Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines spatial data types and supports geometrical operations
on them. Data types include point patterns, windows (domains),
pixel images, line segment patterns, tessellations and hyperframes.
Capabilities include creation and manipulation of data
(using command line or graphical interaction),
plotting, geometrical operations (rotation, shift, rescale,
affine transformation), convex hull, discretisation and
pixellation, Dirichlet tessellation, Delaunay triangulation,
pairwise distances, nearest-neighbour distances,
distance transform, morphological operations
(erosion, dilation, closing, opening), quadrat counting,
geometrical measurement, geometrical covariance,
colour maps, calculus on spatial domains,
Gaussian blur, level sets of images, transects of images,
intersections between objects, minimum distance matching.
(Excludes spatial data on a network, which are supported by
the package 'spatstat.linnet'.)
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Warick Brown [ctb],
Tilman Davies [ctb],
Ute Hahn [ctb],
Martin Hazelton [ctb],
Abdollah Jalilian [ctb],
Greg McSwiggan [ctb, cph],
Sebastian Meyer [ctb, cph],
Jens Oeh [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.geom versions 3.6-1 dated 2025-11-20 and 3.7-0 dated 2026-01-20
DESCRIPTION | 20 +- MD5 | 111 ++++++++-------- NAMESPACE | 16 ++ NEWS | 123 +++++++++++++++++ R/classes.R | 18 +- R/colourtables.R | 86 +++++++++++- R/connected.R | 94 +++++++++---- R/distfun.R | 178 +++++++++++++++++++++++++ R/distmap.R | 13 + R/dummy.R | 4 R/funxy.R | 30 ++-- R/is.subset.owin.R | 5 R/levelset.R | 29 ++-- R/morphology.R | 8 - R/options.R | 14 -- R/persp.im.R | 59 +++++++- R/persp.ppp.R | 50 +++++-- R/plot.anylist.R | 290 +++++++++++++++++++++++++++++------------- R/plot.im.R | 17 ++ R/plot.ppp.R | 44 +++++- R/plot.psp.R | 45 +----- R/pointweights.R | 40 ++++- R/quadclass.R | 4 R/randomseg.R | 2 R/symbolmap.R | 21 ++- R/tess.R | 94 +++++++++---- R/tessfun.R | 29 ++++ R/unique.ppp.R | 27 ++- R/weights.R | 6 R/xypolycomponents.R | 6 inst/doc/packagesizes.txt | 1 inst/info/packagesizes.txt | 1 man/connected.Rd | 15 +- man/default.colourmap.Rd |only man/default.symbolmap.ppp.Rd | 72 ++++++++-- man/distfun.Rd | 9 + man/distmap.owin.Rd | 26 ++- man/levelset.Rd | 8 + man/levelset.distfun.Rd |only man/methods.funxy.Rd | 5 man/persp.im.Rd | 38 ++++- man/persp.ppp.Rd | 44 +++++- man/plot.anylist.Rd | 4 man/plot.colourmap.Rd | 10 + man/plot.im.Rd | 16 +- man/plot.listof.Rd | 4 man/plot.ppp.Rd | 27 +++ man/plot.psp.Rd | 26 +++ man/plot.solist.Rd | 4 man/plot.symbolmap.Rd | 11 + man/spatstat.geom-internal.Rd | 16 +- man/spatstat.geom-package.Rd | 2 man/tile.centroids.Rd |only man/tileindex.Rd | 29 +++- tests/testsGtoJ.R | 9 + tests/testsQ.R | 4 tests/testsS.R | 61 ++++++++ tests/testsT.R | 9 + 58 files changed, 1501 insertions(+), 433 deletions(-)
Title: Low-Level R to Java Interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.
Author: Simon Urbanek [aut, cre, cph]
Maintainer: Simon Urbanek <Simon.Urbanek@r-project.org>
Diff between rJava versions 1.0-11 dated 2024-01-26 and 1.0-14 dated 2026-01-20
DESCRIPTION | 12 ++++--- MD5 | 20 ++++++------ NEWS | 20 ++++++++++++ R/jfirst.R | 4 -- R/jinit.R | 17 ++++++++++ inst/jri/JRIEngine.jar |binary inst/jri/REngine.jar |binary man/jinit.Rd | 17 ++++++---- src/Rglue.c | 78 ++++++++++++++++++++----------------------------- src/rJava.c | 25 ++++++++------- src/rJava.h | 39 +++++++++++++++++++++++- 11 files changed, 148 insertions(+), 84 deletions(-)
Title: Contour-Enhanced Forest Plots for Meta-Analysis
Description: Provides functions to create contour-enhanced forest plots for meta-analysis,
supporting binary outcomes (e.g., odds ratios, risk ratios), continuous outcomes (e.g., correlations),
and prevalence estimates. Includes options for prediction intervals, customized colors, study labeling,
and contour shading to highlight regions of statistical significance. Based on 'metafor' and 'ggplot2'.
Author: Umar Hussain [aut, cre],
Muhammad Abdullah Kamran [aut],
Fayez Hussain Niazi [aut]
Maintainer: Umar Hussain <drumarhussain@gmail.com>
Diff between contourforest versions 0.1.0 dated 2025-12-22 and 0.2.0 dated 2026-01-20
DESCRIPTION | 24 ++++++++++++++++-------- LICENSE | 4 ++-- MD5 | 12 ++++++++---- NAMESPACE | 3 +++ R/correlation.R |only R/prevalence.R |only R/zzz.R | 6 +++++- man/forest_corr.Rd |only man/forest_prev.Rd |only 9 files changed, 34 insertions(+), 15 deletions(-)
Title: Tools for Causal Discovery on Observational Data
Description: Various tools for inferring causal models from observational data. The package
includes an implementation of the temporal Peter-Clark (TPC) algorithm. Petersen, Osler
and Ekstrøm (2021) <doi:10.1093/aje/kwab087>. It also includes general tools
for evaluating differences in adjacency matrices, which can be used for evaluating
performance of causal discovery procedures.
