Title: Propensity Score Predictive Inference for Generalizability and
Transportability
Description: Provides a suite of Propensity Score Predictive Inference (PSPI) methods to generalize treatment effects in trials to target populations. The package includes an existing model Bayesian Causal Forest (BCF) and four PSPI models (BCF-PS, FullBART, SplineBART, DSplineBART). These methods leverage Bayesian Additive Regression Trees (BART) to adjust for high-dimensional covariates and nonlinear associations, while SplineBART and DSplineBART further use propensity score based splines to address covariate shift between trial data and target population.
Author: Jungang Zou [aut, cre],
Qixuan Chen [aut],
Joseph Schwartz [aut],
Nathalie Moise [aut],
Roderick Little [aut],
Robert McCulloch [ctb],
Rodney Sparapani [ctb],
Charles Spanbauer [ctb],
Robert Gramacy [ctb],
Jean-Sebastien Roy [ctb]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Diff between PSPI versions 1.2 dated 2025-12-02 and 1.4 dated 2026-10-01
PSPI-1.2/PSPI/man/sim_data.Rd |only PSPI-1.2/PSPI/src/PSPI_DSplineBART.h |only PSPI-1.4/PSPI/DESCRIPTION | 15 PSPI-1.4/PSPI/MD5 | 54 + PSPI-1.4/PSPI/NAMESPACE | 13 PSPI-1.4/PSPI/NEWS.md | 10 PSPI-1.4/PSPI/R/MCMC_PSPI_R.R | 387 ++++++++++++- PSPI-1.4/PSPI/R/PSPI_fit.R |only PSPI-1.4/PSPI/R/PSPI_predict.R |only PSPI-1.4/PSPI/R/PSPI_summary.R |only PSPI-1.4/PSPI/R/RcppExports.R | 16 PSPI-1.4/PSPI/R/globals.R |only PSPI-1.4/PSPI/R/sim_data.R | 590 +++++++++++++++++--- PSPI-1.4/PSPI/R/utils.R |only PSPI-1.4/PSPI/man/PSPI-package.Rd | 22 PSPI-1.4/PSPI/man/PSPI_fit.Rd |only PSPI-1.4/PSPI/man/PSPI_generalizability.Rd | 108 ++- PSPI-1.4/PSPI/man/PSPI_predict.Rd |only PSPI-1.4/PSPI/man/in_trial.Rd |only PSPI-1.4/PSPI/man/invgumbel.Rd |only PSPI-1.4/PSPI/man/sim_generalizability.Rd |only PSPI-1.4/PSPI/man/sim_trans.Rd |only PSPI-1.4/PSPI/man/summary.PSPI_generalizability.Rd |only PSPI-1.4/PSPI/src/BARTforPSPI.h | 99 +++ PSPI-1.4/PSPI/src/BCF.h | 180 +++++- PSPI-1.4/PSPI/src/MCMC_PSPI.cpp | 492 ++++++++++++++++- PSPI-1.4/PSPI/src/NS.h | 397 ++++++-------- PSPI-1.4/PSPI/src/NS_basis.h | 210 +++---- PSPI-1.4/PSPI/src/NS_ridge.h | 354 +++++++----- PSPI-1.4/PSPI/src/PSPI_BCF_P.h | 184 +++++- PSPI-1.4/PSPI/src/PSPI_FullBART.h | 299 ++++++++-- PSPI-1.4/PSPI/src/PSPI_MSplineBART.h |only PSPI-1.4/PSPI/src/PSPI_SplineBART.h | 328 +++++++---- PSPI-1.4/PSPI/src/RcppExports.cpp | 79 ++ PSPI-1.4/PSPI/src/bart_model.h | 592 ++++++++------------- PSPI-1.4/PSPI/src/pbart_model.h |only 36 files changed, 3103 insertions(+), 1326 deletions(-)
Title: Spatial Phylogenetic Analysis
Description: Analyze spatial phylogenetic diversity patterns.
Use your data on an evolutionary tree and geographic distributions of the
terminal taxa to compute diversity and endemism metrics, test significance
with null model randomization, analyze community turnover and biotic
regionalization, and perform spatial conservation prioritizations. All
functions support quantitative community data in addition to binary data.
Author: Matthew Kling [aut, cre, cph]
Maintainer: Matthew Kling <mattkling@berkeley.edu>
Diff between phylospatial versions 1.4.0 dated 2026-04-16 and 1.5.0 dated 2026-10-01
DESCRIPTION | 10 - MD5 | 63 ++++--- NAMESPACE | 7 NEWS.md | 14 + R/phylospatial-methods.R | 1 R/phylospatial.R | 20 +- R/ps_performance.R |only R/ps_prioritize.R | 157 ++++++++++++------- R/ps_prioritizr.R |only R/tree_scaling.R |only README.md | 7 build/vignette.rds |binary inst/doc/alpha-diversity.html | 13 - inst/doc/beta-diversity.html | 18 +- inst/doc/phylospatial-data.R | 13 + inst/doc/phylospatial-data.Rmd | 39 ++++ inst/doc/phylospatial-data.html | 110 +++++++++++-- inst/doc/prioritization.R | 56 ++++++ inst/doc/prioritization.Rmd | 128 +++++++++++++-- inst/doc/prioritization.html | 280 +++++++++++++++++++++++++++++----- inst/extdata/priority-performance.csv |only inst/extdata/priority-prioritizr.tif |only inst/extdata/priority-prob.tif |binary inst/extdata/priority.tif |binary man/figures/README-example-1.png |binary man/phylospatial-package.Rd | 5 man/phylospatial.Rd | 12 + man/ps_performance.Rd |only man/ps_prioritize.Rd | 15 + man/ps_prioritizr.Rd |only man/tree_scaling.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test-ps_performance.R |only tests/testthat/test-ps_prioritize.R | 15 + tests/testthat/test-ps_prioritizr.R |only tests/testthat/test-tree_scaling.R |only vignettes/phylospatial-data.Rmd | 39 ++++ vignettes/prioritization.Rmd | 128 +++++++++++++-- 38 files changed, 951 insertions(+), 199 deletions(-)
Title: Explore Catálogo Taxônomico da Fauna do Brasil Database
Description: A collection of functions designed to retrieve, filter and spatialize data from the Catálogo Taxônomico da Fauna do Brasil. For more information about the dataset, please visit <https://fauna.jbrj.gov.br/fauna/listaBrasil/>.
Author: Weverton Trindade [aut, cre]
Maintainer: Weverton Trindade <wevertonf1993@gmail.com>
Diff between faunabr versions 1.1.1 dated 2026-08-21 and 1.1.2 dated 2026-10-01
DESCRIPTION | 10 - MD5 | 16 +- NAMESPACE | 8 - NEWS.md | 6 R/fauna_version.R | 116 +++++++----------- R/get_faunabr.R | 325 +++++++++++++++++++++++++++++++++++++++------------ R/helpers.R | 42 ++++++ man/fauna_version.Rd | 2 man/get_faunabr.Rd | 7 - 9 files changed, 374 insertions(+), 158 deletions(-)
Title: Enhanced Office Open XML Charting for 'openxlsx2'
Description: Provides a high-level 'R6' interface for creating complex
Office Open XML (OOXML) charts. Allows users to build
multi-series combo charts with secondary axes and granular styling
options, designed to integrate seamlessly with 'openxlsx2'.
Author: Jan Marvin Garbuszus [aut, cre]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between encharter versions 0.11 dated 2026-09-05 and 0.12 dated 2026-10-01
encharter-0.11/encharter/inst/tools |only encharter-0.12/encharter/DESCRIPTION | 10 encharter-0.12/encharter/MD5 | 116 +- encharter-0.12/encharter/NAMESPACE | 8 encharter-0.12/encharter/NEWS.md | 78 + encharter-0.12/encharter/R/encharter.R | 17 encharter-0.12/encharter/R/encharter_chart.R | 635 +++++++++-- encharter-0.12/encharter/R/encharter_chartex.R | 153 +- encharter-0.12/encharter/R/encharter_crtx.R |only encharter-0.12/encharter/R/encharter_load.R |only encharter-0.12/encharter/R/encharter_plot.R |only encharter-0.12/encharter/R/encharter_plot_3d.R |only encharter-0.12/encharter/R/encharter_plot_ex.R |only encharter-0.12/encharter/R/pugixml.R | 22 encharter-0.12/encharter/inst/WORDLIST | 3 encharter-0.12/encharter/inst/examples/Chart_template.R |only encharter-0.12/encharter/inst/examples/Load_and_extend.R |only encharter-0.12/encharter/inst/extdata |only encharter-0.12/encharter/man/EncharterBase.Rd | 4 encharter-0.12/encharter/man/encharter.Rd | 149 ++ encharter-0.12/encharter/man/encharter_crtx.Rd |only encharter-0.12/encharter/man/encharter_load.Rd |only encharter-0.12/encharter/man/plot.Chart.Rd |only encharter-0.12/encharter/man/xml_text.Rd |only encharter-0.12/encharter/src/init.c | 2 encharter-0.12/encharter/src/pugixml.cpp | 5 encharter-0.12/encharter/tests/testthat/_snaps |only encharter-0.12/encharter/tests/testthat/helper-reference.R |only encharter-0.12/encharter/tests/testthat/test-axis_logic.R | 2 encharter-0.12/encharter/tests/testthat/test-load.R |only encharter-0.12/encharter/tests/testthat/test-plot.R |only encharter-0.12/encharter/tests/testthat/test-plot_options.R |only encharter-0.12/encharter/tests/testthat/test-snapshots.R |only encharter-0.12/encharter/tests/testthat/test-update_series.R |only encharter-0.12/encharter/tests/testthat/test-wb_data.R | 4 35 files changed, 1022 insertions(+), 186 deletions(-)
Title: Clustered Instrumental Variables Estimation and Inference
Description: Implements instrumental variables estimation and inference for
one endogenous regressor and one-way clustered errors. Includes the
cluster-jackknife IV estimator (CJIVE) of Frandsen, Leslie and McIntyre
(2025) <doi:10.1162/rest.a.263> and the cluster-jackknife Anderson-Rubin
and score tests of Ligtenberg (2025) <doi:10.48550/arXiv.2306.08559>,
which are robust to weak and many instruments. Supports multiple excluded
instruments, covariates, precision weights, and high-dimensional fixed
effects.
