_edge_widths.Rd |only cograph-2.3.6/cograph/man/resolve_label_sizes.Rd |only cograph-2.3.6/cograph/man/resolve_labels.Rd |only cograph-2.3.6/cograph/man/resolve_loop_rotation.Rd |only cograph-2.3.6/cograph/man/resolve_node_colors.Rd |only cograph-2.3.6/cograph/man/resolve_node_sizes.Rd |only cograph-2.3.6/cograph/man/resolve_shapes.Rd |only cograph-2.3.6/cograph/man/resolve_stars.Rd |only cograph-2.3.6/cograph/man/robustness_edge_attack.Rd |only cograph-2.3.6/cograph/man/robustness_vertex_attack.Rd |only cograph-2.3.6/cograph/man/scale-constants.Rd |only cograph-2.3.6/cograph/man/scale_alpha.Rd |only cograph-2.3.6/cograph/man/scale_color.Rd |only cograph-2.3.6/cograph/man/scale_color_discrete.Rd |only cograph-2.3.6/cograph/man/scale_edge_widths.Rd |only cograph-2.3.6/cograph/man/scale_edge_widths_simple.Rd |only cograph-2.3.6/cograph/man/scale_node_sizes.Rd |only 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Title: Columnar Query Engine for Larger-than-RAM Data
Description: A minimal columnar query engine with lazy execution on datasets
larger than RAM. Provides 'dplyr'-like verbs (filter(), select(), mutate(),
group_by(), summarise(), joins, window functions) and common aggregations
(n(), sum(), mean(), min(), max(), sd(), first(), last()) backed by a
pure C11 pull-based execution engine and a custom on-disk format ('.vtr').
Reads and writes 'GeoTIFF' (including tiled and 'BigTIFF' layouts) and a
tiled raster format ('.vec') with overview pyramids and time cubes for
larger-than-RAM raster data. Streams vector operations (spatial transforms,
point-in-polygon and nearest-feature joins including a two-sided
grid-partitioned join, select-by-location, clip, erase, dissolve,
'rasterization', 'polygonization', and contouring) through 'sf', and runs
raster operations (zonal statistics, focal windows, terrain derivatives,
resample or 'reproject' warp, polygon masking, map algebra, and 'mosaicking')
in native C or over the tiled '.vec' format, one batch or tile at [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between vectra versions 0.9.8 dated 2026-07-01 and 0.11.1 dated 2026-07-10
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vectra-0.11.1/vectra/man/spatial_map.Rd | 7 vectra-0.11.1/vectra/man/spatial_overlay.Rd | 369 +-- vectra-0.11.1/vectra/man/spatial_polygonize.Rd | 7 vectra-0.11.1/vectra/man/spatial_route.Rd | 7 vectra-0.11.1/vectra/man/spatial_service_area.Rd | 7 vectra-0.11.1/vectra/man/spatial_simplify.Rd | 7 vectra-0.11.1/vectra/man/spatial_smooth.Rd | 7 vectra-0.11.1/vectra/man/spatial_snap.Rd | 7 vectra-0.11.1/vectra/man/spatial_snap_grid.Rd | 7 vectra-0.11.1/vectra/man/spatial_split.Rd | 7 vectra-0.11.1/vectra/man/spatial_topology.Rd | 7 vectra-0.11.1/vectra/man/tbl_bed.Rd |only vectra-0.11.1/vectra/man/tbl_csv.Rd | 31 vectra-0.11.1/vectra/man/tbl_fasta.Rd |only vectra-0.11.1/vectra/man/tbl_fastq.Rd |only vectra-0.11.1/vectra/man/vectra_mem.Rd |only vectra-0.11.1/vectra/src/Makevars | 2 vectra-0.11.1/vectra/src/agg_ops.c | 138 - vectra-0.11.1/vectra/src/agg_ops.h | 23 vectra-0.11.1/vectra/src/agg_spill.c |only vectra-0.11.1/vectra/src/agg_spill.h |only vectra-0.11.1/vectra/src/array.c | 12 vectra-0.11.1/vectra/src/array.h | 5 vectra-0.11.1/vectra/src/bed_scan.c |only vectra-0.11.1/vectra/src/bed_scan.h |only vectra-0.11.1/vectra/src/block.c | 2 vectra-0.11.1/vectra/src/builder.c | 19 vectra-0.11.1/vectra/src/byte_reader.c |only vectra-0.11.1/vectra/src/byte_reader.h |only vectra-0.11.1/vectra/src/collect.c | 139 - vectra-0.11.1/vectra/src/csv_scan.c | 35 vectra-0.11.1/vectra/src/csv_scan.h | 11 vectra-0.11.1/vectra/src/dropcol.c |only vectra-0.11.1/vectra/src/dropcol.h |only vectra-0.11.1/vectra/src/expr.c | 3 vectra-0.11.1/vectra/src/expr.h | 18 vectra-0.11.1/vectra/src/expr_seq.c |only vectra-0.11.1/vectra/src/fasta_scan.c |only vectra-0.11.1/vectra/src/fasta_scan.h |only vectra-0.11.1/vectra/src/feature_knn.c |only vectra-0.11.1/vectra/src/feature_knn.h |only vectra-0.11.1/vectra/src/fuzzy_join.c | 653 ++++-- vectra-0.11.1/vectra/src/fuzzy_join.h | 59 vectra-0.11.1/vectra/src/group_agg.c | 339 --- vectra-0.11.1/vectra/src/group_agg.h | 13 vectra-0.11.1/vectra/src/group_topn.c | 267 +- vectra-0.11.1/vectra/src/group_topn.h | 43 vectra-0.11.1/vectra/src/init.c | 30 vectra-0.11.1/vectra/src/interval_join.c | 706 +++--- vectra-0.11.1/vectra/src/interval_join.h | 56 vectra-0.11.1/vectra/src/join.c | 1060 +++++++--- vectra-0.11.1/vectra/src/join.h | 42 vectra-0.11.1/vectra/src/key_arena.c |only vectra-0.11.1/vectra/src/key_arena.h |only vectra-0.11.1/vectra/src/key_snap.c |only vectra-0.11.1/vectra/src/key_snap.h |only vectra-0.11.1/vectra/src/kmer.c |only vectra-0.11.1/vectra/src/kmer.h |only vectra-0.11.1/vectra/src/r_bridge.c | 24 vectra-0.11.1/vectra/src/r_bridge.h | 20 vectra-0.11.1/vectra/src/r_bridge_core.c | 42 vectra-0.11.1/vectra/src/r_bridge_io.c | 34 vectra-0.11.1/vectra/src/r_bridge_nodes.c | 72 vectra-0.11.1/vectra/src/rec_spill.c |only vectra-0.11.1/vectra/src/rec_spill.h |only vectra-0.11.1/vectra/src/rowid.c |only vectra-0.11.1/vectra/src/rowid.h |only vectra-0.11.1/vectra/src/scan.c | 25 vectra-0.11.1/vectra/src/scan.h | 3 vectra-0.11.1/vectra/src/seq_util.h |only vectra-0.11.1/vectra/src/sort.c | 191 + vectra-0.11.1/vectra/src/sort.h | 15 vectra-0.11.1/vectra/src/tdc/VENDORED_FROM | 2 vectra-0.11.1/vectra/src/tdc/include/tdc/codec.h | 55 vectra-0.11.1/vectra/src/tdc/src/api/decode.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/decode_dict.c |only vectra-0.11.1/vectra/src/tdc/src/api/decode_ex.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/decode_impl.c | 27 vectra-0.11.1/vectra/src/tdc/src/api/decode_into.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/decode_varlen.c | 2 vectra-0.11.1/vectra/src/tdc/src/api/driver_internal.h | 42 vectra-0.11.1/vectra/src/tdc/src/api/encode.c | 18 vectra-0.11.1/vectra/src/tdc/src/format/stats.c | 2 vectra-0.11.1/vectra/src/tdc/src/model/dict.c | 2 vectra-0.11.1/vectra/src/topn.c | 565 ++--- vectra-0.11.1/vectra/src/types.h | 33 vectra-0.11.1/vectra/src/vtr1_tdc.c | 375 ++- vectra-0.11.1/vectra/src/vtr1_tdc.h | 24 vectra-0.11.1/vectra/src/vtr_append.c | 7 vectra-0.11.1/vectra/src/vtr_codec_tdc.c | 389 +++ vectra-0.11.1/vectra/src/vtr_codec_tdc.h | 77 vectra-0.11.1/vectra/src/vtr_overlay.c | 168 + vectra-0.11.1/vectra/src/window.c | 826 +++++++ vectra-0.11.1/vectra/src/window.h | 38 vectra-0.11.1/vectra/tests/testthat/test-agg-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-bed-scan.R |only vectra-0.11.1/vectra/tests/testthat/test-collect-churn.R |only vectra-0.11.1/vectra/tests/testthat/test-compression.R | 28 vectra-0.11.1/vectra/tests/testthat/test-csv-scan.R | 83 vectra-0.11.1/vectra/tests/testthat/test-dict-defer.R |only vectra-0.11.1/vectra/tests/testthat/test-fasta-scan.R |only vectra-0.11.1/vectra/tests/testthat/test-feature-knn.R |only vectra-0.11.1/vectra/tests/testthat/test-filter.R | 33 vectra-0.11.1/vectra/tests/testthat/test-fuzzy-join-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-fuzzy-join.R |only vectra-0.11.1/vectra/tests/testthat/test-group-topn-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-interval-join-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-join-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-kmer-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-kmer.R |only vectra-0.11.1/vectra/tests/testthat/test-offload.R | 19 vectra-0.11.1/vectra/tests/testthat/test-rast-feature-distance.R |only vectra-0.11.1/vectra/tests/testthat/test-seq-expr.R |only vectra-0.11.1/vectra/tests/testthat/test-sort-spill.R |only vectra-0.11.1/vectra/tests/testthat/test-spatial-dissolve.R | 8 vectra-0.11.1/vectra/tests/testthat/test-spatial-filter-clip.R | 10 vectra-0.11.1/vectra/tests/testthat/test-spatial-join-nearest.R | 4 vectra-0.11.1/vectra/tests/testthat/test-spatial-overlay.R | 32 vectra-0.11.1/vectra/tests/testthat/test-spatial.R | 10 vectra-0.11.1/vectra/tests/testthat/test-topn.R | 53 vectra-0.11.1/vectra/tests/testthat/test-warp-subtile.R |only vectra-0.11.1/vectra/tests/testthat/test-window-mixed.R |only vectra-0.11.1/vectra/tests/testthat/test-windows.R | 249 ++ vectra-0.11.1/vectra/tests/testthat/test-write-vtr-node.R | 36 vectra-0.11.1/vectra/vignettes/formats.Rmd | 34 vectra-0.11.1/vectra/vignettes/large-data.Rmd | 4 vectra-0.11.1/vectra/vignettes/sdm.Rmd | 65 vectra-0.11.1/vectra/vignettes/streaming-spatial.Rmd | 8 vectra-0.9.8/vectra/src/csv_reader.c |only vectra-0.9.8/vectra/src/csv_reader.h |only 195 files changed, 7403 insertions(+), 2931 deletions(-)
Title: PD-Clustering and Related Methods
Description: Probabilistic distance clustering (PD-clustering) is an iterative, distribution-free, probabilistic clustering method. PD-clustering assigns units to a cluster according to their probability of membership under the constraint that the product of the probability and the distance of each point to any cluster center is a constant. PD-clustering is a flexible method that can be used with elliptical clusters, outliers, or noisy data. PDQ is an extension of the algorithm for clusters of different sizes. GPDC and TPDC use a dissimilarity measure based on densities. Factor PD-clustering (FPDC) is a factor clustering method that involves a linear transformation of variables and a cluster optimizing the PD-clustering criterion. It works on high-dimensional data sets.
Author: Cristina Tortora [aut, cre, cph],
Noe Vidales [aut],
Francesco Palumbo [aut],
Tina Kalra [aut],
Paul D. McNicholas [fnd]
Maintainer: Cristina Tortora <grikris1@gmail.com>
Diff between FPDclustering versions 2.3.5 dated 2025-03-05 and 2.3.6 dated 2026-07-10
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/GPDC.R | 8 ++++---- R/PDQ.R | 9 ++++----- R/TPDC.R | 8 ++++---- man/GPDC.Rd | 4 +++- man/PDQ.Rd | 4 +++- man/TPDC.Rd | 4 +++- 8 files changed, 32 insertions(+), 27 deletions(-)
Title: Creates Group Sequential Trial Designs when Early Outcomes are
Available
Description: Methods to construct and power group sequential clinical trial
designs for outcomes at multiple times. Outcomes at earlier times provide
information on the final (primary) outcome. A range of recruitment and
correlation models are available as are methods to simulate data in order to
explore design operating characteristics. For more details see Parsons (2024)
<doi:10.1186/s12874-024-02174-w>.
Author: Nick Parsons [aut, cre]
Maintainer: Nick Parsons <nick.parsons@warwick.ac.uk>
Diff between gsearly versions 1.0.0 dated 2026-01-23 and 1.1.0 dated 2026-07-10
DESCRIPTION | 7 - MD5 | 34 +++--- R/implementation_functions.R | 223 ++++++++++++++++++++++--------------------- R/output_functions.R | 14 +- R/plot_functions.R | 44 ++++---- R/recruitment_functions.R | 2 R/simulation_functions.R | 77 +++++++++----- R/utility_functions.R | 23 ++-- R/validation_functions.R | 39 +++++++ man/fixedSampsize.Rd | 6 - man/gsearly-package.Rd | 3 man/gsearlyFit.Rd | 12 +- man/gsearlyModel.Rd | 45 ++++---- man/gsearlySimulate.Rd | 24 ++-- man/gsearlyUser.Rd | 23 ++-- man/modelParameters.Rd | 4 man/roundInterims.Rd | 21 +--- man/simdataExtract.Rd | 20 +-- 18 files changed, 356 insertions(+), 265 deletions(-)
Title: Robust Linear Mixed Effects Models
Description: Implements the Robust Scoring Equations estimator to fit linear
mixed effects models robustly.
Robustness is achieved by modification of the scoring equations
combined with the Design Adaptive Scale approach.
Author: Manuel Koller [aut, cre]
Maintainer: Manuel Koller <kollerma@proton.me>
Diff between robustlmm versions 3.4-5 dated 2026-06-21 and 3.5.0-1 dated 2026-07-10
DESCRIPTION | 16 MD5 | 206 ++- NAMESPACE | 15 NEWS.md |only R/AllClass.R | 218 +++ R/DAS-scale.R | 231 +++ R/accessors.R | 55 R/anova.R |only R/bootstrapWald.R | 60 R/df_satterthwaite.R |only R/emmeans.R | 53 R/fit.effects.R | 15 R/fitDatasets.R | 84 + R/fromLme4.R | 8 R/generateMixedEffectDatasets.R | 129 + R/helpers.R | 129 + R/influence.R | 82 - R/influence_full.R | 436 +++++- R/options.R |only R/plot.R | 31 R/ransac.R | 719 ++++++++++- R/redescendingPsi.R | 266 +++- R/rlmer.R | 460 ++++++- README.md | 25 build/vignette.rds |binary inst/doc/rlmer.R | 18 inst/doc/rlmer.Rnw | 328 ++++- inst/doc/rlmer.pdf |binary inst/doc/robustlmm-3.5.0.R |only inst/doc/robustlmm-3.5.0.Rnw |only inst/doc/robustlmm-3.5.0.pdf |only inst/doc/simulationStudies.R | 10 inst/doc/simulationStudies.Rnw | 166 ++ inst/doc/simulationStudies.pdf |binary inst/simulationStudy/consistencyAndEfficiencyBlockDiagonal.R | 2 inst/simulationStudy/consistencyAndEfficiencyDiagonal.R | 2 inst/simulationStudy/convergence.R | 6 inst/simulationStudy/dasmcValidation.R |only inst/simulationStudy/dasmcValidation_results.rds |only inst/simulationStudy/leverageBreakdown.R |only inst/simulationStudy/leverageBreakdown_results.rds |only inst/simulationStudy/leverageGES.R |only inst/simulationStudy/leverageGES_results.rds |only inst/simulationStudy/mallowsEfficiency.R |only inst/simulationStudy/mallowsEfficiency_results.rds |only inst/simulationStudy/ransacBasin.R |only inst/simulationStudy/ransacBasin_results.rds |only inst/simulationStudy/ransacConsensus.R |only inst/simulationStudy/ransacConsensus_results.rds |only inst/simulationStudy/robustnessBlockDiagonal.R | 2 inst/simulationStudy/robustnessDiagonal.R | 4 inst/simulationStudy/scoreTest.R |only inst/simulationStudy/scoreTest_results.rds |only inst/simulationStudy/structuredCovariances.R |only inst/simulationStudy/structuredCovariances_results.rds |only man/anova.rlmerMod.Rd |only man/bisquarePsi.Rd | 6 man/confint.rlmerMod.Rd | 25 man/cooks.distance.rlmerMod.Rd | 38 man/fitDatasets.Rd | 23 man/generateRepeatedMeasuresDatasets.Rd |only man/getME.Rd | 9 man/hatvalues.rlmerMod.Rd |only man/implicitIF.Rd | 4 man/implicitIF_full.Rd | 21 man/lqqPsi.Rd |only man/makeBisquarePsi.Rd | 22 man/makeRobustbasePsi.Rd |only man/ransac_basin_radius.Rd |only man/ransac_lme4.Rd | 91 + man/rlmer.Rd | 36 man/rlmerMod-class.Rd | 53 man/rlmer_ransac.Rd | 48 man/robustlmm-options.Rd |only man/vcov.rlmerMod.Rd | 8 man/vcov_sandwich.Rd | 10 src/rlmerMatrixUtils.cpp | 136 ++ tests/DAS-scale.R | 4 tests/anova-boot-guard.R |only tests/anova-robust-null.R |only tests/anova-satterthwaite-df.R |only tests/anova-score.R |only tests/anova.R |only tests/asymptoticEfficiency.R | 4 tests/bisquare-psi.R | 57 tests/bootstrapWald.R | 12 tests/cache-invalidation.R | 4 tests/cluster-diagnostics.R |only tests/compare-methods.R | 88 - tests/compare-methods.Rout.save | 450 +----- tests/confint-satterthwaite.R |only tests/custom-redescending-psi.R | 4 tests/dastau-fallback.R |only tests/dastau-mc.R |only tests/design-weights-breakdown.R |only tests/design-weights-das.R |only tests/design-weights.R |only tests/emmeans-satterthwaite.R |only tests/expectations.R | 4 tests/fitDatasets-new-methods.R | 91 + tests/fitDatasets.R | 4 tests/getME.R | 15 tests/getME.Rout.save | 44 tests/influence-full-speed.R |only tests/influence-weights-offset.R |only tests/influence.R | 11 tests/multipleGroupingFactorsTestData.R | 4 tests/ransac-nonsingular.R |only tests/ransac-scope.R |only tests/ransac-ws12.R |only tests/ransac.R | 4 tests/rlmerMod.R | 4 tests/sandwich-vs-bootstrap.R | 4 tests/satterthwaite-coverage.R |only tests/simulationStudies.R | 4 tests/stahel-obr.R | 4 tests/structured-inference.R |only tests/structuredCovariances.R |only tests/subset.R | 4 tests/summary-satterthwaite.R |only tests/tau.R | 4 tests/testMatrices.R | 4 tests/test_generateLongitudinalDatasets.R | 4 tests/vcov-jsweep-smoke.R | 4 tests/vcov-varpar.R |only tests/weights.R | 45 tests/wgt-b-alignment.R |only vignettes/rlmer.Rnw | 328 ++++- vignettes/rlmer.bib | 223 +++ vignettes/robustlmm-3.5.0-numbers.rds |only vignettes/robustlmm-3.5.0.Rnw |only vignettes/simulationStudies.Rnw | 166 ++ 132 files changed, 5043 insertions(+), 861 deletions(-)
Title: Kernel Partial Correlation Coefficient
Description: Implementations of two empirical versions the kernel partial correlation (KPC) coefficient
and the associated variable selection algorithms. KPC is a measure of the strength of conditional
association between Y and Z given X, with X, Y, Z being random variables taking values in
general topological spaces. As the name suggests, KPC is defined in terms of kernels on
reproducing kernel Hilbert spaces (RKHSs). The population KPC is a deterministic number
between 0 and 1; it is 0 if and only if Y is conditionally independent of Z given X, and it is 1 if
and only if Y is a measurable function of Z and X. One empirical KPC estimator is based on
geometric graphs, such as K-nearest neighbor graphs and minimum spanning trees, and is
consistent under very weak conditions. The other empirical estimator, defined using conditional
mean embeddings (CMEs) as used in the RKHS literature, is also consistent under suitable
conditions. Using KPC, a stepwise forward variable selection algorithm KFOCI (usin [...truncated...]
Author: Zhen Huang [aut, cre],
Nabarun Deb [ctb],
Bodhisattva Sen [ctb],
Benjamin Lang [ctb]
Maintainer: Zhen Huang <zh2395@columbia.edu>
Diff between KPC versions 0.1.3 dated 2026-05-02 and 0.1.4 dated 2026-07-10
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 2 +- NEWS.md | 3 +++ R/KPC.R | 10 ++++++++-- 5 files changed, 21 insertions(+), 12 deletions(-)
Title: A Unified Time Series Event Detection Framework
Description: By analyzing time series, it is possible to observe significant changes in the behavior of observations that frequently characterize events. Events present themselves as anomalies, change points, or motifs. In the literature, there are several methods for detecting events. However, searching for a suitable time series method is a complex task, especially considering that the nature of events is often unknown. This work presents Harbinger, a framework for integrating and analyzing event detection methods. Harbinger contains several state-of-the-art methods described in Salles et al. (2020) <doi:10.5753/sbbd.2020.13626>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Anthony Heimlich [aut],
Antonio Castro [aut],
Antonio Mello [aut],
Diego Carvalho [ctb],
Eduardo Bezerra [ctb],
Ellen Paixao [aut],
Fernando Fraga [aut],
Gabriel Giuliano [aut],
Heraldo Borges [aut],
Igor Andrade [ [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between harbinger versions 2.0.757 dated 2026-05-22 and 2.1.707 dated 2026-07-10
DESCRIPTION | 6 ++--- MD5 | 42 ++++++++++++++++++++++++++++++++---- NAMESPACE | 33 ++++++++++++++++++++++++++++ R/har_online_executor.R |only R/har_online_memory.R |only R/har_online_session.R |only R/har_online_sources.R |only R/har_stream_eval.R |only R/har_stream_experiment.R |only README.md | 4 +++ build/partial.rdb |binary man/collect_batch_log.Rd |only man/collect_detection.Rd |only man/collect_trace.Rd |only man/evaluate.har_stream_eval.Rd |only man/fit.har_online_session.Rd |only man/har_memory_full.Rd |only man/har_memory_last_observations.Rd |only man/har_memory_sliding.Rd |only man/har_online_detect_only.Rd |only man/har_online_executor.Rd |only man/har_online_incremental.Rd |only man/har_online_memory.Rd |only man/har_online_refit_full.Rd |only man/har_online_session.Rd |only man/har_online_sources.Rd |only man/har_source.Rd |only man/har_source_callback.Rd |only man/har_source_dataframe.Rd |only man/har_source_kafka.Rd |only man/har_source_simulated.Rd |only man/har_stream_eval.Rd |only man/har_stream_experiment.Rd |only man/ingest.Rd |only man/is_finished.Rd |only man/next_observation.Rd |only man/run_online.Rd |only man/source_info.Rd |only man/step_online.Rd |only 39 files changed, 78 insertions(+), 7 deletions(-)
Title: Deep Python Extensions for 'daltoolbox'
Description: Extends 'daltoolbox' with Python-backed components for deep learning,
scikit-learn classification, and time-series forecasting through
'reticulate'. The package provides objects that follow the 'daltoolbox'
architecture while delegating model creation, fitting, encoding, and
prediction to Python libraries such as 'torch' and 'scikit-learn'. In the
package name, 'dp' stands for 'Deep Python'. The overall workflow is
inspired by the Experiment Lines approach described in Ogasawara et al.
(2009) <doi:10.1007/978-3-642-02279-1_20>.
Author: Eduardo Ogasawara [aut, ths, cre] ,
Diego Salles [aut],
Erich Carvalho [aut],
Janio Lima [aut],
Joao Kongevold [aut],
Lucas Tavares [aut],
Eduardo Bezerra [ctb],
CEFET/RJ [cph]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolboxdp versions 1.3.757 dated 2026-06-26 and 1.3.767 dated 2026-07-10
DESCRIPTION | 6 ++--- MD5 | 30 +++++++++++++------------- R/autoenc_conv_e.R | 9 ++++--- R/autoenc_conv_ed.R | 5 ++-- R/autoenc_lstm_e.R | 10 ++++---- R/autoenc_lstm_ed.R | 6 ++--- R/torch_reg_mlp.R | 5 ++-- R/ts_lstm.R | 12 ++++++---- inst/python/autoenc_conv.py | 50 ++++++++++++++++++++++++++++++++------------ inst/python/autoenc_lstm.py | 12 +++++++--- inst/python/ts_lstm.py | 12 +++++++--- man/autoenc_conv_e.Rd | 7 +++--- man/autoenc_conv_ed.Rd | 3 +- man/autoenc_lstm_e.Rd | 6 ++--- man/autoenc_lstm_ed.Rd | 6 ++--- man/ts_lstm.Rd | 10 +++++--- 16 files changed, 117 insertions(+), 72 deletions(-)
Title: Coordinate System Transformations for Generic Map Data
Description: Transform coordinates from a specified source to a specified
target map projection. This uses the 'PROJ' library directly, via the 'PROJ' package.
The 'reproj()' function is generic, methods may be added to remove the need for an explicit
source definition. This is for use primarily to
transform generic data formats and direct leverage of the underlying
'PROJ' library. (There are transformations that aren't possible with 'PROJ' and
that are provided by the 'GDAL' library, a limitation which users of this
package should be aware of.) The 'PROJ' library is available at
<https://proj.org/>.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between reproj versions 0.7.0 dated 2024-06-11 and 0.8.0 dated 2026-07-10
reproj-0.7.0/reproj/R/proj.R |only reproj-0.8.0/reproj/DESCRIPTION | 23 +- reproj-0.8.0/reproj/MD5 | 30 +- reproj-0.8.0/reproj/NAMESPACE | 6 reproj-0.8.0/reproj/NEWS.md | 25 ++ reproj-0.8.0/reproj/R/reproj-extent.R | 162 ++++++++++----- reproj-0.8.0/reproj/R/reproj-external-types.R | 3 reproj-0.8.0/reproj/R/reproj-package.R | 9 reproj-0.8.0/reproj/R/reproj.R | 74 +----- reproj-0.8.0/reproj/R/zzz.R | 9 reproj-0.8.0/reproj/man/reproj-package.Rd | 16 - reproj-0.8.0/reproj/man/reproj.Rd | 55 +---- reproj-0.8.0/reproj/man/reproj_extent.Rd | 12 - reproj-0.8.0/reproj/tests/testthat/test-extent.R |only reproj-0.8.0/reproj/tests/testthat/test-external-types.R |only reproj-0.8.0/reproj/tests/testthat/test-reproj-PROJ.R | 1 reproj-0.8.0/reproj/tests/testthat/test-reproj-args.R |only reproj-0.8.0/reproj/tests/testthat/test-reproj-proj4.R | 29 -- 18 files changed, 218 insertions(+), 236 deletions(-)
Title: DBI Package for the DuckDB Database Management System
Description: The DuckDB project is an embedded analytical data management
system with support for the Structured Query Language (SQL). This
package includes all of DuckDB and an R Database Interface (DBI)
connector.
Author: Hannes Muehleisen [aut] ,
Mark Raasveldt [aut] ,
Kirill Mueller [cre] ,
Stichting DuckDB Foundation [cph],
Apache Software Foundation [cph],
PostgreSQL Global Development Group [cph],
The Regents of the University of California [cph],
Cameron Desrocher [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between duckdb versions 1.5.4.2 dated 2026-06-29 and 1.5.4.3 dated 2026-07-10
DESCRIPTION | 6 +-- MD5 | 26 ++++++------- NEWS.md | 7 +++ R/Driver.R | 11 ++--- R/storage-config.R | 9 +--- R/storage-locations.R | 64 ++++------------------------------ R/storage.R | 47 +++++------------------- man/duckdb_storage.Rd | 36 +++---------------- man/duckdb_storage_config.Rd | 9 +--- src/duckdb.tar.xz |binary tests/testthat/test-extension_path.R | 4 +- tests/testthat/test-storage-config.R | 31 ++++------------ tests/testthat/test-storage-markers.R | 6 +-- tests/testthat/test-storage-resolve.R | 29 +-------------- 14 files changed, 75 insertions(+), 210 deletions(-)
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence
problem including two-sample, K-sample (non-parametric ANOVA),
correlation, censored, ordered and multivariate problems described
in <doi:10.18637/jss.v028.i08>.
Author: Torsten Hothorn [aut, cre] ,
Henric Winell [aut] ,
Kurt Hornik [aut] ,
Mark A. van de Wiel [aut] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between coin versions 1.4-4 dated 2026-06-30 and 1.4-5 dated 2026-07-10
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 14 ++++++++++++++ inst/doc/Implementation.pdf |binary inst/doc/LegoCondInf.Rnw | 2 +- inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.R | 18 +++++++++--------- inst/doc/MAXtest.Rnw | 20 ++++++++++---------- inst/doc/MAXtest.pdf |binary inst/doc/coin.pdf |binary tests/bugfixes.R | 2 +- tests/bugfixes.Rout.save | 6 +++--- vignettes/LegoCondInf.Rnw | 2 +- vignettes/MAXtest.Rnw | 20 ++++++++++---------- 16 files changed, 67 insertions(+), 53 deletions(-)
Title: Clustering-Based K-Nearest Neighbor Regression for Longitudinal
Data
Description: Implements the 'CKNNRLD' algorithm (Clustering-Based K-Nearest
Neighbor Regression for Longitudinal Data) for improving K-Nearest
Neighbor ('KNN') regression on longitudinal data through cluster-based
partitioning and localized prediction. Offers enhanced computational
efficiency and accuracy for high-volume longitudinal datasets. The
acronym 'KNN' stands for K-Nearest Neighbor. References: Loeloe MS,
Tabatabaei SM, Sefidkar R, Mehrparvar AH, Jambarsang S (2025).
"Boosting K-nearest neighbor regression performance for longitudinal
data through a novel learning approach." BMC Bioinformatics, 26, 232.
<doi:10.1186/s12859-025-06205-1>.
Author: Mohammad Sadegh Loeloe [aut, cre],
Seyyed Mohammad Tabatabaei [aut],
Reyhane Sefidkar [aut],
Amir Houshang Mehrparvar [aut],
Sara Jambarsang [aut, ths]
Maintainer: Mohammad Sadegh Loeloe <mslbiostat@gmail.com>
Diff between CKNNRLD versions 0.1.4 dated 2026-06-09 and 0.2.0 dated 2026-07-10
CKNNRLD-0.1.4/CKNNRLD/R/CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/DESCRIPTION | 12 ++++---- CKNNRLD-0.2.0/CKNNRLD/MD5 | 33 ++++++++++++++++++++--- CKNNRLD-0.2.0/CKNNRLD/NAMESPACE | 18 ++++++++++++ CKNNRLD-0.2.0/CKNNRLD/R/CKNNRLD_example.R |only CKNNRLD-0.2.0/CKNNRLD/R/benchmark.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/coef.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/fitted.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/importance.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/performance.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/plot.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/predict.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/print.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/residuals.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/return_model.R |only CKNNRLD-0.2.0/CKNNRLD/R/simulateCKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/R/summary.CKNNRLD.R |only CKNNRLD-0.2.0/CKNNRLD/data |only CKNNRLD-0.2.0/CKNNRLD/man/CKNNRLD.Rd | 33 +++++++++++------------ CKNNRLD-0.2.0/CKNNRLD/man/CKNNRLD_example.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/benchmark.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/coef.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/fitted.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/importance.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/performance.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/plot.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/predict.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/print.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/residuals.CKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/simulateCKNNRLD.Rd |only CKNNRLD-0.2.0/CKNNRLD/man/summary.CKNNRLD.Rd |only 31 files changed, 71 insertions(+), 25 deletions(-)
Title: Agentic Item Generation, Review, and Analysis
Description: Provides tools for validating, generating, reviewing, reporting,
and visualising assessment item generation workflows. The package supports
tabular item-bank templates, item-bank validation, 'Python'-backed agentic
generation workflows, multimodal diagram generation, quality summaries, and
'HTML' reporting. External artificial intelligence services and related
'API' calls require user-supplied credentials and are not called during
package checks. The workflow is informed by automatic item generation
methods described by Gierl and Haladyna (2013, ISBN:9780415897518) and
evidence-centered assessment design described by Mislevy et al. (2003)
<doi:10.1002/j.2333-8504.2003.tb01908.x>.
Author: Moses O. Omopekunola [aut, cre]
Maintainer: Moses O. Omopekunola <omopekunola.m@hse.ru>
Diff between AIGRA versions 0.1.2 dated 2026-06-05 and 0.2.0 dated 2026-07-10
DESCRIPTION | 6 MD5 | 49 +- NAMESPACE | 4 NEWS.md | 43 + R/aigra-api-keys.R |only R/aigra-api.R | 17 R/aigra-dataframe-input.R |only R/aigra-diagram-language.R | 2 R/aigra-diagram-translation.R | 2 R/aigra-generate-from-data.R |only R/aigra-imports.R |only R/aigra-multimodal-workflow.R | 12 R/aigra-read-template.R |only R/aigra-tabular-generate.R | 16 R/aigra-tabular.R | 6 R/aigra-user-api.R | 552 +++++++++++++------------ README.md | 287 +++++++----- inst/CITATION | 31 + man/aigra_backend_help.Rd | 2 man/aigra_generate_from_data.Rd |only man/aigra_generate_items.Rd | 128 +++-- man/aigra_generate_multimodal_tabular_items.Rd | 130 ++--- man/aigra_generate_tabular_items.Rd | 104 ++-- man/aigra_localize_diagram_prompts.Rd | 40 - man/aigra_parse_items.Rd | 58 +- man/aigra_parse_tabular_items.Rd | 56 +- man/aigra_read_template.Rd |only man/aigra_set_api_keys.Rd | 17 man/aigra_translate_diagram_prompts.Rd | 58 +- 29 files changed, 881 insertions(+), 739 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-26 1.2
2020-02-22 1.1
2019-09-20 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-08 0.2-13
2018-03-03 0.2-12
2017-06-12 0.2-8
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 (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
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 incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.6.8 dated 2026-06-24 and 1.7.0 dated 2026-07-10
gpboost-1.6.8/gpboost/tests/testthat/_snaps |only gpboost-1.7.0/gpboost/DESCRIPTION | 9 gpboost-1.7.0/gpboost/MD5 | 104 gpboost-1.7.0/gpboost/NAMESPACE | 1 gpboost-1.7.0/gpboost/R/GPModel.R | 353 - gpboost-1.7.0/gpboost/R/gpb.Booster.R | 106 gpboost-1.7.0/gpboost/configure.ac | 2 gpboost-1.7.0/gpboost/demo/Grabit_and_mean-scale_regression.R | 4 gpboost-1.7.0/gpboost/man/GPModel.Rd | 5 gpboost-1.7.0/gpboost/man/GPModel_shared_params.Rd | 49 gpboost-1.7.0/gpboost/man/fit.GPModel.Rd | 44 gpboost-1.7.0/gpboost/man/fit.Rd | 44 gpboost-1.7.0/gpboost/man/fitGPModel.Rd | 49 gpboost-1.7.0/gpboost/man/get_aux_pars.GPModel.Rd | 6 gpboost-1.7.0/gpboost/man/get_aux_pars.Rd | 6 gpboost-1.7.0/gpboost/man/neg_log_likelihood.GPModel.Rd | 2 gpboost-1.7.0/gpboost/man/neg_log_likelihood.Rd | 2 gpboost-1.7.0/gpboost/man/predict.GPModel.Rd | 4 gpboost-1.7.0/gpboost/man/predict.gpb.Booster.Rd | 2 gpboost-1.7.0/gpboost/man/predict_training_data_random_effects.GPModel.Rd | 14 gpboost-1.7.0/gpboost/man/predict_training_data_random_effects.Rd | 6 gpboost-1.7.0/gpboost/man/set_optim_params.GPModel.Rd | 42 gpboost-1.7.0/gpboost/man/set_optim_params.Rd | 42 gpboost-1.7.0/gpboost/src/CG_utils.cpp | 52 gpboost-1.7.0/gpboost/src/Makevars.win | 2 gpboost-1.7.0/gpboost/src/Vecchia_utils.cpp | 69 gpboost-1.7.0/gpboost/src/boosting/gbdt.cpp | 19 gpboost-1.7.0/gpboost/src/c_api.cpp | 15 gpboost-1.7.0/gpboost/src/gpboost_R.cpp | 21 gpboost-1.7.0/gpboost/src/gpboost_R.h | 42 gpboost-1.7.0/gpboost/src/include/Eigen/src/SparseCore/TriangularSolver.h | 2 gpboost-1.7.0/gpboost/src/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h | 4 gpboost-1.7.0/gpboost/src/include/GPBoost/CG_utils.h | 8 gpboost-1.7.0/gpboost/src/include/GPBoost/Vecchia_utils.h | 3 gpboost-1.7.0/gpboost/src/include/GPBoost/cov_fcts.h | 98 gpboost-1.7.0/gpboost/src/include/GPBoost/likelihoods.h | 1148 ++-- gpboost-1.7.0/gpboost/src/include/GPBoost/optim_utils.h | 4 gpboost-1.7.0/gpboost/src/include/GPBoost/re_comp.h | 13 gpboost-1.7.0/gpboost/src/include/GPBoost/re_model.h | 77 gpboost-1.7.0/gpboost/src/include/GPBoost/re_model_template.h | 1191 +++- gpboost-1.7.0/gpboost/src/include/LBFGSpp/LineSearchBracketing.h | 2 gpboost-1.7.0/gpboost/src/include/LightGBM/c_api.h | 44 gpboost-1.7.0/gpboost/src/include/LightGBM/objective_function.h | 2 gpboost-1.7.0/gpboost/src/io/bin.cpp | 6 gpboost-1.7.0/gpboost/src/metric/regression_metric.hpp | 2 gpboost-1.7.0/gpboost/src/network/linkers_socket.cpp | 2 gpboost-1.7.0/gpboost/src/objective/regression_objective.hpp | 16 gpboost-1.7.0/gpboost/src/re_model.cpp | 311 - gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_combined_GP_random_effects.R | 133 gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_gaussian_process.R | 943 ++- gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_grouped_random_effects.R | 297 - gpboost-1.7.0/gpboost/tests/testthat/test_GPModel_non_Gaussian_data.R | 2592 ++++++---- gpboost-1.7.0/gpboost/tests/testthat/test_z_GPBoost_algorithm.R | 230 gpboost-1.7.0/gpboost/tests/testthat/test_z_GPBoost_algorithm_non_Gaussian_data.R | 274 - 54 files changed, 5845 insertions(+), 2673 deletions(-)
Title: Network Analysis on the Norwegian Road Network
Description: A collection of GIS (Geographic Information System) functions in R, created for use in Statistics Norway. The functions are primarily related to network analysis on the Norwegian road network.
