Title: An Extension of 'Tidymodels' Supporting Offset Terms
Description: Extend the 'tidymodels' ecosystem <https://www.tidymodels.org/> to
enable the creation of predictive models with offset terms. Models with
offsets are most useful when working with count data or when fitting an
adjustment model on top of an existing model with a prior expectation.
The former situation is common in insurance where data is often weighted by
exposures. The latter is common in life insurance where industry mortality
tables are often used as a starting point for setting assumptions.
Author: Matt Heaphy [aut, cre, cph]
Maintainer: Matt Heaphy <mattrmattrs@gmail.com>
Diff between offsetreg versions 1.1.1 dated 2025-03-02 and 1.2.0 dated 2026-03-22
DESCRIPTION | 13 MD5 | 48 +-- NEWS.md | 6 R/boost_tree_data.R | 20 - R/boost_tree_offset.R | 84 +++--- R/decision_tree_data.R | 10 R/decision_tree_exposure.R | 49 ++- R/glm.R | 187 +++++++------ R/glmnet.R | 156 ++++++----- R/poisson_reg_data.R | 29 +- R/poisson_reg_offset.R | 47 ++- R/rpart.R | 180 +++++++------ R/us_deaths.R | 50 +-- R/xgboost.R | 563 ++++++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/usage.html | 23 - man/glm_offset.Rd | 13 man/glmnet_offset.Rd | 5 man/rpart_exposure.Rd | 7 man/us_deaths.Rd | 68 ++--- man/xgb_train_offset.Rd | 13 tests/testthat.R | 26 - tests/testthat/test-poisson.R | 161 ++++++++---- tests/testthat/test-rpart.R | 125 +++++---- tests/testthat/test-xgboost.R | 190 ++++++++------ 25 files changed, 1165 insertions(+), 908 deletions(-)
Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing
different procedures and tools used in plant science and experimental designs.
The mean aim of the package is to support researchers during the planning of
experiments and data collection (tarpuy()), data analysis and graphics (yupana())
, and scientific writing.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
Maria Belen Kistner [ctb] ,
QuipoLab [ctb],
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flozanoisla@gmail.com>
Diff between inti versions 0.6.91 dated 2026-01-10 and 0.6.92 dated 2026-03-22
DESCRIPTION | 6 +- MD5 | 20 ++++--- NEWS.md | 10 +++ R/utils.R | 28 +++++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/apps.html | 2 inst/extdata/_extensions/scihub/ReadMe.qmd | 70 +++------------------------ inst/extdata/_extensions/scihub/analysis.qmd | 5 - inst/extdata/_extensions/scihub/article.qmd | 16 ++++++ inst/extdata/_extensions/scihub/article.zp |only inst/extdata/_extensions/scihub/scihub.proj |only 12 files changed, 70 insertions(+), 87 deletions(-)
Title: Extended Two-Way Fixed Effects
Description: Convenience functions for implementing extended two-way
fixed effect regressions a la Wooldridge (2023, 2025)
<doi:10.1093/ectj/utad016>, <doi:10.1007/s00181-025-02807-z>.
Author: Grant McDermott [aut, cre] ,
Frederic Kluser [ctb],
Ulrich Morawetz [ctb]
Maintainer: Grant McDermott <contact@grantmcdermott.com>
Diff between etwfe versions 0.6.1 dated 2026-03-16 and 0.6.2 dated 2026-03-22
DESCRIPTION | 8 - MD5 | 8 - NEWS.md | 6 + inst/doc/etwfe.html | 242 ++++++++++++++++++++++----------------------- inst/tinytest/test_etwfe.R | 18 ++- 5 files changed, 149 insertions(+), 133 deletions(-)
Title: Interact with 'Condor' from R via SSH
Description: Interact with 'Condor' from R via SSH connection. Files are first
uploaded from user machine to submitter machine, and the job is then submitted
from the submitter machine to 'Condor'. Functions are provided to submit,
list, and download 'Condor' jobs from R. 'Condor' is an open source
high-throughput computing software framework for distributed parallelization
of computationally intensive tasks.
Author: Arni Magnusson [aut, cre],
Nan Yao [aut],
Jemery Day [ctb],
Thomas Teears [ctb]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Diff between condor versions 3.0.1 dated 2025-09-22 and 3.0.2 dated 2026-03-22
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 8 ++++++++ R/condor_download.R | 8 ++++---- 4 files changed, 19 insertions(+), 11 deletions(-)
Title: Execute and View Data Quality Checks on OMOP CDM Database
Description: Assesses data quality in Observational Medical Outcomes Partnership Common Data Model (OMOP CDM) databases. Executes data quality checks and provides an R 'shiny' application to view the results.
Author: Katy Sadowski [aut, cre],
Clair Blacketer [aut],
Maxim Moinat [aut],
Ajit Londhe [aut],
Anthony Sena [aut],
Anthony Molinaro [aut],
Frank DeFalco [aut],
Pavel Grafkin [aut]
Maintainer: Katy Sadowski <sadowski@ohdsi.org>
Diff between DataQualityDashboard versions 2.8.6 dated 2026-01-28 and 2.8.7 dated 2026-03-22
DESCRIPTION | 10 +++++----- MD5 | 30 +++++++++++++++--------------- NEWS.md | 4 ++++ R/calculateNotApplicableStatus.R | 23 +++++++++++++++++++++-- README.md | 8 +++++++- inst/csv/OMOP_CDMv5.2_Concept_Level.csv | 4 ++-- inst/csv/OMOP_CDMv5.3_Concept_Level.csv | 4 ++-- inst/csv/OMOP_CDMv5.4_Concept_Level.csv | 4 ++-- inst/doc/AddNewCheck.html | 2 +- inst/doc/CheckStatusDefinitions.html | 2 +- inst/doc/DataQualityDashboard.html | 6 +++++- inst/doc/DataQualityDashboard.rmd | 8 ++++++++ inst/doc/DqdForCohorts.html | 2 +- inst/doc/SqlOnly.html | 2 +- inst/doc/Thresholds.html | 2 +- vignettes/DataQualityDashboard.rmd | 8 ++++++++ 16 files changed, 84 insertions(+), 35 deletions(-)
More information about DataQualityDashboard at CRAN
Permanent link
Title: Parametric Time-to-Event Analysis with Variable Incubation
Phases
Description: Fit parametric models for time-to-event data that show an initial
'incubation period', i.e., a variable delay phase where no events occur.
The delayed Weibull distribution serves as the foundational data model.
For parameter estimation, different flavours of maximum likelihood
estimation ('MLE') and the method of maximum product of spacings estimation
('MPSE') are implemented. Bootstrap confidence intervals for parameters and
significance tests in a two group setting are provided.
Author: Matthias Kuhn [aut, cre, cph]
Maintainer: Matthias Kuhn <matthias.kuhn@tu-dresden.de>
Diff between incubate versions 1.3.0 dated 2024-08-16 and 1.4.0 dated 2026-03-22
incubate-1.3.0/incubate/data/publication_examples.rda |only incubate-1.3.0/incubate/inst/scripts/MLEw_weights.RData |only incubate-1.3.0/incubate/inst/scripts/simRes_test_2023-09-08-15h24m35s.rds |only incubate-1.3.0/incubate/inst/scripts/simRes_test_OUT.rds |only incubate-1.3.0/incubate/man/minObjFunPORT.Rd |only incubate-1.3.0/incubate/man/publication_examples.Rd |only incubate-1.4.0/incubate/DESCRIPTION | 43 incubate-1.4.0/incubate/MD5 | 120 incubate-1.4.0/incubate/NAMESPACE | 6 incubate-1.4.0/incubate/NEWS.md | 24 incubate-1.4.0/incubate/R/aaa.R |only incubate-1.4.0/incubate/R/cpp11.R |only incubate-1.4.0/incubate/R/data.R | 110 incubate-1.4.0/incubate/R/delay.R | 1631 +++- incubate-1.4.0/incubate/R/delay_estimation.R | 4062 +++++++--- incubate-1.4.0/incubate/R/delay_test.R | 2263 ++++- incubate-1.4.0/incubate/R/incubate-package.R | 5 incubate-1.4.0/incubate/R/integration.R |only incubate-1.4.0/incubate/R/sysdata.rda |binary incubate-1.4.0/incubate/R/utils.R | 461 + incubate-1.4.0/incubate/R/zzz.R |only incubate-1.4.0/incubate/README.md | 45 incubate-1.4.0/incubate/build |only incubate-1.4.0/incubate/data/fatigue.rda |binary incubate-1.4.0/incubate/data/graphite.rda |only incubate-1.4.0/incubate/data/long2017.rda |only incubate-1.4.0/incubate/data/measles_sailer.rda |only incubate-1.4.0/incubate/data/pollution.rda |binary incubate-1.4.0/incubate/data/rockette.rda |only incubate-1.4.0/incubate/data/rockette74.rda |only incubate-1.4.0/incubate/data/susquehanna.rda |binary incubate-1.4.0/incubate/inst/WORDLIST |only incubate-1.4.0/incubate/inst/doc |only incubate-1.4.0/incubate/inst/scripts/gather_results.R | 421 - incubate-1.4.0/incubate/inst/scripts/simul_MLEweights.R |only incubate-1.4.0/incubate/inst/scripts/simul_bootstrap.R | 134 incubate-1.4.0/incubate/inst/scripts/simul_confint.R | 664 + incubate-1.4.0/incubate/inst/scripts/simul_estim.R |only incubate-1.4.0/incubate/inst/scripts/simul_test.R | 845 +- incubate-1.4.0/incubate/inst/scripts/test_GOF_ad_pval.R |only incubate-1.4.0/incubate/man/DelayedExponential.Rd | 24 incubate-1.4.0/incubate/man/DelayedWeibull.Rd | 30 incubate-1.4.0/incubate/man/as_percent.Rd | 2 incubate-1.4.0/incubate/man/buildControl.Rd |only incubate-1.4.0/incubate/man/buildDist.Rd |only incubate-1.4.0/incubate/man/coef.incubate_fit.Rd | 8 incubate-1.4.0/incubate/man/delay_model.Rd | 64 incubate-1.4.0/incubate/man/estimRoundingError.Rd | 8 incubate-1.4.0/incubate/man/figures/README-example_fit-1.png |binary incubate-1.4.0/incubate/man/figures/README-example_inf-1.png |binary incubate-1.4.0/incubate/man/getDist.Rd | 12 incubate-1.4.0/incubate/man/lines.incubate_fit.Rd |only incubate-1.4.0/incubate/man/logLik.incubate_fit.Rd |only incubate-1.4.0/incubate/man/long2017.Rd |only incubate-1.4.0/incubate/man/measles_sailer.Rd |only incubate-1.4.0/incubate/man/minObjFunAlt.Rd |only incubate-1.4.0/incubate/man/near.Rd |only incubate-1.4.0/incubate/man/objFunFactory.Rd | 35 incubate-1.4.0/incubate/man/plot.incubate_fit.Rd |only incubate-1.4.0/incubate/man/power_diff.Rd | 132 incubate-1.4.0/incubate/man/prepResponseVar.Rd |only incubate-1.4.0/incubate/man/rockette74.Rd |only incubate-1.4.0/incubate/man/scalePars.Rd | 2 incubate-1.4.0/incubate/man/stankovic.Rd | 6 incubate-1.4.0/incubate/man/test_GOF.Rd | 24 incubate-1.4.0/incubate/man/test_diff.Rd | 69 incubate-1.4.0/incubate/man/transform.incubate_fit.Rd | 19 incubate-1.4.0/incubate/man/update.incubate_fit.Rd | 7 incubate-1.4.0/incubate/man/w1Fint.Rd |only incubate-1.4.0/incubate/man/w2Fint.Rd |only incubate-1.4.0/incubate/man/w3FFint.Rd |only incubate-1.4.0/incubate/src |only incubate-1.4.0/incubate/tests/spelling.R |only incubate-1.4.0/incubate/tests/testthat/test-delay.R | 1028 ++ incubate-1.4.0/incubate/tests/testthat/test-delay_estimation.R | 3296 ++++++-- incubate-1.4.0/incubate/tests/testthat/test-delay_test.R | 762 + incubate-1.4.0/incubate/tests/testthat/test-utils.R | 484 + incubate-1.4.0/incubate/vignettes |only 78 files changed, 13349 insertions(+), 3497 deletions(-)
Title: Assessment Tools for Regression Models with Discrete and
Semicontinuous Outcomes
Description: Provides assessment tools for regression models with discrete and semicontinuous outcomes proposed in Yang (2021) <doi:10.1080/10618600.2021.1910042>, Yang (2024) <doi:10.1080/10618600.2024.2303336>, Yang (2024) <doi:10.1093/biomtc/ujae007>, and Yang (2026) <doi:10.1002/cjs.70046>. It calculates the double probability integral transform (DPIT) residuals. It also constructs QQ plots of residuals the ordered curve for assessing mean structures, quasi-empirical distribution function for overall assessment, and a formal goodness-of-fit test.
Author: Lu Yang [aut],
Jeonghwan Lee [cre, aut]
Maintainer: Jeonghwan Lee <lee03938@umn.edu>
Diff between assessor versions 1.1.1 dated 2025-02-16 and 1.3.0 dated 2026-03-22
assessor-1.1.1/assessor/R/2pm.R |only assessor-1.1.1/assessor/R/Ordered_curve.R |only assessor-1.1.1/assessor/R/binom.R |only assessor-1.1.1/assessor/R/discrete_resid.R |only assessor-1.1.1/assessor/R/logistic.R |only assessor-1.1.1/assessor/R/nb.R |only assessor-1.1.1/assessor/R/pois.R |only assessor-1.1.1/assessor/R/qqplot.R |only assessor-1.1.1/assessor/R/semiconti.R |only assessor-1.1.1/assessor/R/zero_resid.R |only assessor-1.1.1/assessor/R/znb.R |only assessor-1.1.1/assessor/R/zpois.R |only assessor-1.1.1/assessor/man/qqresid.Rd |only assessor-1.1.1/assessor/man/resid_2pm.Rd |only assessor-1.1.1/assessor/man/resid_disc.Rd |only assessor-1.1.1/assessor/man/resid_quasi.Rd |only assessor-1.1.1/assessor/man/resid_semiconti.Rd |only assessor-1.1.1/assessor/man/resid_zeroinfl.Rd |only assessor-1.1.1/assessor/tests |only assessor-1.3.0/assessor/DESCRIPTION | 14 - assessor-1.3.0/assessor/MD5 | 68 ++++--- assessor-1.3.0/assessor/NAMESPACE | 71 ++++++- assessor-1.3.0/assessor/R/LGPIF.R |only assessor-1.3.0/assessor/R/bballHR.R | 3 assessor-1.3.0/assessor/R/dpit_2pm.R |only assessor-1.3.0/assessor/R/dpit_binomial.R |only assessor-1.3.0/assessor/R/dpit_glm.R |only assessor-1.3.0/assessor/R/dpit_helper.R |only assessor-1.3.0/assessor/R/dpit_main.R |only assessor-1.3.0/assessor/R/dpit_nb.R |only assessor-1.3.0/assessor/R/dpit_ordinal.R |only assessor-1.3.0/assessor/R/dpit_pois.R |only assessor-1.3.0/assessor/R/dpit_tobit.R |only assessor-1.3.0/assessor/R/dpit_tweedie.R |only assessor-1.3.0/assessor/R/dpit_zeroinfl.R |only assessor-1.3.0/assessor/R/dpit_znb.R |only assessor-1.3.0/assessor/R/dpit_zpois.R |only assessor-1.3.0/assessor/R/gof_calc.R |only assessor-1.3.0/assessor/R/gof_main.R |only assessor-1.3.0/assessor/R/ord_curve.R |only assessor-1.3.0/assessor/R/quasi.R | 171 ++++++++++++++---- assessor-1.3.0/assessor/R/quasi_func.R | 226 ++++++++++++++++++------- assessor-1.3.0/assessor/data/LGPIF.rda |only assessor-1.3.0/assessor/man/LGPIF.Rd |only assessor-1.3.0/assessor/man/bballHR.Rd | 3 assessor-1.3.0/assessor/man/dpit.Rd |only assessor-1.3.0/assessor/man/dpit_2pm.Rd |only assessor-1.3.0/assessor/man/dpit_bin.Rd |only assessor-1.3.0/assessor/man/dpit_nb.Rd |only assessor-1.3.0/assessor/man/dpit_ordi.Rd |only assessor-1.3.0/assessor/man/dpit_pois.Rd |only assessor-1.3.0/assessor/man/dpit_tobit.Rd |only assessor-1.3.0/assessor/man/dpit_tweedie.Rd |only assessor-1.3.0/assessor/man/dpit_znb.Rd |only assessor-1.3.0/assessor/man/dpit_zpois.Rd |only assessor-1.3.0/assessor/man/gof_disc.Rd |only assessor-1.3.0/assessor/man/ord_curve.Rd | 12 + assessor-1.3.0/assessor/man/quasi_plot.Rd |only 58 files changed, 422 insertions(+), 146 deletions(-)
Title: Just a Rather Bayesian Evidence Synthesis
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>
Diff between jarbes versions 2.4.2 dated 2026-02-11 and 2.5.0 dated 2026-03-22
jarbes-2.4.2/jarbes/man/print.bmeta.Rd |only jarbes-2.5.0/jarbes/ChangeLog | 21 + jarbes-2.5.0/jarbes/DESCRIPTION | 8 jarbes-2.5.0/jarbes/MD5 | 89 +++--- jarbes-2.5.0/jarbes/R/b3lmeta.R | 6 jarbes-2.5.0/jarbes/R/bcbnp.R | 6 jarbes-2.5.0/jarbes/R/bcbnp_0.R | 6 jarbes-2.5.0/jarbes/R/bcdpmeta.R | 7 jarbes-2.5.0/jarbes/R/bcmeta.R | 98 ++++--- jarbes-2.5.0/jarbes/R/bcmixmeta.R | 87 +++++- jarbes-2.5.0/jarbes/R/bmeta.R | 365 +++++++++++++++------------ jarbes-2.5.0/jarbes/R/data-documentation.R | 104 +++++++ jarbes-2.5.0/jarbes/R/diagnostic.bcmeta.R | 212 ++++++--------- jarbes-2.5.0/jarbes/R/diagnostic.bmeta.R | 91 ++++-- jarbes-2.5.0/jarbes/R/dpmeta.R | 18 + jarbes-2.5.0/jarbes/R/dpmetareg.R | 6 jarbes-2.5.0/jarbes/R/dpmmeta.R | 6 jarbes-2.5.0/jarbes/R/jarbes-package.R | 6 jarbes-2.5.0/jarbes/R/plot.bcmeta.R | 252 +++++++++++++----- jarbes-2.5.0/jarbes/R/plot.bcmixmeta.R | 341 +++++++++++++------------ jarbes-2.5.0/jarbes/R/plot.bmeta.R | 58 ++-- jarbes-2.5.0/jarbes/R/plot.dpmeta.R | 208 +++++++++++++-- jarbes-2.5.0/jarbes/R/plot_data.R | 277 +++++++++++++++----- jarbes-2.5.0/jarbes/R/summary.bcbnp.R | 4 jarbes-2.5.0/jarbes/R/summary.bcmeta.R | 12 jarbes-2.5.0/jarbes/R/summary.bcmixmeta.R | 4 jarbes-2.5.0/jarbes/R/summary.bmeta.R | 70 +++-- jarbes-2.5.0/jarbes/R/summary.dpmeta.R | 319 +++++++++++++++++++---- jarbes-2.5.0/jarbes/R/summary.hmr.R | 3 jarbes-2.5.0/jarbes/R/summary.metarisk.R | 3 jarbes-2.5.0/jarbes/data/ganzfeld.rda |only jarbes-2.5.0/jarbes/data/stemcells.rda |binary jarbes-2.5.0/jarbes/data/tyge_2011.rda |only jarbes-2.5.0/jarbes/man/ai_distress.Rd | 4 jarbes-2.5.0/jarbes/man/bcmeta.Rd | 33 +- jarbes-2.5.0/jarbes/man/bcmixmeta.Rd | 24 + jarbes-2.5.0/jarbes/man/bmeta.Rd | 56 +--- jarbes-2.5.0/jarbes/man/diagnostic.bcmeta.Rd | 9 jarbes-2.5.0/jarbes/man/ganzfeld.Rd |only jarbes-2.5.0/jarbes/man/plot.bcmeta.Rd | 45 ++- jarbes-2.5.0/jarbes/man/plot.bcmixmeta.Rd | 48 ++- jarbes-2.5.0/jarbes/man/plot.bmeta.Rd | 4 jarbes-2.5.0/jarbes/man/plot.dpmeta.Rd | 32 ++ jarbes-2.5.0/jarbes/man/plot_data.Rd | 47 ++- jarbes-2.5.0/jarbes/man/stemcells.Rd | 4 jarbes-2.5.0/jarbes/man/summary.bcmeta.Rd | 4 jarbes-2.5.0/jarbes/man/summary.dpmeta.Rd | 21 + jarbes-2.5.0/jarbes/man/tyge_2011.Rd |only 48 files changed, 2078 insertions(+), 940 deletions(-)
Title: Use 'QGIS' Processing Algorithms
Description: Provides seamless access to the 'QGIS'
(<https://qgis.org>) processing toolbox using the standalone
'qgis_process' command-line utility. Both native and third-party
(plugin) processing providers are supported. Beside referring data
sources from file, also common objects from 'sf', 'terra' and 'stars'
are supported. The native processing algorithms are documented by QGIS.org
(2024) <https://docs.qgis.org/latest/en/docs/user_manual/processing_algs/>.
Author: Dewey Dunnington [aut] ,
Floris Vanderhaeghe [aut, cre] ),
Jan Caha [aut] ,
Jannes Muenchow [aut] ,
Antony Barja [ctb] ,
Robin Lovelace [ctb] ,
Jakub Nowosad [ctb] ,
Research Institute for Nature and Forest [cph, fnd]
Maintainer: Floris Vanderhaeghe <floris.vanderhaeghe@inbo.be>
Diff between qgisprocess versions 0.4.1 dated 2024-10-06 and 0.4.2 dated 2026-03-22
DESCRIPTION | 46 +- MD5 | 94 ++--- NEWS.md | 4 R/compat-terra.R | 2 R/qgis-algorithms.R | 64 ++- R/qgis-arguments.R | 9 R/qgis-cache.R | 9 R/qgis-configure.R | 9 R/qgis-function.R | 42 +- R/qgis-plugins.R | 25 - R/qgis-result.R | 4 R/qgis-state.R | 36 -- R/qgisprocess-deprecated.R | 1 README.md | 26 - build/vignette.rds |binary inst/CITATION | 4 inst/doc/options.html | 2 inst/doc/qgis_arguments.R | 4 inst/doc/qgis_arguments.html | 7 inst/doc/qgis_expressions.R | 16 inst/doc/qgis_expressions.html | 9 inst/doc/qgisprocess.R | 66 +-- inst/doc/qgisprocess.html | 526 +++++++++++++------------------ man/as_qgis_argument.Rd | 2 man/qgis_algorithms.Rd | 2 man/qgis_as_raster.Rd | 2 man/qgis_as_terra.Rd | 2 man/qgis_clean_result.Rd | 2 man/qgis_enable_plugins.Rd | 2 man/qgis_extract_output.Rd | 2 man/qgis_function.Rd | 2 man/qgis_path.Rd | 2 man/qgis_result_status.Rd | 2 man/qgis_run.Rd | 2 man/qgis_run_algorithm.Rd | 2 man/qgis_run_algorithm_p.Rd | 2 man/qgis_search_algorithms.Rd | 6 man/qgis_show_help.Rd | 2 man/qgis_using_json_input.Rd | 2 man/st_as_sf.Rd | 2 man/st_as_stars.Rd | 2 tests/testthat/test-compat-terra.R | 13 tests/testthat/test-qgis-algorithms.R | 44 ++ tests/testthat/test-qgis-arguments.R | 1 tests/testthat/test-qgis-configure.R | 5 tests/testthat/test-qgis-plugins.R | 7 tests/testthat/test-qgis-run-algorithm.R | 3 tests/testthat/test-qgis-state.R | 9 48 files changed, 520 insertions(+), 607 deletions(-)
Title: Patient-Reported Outcome Data Analysis with Stan
Description: Estimation for blinding bias in randomized controlled trials with
a latent continuous outcome, a binary response depending on treatment and the
latent outcome, and a noisy surrogate subject to possibly response-dependent
measurement error. Implements EM estimators in R backed by compiled C routines
for models with and without the restriction delta0 = 0, and Bayesian Stan
wrappers for the same two models. Functions were added for latent outcome
models with differential measurement error.
Author: Bin Wang [aut, cre]
Maintainer: Bin Wang <bwang831@gmail.com>
Diff between prome versions 3.1.0.1 dated 2026-02-06 and 4.0.0.3 dated 2026-03-22
prome-3.1.0.1/prome/LICENSE |only prome-3.1.0.1/prome/R/bate.R |only prome-3.1.0.1/prome/R/blindingCPE.R |only prome-3.1.0.1/prome/R/blindingTEST.R |only prome-3.1.0.1/prome/R/crossover2x2.R |only prome-3.1.0.1/prome/R/means.R |only prome-3.1.0.1/prome/R/prome-package.R |only prome-3.1.0.1/prome/R/proportions.R |only prome-3.1.0.1/prome/R/ratio.R |only prome-3.1.0.1/prome/R/stanmodels.R |only prome-3.1.0.1/prome/R/zzz.R |only prome-3.1.0.1/prome/configure |only prome-3.1.0.1/prome/configure.win |only prome-3.1.0.1/prome/data |only prome-3.1.0.1/prome/inst/extdata/ctest.rda |only prome-3.1.0.1/prome/inst/extdata/dtest.rda |only prome-3.1.0.1/prome/inst/extdata/etest.rda |only prome-3.1.0.1/prome/inst/include |only prome-3.1.0.1/prome/inst/stan/ate.stan |only prome-3.1.0.1/prome/inst/stan/ate2m.stan |only prome-3.1.0.1/prome/inst/stan/ate4m.stan |only prome-3.1.0.1/prome/inst/stan/blindlogit.stan |only prome-3.1.0.1/prome/inst/stan/cross0.stan |only prome-3.1.0.1/prome/inst/stan/cross1.stan |only prome-3.1.0.1/prome/inst/stan/hm2mean.stan |only prome-3.1.0.1/prome/inst/stan/hmmean.stan |only prome-3.1.0.1/prome/inst/stan/include |only prome-3.1.0.1/prome/inst/stan/proportion.stan |only prome-3.1.0.1/prome/inst/stan/proportions.stan |only prome-3.1.0.1/prome/inst/stan/zate.stan |only prome-3.1.0.1/prome/man/bate.Rd |only prome-3.1.0.1/prome/man/blindingBI.Rd |only prome-3.1.0.1/prome/man/blindingcpe.Rd |only prome-3.1.0.1/prome/man/blindingdata.Rd |only prome-3.1.0.1/prome/man/blindingtest.Rd |only prome-3.1.0.1/prome/man/data100x3.Rd |only prome-3.1.0.1/prome/man/meanHM.Rd |only prome-3.1.0.1/prome/man/prome-package.Rd |only prome-3.1.0.1/prome/man/propHM.Rd |only prome-3.1.0.1/prome/man/xover.Rd |only prome-3.1.0.1/prome/src/Makevars |only prome-3.1.0.1/prome/src/Makevars.win |only prome-3.1.0.1/prome/src/RcppExports.cpp |only prome-3.1.0.1/prome/src/stanExports_lm.cc |only prome-3.1.0.1/prome/src/stanExports_lm.h |only prome-4.0.0.3/prome/DESCRIPTION | 38 +++++---- prome-4.0.0.3/prome/MD5 | 71 ++++------------- prome-4.0.0.3/prome/NAMESPACE | 31 +------ prome-4.0.0.3/prome/PORTING |only prome-4.0.0.3/prome/R/em.R |only prome-4.0.0.3/prome/R/rctme-package.R |only prome-4.0.0.3/prome/R/stan.R |only prome-4.0.0.3/prome/R/utils.R |only prome-4.0.0.3/prome/inst/extdata/rctme_sim_small.csv |only prome-4.0.0.3/prome/inst/stan/rctme_delta0_fixed.stan |only prome-4.0.0.3/prome/inst/stan/rctme_delta_free.stan |only prome-4.0.0.3/prome/man/blindingMLE.Rd |only prome-4.0.0.3/prome/man/dot-validate_inputs.Rd |only prome-4.0.0.3/prome/man/fit_rctme_em.Rd |only prome-4.0.0.3/prome/man/fit_rctme_em_delta0_fixed.Rd |only prome-4.0.0.3/prome/man/fit_rctme_stan.Rd |only prome-4.0.0.3/prome/man/fit_rctme_stan_delta0_fixed.Rd |only prome-4.0.0.3/prome/man/prome.Rd |only prome-4.0.0.3/prome/man/rctme_stan_file.Rd |only prome-4.0.0.3/prome/man/simulate_rctme_data.Rd |only prome-4.0.0.3/prome/src/rctme_em.c |only 66 files changed, 49 insertions(+), 91 deletions(-)
Title: Model Diagnostics for Accelerated Failure Time Models
Description: A collection of model checking methods for semiparametric
accelerated failure time (AFT) models under the rank-based approach. For the
(computational) efficiency, Gehan's weight is used. It provides functions to
verify whether the observed data fit the specific model assumptions such as
a functional form of each covariate, a link function, and an omnibus test.
The p-value offered in this package is based on the Kolmogorov-type supremum
test and the variance of the proposed test statistics is estimated through
the re-sampling method. Furthermore, a graphical technique to compare the
shape of the observed residual to a number of the approximated realizations
is provided. See the following references; A general model-checking
procedure for semiparametric accelerated failure time models, Statistics and
Computing, 34 (3), 117 <doi:10.1007/s11222-024-10431-7>; Diagnostics for
semiparametric accelerated failure time models with R package 'afttest',
arXiv, <doi:10.48550/arXiv.2511.098 [...truncated...]
Author: Woojung Bae [aut, cre] ,
Dongrak Choi [aut] ,
Jun Yan [aut] ,
Sangwook Kang [aut]
Maintainer: Woojung Bae <matt.woojung@gmail.com>
Diff between afttest versions 4.5.2.2 dated 2026-02-24 and 4.5.3 dated 2026-03-22
afttest-4.5.2.2/afttest/man/export_Surv.Rd |only afttest-4.5.3/afttest/DESCRIPTION | 10 afttest-4.5.3/afttest/MD5 | 26 + afttest-4.5.3/afttest/NAMESPACE | 1 afttest-4.5.3/afttest/R/afttest-package.R |only afttest-4.5.3/afttest/R/afttest.R | 263 ++++++++++--------- afttest-4.5.3/afttest/R/generic.R | 66 ++-- afttest-4.5.3/afttest/inst/examples/ex_afttest.R | 113 +++----- afttest-4.5.3/afttest/man/afttest-package.Rd |only afttest-4.5.3/afttest/man/afttest.Rd | 266 +++++--------------- afttest-4.5.3/afttest/man/afttest.aftgee.Rd |only afttest-4.5.3/afttest/man/afttest.aftsrr.Rd |only afttest-4.5.3/afttest/man/afttest.formula.Rd |only afttest-4.5.3/afttest/man/plot.afttest.Rd | 139 ++++------ afttest-4.5.3/afttest/man/print.afttest.Rd | 125 +++------ afttest-4.5.3/afttest/man/summary.afttest.Rd | 125 +++------ afttest-4.5.3/afttest/tests/testthat/test-afttest.R | 26 - 17 files changed, 485 insertions(+), 675 deletions(-)
Title: Sumerian Cuneiform Text Analysis
Description: Provides functions for converting transliterated Sumerian texts to sign names and cuneiform characters,
creating and querying dictionaries, analyzing the structure of
Sumerian words, and creating translations. Includes a built-in dictionary and supports both
forward lookup (Sumerian to English) and reverse lookup (English to
Sumerian).
Author: Robin Wellmann [aut, cre]
Maintainer: Robin Wellmann <ro.wellmann@gmail.com>
Diff between sumer versions 1.3.0 dated 2026-03-11 and 1.4.0 dated 2026-03-22
sumer-1.3.0/sumer/inst/extdata/enki_and_the_world_order.txt |only sumer-1.4.0/sumer/DESCRIPTION | 6 sumer-1.4.0/sumer/MD5 | 113 sumer-1.4.0/sumer/NAMESPACE | 4 sumer-1.4.0/sumer/R/add_brackets.R | 18 sumer-1.4.0/sumer/R/as.cuneiform.R | 75 sumer-1.4.0/sumer/R/beautify_translations.R | 38 sumer-1.4.0/sumer/R/compose_skeleton_entry.R | 12 sumer-1.4.0/sumer/R/eval_operator.R | 321 + sumer-1.4.0/sumer/R/fill_substr_info.R |only sumer-1.4.0/sumer/R/grammatical_structure.R | 51 sumer-1.4.0/sumer/R/guess_substr_info.R | 11 sumer-1.4.0/sumer/R/info.R | 228 - sumer-1.4.0/sumer/R/merge_dictionaries.R |only sumer-1.4.0/sumer/R/read_translated_text.R | 151 sumer-1.4.0/sumer/R/sign_grammar.R | 227 - sumer-1.4.0/sumer/R/skeleton.R | 161 sumer-1.4.0/sumer/R/split_sumerian.R | 26 sumer-1.4.0/sumer/R/translate.R | 2143 ++++++------ sumer-1.4.0/sumer/R/translate_line.R |only sumer-1.4.0/sumer/R/translation_context.R |only sumer-1.4.0/sumer/inst/doc/getting-started.R | 120 sumer-1.4.0/sumer/inst/doc/getting-started.Rmd | 457 +- sumer-1.4.0/sumer/inst/doc/getting-started.html | 1006 ++++- sumer-1.4.0/sumer/inst/doc/translating-texts.R | 86 sumer-1.4.0/sumer/inst/doc/translating-texts.Rmd | 321 - sumer-1.4.0/sumer/inst/doc/translating-texts.html | 802 ++-- sumer-1.4.0/sumer/inst/extdata/grammatical_structure.png |only sumer-1.4.0/sumer/inst/extdata/project |only sumer-1.4.0/sumer/man/add_brackets.Rd | 131 sumer-1.4.0/sumer/man/as.cuneiform.Rd | 146 sumer-1.4.0/sumer/man/compose_skeleton_entry.Rd | 8 sumer-1.4.0/sumer/man/fill_substr_info.Rd |only sumer-1.4.0/sumer/man/grammatical_structure.Rd | 21 sumer-1.4.0/sumer/man/guess_substr_info.Rd | 123 sumer-1.4.0/sumer/man/info.Rd | 198 - sumer-1.4.0/sumer/man/make_dictionary.Rd | 184 - sumer-1.4.0/sumer/man/mark_ngrams.Rd | 135 sumer-1.4.0/sumer/man/merge_dictionaries.Rd |only sumer-1.4.0/sumer/man/ngram_frequencies.Rd | 160 sumer-1.4.0/sumer/man/plot_sign_grammar.Rd | 3 sumer-1.4.0/sumer/man/read_translated_text.Rd | 214 - sumer-1.4.0/sumer/man/split_sumerian.Rd | 8 sumer-1.4.0/sumer/man/translate.Rd | 174 sumer-1.4.0/sumer/man/translate_line.Rd |only sumer-1.4.0/sumer/vignettes/getting-started.Rmd | 457 +- sumer-1.4.0/sumer/vignettes/translating-texts.Rmd | 321 - 47 files changed, 5157 insertions(+), 3503 deletions(-)
Title: Efficient and Publishing-Oriented Workflow for Psychological
Science
Description: The main goal of the psycho package is to provide tools for psychologists, neuropsychologists and neuroscientists,
to facilitate and speed up the time spent on data analysis. It aims at supporting best practices and tools to format the output
of statistical methods to directly paste them into a manuscript, ensuring statistical reporting standardization and conformity.
Author: Dominique Makowski [aut, cre, cph] ,
Hugo Najberg [ctb],
Viliam Simko [ctb],
Sasha Epskamp [rev]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between psycho versions 0.6.1 dated 2021-01-19 and 0.6.2 dated 2026-03-22
DESCRIPTION | 12 - MD5 | 52 +++--- R/crawford.test.R | 99 ++++++------ R/dprime.R | 69 +++++--- R/miscellaneous.R | 4 R/psychobject.R | 6 README.md | 4 build/vignette.rds |binary inst/doc/bayesian.html | 79 ++------- inst/doc/overview.R | 20 +- inst/doc/overview.Rmd | 2 inst/doc/overview.html | 311 ++++++++++++++++++++------------------ man/affective.Rd | 52 +++--- man/assess.Rd | 144 ++++++++--------- man/crawford.test.Rd | 144 ++++++++--------- man/crawford.test.freq.Rd | 58 +++---- man/crawford_dissociation.test.Rd | 90 +++++----- man/dprime.Rd | 152 +++++++++--------- man/emotion.Rd | 58 +++---- man/find_combinations.formula.Rd | 72 ++++---- man/find_matching_string.Rd | 58 +++---- man/find_season.Rd | 86 +++++----- man/is.standardized.Rd | 64 +++---- man/mellenbergh.test.Rd | 60 +++---- man/power_analysis.Rd | 126 +++++++-------- man/summary.psychobject.Rd | 42 ++--- vignettes/overview.Rmd | 2 27 files changed, 938 insertions(+), 928 deletions(-)
Title: Large Language Model (LLM) Tools for Psychological Text Analysis
Description: A collection of large language model (LLM) text analysis methods
designed with psychological data in mind. Currently, LLMing (aka "lemming")
includes a text anomaly detection method based on the angle-based subspace
approach described by Zhang, Lin, and Karim (2015) and a text generation method.
<doi:10.1016/j.ress.2015.05.025>.
Author: Lindley Slipetz [aut, cre],
Teague Henry [aut],
Siqi Sun [ctb]
Maintainer: Lindley Slipetz <ddj6tu@virginia.edu>
Diff between LLMing versions 1.1.0 dated 2026-01-08 and 1.2.0 dated 2026-03-22
DESCRIPTION | 12 - MD5 | 22 - NAMESPACE | 26 +- NEWS.md | 4 R/embed.R | 580 +++++++++++++++++++++++++++++++++++++++++++++++----- R/text_datagen.R | 32 +- R/textanomaly.R | 52 ++-- README.md | 53 ---- build/partial.rdb |binary man/embed.Rd | 100 ++++++-- man/text_datagen.Rd | 1 man/textanomaly.Rd | 5 12 files changed, 697 insertions(+), 190 deletions(-)
Title: Exploratory Data Analysis for the 'spatstat' Family
Description: Functionality for exploratory data analysis and nonparametric analysis of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Warick Brown [cph],
Achmad Choiruddin [ctb],
Ya-Mei Chang [ctb],
Jean-Francois Coeurjolly [ctb],
Lucia Cobo Sanchez [ctb, cph],
Ottma [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.explore versions 3.7-0 dated 2026-01-22 and 3.8-0 dated 2026-03-22
DESCRIPTION | 14 MD5 | 93 - NAMESPACE | 11 NEWS | 122 ++ R/Kmulti.inhom.R | 12 R/bw.pcf.R | 4 R/coxmap.R |only R/dclftest.R | 1 R/envelope.R | 2147 ++------------------------------------- R/envelope3.R | 131 +- R/envelopeClass.R |only R/envelopeEngine.R |only R/hopskel.R | 8 R/localKcross.R | 12 R/pcf.R | 597 ++++++---- R/pcfinhom.R | 429 ++----- R/pcfmulti.R | 283 +++-- R/pcfmulti.inhom.R | 287 +++-- R/quadrattest.R | 62 - R/resolve.lambda.R | 212 ++- build/partial.rdb |binary inst/doc/packagesizes.txt | 3 inst/info/packagesizes.txt | 3 man/Kcross.inhom.Rd | 62 - man/Kdot.inhom.Rd | 48 man/Kmulti.inhom.Rd | 130 +- man/Smooth.ppp.Rd | 4 man/Tstat.Rd | 3 man/bits.test.Rd | 32 man/coxmap.Rd |only man/dclf.test.Rd | 54 man/density.ppp.Rd | 6 man/dg.test.Rd | 32 man/envelope.Rd | 56 - man/envelope.pp3.Rd | 49 man/macros/defns.Rd | 5 man/markcorr.Rd | 7 man/markcrosscorr.Rd | 7 man/pcf.ppp.Rd | 83 + man/pcfcross.Rd | 84 - man/pcfcross.inhom.Rd | 71 - man/pcfdot.Rd | 84 - man/pcfdot.inhom.Rd | 77 - man/pcfinhom.Rd | 23 man/pcfmulti.Rd | 162 +- man/pcfmulti.inhom.Rd |only man/relrisk.ppp.Rd | 2 man/spatstat.explore-internal.Rd | 28 tests/testsGtoJ.R | 2 tests/testsK.R | 23 50 files changed, 2083 insertions(+), 3482 deletions(-)
More information about spatstat.explore at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-10 1.0.0
2026-03-08 0.9.0
Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages.
Generates random spatial patterns of points according to many simple rules (complete spatial randomness,
Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns
(thinning, random shift, jittering), simulated realisations of random point processes including
simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes
(using direct, Brix-Kendall, or hybrid algorithms),
log-Gaussian Cox processes, product shot noise cluster processes
and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm,
alternating Gibbs sampler, or coupling-from-the-past perfect simulation).
Also generates random spatial patterns of line segments,
random tessellations, and random images (random noise, random mosaics).
Excludes random generation on a linear network,
which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb, cph],
David Bryant [ctb, cph],
Ya-Mei Chang [ctb, cph],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Dominic Sc [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.random versions 3.4-4 dated 2026-01-21 and 3.4-5 dated 2026-03-22
DESCRIPTION | 10 +- MD5 | 44 +++++----- NAMESPACE | 18 ++-- NEWS | 59 ++++++++++++++ R/clusterprocess.R | 5 - R/kraever.R | 20 ++-- R/random.R | 149 ++--------------------------------- R/randomSSI.R |only R/randomfields.R | 2 R/randommk.R | 2 R/randompp3.R | 166 +++++++++++++++++++++++++++++++++++----- R/rmhmodel.R | 2 build/partial.rdb |binary inst/doc/packagesizes.txt | 1 inst/info/packagesizes.txt | 1 man/clusterprocess.Rd |only man/macros/defns.Rd | 5 - man/methods.clusterprocess.Rd |only man/rSSI.Rd | 39 ++++++--- man/rpoint3.Rd |only man/rpoispp3.Rd | 26 +++++- man/runifpoint3.Rd | 11 ++ man/spatstat.random-internal.Rd | 24 ++--- src/mhsnoop.c | 47 +++++++---- tests/Random.R | 32 +++++++ 25 files changed, 414 insertions(+), 249 deletions(-)
More information about spatstat.random at CRAN
Permanent link
Title: Minimal Interface of the C++ 'MixtComp' Library for Mixture
Models with Heterogeneous and (Partially) Missing Data
Description: Mixture Composer <https://github.com/modal-inria/MixtComp> is a project to build mixture models with
heterogeneous data sets and partially missing data management.
It includes models for real, categorical, counting, functional and ranking data.
This package contains the minimal R interface of the C++ 'MixtComp' library.