Author: Atal Katawazi [aut, cre]
Maintainer: Atal Katawazi <atalkatawazi@gmail.com>
Diff between clusterIV versions 0.1.0 dated 2026-06-30 and 0.2.0 dated 2026-10-01
clusterIV-0.1.0/clusterIV/R/internals.R |only clusterIV-0.2.0/clusterIV/DESCRIPTION | 34 - clusterIV-0.2.0/clusterIV/LICENSE | 2 clusterIV-0.2.0/clusterIV/MD5 | 59 +- clusterIV-0.2.0/clusterIV/NAMESPACE | 54 + clusterIV-0.2.0/clusterIV/NEWS.md |only clusterIV-0.2.0/clusterIV/R/cjar.R |only clusterIV-0.2.0/clusterIV/R/cjive.R | 388 ++++++++++---- clusterIV-0.2.0/clusterIV/R/cjscore.R |only clusterIV-0.2.0/clusterIV/R/formula.R |only clusterIV-0.2.0/clusterIV/R/internals-efff.R |only clusterIV-0.2.0/clusterIV/R/internals-hdfe.R |only clusterIV-0.2.0/clusterIV/R/internals-poly.R |only clusterIV-0.2.0/clusterIV/R/internals-prep.R |only clusterIV-0.2.0/clusterIV/R/internals-tests.R |only clusterIV-0.2.0/clusterIV/R/iv_compare.R | 130 ++++ clusterIV-0.2.0/clusterIV/R/iv_infer.R |only clusterIV-0.2.0/clusterIV/R/methods.R | 434 +++++++++++++++- clusterIV-0.2.0/clusterIV/R/plot.R |only clusterIV-0.2.0/clusterIV/R/tidy.R |only clusterIV-0.2.0/clusterIV/R/zzz.R |only clusterIV-0.2.0/clusterIV/README.md | 406 ++++++++++++-- clusterIV-0.2.0/clusterIV/build |only clusterIV-0.2.0/clusterIV/inst |only clusterIV-0.2.0/clusterIV/man/cjar.Rd |only clusterIV-0.2.0/clusterIV/man/cjive.Rd | 299 +++++++++-- clusterIV-0.2.0/clusterIV/man/cjscore.Rd |only clusterIV-0.2.0/clusterIV/man/clusterIV-tidiers.Rd |only clusterIV-0.2.0/clusterIV/man/iv_compare.Rd | 161 +++++ clusterIV-0.2.0/clusterIV/man/iv_infer.Rd |only clusterIV-0.2.0/clusterIV/man/plot.cjar.Rd |only clusterIV-0.2.0/clusterIV/tests/test-api-safety.R |only clusterIV-0.2.0/clusterIV/tests/test-api.R |only clusterIV-0.2.0/clusterIV/tests/test-cjar.R |only clusterIV-0.2.0/clusterIV/tests/test-cjive.R | 180 ++++++ clusterIV-0.2.0/clusterIV/tests/test-cjscore.R |only clusterIV-0.2.0/clusterIV/tests/test-crossfit.R |only clusterIV-0.2.0/clusterIV/tests/test-effF.R |only clusterIV-0.2.0/clusterIV/tests/test-hdfe-safety.R |only clusterIV-0.2.0/clusterIV/tests/test-input-space.R |only clusterIV-0.2.0/clusterIV/tests/test-inversion-safety.R |only clusterIV-0.2.0/clusterIV/tests/test-kernel-whitened.R |only clusterIV-0.2.0/clusterIV/tests/test-output.R |only clusterIV-0.2.0/clusterIV/vignettes |only 44 files changed, 1836 insertions(+), 311 deletions(-)
Title: Cross-Framework Sensitivity Analysis with an OLS Crosswalk
Description: Runs, classifies, interprets and reports sensitivity analyses
for unmeasured confounding across the partial R-squared robustness value
approach (Cinelli and Hazlett, 2020, <doi:10.1111/rssb.12348>), E-values
(VanderWeele and Ding, 2017, <doi:10.7326/M16-2607>), and the impact
threshold for a confounding variable and robustness of inference to
replacement (Frank, 2000, <doi:10.1177/0049124100029002001>; Frank,
Maroulis, Duong and Kelcey, 2013, <doi:10.3102/0162373713493129>). An
ordinary least squares crosswalk reports the robustness values, impact
threshold and replacement percentage computed from the focal t statistic
and residual degrees of freedom, makes explicit that their agreement is
largely fixed by that shared input, and flags the boundary band in which
they disagree. Template-based plain-language reports are included, with
optional integration with the 'confoundvis' package for plots.
Author: Subir Hait [aut, cre]
Maintainer: Subir Hait <haitsubi@msu.edu>
Diff between causalfrag versions 0.1.1 dated 2026-06-15 and 0.2.0 dated 2026-10-01
causalfrag-0.1.1/causalfrag/inst/simulation |only causalfrag-0.1.1/causalfrag/man/sens_report.Rd |only causalfrag-0.2.0/causalfrag/DESCRIPTION | 41 causalfrag-0.2.0/causalfrag/MD5 | 68 - causalfrag-0.2.0/causalfrag/NAMESPACE | 8 causalfrag-0.2.0/causalfrag/NEWS.md | 33 causalfrag-0.2.0/causalfrag/R/causal_fragility_index.R | 24 causalfrag-0.2.0/causalfrag/R/causalfrag-package.R | 52 causalfrag-0.2.0/causalfrag/R/cfi_extensions.R | 9 causalfrag-0.2.0/causalfrag/R/crosswalk.R |only causalfrag-0.2.0/causalfrag/R/detect_design.R | 4 causalfrag-0.2.0/causalfrag/R/flag_fragility.R | 22 causalfrag-0.2.0/causalfrag/R/generate_report.R | 24 causalfrag-0.2.0/causalfrag/R/run_sensitivity.R | 586 +++++----- causalfrag-0.2.0/causalfrag/R/sens_results-class.R | 21 causalfrag-0.2.0/causalfrag/R/stubs.R | 9 causalfrag-0.2.0/causalfrag/build/partial.rdb |binary causalfrag-0.2.0/causalfrag/build/vignette.rds |binary causalfrag-0.2.0/causalfrag/inst/doc/getting-started.R | 71 - causalfrag-0.2.0/causalfrag/inst/doc/getting-started.Rmd | 136 +- causalfrag-0.2.0/causalfrag/inst/doc/getting-started.html | 186 +-- causalfrag-0.2.0/causalfrag/man/causalfrag-package.Rd | 56 causalfrag-0.2.0/causalfrag/man/compare_cfi.Rd | 5 causalfrag-0.2.0/causalfrag/man/compute_cfi.Rd | 5 causalfrag-0.2.0/causalfrag/man/compute_cfi_benchmarked.Rd | 5 causalfrag-0.2.0/causalfrag/man/compute_cfi_weighted.Rd | 5 causalfrag-0.2.0/causalfrag/man/crosswalk.Rd |only causalfrag-0.2.0/causalfrag/man/detect_design.Rd | 2 causalfrag-0.2.0/causalfrag/man/flag_fragility.Rd | 8 causalfrag-0.2.0/causalfrag/man/fragility_report.Rd |only causalfrag-0.2.0/causalfrag/man/new_sens_results.Rd | 5 causalfrag-0.2.0/causalfrag/man/print_cfi.Rd | 5 causalfrag-0.2.0/causalfrag/tests/testthat.R |only causalfrag-0.2.0/causalfrag/tests/testthat/test-crosswalk.R |only causalfrag-0.2.0/causalfrag/tests/testthat/test-detect-and-flag.R | 44 causalfrag-0.2.0/causalfrag/tests/testthat/test-run_sensitivity.R | 136 +- causalfrag-0.2.0/causalfrag/tests/testthat/test-sens_results.R | 3 causalfrag-0.2.0/causalfrag/vignettes/getting-started.Rmd | 136 +- 38 files changed, 918 insertions(+), 791 deletions(-)
Title: Classification Based on Association Rules
Description: Provides the infrastructure for association rule-based classification including the algorithms
CBA, CMAR, CPAR, C4.5, FOIL, PART, PRM, RCAR, and RIPPER to build associative classifiers.
Hahsler et al (2019) <doi:10.32614/RJ-2019-048>.