Author: Sindre Mikael Haugen [aut, cre]
Maintainer: Sindre Mikael Haugen <sindre.haugen@ssb.no>
Diff between GISSB versions 1.1 dated 2023-01-10 and 1.1.1 dated 2026-07-10
DESCRIPTION | 18 LICENSE | 4 MD5 | 70 NAMESPACE | 24 R/address_to_coords.R | 181 R/coords_to_google.R | 78 R/coords_to_node.R | 312 R/path_leaflet.R | 100 R/sampledata.R | 260 R/shortest_path_cppRouting.R | 182 R/shortest_path_igraph.R | 144 R/utils-pipe.R | 28 R/vegnett_to_R.R | 624 - README.md | 107 build/vignette.rds |binary inst/doc/GISSB_vignette.R | 386 - inst/doc/GISSB_vignette.Rmd | 626 - inst/doc/GISSB_vignette.html | 9650 ++++++++++++------------- man/address_to_coords.Rd | 62 man/coords_to_google.Rd | 50 man/coords_to_node.Rd | 104 man/path_leaflet.Rd | 62 man/pipe.Rd | 40 man/shortest_path_cppRouting.Rd | 102 man/shortest_path_igraph.Rd | 106 man/vegnett_to_R.Rd | 174 tests/testthat.R | 8 tests/testthat/helper_files.R | 32 tests/testthat/test-address_to_coords.R | 18 tests/testthat/test-coords_to_google.R | 22 tests/testthat/test-coords_to_node.R | 72 tests/testthat/test-path_leaflet.R | 54 tests/testthat/test-shortest_path_cppRouting.R | 66 tests/testthat/test-shortest_path_igraph.R | 94 tests/testthat/test-vegnett_to_R.R | 62 vignettes/GISSB_vignette.Rmd | 626 - 36 files changed, 7281 insertions(+), 7267 deletions(-)
Title: Flexible Bayes Factor Testing of Scientific Expectations
Description: Implementation of default Bayes factors
for testing statistical hypotheses under various statistical models. The package is
intended for applied quantitative researchers in the
social and behavioral sciences, medical research,
and related fields. The Bayes factor tests can be
executed for statistical models such as
univariate and multivariate normal linear models,
correlation analysis, generalized linear models, special cases of
linear mixed models, survival models, relational
event models. Parameters that can be tested are
location parameters (e.g., group means, regression coefficients),
variances (e.g., group variances), and measures of
association (e.g,. polychoric/polyserial/biserial/tetrachoric/product
moments correlations), among others.
Relevant references on the methodology The statistical underpinnings are
described in
O'Hagan (1995) <DOI:10.1111/j.2517-6161.1995.tb02017.x>,
Mulder and Xin (2022) <DOI:10.1080/00273171.2021.1904809>,
Mulder and Gelissen (2019) <D [...truncated...]
Author: Joris Mulder [aut, cre],
Caspar van Lissa [aut, ctb],
Donald R. Williams [aut, ctb],
Xin Gu [aut, ctb],
Anton Olsson-Collentine [aut, ctb],
Florian Boeing-Messing [aut, ctb],
Jean-Paul Fox [aut, ctb],
Janosch Menke [ctb],
Robbie van Aert [ctb],
Barry [...truncated...]
Maintainer: Joris Mulder <j.mulder3@tilburguniversity.edu>
Diff between BFpack versions 1.6.0 dated 2026-04-13 and 1.6.1 dated 2026-07-10
BFpack-1.6.0/BFpack/inst/doc/vignette_BFpack.R |only BFpack-1.6.0/BFpack/inst/doc/vignette_BFpack.Rmd |only BFpack-1.6.0/BFpack/inst/doc/vignette_BFpack.html |only BFpack-1.6.0/BFpack/vignettes/vignette_BFpack.Rmd |only BFpack-1.6.1/BFpack/DESCRIPTION | 8 +- BFpack-1.6.1/BFpack/MD5 | 33 +++++++--- BFpack-1.6.1/BFpack/NAMESPACE | 2 BFpack-1.6.1/BFpack/NEWS.md | 5 + BFpack-1.6.1/BFpack/R/BF.remstimate.R |only BFpack-1.6.1/BFpack/R/get_estimates_unique_to_BFpack.R | 10 +++ BFpack-1.6.1/BFpack/build/vignette.rds |binary BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_correlation.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_correlation.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_correlation.html |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_ergm.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_ergm.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_ergm.html |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_general.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_general.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_general.html |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_regression.R |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_regression.Rmd |only BFpack-1.6.1/BFpack/inst/doc/vignette_BFpack_regression.html |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack.R |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack.html |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_correlation.Rmd |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_ergm.Rmd |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_general.Rmd |only BFpack-1.6.1/BFpack/vignettes/vignette_BFpack_regression.Rmd |only 29 files changed, 45 insertions(+), 13 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-09 0.5.3
2017-03-12 0.5.2
2016-10-23 0.5.1
2016-10-22 0.5
2016-10-15 0.4.3
2016-10-04 0.4.2
2016-09-21 0.4.1
2016-09-11 0.4
2016-07-01 0.3
2016-01-27 0.2
2015-10-01 0.1.1
2015-08-18 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-26 0.3.0
2023-01-24 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-04-17 0.1-10
2021-05-27 0.1-9
2021-05-13 0.1-8
2019-03-29 0.1-7
2016-03-21 0.1-6
2016-03-11 0.1-5
2014-08-11 0.1-2
2014-01-31 0.0-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-17 2.3.3
2025-06-11 2.3.2
2025-01-27 2.3.1
2024-10-28 2.3.0
2024-08-24 2.2.2
2023-09-10 2.2.1
2023-04-27 2.2.0
2022-07-18 2.0.1
2022-02-03 2.0.0
2021-05-15 1.1.0
2018-03-06 1.0.6
2018-03-06 1.0.7
2017-11-08 1.0.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-29 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-05 3.2
2017-08-15 3.1
2017-07-28 3.0
2017-06-30 2.0
2017-03-18 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-25 1.4.0
2024-02-07 1.3.0
2022-05-25 1.2.0
2022-01-07 1.1.0
2021-11-26 0.9.0
2021-09-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-04 1.1.0
2024-04-04 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-20 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-19 1.1-13
2022-03-04 1.1-11
2022-01-11 1.1-10
2021-03-01 1.1-9.1
2020-05-15 1.1-9
2018-04-28 1.1-8
2017-02-02 1.1-7
2016-05-03 1.1-5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-28 1.2.0.0
2019-09-02 1.1.0.0
2019-08-28 1.0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-06-10 0.3.4
2025-12-06 0.3.3
2025-10-10 0.3.2
2025-06-11 0.3.1
2025-04-16 0.3.0
2025-01-23 0.2.0
2024-11-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-01 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-09-11 2.0.0.1
2021-08-03 2.0.0.0
2021-07-16 1.9.0.0
2021-05-28 1.8.0.0
2021-01-24 1.7.0.0
2020-12-03 1.6.0.0
2020-09-17 1.5.0.0
2020-07-27 1.4.0.0
2020-06-30 1.3.0.0
2020-04-01 1.2.0.0
2019-12-01 1.1.0.0
2019-09-03 1.0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-25 1.0.1
2013-12-17 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-08-09 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-09-27 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-31 1.0.0
2022-06-27 0.3.0
2021-09-21 0.1.0
Title: Applies Display Metadata to Analysis Results Datasets
Description: Creates a framework to store and apply display metadata to
Analysis Results Datasets (ARDs). The use of 'tfrmt' allows users to
define table format and styling without the data, and later apply the
format to the data.
Author: Alanah Jonas [aut, cre],
Becca Krouse [aut],
Christina Fillmore [aut] ,
Ellis Hughes [aut] ,
Karima Ahmad [aut] ,
Shannon Haughton [aut],
Dragoș Moldovan-Gruenfeld [aut],
GlaxoSmithKline Research & Development Limited [cph, fnd],
Atorus Research LLC [ [...truncated...]
Maintainer: Alanah Jonas <alanah.x.jonas@gsk.com>
Diff between tfrmt versions 0.3.0 dated 2026-01-24 and 0.4.0 dated 2026-07-10
tfrmt-0.3.0/tfrmt/tests/testthat/helper_transform_gt_html.R |only tfrmt-0.3.0/tfrmt/tests/testthat/test-check_order_vars.R |only tfrmt-0.4.0/tfrmt/DESCRIPTION | 22 tfrmt-0.4.0/tfrmt/MD5 | 254 tfrmt-0.4.0/tfrmt/NAMESPACE | 530 - tfrmt-0.4.0/tfrmt/NEWS.md | 221 tfrmt-0.4.0/tfrmt/R/JSON.R | 939 +- tfrmt-0.4.0/tfrmt/R/apply_col_plan.R | 862 +- tfrmt-0.4.0/tfrmt/R/apply_col_style_plan.R | 764 +- tfrmt-0.4.0/tfrmt/R/apply_footnote_meta.R | 520 - tfrmt-0.4.0/tfrmt/R/apply_footnote_plan.R | 394 - tfrmt-0.4.0/tfrmt/R/apply_frmt_methods.R | 696 +- tfrmt-0.4.0/tfrmt/R/apply_page_plan.R | 795 +- tfrmt-0.4.0/tfrmt/R/apply_row_grp_plan.R | 801 +- tfrmt-0.4.0/tfrmt/R/apply_table_frmt_plan.R | 354 - tfrmt-0.4.0/tfrmt/R/apply_tfrmt.R | 1088 +-- tfrmt-0.4.0/tfrmt/R/big_n.R | 508 - tfrmt-0.4.0/tfrmt/R/body_plan.R | 260 tfrmt-0.4.0/tfrmt/R/col_plan.R | 526 - tfrmt-0.4.0/tfrmt/R/col_style_plan.R | 344 - tfrmt-0.4.0/tfrmt/R/data.R | 148 tfrmt-0.4.0/tfrmt/R/display_insights.R | 478 - tfrmt-0.4.0/tfrmt/R/eval_tidyselect.R | 74 tfrmt-0.4.0/tfrmt/R/extract_data.R |only tfrmt-0.4.0/tfrmt/R/footnote_plan.R | 231 tfrmt-0.4.0/tfrmt/R/frmt_plans.R | 466 - tfrmt-0.4.0/tfrmt/R/frmt_utils.R | 792 +- tfrmt-0.4.0/tfrmt/R/mock_tbl.R | 596 - tfrmt-0.4.0/tfrmt/R/page_plan.R | 256 tfrmt-0.4.0/tfrmt/R/prep_card.R | 966 +-- tfrmt-0.4.0/tfrmt/R/print_to_ggplot.R | 404 - tfrmt-0.4.0/tfrmt/R/print_to_gt.R | 1060 +-- tfrmt-0.4.0/tfrmt/R/row_group_plan.R | 202 tfrmt-0.4.0/tfrmt/R/shuffle_card.R | 806 +- tfrmt-0.4.0/tfrmt/R/struct_utils.R | 332 - tfrmt-0.4.0/tfrmt/R/tfrmt.R | 978 +-- tfrmt-0.4.0/tfrmt/R/tfrmt_checks.R | 628 - tfrmt-0.4.0/tfrmt/R/tfrmt_layer.R | 601 + tfrmt-0.4.0/tfrmt/R/tfrmt_n_pct.R | 152 tfrmt-0.4.0/tfrmt/R/tfrmt_sigdig.R | 606 - tfrmt-0.4.0/tfrmt/R/theme_element.R | 238 tfrmt-0.4.0/tfrmt/R/utils-pipe.R | 32 tfrmt-0.4.0/tfrmt/R/utils_cards.R |only tfrmt-0.4.0/tfrmt/R/zzz.R | 14 tfrmt-0.4.0/tfrmt/README.md | 230 tfrmt-0.4.0/tfrmt/inst/WORDLIST | 114 tfrmt-0.4.0/tfrmt/inst/create_json_example_tfrmts.R | 374 - tfrmt-0.4.0/tfrmt/inst/json_examples/tfrmt_ae.json | 246 tfrmt-0.4.0/tfrmt/inst/json_examples/tfrmt_demog.json | 328 - tfrmt-0.4.0/tfrmt/inst/json_examples/tfrmt_efficacy.json | 410 - tfrmt-0.4.0/tfrmt/man/apply_frmt.Rd | 130 tfrmt-0.4.0/tfrmt/man/as_json.Rd | 42 tfrmt-0.4.0/tfrmt/man/big_n_structure.Rd | 66 tfrmt-0.4.0/tfrmt/man/body_plan.Rd | 80 tfrmt-0.4.0/tfrmt/man/cleaned_data_to_gt.Rd | 68 tfrmt-0.4.0/tfrmt/man/col_plan.Rd | 256 tfrmt-0.4.0/tfrmt/man/col_style_plan.Rd | 68 tfrmt-0.4.0/tfrmt/man/data_ae.Rd | 54 tfrmt-0.4.0/tfrmt/man/data_demog.Rd | 54 tfrmt-0.4.0/tfrmt/man/data_efficacy.Rd | 52 tfrmt-0.4.0/tfrmt/man/data_labs.Rd | 58 tfrmt-0.4.0/tfrmt/man/display_row_frmts.Rd | 100 tfrmt-0.4.0/tfrmt/man/display_val_frmts.Rd | 100 tfrmt-0.4.0/tfrmt/man/element_block.Rd | 82 tfrmt-0.4.0/tfrmt/man/element_row_grp_loc.Rd | 120 tfrmt-0.4.0/tfrmt/man/extract_data.Rd |only tfrmt-0.4.0/tfrmt/man/footnote_plan.Rd | 85 tfrmt-0.4.0/tfrmt/man/footnote_structure.Rd | 90 tfrmt-0.4.0/tfrmt/man/frmt.Rd | 226 tfrmt-0.4.0/tfrmt/man/frmt_structure.Rd | 110 tfrmt-0.4.0/tfrmt/man/frmt_utils.Rd | 122 tfrmt-0.4.0/tfrmt/man/json_to_tfrmt.Rd | 36 tfrmt-0.4.0/tfrmt/man/layer_tfrmt.Rd | 88 tfrmt-0.4.0/tfrmt/man/make_mock_data.Rd | 78 tfrmt-0.4.0/tfrmt/man/page_plan.Rd | 148 tfrmt-0.4.0/tfrmt/man/page_structure.Rd | 58 tfrmt-0.4.0/tfrmt/man/param_set.Rd | 82 tfrmt-0.4.0/tfrmt/man/pipe.Rd | 40 tfrmt-0.4.0/tfrmt/man/prep_big_n.Rd | 98 tfrmt-0.4.0/tfrmt/man/prep_combine_vars.Rd | 106 tfrmt-0.4.0/tfrmt/man/prep_hierarchical_fill.Rd | 144 tfrmt-0.4.0/tfrmt/man/prep_label.Rd | 64 tfrmt-0.4.0/tfrmt/man/print_mock_gt.Rd | 132 tfrmt-0.4.0/tfrmt/man/print_to_ggplot.Rd | 94 tfrmt-0.4.0/tfrmt/man/print_to_gt.Rd | 112 tfrmt-0.4.0/tfrmt/man/reset_component.Rd |only tfrmt-0.4.0/tfrmt/man/row_grp_plan.Rd | 92 tfrmt-0.4.0/tfrmt/man/row_grp_structure.Rd | 74 tfrmt-0.4.0/tfrmt/man/shuffle_card.Rd | 118 tfrmt-0.4.0/tfrmt/man/tfrmt.Rd | 428 - tfrmt-0.4.0/tfrmt/man/tfrmt_n_pct.Rd | 90 tfrmt-0.4.0/tfrmt/man/tfrmt_sigdig.Rd | 206 tfrmt-0.4.0/tfrmt/man/tfrmt_to_json.Rd | 56 tfrmt-0.4.0/tfrmt/man/theme_element.Rd | 146 tfrmt-0.4.0/tfrmt/man/update_group.Rd | 84 tfrmt-0.4.0/tfrmt/tests/testthat.R | 8 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/JSON.md | 12 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/apply_col_plan.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/apply_tfrmt.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/big_n.md | 20 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/helper-strip_env_label.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/make_mock_data.md | 2 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/prep_card.md | 11 tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/print_to_gt.md |only tfrmt-0.4.0/tfrmt/tests/testthat/_snaps/shuffle_card.md | 44 tfrmt-0.4.0/tfrmt/tests/testthat/helper-strip_env_label.R |only tfrmt-0.4.0/tfrmt/tests/testthat/helper-transform_gt_html.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-JSON.R | 1372 ++-- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_col_plan.R | 847 ++ tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_footnote_meta.R | 914 +- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_footnote_plan.R | 664 +- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_frmt.R | 1462 ++-- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_page_plan.R | 2337 +++---- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_row_grp_plan.R | 2242 +++---- tfrmt-0.4.0/tfrmt/tests/testthat/test-apply_tfrmt.R | 511 - tfrmt-0.4.0/tfrmt/tests/testthat/test-big_n.R | 3168 ++++----- tfrmt-0.4.0/tfrmt/tests/testthat/test-col_plan.R | 3178 +++++----- tfrmt-0.4.0/tfrmt/tests/testthat/test-col_style_structure.R | 1768 ++--- tfrmt-0.4.0/tfrmt/tests/testthat/test-display_insights.R | 318 - tfrmt-0.4.0/tfrmt/tests/testthat/test-expr_to_filter.R | 174 tfrmt-0.4.0/tfrmt/tests/testthat/test-extract_data.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-footnote_plan.R | 350 - tfrmt-0.4.0/tfrmt/tests/testthat/test-helper-strip_env_label.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-make_mock_data.R | 1532 ++-- tfrmt-0.4.0/tfrmt/tests/testthat/test-mrkdown_labels.R | 440 - tfrmt-0.4.0/tfrmt/tests/testthat/test-prep_card.R | 2168 +++--- tfrmt-0.4.0/tfrmt/tests/testthat/test-print_to_gt.R | 910 ++ tfrmt-0.4.0/tfrmt/tests/testthat/test-quo_get.R | 236 tfrmt-0.4.0/tfrmt/tests/testthat/test-reset_component.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-shuffle_card.R | 1224 ++- tfrmt-0.4.0/tfrmt/tests/testthat/test-tfrmt_checks.R | 238 tfrmt-0.4.0/tfrmt/tests/testthat/test-tfrmt_n_pct.R | 126 tfrmt-0.4.0/tfrmt/tests/testthat/test-tfrmt_sigdig.R | 707 +- tfrmt-0.4.0/tfrmt/tests/testthat/test-utils_cards.R |only tfrmt-0.4.0/tfrmt/tests/testthat/test-utils_tfrmt.R | 906 +- tfrmt-0.4.0/tfrmt/tests/testthat/test_print_to_ggplot.R | 448 - 136 files changed, 28279 insertions(+), 26235 deletions(-)
Title: R Analyzer for Large-Scale Assessments
Description: Download, prepare and analyze data from large-scale assessments and
surveys with complex sampling and assessment design (see 'Rutkowski',
2010 <doi:10.3102/0013189X10363170>). Such studies are, for example,
international assessments like 'TIMSS', 'PIRLS' and 'PISA'. A graphical
interface is available for the non-technical user.The package includes
functions to covert the original data from 'SPSS' into 'R' data sets
keeping the user-defined missing values, merge data from different
respondents and/or countries, generate variable dictionaries, modify
data, produce descriptive statistics (percentages, means, percentiles,
benchmarks) and multivariate statistics (correlations, linear
regression, binary logistic regression). The number of supported
studies and analysis types increases with every next release.
For a general presentation of the package, see 'Mirazchiyski', 2021a
(<doi:10.1186/s40536-021-00114-4>). For detailed technical aspects of
the package, see 'Mirazchiyski', 2 [...truncated...]
Author: Plamen V. Mirazchiyski [aut, cre]
Maintainer: Plamen V. Mirazchiyski <plamen.mirazchiyski@gmail.com>
Diff between RALSA versions 1.6.6 dated 2026-04-16 and 1.7.0 dated 2026-07-10
DESCRIPTION | 18 MD5 | 46 NAMESPACE | 2 NEWS.md | 12 R/RALSA.r | 2 R/common.r | 7419 ++++++++-------- R/lsa.bench.r | 12 R/lsa.bin.log.reg.r | 12 R/lsa.convert.data.r | 168 R/lsa.corr.r | 184 R/lsa.crosstabs.r | 758 - R/lsa.data.diag.r | 389 R/lsa.lin.reg.r | 16 R/lsa.merge.data.r | 446 R/lsa.pcts.means.r | 32 R/lsa.prctls.r | 32 R/lsa.quant.reg.r |only R/lsa.vars.dict.r | 157 R/zzz.r | 3 inst/shiny/GUI/server.r |22119 +++++++++++++++++++++++++----------------------- inst/shiny/GUI/ui.r | 5394 ++++++----- man/RALSA.Rd | 1 man/lsa.crosstabs.Rd | 11 man/lsa.lin.reg.Rd | 4 man/lsa.quant.reg.Rd |only 25 files changed, 19350 insertions(+), 17887 deletions(-)
Title: A Native Lazy Analytical Backend for MongoDB
Description: Provides a disciplined, lazy subset of 'dplyr' semantics for
MongoDB aggregation pipelines. Queries remain lazy until collect() and
compile into MongoDB-native aggregation stages.
Author: Paolo Bosetti [aut, cre]
Maintainer: Paolo Bosetti <paolo.bosetti@unitn.it>
Diff between mdbplyr versions 0.4.0 dated 2026-06-25 and 0.4.1 dated 2026-07-10
DESCRIPTION | 6 - MD5 | 20 +++--- NEWS.md | 25 +++++++ R/compile-pipeline.R | 4 - R/translate-expr.R | 82 ++++++++++++++++++++++--- R/verbs-nested.R | 52 ++++++++++----- tests/testthat/helper-mock.R | 26 +++++++ tests/testthat/test-compile-pipeline.R | 15 ++++ tests/testthat/test-semantics-missing-fields.R | 44 +++++++++++++ tests/testthat/test-semantics-nested.R | 28 ++++++++ tests/testthat/test-translate-expr.R | 35 ++++++++-- 11 files changed, 288 insertions(+), 49 deletions(-)
Title: Composite Indicators Functions
Description: A collection of functions to calculate Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps, as described in OECD Handbook on constructing composite indicators: methodology and user guide, 2008, 'Vidoli' and 'Fusco' and 'Mazziotta' <doi:10.1007/s11205-014-0710-y>, 'Mazziotta' and 'Pareto' (2016) <doi:10.1007/s11205-015-0998-2>, 'Van Puyenbroeck and 'Rogge' <doi:10.1016/j.ejor.2016.07.038> and other authors.
Author: Francesco Vidoli [aut, cre],
Elisa Fusco [aut]
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Diff between Compind versions 3.5 dated 2026-07-02 and 3.6 dated 2026-07-10
Compind-3.5/Compind/data/desktop.ini |only Compind-3.5/Compind/desktop.ini |only Compind-3.5/Compind/inst/desktop.ini |only Compind-3.5/Compind/vignettes/desktop.ini |only Compind-3.6/Compind/DESCRIPTION | 8 ++++---- Compind-3.6/Compind/MD5 | 12 ++++-------- Compind-3.6/Compind/NEWS | 2 +- Compind-3.6/Compind/inst/doc/Compind_vignette.pdf |binary Compind-3.6/Compind/man/ci_rbod_constr_bad.Rd | 16 ++++++++-------- 9 files changed, 17 insertions(+), 21 deletions(-)
Title: Augments 'ASReml-R' in Fitting Mixed Models and Packages
Generally in Exploring Prediction Differences
Description: Assists in automating the selection of terms to include in mixed models when
'asreml' is used to fit the models. Procedures are available for choosing models that
conform to the hierarchy or marginality principle, for fitting and choosing between
two-dimensional spatial models using correlation, natural cubic smoothing spline and
P-spline models. A history of the fitting of a sequence of models is kept in a data frame.
Also used to compute functions and contrasts of, to investigate differences between and
to plot predictions obtained using any model fitting function. The content falls into
the following natural groupings: (i) Data, (ii) Model modification functions, (iii) Model
selection and description functions, (iv) Model diagnostics and simulation functions,
(v) Prediction production and presentation functions, (vi) Response transformation
functions, (vii) Object manipulation functions, and (viii) Miscellaneous functions
(for further details see 'asremlPlus-package' in help). The [...truncated...]
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between asremlPlus versions 4.4.58 dated 2026-04-12 and 4.4.63 dated 2026-07-10
asremlPlus-4.4.58/asremlPlus/R/alldiffs.v5.r |only asremlPlus-4.4.63/asremlPlus/DESCRIPTION | 8 asremlPlus-4.4.63/asremlPlus/MD5 | 78 ++-- asremlPlus-4.4.63/asremlPlus/NAMESPACE | 3 asremlPlus-4.4.63/asremlPlus/R/LSDfuncs.v1.r |only asremlPlus-4.4.63/asremlPlus/R/LSDutilities.R | 30 + asremlPlus-4.4.63/asremlPlus/R/S3methodsDeprecations.r | 1 asremlPlus-4.4.63/asremlPlus/R/alldiffs.findLSD.v1.r | 22 - asremlPlus-4.4.63/asremlPlus/R/alldiffs.v6.r |only asremlPlus-4.4.63/asremlPlus/R/estimateV.v3.R | 131 +++---- asremlPlus-4.4.63/asremlPlus/R/pairTrans.r | 59 +-- asremlPlus-4.4.63/asremlPlus/R/psplineUtilities.v2.R | 6 asremlPlus-4.4.63/asremlPlus/R/reml4.v13.r | 14 asremlPlus-4.4.63/asremlPlus/R/spatial.funcs.v11.r | 58 +-- asremlPlus-4.4.63/asremlPlus/R/spatial.utilities.v4.r | 16 asremlPlus-4.4.63/asremlPlus/build/partial.rdb |binary asremlPlus-4.4.63/asremlPlus/build/vignette.rds |binary asremlPlus-4.4.63/asremlPlus/inst/NEWS.Rd | 26 + asremlPlus-4.4.63/asremlPlus/inst/doc/LadybirdEMMs.asreml.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/LadybirdEMMs.lm.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/Wheat.analysis.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/Wheat.infoCriteria.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/WheatSpatialModels.pdf |binary asremlPlus-4.4.63/asremlPlus/inst/doc/asremlPlus-manual.pdf |binary asremlPlus-4.4.63/asremlPlus/man/addBacktransforms.alldiffs.Rd | 25 + asremlPlus-4.4.63/asremlPlus/man/addPairwiseLetters.alldiffs.Rd |only asremlPlus-4.4.63/asremlPlus/man/allDifferences.data.frame.Rd | 12 asremlPlus-4.4.63/asremlPlus/man/asremlPlus-package.Rd | 4 asremlPlus-4.4.63/asremlPlus/man/exploreLSDs.alldiffs.Rd | 5 asremlPlus-4.4.63/asremlPlus/man/pairdiffsTransform.alldiffs.Rd | 7 asremlPlus-4.4.63/asremlPlus/man/predictPlus.asreml.Rd | 18 asremlPlus-4.4.63/asremlPlus/man/predictPresent.asreml.Rd | 9 asremlPlus-4.4.63/asremlPlus/man/ratioTransform.alldiffs.Rd | 5 asremlPlus-4.4.63/asremlPlus/man/renewClassify.alldiffs.Rd | 3 asremlPlus-4.4.63/asremlPlus/tests/testthat/data/diffs.834.13.rda |only asremlPlus-4.4.63/asremlPlus/tests/testthat/test42EstimateV.r | 131 +++++++ asremlPlus-4.4.63/asremlPlus/tests/testthat/test42Selection.r | 5 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42Simulate.r | 2 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42SpatialModels.r | 6 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42WheatSpatialVignette.r | 4 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42WheatVignette.r | 2 asremlPlus-4.4.63/asremlPlus/tests/testthat/test42alldiffsasr.r | 181 +++++++++- asremlPlus-4.4.63/asremlPlus/tests/testthat/testthat-problems.rds |only 43 files changed, 638 insertions(+), 233 deletions(-)
Title: Record Linkage for Public Health Surveillance
Description: Record linkage for public health surveillance datasets using either
the Fellegi-Sunter probabilistic framework (via reclin2) or deterministic
exact-key matching. Provides pre-linkage data quality auditing (preflight()),
Medicare number checksum validation (check_medicare()), blocking variable
construction (flock()), and the murmuration() linkage engine. murmuration()
expresses linkage as a single cohort-to-event concept (linking a linelist of
people to a dated stream of vaccination, hospitalisation, or case events within
a before/during/after time window), with the historical four-code taxonomy
(case-to-hospitalisation, vaccination-to-case, vaccination-to-hospitalisation,
vaccination-to-event) retained as deprecated aliases. Also provides linkage
weight distribution visualisation (murmuration_plot()) and threshold sensitivity
analysis (perch()) with annotated AIHW, WA Data Linkage Unit, and PHRN reference
benchmarks. perch() can be called standalone or triggered automatically
mid-linka [...truncated...]
Author: Nicolas Smoll [aut, cre]
Maintainer: Nicolas Smoll <nicolas.smoll@health.qld.gov.au>
Diff between starling versions 0.6.5 dated 2026-01-26 and 1.1.0 dated 2026-07-10
starling-0.6.5/starling/R/clean_the_nest.R |only starling-0.6.5/starling/R/homing.R |only starling-0.6.5/starling/R/molting.R |only starling-0.6.5/starling/R/plumage.R |only starling-0.6.5/starling/R/preening.R |only starling-0.6.5/starling/R/starling-package.R |only starling-0.6.5/starling/R/tweet.R |only starling-0.6.5/starling/build/partial.rdb |only starling-0.6.5/starling/data/dx_data.rda |only starling-0.6.5/starling/data/hosp_data.rda |only starling-0.6.5/starling/data/linelist_data.rda |only starling-0.6.5/starling/data/manifest_data.rda |only starling-0.6.5/starling/data/vax_data.rda |only starling-0.6.5/starling/inst/WORDLIST.R |only starling-0.6.5/starling/inst/doc/starling-workflow.R |only starling-0.6.5/starling/inst/doc/starling-workflow.Rmd |only starling-0.6.5/starling/inst/doc/starling-workflow.html |only starling-0.6.5/starling/man/calculate_age_if_missing.Rd |only starling-0.6.5/starling/man/clean_the_nest.Rd |only starling-0.6.5/starling/man/create_comprehensive_age_categories.Rd |only starling-0.6.5/starling/man/dx_data.Rd |only starling-0.6.5/starling/man/find_column_preening.Rd |only starling-0.6.5/starling/man/homing.Rd |only starling-0.6.5/starling/man/hosp_data.Rd |only starling-0.6.5/starling/man/linelist_data.Rd |only starling-0.6.5/starling/man/manifest_data.Rd |only starling-0.6.5/starling/man/molting.Rd |only starling-0.6.5/starling/man/plumage.Rd |only starling-0.6.5/starling/man/preening.Rd |only starling-0.6.5/starling/man/tweet.Rd |only starling-0.6.5/starling/man/vax_data.Rd |only starling-0.6.5/starling/vignettes/starling-workflow.Rmd |only starling-1.1.0/starling/DESCRIPTION | 67 starling-1.1.0/starling/LICENSE |only starling-1.1.0/starling/MD5 | 80 starling-1.1.0/starling/NAMESPACE | 63 starling-1.1.0/starling/R/check_medicare.R |only starling-1.1.0/starling/R/data.R | 244 - starling-1.1.0/starling/R/flock.R |only starling-1.1.0/starling/R/murmuration.R | 1807 ++++++---- starling-1.1.0/starling/R/murmuration_plot.R |only starling-1.1.0/starling/R/perch.R |only starling-1.1.0/starling/R/preflight.R |only starling-1.1.0/starling/R/starling.R |only starling-1.1.0/starling/build/vignette.rds |binary starling-1.1.0/starling/data/cases_notifiable.rda |only starling-1.1.0/starling/data/vax_air.rda |only starling-1.1.0/starling/inst/doc/linked-cohort.R |only starling-1.1.0/starling/inst/doc/linked-cohort.Rmd |only starling-1.1.0/starling/inst/doc/linked-cohort.html |only starling-1.1.0/starling/inst/doc/pre-linkage-quality.R |only starling-1.1.0/starling/inst/doc/pre-linkage-quality.Rmd |only starling-1.1.0/starling/inst/doc/pre-linkage-quality.html |only starling-1.1.0/starling/inst/doc/threshold-selection.R |only starling-1.1.0/starling/inst/doc/threshold-selection.Rmd |only starling-1.1.0/starling/inst/doc/threshold-selection.html |only starling-1.1.0/starling/inst/extdata |only starling-1.1.0/starling/man/cases_notifiable.Rd |only starling-1.1.0/starling/man/check_medicare.Rd |only starling-1.1.0/starling/man/flock.Rd |only starling-1.1.0/starling/man/murmuration.Rd | 333 + starling-1.1.0/starling/man/murmuration_plot.Rd |only starling-1.1.0/starling/man/perch.Rd |only starling-1.1.0/starling/man/preflight.Rd |only starling-1.1.0/starling/man/starling-package.Rd | 58 starling-1.1.0/starling/man/vax_air.Rd |only starling-1.1.0/starling/tests |only starling-1.1.0/starling/vignettes/linked-cohort.Rmd |only starling-1.1.0/starling/vignettes/pre-linkage-quality.Rmd |only starling-1.1.0/starling/vignettes/threshold-selection.Rmd |only 70 files changed, 1775 insertions(+), 877 deletions(-)
Title: Seasonal Adjustment with 'X-13' in 'JDemetra+' 3.x
Description: R Interface to 'JDemetra+' 3.x
(<https://github.com/jdemetra>) time series analysis software. It
offers full access to options and outputs of 'X-13', including
Reg-ARIMA modelling (automatic AutoRegressive Integrated Moving
Average (ARIMA) model with outlier detection and trading days
adjustment) and X-11 decomposition.
Author: Jean Palate [aut],
Alain Quartier-la-Tente [aut] ,
Tanguy Barthelemy [aut, cre, art],
Anna Smyk [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3x13 versions 3.7.1 dated 2026-03-11 and 3.8.0 dated 2026-07-10
rjd3x13-3.7.1/rjd3x13/R/udvar.R |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-api-3.7.1.jar |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-core-3.7.1.jar |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-protobuf-3.7.1.jar |only rjd3x13-3.7.1/rjd3x13/inst/java/jdplus-x13-base-r-3.7.1.jar |only rjd3x13-3.8.0/rjd3x13/DESCRIPTION | 27 rjd3x13-3.8.0/rjd3x13/MD5 | 65 - rjd3x13-3.8.0/rjd3x13/NAMESPACE | 14 rjd3x13-3.8.0/rjd3x13/NEWS.md | 50 rjd3x13-3.8.0/rjd3x13/R/deprecated.R | 40 rjd3x13-3.8.0/rjd3x13/R/print.R | 352 ++++-- rjd3x13-3.8.0/rjd3x13/R/regarima_generic.R | 19 rjd3x13-3.8.0/rjd3x13/R/regarima_outliers.R | 46 rjd3x13-3.8.0/rjd3x13/R/revisions.R | 52 rjd3x13-3.8.0/rjd3x13/R/rjd3x13-package.R |only rjd3x13-3.8.0/rjd3x13/R/set_x11_spec.R | 110 + rjd3x13-3.8.0/rjd3x13/R/utils.R | 2 rjd3x13-3.8.0/rjd3x13/R/x13.R | 563 ++++++---- rjd3x13-3.8.0/rjd3x13/R/x13_rslts.R | 5 rjd3x13-3.8.0/rjd3x13/R/x13_spec.R | 256 +++- rjd3x13-3.8.0/rjd3x13/R/zzz.R | 91 + rjd3x13-3.8.0/rjd3x13/README.md | 4 rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-api-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-core-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-protobuf-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/java/jdplus-x13-base-r-3.8.0.jar |only rjd3x13-3.8.0/rjd3x13/inst/proto/x13.proto | 48 rjd3x13-3.8.0/rjd3x13/man/deprecated-rjd3x13.Rd | 2 rjd3x13-3.8.0/rjd3x13/man/get_x13_option.Rd |only rjd3x13-3.8.0/rjd3x13/man/refresh.Rd | 211 ++- rjd3x13-3.8.0/rjd3x13/man/regarima.Rd | 8 rjd3x13-3.8.0/rjd3x13/man/regarima_outliers.Rd | 2 rjd3x13-3.8.0/rjd3x13/man/rjd3x13-package.Rd |only rjd3x13-3.8.0/rjd3x13/man/x11.Rd | 2 rjd3x13-3.8.0/rjd3x13/man/x11_spec.Rd | 8 rjd3x13-3.8.0/rjd3x13/man/x13.Rd | 7 rjd3x13-3.8.0/rjd3x13/man/x13_dictionary.Rd | 5 rjd3x13-3.8.0/rjd3x13/man/x13_option.Rd |only rjd3x13-3.8.0/rjd3x13/man/x13_revisions.Rd | 5 rjd3x13-3.8.0/rjd3x13/man/x13_spec.Rd | 20 40 files changed, 1378 insertions(+), 636 deletions(-)
Title: Seasonal Adjustment with TRAMO-SEATS in 'JDemetra+' 3.x
Description: Interface to 'JDemetra+' 3.x (<https://github.com/jdemetra>)
time series analysis software. It offers full access to options and
outputs of 'TRAMO-SEATS' (Time series Regression with ARIMA noise,
Missing values and Outliers - Signal Extraction in ARIMA Time Series),
including 'TRAMO' modelling (ARIMA model with outlier detection and
trading days adjustment). ARIMA = AutoRegressive Integrated Moving Average.
Author: Jean Palate [aut],
Alain Quartier-la-Tente [aut] ,
Tanguy Barthelemy [aut, cre, art],
Anna Smyk [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3tramoseats versions 3.7.1 dated 2026-03-11 and 3.8.0 dated 2026-07-10
rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-api-3.7.1.jar |only rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-core-3.7.1.jar |only rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-protobuf-3.7.1.jar |only rjd3tramoseats-3.7.1/rjd3tramoseats/inst/java/jdplus-tramoseats-base-r-3.7.1.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/DESCRIPTION | 24 rjd3tramoseats-3.8.0/rjd3tramoseats/MD5 | 72 rjd3tramoseats-3.8.0/rjd3tramoseats/NAMESPACE | 6 rjd3tramoseats-3.8.0/rjd3tramoseats/NEWS.md | 47 rjd3tramoseats-3.8.0/rjd3tramoseats/R/deprecated.R | 24 rjd3tramoseats-3.8.0/rjd3tramoseats/R/print.R | 205 ++ rjd3tramoseats-3.8.0/rjd3tramoseats/R/revisions.R | 47 rjd3tramoseats-3.8.0/rjd3tramoseats/R/rjd3tramoseats-package.R |only rjd3tramoseats-3.8.0/rjd3tramoseats/R/seats.R | 23 rjd3tramoseats-3.8.0/rjd3tramoseats/R/seats_spec.R | 55 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramo_generic.R | 18 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramo_outliers.R | 38 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramo_spec.R | 39 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramoseats.R | 721 +++++++--- rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramoseats_rslts.R | 17 rjd3tramoseats-3.8.0/rjd3tramoseats/R/tramoseats_spec.R | 208 ++ rjd3tramoseats-3.8.0/rjd3tramoseats/R/zzz.R | 79 - rjd3tramoseats-3.8.0/rjd3tramoseats/README.md | 51 rjd3tramoseats-3.8.0/rjd3tramoseats/inst/WORDLIST | 3 rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-api-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-core-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-protobuf-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/java/jdplus-tramoseats-base-r-3.8.0.jar |only rjd3tramoseats-3.8.0/rjd3tramoseats/inst/proto/tramoseats.proto | 3 rjd3tramoseats-3.8.0/rjd3tramoseats/man/get_tramoseats_option.Rd |only rjd3tramoseats-3.8.0/rjd3tramoseats/man/refresh.Rd | 263 ++- rjd3tramoseats-3.8.0/rjd3tramoseats/man/rjd3tramoseats-package.Rd |only rjd3tramoseats-3.8.0/rjd3tramoseats/man/seats_decompose.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/set_seats.Rd | 6 rjd3tramoseats-3.8.0/rjd3tramoseats/man/terror.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramo.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramo_forecast.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramo_outliers.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats.Rd | 4 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_dictionary.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_option.Rd |only rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_revisions.Rd | 2 rjd3tramoseats-3.8.0/rjd3tramoseats/man/tramoseats_spec.Rd | 8 rjd3tramoseats-3.8.0/rjd3tramoseats/tests/spelling.R | 10 43 files changed, 1352 insertions(+), 633 deletions(-)
More information about rjd3tramoseats at CRAN
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Title: Generic Coordinate System Transformations Using 'PROJ'
Description: A wrapper around the generic coordinate transformation software 'PROJ'
that transforms coordinates from one coordinate reference system ('CRS')
to another. This includes cartographic projections as well as geodetic transformations. The intention is for this
package to be used by user-packages such as 'reproj', and that the older 'PROJ.4' and version 5
pathways be provided by the 'proj4' package.