Author: Anne Helby Petersen [aut],
Tobias Ellegaard Larsen [ctb],
Claus Thorn Ekstroem [ctb],
Bjarke Hautop Kristensen [ctb, cre]
Maintainer: Bjarke Hautop Kristensen <bjarke.kristensen@sund.ku.dk>
Diff between causalDisco versions 0.9.1 dated 2022-05-12 and 0.9.5 dated 2026-01-20
DESCRIPTION | 58 ++- MD5 | 145 ++++---- NAMESPACE | 156 +++++---- NEWS.md | 32 + R/amat.R |only R/causalDisco-package.R | 40 +- R/compare.R | 126 +++---- R/confusion.R | 408 +++++++++++++++-------- R/corTest.R | 38 +- R/edges.R | 82 ++-- R/evaluate.R | 246 +++++++------- R/fci.R |only R/gausCorScore.R | 122 +++---- R/maketikz.R | 496 ++++++++++++++++------------ R/metrics.R | 376 ++++++++++----------- R/misc.R | 313 ++++++++++-------- R/nDAGs.R | 40 +- R/pc.R |only R/plot.R | 187 ++++++++-- R/plotTempoMech.R | 510 ++++++++++++++++------------- R/probmat2amat.R | 272 +++++++-------- R/regTest.R | 239 +++++++------ R/simDAG.R | 88 ++--- R/simGausFromDAG.R | 124 +++---- R/tamat.R | 65 ++- R/tfci.R |only R/tges.R |only R/tpc.R | 724 ++++++++++++++++++++++-------------------- R/tplot.R |only man/F1.Rd | 38 +- man/FDR.Rd | 38 +- man/FOR.Rd | 38 +- man/G1.Rd | 48 +- man/NPV.Rd | 38 +- man/TemporalBDeu-class.Rd |only man/TemporalBIC-class.Rd |only man/adj_confusion.Rd | 111 ++++-- man/amat.Rd |only man/as.graphNEL.Rd | 34 - man/average_degree.Rd | 36 +- man/compare.Rd | 54 +-- man/confusion.Rd | 117 ++++-- man/corTest.Rd | 50 +- man/dir_confusion.Rd | 111 ++++-- man/dir_confusion_original.Rd |only man/edges.Rd | 36 +- man/essgraph2amat.Rd | 40 +- man/evaluate.Rd | 104 +++--- man/evaluate.array.Rd | 104 +++--- man/evaluate.matrix.Rd | 110 +++--- man/evaluate.tamat.Rd | 104 +++--- man/fci.Rd |only man/gausCorScore.Rd | 83 ++-- man/getvar.character.Rd |only man/getvar.data.frame.Rd |only man/graph2amat.Rd | 52 ++- man/is_cpdag.Rd | 42 +- man/is_pdag.Rd | 42 +- man/maketikz.Rd | 172 +++++---- man/maxnedges.Rd | 36 +- man/nDAGs.Rd | 36 +- man/nedges.Rd | 34 - man/pc.Rd |only man/plot.pag.Rd |only man/plot.tamat.Rd | 40 +- man/plot.tpag.Rd |only man/plot.tpdag.Rd | 40 +- man/plot.tskeleton.Rd | 40 +- man/plotTempoMech.Rd | 80 ++-- man/precision.Rd | 40 +- man/probmat2amat.Rd | 142 ++++---- man/recall.Rd | 38 +- man/regTest.Rd | 74 ++-- man/shd.Rd | 50 +- man/simDAG.Rd | 68 +-- man/simGausFromDAG.Rd | 107 +++--- man/specificity.Rd | 38 +- man/tamat.Rd | 60 ++- man/tfci.Rd |only man/tges.Rd |only man/tpc.Rd | 230 +++++++------ man/tpcExample.Rd | 66 +-- man/tplot.Rd |only 83 files changed, 4285 insertions(+), 3423 deletions(-)
Title: Build a Docker Image from a Directory or Project
Description: Simple utilities to generate a Dockerfile from a directory or
project, build the corresponding Docker image, push the image to
DockerHub, and publicly share the project via Binder.
Author: Daniel Molitor [aut, cph, cre]
Maintainer: Daniel Molitor <molitdj97@gmail.com>
Diff between tugboat versions 0.1.5 dated 2025-11-10 and 0.1.6 dated 2026-01-20
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 10 ++++++++++ R/binderize.R | 10 ++++++---- README.md | 24 ++++++++++++------------ man/binderize.Rd | 5 ++++- 6 files changed, 40 insertions(+), 25 deletions(-)
Title: Code Storage and Execution Class for 'teal' Applications
Description: Introduction of 'qenv' S4 class, that facilitates code
execution and reproducibility in 'teal' applications.