Author: Michael Hahsler [aut, cre, cph] ,
Ian Johnson [aut, cph],
Tyler Giallanza [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between arulesCBA versions 1.2.9 dated 2025-11-14 and 1.2.10 dated 2026-10-01
arulesCBA-1.2.10/arulesCBA/DESCRIPTION | 17 arulesCBA-1.2.10/arulesCBA/MD5 | 90 ++-- arulesCBA-1.2.10/arulesCBA/NAMESPACE | 14 arulesCBA-1.2.10/arulesCBA/NEWS.md | 29 - arulesCBA-1.2.10/arulesCBA/R/AAAdata.R | 5 arulesCBA-1.2.10/arulesCBA/R/CBA.R | 12 arulesCBA-1.2.10/arulesCBA/R/CBA_helpers.R | 8 arulesCBA-1.2.10/arulesCBA/R/CBA_ruleset.R | 17 arulesCBA-1.2.10/arulesCBA/R/FOIL.R | 2 arulesCBA-1.2.10/arulesCBA/R/LUCS_KDD_CBA.R | 8 arulesCBA-1.2.10/arulesCBA/R/RCAR.R | 31 - arulesCBA-1.2.10/arulesCBA/R/RWeka_CBA.R | 8 arulesCBA-1.2.10/arulesCBA/R/discretizeDF.supervised.R | 8 arulesCBA-1.2.10/arulesCBA/R/mineCARs.R | 21 - arulesCBA-1.2.10/arulesCBA/R/predict.R | 4 arulesCBA-1.2.10/arulesCBA/R/prepareTransactions.R | 12 arulesCBA-1.2.10/arulesCBA/R/transactions2DF.R | 6 arulesCBA-1.2.10/arulesCBA/README.md | 110 ++--- arulesCBA-1.2.10/arulesCBA/build/partial.rdb |binary arulesCBA-1.2.10/arulesCBA/build/vignette.rds |only arulesCBA-1.2.10/arulesCBA/inst/doc |only arulesCBA-1.2.10/arulesCBA/man/CBA.Rd | 24 - arulesCBA-1.2.10/arulesCBA/man/CBA_helpers.Rd | 22 - arulesCBA-1.2.10/arulesCBA/man/CBA_ruleset.Rd | 35 - arulesCBA-1.2.10/arulesCBA/man/FOIL.Rd | 16 arulesCBA-1.2.10/arulesCBA/man/LUCS_KDD_CBA.Rd | 22 - arulesCBA-1.2.10/arulesCBA/man/Lymphography.Rd | 2 arulesCBA-1.2.10/arulesCBA/man/Mushroom.Rd | 2 arulesCBA-1.2.10/arulesCBA/man/RCAR.Rd | 45 +- arulesCBA-1.2.10/arulesCBA/man/RWeka_CBA.Rd | 28 - arulesCBA-1.2.10/arulesCBA/man/arulesCBA-package.Rd | 4 arulesCBA-1.2.10/arulesCBA/man/discretizeDF.supervised.Rd | 24 - arulesCBA-1.2.10/arulesCBA/man/mineCARs.Rd | 36 - arulesCBA-1.2.10/arulesCBA/man/predict.CBA.Rd | 13 arulesCBA-1.2.10/arulesCBA/man/prepareTransactions.Rd | 27 - arulesCBA-1.2.10/arulesCBA/man/transactions2DF.Rd | 15 arulesCBA-1.2.10/arulesCBA/src/weighted.c | 3 arulesCBA-1.2.10/arulesCBA/tests/testthat.R | 6 arulesCBA-1.2.10/arulesCBA/tests/testthat/test-CBA.R | 85 ++-- arulesCBA-1.2.10/arulesCBA/tests/testthat/test-CBA_helpers.R | 201 ++-------- arulesCBA-1.2.10/arulesCBA/tests/testthat/test-CBA_ruleset.R | 64 +-- arulesCBA-1.2.10/arulesCBA/tests/testthat/test-RCAR.R | 48 +- arulesCBA-1.2.10/arulesCBA/tests/testthat/test-classifiers.R | 184 ++++----- arulesCBA-1.2.10/arulesCBA/tests/testthat/test-data-preparation.R |only arulesCBA-1.2.10/arulesCBA/tests/testthat/test-discretize.R | 55 +- arulesCBA-1.2.10/arulesCBA/vignettes |only arulesCBA-1.2.9/arulesCBA/tests/testthat/test-LUCS_KDD.R |only 47 files changed, 647 insertions(+), 716 deletions(-)
Title: Matching Methods for Causal Inference with Time-Series
Cross-Sectional Data
Description: Implements a set of methodological tools
that enable researchers to apply matching methods to
time-series cross-sectional data. Imai, Kim, and Wang
(2023) <https://web.mit.edu/insong/www/pdf/tscs.pdf>
proposes a nonparametric generalization of the
difference-in-differences estimator, which does not rely
on the linearity assumption as often done in
practice. Researchers first select a method of matching
each treated observation for a given unit in a
particular time period with control observations from
other units in the same time period that have a similar
treatment and covariate history. These methods include
standard matching methods based on propensity score and
Mahalanobis distance, as well as weighting methods. Once
matching and refinement is done,
treatment effects can be estimated with
standard errors. The package also offers diagnostics for researchers to assess the quality
of their results.
Author: In Song Kim [aut, cre],
Adam Rauh [aut],
Erik Wang [aut],
Kosuke Imai [aut]
Maintainer: In Song Kim <insong@mit.edu>
Diff between PanelMatch versions 3.1.3 dated 2025-12-13 and 3.1.5 dated 2026-10-01
DESCRIPTION | 12 - MD5 | 31 ++-- NAMESPACE | 6 R/PanelMatch-package.R | 4 R/PanelMatch.R | 2 R/PanelMatchObject.R | 42 +++++ R/diagnostic_summary.R |only R/placebo_test.R | 19 +- R/treated_untreated_diagnostic.R |only inst/doc/panelmatch-overview.pdf |binary man/PanelMatch.Rd | 2 man/all.equal.PanelMatch.Rd |only man/compare_treated_observations.Rd |only man/diagnostic_summary.Rd |only man/placebo_test.Rd | 4 tests/manual_tests/test-PanelEstimateObject.R | 131 +++++++++++++++++ tests/manual_tests/test-PanelMatch.R | 1 tests/manual_tests/test-compare_treated_observations.R |only tests/manual_tests/test-diagnostic_summary.R |only tests/testthat/test-PanelMatch.R | 2 20 files changed, 225 insertions(+), 31 deletions(-)
Title: GWR, Mixed GWR with Spatial Autocorrelation and Multiscale
GWR/GTWR (Top-Down Scale Approaches)
Description: Provides methods for Geographically Weighted Regression with spatial autocorrelation (Geniaux and Martinetti 2017) <doi:10.1016/j.regsciurbeco.2017.04.001>. Implements Multiscale Geographically Weighted Regression with Top-Down Scale approaches (Geniaux 2026) <doi:10.1007/s10109-025-00481-4>.