Author: Michael D. Sumner [aut, cre] ,
Jeroen Ooms [ctb] ,
Simon Urbanek [cph, ctb] ,
Dewey Dunnington [ctb] ,
Anthony North [ctb]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between PROJ versions 0.6.0 dated 2025-04-02 and 0.7.0 dated 2026-07-10
DESCRIPTION | 15 ++++---- MD5 | 29 +++++++++------ NAMESPACE | 1 NEWS.md | 16 ++++++++ R/proj_factors.R |only R/proj_trans.R | 6 +++ README.md | 68 +++++++++++++++---------------------- build/vignette.rds |binary inst/doc/PROJ.html | 5 +- man/PROJ-package.Rd | 5 ++ man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/figures/README-xyz-1.png |only man/proj_factors.Rd |only src/C_proj_factors.c |only src/Makevars.ucrt | 2 - src/init.c | 2 + tests/testthat/test-proj_factors.R |only 18 files changed, 87 insertions(+), 62 deletions(-)
Title: Multimodal Access and Interactive Data Representation
Description: Provides accessible, interactive visualizations through the 'MAIDR'
(Multimodal Access and Interactive Data Representation) system. Converts
'ggplot2' and Base R plots into accessible HTML/SVG formats with keyboard
navigation, screen reader support, and 'sonification' capabilities. Supports
bar charts (simple, grouped, stacked), histograms, line plots, scatter plots,
box plots, violin plots, candlestick (OHLC) charts, heat maps,
density/smooth curves, faceted plots,
multi-panel layouts (including patchwork), and multi-layered plot combinations. Enables
data exploration for users with visual impairments through multiple sensory
modalities. For more details see the 'MAIDR' project
<https://maidr.ai/>.
Author: JooYoung Seo [aut, cph],
Niranjan Kalaiselvan [aut, cre]
Maintainer: Niranjan Kalaiselvan <nk46@illinois.edu>
Diff between maidr versions 0.3.0 dated 2026-04-01 and 0.4.0 dated 2026-07-10
maidr-0.3.0/maidr/inst/htmlwidgets/lib/maidr-3.59.0 |only maidr-0.3.0/maidr/tests/testthat/Rplots.pdf |only maidr-0.3.0/maidr/tools |only maidr-0.4.0/maidr/DESCRIPTION | 12 maidr-0.4.0/maidr/MD5 | 183 +-- maidr-0.4.0/maidr/NAMESPACE | 1 maidr-0.4.0/maidr/NEWS.md | 17 maidr-0.4.0/maidr/R/axes_utils.R |only maidr-0.4.0/maidr/R/base_r_adapter.R | 86 + maidr-0.4.0/maidr/R/base_r_barplot_layer_processor.R | 4 maidr-0.4.0/maidr/R/base_r_boxplot_layer_processor.R | 6 maidr-0.4.0/maidr/R/base_r_candlestick_layer_processor.R |only maidr-0.4.0/maidr/R/base_r_dodged_bar_layer_processor.R | 6 maidr-0.4.0/maidr/R/base_r_function_classification.R | 5 maidr-0.4.0/maidr/R/base_r_function_patching.R | 47 maidr-0.4.0/maidr/R/base_r_heatmap_layer_processor.R | 8 maidr-0.4.0/maidr/R/base_r_histogram_layer_processor.R | 4 maidr-0.4.0/maidr/R/base_r_line_layer_processor.R | 8 maidr-0.4.0/maidr/R/base_r_plot_orchestrator.R | 110 + maidr-0.4.0/maidr/R/base_r_processor_factory.R | 3 maidr-0.4.0/maidr/R/base_r_smooth_layer_processor.R | 6 maidr-0.4.0/maidr/R/base_r_stacked_bar_layer_processor.R | 8 maidr-0.4.0/maidr/R/base_r_unknown_layer_processor.R | 2 maidr-0.4.0/maidr/R/base_r_wrapper_exports.R | 13 maidr-0.4.0/maidr/R/ggplot2_adapter.R | 18 maidr-0.4.0/maidr/R/ggplot2_bar_layer_processor.R | 70 - maidr-0.4.0/maidr/R/ggplot2_boxplot_layer_processor.R | 12 maidr-0.4.0/maidr/R/ggplot2_candlestick_layer_processor.R |only maidr-0.4.0/maidr/R/ggplot2_dodged_bar_layer_processor.R | 4 maidr-0.4.0/maidr/R/ggplot2_facet_utils.R | 8 maidr-0.4.0/maidr/R/ggplot2_heatmap_layer_processor.R | 4 maidr-0.4.0/maidr/R/ggplot2_line_layer_processor.R | 262 ++++ maidr-0.4.0/maidr/R/ggplot2_patchwork_utils.R | 297 +++++ maidr-0.4.0/maidr/R/ggplot2_plot_orchestrator.R | 34 maidr-0.4.0/maidr/R/ggplot2_processor_factory.R | 3 maidr-0.4.0/maidr/R/ggplot2_stacked_bar_layer_processor.R | 6 maidr-0.4.0/maidr/R/ggplot2_system_init.R | 36 maidr-0.4.0/maidr/R/ggplot2_violin_layer_processor.R | 8 maidr-0.4.0/maidr/R/html_dependencies.R | 30 maidr-0.4.0/maidr/R/layer_processor.R | 21 maidr-0.4.0/maidr/R/maidr.R | 30 maidr-0.4.0/maidr/R/maidr_widget.R | 9 maidr-0.4.0/maidr/R/svg_utils.R | 556 +++++++++- maidr-0.4.0/maidr/README.md | 21 maidr-0.4.0/maidr/inst/COPYRIGHTS |only maidr-0.4.0/maidr/inst/doc/getting-started.R | 29 maidr-0.4.0/maidr/inst/doc/getting-started.Rmd | 51 maidr-0.4.0/maidr/inst/doc/getting-started.html | 170 +-- maidr-0.4.0/maidr/inst/doc/shiny-integration.html | 4 maidr-0.4.0/maidr/inst/examples/base_r_plot_types_example.R | 69 + maidr-0.4.0/maidr/inst/examples/ggplot2/candlestick.R |only maidr-0.4.0/maidr/inst/examples/ggplot2/candlestick_with_ma_volume.R |only maidr-0.4.0/maidr/inst/examples/ggplot2_all_plot_types_example.R | 93 + maidr-0.4.0/maidr/inst/htmlwidgets/lib/maidr-3.69.0 |only maidr-0.4.0/maidr/inst/htmlwidgets/maidr.yaml | 4 maidr-0.4.0/maidr/man/BaseRAdapter.Rd | 27 maidr-0.4.0/maidr/man/BaseRCandlestickLayerProcessor.Rd |only maidr-0.4.0/maidr/man/BaseRStackedBarLayerProcessor.Rd | 2 maidr-0.4.0/maidr/man/Ggplot2BarLayerProcessor.Rd | 22 maidr-0.4.0/maidr/man/Ggplot2CandlestickProcessor.Rd |only maidr-0.4.0/maidr/man/Ggplot2LineLayerProcessor.Rd | 120 ++ maidr-0.4.0/maidr/man/LayerProcessor.Rd | 8 maidr-0.4.0/maidr/man/adjust_chartseries_bracket.Rd |only maidr-0.4.0/maidr/man/as_axis_config.Rd |only maidr-0.4.0/maidr/man/attach_axis_format.Rd |only maidr-0.4.0/maidr/man/axes_utils.Rd |only maidr-0.4.0/maidr/man/base-r-wrappers.Rd | 7 maidr-0.4.0/maidr/man/build_axes.Rd |only maidr-0.4.0/maidr/man/collapse_lines_to_multiseries.Rd |only maidr-0.4.0/maidr/man/collect_candlestick_layers.Rd |only maidr-0.4.0/maidr/man/create_html_document.Rd | 5 maidr-0.4.0/maidr/man/create_maidr_html.Rd | 11 maidr-0.4.0/maidr/man/create_maidr_iframe.Rd | 6 maidr-0.4.0/maidr/man/create_standalone_html.Rd | 6 maidr-0.4.0/maidr/man/dot-maidr_chartseries_ta_warned.Rd |only maidr-0.4.0/maidr/man/embed_volume_into_candle_data.Rd |only maidr-0.4.0/maidr/man/extract_axis_label.Rd |only maidr-0.4.0/maidr/man/extract_body_grob_id.Rd |only maidr-0.4.0/maidr/man/extract_rect_index_from_id.Rd |only maidr-0.4.0/maidr/man/inject_candlestick_open_close.Rd |only maidr-0.4.0/maidr/man/is_volume_only_bar_panel.Rd |only maidr-0.4.0/maidr/man/maidr_html_dependencies.Rd | 24 maidr-0.4.0/maidr/man/maidr_responsive_dependency.Rd |only maidr-0.4.0/maidr/man/maidr_widget.Rd | 12 maidr-0.4.0/maidr/man/merge_candlestick_volume_panels.Rd |only maidr-0.4.0/maidr/man/merge_line_layers.Rd |only maidr-0.4.0/maidr/man/panel_has_layer_of_type.Rd |only maidr-0.4.0/maidr/man/panel_layer_of_type.Rd |only maidr-0.4.0/maidr/man/save_html.Rd | 9 maidr-0.4.0/maidr/man/show.Rd | 9 maidr-0.4.0/maidr/man/strip_chartseries_date_axis.Rd |only maidr-0.4.0/maidr/man/strip_chartseries_right_axis.Rd |only maidr-0.4.0/maidr/man/validate_axes.Rd |only maidr-0.4.0/maidr/man/warn_chartseries_ta_unsupported.Rd |only maidr-0.4.0/maidr/tests/testthat/test-adapters.R | 135 ++ maidr-0.4.0/maidr/tests/testthat/test-base-r-candlestick.R |only maidr-0.4.0/maidr/tests/testthat/test-base-r-heatmap-layer-processor.R | 24 maidr-0.4.0/maidr/tests/testthat/test-base-r-heatmap-processor.R | 20 maidr-0.4.0/maidr/tests/testthat/test-base-r-line-layer-processor.R | 40 maidr-0.4.0/maidr/tests/testthat/test-base-r-smooth-layer-processor.R | 16 maidr-0.4.0/maidr/tests/testthat/test-ggplot2-adapter-geom-ma.R |only maidr-0.4.0/maidr/tests/testthat/test-ggplot2-bar-layer-processor.R | 86 + maidr-0.4.0/maidr/tests/testthat/test-ggplot2-candlestick-layer-processor.R |only maidr-0.4.0/maidr/tests/testthat/test-ggplot2-candlestick-patchwork.R |only maidr-0.4.0/maidr/tests/testthat/test-ggplot2-heatmap-layer-processor.R | 8 maidr-0.4.0/maidr/tests/testthat/test-ggplot2-line-layer-processor.R | 178 ++- maidr-0.4.0/maidr/tests/testthat/test-ggplot2-violin-layer-processor.R | 14 maidr-0.4.0/maidr/tests/testthat/test-layer-processor.R | 4 maidr-0.4.0/maidr/tests/testthat/test-patchwork-utils.R | 8 maidr-0.4.0/maidr/tests/testthat/test-unknown-processors.R | 4 maidr-0.4.0/maidr/vignettes/getting-started.Rmd | 51 111 files changed, 2784 insertions(+), 450 deletions(-)
Title: Client for OGC API - Environmental Data Retrieval (EDR)
Description: A tidy R client for services implementing the OGC API -
Environmental Data Retrieval ('EDR') standard with JSON discovery and
'GeoJSON' or 'CoverageJSON' query responses. General purpose, but most
of its real-world use is against in-situ monitoring networks
(stream gauges, weather stations, snow and reservoir telemetry)
that expose their stations and time series as EDR collections.
Known working endpoints include the USGS waterdata OGC API and the
Western Water Datahub. Provides discovery, query, and parsing
helpers for the locations, items, position, area, cube, radius,
trajectory, and corridor query types. Returns 'CoverageJSON' as
tidy 'tibble' rows and 'GeoJSON' as 'sf' objects.
Author: Kyle Onda [aut, cre, cph]
Maintainer: Kyle Onda <konda@lincolninst.edu>
Diff between edr4r versions 0.1.0 dated 2026-06-18 and 0.1.1 dated 2026-07-10
edr4r-0.1.0/edr4r/inst/doc/wwdh-collections.Rmd |only edr4r-0.1.0/edr4r/inst/doc/wwdh-collections.html |only edr4r-0.1.0/edr4r/inst/doc/wwdh-http-guide.Rmd |only edr4r-0.1.0/edr4r/inst/doc/wwdh-http-guide.html |only edr4r-0.1.0/edr4r/man/edr_parameter_groups.Rd |only edr4r-0.1.0/edr4r/vignettes/getting-started-figs/prism-grid-1.png |only edr4r-0.1.0/edr4r/vignettes/wwdh-collections.Rmd |only edr4r-0.1.0/edr4r/vignettes/wwdh-http-guide.Rmd |only edr4r-0.1.1/edr4r/DESCRIPTION | 28 edr4r-0.1.1/edr4r/MD5 | 100 - edr4r-0.1.1/edr4r/NAMESPACE | 1 edr4r-0.1.1/edr4r/NEWS.md | 51 edr4r-0.1.1/edr4r/R/client.R | 58 edr4r-0.1.1/edr4r/R/discovery.R | 38 edr4r-0.1.1/edr4r/R/edr4r-package.R | 11 edr4r-0.1.1/edr4r/R/explore.R | 232 +-- edr4r-0.1.1/edr4r/R/map.R | 99 + edr4r-0.1.1/edr4r/R/parsers.R | 640 +++++++--- edr4r-0.1.1/edr4r/R/plot.R | 2 edr4r-0.1.1/edr4r/R/queries.R | 126 - edr4r-0.1.1/edr4r/R/request.R | 73 - edr4r-0.1.1/edr4r/R/viz-utils.R | 9 edr4r-0.1.1/edr4r/README.md | 133 +- edr4r-0.1.1/edr4r/build/vignette.rds |binary edr4r-0.1.1/edr4r/inst/doc/getting-started.R | 9 edr4r-0.1.1/edr4r/inst/doc/getting-started.Rmd | 135 -- edr4r-0.1.1/edr4r/inst/doc/getting-started.html | 291 ++-- edr4r-0.1.1/edr4r/man/covjson_to_tibble.Rd | 12 edr4r-0.1.1/edr4r/man/edr4r-package.Rd | 11 edr4r-0.1.1/edr4r/man/edr_area.Rd | 7 edr4r-0.1.1/edr4r/man/edr_client.Rd | 13 edr4r-0.1.1/edr4r/man/edr_corridor.Rd | 14 edr4r-0.1.1/edr4r/man/edr_cube.Rd | 7 edr4r-0.1.1/edr4r/man/edr_explore.Rd | 27 edr4r-0.1.1/edr4r/man/edr_items.Rd | 12 edr4r-0.1.1/edr4r/man/edr_location.Rd | 6 edr4r-0.1.1/edr4r/man/edr_locations.Rd | 7 edr4r-0.1.1/edr4r/man/edr_map.Rd | 7 edr4r-0.1.1/edr4r/man/edr_plot.Rd | 2 edr4r-0.1.1/edr4r/man/edr_position.Rd | 6 edr4r-0.1.1/edr4r/man/edr_radius.Rd | 9 edr4r-0.1.1/edr4r/man/edr_request.Rd | 6 edr4r-0.1.1/edr4r/man/edr_trajectory.Rd | 7 edr4r-0.1.1/edr4r/man/geojson_to_sf.Rd | 6 edr4r-0.1.1/edr4r/tests/testthat/fixtures/trajectory.covjson |only edr4r-0.1.1/edr4r/tests/testthat/helper-mock.R | 11 edr4r-0.1.1/edr4r/tests/testthat/test-client.R | 13 edr4r-0.1.1/edr4r/tests/testthat/test-discovery.R | 23 edr4r-0.1.1/edr4r/tests/testthat/test-explore.R | 288 +--- edr4r-0.1.1/edr4r/tests/testthat/test-map.R | 124 + edr4r-0.1.1/edr4r/tests/testthat/test-parsers.R | 318 ++++ edr4r-0.1.1/edr4r/tests/testthat/test-queries.R | 58 edr4r-0.1.1/edr4r/tests/testthat/test-query-building.R | 17 edr4r-0.1.1/edr4r/tests/testthat/test-request.R | 89 + edr4r-0.1.1/edr4r/tools |only edr4r-0.1.1/edr4r/vignettes/getting-started.Rmd | 135 -- 56 files changed, 1973 insertions(+), 1298 deletions(-)
Title: Dimension Reduction for Outlier Detection
Description: A dimension reduction technique for outlier detection. DOBIN: a Distance
based Outlier BasIs using Neighbours, constructs a set of basis vectors for outlier
detection. This is not an outlier detection method; rather it is a pre-processing
method for outlier detection. It brings outliers to the fore-front using fewer basis
vectors (Kandanaarachchi, Hyndman 2020) <doi:10.1080/10618600.2020.1807353>.
Author: Sevvandi Kandanaarachchi [aut, cre]
Maintainer: Sevvandi Kandanaarachchi <sevvandik@gmail.com>
Diff between dobin versions 1.0.4 dated 2022-08-25 and 1.0.5 dated 2026-07-10
DESCRIPTION | 10 +- MD5 | 14 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/dobin.R | 10 +- inst/doc/dobin.Rmd | 4 inst/doc/dobin.html | 247 ++++++++++++++++++++++++++-------------------------- vignettes/dobin.Rmd | 4 8 files changed, 148 insertions(+), 141 deletions(-)
Title: Utilizing Automated Text Analysis to Support Interpretation of
Narrative Feedback
Description: Combine topic modeling and sentiment analysis to identify individual students' gaps, and highlight their strengths and weaknesses across predefined competency domains and professional activities.
Author: Joyce Moonen - van Loon [aut, cre]
Maintainer: Joyce Moonen - van Loon <j.moonen@maastrichtuniversity.nl>
Diff between sumup versions 1.0.2 dated 2026-02-24 and 1.0.3 dated 2026-07-10
DESCRIPTION | 6 MD5 | 7 NEWS.md |only R/create_output.R | 420 +++++++++++++++++++++++++++--------------------------- R/run_sumup.R | 133 ++++++++--------- 5 files changed, 287 insertions(+), 279 deletions(-)
Title: Quantitative Analysis and Visualization of LUCC
Description: Tools for the analysis of land use and cover (LUC) time series. It
includes support for loading spatiotemporal raster data and synthesized
spatial plotting. Several LUC change (LUCC) metrics in regular or irregular
time intervals can be extracted and visualized through one- and multistep
sankey and chord diagrams. A complete intensity analysis according to
Aldwaik and Pontius (2012) <doi:10.1016/j.landurbplan.2012.02.010> is
implemented, including tools for the generation of standardized multilevel
output graphics.
Author: Reginal Exavier [aut, cre] ,
Peter Zeilhofer [aut]
Maintainer: Reginal Exavier <reginalexavier@rocketmail.com>
Diff between OpenLand versions 1.0.4 dated 2026-07-01 and 1.0.5 dated 2026-07-10
DESCRIPTION | 6 MD5 | 30 NEWS.md | 8 R/contingencyTable.R | 3 R/generalfunctions.R | 56 inst/doc/openland_vignette.R | 223 -- inst/doc/openland_vignette.Rmd | 1 inst/doc/openland_vignette.html | 2342 -------------------------- man/acc_changes.Rd | 3 man/contingencyTable.Rd | 3 man/dot-openland_try_download_and_load_rda.Rd | 9 man/summary_dir.Rd | 3 man/summary_map.Rd | 3 tests/testthat/Rplots.pdf |binary tests/testthat/test_generalfunctions.R | 2 vignettes/openland_vignette.Rmd | 1 16 files changed, 88 insertions(+), 2605 deletions(-)
Title: Plotting Tools for Anyone Working in Deep Time
Description: Extends the functionality of other plotting packages (notably 'ggplot2')
to help facilitate the plotting of data over long time intervals, including,
but not limited to, geological, evolutionary, and ecological data. The
primary goal of 'deeptime' is to enable users to add highly customizable
timescales to their visualizations. Other functions are also included to
assist with other areas of deep time visualization.
Author: William Gearty [aut, cre]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between deeptime versions 2.3.1 dated 2025-11-26 and 2.4.0 dated 2026-07-10
DESCRIPTION | 16 MD5 | 131 +- NAMESPACE | 3 NEWS.md | 24 R/coord_geo.R | 69 - R/coord_trans_xy.R | 79 - R/disparity_through_time.R | 15 R/geom_text_phylo.R | 269 +++++ README.md | 6 build/vignette.rds |binary inst/doc/coord.html | 9 inst/doc/coord_geo.R | 26 inst/doc/coord_geo.Rmd | 26 inst/doc/coord_geo.html | 40 inst/doc/geo.html | 75 - inst/doc/ggarrange2.html | 18 inst/doc/phylogenies.R | 50 + inst/doc/phylogenies.Rmd | 70 + inst/doc/phylogenies.html | 98 +- inst/doc/time.R | 32 inst/doc/time.Rmd | 32 inst/doc/time.html | 40 inst/doc/traits.html | 12 man/coord_geo.Rd | 33 man/coord_geo_polar.Rd | 6 man/coord_geo_radial.Rd | 4 man/coord_trans_flip.Rd | 4 man/coord_trans_xy.Rd | 12 man/deeptime-package.Rd | 57 - man/disparity_through_time.Rd | 16 man/eons.Rd | 2 man/epochs.Rd | 2 man/eras.Rd | 2 man/facet_grid_color.Rd | 318 +++--- man/facet_nested_color.Rd | 474 ++++------ man/facet_nested_wrap_color.Rd | 406 ++++---- man/facet_wrap_color.Rd | 10 man/fgdc_dict.Rd | 8 man/fgdc_names.Rd | 8 man/geo_pattern.Rd | 6 man/geom_points_range.Rd | 4 man/geom_text_clade.Rd |only man/geom_text_phylo.Rd | 4 man/get_scale_data.Rd | 2 man/grid.pattern_geo.Rd | 6 man/guide_geo.Rd | 6 man/panel.disparity.Rd | 10 man/periods.Rd | 2 man/scale_fill_geopattern.Rd | 6 man/stages.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/ggplot4/coord_geo/stacked-scales-on-left-right-new.svg |only tests/testthat/_snaps/ggplot4/coord_geo/stacked-scales-on-top-bottom-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-capped-axes-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-expansion-new.svg | 72 - tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-reflect-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-with-reverse-scales-new.svg |only tests/testthat/_snaps/ggplot4/coord_trans_xy/coord-trans-xy-without-expansion-new.svg | 70 - tests/testthat/_snaps/ggplot4/geom_text_phylo/geom-text-clade-annotation-new.svg |only tests/testthat/_snaps/ggplot4/geom_text_phylo/geom-text-clade-labels-new.svg |only tests/testthat/_snaps/ggplot4/geom_text_phylo/geom-text-clade-new.svg |only tests/testthat/test-coord_geo.R | 31 tests/testthat/test-coord_geo_radial.R | 4 tests/testthat/test-coord_trans_xy.R | 40 tests/testthat/test-disparity_through_time.R | 15 tests/testthat/test-geom_text_phylo.R | 63 + vignettes/coord_geo.Rmd | 26 vignettes/phylogenies-6.png |binary vignettes/phylogenies-7.png |only vignettes/phylogenies-8.png |only vignettes/phylogenies.Rmd | 70 + vignettes/time.Rmd | 32 72 files changed, 1849 insertions(+), 1124 deletions(-)
Title: Confidence Intervals Utilizing Uncertain Prior Information
Description: Computes a confidence interval for a specified linear combination of the
regression parameters in a linear regression model with iid normal errors
with known variance when there is uncertain prior information that a distinct
specified linear combination of the regression parameters takes a given
value. This confidence interval, found by numerical nonlinear constrained
optimization, has the required minimum coverage and utilizes this uncertain
prior information through desirable expected length properties.
This confidence interval has the following three practical applications.
Firstly, if the error variance has been accurately estimated from previous
data then it may be treated as being effectively known. Secondly, for
sufficiently large (dimension of the response vector) minus (dimension of
regression parameter vector), greater than or equal to 30 (say),
if we replace the assumed known value of the error variance by its usual
estimator in the formula for the confidence interval then [...truncated...]
Author: Paul Kabaila [aut, cre],
Rheanna Mainzer [aut],
Ayesha Perera [ctb]
Maintainer: Paul Kabaila <P.Kabaila@latrobe.edu.au>
Diff between ciuupi versions 1.2.3 dated 2024-06-18 and 1.2.4 dated 2026-07-10
DESCRIPTION | 10 +- MD5 | 10 +- R/optimize_b_s_given_lambda.R | 184 +++++++++++++++++++-------------------- R/optimize_knots_v1.R | 170 ++++++++++++++++++------------------ build/vignette.rds |binary inst/doc/description-ciuupi.html | 11 +- 6 files changed, 195 insertions(+), 190 deletions(-)
Title: A 'shiny' Package for Data Analysis
Description: Provides a 'shiny' application with a user-friendly interface
for interactive data analysis. It supports exploratory data analysis
through descriptive statistics, data visualization, statistical
tests (e.g., normality assessment), linear modeling, data
import, transformation and reporting. For more details see Shapiro and Wilk
(1965) <doi:10.2307/2333709>.
Author: Luis Gustavo Schuck [aut, cre]
Maintainer: Luis Gustavo Schuck <luisgustavoschuck@yahoo.com.br>
Diff between spada versions 0.1.6 dated 2026-06-11 and 0.1.7 dated 2026-07-10
DESCRIPTION | 8 MD5 | 93 ++--- NAMESPACE | 403 ++++++++++++------------ NEWS.md | 28 + R/config_module.R | 7 R/correlation_module.R | 14 R/descriptive_stats_module.R | 69 +++- R/exploratory_module.R | 1 R/insert_output_module.R | 42 -- R/lm_module.R | 204 +++++++++++- R/navbar_df_info_module.R | 35 +- R/normality_test_module.R | 32 - R/one_t_test_module.R |only R/output_module.R | 36 -- R/restore_session_module.R | 31 - R/sidebar_module.R | 50 ++- R/spada.R | 18 - R/spada_server.R | 7 R/spada_themes.R | 412 +++++++++++++------------ R/spada_ui.R | 17 - R/utils.R | 296 +++++++++++++---- R/z_test_module.R | 83 ++--- R/zzz.R | 1 README.md | 11 build/vignette.rds |binary inst/doc/spada.html | 26 - man/figures/data.png |binary man/figures/export.png |binary man/figures/highlights.png |binary man/figures/import.png |binary man/figures/logo.png |binary man/figures/metadata.png |binary man/figures/navbar_active_dataset.png |binary man/figures/overview.png |binary man/figures/spada_analysis_exploratory.png |binary man/figures/spada_config.png |binary man/figures/spada_data_metadata.png |binary man/figures/spada_data_overview.png |binary man/figures/spada_edit.png |binary man/figures/spada_home.png |binary man/figures/spada_home2.png |binary man/figures/spada_home3.png |binary man/figures/spada_output.png |binary man/figures/spada_output_exported.png |only man/spada.Rd | 48 +- tests/testthat.R | 24 - tests/testthat/test-descriptive_stats_module.R | 43 -- tests/testthat/test-lm_module.R | 43 ++ tests/testthat/test-one_t_test_module.R |only 49 files changed, 1255 insertions(+), 827 deletions(-)
Title: Efficient Savitzky-Golay Filtering
Description: Smoothing signals and computing their derivatives is a common
requirement in signal processing workflows. Savitzky-Golay filters are a
established method able to do both (Savitzky and Golay, 1964 <doi:10.1021/ac60214a047>).
This package implements one dimensional Savitzky-Golay filters that can be applied to
vectors and matrices (either row-wise or column-wise).
Vectorization and memory allocations have been profiled to reduce computational
fingerprint. Short filter lengths are implemented in the direct space, while
longer filters are implemented in frequency space, using a Fast Fourier
Transform (FFT).
Author: Sergio Oller Moreno [aut, cre] ,
Robert Gentleman [ctb, cph] ),
Ross Ihaka [ctb, cph] ),
Brian Ripley [ctb, cph] ),
Martin Maechler [ctb, cph] ),
Duncan Murdoch [ctb, cph] ),
Institute for Bioengineering of Catalonia [cph]
Maintainer: Sergio Oller Moreno <sergioller@gmail.com>
Diff between sgolay versions 1.0.3 dated 2023-04-05 and 1.0.4 dated 2026-07-10
DESCRIPTION | 12 ++--- MD5 | 8 +-- NEWS.md | 13 ++++++ R/sgolayfilt.R | 8 +++ inst/tests/runit.sgolayfilt.R | 91 ++++++++++++++++++++++++++++++++++++++++++ 5 files changed, 121 insertions(+), 11 deletions(-)
Title: 'DuckDB' High Throughput Sequencing File Formats Reader
Extension
Description: Bundles the 'duckhts' 'DuckDB' extension for reading High Throughput
Sequencing file formats with 'DuckDB'. The 'DuckDB' C extension API
<https://duckdb.org/docs/stable/clients/c/api> and its 'htslib' dependency are
compiled from vendored sources during package installation. James K Bonfield and co-authors (2021) <doi:10.1093/gigascience/giab007>. VariantKey / RegionKey support follows Nicola Asuni (2018) <doi:10.1101/473744>.
Author: Sounkou Mahamane Toure [aut, cre],
James K Bonfield, John Marshall,Petr Danecek ,Heng Li , Valeriu Ohan,
Andrew Whitwham,Thomas Keane , Robert M Davies [ctb] ,
Brent Pedersen [cph] ,
Giulio Genovese [cph] ,
Nicola Asuni [cph] ,
DuckDB C Extension API [...truncated...]
Maintainer: Sounkou Mahamane Toure <sounkoutoure@gmail.com>
Diff between Rduckhts versions 1.3.0-0.1.0 dated 2026-05-29 and 1.4.0-0.1.0 dated 2026-07-10
DESCRIPTION | 6 MD5 | 123 NAMESPACE | 4 NEWS.md | 21 R/convert_parquet.R |only R/duckhts.R | 161 inst/duckhts_extension/bam_bin_counts.c | 25 inst/duckhts_extension/bam_reader.c | 61 inst/duckhts_extension/bcf_reader.c | 4120 +++++++++++++--- inst/duckhts_extension/bcftools_norm_udf.c | 232 inst/duckhts_extension/bcftools_shim.c | 20 inst/duckhts_extension/duckdb_capi/duckdb.h | 1398 ++++- inst/duckhts_extension/duckdb_capi/duckdb_extension.h | 265 - inst/duckhts_extension/duckhts.c | 267 - inst/duckhts_extension/hts_meta_reader.c | 26 inst/duckhts_extension/include/bcftools_shim.h | 12 inst/duckhts_extension/include/duckhts_simd.h | 18 inst/duckhts_extension/include/duckhts_simd_internal.h | 33 inst/duckhts_extension/include/duckhts_simd_kernels.def | 2 inst/duckhts_extension/include/vep_parser.h | 4 inst/duckhts_extension/interval_udf.c | 48 inst/duckhts_extension/kmer_udf.c | 680 ++ inst/duckhts_extension/seq_reader.c | 51 inst/duckhts_extension/simd/duckhts_simd_avx2.c | 127 inst/duckhts_extension/simd/duckhts_simd_dispatch.c | 88 inst/duckhts_extension/simd/duckhts_simd_scalar.c | 77 inst/duckhts_extension/tabix_reader.c | 53 inst/duckhts_extension/vep_parser.c | 65 inst/extdata/bcf_format_type_clash.bcf |only inst/extdata/bcf_info_str_clash.bcf |only inst/extdata/bcf_info_type_clash.bcf |only inst/extdata/genotype_ploidy_edge_cases.vcf |only inst/extdata/malformed_bad_pos.vcf |only inst/extdata/phased_genotype_fields.vcf |only inst/extdata/samples_s1.txt |only inst/extdata/test_vep_tidy.vcf |only inst/extdata/tidy_chunk_boundary.vcf |only inst/extdata/vcfpp_manifest.tsv | 5 inst/function_catalog/functions.md | 61 inst/function_catalog/functions.tsv | 56 inst/function_catalog/functions.yaml | 195 inst/patches/duckdb_capi_strict_prototypes.patch | 94 inst/tinytest/test_basic.R | 66 inst/tinytest/test_bcf.R | 556 ++ inst/tinytest/test_bcf_regression.R | 198 inst/tinytest/test_bcftools_norm.R | 304 + inst/tinytest/test_cigar_utils.R | 33 inst/tinytest/test_convert_parquet.R |only inst/tinytest/test_integration.R | 15 inst/tinytest/test_seq_ops.R | 41 man/rduckhts_bam.Rd | 6 man/rduckhts_bam_convert_parquet.Rd |only man/rduckhts_bam_multi.Rd | 3 man/rduckhts_bcf.Rd | 11 man/rduckhts_bcf_convert_parquet.Rd |only man/rduckhts_bcf_multi.Rd | 3 man/rduckhts_bed.Rd | 6 man/rduckhts_bed_multi.Rd | 3 man/rduckhts_fasta.Rd | 6 man/rduckhts_fasta_multi.Rd | 3 man/rduckhts_fastq.Rd | 5 man/rduckhts_fastq_multi.Rd | 3 man/rduckhts_gff.Rd | 6 man/rduckhts_gff_convert_parquet.Rd |only man/rduckhts_gff_multi.Rd | 3 man/rduckhts_gtf.Rd | 6 man/rduckhts_gtf_multi.Rd | 3 man/rduckhts_tabix.Rd | 6 man/rduckhts_tabix_convert_parquet.Rd |only man/rduckhts_tabix_multi.Rd | 3 70 files changed, 8577 insertions(+), 1110 deletions(-)
Title: Higher-Level Interface of 'torch' Package to Auto-Train Neural
Networks
Description: Provides a higher-level interface to the 'torch' package for defining,
training, and fine-tuning neural networks through code generation.
The package supports several architectures, including feedforward
(multi-layer perceptron) and recurrent neural networks (RNN, LSTM,
GRU), while reducing boilerplate 'torch' code. Model training
methods also bridge to machine learning frameworks in R,
particularly the 'tidymodels' ecosystem, including 'parsnip' model
specifications, workflows, recipes, and tuning tools.
Author: Joshua Marie [aut, cre],
Antoine Soetewey [aut]
Maintainer: Joshua Marie <joshua.marie.k@gmail.com>
Diff between kindling versions 0.3.1 dated 2026-07-02 and 0.3.2 dated 2026-07-10
DESCRIPTION | 11 MD5 | 38 +- NEWS.md | 21 + R/act-fun.R | 69 ++- R/early_stop.R | 6 R/variable-imp.R | 2 README.md | 521 +---------------------------- inst/CITATION | 7 inst/doc/kindling.R | 136 ++++++- inst/doc/kindling.Rmd | 248 ++++++++++++- inst/doc/kindling.html | 288 +++++++++++++--- man/act_funs.Rd | 6 man/args.Rd | 4 man/early_stop.Rd | 4 man/figures/README-example-1.png |binary man/kindling.Rd | 2 tests/testthat/test-basemodel.R | 36 ++ tests/testthat/test-tune-workflows.R | 31 + tests/testthat/test-workflow-integration.R | 74 ++++ vignettes/kindling.Rmd | 248 ++++++++++++- 20 files changed, 1069 insertions(+), 683 deletions(-)
Title: Infer Cell-Cell Communication from Spatial Transcriptomics
Description: Identifies cell-cell communication hotspots in spatial
transcriptomics data using bivariate Local Moran's I statistics
on hexagonally binned cells. Provides functions for spatial
weighting, ligand-receptor pair filtering, hotspot detection,
and visualisation of sender-receiver cell-type interactions.
Author: Yunshun Chen [aut, cre],
Lei Qin [aut],
Lizhong Chen [aut]
Maintainer: Yunshun Chen <yuchen@wehi.edu.au>
Diff between blisa versions 0.2.0 dated 2026-06-02 and 1.0.0 dated 2026-07-10
blisa-0.2.0/blisa/inst/doc/getting-started.R |only blisa-1.0.0/blisa/DESCRIPTION | 14 - blisa-1.0.0/blisa/MD5 | 68 ++--- blisa-1.0.0/blisa/NAMESPACE | 1 blisa-1.0.0/blisa/NEWS.md |only blisa-1.0.0/blisa/R/blisa-class.R | 3 blisa-1.0.0/blisa/R/blisa.R | 143 ++++++++-- blisa-1.0.0/blisa/R/computeSpatialWeights.R | 16 + blisa-1.0.0/blisa/R/filterLRpairs.R | 33 +- blisa-1.0.0/blisa/R/hexBinCells.R | 54 +++- blisa-1.0.0/blisa/R/imports.R | 2 blisa-1.0.0/blisa/R/plotCCI.R | 60 +++- blisa-1.0.0/blisa/R/plotCCILR.R | 22 + blisa-1.0.0/blisa/R/plotCCIspatial.R | 36 ++ blisa-1.0.0/blisa/R/plotCCIsummary.R | 25 + blisa-1.0.0/blisa/R/plotHotspots.R | 29 +- blisa-1.0.0/blisa/R/plotLRrank.R | 31 +- blisa-1.0.0/blisa/R/runCCI.R | 22 + blisa-1.0.0/blisa/R/utils.R | 186 +++++++------ blisa-1.0.0/blisa/build/vignette.rds |binary blisa-1.0.0/blisa/inst/doc/getting-started.Rmd | 305 ++++++++++++++-------- blisa-1.0.0/blisa/inst/doc/getting-started.html | 324 ++++++++++++++---------- blisa-1.0.0/blisa/man/blisa-package.Rd | 21 + blisa-1.0.0/blisa/man/blisa.Rd | 62 ++++ blisa-1.0.0/blisa/man/computeSpatialWeights.Rd | 15 + blisa-1.0.0/blisa/man/filterLRpairs.Rd | 18 + blisa-1.0.0/blisa/man/hexBinCells.Rd | 33 ++ blisa-1.0.0/blisa/man/is.blisa.Rd | 4 blisa-1.0.0/blisa/man/plotCCI.Rd | 26 + blisa-1.0.0/blisa/man/plotCCILR.Rd | 17 + blisa-1.0.0/blisa/man/plotCCIspatial.Rd | 12 blisa-1.0.0/blisa/man/plotCCIsummary.Rd | 16 + blisa-1.0.0/blisa/man/plotHotspots.Rd | 8 blisa-1.0.0/blisa/man/plotLRrank.Rd | 8 blisa-1.0.0/blisa/man/runCCI.Rd | 19 + blisa-1.0.0/blisa/vignettes/getting-started.Rmd | 305 ++++++++++++++-------- 36 files changed, 1386 insertions(+), 552 deletions(-)
Title: Bayesian Estimation of Nonlinear Data (BEND)
Description: Provides a set of models to estimate nonlinear longitudinal data using Bayesian estimation methods. These models include the: 1) Bayesian Piecewise Random Effects Model (Bayes_PREM()) which estimates a piecewise random effects (mixture) model for a given number of latent classes and a latent number of possible changepoints in each class, and can incorporate class and outcome predictive covariates (see Lamm (2022) <https://hdl.handle.net/11299/252533> and Lock et al., (2018) <doi:10.1007/s11336-017-9594-5>), 2) Bayesian Crossed Random Effects Model (Bayes_CREM()) which estimates a linear, quadratic, exponential, or piecewise crossed random effects models where individuals are changing groups over time (e.g., students and schools; see Rohloff et al., (2024) <doi:10.1111/bmsp.12334>), and 3) Bayesian Bivariate Piecewise Random Effects Model (Bayes_BPREM()) which estimates a bivariate piecewise random effects model to jointly model two related outcomes (e.g., reading and [...truncated...]