Author: Dawid Kaledkowski [aut, cre],
Aleksander Chlebowski [aut],
Marcin Kosinski [aut],
Pawel Rucki [aut],
Nikolas Burkoff [aut],
Mahmoud Hallal [aut],
Maciej Nasinski [aut],
Konrad Pagacz [aut],
Junlue Zhao [aut],
Chendi Liao [rev],
Dony Unardi [rev],
F. [...truncated...]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal.code versions 0.7.0 dated 2025-08-18 and 0.7.1 dated 2026-01-20
DESCRIPTION | 10 MD5 | 143 - NAMESPACE | 56 NEWS.md | 6 R/qenv-c.R | 212 +- R/qenv-class.R | 130 - R/qenv-concat.R | 98 - R/qenv-constructor.R | 78 R/qenv-errors.R | 20 R/qenv-eval_code.R | 226 +- R/qenv-extract.R | 106 - R/qenv-get_code.R | 274 +-- R/qenv-get_env.R | 54 R/qenv-get_messages.r | 80 R/qenv-get_outputs.R | 62 R/qenv-get_var.R | 80 R/qenv-get_warnings.R | 80 R/qenv-join.R | 26 R/qenv-length.R | 10 R/qenv-show.R | 102 - R/qenv-within.R | 138 - R/teal.code-package.R | 22 R/utils-get_code_dependency.R | 1192 +++++++------- R/utils.R | 200 +- README.md | 230 +- build/vignette.rds |binary inst/WORDLIST | 9 inst/doc/qenv.R | 254 +-- inst/doc/qenv.Rmd | 410 ++--- inst/doc/qenv.html | 1242 +++++++-------- inst/doc/teal-code.Rmd | 40 inst/doc/teal-code.html | 558 +++--- inst/pkgdown/_pkgdown.yml | 20 inst/pkgdown/templates/footer.html | 6 man/concat.Rd | 74 man/dev_suppress.Rd | 56 man/dot-check_joinable.Rd | 42 man/eval_code.Rd | 82 - man/get_code.Rd | 226 +- man/get_code_dependency.Rd | 74 man/get_env.Rd | 56 man/get_messages.Rd | 60 man/get_outputs.Rd | 66 man/get_var.Rd | 46 man/get_warn_message_util.Rd | 40 man/get_warnings.Rd | 60 man/join.Rd | 66 man/lang2calls.Rd | 56 man/qenv-class.Rd | 66 man/qenv.Rd | 86 - man/show-qenv-method.Rd | 48 man/subset-qenv.Rd | 54 man/teal.code-package.Rd | 90 - man/within.qenv.Rd | 129 - tests/testthat.R | 6 tests/testthat/Rplots.pdf |only tests/testthat/setup-options.R | 40 tests/testthat/test-get_outputs.R | 228 +- tests/testthat/test-qenv-class.R | 40 tests/testthat/test-qenv_concat.R | 186 +- tests/testthat/test-qenv_constructor.R | 134 - tests/testthat/test-qenv_eval_code.R | 358 ++-- tests/testthat/test-qenv_extract.R | 186 +- tests/testthat/test-qenv_get_code.R | 1951 ++++++++++++------------ tests/testthat/test-qenv_get_messages.R | 152 - tests/testthat/test-qenv_get_var.R | 96 - tests/testthat/test-qenv_get_warnings.R | 152 - tests/testthat/test-qenv_join.R | 346 ++-- tests/testthat/test-qenv_within.R | 312 +-- tests/testthat/test-utils-get_code_dependency.R | 335 +++- tests/testthat/test-utils.R | 122 - vignettes/qenv.Rmd | 410 ++--- vignettes/teal-code.Rmd | 40 73 files changed, 6536 insertions(+), 6209 deletions(-)
Title: Sample Selection Models
Description: Two-step
and maximum likelihood estimation
of Heckman-type sample selection models:
standard sample selection models (Tobit-2),
endogenous switching regression models (Tobit-5),
sample selection models with binary dependent outcome variable,
interval regression with sample selection (only ML estimation),
and endogenous treatment effects models.
These methods are described in the three vignettes
that are included in this package
and in econometric textbooks such as
Greene (2011, Econometric Analysis, 7th edition, Pearson).
Author: Arne Henningsen [aut, cre],
Ott Toomet [aut],
Sebastian Petersen [ctb]
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between sampleSelection versions 1.2-12 dated 2020-12-15 and 1.2-14 dated 2026-01-20
DESCRIPTION | 10 ++--- MD5 | 66 ++++++++++++++++----------------- NEWS | 11 +++++ R/heckit2fit.R | 6 +-- R/heckit5fit.R | 2 - R/heckitTfit.R | 2 - R/summary.selection.R | 2 - build/vignette.rds |binary inst/CITATION | 7 ++- inst/doc/intReg.pdf |binary inst/doc/selection.Rnw | 10 ++--- inst/doc/selection.bib | 18 ++++----- inst/doc/selection.pdf |binary inst/doc/treatReg.pdf |binary man/RandHIE.Rd | 2 - man/binaryChoice.Rd | 12 +++--- man/nlswork.Rd | 2 - tests/Mroz87SelectionTest.R | 2 - tests/Mroz87SelectionTest.Rout.save | 18 ++------- tests/binarySelectionOutcome.R | 2 - tests/binarySelectionOutcome.Rout.save | 10 ++--- tests/fail.Rout.save | 8 ++-- tests/heckitIvTest.R | 2 - tests/heckitIvTest.Rout.save | 10 ++--- tests/intervalTest.R | 2 - tests/intervalTest.Rout.save | 10 ++--- tests/invMillsRatioTest.R | 4 +- tests/invMillsRatioTest.Rout.save | 23 +++-------- tests/probit.R | 2 - tests/probit.Rout.save | 18 ++------- tests/selection.R | 4 +- tests/selection.Rout.save | 20 +++------- vignettes/selection.Rnw | 10 ++--- vignettes/selection.bib | 18 ++++----- 34 files changed, 145 insertions(+), 168 deletions(-)
More information about sampleSelection at CRAN
Permanent link
Title: A Library for using 'Pathling'
Description: R API for 'Pathling', a tool for querying and transforming electronic health record data that is represented using the 'Fast Healthcare Interoperability Resources' (FHIR) standard - see <https://pathling.csiro.au/docs>.