Author: Ghislain Geniaux [aut, cre],
Davide Martinetti [aut],
Cesar Martinez [aut]
Maintainer: Ghislain Geniaux <ghislain.geniaux@inrae.fr>
Diff between mgwrsar versions 1.3.2 dated 2026-03-03 and 1.4.1 dated 2026-10-01
DESCRIPTION | 15 MD5 | 178 +- NAMESPACE | 9 NEWS.md | 49 R/ApproxiW.R | 3 R/INST_C.R | 3 R/MGWR.R | 24 R/MGWRSAR.R | 26 R/PhWY_C.R | 3 R/Proj_C.R | 3 R/QRcpp2_C.R | 3 R/Sl_C.R | 3 R/TDS_MGWR.R | 387 ++++- R/aicc_f.R | 3 R/atds_gwr.R | 4 R/check_inputs.R |only R/compute_Rk.R | 4 R/compute_ts.R | 4 R/format_and_diagno.R | 5 R/get_index_mahalanobis_dual_rcpp.R | 3 R/golden_search_2d_bandwidth.R | 11 R/gtwr_HWB2010.R |only R/gwr_beta_pivotal_qrp_cpp.R | 6 R/gwr_beta_pivotal_qrp_full.R | 4 R/gwr_beta_univar_cpp.R | 6 R/kernel_eval.R |only R/matprod.R |only R/methods.R | 124 + R/mgwr_beta_pivotal_qrp_mixed_cpp.R | 8 R/mgwrsar_bootstrap_test.R | 1 R/mgwrsar_normalize_parallel_control.R | 48 R/mgwrsar_thread_control.R |only R/mod.R | 3 R/multiscale_gwr.R | 3 R/normW.R | 4 R/predict_mgwrsar.R | 13 R/prep_d.R | 2 R/prep_var.R | 4 R/prep_w.R | 102 - R/reord_D.R | 1 R/rng_scope.R |only R/search_bandwidths.R | 14 R/simu_multiscale.R | 1 R/update_bandwidth_candidates.R | 113 - R/update_opt.R | 53 R/update_opt_known.R | 29 R/update_opt_st.R | 4 R/weights_cache.R |only R/zzz.R | 16 build/partial.rdb |binary build/vignette.rds |binary configure | 86 - inst/CITATION | 5 inst/doc/GWR-and-Mixed-GWR-with-spatial-autocorrelation.html | 4 inst/doc/GWR-with-Space-Time-Kernels.Rmd | 64 inst/doc/GWR-with-Space-Time-Kernels.html | 504 ++---- inst/doc/Intro_french_data.Rmd | 64 inst/doc/Intro_french_data.html | 505 ++---- inst/doc/Multiscale-GWR-using-top-down-scale-approach.Rmd | 32 inst/doc/Multiscale-GWR-using-top-down-scale-approach.html | 497 ++---- inst/doc/Speeding_up_GWR_like_models.Rmd | 64 inst/doc/Speeding_up_GWR_like_models.html | 506 ++---- man/MGWRSAR.Rd | 2 man/TDS_MGWR.Rd | 10 man/as_gtwr.Rd |only man/bw_gdt2hwb.Rd |only man/bw_hwb2gdt.Rd |only man/gtwr-class.Rd |only man/gtwr_HWB2010.Rd |only man/internal_functions.Rd | 26 man/search_bandwidths.Rd | 2 man/summary.gtwr.Rd |only man/summary.mgwrsar.Rd | 8 src/Makevars.win | 13 src/RcppExports_arma.cpp | 44 src/RcppExports_eigen.cpp | 15 src/gwr_core.cpp | 826 +++++++---- src/init.c | 14 src/mgwrsar.cpp | 12 tests/testthat/_coef_hashes.csv | 64 tests/testthat/_pred_hashes.csv | 4 tests/testthat/_singular_hashes.csv |only tests/testthat/test-Shat_fitted_GWR_model.R | 1 tests/testthat/test-Shat_fitted_MGWR_model.R | 1 tests/testthat/test-gtwr_HWB2010.R |only tests/testthat/test-leverage_bounds.R |only tests/testthat/test-matprod_backend.R |only tests/testthat/test-rng_side_effects.R |only tests/testthat/test-singular_cases.R |only tests/testthat/test-stress_campaign.R |only tests/testthat/test-tds_levers.R |only tests/testthat/test-tds_minv_warning.R |only tests/testthat/test-tds_panel_grid.R |only tests/testthat/test-weights_cache.R |only tools/check_hash_against_registry.R | 37 tools/regen_coef_hashes_gwr.R |only tools/singular_cases.R |only tools/stress_cases.R |only tools/stress_configs.R |only tools/stress_generators.R |only tools/write_singular_hashes.R |only vignettes/GWR-with-Space-Time-Kernels.Rmd | 64 vignettes/Intro_french_data.Rmd | 64 vignettes/Multiscale-GWR-using-top-down-scale-approach.Rmd | 32 vignettes/Speeding_up_GWR_like_models.Rmd | 64 105 files changed, 2681 insertions(+), 2252 deletions(-)
Title: Example Datasets for a Learning Guide to R
Description: A collection of example datasets, including several classics. Many of
these datasets are well suited for regression, classification, and visualization.
Author: Remko Duursma [aut, cre],
Jeff Powell [ctb]
Maintainer: Remko Duursma <remkoduursma@gmail.com>
Diff between lgrdata versions 0.1.1 dated 2019-06-19 and 0.1.2 dated 2026-10-01
DESCRIPTION | 10 ++--- MD5 | 78 ++++++++++++++++++++++----------------------- R/zzz.R | 20 +++++------ README.md | 11 ++---- man/allometry.Rd | 8 ++-- man/anthropometry.Rd | 8 ++-- man/automobiles.Rd | 8 ++-- man/berkeley.Rd | 8 ++-- man/brunhild.Rd | 8 ++-- man/callitrishydraulic.Rd | 8 ++-- man/cereal1.Rd | 6 ++- man/cereal2.Rd | 6 ++- man/cereal3.Rd | 6 ++- man/cereals.Rd | 8 ++-- man/choat_precipp50.Rd | 8 ++-- man/coweeta.Rd | 8 ++-- man/dutchelection.Rd | 8 ++-- man/eucface_gasexchange.Rd | 8 ++-- man/eucfacegc.Rd | 8 ++-- man/fluxtower.Rd | 16 +++++---- man/germination_fire.Rd | 8 ++-- man/germination_water.Rd | 8 ++-- man/hfeifbytree.Rd | 8 ++-- man/hfeifplotmeans.Rd | 8 ++-- man/hfemet2008.Rd | 12 ++++-- man/howell.Rd | 8 ++-- man/hydro.Rd | 12 ++++-- man/icecream.Rd | 8 ++-- man/masslost.Rd | 8 ++-- man/memory.Rd | 8 ++-- man/oil.Rd | 8 ++-- man/pulse.Rd | 8 ++-- man/pupae.Rd | 8 ++-- man/rain.Rd | 8 ++-- man/sydney_hobart_times.Rd | 8 ++-- man/titanic.Rd | 8 ++-- man/treecanopy.Rd | 12 ++++-- man/vessel.Rd | 8 ++-- man/weightloss.Rd | 8 ++-- man/wildmousemetabolism.Rd | 8 ++-- 40 files changed, 246 insertions(+), 175 deletions(-)
Title: Convenient Access to Los Angeles Open Data API Endpoints
Description: Provides simple, reproducible access to datasets from the
Los Angeles Open Data portal <https://data.lacity.org/>. Functions return
results as tidy tibbles and support optional filtering, sorting,
and row limits via the Socrata API.
Author: Christian Martinez [aut, cre]
Maintainer: Christian Martinez <c.martinez0@outlook.com>
Diff between laOpenData versions 0.1.0 dated 2026-04-16 and 0.1.1 dated 2026-10-01
DESCRIPTION | 14 +++++------ MD5 | 18 +++++++------- R/la_list_datasets.R | 2 - README.md | 44 ++++++++++++++++++----------------- inst/doc/getting-started.R | 8 +++--- inst/doc/getting-started.Rmd | 10 ++++---- inst/doc/getting-started.html | 52 +++++++++++++++++++++--------------------- man/laOpenData-package.Rd | 13 +++++++--- man/la_list_datasets.Rd | 2 - vignettes/getting-started.Rmd | 10 ++++---- 10 files changed, 90 insertions(+), 83 deletions(-)
Title: Causal Generalized Linear Models
Description: An implementation of methods for causal discovery in a structural causal model where the conditional distribution of the target node is described by a generalized linear model conditional on its causal parents.
Author: Veronica Vinciotti [aut, cre],
Ernst C. Wit [aut],
Francisco Richter [aut]
Maintainer: Veronica Vinciotti <veronica.vinciotti@unitn.it>
Diff between causalreg versions 0.1.2 dated 2026-03-01 and 0.3.0 dated 2026-10-01
causalreg-0.1.2/causalreg/R/cgam_all.R |only causalreg-0.1.2/causalreg/R/cgam_step.R |only causalreg-0.1.2/causalreg/R/cglm_all.R |only causalreg-0.1.2/causalreg/R/cglm_step.R |only causalreg-0.3.0/causalreg/DESCRIPTION | 25 +++++++--- causalreg-0.3.0/causalreg/MD5 | 44 +++++++++++++---- causalreg-0.3.0/causalreg/NAMESPACE | 5 ++ causalreg-0.3.0/causalreg/NEWS.md |only causalreg-0.3.0/causalreg/R/RcppExports.R |only causalreg-0.3.0/causalreg/R/boot_pval.R | 50 +++++++++++++------- causalreg-0.3.0/causalreg/R/causal_all.R |only causalreg-0.3.0/causalreg/R/causal_step.R |only causalreg-0.3.0/causalreg/R/causalreg-package.R |only causalreg-0.3.0/causalreg/R/cgam.R | 45 ++++++++++++------ causalreg-0.3.0/causalreg/R/cglm.R | 45 ++++++++++++------ causalreg-0.3.0/causalreg/R/helpers.R |only causalreg-0.3.0/causalreg/build |only causalreg-0.3.0/causalreg/inst |only causalreg-0.3.0/causalreg/man/boot_pval_cpp.Rd |only causalreg-0.3.0/causalreg/man/causalreg-package.Rd |only causalreg-0.3.0/causalreg/man/cgam.Rd | 27 ++++++++-- causalreg-0.3.0/causalreg/man/cglm.Rd | 25 ++++++++-- causalreg-0.3.0/causalreg/man/eval_submodels_cpp.Rd |only causalreg-0.3.0/causalreg/man/fast_fit_and_stat.Rd |only causalreg-0.3.0/causalreg/man/fast_glm_bic.Rd |only causalreg-0.3.0/causalreg/man/fast_glm_fit.Rd |only causalreg-0.3.0/causalreg/man/glm_loglik_cpp.Rd |only causalreg-0.3.0/causalreg/man/pearson_stat_cpp.Rd |only causalreg-0.3.0/causalreg/src |only causalreg-0.3.0/causalreg/tests |only causalreg-0.3.0/causalreg/vignettes |only 31 files changed, 190 insertions(+), 76 deletions(-)
Title: Computation of Tree (Im)Balance Indices
Description: The aim of the 'R' package 'treebalance' is to provide functions for the computation of
a large variety of (im)balance indices for rooted trees. The package accompanies the book
''Tree Balance Indices - A Comprehensive Survey'' by M. Fischer, L. Herbst, S. Kersting,
L. Kuehn and K. Wicke (2023) <doi:10.1007/978-3-031-39800-1>, which gives a precise
definition for the terms 'balance index' and 'imbalance index' (Chapter 4) and provides an
overview of the terminology in this manual (Chapter 2).
