Title: Distributions Compatible with Automatic Differentiation by
'RTMB'
Description: Extends the functionality of the 'RTMB' <https://kaskr.r-universe.dev/RTMB> package by providing a collection of non-standard probability distributions compatible with automatic differentiation (AD). While 'RTMB' enables flexible and efficient modelling, including random effects, its built-in support is limited to standard distributions. The package adds additional AD-compatible distributions, broadening the range of models that can be implemented and estimated using 'RTMB'. Automatic differentiation and Laplace approximation are described in Kristensen et al. (2016) <doi:10.18637/jss.v070.i05>.
Author: Jan-Ole Fischer [aut, cre]
Maintainer: Jan-Ole Fischer <jan-ole.fischer@mailbox.org>
Diff between RTMBdist versions 1.0.2 dated 2026-03-16 and 1.0.3 dated 2026-04-01
DESCRIPTION | 10 +++++----- MD5 | 36 +++++++++++++++++++----------------- NAMESPACE | 6 ++++++ R/aaa_utils.R | 9 +++++---- R/skewt.R | 12 ++++++------ R/skewt2.R | 4 ++-- R/zibeta.R | 2 +- R/zibinom.R | 2 +- R/zigamma.R | 3 +-- R/ziinvgauss.R | 2 +- R/zilnorm.R | 2 +- R/zipois.R | 2 +- R/ziweibull.R |only R/zoibeta.R | 8 ++++++-- build/vignette.rds |binary inst/doc/Examples.html | 10 +++++----- inst/doc/distlist.Rmd | 10 ++++++---- inst/doc/distlist.html | 15 +++++++++------ man/ziweibull.Rd |only vignettes/distlist.Rmd | 10 ++++++---- 20 files changed, 81 insertions(+), 62 deletions(-)
Title: Tools for Working with Posterior Distributions
Description: Provides useful tools for both users and developers of packages
for fitting Bayesian models or working with output from Bayesian models.
The primary goals of the package are to:
(a) Efficiently convert between many different useful formats of
draws (samples) from posterior or prior distributions.
(b) Provide consistent methods for operations commonly performed on draws,
for example, subsetting, binding, or mutating draws.
(c) Provide various summaries of draws in convenient formats.
(d) Provide lightweight implementations of state of the art posterior
inference diagnostics. References: Vehtari et al. (2021)
<doi:10.1214/20-BA1221>.
Author: Paul-Christian Buerkner [aut, cre],
Jonah Gabry [aut],
Matthew Kay [aut],
Aki Vehtari [aut],
Mans Magnusson [ctb],
Rok Česnovar [ctb],
Ben Lambert [ctb],
Ozan Adiguezel [ctb],
Jacob Socolar [ctb],
Noa Kallioinen [ctb],
Teemu Saeilynoja [ctb]
Maintainer: Paul-Christian Buerkner <paul.buerkner@gmail.com>
Diff between posterior versions 1.6.1 dated 2025-02-27 and 1.7.0 dated 2026-04-01
posterior-1.6.1/posterior/man/figures/stanlogo.png |only posterior-1.7.0/posterior/DESCRIPTION | 21 - posterior-1.7.0/posterior/MD5 | 96 +++--- posterior-1.7.0/posterior/NAMESPACE | 19 + posterior-1.7.0/posterior/NEWS.md | 17 + posterior-1.7.0/posterior/R/extract_list_of_variable_arrays.R |only posterior-1.7.0/posterior/R/extract_variable_array.R | 39 ++ posterior-1.7.0/posterior/R/gpd.R | 141 +++++++-- posterior-1.7.0/posterior/R/misc.R | 28 + posterior-1.7.0/posterior/R/pareto_smooth.R | 152 +++++----- posterior-1.7.0/posterior/R/pit.R |only posterior-1.7.0/posterior/R/posterior-package.R | 2 posterior-1.7.0/posterior/R/rvar-.R | 1 posterior-1.7.0/posterior/R/rvar-print.R | 2 posterior-1.7.0/posterior/R/rvar-slice.R | 2 posterior-1.7.0/posterior/R/subset_draws.R | 12 posterior-1.7.0/posterior/R/uniformity_test.R |only posterior-1.7.0/posterior/R/weight_draws.R | 3 posterior-1.7.0/posterior/README.md | 98 +++--- posterior-1.7.0/posterior/build/partial.rdb |binary posterior-1.7.0/posterior/build/vignette.rds |binary posterior-1.7.0/posterior/inst/doc/pareto_diagnostics.html | 43 +- posterior-1.7.0/posterior/inst/doc/posterior.R | 12 posterior-1.7.0/posterior/inst/doc/posterior.html | 3 posterior-1.7.0/posterior/inst/doc/rvar.R | 2 posterior-1.7.0/posterior/inst/doc/rvar.html | 16 - posterior-1.7.0/posterior/man/extract_list_of_variable_arrays.Rd |only posterior-1.7.0/posterior/man/extract_variable.Rd | 8 posterior-1.7.0/posterior/man/extract_variable_array.Rd | 19 - posterior-1.7.0/posterior/man/extract_variable_matrix.Rd | 8 posterior-1.7.0/posterior/man/figures/logo.svg | 97 ------ posterior-1.7.0/posterior/man/gpdfit.Rd |only posterior-1.7.0/posterior/man/is_constant.Rd |only posterior-1.7.0/posterior/man/pareto_pit.Rd |only posterior-1.7.0/posterior/man/pgeneralized_pareto.Rd |only posterior-1.7.0/posterior/man/pit.Rd |only posterior-1.7.0/posterior/man/posterior-package.Rd | 5 posterior-1.7.0/posterior/man/print.rvar.Rd | 2 posterior-1.7.0/posterior/man/ps_convergence_rate.Rd | 1 posterior-1.7.0/posterior/man/ps_khat_threshold.Rd | 1 posterior-1.7.0/posterior/man/ps_min_ss.Rd | 1 posterior-1.7.0/posterior/man/ps_tail.Rd |only posterior-1.7.0/posterior/man/ps_tail_length.Rd | 1 posterior-1.7.0/posterior/man/qgeneralized_pareto.Rd |only posterior-1.7.0/posterior/man/rvar-slice.Rd | 2 posterior-1.7.0/posterior/man/subset_draws.Rd | 4 posterior-1.7.0/posterior/man/uniformity_test.Rd |only posterior-1.7.0/posterior/tests/testthat/test-draws-index.R | 5 posterior-1.7.0/posterior/tests/testthat/test-extract_list_of_variable_arrays.R |only posterior-1.7.0/posterior/tests/testthat/test-extract_variable_array.R | 130 +++++++- posterior-1.7.0/posterior/tests/testthat/test-gpd-distributions.R |only posterior-1.7.0/posterior/tests/testthat/test-gpdfit.R |only posterior-1.7.0/posterior/tests/testthat/test-log_sum_exp.R |only posterior-1.7.0/posterior/tests/testthat/test-pareto_pit.R |only posterior-1.7.0/posterior/tests/testthat/test-pareto_smooth.R | 61 +++- posterior-1.7.0/posterior/tests/testthat/test-pit.R |only posterior-1.7.0/posterior/tests/testthat/test-rvar-.R | 5 posterior-1.7.0/posterior/tests/testthat/test-subset_draws.R | 97 ++++++ posterior-1.7.0/posterior/tests/testthat/test-uniformity_test.R |only 59 files changed, 787 insertions(+), 369 deletions(-)
Title: Lagged Cross-Correlation Analysis of Environmental Time Series
Description: Tools for analysing lagged relationships between environmental variables and ecological or epidemiological time series. The package implements a workflow to aggregate meteorological data over multiple lagged intervals, fit regression models, including mixed-effect models using 'glmmTMB', for each lag window, and visualise varied models outcomes (effect strength and direction, model prediction error...) using cross-correlation maps ('CCM').