Author: Vincent Kubicki [aut],
Christophe Biernacki [aut],
Quentin Grimonprez [aut, cre],
Serge Iovleff [ctb],
Matthieu Marbac-Lourdelle [ctb],
Etienne Goffinet [ctb],
Patrick Wieschollek [ctb] ,
Tobias Wood [ctb] ,
Julien Vandaele [ctb]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Diff between RMixtCompIO versions 4.0.11 dated 2023-10-03 and 4.0.12 dated 2026-03-22
DESCRIPTION | 10 MD5 | 110 +++++----- NEWS | 13 - R/RMixtCompIO-package.R | 3 man/RMixtCompIO-package.Rd | 21 + src/Makevars | 2 src/lib/Composer/ClassDataStat.cpp | 2 src/lib/Composer/ClassDataStat.h | 4 src/lib/Composer/ClassSampler.cpp | 2 src/lib/Composer/ClassSampler.h | 6 src/lib/Data/AugmentedData.h | 11 - src/lib/Data/ConfIntDataStat.h | 2 src/lib/IO/IO.h | 3 src/lib/IO/MisValParser.h | 2 src/lib/LinAlg/ConstIterator.h | 6 src/lib/LinAlg/Iterator.h | 7 src/lib/Mixture/Functional/FuncCSComputation.cpp | 5 src/lib/Mixture/Functional/FunctionCS.h | 2 src/lib/Mixture/Functional/FunctionCSParser.cpp | 2 src/lib/Mixture/IMixture.h | 39 ++- src/lib/Mixture/Rank/RankISRIndividual.h | 8 src/lib/Mixture/Rank/RankISRParser.cpp | 6 src/lib/Mixture/Rank/RankISRStat.h | 4 src/lib/Mixture/Simple/Gaussian/Gaussian.cpp | 7 src/lib/Mixture/Simple/Gaussian/Gaussian.h | 7 src/lib/Mixture/Simple/Gaussian/GaussianLikelihood.cpp | 4 src/lib/Mixture/Simple/Gaussian/GaussianLikelihood.h | 4 src/lib/Mixture/Simple/Gaussian/GaussianSampler.h | 6 src/lib/Mixture/Simple/Multinomial/MultinomialDataStat.h | 2 src/lib/Mixture/Simple/Multinomial/MultinomialLikelihood.h | 4 src/lib/Mixture/Simple/Multinomial/MultinomialSampler.cpp | 2 src/lib/Mixture/Simple/Multinomial/MultinomialSampler.h | 6 src/lib/Mixture/Simple/NegativeBinomial/NegativeBinomial.h | 4 src/lib/Mixture/Simple/NegativeBinomial/NegativeBinomialLikelihood.cpp | 4 src/lib/Mixture/Simple/NegativeBinomial/NegativeBinomialLikelihood.h | 2 src/lib/Mixture/Simple/NegativeBinomial/NegativeBinomialSampler.h | 4 src/lib/Mixture/Simple/NegativeBinomial/NegativeBinomialStatistic.h | 4 src/lib/Mixture/Simple/Poisson/Poisson.cpp | 6 src/lib/Mixture/Simple/Poisson/Poisson.h | 4 src/lib/Mixture/Simple/Poisson/PoissonLikelihood.cpp | 4 src/lib/Mixture/Simple/Poisson/PoissonLikelihood.h | 4 src/lib/Mixture/Simple/Poisson/PoissonSampler.h | 4 src/lib/Mixture/Simple/Poisson/PoissonStatistic.h | 5 src/lib/Mixture/Simple/Weibull/Weibull.cpp | 6 src/lib/Mixture/Simple/Weibull/Weibull.h | 6 src/lib/Mixture/Simple/Weibull/WeibullStatistic.h | 3 src/lib/Run/Learn.h | 1 src/lib/Run/Predict.h | 3 src/lib/Statistic/ExponentialStatistic.h | 2 src/lib/Statistic/GaussianStatistic.h | 2 src/lib/Statistic/MultinomialStatistic.h | 7 src/lib/Statistic/UniformStatistic.h | 2 src/lib/Strategy/GibbsStrategy.h | 4 src/lib/Strategy/SEMStrategy.h | 5 src/lib/Various/Constants.h | 2 src/lib/Various/Various.cpp | 2 56 files changed, 239 insertions(+), 163 deletions(-)
Title: Download and Tidy Data from the Australian Prudential Regulation
Authority
Description: Download the latest data from the Australian Prudential Regulation
Authority <https://www.apra.gov.au/> and import it into R as a tidy data
frame.
Author: Jarrod van der Wal [aut, cre, cph]
Maintainer: Jarrod van der Wal <jarvanderwal@gmail.com>
Diff between readapra versions 0.2.1 dated 2025-02-22 and 0.2.2 dated 2026-03-22
DESCRIPTION | 13 +-- MD5 | 32 ++++---- NEWS.md | 4 + R/download_apra.R | 134 +++++++++++++++++++++--------------- R/read_adipops.R | 11 ++ R/read_madis.R | 8 ++ R/read_qadicp.R | 9 ++ R/readapra_package.R | 3 R/test_wrappers.R | 12 --- R/url_selector.R | 2 man/apra_stat_pubs.Rd | 44 +++++------ man/download_apra.Rd | 106 ++++++++++++++-------------- man/figures/README-plot_madis-1.png |binary man/read_apra.Rd | 110 ++++++++++++++--------------- man/read_apra_local.Rd | 98 +++++++++++++------------- man/readapra-package.Rd | 46 ++++++------ tests/testthat/test-download_apra.R | 61 ++-------------- 17 files changed, 351 insertions(+), 342 deletions(-)
Title: Analyzing and Visualizing Multidimensional Plant Traits
Description: Implements analytical methods for multidimensional plant traits, including Competitors-Stress tolerators-Ruderals strategy analysis using leaf traits, Leaf-Height-Seed strategy analysis, Niche Periodicity Table analysis, and Trait Network analysis. Provides functions for data analysis, visualization, and network metrics calculation. Methods are based on He et al. (2026) <doi:10.1002/ecog.08026>.
Author: Yan He [aut, cre],
Zhaogang Liu [aut],
Jiangshan Lai [aut],
Lingfeng Mao [aut]
Maintainer: Yan He <heyan@njfu.edu.cn>
Diff between MultiTraits versions 0.6.0 dated 2025-10-01 and 1.0.0 dated 2026-03-22
DESCRIPTION | 12 MD5 | 50 ++- NAMESPACE | 17 + NEWS.md | 14 R/LHS_strategy_scheme.R | 16 - R/NPT_discrete_plot.R | 4 R/PTMN.R |only R/PTMN_metrics.R |only R/PTMN_plot.R |only R/average_interlayer_clustering_coefficient.R |only R/average_interlayer_path_length.R |only R/cross_layer_groups.R |only R/crosslayer_module_assoc.R |only R/forest_invader_traits.R |only R/forest_invader_tree.R |only R/interlayer_closeness.R |only R/interlayer_clustering_coefficient.R |only R/interlayer_degree.R |only R/interlayer_edge_density.R |only README.md | 114 +++++-- build/partial.rdb |only data/forest_invader_traits.rda |only data/forest_invader_tree.rda |only inst/doc/MultiTraits_tutorial.R | 45 ++ inst/doc/MultiTraits_tutorial.Rmd | 99 ++++-- inst/doc/MultiTraits_tutorial.html | 355 ++++++++++++++++++----- man/PTMN.Rd |only man/PTMN_metrics.Rd |only man/PTMN_plot.Rd |only man/average_interlayer_clustering_coefficient.Rd |only man/average_interlayer_path_length.Rd |only man/cross_layer_groups.Rd |only man/crosslayer_module_assoc.Rd |only man/figures/6.jpg |only man/forest_invader_traits.Rd |only man/forest_invader_tree.Rd |only man/interlayer_closeness.Rd |only man/interlayer_clustering_coefficient.Rd |only man/interlayer_degree.Rd |only man/interlayer_edge_density.Rd |only vignettes/MultiTraits_tutorial.Rmd | 99 ++++-- 41 files changed, 661 insertions(+), 164 deletions(-)
Title: Cross-Platform File System Operations Based on 'libuv'
Description: A cross-platform interface to file system operations, built
on top of the 'libuv' C library.
Author: Jim Hester [aut],
Hadley Wickham [aut],
Gabor Csardi [aut],
Jeroen Ooms [cre],
libuv project contributors [cph] ,
Joyent, Inc. and other Node contributors [cph] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between fs versions 1.6.7 dated 2026-03-06 and 2.0.0 dated 2026-03-22
fs-1.6.7/fs/src/Makevars |only fs-1.6.7/fs/src/libuv-1.44.2 |only fs-2.0.0/fs/DESCRIPTION | 11 - fs-2.0.0/fs/MD5 | 350 +------------------------------------ fs-2.0.0/fs/NEWS.md | 8 fs-2.0.0/fs/build/vignette.rds |binary fs-2.0.0/fs/cleanup | 5 fs-2.0.0/fs/configure |only fs-2.0.0/fs/src/Makevars.in |only fs-2.0.0/fs/src/Makevars.vendor |only fs-2.0.0/fs/src/Makevars.win | 38 +--- fs-2.0.0/fs/src/windows/getmode.cc | 1 fs-2.0.0/fs/tools |only 13 files changed, 39 insertions(+), 374 deletions(-)
Title: High Performance Container Data Types
Description: Provides high performance container data types such
as queues, stacks, deques, dicts and ordered dicts. Benchmarks
<https://randy3k.github.io/collections/articles/benchmark.html> have
shown that these containers are asymptotically more efficient than
those offered by other packages.
Author: Randy Lai [aut, cre],
Andrea Mazzoleni [cph] ,
Yann Collet [cph]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between collections versions 0.3.11 dated 2026-02-05 and 0.3.12 dated 2026-03-22
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- src/dict.c | 2 +- src/utils.c | 2 +- src/utils.h | 9 +++++++++ 5 files changed, 19 insertions(+), 10 deletions(-)
Title: Fast Generators and Iterators for Permutations, Combinations,
Integer Partitions and Compositions
Description: Fast generators and iterators for permutations, combinations,
integer partitions and compositions. The arrangements are in
lexicographical order and generated iteratively in a memory efficient manner.
It has been demonstrated that 'arrangements' outperforms most existing
packages of similar kind. Benchmarks could be found at
<https://randy3k.github.io/arrangements/articles/benchmark.html>.
Author: Randy Lai [aut, cre]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between arrangements versions 1.1.9 dated 2020-09-13 and 1.1.10 dated 2026-03-22
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- README.md | 6 +++--- man/arrangements-package.Rd | 2 +- src/macros.h | 25 ++++++++++++++++--------- src/utils.c | 17 ++++++++++++++--- 6 files changed, 45 insertions(+), 27 deletions(-)
Title: Data Analysis Using Regression and Multilevel/Hierarchical
Models
Description: Functions to accompany A. Gelman and J. Hill, Data Analysis Using Regression and Multilevel/Hierarchical Models, Cambridge University Press, 2007.
Author: Andrew Gelman [aut],
Yu-Sung Su [aut, cre] ,
Masanao Yajima [ctb],
Jennifer Hill [ctb],
Maria Grazia Pittau [ctb],
Jouni Kerman [ctb],
Tian Zheng [ctb],
Vincent Dorie [ctb]
Maintainer: Yu-Sung Su <suyusung@tsinghua.edu.cn>
Diff between arm versions 1.15-1 dated 2026-03-15 and 1.15-2 dated 2026-03-22
CHANGELOG | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/rescale.R | 15 +++------------ 4 files changed, 14 insertions(+), 19 deletions(-)
Title: Transport Modeling: Network Processing, Route Enumeration, and
Traffic Assignment
Description: High-performance tools for transport modeling - network processing, route
enumeration, and traffic assignment in R. The package implements the Path-Sized Logit
model for traffic assignment - Ben-Akiva and Bierlaire (1999) <doi:10.1007/978-1-4615-5203-1_2> -
an efficient route enumeration algorithm, and provides powerful utility functions for (multimodal)
network generation, consolidation/contraction, and/or simplification. The user is expected to provide
a transport network (either a graph or collection of linestrings) and an origin-destination (OD)
matrix of trade/traffic flows. Maintained by transport consultants at CPCS (cpcs.ca).
Author: Sebastian Krantz [aut, cre],
Kamol Roy [ctb]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between flownet versions 0.2.1 dated 2026-02-22 and 0.2.2 dated 2026-03-22
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NAMESPACE | 2 +- NEWS.md | 6 ++++++ R/assignment.R | 7 ++----- R/utils.R | 4 ++-- inst/doc/introduction.html | 4 ++-- 7 files changed, 22 insertions(+), 19 deletions(-)
Title: Event/Timeline Prediction Model Based on Piecewise Exponential
Description: Efficient algorithm for estimating piecewise exponential hazard models for right-censored data, and is useful for reliable power calculation, study design, and event/timeline prediction for study monitoring.
Author: Tianchen Xu [aut, cre]
Maintainer: Tianchen Xu <zjph602xutianchen@gmail.com>
Diff between PwePred versions 1.0.0 dated 2025-04-10 and 1.1.0 dated 2026-03-21
DESCRIPTION | 8 +-- MD5 | 29 +++++------ NAMESPACE | 13 ++++ R/acc.R | 116 ++++++++++++++++++++++++++++++++++++++++++++ R/fitting.R | 3 - R/plot_fun.R | 16 +++--- R/sim_followup_fun.R | 1 inst/NEWS.Rd | 12 ++++ inst/doc/Theory_Notes.html | 9 +-- man/boot_fit_pwexpm_surv.Rd | 3 - man/coef.Rd |only man/fit_pwexpm_surv.Rd | 4 - man/plot_event.Rd | 11 +++- man/plot_km.Rd | 13 +++- man/predict.Rd | 6 +- man/sim_followup.Rd | 32 ++++++------ 16 files changed, 219 insertions(+), 57 deletions(-)
Title: A Blazing Fast Implementation of Random Forest
Description: Yet another implementation of the Random Forest method by Breiman (2001) <doi:10.1023/A:1010933404324>, written in Rust and tailored towards stability, correctness, efficiency and scalability on modern multi-core machines.
Handles both classification and regression, as well as provides permutation feature importance via a novel, highly optimised algorithm.
Author: Miron Bartosz Kursa [aut, cre] ,
Krzysztof Piotr Piwonski [aut]
Maintainer: Miron Bartosz Kursa <m@mbq.me>
Diff between fru versions 0.0.3 dated 2026-02-05 and 0.0.4 dated 2026-03-21
DESCRIPTION | 6 - MD5 | 29 +++-- R/a.R | 1 inst |only src/Makevars.win | 3 src/fru/src/classification.rs | 43 ++++++++ src/fru/src/classification/impurity.rs | 141 ++++++++++++++++------------ src/fru/src/lib.rs | 3 src/fru/src/regression.rs | 47 ++++++++- src/fru/src/regression/impurity.rs | 99 +++++++++++++------ src/fru/src/regression/votes.rs | 8 - src/fru/src/tools.rs |only src/fru/vendor.tar.xz |only src/wrapper.c | 2 src/xrf/Cargo.lock | 2 src/xrf/Cargo.toml | 2 src/xrf/src/forest/importance_aggregator.rs | 21 +++- 17 files changed, 285 insertions(+), 122 deletions(-)
Title: Genotype Calling with Uncertainty from Sequencing Data in
Polyploids and Diploids
Description: Read depth data from genotyping-by-sequencing (GBS) or restriction
site-associated DNA sequencing (RAD-seq) are imported and used to make Bayesian
probability estimates of genotypes in polyploids or diploids. The genotype
probabilities, posterior mean genotypes, or most probable genotypes can then
be exported for downstream analysis. 'polyRAD' is described by Clark et al.
(2019) <doi:10.1534/g3.118.200913>, and the Hind/He statistic for marker
filtering is described by Clark et al. (2022) <doi:10.1186/s12859-022-04635-9>.
A variant calling pipeline for highly duplicated genomes is also included and
is described by Clark et al. (2020, Version 1) <doi:10.1101/2020.01.11.902890>.
Author: Lindsay V. Clark [aut, cre] ,
U.S. National Science Foundation [fnd]
Maintainer: Lindsay V. Clark <Lindsay.Clark@seattlechildrens.org>
Diff between polyRAD versions 2.0.0 dated 2022-11-06 and 2.0.1 dated 2026-03-21
DESCRIPTION | 13 MD5 | 36 +- NEWS.md | 9 R/classes_methods.R | 9 R/data_export.R | 2 R/data_import.R | 45 ++- R/overdispersion.R | 3 build/partial.rdb |binary build/vignette.rds |binary inst/doc/isolocus_sorting.R | 42 +- inst/doc/isolocus_sorting.html | 101 +++---- inst/doc/polyRADtutorial.R | 206 +++++++------- inst/doc/polyRADtutorial.Rmd | 2 inst/doc/polyRADtutorial.html | 577 ++++++++++++++++++++--------------------- inst/python/process_isoloci.py | 3 man/LocusInfo.Rd | 2 man/VCF2RADdata.Rd | 3 man/readStacks.Rd | 7 vignettes/polyRADtutorial.Rmd | 2 19 files changed, 549 insertions(+), 513 deletions(-)
Title: Inference for Maximin Effects in High-Dimensional Settings
Description: Implementation of the sampling and aggregation method for the covariate shift maximin effect, which was proposed in <doi:10.48550/arXiv.2011.07568>. It constructs the confidence interval for any linear combination of the high-dimensional maximin effect.
Author: Zhenyu Wang [aut, cre],
Zijian Guo [aut]
Maintainer: Zhenyu Wang <zw425@stat.rutgers.edu>
Diff between MaximinInfer versions 2.0.0 dated 2023-04-12 and 2.1.0 dated 2026-03-21
DESCRIPTION | 18 ++++++++++-------- MD5 | 4 ++-- R/utils.R | 9 ++++----- 3 files changed, 16 insertions(+), 15 deletions(-)
Title: R Bindings for 'ZeroMQ'
Description: Interface to the 'ZeroMQ' lightweight messaging kernel (see <https://zeromq.org/> for more information).
Author: Whit Armstrong [aut],
Michael Schubert [ctb],
Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between rzmq versions 0.9.15 dated 2024-12-16 and 0.9.16 dated 2026-03-21
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- src/interface.cpp | 21 --------------------- 3 files changed, 6 insertions(+), 28 deletions(-)
Title: Visualization and Analysis of Nominal Variable Distributions
Description: Provides tools for visualizing and analyzing the shape of discrete nominal frequency distributions. The package introduces centered frequency plots, in which nominal categories are ordered from the most frequent category at the center toward less frequent categories on both sides, facilitating the detection of distributional patterns such as uniformity, dominance, symmetry, skewness, and long-tail behavior. In addition, the package supports Pareto charts for the study of dominance and cumulative frequency structure in nominal data. The package is designed for exploratory data analysis and statistical teaching, offering visualizations that emphasize distributional form rather than arbitrary category ordering.
Author: Norberto Asensio [aut, cre]
Maintainer: Norberto Asensio <norberto.asensio@ehu.eus>
Diff between nomiShape versions 1.0.1 dated 2026-02-24 and 1.0.2 dated 2026-03-21
nomiShape-1.0.1/nomiShape/R/sysdata.rda |only nomiShape-1.0.2/nomiShape/DESCRIPTION | 6 nomiShape-1.0.2/nomiShape/MD5 | 37 - nomiShape-1.0.2/nomiShape/NAMESPACE | 7 nomiShape-1.0.2/nomiShape/NEWS.md | 13 nomiShape-1.0.2/nomiShape/R/data.R | 45 + nomiShape-1.0.2/nomiShape/R/rare_plot.R |only nomiShape-1.0.2/nomiShape/R/zipf_rank_plot.R |only nomiShape-1.0.2/nomiShape/build/vignette.rds |binary nomiShape-1.0.2/nomiShape/data/alice.rda |only nomiShape-1.0.2/nomiShape/data/kafka.rda |only nomiShape-1.0.2/nomiShape/inst/doc/nominal_distribution_shapes.R | 75 +- nomiShape-1.0.2/nomiShape/inst/doc/nominal_distribution_shapes.Rmd | 128 ++- nomiShape-1.0.2/nomiShape/inst/doc/nominal_distribution_shapes.html | 326 ++++++---- nomiShape-1.0.2/nomiShape/inst/doc/rare_plot.R |only nomiShape-1.0.2/nomiShape/inst/doc/rare_plot.Rmd |only nomiShape-1.0.2/nomiShape/inst/doc/rare_plot.html |only nomiShape-1.0.2/nomiShape/inst/doc/zipf_rank_plot.R |only nomiShape-1.0.2/nomiShape/inst/doc/zipf_rank_plot.Rmd |only nomiShape-1.0.2/nomiShape/inst/doc/zipf_rank_plot.html |only nomiShape-1.0.2/nomiShape/man/alice.Rd |only nomiShape-1.0.2/nomiShape/man/kafka.Rd |only nomiShape-1.0.2/nomiShape/man/rare_plot.Rd |only nomiShape-1.0.2/nomiShape/man/ufo.Rd | 22 nomiShape-1.0.2/nomiShape/man/zipf_rank_plot.Rd |only nomiShape-1.0.2/nomiShape/vignettes/nominal_distribution_shapes.Rmd | 128 ++- nomiShape-1.0.2/nomiShape/vignettes/rare_plot.Rmd |only nomiShape-1.0.2/nomiShape/vignettes/zipf_rank_plot.Rmd |only 28 files changed, 548 insertions(+), 239 deletions(-)
Title: Vector Helpers
Description: Defines new notions of prototype and size that are used to
provide tools for consistent and well-founded type-coercion and
size-recycling, and are in turn connected to ideas of type- and
size-stability useful for analysing function interfaces.
Author: Hadley Wickham [aut],
Lionel Henry [aut],
Davis Vaughan [aut, cre],
data.table team [cph] and
their contribution to R's order),
Posit Software, PBC [cph, fnd]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between vctrs versions 0.7.1 dated 2026-01-23 and 0.7.2 dated 2026-03-21
vctrs-0.7.1/vctrs/R/translate.R |only vctrs-0.7.1/vctrs/src/translate.c |only vctrs-0.7.1/vctrs/src/translate.h |only vctrs-0.7.1/vctrs/tests/testthat/test-translate.R |only vctrs-0.7.2/vctrs/DESCRIPTION | 6 vctrs-0.7.2/vctrs/MD5 | 177 +++---- vctrs-0.7.2/vctrs/NEWS.md | 36 + vctrs-0.7.2/vctrs/R/encoding.R |only vctrs-0.7.2/vctrs/R/equal.R | 8 vctrs-0.7.2/vctrs/inst/doc/stability.html | 4 vctrs-0.7.2/vctrs/inst/doc/type-size.html | 9 vctrs-0.7.2/vctrs/man/vec_equal.Rd | 5 vctrs-0.7.2/vctrs/src/altrep.c | 1 vctrs-0.7.2/vctrs/src/arg-counter.c | 6 vctrs-0.7.2/vctrs/src/assert.c | 16 vctrs-0.7.2/vctrs/src/bind.c | 19 vctrs-0.7.2/vctrs/src/cast-bare.c | 1 vctrs-0.7.2/vctrs/src/cast.c | 21 vctrs-0.7.2/vctrs/src/compare.c | 4 vctrs-0.7.2/vctrs/src/compare.h | 2 vctrs-0.7.2/vctrs/src/complete.c | 1 vctrs-0.7.2/vctrs/src/decl/encoding-decl.h |only vctrs-0.7.2/vctrs/src/decl/equal-decl.h |only vctrs-0.7.2/vctrs/src/decl/hash-decl.h | 3 vctrs-0.7.2/vctrs/src/decl/type-data-frame-decl.h | 3 vctrs-0.7.2/vctrs/src/dictionary.c | 20 vctrs-0.7.2/vctrs/src/dim.h | 2 vctrs-0.7.2/vctrs/src/encoding.c |only vctrs-0.7.2/vctrs/src/encoding.h |only vctrs-0.7.2/vctrs/src/equal.c | 364 +++++++++------- vctrs-0.7.2/vctrs/src/equal.h | 10 vctrs-0.7.2/vctrs/src/globals.h | 1 vctrs-0.7.2/vctrs/src/group.c | 6 vctrs-0.7.2/vctrs/src/hash.c | 23 - vctrs-0.7.2/vctrs/src/if-else.c | 6 vctrs-0.7.2/vctrs/src/init.c | 12 vctrs-0.7.2/vctrs/src/interval.c | 16 vctrs-0.7.2/vctrs/src/lazy.h | 1 vctrs-0.7.2/vctrs/src/list-combine.c | 10 vctrs-0.7.2/vctrs/src/match-compare.h | 1 vctrs-0.7.2/vctrs/src/match-joint.c | 4 vctrs-0.7.2/vctrs/src/names.c | 18 vctrs-0.7.2/vctrs/src/names.h | 2 vctrs-0.7.2/vctrs/src/order-collate.h | 4 vctrs-0.7.2/vctrs/src/order.c | 8 vctrs-0.7.2/vctrs/src/order.h | 1 vctrs-0.7.2/vctrs/src/proxy-restore.c | 173 ++++--- vctrs-0.7.2/vctrs/src/ptype.c | 6 vctrs-0.7.2/vctrs/src/ptype2-dispatch.c | 1 vctrs-0.7.2/vctrs/src/rep.h | 2 vctrs-0.7.2/vctrs/src/rlang/attrib.c | 125 ----- vctrs-0.7.2/vctrs/src/rlang/attrib.h | 56 +- vctrs-0.7.2/vctrs/src/rlang/cnd.c | 2 vctrs-0.7.2/vctrs/src/rlang/debug.c | 2 vctrs-0.7.2/vctrs/src/rlang/decl/env-binding-decl.h |only vctrs-0.7.2/vctrs/src/rlang/decl/env-decl.h | 7 vctrs-0.7.2/vctrs/src/rlang/decl/walk-decl.h | 2 vctrs-0.7.2/vctrs/src/rlang/dyn-array.c | 8 vctrs-0.7.2/vctrs/src/rlang/env-binding.c | 242 +++++++++- vctrs-0.7.2/vctrs/src/rlang/env-binding.h | 50 +- vctrs-0.7.2/vctrs/src/rlang/env.c | 112 ++-- vctrs-0.7.2/vctrs/src/rlang/env.h | 81 --- vctrs-0.7.2/vctrs/src/rlang/eval.c | 48 +- vctrs-0.7.2/vctrs/src/rlang/formula.c | 6 vctrs-0.7.2/vctrs/src/rlang/obj.c | 5 vctrs-0.7.2/vctrs/src/rlang/obj.h | 8 vctrs-0.7.2/vctrs/src/rlang/rlang-types.h | 71 +++ vctrs-0.7.2/vctrs/src/rlang/walk.c | 28 - vctrs-0.7.2/vctrs/src/runs.c | 2 vctrs-0.7.2/vctrs/src/set.c | 16 vctrs-0.7.2/vctrs/src/shape.c | 35 + vctrs-0.7.2/vctrs/src/size-common.c | 9 vctrs-0.7.2/vctrs/src/size.c | 26 - vctrs-0.7.2/vctrs/src/slice-assign.c | 4 vctrs-0.7.2/vctrs/src/slice-assign.h | 1 vctrs-0.7.2/vctrs/src/slice-chop.c | 8 vctrs-0.7.2/vctrs/src/slice.c | 25 - vctrs-0.7.2/vctrs/src/subscript-loc.h | 1 vctrs-0.7.2/vctrs/src/type-complex.h | 3 vctrs-0.7.2/vctrs/src/type-data-frame.c | 115 ++--- vctrs-0.7.2/vctrs/src/type-date-time.c | 8 vctrs-0.7.2/vctrs/src/type-factor.c | 4 vctrs-0.7.2/vctrs/src/type-factor.h | 1 vctrs-0.7.2/vctrs/src/type-tibble.h | 1 vctrs-0.7.2/vctrs/src/utils.c | 52 +- vctrs-0.7.2/vctrs/src/utils.h | 3 vctrs-0.7.2/vctrs/src/vctrs-core.h | 8 vctrs-0.7.2/vctrs/src/vctrs.h | 104 ++-- vctrs-0.7.2/vctrs/src/version.c | 2 vctrs-0.7.2/vctrs/tests/testthat/helper-encoding.R | 8 vctrs-0.7.2/vctrs/tests/testthat/test-encoding.R |only vctrs-0.7.2/vctrs/tests/testthat/test-equal.R | 81 +++ vctrs-0.7.2/vctrs/tests/testthat/test-hash.R | 21 vctrs-0.7.2/vctrs/tests/testthat/test-proxy-restore.R | 154 ++++++ vctrs-0.7.2/vctrs/tests/testthat/test-type-data-frame.R | 10 95 files changed, 1577 insertions(+), 991 deletions(-)
Title: Descriptive, Reliability, and Inferential Tables for
Psychometric Scales and Demographic Data
Description: Provides functions to format and summarise already computed outputs from commonly used statistical and psychometric functions into compact, single-row tables and simple graphs, with utilities to export results to CSV, Word, and Excel formats. The package does not implement new statistical methods or estimation procedures; instead, it organises and presents results obtained from existing functions such as psych::describe(), psych::alpha(), stats::t.test(), and gtsummary::tbl_summary() to streamline reporting workflows in clinical and psychological research.
Author: Darshankumar Dharaiya [aut, cre]
Maintainer: Darshankumar Dharaiya <dharaiya.darshan@gmail.com>
Diff between scaledescr versions 0.2.2 dated 2026-03-13 and 0.2.3 dated 2026-03-21
DESCRIPTION | 6 - MD5 | 32 +++++--- NAMESPACE | 6 + NEWS.md | 14 ++- R/compute_ICC.R |only R/make_alpha_table.R | 5 + R/make_alphanumeric_conversion.R |only R/make_chisq_test_table.R | 123 ++++++++++++++++++++++---------- R/make_independent_t_test_table.R | 2 R/make_one_sample_t_test_table.R |only R/make_reverse_score.R |only R/make_scale_description_table.R | 134 +++++++++++++++++------------------ R/make_scale_total.R |only inst/CITATION | 4 - man/compute_ICC.Rd |only man/make_alphanumeric_conversion.Rd |only man/make_chisq_test_table.Rd | 11 +- man/make_independent_t_test_table.Rd | 2 man/make_one_sample_t_test_table.Rd |only man/make_reverse_score.Rd |only man/make_scale_description_table.Rd | 42 ++++------ man/make_scale_total.Rd |only 22 files changed, 225 insertions(+), 156 deletions(-)
Title: Regression with Functional Data
Description: Methods for regression for functional
data, including function-on-scalar, scalar-on-function, and
function-on-function regression. Some of the functions are applicable to
image data.
Author: Jeff Goldsmith [aut],
Fabian Scheipl [aut],
Lei Huang [aut],
Julia Wrobel [aut, cre, cph],
Chongzhi Di [aut],
Jonathan Gellar [aut],
Jaroslaw Harezlak [aut],
Mathew W. McLean [aut],
Bruce Swihart [aut],
Luo Xiao [aut],
Ciprian Crainiceanu [aut],
Phil [...truncated...]
Maintainer: Julia Wrobel <julia.wrobel@emory.edu>
Diff between refund versions 0.1-38 dated 2025-11-17 and 0.1-40 dated 2026-03-21
DESCRIPTION | 45 MD5 | 198 ++ NAMESPACE | 12 R/GLS_CS.R | 169 +- R/Gibbs_CS_FPCA.R | 297 ++-- R/Gibbs_CS_Wish.R | 147 +- R/Gibbs_Mult_FPCA.R | 344 ++--- R/Gibbs_Mult_Wish.R | 226 ++- R/OLS_CS.R | 117 + R/VB_CS_FPCA.R | 424 ++++-- R/VB_CS_Wish.R | 272 ++- R/VB_Mult_FPCA.R | 366 +++-- R/VB_Mult_Wish.R | 314 +++- R/bayes_fosr.R | 106 - R/fosr.R | 584 ++++---- R/peer.R | 102 - R/pffr-core.R |only R/pffr-ff.R | 261 +-- R/pffr-ffpc.R | 310 ++-- R/pffr-formula.R |only R/pffr-methods.R | 1693 ++++++++++++++++++------ R/pffr-robust.R | 1811 +++++++++++++------------- R/pffr-sff.R | 160 +- R/pffr-simulate.R |only R/pffr-utilities.R | 2328 +++++++++++++++++++++++++++++----- R/pffr.R | 851 ++---------- R/re.R | 19 build |only man/apply_sandwich_correction.Rd |only man/assemble_cluster_sandwich.Rd |only man/bayes_fosr.Rd | 24 man/build_cl2_working_gaulss.Rd |only man/build_cl2_working_standard.Rd |only man/build_cluster_id.Rd |only man/build_coef_axes.Rd |only man/build_coef_linear_map.Rd |only man/build_limits_function.Rd |only man/build_mgcv_data.Rd |only man/build_mgcv_formula.Rd |only man/center_concurrent_covariate.Rd |only man/center_ff_beta.Rd |only man/center_functional_covariate.Rd |only man/center_smooth_effect.Rd |only man/coef.pffr.Rd | 62 man/coef_get_predictions.Rd |only man/coef_make_data_grid.Rd |only man/coef_safe_range.Rd |only man/coefboot.pffr.Rd | 19 man/compute_ci_critical.Rd |only man/compute_coef_se.Rd |only man/compute_concurrent_effect.Rd |only man/compute_const_effect.Rd |only man/compute_ff_effect.Rd |only man/compute_gaulss_scores.Rd |only man/compute_integration_weights.Rd |only man/compute_integration_windows.Rd |only man/compute_intercept.Rd |only man/compute_linear_effect.Rd |only man/compute_smooth_effect.Rd |only man/concurrent_presets.Rd |only man/const_presets.Rd |only man/create_shortlabels.Rd |only man/draw_coef_perturbations.Rd |only man/ensure_grid_axis_attributes.Rd |only man/eval_bs.Rd |only man/expand_windows_to_maxwidth.Rd |only man/ff_presets.Rd |only man/finalize_grid_by_var.Rd |only man/fosr.Rd | 2 man/gam_sandwich_cluster.Rd |only man/gam_sandwich_cluster_cl2.Rd |only man/gen_random_1d.Rd |only man/gen_random_2d.Rd |only man/generate_functional_covariate.Rd |only man/generate_scalar_covariate.Rd |only man/get_default_effect.Rd |only man/get_smooth_label_from_term.Rd |only man/gibbs_cs_fpca.Rd | 13 man/gibbs_cs_wish.Rd | 7 man/gibbs_mult_fpca.Rd | 14 man/gibbs_mult_wish.Rd | 7 man/gls_cs.Rd | 17 man/intercept_presets.Rd |only man/linear_presets.Rd |only man/make_bs_spec.Rd |only man/make_random_2d_fn.Rd |only man/make_random_truth_generator.Rd |only man/ols_cs.Rd | 16 man/parse_pffr_formula.Rd |only man/parse_pffr_model_formula.Rd |only man/parse_single_term.Rd |only man/peer.Rd | 4 man/pffr-core.Rd |only man/pffr-formula.Rd |only man/pffr.Rd | 46 man/pffr.check.Rd | 11 man/pffrGLS.Rd | 59 man/pffrSim.Rd | 93 - man/pffrSim_formula.Rd |only man/pffrSim_legacy.Rd |only man/pffr_attach_metadata.Rd |only man/pffr_build_ar_start.Rd |only man/pffr_build_call.Rd |only man/pffr_build_label_map.Rd |only man/pffr_build_metadata.Rd |only man/pffr_check.Rd |only man/pffr_coefboot.Rd |only man/pffr_configure_algorithm.Rd |only man/pffr_expand_variables.Rd |only man/pffr_get_dimensions.Rd |only man/pffr_gls.Rd |only man/pffr_prepare.Rd |only man/pffr_process_ff_terms.Rd |only man/pffr_process_ffpc_terms.Rd |only man/pffr_process_pcre_terms.Rd |only man/pffr_qq.Rd |only man/pffr_setup_response.Rd |only man/pffr_setup_yind_dense.Rd |only man/pffr_setup_yind_sparse.Rd |only man/pffr_simulate.Rd |only man/pffr_validate_dots.Rd |only man/pffr_validate_ydata.Rd |only man/qq.pffr.Rd | 11 man/re.Rd | 9 man/residuals.pffr.Rd | 17 man/resolve_effect.Rd |only man/resolve_eval_grid_for_term.Rd |only man/sample_pspline_coef_1d.Rd |only man/sample_pspline_coef_2d.Rd |only man/scenario_to_formula.Rd |only man/sff.Rd | 4 man/shift_and_shorten_matrix.Rd |only man/simplify_term_label.Rd |only man/simpson_weights.Rd |only man/simulate_from_family.Rd |only man/smooth_presets.Rd |only man/sym_inv_sqrt.Rd |only man/transform_c_term.Rd |only man/transform_intercept_term.Rd |only man/transform_par_term.Rd |only man/transform_smooth_term.Rd |only man/validate_and_expand_xind.Rd |only man/vb_cs_fpca.Rd | 14 man/vb_cs_wish.Rd | 19 man/vb_mult_fpca.Rd | 15 man/vb_mult_wish.Rd | 13 tests/testthat/Rplots.pdf |only tests/testthat/helper-pffr-fixtures.R |only tests/testthat/helper-pffrSim.R |only tests/testthat/test-pffr-ar.R |only tests/testthat/test-pffr.R | 2065 ++++++++++++++++++++++++++++-- tests/testthat/test-pffrSim.R |only 152 files changed, 9462 insertions(+), 4255 deletions(-)
Title: Protein Quantification in Mass Spectrometry-Based Proteomics
Description: An implementation of the MaxLFQ algorithm by
Cox et al. (2014) <doi:10.1074/mcp.M113.031591> in a comprehensive
pipeline for processing proteomics data in data-independent acquisition mode
(Pham et al. 2020 <doi:10.1093/bioinformatics/btz961>;
Pham et al. 2026 <doi:10.1021/acs.jproteome.5c01038>).
It offers additional options for protein quantification using
the N most intense fragment ions, using all fragment ions,
the median polish algorithm by Tukey (1977, ISBN:0201076160),
and a robust linear model. In general, the tool can be used to integrate
multiple proportional observations into a single quantitative value.
Author: Thang Pham [aut, cre, cph, ctb] ,
Alex Henneman [ctb]
Maintainer: Thang Pham <t.pham@amsterdamumc.nl>
Diff between iq versions 2.0.0 dated 2025-10-06 and 2.0.1 dated 2026-03-21
DESCRIPTION | 15 ++++++++------- LICENSE | 2 +- MD5 | 16 ++++++++-------- R/iq-fast.R | 2 +- R/iq.R | 2 ++ build/vignette.rds |binary inst/CITATION | 33 ++++++++++++++++++++++----------- inst/doc/iq-fast.html | 5 +++-- inst/doc/iq.html | 5 +++-- 9 files changed, 48 insertions(+), 32 deletions(-)
Title: Download and Process GIMMS NDVI3g Data
Description: This is a set of functions to retrieve information about GIMMS
NDVI3g files currently available online; download (and re-arrange, in the
case of NDVI3g.v0) the half-monthly data sets; import downloaded files from
ENVI binary (NDVI3g.v0) or NetCDF format (NDVI3g.v1) directly into R based
on the widespread 'raster' package; conduct quality control; and generate
monthly composites (e.g., maximum values) from the half-monthly input data.
As a special gimmick, a method is included to conveniently apply the
Mann-Kendall trend test upon 'Raster*' images, optionally featuring
trend-free pre-whitening to account for lag-1 autocorrelation.
Author: Florian Detsch [cre, aut]
Maintainer: Florian Detsch <fdetsch@web.de>
Diff between gimms versions 1.2.4 dated 2025-11-30 and 1.2.5 dated 2026-03-21
DESCRIPTION | 10 LICENSE | 4 MD5 | 69 +-- NAMESPACE | 42 +- NEWS | 206 +++++----- NEWS.md | 206 +++++----- R/downloadGimms.R | 510 ++++++++++++------------- R/gimms-package.R | 110 ++--- R/gimmsControls.R | 600 ++++++++++++++--------------- R/monthlyComposite.R | 288 +++++++------- R/monthlyIndices.R | 182 ++++----- R/oldNaming.R | 164 ++++---- R/qualityControl.R | 314 +++++++-------- R/rasterizeGimms.R | 496 ++++++++++++------------ R/rearrangeFiles.R | 132 +++--- R/significantTau.R | 424 ++++++++++----------- R/updateInventory.R | 722 ++++++++++++++++++------------------ README.md | 254 ++++++------ build/partial.rdb |binary inst/extdata/poles.html | 20 inst/tinytest/test-getPolesFTP.R | 178 ++++---- inst/tinytest/test-significantTau.R |only inst/tinytest/tests.R | 206 +++++----- man/bale3g.v1.Rd | 32 - man/downloadGimms.Rd | 266 ++++++------- man/gimms-package.Rd | 84 ++-- man/kili3g.v0.Rd | 32 - man/monthlyComposite.Rd | 156 +++---- man/monthlyIndices.Rd | 116 ++--- man/oldNaming.Rd | 98 ++-- man/qualityControl.Rd | 118 ++--- man/rasterizeGimms.Rd | 164 ++++---- man/rearrangeFiles.Rd | 82 ++-- man/significantTau.Rd | 244 ++++++------ man/updateInventory.Rd | 132 +++--- tests/tinytest.R | 10 36 files changed, 3338 insertions(+), 3333 deletions(-)
Title: General Network (HTTP/FTP/...) Client Interface for R
Description: A wrapper for 'libcurl' <https://curl.se/libcurl/>
Provides functions to allow one to compose general HTTP requests
and provides convenient functions to fetch URIs, get & post
forms, etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP/FTP/...
connection and the form of the request while providing a
higher-level interface than is available just using R socket
connections. Additionally, the underlying implementation is
robust and extensive, supporting FTP/FTPS/TFTP (uploads and
downloads), SSL/HTTPS, telnet, dict, ldap, and also supports
cookies, redirects, authentication, etc.
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between RCurl versions 1.98-1.17 dated 2025-03-22 and 1.98-1.18 dated 2026-03-21
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- src/curl.c | 6 +++++- 3 files changed, 12 insertions(+), 7 deletions(-)
Title: Sparse and Dense Matrix Classes and Methods
Description: A rich hierarchy of sparse and dense matrix classes,
including general, symmetric, triangular, and diagonal matrices
with numeric, logical, or pattern entries. Efficient methods for
operating on such matrices, often wrapping the 'BLAS', 'LAPACK',
and 'SuiteSparse' libraries.
Author: Douglas Bates [aut] ,
Martin Maechler [aut, cre] ,
Mikael Jagan [aut] ,
Timothy A. Davis [ctb] ,
pattern="License", full.names=TRUE, recursive=TRUE)),
George Karypis [ctb] ,
Jason Riedy [ctb] and onenormest, Copyright: Regents of the
University of C [...truncated...]
Maintainer: Martin Maechler <mmaechler+Matrix@gmail.com>
Diff between Matrix versions 1.7-4 dated 2025-08-28 and 1.7-5 dated 2026-03-21
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 9 +++++++++ inst/doc/Comparisons.pdf |binary inst/doc/Design-issues.pdf |binary inst/doc/Intro2Matrix.pdf |binary inst/doc/Introduction.pdf |binary inst/doc/sparseModels.pdf |binary inst/include/Matrix/version.h | 4 ++-- src/cholmod-common.c | 5 +++++ src/version.h | 4 ++-- 13 files changed, 34 insertions(+), 20 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-24 1.0.2
2020-04-14 1.0.1
2019-12-18 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-22 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-22 1.2.0
2019-06-12 1.1.0
2019-01-25 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-27 1.1.1
2018-06-08 1.1.0
2018-03-14 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-06-19 0.2.1
2020-09-25 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-25 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-08-03 1.2.1
2019-01-07 1.0.0
2018-06-17 0.6.0
2018-04-08 0.5.0
2018-02-19 0.4.0
2018-02-18 0.3.0
2018-01-09 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-12-14 0.8.1
2021-12-01 0.8.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-08 0.0.1.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-26 0.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-26 1.3.5
2018-04-29 1.3.4
2017-05-22 1.3.2
2016-08-26 1.2.1
Title: Client for US Treasury XML Feed and Published Data
Description: Download daily interest rates from the US Treasury XML feed.