Author: Corissa T. Rohloff [aut, cre] ,
Rik Lamm [aut] ,
Yadira Peralta [aut] ,
Nidhi Kohli [aut] ,
Eric F. Lock [aut]
Maintainer: Corissa T. Rohloff <corissa.wurth@gmail.com>
Diff between BEND versions 2.0.1 dated 2026-04-18 and 2.1.0 dated 2026-07-10
BEND-2.0.1/BEND/R/plot_BPREM.R |only BEND-2.0.1/BEND/R/plot_CREM.R |only BEND-2.0.1/BEND/R/plot_PREM.R |only BEND-2.0.1/BEND/R/print_BPREM.R |only BEND-2.0.1/BEND/R/print_CREM.R |only BEND-2.0.1/BEND/R/print_PREM.R |only BEND-2.0.1/BEND/R/summary_BPREM.R |only BEND-2.0.1/BEND/R/summary_CREM.R |only BEND-2.0.1/BEND/R/summary_PREM.R |only BEND-2.1.0/BEND/DESCRIPTION | 6 +- BEND-2.1.0/BEND/MD5 | 74 +++++++++++++++------------------ BEND-2.1.0/BEND/NAMESPACE | 19 +++----- BEND-2.1.0/BEND/NEWS.md | 6 ++ BEND-2.1.0/BEND/R/Bayes_BPREM.R | 13 ++++- BEND-2.1.0/BEND/R/Bayes_CREM.R | 13 ++++- BEND-2.1.0/BEND/R/Bayes_PREM.R | 13 ++++- BEND-2.1.0/BEND/R/getCoef.R | 24 ---------- BEND-2.1.0/BEND/R/getFitted.R | 24 ---------- BEND-2.1.0/BEND/R/getFixEf.R | 8 +-- BEND-2.1.0/BEND/R/getModelFit.R | 30 ++----------- BEND-2.1.0/BEND/R/getRanEf.R | 20 ++++++++ BEND-2.1.0/BEND/R/getVarCov.R | 10 ++-- BEND-2.1.0/BEND/R/plot.R |only BEND-2.1.0/BEND/R/plot_BEND.R | 4 - BEND-2.1.0/BEND/R/print.R |only BEND-2.1.0/BEND/R/summary.R |only BEND-2.1.0/BEND/data/results_bprem.rda |binary BEND-2.1.0/BEND/data/results_pcrem.rda |binary BEND-2.1.0/BEND/data/results_prem.rda |binary BEND-2.1.0/BEND/man/getCoef.Rd | 10 ---- BEND-2.1.0/BEND/man/getFitted.Rd | 10 ---- BEND-2.1.0/BEND/man/getFixEf.Rd | 4 - BEND-2.1.0/BEND/man/getModelFit.Rd | 14 +----- BEND-2.1.0/BEND/man/getRanEf.Rd | 7 ++- BEND-2.1.0/BEND/man/plot.BPREM.Rd | 2 BEND-2.1.0/BEND/man/plot.CREM.Rd | 2 BEND-2.1.0/BEND/man/plot.PREM.Rd | 2 BEND-2.1.0/BEND/man/plot_BEND.Rd | 2 BEND-2.1.0/BEND/man/print.BPREM.Rd | 2 BEND-2.1.0/BEND/man/print.CREM.Rd | 2 BEND-2.1.0/BEND/man/print.PREM.Rd | 2 BEND-2.1.0/BEND/man/summary.BPREM.Rd | 2 BEND-2.1.0/BEND/man/summary.CREM.Rd | 2 BEND-2.1.0/BEND/man/summary.PREM.Rd | 2 44 files changed, 145 insertions(+), 184 deletions(-)
Title: Interface Functions for PMML Creation, and Data Recoding
Description: Contains functions to interface with variables and variable details sheets, including recoding variables and converting them to PMML.
Author: Yulric Sequeira [aut, cre],
Luke Bailey [aut],
Rostyslav Vyuha [aut],
The Ottawa Hospital [cph],
Doug Manuel [cph]
Maintainer: Yulric Sequeira <ysequeira@ohri.ca>
Diff between recodeflow versions 0.1.0 dated 2021-06-09 and 0.1.0.1 dated 2026-07-09
DESCRIPTION | 18 +++++++++--------- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ R/recode-with-table.R | 2 +- R/utils.R | 4 ++-- README.md | 2 +- man/rec_with_table.Rd | 2 +- 7 files changed, 27 insertions(+), 20 deletions(-)
Title: Horn's Test of Principal Components/Factors
Description: An implementation of Horn's technique for numerically and graphically evaluating the components or factors retained in a principle components analysis (PCA) or common factor analysis (FA). Horn's method contrasts eigenvalues produced through a PCA or FA on a number of random data sets of uncorrelated variables with the same number of variables and observations as the experimental or observational data set to produce eigenvalues for components or factors that are adjusted for the sample error-induced inflation. Components with adjusted eigenvalues greater than one are retained. paran may also be used to conduct parallel analysis following Glorfeld's (1995) suggestions to reduce the likelihood of over-retention.
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between paran versions 1.5.5 dated 2026-02-13 and 1.5.6 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/paran.R | 15 +++++++++++++-- build/partial.rdb |binary 4 files changed, 20 insertions(+), 9 deletions(-)
Title: Multiblock Data Fusion in Statistics and Machine Learning
Description: Functions and datasets to support Smilde, Næs and Liland (2021, ISBN: 978-1-119-60096-1)
"Multiblock Data Fusion in Statistics and Machine Learning - Applications in the Natural and Life Sciences".
This implements and imports a large collection of methods for multiblock data analysis with common interfaces, result- and plotting
functions, several real data sets and six vignettes covering a range different applications.
Author: Kristian Hovde Liland [aut, cre] ,
Solve Saeboe [ctb],
Stefan Schrunner [rev]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between multiblock versions 0.8.10 dated 2025-04-01 and 0.8.11 dated 2026-07-09
DESCRIPTION | 14 +++++----- MD5 | 35 +++++++++++++++----------- NAMESPACE | 3 ++ NEWS | 8 ++++++ R/datasets.R | 22 ++++++++++++++++ R/path_effects.R |only R/sopls.R | 11 ++++---- R/sopls_crossvalidation.R | 25 ++++++++++-------- build/vignette.rds |binary data/datalist |only data/emulsions.rda |only data/mobile.rda |binary inst/doc/vignette_A_data.html | 30 ++++++++++++---------- inst/doc/vignette_B_basic.html | 9 +++--- inst/doc/vignette_C_unsupervised.html | 11 ++++---- inst/doc/vignette_D_asca.html | 11 ++++---- inst/doc/vignette_E_supervised.html | 45 +++++++++++++++++----------------- inst/doc/vignette_F_complex.html | 7 +++-- man/emulsions.Rd |only man/path_effects.Rd |only man/plot.path_effects.Rd |only man/print.path_effects.Rd |only 22 files changed, 142 insertions(+), 89 deletions(-)
Title: Calculate Genetic Interactions for Paired CRISPR Targets
Description: Helps find meaningful patterns in complex genetic experiments. First gimap takes data from paired CRISPR (Clustered regularly interspaced short palindromic repeats) screens that has been pre-processed to counts table of paired gRNA (guide Ribonucleic Acid) reads. The input data will have cell counts for how well cells grow (or don't grow) when different genes or pairs of genes are disabled. The output of the 'gimap' package is genetic interaction scores which are the distance between the observed CRISPR score and the expected CRISPR score. The expected CRISPR scores are what we expect for the CRISPR values to be for two unrelated genes. The further away an observed CRISPR score is from its expected score the more we suspect genetic interaction. The work in this package is based off of original research from the Alice Berger lab at Fred Hutchinson Cancer Center (2021) <doi:10.1016/j.celrep.2021.109597>.
Author: Candace Savonen [aut, cre] ,
Phoebe C.R. Parrish [aut] ,
Kathryn J. Isaac [aut] ,
Daniel Groso [aut],
Marissa Fujimoto [aut],
Siobhan O'Brien [aut] ,
Alice H. Berger [aut]
Maintainer: Candace Savonen <cansav09@gmail.com>
Diff between gimap versions 1.1.2 dated 2026-02-05 and 1.1.3 dated 2026-07-09
DESCRIPTION | 53 ++-- LICENSE |only MD5 | 74 +++-- NEWS.md | 5 R/01-qc.R | 10 R/03-annotate.R | 278 ++++++++++++++-------- R/04-normalize.R | 12 R/utils.R | 164 +++++++++--- README.md | 70 ++++- inst/CITATION |only inst/doc/quick-start.R | 11 inst/doc/quick-start.Rmd | 153 ++++++++++-- inst/doc/quick-start.html | 224 ++++++++++++++--- inst/doc/timepoint-example.R | 1 inst/doc/timepoint-example.Rmd | 1 inst/doc/timepoint-example.html | 46 +-- inst/doc/treatment_example.R | 1 inst/doc/treatment_example.Rmd | 1 inst/doc/treatment_example.html | 46 +-- inst/example_qc_report.Rmd | 1 inst/extdata/depmap_metadata_fixture.csv |only inst/extdata/gimapQCTemplate.Rmd | 1 man/cn_setup.Rd | 5 man/ctrl_genes.Rd | 5 man/delete_example_data.Rd | 20 + man/example_data_folder.Rd | 10 man/figshare_manual_download_message.Rd |only man/get_example_data.Rd | 19 - man/gimap_data_dir.Rd |only man/gimap_normalize.Rd | 3 man/normalize_depmap_metadata.Rd |only man/resolve_example_data_dir.Rd |only man/run_qc.Rd | 5 man/tpm_setup.Rd | 5 tests/testthat/helper-skip.R | 25 + tests/testthat/test-annotate.R | 9 tests/testthat/test-example-data-cache.R |only tests/testthat/test-run_qc.R | 6 vignettes/output_timepoints/example_qc_report.Rmd | 1 vignettes/quick-start.Rmd | 153 ++++++++++-- vignettes/timepoint-example.Rmd | 1 vignettes/treatment_example.Rmd | 1 42 files changed, 1020 insertions(+), 400 deletions(-)
Title: Generalized Boosted Regression Models
Description: An implementation of extensions to Freund and Schapire's AdaBoost
algorithm and Friedman's gradient boosting machine. Includes regression
methods for least squares, absolute loss, t-distribution loss, quantile
regression, logistic, multinomial logistic, Poisson, Cox proportional hazards
partial likelihood, AdaBoost exponential loss, Huberized hinge loss, and
Learning to Rank measures (LambdaMart). Originally developed by Greg Ridgeway.
Newer version available at <https://github.com/gbm-developers/gbm3>.
Author: Greg Ridgeway [aut, cre] ,
Daniel Edwards [ctb],
Brian Kriegler [ctb],
Stefan Schroedl [ctb],
Harry Southworth [ctb],
Brandon Greenwell [ctb] ,
Bradley Boehmke [ctb] ,
Jay Cunningham [ctb],
GBM Developers [aut]
Maintainer: Greg Ridgeway <gridge@upenn.edu>
Diff between gbm versions 2.3.0 dated 2026-07-08 and 2.3.1 dated 2026-07-09
DESCRIPTION | 6 ++-- MD5 | 12 ++++---- NEWS.md | 73 +++++++++++++++++++++++++++++++++++++++++++++------ README.md | 33 +++++++++++------------ src/node.cpp | 1 src/node_factory.cpp | 1 src/tree.cpp | 1 7 files changed, 94 insertions(+), 33 deletions(-)
Title: Extended Dynamic Quantile Linear Models
Description: Bayesian quantile-regression routines for dynamic state-space
models and static regression under the extended asymmetric Laplace
(exAL) error distribution. The dynamic state-space models are extended
dynamic quantile linear models (exDQLMs). The package combines dynamic
exDQLM inference via Laplace-delta variational Bayes (LDVB), Markov
chain Monte Carlo (MCMC), and legacy importance-sampling variational Bayes
(ISVB) with static exAL regression via LDVB and MCMC, reduced asymmetric
Laplace/dynamic quantile linear model (AL/DQLM) paths through fixed
skewness, component builders for trend/seasonality/regression blocks,
static shrinkage priors including ridge, regularized horseshoe, and
'rhs_ns', evidence lower bound (ELBO) diagnostics, optional C++
accelerators, and posterior predictive synthesis across separately fitted
quantiles through 'quantileSynthesis()'. Dynamic exDQLM methods are
described in Barata et al. (2020) <doi:10.1214/21-AOAS1497>.
Author: Raquel Barata [aut, cre],
Raquel Prado [ths],
Bruno Sanso [ths],
Antonio Aguirre [aut]
Maintainer: Raquel Barata <raquel.a.barata@gmail.com>
Diff between exdqlm versions 1.0.0 dated 2026-06-04 and 1.1.0 dated 2026-07-09
DESCRIPTION | 20 MD5 | 190 ++-- NAMESPACE | 13 NEWS.md | 32 R/compPlot.R | 4 R/exalStaticDiagnostic_methods.R |only R/exalStaticDiagnostics.R | 359 ------- R/exalStaticFit_methods.R |only R/exalStaticLDVB.R | 7 R/exalStaticMCMC.R | 7 R/exdqlm-package.R | 55 + R/exdqlmDiagnostic_methods.R |only R/exdqlmDiagnostics.R | 40 R/exdqlmFit_methods.R |only R/exdqlmForecast.R | 26 R/exdqlmForecastDiagnostic_methods.R |only R/exdqlmForecastDiagnostics.R | 59 - R/exdqlmForecast_methods.R |only R/exdqlmISVB.R | 7 R/exdqlmLDVB.R | 7 R/exdqlmMCMC.R | 5 R/exdqlmPlot.R | 9 R/exdqlmSynthesis_methods.R |only R/exdqlmTransferISVB.R | 3 R/exdqlm_methods.R |only R/generics_etc.R | 1227 --------------------------- R/quantileSynthesis.R | 6 README.md | 118 +- man/as.exdqlm.Rd | 2 man/compPlot.Rd | 5 man/diagnostics.Rd |only man/diagnostics.exalStaticFit.Rd |only man/diagnostics.exdqlmFit.Rd |only man/diagnostics.exdqlmForecast.Rd |only man/exalStaticDiagnostics.Rd | 23 man/exalStaticLDVB.Rd | 3 man/exalStaticMCMC.Rd | 3 man/exdqlm-package.Rd | 59 + man/exdqlmDiagnostics.Rd | 30 man/exdqlmForecast.Rd | 19 man/exdqlmForecastDiagnostics.Rd | 3 man/exdqlmISVB.Rd | 3 man/exdqlmLDVB.Rd | 3 man/exdqlmMCMC.Rd | 3 man/exdqlmPlot.Rd | 5 man/exdqlmTransferISVB.Rd | 3 man/exdqlmTransferLDVB.Rd | 3 man/exdqlmTransferMCMC.Rd | 3 man/is.exalStaticDiagnostic.Rd | 2 man/is.exalStaticFit.Rd |only man/is.exalStaticLDVB.Rd | 2 man/is.exalStaticMCMC.Rd | 2 man/is.exdqlm.Rd | 2 man/is.exdqlmDiagnostic.Rd | 2 man/is.exdqlmFit.Rd |only man/is.exdqlmForecast.Rd | 2 man/is.exdqlmForecastDiagnostic.Rd | 2 man/is.exdqlmISVB.Rd | 2 man/is.exdqlmLDVB.Rd | 2 man/is.exdqlmMCMC.Rd | 2 man/is.exdqlmSynthesis.Rd | 2 man/plot.exalStaticDiagnostic.Rd | 9 man/plot.exalStaticFit.Rd |only man/plot.exalStaticLDVB.Rd | 2 man/plot.exalStaticMCMC.Rd | 7 man/plot.exdqlmDiagnostic.Rd | 15 man/plot.exdqlmFit.Rd |only man/plot.exdqlmForecast.Rd | 13 man/plot.exdqlmISVB.Rd | 9 man/plot.exdqlmLDVB.Rd | 9 man/plot.exdqlmMCMC.Rd | 9 man/plot.exdqlmSynthesis.Rd | 2 man/plus-exdqlm.Rd | 2 man/predict.exdqlmFit.Rd |only man/print.exalStaticDiagnostic.Rd | 2 man/print.exalStaticFit.Rd |only man/print.exalStaticLDVB.Rd | 2 man/print.exalStaticMCMC.Rd | 2 man/print.exdqlm.Rd | 2 man/print.exdqlmDiagnostic.Rd | 4 man/print.exdqlmFit.Rd |only man/print.exdqlmForecast.Rd | 4 man/print.exdqlmForecastDiagnostic.Rd | 2 man/print.exdqlmISVB.Rd | 2 man/print.exdqlmLDVB.Rd | 2 man/print.exdqlmMCMC.Rd | 2 man/print.exdqlmSynthesis.Rd | 2 man/quantileSynthesis.Rd | 6 man/summary.exalStaticDiagnostic.Rd | 2 man/summary.exalStaticFit.Rd |only man/summary.exalStaticLDVB.Rd | 2 man/summary.exalStaticMCMC.Rd | 2 man/summary.exdqlm.Rd | 2 man/summary.exdqlmDiagnostic.Rd | 4 man/summary.exdqlmFit.Rd |only man/summary.exdqlmForecast.Rd | 4 man/summary.exdqlmForecastDiagnostic.Rd | 2 man/summary.exdqlmISVB.Rd | 2 man/summary.exdqlmLDVB.Rd | 2 man/summary.exdqlmMCMC.Rd | 2 man/summary.exdqlmSynthesis.Rd | 2 tests/testthat/test-dqlm-reduced-paths.R | 29 tests/testthat/test-exdqlm-transfer-mcmc.R | 2 tests/testthat/test-fit-class-families.R |only tests/testthat/test-forecast-diagnostics.R | 6 tests/testthat/test-print-summary-methods.R |only tests/testthat/test-s3-method-registration.R |only tests/testthat/test-static-class-generics.R | 12 108 files changed, 680 insertions(+), 1890 deletions(-)
Title: A Computational Tool for Aerobiological Data
Description: Different tools for managing databases of airborne particles, elaborating the main calculations and visualization of results. In a first step, data are checked using tools for quality control and all missing gaps are completed. Then, the main parameters of the pollen season are calculated and represented graphically. Multiple graphical tools are available: pollen calendars, phenological plots, time series, tendencies, interactive plots, abundance plots...
Author: Jesus Rojo [aut],
Antonio Picornell [aut],
Jose Oteros [aut, cre]
Maintainer: Jose Oteros <OterosJose@gmail.com>
Diff between AeRobiology versions 2.0.3 dated 2026-07-09 and 2.0.4 dated 2026-07-09
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 5 +++++ R/POMO_pollen.R | 6 +++--- R/munich_pollen.R | 4 ++-- inst/doc/my-vignette.Rmd | 2 +- inst/doc/my-vignette.html | 2 +- man/POMO_pollen.Rd | 9 ++++----- man/munich_pollen.Rd | 6 +++--- vignettes/my-vignette.Rmd | 2 +- 10 files changed, 32 insertions(+), 28 deletions(-)
Title: Methods for Analyzing Quality Measure Performance
Description: Quality of care is compared across accountable entities, including hospitals, provider groups, and insurance plans, using standardized quality measures. However, observed variations in quality measure performance might be the result of chance sampling or measurement errors. Contains functions for estimating the reliability of unadjusted and risk-standardized quality measures.
Author: Kenneth Nieser [aut, cre, cph]
Maintainer: Kenneth Nieser <nieser@stanford.edu>
Diff between QualityMeasure versions 2.0.1 dated 2025-10-16 and 2.0.2 dated 2026-07-09
DESCRIPTION | 10 MD5 | 26 - NEWS.md | 12 R/calcPerformance.R | 655 ++++++++++++++------------- R/plotCalibration.R | 7 R/plotEstimates.R | 9 R/plotN.R | 4 R/plotPerformance.R | 18 R/plotReliability.R | 3 README.md | 53 +- build/vignette.rds |binary inst/doc/Colonoscopy_Measure_Example.html | 9 inst/doc/Psych_Readmission_Rate_Example.html | 7 inst/doc/Tutorial.html | 31 - 14 files changed, 475 insertions(+), 369 deletions(-)
More information about QualityMeasure at CRAN
Permanent link
Title: Generate PMML for Various Models
Description: The Predictive Model Markup Language (PMML) is an XML-based language which provides a way for applications to define machine learning, statistical and data mining models and to share models between PMML compliant applications. More information about the PMML industry standard and the Data Mining Group can be found at <https://dmg.org/>. The generated PMML can be imported into any PMML consuming application, such as Zementis Predictive Analytics products.
Author: Michael Hahsler [aut, cre],
Bruno Rodrigues [aut],
Dmitriy Bolotov [aut],
Tridivesh Jena [aut],
Graham Williams [aut],
Wen-Ching Lin [aut],
Hemant Ishwaran [aut],
Udaya B. Kogalur [aut],
Rajarshi Guha [aut],
Software AG [cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between pmml versions 2.6.0 dated 2026-03-26 and 2.6.1 dated 2026-07-09
pmml-2.6.0/pmml/R/pmml.neighbr.R |only pmml-2.6.0/pmml/man/pmml.neighbr.Rd |only pmml-2.6.0/pmml/tests/testthat/test_pmml.neighbr.R |only pmml-2.6.1/pmml/DESCRIPTION | 16 - pmml-2.6.1/pmml/MD5 | 159 +++++++--------- pmml-2.6.1/pmml/NAMESPACE | 2 pmml-2.6.1/pmml/NEWS.md | 8 pmml-2.6.1/pmml/R/add_attributes.R | 4 pmml-2.6.1/pmml/R/add_data_field_attributes.R | 4 pmml-2.6.1/pmml/R/add_data_field_children.R | 4 pmml-2.6.1/pmml/R/add_mining_field_attributes.R | 4 pmml-2.6.1/pmml/R/data-audit.R | 4 pmml-2.6.1/pmml/R/data-houseVotes84.R | 4 pmml-2.6.1/pmml/R/file_to_xml_node.R | 4 pmml-2.6.1/pmml/R/make_intervals.R | 2 pmml-2.6.1/pmml/R/make_output_nodes.R | 8 pmml-2.6.1/pmml/R/make_values.R | 4 pmml-2.6.1/pmml/R/pmml-package.R | 32 +-- pmml-2.6.1/pmml/R/pmml.ARIMA.R | 10 - pmml-2.6.1/pmml/R/pmml.R | 38 +-- pmml-2.6.1/pmml/R/pmml.ada.R | 4 pmml-2.6.1/pmml/R/pmml.coxph.R | 6 pmml-2.6.1/pmml/R/pmml.cv.glmnet.R | 10 - pmml-2.6.1/pmml/R/pmml.gbm.R | 6 pmml-2.6.1/pmml/R/pmml.glm.R | 2 pmml-2.6.1/pmml/R/pmml.hclust.R | 12 - pmml-2.6.1/pmml/R/pmml.iForest.R | 12 - pmml-2.6.1/pmml/R/pmml.kmeans.R | 8 pmml-2.6.1/pmml/R/pmml.ksvm.R | 6 pmml-2.6.1/pmml/R/pmml.lm.R | 4 pmml-2.6.1/pmml/R/pmml.multinom.R | 6 pmml-2.6.1/pmml/R/pmml.naiveBayes.R | 6 pmml-2.6.1/pmml/R/pmml.nnet.R | 4 pmml-2.6.1/pmml/R/pmml.randomForest.R | 4 pmml-2.6.1/pmml/R/pmml.rpart.R | 4 pmml-2.6.1/pmml/R/pmml.rules.R | 3 pmml-2.6.1/pmml/R/pmml.svm.R | 40 ++-- pmml-2.6.1/pmml/R/pmml.xgb.Booster.R | 18 - pmml-2.6.1/pmml/R/rename_wrap_var.R | 12 - pmml-2.6.1/pmml/R/xform_discretize.R | 24 +- pmml-2.6.1/pmml/R/xform_function.R | 20 +- pmml-2.6.1/pmml/R/xform_map.R | 18 - pmml-2.6.1/pmml/R/xform_min_max.R | 26 +- pmml-2.6.1/pmml/R/xform_norm_discrete.R | 26 +- pmml-2.6.1/pmml/R/xform_wrap.R | 4 pmml-2.6.1/pmml/R/xform_z_score.R | 24 +- pmml-2.6.1/pmml/README.md | 61 ++++-- pmml-2.6.1/pmml/build/vignette.rds |binary pmml-2.6.1/pmml/man/add_output_field.Rd | 6 pmml-2.6.1/pmml/man/audit.Rd | 2 pmml-2.6.1/pmml/man/function_to_pmml.Rd | 8 pmml-2.6.1/pmml/man/houseVotes84.Rd | 3 pmml-2.6.1/pmml/man/make_intervals.Rd | 2 pmml-2.6.1/pmml/man/make_values.Rd | 4 pmml-2.6.1/pmml/man/pmml-package.Rd | 10 - pmml-2.6.1/pmml/man/pmml.ARIMA.Rd | 4 pmml-2.6.1/pmml/man/pmml.Rd | 16 - pmml-2.6.1/pmml/man/pmml.ada.Rd | 3 pmml-2.6.1/pmml/man/pmml.coxph.Rd | 3 pmml-2.6.1/pmml/man/pmml.cv.glmnet.Rd | 3 pmml-2.6.1/pmml/man/pmml.gbm.Rd | 3 pmml-2.6.1/pmml/man/pmml.iForest.Rd | 8 pmml-2.6.1/pmml/man/pmml.kmeans.Rd | 3 pmml-2.6.1/pmml/man/pmml.ksvm.Rd | 3 pmml-2.6.1/pmml/man/pmml.multinom.Rd | 3 pmml-2.6.1/pmml/man/pmml.nnet.Rd | 3 pmml-2.6.1/pmml/man/pmml.randomForest.Rd | 3 pmml-2.6.1/pmml/man/pmml.rpart.Rd | 3 pmml-2.6.1/pmml/man/pmml.rules.Rd | 3 pmml-2.6.1/pmml/man/pmml.svm.Rd | 15 - pmml-2.6.1/pmml/man/pmml.xgb.Booster.Rd | 2 pmml-2.6.1/pmml/man/rename_wrap_var.Rd | 12 - pmml-2.6.1/pmml/man/xform_discretize.Rd | 26 +- pmml-2.6.1/pmml/man/xform_function.Rd | 2 pmml-2.6.1/pmml/man/xform_map.Rd | 20 +- pmml-2.6.1/pmml/man/xform_min_max.Rd | 26 +- pmml-2.6.1/pmml/man/xform_norm_discrete.Rd | 28 +- pmml-2.6.1/pmml/man/xform_wrap.Rd | 4 pmml-2.6.1/pmml/man/xform_z_score.Rd | 22 +- pmml-2.6.1/pmml/tests/testthat/test_pmml.cv.glmnet.R | 5 pmml-2.6.1/pmml/tests/testthat/test_pmml.gbm.R | 3 pmml-2.6.1/pmml/tests/testthat/test_schema_validation.R | 6 82 files changed, 484 insertions(+), 460 deletions(-)
Title: Lightweight Toolkit for Messaging, Concurrency and the Web
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ.
A toolkit for messaging, concurrency and the web. High-performance
socket messaging over in-process, IPC, TCP, WebSocket and secure TLS
transports implements 'Scalability Protocols', a standard for common
communications patterns including publish/subscribe, request/reply and
survey. A threaded concurrency framework with intuitive 'aio' objects
that resolve automatically upon completion of asynchronous operations,
and synchronisation primitives that allow R to wait on events
signalled by concurrent threads. A unified HTTP server hosting REST
endpoints, WebSocket connections and streaming on a single port, with
a built-in HTTP client.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph],
Staysail Systems, Inc. [cph] ,
Capitar IT Group BV [cph] ,
The Mbed TLS Contributors [cph] ,
Pierre L'Ecuyer [cph] ,
sakura authors [cph] ,
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between nanonext versions 1.10.0 dated 2026-07-01 and 1.10.1 dated 2026-07-09
nanonext-1.10.0/nanonext/man/figures/logo.png |only nanonext-1.10.1/nanonext/DESCRIPTION | 6 nanonext-1.10.1/nanonext/MD5 | 39 +++-- nanonext-1.10.1/nanonext/NAMESPACE | 1 nanonext-1.10.1/nanonext/NEWS.md | 6 nanonext-1.10.1/nanonext/R/server.R | 26 +++ nanonext-1.10.1/nanonext/README.md | 4 nanonext-1.10.1/nanonext/build/vignette.rds |binary nanonext-1.10.1/nanonext/inst/doc/nanonext.html | 2 nanonext-1.10.1/nanonext/inst/doc/v01-messaging.html | 2 nanonext-1.10.1/nanonext/inst/doc/v02-protocols.html | 2 nanonext-1.10.1/nanonext/inst/doc/v03-configuration.html | 2 nanonext-1.10.1/nanonext/inst/doc/v04-web.Rmd | 36 ++--- nanonext-1.10.1/nanonext/inst/doc/v04-web.html | 38 ++--- nanonext-1.10.1/nanonext/man/figures/logo.svg |only nanonext-1.10.1/nanonext/man/http_server.Rd | 6 nanonext-1.10.1/nanonext/man/run_event_loop.Rd |only nanonext-1.10.1/nanonext/src/mbedtls/library/cipher.c | 3 nanonext-1.10.1/nanonext/src/mbedtls/library/md.c | 3 nanonext-1.10.1/nanonext/tests/tests.R | 100 +++++++-------- nanonext-1.10.1/nanonext/tools/patch_mbedtls.sh | 23 +++ nanonext-1.10.1/nanonext/vignettes/v04-web.Rmd | 36 ++--- 22 files changed, 192 insertions(+), 143 deletions(-)
Title: Conditional Formatting in Data Frames
Description: Apply and visualize conditional formatting to data frames in R.
It renders a data frame with cells formatted according to
criteria defined by rules, using a tidy evaluation syntax. The table is
printed either opening a web browser or within the 'RStudio' viewer if
available. The conditional formatting rules allow to highlight cells
matching a condition or add a gradient background to a given column. This
package supports both 'HTML' and 'LaTeX' outputs in 'knitr' reports, and
exporting to an 'xlsx' file.
Author: Sergio Oller Moreno [aut, cph, cre]
Maintainer: Sergio Oller Moreno <sergioller@gmail.com>
Diff between condformat versions 0.10.1 dated 2023-10-08 and 0.11.0 dated 2026-07-09
condformat-0.10.1/condformat/R/utils-pipe.R |only condformat-0.10.1/condformat/man/reexports.Rd |only condformat-0.11.0/condformat/DESCRIPTION | 28 - condformat-0.11.0/condformat/MD5 | 124 +++--- condformat-0.11.0/condformat/NAMESPACE | 3 condformat-0.11.0/condformat/NEWS.md | 101 +++++ condformat-0.11.0/condformat/R/condformat.R | 4 condformat-0.11.0/condformat/R/condformat_render.R | 5 condformat-0.11.0/condformat/R/render_gtable.R | 13 condformat-0.11.0/condformat/R/render_xlsx.R | 135 ++++++- condformat-0.11.0/condformat/R/rule_css.R | 26 - condformat-0.11.0/condformat/R/rule_fill_bar.R | 80 ++-- condformat-0.11.0/condformat/R/rule_fill_discrete.R | 76 ++-- condformat-0.11.0/condformat/R/rule_fill_gradient.R | 45 +- condformat-0.11.0/condformat/R/rule_fill_gradient2.R | 61 +-- condformat-0.11.0/condformat/R/rule_helper.R | 65 +++ condformat-0.11.0/condformat/R/rule_text_bold.R | 35 - condformat-0.11.0/condformat/R/rule_text_color.R | 34 - condformat-0.11.0/condformat/R/show_columns.R | 12 condformat-0.11.0/condformat/R/show_rows.R | 6 condformat-0.11.0/condformat/R/theme_caption.R | 2 condformat-0.11.0/condformat/R/theme_grob.R | 17 condformat-0.11.0/condformat/R/theme_htmlTable.R | 4 condformat-0.11.0/condformat/R/theme_htmlWidget.R | 2 condformat-0.11.0/condformat/R/theme_kable.R | 2 condformat-0.11.0/condformat/README.md | 40 +- condformat-0.11.0/condformat/build/vignette.rds |binary condformat-0.11.0/condformat/inst/doc/introduction.R | 21 - condformat-0.11.0/condformat/inst/doc/introduction.Rmd | 40 +- condformat-0.11.0/condformat/inst/doc/introduction.html | 42 +- condformat-0.11.0/condformat/inst/shinyexample/server.R | 12 condformat-0.11.0/condformat/inst/shinyexample/ui.R | 6 condformat-0.11.0/condformat/man/condformat.Rd | 4 condformat-0.11.0/condformat/man/condformat2excel.Rd | 7 condformat-0.11.0/condformat/man/condformat2excelsheet.Rd |only condformat-0.11.0/condformat/man/condformat2grob.Rd | 14 condformat-0.11.0/condformat/man/figures/README-fig-example-1.png |binary condformat-0.11.0/condformat/man/rule_css.Rd | 21 - condformat-0.11.0/condformat/man/rule_fill_bar.Rd | 34 + condformat-0.11.0/condformat/man/rule_fill_discrete.Rd | 34 + condformat-0.11.0/condformat/man/rule_fill_gradient.Rd | 28 - condformat-0.11.0/condformat/man/rule_fill_gradient2.Rd | 28 - condformat-0.11.0/condformat/man/rule_text_bold.Rd | 21 - condformat-0.11.0/condformat/man/rule_text_color.Rd | 21 - condformat-0.11.0/condformat/man/show_columns.Rd | 12 condformat-0.11.0/condformat/man/show_rows.Rd | 6 condformat-0.11.0/condformat/man/theme_caption.Rd | 2 condformat-0.11.0/condformat/man/theme_grob.Rd | 17 condformat-0.11.0/condformat/man/theme_htmlTable.Rd | 2 condformat-0.11.0/condformat/man/theme_htmlWidget.Rd | 2 condformat-0.11.0/condformat/man/theme_kable.Rd | 2 condformat-0.11.0/condformat/tests/testthat/test-print-condformat.R | 37 + condformat-0.11.0/condformat/tests/testthat/test-render-excel.R | 170 +++++++++ condformat-0.11.0/condformat/tests/testthat/test-render-gtable.R | 41 ++ condformat-0.11.0/condformat/tests/testthat/test-rule-css.R | 23 + condformat-0.11.0/condformat/tests/testthat/test-rule-fill-bar.R | 186 +++++++++- condformat-0.11.0/condformat/tests/testthat/test-rule-fill-discrete.R | 77 +++- condformat-0.11.0/condformat/tests/testthat/test-rule-fill-gradient.R | 34 + condformat-0.11.0/condformat/tests/testthat/test-rule-text-bold.R | 39 +- condformat-0.11.0/condformat/tests/testthat/test-rule-text-color.R | 43 ++ condformat-0.11.0/condformat/tests/testthat/test-show-columns-and-rows.R | 10 condformat-0.11.0/condformat/tests/testthat/test-suggested-package-guards.R |only condformat-0.11.0/condformat/tests/testthat/test-theme-caption.R |only condformat-0.11.0/condformat/tests/testthat/test-theme-grob.R |only condformat-0.11.0/condformat/tests/testthat/test-theme-htmlTable.R | 15 condformat-0.11.0/condformat/vignettes/introduction.Rmd | 40 +- 66 files changed, 1525 insertions(+), 486 deletions(-)
Title: Optimal Density Estimation via Shimazaki-Shinomoto Method
Description: Implements the Shimazaki-Shinomoto method for optimizing the
bin width of histograms and the bandwidth of kernel density estimators.