Author: Nicolas Moiroux [aut, cre] ,
Colombine Bartholomee [aut] ,
Paul Taconet [aut]
Maintainer: Nicolas Moiroux <nicolas.moiroux@ird.fr>
Diff between ecoXCorr versions 0.1.9 dated 2026-03-24 and 0.2.1 dated 2026-04-01
DESCRIPTION | 6 MD5 | 18 - NEWS.md |only R/funs.R | 284 +++++++++++++---------- README.md | 217 +++++++++++++---- build/partial.rdb |binary inst/CITATION | 2 man/aggregate_lagged_intervals.Rd | 25 +- man/ecoXCorr.Rd | 4 man/plotCCM.Rd | 8 tests/testthat/test-aggregate_lagged_intervals.R |only 11 files changed, 381 insertions(+), 183 deletions(-)
Title: Parse 'User-Agent' Strings
Description: Despite there being a section in RFC 7231
<https://datatracker.ietf.org/doc/html/rfc7231#section-5.5.3> defining a suggested
structure for 'User-Agent' headers this data is notoriously difficult
to parse consistently. Tools are provided that will take in user agent
strings and return structured R objects. This is a 'V8'-backed package
based on the 'ua-parser' project <https://github.com/ua-parser>.
Author: Bob Rudis [aut, cph],
Greg Hunt [aut, cre, cph],
Lindsey Simon [aut] ,
Tobie Langel [aut] ,
Colman Humphrey [ctb]
Maintainer: Greg Hunt <greg@firmansyah.com>
Diff between uaparserjs versions 0.3.6 dated 2026-03-23 and 0.3.7 dated 2026-04-01
uaparserjs-0.3.6/uaparserjs/inst/js/bld |only uaparserjs-0.3.6/uaparserjs/inst/js/index.js |only uaparserjs-0.3.6/uaparserjs/inst/js/newbuild |only uaparserjs-0.3.7/uaparserjs/DESCRIPTION | 18 +++--- uaparserjs-0.3.7/uaparserjs/LICENSE | 4 - uaparserjs-0.3.7/uaparserjs/MD5 | 31 ++++++------ uaparserjs-0.3.7/uaparserjs/NEWS.md | 9 +++ uaparserjs-0.3.7/uaparserjs/R/uaparser.R | 21 +++++++- uaparserjs-0.3.7/uaparserjs/R/uaparserjs-package.R | 22 +++++++- uaparserjs-0.3.7/uaparserjs/R/utils-mappers.R | 17 +++++- uaparserjs-0.3.7/uaparserjs/R/zzz.r | 14 +++++ uaparserjs-0.3.7/uaparserjs/inst/js/bundle.js | 9 --- uaparserjs-0.3.7/uaparserjs/inst/tinytest/test_exhaustive.R |only uaparserjs-0.3.7/uaparserjs/inst/tinytest/test_uaparserjs.R | 15 +++++ uaparserjs-0.3.7/uaparserjs/inst/tinytest/tests |only uaparserjs-0.3.7/uaparserjs/man/ua_parse.Rd | 4 - uaparserjs-0.3.7/uaparserjs/man/uaparserjs.Rd | 14 +++++ uaparserjs-0.3.7/uaparserjs/tests/tinytest.R | 14 +++++ 18 files changed, 147 insertions(+), 45 deletions(-)
Title: Execute and Control System Processes
Description: Tools to run system processes in the background. It can
check if a background process is running; wait on a background process
to finish; get the exit status of finished processes; kill background
processes. It can read the standard output and error of the processes,
using non-blocking connections. 'processx' can poll a process for
standard output or error, with a timeout. It can also poll several
processes at once.
Author: Gabor Csardi [aut, cre, cph] ,
Winston Chang [aut],
Posit Software, PBC [cph, fnd] ,
Ascent Digital Services [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between processx versions 3.8.6 dated 2025-02-21 and 3.8.7 dated 2026-04-01
DESCRIPTION | 17 - LICENSE | 2 MD5 | 141 +++++---- NEWS.md | 4 R/aaa-import-standalone-rstudio-detect.R | 78 ++--- R/aaassertthat.R | 39 +- R/assertions.R | 21 - R/base64.R | 1 R/cleancall.R | 1 R/client-lib.R | 20 - R/connections.R | 112 +++++-- R/initialize.R | 97 ++++-- R/io.R | 37 +- R/named_pipe.R | 12 R/on-load.R | 11 R/poll.R | 4 R/print.R | 6 R/process-helpers.R | 1 R/process.R | 343 ++++++++++++------------ R/run.R | 273 ++++++++++++++----- R/standalone-errors.R | 414 +++++++++++++++++++---------- R/supervisor.R | 49 +-- R/utils.R | 87 +++--- README.md | 21 - man/process.Rd | 31 +- src/cleancall.c | 6 src/init.c | 2 src/install.libs.R | 10 tests/testthat.R | 8 tests/testthat/_snaps/Darwin |only tests/testthat/_snaps/Linux |only tests/testthat/_snaps/Windows |only tests/testthat/_snaps/assertions.md |only tests/testthat/_snaps/fifo.md |only tests/testthat/_snaps/io.md |only tests/testthat/_snaps/process.md |only tests/testthat/_snaps/pty.md |only tests/testthat/_snaps/standalone-errors.md | 36 +- tests/testthat/_snaps/unix-sockets.md |only tests/testthat/_snaps/utils.md |only tests/testthat/helper.R | 92 +++++- tests/testthat/test-assertions.R | 62 ++-- tests/testthat/test-chr-io.R | 4 tests/testthat/test-cleanup.R | 3 tests/testthat/test-client-lib.R | 31 +- tests/testthat/test-connections.R | 27 - tests/testthat/test-env.R | 7 tests/testthat/test-err-output.R | 66 +++- tests/testthat/test-errors.R | 31 +- tests/testthat/test-extra-connections.R | 34 +- tests/testthat/test-fifo.R | 24 + tests/testthat/test-io.R | 47 +-- tests/testthat/test-kill-tree.R | 91 ++++-- tests/testthat/test-poll-connections.R | 12 tests/testthat/test-poll-curl.R | 65 +++- tests/testthat/test-poll-stress.R | 11 tests/testthat/test-poll.R | 92 ++++-- tests/testthat/test-poll2.R | 29 +- tests/testthat/test-poll3.R | 56 ++- tests/testthat/test-print.R | 2 tests/testthat/test-process.R | 40 ++ tests/testthat/test-ps-methods.R | 9 tests/testthat/test-pty.R | 34 +- tests/testthat/test-run.R | 53 ++- tests/testthat/test-set-std.R | 16 - tests/testthat/test-sigchld.R | 33 +- tests/testthat/test-standalone-errors.R | 199 ++++--------- tests/testthat/test-stdin.R | 6 tests/testthat/test-stress.R | 12 tests/testthat/test-unix-sockets.R | 62 +++- tests/testthat/test-utf8.R | 5 tests/testthat/test-utils.R | 31 +- tests/testthat/test-wait.R | 18 - tools |only 74 files changed, 1953 insertions(+), 1235 deletions(-)
Title: Download Data from the FAOSTAT Database
Description: Download Data from the FAOSTAT Database of the Food and Agricultural Organization (FAO) of the United Nations.
A list of functions to download statistics from FAOSTAT (database of the FAO <https://www.fao.org/faostat/>)
and WDI (database of the World Bank <https://data.worldbank.org/>), and to perform some harmonization operations.
Author: Michael C. J. [aut],
Markus Gesmann [aut],
Filippo Gheri [aut],
Paul Rougieux [aut, cre],
Sebastian Campbell [aut]
Maintainer: Paul Rougieux <paul.rougieux@gmail.com>
Diff between FAOSTAT versions 2.4.0 dated 2024-05-22 and 2.4.2 dated 2026-04-01
DESCRIPTION | 34 +++++- MD5 | 31 +++-- NAMESPACE | 3 R/faostat_bulk_download.R | 110 ++++++++++++++------- R/read_fao.R | 2 R/rest.R | 88 ++++++++++++++++ R/utils.R | 4 build/vignette.rds |binary data/FAOregionProfile.RData |binary inst/doc/FAOSTAT.R | 224 ++++++++++++++++++++++--------------------- inst/doc/FAOSTAT.Rnw | 58 ++++++++--- inst/doc/FAOSTAT.pdf |binary man/FAOSTAT-package.Rd | 12 ++ man/change_case.Rd | 4 man/download_faostat_bulk.Rd | 46 ++++++-- man/faostat_login.Rd |only vignettes/FAOSTAT.Rnw | 58 ++++++++--- 17 files changed, 463 insertions(+), 211 deletions(-)
Title: Analysis of Single-Cell Chromatin Data
Description: A framework for the analysis and exploration of single-cell chromatin data.