For further information on (im)balance indices, see also Fischer et al. (2021)
<https://treebalance.wordpress.com>.
Considering both established and new (im)balance indices, 'treebalance' provides (among
others) functions for calculating the following 18 established indices and index families: the
average leaf depth, the B1 and B2 index, the Colijn-Plazzotta rank, the normal, corrected,
quadratic and equal weights Colless index, the family of Colless-like indices, the family of
I-based [...truncated...]
Author: Mareike Fischer [aut] ,
Lina Herbst [aut] ,
Sophie Kersting [aut, cre] ,
Luise Kuehn [aut] ,
Kristina Wicke [aut]
Maintainer: Sophie Kersting <treebalanceindices@gmail.com>
Diff between treebalance versions 1.2.0 dated 2023-12-14 and 1.2.2 dated 2026-10-01
treebalance-1.2.0/treebalance/R/mCherryI.R |only treebalance-1.2.0/treebalance/man/mCherryI.Rd |only treebalance-1.2.2/treebalance/DESCRIPTION | 54 treebalance-1.2.2/treebalance/MD5 | 140 - treebalance-1.2.2/treebalance/NAMESPACE | 2 treebalance-1.2.2/treebalance/NEWS.md | 62 treebalance-1.2.2/treebalance/R/B1I.R | 100 - treebalance-1.2.2/treebalance/R/B2I.R | 137 - treebalance-1.2.2/treebalance/R/IbasedI.R | 296 +-- treebalance-1.2.2/treebalance/R/areaPerPairI.R | 6 treebalance-1.2.2/treebalance/R/auxFuncs.R | 1642 ++++++++++----------- treebalance-1.2.2/treebalance/R/avgLeafDepI.R | 83 - treebalance-1.2.2/treebalance/R/avgVertDep.R | 10 treebalance-1.2.2/treebalance/R/cherryI.R | 6 treebalance-1.2.2/treebalance/R/colPlaLab.R | 145 - treebalance-1.2.2/treebalance/R/colPlaLab_inv.R | 96 - treebalance-1.2.2/treebalance/R/collessI.R | 15 treebalance-1.2.2/treebalance/R/collesslikeI.R | 241 +-- treebalance-1.2.2/treebalance/R/ewCollessI.R | 96 - treebalance-1.2.2/treebalance/R/furnasI.R | 81 - treebalance-1.2.2/treebalance/R/furnasI_inv.R | 169 +- treebalance-1.2.2/treebalance/R/mWovermD.R | 10 treebalance-1.2.2/treebalance/R/maxDelW.R | 107 - treebalance-1.2.2/treebalance/R/maxDepth.R | 4 treebalance-1.2.2/treebalance/R/maxWidth.R | 4 treebalance-1.2.2/treebalance/R/rQuartetI.R | 201 +- treebalance-1.2.2/treebalance/R/rogersI.R | 110 - treebalance-1.2.2/treebalance/R/sShapeI.R | 79 - treebalance-1.2.2/treebalance/R/sackinI.R | 4 treebalance-1.2.2/treebalance/R/stairs1.R | 78 treebalance-1.2.2/treebalance/R/stairs2.R | 106 - treebalance-1.2.2/treebalance/R/symNodesI.R | 126 - treebalance-1.2.2/treebalance/R/totCophI.R | 82 - treebalance-1.2.2/treebalance/R/totIntPathLen.R | 4 treebalance-1.2.2/treebalance/R/totPathLen.R | 10 treebalance-1.2.2/treebalance/R/varLeafDepI.R | 86 - treebalance-1.2.2/treebalance/R/wedEth-data.R | 6 treebalance-1.2.2/treebalance/R/weighL1dist.R | 100 - treebalance-1.2.2/treebalance/data/wedEth.RData |binary treebalance-1.2.2/treebalance/inst/CITATION | 18 treebalance-1.2.2/treebalance/man/B1I.Rd | 4 treebalance-1.2.2/treebalance/man/B2I.Rd | 15 treebalance-1.2.2/treebalance/man/IbasedI.Rd | 6 treebalance-1.2.2/treebalance/man/areaPerPairI.Rd | 6 treebalance-1.2.2/treebalance/man/auxFuncs.Rd | 30 treebalance-1.2.2/treebalance/man/avgLeafDepI.Rd | 3 treebalance-1.2.2/treebalance/man/avgVertDep.Rd | 8 treebalance-1.2.2/treebalance/man/cherryI.Rd | 4 treebalance-1.2.2/treebalance/man/colPlaLab.Rd | 18 treebalance-1.2.2/treebalance/man/colPlaLab_inv.Rd | 14 treebalance-1.2.2/treebalance/man/collessI.Rd | 10 treebalance-1.2.2/treebalance/man/collesslikeI.Rd | 13 treebalance-1.2.2/treebalance/man/ewCollessI.Rd | 4 treebalance-1.2.2/treebalance/man/furnasI.Rd | 16 treebalance-1.2.2/treebalance/man/furnasI_inv.Rd | 11 treebalance-1.2.2/treebalance/man/mWovermD.Rd | 7 treebalance-1.2.2/treebalance/man/maxDelW.Rd | 10 treebalance-1.2.2/treebalance/man/maxDepth.Rd | 4 treebalance-1.2.2/treebalance/man/maxWidth.Rd | 4 treebalance-1.2.2/treebalance/man/rQuartetI.Rd | 6 treebalance-1.2.2/treebalance/man/rogersI.Rd | 4 treebalance-1.2.2/treebalance/man/sShapeI.Rd | 4 treebalance-1.2.2/treebalance/man/sackinI.Rd | 4 treebalance-1.2.2/treebalance/man/stairs1.Rd | 6 treebalance-1.2.2/treebalance/man/stairs2.Rd | 6 treebalance-1.2.2/treebalance/man/symNodesI.Rd | 6 treebalance-1.2.2/treebalance/man/totCophI.Rd | 6 treebalance-1.2.2/treebalance/man/totIntPathLen.Rd | 4 treebalance-1.2.2/treebalance/man/totPathLen.Rd | 12 treebalance-1.2.2/treebalance/man/varLeafDepI.Rd | 6 treebalance-1.2.2/treebalance/man/wedEth.Rd | 6 treebalance-1.2.2/treebalance/man/weighL1dist.Rd | 6 72 files changed, 2438 insertions(+), 2341 deletions(-)
Title: R Programming: Zero to Pro
Description: This is a companion package of the book "R Programming: Zero to Pro" <https://r02pro.github.io/>. It contains the datasets used in the book and provides interactive exercises corresponding to the book. It covers a wide range of topics including visualization, data transformation, tidying data, data input and output.
Author: Yang Feng [aut, cre],
Jianan Zhu [aut]
Maintainer: Yang Feng <yangfengstat@gmail.com>
Diff between r02pro versions 0.2 dated 2023-05-31 and 0.2.1 dated 2026-10-01
DESCRIPTION | 11 - MD5 | 19 +- NEWS.md |only R/ahp.R | 422 +++++++++++++++++++++++++++++----------------------------- R/gm.R | 10 - R/gm2004.R | 14 - R/sahp.R | 46 +++--- man/ahp.Rd | 422 +++++++++++++++++++++++++++++----------------------------- man/gm.Rd | 10 - man/gm2004.Rd | 14 - man/sahp.Rd | 46 +++--- 11 files changed, 508 insertions(+), 506 deletions(-)
Title: Effect Sizes for Meta-Analysis of Interactions from Factorial
Experiments
Description: Compute effect sizes and their sampling variances from factorial experimental designs. The package supports calculation of simple effects, overall effects, and interaction effects for use in factorial meta-analyses. See Gurevitch et al. (2000) <doi:10.1086/303337>, Morris et al. (2007) <doi:10.1890/06-0442>, Lajeunesse (2011) <doi:10.1890/11-0423.1> and Macartney et al. (2022) <doi:10.1016/j.neubiorev.2022.104554>.