The framework minimizes the expected Mean Integrated Squared Error (MISE)
and supports both 1D and 2D distributions, fixed and locally adaptive
estimators, bootstrap confidence intervals, and 'OpenMP'-accelerated 'C++' 'backends'. Ideally suited for time-dependent rate estimation and
identifying intrinsic data structures. For more details see Shimazaki and
Shinomoto (2007) <doi:10.1162/neco.2007.19.6.1503> and Shimazaki and
Shinomoto (2010) <doi:10.1007/s10827-009-0180-4>.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between sshist versions 0.1.3 dated 2026-03-04 and 0.2.2 dated 2026-07-09
sshist-0.1.3/sshist/man/figures |only sshist-0.2.2/sshist/DESCRIPTION | 32 - sshist-0.2.2/sshist/MD5 | 73 +- sshist-0.2.2/sshist/NAMESPACE | 23 sshist-0.2.2/sshist/NEWS.md | 45 + sshist-0.2.2/sshist/R/RcppExports.R | 20 sshist-0.2.2/sshist/R/common.R |only sshist-0.2.2/sshist/R/imports.R |only sshist-0.2.2/sshist/R/sshist-package.R |only sshist-0.2.2/sshist/R/sshist.R | 509 ++++++++-------- sshist-0.2.2/sshist/R/sskernel.R |only sshist-0.2.2/sshist/R/ssvkernel.R |only sshist-0.2.2/sshist/README.md | 171 +---- sshist-0.2.2/sshist/build/partial.rdb |only sshist-0.2.2/sshist/build/vignette.rds |binary sshist-0.2.2/sshist/inst/WORDLIST |only sshist-0.2.2/sshist/inst/doc/ggplot2_visualization.R |only sshist-0.2.2/sshist/inst/doc/ggplot2_visualization.Rmd |only sshist-0.2.2/sshist/inst/doc/ggplot2_visualization.html |only sshist-0.2.2/sshist/inst/doc/introduction.R | 92 ++ sshist-0.2.2/sshist/inst/doc/introduction.Rmd | 214 +++++- sshist-0.2.2/sshist/inst/doc/introduction.html | 403 ++++++++++-- sshist-0.2.2/sshist/man/plot.sshist.Rd | 10 sshist-0.2.2/sshist/man/plot.sshist_2d.Rd | 11 sshist-0.2.2/sshist/man/plot.sskernel.Rd |only sshist-0.2.2/sshist/man/plot.sskernel2d.Rd |only sshist-0.2.2/sshist/man/plot.ssvkernel.Rd |only sshist-0.2.2/sshist/man/plot.ssvkernel2d.Rd |only sshist-0.2.2/sshist/man/print.sshist.Rd | 9 sshist-0.2.2/sshist/man/print.sskernel.Rd |only sshist-0.2.2/sshist/man/print.sskernel2d.Rd |only sshist-0.2.2/sshist/man/print.ssvkernel.Rd |only sshist-0.2.2/sshist/man/print.ssvkernel2d.Rd |only sshist-0.2.2/sshist/man/sshist-package.Rd |only sshist-0.2.2/sshist/man/sshist.Rd | 56 - sshist-0.2.2/sshist/man/sshist_2d.Rd | 42 - sshist-0.2.2/sshist/man/sskernel.Rd |only sshist-0.2.2/sshist/man/sskernel2d.Rd |only sshist-0.2.2/sshist/man/ssvkernel.Rd |only sshist-0.2.2/sshist/man/ssvkernel2d.Rd |only sshist-0.2.2/sshist/src/RcppExports.cpp | 72 ++ sshist-0.2.2/sshist/src/sshist_algo.cpp | 184 +++++ sshist-0.2.2/sshist/tests/testthat.R |only sshist-0.2.2/sshist/tests/testthat/oldfaithful.txt |only sshist-0.2.2/sshist/tests/testthat/test-sshist.R | 115 ++- sshist-0.2.2/sshist/tests/testthat/test-sshist_2d.R | 130 ++-- sshist-0.2.2/sshist/tests/testthat/test-sskernel.R |only sshist-0.2.2/sshist/tests/testthat/test-sskernel_2d.R |only sshist-0.2.2/sshist/tests/testthat/test-ssvkernel.R |only sshist-0.2.2/sshist/tests/testthat/test-ssvkernel_2d.R |only sshist-0.2.2/sshist/vignettes/ggplot2_visualization.Rmd |only sshist-0.2.2/sshist/vignettes/introduction.Rmd | 214 +++++- 52 files changed, 1684 insertions(+), 741 deletions(-)
Title: Multilevel Analysis of Individual Heterogeneity and
Discriminatory Accuracy
Description: Tools for Multilevel Analysis of Individual Heterogeneity and
Discriminatory Accuracy (MAIHDA) for intersectional inequality research.
Methods are described in Merlo (2018) <doi:10.1016/j.socscimed.2017.12.026>
and Evans et al. (2018) <doi:10.1016/j.socscimed.2017.11.011>. The package
creates intersectional strata, fits multilevel MAIHDA models, estimates
variance partition coefficients, proportional change in variance, stratum
effects, and discriminatory-accuracy summaries, and provides diagnostic and
presentation plots.
Author: Hamid Bulut [aut, cre]
Maintainer: Hamid Bulut <me@hamidbulut.com>
Diff between MAIHDA versions 0.2.0 dated 2026-07-02 and 0.2.1 dated 2026-07-09
MAIHDA-0.2.0/MAIHDA/R/calculate_pvc.R |only MAIHDA-0.2.0/MAIHDA/man/bootstrap_pvc.Rd |only MAIHDA-0.2.0/MAIHDA/man/print.pvc_result.Rd |only MAIHDA-0.2.0/MAIHDA/tests/testthat/test-calculate_pvc.R |only MAIHDA-0.2.1/MAIHDA/DESCRIPTION | 6 MAIHDA-0.2.1/MAIHDA/MD5 | 197 MAIHDA-0.2.1/MAIHDA/NAMESPACE | 2 MAIHDA-0.2.1/MAIHDA/NEWS.md | 79 MAIHDA-0.2.1/MAIHDA/R/app_modules.R | 46 MAIHDA-0.2.1/MAIHDA/R/calculate_pcv.R |only MAIHDA-0.2.1/MAIHDA/R/compare_maihda.R | 220 MAIHDA-0.2.1/MAIHDA/R/decompose_maihda.R | 54 MAIHDA-0.2.1/MAIHDA/R/fit_maihda.R | 72 MAIHDA-0.2.1/MAIHDA/R/information_criteria.R | 2 MAIHDA-0.2.1/MAIHDA/R/interactions.R | 2 MAIHDA-0.2.1/MAIHDA/R/longitudinal.R | 424 - MAIHDA-0.2.1/MAIHDA/R/maihda_table.R | 19 MAIHDA-0.2.1/MAIHDA/R/maihda_workflow.R | 249 MAIHDA-0.2.1/MAIHDA/R/make_strata.R | 23 MAIHDA-0.2.1/MAIHDA/R/plot_maihda.R | 3765 +++++----- MAIHDA-0.2.1/MAIHDA/R/plot_prediction_deviation_panels.R | 2 MAIHDA-0.2.1/MAIHDA/R/predict_maihda.R | 21 MAIHDA-0.2.1/MAIHDA/R/run_app.R | 41 MAIHDA-0.2.1/MAIHDA/R/summary_maihda.R | 23 MAIHDA-0.2.1/MAIHDA/R/tidiers.R | 2 MAIHDA-0.2.1/MAIHDA/R/utils_maihda.R | 325 MAIHDA-0.2.1/MAIHDA/README.md | 10 MAIHDA-0.2.1/MAIHDA/data/maihda_country_data.rda |binary MAIHDA-0.2.1/MAIHDA/inst/doc/bayesian_sparse_maihda.html | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/binary_outcomes.R | 2 MAIHDA-0.2.1/MAIHDA/inst/doc/binary_outcomes.Rmd | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/binary_outcomes.html | 12 MAIHDA-0.2.1/MAIHDA/inst/doc/case_study_brfss.html | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/cross_classified.html | 10 MAIHDA-0.2.1/MAIHDA/inst/doc/finding_interactions.html | 8 MAIHDA-0.2.1/MAIHDA/inst/doc/group_comparison.Rmd | 15 MAIHDA-0.2.1/MAIHDA/inst/doc/group_comparison.html | 21 MAIHDA-0.2.1/MAIHDA/inst/doc/interactive_app.html | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/interpreting_plots.R | 5 MAIHDA-0.2.1/MAIHDA/inst/doc/interpreting_plots.Rmd | 17 MAIHDA-0.2.1/MAIHDA/inst/doc/interpreting_plots.html | 38 MAIHDA-0.2.1/MAIHDA/inst/doc/introduction.R | 4 MAIHDA-0.2.1/MAIHDA/inst/doc/introduction.Rmd | 8 MAIHDA-0.2.1/MAIHDA/inst/doc/introduction.html | 24 MAIHDA-0.2.1/MAIHDA/inst/doc/longitudinal.Rmd | 18 MAIHDA-0.2.1/MAIHDA/inst/doc/longitudinal.html | 31 MAIHDA-0.2.1/MAIHDA/inst/doc/planning_a_study.Rmd | 7 MAIHDA-0.2.1/MAIHDA/inst/doc/planning_a_study.html | 13 MAIHDA-0.2.1/MAIHDA/inst/doc/reporting_results.Rmd | 7 MAIHDA-0.2.1/MAIHDA/inst/doc/reporting_results.html | 14 MAIHDA-0.2.1/MAIHDA/inst/shiny/app.R | 40 MAIHDA-0.2.1/MAIHDA/man/MAIHDA-package.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/bootstrap_pcv.Rd |only MAIHDA-0.2.1/MAIHDA/man/calculate_pcv.Rd |only MAIHDA-0.2.1/MAIHDA/man/calculate_pvc.Rd | 75 MAIHDA-0.2.1/MAIHDA/man/compare_maihda_groups.Rd | 39 MAIHDA-0.2.1/MAIHDA/man/extract_between_variance.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/fit_maihda.Rd | 15 MAIHDA-0.2.1/MAIHDA/man/maihda.Rd | 46 MAIHDA-0.2.1/MAIHDA/man/maihda_ic.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/maihda_interactions.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_adjusted_formula.Rd | 5 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_formula.Rd | 22 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_pcv.Rd | 22 MAIHDA-0.2.1/MAIHDA/man/maihda_longitudinal_strata_predictions.Rd | 15 MAIHDA-0.2.1/MAIHDA/man/maihda_table.Rd | 4 MAIHDA-0.2.1/MAIHDA/man/maihda_validate_longitudinal.Rd | 7 MAIHDA-0.2.1/MAIHDA/man/maihda_warn_linear_strata_dims.Rd |only MAIHDA-0.2.1/MAIHDA/man/make_strata.Rd | 8 MAIHDA-0.2.1/MAIHDA/man/plot.maihda_analysis.Rd | 33 MAIHDA-0.2.1/MAIHDA/man/plot.maihda_group_comparison.Rd | 3 MAIHDA-0.2.1/MAIHDA/man/plot.maihda_model.Rd | 23 MAIHDA-0.2.1/MAIHDA/man/plot_predicted_strata.Rd | 15 MAIHDA-0.2.1/MAIHDA/man/plot_upset_strata.Rd | 5 MAIHDA-0.2.1/MAIHDA/man/plot_vpc_change.Rd |only MAIHDA-0.2.1/MAIHDA/man/plot_vpc_trajectory_change.Rd |only MAIHDA-0.2.1/MAIHDA/man/print.maihda_stepwise.Rd | 2 MAIHDA-0.2.1/MAIHDA/man/print.pcv_result.Rd |only MAIHDA-0.2.1/MAIHDA/man/stepwise_pcv.Rd | 42 MAIHDA-0.2.1/MAIHDA/man/summary.maihda_model.Rd | 23 MAIHDA-0.2.1/MAIHDA/tests/testthat/setup-seed.R |only MAIHDA-0.2.1/MAIHDA/tests/testthat/test-calculate_pcv.R |only MAIHDA-0.2.1/MAIHDA/tests/testthat/test-compare_maihda_groups.R | 4 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-contextual.R | 277 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-correctness-regressions.R | 223 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-cross-classified.R | 41 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-design-weights.R | 20 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-health_data.R | 4 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-longitudinal.R | 315 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-maihda-workflow.R | 142 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-maihda_table.R | 2 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-make_strata.R | 27 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-negbinomial.R | 33 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-ordinal-engine.R | 36 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-plot_predicted.R | 121 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-run_app.R | 30 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-summary_variance.R | 54 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-tidiers.R | 2 MAIHDA-0.2.1/MAIHDA/tests/testthat/test-weighted-count-vpc.R | 24 MAIHDA-0.2.1/MAIHDA/vignettes/binary_outcomes.Rmd | 4 MAIHDA-0.2.1/MAIHDA/vignettes/group_comparison.Rmd | 15 MAIHDA-0.2.1/MAIHDA/vignettes/interpreting_plots.Rmd | 17 MAIHDA-0.2.1/MAIHDA/vignettes/introduction.Rmd | 8 MAIHDA-0.2.1/MAIHDA/vignettes/longitudinal.Rmd | 18 MAIHDA-0.2.1/MAIHDA/vignettes/planning_a_study.Rmd | 7 MAIHDA-0.2.1/MAIHDA/vignettes/reporting_results.Rmd | 7 106 files changed, 5122 insertions(+), 2615 deletions(-)
Title: Lightweight Tables via JSON Specs and JavaScript
Description: A lightweight grammar of tables. Build a table by declaring a JSON
spec (titles, spanners, row groups, footnotes, formatting functions, etc.); a tiny
vanilla JavaScript runtime builds the HTML table from the spec on page
load. No 'sass', no 'V8', no 'htmlwidgets' — just base R and 'xfun'
('htmltools' is used only for the optional Shiny binding).
Author: Yihui Xie [aut, cre, cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between lt versions 0.1 dated 2026-06-30 and 0.2 dated 2026-07-09
lt-0.1/lt/tests/test-ci/run-js.js |only lt-0.2/lt/DESCRIPTION | 14 - lt-0.2/lt/MD5 | 44 ++-- lt-0.2/lt/NAMESPACE | 2 lt-0.2/lt/NEWS.md | 6 lt-0.2/lt/R/lt.R | 21 ++ lt-0.2/lt/R/render.R | 326 +++++++++++++++++++++++++++++++++-- lt-0.2/lt/R/shiny.R | 2 lt-0.2/lt/R/tab.R | 47 ++++- lt-0.2/lt/README.md | 128 ++++++++++++- lt-0.2/lt/inst/js |only lt-0.2/lt/inst/www/lt.css | 24 +- lt-0.2/lt/inst/www/lt.js | 109 +++++++---- lt-0.2/lt/man/format.lt_tbl.Rd | 6 lt-0.2/lt/man/lt.Rd | 29 +++ lt-0.2/lt/man/lt_export.Rd |only lt-0.2/lt/man/lt_footnote.Rd | 3 lt-0.2/lt/man/lt_header.Rd | 6 lt-0.2/lt/man/lt_html.Rd |only lt-0.2/lt/man/lt_label.Rd | 5 lt-0.2/lt/man/lt_note.Rd | 4 lt-0.2/lt/man/lt_spanner.Rd | 2 lt-0.2/lt/tests/test-ci/test-js.R | 248 +++++++++++++++++++++++++- lt-0.2/lt/tests/testit/test-render.R | 24 ++ lt-0.2/lt/tests/testit/test-tab.R | 12 + 25 files changed, 946 insertions(+), 116 deletions(-)
Title: Cohort Analysis Made Easy
Description: Functions to simplify the process of preparing event and transaction for cohort analysis.
Author: Peer Christensen [aut, cre]
Maintainer: Peer Christensen <hr.pchristensen@gmail.com>
Diff between cohorts versions 1.0.1 dated 2022-05-15 and 1.3.0 dated 2026-07-09
DESCRIPTION | 10 ++--- MD5 | 30 +++++++++++----- NAMESPACE | 2 + NEWS.md | 14 +++++++ R/cohort_table_day.R | 21 +++++------ R/cohort_table_month.R | 26 +++++++------- R/cohort_table_pct.R | 24 +++++++------ R/cohort_table_week.R |only R/cohort_table_year.R |only R/cohorts.R |only R/shift_left.R | 17 +-------- R/shift_left_pct.R | 27 +++++---------- R/utils-cohort.R |only README.md | 55 +++++++++++++++---------------- man/cohort_table_week.Rd |only man/cohort_table_year.Rd |only man/figures/README-unnamed-chunk-6-1.png |binary tests |only 18 files changed, 116 insertions(+), 110 deletions(-)
Title: 'Public Trading API'
Description: The 'Public Trading API' <https://public.com/api/docs> allows clients to access their brokerage accounts, request market data, and place stock/etf/option orders.
Author: Jason Guevara [aut, cre]
Maintainer: Jason Guevara <Jason.guevara.yt@gmail.com>
Diff between rPublic versions 1.0.0 dated 2025-08-22 and 1.2.0 dated 2026-07-09
DESCRIPTION | 8 - MD5 | 14 +- NAMESPACE | 3 R/rPublic.R | 247 ++++++++++++++++++++++++++++++++++++- build/vignette.rds |binary man/rp_bars.Rd |only man/rp_fix_bars.Rd |only man/rp_getAcctsPort.Rd | 2 man/rp_hist_bars.Rd |only tests/testthat/test-test-orderID.R |only 10 files changed, 261 insertions(+), 13 deletions(-)
Title: Partial Eta-Squared for Crossed, Nested, and Mixed Linear Mixed
Models
Description: Computes partial eta-squared effect sizes for fixed effects in
linear mixed models fitted with the 'lme4' package. Supports crossed,
nested, and mixed (crossed-and-nested) random effects structures with any
number of grouping factors. Mixed designs handle cases where grouping
factors are simultaneously crossed with some variables and nested within
others (e.g., photos nested within models, but both crossed with
participants). Factor predictors are supported directly, and a single
factor-level (omnibus) effect size can be obtained for a multi-level factor
or multi-df interaction. Random slope variances are translated to the
outcome scale using a variance decomposition approach, correctly accounting
for predictor scaling and interaction terms. Both general and operative
effect sizes are provided, with optional parametric bootstrap confidence
intervals. For correlated predictors, per-predictor effect sizes use unique
(semipartial) variance by default. Methods are based on Correll, Melling [...truncated...]
Author: Brandon Cohen [aut, cre] ,
Joshua Correll [aut, ths]
Maintainer: Brandon Cohen <brandon.cohen-1@colorado.edu>
Diff between pecanr versions 0.3.0 dated 2026-06-23 and 0.3.1 dated 2026-07-09
DESCRIPTION | 6 +- MD5 | 11 ++-- NEWS.md | 58 ++++++++++++++++++---- R/eta2p.R | 100 +++++++++++++++++++++++++++------------ README.md | 23 ++++++-- inst/WORDLIST | 1 tests/testthat/test-double-bar.R |only 7 files changed, 146 insertions(+), 53 deletions(-)
Title: Obtaining Open Data from Instituto Canario De Estadistica
(ISTAC) API
Description: You can access to open data published in Instituto Canario De Estadistica (ISTAC) APIs at <https://datos.canarias.es/api/estadisticas/>.
Author: Alberto Gonzalez [cph],
Elisa Jorge [aut, cre]
Maintainer: Elisa Jorge <ejorgon@gobiernodecanarias.org>
Diff between istacr versions 0.3.0 dated 2025-09-04 and 0.3.1 dated 2026-07-09
istacr-0.3.0/istacr/man/docs/istacr_0.3.0.pdf |only istacr-0.3.1/istacr/DESCRIPTION | 9 + istacr-0.3.1/istacr/MD5 | 14 +-- istacr-0.3.1/istacr/NAMESPACE | 1 istacr-0.3.1/istacr/R/services.R | 46 +++++++--- istacr-0.3.1/istacr/R/statistical-resources-cubes.R | 30 +++--- istacr-0.3.1/istacr/R/sysdata.rda |only istacr-0.3.1/istacr/man/change_api_url.Rd |only istacr-0.3.1/istacr/man/docs/istacr_0.3.1.pdf |only istacr-0.3.1/istacr/man/get_statisticalresources_datasets_agency_resource_version.Rd | 21 +++- 10 files changed, 78 insertions(+), 43 deletions(-)
Title: Forecast Reconciliation with Machine Learning
Description: Nonlinear forecast reconciliation with machine learning in
cross-sectional (Spiliotis et al. 2021 <doi:10.1016/j.asoc.2021.107756>),
temporal, and cross-temporal
(Rombouts et al. 2024 <doi:10.1016/j.ijforecast.2024.05.008>) frameworks.
Author: Daniele Girolimetto [aut, cre] ,
Yangzhuoran Fin Yang [aut] ,
Jeroen Rombouts [aut] ,
Ines Wilms [aut]
Maintainer: Daniele Girolimetto <daniele.girolimetto@unipd.it>
Diff between FoRecoML versions 1.1.0 dated 2026-06-23 and 1.1.1 dated 2026-07-09
DESCRIPTION | 6 - MD5 | 26 ++--- NAMESPACE | 3 NEWS.md | 7 + R/FoRecoML-package.R | 2 R/csrml.R | 62 ++++++++++---- R/ctrml.R | 83 ++++++++++++++---- R/terml.R | 60 ++++++++++--- R/utils.R | 188 +++++++++++++++++++++++++++++++++++++++---- README.md | 8 - man/csrml.Rd | 5 - man/ctrml.Rd | 5 - man/extract_reconciled_ml.Rd | 15 ++- man/terml.Rd | 5 - 14 files changed, 372 insertions(+), 103 deletions(-)
Title: Leveraging Experiment Lines to Data Analytics
Description: The natural increase in the complexity of current research experiments and data demands better tools to enhance productivity in Data Analytics. The package is a framework designed to address the modern challenges in data analytics workflows. The package is inspired by Experiment Line concepts. It aims to provide seamless support for users in developing their data mining workflows by offering a uniform data model and method API. It enables the integration of various data mining activities, including data preprocessing, classification, regression, clustering, and time series prediction. It also offers options for hyper-parameter tuning and supports integration with existing libraries and languages. Overall, the package provides researchers with a comprehensive set of functionalities for data science, promoting ease of use, extensibility, and integration with various tools and libraries. Information on Experiment Line is based on Ogasawara et al. (2009) <doi:10.1007/978-3-642-02279-1_2 [...truncated...]
Author: Eduardo Ogasawara [aut, ths, cre] ,
Ana Carolina Sa [aut],
Antonio Castro [aut],
Caio Santos [aut],
Diego Carvalho [ctb],
Diego Salles [aut],
Eduardo Bezerra [ctb],
Esther Pacitti [ctb],
Fabio Porto [ctb],
Janio Lima [aut],
Lucas Tavares [aut],
Rafae [...truncated...]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolbox versions 1.3.747 dated 2026-05-14 and 1.3.767 dated 2026-07-09
DESCRIPTION | 10 ++++----- MD5 | 47 +++++++++++++++++++++---------------------- NAMESPACE | 3 +- R/cla_xgboost.R | 21 ++++++------------- R/dal_predictor.R | 22 ++++++++++++++++---- man/cla_majority.Rd | 24 +++++++++++++++------ man/cla_xgboost.Rd | 21 ++++++------------- man/cluster_cmeans.Rd | 16 ++++++++++++++ man/cluster_dbscan.Rd | 16 ++++++++++++++ man/cluster_gmm.Rd | 15 +++++++++++++ man/cluster_hclust.Rd | 18 ++++++++++++++++ man/cluster_kmeans.Rd | 18 ++++++++++++++++ man/cluster_louvain_graph.Rd | 18 ++++++++++++++++ man/cluster_pam.Rd | 18 ++++++++++++++++ man/clusterer.Rd | 18 ++++++++++++++++ man/dal_graphics.Rd | 28 ++++++++++++++++++------- man/discover.Rd | 6 ++--- man/imputation_predictive.Rd | 4 +-- man/pat_eclat.Rd | 16 +++++++------- man/pattern_miner.Rd | 8 +++++-- man/plot_bar.Rd | 36 ++++++++++++++++++++------------ man/predictor_prepare_fit.Rd |only man/sample_random.Rd | 17 ++++++++++----- man/sample_stratified.Rd | 20 ++++++++++++------ man/train_test_from_folds.Rd | 25 +++++++++++++--------- 25 files changed, 319 insertions(+), 126 deletions(-)
Title: (Robust) Canonical Correlation Analysis via Projection Pursuit
Description: Canonical correlation analysis and maximum correlation via
projection pursuit, as well as fast implementations of correlation
estimators, with a focus on robust and nonparametric methods.
Author: Andreas Alfons [aut, cre] ,
David Simcha [ctb] ) implementation of Kendall correlation)
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between ccaPP versions 0.3.5 dated 2025-10-02 and 0.3.6 dated 2026-07-09
DESCRIPTION | 8 MD5 | 30 +- NEWS | 5 build/partial.rdb |binary build/vignette.rds |binary data/diabetes.RData |binary inst/doc/ccaPP-intro.Rnw | 488 +++++++++++++++++++++++----------------------- inst/doc/ccaPP-intro.pdf |binary src/Makevars | 2 src/Makevars.win | 2 src/cca.cpp | 13 - src/ccaPP_init.c | 1 src/cor.cpp | 3 src/utils.cpp | 1 vignettes/ccaPP-intro.Rnw | 488 +++++++++++++++++++++++----------------------- vignettes/maxCor.bib | 20 - 16 files changed, 531 insertions(+), 530 deletions(-)
Title: Generator of Main Scientific References
Description: Generates a list, with a size defined by the user, containing the main scientific references and the frequency distribution of authors and journals in the list obtained.
The database is a dataframe with academic production metadata made available by bibliographic collections such as Scopus, Web of Science, etc.
The temporal evolution of scientific production on a given topic is presented and ordered lists of articles are constructed by number of citations and of authors and journals by level of productivity.
Massimo Aria, Corrado Cuccurullo. (2017) <doi:10.1016/j.joi.2017.08.007>.
Caibo Zhou, Wenyan Song. (2021) <doi:10.1016/j.jclepro.2021.126943>.
Author: Marcio Eustaquio [aut, cre]
Maintainer: Marcio Eustaquio <marcioeustaquio@id.uff.br>
Diff between bibliorefer versions 0.1.3 dated 2026-02-07 and 0.1.4 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 2 +- 2 files changed, 5 insertions(+), 5 deletions(-)
Title: Read Paradox Database Files
Description: Provides a simple and efficient way to read data from Paradox
database files (.db) directly into R as modern 'tibble' data frames.
It uses the underlying 'pxlib' C library to handle the low-level file format
details and provides a clean, user-friendly R interface.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between Rparadox versions 0.2.2 dated 2026-02-16 and 0.3.0 dated 2026-07-09
Rparadox-0.2.2/Rparadox/man/figures |only Rparadox-0.2.2/Rparadox/src/paradox-gsf.h |only Rparadox-0.2.2/Rparadox/src/paradox-mp.h |only Rparadox-0.2.2/Rparadox/src/px_encode.c |only Rparadox-0.2.2/Rparadox/src/px_encode.h |only Rparadox-0.2.2/Rparadox/src/px_memprof.c |only Rparadox-0.3.0/Rparadox/DESCRIPTION | 17 Rparadox-0.3.0/Rparadox/MD5 | 59 Rparadox-0.3.0/Rparadox/NEWS.md | 40 Rparadox-0.3.0/Rparadox/R/utils.R | 2 Rparadox-0.3.0/Rparadox/README.md | 128 Rparadox-0.3.0/Rparadox/build/vignette.rds |binary Rparadox-0.3.0/Rparadox/inst/doc/Rparadox.R | 56 Rparadox-0.3.0/Rparadox/inst/doc/Rparadox.Rmd | 122 Rparadox-0.3.0/Rparadox/inst/doc/Rparadox.html | 228 - Rparadox-0.3.0/Rparadox/man/Rparadox-package.Rd | 9 Rparadox-0.3.0/Rparadox/src/paradox.c | 1905 ---------- Rparadox-0.3.0/Rparadox/src/paradox.h | 109 Rparadox-0.3.0/Rparadox/src/px_crypt.c | 39 Rparadox-0.3.0/Rparadox/src/px_crypt.h | 7 Rparadox-0.3.0/Rparadox/src/px_head.c | 902 ---- Rparadox-0.3.0/Rparadox/src/px_head.h | 6 Rparadox-0.3.0/Rparadox/src/px_io.c | 119 Rparadox-0.3.0/Rparadox/src/px_io.h | 5 Rparadox-0.3.0/Rparadox/src/px_memory.c | 2 Rparadox-0.3.0/Rparadox/src/px_misc.c | 103 Rparadox-0.3.0/Rparadox/src/px_misc.h | 8 Rparadox-0.3.0/Rparadox/tests/testthat/test-corrupted_file.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-encoding_edge_cases.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-find_blob_file.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-metadata.R | 51 Rparadox-0.3.0/Rparadox/tests/testthat/test-missing_blob.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-password_edge_cases.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-path_edge_cases.R |only Rparadox-0.3.0/Rparadox/tests/testthat/test-px_close_file.R | 27 Rparadox-0.3.0/Rparadox/tests/testthat/test-recode_if_needed.R |only Rparadox-0.3.0/Rparadox/vignettes/Rparadox.Rmd | 122 37 files changed, 537 insertions(+), 3529 deletions(-)
Title: Multivariate Network Meta-Analysis using Bayesian Methods
Description: Tools to conduct Bayesian multivariate network meta-analysis providing
- the single correlation coefficient model by Efthimiou et al. (2015) <doi:10.1093/biostatistics/kxu030>;
- per-outcome treatment hierarchies using the surface under the cumulative ranking curve (SUCRA), the probability of best value, or median (or mean) ranks (Salanti et al., 2011) <doi:10.1016/j.jclinepi.2010.03.016>;
- across-outcomes benefit-risk assessment using the VišeKriterijumska Optimizacija I Kompromisno Rešenje (VIKOR) method (Opricovic & Tzeng, 2004) <doi:10.1016/S0377-2217(03)00020-1>;
- convergence checks using trace plots, density plots, or the R-hat statistic;
- forest plots of treatment estimates, scatter plots of per-outcome rankings, Hasse diagrams (Carlsen & Bruggemann, 2014) <doi:10.1002/cem.2569> to visualize the partial order of the treatments across all outcomes.
Author: Theodoros Evrenoglou [aut, cre] ,
Guido Schwarzer [aut]
Maintainer: Theodoros Evrenoglou <theodoros.evrenoglou@uniklinik-freiburg.de>
Diff between mvnma versions 0.1-0 dated 2026-05-19 and 0.2-0 dated 2026-07-09
DESCRIPTION | 8 ++-- MD5 | 12 +++--- NEWS.md | 22 +++++++++++ R/mvnma-internal.R | 103 ++++++++++++++++++++++++--------------------------- R/mvnma.R | 87 ++++++++++++++++++++++++++++++------------- R/mvnma_code.R | 106 +++++++++++++---------------------------------------- man/mvnma.Rd | 7 +++ 7 files changed, 176 insertions(+), 169 deletions(-)
Title: Create Simple and Elegant Modal Dialogs in 'shiny'
Description: Enables you to create accessible modal dialogs, with confidence and with minimal configuration.
Author: Kennedy Mwavu [aut, cre, cph]
Maintainer: Kennedy Mwavu <mwavukennedy@gmail.com>
Diff between micromodal versions 1.0.0 dated 2023-08-17 and 1.0.1 dated 2026-07-09
DESCRIPTION | 13 +-- MD5 | 26 +++--- R/get_dependencies.R | 2 R/micromodal.R | 23 +++--- R/use_micromodal.R | 2 README.md | 10 +- build/vignette.rds |binary inst/doc/micromodal.R | 2 inst/doc/micromodal.Rmd | 33 ++++---- inst/doc/micromodal.html | 140 +++++++++++++++++++------------------ inst/examples/basic-usage/server.R | 4 - inst/examples/basic-usage/ui.R | 17 ++-- man/micromodal.Rd | 21 +++-- vignettes/micromodal.Rmd | 33 ++++---- 14 files changed, 172 insertions(+), 154 deletions(-)
Title: Isotope Origin Clustering and Assignment Tools
Description: This resource provides tools to create, compare, and post-process
spatial isotope assignment models of animal origin. It generates
probability-of-origin maps for individuals based on user-provided tissue and
environment isotope values (e.g., as generated by IsoMAP, Bowen et al. [2013]
<doi:10.1111/2041-210X.12147>) using the framework established in Bowen et al.
(2010) <doi:10.1146/annurev-earth-040809-152429>). The package 'isocat' can then
quantitatively compare and cluster these maps to group individuals by
similar origin. It also includes techniques for applying four approaches
(cumulative sum, odds ratio, quantile only, and quantile simulation) with
which users can summarize geographic origins and probable distance traveled
by individuals. Campbell et al. [2020] establishes several of the functions
included in this package <doi:10.1515/ami-2020-0004>.
Author: Caitlin Campbell [aut, cre]
Maintainer: Caitlin Campbell <caitjcampbell@gmail.com>
Diff between isocat versions 0.3.0 dated 2024-02-15 and 1.0.0 dated 2026-07-09
isocat-0.3.0/isocat/man/dot-compareMyRasters.Rd |only isocat-0.3.0/isocat/man/dot-findProductThenNormalize.Rd |only isocat-0.3.0/isocat/vignettes/isocat_cache |only isocat-0.3.0/isocat/vignettes/isocat_files |only isocat-1.0.0/isocat/DESCRIPTION | 22 isocat-1.0.0/isocat/MD5 | 162 ++--- isocat-1.0.0/isocat/NAMESPACE | 13 isocat-1.0.0/isocat/NEWS.md | 11 isocat-1.0.0/isocat/R/CumSumSuite.R | 63 -- isocat-1.0.0/isocat/R/clusterSimmatrix.R | 18 isocat-1.0.0/isocat/R/exampleIsoMonthly.R |only isocat-1.0.0/isocat/R/exampleIsoscape.R | 4 isocat-1.0.0/isocat/R/exampleIsoscape_sd.R | 4 isocat-1.0.0/isocat/R/getPrecisionPar.R | 60 +- isocat-1.0.0/isocat/R/isotopeAssignmentModel.R | 225 ++----- isocat-1.0.0/isocat/R/makeMultiMonthIsoscape.R | 115 ++- isocat-1.0.0/isocat/R/makeOddsSurface.R | 16 isocat-1.0.0/isocat/R/makeQuantileSimulationSurface.R | 19 isocat-1.0.0/isocat/R/makeQuantileSurface.R | 11 isocat-1.0.0/isocat/R/meanAggregateClusterProbability.R | 48 - isocat-1.0.0/isocat/R/oddsAtCoordinates.R | 18 isocat-1.0.0/isocat/R/projectSummaryMaxSurface.R | 34 - isocat-1.0.0/isocat/R/quantileAtCoordinates.R | 15 isocat-1.0.0/isocat/R/schoenersD.R | 33 - isocat-1.0.0/isocat/R/simmatrixMaker.R | 109 ++- isocat-1.0.0/isocat/build/vignette.rds |binary isocat-1.0.0/isocat/data/iso_monthly.rda |only isocat-1.0.0/isocat/data/iso_monthly_se.rda |only isocat-1.0.0/isocat/data/isoscape.rda |binary isocat-1.0.0/isocat/data/isoscape_sd.rda |binary isocat-1.0.0/isocat/inst/CITATION | 14 isocat-1.0.0/isocat/inst/doc/isocat.R | 36 - isocat-1.0.0/isocat/inst/doc/isocat.Rmd | 42 - isocat-1.0.0/isocat/inst/doc/isocat.html | 377 ++++--------- isocat-1.0.0/isocat/man/clusterSimmatrix.Rd | 12 isocat-1.0.0/isocat/man/cumsumAtSamplingLocation.Rd | 10 isocat-1.0.0/isocat/man/dot-assignmentMaker.Rd | 4 isocat-1.0.0/isocat/man/dot-normprodrast.Rd |only isocat-1.0.0/isocat/man/getPrecisionPar.Rd | 21 isocat-1.0.0/isocat/man/iso_monthly.Rd |only isocat-1.0.0/isocat/man/iso_monthly_se.Rd |only isocat-1.0.0/isocat/man/isoscape.Rd | 4 isocat-1.0.0/isocat/man/isoscape_sd.Rd | 4 isocat-1.0.0/isocat/man/isotopeAssignmentModel.Rd | 26 isocat-1.0.0/isocat/man/makeMultiMonthIsoscape.Rd | 30 - isocat-1.0.0/isocat/man/makeOddsSurfaces.Rd | 12 isocat-1.0.0/isocat/man/makeQuantileSimulationSurface.Rd | 12 isocat-1.0.0/isocat/man/makeQuantileSurfaces.Rd | 10 isocat-1.0.0/isocat/man/makecumsumSurface.Rd | 15 isocat-1.0.0/isocat/man/meanAggregateClusterProbability.Rd | 10 isocat-1.0.0/isocat/man/oddsAtSamplingLocation.Rd | 8 isocat-1.0.0/isocat/man/projectSummaryMaxSurface.Rd | 12 isocat-1.0.0/isocat/man/quantileAtSamplingLocation.Rd | 8 isocat-1.0.0/isocat/man/schoenersD.Rd | 8 isocat-1.0.0/isocat/man/simmatrixMaker.Rd | 43 - isocat-1.0.0/isocat/man/surfaceSimilarityMatrix.Rd |only isocat-1.0.0/isocat/tests |only isocat-1.0.0/isocat/vignettes/isocat.Rmd | 42 - 58 files changed, 823 insertions(+), 937 deletions(-)
Title: 'DT' Extension for CRUD (Create, Read, Update, Delete)
Applications in 'shiny'
Description: The core of this package is a function eDT() which enhances DT::datatable() such that it can be used to interactively modify data in 'shiny'. By the use of generic 'dplyr' methods it supports many types of data storage, with relational databases ('dbplyr') being the main use case.
Author: Jasper Schelfhout [aut, cre],
Maxim Nazarov [rev],
Daan Seynaeve [rev],
Lennart Tuijnder [rev],
Saar Junius [aut]
Maintainer: Jasper Schelfhout <jasper.schelfhout@openanalytics.eu>
Diff between editbl versions 1.3.0 dated 2025-04-24 and 1.3.2 dated 2026-07-09
DESCRIPTION | 8 - MD5 | 152 ++++++++++++++++++----------------- NAMESPACE | 2 R/demoApp.R | 9 ++ R/devApp.R | 3 R/eDT.R | 106 ++++++++++++++++++------ R/eDT_app.R | 3 R/foreignTbl.R | 4 R/shinyInput.R | 1 R/tbl.R | 43 +++++++++ R/tbl_dbi.R | 4 R/utils.R | 15 +++ README.md | 9 +- build/vignette.rds |binary inst/NEWS | 6 + inst/doc/howto_custom_logic.R |only inst/doc/howto_custom_logic.html |only inst/doc/howto_custom_logic.rmd |only inst/doc/howto_relational_db.html | 6 - inst/doc/howto_relational_db_dm.html | 6 - inst/doc/howto_row_level_access.html | 6 - inst/doc/howto_switch_from_DT.html | 4 man/addButtons.Rd | 7 - man/beginTransaction.Rd | 1 man/canXXXRowTemplate.Rd | 7 - man/castForDisplay.Rd | 1 man/castFromTbl.Rd | 1 man/castToFactor.Rd | 1 man/castToSQLSupportedType.Rd | 1 man/castToTbl.Rd | 1 man/castToTemplate.Rd | 1 man/checkForeignTbls.Rd | 1 man/coalesce.Rd | 1 man/coerceColumns.Rd | 1 man/coerceValue.Rd | 1 man/commitTransaction.Rd | 1 man/createButtons.Rd | 7 - man/createCloneButtonHTML.Rd | 1 man/createCloneButtonHTML_shiny.Rd | 1 man/createDeleteButtonHTML.Rd | 1 man/createDeleteButtonHTML_shiny.Rd | 1 man/createEditButtonHTML.Rd | 1 man/createEditButtonHTML_shiny.Rd | 1 man/demoServer_DB.Rd | 1 man/demoServer_custom.Rd | 1 man/demoServer_mtcars.Rd | 1 man/demoUI_DB.Rd | 1 man/demoUI_custom.Rd | 1 man/demoUI_mtcars.Rd | 1 man/devServer.Rd | 1 man/devUI.Rd | 1 man/disableDoubleClickButtonCss.Rd | 1 man/eDT.Rd | 13 ++ man/eDT_app.Rd | 1 man/eDT_app_server.Rd | 1 man/eDT_app_ui.Rd | 1 man/e_rows_delete.Rd |only man/e_rows_delete.default.Rd |only man/evalCanCloneRow.Rd | 1 man/evalCanDeleteRow.Rd | 1 man/evalCanEditRow.Rd | 1 man/fillDeductedColumns.Rd | 1 man/fixInteger64.Rd | 1 man/getColumnTypeSums.Rd | 1 man/getNonNaturalKeyCols.Rd | 1 man/initData.Rd | 7 - man/overwriteDefaults.Rd | 1 man/rollbackTransaction.Rd | 1 man/rowInsert.Rd | 1 man/rowUpdate.Rd | 1 man/runDemoApp_DB.Rd | 1 man/runDemoApp_custom.Rd | 1 man/runDemoApp_mtcars.Rd | 1 man/runDevApp.Rd | 1 man/shinyInput.Rd | 1 man/standardizeArgument_colnames.Rd | 5 - man/standardizeArgument_editable.Rd | 5 - man/whereSQL.Rd | 1 tests/testthat/test-eDT.R | 17 +++ vignettes/howto_custom_logic.rmd |only 80 files changed, 363 insertions(+), 139 deletions(-)
Title: Dynamical Systems Approach to Immune Response Modeling
Description: Simulation models (apps) of various within-host immune response scenarios.