The 'Signac' package contains functions for quantifying single-cell chromatin data,
computing per-cell quality control metrics, dimension reduction
and normalization, visualization, and DNA sequence motif analysis.
Reference: Stuart et al. (2021) <doi:10.1038/s41592-021-01282-5>.
Author: Tim Stuart [aut, cre] ,
Avi Srivastava [aut] ,
Paul Hoffman [ctb] ,
Rahul Satija [ctb]
Maintainer: Tim Stuart <stuartt@a-star.edu.sg>
Diff between Signac versions 1.16.0 dated 2025-10-10 and 1.17.0 dated 2026-04-01
Signac-1.16.0/Signac/man/AddChromatinModule.Rd |only Signac-1.16.0/Signac/man/RunChromVAR.Rd |only Signac-1.17.0/Signac/DESCRIPTION | 29 Signac-1.17.0/Signac/MD5 | 262 ++-- Signac-1.17.0/Signac/NAMESPACE | 36 Signac-1.17.0/Signac/NEWS.md | 35 Signac-1.17.0/Signac/R/Signac-package.R |only Signac-1.17.0/Signac/R/data.R | 61 Signac-1.17.0/Signac/R/dimension_reduction.R | 93 - Signac-1.17.0/Signac/R/footprinting.R | 12 Signac-1.17.0/Signac/R/fragments.R | 40 Signac-1.17.0/Signac/R/generics.R | 161 +- Signac-1.17.0/Signac/R/genomeinfodb-methods.R | 12 Signac-1.17.0/Signac/R/granges-methods.R | 14 Signac-1.17.0/Signac/R/heatmaps.R | 4 Signac-1.17.0/Signac/R/iranges-methods.R | 78 - Signac-1.17.0/Signac/R/links.R | 22 Signac-1.17.0/Signac/R/mito.R | 14 Signac-1.17.0/Signac/R/motifs.R | 144 -- Signac-1.17.0/Signac/R/objects.R | 74 - Signac-1.17.0/Signac/R/ontology.R |only Signac-1.17.0/Signac/R/peaks.R | 22 Signac-1.17.0/Signac/R/preprocessing.R | 770 +++++++++++- Signac-1.17.0/Signac/R/quantification.R | 24 Signac-1.17.0/Signac/R/region-enrichment.R | 7 Signac-1.17.0/Signac/R/utilities.R | 129 -- Signac-1.17.0/Signac/R/visualization.R | 103 - Signac-1.17.0/Signac/README.md | 12 Signac-1.17.0/Signac/data/blacklist_ce10.rda |binary Signac-1.17.0/Signac/data/blacklist_ce11.rda |binary Signac-1.17.0/Signac/data/blacklist_dm3.rda |binary Signac-1.17.0/Signac/data/blacklist_dm6.rda |binary Signac-1.17.0/Signac/data/blacklist_hg19.rda |binary Signac-1.17.0/Signac/data/blacklist_hg38.rda |binary Signac-1.17.0/Signac/data/blacklist_hg38_unified.rda |binary Signac-1.17.0/Signac/data/blacklist_mm10.rda |binary Signac-1.17.0/Signac/man/ATACqc.Rd |only Signac-1.17.0/Signac/man/AddMotifs.Rd | 6 Signac-1.17.0/Signac/man/AggregateTiles.Rd | 4 Signac-1.17.0/Signac/man/AlleleFreq.Rd | 2 Signac-1.17.0/Signac/man/Annotation.Rd | 4 Signac-1.17.0/Signac/man/AnnotationPlot.Rd | 4 Signac-1.17.0/Signac/man/BigwigTrack.Rd | 2 Signac-1.17.0/Signac/man/BinarizeCounts.Rd | 4 Signac-1.17.0/Signac/man/CallPeaks.Rd | 8 Signac-1.17.0/Signac/man/Cells.Rd | 8 Signac-1.17.0/Signac/man/ChromatinAssay-class.Rd | 24 Signac-1.17.0/Signac/man/ClosestFeature.Rd | 4 Signac-1.17.0/Signac/man/ClusterClonotypes.Rd | 2 Signac-1.17.0/Signac/man/ConnectionsToLinks.Rd | 2 Signac-1.17.0/Signac/man/CountFragments.Rd | 10 Signac-1.17.0/Signac/man/CountsInRegion.Rd | 4 Signac-1.17.0/Signac/man/CoverageBrowser.Rd | 6 Signac-1.17.0/Signac/man/CoveragePlot.Rd | 8 Signac-1.17.0/Signac/man/CreateChromatinAssay.Rd | 26 Signac-1.17.0/Signac/man/CreateMotifMatrix.Rd | 8 Signac-1.17.0/Signac/man/CreateMotifObject.Rd | 6 Signac-1.17.0/Signac/man/DepthCor.Rd | 6 Signac-1.17.0/Signac/man/DownsampleFeatures.Rd | 4 Signac-1.17.0/Signac/man/EnrichedTerms.Rd |only Signac-1.17.0/Signac/man/Extend.Rd | 2 Signac-1.17.0/Signac/man/FRiP.Rd | 6 Signac-1.17.0/Signac/man/FeatureMatrix.Rd | 6 Signac-1.17.0/Signac/man/FindClonotypes.Rd | 8 Signac-1.17.0/Signac/man/FindMotifs.Rd | 6 Signac-1.17.0/Signac/man/FindTopFeatures.Rd | 10 Signac-1.17.0/Signac/man/FitMeanVar.Rd |only Signac-1.17.0/Signac/man/Footprint.Rd | 2 Signac-1.17.0/Signac/man/FractionCountsInRegion.Rd | 4 Signac-1.17.0/Signac/man/Fragment-class.Rd | 2 Signac-1.17.0/Signac/man/FragmentHistogram.Rd | 2 Signac-1.17.0/Signac/man/Fragments.Rd | 4 Signac-1.17.0/Signac/man/GRangesToString.Rd | 3 Signac-1.17.0/Signac/man/GenomeBinMatrix.Rd | 6 Signac-1.17.0/Signac/man/GetFootprintData.Rd | 14 Signac-1.17.0/Signac/man/GetFragmentData.Rd | 4 Signac-1.17.0/Signac/man/GetGRangesFromEnsDb.Rd | 2 Signac-1.17.0/Signac/man/GetIntersectingFeatures.Rd | 4 Signac-1.17.0/Signac/man/GetMotifData.Rd | 2 Signac-1.17.0/Signac/man/InsertionBias.Rd | 2 Signac-1.17.0/Signac/man/IntersectMatrix.Rd | 4 Signac-1.17.0/Signac/man/LinkPeaks.Rd | 16 Signac-1.17.0/Signac/man/LinkPlot.Rd | 4 Signac-1.17.0/Signac/man/Links.Rd | 2 Signac-1.17.0/Signac/man/MatchRegionStats.Rd | 4 Signac-1.17.0/Signac/man/Motif-class.Rd | 2 Signac-1.17.0/Signac/man/MotifCounts.Rd | 6 Signac-1.17.0/Signac/man/MotifPlot.Rd | 4 Signac-1.17.0/Signac/man/Motifs.Rd | 2 Signac-1.17.0/Signac/man/NucleosomeSignal.Rd | 4 Signac-1.17.0/Signac/man/PeakPlot.Rd | 6 Signac-1.17.0/Signac/man/PearsonResidualVar.Rd |only Signac-1.17.0/Signac/man/RegionHeatmap.Rd | 10 Signac-1.17.0/Signac/man/RegionMatrix.Rd | 4 Signac-1.17.0/Signac/man/RegionPlot.Rd | 8 Signac-1.17.0/Signac/man/RegionStats.Rd | 4 Signac-1.17.0/Signac/man/RunSVD.Rd | 43 Signac-1.17.0/Signac/man/RunTFIDF.Rd | 26 Signac-1.17.0/Signac/man/SetMotifData.Rd | 2 Signac-1.17.0/Signac/man/Signac-package.Rd | 16 Signac-1.17.0/Signac/man/SortIdents.Rd | 6 Signac-1.17.0/Signac/man/StringToGRanges.Rd | 5 Signac-1.17.0/Signac/man/TSSEnrichment.Rd | 4 Signac-1.17.0/Signac/man/TSSPlot.Rd | 9 Signac-1.17.0/Signac/man/TilePlot.Rd | 2 Signac-1.17.0/Signac/man/UnifyPeaks.Rd | 8 Signac-1.17.0/Signac/man/UpdatePath.Rd | 4 Signac-1.17.0/Signac/man/ValidateCells.Rd | 4 Signac-1.17.0/Signac/man/ValidateFragments.Rd | 4 Signac-1.17.0/Signac/man/ValidateHash.Rd | 2 Signac-1.17.0/Signac/man/VariantPlot.Rd | 2 Signac-1.17.0/Signac/man/as.ChromatinAssay.Rd | 16 Signac-1.17.0/Signac/man/atac_small.Rd | 8 