Author: Australian e-Health Research Centre, CSIRO [cph, cre],
Piotr Szul [aut],
John Grimes [aut]
Maintainer: "Australian e-Health Research Centre, CSIRO" <pathling@csiro.au>
Diff between pathling versions 9.0.0 dated 2025-10-28 and 9.2.0 dated 2026-01-20
DESCRIPTION | 10 - MD5 | 82 ++++---- R/context.R | 212 +++++++++++---------- R/data.R | 1 R/datasource.R | 387 ++++++++++++++++++++++----------------- R/dependencies.R | 8 R/encoding.R | 40 ++-- R/etc.R | 83 ++++---- R/fhir.R | 8 R/functions.R | 109 +++++----- R/udfs.R | 245 +++++++++++++----------- R/view.R | 70 +++---- man/ds_read.Rd | 10 - man/ds_view.Rd | 62 +++--- man/ds_write_delta.Rd | 9 man/ds_write_ndjson.Rd | 11 - man/ds_write_parquet.Rd | 7 man/ds_write_tables.Rd | 7 man/pathling_connect.Rd | 13 + man/pathling_encode.Rd | 9 man/pathling_encode_bundle.Rd | 13 - man/pathling_example_resource.Rd | 4 man/pathling_examples.Rd | 2 man/pathling_install_spark.Rd | 2 man/pathling_read_bulk.Rd | 8 man/pathling_read_bundles.Rd | 10 - man/pathling_read_datasets.Rd | 8 man/pathling_read_delta.Rd | 6 man/pathling_read_ndjson.Rd | 10 - man/pathling_read_parquet.Rd | 8 man/pathling_read_tables.Rd | 6 man/tx_designation.Rd | 20 +- man/tx_display.Rd | 12 - man/tx_member_of.Rd | 2 man/tx_property_of.Rd | 15 - man/tx_subsumed_by.Rd | 18 + man/tx_subsumes.Rd | 16 + man/tx_to_coding.Rd | 8 man/tx_to_ecl_value_set.Rd | 4 man/tx_to_loinc_coding.Rd | 8 man/tx_to_snomed_coding.Rd | 8 man/tx_translate.Rd | 16 + 42 files changed, 875 insertions(+), 712 deletions(-)
Title: Maxwell Boltzmann Bose Einstein Fermi Dirac Distribution and
Destruction Rate Modelling
Description: Distributions that are typically used for exposure rating in
general insurance, in particular to price reinsurance contracts.
The vignette shows code snippets to fit the distribution to
empirical data. See, e.g., Bernegger (1997) <doi:10.2143/AST.27.1.563208>
freely available on-line.
Author: Christophe Dutang [aut, cre] ,
Giorgio Spedicato [aut] ,
Markus Gesmann [ctb]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between mbbefd versions 0.8.13 dated 2024-12-18 and 0.8.14 dated 2026-01-20
mbbefd-0.8.13/mbbefd/inst/NEWS.Rd |only mbbefd-0.8.13/mbbefd/inst/doc/Introduction_to_mbbefd.R |only mbbefd-0.8.13/mbbefd/inst/doc/Introduction_to_mbbefd.Rmd |only mbbefd-0.8.13/mbbefd/inst/doc/Introduction_to_mbbefd.pdf |only mbbefd-0.8.13/mbbefd/tests/test-fit-mbbefd.R |only mbbefd-0.8.13/mbbefd/vignettes/Introduction_to_mbbefd.Rmd |only mbbefd-0.8.14/mbbefd/DESCRIPTION | 14 mbbefd-0.8.14/mbbefd/MD5 | 42 - mbbefd-0.8.14/mbbefd/NAMESPACE | 2 mbbefd-0.8.14/mbbefd/R/distr-mbbefdCpp.R | 38 - mbbefd-0.8.14/mbbefd/R/distr-mbbefdR-1stparam.R | 458 +++++++----- mbbefd-0.8.14/mbbefd/R/distr-mbbefdR-2ndparam.R | 441 ++++++++--- mbbefd-0.8.14/mbbefd/R/util-gendilogintegral.R | 42 - mbbefd-0.8.14/mbbefd/README.md | 2 mbbefd-0.8.14/mbbefd/build/partial.rdb |binary mbbefd-0.8.14/mbbefd/build/vignette.rds |binary mbbefd-0.8.14/mbbefd/inst/CITATION | 4 mbbefd-0.8.14/mbbefd/inst/NEWS.md |only mbbefd-0.8.14/mbbefd/inst/doc/Introduction.R |only mbbefd-0.8.14/mbbefd/inst/doc/Introduction.Rmd |only mbbefd-0.8.14/mbbefd/inst/doc/Introduction.pdf |only mbbefd-0.8.14/mbbefd/man/mbbefd-package.Rd | 3 mbbefd-0.8.14/mbbefd/src/mbbefdRcppCode.cpp | 39 - mbbefd-0.8.14/mbbefd/tests/test-fit-MBBEFDgb.R | 6 mbbefd-0.8.14/mbbefd/tests/test-fit-mbbefdab.R |only mbbefd-0.8.14/mbbefd/tests/testthat/testsDistr.R | 4 mbbefd-0.8.14/mbbefd/vignettes/Introduction.Rmd |only mbbefd-0.8.14/mbbefd/vignettes/mbbefd.bib | 529 +++++++------- 28 files changed, 1007 insertions(+), 617 deletions(-)
Title: Meteorological Data Processing
Description: Set of tools aimed at processing meteorological data, converting hourly recorded data to daily, monthly and annual data.
Author: Wagner Martins dos Santos [aut, cre] ,
Hoi Leong Lee [aut],
Edimir Xavier Leal Ferraz [aut] ,
Abelardo Antonio de Assuncao Montenegro [aut],
Lady Daiane Costa de Sousa Martins [aut] ,
Alan Cezar Bezerra [aut],
Ênio Farias de Franca e Silva [aut],
Thi [...truncated...]