The purpose of the package is to help individuals learn
about within-host infection and immune response modeling from a dynamical systems perspective.
All apps include explanations of the underlying models and instructions on what to do with the models.
Author: Andreas Handel [aut, cre] ,
Cody Dailey [ctb],
Yang Ge [ctb],
Spencer Hall [ctb],
Brian McKay [ctb],
Sina Solaimanpour [ctb],
Alexis Vittengl [ctb],
Henok Woldu [ctb]
Maintainer: Andreas Handel <andreas.handel@gmail.com>
Diff between DSAIRM versions 0.9.6 dated 2023-08-23 and 1.0.0 dated 2026-07-09
DESCRIPTION | 13 MD5 | 56 NEWS.md | 11 R/generate_ggplot.R | 10 R/simulate_basicbacteria_ode.R | 6 build/vignette.rds |binary inst/DSAIRM/app.R | 886 ++++----- inst/DSAIRM/google-analytics.html | 16 inst/DSAIRM/rsconnect/shinyapps.io/epibiouga/dsairm.dcf | 20 inst/appinformation/dsairm_references.bib | 1456 ++++++++-------- inst/doc/DSAIRM.R | 36 inst/doc/DSAIRM.Rmd | 4 inst/doc/DSAIRM.html | 58 man/DSAIRM-package.Rd | 5 man/generate_documentation.Rd | 52 man/generate_ggplot.Rd | 100 - man/generate_modelsettings.Rd | 86 man/generate_plotly.Rd | 98 - man/generate_shinyinput.Rd | 102 - man/hayden96flu.Rd | 58 man/simulate_basicbacteria_discrete.Rd | 142 - man/simulate_basicbacteria_modelexploration.Rd | 216 +- man/simulate_basicbacteria_ode.Rd | 164 - man/simulate_basicvirus_modelexploration.Rd | 230 +- man/simulate_modelvariants_ode.Rd | 294 +-- man/simulate_pkpdmodel_ode.Rd | 222 +- man/simulate_usanalysis.Rd | 238 +- man/simulate_virusandir_ode.Rd | 270 +- vignettes/DSAIRM.Rmd | 4 29 files changed, 2433 insertions(+), 2420 deletions(-)
Title: Provides a Link Between the 'LSEG Datastream' System and R
Description: Provides a set of functions and a class to connect, extract and
upload information from the 'LSEG Datastream' database. This
package uses the 'DSWS' API.
Details of this API are available at <https://www.lseg.com/en/data-analytics>.
Please report issues at <https://github.com/CharlesCara/DatastreamDSWS2R/issues>.
Author: Charles Cara [aut, cre, cph]
Maintainer: Charles Cara <charles.cara@absolute-strategy.com>
Diff between DatastreamDSWS2R versions 1.9.12 dated 2025-03-30 and 1.11.0 dated 2026-07-09
DESCRIPTION | 26 +- MD5 | 37 +-- NAMESPACE | 19 - NEWS.md | 3 R/DatastreamDSWS2R.R | 4 R/UCTSUpload.R | 285 ++++++++++++--------------- R/classConstructor.R | 212 ++++++++++++++------ R/common.R | 56 +++++ README.md | 37 +++ man/DatastreamDSWS2R.Rd | 7 man/UCTSAppend.Rd | 8 man/UCTSUpload.Rd | 20 + man/classconstructor.Rd | 81 +++++++ man/currencyDS2ISO.Rd | 2 tests/testthat/test-UCTSAppend.R | 53 +---- tests/testthat/test-UCTSUpload.R | 140 +++++++------ tests/testthat/test-dsws-timeSeriesRequest.R | 3 tests/testthat/testData/f.RDS |only tests/testthat/testData/f.RData |binary tools/createTestJSONFiles.R | 2 20 files changed, 629 insertions(+), 366 deletions(-)
More information about DatastreamDSWS2R at CRAN
Permanent link
Title: Functions Useful in the Design and ANOVA of Experiments
Description: The content falls into the following groupings: (i) Data, (ii)
Factor manipulation functions, (iii) Design functions, (iv) ANOVA functions, (v)
Matrix functions, (vi) Projector and canonical efficiency functions, and (vii)
Miscellaneous functions. There is a vignette describing how to use the
design functions for randomizing and assessing designs available as a
vignette called 'DesignNotes'. The ANOVA functions facilitate the extraction of
information when the 'Error' function has been used in the call to 'aov'.
The package 'dae' can also be installed from
<http://chris.brien.name/rpackages/>.
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between dae versions 3.2.32 dated 2025-08-20 and 3.2.35 dated 2026-07-09
dae-3.2.32/dae/tests/vdiffr.Rout.fail |only dae-3.2.35/dae/DESCRIPTION | 8 dae-3.2.35/dae/MD5 | 38 dae-3.2.35/dae/NAMESPACE | 3 dae-3.2.35/dae/R/fac.functions.r | 22 dae-3.2.35/dae/build/partial.rdb |binary dae-3.2.35/dae/build/vignette.rds |binary dae-3.2.35/dae/inst/NEWS.Rd | 12 dae-3.2.35/dae/inst/doc/DesignNotes.pdf |binary dae-3.2.35/dae/inst/doc/dae-manual.pdf |binary dae-3.2.35/dae/man/dae-package.Rd | 3 dae-3.2.35/dae/man/makeLevsPadNums.Rd |only dae-3.2.35/dae/tests/testthat/_problems |only dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/colfacets-bottom-switch-placement.svg | 168 +-- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/colfacets-placement.svg | 168 +-- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/rowfacets-switch-placement.svg | 176 +-- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/rows-and-columns-indexed-by-2-factors.svg | 464 ++++----- dae-3.2.35/dae/tests/testthat/_snaps/testDesignGGPlot/using-facetstrips-place-from-designblocksggplot.svg | 482 +++++----- dae-3.2.35/dae/tests/testthat/testFac.r | 20 dae-3.2.35/dae/tests/testthat/testNestedFacs.r | 4 dae-3.2.35/dae/tests/testthat/testthat-problems.rds |only 21 files changed, 814 insertions(+), 754 deletions(-)
Title: Teaching Hydrological Modelling with the GR Rainfall-Runoff
Models ('Shiny' Interface Included)
Description: Add-on package to the 'airGR' package that simplifies its use and is aimed at being used for teaching hydrology. The package provides 1) three functions that allow to complete very simply a hydrological modelling exercise 2) plotting functions to help students to explore observed data and to interpret the results of calibration and simulation of the GR ('Génie rural') models 3) a 'Shiny' graphical interface that allows for displaying the impact of model parameters on hydrographs and models internal variables.
Author: Olivier Delaigue [aut, cre] ,
Laurent Coron [aut] ,
Pierre Brigode [aut] ,
Guillaume Thirel [aut]
Maintainer: Olivier Delaigue <airGR@inrae.fr>
Diff between airGRteaching versions 0.3.5 dated 2025-03-27 and 0.3.7 dated 2026-07-09
DESCRIPTION | 19 MD5 | 28 - NEWS.md | 111 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 1 inst/ShinyGR/server.R | 49 +- inst/doc/get_started.html | 5 inst/doc/v00_teaching_hydrology.html | 707 ++++++++++++++++--------------- inst/doc/v01_EN_flow_reconstruction.html | 164 ++++--- inst/doc/v01_FR_flow_reconstruction.html | 164 ++++--- inst/doc/v02_EN_flow_forecasting.html | 237 +++++----- inst/doc/v02_FR_flow_forecasting.html | 237 +++++----- inst/doc/v03_EN_impact_CC_flow.html | 61 +- inst/doc/v03_FR_impact_CC_flow.html | 61 +- 15 files changed, 976 insertions(+), 868 deletions(-)
Title: Radiocarbon Equations
Description: Provides functions for the calibration of radiocarbon dates, as well as options to calculate different radiocarbon-related timescales (cal BP, cal BC/AD, C14 age, F14C, pMC, D14C) and estimating the effects of contamination or local reservoir offsets (Reimer and Reimer 2001 <doi:10.1017/S0033822200038339>). Supporting publication: Blaauw, M., Reimer, P.J., 2026. An open-source toolkit for radiocarbon dating and calibration. Radiocarbon <doi:10.1017/RDC.2026.10221>. The methods follow long-established recommendations such as Stuiver and Polach (1977) <doi:10.1017/S0033822200003672> and Reimer et al. (2004) <doi:10.1017/S0033822200033154>. This package uses the calibration curves from the data package 'rintcal'.
Author: Maarten Blaauw [aut, cre] ,
Paula Reimer [ctb] ,
Vegard Martinsen [ctb]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rice versions 2.2.0 dated 2026-06-15 and 2.2.1 dated 2026-07-09
DESCRIPTION | 10 - MD5 | 49 ++--- NAMESPACE | 2 NEWS.md | 13 + R/calibrate.R | 28 ++- R/marine.R | 2 R/plots.R | 52 +++-- R/rice-package.R | 2 R/rice.R | 123 ++++++++++++- R/sets.R | 8 build/partial.rdb |binary build/vignette.rds |binary data/shells.rda |binary inst/CITATION | 4 inst/doc/rice.R | 7 inst/doc/rice.Rmd | 14 + inst/doc/rice.html | 416 +++++++++++++++++++++++---------------------- man/C14.cycle.Rd |only man/age.range.Rd | 2 man/draw.dates.Rd | 9 man/hpd.Rd | 2 man/point.estimates.Rd | 2 man/rice-package.Rd | 2 man/rice.Rd | 2 tests/testthat/test-rice.R | 2 vignettes/rice.Rmd | 14 + 26 files changed, 485 insertions(+), 280 deletions(-)
Title: Shared Utilities to Extend the 'teal' Modules
Description: Provides decorators, transformators, and utility functions
to extend the 'teal' framework for interactive data analysis
applications. Implements methods for data visualization enhancement,
statistical data transformations, and workflow integration tools.
Designed to support clinical and pharmaceutical research workflows
within the 'teal' ecosystem through modular and reusable components.
Author: Nadia Abraham [aut],
Chanchal Bhalla [aut],
Peyman Eshghi [aut, cre],
Pranith Gourisetty [aut],
Sohan Lal [aut],
Przemyslaw Posiadala [aut],
Alina Tselinina [aut],
Konrad Pagacz [aut],
PHUSE [cph]
Maintainer: Peyman Eshghi <peymaan.es@gmail.com>
Diff between uteals versions 0.0.3 dated 2026-04-13 and 0.0.5 dated 2026-07-09
DESCRIPTION | 20 ++- MD5 | 53 ++++++---- NAMESPACE | 14 ++ NEWS.md | 19 ++- R/BlockConditions.R | 15 ++ R/ReportManager.R |only R/create_rel_risk_transformator.R | 2 R/ggplot_decorator.R | 3 R/merge_levels_transformator.R | 2 R/or_filtering_transformator.R | 78 ++++++++++----- R/or_filtering_transformator_view_model.R | 3 R/patchwork_plot_decorator.R | 4 R/title_footer_decorator.R | 27 +++-- R/tm_report_manager.R |only R/uteals.R | 3 R/watermark_decorator.R | 2 README.md | 3 build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/report-manager.R |only inst/doc/report-manager.Rmd |only inst/doc/report-manager.html |only man/ReportManager.Rd |only man/add_condition.Rd | 2 man/filtering_transformator_model.Rd | 151 ++++++++++++++---------------- man/or_filtering_transformator.Rd | 3 man/report_manager_server.Rd |only man/report_manager_ui.Rd |only man/tm_report_manager.Rd |only man/uteals-package.Rd | 1 tests |only vignettes/report-manager.Rmd |only 32 files changed, 250 insertions(+), 157 deletions(-)
Title: Add Ipea Editorial Standards to 'ggplot2' Graphics
Description: Convenient functions to create 'ggplot2' graphics following the
editorial guidelines of the Institute for Applied Economic
Research (Ipea).
Author: Pedro Ferreira [aut, cre],
Pedro Jorge [aut],
Daniel Lima [aut],
Gustavo Coelho [aut],
Rafael H. M. Pereira [aut],
Lucas Mation [aut],
Fabio Vaz [ctb],
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Pedro Ferreira <pedro.ferreira2@ipea.gov.br>
Diff between ipeaplot versions 0.5.3 dated 2026-07-06 and 0.5.4 dated 2026-07-09
DESCRIPTION | 11 +++++------ MD5 | 14 +++++++------- NEWS.md | 3 +++ inst/doc/cookbook.html | 4 ++-- inst/doc/intro_ipeaplot.R | 25 ------------------------- inst/doc/intro_ipeaplot.Rmd | 38 -------------------------------------- inst/doc/intro_ipeaplot.html | 37 ++----------------------------------- vignettes/intro_ipeaplot.Rmd | 38 -------------------------------------- 8 files changed, 19 insertions(+), 151 deletions(-)
Title: Forecast Reconciliation
Description: Classical (bottom-up and top-down), optimal combination and heuristic
point (Di Fonzo and Girolimetto, 2023 <doi:10.1016/j.ijforecast.2021.08.004>) and
probabilistic (Girolimetto et al. 2024 <doi:10.1016/j.ijforecast.2023.10.003>)
forecast reconciliation procedures for linearly constrained time series
(e.g., hierarchical or grouped time series) in cross-sectional, temporal,
or cross-temporal frameworks.
Author: Daniele Girolimetto [aut, cre] ,
Tommaso Di Fonzo [aut] ,
Yangzhuoran Fin Yang [ctb]
Maintainer: Daniele Girolimetto <daniele.girolimetto@unipd.it>
Diff between FoReco versions 1.3.0 dated 2026-06-22 and 1.3.1 dated 2026-07-09
DESCRIPTION | 6 - MD5 | 48 ++++++------ NEWS.md | 7 + R/bottomup.R | 15 +++ R/cov_cs.R | 41 ++++++++-- R/cov_ct.R | 185 +++++++++++++++++++++++++++++++++++++----------- R/cov_te.R | 103 ++++++++++++++++++++------ R/foreco-class.R | 7 + R/fun.R | 54 +++++++++----- R/fun_export.R | 22 ++++- R/fun_residuals.R | 1 R/matrix_layout.R | 5 + R/middleout.R | 15 +++ R/reco_gauss.R | 20 ++++- R/reco_heu.R | 60 ++++++++++++--- R/reco_lcc.R | 20 ++++- R/reco_opt.R | 20 ++++- README.md | 2 man/commat.Rd | 1 man/cscov.Rd | 6 - man/ctcov.Rd | 20 ----- man/ctmatrix_layouts.Rd | 1 man/residuals.Rd | 1 man/tecov.Rd | 11 -- man/tematrix_layouts.Rd | 1 25 files changed, 482 insertions(+), 190 deletions(-)
Title: Access the 'Finna' API
Description: Provides functions to access and retrieve metadata from the 'Finna' API <https://api.finna.fi/>, which aggregates content from Finnish archives, libraries, and museums.
Author: Akewak Jeba [aut, cre] ,
Leo Lahti [aut]
Maintainer: Akewak Jeba <akewak84@gmail.com>
This is a re-admission after prior archival of version 0.1.2 dated 2026-06-18
Diff between finna versions 0.1.2 dated 2026-06-18 and 0.1.3 dated 2026-07-09
DESCRIPTION | 12 +- MD5 | 6 - inst/doc/vignette.html | 228 +++++++++++++++++++------------------- tests/testthat/test-fetch_finna.R | 3 4 files changed, 126 insertions(+), 123 deletions(-)
Title: A Computational Tool for Aerobiological Data
Description: Different tools for managing databases of airborne particles, elaborating the main calculations and visualization of results. In a first step, data are checked using tools for quality control and all missing gaps are completed. Then, the main parameters of the pollen season are calculated and represented graphically. Multiple graphical tools are available: pollen calendars, phenological plots, time series, tendencies, interactive plots, abundance plots...
Author: Jesus Rojo [aut],
Antonio Picornell [aut],
Jose Oteros [aut, cre]
Maintainer: Jose Oteros <OterosJose@gmail.com>
Diff between AeRobiology versions 2.0.2 dated 2026-02-24 and 2.0.3 dated 2026-07-09
AeRobiology-2.0.2/AeRobiology/tests/testthat/test-aerobiology.R |only AeRobiology-2.0.3/AeRobiology/DESCRIPTION | 6 AeRobiology-2.0.3/AeRobiology/MD5 | 25 AeRobiology-2.0.3/AeRobiology/NAMESPACE | 9 AeRobiology-2.0.3/AeRobiology/NEWS.md | 15 AeRobiology-2.0.3/AeRobiology/R/AeRobiology.R | 2 AeRobiology-2.0.3/AeRobiology/R/calculate_ps.R | 30 AeRobiology-2.0.3/AeRobiology/R/plot_monthly_heatmap.R |only AeRobiology-2.0.3/AeRobiology/build/vignette.rds |binary AeRobiology-2.0.3/AeRobiology/inst/doc/my-vignette.R | 6 AeRobiology-2.0.3/AeRobiology/inst/doc/my-vignette.Rmd | 30 AeRobiology-2.0.3/AeRobiology/inst/doc/my-vignette.html | 464 +++++----- AeRobiology-2.0.3/AeRobiology/man/plot_monthly_heatmap.Rd |only AeRobiology-2.0.3/AeRobiology/tests/testthat/test-calculate-ps.R |only AeRobiology-2.0.3/AeRobiology/tests/testthat/test-plot-monthly-heatmap.R |only AeRobiology-2.0.3/AeRobiology/vignettes/my-vignette.Rmd | 30 16 files changed, 355 insertions(+), 262 deletions(-)
Title: A Multivariate Meta-Analysis Model for High-Dimensional Data
Description: Performs multivariate meta-analysis for high-dimensional data
to integrate and collectively analyse individual-level data from multiple
studies, as well as to combine summary estimates. This approach accounts
for correlation between outcomes, incorporates within- and between-study
variability, handles missing values, and uses shrinkage estimation to
accommodate high dimensionality. The 'MetaHD' R package provides access
to our multivariate meta-analysis approach, along with a comprehensive
suite of existing meta-analysis methods, including fixed-effects and
random-effects models, Fisher's method, Stouffer's method, the weighted
Z method, Lancaster's method, the weighted Fisher's method, and vote-counting
approach. Visualisation tools are provided for interpreting and comparing
results across methods, including Venn diagrams, UpSet plots, and ROC curves,
heatmaps of pooled effect sizes and correlations among outcomes. A detailed
vignette with example datasets and code for data preparati [...truncated...]
Author: Jayamini Liyanage [aut, cre],
Alysha De Livera [aut],
Luke Prendergast [aut]
Maintainer: Jayamini Liyanage <j.liyanage@latrobe.edu.au>
Diff between MetaHD versions 0.1.5 dated 2026-07-08 and 0.1.6 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/plot_MetaHDResult.R | 4 +++- man/plot.MetaHDResult.Rd | 4 +++- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Supporting Functions for Packages Maintained by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] ,
Wush Wu [ctb],
Daijiang Li [ctb],
Xianying Tan [ctb],
Salim Brueggemann [ctb] ,
Christophe Dervieux [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.59 dated 2026-06-19 and 0.60 dated 2026-07-09
DESCRIPTION | 6 +-- MD5 | 45 +++++++++++++++-------------- NAMESPACE | 1 R/app.R | 28 ++++++++++++++++-- R/browser.R | 62 ++++++++++++++++++++++++++++++++++------ R/command.R | 10 +++--- R/cran.R | 3 + R/github.R | 58 +++++++++++++++++++++++-------------- R/io.R | 18 ++++++++++- R/json.R | 2 + R/revcheck.R | 6 +-- R/string.R | 11 +++++++ R/utils.R | 4 ++ R/zzz.R | 3 + inst/doc/xfun.html | 14 ++++----- man/browser_dom.Rd |only man/browser_print.Rd | 2 - man/post_release.Rd | 9 +++-- man/read_utf8.Rd | 11 ++++++- tests/test-ci/test-browser.R |only tests/test-ci/test-httpd.R | 9 ++++- tests/test-cran/test-github.R | 33 +++++++++++++++++++++ tests/test-cran/test-io.R | 13 ++++++++ tests/test-cran/test-json.R | 3 + tests/test-cran/test-revcheck.R |only 25 files changed, 269 insertions(+), 82 deletions(-)
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) and known covariance among levels of random effects (e.g., pedigree and genomic relationship matrices) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>; Jensen et al., 1997). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms for the problems r x r (r being the number of records) or using the Henderson-based average information algorithm for the problem c x c (c being the number of coefficients to estimate). Spatial models can also be fitted using the two-dimensional spline functionality available.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.4.5 dated 2026-03-25 and 4.4.6 dated 2026-07-09
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/DEPRECATED_mmer.R | 4 +++- R/FUN_methods_mmes.R | 3 ++- R/mmes.R | 3 ++- inst/doc/sommer.gxe.html | 2 +- inst/doc/sommer.qg.html | 2 +- inst/doc/sommer.spatial.html | 2 +- inst/doc/sommer.vs.lme4.html | 2 +- src/MNR.cpp | 2 +- 10 files changed, 25 insertions(+), 21 deletions(-)
Title: High-Level Plotting Built Upon 'ggplot2' and Other Plotting
Packages
Description: Provides high-level API and a wide range of options to create stunning, publication-quality plots effortlessly.
It is built upon 'ggplot2' and other plotting packages, and is designed to be easy to use and to work seamlessly with 'ggplot2' objects.
It is particularly useful for creating complex plots with multiple layers, facets, and annotations.
It also provides a set of functions to create plots for specific types of data, such as Venn diagrams, alluvial diagrams, and phylogenetic trees.
The package is designed to be flexible and customizable, and to work well with the 'ggplot2' ecosystem.
The API can be found at <https://pwwang.github.io/plotthis/reference/index.html>.
Author: Panwen Wang [aut, cre]
Maintainer: Panwen Wang <pwwang@pwwang.com>
Diff between plotthis versions 0.12.1 dated 2026-06-10 and 0.13.1 dated 2026-07-09
DESCRIPTION | 6 MD5 | 252 +- NAMESPACE | 17 NEWS.md | 112 + R/areaplot.R | 543 +++++- R/barplot.R | 2174 ++++++++++++++++++++----- R/boxviolinplot.R | 2844 ++++++++++++++++++++++++--------- R/chordplot.R | 448 ++++- R/clustreeplot.R | 515 +++++- R/common_args.R | 15 R/corplot.R | 1368 +++++++++++++--- R/densityplot.R | 1381 +++++++++++++--- R/dimplot.R | 2838 +++++++++++++++++++++++++-------- R/dotplot.R | 1309 +++++++++++++-- R/enrich.R | 1074 ++++++++++-- R/gsea.R | 851 ++++++++-- R/heatmap-utils.R | 2210 ++++++++++++++++++++++---- R/heatmap.R | 2871 +++++++++++++++++++++++----------- R/jitterplot.R | 1041 +++++++++--- R/lineplot.R | 1375 ++++++++++++---- R/linkedheatmap.R |only R/manhattanplot.R | 794 ++++++--- R/network.R | 1166 ++++++++++--- R/piechart.R | 465 ++++- R/qqplot.R | 526 +++++- R/radarplot.R | 990 +++++++++-- R/rarefractionplot.R | 542 +++++- R/ringplot.R | 523 +++++- R/roccurve.R | 1109 ++++++++++--- R/sankeyplot.R | 1121 ++++++++++--- R/scatterplot.R | 845 ++++++++-- R/spatialplot.R | 1949 +++++++++++++++++------ R/theming.R | 354 +++- R/trendplot.R | 533 +++++- R/upsetplot.R | 693 ++++++-- R/utils.R | 574 +++++- R/velocityplot.R | 599 +++++-- R/venndiagram.R | 624 +++++-- R/volcanoplot.R | 822 +++++++-- R/wordcloudplot.R | 518 +++++- man/AreaPlot.Rd | 166 + man/AreaPlotAtomic.Rd | 114 + man/BarPlotAtomic.Rd | 138 + man/BarPlotGrouped.Rd | 134 + man/BarPlotSingle.Rd | 134 + man/BoxViolinPlot-internal.Rd | 305 +-- man/BoxViolinPlotAtomic.Rd | 373 ++-- man/ChordPlotAtomic.Rd | 104 + man/ClustreePlot.Rd | 183 +- man/ClustreePlotAtomic.Rd | 155 + man/CorPairsPlot.Rd | 215 +- man/CorPairsPlotAtomic.Rd | 193 +- man/CorPlot.Rd | 200 +- man/CorPlotAtomic.Rd | 189 +- man/DensityHistoPlotAtomic.Rd | 191 +- man/DimPlotAtomic.Rd | 437 +++-- man/DimPlotAtomic3D.Rd | 204 ++ man/DotPlotAtomic.Rd | 344 +++- man/EnrichMapAtomic.Rd | 205 +- man/EnrichNetworkAtomic.Rd | 136 + man/GSEAPlotAtomic.Rd | 132 + man/Heatmap.Rd | 693 +++----- man/HeatmapAtomic.Rd | 664 ++++--- man/JitterPlotAtomic.Rd | 372 +++- man/LinePlot.Rd | 241 +- man/LinePlotAtomic.Rd | 146 + man/LinePlotGrouped.Rd | 171 +- man/LinePlotSingle.Rd | 177 +- man/LinkedHeatmap.Rd |only man/LinkedHeatmapAtomic.Rd |only man/ManhattanPlot.Rd | 361 ++-- man/ManhattanPlotAtomic.Rd | 275 ++- man/Network.Rd | 427 +++-- man/NetworkAtomic.Rd | 472 ++++- man/PieChart.Rd | 159 + man/PieChartAtomic.Rd | 96 - man/QQPlot.Rd | 165 + man/QQPlotAtomic.Rd | 180 +- man/ROCCurve.Rd | 358 ++-- man/ROCCurveAtomic.Rd | 316 ++- man/RadarPlotAtomic.Rd | 196 +- man/RarefactionPlot.Rd | 182 +- man/RarefactionPlotAtomic.Rd | 146 + man/RidgePlot.Rd | 124 + man/RidgePlotAtomic.Rd | 187 +- man/RingPlot.Rd | 132 - man/RingPlotAtomic.Rd | 121 + man/SankeyPlotAtomic.Rd | 296 ++- man/ScatterPlot.Rd | 245 ++ man/ScatterPlotAtomic.Rd | 229 ++ man/SplitBarPlotAtomic.Rd | 140 + man/TrendPlot.Rd | 125 - man/TrendPlotAtomic.Rd | 126 + man/UpsetPlot.Rd | 209 +- man/UpsetPlotAtomic.Rd | 160 + man/VelocityPlot.Rd | 109 - man/VennDiagram.Rd | 216 +- man/VennDiagramAtomic.Rd | 169 +- man/VolcanoPlot.Rd | 309 ++- man/VolcanoPlotAtomic.Rd | 319 ++- man/WordCloudPlot.Rd | 154 + man/WordCloudPlotAtomic.Rd | 189 +- man/barplot.Rd | 449 +++-- man/boxviolinplot.Rd | 479 ++--- man/chordplot.Rd | 130 - man/combine_plots.Rd | 4 man/common_args.Rd | 9 man/densityhistoplot.Rd | 191 +- man/detect_upset_datatype.Rd | 30 man/detect_venn_datatype.Rd | 34 man/dimplot.Rd | 464 +++-- man/do_call.Rd |only man/dot-apply_orderby.Rd |only man/dot-compute_velocity_on_grid.Rd | 28 man/dot-prep_annotations.Rd |only man/dot_flip_y.Rd | 41 man/dotplot.Rd | 391 +++- man/enrichmap1.Rd | 201 +- man/get_cutoffs_data.Rd | 50 man/gsea.Rd | 217 +- man/jitterplot.Rd | 343 ++-- man/prepare_continuous_color_scale.Rd |only man/prepare_upset_data.Rd | 98 - man/prepare_venn_data.Rd | 76 man/process_linkedheatmap_data.Rd |only man/radarplot.Rd | 234 +- man/sankeyplot.Rd | 232 +- man/spatialplots.Rd | 347 +++- tests/testthat/test-barplot.R | 23 tests/testthat/test-dotplot.R | 25 tests/testthat/test-scatterplot.R | 18 131 files changed, 42472 insertions(+), 13241 deletions(-)
Title: Mongolian 'NSO' 'PXWeb' Data and Boundaries (Tidy Client)
Description: A 'tidyverse'-friendly client for the National Statistics Office of Mongolia
'PXWeb' API <https://data.1212.mn/> with helpers to discover tables, variables, and fetch
statistical data. Also includes utilities to retrieve Mongolia administrative boundaries
(ADM0-ADM2) as 'sf' objects from open sources for mapping and spatial analysis.
Author: Temuulen Enebish [aut, cre, cph]
Maintainer: Temuulen Enebish <temuulen@gmail.com>
Diff between mongolstats versions 0.1.1 dated 2026-01-26 and 0.2.0 dated 2026-07-09
mongolstats-0.1.1/mongolstats/R/globals.R |only mongolstats-0.1.1/mongolstats/inst/extdata/air_monthly_cached.csv |only mongolstats-0.1.1/mongolstats/man/dot-px_list.Rd |only mongolstats-0.1.1/mongolstats/man/dot-px_meta.Rd |only mongolstats-0.1.1/mongolstats/tests/testthat/test-utils.R |only mongolstats-0.2.0/mongolstats/DESCRIPTION | 20 mongolstats-0.2.0/mongolstats/MD5 | 146 +-- mongolstats-0.2.0/mongolstats/NAMESPACE | 81 - mongolstats-0.2.0/mongolstats/NEWS.md | 55 + mongolstats-0.2.0/mongolstats/R/aaa_px_helpers.R | 166 +++ mongolstats-0.2.0/mongolstats/R/cache.R | 283 +++--- mongolstats-0.2.0/mongolstats/R/data.R | 431 +++++----- mongolstats-0.2.0/mongolstats/R/geography.R | 121 +- mongolstats-0.2.0/mongolstats/R/http.R | 274 ++---- mongolstats-0.2.0/mongolstats/R/itms.R | 185 ++-- mongolstats-0.2.0/mongolstats/R/mongolstats-package.R | 4 mongolstats-0.2.0/mongolstats/R/names.R | 70 + mongolstats-0.2.0/mongolstats/R/options.R | 96 +- mongolstats-0.2.0/mongolstats/R/periods.R | 179 ++-- mongolstats-0.2.0/mongolstats/R/px_data.R | 213 ++-- mongolstats-0.2.0/mongolstats/R/px_index.R | 6 mongolstats-0.2.0/mongolstats/R/px_meta.R | 104 -- mongolstats-0.2.0/mongolstats/R/pxweb.R | 11 mongolstats-0.2.0/mongolstats/R/query.R | 310 +++---- mongolstats-0.2.0/mongolstats/R/search.R | 46 - mongolstats-0.2.0/mongolstats/R/sector.R | 21 mongolstats-0.2.0/mongolstats/R/utils.R | 31 mongolstats-0.2.0/mongolstats/R/validate.R |only mongolstats-0.2.0/mongolstats/R/zzz.R | 46 - mongolstats-0.2.0/mongolstats/build/vignette.rds |binary mongolstats-0.2.0/mongolstats/inst/doc/discovery.Rmd | 22 mongolstats-0.2.0/mongolstats/inst/doc/discovery.html | 8 mongolstats-0.2.0/mongolstats/inst/doc/environmental-surveillance.Rmd | 56 - mongolstats-0.2.0/mongolstats/inst/doc/environmental-surveillance.html | 200 ++-- mongolstats-0.2.0/mongolstats/inst/doc/mapping.Rmd | 26 mongolstats-0.2.0/mongolstats/inst/doc/mapping.html | 70 - mongolstats-0.2.0/mongolstats/inst/extdata/air_monthly_cached.csv.gz |only mongolstats-0.2.0/mongolstats/inst/extdata/px_index.json | 2 mongolstats-0.2.0/mongolstats/man/as_px_query.Rd | 2 mongolstats-0.2.0/mongolstats/man/mn_boundaries.Rd | 9 mongolstats-0.2.0/mongolstats/man/mn_boundaries_normalize.Rd | 10 mongolstats-0.2.0/mongolstats/man/mn_boundary_keys.Rd | 8 mongolstats-0.2.0/mongolstats/man/mn_fuzzy_join_by_name.Rd | 10 mongolstats-0.2.0/mongolstats/man/mn_join_by_name.Rd | 8 mongolstats-0.2.0/mongolstats/man/mongolstats-package.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_cache_enable.Rd | 64 - mongolstats-0.2.0/mongolstats/man/nso_data.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_dim_values.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_dims.Rd | 2 mongolstats-0.2.0/mongolstats/man/nso_fetch.Rd | 76 - mongolstats-0.2.0/mongolstats/man/nso_itms.Rd | 6 mongolstats-0.2.0/mongolstats/man/nso_itms_by_sector.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_itms_detail.Rd | 5 mongolstats-0.2.0/mongolstats/man/nso_itms_search.Rd | 55 - mongolstats-0.2.0/mongolstats/man/nso_package.Rd | 81 + mongolstats-0.2.0/mongolstats/man/nso_rebuild_px_index.Rd | 6 mongolstats-0.2.0/mongolstats/man/nso_search.Rd | 55 - mongolstats-0.2.0/mongolstats/man/nso_sectors.Rd | 8 mongolstats-0.2.0/mongolstats/man/nso_subsectors.Rd | 8 mongolstats-0.2.0/mongolstats/man/nso_table_meta.Rd | 2 mongolstats-0.2.0/mongolstats/man/nso_table_periods.Rd | 5 mongolstats-0.2.0/mongolstats/man/print.nso_query.Rd |only mongolstats-0.2.0/mongolstats/tests/testthat/_snaps |only mongolstats-0.2.0/mongolstats/tests/testthat/px_sectors |only mongolstats-0.2.0/mongolstats/tests/testthat/test-cache.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-endpoints.R | 78 + mongolstats-0.2.0/mongolstats/tests/testthat/test-helpers.R | 84 + mongolstats-0.2.0/mongolstats/tests/testthat/test-http.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-integration.R | 166 ++- mongolstats-0.2.0/mongolstats/tests/testthat/test-joins.R | 46 - mongolstats-0.2.0/mongolstats/tests/testthat/test-labels.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-map-selections.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-offline.R | 46 - mongolstats-0.2.0/mongolstats/tests/testthat/test-options.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-periods.R | 63 + mongolstats-0.2.0/mongolstats/tests/testthat/test-px-helpers.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-query.R |only mongolstats-0.2.0/mongolstats/tests/testthat/test-recorded-http.R | 88 +- mongolstats-0.2.0/mongolstats/tests/testthat/test-recorded-search.R | 29 mongolstats-0.2.0/mongolstats/tests/testthat/test-validate.R |only mongolstats-0.2.0/mongolstats/vignettes/discovery.Rmd | 22 mongolstats-0.2.0/mongolstats/vignettes/environmental-surveillance.Rmd | 56 - mongolstats-0.2.0/mongolstats/vignettes/mapping.Rmd | 26 83 files changed, 2468 insertions(+), 1959 deletions(-)
Title: Kernel Measure of Multi-Sample Dissimilarity
Description: Implementations of the kernel measure of multi-sample dissimilarity (KMD) between
several samples using K-nearest neighbor graphs and minimum spanning trees. The KMD
measures the dissimilarity between multiple samples, based on the observations from them.
It converges to the population quantity (depending on the kernel) which is between 0 and 1.
A small value indicates the multiple samples are from the same distribution, and a large value
indicates the corresponding distributions are different. The population quantity is 0 if and only
if all distributions are the same, and 1 if and only if all distributions are mutually singular.
The package also implements the tests based on KMD for H0: the M distributions are equal
against H1: not all the distributions are equal. Both permutation test and asymptotic test are
available. These tests are consistent against all alternatives where at least two samples have
different distributions. For more details on KMD and the associated tests, see Huan [...truncated...]
Author: Zhen Huang [aut, cre]
Maintainer: Zhen Huang <zh2395@columbia.edu>
Diff between KMD versions 0.1.0 dated 2022-10-06 and 0.1.1 dated 2026-07-09
DESCRIPTION | 12 ++++++------ MD5 | 5 +++-- NEWS.md |only R/KMD.R | 18 +++++++++++++++--- 4 files changed, 24 insertions(+), 11 deletions(-)
Title: Interpretable Contextual-Accountable and Responsible Machine
Learning
Description: A general-purpose framework for Interpretable Contextual-Accountable
and Responsible Machine Learning (ICARM) that works with any clean tabular
data across any application domain including healthcare, finance, social
science, business, and education. Automatically detects whether a prediction
task is binary classification, multi-class classification, or regression
from the target variable type. Provides a unified entry point icarm_fit()
supporting both interpretable learners (Classification and Regression Trees
(CART), logistic regression, linear regression, Generalized Additive Models
(GAM)) and extended learners (random forest, 'XGBoost', Support Vector
Machines (SVM)) with consistent interfaces for global and local model
explanation including approximate SHapley Additive exPlanations (SHAP)
values and Partial Dependence Profiles (PDPs), learning curve diagnostics,
group-level fairness auditing across protected attributes, probability
calibration, threshold analysis, multi-model comp [...truncated...]
Author: Olushina Olawale Awe [aut, cre],
Ludwigsburg University of Education [fnd]
Maintainer: Olushina Olawale Awe <olawaleawe@gmail.com>
Diff between icarm versions 0.1.0 dated 2026-06-30 and 0.2.0 dated 2026-07-09
DESCRIPTION | 25 + MD5 | 37 +- NAMESPACE | 66 ++--- R/icarm_core.R | 15 - R/icarm_fit.R | 2 R/icarm_learning_curve.R |only R/icarm_pdp.R |only R/icarm_shap.R |only R/plots.R | 502 ++++++++++++++++++++++++++++----------- R/utils_internal.R | 61 ++++ man/icarm_compare.Rd | 10 man/icarm_explain.Rd | 2 man/icarm_fairness.Rd | 8 man/icarm_fit.Rd | 10 man/icarm_learning_curve.Rd |only man/icarm_pdp.Rd |only man/icarm_plot_confusion.Rd | 2 man/icarm_plot_fairness.Rd | 9 man/icarm_plot_importance.Rd | 2 man/icarm_plot_learning_curve.Rd |only man/icarm_plot_pdp.Rd |only man/icarm_plot_shap.Rd |only man/icarm_shap.Rd |only man/icarm_thresholds.Rd | 5 24 files changed, 523 insertions(+), 233 deletions(-)
Title: Interact with 'Condor' from R via SSH
Description: Interact with 'Condor' from R via SSH connection. Files are first
uploaded from user machine to submitter machine, and the job is then submitted
from the submitter machine to 'Condor'. Functions are provided to submit,
list, and download 'Condor' jobs from R. 'Condor' is an open source
high-throughput computing software framework for distributed parallelization
of computationally intensive tasks.
