Title: Stepwise Regression Analysis
Description: Stepwise regression is a statistical technique used for model selection. This package streamlines stepwise regression analysis by supporting multiple regression types(linear, Cox, logistic, Poisson, Gamma, and negative binomial), incorporating popular selection strategies(forward, backward, bidirectional, and subset), and offering essential metrics. It enables users to apply multiple selection strategies and metrics in a single function call, visualize variable selection processes, and export results in various formats. StepReg offers a data-splitting option to address potential issues with invalid statistical inference and a randomized forward selection option to avoid overfitting. We validated StepReg's accuracy using public datasets within the SAS software environment. For an interactive web interface, users can install the companion 'StepRegShiny' package.
Author: Junhui Li [cre] ,
Junhui Li [aut],
Kai Hu [aut],
Xiaohuan Lu [aut],
Sushmita N Nayak [ctb],
Cesar Bautista Sotelo [ctb],
Michael A Lodato [ctb],
Wenxin Liu [aut],
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <junhui.li11@umassmed.edu>
Diff between StepReg versions 1.6.1 dated 2025-10-24 and 1.6.2 dated 2026-01-11
DESCRIPTION | 10 +-- MD5 | 22 +++---- NEWS.md | 8 +- R/plot.StepReg.R | 71 +++++++++++++++++++---- R/report.R | 20 ++++++ R/stepwise.R | 4 - R/stepwiseUtils.R | 154 +++++++++++++++++++++++++++++++++----------------- inst/doc/StepReg.R | 6 - inst/doc/StepReg.Rmd | 29 ++++----- inst/doc/StepReg.html | 108 ++++++++++++++++------------------- man/report.Rd | 4 + vignettes/StepReg.Rmd | 29 ++++----- 12 files changed, 292 insertions(+), 173 deletions(-)
Title: Compute Maps and Properties of Polar Zonoids
Description: In each odd dimension is a convex body - the polar zonoid - whose generating functions are trigonometric polynomials. The polar zonoid is a straightforward generalization of the polar zonohedron in dimension 3, as defined by Chilton and Coxeter (1963) <doi:10.2307/2313051>. The package has some applications of the polar zonoid, including the properties of configuration spaces of arcs on the circle and 3x3 rotation matrices. There is also a root solver for trigonometric polynomials.
Author: Glenn Davis [aut, cre]
Maintainer: Glenn Davis <gdavis@gluonics.com>
Diff between polarzonoid versions 0.2-0 dated 2025-08-26 and 0.3-0 dated 2026-01-11
DESCRIPTION | 8 +-- MD5 | 42 +++++++++---------- NEWS.md | 5 ++ R/logger.R | 10 ++-- R/utils.R | 88 ++++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/implicitization.Rmd | 2 inst/doc/implicitization.html | 49 ++++++++++------------ inst/doc/paths.Rmd | 2 inst/doc/paths.html | 38 ++++++++--------- inst/doc/polarzonoid-guide.Rmd | 6 +- inst/doc/polarzonoid-guide.html | 36 ++++++++-------- inst/doc/rotations.Rmd | 2 inst/doc/rotations.html | 36 ++++++++-------- inst/doc/unknot.pdf |binary man/rotation.Rd | 4 - man/slerp.Rd | 56 +++++++++++++------------ vignettes/bibliography.bib | 19 ++++---- vignettes/implicitization.Rmd | 2 vignettes/paths.Rmd | 2 vignettes/polarzonoid-guide.Rmd | 6 +- vignettes/rotations.Rmd | 2 22 files changed, 213 insertions(+), 202 deletions(-)
Title: Diversity Metrics Calculations for Rasterized Data
Description: Alpha and beta diversity for taxonomic (TD), functional (FD),
and phylogenetic (PD) dimensions based on rasters. Spatial and
temporal beta diversity can be partitioned into replacement and
richness difference components. It also calculates standardized effect
size for FD and PD alpha diversity and the average individual traits
across multilayer rasters. The layers of the raster represent species,
while the cells represent communities. Methods details can be found at
Cardoso et al. 2022 <https://CRAN.R-project.org/package=BAT> and
Heming et al. 2023 <https://CRAN.R-project.org/package=SESraster>.
Author: Flavio M. M. Mota [aut, cre, cph] ,
Neander Marcel Heming [aut] ,
Gabriela Alves-Ferreira [aut]
Maintainer: Flavio M. M. Mota <flaviomoc@gmail.com>
Diff between divraster versions 1.2.1 dated 2025-05-26 and 1.2.3 dated 2026-01-11
DESCRIPTION | 11 MD5 | 96 +++--- NAMESPACE | 14 NEWS.md | 66 ++-- R/alpha2.R | 120 +++---- R/area_interval.R |only R/beta_spatial.R | 154 +++++----- R/beta_temporal.R | 325 ++++++++++----------- R/bin2crop.R |only R/combine_rasters.R |only R/data.R | 29 + R/diff_rast.R | 202 ++++++------- R/occ_avg_dist.R |only R/range_size.R | 290 +++++++++---------- R/range_size2.R |only R/rast_by_polys.R |only R/suit_change.R | 186 ++++++------ inst/doc/divraster-vignette.R | 86 +++++ inst/doc/divraster-vignette.Rmd | 116 +++++++ inst/doc/divraster-vignette.html | 511 +++++++++++++++++++++------------- inst/extdata/ccaf.gpkg |only inst/extdata/pa_ccaf.gpkg |only man/area.calc.Rd | 130 ++++---- man/area.calc.flex.Rd |only man/area.interval.Rd |only man/bin2crop.Rd |only man/combine.rasters.Rd |only man/differ.rast.Rd | 144 ++++----- man/inputs_chk.Rd | 52 +-- man/load.data.Rd | 84 +++-- man/occ.avg.dist.Rd |only man/rast.by.polys.Rd |only man/spat.alpha.Rd | 170 +++++------ man/spat.alpha.vec.Rd | 52 +-- man/spat.alpha2.Rd | 102 +++--- man/spat.beta.Rd | 102 +++--- man/spat.rand.Rd | 120 +++---- man/spat.trait.Rd | 78 ++--- man/spat.trait.vec.Rd | 46 +-- man/suit.change.Rd | 110 +++---- man/temp.beta.Rd | 156 +++++----- man/temp.beta.vec.Rd | 62 ++-- tests/testthat/test-alpha.R | 67 ++-- tests/testthat/test-alpha2.R | 22 - tests/testthat/test-area.R | 56 +-- tests/testthat/test-area2.r |only tests/testthat/test-area_interval.r |only tests/testthat/test-beta_spatial.R | 52 +-- tests/testthat/test-beta_temporal.R | 93 +++--- tests/testthat/test-bin2crop.r |only tests/testthat/test-combine_rasters.r |only tests/testthat/test-data.R | 2 tests/testthat/test-differ_rast.R | 36 +- tests/testthat/test-occ_avg_dist.r |only tests/testthat/test-rand.R | 70 ++-- tests/testthat/test-rast_by_polys.r |only tests/testthat/test-suit_change.R | 36 +- tests/testthat/test-traits.R | 46 +-- vignettes/divraster-vignette.Rmd | 116 +++++++ 59 files changed, 2378 insertions(+), 1832 deletions(-)
Title: Database Queries Using 'data.table' Syntax
Description: Query database tables over a 'DBI' connection using 'data.table' syntax.
Attach database schemas to the search path. Automatically merge using foreign
key constraints.
Author: Kjell P. Konis [aut, cre],
Luis Rocha [ctb]
Maintainer: Kjell P. Konis <kjellk@gmail.com>
Diff between dbi.table versions 1.0.5 dated 2025-09-19 and 1.0.6 dated 2026-01-11
DESCRIPTION | 6 MD5 | 163 NAMESPACE | 186 NEWS.md | 74 R/DBI_methods.R | 1848 - R/as.data.table.R | 24 R/attach.R | 244 R/calls.R | 390 R/catalog.R | 354 R/connection.R | 118 R/cte.R | 158 R/dbi.table.R | 1608 - R/examples.R | 162 R/extract.R | 710 R/merge.R | 850 R/onLoad.R | 74 R/reference.test.R | 176 R/relational.R | 266 R/s3_methods_duckdb.R | 144 R/s3_methods_mariadb.R | 102 R/s3_methods_postgres.R | 50 R/s3_methods_sql_server.R | 205 R/s3_methods_sqlite.R | 56 R/specials.R | 216 R/sql.join.R | 450 R/sql_statement.R | 10 R/sql_translation.R | 42 R/tables_schema.R | 146 R/utilities.R | 370 R/write_sql.R | 372 build/vignette.rds |binary inst/doc/introduction_to_dbi_table.R | 252 inst/doc/introduction_to_dbi_table.Rmd | 756 inst/doc/introduction_to_dbi_table.html | 1704 - inst/example_files/chinook_export/LICENSE | 40 inst/example_files/chinook_export/album.csv | 696 inst/example_files/chinook_export/artist.csv | 552 inst/example_files/chinook_export/customer.csv | 120 inst/example_files/chinook_export/employee.csv | 18 inst/example_files/chinook_export/genre.csv | 52 inst/example_files/chinook_export/invoice.csv | 826 inst/example_files/chinook_export/invoiceline.csv | 4482 +-- inst/example_files/chinook_export/mediatype.csv | 12 inst/example_files/chinook_export/playlist.csv | 38 inst/example_files/chinook_export/playlisttrack.csv |17432 ++++++------- inst/example_files/chinook_export/schema.sql | 56 inst/example_files/chinook_export/track.csv | 7008 ++--- inst/sql_statements/foreign_keys_postgres.sql | 106 inst/sql_statements/foreign_keys_sqlite.sql | 4 inst/sql_statements/tables_schema_Microsoft_SQL_Server.sql | 64 inst/sql_statements/tables_schema_default.sql | 4 inst/sql_statements/tables_schema_duckdb.sql | 55 inst/sql_statements/tables_schema_mariadb.sql | 52 inst/sql_statements/tables_schema_postgres.sql | 60 inst/sql_statements/tables_schema_sqlite.sql | 24 man/DBI-methods.Rd | 454 man/as.data.frame.Rd | 114 man/as.dbi.table.Rd | 102 man/csql.Rd | 46 man/dbi.attach.Rd | 94 man/dbi.catalog.Rd | 66 man/dbi.table-package.Rd | 386 man/example_databases.Rd | 40 man/merge.Rd | 240 man/reference.test.Rd | 120 man/sql.join.Rd | 92 tests/testthat.R | 24 tests/testthat/setup.R | 68 tests/testthat/test-DBI-methods.R | 560 tests/testthat/test-as.dbi.table.R | 94 tests/testthat/test-assumptions.R | 42 tests/testthat/test-attach.R | 98 tests/testthat/test-data.table-examples.R | 684 tests/testthat/test-data.table-set-functions.R | 42 tests/testthat/test-dbi.catalog.R | 30 tests/testthat/test-dbi.table.R | 352 tests/testthat/test-mariadb.R | 74 tests/testthat/test-merge.R | 486 tests/testthat/test-postgres.R | 34 tests/testthat/test-regression.R |only tests/testthat/test-relational.R | 180 tests/testthat/test-sql.join.R | 128 vignettes/introduction_to_dbi_table.Rmd | 756 83 files changed, 24708 insertions(+), 24685 deletions(-)
Title: Interface with 'Nominatim' API Service
Description: Lite interface for getting data from 'OSM' service
'Nominatim' <https://nominatim.org/release-docs/latest/>. Extract
coordinates from addresses, find places near a set of coordinates and
return spatial objects on 'sf' format.
Author: Diego Hernangomez [aut, cre, cph] ,
Jindra Lacko [ctb, rev] ,
Alex White [ctb],
OpenStreetMap [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between nominatimlite versions 0.4.2 dated 2024-12-17 and 0.4.3 dated 2026-01-11
nominatimlite-0.4.2/nominatimlite/man/api_call.Rd |only nominatimlite-0.4.3/nominatimlite/DESCRIPTION | 17 nominatimlite-0.4.3/nominatimlite/MD5 | 121 +- nominatimlite-0.4.3/nominatimlite/NEWS.md | 6 nominatimlite-0.4.3/nominatimlite/R/bbox_to_poly.R | 174 +-- nominatimlite-0.4.3/nominatimlite/R/geo_address_lookup.R | 275 ++-- nominatimlite-0.4.3/nominatimlite/R/geo_address_lookup_sf.R | 300 ++--- nominatimlite-0.4.3/nominatimlite/R/geo_amenity.R | 303 ++--- nominatimlite-0.4.3/nominatimlite/R/geo_amenity_sf.R | 272 ++-- nominatimlite-0.4.3/nominatimlite/R/geo_lite.R | 62 - nominatimlite-0.4.3/nominatimlite/R/geo_lite_sf.R | 62 - nominatimlite-0.4.3/nominatimlite/R/geo_lite_struct.R | 359 +++--- nominatimlite-0.4.3/nominatimlite/R/geo_lite_struct_sf.R | 372 +++--- nominatimlite-0.4.3/nominatimlite/R/nominatim_check_access.R | 13 nominatimlite-0.4.3/nominatimlite/R/reverse_geo_lite.R | 70 - nominatimlite-0.4.3/nominatimlite/R/reverse_geo_lite_sf.R | 510 ++++---- nominatimlite-0.4.3/nominatimlite/R/utils.R | 574 +++++----- nominatimlite-0.4.3/nominatimlite/README.md | 17 nominatimlite-0.4.3/nominatimlite/build/vignette.rds |binary nominatimlite-0.4.3/nominatimlite/data/osm_amenities.rda |binary nominatimlite-0.4.3/nominatimlite/inst/WORDLIST | 8 nominatimlite-0.4.3/nominatimlite/inst/doc/nominatimlite.Rmd | 23 nominatimlite-0.4.3/nominatimlite/inst/doc/nominatimlite.html | 49 nominatimlite-0.4.3/nominatimlite/inst/schemaorg.json | 4 nominatimlite-0.4.3/nominatimlite/man/bbox_to_poly.Rd | 4 nominatimlite-0.4.3/nominatimlite/man/figures/README-line-object-1.png |binary nominatimlite-0.4.3/nominatimlite/man/figures/README-pizzahut-1.png |binary nominatimlite-0.4.3/nominatimlite/man/figures/README-statue_liberty-1.png |binary nominatimlite-0.4.3/nominatimlite/man/figures/logo.png |binary nominatimlite-0.4.3/nominatimlite/man/geo_address_lookup.Rd | 6 nominatimlite-0.4.3/nominatimlite/man/geo_address_lookup_sf.Rd | 8 nominatimlite-0.4.3/nominatimlite/man/geo_amenity.Rd | 4 nominatimlite-0.4.3/nominatimlite/man/geo_amenity_sf.Rd | 6 nominatimlite-0.4.3/nominatimlite/man/geo_lite.Rd | 4 nominatimlite-0.4.3/nominatimlite/man/geo_lite_sf.Rd | 6 nominatimlite-0.4.3/nominatimlite/man/geo_lite_struct.Rd | 4 nominatimlite-0.4.3/nominatimlite/man/geo_lite_struct_sf.Rd | 6 nominatimlite-0.4.3/nominatimlite/man/nominatim_check_access.Rd | 3 nominatimlite-0.4.3/nominatimlite/man/reverse_geo_lite.Rd | 4 nominatimlite-0.4.3/nominatimlite/man/reverse_geo_lite_sf.Rd | 6 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/geo_address_lookup.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/geo_address_lookup_sf.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/geo_lite.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/geo_lite_sf.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/geo_lite_struct.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/geo_lite_struct_sf.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/reverse_geo_lite.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/_snaps/reverse_geo_lite_sf.md | 4 nominatimlite-0.4.3/nominatimlite/tests/testthat/test-bbox_to_poly.R | 20 nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_address_lookup.R | 58 - nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_address_lookup_sf.R | 48 nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_amenity.R | 120 +- nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_amenity_sf.R | 111 + nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_lite.R | 67 - nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_lite_sf.R | 64 - nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_lite_struct.R | 76 - nominatimlite-0.4.3/nominatimlite/tests/testthat/test-geo_lite_struct_sf.R | 42 nominatimlite-0.4.3/nominatimlite/tests/testthat/test-nominatim_check_access.R | 1 nominatimlite-0.4.3/nominatimlite/tests/testthat/test-reverse_geo_lite.R | 490 ++++---- nominatimlite-0.4.3/nominatimlite/tests/testthat/test-reverse_geo_lite_sf.R | 72 - nominatimlite-0.4.3/nominatimlite/tests/testthat/test-utils.R | 2 nominatimlite-0.4.3/nominatimlite/vignettes/nominatimlite.Rmd | 23 62 files changed, 2550 insertions(+), 2328 deletions(-)
Title: Construct Flexible Urban Delineations
Description: Enables the construction of flexible urban delineations that
can be tailored to specific applications or research questions, see Van
Migerode et al. (2024) <DOI:10.1177/23998083241262545> and Van Migerode
et al. (2025) <DOI:10.5281/zenodo.15173220>.
Originally developed to flexibly reconstruct the Degree of
Urbanisation classification of cities,
towns and rural areas developed by Dijkstra et al.
(2021) <DOI:10.1016/j.jue.2020.103312>. Now it also support a broader
range of delineation approaches, using multiple datasets – including
population, built-up area, and night-time light grids – and different
thresholding methods.