Author: Facundo Decunta [aut, cre] ,
Shinichi Nakagawa [ctb],
Daniel Noble [ctb]
Maintainer: Facundo Decunta <fdecunta@agro.uba.ar>
Diff between minter versions 0.1.1 dated 2026-05-03 and 0.2.0 dated 2026-10-01
minter-0.1.1/minter/build |only minter-0.1.1/minter/inst/doc |only minter-0.1.1/minter/vignettes |only minter-0.2.0/minter/DESCRIPTION | 11 - minter-0.2.0/minter/MD5 | 72 +++----- minter-0.2.0/minter/NEWS.md | 5 minter-0.2.0/minter/R/SMD_wrappers.R | 138 ++++++++++++++-- minter-0.2.0/minter/R/lnCVR_wrappers.R | 42 ++++ minter-0.2.0/minter/R/lnRR_wrappers.R | 53 +++++- minter-0.2.0/minter/R/lnVR_wrappers.R | 46 ++++- minter-0.2.0/minter/R/time_SMD.R | 33 +++ minter-0.2.0/minter/R/time_lnCVR.R | 24 ++ minter-0.2.0/minter/R/time_lnRR.R | 16 + minter-0.2.0/minter/R/time_lnVR.R | 5 minter-0.2.0/minter/R/utils.R | 39 ++-- minter-0.2.0/minter/README.md | 68 ++++--- minter-0.2.0/minter/inst/extdata |only minter-0.2.0/minter/man/SMD_ind.Rd | 25 ++ minter-0.2.0/minter/man/SMD_inter.Rd | 39 ++++ minter-0.2.0/minter/man/SMD_main.Rd | 41 ++++ minter-0.2.0/minter/man/dot-interaction_SMD.Rd | 39 ++++ minter-0.2.0/minter/man/dot-lnVR_args.Rd | 4 minter-0.2.0/minter/man/dot-main_SMD.Rd | 41 ++++ minter-0.2.0/minter/man/dot-simple_SMD.Rd | 25 ++ minter-0.2.0/minter/man/lnCVR_ind.Rd | 14 + minter-0.2.0/minter/man/lnCVR_inter.Rd | 14 + minter-0.2.0/minter/man/lnCVR_main.Rd | 14 + minter-0.2.0/minter/man/lnRR_ind.Rd | 9 - minter-0.2.0/minter/man/lnRR_inter.Rd | 12 + minter-0.2.0/minter/man/lnRR_main.Rd | 28 +++ minter-0.2.0/minter/man/lnVR_ind.Rd | 10 + minter-0.2.0/minter/man/lnVR_inter.Rd | 15 + minter-0.2.0/minter/man/lnVR_main.Rd | 19 ++ minter-0.2.0/minter/man/time_SMD.Rd | 16 + minter-0.2.0/minter/man/time_lnCVR.Rd | 10 + minter-0.2.0/minter/man/time_lnRR.Rd | 17 + minter-0.2.0/minter/man/time_lnVR.Rd | 7 minter-0.2.0/minter/tests/testthat/test-lnRR_wrappers.R | 24 ++ 38 files changed, 835 insertions(+), 140 deletions(-)
Title: Approximate Bayesian Latent Variable Analysis
Description: Implements approximate Bayesian inference for Structural
Equation Models (SEM) using a custom adaptation of the Integrated
Nested Laplace Approximation (Rue et al., 2009)
<doi:10.1111/j.1467-9868.2008.00700.x> as described in Jamil and Rue
(2026a) <doi:10.48550/arXiv.2603.25690>. Provides a computationally
efficient alternative to Markov Chain Monte Carlo (MCMC) for Bayesian
estimation, allowing users to fit latent variable models using the
'lavaan' syntax. See also the companion paper on implementation and
workflows, Jamil and Rue (2026b) <doi:10.48550/arXiv.2604.00671>.
Author: Haziq Jamil [aut, cre, cph] ,
Havard Rue [ctb] ,
Alvin Bong [ctb]
Maintainer: Haziq Jamil <haziq.jamil@gmail.com>
Diff between INLAvaan versions 0.3.1 dated 2026-07-21 and 0.3.2 dated 2026-10-01
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Title: Data Frame Workflows for 'Microsoft Foundry'
Description: Work with 'Microsoft Foundry' from data-frame-oriented
'R' workflows. Provides data-frame-returning helpers for 'Azure AI Content
Safety', 'Azure OpenAI' Responses API calls, strict structured extraction,
vector representations, files, batch jobs, audio, media, and chat
completions. Supports
research annotation, safety gates, semantic search, and 'tidymodels'
recipes. Helps teams keep model workflows inside their 'Azure' environment
while preserving analyzable outputs. See the Microsoft Foundry REST API
documentation <https://learn.microsoft.com/rest/api/microsoft-foundry/> and
Azure AI Content Safety documentation
<https://learn.microsoft.com/azure/ai-services/content-safety/>.
Author: Alex Farach [aut, cre, cph]
Maintainer: Alex Farach <alexfarach@microsoft.com>
Diff between foundryR versions 0.1.0 dated 2026-09-24 and 1.0.0 dated 2026-10-01
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foundryR-1.0.0/foundryR/R/auth.R | 44 foundryR-1.0.0/foundryR/R/batches.R | 198 foundryR-1.0.0/foundryR/R/chat.R | 4 foundryR-1.0.0/foundryR/R/check.R | 37 foundryR-1.0.0/foundryR/R/codebook.R | 124 foundryR-1.0.0/foundryR/R/config.R | 12 foundryR-1.0.0/foundryR/R/content-safety-extra.R | 16 foundryR-1.0.0/foundryR/R/content-safety-preview.R | 9 foundryR-1.0.0/foundryR/R/conversations.R | 104 foundryR-1.0.0/foundryR/R/embed-batch.R | 53 foundryR-1.0.0/foundryR/R/embed.R | 8 foundryR-1.0.0/foundryR/R/evals.R | 654 + foundryR-1.0.0/foundryR/R/evaluate.R |only foundryR-1.0.0/foundryR/R/files.R | 48 foundryR-1.0.0/foundryR/R/globals.R | 1 foundryR-1.0.0/foundryR/R/groundedness.R | 105 foundryR-1.0.0/foundryR/R/image.R | 147 foundryR-1.0.0/foundryR/R/models.R | 19 foundryR-1.0.0/foundryR/R/moderate.R | 115 foundryR-1.0.0/foundryR/R/responses.R | 298 foundryR-1.0.0/foundryR/R/route.R |only foundryR-1.0.0/foundryR/R/shield.R | 82 foundryR-1.0.0/foundryR/R/tidymodels.R | 60 foundryR-1.0.0/foundryR/R/utils.R | 253 foundryR-1.0.0/foundryR/R/validation.R | 166 foundryR-1.0.0/foundryR/R/vector-stores.R | 127 foundryR-1.0.0/foundryR/R/video.R | 374 - foundryR-1.0.0/foundryR/README.md | 450 - foundryR-1.0.0/foundryR/build/vignette.rds |binary foundryR-1.0.0/foundryR/inst/doc/annotation-workflow.R | 362 foundryR-1.0.0/foundryR/inst/doc/annotation-workflow.Rmd | 439 - foundryR-1.0.0/foundryR/inst/doc/annotation-workflow.html | 1022 -- foundryR-1.0.0/foundryR/inst/doc/api-support.Rmd | 115 foundryR-1.0.0/foundryR/inst/doc/api-support.html | 298 foundryR-1.0.0/foundryR/inst/doc/audio.R | 152 foundryR-1.0.0/foundryR/inst/doc/audio.Rmd | 245 foundryR-1.0.0/foundryR/inst/doc/audio.html | 296 foundryR-1.0.0/foundryR/inst/doc/content-safety.R | 364 foundryR-1.0.0/foundryR/inst/doc/content-safety.Rmd | 570 - foundryR-1.0.0/foundryR/inst/doc/content-safety.html | 1182 --- foundryR-1.0.0/foundryR/inst/doc/embeddings.R | 309 foundryR-1.0.0/foundryR/inst/doc/embeddings.Rmd | 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Title: 'Circuitscape' and 'Omniscape' Connectivity Analysis via 'Julia'
Description: Provides an R-native interface to the 'Circuitscape.jl' and
'Omniscape.jl' 'Julia' packages for landscape connectivity modeling using
circuit theory. Users work entirely in R with familiar objects
(SpatRaster, file paths) while 'Julia' handles computation invisibly.
Supports all four 'Circuitscape' modes (pairwise, one-to-all, all-to-one,
advanced) and 'Omniscape' moving-window analysis. Methods are described in
McRae (2006) <doi:10.1111/j.0014-3820.2006.tb00500.x> and
Landau et al. (2021) <doi:10.21105/joss.02829>.
Author: Matthew Kling [aut, cre, cph]
Maintainer: Matthew Kling <mattkling@berkeley.edu>
Diff between circuitscaper versions 0.1.0 dated 2026-04-09 and 0.1.1 dated 2026-10-01
DESCRIPTION | 8 - MD5 | 61 +++++++------ NAMESPACE | 2 NEWS.md | 47 ++++++++++ R/config.R | 67 ++++++++++++--- R/cs-advanced.R | 3 R/cs-pairwise.R | 3 R/os-condition.R |only R/os-run.R | 76 ++++++++++------- R/setup.R | 14 +-- R/utils.R | 74 ++++++++++++++++ README.md | 30 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/getting-started.R | 14 +++ inst/doc/getting-started.Rmd | 35 +++++++ inst/doc/getting-started.html | 53 +++++++++--- man/circuitscaper-package.Rd | 5 + man/cs_advanced.Rd | 12 +- man/cs_all_to_one.Rd | 10 +- man/cs_install_julia.Rd | 6 - man/cs_julia_available.Rd | 7 - man/cs_one_to_all.Rd | 10 +- man/cs_pairwise.Rd | 10 +- man/cs_setup.Rd | 2 man/figures/README-example-1.png |binary man/figures/README-example-2.png |binary man/os_condition.Rd |only man/os_run.Rd | 41 +++++---- tests/testthat/test-config.R | 104 ++++++++++++++++++++++- tests/testthat/test-integration.R | 162 +++++++++++++++++++++++++++++++++++++ tests/testthat/test-os-condition.R |only vignettes/getting-started.Rmd | 35 +++++++ 33 files changed, 733 insertions(+), 158 deletions(-)
Title: Evaluate Structural Equation Model Identification Rules
Description: Evaluates selected necessary and sufficient identification
conditions in structural equation models (SEMs), including
latent-variable scaling constraints. Output reports rule
status and applicability and provides diagnostic messages to
support model specification and respecification. The package is
intended as a diagnostic aid and does not implement a universal
identification algorithm. For more details, see Bollen
(2026, ISBN:978-1009312820).