Leveraging
<https://home.treasury.gov/treasury-daily-interest-rate-xml-feed>,
this package serves as a wrapper, facilitating the retrieval of daily
treasury rates across various categories, including par yield curves,
treasury bills, long-term rates, and real yield curves.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between treasury versions 0.4.0 dated 2025-08-26 and 0.5.0 dated 2026-03-21
DESCRIPTION | 8 ++++---- MD5 | 20 +++++++++++--------- NAMESPACE | 4 ++++ NEWS.md | 4 ++++ R/cache.R |only R/interest-rate.R | 14 ++++++++------ R/treasury-package.R | 6 ++++++ README.md | 18 ++++++++---------- man/figures/README-plot-1.png |binary man/tr_cache_dir.Rd |only tests/testthat/test-interest-rate.R | 6 +++--- tests/testthat/test-yield-curve.R | 18 +++++++++--------- 12 files changed, 57 insertions(+), 41 deletions(-)
Title: Signature Overrepresentation Analysis
Description: Pathway Analysis is statistically linking observations on
the molecular level to biological processes or pathways on
the systems(i.e., organism, organ, tissue, cell) level.
Traditionally, pathway analysis methods regard pathways
as collections of single genes and treat all genes in a pathway
as equally informative. However, this can lead to identifying
spurious pathways as statistically significant since components
are often shared amongst pathways. SIGORA seeks to avoid this
pitfall by focusing on genes or gene pairs that are (as a combination)
specific to a single pathway.
In relying on such pathway gene-pair signatures (Pathway-GPS),
SIGORA inherently uses the status of other genes in the
experimental context to identify the most relevant pathways.
The current version allows for pathway analysis of human
and mouse datasets. In addition, it contains pre-computed
Pathway-GPS data for pathways in the KEGG and Reactome
pathway repositories and mechanisms for extracting GPS
for user-sup [...truncated...]
Author: Amir Foroushani [aut] ,
Fiona Brinkman [aut],
David Lynn [aut],
Witold Wolski [cre]
Maintainer: Witold Wolski <witold.wolski@fgcz.uzh.ch>
Diff between sigora versions 3.1.1 dated 2021-11-30 and 3.2.0 dated 2026-03-21
DESCRIPTION | 21 MD5 | 68 +- NAMESPACE | 18 NEWS.md | 21 R/aa_package.R | 291 ++++----- R/genesFromRandomPathways.R | 112 +-- R/getGenes.R | 118 ++- R/getURL.R | 120 ++- R/load_data.R | 24 R/makeGPS.R | 407 ++++++------- R/ora.R | 189 +++--- R/sigora-package.R | 56 - R/sigora.R | 495 ++++++++-------- README.md | 122 ++-- build/vignette.rds |binary data/datalist | 12 inst/CITATION | 27 inst/doc/Sigora.R | 140 ++-- inst/doc/Sigora.Rmd | 348 +++++------ inst/doc/Sigora.html | 1247 +++++++++++++++++++++-------------------- man/genesFromRandomPathways.Rd | 115 +-- man/getGenes.Rd | 90 +- man/getURL.Rd | 83 +- man/idmap.Rd | 40 - man/kegH.Rd | 58 - man/kegM.Rd | 52 - man/load_data.Rd | 46 - man/makeGPS.Rd | 189 +++--- man/nciTable.Rd | 70 +- man/ora.Rd | 108 +-- man/reaH.Rd | 52 - man/reaM.Rd | 58 - man/sigora-package.Rd | 79 +- man/sigora.Rd | 211 +++--- vignettes/Sigora.Rmd | 348 +++++------ 35 files changed, 2807 insertions(+), 2628 deletions(-)
Title: Convert Digital Images into 'SpatRaster' Objects
Description: Generate 'SpatRaster' objects, as defined by the 'terra'
package, from digital images, using a specified spatial object as a
geographical reference.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between rasterpic versions 0.3.1 dated 2026-01-14 and 0.4.0 dated 2026-03-21
rasterpic-0.3.1/rasterpic/inst/doc/rasterpic.Rmd |only rasterpic-0.3.1/rasterpic/vignettes/rasterpic.Rmd |only rasterpic-0.4.0/rasterpic/DESCRIPTION | 10 rasterpic-0.4.0/rasterpic/MD5 | 32 rasterpic-0.4.0/rasterpic/NEWS.md | 4 rasterpic-0.4.0/rasterpic/R/asp_ratio.R | 6 rasterpic-0.4.0/rasterpic/R/rasterpic_img.R | 34 rasterpic-0.4.0/rasterpic/R/utils.R | 19 rasterpic-0.4.0/rasterpic/README.md | 38 - rasterpic-0.4.0/rasterpic/build/vignette.rds |binary rasterpic-0.4.0/rasterpic/inst/doc/rasterpic.R | 24 rasterpic-0.4.0/rasterpic/inst/doc/rasterpic.html | 365 +++------- rasterpic-0.4.0/rasterpic/inst/doc/rasterpic.qmd |only rasterpic-0.4.0/rasterpic/inst/schemaorg.json | 4 rasterpic-0.4.0/rasterpic/man/asp_ratio.Rd | 6 rasterpic-0.4.0/rasterpic/man/rasterpic_img.Rd | 20 rasterpic-0.4.0/rasterpic/tests/testthat/_snaps/errors_messages.md | 14 rasterpic-0.4.0/rasterpic/tests/testthat/_snaps/online.md | 2 rasterpic-0.4.0/rasterpic/vignettes/rasterpic.qmd |only 19 files changed, 246 insertions(+), 332 deletions(-)
Title: Client for Central Bank APIs
Description: A client for retrieving data and metadata from major central
bank APIs. It supports access to the 'Bundesbank SDMX Web Service API'
(<https://www.bundesbank.de/en/statistics/time-series-databases/help-for-sdmx-web-service/web-service-interface-data>),
the 'Swiss National Bank Data Portal' (<https://data.snb.ch/en>), the
'European Central Bank Data Portal API'
(<https://data.ecb.europa.eu/help/api/overview>), the 'Bank of England
Interactive Statistical Database'
(<https://www.bankofengland.co.uk/boeapps/database>), the 'Banco de
España API'
(<https://www.bde.es/webbe/en/estadisticas/recursos/api-estadisticas-bde.html>),
the 'Bank for International Settlements SDMX Web Service'
(<https://stats.bis.org/api-doc/v1/>),
the 'Banque de France Web Service'
(<https://webstat.banque-france.fr/en/pages/guide-migration-api/>),
the 'Norges Bank SDMX Web Service'
(<https://www.norges-bank.no/en/topics/Statistics/open-data/>),
the 'Oesterreichische Nat [...truncated...]
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between bbk versions 0.8.0 dated 2025-10-01 and 0.9.0 dated 2026-03-21
DESCRIPTION | 14 ++- MD5 | 120 ++++++++++++++++++----------- NAMESPACE | 18 ++++ NEWS.md | 20 ++++ R/assertions.R | 3 R/bbk-package.R | 9 +- R/bbk.R | 96 +++++++++++------------ R/bde.R | 62 ++++++++++++-- R/bdf.R | 40 ++++++--- R/bis.R |only R/boc.R | 34 ++++---- R/boe.R | 63 +++++++++------ R/cache.R |only R/ecb.R | 89 ++++++++++++--------- R/fx-rates.R | 5 - R/nob.R |only R/onb.R | 39 +++++---- R/purrr.R |only R/sdmx.R |only R/snb.R | 79 ++++++++++++++----- R/srb.R |only R/utils.R | 6 - README.md | 22 ++++- man/bbk-package.Rd | 2 man/bbk_data.Rd | 9 +- man/bbk_dimension.Rd |only man/bbk_metadata.Rd | 11 ++ man/bbk_series.Rd | 9 +- man/bde_data.Rd | 7 + man/bde_latest.Rd |only man/bdf_codelist.Rd | 12 ++ man/bdf_data.Rd | 11 ++ man/bdf_dataset.Rd | 12 ++ man/bis_data.Rd |only man/bis_dimension.Rd |only man/bis_metadata.Rd |only man/boc_data.Rd | 7 + man/boe_data.Rd | 17 +++- man/cache.Rd |only man/ecb_data.Rd | 16 +++ man/ecb_dimension.Rd |only man/ecb_metadata.Rd | 11 ++ man/figures/README-plotting-1.png |binary man/nob_data.Rd |only man/nob_dimension.Rd |only man/nob_metadata.Rd |only man/onb_data.Rd | 9 +- man/onb_dimension.Rd | 11 ++ man/onb_frequency.Rd | 19 +++- man/onb_hierarchy.Rd | 11 ++ man/onb_metadata.Rd | 11 ++ man/onb_toc.Rd | 11 ++ man/snb_data.Rd | 7 + man/snb_dimension.Rd |only man/srb_calendar.Rd |only man/srb_cross_rates.Rd |only man/srb_data.Rd |only man/srb_series.Rd |only tests/testthat/fixtures/bde-latest.rds |only tests/testthat/fixtures/bis-data.xml |only tests/testthat/fixtures/bis-metadata.xml |only tests/testthat/fixtures/nob-data.xml |only tests/testthat/fixtures/nob-metadata.xml |only tests/testthat/fixtures/snb-dimensions.rds |only tests/testthat/fixtures/srb-calendar.rds |only tests/testthat/fixtures/srb-crossrates.rds |only tests/testthat/fixtures/srb-data.json |only tests/testthat/fixtures/srb-groups.json |only tests/testthat/fixtures/srb-series.json |only tests/testthat/test-bbk.R | 15 ++- tests/testthat/test-bde.R | 20 ++++ tests/testthat/test-bis.R |only tests/testthat/test-boe.R | 12 +- tests/testthat/test-ecb.R | 11 ++ tests/testthat/test-exchange-rates.R | 2 tests/testthat/test-nob.R |only tests/testthat/test-sdmx.R |only tests/testthat/test-snb.R | 14 +++ tests/testthat/test-srb.R |only 79 files changed, 712 insertions(+), 284 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-13 1.19
2018-11-20 1.18
2018-11-16 1.17
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-05 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-27 0.2.0
2019-09-07 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-13 0.2.1
2020-10-02 0.2.0
2020-09-17 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-17 1.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-02 0.3.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-26 0.2.0
2019-12-13 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-23 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-07-04 0.3.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-17 1.0.0
2018-02-21 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-02-16 0.1.39
2025-05-13 0.1.38
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-20 0.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-08 2.1.5
2019-12-19 2.1.4
2018-05-16 2.1.3
2017-11-27 2.1.2
2017-09-14 2.1.1
2016-05-03 2.0.2
2015-08-03 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-23 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-07-29 1.8.0
2021-03-05 1.0.2
2021-03-05 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-28 0.1.3
2022-01-08 0.1.2
2021-08-14 0.1.1
2021-07-14 0.1.0
2020-10-20 0.0.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-25 0.3.1
2018-02-12 0.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-24 1.0-0
Title: Stack and Reshape Datasets After Splitting Concatenated Values
Description: Online data collection tools like Google Forms often export
multiple-response questions with data concatenated in cells. The
concat.split (cSplit) family of functions splits such data into separate
cells. The package also includes functions to stack groups of columns and
to reshape wide data, even when the data are "unbalanced"---something
which reshape (from base R) does not handle, and which melt and dcast from
reshape2 do not easily handle.
Author: Ananda Mahto [aut, cre]
Maintainer: Ananda Mahto <mrdwab@gmail.com>
Diff between splitstackshape versions 1.4.8 dated 2019-04-21 and 1.4.8.1 dated 2026-03-21
DESCRIPTION | 14 +++++++++----- MD5 | 6 +++--- NEWS.md | 2 +- data/concatenated.RData |binary 4 files changed, 13 insertions(+), 9 deletions(-)
More information about splitstackshape at CRAN
Permanent link
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 3.7-0 dated 2026-01-20 and 3.7-2 dated 2026-03-21
DESCRIPTION | 14 +- MD5 | 132 ++++++++++++------------ NAMESPACE | 15 ++ NEWS | 101 ++++++++++++++++++ R/colourschemes.R | 2 R/connected.R | 2 R/convexdist.R | 2 R/diagram.R | 2 R/distfun.R | 2 R/distmap.R | 47 +++++--- R/eval.im.R | 12 +- R/exactdt.R | 32 +++-- R/funxy.R | 2 R/hyperframe.R | 2 R/hypersub.R | 2 R/images.R | 2 R/layered.R | 2 R/marks.R | 2 R/minkowski.R | 204 +++++++++++++++++++++++++++++++------ R/morphology.R | 97 +++++++++-------- R/nncross.R | 11 +- R/nndist.R | 107 +++++++++++++------ R/nnfun.R | 2 R/nnmap.R | 21 ++- R/options.R | 6 + R/plot.im.R | 2 R/pointweights.R | 27 +++- R/pp3.R | 2 R/psp.R | 27 +++- R/simplepanel.R | 2 R/split.ppp.R | 2 R/sptfun.R |only R/tess.R | 137 ++++++++++++++++++++++++- R/texture.R | 2 R/units.R | 16 ++ R/util.R | 74 ++++++++++--- R/window.R | 51 +++++---- R/wingeom.R | 31 ++++- inst/doc/packagesizes.txt | 3 inst/info/packagesizes.txt | 3 man/FeretBox.Rd |only man/FeretDiamFun.Rd |only man/SupportFun.Rd |only man/distmap.ppp.Rd | 15 ++ man/fillholes.owin.Rd | 4 man/intensity.ppp.Rd | 5 man/macros/defns.Rd | 5 man/mergeTiles.Rd |only man/nncross.Rd | 14 ++ man/nndist.Rd | 10 + man/nnmap.Rd | 15 +- man/polarbody.Rd |only man/spatstat.geom-internal.Rd | 12 +- man/tess.Rd | 3 src/exactdist.c | 27 ++-- src/init.c | 12 +- src/knnXdist.h | 14 ++ src/knndist.h | 14 ++ src/knndistance.c | 228 ++++++++++++++++++++++++++++++++++-------- src/knngrid.c | 66 ++++++++++-- src/knngrid.h | 11 +- src/nndist.h | 9 + src/nndistX.h | 12 +- src/nndistance.c | 214 ++++++++++++++++++++++++++++++++------- src/nngrid.c | 63 ++++++++++- src/nngrid.h | 11 +- src/proto.h | 12 +- tests/testsGtoJ.R | 24 ++++ tests/testsNtoO.R | 37 ++++++ tests/testsP2.R | 21 +++ 70 files changed, 1587 insertions(+), 473 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-02 0.2.0
2018-07-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-24 1.2.2
2018-10-31 1.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-07 1.3.1
2021-01-25 1.3.0
2020-11-09 1.2.7
2020-10-02 1.2.6
2020-08-26 1.2.5
2020-07-13 1.2.4
2020-07-05 1.2.3
2020-06-21 1.2.2
2020-05-23 1.2.1
2020-04-28 1.2
2020-04-20 1.1.9
2020-03-18 1.1.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-19 0.1.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-13 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-26 1.2.0
2020-06-14 1.1.1
2020-03-19 1.1.0
2019-12-04 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-30 0.7.22
2020-01-28 0.7.21
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-15 2.0.5
2020-08-02 2.0.4
2020-04-07 2.0.2
2020-02-28 2.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-08 0.1.3
2021-05-31 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-18 1.0.4
2021-09-02 1.0.3
2021-07-11 1.0.2
2021-02-13 1.0.1
2021-01-22 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-24 1.0.1
2017-07-03 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-09 1.0.0
2020-09-22 0.2.2
2020-05-22 0.2.1
2020-01-10 0.2.0
2019-07-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-02 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-24 0.2.0
2018-01-17 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-06 1.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-13 1.1.0
2019-01-18 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-18 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-28 0.1.3
2016-10-20 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-25 0.0.1
Title: Using Fonts More Easily in R Graphs
Description: Making it easy to use various types of fonts ('TrueType',
'OpenType', Type 1, web fonts, etc.) in R graphs, and supporting most output
formats of R graphics including PNG, PDF and SVG. Text glyphs will be converted
into polygons or raster images, hence after the plot has been created, it no
longer relies on the font files. No external software such as 'Ghostscript' is
needed to use this package.
Author: Yixuan Qiu [aut, cre],
Dave Raggett [ctb]
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between showtext versions 0.9-7 dated 2024-03-02 and 0.9-8 dated 2026-03-21
DESCRIPTION | 21 ++-- MD5 | 34 +++---- build/vignette.rds |binary inst/NEWS.Rd | 8 + inst/doc/introduction.Rmd | 2 inst/doc/introduction.html | 131 ++++++++++++++--------------- src/array.c | 38 ++++---- src/cairodev.c | 16 +-- src/cairodev.h | 33 ++++++- src/devfuns.c | 61 +++++++------ src/fonts.c | 201 +++++++++++++++++++++++++++++++++++---------- src/fonts.h | 2 src/outline.c | 54 ++++++------ src/raster.c | 76 ++++++++++------- src/showtext.c | 18 ++-- src/util.c | 8 + src/util.h | 1 vignettes/introduction.Rmd | 2 18 files changed, 451 insertions(+), 255 deletions(-)
Title: Visualizing Panel Data
Description: Visualizes panel data. It has three main functionalities: (1) it plots the treatment status and missing values in a panel dataset; (2) it visualizes the temporal dynamics of a main variable of interest; (3) it depicts the bivariate relationships between a treatment variable and an outcome variable either by unit or in aggregate. For details, see <doi:10.18637/jss.v107.i07>.
Author: Yiqing Xu [aut, cre] ,
Hongyu Mou [aut],
Licheng Liu [aut]
Maintainer: Yiqing Xu <yiqingxu@stanford.edu>
Diff between panelView versions 1.2.0 dated 2026-03-11 and 1.2.1 dated 2026-03-21
DESCRIPTION | 30 +++++++++++++++++------------- MD5 | 12 ++++++------ NAMESPACE | 2 +- R/panelView.R | 10 +++++----- R/plot-bivariate.R | 18 +++++++++--------- R/plot-outcome.R | 22 +++++++++++----------- R/plot-treat.R | 10 +++++----- 7 files changed, 54 insertions(+), 50 deletions(-)
Title: Graphical Multiple Comparison Procedures
Description: Multiple comparison procedures (MCPs) control the familywise error
rate in clinical trials. Graphical MCPs include many commonly used
procedures as special cases; see Bretz et al. (2011)
<doi:10.1002/bimj.201000239>, Lu (2016) <doi:10.1002/sim.6985>, and Xi et
al. (2017) <doi:10.1002/bimj.201600233>. This package is a low-dependency
implementation of graphical MCPs which allow mixed types of tests. It also
includes power simulations and visualization of graphical MCPs.
Author: Dong Xi [aut, cre],
Ethan Brockmann [aut],
Gilead Sciences, Inc. [cph, fnd]
Maintainer: Dong Xi <dong.xi1@gilead.com>
Diff between graphicalMCP versions 0.2.8 dated 2025-05-06 and 0.2.9 dated 2026-03-21
graphicalMCP-0.2.8/graphicalMCP/tests/testthat/Rplots.pdf |only graphicalMCP-0.2.9/graphicalMCP/DESCRIPTION | 8 +- graphicalMCP-0.2.9/graphicalMCP/MD5 | 19 ++--- graphicalMCP-0.2.9/graphicalMCP/NEWS.md | 5 + graphicalMCP-0.2.9/graphicalMCP/R/graph_test_closure.R | 11 ++ graphicalMCP-0.2.9/graphicalMCP/build/partial.rdb |binary graphicalMCP-0.2.9/graphicalMCP/inst/doc/closed-testing.html | 26 +++--- graphicalMCP-0.2.9/graphicalMCP/inst/doc/graph-examples.html | 38 +++++----- graphicalMCP-0.2.9/graphicalMCP/inst/doc/graphicalMCP.html | 14 +-- graphicalMCP-0.2.9/graphicalMCP/inst/doc/internal-validation.html | 14 +-- graphicalMCP-0.2.9/graphicalMCP/inst/doc/shortcut-testing.html | 26 +++--- 11 files changed, 85 insertions(+), 76 deletions(-)
Title: Utilities for Interacting with the 'Posit Connect' Server API
Description: Provides a helpful 'R6' class and methods for interacting with
the 'Posit Connect' Server API along with some meaningful utility functions
for regular tasks. API documentation varies by 'Posit Connect' installation
and version, but the latest documentation is also hosted publicly at
<https://docs.posit.co/connect/api/>.
Author: Kara Woo [aut, cre],
Toph Allen [aut],
Neal Richardson [aut],
Sean Lopp [aut],
Cole Arendt [aut],
Posit, PBC [cph, fnd]
Maintainer: Kara Woo <kara.woo@posit.co>
Diff between connectapi versions 0.11.0 dated 2026-02-25 and 0.11.1 dated 2026-03-21
DESCRIPTION | 6 ++--- MD5 | 22 ++++++++++----------- NEWS.md | 4 +++ R/get.R | 2 - R/parse.R | 8 +++++++ R/ptype.R | 2 - README.md | 3 -- inst/doc/customize-http.html | 4 +-- inst/doc/getting-started.html | 4 +-- man/get_usage.Rd | 2 - tests/testthat/test-get.R | 5 ++-- tests/testthat/test-parse.R | 43 ++++++++++++++++++++++++++++++++++++++++++ 12 files changed, 80 insertions(+), 25 deletions(-)
Title: Summarise and Visualise Characteristics of Patients in the OMOP
CDM
Description: Summarise and visualise the characteristics of patients in data
mapped to the Observational Medical Outcomes Partnership (OMOP) common data
model (CDM).
Author: Marti Catala [aut, cre] ,
Yuchen Guo [aut] ,
Mike Du [ctb] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Nuria Mercade-Besora [aut] ,
Marta Alcalde [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between CohortCharacteristics versions 1.1.1 dated 2026-01-28 and 1.1.2 dated 2026-03-21
DESCRIPTION | 6 MD5 | 244 NAMESPACE | 108 NEWS.md | 203 R/CohortCharacteristics-package.R | 56 R/benchmarkCohortCharacteristics.R | 528 R/checks.R | 252 R/documentationHelpers.R | 206 R/plot.R | 414 R/plotCharacteristics.R | 328 R/plotCohortAttrition.R | 840 - R/plotCohortCount.R | 158 R/plotCohortOverlap.R | 246 R/plotCohortTiming.R | 366 R/plotComparedLargeScaleCharacteristics.R | 318 R/plotLargeScaleCharacteristics.R | 154 R/reexports.R | 160 R/summariseCharacteristics.R | 1353 - R/summariseCohortAttrition.R | 246 R/summariseCohortCodelist.R | 350 R/summariseCohortCount.R | 112 R/summariseCohortOverlap.R | 508 R/summariseCohortTiming.R | 524 R/summariseLargeScaleCharacteristics.R | 1294 - R/table.R | 250 R/tableCharacteristics.R | 138 R/tableCohortAttrition.R | 120 R/tableCohortCount.R | 120 R/tableCohortOverlap.R | 136 R/tableCohortTiming.R | 180 R/tableLargeScaleCharacteristics.R | 532 R/utilities.R | 126 README.md | 624 build/vignette.rds |binary inst/WORDLIST | 124 inst/doc/summarise_characteristics.R | 322 inst/doc/summarise_characteristics.Rmd | 456 inst/doc/summarise_characteristics.html |12400 +++++++-------- inst/doc/summarise_cohort_overlap.R | 134 inst/doc/summarise_cohort_overlap.Rmd | 198 inst/doc/summarise_cohort_overlap.html | 3150 +-- inst/doc/summarise_cohort_timing.R | 164 inst/doc/summarise_cohort_timing.Rmd | 224 inst/doc/summarise_cohort_timing.html | 3184 +-- inst/doc/summarise_large_scale_characteristics.R | 134 inst/doc/summarise_large_scale_characteristics.Rmd | 224 inst/doc/summarise_large_scale_characteristics.html | 6179 +++---- man/CohortCharacteristics-package.Rd | 78 man/availablePlotColumns.Rd | 54 man/availableTableColumns.Rd | 58 man/benchmarkCohortCharacteristics.Rd | 86 man/cohortDoc.Rd | 24 man/cohortIdDoc.Rd | 26 man/figures/attrition.svg | 40 man/figures/lifecycle-archived.svg | 42 man/figures/lifecycle-defunct.svg | 42 man/figures/lifecycle-deprecated.svg | 42 man/figures/lifecycle-experimental.svg | 42 man/figures/lifecycle-maturing.svg | 42 man/figures/lifecycle-questioning.svg | 42 man/figures/lifecycle-soft-deprecated.svg | 42 man/figures/lifecycle-stable.svg | 58 man/figures/lifecycle-superseded.svg | 42 man/mockCohortCharacteristics.Rd | 90 man/plotCharacteristics.Rd | 176 man/plotCohortAttrition.Rd | 110 man/plotCohortCount.Rd | 126 man/plotCohortOverlap.Rd | 112 man/plotCohortTiming.Rd | 168 man/plotComparedLargeScaleCharacteristics.Rd | 148 man/plotDoc.Rd | 48 man/plotLargeScaleCharacteristics.Rd | 128 man/reexports.Rd | 50 man/resultDoc.Rd | 24 man/strataDoc.Rd | 26 man/summariseCharacteristics.Rd | 268 man/summariseCohortAttrition.Rd | 64 man/summariseCohortCodelist.Rd | 84 man/summariseCohortCount.Rd | 70 man/summariseCohortOverlap.Rd | 84 man/summariseCohortTiming.Rd | 102 man/summariseLargeScaleCharacteristics.Rd | 164 man/tableCharacteristics.Rd | 146 man/tableCohortAttrition.Rd | 146 man/tableCohortCodelist.Rd | 80 man/tableCohortCount.Rd | 146 man/tableCohortOverlap.Rd | 154 man/tableCohortTiming.Rd | 178 man/tableDoc.Rd | 90 man/tableLargeScaleCharacteristics.Rd | 138 man/tableTopLargeScaleCharacteristics.Rd | 146 man/timeScaleDoc.Rd | 24 man/uniqueCombinationsDoc.Rd | 26 tests/manual/test-sqltest.R | 188 tests/spelling.R | 10 tests/testthat.R | 24 tests/testthat/setup.R | 118 tests/testthat/test-benchmarkCohortCharacteristics.R | 44 tests/testthat/test-plotCharacteristics.R | 472 tests/testthat/test-plotCohortAttrition.R | 82 tests/testthat/test-plotCohortCount.R | 50 tests/testthat/test-plotCohortOverlap.R | 214 tests/testthat/test-plotCohortTiming.R | 508 tests/testthat/test-plotLargeScaleCharacteristics.R | 328 tests/testthat/test-summariseCharacteristics.R | 3406 ++-- tests/testthat/test-summariseCohortAttrition.R | 60 tests/testthat/test-summariseCohortCodelist.R | 130 tests/testthat/test-summariseCohortCount.R | 52 tests/testthat/test-summariseCohortOverlap.R | 594 tests/testthat/test-summariseCohortTiming.R | 320 tests/testthat/test-summariseLargeScaleCharacteristics.R | 930 - tests/testthat/test-table.R | 18 tests/testthat/test-tableCharacteristics.R | 258 tests/testthat/test-tableCohortAttrition.R | 24 tests/testthat/test-tableCohortCount.R | 32 tests/testthat/test-tableCohortOverlap.R | 152 tests/testthat/test-tableCohortTiming.R | 226 tests/testthat/test-tableLargeScaleCharacteristics.R | 380 tests/testthat/test-utilities.R | 52 vignettes/summarise_characteristics.Rmd | 456 vignettes/summarise_cohort_overlap.Rmd | 198 vignettes/summarise_cohort_timing.Rmd | 224 vignettes/summarise_large_scale_characteristics.Rmd | 224 123 files changed, 25976 insertions(+), 25967 deletions(-)
More information about CohortCharacteristics at CRAN
Permanent link
Title: Spatial Regression Analysis
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximu [...truncated...]
Author: Roger Bivand [cre, aut] ,
Gianfranco Piras [aut],
Luc Anselin [ctb] ,
Andrew Bernat [ctb],
Eric Blankmeyer [ctb],
Yongwan Chun [ctb] ,
Virgilio Gomez-Rubio [ctb] ,
Daniel Griffith [ctb] ,
Martin Gubri [ctb] ,
Rein Halbersma [ctb],
James LeSage [ctb], [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between spatialreg versions 1.4-2 dated 2025-09-06 and 1.4-3 dated 2026-03-20
DESCRIPTION | 47 +++++++++++---------- MD5 | 42 +++++++++---------- NAMESPACE | 7 ++- NEWS.md | 2 R/impacts.R | 15 ++++-- R/kpgm_new.R | 7 +-- R/mess.R | 6 -- R/s2sls.R | 7 +-- R/sarlm_functions.R | 15 ++++++ R/sarlm_tests.R | 7 +-- R/spBreg.R | 9 +--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/SpatialFiltering.html | 4 - inst/doc/nb_igraph.html | 8 +-- inst/doc/sids_models.html | 6 +- man/ML_models.Rd | 7 ++- man/gstsls.Rd | 4 - man/impacts.Rd | 8 +-- man/sarlm_tests.Rd | 6 -- man/stsls.Rd | 5 -- src/ml_sse.c | 88 ++++++++++++++++++++++++++++++++++++----- 22 files changed, 193 insertions(+), 107 deletions(-)
Title: Multivariate Multiscale Spatial Analysis
Description: Tools for the multiscale spatial analysis of multivariate data.
Several methods are based on the use of a spatial weighting matrix and its
eigenvector decomposition (Moran's Eigenvectors Maps, MEM).
Several approaches are described in the review Dray et al (2012)
<doi:10.1890/11-1183.1>.
Author: Stephane Dray [aut] ,
David Bauman [ctb],
Guillaume Blanchet [ctb],
Daniel Borcard [ctb],
Sylvie Clappe [ctb],
Guillaume Guenard [ctb] ,
Thibaut Jombart [ctb],
Guillaume Larocque [ctb],
Pierre Legendre [ctb] ,
Naima Madi [ctb],
Helene H Wagner [ctb], [...truncated...]
Maintainer: Aurelie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between adespatial versions 0.3-28 dated 2025-04-16 and 0.3-29 dated 2026-03-20
DESCRIPTION | 17 MD5 | 12 R/TBI.R | 15 build/partial.rdb |binary build/vignette.rds |binary inst/doc/tutorial.html | 1239 +++++++++++++++++++++++++++++++------------------ man/TBI.Rd | 10 7 files changed, 827 insertions(+), 466 deletions(-)
Title: Analysis of Ecological Data: Exploratory and Euclidean Methods
in Environmental Sciences
Description: Tools for multivariate data analysis. Several methods are provided for the analysis (i.e., ordination) of one-table (e.g., principal component analysis, correspondence analysis), two-table (e.g., coinertia analysis, redundancy analysis), three-table (e.g., RLQ analysis) and K-table (e.g., STATIS, multiple coinertia analysis). The philosophy of the package is described in Dray and Dufour (2007) <doi:10.18637/jss.v022.i04>.
Author: Stephane Dray [aut] ,
Anne-Beatrice Dufour [aut] ,
Jean Thioulouse [aut] ,
Daniel Chessel [ant],
Thibaut Jombart [ctb],
Sandrine Pavoine [ctb],
Jean R. Lobry [ctb],
Sebastien Ollier [ctb],
Daniel Borcard [ctb],
Pierre Legendre [ctb],
Stephanie Bougea [...truncated...]
Maintainer: Aurelie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between ade4 versions 1.7-23 dated 2025-02-14 and 1.7-24 dated 2026-03-20
DESCRIPTION | 17 +-- MD5 | 25 ++--- NAMESPACE | 6 + R/dpcaiv.R |only R/loocv.R | 2 R/pcaiv.R | 4 R/varipart.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/faq.html | 185 ++++++++++++++++++++------------------- man/dpcaiv.Rd |only man/loocv.bca.Rd | 3 man/pcaiv.Rd | 7 + man/varipart.Rd | 4 vignettes/ade4_with_ggplot2.html |only 15 files changed, 139 insertions(+), 116 deletions(-)
Title: Collection of Correlation and Association Estimators
Description: Compute correlation and other association matrices from
small to high-dimensional datasets with relative simple functions and
sensible defaults. Includes options for shrinkage and robustness to improve
results in noisy or high-dimensional settings (p >= n), plus convenient
print/plot methods for inspection. Implemented with optimised C++ backends
using BLAS/OpenMP and memory-aware symmetric updates. Works with base
matrices and data frames, returning standard R objects via a consistent S3
interface. Useful across genomics, agriculture, and machine-learning
workflows. Supports Pearson, Spearman, Kendall, distance correlation,
partial correlation, and robust biweight mid-correlation; Bland–Altman
analyses and Lin's concordance correlation coefficient (including
repeated-measures extensions). Methods based on Ledoit and Wolf (2004)
<doi:10.1016/S0047-259X(03)00096-4>; Schäfer and Strimmer (2005)
<doi:10.2202/1544-6115.1175>; Lin (1989) <doi:10.2307/2532051>.
Author: Thiago de Paula Oliveira [aut, cre]
Maintainer: Thiago de Paula Oliveira <thiago.paula.oliveira@gmail.com>
Diff between matrixCorr versions 0.8.4 dated 2026-03-03 and 0.8.5 dated 2026-03-20
DESCRIPTION | 6 - MD5 | 10 +- README.md | 12 ++- build/partial.rdb |binary src/kendall_corr.cpp | 185 +++++++++++++++++++++------------------------------ src/pearson.cpp | 114 +++++++++++++++---------------- 6 files changed, 153 insertions(+), 174 deletions(-)
Title: Management Strategy Evaluation for Salmon Species
Description: Simulation tools to evaluate the long-term effects of salmon management strategies, including a combination of habitat, harvest, and
habitat actions. The stochastic age-structured operating model accommodates complex life histories, including freshwater survival across
early life stages, juvenile survival and fishery exploitation in the marine life stage, partial maturity by age class, and fitness impacts of
hatchery programs on natural spawning populations. 'salmonMSE' also provides an age-structured conditioning model to develop operating models
fitted to data.
Author: Quang Huynh [aut, cre]
Maintainer: Quang Huynh <quang@bluematterscience.com>
Diff between salmonMSE versions 0.1.0 dated 2025-09-23 and 1.0.0 dated 2026-03-20
DESCRIPTION | 15 MD5 | 81 ++--- NAMESPACE | 33 ++ NEWS.md |only R/AHA.R | 4 R/CM.R | 652 ++++++++++++++++++++++--------------------- R/CM_int.R | 141 ++++++--- R/CMfun.R | 563 ++++++++++++++++++++++++++++++++----- R/Harvest_MMP.R | 2 R/MMSE2SMSE.R | 13 R/Rel.R | 81 +++-- R/SOM2MOM.R | 189 ++++-------- R/SOM2MOM_int.R | 232 +++++++-------- R/SRR.R | 1 R/compare.R | 65 +++- R/define-SOM.R | 37 -- R/hatchery.R | 62 +++- R/multiHist2SHist.R | 25 - R/plot-SOM.R | 8 R/plot-statevar.R | 160 ++++++++++ R/plot-table.R | 14 R/ref.R | 6 R/rmd_SMSE.R | 352 ++++++++++++++++++++++- R/salmonMSE.R | 85 +++++ data/glossary.rda |binary inst/include/CMreport.Rmd | 572 +++++++++++++++++++------------------ inst/include/SMSEcompare.Rmd |only man/Bio-class.Rd | 12 man/CM2SOM.Rd | 2 man/CMfigures.Rd |only man/Hatchery-class.Rd | 23 - man/Historical-class.Rd | 36 -- man/SHist-class.Rd | 4 man/SMSE-class.Rd | 2 man/SOM-class.Rd | 2 man/compare.Rd |only man/compare_statevar_ts.Rd |only man/fit_CM.Rd | 38 +- man/plot_decision_table.Rd | 80 +++-- man/plot_statevar_ts.Rd | 4 man/plot_tradeoff.Rd | 20 + man/report.Rd | 3 man/report_CM.Rd | 5 man/smolt_func.Rd | 8 44 files changed, 2416 insertions(+), 1216 deletions(-)
Title: Multi-Stock Assessment
Description: Implementation of a next-generation, multi-stock age-structured fisheries assessment model.
'multiSA' is intended for use in mixed fisheries where stock composition can not be readily identified in
fishery data alone, e.g., from catch and age/length composition. Models can be fitted to genetic data,
e.g., stock composition of catches and close-kin pairs, with seasonal stock availability and movement.
Author: Quang Huynh [aut, cre]
Maintainer: Quang Huynh <quang@bluematterscience.com>
Diff between multiSA versions 0.1.0 dated 2026-02-03 and 0.1.1 dated 2026-03-20
multiSA-0.1.0/multiSA/man/residuals.MSAassess.Rd |only multiSA-0.1.1/multiSA/DESCRIPTION | 10 multiSA-0.1.1/multiSA/MD5 | 43 multiSA-0.1.1/multiSA/NAMESPACE | 13 multiSA-0.1.1/multiSA/NEWS.md | 18 multiSA-0.1.1/multiSA/R/define-s4-class.R | 335 +++---- multiSA-0.1.1/multiSA/R/make-parameters.R | 38 multiSA-0.1.1/multiSA/R/misc.R | 7 multiSA-0.1.1/multiSA/R/model.R | 2 multiSA-0.1.1/multiSA/R/model_int.R | 5 multiSA-0.1.1/multiSA/R/profile.R | 507 +++++----- multiSA-0.1.1/multiSA/R/resid.R | 1064 +++++++++++------------ multiSA-0.1.1/multiSA/R/retrospective.R | 572 ++++++------ multiSA-0.1.1/multiSA/R/rtmb-methods.R | 31 multiSA-0.1.1/multiSA/R/simulate.R | 49 - multiSA-0.1.1/multiSA/README.md | 8 multiSA-0.1.1/multiSA/build/partial.rdb |binary multiSA-0.1.1/multiSA/man/MSAassess-class.Rd | 48 - multiSA-0.1.1/multiSA/man/profile.Rd | 6 multiSA-0.1.1/multiSA/man/report.Rd | 5 multiSA-0.1.1/multiSA/man/residuals.Rd |only multiSA-0.1.1/multiSA/man/retrospective.Rd | 6 multiSA-0.1.1/multiSA/man/simulate.Rd | 3 multiSA-0.1.1/multiSA/man/summary.Rd |only 24 files changed, 1417 insertions(+), 1353 deletions(-)
Title: Probabilistic Knowledge Structures
Description: Fitting and testing probabilistic knowledge structures,
especially the basic local independence model (BLIM, Doignon & Flamagne,
1999) and the simple learning model (SLM), using the minimum discrepancy
maximum likelihood (MDML) method (Heller & Wickelmaier, 2013
<doi:10.1016/j.endm.2013.05.145>).
Author: Florian Wickelmaier [aut, cre],
Juergen Heller [aut],
Julian Mollenhauer [aut],
Pasquale Anselmi [ctb],
Debora de Chiusole [ctb],
Andrea Brancaccio [ctb],
Luca Stefanutti [ctb],
Paul Doerrbecker [ctb]
Maintainer: Florian Wickelmaier <wickelmaier@web.de>
Diff between pks versions 0.6-1 dated 2024-09-16 and 0.7-0 dated 2026-03-20
ChangeLog | 10 ++++++ DESCRIPTION | 16 +++++----- MD5 | 36 ++++++++++++---------- NAMESPACE | 1 R/blim.R | 60 ++++++++++++++++++++++---------------- R/blim_predict.R |only R/conversion.R | 6 ++- R/slm.R | 34 ++++++++------------- build/partial.rdb |binary build/vignette.rds |binary data/DoignonFalmagne7.rda |binary data/Taagepera.rda |binary data/endm.rda |binary data/hsgeometry.rda |only inst/doc/EstimationStepByStep.pdf |binary man/blim.Rd | 5 +-- man/conversion.Rd | 2 - man/endm.Rd | 4 +- man/hsgeometry.Rd |only man/predict.blim.Rd |only man/slm.Rd | 2 - 21 files changed, 101 insertions(+), 75 deletions(-)
Title: A Dipping Sauce for Data Analysis and Visualizations
Description: Works as an "add-on" to packages like 'shiny', 'future', as well as
'rlang', and provides utility functions. Just like dipping sauce adding
flavors to potato chips or pita bread, 'dipsaus' for data analysis and
visualizations adds handy functions and enhancements to popular packages.
The goal is to provide simple solutions that are frequently asked for
online, such as how to synchronize 'shiny' inputs without freezing the app,
or how to get memory size on 'Linux' or 'MacOS' system. The enhancements
roughly fall into these four categories: 1. 'shiny' input widgets; 2.
high-performance computing using the 'future' package; 3.
modify R calls and convert among numbers, strings, and other objects. 4.
utility functions to get system information such like CPU chip-set, memory
limit, etc.
Author: Zhengjia Wang [aut, cre],
John Magnotti [ctb] ,
Xiang Zhang [ctb]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between dipsaus versions 0.3.3 dated 2026-01-09 and 0.3.4 dated 2026-03-20
DESCRIPTION | 6 - MD5 | 17 +-- NEWS.md | 8 + build/vignette.rds |binary inst/doc/r_expr_addons.html | 6 - inst/doc/shiny_customized_widgets.html | 14 +- inst/doc/utility_functions.html | 2 inst/shiny-addons/dipsaus/dipsaus-dipterix-lib.js | 14 +- src/utils.cpp | 108 ++++++++++++++++------ tests/testthat/test-missing-dots.R |only 10 files changed, 121 insertions(+), 54 deletions(-)
Title: Publication-Ready Summary Tables and Forest Plots
Description: A comprehensive framework for descriptive statistics and regression
analysis that produces publication-ready tables and forest plots. Provides a
unified interface from descriptive statistics through multivariable modeling,
with support for linear models, generalized linear models, Cox proportional
hazards, and mixed-effects models. Also includes univariable screening,
multivariate regression, model comparison, and export to multiple formats
including PDF, DOCX, PPTX, 'LaTeX', HTML, and RTF. Built on 'data.table'
for computational efficiency.
Author: Paul Hsin-ti McClelland [aut, cre, cph]
Maintainer: Paul Hsin-ti McClelland <PaulHMcClelland@protonmail.com>
Diff between summata versions 0.11.3 dated 2026-03-08 and 0.11.4 dated 2026-03-20
DESCRIPTION | 6 MD5 | 79 - NEWS.md | 10 R/coxforest.R | 2 R/fit.R | 136 ++ R/forest_utils.R | 33 R/fullfit.R | 65 + R/glmforest.R | 2 R/globals.R | 4 R/lmforest.R | 2 R/m2dt.R | 115 ++ R/multifit.R | 100 +- R/uniscreen.R | 34 README.md | 18 inst/doc/advanced_workflows.html | 130 +- inst/doc/installation_setup.Rmd | 4 inst/doc/installation_setup.html | 6 inst/doc/model_comparison.html | 4 inst/doc/multivariate_regression.html | 58 - inst/doc/regression_modeling.R | 86 + inst/doc/regression_modeling.Rmd | 136 +- inst/doc/regression_modeling.html | 1159 +++++++++++++------------ man/extract_predictor_effects.Rd | 3 man/figures/summata.png |binary man/figures/summata.svg | 40 man/fit.Rd | 103 +- man/fullfit.Rd | 36 man/get_cached_confint.Rd |only man/m2dt.Rd | 34 man/multifit.Rd | 20 man/uniscreen.Rd | 20 tests/benchmarks/benchmarks.R | 77 + tests/testthat/test_fit.R | 133 ++ tests/testthat/test_fullfit.R | 147 +++ tests/testthat/test_m2dt.R | 141 +++ tests/testthat/test_multivariate.R | 89 + vignettes/articles/benchmarks.Rmd | 209 ++-- vignettes/articles/feature_comparison.Rmd | 6 vignettes/articles/statistical_foundations.Rmd | 69 + vignettes/installation_setup.Rmd | 4 vignettes/regression_modeling.Rmd | 136 +- 41 files changed, 2407 insertions(+), 1049 deletions(-)
Title: Docorate (Decorate + Output) Displays
Description: A framework for creating production outputs. Users can frame a table, listing, or figure with headers and footers and save to an output file. Stores an intermediate 'docorator' object for reproducibility and rendering to multiple output types.