Author: Celine Van Migerode [aut, cre] ,
Ate Poorthuis [aut] ,
Ben Derudder [aut] ,
KU Leuven [cph],
FWO [fnd]
Maintainer: Celine Van Migerode <celine.vanmigerode@kuleuven.be>
Diff between flexurba versions 0.2.2 dated 2025-06-10 and 0.2.3 dated 2026-01-11
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ inst/doc/flexurba.html | 5 +++-- inst/doc/release-v0.2.0.Rmd | 2 +- inst/doc/release-v0.2.0.html | 3 ++- vignettes/release-v0.2.0.Rmd | 2 +- 7 files changed, 20 insertions(+), 14 deletions(-)
Title: Angle-Based Classification
Description: Multi-category angle-based large-margin classifiers.
See Zhang and Liu (2014) <doi:10.1093/biomet/asu017> for details.
Author: Wenjie Wang [aut, cre] ,
Eli Lilly and Company [cph]
Maintainer: Wenjie Wang <wang@wwenjie.org>
Diff between abclass versions 0.5.0 dated 2025-10-05 and 0.5.1 dated 2026-01-11
abclass-0.5.0/abclass/inst/tinytest/test-cv.supclass.R |only abclass-0.5.0/abclass/inst/tinytest/test-supclass.R |only abclass-0.5.1/abclass/DESCRIPTION | 8 abclass-0.5.1/abclass/MD5 | 126 +++++----- abclass-0.5.1/abclass/NEWS.md | 8 abclass-0.5.1/abclass/R/abclass-package.R | 2 abclass-0.5.1/abclass/R/abclass.R | 2 abclass-0.5.1/abclass/R/abclass_engine.R | 2 abclass-0.5.1/abclass/R/abclass_propscore.R | 2 abclass-0.5.1/abclass/R/bic.R | 2 abclass-0.5.1/abclass/R/coef.R | 2 abclass-0.5.1/abclass/R/cv.abclass.R | 2 abclass-0.5.1/abclass/R/cv.moml.R | 2 abclass-0.5.1/abclass/R/cv.supclass.R | 2 abclass-0.5.1/abclass/R/et.abclass.R | 2 abclass-0.5.1/abclass/R/et.moml.R | 2 abclass-0.5.1/abclass/R/moml.R | 2 abclass-0.5.1/abclass/R/plot.R | 2 abclass-0.5.1/abclass/R/predict.R | 2 abclass-0.5.1/abclass/R/supclass.R | 103 ++++---- abclass-0.5.1/abclass/R/utils.R | 2 abclass-0.5.1/abclass/R/vertex.R | 2 abclass-0.5.1/abclass/README.md | 4 abclass-0.5.1/abclass/inst/CITATION | 4 abclass-0.5.1/abclass/inst/examples/ex-supclass.R | 59 ++-- abclass-0.5.1/abclass/inst/include/abclass.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Abclass.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassBlockCD.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassCD.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassCompMCP.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassGEL.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassGroupLasso.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassGroupMCP.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassGroupSCAD.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassLinear.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassMCP.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassMellowL1.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassMellowMCP.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassNet.h | 2 abclass-0.5.1/abclass/inst/include/abclass/AbclassSCAD.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Boost.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Control.h | 2 abclass-0.5.1/abclass/inst/include/abclass/CrossValidation.h | 2 abclass-0.5.1/abclass/inst/include/abclass/HingeBoost.h | 2 abclass-0.5.1/abclass/inst/include/abclass/LikeBoost.h | 2 abclass-0.5.1/abclass/inst/include/abclass/LikeHingeBoost.h | 2 abclass-0.5.1/abclass/inst/include/abclass/LikeLogistic.h | 2 abclass-0.5.1/abclass/inst/include/abclass/LikeLum.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Logistic.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Lum.h | 2 abclass-0.5.1/abclass/inst/include/abclass/MarginLoss.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Mellowmax.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Mlogit.h | 2 abclass-0.5.1/abclass/inst/include/abclass/Simplex.h | 2 abclass-0.5.1/abclass/inst/include/abclass/template_alias.h | 2 abclass-0.5.1/abclass/inst/include/abclass/template_cv.h | 2 abclass-0.5.1/abclass/inst/include/abclass/template_et.h | 2 abclass-0.5.1/abclass/inst/include/abclass/utils.h | 2 abclass-0.5.1/abclass/inst/tests_with_suggests |only abclass-0.5.1/abclass/man/supclass.Rd | 61 ++-- abclass-0.5.1/abclass/src/abclass_fit.cpp | 2 abclass-0.5.1/abclass/src/cross_validation.cpp | 2 abclass-0.5.1/abclass/src/predict.cpp | 2 abclass-0.5.1/abclass/src/vertex.cpp | 2 abclass-0.5.1/abclass/tests/tinytest.R | 9 65 files changed, 256 insertions(+), 232 deletions(-)
Title: R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Description: Protocol Buffers are a way of encoding structured data in an
efficient yet extensible format. Google uses Protocol Buffers for almost all
of its internal 'RPC' protocols and file formats. Additional documentation
is available in two included vignettes one of which corresponds to our 'JSS'
paper (2016, <doi:10.18637/jss.v071.i02>. A sufficiently recent version of
'Protocol Buffers' library is required; currently version 3.3.0 from 2017
is the stated minimum.
Author: Romain Francois [aut] ,
Dirk Eddelbuettel [aut, cre] ,
Murray Stokely [aut] ,
Jeroen Ooms [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RProtoBuf versions 0.4.24 dated 2025-03-31 and 0.4.25 dated 2026-01-11
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Title: Ratio-of-Uniforms Sampling for Bayesian Extreme Value Analysis
Description: Provides functions for the Bayesian analysis of extreme value
models. The 'rust' package <https://cran.r-project.org/package=rust> is
used to simulate a random sample from the required posterior distribution.
The functionality of 'revdbayes' is similar to the 'evdbayes' package
<https://cran.r-project.org/package=evdbayes>, which uses Markov Chain
Monte Carlo ('MCMC') methods for posterior simulation. In addition, there
are functions for making inferences about the extremal index, using
the models for threshold inter-exceedance times of Suveges and Davison
(2010) <doi:10.1214/09-AOAS292> and Holesovsky and Fusek (2020)
<doi:10.1007/s10687-020-00374-3>. Also provided are d,p,q,r functions for
the Generalised Extreme Value ('GEV') and Generalised Pareto ('GP')
distributions that deal appropriately with cases where the shape parameter
is very close to zero.
Author: Paul J. Northrop [aut, cre, cph],
Scott D. Grimshaw [ctb]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between revdbayes versions 1.5.5 dated 2024-08-18 and 1.5.6 dated 2026-01-11
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Title: Model Agnostic Prediction Intervals
Description: Provides tools for estimating model-agnostic prediction intervals using conformal prediction, bootstrapping, and parametric prediction intervals. The package is designed for ease of use, offering intuitive functions for both binned and full conformal prediction methods, as well as parametric interval estimation with diagnostic checks. Currently only working for continuous predictions. For details on the conformal and bin-conditional conformal prediction methods, see Randahl, Williams, and Hegre (2024) <DOI:10.48550/arXiv.2410.14507>.
Author: David Randahl [aut, cre],
Jonathan P. Williams [ctb],
Anders Hjort [ctb]
Maintainer: David Randahl <david.randahl@pcr.uu.se>
Diff between pintervals versions 0.7.7 dated 2025-05-06 and 1.0.1 dated 2026-01-11
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Title: Analysis of Multivariate Event Times
Description: Implementation of various statistical models for multivariate
event history data <doi:10.1007/s10985-013-9244-x>. Including multivariate
cumulative incidence models <doi:10.1002/sim.6016>, and bivariate random
effects probit models (Liability models) <doi:10.1016/j.csda.2015.01.014>.
Modern methods for survival analysis, including regression modelling (Cox, Fine-Gray,
Ghosh-Lin, Binomial regression) with fast computation of influence functions.
Author: Klaus K. Holst [aut, cre],
Thomas Scheike [aut]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between mets versions 1.3.8 dated 2025-10-21 and 1.3.9 dated 2026-01-11
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Title: Climate AEMET Tools
Description: Tools to download the climatic data of the Spanish
Meteorological Agency (AEMET) directly from R using their API and
create scientific graphs (climate charts, trend analysis of climate
time series, temperature and precipitation anomalies maps, warming
stripes graphics, climatograms, etc.).
Author: Manuel Pizarro [aut, cph] ,
Diego Hernangomez [aut, cre] ,
Gema Fernandez-Aviles [aut] ,
AEMET [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between climaemet versions 1.4.2 dated 2025-06-25 and 1.5.0 dated 2026-01-11
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Title: Report Templates and Helper Functions for Applied Epidemiology
Description: A meta-package that loads the complete sitrep ecosystem for
applied epidemiology analysis. This package provides report templates
and automatically loads companion packages, including 'epitabulate' (for
epidemiological tables), 'epidict' (for data dictionaries), 'epikit' (for
epidemiological utilities), and 'apyramid' (for age-sex pyramids).
Simply load 'sitrep' to access all functions from the ecosystem.
Author: Alexander Spina [aut, cre] ,
Zhian N. Kamvar [aut] ,
Dirk Schumacher [aut],
Kate Doyle [aut],
Chris Jarvis [aut],
Lukas Richter [aut],
Paula Blomquist [aut],
Annick Lenglet [ctb],
Neale Batra [ctb],
Applied Epi Incorporated [cph],
Medecins Sans Front [...truncated...]
Maintainer: Alexander Spina <aspina@appliedepi.org>
Diff between sitrep versions 0.2.3 dated 2025-12-22 and 0.3.0 dated 2026-01-11
DESCRIPTION | 8 MD5 | 176 NAMESPACE | 18 NEWS.md | 152 R/check_templates.R | 320 R/metapackage_functions.R | 947 - R/sitrep-package.R | 18 README.md | 230 build/vignette.rds |binary inst/doc/Background.R | 14 inst/doc/Background.Rmd | 174 inst/doc/Background.html | 658 - inst/doc/ajs_intersectional_outbreak_guide.Rmd | 1106 +- inst/doc/ajs_intersectional_outbreak_guide.html | 1850 +-- inst/doc/cholera_intersectional_outbreak_guide.Rmd | 1112 +- inst/doc/cholera_intersectional_outbreak_guide.html | 1860 +-- inst/doc/diphtheria_intersectional_outbreak_guide.Rmd | 1114 +- inst/doc/diphtheria_intersectional_outbreak_guide.html | 1884 +-- inst/doc/intersectional_outbreak_recode_guide.R | 108 inst/doc/intersectional_outbreak_recode_guide.Rmd | 440 inst/doc/intersectional_outbreak_recode_guide.html | 1365 +- inst/doc/measles_intersectional_outbreak_guide.Rmd | 1098 +- inst/doc/measles_intersectional_outbreak_guide.html | 1832 +-- inst/doc/meningitis_intersectional_outbreak_guide.Rmd | 1194 +- inst/doc/meningitis_intersectional_outbreak_guide.html | 1876 +-- inst/rmarkdown/templates/ajs_intersectional_outbreak/skeleton/skeleton.Rmd | 2234 ++-- inst/rmarkdown/templates/ajs_intersectional_outbreak/template.yaml | 8 inst/rmarkdown/templates/ajs_outbreak/skeleton/skeleton.Rmd | 4986 ++++----- inst/rmarkdown/templates/ajs_outbreak/template.yaml | 8 inst/rmarkdown/templates/ajs_outbreak_recode/skeleton/skeleton.Rmd | 626 - inst/rmarkdown/templates/ajs_outbreak_recode/template.yaml | 8 inst/rmarkdown/templates/cholera_intersectional_outbreak/skeleton/skeleton.Rmd | 2734 ++--- inst/rmarkdown/templates/cholera_intersectional_outbreak/template.yaml | 8 inst/rmarkdown/templates/cholera_outbreak/skeleton/skeleton.Rmd | 5110 ++++----- inst/rmarkdown/templates/cholera_outbreak/template.yaml | 8 inst/rmarkdown/templates/cholera_outbreak_recode/skeleton/skeleton.Rmd | 628 - inst/rmarkdown/templates/cholera_outbreak_recode/template.yaml | 8 inst/rmarkdown/templates/diphtheria_intersectional_outbreak/skeleton/skeleton.Rmd | 2524 ++-- inst/rmarkdown/templates/diphtheria_intersectional_outbreak/template.yaml | 8 inst/rmarkdown/templates/ebs/skeleton/skeleton.Rmd | 2854 ++--- inst/rmarkdown/templates/ebs/template.yaml | 8 inst/rmarkdown/templates/intersectional_outbreak_recode/skeleton/skeleton.Rmd | 440 inst/rmarkdown/templates/intersectional_outbreak_recode/template.yaml | 8 inst/rmarkdown/templates/measles_intersectional_outbreak/skeleton/skeleton.Rmd | 2308 ++-- inst/rmarkdown/templates/measles_intersectional_outbreak/template.yaml | 8 inst/rmarkdown/templates/measles_outbreak/skeleton/skeleton.Rmd | 5018 ++++----- inst/rmarkdown/templates/measles_outbreak/template.yaml | 8 inst/rmarkdown/templates/measles_outbreak_recode/skeleton/skeleton.Rmd | 626 - inst/rmarkdown/templates/measles_outbreak_recode/template.yaml | 8 inst/rmarkdown/templates/meningitis_intersectional_outbreak/skeleton/skeleton.Rmd | 2482 ++-- inst/rmarkdown/templates/meningitis_intersectional_outbreak/template.yaml | 8 inst/rmarkdown/templates/meningitis_outbreak/skeleton/skeleton.Rmd | 5142 +++++----- inst/rmarkdown/templates/meningitis_outbreak/template.yaml | 8 inst/rmarkdown/templates/meningitis_outbreak_recode/skeleton/skeleton.Rmd | 624 - inst/rmarkdown/templates/meningitis_outbreak_recode/template.yaml | 8 inst/rmarkdown/templates/mortality/skeleton/skeleton.Rmd | 4796 ++++----- inst/rmarkdown/templates/mortality/template.yaml | 8 inst/rmarkdown/templates/mortality_recode/skeleton/skeleton.Rmd | 600 - inst/rmarkdown/templates/mortality_recode/template.yaml | 8 inst/rmarkdown/templates/nutrition/skeleton/skeleton.Rmd | 4290 ++++---- inst/rmarkdown/templates/nutrition/template.yaml | 8 inst/rmarkdown/templates/nutrition_recode/skeleton/skeleton.Rmd | 600 - inst/rmarkdown/templates/nutrition_recode/template.yaml | 8 inst/rmarkdown/templates/vaccination_long/skeleton/skeleton.Rmd | 3574 +++--- inst/rmarkdown/templates/vaccination_long/template.yaml | 8 inst/rmarkdown/templates/vaccination_long_recode/skeleton/skeleton.Rmd | 602 - inst/rmarkdown/templates/vaccination_long_recode/template.yaml | 8 inst/rmarkdown/templates/vaccination_short/skeleton/skeleton.Rmd | 3588 +++--- inst/rmarkdown/templates/vaccination_short/template.yaml | 8 inst/rmarkdown/templates/vaccination_short_recode/skeleton/skeleton.Rmd | 602 - inst/rmarkdown/templates/vaccination_short_recode/template.yaml | 8 man/available_sitrep_templates.Rd | 48 man/check_sitrep_templates.Rd | 100 man/rmdhunks/introduction.Rmd | 150 man/sitrep-package.Rd | 88 man/sitrep_check_deps.Rd | 52 man/sitrep_conflicts.Rd | 30 man/sitrep_functions.Rd | 34 man/sitrep_install_deps.Rd | 102 tests/testthat.R | 8 tests/testthat/test-metafunctions.R | 434 tests/testthat/test-templates.R | 34 vignettes/Background.Rmd | 174 vignettes/ajs_intersectional_outbreak_guide.Rmd | 1106 +- vignettes/cholera_intersectional_outbreak_guide.Rmd | 1112 +- vignettes/diphtheria_intersectional_outbreak_guide.Rmd | 1114 +- vignettes/intersectional_outbreak_recode_guide.Rmd | 440 vignettes/measles_intersectional_outbreak_guide.Rmd | 1098 +- vignettes/meningitis_intersectional_outbreak_guide.Rmd | 1194 +- 89 files changed, 42025 insertions(+), 42019 deletions(-)
Title: Ratio-of-Uniforms Simulation with Transformation
Description: Uses the generalized ratio-of-uniforms (RU) method to simulate
from univariate and (low-dimensional) multivariate continuous distributions.
The user specifies the log-density, up to an additive constant. The RU
algorithm is applied after relocation of mode of the density to zero, and
the user can choose a tuning parameter r. For details see Wakefield, Gelfand
and Smith (1991) <DOI:10.1007/BF01889987>, Efficient generation of random
variates via the ratio-of-uniforms method, Statistics and Computing (1991)
1, 129-133. A Box-Cox variable transformation can be used to make the input
density suitable for the RU method and to improve efficiency. In the
multivariate case rotation of axes can also be used to improve efficiency.
From version 1.2.0 the 'Rcpp' package
<https://cran.r-project.org/package=Rcpp> can be used to improve efficiency.