Signac-1.17.0/Signac/man/blacklist_ce10.Rd | 3 Signac-1.17.0/Signac/man/blacklist_ce11.Rd | 3 Signac-1.17.0/Signac/man/blacklist_dm3.Rd | 3 Signac-1.17.0/Signac/man/blacklist_dm6.Rd | 3 Signac-1.17.0/Signac/man/blacklist_hg19.Rd | 3 Signac-1.17.0/Signac/man/blacklist_hg38.Rd | 3 Signac-1.17.0/Signac/man/blacklist_hg38_unified.Rd | 4 Signac-1.17.0/Signac/man/blacklist_mm10.Rd | 3 Signac-1.17.0/Signac/man/corSparse.Rd | 2 Signac-1.17.0/Signac/man/coverage-ChromatinAssay-method.Rd | 22 Signac-1.17.0/Signac/man/figures/lifecycle-deprecated.svg |only Signac-1.17.0/Signac/man/figures/lifecycle-experimental.svg |only Signac-1.17.0/Signac/man/figures/lifecycle-stable.svg |only Signac-1.17.0/Signac/man/figures/lifecycle-superseded.svg |only Signac-1.17.0/Signac/man/findOverlaps-methods.Rd | 22 Signac-1.17.0/Signac/man/granges-methods.Rd | 16 Signac-1.17.0/Signac/man/head.Fragment.Rd | 2 Signac-1.17.0/Signac/man/inter-range-methods.Rd | 22 Signac-1.17.0/Signac/man/nearest-methods.Rd | 24 Signac-1.17.0/Signac/man/seqinfo-methods.Rd | 12 Signac-1.17.0/Signac/man/subset.Fragment.Rd | 6 Signac-1.17.0/Signac/man/subset.Motif.Rd | 6 Signac-1.17.0/Signac/man/theme_browser.Rd | 2 Signac-1.17.0/Signac/tests/testthat/test-dimreduc.R | 4 Signac-1.17.0/Signac/tests/testthat/test-preprocessing.R | 2 138 files changed, 1777 insertions(+), 1030 deletions(-)
Title: Convert Gene IDs Between Each Other and Fetch Annotations from
Biomart
Description: Gene Symbols or Ensembl Gene IDs are converted using the Bimap interface in 'AnnotationDbi' in convertId2() but
that function is only provided as fallback mechanism for the most common use cases in data analysis. The main function
in the package is convert.bm() which queries BioMart using the full capacity of the API provided through the
'biomaRt' package. Presets and defaults are provided for convenience but all "marts", "filters" and "attributes"
can be set by the user. Function convert.alias() converts Gene Symbols to Aliases and vice versa and function likely_symbol()
attempts to determine the most likely current Gene Symbol.
Author: Vidal Fey [aut, cre],
Henrik Edgren [aut]
Maintainer: Vidal Fey <vidal.fey@gmail.com>
Diff between convertid versions 0.2.1 dated 2026-02-05 and 0.3.0 dated 2026-04-01
convertid-0.2.1/convertid/R/get_symbol_aliases.R |only convertid-0.3.0/convertid/DESCRIPTION | 13 +++--- convertid-0.3.0/convertid/MD5 | 19 ++++++--- convertid-0.3.0/convertid/NAMESPACE | 1 convertid-0.3.0/convertid/R/convertId2.R | 6 ++- convertid-0.3.0/convertid/R/likely_symbol.R |only convertid-0.3.0/convertid/R/unify_gene_ids.R |only convertid-0.3.0/convertid/man/convert.bm.Rd | 3 + convertid-0.3.0/convertid/man/likely_symbol.Rd | 46 ++++++++++++++++++++--- convertid-0.3.0/convertid/man/unify_gene_ids.Rd |only convertid-0.3.0/convertid/tests |only 11 files changed, 68 insertions(+), 20 deletions(-)
Title: Classify Names by Gender, U.S. Ethnicity, and Leaf Nationality
Description: Functions to use the 'NamePrism' API <https://www.name-prism.com/api> or 'NamSor' API v2 <https://namsor.app/> for classifying names based on gender, 6 U.S. ethnicities, or 39 leaf nationalities. Updated to work with current API endpoints.
Author: Charles Crabtree [aut, cre],
Volha Chykina [aut],
Micah Gell-Redman [aut],
Christian Chacua [aut]
Maintainer: Charles Crabtree <charles.crabtree@monash.edu>
This is a re-admission after prior archival of version 1.0.0 dated 2017-11-04
Diff between nomine versions 1.0.0 dated 2017-11-04 and 1.0.2 dated 2026-04-01
DESCRIPTION | 27 ++++---- LICENSE | 4 - MD5 | 18 ++--- R/ethnicites.R | 56 +++++++++++++----- R/gender.r | 26 ++++---- R/nationalities.r | 95 +++++++++++++++++-------------- README.md | 143 ++++++++++++++++++++++++++++++++++++++++++----- man/get_ethnicities.Rd | 30 +++++++-- man/get_gender.Rd | 20 +++--- man/get_nationalities.Rd | 28 +++++++-- 10 files changed, 315 insertions(+), 132 deletions(-)
Title: A Multi-Modal Simulator for Spearheading Single-Cell Omics
Analyses
Description: A novel, multi-modal simulation engine for
studying dynamic cellular processes at single-cell resolution. 'dyngen'
is more flexible than current single-cell simulation engines. It
allows better method development and benchmarking, thereby stimulating
development and testing of novel computational methods. Cannoodt et
al. (2021) <doi:10.1038/s41467-021-24152-2>.
Author: Robrecht Cannoodt [aut, cre, cph] ,
Wouter Saelens [aut]
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between dyngen versions 1.1.0 dated 2026-03-17 and 1.1.1 dated 2026-04-01
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/8_convert.R | 12 ++++++++---- build/vignette.rds |binary man/convert.Rd | 12 ++++++++---- 6 files changed, 28 insertions(+), 16 deletions(-)
Title: Single-Case Data Analyses for Single and Multiple Baseline
Designs
Description: A collection of procedures for analysing, visualising,
and managing single-case data. Multi-phase and multi-baseline designs are
supported. Analysing methods include regression models
(multilevel, multivariate, bayesian), between case standardised mean difference,
overlap indices ('PND', 'PEM', 'PAND', 'NAP', 'PET', 'tau-u', 'IRD', 'baseline corrected tau',
'CDC'), and randomization tests. Data preparation functions support outlier
detection, handling missing values, scaling, and custom transformations.
An export function helps to generate html, word, and latex tables in a
publication friendly style. A shiny app allows to use scan in a graphical
user interface.
More details can be found in the online book 'Analyzing single-case data with
R and scan', Juergen Wilbert (2026)
<https://jazznbass.github.io/scan-Book/>.