Author: Becca Krouse [aut, cre],
Shannon Haughton [aut],
Seongbin Hong [aut],
Dragoș Moldovan-Gruenfeld [aut],
GlaxoSmithKline Research & Development Limited [cph, fnd]
Maintainer: Becca Krouse <becca.z.krouse@gsk.com>
Diff between docorator versions 0.5.2 dated 2026-01-23 and 0.6.0 dated 2026-03-20
docorator-0.5.2/docorator/man/create_chunk.Rd |only docorator-0.6.0/docorator/DESCRIPTION | 9 docorator-0.6.0/docorator/MD5 | 48 - docorator-0.6.0/docorator/NAMESPACE | 7 docorator-0.6.0/docorator/NEWS.md | 10 docorator-0.6.0/docorator/R/docorate.R | 7 docorator-0.6.0/docorator/R/render.R | 8 docorator-0.6.0/docorator/R/utils.R | 44 - docorator-0.6.0/docorator/R/utils_fancyhdr.R | 119 ++ docorator-0.6.0/docorator/R/utils_gt.R | 4 docorator-0.6.0/docorator/README.md | 15 docorator-0.6.0/docorator/inst/doc/display_sizing.html | 440 +++++----- docorator-0.6.0/docorator/inst/doc/headers_footers.Rmd | 4 docorator-0.6.0/docorator/inst/doc/headers_footers.html | 7 docorator-0.6.0/docorator/inst/template/template.Rmd | 14 docorator-0.6.0/docorator/inst/template/template.qmd | 11 docorator-0.6.0/docorator/man/create_chunks_all.Rd |only docorator-0.6.0/docorator/man/render_pdf.Rd | 5 docorator-0.6.0/docorator/tests/testthat/_snaps/prep_obj_tex.md | 2 docorator-0.6.0/docorator/tests/testthat/_snaps/utils.md | 12 docorator-0.6.0/docorator/tests/testthat/_snaps/utils_fancyhdr.md | 10 docorator-0.6.0/docorator/tests/testthat/test-render.R | 41 docorator-0.6.0/docorator/tests/testthat/test-utils.R | 24 docorator-0.6.0/docorator/tests/testthat/test-utils_fancyhdr.R | 152 +++ docorator-0.6.0/docorator/tests/testthat/test_docorate.R | 24 docorator-0.6.0/docorator/vignettes/headers_footers.Rmd | 4 26 files changed, 692 insertions(+), 329 deletions(-)
Title: Supporting Functions for Packages Maintained by 'Yihui Xie'
Description: Miscellaneous functions commonly used in other packages maintained by 'Yihui Xie'.
Author: Yihui Xie [aut, cre, cph] ,
Wush Wu [ctb],
Daijiang Li [ctb],
Xianying Tan [ctb],
Salim Brueggemann [ctb] ,
Christophe Dervieux [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between xfun versions 0.56 dated 2026-01-18 and 0.57 dated 2026-03-20
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- NAMESPACE | 2 ++ R/cran.R | 10 +++++++--- R/github.R | 14 ++++++++++++++ R/json.R | 11 +++++++---- R/markdown.R | 29 ++++++++++++++++++++++++----- R/record.R | 5 +++-- build/vignette.rds |binary inst/doc/xfun.Rmd | 2 +- inst/doc/xfun.html | 14 +++++++------- man/submit_cran.Rd | 9 ++++++--- man/tabset.Rd | 19 +++++++++++++++++-- man/tojson.Rd | 10 ++++++---- tests/test-cran/test-json.R | 3 +-- vignettes/xfun.Rmd | 2 +- 16 files changed, 114 insertions(+), 52 deletions(-)
Title: A Calculator for Melting Temperature of Nucleic Acid Sequences
Description: A comprehensive R package for calculating melting temperatures of nucleic acid sequences.
Implements three calculation methods:
1. Wallace rule (Thein & Wallace, 1986)
2. Empirical formulas based on GC content (Marmur, 1962; Schildkraut, 2010; Wetmur, 1991;
Untergasser, 2012; von Ahsen, 2001)
3. Nearest neighbor thermodynamics (Breslauer, 1986; Sugimoto, 1996; Allawi, 1998;
SantaLucia, 2004; Freier, 1986; Xia, 1998; Chen, 2012; Bommarito, 2000; Turner, 2010;
Sugimoto, 1995; Allawi, 1997; Santalucia, 2005)
Includes corrections for:
- Salt ions (SantaLucia, 1996, 1998; Owczarzy, 2004, 2008)
- Chemical compounds (dimethyl sulfoxide, formamide)
Supports both direct sequence input and FASTA file input.
Author: Junhui Li [cre, aut]
Maintainer: Junhui Li <ljh.biostat@gmail.com>
Diff between TmCalculator versions 1.0.3 dated 2022-02-20 and 1.0.4 dated 2026-03-20
TmCalculator-1.0.3/TmCalculator/R/GC.R |only TmCalculator-1.0.3/TmCalculator/R/Tm_GC.R |only TmCalculator-1.0.3/TmCalculator/R/Tm_NN.R |only TmCalculator-1.0.3/TmCalculator/R/Tm_Wallace.R |only TmCalculator-1.0.3/TmCalculator/R/c2s.R |only TmCalculator-1.0.3/TmCalculator/R/check_filter.R |only TmCalculator-1.0.3/TmCalculator/R/chem_correction.R |only TmCalculator-1.0.3/TmCalculator/R/complement.R |only TmCalculator-1.0.3/TmCalculator/R/s2c.R |only TmCalculator-1.0.3/TmCalculator/man/GC.Rd |only TmCalculator-1.0.3/TmCalculator/man/Tm_GC.Rd |only TmCalculator-1.0.3/TmCalculator/man/Tm_NN.Rd |only TmCalculator-1.0.3/TmCalculator/man/Tm_Wallace.Rd |only TmCalculator-1.0.3/TmCalculator/man/check_filter.Rd |only TmCalculator-1.0.3/TmCalculator/man/chem_correction.Rd |only TmCalculator-1.0.3/TmCalculator/man/complement.Rd |only TmCalculator-1.0.4/TmCalculator/DESCRIPTION | 45 + TmCalculator-1.0.4/TmCalculator/LICENSE |only TmCalculator-1.0.4/TmCalculator/MD5 | 82 ++ TmCalculator-1.0.4/TmCalculator/NAMESPACE | 83 ++- TmCalculator-1.0.4/TmCalculator/R/TmCalculator-package.R |only TmCalculator-1.0.4/TmCalculator/R/chem_correct.R |only TmCalculator-1.0.4/TmCalculator/R/gc.R |only TmCalculator-1.0.4/TmCalculator/R/generate_complement.R |only TmCalculator-1.0.4/TmCalculator/R/plot_tm_genome_tracks.R |only TmCalculator-1.0.4/TmCalculator/R/plot_tm_heatmap.R |only TmCalculator-1.0.4/TmCalculator/R/plot_tm_interactive.R |only TmCalculator-1.0.4/TmCalculator/R/plot_tm_karyotype.R |only TmCalculator-1.0.4/TmCalculator/R/print.TmCalculator.R | 2 TmCalculator-1.0.4/TmCalculator/R/salt_correction.R | 275 +++++----- TmCalculator-1.0.4/TmCalculator/R/thermodynamic_gc_params.R |only TmCalculator-1.0.4/TmCalculator/R/thermodynamic_nn_params.R |only TmCalculator-1.0.4/TmCalculator/R/tm_calculate.R |only TmCalculator-1.0.4/TmCalculator/R/tm_gc.R |only TmCalculator-1.0.4/TmCalculator/R/tm_nn.R |only TmCalculator-1.0.4/TmCalculator/R/tm_wallace.R |only TmCalculator-1.0.4/TmCalculator/R/to_genomic_ranges.R |only TmCalculator-1.0.4/TmCalculator/R/utils.R |only TmCalculator-1.0.4/TmCalculator/README.md |only TmCalculator-1.0.4/TmCalculator/build |only TmCalculator-1.0.4/TmCalculator/data |only TmCalculator-1.0.4/TmCalculator/inst |only TmCalculator-1.0.4/TmCalculator/man/TmCalculator-package.Rd |only TmCalculator-1.0.4/TmCalculator/man/c2s.Rd | 8 TmCalculator-1.0.4/TmCalculator/man/check_filter_seq.Rd |only TmCalculator-1.0.4/TmCalculator/man/chem_correct.Rd |only TmCalculator-1.0.4/TmCalculator/man/coor_to_genomic_ranges.Rd |only TmCalculator-1.0.4/TmCalculator/man/fa_to_genomic_ranges.Rd |only TmCalculator-1.0.4/TmCalculator/man/figures |only TmCalculator-1.0.4/TmCalculator/man/gc.Rd |only TmCalculator-1.0.4/TmCalculator/man/generate_complement.Rd |only TmCalculator-1.0.4/TmCalculator/man/plot_tm_genome_tracks.Rd |only TmCalculator-1.0.4/TmCalculator/man/plot_tm_heatmap.Rd |only TmCalculator-1.0.4/TmCalculator/man/plot_tm_interactive.Rd |only TmCalculator-1.0.4/TmCalculator/man/plot_tm_karyotype.Rd |only TmCalculator-1.0.4/TmCalculator/man/s2c.Rd | 8 TmCalculator-1.0.4/TmCalculator/man/salt_correction.Rd | 91 +-- TmCalculator-1.0.4/TmCalculator/man/thermodynamic_gc_params.Rd |only TmCalculator-1.0.4/TmCalculator/man/thermodynamic_nn_params.Rd |only TmCalculator-1.0.4/TmCalculator/man/tm_calculate.Rd |only TmCalculator-1.0.4/TmCalculator/man/tm_gc.Rd |only TmCalculator-1.0.4/TmCalculator/man/tm_nn.Rd |only TmCalculator-1.0.4/TmCalculator/man/tm_wallace.Rd |only TmCalculator-1.0.4/TmCalculator/man/to_genomic_ranges.Rd |only TmCalculator-1.0.4/TmCalculator/man/vec_to_genomic_ranges.Rd |only TmCalculator-1.0.4/TmCalculator/tests |only TmCalculator-1.0.4/TmCalculator/vignettes |only 67 files changed, 357 insertions(+), 237 deletions(-)
Title: 'R' Bindings for 'TMB'
Description: Native 'R' interface to 'TMB' (Template Model Builder) so models can be written entirely in 'R' rather than 'C++'. Automatic differentiation, to any order, is available for a rich subset of 'R' features, including linear algebra for dense and sparse matrices, complex arithmetic, Fast Fourier Transform, probability distributions and special functions. 'RTMB' provides easy access to model fitting and validation following the principles of Kristensen, K., Nielsen, A., Berg, C. W., Skaug, H., & Bell, B. M. (2016) <DOI:10.18637/jss.v070.i05> and Thygesen, U.H., Albertsen, C.M., Berg, C.W. et al. (2017) <DOI:10.1007/s10651-017-0372-4>.
Author: Kasper Kristensen [aut, cre]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between RTMB versions 1.8 dated 2025-10-14 and 1.9 dated 2026-03-20
DESCRIPTION | 11 - MD5 | 85 +++++++----- NAMESPACE | 10 + NEWS |only R/00roxygen.R | 3 R/RcppExports.R | 44 +++++- R/adcomplex.R | 2 R/adjoint.R | 8 + R/advector.R | 69 +++++++--- R/branching.R |only R/distributions.R | 17 -- R/integrate.R |only R/methods.R | 190 +++++++++++++++++++++++++-- R/poshess.R | 2 R/uniroot.R |only build/vignette.rds |binary inst/doc/RTMB-advanced.R | 25 +++ inst/doc/RTMB-advanced.html | 255 +++++++++++++++++++++---------------- inst/doc/RTMB-advanced.rmd | 75 +++++++--- inst/doc/RTMB-introduction.html | 6 inst/doc/RTMB-tips.R |only inst/doc/RTMB-tips.html |only inst/doc/RTMB-tips.rmd |only inst/include/CallRTMB.hpp | 21 +-- inst/include/config.h | 3 inst/tinytest/test-distributions.R | 42 ++++++ inst/tinytest/test-factorize.R | 18 +- inst/tinytest/test-integrate.R |only inst/tinytest/test-pnorm.R |only inst/tinytest/test-ridge_correct.R |only man/ADapply.Rd | 22 +-- man/ADconstruct.Rd | 12 - man/ADintegrate.Rd |only man/ADoverload.Rd | 12 + man/ADuniroot.Rd |only man/ADvector.Rd | 34 ++++ man/Distributions.Rd | 84 ++++++++++-- man/TMB-interface.Rd | 14 -- src/RTMB.cpp | 28 ++++ src/RTMB.h | 8 + src/RTMB_tape.cpp | 62 ++++++++ src/RcppExports.cpp | 143 ++++++++++++++++++-- src/branching.cpp |only src/config.h | 3 src/distributions.cpp | 47 ++++-- src/integrate.cpp |only src/math.cpp | 53 +++++-- src/math_complex.cpp | 1 src/pnorm.cpp |only src/uniroot.cpp |only vignettes/RTMB-advanced.rmd | 75 +++++++--- vignettes/RTMB-tips.rmd |only 52 files changed, 1107 insertions(+), 377 deletions(-)
Title: Tidy Presentation of Clinical Reporting
Description: Streamlined statistical reporting in 'Rmarkdown' environments.
Facilitates the automated reporting of descriptive statistics, multiple
univariate models, multivariable models and tables combining these outputs.
Plotting functions include customisable survival curves, forest plots from
logistic and ordinal regression and bivariate comparison plots.
Author: Lisa Avery [cre, aut] ,
Ryan Del Bel [aut],
Osvaldo Espin-Garcia [aut],
Katherine Lajkosz [aut] ,
Clarina Ong [aut],
Tyler Pittman [aut] ,
Anna Santiago [aut] ,
Yanning Wang [ctr],
Jessica Weiss [aut],
Wei Xu [aut]
Maintainer: Lisa Avery <lisa.avery@uhn.ca>
Diff between reportRmd versions 0.1.1 dated 2025-01-24 and 0.1.3 dated 2026-03-20
reportRmd-0.1.1/reportRmd/data/uvmodels.rda |only reportRmd-0.1.1/reportRmd/man/addspace.Rd |only reportRmd-0.1.1/reportRmd/man/cap.Rd |only reportRmd-0.1.1/reportRmd/man/formatp.Rd |only reportRmd-0.1.1/reportRmd/man/lbld.Rd |only reportRmd-0.1.1/reportRmd/man/lpvalue.Rd |only reportRmd-0.1.1/reportRmd/man/niceNum.Rd |only reportRmd-0.1.1/reportRmd/man/nicename.Rd |only reportRmd-0.1.1/reportRmd/man/pvalue.Rd |only reportRmd-0.1.1/reportRmd/man/rmds.Rd |only reportRmd-0.1.1/reportRmd/man/sanitizestr.Rd |only reportRmd-0.1.1/reportRmd/man/uvmodels.Rd |only reportRmd-0.1.1/reportRmd/man/uvsum.Rd |only reportRmd-0.1.1/reportRmd/man/xvar_function.default.Rd |only reportRmd-0.1.1/reportRmd/vignettes/i1.png |only reportRmd-0.1.1/reportRmd/vignettes/i2.png |only reportRmd-0.1.1/reportRmd/vignettes/libs |only reportRmd-0.1.1/reportRmd/vignettes/overview.qmd |only reportRmd-0.1.1/reportRmd/vignettes/some_SPSS_data.rda |only reportRmd-0.1.1/reportRmd/vignettes/usingLabels.docx |only reportRmd-0.1.1/reportRmd/vignettes/usingLabels.qmd |only reportRmd-0.1.1/reportRmd/vignettes/usingLabels_Notes.docx |only reportRmd-0.1.3/reportRmd/DESCRIPTION | 36 reportRmd-0.1.3/reportRmd/MD5 | 202 reportRmd-0.1.3/reportRmd/NAMESPACE | 121 reportRmd-0.1.3/reportRmd/NEWS.md | 19 reportRmd-0.1.3/reportRmd/R/autoreg.R | 225 reportRmd-0.1.3/reportRmd/R/autosum.R | 662 reportRmd-0.1.3/reportRmd/R/data.R | 16 reportRmd-0.1.3/reportRmd/R/deprecated.R |only reportRmd-0.1.3/reportRmd/R/getVarLevels.R | 232 reportRmd-0.1.3/reportRmd/R/ggkmcif3.R |only reportRmd-0.1.3/reportRmd/R/globals.R | 10 reportRmd-0.1.3/reportRmd/R/helper.R | 1251 + reportRmd-0.1.3/reportRmd/R/imports.R |only reportRmd-0.1.3/reportRmd/R/lblCode.R | 29 reportRmd-0.1.3/reportRmd/R/main.R | 8929 ++++------ reportRmd-0.1.3/reportRmd/R/model_registry.R |only reportRmd-0.1.3/reportRmd/R/rm_compactsum.R | 275 reportRmd-0.1.3/reportRmd/R/rm_mvsum2.R | 301 reportRmd-0.1.3/reportRmd/R/rm_uvsum2.R | 86 reportRmd-0.1.3/reportRmd/R/sysdata.rda |binary reportRmd-0.1.3/reportRmd/README.md | 1840 +- reportRmd-0.1.3/reportRmd/inst/doc/reportRmd.R | 84 reportRmd-0.1.3/reportRmd/inst/doc/reportRmd.Rmd | 150 reportRmd-0.1.3/reportRmd/inst/doc/reportRmd.html | 1515 + reportRmd-0.1.3/reportRmd/man/GVIF.Rd |only reportRmd-0.1.3/reportRmd/man/add_censor_marks.Rd |only reportRmd-0.1.3/reportRmd/man/add_cif_hazard_ratios.Rd |only reportRmd-0.1.3/reportRmd/man/add_confidence_bands.Rd |only reportRmd-0.1.3/reportRmd/man/add_km_hazard_ratios.Rd |only reportRmd-0.1.3/reportRmd/man/add_median_lines.Rd |only reportRmd-0.1.3/reportRmd/man/add_median_text.Rd |only reportRmd-0.1.3/reportRmd/man/add_set_time_lines.Rd |only reportRmd-0.1.3/reportRmd/man/add_set_time_text.Rd |only reportRmd-0.1.3/reportRmd/man/add_statistical_tests.Rd |only reportRmd-0.1.3/reportRmd/man/apply_scales_and_guides.Rd |only reportRmd-0.1.3/reportRmd/man/autoreg.Rd |only reportRmd-0.1.3/reportRmd/man/break_function.Rd |only reportRmd-0.1.3/reportRmd/man/break_function_custom.Rd |only reportRmd-0.1.3/reportRmd/man/build_arrow_segments.Rd |only reportRmd-0.1.3/reportRmd/man/build_forest_ggplot.Rd |only reportRmd-0.1.3/reportRmd/man/build_log_scale.Rd |only reportRmd-0.1.3/reportRmd/man/build_secondary_axis.Rd |only reportRmd-0.1.3/reportRmd/man/calculate_and_add_median_times.Rd |only reportRmd-0.1.3/reportRmd/man/calculate_and_add_time_specific_estimates.Rd |only reportRmd-0.1.3/reportRmd/man/calculate_cif_median.Rd |only reportRmd-0.1.3/reportRmd/man/calculate_cif_timepoints.Rd |only reportRmd-0.1.3/reportRmd/man/coeffSum.Rd |only reportRmd-0.1.3/reportRmd/man/covnm.Rd |only reportRmd-0.1.3/reportRmd/man/create_base_plot.Rd |only reportRmd-0.1.3/reportRmd/man/create_cif_dataframe.Rd |only reportRmd-0.1.3/reportRmd/man/create_cif_risk_table_sfit.Rd |only reportRmd-0.1.3/reportRmd/man/create_km_dataframe.Rd |only reportRmd-0.1.3/reportRmd/man/create_risk_table.Rd |only reportRmd-0.1.3/reportRmd/man/csep.Rd |only reportRmd-0.1.3/reportRmd/man/deduplicate_refs.Rd |only reportRmd-0.1.3/reportRmd/man/delta_l.Rd |only reportRmd-0.1.3/reportRmd/man/delta_u.Rd |only reportRmd-0.1.3/reportRmd/man/extract_grays_test.Rd |only reportRmd-0.1.3/reportRmd/man/extract_package_details.Rd |only reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-10-1.png |binary reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-11-1.png |binary reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-11-2.png |only reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-12-1.png |only reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-12-2.png |only reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-13-1.png |only reportRmd-0.1.3/reportRmd/man/figures/README-unnamed-chunk-14-1.png |only reportRmd-0.1.3/reportRmd/man/fillNAs.Rd |only reportRmd-0.1.3/reportRmd/man/fit_cif_model.Rd |only reportRmd-0.1.3/reportRmd/man/fit_km_model.Rd |only reportRmd-0.1.3/reportRmd/man/forestplot2.Rd | 18 reportRmd-0.1.3/reportRmd/man/forestplotMV.Rd | 63 reportRmd-0.1.3/reportRmd/man/forestplotUV.Rd | 59 reportRmd-0.1.3/reportRmd/man/forestplotUVMV.Rd | 64 reportRmd-0.1.3/reportRmd/man/get_beta_label.Rd |only reportRmd-0.1.3/reportRmd/man/get_cluster_ids.Rd |only reportRmd-0.1.3/reportRmd/man/get_event_counts.Rd |only reportRmd-0.1.3/reportRmd/man/get_model_class.Rd |only reportRmd-0.1.3/reportRmd/man/get_model_coef.Rd |only reportRmd-0.1.3/reportRmd/man/get_model_data.Rd |only reportRmd-0.1.3/reportRmd/man/ggkmcif.Rd | 199 reportRmd-0.1.3/reportRmd/man/ggkmcif2.Rd | 159 reportRmd-0.1.3/reportRmd/man/ggkmcif2Parameters.Rd | 387 reportRmd-0.1.3/reportRmd/man/ggkmcif2Parameters_2025.Rd |only reportRmd-0.1.3/reportRmd/man/ggkmcif2_2025.Rd |only reportRmd-0.1.3/reportRmd/man/ggkmcif_paste.Rd | 47 reportRmd-0.1.3/reportRmd/man/gp.Rd |only reportRmd-0.1.3/reportRmd/man/hbld.Rd | 9 reportRmd-0.1.3/reportRmd/man/lpvalue2.Rd |only reportRmd-0.1.3/reportRmd/man/m_summary.Rd | 2 reportRmd-0.1.3/reportRmd/man/matchcovariate.Rd |only reportRmd-0.1.3/reportRmd/man/matchdata.Rd |only reportRmd-0.1.3/reportRmd/man/modelmatrix.Rd |only reportRmd-0.1.3/reportRmd/man/mterms.Rd |only reportRmd-0.1.3/reportRmd/man/mvsum.Rd | 4 reportRmd-0.1.3/reportRmd/man/nicecall.Rd |only reportRmd-0.1.3/reportRmd/man/order_forest_data.Rd |only reportRmd-0.1.3/reportRmd/man/outTable.Rd | 197 reportRmd-0.1.3/reportRmd/man/prepare_forest_data.Rd |only reportRmd-0.1.3/reportRmd/man/process_cif_medians.Rd |only reportRmd-0.1.3/reportRmd/man/process_cif_timepoints.Rd |only reportRmd-0.1.3/reportRmd/man/process_covariate.Rd |only reportRmd-0.1.3/reportRmd/man/psthr.Rd | 52 reportRmd-0.1.3/reportRmd/man/pstprn.Rd | 42 reportRmd-0.1.3/reportRmd/man/removedollar.Rd |only reportRmd-0.1.3/reportRmd/man/rm_covsum.Rd | 32 reportRmd-0.1.3/reportRmd/man/rm_mvsum.Rd | 138 reportRmd-0.1.3/reportRmd/man/rm_survdiff.Rd | 7 reportRmd-0.1.3/reportRmd/man/rm_uvsum.Rd | 95 reportRmd-0.1.3/reportRmd/man/round_sprintf.Rd |only reportRmd-0.1.3/reportRmd/man/scrolling_table.Rd | 4 reportRmd-0.1.3/reportRmd/man/validate_and_prepare_data.Rd |only reportRmd-0.1.3/reportRmd/tests/testthat/test_calculations.R | 107 reportRmd-0.1.3/reportRmd/vignettes/reportRmd.Rmd | 150 135 files changed, 10815 insertions(+), 7003 deletions(-)
Title: Optimal Pairing and Matching via Linear Assignment
Description: Solves optimal pairing and matching problems using linear assignment
algorithms. Provides implementations of the Hungarian method (Kuhn 1955)
<doi:10.1002/nav.3800020109>, Jonker-Volgenant shortest path algorithm
(Jonker and Volgenant 1987) <doi:10.1007/BF02278710>, Auction algorithm
(Bertsekas 1988) <doi:10.1007/BF02186476>, cost-scaling
(Goldberg and Kennedy 1995) <doi:10.1007/BF01585996>, scaling algorithms
(Gabow and Tarjan 1989) <doi:10.1137/0218069>, push-relabel (Goldberg and
Tarjan 1988) <doi:10.1145/48014.61051>, and Sinkhorn entropy-regularized
transport (Cuturi 2013) <doi:10.48550/arxiv.1306.0895>. Designed for
matching plots, sites, samples, or any pairwise optimization problem.
Supports rectangular matrices, forbidden assignments, data frame inputs,
batch solving, k-best solutions, and pixel-level image morphing for
visualization. Includes automatic preprocessing with variable health
checks, multiple scaling methods (standardized, [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between couplr versions 1.2.0 dated 2026-03-20 and 1.2.1 dated 2026-03-20
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 11 +++++++++++ R/morph_pixel.R | 6 ++++++ inst/doc/matching-workflows.html | 8 ++++---- inst/doc/troubleshooting.html | 2 +- tests/testthat/test-morph-coverage-boost.R | 2 ++ tests/testthat/test-morph-pixel.R | 3 +++ 8 files changed, 37 insertions(+), 15 deletions(-)
Title: A Package for Biometrics and Modelling
Description: A system of functions and datasets to carry out quantitative analyses in the biological
sciences. The package facilitates data management, exploratory analyses, and model assessment.
Although it currently focuses on forest ecology, silviculture and decision-making, most of
the package functions are applicable across several disciplines, including economics,
environmental science, and healthcare.
Author: Christian Salas-Eljatib [aut, cre] ,
Nicolas Campos [ctb] ,
Marcos Marivil [ctb]
Maintainer: Christian Salas-Eljatib <cseljatib@gmail.com>
Diff between biometrics versions 1.0.3 dated 2026-03-03 and 1.0.4 dated 2026-03-20
biometrics-1.0.3/biometrics/R/data-densidadcanelo2.r |only biometrics-1.0.3/biometrics/data/densidadcanelo2.rda |only biometrics-1.0.3/biometrics/man/densidadcanelo2.Rd |only biometrics-1.0.4/biometrics/DESCRIPTION | 6 biometrics-1.0.4/biometrics/MD5 | 129 ++++++++++--------- biometrics-1.0.4/biometrics/NAMESPACE | 3 biometrics-1.0.4/biometrics/R/asymregfx.r | 21 +-- biometrics-1.0.4/biometrics/R/bertarich.r | 20 +- biometrics-1.0.4/biometrics/R/curtis.r | 17 +- biometrics-1.0.4/biometrics/R/curtisori.r | 17 +- biometrics-1.0.4/biometrics/R/data-thinningtrial.r |only biometrics-1.0.4/biometrics/R/data-thinningtrial2.r |only biometrics-1.0.4/biometrics/R/data-treevolruca2.r | 2 biometrics-1.0.4/biometrics/R/expogral.r |only biometrics-1.0.4/biometrics/R/expogralfull.r |only biometrics-1.0.4/biometrics/R/gompertz.r | 19 +- biometrics-1.0.4/biometrics/R/gompertzm.r | 19 +- biometrics-1.0.4/biometrics/R/hossfeld.r | 19 +- biometrics-1.0.4/biometrics/R/invfx.r | 19 +- biometrics-1.0.4/biometrics/R/lang.r | 17 +- biometrics-1.0.4/biometrics/R/logistic.r | 19 +- biometrics-1.0.4/biometrics/R/logisticm.r | 19 +- biometrics-1.0.4/biometrics/R/meyer.r | 17 +- biometrics-1.0.4/biometrics/R/mmenten.r | 17 +- biometrics-1.0.4/biometrics/R/naslund.r | 17 +- biometrics-1.0.4/biometrics/R/ogawa.r | 17 +- biometrics-1.0.4/biometrics/R/power.r | 17 +- biometrics-1.0.4/biometrics/R/prodan.r | 19 +- biometrics-1.0.4/biometrics/R/ratkow.r | 19 +- biometrics-1.0.4/biometrics/R/schnute.r | 19 +- biometrics-1.0.4/biometrics/R/schuma.r | 17 +- biometrics-1.0.4/biometrics/R/sibbesen.r | 19 +- biometrics-1.0.4/biometrics/R/stage.r | 19 +- biometrics-1.0.4/biometrics/R/standtab.r |only biometrics-1.0.4/biometrics/R/strand.r | 17 +- biometrics-1.0.4/biometrics/R/strandg.r | 19 +- biometrics-1.0.4/biometrics/R/weibfx.r | 19 +- biometrics-1.0.4/biometrics/R/wykoff.r | 17 +- biometrics-1.0.4/biometrics/data/thinningtrial.rda |only biometrics-1.0.4/biometrics/data/thinningtrial2.rda |only biometrics-1.0.4/biometrics/inst/CITATION | 4 biometrics-1.0.4/biometrics/man/asymreg.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/bertarich.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/curtis.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/curtisori.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/expogral.fx.Rd |only biometrics-1.0.4/biometrics/man/expogralfull.fx.Rd |only biometrics-1.0.4/biometrics/man/gompertz.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/gompertzm.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/hossfeld.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/inv.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/lang.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/logist.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/logistm.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/meyer.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/mmenten.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/naslund.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/ogawa.fx.Rd | 12 - biometrics-1.0.4/biometrics/man/power.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/prodan.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/ratkow.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/schnute.fx.Rd | 24 +-- biometrics-1.0.4/biometrics/man/schum.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/sibbesen.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/stage.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/standtab.Rd |only biometrics-1.0.4/biometrics/man/strand.fx.Rd | 14 +- biometrics-1.0.4/biometrics/man/strandg.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/thinningtrial.Rd |only biometrics-1.0.4/biometrics/man/thinningtrial2.Rd |only biometrics-1.0.4/biometrics/man/treevolruca2.Rd | 2 biometrics-1.0.4/biometrics/man/weib.fx.Rd | 16 +- biometrics-1.0.4/biometrics/man/wykoff.fx.Rd | 14 +- 73 files changed, 501 insertions(+), 520 deletions(-)
Title: Interface to the Global Biodiversity Information Facility API
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility (GBIF;
<https://www.gbif.org/developer/summary>). GBIF is a database
of species occurrence records from sources all over the globe.
rgbif includes functions for searching for taxonomic names,
retrieving information on data providers, getting species occurrence
records, getting counts of occurrence records, and using the GBIF
tile map service to make rasters summarizing huge amounts of data.
Author: Scott Chamberlain [aut] ,
Damiano Oldoni [aut] ,
Vijay Barve [ctb] ,
Peter Desmet [ctb] ,
Laurens Geffert [ctb],
Dan Mcglinn [ctb] ,
Karthik Ram [ctb] ,
rOpenSci [fnd] ,
John Waller [aut, cre]
Maintainer: John Waller <jwaller@gbif.org>
Diff between rgbif versions 3.8.4 dated 2025-11-13 and 3.8.5 dated 2026-03-20
DESCRIPTION | 9 MD5 | 94 ++++---- NAMESPACE | 7 NEWS.md | 30 ++ R/bbox.R | 50 ++++ R/check_wkt.r | 78 ++++++ R/download_predicate_dsl.R | 58 ++++- R/name_backbone.r | 16 + R/name_backbone_checklist.R | 2 R/occ_data.R | 2 R/occ_download.R | 31 ++ R/occ_download_stats.R |only man/download_predicate_dsl.Rd | 16 + man/occ_data.Rd | 2 man/occ_download.Rd | 12 + man/occ_download_cached.Rd | 6 man/occ_download_cancel.Rd | 6 man/occ_download_dataset_activity.Rd | 6 man/occ_download_datasets.Rd | 6 man/occ_download_get.Rd | 6 man/occ_download_import.Rd | 6 man/occ_download_list.Rd | 6 man/occ_download_meta.Rd | 6 man/occ_download_queue.Rd | 6 man/occ_download_stats.Rd |only man/occ_download_stats_dataset.Rd |only man/occ_download_stats_dataset_records.Rd |only man/occ_download_stats_export.Rd |only man/occ_download_stats_source.Rd |only man/occ_download_stats_user_country.Rd |only man/occ_download_wait.Rd | 6 man/occ_search.Rd | 2 tests/fixtures/name_backbone.yml | 40 +-- tests/fixtures/name_backbone_acceptedUsageKey.yml |only tests/fixtures/name_backbone_verbose_true.yml | 10 tests/fixtures/occ_download_1.yml | 10 tests/fixtures/occ_download_10.yml |only tests/fixtures/occ_download_2.yml | 12 - tests/fixtures/occ_download_3.yml | 10 tests/fixtures/occ_download_4.yml | 10 tests/fixtures/occ_download_5.yml | 10 tests/fixtures/occ_download_6.yml | 10 tests/fixtures/occ_download_7.yml | 10 tests/fixtures/occ_download_8.yml | 10 tests/fixtures/occ_download_9.yml |only tests/fixtures/occ_download_stats.yml |only tests/fixtures/occ_download_stats_dataset.yml |only tests/fixtures/occ_download_stats_dataset_records.yml |only tests/fixtures/occ_download_stats_source.yml |only tests/fixtures/occ_download_stats_user_country.yml |only tests/testthat/test-check_wkt.r | 67 +++++ tests/testthat/test-download_parsing.R | 203 ++++++++++-------- tests/testthat/test-name_backbone.r | 11 tests/testthat/test-name_backbone_checklist.R | 68 ++++-- tests/testthat/test-occ_download.R | 42 +++ tests/testthat/test-occ_download_stats.R |only 56 files changed, 743 insertions(+), 249 deletions(-)
Title: Geocoding with the 'ArcGIS' REST API Service
Description: Lite interface for finding locations of addresses or
businesses around the world using the 'ArcGIS' REST API service
<https://developers.arcgis.com/rest/geocode/api-reference/overview-world-geocoding-service.htm>.
Address text can be converted to location candidates and a location
can be converted into an address. No API key required.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between arcgeocoder versions 0.3.0 dated 2026-01-15 and 0.4.0 dated 2026-03-20
arcgeocoder-0.3.0/arcgeocoder/inst/doc/arcgeocoder.Rmd |only arcgeocoder-0.3.0/arcgeocoder/inst/doc/feature-types.Rmd |only arcgeocoder-0.3.0/arcgeocoder/vignettes/arcgeocoder.Rmd |only arcgeocoder-0.3.0/arcgeocoder/vignettes/feature-types.Rmd |only arcgeocoder-0.4.0/arcgeocoder/DESCRIPTION | 12 arcgeocoder-0.4.0/arcgeocoder/MD5 | 58 arcgeocoder-0.4.0/arcgeocoder/NEWS.md | 4 arcgeocoder-0.4.0/arcgeocoder/R/arc_geo.R | 40 arcgeocoder-0.4.0/arcgeocoder/R/arc_geo_categories.R | 606 ++++----- arcgeocoder-0.4.0/arcgeocoder/R/arc_geo_multi.R | 541 ++++---- arcgeocoder-0.4.0/arcgeocoder/R/arc_reverse_geo.R | 22 arcgeocoder-0.4.0/arcgeocoder/R/arcgeocoder_check_access.R | 1 arcgeocoder-0.4.0/arcgeocoder/R/data.R | 343 ++--- arcgeocoder-0.4.0/arcgeocoder/README.md | 109 - arcgeocoder-0.4.0/arcgeocoder/build/vignette.rds |binary arcgeocoder-0.4.0/arcgeocoder/data/arc_categories.rda |binary arcgeocoder-0.4.0/arcgeocoder/data/arc_spatial_references.rda |binary arcgeocoder-0.4.0/arcgeocoder/inst/REFERENCES.bib | 10 arcgeocoder-0.4.0/arcgeocoder/inst/WORDLIST | 4 arcgeocoder-0.4.0/arcgeocoder/inst/doc/arcgeocoder.html | 619 +++------ arcgeocoder-0.4.0/arcgeocoder/inst/doc/arcgeocoder.qmd |only arcgeocoder-0.4.0/arcgeocoder/inst/doc/feature-types.html | 626 +++------- arcgeocoder-0.4.0/arcgeocoder/inst/doc/feature-types.qmd |only arcgeocoder-0.4.0/arcgeocoder/inst/schemaorg.json | 4 arcgeocoder-0.4.0/arcgeocoder/man/arc_categories.Rd | 1 arcgeocoder-0.4.0/arcgeocoder/man/arc_geo.Rd | 49 arcgeocoder-0.4.0/arcgeocoder/man/arc_geo_categories.Rd | 395 +++--- arcgeocoder-0.4.0/arcgeocoder/man/arc_geo_multi.Rd | 39 arcgeocoder-0.4.0/arcgeocoder/man/arc_reverse_geo.Rd | 18 arcgeocoder-0.4.0/arcgeocoder/man/chunks/out1.Rmd | 18 arcgeocoder-0.4.0/arcgeocoder/tests/testthat/test-arc_geo_multi.R | 524 ++++---- arcgeocoder-0.4.0/arcgeocoder/vignettes/REFERENCES.bib | 10 arcgeocoder-0.4.0/arcgeocoder/vignettes/arcgeocoder.qmd |only arcgeocoder-0.4.0/arcgeocoder/vignettes/feature-types.qmd |only 34 files changed, 1852 insertions(+), 2201 deletions(-)
Title: MCMC Sampling from 'TMB' Model Object using 'Stan'
Description: Enables all 'rstan' functionality for a 'TMB' model object, in particular MCMC sampling and chain visualization. Sampling can be performed with or without Laplace approximation for the random effects. This is demonstrated in Monnahan & Kristensen (2018) <DOI:10.1371/journal.pone.0197954>.
Author: Kasper Kristensen [aut, cre]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between tmbstan versions 1.0.91 dated 2023-08-26 and 1.1.0 dated 2026-03-20
tmbstan-1.0.91/tmbstan/inst/model.hpp |only tmbstan-1.0.91/tmbstan/src/include/model.hpp |only tmbstan-1.1.0/tmbstan/DESCRIPTION | 19 +++++++++------ tmbstan-1.1.0/tmbstan/MD5 | 10 +++----- tmbstan-1.1.0/tmbstan/R/tmbstan.R | 33 ++++++++++++++++++--------- tmbstan-1.1.0/tmbstan/man/tmbstan.Rd | 22 +++++++++--------- tmbstan-1.1.0/tmbstan/tools/autogen.R | 4 +-- 7 files changed, 52 insertions(+), 36 deletions(-)
Title: Multidimensional Penalized Splines for (Excess) Hazard Models,
Relative Mortality Ratio Models and Marginal Intensity Models
Description: Fits (excess) hazard, relative mortality ratio or marginal intensity models with multidimensional penalized splines allowing for
time-dependent effects, non-linear effects and interactions between several continuous covariates. In survival and net survival analysis, in addition to modelling the effect of time (via the baseline hazard), one has often to deal with several continuous covariates and model their functional forms, their time-dependent effects, and their interactions. Model specification becomes therefore a complex problem and penalized regression splines represent an appealing solution to that problem as splines offer the required flexibility while penalization limits overfitting issues. Current implementations of penalized survival models can be slow or unstable and sometimes lack some key features like taking into account expected mortality to provide net survival and excess hazard estimates. In contrast, survPen provides an automated, fast, and stable implementation (than [...truncated...]
Author: Mathieu Fauvernier [aut, cre],
Laurent Roche [aut],
Laurent Remontet [aut],
Zoe Uhry [ctb],
Nadine Bossard [ctb],
Elsa Coz [ctb]
Maintainer: Mathieu Fauvernier <mathieu.fauvernier@gmail.com>
Diff between survPen versions 2.0.2 dated 2025-03-08 and 2.0.3 dated 2026-03-20
survPen-2.0.2/survPen/R/survPenV2_02.r |only survPen-2.0.3/survPen/DESCRIPTION | 6 - survPen-2.0.3/survPen/MD5 | 10 - survPen-2.0.3/survPen/NEWS | 7 + survPen-2.0.3/survPen/R/survPenV2_03.r |only survPen-2.0.3/survPen/build/vignette.rds |binary survPen-2.0.3/survPen/inst/doc/survival_analysis_with_survPen.html | 57 ++++------ 7 files changed, 40 insertions(+), 40 deletions(-)
Title: Seamless Access to World Bank International Debt Statistics
(IDS)
Description: Access and analyze the World Bank's International Debt Statistics
(IDS) <https://www.worldbank.org/en/programs/debt-statistics/ids>.
IDS provides creditor-debtor relationships between countries, regions, and
institutions. 'wbids' enables users to download, process and work with IDS
series across multiple geographies, counterparts, and time periods.
Author: Teal Emery [aut, cre],
Teal Insights [cph],
Christoph Scheuch [aut] ,
Christopher Smith [ctb]
Maintainer: Teal Emery <lte@tealinsights.com>
Diff between wbids versions 1.1.4 dated 2026-03-10 and 1.1.5 dated 2026-03-20
DESCRIPTION | 14 MD5 | 39 NEWS.md | 80 - R/ids_bulk.R | 50 - R/ids_bulk_files.R | 1 man/ids_bulk.Rd | 2 man/ids_bulk_files.Rd | 2 man/ids_bulk_series.Rd | 2 man/ids_get_ed.Rd | 2 tests/testthat/helper.R |only tests/testthat/test-ids_bulk.R | 689 +++++++------ tests/testthat/test-ids_bulk_files.R | 24 tests/testthat/test-ids_bulk_series.R | 30 tests/testthat/test-ids_get.R | 1336 ++++++++++++++------------- tests/testthat/test-ids_get_ed.R | 20 tests/testthat/test-ids_list_counterparts.R | 20 tests/testthat/test-ids_list_entities.R | 48 tests/testthat/test-ids_list_series.R | 18 tests/testthat/test-ids_list_series_topics.R | 16 tests/testthat/test-perform_request.R | 161 +-- tests/testthat/test-read_bulk_info.R | 24 21 files changed, 1370 insertions(+), 1208 deletions(-)
Title: Compact Inline Widgets for 'shiny' Apps
Description: Provides a basic set of compact widgets for 'shiny' apps which
occupy less space and can appear inline with surrounding text.
Author: Nick Davies [aut, cre]
Maintainer: Nick Davies <nicholas.davies@lshtm.ac.uk>
Diff between inshiny versions 0.1.2 dated 2026-02-14 and 0.1.3 dated 2026-03-20
DESCRIPTION | 6 +++--- MD5 | 15 ++++++++------- NEWS.md | 13 +++++++++++++ R/number.R | 25 ++++++++++++++++--------- inst/www/inshiny/inshiny.css | 13 ++++++++++++- man/inline_number.Rd | 7 ++++++- tests/testthat/_snaps/shiny-1.12.0/action.md | 13 ------------- tests/testthat/_snaps/shiny-1.13.0 |only tests/testthat/test-action.R | 14 ++++++++++++-- 9 files changed, 70 insertions(+), 36 deletions(-)
Title: Information-Theoretic Measure of Causality
Description: Methods for quantifying temporal and spatial causality through information flow, and decomposing it into unique, redundant, and synergistic components, following the framework described in Martinez-Sanchez et al. (2024) <doi:10.1038/s41467-024-53373-4>.