Author: Paul J. Northrop [aut, cre, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between rust versions 1.4.3 dated 2024-08-17 and 1.4.4 dated 2026-01-11
DESCRIPTION | 10 +- MD5 | 20 ++--- NEWS.md | 8 +- README.md | 7 + build/partial.rdb |binary build/vignette.rds |binary inst/doc/rust-a-vignette.html | 35 ++++---- inst/doc/rust-b-when-to-use-vignette.html | 60 +++++++-------- inst/doc/rust-c-using-rcpp-vignette.html | 36 ++++----- src/RcppExports.cpp | 120 +++++++++++++++--------------- tools/rust_logo.png |binary 11 files changed, 155 insertions(+), 141 deletions(-)
Title: A Test Environment for Database Requests
Description: Testing and documenting code that communicates with remote
databases can be painful. Although the interaction with R is usually relatively
simple (e.g. data(frames) passed to and from a database), because they rely on
a separate service and the data there, testing them can be difficult to set up,
unsustainable in a continuous integration environment, or impossible without
replicating an entire production cluster. This package addresses that by
allowing you to make recordings from your database interactions and then play
them back while testing (or in other contexts) all without needing to spin up
or have access to the database your code would typically connect to.
Author: Jonathan Keane [aut, cre] ,
Mauricio Vargas [aut] ,
Helen Miller [rev] ,
Etienne Racine [rev]
Maintainer: Jonathan Keane <jkeane@gmail.com>
Diff between dittodb versions 0.1.9 dated 2025-08-18 and 0.1.10 dated 2026-01-11
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 3 +++ inst/doc/developing-dittodb.Rmd | 2 +- inst/doc/developing-dittodb.html | 8 +++----- inst/doc/dittodb.html | 8 ++++---- inst/doc/nycflights.html | 4 ++-- vignettes/developing-dittodb.Rmd | 2 +- 8 files changed, 25 insertions(+), 24 deletions(-)
Title: Model-Independent Variable Selection via the Rule-Based Variable
Priority
Description: A new framework of variable selection, which instead of generating artificial covariates such as permutation importance and knockoffs, creates release rules to examine the affect on the response for each covariate where the conditional distribution of the response variable can be arbitrary and unknown.
Author: Min Lu [aut],
Aster K. Shear [aut],
Udaya B. Kogalur [aut, cre],
Hemant Ishwaran [aut]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between varPro versions 1.0.1 dated 2025-12-14 and 2.0.0 dated 2026-01-11
varPro-1.0.1/varPro/R/clusterpro.R |only varPro-1.0.1/varPro/R/plot.clusterpro.R |only varPro-1.0.1/varPro/R/utilities_virtualpro.R |only varPro-1.0.1/varPro/man/clusterpro.Rd |only varPro-1.0.1/varPro/man/plot.clusterpro.Rd |only varPro-2.0.0/varPro/DESCRIPTION | 10 varPro-2.0.0/varPro/MD5 | 80 +- varPro-2.0.0/varPro/NAMESPACE | 8 varPro-2.0.0/varPro/R/beta.varpro.R | 491 +++++++---------- varPro-2.0.0/varPro/R/cv.varpro.R | 102 --- varPro-2.0.0/varPro/R/importance.varpro.R | 219 ++----- varPro-2.0.0/varPro/R/isopro.R | 55 - varPro-2.0.0/varPro/R/ivarpro.R | 624 ++++++++++++++------- varPro-2.0.0/varPro/R/outpro.R | 34 - varPro-2.0.0/varPro/R/partialpro.R | 407 +++++--------- varPro-2.0.0/varPro/R/plot.partialpro.R | 123 ---- varPro-2.0.0/varPro/R/predict.isopro.R | 6 varPro-2.0.0/varPro/R/predict.uvarpro.R | 10 varPro-2.0.0/varPro/R/predict.varpro.R | 6 varPro-2.0.0/varPro/R/utilities.R | 71 -- varPro-2.0.0/varPro/R/utilities_cv_varpro.R | 53 - varPro-2.0.0/varPro/R/utilities_data.R | 4 varPro-2.0.0/varPro/R/utilities_hotencode.R | 37 - varPro-2.0.0/varPro/R/utilities_importance.R | 259 +++------ varPro-2.0.0/varPro/R/utilities_isopro.R | 7 varPro-2.0.0/varPro/R/utilities_ivarpro.R | 554 +++++++++++++++++-- varPro-2.0.0/varPro/R/utilities_outpro.R | 18 varPro-2.0.0/varPro/R/utilities_papply_psock.R |only varPro-2.0.0/varPro/R/utilities_parallel.R | 1 varPro-2.0.0/varPro/R/utilities_partialpro.R | 57 - varPro-2.0.0/varPro/R/utilities_survival.R | 12 varPro-2.0.0/varPro/R/utilities_uvarpro.R | 629 ++++++++++++---------- varPro-2.0.0/varPro/R/utilities_varpro_strength.R | 98 --- varPro-2.0.0/varPro/R/uvarpro.R | 229 ++------ varPro-2.0.0/varPro/R/varpro.R | 138 ---- varPro-2.0.0/varPro/R/varpro.strength.R | 221 ------- varPro-2.0.0/varPro/inst/NEWS | 17 varPro-2.0.0/varPro/man/cv.varpro.Rd | 5 varPro-2.0.0/varPro/man/importance.varpro.Rd | 3 varPro-2.0.0/varPro/man/ivarpro.Rd | 324 +++++------ varPro-2.0.0/varPro/man/partialpro.Rd | 4 varPro-2.0.0/varPro/man/utilities_internal.Rd | 3 varPro-2.0.0/varPro/man/uvarpro.Rd | 34 - varPro-2.0.0/varPro/man/varpro.Rd | 76 +- 44 files changed, 2267 insertions(+), 2762 deletions(-)
Title: Spatial Analysis in Archaeology from Refitting Fragments (GUI)
Description: A 'Shiny' application to access the functionalities and datasets of the 'archeofrag' package for spatial analysis in archaeology from refitting data. Quick and seamless exploration of archaeological refitting datasets, focusing on physical refits only. Features include: built-in documentation and convenient workflow, plot generation and exports, anomaly detection in the spatial distribution of refitting connection, exploration of spatial units merging solutions, simulation of archaeological site formation processes, support for parallel computing, R code generation to re-execute simulations and ensure reproducibility, code generation for the 'openMOLE' model exploration software. A demonstration of the app is available at <https://analytics.huma-num.fr/Sebastien.Plutniak/archeofrag/>.
Author: Sebastien Plutniak [aut, cre]
Maintainer: Sebastien Plutniak <sebastien.plutniak@posteo.net>
Diff between archeofrag.gui versions 1.1.0 dated 2025-04-09 and 1.1.4 dated 2026-01-11
DESCRIPTION | 13 MD5 | 15 - NAMESPACE | 7 NEWS.md | 26 + R/app_server.R | 729 +++++++++++++++++++++++++++++++++++++------------- R/app_ui.R | 181 +++++++++--- R/archeofrag.gui.R | 14 R/heap_permutation.R |only man/archeofrag.gui.Rd | 8 9 files changed, 743 insertions(+), 250 deletions(-)
More information about archeofrag.gui at CRAN
Permanent link
Title: Latent Semantic Analysis
Description: The basic idea of latent semantic analysis (LSA) is,
that text do have a higher order (=latent semantic) structure which,
however, is obscured by word usage (e.g. through the use of synonyms
or polysemy). By using conceptual indices that are derived statistically
via a truncated singular value decomposition (a two-mode factor analysis)
over a given document-term matrix, this variability problem can be overcome.
Author: Fridolin Wild [aut, cre]
Maintainer: Fridolin Wild <wild@brookes.ac.uk>
Diff between lsa versions 0.73.3 dated 2022-05-09 and 0.73.4 dated 2026-01-11
DESCRIPTION | 14 +++++++++----- MD5 | 4 ++-- man/specialchars.Rd | 7 +++++-- 3 files changed, 16 insertions(+), 9 deletions(-)
Title: Generation of Artificial Binary Data
Description: Generation of correlated artificial binary data.
Author: Friedrich Leisch [aut] ,
Andreas Weingessel [aut],
Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between bindata versions 0.9-22 dated 2024-12-30 and 0.9-23 dated 2026-01-11
DESCRIPTION | 11 +++++------ MD5 | 9 +++++---- R/sysdata.rda |binary build |only inst/doc/artdatagen.pdf |binary man/rmvbin.Rd | 29 ++++++++++++++++++++++------- 6 files changed, 32 insertions(+), 17 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-04 1.0.5
2017-03-25 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-16 0.1.1
2021-11-10 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-17 1.0.0
2021-01-07 0.4.4
2020-11-30 0.4.3
2020-11-26 0.4.2
2020-11-25 0.4.0
2020-10-07 0.3.0
2020-03-14 0.2.1
2020-02-11 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-04 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-04 1.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-06 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-28 0.6.2
2018-05-29 0.6.1
2017-03-06 0.6.0
2013-02-04 0.5.1
2013-02-03 0.5.0
2011-05-06 0.3.3
2011-04-07 0.3.2
2011-03-28 0.3.1
2011-03-22 0.3
2011-03-18 0.2
2011-03-17 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-05 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-03 0.1.4
2021-07-05 0.1.3
2021-06-01 0.1.2
2021-05-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-10 0.1.2
2020-07-27 0.1.1
2020-06-04 0.1.0
Title: Utility Functions for Plotting
Description: Provides utility functions for plotting. Includes functions for color manipulation, plot customization, panel size control, data optimization for plots, and layout adjustments.
Author: Meng Xu [aut, cre]
Maintainer: Meng Xu <mengxu98@qq.com>
Diff between thisplot versions 0.3.1 dated 2025-12-17 and 0.3.2 dated 2026-01-11
thisplot-0.3.1/thisplot/man/figures/ChineseColors.png |only thisplot-0.3.1/thisplot/man/figures/ChineseColors_palettes.svg |only thisplot-0.3.1/thisplot/man/get_namespace_fun.Rd |only thisplot-0.3.2/thisplot/DESCRIPTION | 10 thisplot-0.3.2/thisplot/MD5 | 13 thisplot-0.3.2/thisplot/NAMESPACE | 1 thisplot-0.3.2/thisplot/NEWS.md | 5 thisplot-0.3.2/thisplot/R/utils.R | 22 thisplot-0.3.2/thisplot/README.md | 5496 +++++++++- 9 files changed, 5499 insertions(+), 48 deletions(-)
Title: Simple Data Frames
Description: Provides a 'tbl_df' class (the 'tibble') with stricter
checking and better formatting than the traditional data frame.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
Romain Francois [ctb],
Jennifer Bryan [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between tibble versions 3.3.0 dated 2025-06-08 and 3.3.1 dated 2026-01-11
DESCRIPTION | 54 +- MD5 | 180 ++++---- NEWS.md | 27 + R/aaa-options.R | 33 + R/add.R | 55 ++ R/as_tibble.R | 156 ++++++- R/compat-friendly-type.R | 3 R/compat-lazyeval.R | 42 +- R/compat-purrr.R | 16 R/deprecated.R | 24 - R/dftbl.R | 25 - R/enframe.R | 11 R/galley.R | 32 + R/glimpse.R | 1 R/lst.R | 4 R/names.R | 165 ++++++-- R/new.R | 26 + R/pipe.R | 1 R/print.R | 32 + R/str.R | 8 R/sub.R | 96 +++- R/subassign-backend.R | 60 ++ R/subassign.R | 180 +++++++- R/subsetting-matrix.R | 101 +++- R/tbl_df.R | 13 R/tbl_sum.R | 5 R/tibble-package.R | 15 R/tibble.R | 111 ++++- R/tidy_names.R | 18 R/tribble.R | 78 ++- R/utils-msg-format.R | 1 README.md | 14 build/vignette.rds |binary inst/doc/digits.R | 2 inst/doc/digits.Rmd | 4 inst/doc/formats.R | 172 ++++---- inst/doc/formats.Rmd | 24 - inst/doc/formats.html | 76 --- inst/doc/invariants.R | 144 +++---- inst/doc/invariants.Rmd | 325 ++++++++++++---- inst/doc/numbers.R | 26 - inst/doc/numbers.Rmd | 41 +- inst/doc/tibble.R | 10 inst/doc/tibble.Rmd | 18 inst/doc/types.R | 23 - inst/doc/types.Rmd | 39 + inst/doc/types.html | 26 - man/tbl_df-class.Rd | 2 man/tibble-package.Rd | 4 src/attributes.c | 31 + src/coerce.c | 17 src/init.c | 12 src/matrixToDataFrame.c | 84 +--- src/tibble.h | 1 tests/testthat/_snaps/as_tibble.md | 14 tests/testthat/_snaps/subsetting.md | 14 tests/testthat/_snaps/vignette-formats/formats.md | 2 tests/testthat/_snaps/vignette-invariants/invariants.md | 111 +++-- tests/testthat/_snaps/vignette-types/types.md | 58 +- tests/testthat/helper-encoding.R | 16 tests/testthat/helper-my.R | 24 - tests/testthat/helper-pillar.R | 3 tests/testthat/helper-type-sum.R | 21 - tests/testthat/test-add.R | 30 + tests/testthat/test-as_tibble.R | 93 +++- tests/testthat/test-enframe.R | 1 tests/testthat/test-error.R | 6 tests/testthat/test-lst.R | 5 tests/testthat/test-msg.R | 55 ++ tests/testthat/test-names.R | 32 + tests/testthat/test-new.R | 12 tests/testthat/test-print.R | 6 tests/testthat/test-string-to-indices.R | 10 tests/testthat/test-subsetting.R | 50 +- tests/testthat/test-tibble.R | 10 tests/testthat/test-tidy_names.R | 5 tests/testthat/test-tribble.R | 24 - tests/testthat/test-utils-msg-format.R | 10 tests/testthat/test-vignette-invariants.R | 2 tests/testthat/vignettes/digits.Rmd | 4 tests/testthat/vignettes/formats.Rmd | 24 - tests/testthat/vignettes/invariants.Rmd | 325 ++++++++++++---- tests/testthat/vignettes/numbers.Rmd | 41 +- tests/testthat/vignettes/tibble.Rmd | 18 tests/testthat/vignettes/types.Rmd | 39 + vignettes/digits.Rmd | 4 vignettes/formats.Rmd | 24 - vignettes/invariants.Rmd | 325 ++++++++++++---- vignettes/numbers.Rmd | 41 +- vignettes/tibble.Rmd | 18 vignettes/types.Rmd | 39 + 91 files changed, 2924 insertions(+), 1260 deletions(-)
Title: An Alternative Advanced Normalization Tools ('ANTs')
Description: Provides portable access from 'R' to biomedical image processing toolbox
'ANTs' by Avants et al. (2009) <doi:10.54294/uvnhin> via seamless
integration with the 'Python' implementation 'ANTsPy'. Allows biomedical
images to be processed in 'Python' and analyzed in 'R', and vice versa
via shared memory. See 'citation("rpyANTs")' for more reference information.
Author: Zhengjia Wang [aut, cre]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between rpyANTs versions 0.0.5 dated 2025-07-22 and 0.0.6 dated 2026-01-11
DESCRIPTION | 8 MD5 | 25 +- NAMESPACE | 1 NEWS.md | 10 + R/registration.R | 59 ++++++ R/resample.R | 42 ++-- R/templates.R | 15 + inst/rpyants/rpyants/registration/normalization.py | 197 +++++++++++++++++---- inst/rpyants/rpyants/registration/yael.py | 15 + inst/rpyants/rpyants/utils/cache.py | 4 man/ants_resample_image.Rd | 42 ++-- man/extract_coregistration.Rd |only man/py.Rd | 2 tests/testthat/test-transform.R | 3 14 files changed, 335 insertions(+), 88 deletions(-)
Title: Functions to Support Extension Education Program Evaluation
Description: Functions and datasets to support Summary and Analysis of
Extension Program Evaluation in R, and An R
Companion for the Handbook of Biological Statistics.
Vignettes are available at <https://rcompanion.org>.
Author: Salvatore Mangiafico [aut, cre]
Maintainer: Salvatore Mangiafico <mangiafico@njaes.rutgers.edu>
Diff between rcompanion versions 2.5.1 dated 2025-11-19 and 2.5.2 dated 2026-01-11
DESCRIPTION | 8 ++-- MD5 | 22 +++++------ NEWS.md | 6 +++ R/accuracy.r | 25 +++++++----- R/mangiaficoD.r | 91 ++++++++++++++++++++++++++++++++++++++++------ R/multiMangiaficoD.r | 2 - R/rcompanion.R | 14 +++++-- inst/CITATION | 8 ++-- man/accuracy.Rd | 24 +++++++----- man/mangiaficoD.Rd | 20 ++++++++-- man/multiMangiaficoD.Rd | 2 - man/rcompanion-package.Rd | 14 +++++-- 12 files changed, 172 insertions(+), 64 deletions(-)
Title: Fast Unified Random Forests for Survival, Regression, and
Classification (RF-SRC)
Description: Fast OpenMP parallel computing of Breiman's random forests for univariate, multivariate, unsupervised, survival, competing risks, class imbalanced classification and quantile regression. New Mahalanobis splitting for correlated outcomes. Extreme random forests and randomized splitting. Suite of imputation methods for missing data. Fast random forests using subsampling. Confidence regions and standard errors for variable importance. New improved holdout importance. Case-specific importance. Minimal depth variable importance. Visualize trees on your Safari or Google Chrome browser. Anonymous random forests for data privacy.