Author: Zach Vig [aut, cre, cph]
Maintainer: Zach Vig <zachvig@rocketmail.com>
Diff between semrulesid versions 0.4.1 dated 2026-09-26 and 0.4.2 dated 2026-10-01
DESCRIPTION | 6 +- MD5 | 20 ++++----- NEWS.md | 4 + R/cfa_rules.R | 39 +++++++++-------- R/print.R | 7 +-- R/reg_rules.R | 45 ++++++++++++-------- R/rule_utils.R | 21 ++++++++- R/sem_rules.R | 63 ++++++++++++++++------------ inst/doc/semrulesid-quickstart.html | 60 ++++++++++++++++++++------- tests/testthat/test-rules_output.R | 17 +++++++ tests/testthat/test-rules_print.R | 80 ++++++++++++++++++++++++++++++++++-- 11 files changed, 263 insertions(+), 99 deletions(-)
Title: Modular Toolkit for PageRank Calculation
Description: Provides a set of modular, pipeable functions to calculate PageRank scores from edge lists and redirect reports, common in SEO analysis. Functions handle URL cleaning, redirect resolution, edge deduplication, isolate handling, and PageRank computation using base R for data manipulation and 'igraph' for core PageRank calculation.
Author: Bart Turczynski [aut, cre]
Maintainer: Bart Turczynski <bartek@turczynski.pl>
Diff between pagerankr versions 0.1.0 dated 2026-09-28 and 0.1.1 dated 2026-10-01
DESCRIPTION | 12 +- MD5 | 94 ++++++++-------- NAMESPACE | 2 NEWS.md | 131 ++++++++++++++++++++++ R/analyze_pagerank_grid.R | 4 R/audit_canonicals.R | 2 R/audit_redirects.R | 2 R/auto_grid.R | 4 R/compute_pagerank.R | 2 R/hits.R | 7 - R/pagerank.R | 2 R/pagerank_metrics.R | 2 R/resolve_redirects.R | 10 - R/salsa.R | 7 - R/screaming_frog_contract.R | 4 R/simulate_changes.R | 2 R/smooth_transitions.R | 4 R/transform_weights.R | 2 R/validate_edge_weights.R | 2 README.md | 16 ++ inst/WORDLIST | 5 inst/doc/boilerplate.html | 4 inst/doc/case-study.html | 4 inst/doc/pagerankr-usage.R | 2 inst/doc/pagerankr-usage.Rmd | 2 inst/doc/pagerankr-usage.html | 6 - inst/doc/presets.html | 4 inst/doc/topic_feeder_pagerank.html | 4 inst/doc/trustrank.html | 4 inst/extdata/README.md | 4 man/analyze_pagerank_grid.Rd | 7 + man/audit_canonicals.Rd | 2 man/audit_redirects.Rd | 2 man/compute_hits.Rd | 2 man/compute_salsa.Rd | 2 man/hits.Rd | 4 man/pagerank.Rd | 2 man/pagerankr-package.Rd | 3 man/salsa.Rd | 4 man/sf_normalize_position.Rd | 3 man/simulate_changes.Rd | 2 man/smooth_transitions.Rd | 2 man/transform_weights.Rd | 2 tests/testthat/helper-security.R |only tests/testthat/test-aliases.R |only tests/testthat/test-canonicalization.R | 43 +++++++ tests/testthat/test-pagerank_metrics.R | 2 tests/testthat/test-security.R | 191 ++++++++++++++++++++++++++++++--- vignettes/pagerankr-usage.Rmd | 2 49 files changed, 493 insertions(+), 132 deletions(-)
Title: NanoString Quality Control Dashboard
Description: NanoString nCounter data are gene expression assays
where there is no need for the use of enzymes or amplification
protocols and work with fluorescent barcodes (Geiss et al. (2018)
<doi:10.1038/nbt1385>). Each barcode is assigned a
messenger-RNA/micro-RNA (mRNA/miRNA) which after bonding with its
target can be counted. As a result each count of a specific barcode
represents the presence of its target mRNA/miRNA. 'NACHO' (NAnoString
quality Control dasHbOard) is able to analyse the exported NanoString
nCounter data and facilitates the user in performing a quality
control. 'NACHO' does this by visualising quality control metrics,
expression of control genes, principal components and sample specific
size factors in an interactive web application.
Author: Mickael Canouil [aut, cre] ,
Roderick Slieker [aut] ,
Gerard Bouland [aut]
Maintainer: Mickael Canouil <pro@mickael.canouil.dev>
Diff between NACHO versions 2.0.7 dated 2026-09-27 and 2.0.8 dated 2026-10-01
DESCRIPTION | 6 +-- MD5 | 22 +++++------ NEWS.md | 10 +++++ R/autoplot.R | 6 ++- inst/app/app.R | 19 ++-------- inst/app/utils.R | 17 +++++++++ inst/app/www/about-hgf.md | 2 - inst/app/www/about-pf.md | 2 - inst/doc/NACHO-analysis.html | 48 ++++++++++++------------- inst/doc/NACHO.html | 76 +++++++++++++++++++---------------------- tests/testthat/test-app.R | 48 +++++++++++++++++++++++++ tests/testthat/test-autoplot.R | 6 +++ 12 files changed, 165 insertions(+), 97 deletions(-)
Title: Clean Class-Less 'R Markdown' HTML Documents
Description: A collection of clean 'R Markdown' HTML document templates
using classy-looking classless CSS styles. These documents use a
minimal set of dependencies but still look great, making them suitable
for use a package vignettes or for sharing results via email.
Author: Garrick Aden-Buie [aut, cre, cph] ,
Igor Adamenko [ctb, cph] ,
Alvaro Montoro [ctb, cph] ,
Vladimir Carrer [ctb, cph] ,
Ty Bolt [ctb, cph] ,
Ruan Martinelli [ctb, cph] ,
Tran Ngoc Tuan Anh [ctb, cph] ,
Marco Pontili [ctb, cph] ,
Emanuel Regnath [ctb, [...truncated...]
Maintainer: Garrick Aden-Buie <garrick@adenbuie.com>
Diff between cleanrmd versions 0.1.1 dated 2023-05-19 and 0.2.0 dated 2026-10-01
cleanrmd-0.1.1/cleanrmd/tests/manual |only cleanrmd-0.2.0/cleanrmd/DESCRIPTION | 30 cleanrmd-0.2.0/cleanrmd/LICENSE | 2 cleanrmd-0.2.0/cleanrmd/MD5 | 103 cleanrmd-0.2.0/cleanrmd/NEWS.md | 37 cleanrmd-0.2.0/cleanrmd/R/highlight.R | 27 cleanrmd-0.2.0/cleanrmd/R/html_document_clean.R | 5 cleanrmd-0.2.0/cleanrmd/R/sysdata.rda |binary cleanrmd-0.2.0/cleanrmd/R/themes.R | 37 cleanrmd-0.2.0/cleanrmd/README.md | 33 cleanrmd-0.2.0/cleanrmd/inst/resources/NOTICE | 120 cleanrmd-0.2.0/cleanrmd/inst/resources/axist/axist.css | 606 ++- cleanrmd-0.2.0/cleanrmd/inst/resources/bamboo/bamboo.css | 2 cleanrmd-0.2.0/cleanrmd/inst/resources/basic.css |only cleanrmd-0.2.0/cleanrmd/inst/resources/bolt.css |only cleanrmd-0.2.0/cleanrmd/inst/resources/bullframe/bullframe-classless.min.css.map | 2 cleanrmd-0.2.0/cleanrmd/inst/resources/bullframe/bullframe.css | 4 cleanrmd-0.2.0/cleanrmd/inst/resources/classlesscss |only cleanrmd-0.2.0/cleanrmd/inst/resources/holiday/holiday.css | 168 - cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-bold-italic.ttf |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-bold-italic.woff |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-bold-italic.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-bold.ttf |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-bold.woff |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-bold.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-italic.ttf |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-italic.woff |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-italic.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-regular.ttf |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-regular.woff |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/LM-regular.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/Libertinus-bold-italic.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/Libertinus-bold.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/Libertinus-italic.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/Libertinus-regular.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/Libertinus-semibold-italic.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/fonts/Libertinus-semibold.woff2 |binary cleanrmd-0.2.0/cleanrmd/inst/resources/latex.css/latex.css | 187 + cleanrmd-0.2.0/cleanrmd/inst/resources/marx/marx.css | 4 cleanrmd-0.2.0/cleanrmd/inst/resources/mvp.css |only cleanrmd-0.2.0/cleanrmd/inst/resources/neat.css |only cleanrmd-0.2.0/cleanrmd/inst/resources/picocss/pico.css | 7 cleanrmd-0.2.0/cleanrmd/inst/resources/sakura-vader/sakura-vader.css | 37 cleanrmd-0.2.0/cleanrmd/inst/resources/sakura/sakura.css | 37 cleanrmd-0.2.0/cleanrmd/inst/resources/simplecss/simple.css | 2 cleanrmd-0.2.0/cleanrmd/inst/resources/theme-picker-init.js |only cleanrmd-0.2.0/cleanrmd/inst/resources/theme-picker.js | 109 cleanrmd-0.2.0/cleanrmd/inst/resources/water/water.css | 1536 +++++++++- cleanrmd-0.2.0/cleanrmd/inst/template/cleanrmd.html | 10 cleanrmd-0.2.0/cleanrmd/man/cleanrmd_themes.Rd | 9 cleanrmd-0.2.0/cleanrmd/man/html_document_clean.Rd | 2 cleanrmd-0.2.0/cleanrmd/man/rmd-fragments/usage.Rmd | 2 cleanrmd-0.2.0/cleanrmd/man/use_cleanrmd.Rd | 12 cleanrmd-0.2.0/cleanrmd/tests/testthat/test-highlight.R | 44 cleanrmd-0.2.0/cleanrmd/tests/testthat/test-themes.R | 38 55 files changed, 2572 insertions(+), 640 deletions(-)
Title: Relationship Matrices for Diploid and Autopolyploid Species
Description: Fast computation of A (pedigree), G (genomic-base), and H (A corrected
by G) relationship matrices for diploid and autopolyploid species. Several methods
are implemented considering additive and non-additive models.