Author: Wenbo Lyu [aut, cre, cph]
Maintainer: Wenbo Lyu <lyu.geosocial@gmail.com>
Diff between infocausality versions 1.0 dated 2025-11-03 and 1.1 dated 2026-03-20
infocausality-1.0/infocausality/inst/python/__pycache__ |only infocausality-1.1/infocausality/DESCRIPTION | 15 infocausality-1.1/infocausality/MD5 | 30 infocausality-1.1/infocausality/NAMESPACE | 8 infocausality-1.1/infocausality/NEWS.md | 6 infocausality-1.1/infocausality/R/Agenerics.R | 24 infocausality-1.1/infocausality/R/RcppExports.R | 62 - infocausality-1.1/infocausality/R/infocausality-package.R | 8 infocausality-1.1/infocausality/R/surd.R | 166 +-- infocausality-1.1/infocausality/R/utils.R | 24 infocausality-1.1/infocausality/R/zzz.R | 15 infocausality-1.1/infocausality/README.md | 16 infocausality-1.1/infocausality/build/vignette.rds |binary infocausality-1.1/infocausality/inst/CITATION |only infocausality-1.1/infocausality/inst/doc/surd.html | 5 infocausality-1.1/infocausality/inst/python/InfoCausality.py | 530 +++++------ infocausality-1.1/infocausality/man/surd.Rd | 174 +-- 17 files changed, 552 insertions(+), 531 deletions(-)
Title: Feature Stores for the 'diseasy' Framework
Description: Simple feature stores and tools for creating personalised feature stores.
'diseasystore' powers feature stores which can automatically link and aggregate features to a given stratification
level. These feature stores are automatically time-versioned (powered by the 'SCDB' package) and allows you to easily
and dynamically compute features as part of your continuous integration.
Author: Rasmus Skytte Randloev [aut, cre] ,
Kaare Graesboell [rev] ,
Kasper Schou Telkamp [rev] ,
Lasse Engbo Christiansen [rev] ,
Marcus Munch Gruenewald [rev] ,
Sofia Myrup Otero [rev],
Statens Serum Institut, SSI [cph, fnd]
Maintainer: Rasmus Skytte Randloev <rske@ssi.dk>
Diff between diseasystore versions 0.3.2 dated 2025-10-17 and 0.3.3 dated 2026-03-20
DESCRIPTION | 13 MD5 | 59 +-- NEWS.md | 368 ++++++++++---------- R/0_linters.R | 10 R/0_miscellaneous.R | 4 R/DiseasystoreBase.R | 216 ++++++----- R/age_helpers.R | 2 R/test_diseasystore.R | 35 + inst/WORDLIST | 48 ++ inst/doc/benchmarks.html | 2 inst/doc/diseasystore-ecdc-respiratory-viruses.html | 4 inst/doc/diseasystore-google-covid-19.R | 2 inst/doc/diseasystore-google-covid-19.Rmd | 2 inst/doc/diseasystore-google-covid-19.html | 6 inst/doc/diseasystore.html | 18 inst/doc/extending-diseasystore-example.Rmd | 34 - inst/doc/extending-diseasystore-example.html | 42 +- inst/doc/extending-diseasystore.Rmd | 15 inst/extdata/benchmarks.rds |binary man/DiseasystoreBase.Rd | 38 ++ man/DiseasystoreEcdcRespiratoryViruses.Rd | 1 man/DiseasystoreGoogleCovid19.Rd | 1 man/DiseasystoreSimulist.Rd | 1 tests/testthat/test-DiseasystoreBase.R | 280 ++++++++++----- tests/testthat/test-age_helpers.R | 5 vignettes/diseasystore-google-covid-19.Rmd | 2 vignettes/extending-diseasystore-example.Rmd | 34 - vignettes/extending-diseasystore.Rmd | 15 vignettes/vignette_data |only 29 files changed, 771 insertions(+), 486 deletions(-)
Title: Causal Graph Interface
Description: Create, query, and modify causal graphs. 'caugi' (Causal Graph
Interface) is a causality-first, high performance graph package that
provides a simple interface to build, structure, and examine causal
relationships.
Author: Frederik Fabricius-Bjerre [aut, cre, cph],
Johan Larsson [aut] ,
Michael Sachs [aut] ,
Bjarke Hautop Kristensen [aut]
Maintainer: Frederik Fabricius-Bjerre <frederik@fabriciusbjerre.dk>
Diff between caugi versions 1.0.0 dated 2026-01-22 and 1.1.0 dated 2026-03-20
caugi-1.0.0/caugi/R/plot.R |only caugi-1.0.0/caugi/inst/doc/get_started.R |only caugi-1.0.0/caugi/inst/doc/get_started.Rmd |only caugi-1.0.0/caugi/inst/doc/get_started.html |only caugi-1.0.0/caugi/man/dot-cg_state.Rd |only caugi-1.0.0/caugi/man/dot-mark_not_built.Rd |only caugi-1.0.0/caugi/man/dot-view_to_caugi.Rd |only caugi-1.0.0/caugi/vignettes/get_started.Rmd |only caugi-1.1.0/caugi/DESCRIPTION | 23 caugi-1.1.0/caugi/MD5 | 350 - caugi-1.1.0/caugi/NAMESPACE | 9 caugi-1.1.0/caugi/NEWS.md | 57 caugi-1.1.0/caugi/R/adjustment.R | 244 - caugi-1.1.0/caugi/R/all-classes.R | 21 caugi-1.1.0/caugi/R/as_caugi.R | 26 caugi-1.1.0/caugi/R/caugi.R | 421 -- caugi-1.1.0/caugi/R/extendr-wrappers.R | 152 caugi-1.1.0/caugi/R/format-caugi.R | 58 caugi-1.1.0/caugi/R/format-dot.R | 3 caugi-1.1.0/caugi/R/format-graphml.R | 11 caugi-1.1.0/caugi/R/format-mermaid.R | 3 caugi-1.1.0/caugi/R/layout.R |only caugi-1.1.0/caugi/R/methods.R | 176 caugi-1.1.0/caugi/R/metrics.R | 31 caugi-1.1.0/caugi/R/operations.R | 367 + caugi-1.1.0/caugi/R/options.R | 61 caugi-1.1.0/caugi/R/plot-core.R |only caugi-1.1.0/caugi/R/plot-grobs.R |only caugi-1.1.0/caugi/R/queries.R | 849 ++-- caugi-1.1.0/caugi/R/registry.R | 3 caugi-1.1.0/caugi/R/simulation.R | 34 caugi-1.1.0/caugi/R/utils.R | 75 caugi-1.1.0/caugi/R/verbs.R | 386 +- caugi-1.1.0/caugi/R/zzz.R | 31 caugi-1.1.0/caugi/README.md | 18 caugi-1.1.0/caugi/build/vignette.rds |binary caugi-1.1.0/caugi/inst/WORDLIST | 25 caugi-1.1.0/caugi/inst/doc/caugi.R |only caugi-1.1.0/caugi/inst/doc/caugi.Rmd |only caugi-1.1.0/caugi/inst/doc/caugi.html |only caugi-1.1.0/caugi/inst/doc/motivation.Rmd | 2 caugi-1.1.0/caugi/inst/doc/motivation.html | 5 caugi-1.1.0/caugi/inst/doc/package_use.R | 26 caugi-1.1.0/caugi/inst/doc/package_use.Rmd | 37 caugi-1.1.0/caugi/inst/doc/package_use.html | 108 caugi-1.1.0/caugi/inst/doc/serialization.R | 7 caugi-1.1.0/caugi/inst/doc/serialization.Rmd | 12 caugi-1.1.0/caugi/inst/doc/serialization.html | 61 caugi-1.1.0/caugi/inst/doc/visualization.Rmd | 2 caugi-1.1.0/caugi/inst/doc/visualization.html | 247 - caugi-1.1.0/caugi/man/add-caugi_plot-caugi_plot.Rd | 2 caugi-1.1.0/caugi/man/adjustment_set.Rd | 3 caugi-1.1.0/caugi/man/all.equal.caugi-colon-colon-caugi.Rd |only caugi-1.1.0/caugi/man/all_adjustment_sets_admg.Rd | 3 caugi-1.1.0/caugi/man/all_backdoor_sets.Rd | 3 caugi-1.1.0/caugi/man/ancestors.Rd | 18 caugi-1.1.0/caugi/man/anteriors.Rd | 18 caugi-1.1.0/caugi/man/as_caugi.Rd | 4 caugi-1.1.0/caugi/man/build.Rd | 31 caugi-1.1.0/caugi/man/caugi-package.Rd | 2 caugi-1.1.0/caugi/man/caugi.Rd | 30 caugi-1.1.0/caugi/man/caugi_deserialize.Rd | 5 caugi-1.1.0/caugi/man/caugi_layout.Rd | 2 caugi-1.1.0/caugi/man/caugi_layout_bipartite.Rd | 2 caugi-1.1.0/caugi/man/caugi_layout_fruchterman_reingold.Rd | 2 caugi-1.1.0/caugi/man/caugi_layout_kamada_kawai.Rd | 2 caugi-1.1.0/caugi/man/caugi_layout_sugiyama.Rd | 2 caugi-1.1.0/caugi/man/caugi_layout_tiered.Rd | 2 caugi-1.1.0/caugi/man/caugi_options.Rd | 21 caugi-1.1.0/caugi/man/caugi_plot.Rd | 2 caugi-1.1.0/caugi/man/caugi_verbs.Rd | 10 caugi-1.1.0/caugi/man/children.Rd | 6 caugi-1.1.0/caugi/man/compare_proxy.caugi-colon-colon-caugi.Rd |only caugi-1.1.0/caugi/man/condition_marginalize.Rd | 3 caugi-1.1.0/caugi/man/d_separated.Rd | 9 caugi-1.1.0/caugi/man/dag_from_pdag.Rd |only caugi-1.1.0/caugi/man/descendants.Rd | 18 caugi-1.1.0/caugi/man/districts.Rd | 30 caugi-1.1.0/caugi/man/divide-caugi_plot-caugi_plot.Rd | 2 caugi-1.1.0/caugi/man/dot-build_edges_from_session.Rd |only caugi-1.1.0/caugi/man/dot-nodes_to_indices.Rd |only caugi-1.1.0/caugi/man/dot-resolve_idx0_get.Rd | 16 caugi-1.1.0/caugi/man/dot-session_to_caugi.Rd |only caugi-1.1.0/caugi/man/dot-sync_session_inplace.Rd |only caugi-1.1.0/caugi/man/dot-update_caugi.Rd | 11 caugi-1.1.0/caugi/man/dot-validate_nodes_and_index.Rd |only caugi-1.1.0/caugi/man/edge_types.Rd | 3 caugi-1.1.0/caugi/man/edges.Rd | 9 caugi-1.1.0/caugi/man/exogenize.Rd | 3 caugi-1.1.0/caugi/man/exogenous.Rd | 3 caugi-1.1.0/caugi/man/figures/README-unnamed-chunk-5-1.png |binary caugi-1.1.0/caugi/man/generate_graph.Rd | 4 caugi-1.1.0/caugi/man/is_acyclic.Rd | 3 caugi-1.1.0/caugi/man/is_admg.Rd | 3 caugi-1.1.0/caugi/man/is_ag.Rd | 3 caugi-1.1.0/caugi/man/is_caugi.Rd | 3 caugi-1.1.0/caugi/man/is_cpdag.Rd | 8 caugi-1.1.0/caugi/man/is_dag.Rd | 3 caugi-1.1.0/caugi/man/is_empty_caugi.Rd | 3 caugi-1.1.0/caugi/man/is_mag.Rd | 3 caugi-1.1.0/caugi/man/is_mpdag.Rd |only caugi-1.1.0/caugi/man/is_pdag.Rd | 3 caugi-1.1.0/caugi/man/is_simple.Rd |only caugi-1.1.0/caugi/man/is_ug.Rd | 3 caugi-1.1.0/caugi/man/is_valid_adjustment_admg.Rd | 3 caugi-1.1.0/caugi/man/is_valid_backdoor.Rd | 3 caugi-1.1.0/caugi/man/latent_project.Rd | 3 caugi-1.1.0/caugi/man/m_separated.Rd | 9 caugi-1.1.0/caugi/man/makeContent.caugi_edge_grob.Rd | 2 caugi-1.1.0/caugi/man/markov_blanket.Rd | 6 caugi-1.1.0/caugi/man/meek_closure.Rd |only caugi-1.1.0/caugi/man/minimal_d_separator.Rd |only caugi-1.1.0/caugi/man/moralize.Rd | 3 caugi-1.1.0/caugi/man/mutate_caugi.Rd | 3 caugi-1.1.0/caugi/man/neighbors.Rd | 6 caugi-1.1.0/caugi/man/nodes.Rd | 11 caugi-1.1.0/caugi/man/normalize_latent_structure.Rd |only caugi-1.1.0/caugi/man/parents.Rd | 6 caugi-1.1.0/caugi/man/plot.Rd | 14 caugi-1.1.0/caugi/man/posteriors.Rd |only caugi-1.1.0/caugi/man/read_caugi.Rd | 5 caugi-1.1.0/caugi/man/same_nodes.Rd | 3 caugi-1.1.0/caugi/man/skeleton.Rd | 5 caugi-1.1.0/caugi/man/spouses.Rd | 5 caugi-1.1.0/caugi/man/subgraph.Rd | 6 caugi-1.1.0/caugi/man/topological_sort.Rd | 3 caugi-1.1.0/caugi/src/rust/Cargo.lock | 10 caugi-1.1.0/caugi/src/rust/Cargo.toml | 4 caugi-1.1.0/caugi/src/rust/src/edges/mod.rs | 21 caugi-1.1.0/caugi/src/rust/src/graph/admg/adjustment.rs | 20 caugi-1.1.0/caugi/src/rust/src/graph/admg/mod.rs | 172 caugi-1.1.0/caugi/src/rust/src/graph/admg/msep.rs | 36 caugi-1.1.0/caugi/src/rust/src/graph/ag/mod.rs | 316 + caugi-1.1.0/caugi/src/rust/src/graph/ag/msep.rs | 24 caugi-1.1.0/caugi/src/rust/src/graph/alg.rs | 1 caugi-1.1.0/caugi/src/rust/src/graph/alg/bitset.rs | 8 caugi-1.1.0/caugi/src/rust/src/graph/alg/csr.rs | 45 caugi-1.1.0/caugi/src/rust/src/graph/alg/meek.rs |only caugi-1.1.0/caugi/src/rust/src/graph/alg/traversal.rs | 119 caugi-1.1.0/caugi/src/rust/src/graph/builder.rs | 15 caugi-1.1.0/caugi/src/rust/src/graph/dag/adjustment.rs | 1 caugi-1.1.0/caugi/src/rust/src/graph/dag/mod.rs | 119 caugi-1.1.0/caugi/src/rust/src/graph/dag/separation.rs |only caugi-1.1.0/caugi/src/rust/src/graph/dag/transforms.rs | 836 +++- caugi-1.1.0/caugi/src/rust/src/graph/error.rs | 6 caugi-1.1.0/caugi/src/rust/src/graph/graphml.rs | 172 caugi-1.1.0/caugi/src/rust/src/graph/layout/components.rs | 39 caugi-1.1.0/caugi/src/rust/src/graph/layout/kamada_kawai.rs | 33 caugi-1.1.0/caugi/src/rust/src/graph/layout/mod.rs | 54 caugi-1.1.0/caugi/src/rust/src/graph/layout/optimizer.rs | 34 caugi-1.1.0/caugi/src/rust/src/graph/layout/sugiyama.rs | 13 caugi-1.1.0/caugi/src/rust/src/graph/layout/tiered.rs | 30 caugi-1.1.0/caugi/src/rust/src/graph/metrics.rs | 27 caugi-1.1.0/caugi/src/rust/src/graph/mod.rs | 212 + caugi-1.1.0/caugi/src/rust/src/graph/packed.rs |only caugi-1.1.0/caugi/src/rust/src/graph/pdag/cpdag.rs | 100 caugi-1.1.0/caugi/src/rust/src/graph/pdag/mod.rs | 181 caugi-1.1.0/caugi/src/rust/src/graph/pdag/transforms.rs | 513 ++ caugi-1.1.0/caugi/src/rust/src/graph/serialization.rs | 207 + caugi-1.1.0/caugi/src/rust/src/graph/session.rs |only caugi-1.1.0/caugi/src/rust/src/graph/ug.rs | 53 caugi-1.1.0/caugi/src/rust/src/graph/view.rs | 396 +- caugi-1.1.0/caugi/src/rust/src/lib.rs | 1896 +++++----- caugi-1.1.0/caugi/src/rust/src/reactive |only caugi-1.1.0/caugi/src/rust/vendor.tar.xz |binary caugi-1.1.0/caugi/tests/testthat/test-adjustment.R | 46 caugi-1.1.0/caugi/tests/testthat/test-admg.R | 4 caugi-1.1.0/caugi/tests/testthat/test-ag.R | 37 caugi-1.1.0/caugi/tests/testthat/test-as_caugi.R | 128 caugi-1.1.0/caugi/tests/testthat/test-builder-rust.R | 128 caugi-1.1.0/caugi/tests/testthat/test-caugi_graph.R | 188 caugi-1.1.0/caugi/tests/testthat/test-caugi_to.R | 12 caugi-1.1.0/caugi/tests/testthat/test-format-caugi.R | 57 caugi-1.1.0/caugi/tests/testthat/test-format-dot.R | 21 caugi-1.1.0/caugi/tests/testthat/test-format-graphml.R | 4 caugi-1.1.0/caugi/tests/testthat/test-format-mermaid.R | 32 caugi-1.1.0/caugi/tests/testthat/test-methods.R |only caugi-1.1.0/caugi/tests/testthat/test-normalize-latent-structure.R |only caugi-1.1.0/caugi/tests/testthat/test-operations.R | 324 + caugi-1.1.0/caugi/tests/testthat/test-options.R |only caugi-1.1.0/caugi/tests/testthat/test-plot-composition.R | 29 caugi-1.1.0/caugi/tests/testthat/test-plot.R | 331 + caugi-1.1.0/caugi/tests/testthat/test-queries.R | 804 ++++ caugi-1.1.0/caugi/tests/testthat/test-registry.R | 47 caugi-1.1.0/caugi/tests/testthat/test-separation.R |only caugi-1.1.0/caugi/tests/testthat/test-simulation.R | 37 caugi-1.1.0/caugi/tests/testthat/test-tiered-layout.R | 31 caugi-1.1.0/caugi/tests/testthat/test-topological-sort.R | 6 caugi-1.1.0/caugi/tests/testthat/test-verbs.R | 345 + caugi-1.1.0/caugi/vignettes/caugi.Rmd |only caugi-1.1.0/caugi/vignettes/motivation.Rmd | 2 caugi-1.1.0/caugi/vignettes/package_use.Rmd | 37 caugi-1.1.0/caugi/vignettes/performance.html |only caugi-1.1.0/caugi/vignettes/plotting.html |only caugi-1.1.0/caugi/vignettes/serialization.Rmd | 12 caugi-1.1.0/caugi/vignettes/visualization.Rmd | 2 196 files changed, 9283 insertions(+), 3447 deletions(-)
Title: The Ultimate Tool for Reading Data in Bulk
Description: Designed to simplify and streamline the process of reading
and processing large volumes of data in R, this package offers a
collection of functions tailored for bulk data operations. It enables
users to efficiently read multiple sheets from Microsoft Excel and
Google Sheets workbooks, as well as various CSV files from a
directory. The data is returned as organized data frames, facilitating
further analysis and manipulation. Ideal for handling extensive data
sets or batch processing tasks, bulkreadr empowers users to manage
data in bulk effortlessly, saving time and effort in data preparation
workflows. Additionally, the package seamlessly works with labelled
data from SPSS and Stata.
Author: Ezekiel Ogundepo [aut, cre] ,
Ernest Fokoue [ctb] ,
Golibe Ezeechesi [ctb],
Fatimo Adebanjo [ctb],
Isaac Ajao [ctb]
Maintainer: Ezekiel Ogundepo <gbganalyst@gmail.com>
Diff between bulkreadr versions 1.2.1 dated 2025-07-28 and 1.2.2 dated 2026-03-20
DESCRIPTION | 14 - MD5 | 32 +-- NAMESPACE | 1 NEWS.md | 173 ++++++++++--------- R/bulkreadr-package.R | 2 R/inspect_na.R | 132 +++++++++----- README.md | 2 build/vignette.rds |binary inst/doc/intro-to-bulkreadr.html | 15 - inst/doc/labelled-data.Rmd | 256 ++++++++++++++-------------- inst/doc/labelled-data.html | 5 inst/doc/other-functions.R | 1 inst/doc/other-functions.Rmd | 351 +++++++++++++++++++-------------------- inst/doc/other-functions.html | 49 ++--- man/inspect_na.Rd | 33 +-- vignettes/labelled-data.Rmd | 256 ++++++++++++++-------------- vignettes/other-functions.Rmd | 351 +++++++++++++++++++-------------------- 17 files changed, 860 insertions(+), 813 deletions(-)
Title: Calibration of Computer-Coded Verbal Autopsy Algorithm
Description: Calibrates population-level cause-specific mortality fractions (CSMFs) that are derived using computer-coded verbal autopsy (CCVA) algorithms. Leveraging the data collected in the Child Health and Mortality Prevention Surveillance (CHAMPS;<https://champshealth.org/>) project, the package stores misclassification matrix estimates of three CCVA algorithms (EAVA, InSilicoVA, and InterVA) and two age groups (neonates aged 0-27 days, and children aged 1-59 months) across countries (specific estimates for Bangladesh, Ethiopia, Kenya, Mali, Mozambique, Sierra Leone, and South Africa, and a combined estimate for all other countries), enabling global calibration. These estimates are obtained using the framework proposed in Pramanik et al. (2025;<doi:10.1214/24-AOAS2006>) and are analyzed in Pramanik et al. (2026;<doi:10.1136/bmjgh-2025-021747>). Given VA-only data for an age group, CCVA algorithm, and country, the package utilizes the corresponding misclassification matrix est [...truncated...]
Author: Sandipan Pramanik [aut, cre] ,
Emily Wilson [aut],
Jacob Fiksel [aut],
Brian Gilbert [aut],
Abhirup Datta [aut]
Maintainer: Sandipan Pramanik <sandy.pramanik@gmail.com>
Diff between vacalibration versions 2.0 dated 2025-07-24 and 2.2 dated 2026-03-20
vacalibration-2.0/vacalibration/R/Mmat_champs.R |only vacalibration-2.0/vacalibration/R/comsamoz_public_broad.R |only vacalibration-2.0/vacalibration/R/comsamoz_public_openVAout.R |only vacalibration-2.0/vacalibration/R/modular_vacalib.R |only vacalibration-2.0/vacalibration/data/Mmat_champs.rda |only vacalibration-2.0/vacalibration/data/comsamoz_public_broad.rda |only vacalibration-2.0/vacalibration/data/comsamoz_public_openVAout.rda |only vacalibration-2.0/vacalibration/inst/stan/seqcalib_mmat.rds |only vacalibration-2.0/vacalibration/man/Mmat_champs.Rd |only vacalibration-2.0/vacalibration/man/comsamoz_public_broad.Rd |only vacalibration-2.0/vacalibration/man/comsamoz_public_openVAout.Rd |only vacalibration-2.0/vacalibration/man/modular.vacalib.Rd |only vacalibration-2.2/vacalibration/DESCRIPTION | 20 vacalibration-2.2/vacalibration/LICENSE |only vacalibration-2.2/vacalibration/MD5 | 68 vacalibration-2.2/vacalibration/NAMESPACE | 8 vacalibration-2.2/vacalibration/R/CCVA_missmat.R |only vacalibration-2.2/vacalibration/R/cause_map.R | 64 vacalibration-2.2/vacalibration/R/comsamoz_CCVAoutput.R |only vacalibration-2.2/vacalibration/R/model_utils.R |only vacalibration-2.2/vacalibration/R/modular_vacalib_fixed.R |only vacalibration-2.2/vacalibration/R/modular_vacalib_prior.R |only vacalibration-2.2/vacalibration/R/plot_vacalib.R |only vacalibration-2.2/vacalibration/R/plot_vacalib_fixed.R |only vacalibration-2.2/vacalibration/R/plot_vacalib_prior.R |only vacalibration-2.2/vacalibration/R/smart_round.R |only vacalibration-2.2/vacalibration/R/vacalibration.R | 1331 ++++- vacalibration-2.2/vacalibration/R/zzz.R | 19 vacalibration-2.2/vacalibration/README.md |only vacalibration-2.2/vacalibration/build/partial.rdb |only vacalibration-2.2/vacalibration/build/vignette.rds |binary vacalibration-2.2/vacalibration/data/CCVA_missmat.rda |only vacalibration-2.2/vacalibration/data/comsamoz_CCVAoutput.rda |only vacalibration-2.2/vacalibration/inst/doc/intro_to_vacalibration.R | 199 vacalibration-2.2/vacalibration/inst/doc/intro_to_vacalibration.Rmd | 359 - vacalibration-2.2/vacalibration/inst/doc/intro_to_vacalibration.html | 2366 +++++++--- vacalibration-2.2/vacalibration/inst/stan/seqcalib.rds |binary vacalibration-2.2/vacalibration/inst/stan/seqcalib.stan | 70 vacalibration-2.2/vacalibration/inst/stan/seqcalib_mmat.stan | 60 vacalibration-2.2/vacalibration/man/CCVA_missmat.Rd |only vacalibration-2.2/vacalibration/man/cause_map.Rd | 30 vacalibration-2.2/vacalibration/man/comsamoz_CCVAoutput.Rd |only vacalibration-2.2/vacalibration/man/figures |only vacalibration-2.2/vacalibration/man/modular_vacalib_fixed.Rd |only vacalibration-2.2/vacalibration/man/modular_vacalib_prior.Rd |only vacalibration-2.2/vacalibration/man/plot_vacalib.Rd |only vacalibration-2.2/vacalibration/man/plot_vacalib_fixed.Rd |only vacalibration-2.2/vacalibration/man/plot_vacalib_prior.Rd |only vacalibration-2.2/vacalibration/man/smart_round.Rd |only vacalibration-2.2/vacalibration/man/vacalibration.Rd | 367 - vacalibration-2.2/vacalibration/vignettes/custom.css |only vacalibration-2.2/vacalibration/vignettes/figures |only vacalibration-2.2/vacalibration/vignettes/intro_to_vacalibration.Rmd | 359 - 53 files changed, 3619 insertions(+), 1701 deletions(-)
Title: Construct Process Maps Using Event Data
Description: Visualize event logs using directed graphs, i.e. process maps. Part of the 'bupaR' framework.
Author: Gert Janssenswillen [aut],
Gerard van Hulzen [ctb],
Benoît Depaire [cre],
Felix Mannhardt [ctb],
Thijs Beuving [ctb],
urvikalia [ctb],
Hasselt University [cph]
Maintainer: Benoît Depaire <benoit.depaire@uhasselt.be>
This is a re-admission after prior archival of version 0.5.7 dated 2025-07-09
Diff between processmapR versions 0.5.7 dated 2025-07-09 and 0.5.8 dated 2026-03-20
DESCRIPTION | 26 ++++++++-------- MD5 | 21 ++++++------- NAMESPACE | 1 R/dotted_chart.R | 2 - R/groupby_helpers.R |only R/processmapR.R | 4 +- R/resource_map.R | 2 - R/trace_explorer.R | 61 ++++++++++++++++++++++++++++---------- R/utils.R | 8 ++++ README.md | 3 - inst/doc/processmapr.html | 4 +- man/figures/README-example2-1.png |binary 12 files changed, 84 insertions(+), 48 deletions(-)
Title: Necessary Condition Analysis
Description: Performs a Necessary Condition Analysis (NCA). (Dul, J. 2016. Necessary Condition Analysis (NCA). ''Logic and Methodology of 'Necessary but not Sufficient' causality." Organizational Research Methods 19(1), 10-52) <doi:10.1177/1094428115584005>.
NCA identifies necessary (but not sufficient) conditions in datasets, where x causes (e.g. precedes) y. Instead of drawing a regression line ''through the middle of the data'' in an xy-plot, NCA draws the ceiling line. The ceiling line y = f(x) separates the area with observations from the area without observations.
(Nearly) all observations are below the ceiling line: y <= f(x). The empty zone is in the upper left hand corner of the xy-plot (with the convention that the x-axis is ''horizontal'' and the y-axis is ''vertical'' and that values increase ''upwards'' and ''to the right''). The ceiling line is a (piecewise) linear non-decreasing line: a linear step function or a straight line. It indicates which level of x (e.g., an effort, [...truncated...]
Author: Jan Dul [aut],
Govert Buijs [cre]
Maintainer: Govert Buijs <buijs@rsm.nl>
Diff between NCA versions 4.0.5 dated 2025-12-21 and 5.0.0 dated 2026-03-20
NCA-4.0.5/NCA/R/p_above.R |only NCA-4.0.5/NCA/R/p_fit.R |only NCA-4.0.5/NCA/R/p_nca_ce_cm.R |only NCA-4.0.5/NCA/R/p_nca_ce_cm_conf.R |only NCA-4.0.5/NCA/R/p_nca_ce_fdhi.R |only NCA-4.0.5/NCA/R/p_nca_ce_lfdh.R |only NCA-4.0.5/NCA/R/p_nca_cr_cm.R |only NCA-4.0.5/NCA/R/p_nca_cr_cm_conf.R |only NCA-4.0.5/NCA/R/p_nca_cr_fdhi.R |only NCA-4.0.5/NCA/R/p_nca_ct_fdh.R |only NCA-4.0.5/NCA/R/p_nca_lh.R |only NCA-4.0.5/NCA/R/p_nca_sfa.R |only NCA-5.0.0/NCA/DESCRIPTION | 15 - NCA-5.0.0/NCA/MD5 | 112 +++---- NCA-5.0.0/NCA/NAMESPACE | 15 - NCA-5.0.0/NCA/NEWS.md | 28 + NCA-5.0.0/NCA/R/nca.R | 45 +-- NCA-5.0.0/NCA/R/nca_bottleneck.R | 139 +++++++-- NCA-5.0.0/NCA/R/nca_difference.R |only NCA-5.0.0/NCA/R/nca_extract.R |only NCA-5.0.0/NCA/R/nca_normalize.R |only NCA-5.0.0/NCA/R/nca_outliers.R | 110 ++++--- NCA-5.0.0/NCA/R/nca_output.R | 100 ++++++ NCA-5.0.0/NCA/R/nca_plotly.R | 248 ++++++++-------- NCA-5.0.0/NCA/R/nca_plots.R | 381 ++++++++++++-------------- NCA-5.0.0/NCA/R/nca_power.R | 288 +++++++++++++------ NCA-5.0.0/NCA/R/nca_random.R | 6 NCA-5.0.0/NCA/R/nca_summary.R | 367 +++++++++++++------------ NCA-5.0.0/NCA/R/nca_tests.R | 32 -- NCA-5.0.0/NCA/R/onAttach.R | 57 --- NCA-5.0.0/NCA/R/p_bottleneck.R | 4 NCA-5.0.0/NCA/R/p_ceiling.R | 33 -- NCA-5.0.0/NCA/R/p_confidence.R | 6 NCA-5.0.0/NCA/R/p_constants.R | 58 +-- NCA-5.0.0/NCA/R/p_graphics.R | 2 NCA-5.0.0/NCA/R/p_line_to_points.R |only NCA-5.0.0/NCA/R/p_loop_data.R | 4 NCA-5.0.0/NCA/R/p_metrics.R |only NCA-5.0.0/NCA/R/p_nca_c_lp.R | 102 ++++-- NCA-5.0.0/NCA/R/p_nca_ce_fdh.R | 95 ++++-- NCA-5.0.0/NCA/R/p_nca_ce_vrs.R | 78 +++-- NCA-5.0.0/NCA/R/p_nca_cols.R | 82 +++-- NCA-5.0.0/NCA/R/p_nca_cr_fdh.R | 100 ++++-- NCA-5.0.0/NCA/R/p_nca_cr_vrs.R | 84 +++-- NCA-5.0.0/NCA/R/p_nca_custom.R |only NCA-5.0.0/NCA/R/p_nca_ols.R | 50 ++- NCA-5.0.0/NCA/R/p_nca_qr.R | 78 +++-- NCA-5.0.0/NCA/R/p_peers.R | 11 NCA-5.0.0/NCA/R/p_purity_helpers.R |only NCA-5.0.0/NCA/R/p_purity_metrics.R |only NCA-5.0.0/NCA/R/p_purity_sql.R |only NCA-5.0.0/NCA/R/p_scope.R | 84 ++--- NCA-5.0.0/NCA/R/p_utils.R | 133 +++++---- NCA-5.0.0/NCA/R/p_validate.R | 169 +++++++---- NCA-5.0.0/NCA/build/partial.rdb |binary NCA-5.0.0/NCA/man/NCA-package.Rd | 27 - NCA-5.0.0/NCA/man/nca.Rd | 6 NCA-5.0.0/NCA/man/nca.example.Rd | 6 NCA-5.0.0/NCA/man/nca.example2.Rd | 4 NCA-5.0.0/NCA/man/nca_analysis.Rd | 55 ++- NCA-5.0.0/NCA/man/nca_difference.Rd |only NCA-5.0.0/NCA/man/nca_extract.Rd |only NCA-5.0.0/NCA/man/nca_normalize.Rd |only NCA-5.0.0/NCA/man/nca_outliers.Rd | 16 - NCA-5.0.0/NCA/man/nca_output.Rd | 29 + NCA-5.0.0/NCA/man/nca_power.Rd | 20 - NCA-5.0.0/NCA/man/nca_powerplot.Rd |only NCA-5.0.0/NCA/man/nca_random.Rd | 4 NCA-5.0.0/NCA/tests/testthat/test-intercept.R |only NCA-5.0.0/NCA/tests/testthat/test.p_ceiling.R | 7 70 files changed, 1910 insertions(+), 1380 deletions(-)
Title: Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in
the Lexis diagram, i.e. register and cohort follow-up data. In
particular representation, manipulation, rate estimation and
simulation for multistate data - the Lexis suite of functions, which
includes interfaces to 'mstate', 'etm' and 'cmprsk' packages.
Contains functions for Age-Period-Cohort and Lee-Carter modeling and
a function for interval censored data. Has functions for extracting
and manipulating parameter estimates and predicted values (ci.lin
and its cousins), as well as a number of epidemiological data sets.
Author: Bendix Carstensen [aut, cre],
Martyn Plummer [aut],
Esa Laara [ctb],
Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>
Diff between Epi versions 2.61 dated 2025-10-07 and 2.63 dated 2026-03-20
CHANGES | 23 DESCRIPTION | 8 MD5 | 154 NAMESPACE | 4 R/LexisScarf.R |only R/cutLexis.R | 20 R/lexis.R | 15 R/overlap.Lexis.R |only R/paths.Lexis.R | 10 R/xcutLexis.R | 2 inst/doc/01flup.R | 94 inst/doc/01flup.pdf |binary inst/doc/02addLexis.pdf |binary inst/doc/03crisk.pdf |binary inst/doc/04simLexis.pdf |binary inst/doc/05yll.pdf |binary man/Icens.Rd | 72 man/LexisScarf.Rd |only man/ci.lin.Rd | 38 man/cutLexis.Rd | 2 man/mcutLexis.Rd | 2 man/overlap.Lexis.Rd |only man/paths.Lexis.Rd | 12 man/time.scales.Rd | 8 man/xcutLexis.Rd | 40 vignettes/01flup-Ieff.pdf |binary vignettes/01flup-IeffR.pdf |binary vignettes/01flup-box1.pdf |binary vignettes/01flup-box4.pdf |binary vignettes/01flup-dmL1.pdf |binary vignettes/01flup-dmL2.pdf |binary vignettes/01flup-dur-int-RR.pdf |binary vignettes/01flup-dur-int.pdf |binary vignettes/01flup-ins-time.pdf |binary vignettes/01flup-mbox.pdf |binary vignettes/01flup-mboxr.pdf |binary vignettes/01flup-pr-a.pdf |binary vignettes/01flup-sep-HR.pdf |binary vignettes/01flup-sep-mort.pdf |binary vignettes/01flup.R | 94 vignettes/01flup.pdf | 6380 +++++++++++++++----------------------- vignettes/01flup.rnw | 68 vignettes/01flup.tex | 140 vignettes/02addLexis.pdf | 1772 +++++----- vignettes/02addLexis.rnw | 4 vignettes/02addLexis.tex | 20 vignettes/03crisk-Sr1.pdf |binary vignettes/03crisk-Sr2.pdf |binary vignettes/03crisk-boxes.pdf |binary vignettes/03crisk-boxes4.pdf |binary vignettes/03crisk-boxes5.pdf |binary vignettes/03crisk-cR.pdf |binary vignettes/03crisk-crates.pdf |binary vignettes/03crisk-difrat.pdf |binary vignettes/03crisk-difratx.pdf |binary vignettes/03crisk-rates-ci.pdf |binary vignettes/03crisk-rates-l.pdf |binary vignettes/03crisk-rates.pdf |binary vignettes/03crisk-stack-ci.pdf |binary vignettes/03crisk-stack.pdf |binary vignettes/03crisk.pdf | 2900 ++++++++--------- vignettes/03crisk.rnw | 4 vignettes/03crisk.tex | 12 vignettes/04simLexis-boxes.pdf |binary vignettes/04simLexis-comp-0.pdf |binary vignettes/04simLexis-mort-int.pdf |binary vignettes/04simLexis-pstate0.pdf |binary vignettes/04simLexis-pstatex.pdf |binary vignettes/04simLexis-pstatey.pdf |binary vignettes/04simLexis.pdf | 6342 ++++++++++++++++++------------------- vignettes/04simLexis.rnw | 10 vignettes/04simLexis.tex | 44 vignettes/05yll-imm.pdf |binary vignettes/05yll-states.pdf |binary vignettes/05yll-sus.pdf |binary vignettes/05yll-tot.pdf |binary vignettes/05yll.pdf |binary vignettes/05yll.rnw | 4 vignettes/05yll.tex | 12 vignettes/fixall.bat | 12 80 files changed, 8608 insertions(+), 9714 deletions(-)
Title: Create Spreadsheet Publications Following Best Practice
Description: Generate spreadsheet publications that follow best practice
guidance from the UK government's Analysis Function, available at
<https://analysisfunction.civilservice.gov.uk/policy-store/releasing-statistics-in-spreadsheets/>,
with a focus on accessibility. See also the 'Python' package 'gptables'.
Author: Matt Dray [aut],
Tim Taylor [ctb],
Matt Kerlogue [ctb],
Crown Copyright [cph],
Olivia Box Power [cre, ctb],
Zachary Gleisner [ctb]
Maintainer: Olivia Box Power <Olivia.BoxPower@dhsc.gov.uk>
Diff between aftables versions 1.0.1 dated 2025-02-19 and 2.0.0 dated 2026-03-20
DESCRIPTION | 28 - MD5 | 117 +++--- NAMESPACE | 19 NEWS.md | 12 R/addin.R | 16 R/aftable.R | 46 -- R/aftables-package.R | 18 R/config_utils.R |only R/data.R | 10 R/sysdata.rda |only R/utils-aftable.R | 36 - R/utils-workbook-style.R | 385 ++++++++++--------- R/utils-workbook.R | 641 ++++++++++++++++++++++++--------- R/utils.R | 3 R/workbook.R | 121 +++++- README.md | 34 - build/vignette.rds |binary data/demo_workbook.rda |binary inst/doc/aftables.R | 7 inst/doc/aftables.Rmd | 517 +++++++++++++------------- inst/doc/aftables.html | 137 ++----- inst/doc/checklist.Rmd | 194 ++++----- inst/doc/checklist.html | 17 inst/doc/configfiles.R |only inst/doc/configfiles.Rmd |only inst/doc/configfiles.html |only inst/doc/structure.Rmd | 349 +++++++++-------- inst/doc/structure.html | 73 +-- inst/doc/terminology.Rmd | 124 +++--- inst/doc/terminology.html | 2 inst/ext-data |only inst/rstudio/addins.dcf | 11 man/aftables-package.Rd | 3 man/at_template_aftable.Rd | 4 man/at_template_workflow.Rd | 2 man/create_aftable.Rd | 22 - man/create_config_yaml.Rd |only man/demo_aftable.Rd | 4 man/demo_df.Rd | 2 man/demo_workbook.Rd | 4 man/figures/vignette-workbook.gif |binary man/generate_workbook.Rd | 81 +++- tests/testthat/configs |only tests/testthat/test-addins.R | 1 tests/testthat/test-aftable.R | 385 ++++++++++--------- tests/testthat/test-apply-config.R |only tests/testthat/test-read-config-yaml.R |only tests/testthat/test-utils.R | 168 ++++++++ tests/testthat/test-workbook.R | 56 ++ vignettes/aftables.Rmd | 517 +++++++++++++------------- vignettes/checklist.Rmd | 194 ++++----- vignettes/configfiles.Rmd |only vignettes/structure.Rmd | 349 +++++++++-------- vignettes/terminology.Rmd | 124 +++--- 54 files changed, 2742 insertions(+), 2091 deletions(-)
Title: Analysing Prognostic Studies
Description: Functions that help with analysis of prognostic study data. This allows users with little experience of developing models to develop models and assess the performance of the prognostic models. This also summarises the information, so the performance of multiple models can be displayed simultaneously. This minor update fixes issues related to memory requirements with large number of simulations and deals with situations when there is overfitting of data. Gurusamy, K (2026)<https://github.com/kurinchi2k/EQUALPrognosis>.
Author: Kurinchi Gurusamy [aut, cre]
Maintainer: Kurinchi Gurusamy <k.gurusamy@ucl.ac.uk>
Diff between EQUALPrognosis versions 0.1.2 dated 2026-02-04 and 0.1.3 dated 2026-03-20
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/calculate_actual_predicted.R | 2 +- R/compile_results.R | 26 +++++++++++++------------- 4 files changed, 22 insertions(+), 22 deletions(-)
More information about EQUALPrognosis at CRAN
Permanent link
Title: Exploratory and Descriptive Event-Based Data Analysis
Description: Exploratory and descriptive analysis of event based data. Provides methods for describing and selecting process data, and for preparing event log data for process mining. Builds on the S3-class for event logs implemented in the package 'bupaR'.