Author: Hemant Ishwaran [aut],
Udaya B. Kogalur [aut, cre]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between randomForestSRC versions 3.4.5 dated 2025-11-26 and 3.5.0 dated 2026-01-11
randomForestSRC-3.4.5/randomForestSRC/cleanup |only randomForestSRC-3.4.5/randomForestSRC/configure |only randomForestSRC-3.4.5/randomForestSRC/configure.ac |only randomForestSRC-3.4.5/randomForestSRC/src/Makevars.in |only randomForestSRC-3.4.5/randomForestSRC/src/sources.list |only randomForestSRC-3.5.0/randomForestSRC/DESCRIPTION | 12 randomForestSRC-3.5.0/randomForestSRC/MD5 | 69 randomForestSRC-3.5.0/randomForestSRC/NAMESPACE | 2 randomForestSRC-3.5.0/randomForestSRC/R/generic.predict.rfsrc.R | 38 randomForestSRC-3.5.0/randomForestSRC/R/max.subtree.rfsrc.R | 392 ++-- randomForestSRC-3.5.0/randomForestSRC/R/partial.rfsrc.R | 1 randomForestSRC-3.5.0/randomForestSRC/R/quantreg.rfsrc.R | 38 randomForestSRC-3.5.0/randomForestSRC/R/rfsrc.R | 19 randomForestSRC-3.5.0/randomForestSRC/R/subsample.rfsrc.R | 8 randomForestSRC-3.5.0/randomForestSRC/R/utilities.R | 18 randomForestSRC-3.5.0/randomForestSRC/R/utilities_data.R | 1 randomForestSRC-3.5.0/randomForestSRC/R/utilities_factor.R | 290 +-- randomForestSRC-3.5.0/randomForestSRC/R/utilities_imbalanced.R | 168 + randomForestSRC-3.5.0/randomForestSRC/R/utilities_impute.R | 80 randomForestSRC-3.5.0/randomForestSRC/R/utilities_papply_psock.R |only randomForestSRC-3.5.0/randomForestSRC/R/utilities_performance.R | 177 + randomForestSRC-3.5.0/randomForestSRC/R/utilities_quantreg.R | 2 randomForestSRC-3.5.0/randomForestSRC/R/utilities_subsample.R | 42 randomForestSRC-3.5.0/randomForestSRC/R/utilities_survival.R | 240 ++ randomForestSRC-3.5.0/randomForestSRC/R/utilities_unsupervised.R | 16 randomForestSRC-3.5.0/randomForestSRC/inst/NEWS | 19 randomForestSRC-3.5.0/randomForestSRC/inst/copyright |only randomForestSRC-3.5.0/randomForestSRC/man/imbalanced.rfsrc.Rd | 116 - randomForestSRC-3.5.0/randomForestSRC/man/rfsrc.Rd | 42 randomForestSRC-3.5.0/randomForestSRC/src/R_init_randomForestSRC.c | 18 randomForestSRC-3.5.0/randomForestSRC/src/cindex.c | 102 - randomForestSRC-3.5.0/randomForestSRC/src/cindex.h | 18 randomForestSRC-3.5.0/randomForestSRC/src/entry.c | 15 randomForestSRC-3.5.0/randomForestSRC/src/entry.h | 3 randomForestSRC-3.5.0/randomForestSRC/src/external.h | 1 randomForestSRC-3.5.0/randomForestSRC/src/internal.c | 1 randomForestSRC-3.5.0/randomForestSRC/src/rfsrcUtil.c | 14 randomForestSRC-3.5.0/randomForestSRC/src/survivalE.c | 898 ++++++++-- randomForestSRC-3.5.0/randomForestSRC/src/survivalE.h | 39 39 files changed, 2141 insertions(+), 758 deletions(-)
More information about randomForestSRC at CRAN
Permanent link
Title: File IO for Intracranial Electroencephalography
Description: Integrated toolbox supporting common file formats used for intracranial
Electroencephalography (iEEG) and deep-brain stimulation (DBS) study.
Author: Zhengjia Wang [aut, cre]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between ieegio versions 0.0.6 dated 2025-10-24 and 0.0.8 dated 2026-01-11
DESCRIPTION | 8 MD5 | 42 ++- NAMESPACE | 23 ++ NEWS.md | 17 + R/aaa-generics-volume.R | 274 ++++++++++++++++++------ R/aaa.R | 24 ++ R/as_ieegio_space.R |only R/as_ieegio_transform.R |only R/math-volume.R | 4 R/nifti.R | 95 ++++++++ R/utils-surf2surf.R |only R/utils-vol2surf.R |only build/vignette.rds |binary inst/WORDLIST | 6 man/as_ieegio_transform.Rd |only man/as_ieegio_volume.Rd | 29 ++ man/as_nifti_header.Rd |only man/imaging-volume.Rd | 16 + man/io_read_ants_transform.Rd |only man/io_read_flirt_transform.Rd |only man/new_space.Rd |only man/surface_to_surface.Rd |only man/transform_flirt2ras.Rd |only man/transform_orientation.Rd |only man/volume_to_surface.Rd |only tests/testthat/test-apply-transform-to-points.R |only tests/testthat/test-flirt.R |only tests/testthat/test-space.R |only tests/testthat/test-surface-to-surface.R |only tests/testthat/test-transform-chain.R |only tests/testthat/test-transform.R | 246 +++++++++++++++++++++ 31 files changed, 700 insertions(+), 84 deletions(-)
Title: Estimation of the Extremal Index
Description: Performs frequentist inference for the extremal index of a
stationary time series. Two types of methodology are used. One type is
based on a model that relates the distribution of block maxima to the
marginal distribution of series and leads to the semiparametric maxima
estimators described in Northrop (2015) <doi:10.1007/s10687-015-0221-5> and
Berghaus and Bucher (2018) <doi:10.1214/17-AOS1621>. Sliding block maxima
are used to increase precision of estimation. A graphical block size
diagnostic is provided. The other type of methodology uses a model for the
distribution of threshold inter-exceedance times (Ferro and Segers (2003)
<doi:10.1111/1467-9868.00401>). Three versions of this type of approach are
provided: the iterated weight least squares approach of Suveges (2007)
<doi:10.1007/s10687-007-0034-2>, the K-gaps model of
Suveges and Davison (2010) <doi:10.1214/09-AOAS292> and a similar approach
of Holesovsky and Fusek (2020) <doi:10.1007/s10687-0 [...truncated...]
Author: Paul J. Northrop [aut, cre, cph],
Constantinos Christodoulides [aut, cph]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between exdex versions 1.2.3 dated 2023-12-02 and 1.2.4 dated 2026-01-11
DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- NEWS.md | 6 ++++++ README.md | 7 +++++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/exdex-vignette.html | 20 +++++++++++--------- src/RcppExports.cpp | 8 ++++---- 8 files changed, 39 insertions(+), 28 deletions(-)
Title: Unit Testing for R
Description: Software testing is important, but, in part because it is
frustrating and boring, many of us avoid it. 'testthat' is a testing
framework for R that is easy to learn and use, and integrates with
your existing 'workflow'.
Author: Hadley Wickham [aut, cre],
Posit Software, PBC [cph, fnd],
R Core team [ctb] )
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between testthat versions 3.3.1 dated 2025-11-25 and 3.3.2 dated 2026-01-11
DESCRIPTION | 10 MD5 | 108 +++++----- NAMESPACE | 2 NEWS.md | 15 + R/expect-comparison.R | 1 R/expect-constant.R | 2 R/expect-self-test.R | 54 +++-- R/mock-oo.R | 76 +++++-- R/otel.R |only R/parallel.R | 2 R/reporter-check.R | 2 R/reporter-llm.R |only R/reporter.R | 53 +++- R/snapshot-github.R | 6 R/snapshot-reporter.R | 4 R/snapshot.R | 12 + R/test-files.R | 15 - R/test-that.R | 30 ++ R/testthat-package.R | 8 build/vignette.rds |binary inst/doc/mocking.html | 6 inst/doc/snapshotting.html | 6 man/CheckReporter.Rd | 1 man/DebugReporter.Rd | 1 man/FailReporter.Rd | 1 man/JunitReporter.Rd | 1 man/ListReporter.Rd | 1 man/LlmReporter.Rd |only man/LocationReporter.Rd | 1 man/MinimalReporter.Rd | 1 man/MultiReporter.Rd | 1 man/ProgressReporter.Rd | 1 man/RStudioReporter.Rd | 1 man/Reporter.Rd | 1 man/SilentReporter.Rd | 1 man/SlowReporter.Rd | 2 man/StopReporter.Rd | 1 man/SummaryReporter.Rd | 1 man/TapReporter.Rd | 1 man/TeamcityReporter.Rd | 1 man/default_reporter.Rd | 34 +-- man/local_mocked_s3_method.Rd | 9 man/local_snapshotter.Rd | 2 man/snapshot_download_gh.Rd | 6 tests/testthat/_snaps/expect-self-test.md | 44 ++-- tests/testthat/_snaps/mock-oo.md | 14 - tests/testthat/_snaps/reporter-llm.md |only tests/testthat/_snaps/snapshot-file.md | 2 tests/testthat/_snaps/snapshot.md | 2 tests/testthat/test-expect-self-test.R | 8 tests/testthat/test-expect-vector.R | 8 tests/testthat/test-mock-oo.R | 57 +++++ tests/testthat/test-otel.R |only tests/testthat/test-parallel/startup/tests/testthat/test-empty.R |only tests/testthat/test-parallel/teardown/tests/testthat/test-empty.R |only tests/testthat/test-reporter-check.R | 3 tests/testthat/test-reporter-llm.R |only tests/testthat/test-reporter.R | 18 + tests/testthat/test-snapshot.R | 18 + 59 files changed, 468 insertions(+), 187 deletions(-)
Title: Templated Reporting Workflows in Word and PowerPoint
Description: Automated reporting in Word and PowerPoint can require customization for each organizational template. This package works around this by adding standard reporting functions and an abstraction layer to facilitate automated reporting workflows that can be replicated across different organizational templates.
Author: John Harrold [aut, cre] ,
Bryan Smith [aut]
Maintainer: John Harrold <john.m.harrold@gmail.com>
Diff between onbrand versions 1.0.7 dated 2025-07-22 and 1.0.8 dated 2026-01-11
DESCRIPTION | 12 MD5 | 24 NAMESPACE | 2 NEWS.md | 8 R/fetch_rpttype.R | 6 R/read_template.R | 2 R/report_add_doc_content.R | 2 R/set_officer_object.R | 2 R/span_table.R | 2 R/view_layout.R | 2 inst/doc/Creating_Templated_Office_Workflows.html | 530 +++++++++++----------- inst/doc/Custom_Office_Templates.html | 5 man/fetch_rpttype.Rd | 2 13 files changed, 302 insertions(+), 297 deletions(-)
Title: Forecasting Functions for Time Series and Linear Models
Description: Methods and tools for displaying and analysing
univariate time series forecasts including exponential smoothing
via state space models and automatic ARIMA modelling.
Author: Rob Hyndman [aut, cre, cph] ,
George Athanasopoulos [aut] ,
Christoph Bergmeir [aut] ,
Gabriel Caceres [aut] ,
Leanne Chhay [aut],
Kirill Kuroptev [aut],
Maximilian Muecke [aut] ,
Mitchell O'Hara-Wild [aut] ,
Fotios Petropoulos [aut] ,
Slava Razbash [ [...truncated...]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between forecast versions 8.24.0 dated 2025-04-08 and 9.0.0 dated 2026-01-11
forecast-8.24.0/forecast/man/accuracy.default.Rd |only forecast-8.24.0/forecast/man/croston.Rd |only forecast-8.24.0/forecast/man/meanf.Rd |only forecast-8.24.0/forecast/man/naive.Rd |only forecast-8.24.0/forecast/man/splinef.Rd |only forecast-8.24.0/forecast/man/thetaf.Rd |only forecast-9.0.0/forecast/DESCRIPTION | 39 forecast-9.0.0/forecast/MD5 | 376 - forecast-9.0.0/forecast/NAMESPACE | 33 forecast-9.0.0/forecast/NEWS.md | 14 forecast-9.0.0/forecast/R/DM2.R | 83 forecast-9.0.0/forecast/R/HoltWintersNew.R | 595 +- forecast-9.0.0/forecast/R/acf.R | 266 - forecast-9.0.0/forecast/R/adjustSeasonalSeeds.R | 73 forecast-9.0.0/forecast/R/arfima.R | 300 - forecast-9.0.0/forecast/R/arima.R | 852 ++- forecast-9.0.0/forecast/R/armaroots.R | 79 forecast-9.0.0/forecast/R/attach.R | 12 forecast-9.0.0/forecast/R/baggedModel.R | 118 forecast-9.0.0/forecast/R/bats.R | 324 - forecast-9.0.0/forecast/R/bootstrap.R | 50 forecast-9.0.0/forecast/R/calendar.R | 59 forecast-9.0.0/forecast/R/checkAdmissibility.R | 23 forecast-9.0.0/forecast/R/checkresiduals.R | 73 forecast-9.0.0/forecast/R/clean.R | 75 forecast-9.0.0/forecast/R/components.R | 94 forecast-9.0.0/forecast/R/croston.R |only forecast-9.0.0/forecast/R/data.R | 1 forecast-9.0.0/forecast/R/dshw.r | 176 forecast-9.0.0/forecast/R/errors.R | 205 forecast-9.0.0/forecast/R/ets.R | 1061 ++-- forecast-9.0.0/forecast/R/etsforecast.R | 293 - forecast-9.0.0/forecast/R/findfrequency.R | 21 forecast-9.0.0/forecast/R/fitBATS.R | 521 +- forecast-9.0.0/forecast/R/fitTBATS.R | 561 ++ forecast-9.0.0/forecast/R/forecast-package.R | 3 forecast-9.0.0/forecast/R/forecast.R | 554 +- forecast-9.0.0/forecast/R/forecast.varest.R | 44 forecast-9.0.0/forecast/R/forecast2.R | 492 -- forecast-9.0.0/forecast/R/forecastBATS.R | 163 forecast-9.0.0/forecast/R/forecastTBATS.R | 199 forecast-9.0.0/forecast/R/getResponse.R | 56 forecast-9.0.0/forecast/R/ggplot.R | 3518 +++++++++------ forecast-9.0.0/forecast/R/graph.R | 201 forecast-9.0.0/forecast/R/guerrero.R | 82 forecast-9.0.0/forecast/R/lm.R | 342 - forecast-9.0.0/forecast/R/makeMatrices.R | 86 forecast-9.0.0/forecast/R/makeParamVector.R | 114 forecast-9.0.0/forecast/R/mean.R |only forecast-9.0.0/forecast/R/mforecast.R | 231 forecast-9.0.0/forecast/R/modelAR.R | 337 - forecast-9.0.0/forecast/R/mstl.R | 468 + forecast-9.0.0/forecast/R/msts.R | 59 forecast-9.0.0/forecast/R/naive.R | 455 + forecast-9.0.0/forecast/R/newarima2.R | 971 +++- forecast-9.0.0/forecast/R/nnetar.R | 414 - forecast-9.0.0/forecast/R/residuals.R | 124 forecast-9.0.0/forecast/R/seasadj.R | 22 forecast-9.0.0/forecast/R/season.R | 229 forecast-9.0.0/forecast/R/simulate.R | 424 + forecast-9.0.0/forecast/R/simulate_forecasts.R |only forecast-9.0.0/forecast/R/simulate_tbats.R | 47 forecast-9.0.0/forecast/R/spline.R | 488 +- forecast-9.0.0/forecast/R/subset.R | 115 forecast-9.0.0/forecast/R/tbats.R | 572 +- forecast-9.0.0/forecast/R/theta.R | 248 - forecast-9.0.0/forecast/R/tscv.R | 186 forecast-9.0.0/forecast/R/unitRoot.R | 284 - forecast-9.0.0/forecast/R/utils.R |only forecast-9.0.0/forecast/R/whichmodels.R | 23 forecast-9.0.0/forecast/R/wrangle.R | 25 forecast-9.0.0/forecast/README.md | 21 forecast-9.0.0/forecast/build/vignette.rds |binary forecast-9.0.0/forecast/inst/doc/JSS2008.Rmd | 1 forecast-9.0.0/forecast/inst/doc/JSS2008.pdf |binary forecast-9.0.0/forecast/man/Acf.Rd | 35 forecast-9.0.0/forecast/man/Arima.Rd | 87 forecast-9.0.0/forecast/man/BoxCox.Rd | 21 forecast-9.0.0/forecast/man/BoxCox.lambda.Rd | 18 forecast-9.0.0/forecast/man/CV.Rd | 6 forecast-9.0.0/forecast/man/CVar.Rd | 12 forecast-9.0.0/forecast/man/accuracy.forecast.Rd |only forecast-9.0.0/forecast/man/arfima.Rd | 46 forecast-9.0.0/forecast/man/arima.errors.Rd | 4 forecast-9.0.0/forecast/man/arimaorder.Rd | 13 forecast-9.0.0/forecast/man/auto.arima.Rd | 63 forecast-9.0.0/forecast/man/autoplot.acf.Rd | 19 forecast-9.0.0/forecast/man/autoplot.seas.Rd | 27 forecast-9.0.0/forecast/man/autoplot.ts.Rd | 25 forecast-9.0.0/forecast/man/baggedModel.Rd | 16 forecast-9.0.0/forecast/man/bats.Rd | 21 forecast-9.0.0/forecast/man/bizdays.Rd | 6 forecast-9.0.0/forecast/man/bld.mbb.bootstrap.Rd | 2 forecast-9.0.0/forecast/man/checkresiduals.Rd | 15 forecast-9.0.0/forecast/man/croston_model.Rd |only forecast-9.0.0/forecast/man/dm.test.Rd | 14 forecast-9.0.0/forecast/man/dshw.Rd | 51 forecast-9.0.0/forecast/man/easter.Rd | 8 forecast-9.0.0/forecast/man/ets.Rd | 56 forecast-9.0.0/forecast/man/fitted.Arima.Rd | 21 forecast-9.0.0/forecast/man/forecast-package.Rd | 3 forecast-9.0.0/forecast/man/forecast.Arima.Rd | 131 forecast-9.0.0/forecast/man/forecast.HoltWinters.Rd | 84 forecast-9.0.0/forecast/man/forecast.StructTS.Rd | 77 forecast-9.0.0/forecast/man/forecast.baggedModel.Rd | 61 forecast-9.0.0/forecast/man/forecast.bats.Rd | 87 forecast-9.0.0/forecast/man/forecast.croston_model.Rd |only forecast-9.0.0/forecast/man/forecast.ets.Rd | 90 forecast-9.0.0/forecast/man/forecast.lm.Rd | 70 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forecast-9.0.0/forecast/man/modeldf.Rd | 4 forecast-9.0.0/forecast/man/monthdays.Rd | 22 forecast-9.0.0/forecast/man/mstl.Rd | 29 forecast-9.0.0/forecast/man/msts.Rd | 10 forecast-9.0.0/forecast/man/na.interp.Rd | 10 forecast-9.0.0/forecast/man/ndiffs.Rd | 8 forecast-9.0.0/forecast/man/nnetar.Rd | 54 forecast-9.0.0/forecast/man/nsdiffs.Rd | 10 forecast-9.0.0/forecast/man/ocsb.test.Rd | 14 forecast-9.0.0/forecast/man/plot.Arima.Rd | 4 forecast-9.0.0/forecast/man/plot.bats.Rd | 11 forecast-9.0.0/forecast/man/plot.ets.Rd | 8 forecast-9.0.0/forecast/man/plot.forecast.Rd | 30 forecast-9.0.0/forecast/man/plot.mforecast.Rd | 22 forecast-9.0.0/forecast/man/residuals.forecast.Rd | 19 forecast-9.0.0/forecast/man/rw_model.Rd |only forecast-9.0.0/forecast/man/seasadj.Rd | 9 forecast-9.0.0/forecast/man/seasonal.Rd | 28 forecast-9.0.0/forecast/man/seasonaldummy.Rd | 18 forecast-9.0.0/forecast/man/seasonplot.Rd | 16 forecast-9.0.0/forecast/man/ses.Rd | 84 forecast-9.0.0/forecast/man/simulate.ets.Rd | 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forecast-9.0.0/forecast/tests/testthat/test-newarima2.R | 107 forecast-9.0.0/forecast/tests/testthat/test-nnetar.R | 413 + forecast-9.0.0/forecast/tests/testthat/test-refit.R | 272 - forecast-9.0.0/forecast/tests/testthat/test-season.R | 186 forecast-9.0.0/forecast/tests/testthat/test-simulate.R |only forecast-9.0.0/forecast/tests/testthat/test-spline.R | 26 forecast-9.0.0/forecast/tests/testthat/test-subset.R | 94 forecast-9.0.0/forecast/tests/testthat/test-tbats.R | 102 forecast-9.0.0/forecast/tests/testthat/test-thetaf.R | 22 forecast-9.0.0/forecast/tests/testthat/test-tslm.R | 233 forecast-9.0.0/forecast/tests/testthat/test-wrangle.R | 60 forecast-9.0.0/forecast/vignettes/JSS-paper.bib | 1364 ++--- forecast-9.0.0/forecast/vignettes/JSS2008.Rmd | 1 201 files changed, 15780 insertions(+), 10343 deletions(-)
Title: Generate High-Resolution Venn and Euler Plots
Description: A set of functions to generate high-resolution Venn and Euler plots. Includes handling for several special cases, including two-case scaling, and extensive customization of plot shape and structure.