Author: Juergen Wilbert [cre, aut] ,
Timo Lueke [aut]
Maintainer: Juergen Wilbert <juergen.wilbert@uni-muenster.de>
Diff between scan versions 0.67.0 dated 2025-09-11 and 0.68.0 dated 2026-04-01
scan-0.67.0/scan/man/example_data.Rd |only scan-0.68.0/scan/DESCRIPTION | 17 scan-0.68.0/scan/MD5 | 332 ++++++++-------- scan-0.68.0/scan/NAMESPACE | 2 scan-0.68.0/scan/NEWS.md | 25 + scan-0.68.0/scan/R/add_l2.R | 43 +- scan-0.68.0/scan/R/anova.R | 17 scan-0.68.0/scan/R/as.data.frame.scdf.R | 7 scan-0.68.0/scan/R/autocorr.R | 9 scan-0.68.0/scan/R/batch_apply.R | 10 scan-0.68.0/scan/R/between_smd.R | 10 scan-0.68.0/scan/R/bplm.R | 44 +- scan-0.68.0/scan/R/cdc.R | 5 scan-0.68.0/scan/R/coefficents.sc_plm.R | 4 scan-0.68.0/scan/R/convert.R | 14 scan-0.68.0/scan/R/corrected_tau.R | 73 ++- scan-0.68.0/scan/R/describe.R | 8 scan-0.68.0/scan/R/design.R | 10 scan-0.68.0/scan/R/estimate_design.R | 33 + scan-0.68.0/scan/R/export.R | 8 scan-0.68.0/scan/R/export.sc_desc.R | 5 scan-0.68.0/scan/R/fetch.R | 35 + scan-0.68.0/scan/R/fill_missing.R | 156 +++++-- scan-0.68.0/scan/R/hplm.R | 61 ++- scan-0.68.0/scan/R/importer-gadget.R | 37 + scan-0.68.0/scan/R/inherit_roxygen_descriptions.R | 10 scan-0.68.0/scan/R/ird.R | 5 scan-0.68.0/scan/R/mplm.R | 10 scan-0.68.0/scan/R/nap.R | 9 scan-0.68.0/scan/R/outlier.R | 3 scan-0.68.0/scan/R/overlap.R | 6 scan-0.68.0/scan/R/pand.R | 5 scan-0.68.0/scan/R/pem.R | 12 scan-0.68.0/scan/R/pet.R | 10 scan-0.68.0/scan/R/plm.R | 22 - scan-0.68.0/scan/R/plm_contrasts.R | 7 scan-0.68.0/scan/R/pnd.R | 8 scan-0.68.0/scan/R/power_test.R | 8 scan-0.68.0/scan/R/print-export-plm.R | 1 scan-0.68.0/scan/R/private_check.R | 21 - scan-0.68.0/scan/R/private_kendall.R | 2 scan-0.68.0/scan/R/private_options.R | 2 scan-0.68.0/scan/R/rand_test.R | 20 - scan-0.68.0/scan/R/random_scdf.R | 12 scan-0.68.0/scan/R/rci.R | 12 scan-0.68.0/scan/R/read_scdf.R | 5 scan-0.68.0/scan/R/rescale.R | 7 scan-0.68.0/scan/R/sample_names.R | 14 scan-0.68.0/scan/R/scan-Data.R | 156 +++++-- scan-0.68.0/scan/R/scan-package.R | 3 scan-0.68.0/scan/R/scdf-functions.R | 39 + scan-0.68.0/scan/R/scdf.R | 36 + scan-0.68.0/scan/R/select_cases.R | 10 scan-0.68.0/scan/R/select_phases.R | 25 + scan-0.68.0/scan/R/set_vars.R | 8 scan-0.68.0/scan/R/shinyscan.R | 4 scan-0.68.0/scan/R/smd.R | 6 scan-0.68.0/scan/R/subset.scdf.R | 7 scan-0.68.0/scan/R/summary.scdf.R | 13 scan-0.68.0/scan/R/tau_u.R | 12 scan-0.68.0/scan/R/transform.scdf.R | 4 scan-0.68.0/scan/R/trend.R | 21 - scan-0.68.0/scan/R/write_scdf.R | 13 scan-0.68.0/scan/README.md | 48 +- scan-0.68.0/scan/data/Beretvas2008.rda |binary scan-0.68.0/scan/data/Borckardt2014.rda |binary scan-0.68.0/scan/data/Grosche2011.rda |binary scan-0.68.0/scan/data/Grosche2014.rda |binary scan-0.68.0/scan/data/GruenkeWilbert2014.rda |binary scan-0.68.0/scan/data/Huber2014.rda |binary scan-0.68.0/scan/data/Huitema2000.rda |binary scan-0.68.0/scan/data/Leidig2018.rda |binary scan-0.68.0/scan/data/Leidig2018_l2.rda |binary scan-0.68.0/scan/data/Lenz2013.rda |binary scan-0.68.0/scan/data/Parker2007.rda |binary scan-0.68.0/scan/data/Parker2009.rda |binary scan-0.68.0/scan/data/Parker2009b.rda |binary scan-0.68.0/scan/data/Parker2011.rda |binary scan-0.68.0/scan/data/Parker2011b.rda |binary scan-0.68.0/scan/data/SSDforR2017.rda |binary scan-0.68.0/scan/data/Tarlow2017.rda |binary scan-0.68.0/scan/data/Waddell2011.rda |binary scan-0.68.0/scan/data/byHeart2011.rda |binary scan-0.68.0/scan/data/exampleA1B1A2B2.rda |binary scan-0.68.0/scan/data/exampleA1B1A2B2_zvt.rda |binary scan-0.68.0/scan/data/exampleAB.rda |binary scan-0.68.0/scan/data/exampleABAB.rda |binary scan-0.68.0/scan/data/exampleABC.rda |binary scan-0.68.0/scan/data/exampleABC_150.rda |binary scan-0.68.0/scan/data/exampleABC_outlier.rda |binary scan-0.68.0/scan/data/exampleAB_50.l2.rda |binary scan-0.68.0/scan/data/exampleAB_50.rda |binary scan-0.68.0/scan/data/exampleAB_add.rda |binary scan-0.68.0/scan/data/exampleAB_decreasing.rda |binary scan-0.68.0/scan/data/exampleAB_mpd.rda |binary scan-0.68.0/scan/data/exampleAB_score.rda |binary scan-0.68.0/scan/data/exampleAB_simple.rda |binary scan-0.68.0/scan/data/example_A24.rda |binary scan-0.68.0/scan/data/example_atd.rda |only scan-0.68.0/scan/data/example_stranger.rda |only scan-0.68.0/scan/inst/CITATION | 6 scan-0.68.0/scan/inst/shiny_scan/resources.R | 89 +--- scan-0.68.0/scan/inst/shiny_scan/server.R | 412 +++++++-------------- scan-0.68.0/scan/inst/shiny_scan/ui.R | 266 +++++++------ scan-0.68.0/scan/man/Subsetting.Rd | 13 scan-0.68.0/scan/man/add_dummy_variables.Rd | 5 scan-0.68.0/scan/man/add_l2.Rd | 18 scan-0.68.0/scan/man/anova.sc_plm.Rd | 18 scan-0.68.0/scan/man/as.data.frame.scdf.Rd | 7 scan-0.68.0/scan/man/as_scdf.Rd | 1 scan-0.68.0/scan/man/autocorr.Rd | 11 scan-0.68.0/scan/man/batch_apply.Rd | 30 + scan-0.68.0/scan/man/between_smd.Rd | 12 scan-0.68.0/scan/man/bplm.Rd | 35 + scan-0.68.0/scan/man/cdc.Rd | 3 scan-0.68.0/scan/man/check_args.Rd |only scan-0.68.0/scan/man/combine.Rd | 11 scan-0.68.0/scan/man/convert.Rd | 17 scan-0.68.0/scan/man/corrected_tau.Rd | 8 scan-0.68.0/scan/man/describe.Rd | 7 scan-0.68.0/scan/man/design.Rd | 8 scan-0.68.0/scan/man/dot-inheritParams.Rd | 13 scan-0.68.0/scan/man/estimate_design.Rd | 34 + scan-0.68.0/scan/man/example_data_sets.Rd |only scan-0.68.0/scan/man/export.Rd | 9 scan-0.68.0/scan/man/fetch.Rd | 42 +- scan-0.68.0/scan/man/fill_missing.Rd | 62 ++- scan-0.68.0/scan/man/hplm.Rd | 76 +++ scan-0.68.0/scan/man/ird.Rd | 1 scan-0.68.0/scan/man/is.scdf.Rd | 11 scan-0.68.0/scan/man/mplm.Rd | 14 scan-0.68.0/scan/man/na.omit.scdf.Rd | 9 scan-0.68.0/scan/man/nap.Rd | 11 scan-0.68.0/scan/man/outlier.Rd | 4 scan-0.68.0/scan/man/overlap.Rd | 8 scan-0.68.0/scan/man/pand.Rd | 1 scan-0.68.0/scan/man/pem.Rd | 14 scan-0.68.0/scan/man/pet.Rd | 12 scan-0.68.0/scan/man/plm.Rd | 16 scan-0.68.0/scan/man/pnd.Rd | 10 scan-0.68.0/scan/man/power_test.Rd | 12 scan-0.68.0/scan/man/rand_test.Rd | 15 scan-0.68.0/scan/man/random_scdf.Rd | 14 scan-0.68.0/scan/man/ranks.Rd | 1 scan-0.68.0/scan/man/rci.Rd | 11 scan-0.68.0/scan/man/read_scdf.Rd | 6 scan-0.68.0/scan/man/rescale.Rd | 8 scan-0.68.0/scan/man/sample_names.Rd | 15 scan-0.68.0/scan/man/scdf.Rd | 35 + scan-0.68.0/scan/man/select_cases.Rd | 12 scan-0.68.0/scan/man/select_phases.Rd | 39 + scan-0.68.0/scan/man/set_vars.Rd | 12 scan-0.68.0/scan/man/shift.Rd | 1 scan-0.68.0/scan/man/shinyscan.Rd | 6 scan-0.68.0/scan/man/smd.Rd | 6 scan-0.68.0/scan/man/smooth_cases.Rd | 1 scan-0.68.0/scan/man/standardize.Rd | 1 scan-0.68.0/scan/man/subset.scdf.Rd | 7 scan-0.68.0/scan/man/summary.scdf.Rd | 17 scan-0.68.0/scan/man/tau_u.Rd | 10 scan-0.68.0/scan/man/transform.scdf.Rd | 5 scan-0.68.0/scan/man/trend.Rd | 20 - scan-0.68.0/scan/man/truncate_phase.Rd | 1 scan-0.68.0/scan/man/write_scdf.Rd | 14 scan-0.68.0/scan/tests/testthat/helper-checksum.R |only scan-0.68.0/scan/tests/testthat/test-add_l2.R | 14 scan-0.68.0/scan/tests/testthat/test-anova.R |only scan-0.68.0/scan/tests/testthat/test-bacht_apply.R |only scan-0.68.0/scan/tests/testthat/test-between_smd.R |only scan-0.68.0/scan/tests/testthat/test-cdc.R | 8 scan-0.68.0/scan/tests/testthat/test-corrected.R | 10 scan-0.68.0/scan/tests/testthat/test-ird.R |only 172 files changed, 2099 insertions(+), 1107 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-12 2.2.9
2024-01-08 2.2.8
2023-03-30 2.1.2
Title: Utilities to Support Lidar Applications at the Landscape,
Forest, and Tree Scale
Description: Implements algorithms for terrestrial, mobile, and airborne lidar processing, tree detection,
segmentation, and attribute estimation (Donager et al., 2021)
<doi:10.3390/rs13122297>, and a hierarchical patch delineation algorithm
'PatchMorph' (Girvetz & Greco, 2007) <doi:10.1007/s10980-007-9104-8>. Tree
detection uses rasterized point cloud metrics (relative neighborhood density and
verticality) combined with RANSAC cylinder fitting to locate tree boles and estimate
diameter at breast height. Tree segmentation applies graph-theory approaches inspired
by Tao et al. (2015) <doi:10.1016/j.isprsjprs.2015.08.007> with cylinder fitting
methods from de Conto et al. (2017) <doi:10.1016/j.compag.2017.07.019>. PatchMorph
delineates habitat patches across spatial scales using organism-specific thresholds.
Built on 'lidR' (Roussel et al., 2020) <doi:10.1016/j.rse.2020.112061>.
Author: Andrew Sanchez Meador [aut, cre, ctb] ,
Jonathon Donager [aut, ctb] ,
Blackburn Ryan [aut, ctb] ,
Cannon Jeffery [ctb] ,
Tiago de Conto [ctb, cph] ,
Keith O'Hara [ctb, cph]
Maintainer: Andrew Sanchez Meador <Andrew.SanchezMeador@nau.edu>
Diff between spanner versions 1.0.3 dated 2026-03-26 and 1.0.4 dated 2026-04-01
DESCRIPTION | 8 MD5 | 38 +- NEWS.md | 163 ++++----- R/Patch_Morph.R | 404 +++++++++++------------ R/PostProcess_TreeLocations.R | 492 ++++++++++++++-------------- R/Segment_Graph.R | 630 ++++++++++++++++++------------------ R/spanner-package.R | 38 +- R/utils.R | 62 ++- build/stage23.rdb |binary man/colorize_las.Rd | 180 +++++----- man/compute_pcv.Rd | 72 ++-- man/compute_ssao.Rd | 90 ++--- man/create_rotation_gif.Rd | 33 - man/download_naip_for_las.Rd | 126 +++---- man/eigen_metrics.Rd | 126 +++---- man/merge_las_colors.Rd | 124 +++---- man/segment_graph.Rd | 304 ++++++++--------- src/Progress.cpp | 5 tests/testthat/test-eigen-metrics.R | 120 +++--- tests/testthat/test-segmentation.R | 224 ++++++------ 20 files changed, 1627 insertions(+), 1612 deletions(-)
Title: Risk Metrics to Evaluating R Packages
Description: Facilities for assessing R packages against a number of metrics to
help quantify their robustness.
Author: R Validation Hub [aut],
Doug Kelkhoff [aut],
Marly Gotti [aut],
Eli Miller [cre, aut],
Kevin K [aut],
Yilong Zhang [aut],
Eric Milliman [aut],
Juliane Manitz [aut],
Mark Padgham [ctb],
PSI special interest group Application and Implementation of
Meth [...truncated...]
Maintainer: Eli Miller <eli.miller@atorusresearch.com>
Diff between riskmetric versions 0.2.6 dated 2026-01-13 and 0.2.7 dated 2026-04-01
DESCRIPTION | 10 - MD5 | 56 +++---- NAMESPACE | 4 NEWS.md | 10 + R/assess_last_30_bugs_status.R | 10 - R/metric_score.R | 7 R/pkg_ref_cache.R | 2 R/pkg_ref_cache_archive_release_date.R | 1 R/pkg_ref_cache_bug_reports.R | 5 R/pkg_ref_cache_description.R | 4 R/pkg_ref_cache_examples.R | 2 R/pkg_ref_cache_help_aliases.R | 4 R/pkg_ref_cache_license.R | 3 R/pkg_ref_cache_maintainer.R | 5 R/pkg_ref_cache_news.R | 6 R/pkg_ref_cache_r_cmd_check.R | 1 R/pkg_ref_cache_release_date.R | 6 R/pkg_ref_cache_repo_base_url.R | 3 R/pkg_ref_cache_tarball_url.R | 3 R/pkg_ref_cache_vignettes.R | 8 - R/pkg_ref_cache_web_url.R | 4 R/pkg_ref_cache_website_urls.R | 6 R/pkg_ref_class.R | 238 ++++++++++++++++++++------------- inst/doc/extending-riskmetric.R | 6 inst/doc/extending-riskmetric.html | 14 - inst/doc/riskmetric.R | 16 +- inst/doc/riskmetric.html | 30 ++-- man/pkg_ref.Rd | 28 +-- tests/testthat/setup_test_packages.R | 63 +++++--- 29 files changed, 322 insertions(+), 233 deletions(-)
Title: A Fast and Flexible Pipeline for Text Classification
Description: A high-level pipeline that simplifies text classification into three streamlined steps:
preprocessing, model training, and standardized prediction.