Author: Benoît Depaire [cre],
Gert Janssenswillen [aut],
Gerard van Hulzen [ctb],
Marijke Swennen [ctb],
Ivan Esin [ctb],
Felix Mannhardt [ctb],
Hasselt University [cph]
Maintainer: Benoît Depaire <benoit.depaire@uhasselt.be>
Diff between edeaR versions 1.0.0 dated 2025-11-29 and 1.0.1 dated 2026-03-20
edeaR-1.0.0/edeaR/R/ifilter.R |only edeaR-1.0.0/edeaR/man/ifilter.Rd |only edeaR-1.0.1/edeaR/DESCRIPTION | 6 edeaR-1.0.1/edeaR/MD5 | 144 ++--- edeaR-1.0.1/edeaR/R/activity_frequency.R | 222 ++++---- edeaR-1.0.1/edeaR/R/activity_presence.R | 198 +++---- edeaR-1.0.1/edeaR/R/calculate_queuing_times.R | 114 ++-- edeaR-1.0.1/edeaR/R/edeaR.R | 70 +- edeaR-1.0.1/edeaR/R/end_activities.R | 228 ++++---- edeaR-1.0.1/edeaR/R/filter_activity.R | 146 ++--- edeaR-1.0.1/edeaR/R/filter_activity_frequency.R | 318 ++++++------ edeaR-1.0.1/edeaR/R/filter_activity_instance.R | 150 ++--- edeaR-1.0.1/edeaR/R/filter_activity_presence.R | 320 ++++++------ edeaR-1.0.1/edeaR/R/filter_case.R | 148 ++--- edeaR-1.0.1/edeaR/R/filter_case_condition.R | 76 +- edeaR-1.0.1/edeaR/R/filter_endpoints.R | 234 ++++----- edeaR-1.0.1/edeaR/R/filter_endpoints_condition.R | 270 +++++----- edeaR-1.0.1/edeaR/R/filter_lifecycle.R | 146 ++--- edeaR-1.0.1/edeaR/R/filter_lifecycle_presence.R | 268 +++++----- edeaR-1.0.1/edeaR/R/filter_precedence.R | 390 +++++++-------- edeaR-1.0.1/edeaR/R/filter_precedence_condition.R | 268 +++++----- edeaR-1.0.1/edeaR/R/filter_precedence_resource.R | 434 ++++++++--------- edeaR-1.0.1/edeaR/R/filter_processing_time.R | 294 +++++------ edeaR-1.0.1/edeaR/R/filter_resource.R | 140 ++--- edeaR-1.0.1/edeaR/R/filter_resource_frequency.R | 320 ++++++------ edeaR-1.0.1/edeaR/R/filter_throughput_time.R | 242 ++++----- edeaR-1.0.1/edeaR/R/filter_time_period.R | 404 +++++++-------- edeaR-1.0.1/edeaR/R/filter_trace_frequency.R | 238 ++++----- edeaR-1.0.1/edeaR/R/filter_trace_length.R | 252 ++++----- edeaR-1.0.1/edeaR/R/filter_trim.R | 316 ++++++------ edeaR-1.0.1/edeaR/R/filter_trim_lifecycle.R | 258 +++++----- edeaR-1.0.1/edeaR/R/groupby_helpers.R | 158 +++--- edeaR-1.0.1/edeaR/R/idle_time.R | 270 +++++----- edeaR-1.0.1/edeaR/R/idle_time_case.R | 114 ++-- edeaR-1.0.1/edeaR/R/idle_time_resource.R | 112 ++-- edeaR-1.0.1/edeaR/R/idle_time_trace.R | 42 - edeaR-1.0.1/edeaR/R/number_of_repetitions.R | 414 ++++++++-------- edeaR-1.0.1/edeaR/R/number_of_selfloops.R | 416 ++++++++-------- edeaR-1.0.1/edeaR/R/number_of_traces.R | 106 ++-- edeaR-1.0.1/edeaR/R/plot.activity_frequency.R | 102 +-- edeaR-1.0.1/edeaR/R/plot.activity_presence.R | 40 - edeaR-1.0.1/edeaR/R/plot.end_activity.R | 138 ++--- edeaR-1.0.1/edeaR/R/plot.idle_time.R | 90 +-- edeaR-1.0.1/edeaR/R/plot.number_of_repetitions.R | 188 +++---- edeaR-1.0.1/edeaR/R/plot.number_of_selfloops.R | 188 +++---- edeaR-1.0.1/edeaR/R/plot.processing_time.R | 130 ++--- edeaR-1.0.1/edeaR/R/plot.referral_matrix.R | 38 - edeaR-1.0.1/edeaR/R/plot.resource_frequency.R | 130 ++--- edeaR-1.0.1/edeaR/R/plot.resource_involvement.R | 94 +-- edeaR-1.0.1/edeaR/R/plot.resource_specialisation.R | 96 +-- edeaR-1.0.1/edeaR/R/plot.start_activities.R | 136 ++--- edeaR-1.0.1/edeaR/R/plot.throughput_time.R | 106 ++-- edeaR-1.0.1/edeaR/R/plot.trace_coverage.R | 114 ++-- edeaR-1.0.1/edeaR/R/plot.trace_length.R | 94 +-- edeaR-1.0.1/edeaR/R/processing_time.R | 354 ++++++------- edeaR-1.0.1/edeaR/R/processing_time_case.R | 56 +- edeaR-1.0.1/edeaR/R/processing_time_trace.R | 54 +- edeaR-1.0.1/edeaR/R/redo_repetitions_referral_matrix.R | 98 +-- edeaR-1.0.1/edeaR/R/redo_selfloops_referral_matrix.R | 92 +-- edeaR-1.0.1/edeaR/R/resource_frequency.R | 250 ++++----- edeaR-1.0.1/edeaR/R/resource_involvement.R | 178 +++--- edeaR-1.0.1/edeaR/R/resource_specialisation.R | 200 +++---- edeaR-1.0.1/edeaR/R/size_of_repetitions.R | 268 +++++----- edeaR-1.0.1/edeaR/R/size_of_selfloops.R | 278 +++++----- edeaR-1.0.1/edeaR/R/start_activities.R | 228 ++++---- edeaR-1.0.1/edeaR/R/throughput_time.R | 312 ++++++------ edeaR-1.0.1/edeaR/R/throughput_time_activity.R | 50 - edeaR-1.0.1/edeaR/R/throughput_time_trace.R | 48 - edeaR-1.0.1/edeaR/R/trace_coverage.R | 150 ++--- edeaR-1.0.1/edeaR/R/trace_length.R | 224 ++++---- edeaR-1.0.1/edeaR/inst/doc/filters.html | 4 edeaR-1.0.1/edeaR/inst/doc/metrics.html | 66 +- edeaR-1.0.1/edeaR/inst/doc/queue.html | 19 edeaR-1.0.1/edeaR/inst/doc/work_schedules.html | 4 74 files changed, 6435 insertions(+), 6428 deletions(-)
Title: Analysing SNP Data to Identify Sex-Linked Markers
Description: Identifies, filters and exports sex linked markers using 'SNP'
(single nucleotide polymorphism) data. To install the other packages, we
recommend to install the 'dartRverse' package, that supports the installation of all packages in the 'dartRverse'.
If you want understand the applied rational to identify sexlinked markers
and/or want to cite 'dartR.sexlinked', you find the information by typing
citation('dartR.sexlinked') in the console.
Author: Diana Robledo-Ruiz [aut, cre],
Floriaan Devloo-Delva [aut],
Bernd Gruber [aut],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Carlo Pacioni [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb]
Maintainer: Diana Robledo-Ruiz <diana.robledoruiz1@monash.edu>
Diff between dartR.sexlinked versions 1.0.5 dated 2024-06-24 and 1.2.2 dated 2026-03-20
DESCRIPTION | 17 - MD5 | 24 - NAMESPACE | 3 R/gl.drop.sexlinked.r | 660 ------------------------------------------- R/gl.filter.sexlinked.r |only R/gl.infer.sex.r | 288 +++++++++++-------- R/gl.keep.sexlinked.r | 678 +++++++++++++++++++++++++-------------------- R/gl.report.sexlinked.r | 565 +++++++++++++++++++++---------------- R/zzz.r | 2 man/gl.drop.sexlinked.Rd | 80 ----- man/gl.filter.sexlinked.Rd |only man/gl.infer.sex.Rd | 69 ++-- man/gl.keep.sexlinked.Rd | 55 +-- man/gl.report.sexlinked.Rd | 71 ++-- 14 files changed, 1033 insertions(+), 1479 deletions(-)
More information about dartR.sexlinked at CRAN
Permanent link
Title: Optimal Pairing and Matching via Linear Assignment
Description: Solves optimal pairing and matching problems using linear assignment
algorithms. Provides implementations of the Hungarian method (Kuhn 1955)
<doi:10.1002/nav.3800020109>, Jonker-Volgenant shortest path algorithm
(Jonker and Volgenant 1987) <doi:10.1007/BF02278710>, Auction algorithm
(Bertsekas 1988) <doi:10.1007/BF02186476>, cost-scaling
(Goldberg and Kennedy 1995) <doi:10.1007/BF01585996>, scaling algorithms
(Gabow and Tarjan 1989) <doi:10.1137/0218069>, push-relabel (Goldberg and
Tarjan 1988) <doi:10.1145/48014.61051>, and Sinkhorn entropy-regularized
transport (Cuturi 2013) <doi:10.48550/arxiv.1306.0895>. Designed for
matching plots, sites, samples, or any pairwise optimization problem.
Supports rectangular matrices, forbidden assignments, data frame inputs,
batch solving, k-best solutions, and pixel-level image morphing for
visualization. Includes automatic preprocessing with variable health
checks, multiple scaling methods (standardized, [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between couplr versions 1.1.0 dated 2026-03-03 and 1.2.0 dated 2026-03-20
DESCRIPTION | 9 MD5 | 139 ++++-- NAMESPACE | 26 + NEWS.md | 126 +++++ R/RcppExports.R | 4 R/matching_cem.R |only R/matching_core.R | 60 +- R/matching_diagnostics.R | 210 +++++++++ R/matching_distance.R | 52 +- R/matching_full.R |only R/matching_interop.R |only R/matching_join.R | 57 ++ R/matching_output.R |only R/matching_parallel.R | 6 R/matching_plots.R | 10 R/matching_subclass.R |only R/utils.R | 3 R/zzz.R | 19 README.md | 64 ++ inst/WORDLIST | 2 inst/doc/algorithms.html | 4 inst/doc/comparison.R | 139 +++--- inst/doc/comparison.Rmd | 52 +- inst/doc/comparison.html | 134 ++++-- inst/doc/getting-started.R | 12 inst/doc/getting-started.Rmd | 44 +- inst/doc/getting-started.html | 393 ++++++++++-------- inst/doc/matching-workflows.R | 205 +++++++++ inst/doc/matching-workflows.Rmd | 312 ++++++++++++++ inst/doc/matching-workflows.html | 495 ++++++++++++++++++++++- inst/doc/pixel-morphing.html | 4 inst/doc/troubleshooting.html | 6 inst/extdata/icons/circleA_40.png |only inst/extdata/icons/circleA_80.png |only inst/extdata/icons/circleB_40.png |only inst/extdata/icons/circleB_80.png |only inst/extdata/icons/circle_color_walk.png |only inst/extdata/icons/circle_exact.png |only inst/extdata/icons/circle_recursive.png |only inst/extdata/morphs/image_color_walk.png |only inst/extdata/morphs/image_exact.png |only inst/extdata/morphs/image_recursive.png |only inst/extdata/work |only man/as_matchit.Rd |only man/bal.tab.matching_result.Rd |only man/balance_diagnostics.Rd | 43 + man/build_cost_matrix.Rd | 3 man/cem_match.Rd |only man/compute_distance_matrix.Rd | 17 man/dot-auto_breaks.Rd |only man/dot-blocks_parallel.Rd | 3 man/dot-couples_blocked.Rd | 3 man/dot-couples_single.Rd | 3 man/full_match.Rd |only man/greedy_couples.Rd | 7 man/greedy_couples_blocked.Rd | 3 man/greedy_couples_single.Rd | 3 man/join_matched.Rd | 25 - man/match_couples.Rd | 7 man/match_couples_blocked.Rd | 3 man/match_couples_single.Rd | 3 man/match_data.Rd |only man/print.cem_result.Rd |only man/print.full_matching_result.Rd |only man/print.subclass_result.Rd |only man/subclass_match.Rd |only src/Makevars | 4 src/Makevars.win | 4 src/RcppExports.cpp | 14 src/rcpp_interface.cpp | 6 src/solvers/solve_full_matching.cpp |only src/solvers/solve_full_matching.h |only src/solvers/solve_full_matching_rcpp.cpp |only tests/testthat/test-lap-solve-batch-coverage-3.R | 6 tests/testthat/test-lap-solve-batch-coverage.R | 17 tests/testthat/test-matching-cem.R |only tests/testthat/test-matching-full-optimal.R |only tests/testthat/test-matching-full.R |only tests/testthat/test-matching-interop.R |only tests/testthat/test-matching-mahalanobis.R |only tests/testthat/test-matching-output.R |only tests/testthat/test-matching-subclass.R |only vignettes/comparison.Rmd | 52 +- vignettes/getting-started.Rmd | 44 +- vignettes/images/ImageA_80.png |only vignettes/images/ImageB_80.png |only vignettes/images/circleA_80.png |only vignettes/images/circleB_80.png |only vignettes/matching-workflows.Rmd | 312 ++++++++++++++ 89 files changed, 2698 insertions(+), 471 deletions(-)
Title: Create Publication-Ready Regression Tables with Panels
Description: Create an automated regression table that is well-suited for models that are estimated with multiple dependent variables. 'panelsummary' extends 'modelsummary' (Arel-Bundock, V. (2022) <doi:10.18637/jss.v103.i01>) by allowing regression tables to be split into multiple sections with a simple function call. Utilize familiar arguments such as fmt, estimate, statistic, vcov, conf_level, stars, coef_map, coef_omit, coef_rename, gof_map, and gof_omit from 'modelsummary' to clean the table, and additionally, add a row for the mean of the dependent variable without external manipulation.
Author: Michael Topper [aut, cre],
Vincent Arel-Bundock [cph]
Maintainer: Michael Topper <miketopper123@gmail.com>
Diff between panelsummary versions 0.1.2.1 dated 2023-08-16 and 0.1.3 dated 2026-03-20
DESCRIPTION | 9 - MD5 | 46 +++---- NEWS.md | 5 R/clean_raw.R | 9 + R/helper_functions.R | 2 R/panelsummary_raw.R | 34 +++++ README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/adding_rows.R | 2 inst/doc/adding_rows.html | 4 inst/doc/panelsummary.R | 2 inst/doc/panelsummary.Rmd | 4 inst/doc/panelsummary.html | 237 +++++++++++++++++++++++++++++++++---- inst/doc/with_fixest.R | 2 inst/doc/with_fixest.Rmd | 2 inst/doc/with_fixest.html | 151 ++++++++++++----------- man/clean_raw.Rd | 8 + man/panelsummary-package.Rd | 1 man/panelsummary.Rd | 41 +++--- man/panelsummary_raw.Rd | 45 ++++--- tests/testthat/test-create_means.R | 26 ++-- vignettes/panelsummary.Rmd | 4 vignettes/with_fixest.Rmd | 2 24 files changed, 454 insertions(+), 184 deletions(-)
Title: Integrated Interface of Bayesian Single Index Models using
'nimble'
Description: Provides tools for fitting Bayesian single index models with
flexible choices of priors for both the index and the link function.
The package implements model estimation and posterior inference using
efficient MCMC algorithms built on the 'nimble' framework, allowing
users to specify, extend, and simulate models in a unified and
reproducible manner. The following methods are implemented in the
package: Antoniadis et al. (2004)
<https://www.jstor.org/stable/24307224>, Wang (2009)
<doi:10.1016/j.csda.2008.12.010>, Choi et al. (2011)
<doi:10.1080/10485251003768019>, Dhara et al. (2019)
<doi:10.1214/19-BA1170>, McGee et al. (2023) <doi:10.1111/biom.13569>.
Author: Seowoo Jung [aut, cre],
Eun-kyung Lee [aut]
Maintainer: Seowoo Jung <jsw1347@ewha.ac.kr>
Diff between BayesSIM versions 1.0.1 dated 2026-01-08 and 1.0.2 dated 2026-03-20
BayesSIM-1.0.1/BayesSIM/man/predict.bsim.Rd |only BayesSIM-1.0.2/BayesSIM/DESCRIPTION | 6 BayesSIM-1.0.2/BayesSIM/MD5 | 90 ++--- BayesSIM-1.0.2/BayesSIM/NAMESPACE | 8 BayesSIM-1.0.2/BayesSIM/R/bayesSIM.R | 2 BayesSIM-1.0.2/BayesSIM/R/bsFisher-sampler.R | 33 ++ BayesSIM-1.0.2/BayesSIM/R/bsFisher.R | 58 ++- BayesSIM-1.0.2/BayesSIM/R/bsPolar.R | 48 ++- BayesSIM-1.0.2/BayesSIM/R/bsSphere-functions.R | 14 BayesSIM-1.0.2/BayesSIM/R/bsSphere-sampler.R | 17 - BayesSIM-1.0.2/BayesSIM/R/bsSphere.R | 48 ++- BayesSIM-1.0.2/BayesSIM/R/bsSpike.R | 48 ++- BayesSIM-1.0.2/BayesSIM/R/generics.R | 262 +++++++++++++---- BayesSIM-1.0.2/BayesSIM/R/gpFisher.R | 49 ++- BayesSIM-1.0.2/BayesSIM/R/gpPolar-functions.R | 160 ++++++---- BayesSIM-1.0.2/BayesSIM/R/gpPolar-sampler.R | 158 +++++++--- BayesSIM-1.0.2/BayesSIM/R/gpPolar.R | 80 +++-- BayesSIM-1.0.2/BayesSIM/R/gpPolarTemp.R | 45 ++ BayesSIM-1.0.2/BayesSIM/R/gpSphere-united.R | 46 ++ BayesSIM-1.0.2/BayesSIM/R/gpspike-functions.R | 1 BayesSIM-1.0.2/BayesSIM/R/gpspike-sampler.R | 8 BayesSIM-1.0.2/BayesSIM/R/gpspike.R | 88 ++++- BayesSIM-1.0.2/BayesSIM/R/initial-params.R | 6 BayesSIM-1.0.2/BayesSIM/man/BayesSIM.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/as.data.frame.bsimPred.Rd |only BayesSIM-1.0.2/BayesSIM/man/as_bsim.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/bsFisher.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/bsPolar.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/bsSphere.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/bsSpike.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/coef.bsim.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/compileModelAndMCMC.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/fitted.bsim.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/genBasic.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/getFunction.Rd | 14 BayesSIM-1.0.2/BayesSIM/man/getInit.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/gof.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/gpFisher.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/gpPolar.Rd | 22 - BayesSIM-1.0.2/BayesSIM/man/gpSphere.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/gpSpike.Rd | 4 BayesSIM-1.0.2/BayesSIM/man/nimTraceplot.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/plot.Rd | 2 BayesSIM-1.0.2/BayesSIM/man/predict.Rd |only BayesSIM-1.0.2/BayesSIM/man/summary.bsim.Rd | 4 BayesSIM-1.0.2/BayesSIM/man/summary.bsimPred.Rd |only BayesSIM-1.0.2/BayesSIM/tests/testthat/test-BayesSIM.R | 2 BayesSIM-1.0.2/BayesSIM/tests/testthat/test-generic.R | 14 48 files changed, 951 insertions(+), 416 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-12 0.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-04 0.8-3
2015-07-05 0.7-6
2015-05-25 0.6-16
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-01-29 0.1.3
2025-11-25 0.1.2
2025-11-19 0.1.1
2025-11-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-24 0.0.2
2019-08-27 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-05 0.3.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-03-05 0.2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-10 1.3.4.1
2022-11-10 1.3.4
2021-10-28 1.3.3
2020-02-13 1.3.2
2018-09-14 1.3.1
2015-01-06 1.3.0
2014-11-16 1.2.11
2014-01-08 1.2.10
2013-07-27 1.2.9
2013-07-16 1.2.8
2013-05-23 1.2.7
2013-02-12 1.2.6
2012-11-15 1.2.5
2012-07-06 1.2.4
2012-04-20 1.2.3
2012-03-15 1.2.1
2012-02-15 1.2.0
2012-02-13 1.1.9
2012-02-08 1.1.8
2012-01-10 1.1.7
2011-07-28 1.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-22 2.1.2
2018-10-02 2.1.1
2018-07-05 2.1.0
2017-08-30 2.0.3
2017-04-13 2.0.1
2017-01-10 2.0.0
2016-08-29 1.1.0
2016-08-13 1.0.1
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb],
Ivan Krylov [cre]
Maintainer: Ivan Krylov <ikrylov@disroot.org>
Diff between XML versions 3.99-0.22 dated 2026-02-10 and 3.99-0.23 dated 2026-03-20
ChangeLog | 4 ++++ DESCRIPTION | 6 +++--- MD5 | 10 +++++----- src/Utils.c | 2 +- src/XMLEventParse.c | 5 +++-- src/schema.c | 8 +++++--- 6 files changed, 21 insertions(+), 14 deletions(-)
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013, Lemant et al. 2022)
<doi:10.1016/j.mbs.2012.10.005>, <doi:10.1093/sysbio/syac027>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph] ,
Emmanuel Paradis [cph] ,
Robert Noble [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 2.1.0 dated 2026-02-11 and 2.2.0 dated 2026-03-20
DESCRIPTION | 12 MD5 | 574 +- NAMESPACE | 1026 +-- NEWS.md | 1244 ++-- R/AddTip.R | 550 +- R/ArtificialExtinction.R | 242 R/Cherries.R | 5 R/ClusterTable.R | 254 R/Combinatorics.R | 696 +- R/Consensus.R | 300 - R/ConsistentSplits.R | 84 R/Decompose.R | 330 - R/DropTip.R | 12 R/EdgeRatio.R |only R/ImposeConstraint.R | 278 - R/Information.R | 502 - R/KeptPaths.R | 94 R/KeptVerts.R | 126 R/LongBranchScore.R | 150 R/MatchNodes.R | 216 R/MatchStrings.R | 66 R/PathLengths.R | 96 R/PhyToString.R | 286 - R/RUtreebalance.R | 648 +- R/RcppExports-manual.R | 64 R/RcppExports.R | 16 R/ReadMrBayes.R | 180 R/ReadTntTree.R | 580 +- R/Reweight.R | 220 R/RoguePlot.R | 618 +- R/SplitFunctions.R | 912 +-- R/Splits.R | 1294 ++-- R/Stemwardness.R | 218 R/Support.R | 348 - R/TipTimedTree.R | 100 R/TopologyOnly.R | 84 R/TotalCopheneticIndex.R | 316 - R/TreeNumber.R | 1042 ++- R/TreeTools-package.R | 50 R/Treeness.R | 116 R/as.matrix.R | 30 R/as.multiPhylo.R | 152 R/data.R | 180 R/helper_functions.R | 200 R/match.R | 496 - R/mst.R | 158 R/parse_files.R | 1830 +++--- R/phylo.R | 644 +- R/sort.R | 156 R/split_analysis.R | 162 R/tree_ancestors.R | 220 R/tree_comparison.R | 86 R/tree_descendants.R | 274 - R/tree_display.R | 292 - R/tree_generation.R | 998 +-- R/tree_information.R | 206 R/tree_numbering.R | 56 R/tree_properties.R | 1096 +--- R/tree_rearrangement.R | 1294 ++-- R/tree_shape.R | 572 +- R/tree_write.R | 262 R/zzz.R | 68 build/partial.rdb |binary build/vignette.rds |binary data/brewer.R | 40 data/nRootedShapes.R | 114 data/nUnrootedShapes.R | 124 inst/CITATION | 34 inst/REFERENCES.bib | 745 +- inst/WORDLIST | 251 inst/apa-old-doi-prefix.csl | 4541 ++++++++--------- inst/doc/filesystem-navigation.Rmd | 104 inst/doc/filesystem-navigation.html | 4 inst/doc/load-data.Rmd | 428 - inst/doc/load-data.html | 4 inst/doc/load-trees.Rmd | 250 inst/doc/load-trees.html | 4 inst/extdata/input/dataset.nex | 44 inst/extdata/input/notes.nex | 54 inst/extdata/output/named.tre | 6 inst/extdata/output/numbered.tre | 8 inst/extdata/tests/ape-tree.nex | 10 inst/extdata/tests/continuous.nex | 44 inst/extdata/tests/encoding.nex | 48 inst/extdata/tests/parse-nexus.nexus | 510 - inst/extdata/tests/taxon-notes.nex | 48 inst/extdata/tests/tnt-bare-tree.tnt | 2 inst/extdata/tests/tnt-dna.tnt | 42 inst/extdata/tests/tnt-matrix.tnt | 294 - inst/extdata/tests/tnt-namedtree.tre | 8 inst/extdata/tests/tnt-tree.tre | 46 inst/extdata/tests/tnt-trees-and-matrix.tnt | 58 inst/include/TreeTools/SplitList.h | 29 inst/include/TreeTools/tree_number.h |only man/AddTip.Rd | 280 - man/AncestorEdge.Rd | 106 man/ApeTime.Rd | 54 man/ArtificialExtinction.Rd | 216 man/CharacterInformation.Rd | 86 man/Cherries.Rd | 101 man/CladeSizes.Rd | 96 man/CladisticInfo.Rd | 144 man/ClusterTable-methods.Rd | 94 man/ClusterTable.Rd | 160 man/CollapseNode.Rd | 162 man/CompatibleSplits.Rd | 108 man/Consensus.Rd | 104 man/ConsensusWithout.Rd | 211 man/ConstrainedNJ.Rd | 108 man/Decompose.Rd | 166 man/DescendantEdges.Rd | 162 man/DoubleFactorial.Rd | 132 man/DropTip.Rd | 280 - man/EdgeAncestry.Rd | 124 man/EdgeDistances.Rd | 104 man/EdgeRatio.Rd |only man/EndSentence.Rd | 64 man/ExtractTaxa.Rd | 90 man/GenerateTree.Rd | 188 man/Hamming.Rd | 156 man/ImposeConstraint.Rd | 148 man/J1Index.Rd | 190 man/KeptPaths.Rd | 132 man/KeptVerts.Rd | 138 man/LabelSplits.Rd | 172 man/LeafLabelInterchange.Rd | 118 man/ListAncestors.Rd | 218 man/Lobo.data.Rd | 66 man/LongBranch.Rd | 129 man/MRCA.Rd | 134 man/MSTEdges.Rd | 146 man/MakeTreeBinary.Rd | 108 man/MatchEdges.Rd | 137 man/MatchStrings.Rd | 80 man/MatrixToPhyDat.Rd | 156 man/MorphoBankDecode.Rd | 58 man/N1Spr.Rd | 76 man/NDescendants.Rd | 92 man/NJTree.Rd | 82 man/NPartitionPairs.Rd | 102 man/NRooted.Rd | 268 - man/NSplits.Rd | 171 man/NTip.Rd | 139 man/NewickTree.Rd | 54 man/Neworder.Rd | 128 man/NodeDepth.Rd | 126 man/NodeNumbers.Rd | 113 man/NodeOrder.Rd | 108 man/PairwiseDistances.Rd | 82 man/PathLengths.Rd | 117 man/PhyToString.Rd | 212 man/PolarizeSplits.Rd | 70 man/ReadCharacters.Rd | 288 - man/ReadMrBayesTrees.Rd | 110 man/ReadTntTree.Rd | 248 man/Renumber.Rd | 118 man/RenumberTips.Rd | 140 man/Reorder.Rd | 556 +- man/Reweight.Rd | 156 man/RightmostCharacter.Rd | 72 man/RoguePlot.Rd | 240 man/RootNode.Rd | 104 man/RootTree.Rd | 190 man/SampleOne.Rd | 84 man/SortTree.Rd | 184 man/SplitConsistent.Rd | 90 man/SplitFrequency.Rd | 161 man/SplitInformation.Rd | 247 man/SplitMatchProbability.Rd | 94 man/Splits.Rd | 216 man/SplitsInBinaryTree.Rd | 161 man/Stemwardness.Rd | 198 man/Subsplit.Rd | 96 man/Subtree.Rd | 122 man/SupportColour.Rd | 142 man/TipLabels.Rd | 251 man/TipTimedTree.Rd | 140 man/TipsInSplits.Rd | 144 man/TopologyOnly.Rd | 46 man/TotalCopheneticIndex.Rd | 188 man/TreeIsRooted.Rd | 85 man/TreeNumber.Rd | 421 - man/TreeShape.Rd | 318 - man/TreeTools-package.Rd | 80 man/Treeness.Rd | 113 man/TreesMatchingSplit.Rd | 92 man/TreesMatchingTree.Rd | 98 man/TrivialSplits.Rd | 96 man/TrivialTree.Rd | 124 man/Unquote.Rd | 64 man/UnrootedTreesMatchingSplit.Rd | 96 man/UnshiftTree.Rd | 116 man/WriteTntCharacters.Rd | 140 man/as.Newick.Rd | 96 man/as.multiPhylo.Rd | 106 man/brewer.Rd | 66 man/dot-RandomParent.Rd | 54 man/doubleFactorials.Rd | 52 man/edge_to_splits.Rd | 98 man/is.TreeNumber.Rd | 64 man/logDoubleFactorials.Rd | 46 man/match.Splits.Rd | 136 man/match.multiPhylo.Rd | 144 man/nRootedShapes.Rd | 56 man/print.TreeNumber.Rd | 44 man/root_on_node.Rd | 58 man/sapply64.Rd | 164 man/sort.multiPhylo.Rd | 114 man/xor.Rd | 62 src/RcppExports-manual.cpp | 6 src/RcppExports.cpp | 55 src/consensus.cpp | 169 src/int_to_tree.cpp | 168 src/node_depth.cpp |only src/renumber_tips.cpp |only src/splits.cpp | 97 src/tips_in_splits.cpp | 4 tests/figs/rogueplot.svg | 68 tests/spelling.R | 8 tests/testthat.R | 8 tests/testthat/_snaps/RoguePlot/rogueplot-poly.svg | 82 tests/testthat/_snaps/RoguePlot/rogueplot-simple.svg | 94 tests/testthat/_snaps/RoguePlot/rogueplot-trees1.svg | 106 tests/testthat/_snaps/RoguePlot/rogueplot-trees2.svg | 82 tests/testthat/_snaps/Support/labelsplits-nameless.svg | 172 tests/testthat/_snaps/Support/labelsplits-names.svg | 148 tests/testthat/_snaps/Support/labelsplits.svg | 148 tests/testthat/_snaps/mst/mst-plotting.svg | 142 tests/testthat/_snaps/tree_display/sorted-tree.svg | 270 - tests/testthat/test-AddTip.R | 356 - tests/testthat/test-ArtificialExtinction.R | 94 tests/testthat/test-Cherries.R | 24 tests/testthat/test-ClusterTable.R | 284 - tests/testthat/test-Decompose.R | 152 tests/testthat/test-DropTip.R | 6 tests/testthat/test-EdgeRatio.R |only tests/testthat/test-FirstMatchingSplit.R | 68 tests/testthat/test-ImposeConstraint.R | 275 - tests/testthat/test-KeptPaths.R | 40 tests/testthat/test-KeptVerts.R | 172 tests/testthat/test-LongBranchScore.R | 36 tests/testthat/test-MatchNodes.R | 148 tests/testthat/test-MatchStrings.R | 26 tests/testthat/test-PathLengths.R | 70 tests/testthat/test-PhyToString.R | 150 tests/testthat/test-RUtreebalance.R | 128 tests/testthat/test-ReadMrBayes.R | 8 tests/testthat/test-ReadTntTree.R | 290 - tests/testthat/test-Reweight.R | 92 tests/testthat/test-RoguePlot.R | 362 - tests/testthat/test-SplitConsistent.R | 72 tests/testthat/test-SplitFunctions.R | 452 - tests/testthat/test-Splits.R | 1154 ++-- tests/testthat/test-Stemwardness.R | 28 tests/testthat/test-Support.R | 162 tests/testthat/test-TipTimedTree.R | 28 tests/testthat/test-TopologyOnly.R | 54 tests/testthat/test-TotalCopheneticIndex.R | 152 tests/testthat/test-TreeNumber.R | 293 - tests/testthat/test-Treeness.R | 38 tests/testthat/test-as.matrix.R | 14 tests/testthat/test-as.multiPhylo.R | 70 tests/testthat/test-combinatorics.R | 178 tests/testthat/test-consensus.R | 236 tests/testthat/test-helper_functions.R | 22 tests/testthat/test-information.R | 76 tests/testthat/test-int_to_tree.cpp.R | 129 tests/testthat/test-match.R | 58 tests/testthat/test-mst.R | 84 tests/testthat/test-parsers.R | 442 - tests/testthat/test-phylo.R | 112 tests/testthat/test-root_tree.h.R | 226 tests/testthat/test-sort.R | 44 tests/testthat/test-split_analysis.R | 22 tests/testthat/test-splits.cpp.R | 74 tests/testthat/test-tree_ancestors.R | 40 tests/testthat/test-tree_comparison.R | 48 tests/testthat/test-tree_descendants.R | 168 tests/testthat/test-tree_display.R | 128 tests/testthat/test-tree_generation-random.R | 90 tests/testthat/test-tree_generation.R | 438 - tests/testthat/test-tree_information.R | 38 tests/testthat/test-tree_numbering.R | 102 tests/testthat/test-tree_properties.R | 364 - tests/testthat/test-tree_rearrange.R | 830 +-- tests/testthat/test-tree_shape.R | 318 - tests/testthat/test-tree_write.R | 98 tests/testthat/testdata/nonPreCons.nex | 48 vignettes/filesystem-navigation.Rmd | 104 vignettes/load-data.Rmd | 428 - vignettes/load-trees.Rmd | 250 291 files changed, 30003 insertions(+), 29147 deletions(-)
Title: Amos Tanay's Group High Performance Statistical Utilities
Description: A collection of high performance utilities to compute
distance, correlation, auto correlation, clustering and other tasks.
Contains graph clustering algorithm described in "MetaCell: analysis
of single-cell RNA-seq data using K-nn graph partitions" (Yael Baran,
Akhiad Bercovich, Arnau Sebe-Pedros, Yaniv Lubling, Amir Giladi, Elad
Chomsky, Zohar Meir, Michael Hoichman, Aviezer Lifshitz & Amos Tanay,
2019 <doi:10.1186/s13059-019-1812-2>).
Author: Michael Hoichman [aut],
Aviezer Lifshitz [aut, cre]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between tgstat versions 2.3.29 dated 2025-11-12 and 2.3.32 dated 2026-03-20
DESCRIPTION | 8 ++-- MD5 | 14 ++++---- NEWS.md | 11 ++++++ R/knn.R | 3 - R/zzz.R | 3 - src/tgstat.cpp | 69 +++++++++++++++++++++++++++++++++++++++--- src/tgstat.h | 1 tests/testthat/test-cor-knn.R |only tests/testthat/test-tmpdir.R |only 9 files changed, 90 insertions(+), 19 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut, cre] ,
Wenping Wang [aut],
Alan Hindmarsh [ctb],
Arun Srinivasan [ctb],
Awad H. Al-Mohy [ctb],
Bill Denney [ctb] ,
Cleve Moler [ctb],
David Cooley [ctb],
Drew Schmidt [ctb],
Ernst Hairer [ctb],
Gabriel Staples [ctb],
Gerhard W [...truncated...]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2 versions 5.0.1 dated 2025-12-09 and 5.0.2 dated 2026-03-20
DESCRIPTION | 15 MD5 | 338 +++++----- NAMESPACE | 7 NEWS.md | 29 R/CTS.R | 2 R/RcppExports.R | 38 - R/dsl.R | 12 R/err.R | 8 R/et.R | 49 + R/geom-amt.R | 7 R/mix.R | 4 R/mu.R | 2 R/piping-model.R | 6 R/piping.R | 37 + R/print.R | 2 R/reexport.R | 5 R/rudf.R | 14 R/rxParams.R | 6 R/rxRaw.R | 62 + R/rxShiny.R | 4 R/rxUiGet.R | 5 R/rxode-options.R | 71 -- R/rxode2.R | 47 + R/rxode2_md5.R | 2 R/rxrandom.R | 66 +- R/rxsolve.R | 4 R/summary.R | 4 R/symengine.R | 2 R/ui-assign-parts.R | 10 R/ui-bind.R | 3 R/ui-rename.R | 7 R/ui.R | 17 R/utils.R | 13 R/version.R | 7 README.md | 24 build/partial.rdb |binary build/vignette.rds |binary inst/doc/rxode2-syntax.html | 717 +++++++++++++--------- inst/include/rxode2.h | 2 inst/include/rxode2_model_shared.c | 2 inst/include/rxode2parseGetTime.h | 58 + inst/include/rxode2parseHandleEvid.h | 22 inst/include/rxode2parseStruct.h | 10 inst/include/rxode2parseVer.h | 4 inst/tools/workaround.R | 3 inst/tutorials/rxode2-00-syntax/RxODE00syntax.Rmd | 110 +-- inst/tutorials/rxode2-01-events/rxode01events.Rmd | 380 +++++------ man/dot-rxGetSeed.Rd |only man/dot-rxSetSeed.Rd |only man/eventTable.Rd | 10 man/ini.Rd | 14 man/mix.Rd | 4 man/reexports.Rd | 3 man/rmdhunks/rxode2-intro-chunk.Rmd | 24 man/rxAppendModel.Rd | 3 man/rxDemoteAddErr.Rd | 6 man/rxErrTypeCombine.Rd | 2 man/rxFun.Rd | 2 man/rxGetDefaultSerialize.Rd |only man/rxGetSeed.Rd | 2 man/rxGetSerialType_.Rd | 2 man/rxOldQsDes.Rd |only man/rxRawToC.Rd | 6 man/rxRename.Rd | 6 man/rxSetCovariateNamesForPiping.Rd | 4 man/rxSyncOptions.Rd | 3 man/rxVersion.Rd | 8 man/rxode2.Rd | 81 +- man/stat_amt.Rd | 7 src/RcppExports.cpp | 118 +-- src/approx.cpp | 2 src/codegen.c | 47 - src/codegen2.h | 2 src/forder.cpp | 8 src/handle_evid.cpp | 9 src/init.c | 5 src/linCmt.cpp | 2 src/macros2micros.h | 1 src/par_solve.cpp | 340 +++++++++- src/par_solve.h | 55 + src/qs.cpp | 14 src/rxDerived.cpp | 12 src/rxode2_df.cpp | 18 src/seed.cpp | 62 - src/utilc.cpp | 78 +- tests/testthat.R | 4 tests/testthat/_problems |only tests/testthat/test-001-sum.R | 2 tests/testthat/test-100-cmt.R | 6 tests/testthat/test-alag.R | 30 tests/testthat/test-as-ini.R | 18 tests/testthat/test-backward.R | 10 tests/testthat/test-bad-dose.R | 8 tests/testthat/test-cmt-order.R | 10 tests/testthat/test-cov.R | 18 tests/testthat/test-data-table.R | 6 tests/testthat/test-deSolve-events.R | 4 tests/testthat/test-dollar-names.R | 6 tests/testthat/test-dplyr.R | 24 tests/testthat/test-et.R | 137 ++-- tests/testthat/test-etTrans.R | 28 tests/testthat/test-evid2.R | 10 tests/testthat/test-evid3.R | 24 tests/testthat/test-expand-grid.R | 12 tests/testthat/test-focei-variances.R | 126 +-- tests/testthat/test-iCov.R | 12 tests/testthat/test-ind-lin.R | 18 tests/testthat/test-ini.R | 8 tests/testthat/test-interp.R | 4 tests/testthat/test-keep.R | 43 - tests/testthat/test-lag.R | 58 - tests/testthat/test-lhs-ifelse.R | 8 tests/testthat/test-lincmt-solve.R | 434 ++++++------- tests/testthat/test-llik.R | 104 +-- tests/testthat/test-load.R | 1 tests/testthat/test-logit.R | 6 tests/testthat/test-missing-evid.R | 16 tests/testthat/test-mix.R | 36 - tests/testthat/test-model-rate.R | 86 +- tests/testthat/test-mtime.R | 134 ++++ tests/testthat/test-mu2.R | 4 tests/testthat/test-nearpd.R | 6 tests/testthat/test-nesting.R | 10 tests/testthat/test-newind.R | 8 tests/testthat/test-nmtest.R | 4 tests/testthat/test-nopred-ui.R | 2 tests/testthat/test-occ.R | 30 tests/testthat/test-off.R | 16 tests/testthat/test-par-solve.R | 6 tests/testthat/test-parsing.R | 10 tests/testthat/test-pipeline.R | 52 - tests/testthat/test-piping-ini.R | 50 - tests/testthat/test-print.R | 26 tests/testthat/test-rbind.R | 12 tests/testthat/test-resample.R | 28 tests/testthat/test-reset.R | 28 tests/testthat/test-rxIs.R | 24 tests/testthat/test-rxode-issue-005.R | 6 tests/testthat/test-rxode-issue-067.R | 3 tests/testthat/test-rxode-issue-163.R | 8 tests/testthat/test-rxode-issue-272.R | 10 tests/testthat/test-rxode-issue-349.R | 4 tests/testthat/test-rxode-issue-352.R | 12 tests/testthat/test-rxode-issue-375.R | 28 tests/testthat/test-rxode-issue-435.R | 16 tests/testthat/test-rxode-issue-445.R | 32 tests/testthat/test-rxode-issue-450.R | 8 tests/testthat/test-rxui-ctl.R | 8 tests/testthat/test-seq.R | 36 - tests/testthat/test-sim-zeros.R | 20 tests/testthat/test-solComp.R | 34 - tests/testthat/test-state-dep-dur.R |only tests/testthat/test-state-dep-f.R |only tests/testthat/test-state-dep-lag.R |only tests/testthat/test-state-dep-rate.R |only tests/testthat/test-state-dep-sort.R |only tests/testthat/test-steady-state.R | 118 +-- tests/testthat/test-symmetric.R | 2 tests/testthat/test-tad.R | 60 - tests/testthat/test-transit.R | 4 tests/testthat/test-ui-assign-model-parts.R | 10 tests/testthat/test-ui-drop-lines.R | 14 tests/testthat/test-ui-dv.R | 6 tests/testthat/test-ui-fix-unfix.R | 16 tests/testthat/test-ui-ini-lotri.R | 4 tests/testthat/test-ui-ini-str.R | 4 tests/testthat/test-ui-mod-functions.R | 36 - tests/testthat/test-ui-piping-single-endpoint.R | 12 tests/testthat/test-ui-piping.R | 264 ++++---- tests/testthat/test-ui-promote.R | 10 tests/testthat/test-ui-rename.R | 118 +++ tests/testthat/test-ui-simulation.R | 116 +-- tests/testthat/test-utils.R | 4 tests/testthat/test-zzzz-plot.R | 466 +++++++------- tests/testthat/testthat-problems.rds |only 175 files changed, 3706 insertions(+), 2747 deletions(-)
Title: R and C++ Interfaces to 'spdlog' C++ Header Library for Logging
Description: The mature and widely-used C++ logging library 'spdlog' by Gabi Melman provides
many desirable features. This package bundles these header files for easy use by R packages
from both their R and C or C++ code. Explicit use via 'LinkingTo:' is also supported. Also
see the 'spdl' package which enhanced this package with a consistent R and C++ interface.
Author: Dirk Eddelbuettel [aut, cre] ,
Gabi Melman [aut] ,
Victor Zverovic [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppSpdlog versions 0.0.27 dated 2026-02-12 and 0.0.28 dated 2026-03-20
ChangeLog | 13 +++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 7 +++++++ src/RcppExports.cpp | 32 ++++++++++++++++---------------- 7 files changed, 46 insertions(+), 26 deletions(-)
Title: A Fast and Flexible Pipeline for Text Classification
Description: A high-level pipeline that simplifies text classification into three streamlined steps:
preprocessing, model training, and standardized prediction.
It unifies the interface for multiple algorithms (including 'glmnet', 'ranger',
'xgboost', and 'naivebayes') and memory-efficient sparse matrix vectorization
methods (Bag-of-Words, Term Frequency, TF-IDF, and Binary). Users can go from
raw text to a fully evaluated sentiment model, complete with ROC-optimized
thresholds, in just a few function calls. The resulting model artifact
automatically aligns the vocabulary of new datasets during the prediction phase,
safely appending predicted classes and probability matrices directly to the
user's original dataframe to preserve metadata.
Author: Alabhya Dahal [aut, cre]
Maintainer: Alabhya Dahal <alabhya.dahal@gmail.com>
Diff between quickSentiment versions 0.3.1 dated 2026-03-01 and 0.3.2 dated 2026-03-20
quickSentiment-0.3.1/quickSentiment/R/evaluation.R |only quickSentiment-0.3.1/quickSentiment/man/evaluate_metrics.Rd |only quickSentiment-0.3.2/quickSentiment/DESCRIPTION | 12 - quickSentiment-0.3.2/quickSentiment/LICENSE | 4 quickSentiment-0.3.2/quickSentiment/MD5 | 29 +-- quickSentiment-0.3.2/quickSentiment/NAMESPACE | 11 - quickSentiment-0.3.2/quickSentiment/NEWS.md | 19 -- quickSentiment-0.3.2/quickSentiment/R/evaluate_performance.R |only quickSentiment-0.3.2/quickSentiment/R/pipeline.R | 59 +------ quickSentiment-0.3.2/quickSentiment/R/prediction.R | 22 +- quickSentiment-0.3.2/quickSentiment/R/print.quickSentiment_eval.R |only quickSentiment-0.3.2/quickSentiment/R/route_prediction.R | 8 quickSentiment-0.3.2/quickSentiment/README.md | 30 +-- quickSentiment-0.3.2/quickSentiment/build/vignette.rds |binary quickSentiment-0.3.2/quickSentiment/inst/doc/introduction-to-quickSentiment.html | 82 +++++----- quickSentiment-0.3.2/quickSentiment/man/evaluate_performance.Rd |only quickSentiment-0.3.2/quickSentiment/man/plot.quickSentiment_prc.Rd |only quickSentiment-0.3.2/quickSentiment/man/plot.quickSentiment_roc.Rd |only quickSentiment-0.3.2/quickSentiment/man/predict_sentiment.Rd | 2 19 files changed, 122 insertions(+), 156 deletions(-)
More information about quickSentiment at CRAN
Permanent link
Title: Recreates Some 'SAS®' Procedures in 'R'
Description: Contains functions to simulate the most commonly used
'SAS®' procedures. Specifically, the package aims to
simulate the functionality of 'proc freq', 'proc means', 'proc ttest',
'proc reg', 'proc transpose', 'proc sort', and 'proc print'.