Maintainer: Wagner Martins dos Santos <wagnnerms97@gmail.com>
This is a re-admission after prior archival of version 1.0.7 dated 2025-10-30
Diff between DataMetProcess versions 1.0.7 dated 2025-10-30 and 1.0.8 dated 2026-01-20
DESCRIPTION | 6 MD5 | 18 - R/calculateETrefPM.R | 329 +++++++++++++--------------------- R/list_inmet.R | 20 +- inst/doc/DataMetProcess-vignette.html | 54 ++--- man/DMPshiny.Rd | 78 ++++---- man/adjustDate.Rd | 104 +++++----- man/calculateDMY.Rd | 176 +++++++++--------- man/calculateETrefPM.Rd | 175 ++++++------------ man/list_inmet.Rd | 74 +++---- 10 files changed, 464 insertions(+), 570 deletions(-)
More information about DataMetProcess at CRAN
Permanent link
Title: Datasets and Supplemental Functions from Bayes Rules! Book
Description: Provides datasets and functions used for analysis
and visualizations in the Bayes Rules! book (<https://www.bayesrulesbook.com>).
The package contains a set of functions that summarize and plot Bayesian models from some conjugate families
and another set of functions for evaluation of some Bayesian models.
Author: Mine Dogucu [aut, cre] ,
Alicia Johnson [aut],
Miles Ott [aut]
Maintainer: Mine Dogucu <mdogucu@gmail.com>
Diff between bayesrules versions 0.0.2 dated 2021-09-25 and 0.0.3 dated 2026-01-20
DESCRIPTION | 12 MD5 | 28 - NEWS.md | 14 R/data_cherry_blossom_sample.R | 2 R/data_pulse_of_the_nation.R | 2 README.md | 1 build/vignette.rds |binary inst/doc/conjugate-families.R | 2 inst/doc/conjugate-families.html | 426 ++++++++++++++++++++++------- inst/doc/model-evaluation.R | 8 inst/doc/model-evaluation.Rmd | 6 inst/doc/model-evaluation.html | 561 +++++++++++++++++++++++++++------------ man/cherry_blossom_sample.Rd | 2 man/pulse_of_the_nation.Rd | 2 vignettes/model-evaluation.Rmd | 6 15 files changed, 778 insertions(+), 294 deletions(-)
Title: Efficient Serialization of R Objects
Description: Streamlines and accelerates the process of saving and loading R objects, improving speed and compression compared to other methods. The package provides two compression formats: the 'qs2' format, which uses R serialization via the C API while optimizing compression and disk I/O, and the 'qdata' format, featuring custom serialization for slightly faster performance and better compression. Additionally, the 'qs2' format can be directly converted to the standard 'RDS' format, ensuring long-term compatibility with future versions of R.
Author: Travers Ching [aut, cre, cph],
Yann Collet [ctb, cph] ,
Facebook, Inc. [cph] ,
Reichardt Tino [ctb, cph] ,
Skibinski Przemyslaw [ctb, cph] ,
Mori Yuta [ctb, cph] ,
Francesc Alted [ctb, cph]
Maintainer: Travers Ching <traversc@gmail.com>
Diff between qs2 versions 0.1.6 dated 2025-11-21 and 0.1.7 dated 2026-01-20
qs2-0.1.6/qs2/man/zstd_compress_file.Rd |only qs2-0.1.6/qs2/man/zstd_decompress_file.Rd |only qs2-0.1.7/qs2/ChangeLog | 6 qs2-0.1.7/qs2/DESCRIPTION | 10 qs2-0.1.7/qs2/MD5 | 32 qs2-0.1.7/qs2/NAMESPACE | 3 qs2-0.1.7/qs2/R/zstd_file_functions.R | 115 +- qs2-0.1.7/qs2/README.md | 137 +- qs2-0.1.7/qs2/configure | 1646 +++++++++++++++++++----------- qs2-0.1.7/qs2/configure.ac | 66 - qs2-0.1.7/qs2/inst/doc/vignette.R | 30 qs2-0.1.7/qs2/inst/doc/vignette.html | 140 +- qs2-0.1.7/qs2/inst/doc/vignette.rmd | 60 - qs2-0.1.7/qs2/man/zstd_file_functions.Rd |only qs2-0.1.7/qs2/man/zstd_in_out.Rd |only qs2-0.1.7/qs2/src/Makevars.in | 6 qs2-0.1.7/qs2/src/qd_deserializer.h | 73 + qs2-0.1.7/qs2/src/qd_serializer.h | 34 qs2-0.1.7/qs2/vignettes/vignette.rmd | 60 - 19 files changed, 1669 insertions(+), 749 deletions(-)
Title: Maximum Likelihood Estimates of Gaussian Processes
Description: Maximum likelihood Gaussian process modeling for
univariate and multi-dimensional outputs with diagnostic plots
following Santner et al (2003) <doi:10.1007/978-1-4757-3799-8>.
Contact the maintainer for a package version that includes
sensitivity analysis.
Author: Garrett M. Dancik [aut, cre]
Maintainer: Garrett M. Dancik <dancikg@easternct.edu>
Diff between mlegp versions 3.1.9 dated 2022-03-10 and 3.1.10 dated 2026-01-20
CHANGES | 3 +++ DESCRIPTION | 16 ++++++++++------ MD5 | 15 ++++++++------- build |only inst/CITATION | 2 +- inst/doc/mlegp.Rnw | 8 ++++---- inst/doc/mlegp.pdf |binary man/gp.list.Rd | 2 +- vignettes/mlegp.Rnw | 8 ++++---- 9 files changed, 31 insertions(+), 23 deletions(-)
Title: Miscellaneous Tools and Utilities
Description: Miscellaneous small tools and utilities.