It unifies the interface for multiple algorithms (including 'glmnet', 'ranger',
'xgboost', and 'naivebayes') and memory-efficient sparse matrix vectorization
methods (Bag-of-Words, Term Frequency, TF-IDF, and Binary). Users can go from
raw text to a fully evaluated sentiment model, complete with ROC-optimized
thresholds, in just a few function calls. The resulting model artifact
automatically aligns the vocabulary of new datasets during the prediction phase,
safely appending predicted classes and probability matrices directly to the
user's original dataframe to preserve metadata.
Author: Alabhya Dahal [aut, cre]
Maintainer: Alabhya Dahal <alabhya.dahal@gmail.com>
Diff between quickSentiment versions 0.3.2 dated 2026-03-20 and 0.3.3 dated 2026-04-01
DESCRIPTION | 6 ++--- MD5 | 15 ++++++------- NAMESPACE | 1 NEWS.md | 12 +++------- R/evaluate_performance.R | 45 ++++++++++++++++++++++++++++++++++++--- R/print.quickSentiment_eval.R | 30 ++++++++++++++++++++++++++ README.md | 1 man/evaluate_performance.Rd | 4 ++- man/print.quickSentiment_eval.Rd |only 9 files changed, 92 insertions(+), 22 deletions(-)
More information about quickSentiment at CRAN
Permanent link
Title: Simulate Package Installation and Attach
Description: Simulates the process of installing a package and then
attaching it. This is a key part of the 'devtools' package as it
allows you to rapidly iterate while developing a package.
Author: Hadley Wickham [aut],
Winston Chang [aut],
Jim Hester [aut],
Lionel Henry [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb]
Maintainer: Lionel Henry <lionel@posit.co>
Diff between pkgload versions 1.5.0 dated 2026-02-03 and 1.5.1 dated 2026-04-01
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 5 +++++ R/namespace-env.R | 5 ++--- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Tests of Non-Nested Models
Description: Testing non-nested models via theory supplied by Vuong (1989) <DOI:10.2307/1912557>.
Includes tests of model distinguishability and of model fit that can be applied
to both nested and non-nested models. Also includes functionality to obtain
confidence intervals associated with AIC and BIC. This material is partially based on
work supported by the National Science Foundation under Grant Number SES-1061334.
Author: Edgar Merkle [aut, cre],
Dongjun You [aut],
Lennart Schneider [ctb],
Mauricio Garnier-Villarreal [ctb],
Seongho Bae [ctb],
Phil Chalmers [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between nonnest2 versions 0.5-8 dated 2024-08-28 and 0.5-9 dated 2026-04-01
DESCRIPTION | 10 +++++----- MD5 | 17 +++++++++-------- NEWS | 4 ++++ R/icci.R | 4 ++-- R/vuongtest.R | 9 ++++++--- README.md | 28 ++++++++++++++++++++++++++++ build/vignette.rds |binary inst/doc/nonnest2.R | 10 +++++----- inst/doc/nonnest2.pdf |binary tests/testthat/test_discreteclass.R |only 10 files changed, 59 insertions(+), 23 deletions(-)
Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely
compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models
and do basic R-style math, and compiling both models and nimbleFunctions via
custom-generated C++. 'NIMBLE' includes default methods for MCMC, Laplace
Approximation, deterministic nested approximations, Monte Carlo Expectation
Maximization, and some other tools.
The nimbleFunction system makes it easy to do things like implement new MCMC
samplers from R, customize the assignment of samplers to different parts of
a model from R, and compile the new samplers automatically via C++ alongside
the samplers 'NIMBLE' provides. 'NIMBLE' extends the 'BUGS'/'JAGS' language
by making it extensible: New distributions and functions can be added,
including as calls to external compiled code. Although most people think
of MCMC as the main goal of the 'BUGS'/'JAGS' language for writing models,
one can use 'NIMBLE' for writing arbitrary other kinds of model-generic
al [...truncated...]
Author: Perry de Valpine [aut],
Christopher Paciorek [aut, cre],
Daniel Turek [aut],
Nick Michaud [aut],
Cliff Anderson-Bergman [aut],
Fritz Obermeyer [aut],
Claudia Wehrhahn Cortes [aut] ,
Abel Rodriguez [aut] ,
Duncan Temple Lang [aut] ,
Wei Zhang [aut] ,
[...truncated...]
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between nimble versions 1.4.1 dated 2026-02-13 and 1.4.2 dated 2026-04-01
DESCRIPTION | 8 INSTALL | 6 MD5 | 30 +-- R/MCMC_configuration.R | 10 - R/cppDefs_nimbleFunction.R | 2 R/cppDefs_nimbleList.R | 50 +---- inst/CppCode/RcppNimbleUtils.cpp | 162 ++++++++--------- inst/CppCode/RcppUtils.cpp | 77 ++++---- inst/CppCode/accessorClasses.cpp | 56 ++---- inst/CppCode/eigenUsingClasses.cpp | 54 ++--- inst/CppCode/nimOptim.cpp | 16 - inst/CppCode/predefinedNimbleLists.cpp | 306 ++++++++++++++------------------- inst/NEWS.md | 12 + inst/include/nimble/RcppNimbleUtils.h | 57 ++---- inst/include/nimble/Utils.h | 52 +++++ inst/include/nimble/accessorClasses.h | 215 ++++------------------- 16 files changed, 489 insertions(+), 624 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, 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 0.2.0 dated 2026-03-07 and 0.3.0 dated 2026-04-01
maidr-0.2.0/maidr/inst/doc/plot-types.R |only maidr-0.2.0/maidr/inst/doc/plot-types.Rmd |only maidr-0.2.0/maidr/inst/doc/plot-types.html |only maidr-0.2.0/maidr/inst/htmlwidgets/lib/maidr-3.55.2 |only maidr-0.2.0/maidr/vignettes/plot-types.Rmd |only maidr-0.3.0/maidr/DESCRIPTION | 9 maidr-0.3.0/maidr/MD5 | 49 ++-- maidr-0.3.0/maidr/R/base_r_point_layer_processor.R | 94 +++++++ maidr-0.3.0/maidr/R/base_r_processor_factory.R | 2 maidr-0.3.0/maidr/R/examples.R | 12 + maidr-0.3.0/maidr/R/ggplot2_line_layer_processor.R | 4 maidr-0.3.0/maidr/R/ggplot2_point_layer_processor.R | 120 +++++++++- maidr-0.3.0/maidr/R/html_dependencies.R | 2 maidr-0.3.0/maidr/R/maidr-package.R |only maidr-0.3.0/maidr/R/svg_utils.R | 4 maidr-0.3.0/maidr/build/vignette.rds |binary maidr-0.3.0/maidr/inst/doc/getting-started.Rmd | 4 maidr-0.3.0/maidr/inst/doc/getting-started.html | 10 maidr-0.3.0/maidr/inst/doc/shiny-integration.Rmd | 2 maidr-0.3.0/maidr/inst/doc/shiny-integration.html | 8 maidr-0.3.0/maidr/inst/htmlwidgets/lib/maidr-3.59.0 |only maidr-0.3.0/maidr/man/BaseRPointLayerProcessor.Rd | 10 maidr-0.3.0/maidr/man/Ggplot2PointLayerProcessor.Rd | 49 +++- maidr-0.3.0/maidr/man/maidr-package.Rd |only maidr-0.3.0/maidr/tests/testthat/Rplots.pdf |binary maidr-0.3.0/maidr/tests/testthat/test-base-r-point-layer-processor.R | 114 ++++++++- maidr-0.3.0/maidr/tests/testthat/test-ggplot2-point-layer-processor.R |only maidr-0.3.0/maidr/vignettes/getting-started.Rmd | 4 maidr-0.3.0/maidr/vignettes/shiny-integration.Rmd | 2 29 files changed, 426 insertions(+), 73 deletions(-)
Title: Calculation of Sample Size and Power for ICC
Description: Provides functions to calculate the requisite sample size for studies where ICC is
the primary outcome. Can also be used for calculation of power. In both cases it
allows the user to test the impact of changing input variables by calculating the outcome
for several different values of input variables. Based off the work of Zou.