Author: Hanbo Chen [aut],
Paul Boutros [cre]
Maintainer: Paul Boutros <pboutros@sbpdiscovery.org>
Diff between VennDiagram versions 1.7.3 dated 2022-04-12 and 1.8.2 dated 2026-01-11
VennDiagram-1.7.3/VennDiagram/man/VennDiagram-package.Rd |only VennDiagram-1.8.2/VennDiagram/DESCRIPTION | 22 +++++++--- VennDiagram-1.8.2/VennDiagram/MD5 | 25 +++++------ VennDiagram-1.8.2/VennDiagram/NAMESPACE | 2 VennDiagram-1.8.2/VennDiagram/NEWS | 33 ++++++++++++++- VennDiagram-1.8.2/VennDiagram/R/draw.pairwise.venn.R | 1 VennDiagram-1.8.2/VennDiagram/R/draw.quad.venn.R | 1 VennDiagram-1.8.2/VennDiagram/R/draw.quintuple.venn.R | 1 VennDiagram-1.8.2/VennDiagram/R/draw.single.venn.R | 1 VennDiagram-1.8.2/VennDiagram/R/draw.sp.case.R | 3 - VennDiagram-1.8.2/VennDiagram/R/draw.triple.venn.R | 1 VennDiagram-1.8.2/VennDiagram/R/venn.diagram.R | 25 ++++++++++- VennDiagram-1.8.2/VennDiagram/README.md |only VennDiagram-1.8.2/VennDiagram/inst |only VennDiagram-1.8.2/VennDiagram/tests/testthat/test-Log.R | 9 +--- 15 files changed, 97 insertions(+), 27 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 0.9.0 dated 2025-12-10 and 0.9.1 dated 2026-01-11
valr-0.9.0/valr/R/bed_coverage.R |only valr-0.9.0/valr/R/bed_genomecov.R |only valr-0.9.0/valr/R/reexport-cpp11bigwig.R |only valr-0.9.0/valr/R/reexport-tibble.R |only valr-0.9.0/valr/tests/testthat/helper-vdiffr.R |only valr-0.9.0/valr/tests/testthat/test_genomecov.R |only valr-0.9.0/valr/tests/testthat/test_types.R |only valr-0.9.1/valr/DESCRIPTION | 26 +-- valr-0.9.1/valr/LICENSE | 4 valr-0.9.1/valr/MD5 | 126 ++++++++-------- valr-0.9.1/valr/NEWS.md | 8 + valr-0.9.1/valr/R/bed_closest.r | 6 valr-0.9.1/valr/R/bed_complement.r | 6 valr-0.9.1/valr/R/bed_coverage.r |only valr-0.9.1/valr/R/bed_flank.r | 2 valr-0.9.1/valr/R/bed_genomecov.r |only valr-0.9.1/valr/R/bed_intersect.r | 6 valr-0.9.1/valr/R/bed_slop.r | 1 valr-0.9.1/valr/R/bed_subtract.r | 6 valr-0.9.1/valr/R/db.r | 2 valr-0.9.1/valr/R/reexport-cpp11bigwig.r |only valr-0.9.1/valr/R/reexport-tibble.r |only valr-0.9.1/valr/R/tbls.r | 6 valr-0.9.1/valr/R/valr-package.r | 12 + valr-0.9.1/valr/README.md | 3 valr-0.9.1/valr/build/partial.rdb |only valr-0.9.1/valr/inst/CITATION | 37 +++- valr-0.9.1/valr/inst/doc/valr.html | 14 - valr-0.9.1/valr/inst/include/valr/random.hpp | 10 - valr-0.9.1/valr/man/bed_absdist.Rd | 2 valr-0.9.1/valr/man/bed_coverage.Rd | 4 valr-0.9.1/valr/man/bed_fisher.Rd | 2 valr-0.9.1/valr/man/bed_genomecov.Rd | 2 valr-0.9.1/valr/man/bed_intersect.Rd | 2 valr-0.9.1/valr/man/bed_jaccard.Rd | 2 valr-0.9.1/valr/man/bed_projection.Rd | 2 valr-0.9.1/valr/man/bed_reldist.Rd | 2 valr-0.9.1/valr/man/bed_subtract.Rd | 2 valr-0.9.1/valr/man/db.Rd | 2 valr-0.9.1/valr/man/reexports.Rd | 2 valr-0.9.1/valr/man/valr-package.Rd |only valr-0.9.1/valr/man/valr.Rd | 2 valr-0.9.1/valr/src/closest.cpp | 6 valr-0.9.1/valr/src/coverage.cpp | 9 + valr-0.9.1/valr/src/intersect.cpp | 36 ++-- valr-0.9.1/valr/src/merge.cpp | 9 - valr-0.9.1/valr/src/partition.cpp | 10 + valr-0.9.1/valr/src/shuffle.cpp | 16 +- valr-0.9.1/valr/src/subtract.cpp | 15 + valr-0.9.1/valr/tests/testthat.R | 4 valr-0.9.1/valr/tests/testthat/_snaps/bed12_to_exons.md |only valr-0.9.1/valr/tests/testthat/_snaps/genome.md |only valr-0.9.1/valr/tests/testthat/_snaps/glyph.md |only valr-0.9.1/valr/tests/testthat/_snaps/intersect.md |only valr-0.9.1/valr/tests/testthat/_snaps/makewindows.md |only valr-0.9.1/valr/tests/testthat/_snaps/merge.md |only valr-0.9.1/valr/tests/testthat/_snaps/random.md |only valr-0.9.1/valr/tests/testthat/_snaps/read_bed.md |only valr-0.9.1/valr/tests/testthat/_snaps/shuffle.md |only valr-0.9.1/valr/tests/testthat/_snaps/strands.md |only valr-0.9.1/valr/tests/testthat/_snaps/types.md |only valr-0.9.1/valr/tests/testthat/helper-vdiffr.r |only valr-0.9.1/valr/tests/testthat/test_bed12_to_exons.r | 2 valr-0.9.1/valr/tests/testthat/test_closest.r | 31 +++ valr-0.9.1/valr/tests/testthat/test_flank.r | 50 ++++-- valr-0.9.1/valr/tests/testthat/test_genome.r | 2 valr-0.9.1/valr/tests/testthat/test_genomecov.r |only valr-0.9.1/valr/tests/testthat/test_glyph.r | 2 valr-0.9.1/valr/tests/testthat/test_intersect.r | 2 valr-0.9.1/valr/tests/testthat/test_makewindows.r | 4 valr-0.9.1/valr/tests/testthat/test_merge.r | 2 valr-0.9.1/valr/tests/testthat/test_random.r | 2 valr-0.9.1/valr/tests/testthat/test_read_bed.r | 3 valr-0.9.1/valr/tests/testthat/test_shuffle.r | 6 valr-0.9.1/valr/tests/testthat/test_slop.r | 26 +++ valr-0.9.1/valr/tests/testthat/test_strands.r | 2 valr-0.9.1/valr/tests/testthat/test_stress.r |only valr-0.9.1/valr/tests/testthat/test_types.r |only 78 files changed, 342 insertions(+), 198 deletions(-)
Title: Tidy Structural Equation Modeling
Description: A tidy workflow for generating, estimating, reporting,
and plotting structural equation models using 'lavaan', 'OpenMx', or
'Mplus'. Throughout this workflow, elements of syntax, results, and graphs
are represented as 'tidy' data, making them easy to customize.
Includes functionality to estimate latent class analyses, and to plot
'dagitty' and 'igraph' objects.
Author: Caspar J. van Lissa [aut, cre] ,
Mauricio Garnier-Villarreal [ctb] ,
Frank C Gootjes [ctb]
Maintainer: Caspar J. van Lissa <c.j.vanlissa@tilburguniversity.edu>
Diff between tidySEM versions 0.2.9 dated 2025-07-30 and 0.2.10 dated 2026-01-11
tidySEM-0.2.10/tidySEM/DESCRIPTION | 17 tidySEM-0.2.10/tidySEM/MD5 | 289 tidySEM-0.2.10/tidySEM/NAMESPACE | 10 tidySEM-0.2.10/tidySEM/R/blrt.R | 93 tidySEM-0.2.10/tidySEM/R/data-data_mix_ordinal.R | 46 tidySEM-0.2.10/tidySEM/R/lazy_bootstrap.R |only tidySEM-0.2.10/tidySEM/R/lr_vml.R | 28 tidySEM-0.2.10/tidySEM/R/mixture_mixed-data.R |only tidySEM-0.2.10/tidySEM/R/mixture_predict.R | 12 tidySEM-0.2.10/tidySEM/R/mx_fix_threshold.R |only tidySEM-0.2.10/tidySEM/R/mx_fixed_pars.R | 5 tidySEM-0.2.10/tidySEM/R/mx_mixture.R | 18 tidySEM-0.2.10/tidySEM/R/mx_simple_thresholds.R | 168 tidySEM-0.2.10/tidySEM/R/mx_temp_start.R | 206 tidySEM-0.2.10/tidySEM/R/openmx_functions.R | 76 tidySEM-0.2.10/tidySEM/R/plot-generate_layout.R | 2 tidySEM-0.2.10/tidySEM/R/plot-mixture_densities.R | 2 tidySEM-0.2.10/tidySEM/R/plot-plot_sem.R | 12 tidySEM-0.2.10/tidySEM/R/plot_growth.R | 444 - tidySEM-0.2.10/tidySEM/R/results-table_results.R | 1468 ++-- tidySEM-0.2.10/tidySEM/R/results-table_results_mx_model.R | 19 tidySEM-0.2.10/tidySEM/R/syntax-add_paths.R | 5 tidySEM-0.2.10/tidySEM/R/syntax-run.R | 351 - tidySEM-0.2.10/tidySEM/R/utilities.R | 6 tidySEM-0.2.10/tidySEM/R/wald_test.R | 6 tidySEM-0.2.10/tidySEM/build/partial.rdb |binary tidySEM-0.2.10/tidySEM/build/vignette.rds |binary tidySEM-0.2.10/tidySEM/inst/doc/Generating_syntax.html | 8 tidySEM-0.2.10/tidySEM/inst/doc/Plotting_graphs.html | 30 tidySEM-0.2.10/tidySEM/inst/doc/SMART_LCA_checklist.html | 2 tidySEM-0.2.10/tidySEM/inst/doc/Tabulating_results.html | 3 tidySEM-0.2.10/tidySEM/inst/doc/lca_confirmatory.R | 45 tidySEM-0.2.10/tidySEM/inst/doc/lca_confirmatory.Rmd | 989 +- tidySEM-0.2.10/tidySEM/inst/doc/lca_confirmatory.html | 27 tidySEM-0.2.10/tidySEM/inst/doc/lca_exploratory.R | 39 tidySEM-0.2.10/tidySEM/inst/doc/lca_exploratory.Rmd | 48 tidySEM-0.2.10/tidySEM/inst/doc/lca_exploratory.html | 30 tidySEM-0.2.10/tidySEM/inst/doc/mixed_lca.R |only tidySEM-0.2.10/tidySEM/inst/doc/mixed_lca.Rmd |only 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Title: Create Datasets with Hidden Images in Residual Plots
Description: Implements the "Residual (Sur)Realism" algorithm described by
Stefanski (2007) <doi:10.1198/000313007X190079> to generate datasets
that reveal hidden images or messages in their residual plots. It offers
both predefined datasets and tools to embed custom text or images
into residual structures. Allowing users to create intriguing visual
demonstrations for teaching model diagnostics.
Author: James Joseph Balamuta [aut, cre, cph]
Maintainer: James Joseph Balamuta <james.balamuta@gmail.com>
Diff between surreal versions 0.0.1 dated 2024-09-12 and 0.0.2 dated 2026-01-11
DESCRIPTION | 15 +-- MD5 | 33 ++++---- NAMESPACE | 2 NEWS.md | 14 ++- R/data-documentation.R | 2 R/surreal-app.R |only R/surreal-image.R |only R/surreal-text.R | 10 +- R/surreal.R | 8 + R/utils.R |only README.md | 111 +++++++++++++++++++-------- build/partial.rdb |binary inst/surreal-app |only man/border_augmentation.Rd | 6 + man/figures/README-custom-text-example-1.png |binary man/r_logo_image_data.Rd | 2 man/require_packages.Rd |only man/surreal.Rd | 2 man/surreal_app.Rd |only man/surreal_image.Rd |only man/surreal_text.Rd | 6 - 21 files changed, 145 insertions(+), 66 deletions(-)
Title: Additional Tools for Developing Spatially Explicit Discrete
Event Simulation (SpaDES) Models
Description: Provides GIS and map utilities, plus additional modeling
tools for developing cellular automata, dynamic raster models, and
agent based models in 'SpaDES'. Included are various methods for
spatial spreading, spatial agents, GIS operations, random map
generation, and others. See '?SpaDES.tools' for an categorized
overview of these additional tools. The suggested package 'NLMR' can
be installed from the following repository:
(<https://PredictiveEcology.r-universe.dev>).
Author: Eliot J B McIntire [aut] ,
Alex M Chubaty [aut, cre] ,
Yong Luo [ctb],
Ceres Barros [ctb] ,
Steve Cumming [ctb],
Jean Marchal [ctb],
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <achubaty@for-cast.ca>
Diff between SpaDES.tools versions 2.0.9 dated 2025-10-14 and 2.1.1 dated 2026-01-11
SpaDES.tools-2.0.9/SpaDES.tools/R/reexports.R |only SpaDES.tools-2.1.1/SpaDES.tools/DESCRIPTION | 17 SpaDES.tools-2.1.1/SpaDES.tools/MD5 | 21 SpaDES.tools-2.1.1/SpaDES.tools/NAMESPACE | 1 SpaDES.tools-2.1.1/SpaDES.tools/NEWS.md | 4 SpaDES.tools-2.1.1/SpaDES.tools/R/initialize.R | 12 SpaDES.tools-2.1.1/SpaDES.tools/R/spread.R | 1837 +++++----- SpaDES.tools-2.1.1/SpaDES.tools/inst/WORDLIST | 1 SpaDES.tools-2.1.1/SpaDES.tools/man/randomPolygons.Rd | 9 SpaDES.tools-2.1.1/SpaDES.tools/tests/testthat/test-randomPolygon.R | 3 SpaDES.tools-2.1.1/SpaDES.tools/tests/testthat/test-spread.R | 22 SpaDES.tools-2.1.1/SpaDES.tools/tests/testthat/test-spread2.R | 10 12 files changed, 1042 insertions(+), 895 deletions(-)
Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Models
Description: Provides the core framework for a discrete event system to
implement a complete data-to-decisions, reproducible workflow.