The simulation will include recreating
all statistics with the highest fidelity possible.
Author: David Bosak [aut, cre],
Diyu Yang [aut],
Athenkosi Nkonyeni [aut],
Kevin Kramer [ctb],
Brian Varney [ctb],
Duong Tran [ctb],
Yifei Chen [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between procs versions 1.0.7 dated 2025-07-27 and 1.0.8 dated 2026-03-20
procs-1.0.7/procs/R/plots.R |only procs-1.0.7/procs/R/proc_univariate.R |only procs-1.0.7/procs/tests/testthat/freq/freq10.html |only procs-1.0.7/procs/tests/testthat/freq/freq11.html |only procs-1.0.7/procs/tests/testthat/freq/freq12.html |only procs-1.0.7/procs/tests/testthat/freq/freq2.html |only procs-1.0.7/procs/tests/testthat/freq/freq3.html |only procs-1.0.7/procs/tests/testthat/freq/freq4.html |only procs-1.0.7/procs/tests/testthat/freq/freq5.html |only procs-1.0.7/procs/tests/testthat/freq/freq6.docx |only procs-1.0.7/procs/tests/testthat/freq/freq7.pdf |only procs-1.0.7/procs/tests/testthat/freq/freq8.pdf |only procs-1.0.7/procs/tests/testthat/freq/freq8.rtf |only procs-1.0.7/procs/tests/testthat/freq/freq8.txt |only procs-1.0.7/procs/tests/testthat/log/test.log |only procs-1.0.7/procs/tests/testthat/print/test2.pdf |only procs-1.0.7/procs/tests/testthat/print/test3.docx |only procs-1.0.7/procs/tests/testthat/print/test4.rtf |only procs-1.0.7/procs/tests/testthat/print/test5.html |only procs-1.0.7/procs/tests/testthat/print/test8.html |only procs-1.0.7/procs/tests/testthat/print/test8.rtf |only procs-1.0.7/procs/tests/testthat/utils/test2.html |only procs-1.0.8/procs/DESCRIPTION | 25 procs-1.0.8/procs/MD5 | 196 ++-- procs-1.0.8/procs/NAMESPACE | 6 procs-1.0.8/procs/NEWS.md | 12 procs-1.0.8/procs/R/freqplots.R |only procs-1.0.8/procs/R/proc_freq.R | 388 ++++++++- procs-1.0.8/procs/R/proc_means.R | 534 ++++++++----- procs-1.0.8/procs/R/proc_reg.R | 256 +++++- procs-1.0.8/procs/R/proc_sort.R | 119 ++ procs-1.0.8/procs/R/proc_transpose.R | 82 -- procs-1.0.8/procs/R/proc_ttest.R | 427 ++++++++-- procs-1.0.8/procs/R/regplots.R |only procs-1.0.8/procs/R/statistics.R | 426 ++++++---- procs-1.0.8/procs/R/supplements.R | 50 - procs-1.0.8/procs/R/ttestplots.R |only procs-1.0.8/procs/R/utilities.R | 569 +++++++++++++- procs-1.0.8/procs/README.md | 19 procs-1.0.8/procs/build/vignette.rds |binary procs-1.0.8/procs/inst/doc/procs-dm.R | 90 ++ procs-1.0.8/procs/inst/doc/procs-dm.Rmd | 113 ++ procs-1.0.8/procs/inst/doc/procs-dm.html | 129 ++- procs-1.0.8/procs/inst/doc/procs-example1.R | 93 -- procs-1.0.8/procs/inst/doc/procs-example1.Rmd | 468 +++++------ procs-1.0.8/procs/inst/doc/procs-example1.html | 707 +++++++---------- procs-1.0.8/procs/inst/doc/procs-example2.Rmd | 2 procs-1.0.8/procs/inst/doc/procs-example2.html | 7 procs-1.0.8/procs/inst/doc/procs-example3.Rmd | 2 procs-1.0.8/procs/inst/doc/procs-example3.html | 7 procs-1.0.8/procs/inst/doc/procs-faq.Rmd | 20 procs-1.0.8/procs/inst/doc/procs-faq.html | 25 procs-1.0.8/procs/inst/doc/procs-freq.R | 13 procs-1.0.8/procs/inst/doc/procs-freq.Rmd | 138 +++ procs-1.0.8/procs/inst/doc/procs-freq.html | 318 +++++-- procs-1.0.8/procs/inst/doc/procs-globals.R |only procs-1.0.8/procs/inst/doc/procs-globals.Rmd |only procs-1.0.8/procs/inst/doc/procs-globals.html |only procs-1.0.8/procs/inst/doc/procs-means.R | 75 + procs-1.0.8/procs/inst/doc/procs-means.Rmd | 119 ++ procs-1.0.8/procs/inst/doc/procs-means.html | 190 +++- procs-1.0.8/procs/inst/doc/procs-reg.R | 7 procs-1.0.8/procs/inst/doc/procs-reg.Rmd | 46 - procs-1.0.8/procs/inst/doc/procs-reg.html | 49 + procs-1.0.8/procs/inst/doc/procs-ttest.R | 8 procs-1.0.8/procs/inst/doc/procs-ttest.Rmd | 51 + procs-1.0.8/procs/inst/doc/procs-ttest.html | 56 + procs-1.0.8/procs/inst/doc/procs.R | 3 procs-1.0.8/procs/inst/doc/procs.Rmd | 28 procs-1.0.8/procs/inst/doc/procs.html | 66 - procs-1.0.8/procs/man/freqplot.Rd |only procs-1.0.8/procs/man/images/demog.png |binary procs-1.0.8/procs/man/images/freqtut11.png |only procs-1.0.8/procs/man/images/freqtut12.png |only procs-1.0.8/procs/man/images/freqtut13.png |only procs-1.0.8/procs/man/images/meanstut3.png |binary procs-1.0.8/procs/man/images/meanstut4.png |binary procs-1.0.8/procs/man/images/meanstut5.png |binary procs-1.0.8/procs/man/images/meanstut6.png |binary procs-1.0.8/procs/man/images/meanstut7.png |binary procs-1.0.8/procs/man/images/reg7a.png |only procs-1.0.8/procs/man/images/reg7b.png |only procs-1.0.8/procs/man/images/reg7c.png |only procs-1.0.8/procs/man/images/reg7d.png |only procs-1.0.8/procs/man/images/ttest5a.png |only procs-1.0.8/procs/man/images/ttest5b.png |only procs-1.0.8/procs/man/images/ttest5c.png |only procs-1.0.8/procs/man/images/ttesta.png |only procs-1.0.8/procs/man/images/ttestb.png |only procs-1.0.8/procs/man/images/ttestc.png |only procs-1.0.8/procs/man/images/ttestd.png |only procs-1.0.8/procs/man/proc_freq.Rd | 139 +++ procs-1.0.8/procs/man/proc_means.Rd | 742 +++++++++--------- procs-1.0.8/procs/man/proc_reg.Rd | 123 ++- procs-1.0.8/procs/man/proc_sort.Rd | 41 - procs-1.0.8/procs/man/proc_ttest.Rd | 121 ++ procs-1.0.8/procs/man/procs.Rd | 6 procs-1.0.8/procs/man/regplot.Rd |only procs-1.0.8/procs/man/ttestplot.Rd |only procs-1.0.8/procs/tests/testthat/setup-procs.R |only procs-1.0.8/procs/tests/testthat/test-freq.R | 848 ++++++++++++++++++++- procs-1.0.8/procs/tests/testthat/test-freqplots.R |only procs-1.0.8/procs/tests/testthat/test-means.R | 821 ++++++++++++++++++-- procs-1.0.8/procs/tests/testthat/test-print.R | 128 +++ procs-1.0.8/procs/tests/testthat/test-reg.R | 87 +- procs-1.0.8/procs/tests/testthat/test-regplots.R |only procs-1.0.8/procs/tests/testthat/test-sort.R | 207 +++++ procs-1.0.8/procs/tests/testthat/test-statistics.R | 185 +++- procs-1.0.8/procs/tests/testthat/test-transpose.R | 48 + procs-1.0.8/procs/tests/testthat/test-ttest.R | 171 ++++ procs-1.0.8/procs/tests/testthat/test-ttestplots.R |only procs-1.0.8/procs/tests/testthat/test-user.R | 2 procs-1.0.8/procs/tests/testthat/test-utilities.R | 457 +++++++++++ procs-1.0.8/procs/vignettes/procs-dm.Rmd | 113 ++ procs-1.0.8/procs/vignettes/procs-example1.Rmd | 468 +++++------ procs-1.0.8/procs/vignettes/procs-example2.Rmd | 2 procs-1.0.8/procs/vignettes/procs-example3.Rmd | 2 procs-1.0.8/procs/vignettes/procs-faq.Rmd | 20 procs-1.0.8/procs/vignettes/procs-freq.Rmd | 138 +++ procs-1.0.8/procs/vignettes/procs-globals.Rmd |only procs-1.0.8/procs/vignettes/procs-means.Rmd | 119 ++ procs-1.0.8/procs/vignettes/procs-reg.Rmd | 46 - procs-1.0.8/procs/vignettes/procs-ttest.Rmd | 51 + procs-1.0.8/procs/vignettes/procs.Rmd | 28 124 files changed, 8397 insertions(+), 2655 deletions(-)
Title: Gaussian and Student-t Copula Models for Count Time Series
Description: Provides likelihood-based inference for Gaussian and Student-t
copula models for univariate count time series. Supports Poisson,
negative binomial, binomial, beta-binomial, and zero-inflated
marginals with ARMA dependence structures. Includes simulation,
maximum-likelihood estimation, residual diagnostics, and predictive
inference. Implements Time Series Minimax Exponential Tilting (TMET)
<doi:10.1016/j.csda.2026.108344>, an adaptation of minimax exponential
tilting of Botev (2017) <doi:10.1111/rssb.12162>. Also provides a
linear-cost implementation of the Geweke–Hajivassiliou–Keane (GHK)
simulator following Masarotto and Varin (2012) <doi:10.1214/12-EJS721>,
and the Continuous Extension (CE) approximation of Nguyen and
De Oliveira (2025) <doi:10.1080/02664763.2025.2498502>. The package
follows the S3 design philosophy of 'gcmr' but is developed independently.
Author: Quynh Nguyen [aut, cre],
Victor De Oliveira [aut]
Maintainer: Quynh Nguyen <nqnhu2209@gmail.com>
Diff between gctsc versions 0.2.0 dated 2026-03-13 and 0.2.3 dated 2026-03-20
gctsc-0.2.0/gctsc/data/KCWC.csv |only gctsc-0.2.0/gctsc/data/datalist |only gctsc-0.2.0/gctsc/data/rota.csv |only gctsc-0.2.0/gctsc/src/mvphi.f |only gctsc-0.2.3/gctsc/DESCRIPTION | 8 +-- gctsc-0.2.3/gctsc/MD5 | 22 ++++------ gctsc-0.2.3/gctsc/R/residuals.R | 2 gctsc-0.2.3/gctsc/inst/doc/gctsc_vignette.html | 44 ++++++++++----------- gctsc-0.2.3/gctsc/inst/t_copula_examples/Poisson.R | 2 gctsc-0.2.3/gctsc/man/plot.gctsc.Rd | 2 gctsc-0.2.3/gctsc/src/gauss_utils.cpp | 27 ++++++------ gctsc-0.2.3/gctsc/src/gauss_utils.h | 9 ++-- gctsc-0.2.3/gctsc/src/pred_mvn.cpp | 9 +++- gctsc-0.2.3/gctsc/src/pred_mvt.cpp | 5 +- 14 files changed, 68 insertions(+), 62 deletions(-)
Title: Solvers for Initial Value Problems of Differential Equations
('ODE', 'DAE', 'DDE')
Description: Functions that solve initial value problems of a system
of first-order ordinary differential equations ('ODE'), of
partial differential equations ('PDE'), of differential
algebraic equations ('DAE'), and of delay differential
equations. The functions provide an interface to the FORTRAN
functions 'lsoda', 'lsodar', 'lsode', 'lsodes' of the 'ODEPACK'
collection, to the FORTRAN functions 'dvode', 'zvode' and 'daspk'
and a C-implementation of solvers of the 'Runge-Kutta' family with
fixed or variable time steps. The package contains routines
designed for solving 'ODEs' resulting from 1-D, 2-D and 3-D
partial differential equations ('PDE') that have been converted
to 'ODEs' by numerical differencing.
Author: Karline Soetaert [aut] ,
Thomas Petzoldt [aut, cre] ,
R. Woodrow Setzer [aut] ,
Peter N. Brown [ctb] ,
George D. Byrne [ctb] ,
Ernst Hairer [ctb] ,
Alan C. Hindmarsh [ctb] ,
Cleve Moler [ctb] ,
Linda R. Petzold [ctb] ,
Youcef Saad [ctb] ,
Clement W. [...truncated...]
Maintainer: Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>
Diff between deSolve versions 1.41 dated 2026-02-06 and 1.42 dated 2026-03-20
DESCRIPTION | 6 MD5 | 46 +-- NEWS.md | 581 +++++++++++++++++++++++----------------------- build/partial.rdb |binary build/vignette.rds |binary data/ccl4data.rda |binary inst/doc/compiledCode.pdf |binary inst/doc/deSolve.pdf |binary src/call_daspk.c | 26 +- src/call_lsoda.c | 14 - src/call_radau.c | 8 src/call_zvode.c | 14 - src/deSolve_utils.c | 45 +-- src/ex_Aquaphy.c | 4 src/ex_CCL4model.c | 2 src/ex_ChemicalDAE.c | 2 src/ex_SCOC.c | 2 src/forcings.c | 4 src/lags.c | 30 +- src/rk_auto.c | 6 src/rk_fixed.c | 4 src/rk_implicit.c | 8 src/rk_util.c | 21 + src/twoDmap.c | 6 24 files changed, 418 insertions(+), 411 deletions(-)
Title: Discrete Bayesian Additive Regression Trees Sampler
Description: Fits Bayesian additive regression trees (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) while allowing the updating of predictors or response so that BART can be incorporated as a conditional model in a Gibbs/Metropolis-Hastings sampler. Also serves as a drop-in replacement for package 'BayesTree'.
Author: Vincent Dorie [aut, cre] ,
Hugh Chipman [aut],
Robert McCulloch [aut],
Armon Dadgar [ctb] ,
R Core Team [ctb] ,
Guido U Draheim [ctb] ,
Maarten Bosmans [ctb] ,
Christophe Tournayre [ctb] ,
Michael Petch [ctb] ,
Rafael de Lucena Valle [ctb] ,
Steven G [...truncated...]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between dbarts versions 0.9-32 dated 2025-04-02 and 0.9-33 dated 2026-03-20
DESCRIPTION | 15 +++++----- MD5 | 24 ++++++++-------- R/dbarts.R | 14 +++++++++ build/vignette.rds |binary inst/doc/gibbs_sampler_mixture_model.pdf |binary inst/doc/working_with_saved_trees.pdf |binary src/R_interface.cpp | 2 + src/R_interface_crossvalidate.cpp | 2 - src/R_interface_sampler.cpp | 45 +++++++++++++++++++++++++++++++ src/R_interface_sampler.hpp | 3 ++ src/external/randomBase.c | 14 ++++----- src/include/rc/util.h | 6 ++++ src/rc/util.c | 2 - 13 files changed, 99 insertions(+), 28 deletions(-)
Title: Analysing 'SNP' and 'Silicodart' Data - Basic Functions
Description: Facilitates the import and analysis of 'SNP' (single nucleotide 'polymorphism')
and 'silicodart' (presence/absence) data. The main focus is on data generated by 'DarT'
(Diversity Arrays Technology), however, data from other sequencing platforms can be used
once 'SNP' or related fragment presence/absence data from any source is imported. Genetic
datasets are stored in a derived 'genlight' format (package 'adegenet'), that allows for
a very compact storage of data and metadata. Functions are available for
importing and exporting of 'SNP' and 'silicodart' data, for reporting on and
filtering on various criteria (e.g. 'callrate', 'heterozygosity', 'reproducibility',
maximum allele frequency). Additional functions are available for visualization
(e.g. Principle Coordinate Analysis) and creating a spatial representation
using maps. 'dartR.base' is the 'base' package of the 'dartRverse' suits of packages.
To install the other packages, we recommend to install the 'dartRverse' package, that
su [...truncated...]
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Carlo Pacioni [aut],
Diana Robledo-Ruiz [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb],
Lindsay V. Clark [ctb],
Emily Stringer [ctb],
Floriaan Devloo-Delva [ctb],
Eric Archer [c [...truncated...]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR.base versions 1.2.2 dated 2026-03-12 and 1.2.3 dated 2026-03-20
dartR.base-1.2.2/dartR.base/R/gl.drop.sexlinked.r |only dartR.base-1.2.2/dartR.base/R/gl.filter.sexlinked.r |only dartR.base-1.2.2/dartR.base/R/gl.report.sexlinked.r |only dartR.base-1.2.2/dartR.base/R/gl2sa.r |only dartR.base-1.2.2/dartR.base/man/gl.drop.sexlinked.Rd |only dartR.base-1.2.2/dartR.base/man/gl.filter.sexlinked.Rd |only dartR.base-1.2.2/dartR.base/man/gl.report.sexlinked.Rd |only dartR.base-1.2.2/dartR.base/man/gl2sa.Rd |only dartR.base-1.2.3/dartR.base/DESCRIPTION | 10 - dartR.base-1.2.3/dartR.base/MD5 | 56 ++---- dartR.base-1.2.3/dartR.base/NAMESPACE | 9 - dartR.base-1.2.3/dartR.base/R/gl.filter.excess.het.r | 4 dartR.base-1.2.3/dartR.base/man/gl.document.Rd | 140 ++++++++--------- dartR.base-1.2.3/dartR.base/man/gl2bayesAss.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2bayescan.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2bpp.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2demerelate.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2eigenstrat.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2faststructure.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2gds.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2genalex.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2genepop.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2geno.Rd | 2 dartR.base-1.2.3/dartR.base/man/gl2gi.Rd | 2 dartR.base-1.2.3/dartR.base/man/gl2hapmap.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2hiphop.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2phylip.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2plink.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2related.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2snapper.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2structure.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2treemix.Rd | 1 dartR.base-1.2.3/dartR.base/man/gl2vcf.Rd | 1 33 files changed, 101 insertions(+), 140 deletions(-)
Title: PolyaGamma Sampling
Description: Tools for sampling from the PolyaGamma distribution based on Polson, Scott, and Windle (2013) <doi:10.1080/01621459.2013.829001>. Useful for logistic regression.
Author: Nicholas G. Polson [aut, cph],
James G. Scott [aut, cph],
Jesse Windle [aut, cre, cph],
Jari Oksanen [ctb],
James Balamuta [ctb]
Maintainer: Jesse Windle <jesse.windle@gmail.com>
Diff between BayesLogit versions 2.1 dated 2019-09-26 and 2.3 dated 2026-03-20
BayesLogit-2.1/BayesLogit/inst/dev/data |only BayesLogit-2.3/BayesLogit/DESCRIPTION | 8 ++-- BayesLogit-2.3/BayesLogit/MD5 | 15 +++---- BayesLogit-2.3/BayesLogit/NEWS.md | 31 +++++++++++----- BayesLogit-2.3/BayesLogit/R/PolyaGammaApproxAlt.R | 4 +- BayesLogit-2.3/BayesLogit/R/SaddlePointApprox.R | 30 +++++++-------- BayesLogit-2.3/BayesLogit/README.md | 4 -- BayesLogit-2.3/BayesLogit/inst/CITATION | 42 +++++++++++++++------- BayesLogit-2.3/BayesLogit/man/rpg.Rd | 2 - 9 files changed, 81 insertions(+), 55 deletions(-)
Title: Algorithms for Quantitative Pedology
Description: The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks <doi:10.1016/j.cageo.2012.10.020>. These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb <https://casoilresource.lawr.ucdavis.edu/soilweb-apps>. Components of the AQP project (aqp, soilD [...truncated...]
Author: Dylan Beaudette [aut, cre] ,
Pierre Roudier [aut, ctb],
Andrew Brown [aut, ctb],
Stephen Roecker [aut, ctb],
David Rossiter [ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between aqp versions 2.3 dated 2026-01-17 and 2.3.1 dated 2026-03-20
aqp-2.3.1/aqp/DESCRIPTION | 6 aqp-2.3.1/aqp/MD5 | 138 ++-- aqp-2.3.1/aqp/NAMESPACE | 6 aqp-2.3.1/aqp/NEWS.md | 34 + aqp-2.3.1/aqp/R/Class-SoilProfileCollection.R | 19 aqp-2.3.1/aqp/R/SoilProfileCollection-methods.R | 157 ++++- aqp-2.3.1/aqp/R/SoilProfileCollection-operators.R | 11 aqp-2.3.1/aqp/R/SoilProfileCollection-setters.R | 32 - aqp-2.3.1/aqp/R/SoilProfileCollection-spatial.R | 3 aqp-2.3.1/aqp/R/addBracket.R | 303 ++++++---- aqp-2.3.1/aqp/R/aggregateColor.R | 2 aqp-2.3.1/aqp/R/col2Munsell.R | 4 aqp-2.3.1/aqp/R/colorChart.R | 105 ++- aqp-2.3.1/aqp/R/colorQuantiles.R | 11 aqp-2.3.1/aqp/R/colorVariation.R | 183 ++++-- aqp-2.3.1/aqp/R/data-documentation.R | 16 aqp-2.3.1/aqp/R/estimateSoilColor.R | 218 +++++-- aqp-2.3.1/aqp/R/fillHzGaps.R | 36 - aqp-2.3.1/aqp/R/hzOffset.R | 260 +++++++- aqp-2.3.1/aqp/R/launderMunsell.R |only aqp-2.3.1/aqp/R/mixMunsell.R | 32 - aqp-2.3.1/aqp/R/mutate_profile.R | 9 aqp-2.3.1/aqp/R/parseMunsell.R | 2 aqp-2.3.1/aqp/R/plotSPC.R | 10 aqp-2.3.1/aqp/R/reduceSPC.R |only aqp-2.3.1/aqp/R/repairMissingHzDepths.R | 2 aqp-2.3.1/aqp/R/simulateColor.R | 6 aqp-2.3.1/aqp/R/soilColorSignature.R | 59 + aqp-2.3.1/aqp/R/spc2mpspline.R | 17 aqp-2.3.1/aqp/R/spec2Munsell.R | 2 aqp-2.3.1/aqp/R/validateMunsell.R |only aqp-2.3.1/aqp/R/warpHorizons.R | 4 aqp-2.3.1/aqp/data/Ohz.colors.rda |only aqp-2.3.1/aqp/data/datalist | 1 aqp-2.3.1/aqp/inst/doc/Introduction-to-SoilProfileCollection-Objects.R | 6 aqp-2.3.1/aqp/inst/doc/Introduction-to-SoilProfileCollection-Objects.Rmd | 8 aqp-2.3.1/aqp/inst/doc/Introduction-to-SoilProfileCollection-Objects.html | 112 +-- aqp-2.3.1/aqp/inst/doc/Munsell-color-conversion.R | 53 + aqp-2.3.1/aqp/inst/doc/Munsell-color-conversion.Rmd | 88 ++ aqp-2.3.1/aqp/inst/doc/Munsell-color-conversion.html | 110 +++ aqp-2.3.1/aqp/inst/doc/aqp-overview.Rmd | 4 aqp-2.3.1/aqp/inst/doc/aqp-overview.html | 8 aqp-2.3.1/aqp/man/Ohz.colors.Rd |only aqp-2.3.1/aqp/man/SoilProfileCollection-plotting-methods.Rd | 3 aqp-2.3.1/aqp/man/addBracket.Rd | 148 ++-- aqp-2.3.1/aqp/man/addDiagnosticBracket.Rd | 43 + aqp-2.3.1/aqp/man/colorChart.Rd | 18 aqp-2.3.1/aqp/man/colorVariation.Rd | 68 ++ aqp-2.3.1/aqp/man/dollarsign.Rd | 8 aqp-2.3.1/aqp/man/estimateSoilColor.Rd | 59 + aqp-2.3.1/aqp/man/grepSPC.Rd | 2 aqp-2.3.1/aqp/man/hzOffset.Rd | 180 +++++ aqp-2.3.1/aqp/man/initSpatial.Rd | 4 aqp-2.3.1/aqp/man/launderMunsell.Rd |only aqp-2.3.1/aqp/man/mixMunsell.Rd | 4 aqp-2.3.1/aqp/man/mutate_profile.Rd | 2 aqp-2.3.1/aqp/man/names.Rd | 12 aqp-2.3.1/aqp/man/parseMunsell.Rd | 3 aqp-2.3.1/aqp/man/reduceSPC.Rd | 2 aqp-2.3.1/aqp/man/simulateColor.Rd | 2 aqp-2.3.1/aqp/man/site.Rd | 4 aqp-2.3.1/aqp/man/soilColorSignature.Rd | 2 aqp-2.3.1/aqp/man/subApply.Rd | 2 aqp-2.3.1/aqp/man/validateMunsell.Rd |only aqp-2.3.1/aqp/tests/testthat/Rplots.pdf |binary aqp-2.3.1/aqp/tests/testthat/test-colorVariation.R |only aqp-2.3.1/aqp/tests/testthat/test-estimateSoilColor.R | 96 +++ aqp-2.3.1/aqp/tests/testthat/test-hzOffset.R | 44 + aqp-2.3.1/aqp/tests/testthat/test-plotSPC.R | 5 aqp-2.3.1/aqp/tests/testthat/test-reduceSPC.R | 9 aqp-2.3.1/aqp/tests/testthat/test-validateMunsell.R |only aqp-2.3.1/aqp/vignettes/Introduction-to-SoilProfileCollection-Objects.Rmd | 8 aqp-2.3.1/aqp/vignettes/Munsell-color-conversion.Rmd | 88 ++ aqp-2.3.1/aqp/vignettes/aqp-overview.Rmd | 4 aqp-2.3/aqp/R/reduce.R |only 75 files changed, 2223 insertions(+), 674 deletions(-)
Title: Versatile R Server
Description: Rserve is a versatile, scalable server enabling the
efficient use of R from other applications through
variety of protocols including QAP, WebSockets, HTTP
and HTTPS. It acts as a server (TCP/IP or local sockets)
which allows binary requests to be sent to R. Every
connection has a separate workspace and working
directory. Client-side implementations are available
for many popular languages allowing applications
to use facilities of R without the need of linking to
the R binary. Rserve supports remote connections,
user authentication and file transfer. A simple R client
is included in this package as well. It also supports
OCAP mode for secure remote procedure calls,
including support for full event loop, asynchronous
results/graphics and console I/O.
Author: Simon Urbanek [aut, cre, cph]
Maintainer: Simon Urbanek <Simon.Urbanek@r-project.org>
Diff between Rserve versions 1.8-17 dated 2026-02-02 and 1.8-18 dated 2026-03-20
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS | 4 ++++ inst/java/REngine.jar |binary inst/java/Rserve.jar |binary src/Rsrv.h | 4 ++-- src/client/cxx/Rsrv.h | 4 ++-- src/client/java/Rserve/Rserve.jar |binary src/oc.h | 1 + src/rcompat.h | 17 +++++++++++++++++ 10 files changed, 38 insertions(+), 16 deletions(-)
Title: DEFLATE Compression and Static Library
Description: Whole-buffer DEFLATE-based compression and
decompression of raw vectors using the 'libdeflate' library
(see <https://github.com/ebiggers/libdeflate>). Provides the user with additional
control over the speed and the quality of DEFLATE compression
compared to the fixed level of compression offered in R's
'memCompress()' function. Also provides the 'libdeflate' static library and
'C' headers along with a 'CMake' target and 'package‑config' file that
ease linking of 'libdeflate' in packages that compile and statically link
bundled libraries using 'CMake'.
Author: Tyler Morgan-Wall [aut, cre] ,
Eric Biggers [aut, cph],
Google LLC [cph],
Kevin Ushey [cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between libdeflate versions 1.24-7 dated 2025-07-21 and 1.25-0 dated 2026-03-19
DESCRIPTION | 6 MD5 | 24 - src/Makevars.in | 9 src/Makevars.win.in | 9 src/libdeflate/CMakeLists.txt | 2 src/libdeflate/NEWS.md | 6 src/libdeflate/README.md | 1 src/libdeflate/lib/x86/adler32_impl.h | 4 src/libdeflate/lib/x86/cpu_features.h | 9 src/libdeflate/lib/x86/crc32_impl.h | 4 src/libdeflate/libdeflate.h | 4 tools/config.R | 752 +++++++++++++++------------------- tools/config/configure.R | 100 ++-- 13 files changed, 431 insertions(+), 499 deletions(-)
Title: Simplified Statistical Procedures for Social Sciences
Description: Simplifies functions to conduct univariate, bivariate, and multivariate statistical techniques. Includes functions designed to replicate plots and tables that would result from similar calls in 'SPSS', including hst(), box(), qq(), tab(), cormat(), and residplot(). Also includes simplified formulae, such as mode(), scatter(), p.corr(), ow.anova(), and rm.anova().
Author: Burrel Vann Jr [aut, cre]
Maintainer: Burrel Vann Jr <bvannjr@sdsu.edu>
Diff between vannstats versions 1.6.1.08 dated 2026-01-09 and 1.6.3.20 dated 2026-03-19
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++++++--- NAMESPACE | 5 +++++ R/hst.R | 5 +++++ R/os.t.R |only R/ps.t.R |only R/summary.ost.R |only R/summary.pst.R |only man/os.t.Rd |only man/ps.t.Rd |only man/summary.ost.Rd |only man/summary.pst.Rd |only 12 files changed, 25 insertions(+), 7 deletions(-)
Title: Integration Network
Description: It constructs a Consensus Network which identifies the general information of all the layers and Specific Networks for each layer with the information present only in that layer and not in all the others.The method is described in Policastro et al. (2024) "INet for network integration" <doi:10.1007/s00180-024-01536-8>.
Author: Valeria Policastro [aut, cre] ,
Matteo Magnani [aut],
Claudia Angelini [aut],
Annamaria Carissimo [aut]
Maintainer: Valeria Policastro <valeria.policastro@gmail.com>
This is a re-admission after prior archival of version 0.1.1 dated 2025-06-19
Diff between INetTool versions 0.1.1 dated 2025-06-19 and 0.1.2 dated 2026-03-19
INetTool-0.1.1/INetTool/inst/doc/INet.R |only INetTool-0.1.1/INetTool/inst/doc/INet.Rmd |only INetTool-0.1.1/INetTool/inst/doc/INet.html |only INetTool-0.1.1/INetTool/vignettes/INet.Rmd |only INetTool-0.1.2/INetTool/DESCRIPTION | 6 INetTool-0.1.2/INetTool/LICENSE | 4 INetTool-0.1.2/INetTool/MD5 | 32 INetTool-0.1.2/INetTool/R/ConsensusINet.R | 1184 ++++++++++++------------- INetTool-0.1.2/INetTool/R/NetworkMeasures.R | 158 +-- INetTool-0.1.2/INetTool/R/Plots.R | 382 ++++---- INetTool-0.1.2/INetTool/R/SpecificFunction.R | 132 +- INetTool-0.1.2/INetTool/README.md | 12 INetTool-0.1.2/INetTool/build/vignette.rds |binary INetTool-0.1.2/INetTool/inst/NEWS.txt | 3 INetTool-0.1.2/INetTool/inst/doc/INetTool.R |only INetTool-0.1.2/INetTool/inst/doc/INetTool.Rmd |only INetTool-0.1.2/INetTool/inst/doc/INetTool.html |only INetTool-0.1.2/INetTool/man/consensusNet.Rd | 2 INetTool-0.1.2/INetTool/man/plotINet.Rd | 11 INetTool-0.1.2/INetTool/man/plotL.Rd | 3 INetTool-0.1.2/INetTool/vignettes/INetTool.Rmd |only 21 files changed, 972 insertions(+), 957 deletions(-)
Title: Healthcare Analysis Methods
Description: Conducts analyses for healthcare program evaluations or intervention
studies. Calculates regression analyses for standard ordinary least squares
(OLS or linear) or logistic models. Performs regression models used for
causal modeling such as differences-in-differences (DID) and interrupted
time series (ITS) models. Provides limited interpretations of model
results and a ranking of variable importance in models. Performs
propensity score models, top-coding of model outcome variables, and
can return new data with the newly formed variables. Conducts Bayesian
analysis summaries and graphs, decision curve analysis, and produces some
Shewhart control charts. Also performs Cronbach's alpha for various scale
items (e.g., survey questions). See Github URL for examples in the README
file. For more details on the statistical methods, see
Allen & Yen (1979, ISBN:0-8185-0283-5),
Angrist & Pischke (2009, ISBN:9780691120355),
Cohen (1988, ISBN:0-8058-0283-5),
Gebski (2012) <doi:10.1017/S0 [...truncated...]
Author: Stephen Zuniga [aut, cre, cph]
Maintainer: Stephen Zuniga <rms.shiny@gmail.com>
Diff between ham versions 1.1.0 dated 2025-10-28 and 1.2.0 dated 2026-03-19
DESCRIPTION | 26 MD5 | 107 +- NAMESPACE | 37 NEWS.md | 2 R/Bayes.R |only R/alpha.R | 2 R/assess.R | 467 ++++++++- R/control.R |only R/data.R | 112 ++ R/decide.R |only R/group.R | 254 +++-- R/interpret.R | 212 ++-- R/itsEffect.R | 349 +++++-- R/plot.Bayes.R |only R/plot.assess.R | 1495 ++++++++++++++++++-------------- R/plot.control.R |only R/plot.decide.R |only R/plot.group.R | 86 + R/plot.importance.R | 54 + R/print.interpret.R | 47 - README.md | 253 ++++- build/vignette.rds |binary data/co2mcmc.rda |only data/co2multi.rda |only data/infections.rda |only data/losmcmc.rda |only data/unemployment.rda |only inst/CITATION | 87 - inst/doc/Bayes.R |only inst/doc/Bayes.Rmd |only inst/doc/Bayes.html |only inst/doc/control.R |only inst/doc/control.Rmd |only inst/doc/control.html |only inst/doc/decide.R |only inst/doc/decide.Rmd |only inst/doc/decide.html |only inst/doc/ham-package.R | 46 inst/doc/ham-package.Rmd | 54 - inst/doc/ham-package.html | 210 ++-- man/Bayes.Rd |only man/assess.Rd | 28 man/co2mcmc.Rd |only man/co2multi.Rd |only man/control.Rd |only man/decide.Rd |only man/figures/README-chartU1-1.png |only man/figures/README-plotAssess-1.png |binary man/figures/README-plotClass2-1.png |only man/figures/README-plotIS1-1.png |only man/figures/README-plotITS2-1.png |only man/figures/README-plotImportance-1.png |binary man/figures/README-plotNB2-1.png |only man/figures/README-plotPPC1-1.png |only man/figures/README-plotPost1-1.png |only man/group.Rd | 31 man/hosp1.Rd | 2 man/infections.Rd |only man/itsEffect.Rd | 9 man/losmcmc.Rd |only man/plot.Bayes.Rd |only man/plot.assess.Rd | 42 man/plot.control.Rd |only man/plot.decide.Rd |only man/plot.group.Rd | 23 man/plot.importance.Rd | 27 man/unemployment.Rd |only tests/testthat/test-Bayes.R |only tests/testthat/test-control.R |only tests/testthat/test-decision.R |only tests/testthat/test-group.R | 4 tests/testthat/test-itsEffect.R | 2 vignettes/Bayes.Rmd |only vignettes/control.Rmd |only vignettes/decide.Rmd |only vignettes/ham-package.Rmd | 54 - vignettes/taov.png |only 77 files changed, 2736 insertions(+), 1386 deletions(-)
Title: Pipeline for Debiased Target Trial Emulation
Description: Supports propensity score-based methods—including matching, stratification, and weighting—for estimating causal treatment effects. It also implements calibration using negative control outcomes to enhance robustness. 'debiasedTrialEmulation' facilitates effect estimation for both binary and time-to-event outcomes, supporting risk ratio (RR), odds ratio (OR), and hazard ratio (HR) as effect measures. It integrates statistical modeling and visualization tools to assess covariate balance, equipoise, and bias calibration. Additional methods—including approaches to address immortal time bias, information bias, selection bias, and informative censoring—are under development. Users interested in these extended features are encouraged to contact the package authors.
Author: Bingyu Zhang [aut, cre],
Yiwen Lu [aut],
Huilin Tang [aut],
Dazheng Zhang [aut],
Yuqing Lei [aut],
Tingyin Wang [aut],
Siqi Chen [aut],
Yong Chen [aut]
Maintainer: Bingyu Zhang <bingyuz7@sas.upenn.edu>
Diff between debiasedTrialEmulation versions 0.1.0 dated 2025-05-23 and 0.1.2 dated 2026-03-19
DESCRIPTION | 8 +++++--- MD5 | 26 +++++++++++++------------- NAMESPACE | 7 +++---- R/outcome_models.R | 24 ++++++++++++++---------- R/utility_functions.R | 1 + man/TTE_pipeline.Rd | 19 +++++++------------ man/calibrate_TTE.Rd | 6 +++--- man/dTTE_plotting.Rd | 7 ++++--- man/plot.TTE.Rd | 3 --- man/plot.dTTE.Rd | 3 --- man/print.TTE.Rd | 3 --- man/print.dTTE.Rd | 3 --- man/summary.TTE.Rd | 3 --- man/summary.dTTE.Rd | 3 --- 14 files changed, 50 insertions(+), 66 deletions(-)
More information about debiasedTrialEmulation at CRAN
Permanent link
Title: Bayesian Additive Regression Trees with Stan-Sampled Parametric
Extensions
Description: Fits semiparametric linear and multilevel models with non-parametric additive Bayesian additive regression tree (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) components and Stan (Stan Development Team (2021) <https://mc-stan.org/>) sampled parametric ones. Multilevel models can be expressed using 'lme4' syntax (Bates, Maechler, Bolker, and Walker (2015) <doi:10.18637/jss.v067.i01>).
Author: Vincent Dorie [aut, cre] ,
Ben Goodrich [ctb] ,
Jonah Gabry [ctb] ,
Imad Ali [ctb] ,
Sam Brilleman [ctb] ,
Paul-Christian Burkner [ctb] ,
Joshua Pritikin [ctb] ,
Andrew Gelman [ctb] ,
Bob Carpenter [ctb] ,
Matt Hoffman [ctb] ,
Daniel Lee [ctb] ,
Mich [...truncated...]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between stan4bart versions 0.0-11 dated 2025-12-04 and 0.0-12 dated 2026-03-19
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/include/rc/util.h | 6 ++++++ src/rc_util.c | 2 +- 4 files changed, 14 insertions(+), 8 deletions(-)
Title: Code Sharing at the Department of Epidemiology Research at
Statens Serum Institut
Description: This is a collection of assorted functions and examples collected
from various projects. Currently we have functionalities for simplifying
overlapping time intervals, Charlson comorbidity score constructors for
Danish data, getting frequency for multiple variables, getting standardized
output from logistic and log-linear regressions, sibling design linear
regression functionalities a method for calculating the confidence intervals
for functions of parameters from a GLM, Bayes equivalent for hypothesis
testing with asymptotic Bayes factor, and several help functions for
generalized random forest analysis using 'grf'.
Author: Anders Husby [aut] ,
Anna Laksafoss [aut] ,
Emilia Myrup Thiesson [aut] ,
Kim Daniel Jakobsen [aut, cre] ,
Mikael Andersson [aut] ,
Klaus Rostgaard [aut]
Maintainer: Kim Daniel Jakobsen <kija@ssi.dk>
Diff between EpiForsk versions 0.2.0 dated 2025-08-20 and 0.2.1 dated 2026-03-19
DESCRIPTION | 8 MD5 | 30 NAMESPACE | 1 R/EpiForsk_package.R | 90 - R/adls_flatten_dates_dt.R |only R/aso_odds_ratio_function.R | 1802 +++++++++++++------------- R/aso_odds_ratio_function_repeated.R | 770 +++++------ R/kija_covariate_balance.R | 2378 +++++++++++++++++------------------ R/kija_fct_confint.R | 8 R/kija_rate_omnibus_test.R | 4 R/klp_AsympBF.R | 402 ++--- build/vignette.rds |binary inst/doc/Contributing.html | 11 inst/doc/andh_forest_plot.html | 37 man/FlattenDatesDT.Rd |only man/asympBF.Rd | 248 +-- man/dot-datatable.aware.Rd | 34 17 files changed, 2912 insertions(+), 2911 deletions(-)
Title: Native Access Medical Record Retriever for High Yield Analytics
Description: A toolkit for medical records data analysis. The 'naryn'
package implements an efficient data structure for storing medical
records, and provides a set of functions for data extraction,
manipulation and analysis.
Author: Misha Hoichman [aut],
Aviezer Lifshitz [aut, cre],
Ben Gilat [aut],
Netta Mendelson-Cohen [ctb],
Rami Jaschek [ctb],
Weizmann Institute of Science [cph]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between naryn versions 2.6.32 dated 2026-01-18 and 2.6.34 dated 2026-03-19
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 8 ++++++++ R/utils-pipe.R | 4 ---- man/pipe.Rd | 11 ----------- src/NRIteratorFilter.cpp | 4 ++-- src/NRLogicalTrack.cpp | 2 +- src/NRTrackExpressionScanner.cpp | 2 +- src/NRTrackExpressionScanner.h | 4 ++-- src/naryn.cpp | 4 ++-- src/naryn.h | 19 +++++++++++++++++++ 11 files changed, 49 insertions(+), 37 deletions(-)
Title: Toolkit for Analysis of Genomic Data
Description: A toolkit for analysis of genomic data. The 'misha' package
implements an efficient data structure for storing genomic data, and
provides a set of functions for data extraction, manipulation and
analysis. Some of the 2D genome algorithms were described in Yaffe and Tanay
(2011) <doi:10.1038/ng.947>.