Zou, G. Y. (2012). Sample size formulas for estimating intraclass correlation coefficients with
precision and assurance. Statistics in medicine, 31(29), 3972-3981.
Author: Alasdair Rathbone [aut, cre],
Saurabh Shaw [aut],
Dinesh Kumbhare [aut]
Maintainer: Alasdair Rathbone <alasdair.rathbone@gmail.com>
Diff between ICC.Sample.Size versions 1.0 dated 2015-09-03 and 1.1 dated 2026-04-01
DESCRIPTION | 26 +++++++++++++++++++------- MD5 | 11 ++++++----- NEWS.md |only R/calculateAchievablep0.R | 11 +++++------ man/calculateAchieveablep0.Rd | 2 +- man/calculateIccPower.Rd | 2 +- man/calculateIccSampleSize.Rd | 2 +- 7 files changed, 33 insertions(+), 21 deletions(-)
More information about ICC.Sample.Size at CRAN
Permanent link
Title: Robust Inference in Difference-in-Differences and Event Study
Designs
Description: Provides functions to conduct robust inference in difference-in-differences and event study designs by implementing the methods developed in Rambachan & Roth (2023) <doi:10.1093/restud/rdad018>, "A More Credible Approach to Parallel Trends" [Previously titled "An Honest Approach..."]. Inference is conducted under a weaker version of the parallel trends assumption. Uniformly valid confidence sets are constructed based upon conditional confidence sets, fixed-length confidence sets and hybridized confidence sets.
Author: Ashesh Rambachan [aut, cph, cre],
Jonathan Roth [aut, cph]
Maintainer: Ashesh Rambachan <ashesh.a.rambachan@gmail.com>
Diff between HonestDiD versions 0.2.6 dated 2024-07-14 and 0.2.7 dated 2026-04-01
DESCRIPTION | 8 +++---- MD5 | 11 +++++----- NEWS.md |only R/arp-nuisance.R | 4 +-- R/flci.R | 53 ++++++++++++++++++++++++++++++++++++------------- R/sensitivityresults.R | 4 +++ R/utilities.R | 30 ++++++++++++++++++++++----- 7 files changed, 80 insertions(+), 30 deletions(-)
Title: Parallelize Common Functions via One Magic Function
Description: The futurize() function transpiles calls to sequential map-reduce functions such as base::lapply(), purrr::map(), 'foreach::foreach() %do% { ... }' into concurrent alternatives, providing you with a simple, straightforward path to scalable parallel computing via the 'future' ecosystem <doi:10.32614/RJ-2021-048>. By combining this function with R's native pipe operator, you have a convenient way for speeding up iterative computations with minimal refactoring, e.g. 'lapply(xs, fcn) |> futurize()', 'purrr::map(xs, fcn) |> futurize()', and 'foreach::foreach(x = xs) %do% { fcn(x) } |> futurize()'. Other map-reduce packages that can be "futurized" are 'BiocParallel', 'plyr', 'crossmap', 'pbapply' packages. There is also support for a growing set of domain-specific packages on CRAN (e.g. 'boot', 'caret', 'fgsea', 'fwb', 'gamlss', 'glmmTMB', 'glmnet', 'kernelshap', 'lme4', 'metafor', 'mgcv', 'partykit', 'riskRegression', 'seriation', 'shapr', 'SimDesign', 'strucchange', 'tm', 'T [...truncated...]
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between futurize versions 0.2.0 dated 2026-03-18 and 0.3.0 dated 2026-04-01
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futurize-0.3.0/futurize/R/addons-gamlss.R | 21 futurize-0.3.0/futurize/R/addons-glmmTMB.R | 14 futurize-0.3.0/futurize/R/addons-glmnet.R | 5 futurize-0.3.0/futurize/R/addons-kernelshap.R | 6 futurize-0.3.0/futurize/R/addons-lme4.R | 5 futurize-0.3.0/futurize/R/addons-metafor.R | 15 futurize-0.3.0/futurize/R/addons-mgcv.R | 11 futurize-0.3.0/futurize/R/addons-partykit.R | 3 futurize-0.3.0/futurize/R/addons-pbapply.R | 11 futurize-0.3.0/futurize/R/addons-plyr.R | 8 futurize-0.3.0/futurize/R/addons-riskRegression.R | 10 futurize-0.3.0/futurize/R/addons-scater.R | 5 futurize-0.3.0/futurize/R/addons-scuttle.R | 5 futurize-0.3.0/futurize/R/addons-seriation.R | 6 futurize-0.3.0/futurize/R/addons-shapr.R | 10 futurize-0.3.0/futurize/R/addons-strucchange.R | 5 futurize-0.3.0/futurize/R/addons-sva.R | 5 futurize-0.3.0/futurize/R/addons-tm.R | 11 futurize-0.3.0/futurize/R/addons-vegan.R | 2 futurize-0.3.0/futurize/R/make_addon_transpilers.R | 11 futurize-0.3.0/futurize/R/make_options_for_furrr.R 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futurize-0.3.0/futurize/inst/testme/test-doFuture-foreach_dofuture.R | 1 futurize-0.3.0/futurize/inst/testme/test-doFuture-times.R | 1 futurize-0.3.0/futurize/inst/testme/test-furrr-future_imap.R | 6 futurize-0.3.0/futurize/inst/testme/test-furrr-future_map.R | 11 futurize-0.3.0/futurize/inst/testme/test-furrr-future_map2.R | 12 futurize-0.3.0/futurize/inst/testme/test-furrr-future_modify.R | 1 futurize-0.3.0/futurize/inst/testme/test-furrr-future_pmap.R | 12 futurize-0.3.0/futurize/inst/testme/test-furrr-future_walk.R | 1 futurize-0.3.0/futurize/inst/testme/test-future.apply-future_Filter.R | 1 futurize-0.3.0/futurize/inst/testme/test-future.apply-future_apply.R | 1 futurize-0.3.0/futurize/inst/testme/test-future.apply-future_by.R | 1 futurize-0.3.0/futurize/inst/testme/test-future.apply-future_eapply.R | 1 futurize-0.3.0/futurize/inst/testme/test-future.apply-future_kernapply.R | 1 futurize-0.3.0/futurize/inst/testme/test-future.apply-future_lapply,RNG.R | 1 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Title: Breaks for Additive Season and Trend
Description: Decomposition of time series into
trend, seasonal, and remainder components with methods for detecting and
characterizing abrupt changes within the trend and seasonal components. 'BFAST'
can be used to analyze different types of satellite image time series and can
be applied to other disciplines dealing with seasonal or non-seasonal time
series, such as hydrology, climatology, and econometrics. The algorithm can be
extended to label detected changes with information on the parameters of the
fitted piecewise linear models. 'BFAST' monitoring functionality is described
in Verbesselt et al. (2010) <doi:10.1016/j.rse.2009.08.014>. 'BFAST monitor'
provides functionality to detect disturbance in near real-time based on 'BFAST'-
type models, and is described in Verbesselt et al. (2012) <doi:10.1016/j.rse.2012.02.022>.
'BFAST Lite' approach is a flexible approach that handles missing data
without interpolation, and will be described in an upcoming paper.
Furthermore, different mode [...truncated...]
Author: Jan Verbesselt [aut],
Dainius Masiliūnas [aut, cre] ,
Achim Zeileis [aut],
Rob Hyndman [ctb],
Marius Appel [aut],
Martin Jung [ctb],
Andrei Mîrț [ctb] ,
Paulo Negri Bernardino [ctb],
Dongdong Kong [ctb]
Maintainer: Dainius Masiliūnas <pastas4@gmail.com>
Diff between bfast versions 1.7.1 dated 2025-08-18 and 1.7.2 dated 2026-04-01
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS | 5 +++++ build/partial.rdb |binary man/bfastlite.Rd | 3 ++- man/bfastpp.Rd | 6 +++--- tests/Examples/bfast-Ex.Rout.save | 12 +++++++++--- 7 files changed, 29 insertions(+), 17 deletions(-)