The core components facilitate the development of modular pieces,
and enable the user to include additional functionality by running user-built modules.
Includes conditional scheduling, restart after interruption, packaging of
reusable modules, tools for developing arbitrary automated workflows,
automated interweaving of modules of different temporal resolution,
and tools for visualizing and understanding the within-project dependencies.
The suggested package 'NLMR' can be installed from the repository
(<https://PredictiveEcology.r-universe.dev>).
Author: Alex M Chubaty [aut] ,
Eliot J B McIntire [aut, cre] ,
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb] ,
His Majesty the King in Right of Canada, as represented by the Minister
of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between SpaDES.core versions 2.1.8 dated 2025-09-18 and 3.0.4 dated 2026-01-11
DESCRIPTION | 51 MD5 | 206 +-- NAMESPACE | 13 NEWS.md | 67 + R/Plots.R | 90 + R/cache.R | 935 +++++++++++------ R/check.R | 32 R/checkpoint.R | 4 R/code-checking.R | 5 R/convertToPackage.R | 263 ++-- R/copy.R | 83 - R/createDESCRIPTIONandDocs.R |only R/downloadData.R | 223 ++-- R/helpers.R | 50 R/load.R | 204 ++- R/memory.R | 22 R/modActiveBinding.R | 13 R/module-define.R | 38 R/module-dependencies-methods.R | 165 ++- R/module-repository.R | 236 ++-- R/objectSynonyms.R | 49 R/options.R | 132 +- R/paths.R | 3 R/plotting-diagrams.R | 2 R/reexports.R | 23 R/restart.R | 322 +++-- R/save.R | 42 R/saveLoadSimList.R | 95 + R/simList-accessors.R | 98 + R/simulation-parseModule.R | 157 ++ R/simulation-simInit.R | 596 ++++++++-- R/simulation-spades.R | 913 +++++++++++----- R/suppliedElsewhere.R | 127 ++ R/zzz.R | 9 build/vignette.rds |binary inst/WORDLIST | 6 inst/doc/i-introduction.R | 25 inst/doc/i-introduction.Rmd | 30 inst/doc/i-introduction.html | 7 inst/doc/ii-modules.R | 31 inst/doc/ii-modules.Rmd | 34 inst/doc/ii-modules.html | 11 inst/doc/iii-cache.R | 182 +-- inst/doc/iii-cache.Rmd | 73 - inst/doc/iii-cache.html | 383 +----- inst/doc/iv-advanced.Rmd | 1 inst/doc/iv-advanced.html | 7 inst/doc/v-automated-testing.html | 7 inst/sampleModules/randomLandscapes/randomLandscapes.R | 18 man/Plots.Rd | 5 man/checkModule.Rd | 10 man/clearCacheEventsOnly.Rd |only man/convertToPackage.Rd | 2 man/createDESCRIPTIONandDocs.Rd |only man/dealWithClass.Rd | 17 man/defineEvent.Rd | 2 man/depsEdgeList.Rd | 10 man/do.call.Rd |only man/downloadData.Rd | 12 man/downloadModule.Rd | 25 man/getModuleVersion.Rd | 34 man/identifyChildModules.Rd | 6 man/loadSimList.Rd | 2 man/moduleDiagram.Rd | 2 man/objSize.simList.Rd | 5 man/objectSynonyms.Rd | 3 man/params.Rd | 4 man/prepareOutput.Rd | 2 man/progress.Rd | 2 man/restartR.Rd | 22 man/restartSpades.Rd | 86 + man/robustDigest.Rd | 8 man/runModuleInputsObjects.Rd | 8 man/saveFiles.Rd | 3 man/saveSimList.Rd | 14 man/simInit.Rd | 2 man/simInitAndSpades.Rd | 2 man/simList-accessors-outputs.Rd | 2 man/spades.Rd | 2 man/spadesOptions.Rd | 112 +- man/sub-simList-character-ANY-method.Rd | 80 - tests/test-all.R | 16 tests/testthat/helper-initTests.R | 20 tests/testthat/test-1memory.R | 21 tests/testthat/test-Plots.R | 7 tests/testthat/test-cache.R | 140 +- tests/testthat/test-checkpoint.R | 17 tests/testthat/test-downloadData.R | 15 tests/testthat/test-downloadModule.R | 16 tests/testthat/test-environment.R | 6 tests/testthat/test-futureEvents.R | 4 tests/testthat/test-misc.R | 46 tests/testthat/test-mod.R | 114 +- tests/testthat/test-module-deps-methods.R | 20 tests/testthat/test-module-template.R | 11 tests/testthat/test-multipleModulePaths.R | 4 tests/testthat/test-objectSynonyms.R | 10 tests/testthat/test-save.R | 87 - tests/testthat/test-simList.R | 70 - tests/testthat/test-simulation.R | 244 +++- tests/testthat/test-timeunits.R | 6 tests/testthat/test-userSuppliedObjs.R | 3 vignettes/i-introduction.Rmd | 30 vignettes/ii-modules.Rmd | 34 vignettes/iii-cache.Rmd | 73 - vignettes/iv-advanced.Rmd | 1 106 files changed, 4815 insertions(+), 2767 deletions(-)
Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially
distributed animal population sampled with an array of passive detectors,
such as traps, or by searching polygons or transects. Models incorporating
distance-dependent detection are fitted by maximizing the likelihood.
Tools are included for data manipulation and model selection.
Author: Murray Efford [aut, cre] ,
Philipp Jund [ctb] ,
David Fletcher [ctb] ,
Yan Ru Choo [ctb]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secr versions 5.3.0 dated 2025-09-27 and 5.4.1 dated 2026-01-11
secr-5.3.0/secr/src/hdot.cpp |only secr-5.3.0/secr/src/integral2D.cpp |only secr-5.3.0/secr/src/makegkpoly.cpp |only secr-5.3.0/secr/src/polygonNR.cpp |only secr-5.3.0/secr/src/prwipolygon.cpp |only secr-5.3.0/secr/src/prwipolygonfxi.cpp |only secr-5.4.1/secr/DESCRIPTION | 14 +- secr-5.4.1/secr/MD5 | 80 +++++++-------- secr-5.4.1/secr/NAMESPACE | 27 ++--- secr-5.4.1/secr/NEWS | 22 ++++ secr-5.4.1/secr/R/RcppExports.R | 92 +++++++---------- secr-5.4.1/secr/R/addCovariates.R | 12 ++ secr-5.4.1/secr/R/esa.R | 4 secr-5.4.1/secr/R/fxi.R | 6 - secr-5.4.1/secr/R/generalsecrloglik.R | 14 +- secr-5.4.1/secr/R/loglikhelperfn.R | 2 secr-5.4.1/secr/R/make.grid.R | 8 + secr-5.4.1/secr/R/pdot.R | 2 secr-5.4.1/secr/R/preparedata.R | 2 secr-5.4.1/secr/R/rbind.capthist.R | 142 --------------------------- secr-5.4.1/secr/R/secr.design.MS.R | 2 secr-5.4.1/secr/R/utility.R | 19 +-- secr-5.4.1/secr/inst/doc/secr-datainput.Rmd | 2 secr-5.4.1/secr/inst/doc/secr-datainput.pdf |binary secr-5.4.1/secr/inst/doc/secr-overview.Rmd | 10 - secr-5.4.1/secr/inst/doc/secr-overview.pdf |binary secr-5.4.1/secr/man/DA.Rd | 2 secr-5.4.1/secr/man/MCgof.Rd | 2 secr-5.4.1/secr/man/Parallel.Rd | 4 secr-5.4.1/secr/man/empirical.Rd | 2 secr-5.4.1/secr/man/make.systematic.Rd | 2 secr-5.4.1/secr/man/make.traps.Rd | 3 secr-5.4.1/secr/man/rbind.capthist.Rd | 4 secr-5.4.1/secr/man/secr-deprecated.Rd | 2 secr-5.4.1/secr/man/secr-internal.Rd | 8 - secr-5.4.1/secr/man/secr-package.Rd | 4 secr-5.4.1/secr/man/secrRNG.Rd | 10 - secr-5.4.1/secr/man/trap.builder.Rd | 2 secr-5.4.1/secr/src/RcppExports.cpp | 108 -------------------- secr-5.4.1/secr/src/poly.h | 38 ------- secr-5.4.1/secr/src/simsecr.cpp | 2 secr-5.4.1/secr/tests/testthat.R | 2 secr-5.4.1/secr/vignettes/secr-datainput.Rmd | 2 secr-5.4.1/secr/vignettes/secr-overview.Rmd | 10 - 44 files changed, 199 insertions(+), 468 deletions(-)
Title: Translate Text
Description: Provide easy methods to translate pieces of text.
Functions send requests to translation services online.
Author: Tomer Iwan [aut, cre, cph]
Maintainer: Tomer Iwan <iwantomer@hotmail.com>
Diff between polyglotr versions 1.7.0 dated 2025-07-23 and 1.7.1 dated 2026-01-11
DESCRIPTION | 12 LICENSE | 4 MD5 | 210 - NAMESPACE | 64 NEWS.md | 103 R/apertium_get_language_pairs.R | 52 R/batch_translate.R | 52 R/create_translation_table.R | 66 R/create_transliteration_table.R | 66 R/google_get_supported_languages.R | 58 R/google_is_valid_language_code.R | 50 R/google_supported_languages.R | 16 R/google_translate.R | 168 - R/google_translate_file.R | 86 R/google_translate_long_text.R | 156 - R/google_transliterate.R | 132 - R/language_detect.R | 54 R/launch_polyglotr_app.R | 100 R/linguee_external_sources.R | 84 R/linguee_translation_examples.R | 102 R/linguee_word_translation.R | 92 R/microsoft_supported_languages.R | 62 R/mymemory_translate.R | 64 R/pons_dictionaries.R | 66 R/pons_translate.R | 138 - R/qcri_api_key.R | 20 R/qcri_get_domains.R | 88 R/qcri_get_language_pairs.R | 72 R/qcri_translate_text.R | 98 R/translate_apertium.R | 94 R/translate_to_morse.R | 86 R/translate_to_morse_audio.R | 92 R/url_helpers.R | 108 R/utils-pipe.R | 28 R/wikimedia_detect_language.R | 91 R/wikipedia_get_language_names.R | 84 R/wmcloud_translate.R | 188 - README.md | 498 +-- build/vignette.rds |binary inst/doc/Linguee.R | 50 inst/doc/Linguee.Rmd | 126 inst/doc/Linguee.html | 792 +++--- inst/doc/Movie_Reviews.R | 60 inst/doc/Movie_Reviews.Rmd | 138 - inst/doc/Movie_Reviews.html | 818 +++--- inst/doc/apertium-intro.R | 222 - inst/doc/apertium-intro.Rmd | 374 +- inst/doc/apertium-intro.html | 1062 ++++---- inst/doc/language-detection-conditional-translation.R | 488 +-- inst/doc/language-detection-conditional-translation.Rmd | 618 ++-- inst/doc/language-detection-conditional-translation.html | 1298 +++++----- inst/doc/polyglotr.R | 52 inst/doc/polyglotr.Rmd | 116 inst/doc/polyglotr.html | 812 +++--- inst/doc/translation-table-workflow.R | 310 +- inst/doc/translation-table-workflow.Rmd | 438 +-- inst/doc/translation-table-workflow.html | 1140 ++++---- inst/examples/launch_shiny_app.R | 58 inst/shiny-app/README.md | 184 - inst/shiny-app/app.R | 32 inst/shiny-app/rsconnect/shinyapps.io/edulytics/polyglotr.dcf | 20 inst/shiny-app/server.R | 706 ++--- inst/shiny-app/ui.R | 494 +-- man/apertium_get_language_pairs.Rd | 48 man/apertium_translate.Rd | 76 man/batch_translate.Rd | 52 man/create_translation_table.Rd | 54 man/create_transliteration_table.Rd | 54 man/google_get_supported_languages.Rd | 28 man/google_is_valid_language_code.Rd | 48 man/google_supported_languages.Rd | 38 man/google_translate.Rd | 74 man/google_translate_long_text.Rd | 86 man/google_transliterate.Rd | 54 man/language_detect.Rd | 34 man/launch_polyglotr_app.Rd | 70 man/linguee_external_sources.Rd | 64 man/linguee_translation_examples.Rd | 86 man/linguee_word_translation.Rd | 76 man/microsoft_supported_languages.Rd | 44 man/mymemory_translate.Rd | 52 man/pipe.Rd | 40 man/pons_dictionaries.Rd | 44 man/pons_translate.Rd | 60 man/qcri_api_key.Rd | 28 man/qcri_get_domains.Rd | 56 man/qcri_get_language_pairs.Rd | 46 man/qcri_translate_text.Rd | 68 man/replace_urls_with_placeholders.Rd | 46 man/restore_urls_from_placeholders.Rd | 40 man/translate_file.Rd | 60 man/translate_to_morse.Rd | 38 man/translate_to_morse_audio.Rd | 38 man/wikimedia_detect_language.Rd | 49 man/wikipedia_get_language_names.Rd | 38 man/wmcloud_translate.Rd | 120 tests/testthat.R | 20 tests/testthat/helpers.R | 30 tests/testthat/test-mymemory_translate.R | 20 tests/testthat/test-translate_apertium.R | 104 vignettes/Linguee.Rmd | 126 vignettes/Movie_Reviews.Rmd | 138 - vignettes/apertium-intro.Rmd | 374 +- vignettes/language-detection-conditional-translation.Rmd | 618 ++-- vignettes/polyglotr.Rmd | 116 vignettes/translation-table-workflow.Rmd | 438 +-- 106 files changed, 8906 insertions(+), 8899 deletions(-)
Title: A Common API to Modeling and Analysis Functions
Description: A common interface is provided to allow users to specify a
model without having to remember the different argument names across
different functions or computational engines (e.g. 'R', 'Spark',
'Stan', 'H2O', etc).
Author: Max Kuhn [cre, aut] ,
Davis Vaughan [aut],
Emil Hvitfeldt [ctb],
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between parsnip versions 1.4.0 dated 2025-12-01 and 1.4.1 dated 2026-01-11
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/boost_tree.R | 7 +++++-- build/stage23.rdb |binary man/parsnip-package.Rd | 2 +- tests/testthat/test-boost_tree_xgboost.R | 24 ++++++++++++++++++++++++ tests/testthat/test-fit_interfaces.R | 2 +- 8 files changed, 45 insertions(+), 14 deletions(-)
Title: Class Unions, Matrix Operations, and Color Schemes for OOMPA
Description: Provides the class unions that must be
preloaded in order for the basic tools in the OOMPA (Object-Oriented
Microarray and Proteomics Analysis) project to be defined and loaded.
It also includes vectorized operations for row-by-row means,
variances, and t-tests. Finally, it provides new color schemes.
Details on the packages in the OOMPA project can be found at
<http://oompa.r-forge.r-project.org/>.
Author: Kevin R. Coombes [aut, cre]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between oompaBase versions 3.2.10 dated 2025-04-03 and 3.2.11 dated 2026-01-11
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/b02-colorSchemes.R | 1 + build/vignette.rds |binary inst/doc/oompa.pdf |binary 5 files changed, 9 insertions(+), 8 deletions(-)
Title: Preparation, Checking and Post-Processing Data for PK/PD
Modeling
Description: Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem, including consistency, traceability, and Nonmem compatibility of Data. Rigorously checks final Nonmem datasets. Implemented in 'data.table', but easily integrated with 'base' and 'tidyverse'.