Author: Misha Hoichman [aut],
Aviezer Lifshitz [aut, cre],
Eitan Yaffe [aut],
Amos Tanay [aut],
Weizmann Institute of Science [cph]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between misha versions 5.4.5 dated 2026-02-20 and 5.6.6 dated 2026-03-19
DESCRIPTION | 6 MD5 | 134 +++++--- NAMESPACE | 11 NEWS.md | 103 ++++++ R/dataset.R | 73 ++++ R/db-create.R | 2 R/db-index.R | 166 +++++++++- R/intervals-attr.R |only R/intervals-bigset.R | 8 R/intervals-load-save.R | 2 R/intervals-management.R | 6 R/motif-import.R |only R/synth.R | 293 ++++++++++++++++++- R/track-2d.R | 15 R/track-create.R | 6 R/track-export.R |only R/track-modify.R | 4 R/utils-pipe.R | 4 README.md | 6 inst/doc/Database-Formats.R | 4 inst/doc/Database-Formats.Rmd | 6 inst/doc/Database-Formats.html | 7 inst/doc/Manual.Rmd | 2 inst/doc/Manual.html | 5 man/gdb.convert_to_indexed.Rd | 4 man/gdb.create_genome.Rd | 2 man/gintervals.attr.export.Rd |only man/gintervals.attr.get.Rd |only man/gintervals.attr.import.Rd |only man/gintervals.attr.set.Rd |only man/gseq.read_homer.Rd |only man/gseq.read_jaspar.Rd |only man/gseq.read_meme.Rd |only man/gsynth.convert.Rd |only man/gsynth.load.Rd | 12 man/gsynth.save.Rd | 19 - man/gtrack.2d.convert_to_indexed.Rd |only man/gtrack.export_bedgraph.Rd |only man/gtrack.export_bigwig.Rd |only man/pipe.Rd | 11 src/GInterval.cpp | 4 src/GTrackLiftover.cpp | 2 src/GenomeIntervalUtils.cpp | 10 src/GenomeTrack.cpp | 25 + src/GenomeTrack1D.h | 8 src/GenomeTrack2D.cpp | 81 +++++ src/GenomeTrack2D.h | 15 src/GenomeTrack2DIndexedFormat.cpp |only src/GenomeTrackArrays.h | 32 +- src/GenomeTrackFixedBin.cpp | 116 ++++--- src/GenomeTrackFixedBin.h | 16 + src/GenomeTrackInMemory.cpp | 32 +- src/GenomeTrackQuantiles.cpp | 2 src/GenomeTrackRects.h | 7 src/GenomeTrackSmooth.cpp | 2 src/GenomeTrackSparse.h | 41 +- src/IntervVarProcessor.cpp | 63 +++- src/StatQuadTreeCached.h | 15 src/TrackExpressionScanner.cpp | 15 src/TrackExpressionTrackRectsIterator.cpp | 10 src/TrackIndex2D.cpp |only src/TrackIndex2D.h |only src/TrackVarProcessor.cpp | 28 - src/ValueVarProcessor.cpp | 17 - src/misha-init.cpp | 2 src/rdbutils.h | 25 + tests/testthat/fixtures |only tests/testthat/test-dataset.R | 101 ++++++ tests/testthat/test-gintervals.attr.R |only tests/testthat/test-gsynth-gsm.R |only tests/testthat/test-gtrack-format-conversion.R | 11 tests/testthat/test-motif-import.R |only tests/testthat/test-sliding-sum-precision.R |only tests/testthat/test-track-2d-indexed.R |only tests/testthat/test-track-export.R |only tests/testthat/test-vtrack-distance-center-overlap.R |only tests/testthat/test-vtrack-neighbor-count.R | 32 ++ vignettes/Database-Formats.Rmd | 6 vignettes/Manual.Rmd | 2 79 files changed, 1339 insertions(+), 292 deletions(-)
Title: Precision Agriculture Data Analysis
Description: Precision agriculture spatial data
depuration and homogeneous zones (management zone) delineation.
The package includes functions that performs protocols for data cleaning
management zone delineation and zone comparison; protocols are described in
Paccioretti et al., (2020) <doi:10.1016/j.compag.2020.105556>.
Author: Pablo Paccioretti [aut, cre, cph],
Mariano Cordoba [aut],
Franca Giannini-Kurina [aut],
Monica Balzarini [aut]
Maintainer: Pablo Paccioretti <pablopaccioretti@agro.unc.edu.ar>
Diff between paar versions 1.0.1 dated 2024-07-30 and 1.0.2 dated 2026-03-19
DESCRIPTION | 10 MD5 | 59 +- NEWS.md | 71 +-- R/compare_zone.R | 358 +++++++++------ R/depurate.R | 407 +++++++++--------- R/fuzzy_k_means.R | 90 ++-- R/kmspc.R | 694 +++++++++++++++++-------------- R/spatial_t_test.R | 73 ++- R/utils.R | 46 +- README.md | 36 - build/partial.rdb |only build/vignette.rds |binary inst/doc/Yield_data.R | 4 inst/doc/Yield_data.html | 45 +- inst/doc/Zone_delineation.R | 2 inst/doc/Zone_delineation.html | 31 - inst/examples/compare_zone.R | 11 inst/examples/depurate.R | 8 inst/examples/fuzzy_k_means.R | 12 inst/examples/kmspc.R | 7 inst/examples/spatial_t_test.R | 9 man/compare_zone.Rd | 68 ++- man/depurate.Rd | 130 +++-- man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-2-2.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-3-2.png |binary man/fuzzy_k_means.Rd | 68 ++- man/kmspc.Rd | 95 ++-- man/spatial_t_test.Rd | 52 ++ tests/testthat/test-depurate.R | 3 31 files changed, 1393 insertions(+), 996 deletions(-)
Title: Meta-Population Compartmental Model for Respiratory Virus
Diseases
Description: Simulates respiratory virus epidemics using meta-population compartmental models following Fadikar et. al. (2025) <doi:10.1109/WSC68292.2025.11338996>. 'MetaRVM' implements a stochastic
SEIRD (Susceptible-Exposed-Infected-Recovered-Dead) framework with demographic
stratification by user provided attributes. It supports complex
epidemiological scenarios including asymptomatic and presymptomatic transmission,
hospitalization dynamics, vaccination schedules, and time-varying contact patterns
via mixing matrices.
Author: Arindam Fadikar [aut, cre, cph] ,
Charles Macal [ctb],
Martinez Moyano Ignacio Javier [ctb],
Ozik Jonathan [ctb]
Maintainer: Arindam Fadikar <afadikar@anl.gov>
Diff between MetaRVM versions 1.0.1 dated 2026-01-09 and 2.0.0 dated 2026-03-19
MetaRVM-1.0.1/MetaRVM/vignettes/checkpointing.Rmd.orig |only MetaRVM-2.0.0/MetaRVM/DESCRIPTION | 10 MetaRVM-2.0.0/MetaRVM/MD5 | 89 +- MetaRVM-2.0.0/MetaRVM/NEWS.md | 20 MetaRVM-2.0.0/MetaRVM/R/classes.R | 286 ++++--- MetaRVM-2.0.0/MetaRVM/R/format_output.R | 64 + MetaRVM-2.0.0/MetaRVM/R/globals.R | 4 MetaRVM-2.0.0/MetaRVM/R/metaODIN.R | 17 MetaRVM-2.0.0/MetaRVM/R/metaRVM.R | 13 MetaRVM-2.0.0/MetaRVM/R/parse_config.R | 195 +++- MetaRVM-2.0.0/MetaRVM/README.md | 21 MetaRVM-2.0.0/MetaRVM/inst/CITATION | 38 MetaRVM-2.0.0/MetaRVM/inst/doc/checkpointing.Rmd | 34 MetaRVM-2.0.0/MetaRVM/inst/doc/checkpointing.html | 34 MetaRVM-2.0.0/MetaRVM/inst/doc/getting-started.Rmd | 2 MetaRVM-2.0.0/MetaRVM/inst/doc/getting-started.html | 77 - MetaRVM-2.0.0/MetaRVM/inst/doc/running-a-simulation.R | 23 MetaRVM-2.0.0/MetaRVM/inst/doc/running-a-simulation.Rmd | 32 MetaRVM-2.0.0/MetaRVM/inst/doc/running-a-simulation.html | 406 ++++------ MetaRVM-2.0.0/MetaRVM/inst/doc/yaml-configuration.R | 7 MetaRVM-2.0.0/MetaRVM/inst/doc/yaml-configuration.Rmd | 68 - MetaRVM-2.0.0/MetaRVM/inst/doc/yaml-configuration.html | 287 +++---- MetaRVM-2.0.0/MetaRVM/inst/extdata/example_config.yaml | 2 MetaRVM-2.0.0/MetaRVM/inst/extdata/example_config_checkpoint.yaml | 2 MetaRVM-2.0.0/MetaRVM/inst/extdata/example_config_dist.yaml | 2 MetaRVM-2.0.0/MetaRVM/inst/extdata/example_config_subgroup_dist.yaml | 2 MetaRVM-2.0.0/MetaRVM/inst/extdata/population_init_n24.csv | 50 - MetaRVM-2.0.0/MetaRVM/inst/extdata/population_init_n24_only_mapping.csv |only MetaRVM-2.0.0/MetaRVM/man/MetaRVM-package.Rd | 2 MetaRVM-2.0.0/MetaRVM/man/MetaRVMCheck.Rd | 6 MetaRVM-2.0.0/MetaRVM/man/MetaRVMConfig.Rd | 136 ++- MetaRVM-2.0.0/MetaRVM/man/MetaRVMResults.Rd | 26 MetaRVM-2.0.0/MetaRVM/man/MetaRVMSummary.Rd | 4 MetaRVM-2.0.0/MetaRVM/man/figures/README-unnamed-chunk-3-1.png |binary MetaRVM-2.0.0/MetaRVM/man/figures/logo_white.png |only MetaRVM-2.0.0/MetaRVM/man/format_metarvm_output.Rd | 2 MetaRVM-2.0.0/MetaRVM/man/metaRVM.Rd | 12 MetaRVM-2.0.0/MetaRVM/man/meta_sim.Rd | 7 MetaRVM-2.0.0/MetaRVM/man/parse_config.Rd | 25 MetaRVM-2.0.0/MetaRVM/tests/testthat/test-metaRVM.R | 12 MetaRVM-2.0.0/MetaRVM/tests/testthat/test-meta_sim.R | 3 MetaRVM-2.0.0/MetaRVM/tests/testthat/test-parse_config.R | 43 + MetaRVM-2.0.0/MetaRVM/vignettes/checkpointing.Rmd | 34 MetaRVM-2.0.0/MetaRVM/vignettes/getting-started.Rmd | 2 MetaRVM-2.0.0/MetaRVM/vignettes/plot-1.png |binary MetaRVM-2.0.0/MetaRVM/vignettes/running-a-simulation.Rmd | 32 MetaRVM-2.0.0/MetaRVM/vignettes/yaml-configuration.Rmd | 68 - 47 files changed, 1195 insertions(+), 1004 deletions(-)
Title: Create and (Interactively) Modify Nested Hierarchies
Description: Provides functionality to generate, (interactively) modify (by adding, removing and renaming nodes) and convert nested hierarchies between different formats.
These tree like structures can be used to define for example complex hierarchical tables used for statistical disclosure control.
Author: Bernhard Meindl [aut, cre]
Maintainer: Bernhard Meindl <bernhard.meindl@statistik.gv.at>
Diff between sdcHierarchies versions 0.22.0 dated 2025-06-26 and 0.23.0 dated 2026-03-19
DESCRIPTION | 10 MD5 | 34 - NAMESPACE | 1 NEWS.md | 14 R/RcppExports.R | 36 + R/hier_create_ids.R |only R/hier_grid.R | 211 +++++++--- R/hier_helpers.R | 70 +-- build/vignette.rds |binary inst/app/global.R | 96 +++- inst/doc/usage.R | 72 ++- inst/doc/usage.Rmd | 169 ++++++-- inst/doc/usage.html | 551 ++++++++++++++++------------ man/hier_create_ids.Rd |only man/hier_grid.Rd | 69 ++- src/RcppExports.cpp | 112 +++-- src/util-functions.cpp | 778 +++++++++++++++++++--------------------- tests/testthat/test_hier_grid.R | 56 ++ vignettes/usage.Rmd | 169 ++++++-- 19 files changed, 1465 insertions(+), 983 deletions(-)
More information about sdcHierarchies at CRAN
Permanent link
Title: 'FaaSr' Local Test Development Package
Description: Provides a local execution environment for testing and developing the 'FaaSr' workflows
without requiring cloud infrastructure. The 'FaaSr' package enables R developers to
validate and test workflows locally before deploying to Function-as-a-Service (FaaS) platforms.
Key features include:
1) Parsing and validating JSON workflow configurations compliant with the 'FaaSr' schema
2) Simulated S3 storage operations using local file system with local logging
3) Support for conditional branching
4) Support for parallel rank functions execution
5) Workflow cycle detection and validation
6) No cloud credentials or infrastructure required for testing
This package is designed for development and testing purposes. For production deployment
to cloud FaaS platforms, use the main 'FaaSr' package available at
<https://faasr.io/>.
Author: Figueiredo Renato [aut, cre, ths, cph] ,
Park Sungjae [aut] ,
Mu Nan [ctb],
Ku Yun-Jung [ctb],
Daneshmand Vahid [ctb],
Thomas R. Quinn [aut],
Carey Cayelan [ctb],
Tran Hoang [aut],
Ramrakhiani Ashish Tulso [aut]
Maintainer: Figueiredo Renato <renato.figueiredo@oregonstate.edu>
Diff between FaaSr versions 1.4.4 dated 2025-04-04 and 2.0.0 dated 2026-03-19
FaaSr-1.4.4/FaaSr/R/faasr_abort_on_multiple_invocations.R |only FaaSr-1.4.4/FaaSr/R/faasr_arrow_s3_bucket.R |only FaaSr-1.4.4/FaaSr/R/faasr_check_workflow_cycle.R |only FaaSr-1.4.4/FaaSr/R/faasr_client_api_aws-lambda.R |only FaaSr-1.4.4/FaaSr/R/faasr_client_api_github-actions.R |only FaaSr-1.4.4/FaaSr/R/faasr_client_api_openwhisk.R |only FaaSr-1.4.4/FaaSr/R/faasr_client_tools.R |only FaaSr-1.4.4/FaaSr/R/faasr_delete_file.R |only FaaSr-1.4.4/FaaSr/R/faasr_get_file.R |only FaaSr-1.4.4/FaaSr/R/faasr_get_folder_list.R |only FaaSr-1.4.4/FaaSr/R/faasr_get_user_function_args.R |only FaaSr-1.4.4/FaaSr/R/faasr_init_log_folder.R |only FaaSr-1.4.4/FaaSr/R/faasr_lock.R |only FaaSr-1.4.4/FaaSr/R/faasr_log.R |only FaaSr-1.4.4/FaaSr/R/faasr_parse.R |only FaaSr-1.4.4/FaaSr/R/faasr_predecessors_list.R |only FaaSr-1.4.4/FaaSr/R/faasr_put_file.R |only FaaSr-1.4.4/FaaSr/R/faasr_rank.R |only FaaSr-1.4.4/FaaSr/R/faasr_run_user_function.R |only FaaSr-1.4.4/FaaSr/R/faasr_s3_check.R |only FaaSr-1.4.4/FaaSr/R/faasr_start.R |only FaaSr-1.4.4/FaaSr/R/faasr_trigger.R |only FaaSr-1.4.4/FaaSr/inst/CITATION |only FaaSr-1.4.4/FaaSr/man/check_lambda_exists.Rd |only FaaSr-1.4.4/FaaSr/man/check_user_image_exist.Rd |only FaaSr-1.4.4/FaaSr/man/dot-faasr_get_svc.Rd |only FaaSr-1.4.4/FaaSr/man/execute_command_with_retry.Rd |only FaaSr-1.4.4/FaaSr/man/faasr.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_abort_on_multiple_invocations.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_acquire.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_anyone_else_interested.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_arrow_s3_bucket.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_check_workflow_cycle.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_collect_sys_env.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_delete_log.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_delete_log_date.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_get_log.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_get_log_df.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_get_storage_instance.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_get_user_function_args.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_httr_request.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_init_log_folder.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_invoke_workflow.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_lock.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_ow_httr_request.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_parse.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_predecessors_list.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_aws_lambda.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_aws_lambda_function_build.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_aws_lambda_role_create.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_git_local_repo.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_git_remote_env.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_git_remote_repo.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_actions.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_create_dir.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_create_env.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_create_payload.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_create_readme.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_create_yml_file.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_repo_exists.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_repo_lists.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_github_repo_question.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_lambda_function_image.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_lambda_function_info.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_lambda_function_lists.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_lambda_server_info.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_openwhisk.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_openwhisk_action_lists.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_openwhisk_check_exists.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_openwhisk_check_user_input.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_register_workflow_openwhisk_create_action.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_release.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_replace_values.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_run_user_function.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_s3_check.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_set_workflow_timer.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_set_workflow_timer_gh.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_set_workflow_timer_ld.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_set_workflow_timer_ow.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_start.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_trigger.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_unset_workflow_timer.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_workflow_invoke_github.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_workflow_invoke_lambda.Rd |only FaaSr-1.4.4/FaaSr/man/faasr_workflow_invoke_openwhisk.Rd |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_check_workflow_cycle.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_collect_sys_env.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_get_user_function_args.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_parse.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_predecessor_list.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_register_workflow_github_repo_lists.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_register_workflow_openwhisk_action_lists.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test-faasr_replace_values.R |only FaaSr-1.4.4/FaaSr/tests/testthat/test.json |only FaaSr-2.0.0/FaaSr/DESCRIPTION | 66 FaaSr-2.0.0/FaaSr/LICENSE | 4 FaaSr-2.0.0/FaaSr/MD5 | 163 - FaaSr-2.0.0/FaaSr/NAMESPACE | 37 FaaSr-2.0.0/FaaSr/NEWS.md | 18 FaaSr-2.0.0/FaaSr/R/faasr_apis.R |only FaaSr-2.0.0/FaaSr/R/faasr_test.R | 1179 ++++++---- FaaSr-2.0.0/FaaSr/README.md | 211 - FaaSr-2.0.0/FaaSr/build |only FaaSr-2.0.0/FaaSr/inst/WORDLIST | 73 FaaSr-2.0.0/FaaSr/inst/doc |only FaaSr-2.0.0/FaaSr/inst/extdata |only FaaSr-2.0.0/FaaSr/man/dot-fa_files_root.Rd |only FaaSr-2.0.0/FaaSr/man/dot-fa_local_root.Rd |only FaaSr-2.0.0/FaaSr/man/dot-fa_logs_root.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_build_adjacency.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_build_reverse_deps.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_check_predecessor_consistency.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_check_ready_simple.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_check_workflow_cycle_bfs.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_configuration_check_simple.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_find_predecessors_with_types.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_generate_invocation_id.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_parse_invoke_next_string.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_write_invocation_id.Rd |only FaaSr-2.0.0/FaaSr/man/dot-faasr_write_rank_info.Rd |only FaaSr-2.0.0/FaaSr/man/faasr_delete_file.Rd | 29 FaaSr-2.0.0/FaaSr/man/faasr_get_file.Rd | 40 FaaSr-2.0.0/FaaSr/man/faasr_get_folder_list.Rd | 27 FaaSr-2.0.0/FaaSr/man/faasr_invocation_id.Rd |only FaaSr-2.0.0/FaaSr/man/faasr_log.Rd | 28 FaaSr-2.0.0/FaaSr/man/faasr_put_file.Rd | 40 FaaSr-2.0.0/FaaSr/man/faasr_rank.Rd | 20 FaaSr-2.0.0/FaaSr/man/faasr_test.Rd | 22 FaaSr-2.0.0/FaaSr/tests/testthat.R | 10 FaaSr-2.0.0/FaaSr/tests/testthat/helper-workflows.R |only FaaSr-2.0.0/FaaSr/tests/testthat/schema.json |only FaaSr-2.0.0/FaaSr/tests/testthat/setup.R |only FaaSr-2.0.0/FaaSr/tests/testthat/test-basic-execution.R |only FaaSr-2.0.0/FaaSr/tests/testthat/test-conditional-branching.R |only FaaSr-2.0.0/FaaSr/tests/testthat/test-cycle-detection.R |only FaaSr-2.0.0/FaaSr/tests/testthat/test-parallel-ranks.R |only FaaSr-2.0.0/FaaSr/vignettes |only 139 files changed, 1080 insertions(+), 887 deletions(-)
Title: Ensemble Learning Framework for Diagnostic and Prognostic
Modeling
Description: Provides a framework to build and evaluate diagnosis or
prognosis models using stacking, voting, and bagging ensemble
techniques with various base learners. The package also includes
tools for visualization and interpretation of models. The development
version of the package is available on 'GitHub' at
<https://github.com/xiaojie0519/E2E>. The methods
are based on the foundational work of Breiman (1996) <doi:10.1007/BF00058655>
on bagging and Wolpert (1992) <doi:10.1016/S0893-6080(05)80023-1>
on stacking.
Author: Shanjie Luan [aut, cre]
Maintainer: Shanjie Luan <Luan20050519@163.com>
Diff between E2E versions 0.1.2 dated 2025-12-04 and 0.1.3 dated 2026-03-19
DESCRIPTION | 11 +++++------ MD5 | 14 +++++++------- R/Figure.R | 35 ++++++++++------------------------- inst/doc/advanced-features.html | 2 +- inst/doc/diagnostic-workflow.html | 2 +- inst/doc/getting-started.html | 2 +- inst/doc/integrated-pipeline.html | 2 +- inst/doc/prognostic-workflow.html | 14 ++++++++------ 8 files changed, 34 insertions(+), 48 deletions(-)
Title: Weighting for Covariate Balance in Observational Studies
Description: Generates balancing weights for causal effect estimation in observational studies with
binary, multi-category, or continuous point or longitudinal treatments by easing and
extending the functionality of several R packages and providing in-house estimation methods.
Available methods include those that rely on parametric modeling, optimization, and machine learning. Also
allows for assessment of weights and checking of covariate balance by interfacing directly
with the 'cobalt' package. Methods for estimating weighted regression models that take into account
uncertainty in the estimation of the weights via M-estimation or bootstrapping are available. See the vignette "Installing Supporting Packages" for instructions on how
to install any package 'WeightIt' uses, including those that may not be on CRAN.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between WeightIt versions 1.5.1 dated 2025-11-15 and 1.6.0 dated 2026-03-19
WeightIt-1.5.1/WeightIt/R/chk-utilities.R |only WeightIt-1.6.0/WeightIt/DESCRIPTION | 18 WeightIt-1.6.0/WeightIt/MD5 | 100 ++-- WeightIt-1.6.0/WeightIt/NEWS.md | 8 WeightIt-1.6.0/WeightIt/R/ESS.R | 3 WeightIt-1.6.0/WeightIt/R/anova.glm_weightit.R | 52 +- WeightIt-1.6.0/WeightIt/R/arg_functions.R |only WeightIt-1.6.0/WeightIt/R/as.weightit.R | 94 ++-- WeightIt-1.6.0/WeightIt/R/calibrate.R | 14 WeightIt-1.6.0/WeightIt/R/dist_functions.R | 4 WeightIt-1.6.0/WeightIt/R/functions_for_processing.R | 281 +++++++------- WeightIt-1.6.0/WeightIt/R/get_w_from_ps.R | 35 - WeightIt-1.6.0/WeightIt/R/glm_weightit-methods.R | 58 +- WeightIt-1.6.0/WeightIt/R/glm_weightit.R | 15 WeightIt-1.6.0/WeightIt/R/glm_weightit_helpers.R | 114 ++--- WeightIt-1.6.0/WeightIt/R/make_full_rank.R | 8 WeightIt-1.6.0/WeightIt/R/multinom_weightit.R | 33 - WeightIt-1.6.0/WeightIt/R/ordinal_weightit.R | 43 +- WeightIt-1.6.0/WeightIt/R/plot.weightit.R | 7 WeightIt-1.6.0/WeightIt/R/predict.glm_weightit.R | 27 - WeightIt-1.6.0/WeightIt/R/sbps.R | 16 WeightIt-1.6.0/WeightIt/R/summary.weightit.R | 36 - WeightIt-1.6.0/WeightIt/R/treat.R | 2 WeightIt-1.6.0/WeightIt/R/trim.R | 59 +- WeightIt-1.6.0/WeightIt/R/utils.R | 166 +++----- WeightIt-1.6.0/WeightIt/R/weightit.R | 26 - WeightIt-1.6.0/WeightIt/R/weightit.fit.R | 100 ++-- WeightIt-1.6.0/WeightIt/R/weightit2bart.R | 24 - WeightIt-1.6.0/WeightIt/R/weightit2cbps.R | 93 ++-- WeightIt-1.6.0/WeightIt/R/weightit2cfd.R |only WeightIt-1.6.0/WeightIt/R/weightit2ebal.R | 62 +-- WeightIt-1.6.0/WeightIt/R/weightit2energy.R | 260 +++++------- WeightIt-1.6.0/WeightIt/R/weightit2gbm.R | 54 +- WeightIt-1.6.0/WeightIt/R/weightit2glm.R | 100 ++-- WeightIt-1.6.0/WeightIt/R/weightit2ipt.R | 14 WeightIt-1.6.0/WeightIt/R/weightit2npcbps.R | 8 WeightIt-1.6.0/WeightIt/R/weightit2optweight.R | 11 WeightIt-1.6.0/WeightIt/R/weightit2ps.R | 4 WeightIt-1.6.0/WeightIt/R/weightit2super.R | 34 - WeightIt-1.6.0/WeightIt/R/weightit2user.R | 18 WeightIt-1.6.0/WeightIt/R/weightitMSM.R | 22 - WeightIt-1.6.0/WeightIt/R/weightit_methods.R | 24 + WeightIt-1.6.0/WeightIt/README.md | 4 WeightIt-1.6.0/WeightIt/build/stage23.rdb |binary WeightIt-1.6.0/WeightIt/inst/doc/WeightIt.html | 20 WeightIt-1.6.0/WeightIt/inst/doc/estimating-effects.html | 8 WeightIt-1.6.0/WeightIt/inst/doc/installing-packages.html | 4 WeightIt-1.6.0/WeightIt/man/dot-weightit_methods.Rd | 6 WeightIt-1.6.0/WeightIt/man/macros/macros.Rd | 5 WeightIt-1.6.0/WeightIt/man/method_cfd.Rd |only WeightIt-1.6.0/WeightIt/man/method_energy.Rd | 3 WeightIt-1.6.0/WeightIt/man/weightit.Rd | 1 WeightIt-1.6.0/WeightIt/tests/testthat/test-moments.R | 4 53 files changed, 1042 insertions(+), 1060 deletions(-)
Title: Bayesian Predictive Stacking for Scalable Geospatial Transfer
Learning
Description: Provides functions for Bayesian Predictive Stacking within the Bayesian transfer learning framework for geospatial artificial systems, as introduced in "Bayesian Transfer Learning for Artificially Intelligent Geospatial Systems: A Predictive Stacking Approach" (Presicce and Banerjee, 2025) <doi:10.48550/arXiv.2410.09504>. This methodology enables efficient Bayesian geostatistical modeling, utilizing predictive stacking to improve inference across spatial datasets. The core functions leverage 'C++' for high-performance computation, making the framework well-suited for large-scale spatial data analysis in parallel and distributed computing environments. Designed for scalability, it allows seamless application in computationally demanding scenarios.
Author: Luca Presicce [aut, cre] ,
Sudipto Banerjee [aut]
Maintainer: Luca Presicce <l.presicce@campus.unimib.it>
Diff between spBPS versions 0.0-4 dated 2024-10-25 and 1.0-1 dated 2026-03-19
spBPS-0.0-4/spBPS/man/BPS_post.Rd |only spBPS-0.0-4/spBPS/man/BPS_postdraws.Rd |only spBPS-0.0-4/spBPS/man/BPS_pred.Rd |only spBPS-0.0-4/spBPS/man/BPS_weights.Rd |only spBPS-0.0-4/spBPS/man/d_pred_cpp.Rd |only spBPS-0.0-4/spBPS/man/dens_kcv.Rd |only spBPS-0.0-4/spBPS/man/dens_loocv.Rd |only spBPS-0.0-4/spBPS/man/fit_cpp.Rd |only spBPS-0.0-4/spBPS/man/models_dens.Rd |only spBPS-0.0-4/spBPS/man/post_draws.Rd |only spBPS-0.0-4/spBPS/man/r_pred_cond.Rd |only spBPS-0.0-4/spBPS/man/r_pred_joint.Rd |only spBPS-0.0-4/spBPS/man/r_pred_marg.Rd |only spBPS-0.0-4/spBPS/man/spPredict_BPS.Rd |only spBPS-1.0-1/spBPS/DESCRIPTION | 22 spBPS-1.0-1/spBPS/MD5 | 81 - spBPS-1.0-1/spBPS/NAMESPACE | 17 spBPS-1.0-1/spBPS/NEWS.md |only spBPS-1.0-1/spBPS/R/RcppExports.R | 638 ----------- spBPS-1.0-1/spBPS/R/bayesMvLMconjugate.R | 4 spBPS-1.0-1/spBPS/R/code.R | 25 spBPS-1.0-1/spBPS/R/spBPS.R |only spBPS-1.0-1/spBPS/README.md | 115 +- spBPS-1.0-1/spBPS/build/partial.rdb |binary spBPS-1.0-1/spBPS/build/vignette.rds |binary spBPS-1.0-1/spBPS/inst/benchmarks |only spBPS-1.0-1/spBPS/inst/doc/tutorial.R | 140 -- spBPS-1.0-1/spBPS/inst/doc/tutorial.Rmd | 158 -- spBPS-1.0-1/spBPS/inst/doc/tutorial.html | 255 +--- spBPS-1.0-1/spBPS/man/BPS_PseudoBMA.Rd | 38 spBPS-1.0-1/spBPS/man/BPS_combine.Rd | 38 spBPS-1.0-1/spBPS/man/BPS_post_MvT.Rd | 68 - spBPS-1.0-1/spBPS/man/BPS_pred_MvT.Rd | 68 - spBPS-1.0-1/spBPS/man/BPS_weights_MvT.Rd | 26 spBPS-1.0-1/spBPS/man/arma_dist.Rd | 8 spBPS-1.0-1/spBPS/man/bayesMvLMconjugate.Rd | 2 spBPS-1.0-1/spBPS/man/conv_opt.Rd | 10 spBPS-1.0-1/spBPS/man/expand_grid_cpp.Rd | 7 spBPS-1.0-1/spBPS/man/figures |only spBPS-1.0-1/spBPS/man/forceSymmetry_cpp.Rd | 7 spBPS-1.0-1/spBPS/man/pred_bayesMvLMconjugate.Rd | 2 spBPS-1.0-1/spBPS/man/spBPS-package.Rd | 12 spBPS-1.0-1/spBPS/man/spBPS.Rd |only spBPS-1.0-1/spBPS/man/subset_data.Rd | 11 spBPS-1.0-1/spBPS/src/RcppExports.cpp | 241 ---- spBPS-1.0-1/spBPS/src/code.cpp | 1279 ----------------------- spBPS-1.0-1/spBPS/src/code.h | 30 spBPS-1.0-1/spBPS/src/random_utils.cpp |only spBPS-1.0-1/spBPS/src/random_utils.h |only spBPS-1.0-1/spBPS/src/stacking_solver.cpp |only spBPS-1.0-1/spBPS/src/stacking_solver.h |only spBPS-1.0-1/spBPS/src/utilsC.cpp | 30 spBPS-1.0-1/spBPS/vignettes/tutorial.Rmd | 158 -- 53 files changed, 393 insertions(+), 3097 deletions(-)
Title: Parallel Utilities for Lambda Selection along a Regularization
Path
Description: Model selection for penalized graphical models using the Stability Approach to Regularization Selection ('StARS'), with options for speed-ups including Bounded StARS (B-StARS), batch computing, and other stability metrics (e.g., graphlet stability G-StARS). Christian L. Müller, Richard Bonneau, Zachary Kurtz (2016) <doi:10.48550/arXiv.1605.07072>.
Author: Zachary Kurtz [aut, cre],
Christian Mueller [aut, ctb]
Maintainer: Zachary Kurtz <zdkurtz@gmail.com>
This is a re-admission after prior archival of version 0.3.11 dated 2023-09-24
Diff between pulsar versions 0.3.11 dated 2023-09-24 and 0.3.12 dated 2026-03-19
DESCRIPTION | 14 MD5 | 38 +- NEWS | 7 R/batchtools_config_template.R | 26 - R/pulsar-package.R | 35 +- R/utilities.R | 18 - README.md | 4 build/vignette.rds |binary inst/CONTENT.Rmd | 4 inst/doc/other-criteria.R | 162 +++++------ inst/doc/other-criteria.Rmd | 14 inst/doc/other-criteria.html | 458 ++++++++----------------------- inst/doc/pulsar.R | 150 +++++----- inst/doc/pulsar.html | 599 +++++++---------------------------------- inst/gstars.bib | 2 man/findConfFile.Rd | 26 - man/getLamPath.Rd | 18 - man/pulsar-function.Rd | 35 +- man/pulsar-package.Rd | 9 vignettes/other-criteria.Rmd | 14 20 files changed, 530 insertions(+), 1103 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 0.2.3 dated 2026-01-11 and 0.2.4 dated 2026-03-19
NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.cpu |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr001.grd |only 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.shk |only NMdata-0.2.3/NMdata/inst/examples/nonmem/xgxr021.mod |only 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/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_meta.csv |only 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/pk_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_08_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testOutput/stampedData_09_meta.csv |only NMdata-0.2.3/NMdata/tests/testthat/testReference/NMwriteSection_1.rds |only NMdata-0.2.3/NMdata/tests/testthat/testReference/NMwriteSection_2.rds |only NMdata-0.2.3/NMdata/tests/testthat/testReference/NMwriteSection_3.rds |only NMdata-0.2.3/NMdata/tests/testthat/testReference/NMwriteSection_4.rds |only NMdata-0.2.3/NMdata/tests/testthat/testReference/NMwriteSection_5.rds |only NMdata-0.2.3/NMdata/tests/testthat/testReference/NMwriteSection_6.rds |only NMdata-0.2.4/NMdata/DESCRIPTION | 6 NMdata-0.2.4/NMdata/MD5 | 265 ++--- NMdata-0.2.4/NMdata/NAMESPACE | 3 NMdata-0.2.4/NMdata/NEWS.md | 22 NMdata-0.2.4/NMdata/R/NMcheckData.R | 20 NMdata-0.2.4/NMdata/R/NMreadExt.R | 30 NMdata-0.2.4/NMdata/R/NMreadInits.R | 1 NMdata-0.2.4/NMdata/R/NMreadParsText.R | 3 NMdata-0.2.4/NMdata/R/NMtransInp.R | 455 +++------- NMdata-0.2.4/NMdata/R/NMwriteSectionOne.R | 12 NMdata-0.2.4/NMdata/R/cleanFileNames.R |only NMdata-0.2.4/NMdata/R/colLabels.R | 16 NMdata-0.2.4/NMdata/R/dcastSe.R | 52 + NMdata-0.2.4/NMdata/R/dims.R | 5 NMdata-0.2.4/NMdata/R/dt2mat.R | 8 NMdata-0.2.4/NMdata/R/dtapply.R | 1 NMdata-0.2.4/NMdata/R/egdt.R | 1 NMdata-0.2.4/NMdata/R/filePathSimple.R | 12 NMdata-0.2.4/NMdata/R/flagsCount.R | 5 NMdata-0.2.4/NMdata/R/fnAppend.R | 93 +- NMdata-0.2.4/NMdata/R/getLines.R | 38 NMdata-0.2.4/NMdata/R/lapplydt.R | 33 NMdata-0.2.4/NMdata/R/mergeCheck.R | 1 NMdata-0.2.4/NMdata/R/mergeCoal.R | 14 NMdata-0.2.4/NMdata/inst/examples/nonmem/input.ext |only NMdata-0.2.4/NMdata/inst/examples/nonmem/input.phi |only NMdata-0.2.4/NMdata/inst/examples/nonmem/xgxr001.ext | 16 NMdata-0.2.4/NMdata/inst/examples/nonmem/xgxr001.phi | 262 ++--- NMdata-0.2.4/NMdata/inst/examples/nonmem/xgxr003.phi |only NMdata-0.2.4/NMdata/inst/examples/nonmem/xgxr014.phi |only NMdata-0.2.4/NMdata/inst/examples/nonmem/xgxr018.phi | 262 ++--- NMdata-0.2.4/NMdata/inst/examples/nonmem/xgxr132.phi | 360 +++---- NMdata-0.2.4/NMdata/inst/examples/scripts |only NMdata-0.2.4/NMdata/man/NMcheckData.Rd | 4 NMdata-0.2.4/NMdata/man/cleanFileNames.Rd |only NMdata-0.2.4/NMdata/man/colLabels.Rd | 7 NMdata-0.2.4/NMdata/man/dcastSe.Rd | 15 NMdata-0.2.4/NMdata/man/dims.Rd | 2 NMdata-0.2.4/NMdata/man/dt2mat.Rd | 9 NMdata-0.2.4/NMdata/man/egdt.Rd | 3 NMdata-0.2.4/NMdata/man/figures/README-unnamed-chunk-3-1.png |only NMdata-0.2.4/NMdata/man/filePathSimple.Rd | 2 NMdata-0.2.4/NMdata/man/fnAppend.Rd | 54 - NMdata-0.2.4/NMdata/man/getLines.Rd | 18 NMdata-0.2.4/NMdata/man/mergeCheck.Rd | 2 NMdata-0.2.4/NMdata/man/mergeCoal.Rd | 3 NMdata-0.2.4/NMdata/tests/testthat/testData/data/xgxr12.csv |only NMdata-0.2.4/NMdata/tests/testthat/testData/data/xgxr12.rds |only NMdata-0.2.4/NMdata/tests/testthat/testData/data/xgxr12_meta.txt |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/pred030.ext |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/pred030.lst |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/pred030.phi |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/pred030.pnm |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/pred030.shk |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/pred030_res.txt |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr035.pnm |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr053.pnm |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr053_ETAS.msf |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr056.ext |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr056.lst |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr056.phi |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr056.shk |only NMdata-0.2.4/NMdata/tests/testthat/testData/nonmem/xgxr056.txt |only NMdata-0.2.4/NMdata/tests/testthat/testData/simulations/xgxr014_testsim1/xgxr014_testsim1.xml |only NMdata-0.2.4/NMdata/tests/testthat/testData/simulations/xgxr032_simpletab/xgxr032_simpletab.xml |only NMdata-0.2.4/NMdata/tests/testthat/testData/simulations/xgxr032_testsim1 |only NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMreplaceDataFile_01.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMreplaceDataFile_02.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMwriteData10.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMwriteData11.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMwriteDataTmp.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMwriteData_13.fst |only NMdata-0.2.4/NMdata/tests/testthat/testOutput/NMwriteSection_07.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/pk.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testOutput/simulations |only NMdata-0.2.4/NMdata/tests/testthat/testOutput/stampedData_08.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testOutput/stampedData_08_meta.txt | 2 NMdata-0.2.4/NMdata/tests/testthat/testOutput/stampedData_09_meta.txt | 2 NMdata-0.2.4/NMdata/tests/testthat/testOutput/stampedData_9.csv |only NMdata-0.2.4/NMdata/tests/testthat/testOutput/stampedData_9_meta.txt |only NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr011_update1.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr011_update1b.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr011_update2.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr011_update3.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr011_update5.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr011_update6.mod | 1 NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr025_sd1 |only NMdata-0.2.4/NMdata/tests/testthat/testOutput/xgxr032_VarCov_1 |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMextractFormats_01.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMreadExt_02.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMreadExt_03.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMreadExt_04.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMreadExt_05.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMreplaceDataFile_01.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMreplaceDataFile_02.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMsim_VarCov_01a.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMsim_VarCov_01b.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_01.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_02.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_03.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_04.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_05.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_06.rds |only NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_07.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/NMwriteSection_08.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/flagsCount_1.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/flagsCount_2.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/flagsCount_3.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/flagsCount_4.rds |binary NMdata-0.2.4/NMdata/tests/testthat/testReference/flagsCount_6.rds |binary NMdata-0.2.4/NMdata/tests/testthat/test_NMapplyFilters.R |only NMdata-0.2.4/NMdata/tests/testthat/test_NMreadExt.R | 19 NMdata-0.2.4/NMdata/tests/testthat/test_NMreplaceDataFile.R | 7 NMdata-0.2.4/NMdata/tests/testthat/test_NMwriteSection.R | 26 NMdata-0.2.4/NMdata/tests/testthat/test_dcastSe.R |only NMdata-0.2.4/NMdata/tests/testthat/test_filePathSimple.R |only NMdata-0.2.4/NMdata/tests/testthat/test_flags.R | 66 + NMdata-0.2.4/NMdata/tests/testthat/test_fnAppend.R | 24 NMdata-0.2.4/NMdata/tests/testthat/test_mergeCoal.R |only 166 files changed, 1195 insertions(+), 1075 deletions(-)
Title: Model Confidence Set Procedure
Description: Perform the Model Confidence Set procedure of Hansen et.al (2011).
Author: Leopoldo Catania [aut, cre]
Maintainer: Leopoldo Catania <leopoldo.catania@econ.au.dk>
Diff between MCS versions 0.1.3 dated 2017-08-04 and 0.2.0 dated 2026-03-19
MCS-0.1.3/MCS/R/MCS.R |only MCS-0.1.3/MCS/THANKS |only MCS-0.1.3/MCS/data |only MCS-0.1.3/MCS/inst |only MCS-0.1.3/MCS/man/Loss.Rd |only MCS-0.1.3/MCS/man/MCS-package.Rd |only MCS-0.1.3/MCS/man/STOXXIndexesRet.Rd |only MCS-0.2.0/MCS/Changelog |only MCS-0.2.0/MCS/DESCRIPTION | 22 ++++-- MCS-0.2.0/MCS/MD5 | 29 ++++---- MCS-0.2.0/MCS/NAMESPACE | 25 +++---- MCS-0.2.0/MCS/R/ClassesMethods.R |only MCS-0.2.0/MCS/R/LossFunctions.R |only MCS-0.2.0/MCS/R/MCSprocedure.R |only MCS-0.2.0/MCS/R/internalFunctions.R |only MCS-0.2.0/MCS/man/LossLevel.Rd | 50 +++++++-------- MCS-0.2.0/MCS/man/LossVaR.Rd | 84 ++++++++++++++------------ MCS-0.2.0/MCS/man/LossVol.Rd | 68 ++++++++++----------- MCS-0.2.0/MCS/man/MCSprocedure.Rd | 113 +++++++++++++++++++---------------- MCS-0.2.0/MCS/man/SSM-class.Rd | 4 - MCS-0.2.0/MCS/man/SSM-methods.Rd | 6 - 21 files changed, 214 insertions(+), 187 deletions(-)
Title: Model Consistent Lasso Estimation Through the Bootstrap
Description: Implements the bolasso algorithm for consistent variable selection
and estimation accuracy. Includes support for many parallel backends via the
future package. For details see: Bach (2008),
'Bolasso: model consistent Lasso estimation through the bootstrap',
<doi:10.48550/arXiv.0804.1302>.
Author: Daniel Molitor [aut, cre]
Maintainer: Daniel Molitor <molitdj97@gmail.com>
Diff between bolasso versions 0.4.0 dated 2025-10-14 and 0.5.0 dated 2026-03-19
DESCRIPTION | 6 MD5 | 20 +- NEWS.md | 12 + R/bolasso_fast.R | 34 ++++ R/methods.R | 33 ++++ R/plot.R | 276 ++++++++++++++++++++++++++++----------- R/tidy.R | 32 +++- R/utils.R | 184 ++++++++++++++++++++++---- man/plot_selection_thresholds.Rd | 12 + man/selected_variables.Rd | 4 man/selection_thresholds.Rd | 4 11 files changed, 488 insertions(+), 129 deletions(-)
Title: Visualising Bipartite Networks and Calculating Some (Ecological)
Indices
Description: Functions to visualise webs and calculate a series of indices commonly used to describe pattern in (ecological) webs. It focuses on webs consisting of only two levels (bipartite), e.g. pollination webs or predator-prey-webs. Visualisation is important to get an idea of what we are actually looking at, while the indices summarise different aspects of the web's topology.
Author: Carsten F. Dormann [aut, cre] ,
Jochen Fruend [aut] ,
Bernd Gruber [aut] ,
Tobias Bauer [ctb] ,
Stephen Beckett [ctb] ,
Mariano Devoto [ctb] ,
Gabriel M.F. Felix [ctb] ,
Jose M. Iriondo [ctb] ,
Tore Opsahl [ctb] ,
Rafael B.P. Pinheiro [ctb] ,
Rouven [...truncated...]
Maintainer: Carsten F. Dormann <carsten.dormann@biom.uni-freiburg.de>
Diff between bipartite versions 2.23 dated 2025-10-07 and 2.24 dated 2026-03-19
DESCRIPTION | 8 - MD5 | 30 ++-- R/plotweb.R | 19 ++ R/sortweb.R | 207 ++++++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Intro2bipartite.Rnw | 2 inst/doc/Intro2bipartite.pdf |binary inst/doc/PlottingWithBipartite.R | 13 - inst/doc/PlottingWithBipartite.Rmd | 22 --- inst/doc/PlottingWithBipartite.html | 242 ++++++++++++++++-------------------- man/bipartite-package.Rd | 12 + man/plotweb.Rd | 2 src/MersenneTwister.h | 4 vignettes/Intro2bipartite.Rnw | 2 vignettes/PlottingWithBipartite.Rmd | 22 --- 16 files changed, 283 insertions(+), 302 deletions(-)