Many of them facilitate the work with matrices,
e.g. inserting rows or columns, creating symmetric matrices,
or checking for semidefiniteness.
Other tools facilitate the work with regression models,
e.g. extracting the standard errors,
obtaining the number of (estimated) parameters,
or calculating R-squared values.
Author: Arne Henningsen [aut, cre],
Ott Toomet [aut]
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between miscTools versions 0.6-28 dated 2023-05-03 and 0.6-30 dated 2026-01-20
DESCRIPTION | 15 ++++++++++----- MD5 | 6 +++--- NEWS | 5 +++++ man/sumKeepAttr.Rd | 4 ++-- 4 files changed, 20 insertions(+), 10 deletions(-)
Title: Estimation and Testing for a Lognormal-Pareto Mixture
Description: Estimates a lognormal-Pareto mixture by means of the Expectation-Conditional-Maximization-Either algorithm and by maximizing the profile likelihood function. A likelihood ratio test for discriminating between lognormal and Pareto tail is also implemented. See Bee, M. (2022) <doi:10.1007/s11634-022-00497-4>.
Author: Marco Bee [aut, cre]
Maintainer: Marco Bee <marco.bee@unitn.it>
Diff between LNPar versions 1.1.2 dated 2025-08-26 and 1.1.3 dated 2026-01-20
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/LPfitEM.R | 7 +------ R/LPfitProf.R | 9 +-------- R/ParallelTest.R | 7 +------ R/ParallelTestEM.R | 7 +------ R/ProfBoot.R | 4 ++-- build/partial.rdb |binary man/ProfBoot.Rd | 4 ++-- 9 files changed, 20 insertions(+), 42 deletions(-)
Title: Estimation of Dynamic Mixtures
Description: Estimation of a dynamic lognormal - Generalized Pareto mixture via the Approximate Maximum Likelihood and the Cross-Entropy methods. See Bee, M. (2023) <doi:10.1016/j.csda.2023.107764>.
Author: Marco Bee [aut, cre]
Maintainer: Marco Bee <marco.bee@unitn.it>
Diff between FitDynMix versions 1.0.1 dated 2025-05-20 and 1.0.2 dated 2026-01-20
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/AMLEfit.R | 7 +------ R/CENoisyFit.R | 4 ++-- R/CENoisyFitBoot.R | 9 ++------- R/MLEfit.R | 7 +------ build/partial.rdb |binary man/CENoisyFit.Rd | 4 ++-- man/CENoisyFitBoot.Rd | 2 +- 9 files changed, 21 insertions(+), 36 deletions(-)
Title: Discrete Global Grids
Description: Spatial analyses involving binning require that every bin have the same area, but this is impossible using a rectangular grid laid over the Earth or over any projection of the Earth. Discrete global grids use hexagons, triangles, and diamonds to overcome this issue, overlaying the Earth with equally-sized bins. This package provides utilities for working with discrete global grids, along with utilities to aid in plotting such data.
Author: Richard Barnes [aut],
Kevin Sahr [aut, cph],
Gerald Evenden [cph],
Angus Johnson [cph],
Frank Warmerdam [cph],
Even Rouault [cph],
Lian Song [ctb],
Edzer Pebesma [ctb],
Sebastian Krantz [ctb, cre]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between dggridR versions 3.1.0 dated 2024-07-26 and 3.1.1 dated 2026-01-20
DESCRIPTION | 34 +++++++++++++++++--------------- MD5 | 18 ++++++++--------- NEWS | 4 +++ R/dggridR.R | 36 ++++++++++++++++++---------------- README.md | 11 +++++++--- build/vignette.rds |binary inst/doc/dggridR.R | 24 +++++++++++------------ inst/doc/dggridR.Rmd | 10 +++++---- inst/doc/dggridR.html | 52 ++++++++++++++++++++++---------------------------- vignettes/dggridR.Rmd | 10 +++++---- 10 files changed, 105 insertions(+), 94 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous (and discrete) time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE) or difference equation, measurement models are typically multivariate normal factor models.
Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default.
Nonlinearities, (state dependent parameters) and random effects on all parameters
are possible, using either max likelihood / max a posteriori optimization
(with optional importance sampling) or Stan's Hamiltonian Monte Carlo sampling.
See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf>
for details. See <https://osf.io/preprints/psyarxiv/4q9ex_v2> for a detailed tutorial.
Priors may be used. For the conceptual overview of the hierarchical Bayesian
linear SDE approach,
see <https://www.research [...truncated...]