Author: Arni Magnusson [aut, cre],
Nan Yao [aut],
Jemery Day [ctb],
Thomas Teears [ctb]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between condor versions 3.0.2 dated 2026-03-22 and 3.0.3 dated 2026-07-09
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS.md | 14 +++++++++++++- R/condor_dir.R | 30 ++++++++++++++++++++---------- R/condor_log.R | 2 +- R/ssh_exec_stdout.R | 2 +- R/summary.condor_log.R | 40 +++++++++++++++++++++++++++++++--------- man/condor-internal.Rd | 3 ++- man/condor_dir.Rd | 14 ++++++++------ man/ssh_exec_stdout.Rd | 2 +- man/summary.condor_log.Rd | 11 +++++++++-- 11 files changed, 101 insertions(+), 47 deletions(-)
Title: Bayesian MI-LASSO for Variable Selection on Multiply-Imputed
Datasets
Description: Provides a suite of Bayesian MI-LASSO for variable selection methods for multiply-imputed datasets. The package includes four Bayesian MI-LASSO models using shrinkage (Multi-Laplace, Horseshoe, ARD) and Spike-and-Slab (Spike-and-Laplace) priors, along with tools for model fitting via MCMC, four-step projection predictive variable selection, and hyperparameter calibration. Methods are suitable for both continuous and binary covariates under missing-at-random or missing-completely-at-random assumptions. See Zou, J., Wang, S. and Chen, Q. (2025), Bayesian MI-LASSO for Variable Selection on Multiply-Imputed Data. ArXiv, 2211.00114. <doi:10.48550/arXiv.2211.00114> for more details. We also provide the frequentist MI-LASSO function.
Author: Jungang Zou [aut, cre],
Sijian Wang [aut],
Qixuan Chen [aut]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Diff between BMIselect versions 1.0.3 dated 2025-08-25 and 1.0.4 dated 2026-07-09
DESCRIPTION | 23 - MD5 | 43 +-- NAMESPACE | 2 R/ARD.R | 192 ------------- R/BMIselect-package.R |only R/Horseshoe.R | 224 ---------------- R/Multi_Laplace.R | 180 ------------- R/RcppExports.R |only R/Spike_Laplace.R | 496 +----------------------------------- R/bmiselect.R | 110 +++++++ build/partial.rdb |only build/vignette.rds |binary inst/doc/Introduction.R | 8 inst/doc/Introduction.Rmd | 32 +- inst/doc/Introduction.html | 276 ++++++++++---------- man/ARD_mcmc.Rd | 10 man/BMIselect-package.Rd |only man/horseshoe_mcmc.Rd | 5 man/multi_laplace_mcmc.Rd | 3 man/spike_laplace_partially_mcmc.Rd | 16 - src |only vignettes/Introduction.Rmd | 32 +- 22 files changed, 404 insertions(+), 1248 deletions(-)
Title: Signature Analyzer for Targeted Sequencing
Description: SATS stands for Signature Analyzer for Targeted Sequencing and performs mutational signature analysis for targeted sequenced tumors. Unlike the canonical analysis of mutational signatures, SATS factorizes the mutation counts matrix into a panel context matrix (measuring the size of the targeted sequenced genome for each tumor in the unit of million base pairs (Mb)), a signature profile matrix, and a signature activity matrix. SATS also calculates the expected number of mutations attributed by a signature, namely signature burden, for each targeted sequenced tumor. For more details see Lee et al. (2024) <doi:10.1101/2023.05.18.23290188>.
Author: DongHyuk Lee [aut],
Bin Zhu [aut],
Bill Wheeler [cre]
Maintainer: Bill Wheeler <wheelerb@imsweb.com>
This is a re-admission after prior archival of version 1.0.6 dated 2025-08-18
Diff between SATS versions 1.0.6 dated 2025-08-18 and 1.0.10 dated 2026-07-09
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- R/L_matrix_Generation.R | 41 +++++++++++++++++++++++++++++------------ data/RefTMB.rda |binary data/SimData.rda |binary man/GeneratePanelSize.Rd | 33 +++++++++++++++++++-------------- 6 files changed, 61 insertions(+), 39 deletions(-)
Title: Landscape Utility Toolbox
Description: Provides utility functions for some of the less-glamorous tasks involved
in landscape analysis. It includes functions to coerce raster data to the
common 'tibble' format and vice versa, it helps with flexible reclassification
tasks of raster data and it provides a function to merge multiple raster.
Furthermore, 'landscapetools' helps landscape scientists to visualize their
data by providing optional themes and utility functions to plot single
landscapes, 'rasterstacks', '-bricks' and lists of raster.
Author: Marco Sciaini [aut] ,
Matthias Fritsch [aut],
Maximilian H.K. Hesselbarth [aut] ,
Jakub Nowosad [aut] ,
Anatoly Tsyplenkov [aut, cre] ,
Laura Graham [rev] ,
Jeffrey Hollister [rev]
Maintainer: Anatoly Tsyplenkov <s2@sent.com>
This is a re-admission after prior archival of version 0.5.0 dated 2019-02-25
Diff between landscapetools versions 0.5.0 dated 2019-02-25 and 0.6.3 dated 2026-07-09
DESCRIPTION | 44 - MD5 | 98 +- NAMESPACE | 3 NEWS.md | 23 R/landscapetools.R | 4 R/show_landscape.R | 196 +++-- R/show_shareplot.R |only R/theme_nlm.R | 1161 +++++++++++++++++-------------- R/util_as_integer.R | 6 R/util_binarize.R | 9 R/util_calcboundaries.R | 8 R/util_classify.R | 95 +- R/util_extract_multibuffer.R |only R/util_merge.R | 30 R/util_raster2tibble.R | 28 R/util_rescale.R | 7 R/util_tibble2raster.R | 1 R/util_w2cp.R | 3 R/util_writeESRI.R | 60 + build/vignette.rds |binary data/classified_landscape.rda |binary data/fractal_landscape.rda |binary data/gradient_landscape.rda |binary data/random_landscape.rda |binary inst/CITATION | 33 inst/doc/overview.R | 22 inst/doc/overview.Rmd | 32 inst/doc/overview.html | 432 ++++++----- man/classified_landscape.Rd | 4 man/figures/README-unnamed-chunk-1-1.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/fractal_landscape.Rd | 4 man/gradient_landscape.Rd | 4 man/landscapetools-package.Rd | 17 man/random_landscape.Rd | 4 man/show_landscape.Rd | 48 - man/show_shareplot.Rd |only man/theme_nlm.Rd | 279 +++++-- man/util_classify.Rd | 12 man/util_extract_multibuffer.Rd |only man/util_merge.Rd | 3 man/util_raster2tibble.Rd | 9 man/util_writeESRI.Rd | 10 src/get_jenkbreaks.c | 18 tests/testthat/test_showlandscape.R | 24 tests/testthat/test_themenlm.R | 6 tests/testthat/test_utilbinarize.R | 7 tests/testthat/test_utilclassify.R | 17 tests/testthat/test_utilmerge.R | 7 tests/testthat/test_utilrescale.R | 4 tests/testthat/test_writeESRI.R | 32 vignettes/overview.Rmd | 32 52 files changed, 1668 insertions(+), 1168 deletions(-)
More information about landscapetools at CRAN
Permanent link
Title: Zero-Modified Complex 'Tri-Parametric' Pearson Distribution for
Overdispersed Count Data
Description: Implements zero-modified versions of the Complex 'Tri-Parametric'
Pearson distribution for overdispersed count data. The package addresses
limitations of existing implementations when the parameter b approaches
zero. It provides distribution functions, maximum likelihood estimation,
and diagnostic tools for modeling count data with excess zeros. The
methodology is based on 'Rodriguez-Avi' and coauthors (2003)
<doi:10.1007/s00362-002-0134-7>.
Author: Rasheedat Oladoja [aut, cre]
Maintainer: Rasheedat Oladoja <roladoja@ttu.edu>
Diff between zmctp versions 0.1.0 dated 2026-04-03 and 0.1.1 dated 2026-07-09
DESCRIPTION | 7 ++++--- MD5 | 11 ++++++++--- NAMESPACE | 8 ++++++++ R/moments.R |only inst/doc/introduction.html | 6 +++--- man/mean_ctp.Rd |only man/mean_zictp.Rd |only tests/testthat |only tests/testthat.R |only 9 files changed, 23 insertions(+), 9 deletions(-)
Title: Genome Interval Arithmetic
Description: Read and manipulate genome intervals and signals. Provides
functionality similar to command-line tool suites within R, enabling
interactive analysis and visualization of genome-scale data. Riemondy
et al. (2017) <doi:10.12688/f1000research.11997.1>.
Author: Jay Hesselberth [aut, cre] ,
Kent Riemondy [aut] ,
RNA Bioscience Initiative [fnd, cph]
Maintainer: Jay Hesselberth <jay.hesselberth@gmail.com>
Diff between valr versions 0.9.1 dated 2026-01-11 and 0.10.0 dated 2026-07-09
valr-0.10.0/valr/DESCRIPTION | 12 valr-0.10.0/valr/MD5 | 186 +-- valr-0.10.0/valr/NAMESPACE | 7 valr-0.10.0/valr/NEWS.md | 31 valr-0.10.0/valr/R/bed12_to_exons.r | 40 valr-0.10.0/valr/R/bed_absdist.r | 7 valr-0.10.0/valr/R/bed_closest.r | 11 valr-0.10.0/valr/R/bed_cluster.r | 5 valr-0.10.0/valr/R/bed_coverage.r | 41 valr-0.10.0/valr/R/bed_fisher.r | 4 valr-0.10.0/valr/R/bed_genomecov.r | 4 valr-0.10.0/valr/R/bed_glyph.r | 104 + valr-0.10.0/valr/R/bed_intersect.r | 57 - valr-0.10.0/valr/R/bed_jaccard.r | 14 valr-0.10.0/valr/R/bed_map.r | 25 valr-0.10.0/valr/R/bed_merge.r | 23 valr-0.10.0/valr/R/bed_partition.r | 5 valr-0.10.0/valr/R/bed_projection.r | 4 valr-0.10.0/valr/R/bed_reldist.r | 7 valr-0.10.0/valr/R/bed_shift.r | 2 valr-0.10.0/valr/R/bed_shuffle.r | 3 valr-0.10.0/valr/R/bed_subtract.r | 31 valr-0.10.0/valr/R/bed_window.r | 30 valr-0.10.0/valr/R/bigwig.r |only valr-0.10.0/valr/R/db.r | 2 valr-0.10.0/valr/R/features.r | 6 valr-0.10.0/valr/R/read_bed.r | 6 valr-0.10.0/valr/R/reexport-cpp11bigwig.r | 2 valr-0.10.0/valr/R/reexport-tibble.r | 28 valr-0.10.0/valr/R/spacing.r | 4 valr-0.10.0/valr/R/strands.r | 4 valr-0.10.0/valr/R/utils.r | 8 valr-0.10.0/valr/R/valr-package.r | 3 valr-0.10.0/valr/README.md | 7 valr-0.10.0/valr/build/partial.rdb |binary valr-0.10.0/valr/build/vignette.rds |binary valr-0.10.0/valr/inst/doc/valr.R | 14 valr-0.10.0/valr/inst/doc/valr.Rmd | 24 valr-0.10.0/valr/inst/doc/valr.html | 554 +++++----- valr-0.10.0/valr/inst/example/bed_map.r | 10 valr-0.10.0/valr/man/bed12_to_exons.Rd | 22 valr-0.10.0/valr/man/bed_absdist.Rd | 10 valr-0.10.0/valr/man/bed_closest.Rd | 12 valr-0.10.0/valr/man/bed_cluster.Rd | 16 valr-0.10.0/valr/man/bed_complement.Rd | 16 valr-0.10.0/valr/man/bed_coverage.Rd | 35 valr-0.10.0/valr/man/bed_fisher.Rd | 10 valr-0.10.0/valr/man/bed_flank.Rd | 16 valr-0.10.0/valr/man/bed_genomecov.Rd | 16 valr-0.10.0/valr/man/bed_glyph.Rd | 5 valr-0.10.0/valr/man/bed_intersect.Rd | 41 valr-0.10.0/valr/man/bed_jaccard.Rd | 10 valr-0.10.0/valr/man/bed_makewindows.Rd | 10 valr-0.10.0/valr/man/bed_map.Rd | 27 valr-0.10.0/valr/man/bed_merge.Rd | 16 valr-0.10.0/valr/man/bed_partition.Rd | 16 valr-0.10.0/valr/man/bed_projection.Rd | 10 valr-0.10.0/valr/man/bed_random.Rd | 4 valr-0.10.0/valr/man/bed_reldist.Rd | 10 valr-0.10.0/valr/man/bed_shift.Rd | 16 valr-0.10.0/valr/man/bed_shuffle.Rd | 4 valr-0.10.0/valr/man/bed_slop.Rd | 16 valr-0.10.0/valr/man/bed_subtract.Rd | 25 valr-0.10.0/valr/man/bed_window.Rd | 28 valr-0.10.0/valr/man/bound_intervals.Rd | 10 valr-0.10.0/valr/man/create_introns.Rd | 8 valr-0.10.0/valr/man/create_tss.Rd | 8 valr-0.10.0/valr/man/create_utrs3.Rd | 8 valr-0.10.0/valr/man/create_utrs5.Rd | 8 valr-0.10.0/valr/man/db.Rd | 2 valr-0.10.0/valr/man/flip_strands.Rd | 10 valr-0.10.0/valr/man/interval_spacing.Rd | 10 valr-0.10.0/valr/man/read_bed.Rd | 12 valr-0.10.0/valr/man/read_genome.Rd | 6 valr-0.10.0/valr/man/read_vcf.Rd | 6 valr-0.10.0/valr/man/reexports-deprecated.Rd |only valr-0.10.0/valr/man/reexports.Rd | 6 valr-0.10.0/valr/man/valr-package.Rd | 3 valr-0.10.0/valr/src/coverage.cpp | 12 valr-0.10.0/valr/src/intersect.cpp | 8 valr-0.10.0/valr/src/subtract.cpp | 8 valr-0.10.0/valr/tests/testthat/_snaps/glyph.md | 14 valr-0.10.0/valr/tests/testthat/_snaps/glyph/intersect-glyph-is-ok.svg | 8 valr-0.10.0/valr/tests/testthat/_snaps/glyph/merge-glyph-is-ok.svg | 38 valr-0.10.0/valr/tests/testthat/test_bed12_to_exons.r | 65 + valr-0.10.0/valr/tests/testthat/test_bigwig.r |only valr-0.10.0/valr/tests/testthat/test_db.r |only valr-0.10.0/valr/tests/testthat/test_glyph.r | 62 - valr-0.10.0/valr/tests/testthat/test_intersect.r | 29 valr-0.10.0/valr/tests/testthat/test_map.r | 10 valr-0.10.0/valr/tests/testthat/test_read_bed.r | 7 valr-0.10.0/valr/tests/testthat/test_reexports.r |only valr-0.10.0/valr/tests/testthat/test_shuffle.r | 10 valr-0.10.0/valr/tests/testthat/test_stress.r | 37 valr-0.10.0/valr/tests/testthat/test_window.r | 2 valr-0.10.0/valr/vignettes/valr.Rmd | 24 valr-0.9.1/valr/tests/testthat/test-db.r |only 97 files changed, 1300 insertions(+), 847 deletions(-)
Title: Offline Taxonomic Name Matching Against Local Darwin Core
Snapshots
Description: Match taxonomic names against locally stored Darwin Core backbone
databases ('WFO', 'COL', 'GBIF', 'ITIS', 'NCBI Taxonomy', 'Open Tree of Life',
'WoRMS', 'Euro+Med', 'Species Fungorum', 'AlgaeBase', 'FishBase',
'SeaLifeBase', 'Reptile Database'). Provides offline fuzzy and exact
matching with synonym resolution, hybrid name detection, and a unified output
schema across all sources. All heavy computation runs in the 'vectra' C11
columnar engine.
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between taxify versions 0.2.12 dated 2026-06-30 and 0.3.4 dated 2026-07-09
taxify-0.2.12/taxify/R/add-conservation-status.R |only taxify-0.2.12/taxify/R/add-fish-traits.R |only taxify-0.2.12/taxify/R/add-invasive-status.R |only taxify-0.2.12/taxify/R/add-lizard-traits.R |only taxify-0.2.12/taxify/R/add-qualifier-info.R |only taxify-0.2.12/taxify/R/add-woodiness.R |only taxify-0.2.12/taxify/inst/exampledb/enrichment/conservation_status |only taxify-0.2.12/taxify/inst/exampledb/enrichment/fish_traits |only taxify-0.2.12/taxify/inst/exampledb/enrichment/lizard_traits |only taxify-0.2.12/taxify/inst/exampledb/enrichment/woodiness |only taxify-0.2.12/taxify/man/add_conservation_status.Rd |only taxify-0.2.12/taxify/man/add_fish_traits.Rd |only taxify-0.2.12/taxify/man/add_invasive_status.Rd |only taxify-0.2.12/taxify/man/add_lizard_traits.Rd |only taxify-0.2.12/taxify/man/add_qualifier_info.Rd |only taxify-0.2.12/taxify/man/add_woodiness.Rd |only taxify-0.3.4/taxify/DESCRIPTION | 16 taxify-0.3.4/taxify/MD5 | 443 taxify-0.3.4/taxify/NAMESPACE | 84 taxify-0.3.4/taxify/NEWS.md | 379 taxify-0.3.4/taxify/R/add-algae-traits.R | 15 taxify-0.3.4/taxify/R/add-alien-first-records.R | 8 taxify-0.3.4/taxify/R/add-amniote.R |only taxify-0.3.4/taxify/R/add-amphibio.R | 28 taxify-0.3.4/taxify/R/add-anage.R | 9 taxify-0.3.4/taxify/R/add-animaltraits.R | 9 taxify-0.3.4/taxify/R/add-arctic-traits.R |only taxify-0.3.4/taxify/R/add-arthropod-traits.R | 17 taxify-0.3.4/taxify/R/add-austraits.R |only taxify-0.3.4/taxify/R/add-avonet.R | 16 taxify-0.3.4/taxify/R/add-bacdive.R |only taxify-0.3.4/taxify/R/add-baseflor.R | 17 taxify-0.3.4/taxify/R/add-bee-ostwald.R |only taxify-0.3.4/taxify/R/add-bet.R |only taxify-0.3.4/taxify/R/add-beukhof.R |only taxify-0.3.4/taxify/R/add-bien.R |only taxify-0.3.4/taxify/R/add-birdbase.R |only taxify-0.3.4/taxify/R/add-blanchard.R |only taxify-0.3.4/taxify/R/add-brot.R |only taxify-0.3.4/taxify/R/add-chelonians.R |only taxify-0.3.4/taxify/R/add-combine.R |only taxify-0.3.4/taxify/R/add-common-names.R | 6 taxify-0.3.4/taxify/R/add-coral-traits.R |only taxify-0.3.4/taxify/R/add-diaz-traits.R | 8 taxify-0.3.4/taxify/R/add-disperse.R |only taxify-0.3.4/taxify/R/add-ecoflora.R | 16 taxify-0.3.4/taxify/R/add-edwards-phyto.R |only taxify-0.3.4/taxify/R/add-eive.R | 11 taxify-0.3.4/taxify/R/add-elton-traits.R | 17 taxify-0.3.4/taxify/R/add-eupolltrait.R |only taxify-0.3.4/taxify/R/add-eurobat.R |only taxify-0.3.4/taxify/R/add-fishbase.R | 15 taxify-0.3.4/taxify/R/add-fishmorph.R |only taxify-0.3.4/taxify/R/add-floraweb.R | 7 taxify-0.3.4/taxify/R/add-freshwater-insects-conus.R |only taxify-0.3.4/taxify/R/add-frugivoria.R |only taxify-0.3.4/taxify/R/add-fungal-traits.R | 9 taxify-0.3.4/taxify/R/add-fungalroot.R |only taxify-0.3.4/taxify/R/add-funguild.R | 9 taxify-0.3.4/taxify/R/add-globi.R |only taxify-0.3.4/taxify/R/add-globtherm.R |only taxify-0.3.4/taxify/R/add-griis.R |only taxify-0.3.4/taxify/R/add-groot.R |only taxify-0.3.4/taxify/R/add-gwdd.R |only taxify-0.3.4/taxify/R/add-homerange.R |only taxify-0.3.4/taxify/R/add-hosts.R |only taxify-0.3.4/taxify/R/add-huang-amph.R |only taxify-0.3.4/taxify/R/add-italic.R |only taxify-0.3.4/taxify/R/add-iucn.R |only taxify-0.3.4/taxify/R/add-kew-sid.R |only taxify-0.3.4/taxify/R/add-leda.R | 17 taxify-0.3.4/taxify/R/add-leptraits.R | 16 taxify-0.3.4/taxify/R/add-madin.R |only taxify-0.3.4/taxify/R/add-nesttrait.R |only taxify-0.3.4/taxify/R/add-nztd.R |only taxify-0.3.4/taxify/R/add-octocoral.R |only taxify-0.3.4/taxify/R/add-odonata.R |only taxify-0.3.4/taxify/R/add-pantheria.R | 9 taxify-0.3.4/taxify/R/add-parravicini.R |only taxify-0.3.4/taxify/R/add-pelagic.R |only taxify-0.3.4/taxify/R/add-phylacine.R |only taxify-0.3.4/taxify/R/add-pottier.R |only taxify-0.3.4/taxify/R/add-quimbayo.R |only taxify-0.3.4/taxify/R/add-ramond.R |only taxify-0.3.4/taxify/R/add-repttraits.R |only taxify-0.3.4/taxify/R/add-rimet-phyto.R |only taxify-0.3.4/taxify/R/add-saproxylic.R |only taxify-0.3.4/taxify/R/add-sealifebase.R |only 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Title: Propensity Score Methods for Survival Analysis
Description: Implements propensity score weighting methods for estimating
counterfactual survival functions, marginal hazard ratios, and
weighted Kaplan-Meier and cumulative risk curves in observational
studies with time-to-event outcomes. Supports binary and multiple
treatment groups with inverse probability of treatment weighting (IPW),
overlap weighting (OW), and average treatment effect on the treated
(ATT). Includes symmetric trimming (Crump extension) for extreme
propensity scores. Variance estimation via analytical M-estimation or
bootstrap. Methods based on Li et al. (2018) <doi:10.1080/01621459.2016.1260466>,
Li & Li (2019) <doi:10.1214/19-AOAS1282>, and Cheng et al. (2022)
<doi:10.1093/aje/kwac043>.
Author: Chengxin Yang [aut, cre],
Chao Cheng [aut],
Fan Li [aut],
Fan Li [aut]
Maintainer: Chengxin Yang <chengxin.yang@duke.edu>
Diff between PSsurvival versions 0.2.0 dated 2026-01-10 and 0.2.1 dated 2026-07-09
DESCRIPTION | 12 ++-- MD5 | 29 +++++---- NAMESPACE | 6 ++ NEWS.md | 9 +++ R/A00-surveff.R | 114 ++++++++++++++++++++++++++++++++++++++ R/B00-marCoxph.R | 102 ++++++++++++++++++++++++++++++++++ README.md | 2 inst/doc/PSsurvival-tutorial.R | 24 ++++++++ inst/doc/PSsurvival-tutorial.Rmd | 41 +++++++++++++ inst/doc/PSsurvival-tutorial.html | 55 ++++++++++++++++++ man/df.residual.marCoxph.Rd |only man/df.residual.surveff.Rd |only man/tidy.marCoxph.Rd |only man/tidy.surveff.Rd |only tests/testthat/test-marCoxph.R | 43 ++++++++++++++ tests/testthat/test-mice.R |only tests/testthat/test-surveff.R | 55 ++++++++++++++++++ vignettes/PSsurvival-tutorial.Rmd | 41 +++++++++++++ 18 files changed, 515 insertions(+), 18 deletions(-)
Title: Einstein Summation
Description: The summation notation suggested by Einstein (1916) <doi:10.1002/andp.19163540702> is a
concise mathematical notation that implicitly sums over repeated indices of n-dimensional arrays. Many ordinary
matrix operations (e.g. transpose, matrix multiplication, scalar product, 'diag()', trace etc.)
can be written using Einstein notation. The notation is particularly convenient for
expressing operations on arrays with more than two dimensions because the
respective operators ('tensor products') might not have a standardized name.
Author: Constantin Ahlmann-Eltze [aut, cre] ,
Koki Tsuyuzaki [aut]
Maintainer: Constantin Ahlmann-Eltze <artjom31415@googlemail.com>
Diff between einsum versions 0.1.2 dated 2023-08-28 and 0.2.0 dated 2026-07-09
einsum-0.1.2/einsum/build/einsum.pdf |only einsum-0.2.0/einsum/DESCRIPTION | 19 - einsum-0.2.0/einsum/MD5 | 15 - einsum-0.2.0/einsum/NAMESPACE | 1 einsum-0.2.0/einsum/NEWS.md | 9 einsum-0.2.0/einsum/R/einsum.R | 125 ++++++++-- einsum-0.2.0/einsum/R/einsum_generator.R | 258 ++++++++++++++------- einsum-0.2.0/einsum/R/einsum_parse.R |only einsum-0.2.0/einsum/build/stage23.rdb |binary einsum-0.2.0/einsum/tests/testthat/test-pairwise.R |only 10 files changed, 316 insertions(+), 111 deletions(-)
Title: Search and Retrieve Data from the BC Data Catalogue
Description: Search, query, and download tabular and
'geospatial' data from the British Columbia Data Catalogue
(<https://catalogue.data.gov.bc.ca/>). Search catalogue data records
based on keywords, data licence, sector, data format, and B.C.
government organization. View metadata directly in R, download many
data formats, and query 'geospatial' data available via the B.C.
government Web Feature Service ('WFS') using 'dplyr' syntax.
Author: Andy Teucher [aut, cre] ,
Sam Albers [aut, ctb] ,
Stephanie Hazlitt [aut, ctb] ,
Province of British Columbia [cph]
Maintainer: Andy Teucher <andy.teucher@gmail.com>
Diff between bcdata versions 0.5.2 dated 2026-02-07 and 0.5.3 dated 2026-07-09
DESCRIPTION | 14 - MD5 | 71 +++++----- NEWS.md | 6 R/bcdc_search.R | 32 +++- R/cql-geom-predicates.R | 12 + R/cql-translator.R | 2 R/utils-classes.R | 11 - build/vignette.rds |binary inst/doc/bcdata.Rmd | 28 ++- inst/doc/bcdata.html | 58 ++++---- inst/doc/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd | 42 ++--- inst/doc/efficiently-query-spatial-data-in-the-bc-data-catalogue.html | 52 +++---- inst/doc/explore-silviculture-data-using-bcdata.Rmd | 8 - inst/doc/explore-silviculture-data-using-bcdata.html | 18 +- inst/doc/local-filter.Rmd | 22 +-- inst/doc/local-filter.html | 24 +-- man/CQL.Rd | 2 man/bcdata-package.Rd | 5 man/bcdc_list_group_records.Rd | 2 man/bcdc_list_organization_records.Rd | 2 man/cql_geom_predicates.Rd | 2 tests/testthat/_snaps |only tests/testthat/test-query-geodata-filter.R | 32 ++++ vignettes/bcdata.Rmd | 28 ++- vignettes/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd | 42 ++--- vignettes/explore-silviculture-data-using-bcdata.Rmd | 8 - vignettes/local-filter.Rmd | 22 +-- vignettes/vignette-fig-air_zones-1.png |binary vignettes/vignette-fig-bbox-1.png |binary vignettes/vignette-fig-district_parks-1.png |binary vignettes/vignette-fig-districts-1.png |binary vignettes/vignette-fig-dp_join-1.png |binary vignettes/vignette-fig-map-larch-plantations-dpg-1.png |binary vignettes/vignette-fig-plot-dpg-1.png |binary vignettes/vignette-fig-regional_districts-1.png |binary vignettes/vignette-fig-unnamed-chunk-1-1.png |binary vignettes/vignette-fig-unnamed-chunk-3-1.png |binary 37 files changed, 303 insertions(+), 242 deletions(-)
Title: Local and Geographically Weighted Spatial Statistics Tools
Description: Provides researchers and educators with easy-to-learn, user friendly
tools for calculating key spatial statistics and for applying simple as well as
advanced methods of spatial analysis on real data. These include: Local Pearson
and Geographically Weighted Pearson Correlation Coefficients; Spatial Inequality
Measures (Gini coefficient, Spatial Gini, Location Quotient (LQ) and Focal
Location Quotient); Spatial Autocorrelation indices (Global and Local Moran's I);
several Geographically Weighted Regression techniques, including the
Geographically Weighted Zero-Inflated Poisson Regression; tools for computing
variables used in Spatial Interaction Models; and other spatial analysis tools
(other geographically weighted statistics). The local correlation tools were
originally developed to test for local multicollinearity among the explanatory
variables of local regression models and can also be used to examine the local
association between pairs of variables. The package also contains functi [...truncated...]
Author: Stamatis Kalogirou [aut, cre]
Maintainer: Stamatis Kalogirou <stamatis.science@gmail.com>
This is a re-admission after prior archival of version 0.2-10 dated 2024-04-01
Diff between lctools versions 0.2-10 dated 2024-04-01 and 0.3 dated 2026-07-09
lctools-0.2-10/lctools/inst/doc/SpatialAutocorrelation.pdf |only lctools-0.2-10/lctools/inst/doc/SpatialInequalities.pdf |only lctools-0.3/lctools/DESCRIPTION | 48 +++-- lctools-0.3/lctools/MD5 | 113 ++++++------- lctools-0.3/lctools/NEWS.md |only lctools-0.3/lctools/R/gw.glm.R | 50 +++-- lctools-0.3/lctools/R/gw.glm.bw.R | 4 lctools-0.3/lctools/R/gw.glm.mc.test.R | 8 lctools-0.3/lctools/R/gw.zi.R | 59 +++--- lctools-0.3/lctools/R/gw.zi.bw.R | 6 lctools-0.3/lctools/R/gw.zi.mc.test.R | 2 lctools-0.3/lctools/R/gwr.R | 42 ++-- lctools-0.3/lctools/R/gwr.bw.R | 4 lctools-0.3/lctools/R/l.moransI.R | 6 lctools-0.3/lctools/R/lat2w.R | 14 - lctools-0.3/lctools/R/lcorrel.R | 4 lctools-0.3/lctools/R/moransI.R | 2 lctools-0.3/lctools/R/moransI.w.R | 16 - lctools-0.3/lctools/R/random.test.data.R | 2 lctools-0.3/lctools/R/spGini.R | 2 lctools-0.3/lctools/R/w.matrix.R | 6 lctools-0.3/lctools/build/vignette.rds |binary lctools-0.3/lctools/data/GR.Municipalities.RData |binary lctools-0.3/lctools/data/VotesGR.RData |binary lctools-0.3/lctools/inst/doc/SpatialAutocorrelation.Rmd | 14 - lctools-0.3/lctools/inst/doc/SpatialAutocorrelation.html |only lctools-0.3/lctools/inst/doc/SpatialInequalities.Rmd | 8 lctools-0.3/lctools/inst/doc/SpatialInequalities.html |only lctools-0.3/lctools/man/FLQ.Rd | 2 lctools-0.3/lctools/man/VotesGR.Rd | 2 lctools-0.3/lctools/man/gw-variable.Rd | 2 lctools-0.3/lctools/man/gw.glm.Rd | 5 lctools-0.3/lctools/man/gw.glm.bw.Rd | 2 lctools-0.3/lctools/man/gw.glm.cv.Rd | 4 lctools-0.3/lctools/man/gw.glm.light.Rd | 2 lctools-0.3/lctools/man/gw.glm.mc.test.Rd | 2 lctools-0.3/lctools/man/gw.zi.Rd | 11 - lctools-0.3/lctools/man/gw.zi.bw.Rd | 4 lctools-0.3/lctools/man/gw.zi.cv.Rd | 8 lctools-0.3/lctools/man/gw.zi.light.Rd | 4 lctools-0.3/lctools/man/gw.zi.mc.test.Rd | 4 lctools-0.3/lctools/man/gwr.Rd | 5 lctools-0.3/lctools/man/gwr.bw.Rd | 2 lctools-0.3/lctools/man/gwr.cv.Rd | 4 lctools-0.3/lctools/man/l.moransI.Rd | 2 lctools-0.3/lctools/man/lat2w.Rd | 2 lctools-0.3/lctools/man/lcorrel.Rd | 2 lctools-0.3/lctools/man/lctools-package.Rd | 28 ++- lctools-0.3/lctools/man/mc_correl.Rd | 2 lctools-0.3/lctools/man/mc_spGini.Rd | 2 lctools-0.3/lctools/man/moransI.Rd | 2 lctools-0.3/lctools/man/moransI.v.Rd | 2 lctools-0.3/lctools/man/moransI.w.Rd | 4 lctools-0.3/lctools/man/spGini.Rd | 2 lctools-0.3/lctools/man/spGini.w.Rd | 4 lctools-0.3/lctools/tests |only lctools-0.3/lctools/vignettes/SpatialAutocorrelation.Rmd | 14 - lctools-0.3/lctools/vignettes/SpatialInequalities.Rmd | 8 58 files changed, 293 insertions(+), 254 deletions(-)
Title: Generalized Linear Latent Variable Models
Description: Analysis of multivariate data using generalized linear latent variable models (gllvm).
Estimation is performed using either the Laplace method, variational approximations, or extended variational approximations, implemented via TMB (Kristensen et al. (2016), <doi:10.18637/jss.v070.i05>).
Author: Jenni Niku [aut, cre],
Wesley Brooks [aut],
Riki Herliansyah [aut],
Francis K.C. Hui [aut],
Pekka Korhonen [aut],
Sara Taskinen [aut],
Bert van der Veen [aut],
David I. Warton [aut]
Maintainer: Jenni Niku <jenni.m.e.niku@jyu.fi>
Diff between gllvm versions 2.0.11 dated 2026-06-22 and 2.0.13 dated 2026-07-09
DESCRIPTION | 8 MD5 | 48 +-- NAMESPACE | 1 NEWS.md | 12 R/TMBtrait.R | 16 - R/getLV.gllvm.R | 2 R/getPredictErr.gllvm.R | 46 ++- R/gllvm.R | 19 - R/gllvm.TMB.R | 16 - R/gllvm.auxiliary.R | 54 +++- R/ordiplot.gllvm.R | 95 ++++--- R/predict.gllvm.R | 2 R/predictSR.gllvm.R | 1 R/se.gllvm.R | 7 build/vignette.rds |binary inst/doc/vignette1.html | 28 +- inst/doc/vignette2.html | 4 inst/doc/vignette3.html | 530 ++++++++++++++++++++--------------------- inst/doc/vignette4.html | 120 ++++----- inst/doc/vignette5.html | 4 inst/doc/vignette6.html | 4 inst/doc/vignette8.html | 270 ++++++++++---------- man/se.gllvm.Rd | 84 +++--- tests/testthat/test-fitgllvm.R | 41 ++- tests/testthat/test-glmmVA.R | 4 25 files changed, 773 insertions(+), 643 deletions(-)
Title: Download and Extract Data from US EPA's ECOTOX Database
Description: The US EPA ECOTOX database is a freely available database
with a treasure of aquatic and terrestrial ecotoxicological data.
As the online search interface doesn't come with an API, this
package provides the means to easily access and search the database
in R. To this end, all raw tables are downloaded from the EPA website
and stored in a local SQLite database <doi:10.1016/j.chemosphere.2024.143078>.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Diff between ECOTOXr versions 1.2.4 dated 2025-09-24 and 1.2.5 dated 2026-07-09
DESCRIPTION | 26 +- MD5 | 127 +++++++------- NAMESPACE | 1 NEWS.md | 156 +++++++++-------- R/cas_handlers.r | 15 + R/database_access.r | 52 +++-- R/helpers.r | 62 ++++--- R/imports.r | 8 R/init.r | 219 +++++++++++++++++------- R/online.r | 98 +++++++---- R/process_date.r | 6 R/process_numeric.r | 14 - R/process_unit.r | 14 - R/wrappers.r | 4 README.md | 242 +++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ecotox-schema.Rmd | 2 inst/doc/ecotox-schema.html | 2 inst/doc/reproducibility.Rmd | 2 inst/doc/reproducibility.html | 4 inst/doc/sanitising-ecotox.Rmd | 6 inst/doc/sanitising-ecotox.html | 34 +-- inst/doc/searching-ecotox.R | 2 inst/doc/searching-ecotox.Rmd | 2 inst/doc/searching-ecotox.html | 2 inst/openssl.cnf | 20 +- man/ECOTOXr-package.Rd | 7 man/as_date_ecotox.Rd | 14 - man/as_numeric_ecotox.Rd | 14 - man/as_unit_ecotox.Rd | 18 +- man/build_ecotox_sqlite.Rd | 10 - man/check_ecotox_availability.Rd | 17 + man/check_ecotox_build.Rd | 29 +-- man/check_ecotox_version.Rd | 27 +-- man/cite_ecotox.Rd | 17 + man/dbConnectEcotox.Rd | 17 + man/download_ecotox_data.Rd | 20 +- man/figures/graphical-abstract.png |binary man/figures/logo.png |binary man/figures/logo.svg | 325 +++++++++++-------------------------- man/get_ecotox_info.Rd | 17 + man/get_ecotox_url.Rd | 16 - man/get_path.Rd | 19 +- man/list_ecotox_fields.Rd | 17 + man/migrate_ecotox_path.Rd |only man/mixed_to_single_unit.Rd | 94 +++++----- man/process_ecotox_dates.Rd | 14 - man/process_ecotox_numerics.Rd | 14 - man/process_ecotox_units.Rd | 14 - man/search_ecotox.Rd | 6 man/websearch.Rd | 12 - man/websearch_comptox.Rd | 31 +-- tests/testthat.R | 8 tests/testthat/test_build.r | 13 + tests/testthat/test_cas.r | 152 ++++++++--------- tests/testthat/test_dev.r | 48 ++--- tests/testthat/test_exceptions.r | 9 + tests/testthat/test_local.r | 4 tests/testthat/test_online.r | 77 ++++++-- tests/testthat/test_sanitation.r | 270 +++++++++++++++--------------- vignettes/ecotox-schema.Rmd | 2 vignettes/reproducibility.Rmd | 2 vignettes/sanitising-ecotox.Rmd | 6 vignettes/searching-ecotox.Rmd | 2 65 files changed, 1291 insertions(+), 1191 deletions(-)
Title: Gibbs Samplers for Discrete Bayesian Spatiotemporal Models
Description: Takes Poisson or Binomial discrete spatial data and runs a Gibbs sampler for a variety of Spatiotemporal Conditional Autoregressive (CAR) models. Includes measures to prevent estimate over-smoothing through a restriction of model informativeness for select models. Also provides tools to load output and get median estimates. Implements methods from Besag, York, and Mollié (1991) "Bayesian image restoration, with two applications in spatial statistics" <doi:10.1007/BF00116466>, Gelfand and Vounatsou (2003) "Proper multivariate conditional autoregressive models for spatial data analysis" <doi:10.1093/biostatistics/4.1.11>, Quick et al. (2017) "Multivariate spatiotemporal modeling of age-specific stroke mortality" <doi:10.1214/17-AOAS1068>, and Quick et al. (2021) "Evaluating the informativeness of the Besag-York-Mollié CAR model" <doi:10.1016/j.sste.2021.100420>.