Author: Philip Delff [aut, cre],
Brian Reilly [ctb],
Eric Anderson [ctb]
Maintainer: Philip Delff <philip@delff.dk>
Diff between NMdata versions 0.2.2 dated 2025-11-04 and 0.2.3 dated 2026-01-11
NMdata-0.2.2/NMdata/inst/examples/nonmem/input.ext |only NMdata-0.2.2/NMdata/inst/examples/nonmem/input.phi |only NMdata-0.2.2/NMdata/inst/examples/nonmem/xgxr003.phi |only NMdata-0.2.2/NMdata/inst/examples/nonmem/xgxr014.phi |only NMdata-0.2.2/NMdata/inst/examples/scripts |only NMdata-0.2.2/NMdata/man/figures/README-unnamed-chunk-3-1.png |only NMdata-0.2.2/NMdata/tests/testthat/testData/data/xgxr12.csv |only NMdata-0.2.2/NMdata/tests/testthat/testData/data/xgxr12.rds |only NMdata-0.2.2/NMdata/tests/testthat/testData/data/xgxr12_meta.txt |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/backup_pred030 |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/backup_xgxr035 |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/backup_xgxr053 |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/backup_xgxr054 |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/backup_xgxr055 |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/backup_xgxr056 |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/check.time |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030.ext |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030.lst |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030.phi |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030.pnm |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030.shk |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/pred030_res.txt |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr001.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr014.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr023.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr028.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr035.pnm |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr035.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr053.pnm |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr053.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr053_ETAS.msf |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr054.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr055.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr056.ext |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr056.lst |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr056.phi |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr056.shk |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr056.txt |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr056.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr059.ext |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr059.lst |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr059.phi |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr059.shk |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr059.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/nonmem/xgxr059_res.txt |only NMdata-0.2.2/NMdata/tests/testthat/testData/simulations/xgxr014_testsim1/xgxr014_testsim1.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/simulations/xgxr032_simpletab/xgxr032_simpletab.xml |only NMdata-0.2.2/NMdata/tests/testthat/testData/simulations/xgxr032_testsim1 |only NMdata-0.2.2/NMdata/tests/testthat/testOutput/NMwriteData_13.fst |only NMdata-0.2.2/NMdata/tests/testthat/testOutput/simulations |only NMdata-0.2.2/NMdata/tests/testthat/testOutput/stampedData_9.csv |only NMdata-0.2.2/NMdata/tests/testthat/testOutput/stampedData_9_meta.txt |only NMdata-0.2.2/NMdata/tests/testthat/testOutput/xgxr025_sd1 |only NMdata-0.2.2/NMdata/tests/testthat/testOutput/xgxr032_VarCov_1 |only NMdata-0.2.2/NMdata/tests/testthat/testReference/NMsim_VarCov_01a.rds |only NMdata-0.2.2/NMdata/tests/testthat/testReference/NMsim_VarCov_01b.rds |only NMdata-0.2.2/NMdata/tests/testthat/test_NMapplyFilters.R |only NMdata-0.2.3/NMdata/DESCRIPTION | 13 NMdata-0.2.3/NMdata/MD5 | 248 ++---- NMdata-0.2.3/NMdata/NAMESPACE | 1 NMdata-0.2.3/NMdata/NEWS.md | 38 + NMdata-0.2.3/NMdata/R/NMcheckData.R | 5 NMdata-0.2.3/NMdata/R/NMctl.R | 1 NMdata-0.2.3/NMdata/R/NMextractFormats.R | 45 - NMdata-0.2.3/NMdata/R/NMgenText.R | 5 NMdata-0.2.3/NMdata/R/NMreadInits.R | 3 NMdata-0.2.3/NMdata/R/NMreadParsText.R | 15 NMdata-0.2.3/NMdata/R/NMrelate.R | 29 NMdata-0.2.3/NMdata/R/NMrelateOne.R | 8 NMdata-0.2.3/NMdata/R/NMscanData.R | 4 NMdata-0.2.3/NMdata/R/NMtransInp.R | 2 NMdata-0.2.3/NMdata/R/addParType.R | 32 NMdata-0.2.3/NMdata/R/dtFillObs.R | 7 NMdata-0.2.3/NMdata/R/lapplydt.R | 99 +- NMdata-0.2.3/NMdata/R/mergeCheck.R | 8 NMdata-0.2.3/NMdata/R/mergeCoal.R |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.cpu |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.ext | 16 NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.grd |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.phi | 262 +++---- NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.shk |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.shm |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001_nm.lst |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr018.ext |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr018.phi | 262 +++---- NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr018.shk |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr021.mod |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr132.phi | 360 +++++----- NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr133.coi |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr133.cor |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr133.phi |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr133_etas.txt |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr133_res.txt |only NMdata-0.2.3/NMdata/man/NMreadParsText.Rd | 2 NMdata-0.2.3/NMdata/man/NMrelate.Rd | 7 NMdata-0.2.3/NMdata/man/NMscanData.Rd | 4 NMdata-0.2.3/NMdata/man/addParType.Rd | 5 NMdata-0.2.3/NMdata/man/dtFillCols.Rd | 7 NMdata-0.2.3/NMdata/man/escape.charclass.Rd |only NMdata-0.2.3/NMdata/man/lapplydt.Rd | 20 NMdata-0.2.3/NMdata/man/mergeCheck.Rd | 8 NMdata-0.2.3/NMdata/man/mergeCoal.Rd |only NMdata-0.2.3/NMdata/tests/testthat.R | 21 NMdata-0.2.3/NMdata/tests/testthat/testData/R/run_models.R | 4 NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr018.shk |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr031_ETAS.msf |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr031_RMAT.msf |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr031_SMAT.msf |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr032_ETAS.msf |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.coi |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.cor |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.cov |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.ext |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.lst |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.mod |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.msf |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.phi |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044.shk |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044_ETAS.msf |only NMdata-0.2.3/NMdata/tests/testthat/testData/nonmem/xgxr044_res.txt |only NMdata-0.2.3/NMdata/tests/testthat/testData/simulations/xgxr004_subprobs |only NMdata-0.2.3/NMdata/tests/testthat/testData/simulations/xgxr011_subprobs |only NMdata-0.2.3/NMdata/tests/testthat/testData/simulations/xgxr014_subprobs |only NMdata-0.2.3/NMdata/tests/testthat/testData/simulations/xgxr021_subprobs |only NMdata-0.2.3/NMdata/tests/testthat/testData/simulations/xgxr025_subprobs |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteData10.rds |binary NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteData10_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteData11.rds |binary NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteData11_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteData1_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteDataTmp.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/NMwriteDataTmp.rds |binary NMdata-0.2.3/NMdata/tests/testthat/testOutput/pk.rds |binary NMdata-0.2.3/NMdata/tests/testthat/testOutput/pk_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_08.rds |binary NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_08_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_08_meta.txt | 2 NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_09_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_09_meta.txt | 2 NMdata-0.2.3/NMdata/tests/testthat/testReference/NMextractFormats_01.rds |only NMdata-0.2.3/NMdata/tests/testthat/test_NMcheckData.R | 2 NMdata-0.2.3/NMdata/tests/testthat/test_NMextractFormats.R |only NMdata-0.2.3/NMdata/tests/testthat/test_NMinfo.R | 2 NMdata-0.2.3/NMdata/tests/testthat/test_NMreadParText.R | 3 NMdata-0.2.3/NMdata/tests/testthat/test_addCor.R | 7 146 files changed, 810 insertions(+), 749 deletions(-)
Title: Core Mathematical Functions for Multi-Objective Optimization
Description: Fast implementations of mathematical operations and performance metrics for multi-objective optimization, including filtering and ranking of dominated vectors according to Pareto optimality, hypervolume metric, C.M. Fonseca, L. Paquete, M. López-Ibáñez (2006) <doi:10.1109/CEC.2006.1688440>, epsilon indicator, inverted generational distance, computation of the empirical attainment function, V.G. da Fonseca, C.M. Fonseca, A.O. Hall (2001) <doi:10.1007/3-540-44719-9_15>, and Vorob'ev threshold, expectation and deviation, M. Binois, D. Ginsbourger, O. Roustant (2015) <doi:10.1016/j.ejor.2014.07.032>, among others.
Author: Manuel Lopez-Ibanez [aut, cre] ,
Carlos Fonseca [ctb],
Luis Paquete [ctb],
Andreia P. Guerreiro [ctb],
Mickael Binois [ctb],
Michael H. Buselli [cph] ,
Wessel Dankers [cph] ,
NumPy Developers [cph] ,
Jean-Sebastien Roy [cph] ,
Makoto Matsumoto [cph] [...truncated...]
Maintainer: Manuel Lopez-Ibanez <manuel.lopez-ibanez@manchester.ac.uk>
Diff between moocore versions 0.1.10 dated 2025-11-25 and 0.2.0 dated 2026-01-11
DESCRIPTION | 6 MD5 | 125 ++--- NEWS.md | 11 R/epsilon.R | 12 R/generate.R | 2 R/hv.R | 38 + R/nondominated.R | 37 + build/partial.rdb |binary cleanup | 5 inst/REFERENCES.bib | 32 + inst/WORDLIST | 2 man/epsilon.Rd | 12 man/generate_ndset.Rd | 2 man/hypervolume.Rd | 38 + man/nondominated.Rd | 36 + src/Makevars | 14 src/Rmoocore.c | 38 - src/init.c | 3 src/libmoocore/Makefile | 90 ++-- src/libmoocore/NEWS.md | 13 src/libmoocore/README.md | 2 src/libmoocore/avl_tiny.h | 5 src/libmoocore/cmdline.c | 2 src/libmoocore/cmdline.h | 176 +++++--- src/libmoocore/common.h | 3 src/libmoocore/config.h | 5 src/libmoocore/dominatedsets.c | 55 +- src/libmoocore/eaf3d.c | 21 src/libmoocore/eaf_main.c | 1 src/libmoocore/epsilon.c | 106 +--- src/libmoocore/epsilon.h | 189 +++++--- src/libmoocore/gcc.mk | 3 src/libmoocore/gcc_attribs.h | 27 - src/libmoocore/hv.c | 533 +++++++++++++++++-------- src/libmoocore/hv.h | 7 src/libmoocore/hv3d_priv.h | 8 src/libmoocore/hv4d.c | 244 ----------- src/libmoocore/hv4d_priv.h |only src/libmoocore/hv_contrib.c | 58 +- src/libmoocore/hv_priv.h | 80 ++- src/libmoocore/hvapprox.c | 113 ++--- src/libmoocore/hvapprox.h | 27 - src/libmoocore/igd.c | 94 +--- src/libmoocore/igd.h | 270 +++++++----- src/libmoocore/io.c | 17 src/libmoocore/io.h | 14 src/libmoocore/io_priv.h | 49 +- src/libmoocore/libhv.mk | 2 src/libmoocore/libmoocore-config.h | 2 src/libmoocore/main-hv.c | 70 +-- src/libmoocore/main-hvapprox.c | 82 +-- src/libmoocore/maxminclamp.h | 17 src/libmoocore/mt19937/mt19937.c | 98 ---- src/libmoocore/mt19937/mt19937.h | 3 src/libmoocore/ndsort.c | 61 +- src/libmoocore/nondominated.c | 258 +++++------- src/libmoocore/nondominated.h | 263 ++++++------ src/libmoocore/pareto.c | 357 +++++++++++++--- src/libmoocore/pow_int.h | 77 +-- src/libmoocore/sort.h | 50 +- src/libmoocore/whv.c | 2 src/libmoocore/whv_hype.c | 26 - tests/testthat/test-doctest-hv_contributions.R | 2 tests/testthat/test-doctest-is_nondominated.R | 4 64 files changed, 2166 insertions(+), 1833 deletions(-)
Title: Highest Density Regions and Conditional Density Estimation
Description: Computation of highest density regions in one and two dimensions, kernel estimation of univariate density functions conditional on one covariate,and multimodal regression.
Author: Rob Hyndman [aut, cre, cph] ,
Jochen Einbeck [aut] ,
Matthew Wand [aut] ,
Simon Carrignon [ctb] ,
Fan Cheng [ctb]
Maintainer: Rob Hyndman <Rob.Hyndman@monash.edu>
Diff between hdrcde versions 3.4 dated 2021-01-18 and 3.5.0 dated 2026-01-11
hdrcde-3.4/hdrcde/man/alpha.Rd |only hdrcde-3.4/hdrcde/man/shades.Rd |only hdrcde-3.4/hdrcde/src/Makevars.win |only hdrcde-3.5.0/hdrcde/DESCRIPTION | 21 hdrcde-3.5.0/hdrcde/MD5 | 79 - hdrcde-3.5.0/hdrcde/NAMESPACE | 5 hdrcde-3.5.0/hdrcde/NEWS.md | 43 hdrcde-3.5.0/hdrcde/R/HDRbw.r | 572 ++++++----- hdrcde-3.5.0/hdrcde/R/attach.R | 9 hdrcde-3.5.0/hdrcde/R/cde.bandwidths.R | 1529 +++++++++++++++++------------- hdrcde-3.5.0/hdrcde/R/cde.est.R | 525 +++++----- hdrcde-3.5.0/hdrcde/R/hdr.R | 679 +++++++------ hdrcde-3.5.0/hdrcde/R/hdr.boxplot.2d.R | 351 ++++-- hdrcde-3.5.0/hdrcde/R/hdr.conf.R | 108 +- hdrcde-3.5.0/hdrcde/R/hdrcde-package.R | 26 hdrcde-3.5.0/hdrcde/R/hdrscatterplot.R | 69 - hdrcde-3.5.0/hdrcde/R/linbin.R | 32 hdrcde-3.5.0/hdrcde/R/modalreg.r | 313 +++--- hdrcde-3.5.0/hdrcde/R/plot.hdr.conf.R | 108 +- hdrcde-3.5.0/hdrcde/R/plotcde.R | 623 +++++++----- hdrcde-3.5.0/hdrcde/R/utility.R |only hdrcde-3.5.0/hdrcde/README.md | 7 hdrcde-3.5.0/hdrcde/man/BoxCox.Rd | 10 hdrcde-3.5.0/hdrcde/man/cde.Rd | 32 hdrcde-3.5.0/hdrcde/man/cde.bandwidths.Rd | 20 hdrcde-3.5.0/hdrcde/man/figures |only hdrcde-3.5.0/hdrcde/man/hdr.Rd | 15 hdrcde-3.5.0/hdrcde/man/hdr.boxplot.2d.Rd | 26 hdrcde-3.5.0/hdrcde/man/hdr.boxplot.Rd | 29 hdrcde-3.5.0/hdrcde/man/hdr.cde.Rd | 62 - hdrcde-3.5.0/hdrcde/man/hdr.den.Rd | 17 hdrcde-3.5.0/hdrcde/man/hdrbw.Rd | 8 hdrcde-3.5.0/hdrcde/man/hdrconf.Rd | 24 hdrcde-3.5.0/hdrcde/man/hdrscatterplot.Rd | 8 hdrcde-3.5.0/hdrcde/man/lane2.Rd | 18 hdrcde-3.5.0/hdrcde/man/maxtemp.Rd | 2 hdrcde-3.5.0/hdrcde/man/modalreg.Rd | 15 hdrcde-3.5.0/hdrcde/man/plot.cde.Rd | 19 hdrcde-3.5.0/hdrcde/man/plot.hdrcde.Rd |only hdrcde-3.5.0/hdrcde/man/plot.hdrconf.Rd | 24 hdrcde-3.5.0/hdrcde/src/Makevars | 3 hdrcde-3.5.0/hdrcde/src/init.c | 2 hdrcde-3.5.0/hdrcde/tests |only 43 files changed, 3110 insertions(+), 2323 deletions(-)
Title: Standardized Git Repository Data
Description: Obtain standardized data from multiple 'Git' services, including 'GitHub' and 'GitLab'.
Designed to be 'Git' service-agnostic, this package assists teams with activities spread across various
'Git' platforms by providing a unified way to access repository data.
Author: Maciej Banas [aut, cre],
Kamil Koziej [aut],
Karolina Marcinkowska [aut],
Matt Secrest [aut]
Maintainer: Maciej Banas <banasmaciek@gmail.com>
Diff between GitStats versions 2.3.8 dated 2025-12-06 and 2.3.9 dated 2026-01-11
DESCRIPTION | 6 - MD5 | 60 ++++++------ NEWS.md | 8 + R/EngineGraphQLGitHub.R | 23 +--- R/EngineGraphQLGitLab.R | 13 -- R/EngineRestGitLab.R | 2 R/GitHost.R | 27 ++--- R/GitHostGitHub.R | 71 +++++++------- R/GitHostGitLab.R | 65 +++++++------ R/GitStats.R | 3 R/get_commits.R | 2 R/get_issues.R | 2 R/get_release_logs.R | 2 R/utils.R | 4 man/get_commits.Rd | 2 man/get_issues.Rd | 2 man/get_release_logs.Rd | 2 tests/testthat/_snaps/04-get_files_content-GitHub.md | 9 + tests/testthat/_snaps/04-get_files_content-GitLab.md | 8 + tests/testthat/_snaps/05-get_files.md | 10 ++ tests/testthat/_snaps/get_release-GitLab.md | 8 - tests/testthat/test-03-get_files_structure-GitHub.R | 18 +++ tests/testthat/test-03-get_files_structure-GitLab.R | 18 +++ tests/testthat/test-04-get_files_content-GitHub.R | 95 +++++++++++++++++++ tests/testthat/test-04-get_files_content-GitLab.R | 9 + tests/testthat/test-05-get_files.R | 16 ++- tests/testthat/test-06-get_issues-GitHub.R | 2 tests/testthat/test-06-get_issues-GitLab.R | 2 tests/testthat/test-get_release-GitHub.R | 42 +++++--- tests/testthat/test-get_release-GitLab.R | 14 -- tests/testthat/test-utils.R | 7 + 31 files changed, 370 insertions(+), 182 deletions(-)
Title: Epidemiology Data Dictionaries and Random Data Generators
Description: The 'R4EPIs' project <https://r4epi.github.io/sitrep/> seeks
to provide a set of standardized tools for analysis of outbreak and
survey data in humanitarian aid settings. This package currently
provides standardized data dictionaries from Medecins Sans Frontieres
Operational Centre Amsterdam for outbreak scenarios (Acute Jaundice
Syndrome, Cholera, Diphtheria, Measles, Meningitis) and surveys
(Retrospective mortality and access to care, Malnutrition, Vaccination
coverage and Event Based Surveillance) - as described in the following
<https://scienceportal.msf.org/assets/standardised-mortality-surveys?utm_source=chatgpt.com>.
In addition, a data generator from these dictionaries is provided. It
is also possible to read in any Open Data Kit format data dictionary.