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <charles.driver2@uzh.ch>
Diff between ctsem versions 3.10.4 dated 2025-06-30 and 3.10.5 dated 2026-01-20
ctsem-3.10.4/ctsem/R/ctExtractComplexMatrix.R |only ctsem-3.10.4/ctsem/R/ctIndplot.R |only ctsem-3.10.4/ctsem/R/databasedTIpreds.R |only ctsem-3.10.4/ctsem/man/ctIndplot.Rd |only ctsem-3.10.4/ctsem/man/plot.ctFitCovCheck.Rd |only ctsem-3.10.5/ctsem/DESCRIPTION | 15 ctsem-3.10.5/ctsem/MD5 | 58 ctsem-3.10.5/ctsem/NAMESPACE | 3 ctsem-3.10.5/ctsem/R/ctCheckFit.R | 19 ctsem-3.10.5/ctsem/R/ctCoverageCheck.R |only ctsem-3.10.5/ctsem/R/ctModel.R | 7 ctsem-3.10.5/ctsem/R/ctModelLatex.R | 75 ctsem-3.10.5/ctsem/R/ctStanFit.R | 6 ctsem-3.10.5/ctsem/R/ctStanPostPredict.R | 237 + ctsem-3.10.5/ctsem/R/ctsem-package.R | 42 ctsem-3.10.5/ctsem/R/ctsemUtils.R | 12 ctsem-3.10.5/ctsem/R/priorcheck.R | 48 ctsem-3.10.5/ctsem/R/sdpcor2cov.R | 154 - ctsem-3.10.5/ctsem/R/stanoptimis.R | 1369 +++++----- ctsem-3.10.5/ctsem/R/summary.ctStanFit.R | 2 ctsem-3.10.5/ctsem/README.md | 13 ctsem-3.10.5/ctsem/build/partial.rdb |binary ctsem-3.10.5/ctsem/build/vignette.rds |binary ctsem-3.10.5/ctsem/inst/doc/hierarchicalmanual.pdf |binary ctsem-3.10.5/ctsem/inst/stan/ctsmgen.stan | 1 ctsem-3.10.5/ctsem/man/ctDocs.Rd | 34 ctsem-3.10.5/ctsem/man/ctFitCovCheck.Rd | 4 ctsem-3.10.5/ctsem/man/ctFitCovCheckPlot.Rd |only ctsem-3.10.5/ctsem/man/ctModelCoverage_check.Rd |only ctsem-3.10.5/ctsem/man/ctModelLatex.Rd | 5 ctsem-3.10.5/ctsem/man/ctPostPredPlots.Rd | 8 ctsem-3.10.5/ctsem/man/ctStanFit.Rd | 766 ++--- ctsem-3.10.5/ctsem/tests/testthat/test-bootstrapScoreHessian.R | 143 - ctsem-3.10.5/ctsem/tests/testthat/test-ctLOO.R | 27 34 files changed, 1731 insertions(+), 1317 deletions(-)
Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory
factor analysis, structural equation models, and latent growth curve models. References: Merkle & Rosseel (2018) <doi:10.18637/jss.v085.i04>; Merkle et al. (2021) <doi:10.18637/jss.v100.i06>.
Author: Edgar Merkle [aut, cre] ,
Yves Rosseel [aut],
Ben Goodrich [aut],
Mauricio Garnier-Villarreal [ctb] ,
Terrence D. Jorgensen [ctb] ,
Huub Hoofs [ctb] ,
Rens van de Schoot [ctb] ,
Andrew Johnson [ctb] ,
Matthew Emery [ctb] ,
Michael S. Truong [ctb] )
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between blavaan versions 0.5-9 dated 2025-10-10 and 0.5-10 dated 2026-01-20
DESCRIPTION | 19 ++++++++------- MD5 | 36 ++++++++++++++--------------- NEWS.md | 10 ++++++++ R/blav_object_inspect.R | 42 +++++++++++++++++++++++++++------ R/blav_predict.R | 6 ++++ R/blavaan.R | 12 ++++++--- R/lav_export_stanmarg.R | 35 ++++++++++++++++------------ R/lvgqs.R | 11 ++++++-- R/stanmarg_data.R | 15 ++++++++---- R/zzz.R | 1 README.md | 2 - inst/stan/stanmarg.stan | 52 ++++++++++++++++++++++-------------------- inst/testdata/sysdata.rda |binary inst/tinytest/tests.blavaan.R | 17 +++++++++---- man/bcfa.Rd | 6 ++-- man/bgrowth.Rd | 2 - man/blavaan.Rd | 4 +-- man/bsem.Rd | 6 ++-- src/stanExports_stanmarg.cc | 34 +++++++++++++-------------- 19 files changed, 192 insertions(+), 118 deletions(-)
Title: Bayesian Analysis of Networks of Binary and/or Ordinal Variables
Description: Bayesian variable selection methods for analyzing the structure of a Markov random field model for a network of binary and/or ordinal variables.
Author: Maarten Marsman [aut, cre] ,
Giuseppe Arena [ctb] ,
Karoline Huth [ctb] ,
Nikola Sekulovski [ctb] ,
Don van den Bergh [ctb]
Maintainer: Maarten Marsman <m.marsman@uva.nl>
Diff between bgms versions 0.1.6.1 dated 2025-10-04 and 0.1.6.2 dated 2026-01-20