Author: David DeLara [aut, cre] ,
Centers for Disease Control and Prevention [aut, cph]
Maintainer: David DeLara <sfq1@cdc.gov>
Diff between RSTr versions 1.1.4 dated 2026-01-31 and 1.2.0 dated 2026-07-08
DESCRIPTION | 6 MD5 | 49 +++--- R/helper_get_params.R | 6 R/helper_print.R | 15 - R/helper_run_sampler.R | 9 - R/helper_update_sample.R | 8 - R/user_age_standardize.R | 40 ----- R/user_car.R | 11 + R/user_get_estimates.R | 110 ++++++++------ R/user_load_samples.R | 10 - R/user_split_sample_groups.R | 21 -- R/user_suppress_estimates.R | 29 +++ R/user_update_model.R | 17 -- build/partial.rdb |binary inst/doc/RSTr-agestandardize.html | 24 +-- inst/doc/RSTr-informativeness.html | 4 inst/doc/RSTr-reliability.html | 35 ++-- inst/doc/RSTr.Rmd | 69 ++++---- inst/doc/RSTr.html | 284 +++++++++++++++++-------------------- man/age_standardize.Rd | 4 man/car.Rd | 6 man/load_samples.Rd | 2 man/suppress_estimates.Rd | 2 src/update_G.cpp | 1 vignettes/RSTr.Rmd | 69 ++++---- vignettes/images/rstr-workflow.png |only 26 files changed, 423 insertions(+), 408 deletions(-)
Title: R Bindings for 'Automerge' 'CRDT' Library
Description: Provides R bindings to the 'Automerge' Conflict-free
Replicated Data Type ('CRDT') library. 'Automerge' enables automatic
merging of concurrent changes without conflicts, making it ideal for
distributed systems, collaborative applications, and offline-first
architectures. The approach of local-first software was proposed in
Kleppmann, M., Wiggins, A., van Hardenberg, P., McGranaghan, M. (2019)
<doi:10.1145/3359591.3359737>. This package supports all 'Automerge'
data types (maps, lists, text, counters) and provides both low-level
and high-level synchronization protocols for seamless interoperability
with 'JavaScript' and other 'Automerge' implementations.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Authors of the dependency Rust crates [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between automerge versions 0.4.0 dated 2026-02-26 and 0.5.0 dated 2026-07-08
automerge-0.4.0/automerge/src/automerge/rust/automerge-c/CMakeLists.txt |only automerge-0.4.0/automerge/src/automerge/rust/automerge-c/cmake |only automerge-0.5.0/automerge/DESCRIPTION | 13 automerge-0.5.0/automerge/MD5 | 163 - automerge-0.5.0/automerge/NAMESPACE | 3 automerge-0.5.0/automerge/NEWS.md | 6 automerge-0.5.0/automerge/R/constants.R | 4 automerge-0.5.0/automerge/R/import-standalone-defer.R |only automerge-0.5.0/automerge/R/methods.R | 3 automerge-0.5.0/automerge/README.md | 15 automerge-0.5.0/automerge/build/partial.rdb |binary automerge-0.5.0/automerge/build/vignette.rds |binary automerge-0.5.0/automerge/cleanup | 3 automerge-0.5.0/automerge/configure | 68 automerge-0.5.0/automerge/configure.win | 66 automerge-0.5.0/automerge/inst/AUTHORS | 51 automerge-0.5.0/automerge/inst/doc/automerge.R | 7 automerge-0.5.0/automerge/inst/doc/automerge.Rmd | 7 automerge-0.5.0/automerge/inst/doc/automerge.html | 31 automerge-0.5.0/automerge/inst/doc/crdt-concepts.html | 22 automerge-0.5.0/automerge/inst/doc/quick-reference.R | 9 automerge-0.5.0/automerge/inst/doc/quick-reference.Rmd | 20 automerge-0.5.0/automerge/inst/doc/quick-reference.html | 20 automerge-0.5.0/automerge/inst/doc/sync-protocol.html | 22 automerge-0.5.0/automerge/man/automerge-constants.Rd | 19 automerge-0.5.0/automerge/man/automerge-package.Rd | 5 automerge-0.5.0/automerge/src/automerge/rust/Cargo.lock | 168 - automerge-0.5.0/automerge/src/automerge/rust/automerge/Cargo.toml | 16 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/autocommit.rs | 59 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/automerge.rs | 82 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/change_graph.rs | 12 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/change_queue.rs |only automerge-0.5.0/automerge/src/automerge/rust/automerge/src/error.rs | 8 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/lib.rs | 3 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/op_set2/change.rs | 30 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/op_set2/change/batch.rs | 158 - automerge-0.5.0/automerge/src/automerge/rust/automerge/src/op_set2/op_set.rs | 8 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/op_set2/op_set/op_iter.rs | 2 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/op_set2/skip_list.rs | 3 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/patches/patch_log.rs | 236 + automerge-0.5.0/automerge/src/automerge/rust/automerge/src/sequence_tree.rs | 6 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/storage/load.rs | 4 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/sync.rs | 1296 +++++++++- automerge-0.5.0/automerge/src/automerge/rust/automerge/src/sync/message_builder.rs | 19 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/sync/state.rs | 77 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/transaction.rs | 499 +++ automerge-0.5.0/automerge/src/automerge/rust/automerge/src/transaction/inner.rs | 425 ++- automerge-0.5.0/automerge/src/automerge/rust/automerge/src/transaction/manual_transaction.rs | 426 --- automerge-0.5.0/automerge/src/automerge/rust/automerge/src/transaction/owned_transaction.rs |only automerge-0.5.0/automerge/src/automerge/rust/automerge/src/transaction/transactable.rs | 33 automerge-0.5.0/automerge/src/automerge/rust/automerge/src/types.rs | 29 automerge-0.5.0/automerge/src/automerge/rust/hexane/Cargo.toml | 9 automerge-0.5.0/automerge/src/automerge/rust/hexane/README.md | 290 ++ automerge-0.5.0/automerge/src/automerge/rust/hexane/src/aggregate.rs | 20 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/boolean.rs | 5 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/columndata.rs | 502 +++ automerge-0.5.0/automerge/src/automerge/rust/hexane/src/cursor.rs | 92 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/delta.rs | 6 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/encoder.rs | 52 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/lib.rs | 38 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/pack.rs | 25 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/raw.rs | 16 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/rle.rs | 13 automerge-0.5.0/automerge/src/automerge/rust/hexane/src/slab/tree.rs | 37 automerge-0.5.0/automerge/src/automerge/rust/vendor.tar.xz |binary automerge-0.5.0/automerge/tests/testthat/helper-cleanup.R |only automerge-0.5.0/automerge/tests/testthat/test-changes.R | 56 automerge-0.5.0/automerge/tests/testthat/test-convenience.R | 60 automerge-0.5.0/automerge/tests/testthat/test-cursors.R | 78 automerge-0.5.0/automerge/tests/testthat/test-document.R | 272 +- automerge-0.5.0/automerge/tests/testthat/test-edge-cases.R | 166 - automerge-0.5.0/automerge/tests/testthat/test-errors.R | 78 automerge-0.5.0/automerge/tests/testthat/test-marks.R | 146 - automerge-0.5.0/automerge/tests/testthat/test-methods.R | 150 - automerge-0.5.0/automerge/tests/testthat/test-objects.R | 412 +-- automerge-0.5.0/automerge/tests/testthat/test-recursive.R | 30 automerge-0.5.0/automerge/tests/testthat/test-sync.R | 120 automerge-0.5.0/automerge/tools/patch-rust-msrv.sh | 26 automerge-0.5.0/automerge/tools/patch-sources.sh | 352 -- automerge-0.5.0/automerge/tools/vendor-deps.sh | 42 automerge-0.5.0/automerge/vignettes/automerge.Rmd | 7 automerge-0.5.0/automerge/vignettes/quick-reference.Rmd | 20 82 files changed, 4949 insertions(+), 2327 deletions(-)
Title: Download Data from the World Inequality Database
Description: Download data from the online World Inequality Database directly
into R. Data are retrieved from WID.world's online data service. The World
Inequality Database is an extensive source on the historical evolution of
the distribution of income and wealth both within and between countries. It
relies on the combined effort of an international network of over a hundred
researchers covering more than seventy countries from all continents.
Author: Thomas Blanchet [aut],
Ignacio Flores [cre]
Maintainer: Ignacio Flores <stats@wid.world>
Diff between wid versions 0.0.1 dated 2026-02-20 and 0.0.2 dated 2026-07-08
DESCRIPTION | 17 MD5 | 20 R/check-args.R | 126 +++++ R/download-wid.R | 89 ++-- R/get-requests.R | 151 +++++-- README.md | 26 - man/download_wid.Rd | 38 - man/environment.Rd | 7 tests/testthat/test_download.R | 68 +-- tests/testthat/test_download_contract.R | 675 ++++++++++++++++++++++++++++++-- tests/testthat/test_get_requests.R | 7 11 files changed, 1016 insertions(+), 208 deletions(-)
Title: Get Silhouettes of Organisms from PhyloPic
Description: Work with the PhyloPic Web Service (<http://api-docs.phylopic.org/v2/>)
to fetch silhouette images of organisms. Includes functions for adding
silhouettes to both base R plots and ggplot2 plots.
Author: William Gearty [aut, cre] ,
Lewis A. Jones [aut] ,
Scott Chamberlain [ctb] ,
Martin R. Smith [ctb] ,
David L. Miller [ctb]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between rphylopic versions 1.6.0 dated 2025-11-18 and 1.7.0 dated 2026-07-08
DESCRIPTION | 18 +-- MD5 | 162 ++++++++++++++++-------------- NAMESPACE | 5 NEWS.md | 102 ++++++++++-------- R/add_phylopic.r | 7 - R/add_phylopic_base.r | 32 ++--- R/add_phylopic_legend.R | 57 +++++----- R/add_phylopic_tree.R | 40 +++---- R/browse_phylopic.R | 2 R/geom_phylopic.R | 83 ++++++--------- R/get_attribution.R | 26 ++-- R/get_phylopic.R | 58 ++++++++-- R/get_uuid.R | 3 R/igraph.R |only R/phylopic_utils.R | 14 +- R/pick_phylopic.R | 12 +- R/resolve_phylopic.R | 2 R/zzz.r | 83 ++++++++++----- README.md | 4 build/vignette.rds |binary inst/doc/a-getting-started.Rmd | 8 - inst/doc/a-getting-started.html | 14 +- inst/doc/b-advanced-ggplot.Rmd | 64 ++++++++++- inst/doc/b-advanced-ggplot.html | 94 +++++++++++++---- inst/doc/c-advanced-base.Rmd | 63 +++++++++++ inst/doc/c-advanced-base.html | 80 +++++++++++++- man/add_phylopic_legend.Rd | 41 +++---- man/add_phylopic_tree.Rd | 23 ++-- man/clear_phylopic_cache.Rd |only man/flip_phylopic.Rd | 6 - man/geom_phylopic.Rd | 4 man/phylopic_igraph.Rd |only man/recolor_phylopic.Rd | 6 - man/rotate_phylopic.Rd | 6 - man/rphylopic-package.Rd | 8 - man/scales.Rd | 4 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/igraph |only tests/testthat/helper-cache.R |only tests/testthat/helper-vdiffr.R | 2 tests/testthat/test-add_phylopic.R | 8 - tests/testthat/test-add_phylopic_base.R | 10 - tests/testthat/test-add_phylopic_legend.R | 24 ++-- tests/testthat/test-add_phylopic_tree.R | 45 ++++---- tests/testthat/test-browse_phylopic.R | 2 tests/testthat/test-caching.R |only tests/testthat/test-geom_phylopic.R | 144 ++++++++++++++------------ tests/testthat/test-get_attribution.R | 4 tests/testthat/test-get_phylopic.R | 2 tests/testthat/test-get_uuid.R | 2 tests/testthat/test-igraph.R |only tests/testthat/test-phylopic_utils.R | 10 - tests/testthat/test-pick_phylo.R | 7 - tests/testthat/test-resolve_phylopic.R | 10 - tests/testthat/test-save_phylopic.R | 2 vignettes/a-getting-started.Rmd | 8 - vignettes/b-advanced-ggplot.Rmd | 64 ++++++++++- vignettes/base-network-plot-1-1.png |only vignettes/base-network-plot-2-1.png |only vignettes/base-penguin-plot-1-1.png |binary vignettes/base-penguin-plot-2-1.png |binary vignettes/base-penguin-plot-3-1.png |binary vignettes/base-penguin-plot-4-1.png |binary vignettes/base-penguin-plot-5-1.png |binary vignettes/base-phylo-plot-3-1.png |binary vignettes/base-phylo-plot-4-1.png |binary vignettes/c-advanced-base.Rmd | 63 +++++++++++ vignettes/ggplot-network-plot-1-1.png |only vignettes/ggplot-penguin-plot-1-1.png |binary vignettes/ggplot-penguin-plot-2-1.png |binary vignettes/ggplot-penguin-plot-3-1.png |binary vignettes/ggplot-penguin-plot-3b-1.png |binary vignettes/ggplot-penguin-plot-4-1.png |binary vignettes/ggplot-penguin-plot-5-1.png |binary vignettes/ggplot-penguin-plot-6-1.png |binary vignettes/ggplot-phylo-plot-1-1.png |binary vignettes/ggplot-phylo-plot-2-1.png |binary vignettes/ggplot-phylo-plot-3-1.png |binary vignettes/ggplot-phylo-plot-4-1.png |binary vignettes/intro-base-plot-1.png |binary vignettes/intro-ggplot-plot-1.png |binary vignettes/intro-transform-plot-1.png |binary vignettes/source/_b-advanced-ggplot.Rmd | 53 ++++++++- vignettes/source/_c-advanced-base.Rmd | 48 ++++++++ 84 files changed, 1075 insertions(+), 564 deletions(-)
Title: Pricing Equity Derivatives with Extensions of Black-Scholes
Description: Algorithms to price American and European equity options,
convertible bonds and a variety of other financial derivatives. It
uses an extension of the usual Black-Scholes model in which jump to
default may occur at a probability specified by a power-law link
between stock price and hazard rate as found in the paper by
Takahashi, Kobayashi, and Nakagawa (2001)
<doi:10.3905/jfi.2001.319302>. We use ideas and techniques from
Andersen and Buffum (2002) <doi:10.2139/ssrn.355308> and Linetsky
(2006) <doi:10.1111/j.1467-9965.2006.00271.x>.
Author: Brian K. Boonstra [aut, cre]
Maintainer: Brian K. Boonstra <ragtop@boonstra.org>
Diff between ragtop versions 1.3.1 dated 2026-06-20 and 2.0.0 dated 2026-07-08
DESCRIPTION | 10 +- MD5 | 50 ++++++---- NAMESPACE | 2 NEWS.md | 10 +- R/calibration.R | 8 + R/greeks.R |only R/implicit.R | 47 ++++++++- R/instruments.R | 23 ++++ R/util.R | 9 + README.md | 36 +++++++ inst/doc/ragtop_convertibles_in_r.R | 23 +++- inst/doc/ragtop_convertibles_in_r.Rmd | 31 ++++-- inst/doc/ragtop_convertibles_in_r.html | 164 +++++++++++++++++---------------- man/ConvertibleBond-class.Rd | 2 man/CouponBond-class.Rd | 2 man/GREEK_NAMES.Rd |only man/GridPricedInstrument-class.Rd | 2 man/construct_descending_bumps.Rd |only man/find_greeks.Rd |only man/find_present_value.Rd | 5 - man/fit_variance_cumulation.Rd | 2 man/greek_by_fd.Rd |only man/grid_delta_gamma.Rd |only man/resolve_bumps.Rd |only man/robust_greek.Rd |only man/safe_reprice.Rd |only tests/testthat/test_bumps.R |only tests/testthat/test_convertibles.R | 1 tests/testthat/test_greeks.R |only tests/testthat/test_options.R | 30 ++++++ tests/testthat/test_reuse_instrument.R |only vignettes/ragtop_convertibles_in_r.Rmd | 31 ++++-- 32 files changed, 345 insertions(+), 143 deletions(-)
Title: Reading Portable Encapsulated Projects
Description: A PEP, or Portable Encapsulated Project, is a dataset that
subscribes to the PEP structure for organizing metadata. It is written using
a simple YAML + CSV format, it is your one-stop solution to metadata
management across data analysis environments. This package reads this
standardized project configuration structure into R.
Described in Sheffield et al. (2021) <doi:10.1093/gigascience/giab077>.
Author: Nathan Sheffield [aut, cph, cre],
Michal Stolarczyk [aut]
Maintainer: Nathan Sheffield <nathan@code.databio.org>
Diff between pepr versions 0.6.0 dated 2026-02-28 and 0.6.1 dated 2026-07-08
DESCRIPTION | 10 ++-- MD5 | 28 +++++++------ NEWS.md | 11 +++++ R/project.R | 14 ++++-- inst/doc/feature1_constantAttributes.html | 8 +-- inst/doc/feature2_impliedAttributes.html | 8 +-- inst/doc/feature3_derivedAttributes.html | 8 +-- inst/doc/feature4_derivedImpliedAttributes.html | 6 +- inst/doc/feature5_sampleSubtable.html | 50 ++++++++++++------------ inst/doc/feature6_amendments.html | 10 ++-- inst/doc/gettingStarted.R | 6 +- inst/doc/gettingStarted.html | 10 ++-- man/pullProject.Rd | 5 +- tests/testthat/helper-integration.R |only tests/testthat/test_integration.R |only tests/testthat/test_project.R | 11 ----- 16 files changed, 99 insertions(+), 86 deletions(-)
Title: Functions to Assess the Business Impact of Churn Prediction
Models
Description: Calculate and visualise the financial impact of using a
classification model, such as a churn model, to target customers. Provides
cost, revenue, profit and return-on-investment curves as a function of the
share of customers targeted, cumulative gains and lift, marginal profit per
bin, and confusion-matrix based payoff across probability thresholds. Also
includes 'ggplot2' 'autoplot()' methods and an interactive 'shiny'
application for exploring the results.
Author: Peer Christensen [aut, cre]
Maintainer: Peer Christensen <hr.pchristensen@gmail.com>
Diff between modelimpact versions 1.0.0 dated 2021-05-06 and 1.1.0 dated 2026-07-08
DESCRIPTION | 24 + MD5 | 68 ++++- NAMESPACE | 40 +++ NEWS.md | 23 + R/bootstrap_profit.R |only R/break_even.R |only R/compare_models.R |only R/confusion_payoff.R |only R/cost_revenue.R | 15 - R/cumulative_gains.R |only R/impact_summary.R |only R/lift_curve.R |only R/marginal_profit.R |only R/modelimpact-package.R |only R/payoff_grid.R |only R/plots.R |only R/profit.R | 15 - R/profit_thresholds.R | 27 +- R/roc_pr.R |only R/roi.R | 17 - R/run_app.R |only R/tornado.R |only README.md | 390 ++++++++++++++++++++----------- inst |only man/bootstrap_profit.Rd |only man/break_even.Rd |only man/compare_models.Rd |only man/confusion_payoff.Rd |only man/cost_revenue.Rd | 10 man/cumulative_gains.Rd |only man/figures/README-compare-plot-1.png |only man/figures/README-cost_rev_plot-1.png |binary man/figures/README-gains-plot-1.png |only man/figures/README-lift-plot-1.png |only man/figures/README-marginal-plot-1.png |only man/figures/README-profit-plot-1.png |binary man/figures/README-roi-plot-1.png |binary man/figures/README-threshold-plot-1.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/logo.png |only man/impact_summary.Rd |only man/lift_curve.Rd |only man/marginal_profit.Rd |only man/modelimpact-package.Rd |only man/modelimpact-plots.Rd |only man/payoff_grid.Rd |only man/profit.Rd | 10 man/profit_thresholds.Rd | 11 man/roc_pr.Rd |only man/roi.Rd | 17 + man/run_app.Rd |only man/tornado.Rd |only tests |only 53 files changed, 473 insertions(+), 194 deletions(-)
Title: Polished, Editable Tables and Statistical Results
Description: Sends supported 'R' objects to the 'Mellio' web app and creates
polished, editable statistical tables in 'R'. The 'mellio_open' interface
handles common hypothesis tests, model objects, model comparisons,
descriptive summaries, tabular data, plots, and image files. The
'melliotab' interface formats data frames, model summaries, correlation
matrices, and side-by-side comparison tables with APA-style numeric
formatting, confidence intervals, table notes, and optional significance
markers. Manual table helpers can copy or save 'melliotab' output as
'HTML', 'LaTeX', or 'Markdown' when file-based handoff is needed.
Payloads include package-version metadata to support reproducible
reporting and software citation.
Author: Melih Sahin [aut, cre]
Maintainer: Melih Sahin <nicomelpro@pm.me>
Diff between mellio versions 1.0.1 dated 2026-07-06 and 1.0.2 dated 2026-07-08
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/bridge-extract-lavaan.R | 23 ++++++++++++++++++++++- tests/testthat/test-bridge.R | 27 +++++++++++++++++++++++++++ 5 files changed, 62 insertions(+), 8 deletions(-)
Title: A Next-Generation Grammar of Interactive Graphics
Description: A modern visualization grammar that treats interactivity, animation,
and composable layouts as first-class concepts rather than afterthoughts.
Designed to address key limitations of existing grammars: native hover, click,
and zoom events, 'WebGL'-accelerated rendering for large datasets, built-in
multi-plot composition, and a token-based theming system. Renders to
interactive HTML widgets via 'D3.js' or static SVG from a single
declarative specification.
Author: Joash Joshua Ayo [aut, cre]
Maintainer: Joash Joshua Ayo <joashjoshua789@gmail.com>
Diff between glyph versions 0.1.0 dated 2026-07-06 and 0.1.1 dated 2026-07-08
DESCRIPTION | 9 MD5 | 31 NEWS.md | 12 R/render.R | 43 R/scales.R | 8 build/vignette.rds |binary inst/doc/comparison.R |only inst/doc/comparison.Rmd | 75 + inst/doc/comparison.html | 2378 ++++++++++++++++++++++++++++++++++++++++++ inst/doc/getting-started.R |only inst/doc/getting-started.Rmd |only inst/doc/getting-started.html |only inst/htmlwidgets/glyph.js | 1049 ++++++++++++++++-- inst/htmlwidgets/glyph.yaml | 2 man/animate.Rd | 100 - man/glyph-package.Rd | 1 man/scale.Rd | 5 vignettes/comparison.Rmd | 75 + vignettes/getting-started.Rmd |only 19 files changed, 3605 insertions(+), 183 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 1.2.14 dated 2026-01-23 and 1.2.17 dated 2026-07-08
DESCRIPTION | 8 MD5 | 42 inst/NEWS.Rd | 7 inst/doc/GenepopS.Rmd | 7 inst/doc/GenepopS.pdf |binary inst/doc/GenepopS.tex | 94 + inst/doc/all-menu-options.html | 37 inst/doc/bibliography.html | 47 inst/doc/code-maintenance-credits-contact-etc..html | 13 inst/doc/copyright.html | 13 inst/doc/evaluating-the-performance-of-inferences-for-isolation-by-distance.html | 13 inst/doc/installing-genepop-and-session-examples.html | 13 inst/doc/introduction.html | 21 inst/doc/libs/anchor-sections-1.1.0/anchor-sections-icon.css | 2 inst/doc/libs/gitbook-2.6.7/css/style.css | 2 inst/doc/methods.html | 27 inst/doc/sec-settings.html | 13 inst/doc/the-input-file.html | 13 src/F_est.cpp | 474 +++++----- src/GenepopS.cpp | 2 src/genepop.cpp | 2 tests/testthat/test_IBD.R | 8 22 files changed, 444 insertions(+), 414 deletions(-)
Title: Retrieve Data on European Union Law
Description: Access to data on European Union laws and court decisions made easy with pre-defined 'SPARQL' queries and 'GET' requests. See Ovadek (2021) <doi:10.1080/2474736X.2020.1870150> .
Author: Michal Ovadek [aut, cre, cph]
Maintainer: Michal Ovadek <michal.ovadek@gmail.com>
This is a re-admission after prior archival of version 0.4.9 dated 2026-02-06
Diff between eurlex versions 0.4.9 dated 2026-02-06 and 0.5.0 dated 2026-07-08
eurlex-0.4.9/eurlex/man/elx_curia_list.Rd |only eurlex-0.5.0/eurlex/DESCRIPTION | 6 ++--- eurlex-0.5.0/eurlex/MD5 | 21 +++++++++---------- eurlex-0.5.0/eurlex/NAMESPACE | 1 eurlex-0.5.0/eurlex/NEWS.md | 16 +++++++++++++- eurlex-0.5.0/eurlex/R/elx_curia_list.R | 5 ++-- eurlex-0.5.0/eurlex/R/elx_make_query.R | 2 - eurlex-0.5.0/eurlex/README.md | 2 - eurlex-0.5.0/eurlex/inst/doc/sparql-queries.R | 10 ++++----- eurlex-0.5.0/eurlex/inst/doc/sparql-queries.Rmd | 2 - eurlex-0.5.0/eurlex/tests/testthat/test-query.R | 25 +++++++++++++++++++++++ eurlex-0.5.0/eurlex/vignettes/sparql-queries.Rmd | 2 - 12 files changed, 65 insertions(+), 27 deletions(-)
Title: Symmetric Linear Regression Models for Small Samples
Description: Ordinary and modified statistics for symmetrical linear
regression models with small samples. The supported ordinary
statistics include Wald, score, likelihood ratio and gradient. The
modified statistics include score, likelihood ratio and gradient.
Diagnostic tools associated with the fitted model are implemented. For
more details see Medeiros and Ferrari (2017) <DOI:10.1111/stan.12107>.
Author: Ivonaldo S. da Silva-Junior [aut, cre],
Francisco Moises C. de Medeiros [aut] ,
Eliardo Costa [aut]
Maintainer: Ivonaldo S. da Silva-Junior <ivosilvestresjr@gmail.com>
Diff between SLRMss versions 1.0.0 dated 2025-07-09 and 1.1.0 dated 2026-07-08
DESCRIPTION | 8 ++++---- MD5 | 42 +++++++++++++++++++++--------------------- R/SLRMss.R | 24 ++++++++++++------------ R/coef.SLRMss.R | 2 +- R/datasets.R | 4 ++-- R/envplot.R | 4 ++-- R/fitted.SLRMss.R | 4 ++-- R/plot.SLRMss.R | 2 +- R/print.SLRMss.R | 2 +- R/residuals.SLRMss.R | 4 ++-- R/summary.SLRMss.R | 4 ++-- build/partial.rdb |binary man/SLRMss.Rd | 4 ++-- man/cheese.Rd | 2 +- man/coef.SLRMss.Rd | 2 +- man/envplot.Rd | 4 ++-- man/fitted.SLRMss.Rd | 4 ++-- man/orange.Rd | 2 +- man/plot.SLRMss.Rd | 2 +- man/print.SLRMss.Rd | 2 +- man/residuals.SLRMss.Rd | 4 ++-- man/summary.SLRMss.Rd | 4 ++-- 22 files changed, 65 insertions(+), 65 deletions(-)
Title: Regression under Interference in Connected Populations
Description: An implementation of generalized linear models (GLMs) for studying relationships among attributes in connected populations, where responses of connected units can be dependent, as introduced by Fritz et al. (2025) <doi:10.1080/01621459.2025.2565851>. 'igml' extends GLMs for independent responses to dependent responses and can be used for studying spillover in connected populations and other network-mediated phenomena.
Author: Cornelius Fritz [aut, cre],
Michael Schweinberger [aut]
Maintainer: Cornelius Fritz <corneliusfritz2010@gmail.com>
Diff between iglm versions 1.2.4 dated 2026-04-23 and 1.2.5 dated 2026-07-08
DESCRIPTION | 12 MD5 | 35 NAMESPACE | 1 R/helper.R | 5 R/iglm.r | 8 R/iglm_data.r | 1 R/init_terms.R | 58 + build/vignette.rds |binary inst/doc/model-terms.R |only inst/doc/model-terms.Rmd |only inst/doc/model-terms.html |only man/iglm.data.Rd | 1 man/iglm.data_generator.Rd | 1218 +++++++++++++++++----------------- man/iglm.object.generator.Rd | 708 ++++++++++--------- man/results.generator.Rd | 433 ++++++------ man/sampler.iglm.generator.Rd | 505 +++++++------- man/sampler.net.attr.generator.Rd | 240 +++--- src/change_statistics.cpp | 29 tests/testthat/test-check_iglm_term.R |only tests/testthat/test-printing.R | 17 vignettes/model-terms.Rmd |only 21 files changed, 1687 insertions(+), 1584 deletions(-)
Title: Generating Cluster Masks for Single-Cell Dimensional Reduction
Plots
Description: Implements a procedure to automatically generate 2D masks
for clusters on dimensional reduction plots from methods like
t-SNE (t-distributed stochastic neighbor embedding) or
UMAP (uniform manifold approximation and projection),
with a focus on single-cell RNA-sequencing data.
Author: Alexey Sergushichev [aut, cre]
Maintainer: Alexey Sergushichev <alsergbox@gmail.com>
Diff between mascarade versions 0.3.4 dated 2026-04-14 and 0.3.5 dated 2026-07-08
DESCRIPTION | 11 +- MD5 | 14 +-- NEWS.md | 3 R/generateMask.R | 8 + build/vignette.rds |binary inst/doc/mascarade-gallery.html | 165 +++++++++++++++++++------------------ inst/doc/mascarade-tutorial.html | 80 ++++++++--------- tests/testthat/test-generateMask.R | 25 +++++ 8 files changed, 174 insertions(+), 132 deletions(-)
Title: Toolkit for Analyzing Curricular Complexity
Description: Enables educational researchers and practitioners to calculate the curricular complexity of a plan of study, visualize its prerequisite structure at scale, and conduct customizable analyses. The original tool can be found at <https://curricularanalytics.org>. Additional functions to explore curriculum complexity from the literature are also included.
Author: David Reeping [aut, cre]
Maintainer: David Reeping <reepindp@ucmail.uc.edu>
Diff between CurricularComplexity versions 1.0.2 dated 2026-06-16 and 1.0.3 dated 2026-07-08
DESCRIPTION | 6 +++--- MD5 | 22 ++++++++++++---------- R/deferment_factor.R | 8 +++----- R/find_inbound_courses.R | 8 +++++++- R/find_number_of_free_terms.R |only R/find_outbound_courses.R | 8 +++++++- inst/doc/CurricularComplexity-demo.Rmd | 2 +- inst/doc/CurricularComplexity-demo.html | 13 +++++++------ man/deferment_factor.Rd | 9 ++++++++- man/find_inbound_courses.Rd | 4 +++- man/find_number_of_free_terms.Rd |only man/find_outbound_courses.Rd | 4 +++- vignettes/CurricularComplexity-demo.Rmd | 2 +- 13 files changed, 55 insertions(+), 31 deletions(-)
More information about CurricularComplexity at CRAN
Permanent link
Title: Access the 'IBGE' Aggregate Data API from 'R'
Description: 'Tidyverse'-friendly interface to the Brazilian Institute of Geography and Statistics ('IBGE') aggregate data 'API'
<https://servicodados.ibge.gov.br/api/docs/agregados?versao=3>. Query aggregates, variables, localities, periods, and metadata
from surveys and censuses conducted by 'IBGE'.
Author: Andre Leite [aut, cre],
Marcos Wasiliew [aut],
Hugo Vasconcelos [aut],
Carlos Amorim [aut],
Diogo Bezerra [aut]
Maintainer: Andre Leite <leite@castlab.org>
Diff between ibger versions 0.1.0 dated 2026-02-20 and 0.2.0 dated 2026-07-08
DESCRIPTION | 21 ++++++----- MD5 | 20 ++++++----- NEWS.md | 13 +++++++ R/chunking.R |only R/variaveis.R | 81 +++++++++++++++++++++++++++++++++++++-------- README.md | 51 ++++++++++++++++++---------- build/vignette.rds |binary man/figures/ibger_rpkg.svg |only man/ibge_explorer.Rd | 2 - man/ibge_variables.Rd | 21 +++++++++++ man/ibger-package.Rd | 8 +++- tests |only 12 files changed, 165 insertions(+), 52 deletions(-)
Title: Generalized Boosted Regression Models
Description: An implementation of extensions to Freund and Schapire's AdaBoost
algorithm and Friedman's gradient boosting machine. Includes regression
methods for least squares, absolute loss, t-distribution loss, quantile
regression, logistic, multinomial logistic, Poisson, Cox proportional hazards
partial likelihood, AdaBoost exponential loss, Huberized hinge loss, and
Learning to Rank measures (LambdaMart). Originally developed by Greg Ridgeway.
Newer version available at <https://github.com/gbm-developers/gbm3>.
Author: Greg Ridgeway [aut, cre] ,
Daniel Edwards [ctb],
Brian Kriegler [ctb],
Stefan Schroedl [ctb],
Harry Southworth [ctb],
Brandon Greenwell [ctb] ,
Bradley Boehmke [ctb] ,
Jay Cunningham [ctb],
GBM Developers [aut]
Maintainer: Greg Ridgeway <gridge@upenn.edu>
Diff between gbm versions 2.2.3 dated 2026-01-22 and 2.3.0 dated 2026-07-08
gbm-2.2.3/gbm/inst/doc/gbm.Rnw |only gbm-2.2.3/gbm/inst/doc/gbm.pdf |only gbm-2.2.3/gbm/inst/tinytest |only gbm-2.2.3/gbm/tests/tinytest.R |only gbm-2.2.3/gbm/vignettes/gbm.Rnw |only gbm-2.3.0/gbm/DESCRIPTION | 20 +-- gbm-2.3.0/gbm/MD5 | 101 +++++++++--------- gbm-2.3.0/gbm/NEWS.md | 49 ++++++++ gbm-2.3.0/gbm/R/gbm-internals.R | 16 +- gbm-2.3.0/gbm/R/gbm-package.R | 8 - gbm-2.3.0/gbm/R/gbm.R | 46 ++++---- gbm-2.3.0/gbm/R/gbm.fit.R | 8 - gbm-2.3.0/gbm/R/gbm.more.R | 101 +++++++++++++++--- gbm-2.3.0/gbm/R/gbm.object.R | 9 - gbm-2.3.0/gbm/R/gbmCrossVal.R | 117 ++++++++++----------- gbm-2.3.0/gbm/R/ir.measures.R | 3 gbm-2.3.0/gbm/R/plot.gbm.R | 43 +++++-- gbm-2.3.0/gbm/R/print.gbm.R | 18 +-- gbm-2.3.0/gbm/R/relative.influence.R | 4 gbm-2.3.0/gbm/R/utils.R | 9 - gbm-2.3.0/gbm/README.md | 18 +-- gbm-2.3.0/gbm/build/vignette.rds |binary gbm-2.3.0/gbm/inst/doc/gbm.R |only gbm-2.3.0/gbm/inst/doc/gbm.Rmd |only gbm-2.3.0/gbm/inst/doc/gbm.html |only gbm-2.3.0/gbm/man/gbm-package.Rd | 3 gbm-2.3.0/gbm/man/gbm.Rd | 20 +-- gbm-2.3.0/gbm/man/gbm.fit.Rd | 3 gbm-2.3.0/gbm/man/gbm.object.Rd | 3 gbm-2.3.0/gbm/man/gbmCrossVal.Rd | 13 -- gbm-2.3.0/gbm/man/plot.gbm.Rd | 7 - gbm-2.3.0/gbm/man/print.gbm.Rd | 4 gbm-2.3.0/gbm/src/adaboost.cpp | 4 gbm-2.3.0/gbm/src/coxph.cpp | 1 gbm-2.3.0/gbm/src/gbm-init.c | 4 gbm-2.3.0/gbm/src/gbm.h | 4 gbm-2.3.0/gbm/src/gbmentry.cpp | 37 ++++-- gbm-2.3.0/gbm/src/huberized.cpp | 13 +- gbm-2.3.0/gbm/src/locationm.cpp | 73 +++++++++++++ gbm-2.3.0/gbm/src/locationm.h | 2 gbm-2.3.0/gbm/src/multinomial.cpp | 49 +++++++- gbm-2.3.0/gbm/src/node.h | 5 gbm-2.3.0/gbm/src/node_search.cpp | 5 gbm-2.3.0/gbm/src/pairwise.cpp | 13 -- gbm-2.3.0/gbm/src/poisson.cpp | 16 +- gbm-2.3.0/gbm/src/quantile.cpp | 74 ++++++++----- gbm-2.3.0/gbm/src/quantile.h | 4 gbm-2.3.0/gbm/src/tree.cpp | 3 gbm-2.3.0/gbm/tests/testthat |only gbm-2.3.0/gbm/tests/testthat.R |only gbm-2.3.0/gbm/vignettes/gbm.Rmd |only gbm-2.3.0/gbm/vignettes/oobperf2.png |only gbm-2.3.0/gbm/vignettes/shrinkage-v-iterations.png |only 53 files changed, 603 insertions(+), 327 deletions(-)
Title: Interactive Virtualized Data Explorer Grid Widget
Description: Provides an interactive, virtualized data explorer widget for 'R'.
Built on 'React' (via 'reactR') and 'htmlwidgets', it offers column-type
detection, multi-value checkbox filtering, sorting, column visibility
toggling, virtual scrolling for large datasets, and a full-viewport modal.
Includes 'dtsmartr_launch()' with an interactive, zero-code file upload wizard
using 'datamods'. Widgets can be embedded in 'R Markdown' / 'Quarto' documents,
'Shiny' applications, or exported as standalone HTML files via 'save_dtsmartr()'.
Author: Nikhil Wagh [aut, cre]
Maintainer: Nikhil Wagh <nmw1986@gmail.com>
Diff between dtsmartr versions 0.2.0 dated 2026-06-30 and 0.3.0 dated 2026-07-08
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ NAMESPACE | 2 ++ R/dtsmartr.R | 14 ++++++++++---- inst/htmlwidgets/dtsmartr.js | 2 +- inst/htmlwidgets/dtsmartr.js.map | 2 +- tests/testthat/test-dtsmartr.R | 17 ++++++++++++----- 7 files changed, 37 insertions(+), 22 deletions(-)
Title: Deep Significance Clustering for Clinical Risk Stratification
Description: We provide an R implementation of Deep Significance Clustering (DICE), a self-supervised learning framework designed to identify clinically meaningful and risk-stratified patient subgroups from electronic health record (EHR) data. DICE jointly optimizes deep representation learning, clustering, and outcome prediction while enforcing statistical significance between predicted outcomes and cluster membership. This integrated optimization produces subgroups that are both clinically coherent and predictive, addressing a gap where traditional unsupervised clustering methods and supervised risk prediction models alone may fail to generate actionable clinical groupings. See Huang et al. (2021) <doi:10.1093/jamia/ocab203>.
Author: Sarah Ayton [aut, cre] ,
Yiye Zhang [aut]
Maintainer: Sarah Ayton <sarah.ayton@columbia.edu>
Diff between DICErClust versions 0.1.2 dated 2026-05-28 and 0.1.3 dated 2026-07-08
DESCRIPTION | 10 +++++----- MD5 | 7 ++++--- inst/CITATION |only inst/doc/DICEr-introduction.html | 4 ++-- inst/doc/heart-failure-example.html | 4 ++-- 5 files changed, 13 insertions(+), 12 deletions(-)