Author: Alexander Spina [aut, cre] ,
Zhian N. Kamvar [aut] ,
Lukas Richter [aut],
Patrick Keating [aut],
Annick Lenglet [ctb],
Applied Epi Incorporated [cph],
Medecins Sans Frontieres Operational Centre Amsterdam [fnd]
Maintainer: Alexander Spina <aspina@appliedepi.org>
Diff between epidict versions 0.1.0 dated 2025-11-13 and 0.2.0 dated 2026-01-11
DESCRIPTION | 12 - MD5 | 17 +- NAMESPACE | 1 NEWS.md | 3 R/msf_dict_rename_helper.R | 128 ++++++++-------- inst/doc/Outbreaks.html | 72 ++++----- inst/doc/Surveys.html | 32 ++-- inst/doc/intro.html | 120 +++++++-------- man/msf_dict_rename_helper.Rd |only tests/testthat/test-rename_helper.R | 286 ++++++++++++++++++------------------ 10 files changed, 338 insertions(+), 333 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines" <doi:10.1214/aos/1176347963>.
(The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow [aut, cre],
Trevor Hastie [aut],
Rob Tibshirani [aut],
Alan Miller [ctb],
Thomas Lumley [ctb]
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 5.3.4 dated 2024-10-05 and 5.3.5 dated 2026-01-11
DESCRIPTION | 6 +- MD5 | 82 +++++++++++++++--------------- NEWS.md | 7 ++ R/lib.R | 19 ++++++ R/varmod.R | 7 -- build/partial.rdb |binary inst/doc/earth-notes.pdf |binary inst/doc/earth-varmod.pdf |binary inst/slowtests/earth.times.bat | 2 inst/slowtests/make.bat | 2 inst/slowtests/test.allowedfunc.bat | 2 inst/slowtests/test.big.bat | 2 inst/slowtests/test.bpairs.bat | 2 inst/slowtests/test.cv.bat | 2 inst/slowtests/test.earthc.gcc.bat | 8 +- inst/slowtests/test.earthc.msc.mak | 2 inst/slowtests/test.earthmain.gcc.bat | 8 +- inst/slowtests/test.earthmain.msc.bat | 4 - inst/slowtests/test.emma.Rout | 2 inst/slowtests/test.emma.bat | 2 inst/slowtests/test.expand.bpairs.bat | 2 inst/slowtests/test.full.Rout.save | 19 +++++- inst/slowtests/test.full.bat | 2 inst/slowtests/test.glm.bat | 2 inst/slowtests/test.incorrect.bat | 2 inst/slowtests/test.mem.bat | 2 inst/slowtests/test.mods.Rout.save | 2 inst/slowtests/test.mods.bat | 2 inst/slowtests/test.multresp.bat | 2 inst/slowtests/test.numstab.Rout.save | 2 inst/slowtests/test.numstab.bat | 2 inst/slowtests/test.offset.bat | 2 inst/slowtests/test.ordinal.bat | 2 inst/slowtests/test.plotd.bat | 2 inst/slowtests/test.pmethod.cv.bat | 2 inst/slowtests/test.varmod.Rout.save | 2 inst/slowtests/test.varmod.bat | 2 inst/slowtests/test.varmod.mgcv.Rout.save | 2 inst/slowtests/test.varmod.mgcv.bat | 2 inst/slowtests/test.weights.Rout.save | 2 inst/slowtests/test.weights.bat | 2 man/earth.Rd | 12 ++-- 42 files changed, 130 insertions(+), 100 deletions(-)
Title: Advanced and Fast Data Transformation
Description: A large C/C++-based package for advanced data transformation and
statistical computing in R that is extremely fast, class-agnostic, robust, and
programmer friendly. Core functionality includes a rich set of S3 generic grouped
and weighted statistical functions for vectors, matrices and data frames, which
provide efficient low-level vectorizations, OpenMP multithreading, and skip missing
values by default. These are integrated with fast grouping and ordering algorithms
(also callable from C), and efficient data manipulation functions. The package also
provides a flexible and rigorous approach to time series and panel data in R, fast
functions for data transformation and common statistical procedures, detailed
(grouped, weighted) summary statistics, powerful tools to work with nested data,
fast data object conversions, functions for memory efficient R programming, and
helpers to effectively deal with variable labels, attributes, and missing data. It
seamlessly supports base R objects/cla [...truncated...]
Author: Sebastian Krantz [aut, cre] ,
Matt Dowle [ctb],
Arun Srinivasan [ctb],
Morgan Jacob [ctb],
Dirk Eddelbuettel [ctb],
Laurent Berge [ctb],
Kevin Tappe [ctb],
Alina Cherkas [ctb],
Ivan Krylov [ctb],
R Core Team and contributors worldwide [ctb],
Martyn P [...truncated...]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between collapse versions 2.1.5 dated 2025-11-19 and 2.1.6 dated 2026-01-11
collapse-2.1.5/collapse/tests/testthat/testthat-problems.rds |only collapse-2.1.6/collapse/DESCRIPTION | 16 - collapse-2.1.6/collapse/MD5 | 121 ++++------ collapse-2.1.6/collapse/NEWS.md | 35 ++ collapse-2.1.6/collapse/R/GRP.R | 2 collapse-2.1.6/collapse/R/collap.R | 4 collapse-2.1.6/collapse/R/roworder_colorder_rename.R | 6 collapse-2.1.6/collapse/inst/CITATION | 4 collapse-2.1.6/collapse/inst/doc/collapse_and_sf.Rmd | 4 collapse-2.1.6/collapse/inst/doc/collapse_and_sf.html | 2 collapse-2.1.6/collapse/inst/doc/collapse_documentation.Rmd | 44 ++- collapse-2.1.6/collapse/inst/doc/collapse_documentation.html | 80 ++++-- collapse-2.1.6/collapse/inst/doc/collapse_for_tidyverse_users.Rmd | 8 collapse-2.1.6/collapse/inst/doc/collapse_for_tidyverse_users.html | 18 - collapse-2.1.6/collapse/inst/doc/collapse_object_handling.Rmd | 30 +- collapse-2.1.6/collapse/inst/doc/collapse_object_handling.html | 62 ++--- collapse-2.1.6/collapse/inst/doc/developing_with_collapse.Rmd | 14 - collapse-2.1.6/collapse/inst/doc/developing_with_collapse.html | 16 - collapse-2.1.6/collapse/man/collap.Rd | 2 collapse-2.1.6/collapse/man/collapse-options.Rd | 2 collapse-2.1.6/collapse/man/collapse-package.Rd | 12 collapse-2.1.6/collapse/man/seqid.Rd | 2 collapse-2.1.6/collapse/src/collapse_c.h | 4 collapse-2.1.6/collapse/src/data.table_subset.c | 26 -- collapse-2.1.6/collapse/src/data.table_utils.c | 1 collapse-2.1.6/collapse/src/fbetween_fwithin.cpp | 2 collapse-2.1.6/collapse/src/fbstats.cpp | 2 collapse-2.1.6/collapse/src/fdiff_fgrowth.cpp | 2 collapse-2.1.6/collapse/src/ffirst.c | 4 collapse-2.1.6/collapse/src/flag.cpp | 2 collapse-2.1.6/collapse/src/flast.c | 4 collapse-2.1.6/collapse/src/fmean.c | 12 collapse-2.1.6/collapse/src/fmin_fmax.c | 4 collapse-2.1.6/collapse/src/fmode.c | 8 collapse-2.1.6/collapse/src/fndistinct.c | 4 collapse-2.1.6/collapse/src/fnth_fmedian_fquantile.c | 18 - collapse-2.1.6/collapse/src/fprod.c | 2 collapse-2.1.6/collapse/src/fscale.cpp | 2 collapse-2.1.6/collapse/src/fsum.c | 16 - collapse-2.1.6/collapse/src/fvar_fsd.cpp | 30 +- collapse-2.1.6/collapse/src/gsplit.c | 6 collapse-2.1.6/collapse/src/handle_attributes.c | 8 collapse-2.1.6/collapse/src/internal/R_defn.h | 6 collapse-2.1.6/collapse/src/kit_dup.c | 30 +- collapse-2.1.6/collapse/src/match.c | 40 +-- collapse-2.1.6/collapse/src/mrtl_mctl.cpp | 2 collapse-2.1.6/collapse/src/pivot.c | 8 collapse-2.1.6/collapse/src/programming.c | 25 ++ collapse-2.1.6/collapse/src/psmat.cpp | 2 collapse-2.1.6/collapse/src/pwnobs.cpp | 2 collapse-2.1.6/collapse/src/qF_qG.cpp | 2 collapse-2.1.6/collapse/src/seqid_groupid.cpp | 2 collapse-2.1.6/collapse/src/varying.cpp | 2 collapse-2.1.6/collapse/tests/testthat/test-GRP.R | 1 collapse-2.1.6/collapse/tests/testthat/test-join.R | 2 collapse-2.1.6/collapse/tests/testthat/test-misc.R | 2 collapse-2.1.6/collapse/tests/testthat/test-miscellaneous-issues.R | 25 ++ collapse-2.1.6/collapse/vignettes/collapse_and_sf.Rmd | 4 collapse-2.1.6/collapse/vignettes/collapse_documentation.Rmd | 44 ++- collapse-2.1.6/collapse/vignettes/collapse_for_tidyverse_users.Rmd | 8 collapse-2.1.6/collapse/vignettes/collapse_object_handling.Rmd | 30 +- collapse-2.1.6/collapse/vignettes/developing_with_collapse.Rmd | 14 - 62 files changed, 500 insertions(+), 392 deletions(-)
Title: An R Package for Extended Behavior Genetics Analysis
Description: Provides functions for behavior genetics analysis,
including variance component model identification [Hunter et al. (2021) <doi:10.1007/s10519-021-10055-x>],
calculation of relatedness coefficients using path-tracing methods
[Wright (1922) <doi:10.1086/279872>; McArdle & McDonald (1984) <doi:10.1111/j.2044-8317.1984.tb00802.x>],
inference of relatedness, pedigree conversion, and simulation of multi-generational family data
[Lyu et al. (2024) <doi:10.1101/2024.12.19.629449>]. For a full overview,
see [Garrison et al. (2024) <doi:10.21105/joss.06203>].
Author: S. Mason Garrison [aut, cre] ,
Michael D. Hunter [aut] ,
Xuanyu Lyu [aut] ,
Rachel N. Good [ctb],
Jonathan D. Trattner [aut] ,
S. Alexandra Burt [aut]
Maintainer: S. Mason Garrison <garrissm@wfu.edu>
Diff between BGmisc versions 1.5.0 dated 2025-07-18 and 1.5.2 dated 2026-01-11
DESCRIPTION | 13 MD5 | 214 ++++++------- NAMESPACE | 1 NEWS.md | 15 R/buildComponent.R | 109 +++++- R/calculateRelatedness.R | 9 R/checkIDs.R | 1 R/checkParents.R | 82 ++++- R/checkSex.R | 124 +++++-- R/cleanPedigree.R | 3 R/constructAdjacency.R | 39 +- R/documentData.R | 4 R/estimateCIs.R | 59 +++ R/makeLinks.R | 87 ++--- R/makeLinkslegacy.R | 55 +-- R/readGedcom.R | 108 +++++- R/readGedcomlegacy.R | 1 R/segmentPedigree.R | 22 + R/simulatePedigree.R | 49 ++- R/sliceFamilies.R | 32 +- R/summarizePedigree.R | 437 ++++++++++++++-------------- R/summarizePedigreeWrappers.R |only R/tweakPedigree.R | 21 - README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/v0_network.R | 6 inst/doc/v0_network.Rmd | 8 inst/doc/v0_network.html | 17 - inst/doc/v1_modelingvariancecomponents.R | 92 ++++- inst/doc/v1_modelingvariancecomponents.Rmd | 85 ++++- inst/doc/v1_modelingvariancecomponents.html | 180 ++++++----- inst/doc/v2_pedigree.html | 49 +-- inst/doc/v3_analyticrelatedness.R | 2 inst/doc/v3_analyticrelatedness.Rmd | 4 inst/doc/v3_analyticrelatedness.html | 17 - inst/doc/v4_validation.R | 1 inst/doc/v4_validation.Rmd | 1 inst/doc/v4_validation.html | 10 inst/doc/v5_ASOIAF.html | 7 man/BGmisc-package.Rd | 2 man/addParentRow.Rd | 4 man/addPersonToPed.Rd | 4 man/applyTagMappings.Rd | 1 man/buildWithinGenerations.Rd | 5 man/calculateCIs.Rd | 29 + man/calculateSummaryDT.Rd | 10 man/checkParentIDs.Rd | 8 man/checkSex.Rd | 7 man/collapseNames.Rd | 4 man/computeParentAdjacency.Rd | 3 man/countPatternRows.Rd | 2 man/dot-adjBeta.Rd | 7 man/dot-adjDirect.Rd | 3 man/dot-adjIndexed.Rd | 5 man/dot-adjLoop.Rd | 4 man/dot-loadOrComputeInverseDiagonal.Rd | 10 man/dot-loadOrComputeIsChild.Rd | 4 man/dot-loadOrComputeIsPar.Rd | 12 man/dot-loadOrComputeParList.Rd | 5 man/dropLink.Rd | 7 man/extract_info.Rd | 3 man/findBiggest.Rd | 6 man/findFooest.Rd |only man/findOldest.Rd | 15 man/inbreeding.Rd | 3 man/initializeRecord.Rd | 2 man/isChild.Rd | 1 man/loadOrComputeCheckpoint.Rd | 5 man/makeInbreeding.Rd | 7 man/makeTwins.Rd | 6 man/mapFAMC2parents.Rd | 2 man/parseNameLine.Rd | 2 man/ped2add.Rd | 3 man/ped2cn.Rd | 3 man/ped2com.Rd | 3 man/ped2gen.Rd |only man/ped2mit.Rd | 3 man/postProcessGedcom.Rd | 2 man/prepSummarizePedigrees.Rd | 90 ++--- man/processParents.Rd | 2 man/readGedcom.Rd | 57 +++ man/recodeSex.Rd | 10 man/repairSex.Rd | 14 man/royal92.Rd | 1 man/simulatePedigree.Rd | 17 - man/splitIndividuals.Rd | 5 man/standardizeColnames.Rd | 3 man/summarizeFamilies.Rd | 2 man/summarizeMatrilines.Rd | 2 man/summarizeOldest.Rd |only man/summarizePatrilines.Rd | 2 man/summarizePedigrees.Rd | 5 tests/testthat/test-buildComponent.R | 38 ++ tests/testthat/test-checkIDs.R | 3 tests/testthat/test-checkParents.R | 8 tests/testthat/test-checkSex.R | 182 +++++++++++ tests/testthat/test-convertPedigree.R | 52 +++ tests/testthat/test-estimateCIs.R | 4 tests/testthat/test-identifyModel.R | 1 tests/testthat/test-makeLinks.R | 1 tests/testthat/test-readGedcom.R | 1 tests/testthat/test-readWikifamilytree.R | 6 tests/testthat/test-segmentPedigree.R | 28 + tests/testthat/test-summarizePedigree.R | 4 tests/testthat/test-tweakPedigree.R | 4 vignettes/v0_network.Rmd | 8 vignettes/v1_modelingvariancecomponents.Rmd | 85 ++++- vignettes/v3_analyticrelatedness.Rmd | 4 vignettes/v4_validation.Rmd | 1 110 files changed, 1861 insertions(+), 947 deletions(-)
Title: Computations and Approximations for Bessel Functions
Description: Computations for Bessel function for complex, real and partly
'mpfr' (arbitrary precision) numbers; notably interfacing TOMS 644;
approximations for large arguments, experiments, etc.
Author: Martin Maechler [aut, cre]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between Bessel versions 0.6-1 dated 2024-07-29 and 0.7-0 dated 2026-01-11
DESCRIPTION | 22 +++++++++-------- MD5 | 35 ++++++++++++++------------- NAMESPACE | 2 + R/J-fn.R | 56 ++++++++++++++++++++++++++++++++++++++++---- R/toms644.R | 1 TODO | 20 +++++++++++---- build/vignette.rds |binary inst/NEWS.Rd | 26 ++++++++++++++++++++ inst/doc/other-Bessels.Rnw | 4 +-- inst/doc/other-Bessels.pdf |binary man/bessJsmlNu.Rd |only man/besselI.nuAsym.Rd | 4 +-- man/besselIasym.Rd | 5 ++- man/besselJs.Rd | 22 ++++++++++++++--- src/init.c | 2 - src/zbsubs.c | 44 +++++++++++++++++----------------- src/zbsubs.h | 3 -- tests/IJKY.R | 1 vignettes/other-Bessels.Rnw | 4 +-- 19 files changed, 176 insertions(+), 75 deletions(-)
Title: Create Credit State Migration (Transition) Matrices
Description: Tools to help convert credit risk data at two timepoints
into traditional credit state migration (aka, "transition") matrices.
At a higher level, 'migrate' is intended to help an analyst understand
how risk moved in their credit portfolio over a time interval.
References to this methodology include:
1. Schuermann, T. (2008) <doi:10.1002/9780470061596.risk0409>.
2. Perederiy, V. (2017) <doi:10.48550/arXiv.1708.00062>.
Author: Michael Thomas [aut, cre],
Brad Lindblad [ctb],
Ivan Millanes [ctb],
Dylan Hughes [ctb]
Maintainer: Michael Thomas <mthomas@ketchbrookanalytics.com>
Diff between migrate versions 0.5.0 dated 2024-07-10 and 0.5.1 dated 2026-01-11
DESCRIPTION | 17 ++- MD5 | 14 +-- NEWS.md | 7 + R/migrate.R | 68 ++++++++++++-- README.md | 29 +++--- build/vignette.rds |binary inst/doc/migrate.R | 2 inst/doc/migrate.html | 230 +++++++++++++++++++++++++------------------------- 8 files changed, 217 insertions(+), 150 deletions(-)