bgms-0.1.6.1/bgms/inst/bgms_sticker.svg |only bgms-0.1.6.1/bgms/src/bgmCompare_helper.cpp |only bgms-0.1.6.1/bgms/src/bgmCompare_helper.h |only bgms-0.1.6.1/bgms/src/bgmCompare_logp_and_grad.cpp |only bgms-0.1.6.1/bgms/src/bgmCompare_logp_and_grad.h |only bgms-0.1.6.1/bgms/src/bgmCompare_parallel.cpp |only bgms-0.1.6.1/bgms/src/bgmCompare_sampler.cpp |only bgms-0.1.6.1/bgms/src/bgmCompare_sampler.h |only bgms-0.1.6.1/bgms/src/bgm_helper.cpp |only bgms-0.1.6.1/bgms/src/bgm_helper.h |only bgms-0.1.6.1/bgms/src/bgm_logp_and_grad.cpp |only bgms-0.1.6.1/bgms/src/bgm_logp_and_grad.h |only bgms-0.1.6.1/bgms/src/bgm_parallel.cpp |only bgms-0.1.6.1/bgms/src/bgm_sampler.cpp |only bgms-0.1.6.1/bgms/src/bgm_sampler.h |only bgms-0.1.6.1/bgms/src/chainResults.h |only bgms-0.1.6.1/bgms/src/common_helpers.h |only bgms-0.1.6.1/bgms/src/custom_exp.cpp |only bgms-0.1.6.1/bgms/src/e_arma_exp.h |only bgms-0.1.6.1/bgms/src/e_exp.cpp |only bgms-0.1.6.1/bgms/src/e_exp.h |only bgms-0.1.6.1/bgms/src/explog_switch.h |only bgms-0.1.6.1/bgms/src/mcmc_adaptation.h |only bgms-0.1.6.1/bgms/src/mcmc_hmc.cpp |only bgms-0.1.6.1/bgms/src/mcmc_hmc.h |only bgms-0.1.6.1/bgms/src/mcmc_leapfrog.cpp |only bgms-0.1.6.1/bgms/src/mcmc_leapfrog.h |only bgms-0.1.6.1/bgms/src/mcmc_memoization.h |only bgms-0.1.6.1/bgms/src/mcmc_nuts.cpp |only bgms-0.1.6.1/bgms/src/mcmc_nuts.h |only bgms-0.1.6.1/bgms/src/mcmc_rwm.cpp |only bgms-0.1.6.1/bgms/src/mcmc_rwm.h |only bgms-0.1.6.1/bgms/src/mcmc_utils.cpp |only bgms-0.1.6.1/bgms/src/mcmc_utils.h |only bgms-0.1.6.1/bgms/src/print_mutex.h |only bgms-0.1.6.1/bgms/src/progress_manager.cpp |only bgms-0.1.6.1/bgms/src/progress_manager.h |only bgms-0.1.6.1/bgms/src/rng_utils.h |only bgms-0.1.6.1/bgms/src/sampler_output.h |only bgms-0.1.6.1/bgms/src/sbm_edge_prior.cpp |only bgms-0.1.6.1/bgms/src/sbm_edge_prior.h |only bgms-0.1.6.2/bgms/DESCRIPTION | 11 bgms-0.1.6.2/bgms/MD5 | 170 +++--- bgms-0.1.6.2/bgms/NEWS.md | 24 bgms-0.1.6.2/bgms/R/RcppExports.R | 20 bgms-0.1.6.2/bgms/R/bgm.R | 260 +++++---- bgms-0.1.6.2/bgms/R/bgmCompare.R | 259 +++++---- bgms-0.1.6.2/bgms/R/bgmcompare-methods.r | 143 ++--- bgms-0.1.6.2/bgms/R/bgms-methods.R | 63 +- bgms-0.1.6.2/bgms/R/bgms-package.R | 1 bgms-0.1.6.2/bgms/R/data_utils.R | 449 ++++++++++------ bgms-0.1.6.2/bgms/R/extractor_functions.R | 246 +++++---- bgms-0.1.6.2/bgms/R/function_input_utils.R | 561 +++++++++++++-------- bgms-0.1.6.2/bgms/R/mcmc_summary.R | 358 +++++++------ bgms-0.1.6.2/bgms/R/nuts_diagnostics.R | 17 bgms-0.1.6.2/bgms/R/output_utils.R | 158 ++--- bgms-0.1.6.2/bgms/R/sampleMRF.R | 262 +++++---- bgms-0.1.6.2/bgms/README.md | 30 - bgms-0.1.6.2/bgms/build/partial.rdb |binary bgms-0.1.6.2/bgms/cleanup | 1 bgms-0.1.6.2/bgms/configure | 5 bgms-0.1.6.2/bgms/configure.win | 4 bgms-0.1.6.2/bgms/inst/CITATION | 2 bgms-0.1.6.2/bgms/inst/REFERENCES.bib | 5 bgms-0.1.6.2/bgms/inst/doc/comparison.R | 15 bgms-0.1.6.2/bgms/inst/doc/comparison.Rmd | 17 bgms-0.1.6.2/bgms/inst/doc/comparison.html | 13 bgms-0.1.6.2/bgms/inst/doc/diagnostics.R | 6 bgms-0.1.6.2/bgms/inst/doc/diagnostics.Rmd | 6 bgms-0.1.6.2/bgms/inst/doc/diagnostics.html | 6 bgms-0.1.6.2/bgms/inst/doc/intro.R | 15 bgms-0.1.6.2/bgms/inst/doc/intro.Rmd | 17 bgms-0.1.6.2/bgms/inst/doc/intro.html | 15 bgms-0.1.6.2/bgms/inst/generate_makevars_sources.R |only bgms-0.1.6.2/bgms/man/bgm.Rd | 18 bgms-0.1.6.2/bgms/man/bgmCompare.Rd | 2 bgms-0.1.6.2/bgms/man/bgms-package.Rd | 1 bgms-0.1.6.2/bgms/man/figures |only bgms-0.1.6.2/bgms/man/mrfSampler.Rd | 40 - bgms-0.1.6.2/bgms/src/Makevars.in | 6 bgms-0.1.6.2/bgms/src/RcppExports.cpp | 53 - bgms-0.1.6.2/bgms/src/bgm |only bgms-0.1.6.2/bgms/src/bgmCompare |only bgms-0.1.6.2/bgms/src/bgmCompare_interface.cpp |only bgms-0.1.6.2/bgms/src/bgm_interface.cpp |only bgms-0.1.6.2/bgms/src/data_simulation.cpp | 23 bgms-0.1.6.2/bgms/src/math |only bgms-0.1.6.2/bgms/src/mcmc |only bgms-0.1.6.2/bgms/src/priors |only bgms-0.1.6.2/bgms/src/rng |only bgms-0.1.6.2/bgms/src/sbm_edge_prior_interface.cpp |only bgms-0.1.6.2/bgms/src/sbm_edge_prior_interface.h |only bgms-0.1.6.2/bgms/src/utils |only bgms-0.1.6.2/bgms/tests/testthat/test-bgm.R | 14 bgms-0.1.6.2/bgms/vignettes/comparison.Rmd | 17 bgms-0.1.6.2/bgms/vignettes/diagnostics.Rmd | 6 bgms-0.1.6.2/bgms/vignettes/intro.Rmd | 17 97 files changed, 1901 insertions(+), 1455 deletions(-)