Author: Rodrigo Amadeu [aut, cre],
Luis Ferrao [aut, ctb],
Thiago Oliveira [aut, ctb],
Catherine Cellon [ctb],
Leticia Lara [ctb],
Marcio Resende [ctb],
Ivone Oliveira [ctb],
Patricio Munoz [ctb],
Augusto Garcia [ctb]
Maintainer: Rodrigo Amadeu <rramadeu@gmail.com>
Diff between AGHmatrix versions 3.0.1 dated 2026-07-22 and 3.0.3 dated 2026-10-01
DESCRIPTION | 6 ++-- MD5 | 52 ++++++++++++++++++------------------ R/Amatrix.R | 46 ++++++++++++++++++++----------- R/Gmatrix.R | 10 ++++-- R/Hmatrix.R | 18 ++++++------ R/datatreat.R | 48 +++++++++++++++++++++++++++++++++ inst/doc/Tutorial_AGHmatrix.html | 14 ++++----- src/amatrix_kerr.cpp | 27 ++++++++++++++++++ src/amatrix_ploidy2.cpp | 27 ++++++++++++++++++ src/amatrix_slater.cpp | 27 ++++++++++++++++++ src/ascii_to_number.cpp | 28 ++++++++++++++++++- src/check_matrix.cpp | 28 +++++++++++++++++++ src/datatreat.cpp | 49 +++++++++++++++++++++++++++++---- src/diploid_p0p2_TwoPQ.cpp | 30 ++++++++++++++++++++ src/dominance_matrix.cpp | 28 +++++++++++++++++++ src/gmatrix_endelman.cpp | 28 +++++++++++++++++++ src/gmatrix_markers_mask.cpp | 28 +++++++++++++++++++ src/gmatrix_slater.cpp | 28 +++++++++++++++++++ src/gmatrix_su.cpp | 28 +++++++++++++++++++ src/gmatrix_utils.h | 28 +++++++++++++++++++ src/gmatrix_vanraden.cpp | 28 +++++++++++++++++++ src/gmatrix_vanraden_poly.cpp | 28 +++++++++++++++++++ src/gmatrix_vitezica.cpp | 28 +++++++++++++++++++ src/hmatrix_martini.cpp | 28 +++++++++++++++++++ src/hmatrix_munoz.cpp | 28 +++++++++++++++++++ src/slater_par.cpp | 28 +++++++++++++++++++ tests/testthat/test_datatreat_cpp.R | 7 ++-- 27 files changed, 678 insertions(+), 75 deletions(-)
Title: Create Tests According to QTI 2.1 Standard
Description: Create tests and tasks compliant with the Question & Test Interoperability (QTI) information model version 2.1. Input sources are Rmd/md description files or S4-class objects. Output formats include standalone zip or xml files. Supports the generation of basic task types (single and multiple choice, order, pair association, matching tables, filling gaps and essay) and provides a comprehensive set of attributes for customizing tests.
Author: Andrey Shevandrin [aut, cre, cph] ,
Petr Bondarenko [ctb] ,
Ivonne Ojeda [ctb],
Johannes Titz [aut, cph] ,
Brian Mottershead [cph] ,
Stiftung fuer Innovation in der Hochschullehre [fnd]
Maintainer: Andrey Shevandrin <shevandrin@gmail.com>
Diff between rqti versions 1.3.0 dated 2026-09-21 and 1.3.1 dated 2026-10-01
DESCRIPTION | 9 +- MD5 | 108 +++++++++++++++++++++++---------- NEWS.md | 23 +++++++ R/AssessmentItem.R | 8 ++ R/LMS.R | 38 ++++++++++- R/Opal.R | 21 +++++- R/extract_results.R | 18 +++-- R/object_builder.R | 106 ++++++++++++++++++++++++++++---- R/qti_task.R | 83 ++++++++++++++++++++++++- R/qti_test.R | 28 +++++++- inst/QTIJS/themecc/style.css | 15 +++- inst/apipv1p0 |only inst/maptolresponse.xsd |only inst/qti_v2p1p2_extension.xsd | 49 ++------------ inst/w3 |only inst/xsd/imsqtiv2p2_html5_v1p0.xsd |only man/AssessmentItem-class.Rd | 8 ++ man/DirectedPair-class.Rd | 8 ++ man/Entry-class.Rd | 8 ++ man/Essay-class.Rd | 8 ++ man/LMS-class.Rd | 5 + man/MatchTable-class.Rd | 8 ++ man/MultipleChoice-class.Rd | 8 ++ man/MultipleChoiceTable-class.Rd | 8 ++ man/OneInColTable-class.Rd | 8 ++ man/OneInRowTable-class.Rd | 8 ++ man/Opal-class.Rd | 4 + man/Ordering-class.Rd | 8 ++ man/SingleChoice-class.Rd | 8 ++ man/create_question_object.Rd | 15 ++++ man/extract_results.Rd | 2 man/opal.Rd | 10 ++- man/upload2opal.Rd | 6 + tests/testthat/test-extract_results.R | 54 ++++++++++++++++ tests/testthat/test-item-css.R |only tests/testthat/test-opal-credentials.R |only tests/testthat/test-qti_task.R | 19 +++++ tests/testthat/test-verify_qti.R | 61 ++++++++++++++++++ 38 files changed, 651 insertions(+), 119 deletions(-)
Title: Import Brazilian Real Estate Data into R
Description: Provides access to Brazilian real estate market data from multiple
official sources: the Central Bank of Brazil (BCB)
<https://www.bcb.gov.br/>, the Brazilian Association of Real Estate
Developers (ABRAINC) <https://abrainc.org.br/>, the Brazilian Association
of Real Estate Credit and Savings Entities (ABECIP)
<https://www.abecip.org.br/>, the Getulio Vargas Foundation (FGV)
<https://portalibre.fgv.br/>, and the Bank for International Settlements
(BIS) <https://www.bis.org/>, as well as Brazil's Federal Revenue Service
<https://www.gov.br/receitafederal/pt-br/>, the Brazilian Institute of
Geography and Statistics (IBGE) <https://www.ibge.gov.br/>, and the
Ministry of Cities <https://www.gov.br/cidades/pt-br/>.
Author: Vinicius Oike [aut, cre, cph]
Maintainer: Vinicius Oike <viniciusoike@gmail.com>
Diff between realestatebr versions 1.0.1 dated 2026-06-05 and 1.2.0 dated 2026-10-01
realestatebr-1.0.1/realestatebr/inst/doc/working-with-rppi.R |only realestatebr-1.0.1/realestatebr/inst/doc/working-with-rppi.Rmd |only realestatebr-1.0.1/realestatebr/inst/doc/working-with-rppi.html |only realestatebr-1.0.1/realestatebr/tests/basic_checks_2.R |only realestatebr-1.0.1/realestatebr/tests/fixes_bcb_series.R |only realestatebr-1.0.1/realestatebr/vignettes/working-with-rppi.Rmd |only realestatebr-1.2.0/realestatebr/DESCRIPTION | 44 realestatebr-1.2.0/realestatebr/MD5 | 164 +- realestatebr-1.2.0/realestatebr/NAMESPACE | 4 realestatebr-1.2.0/realestatebr/NEWS.md | 111 + realestatebr-1.2.0/realestatebr/R/cache_github.R | 16 realestatebr-1.2.0/realestatebr/R/data-abecip.R |only realestatebr-1.2.0/realestatebr/R/data-abrainc.R |only realestatebr-1.2.0/realestatebr/R/data-bcb_realestate.R |only realestatebr-1.2.0/realestatebr/R/data-bcb_series.R |only realestatebr-1.2.0/realestatebr/R/data-cno.R |only realestatebr-1.2.0/realestatebr/R/data-fgv_ibre.R |only realestatebr-1.2.0/realestatebr/R/data-mcmv.R |only realestatebr-1.2.0/realestatebr/R/data-paic.R |only realestatebr-1.2.0/realestatebr/R/data-pim_pf_construction.R |only realestatebr-1.2.0/realestatebr/R/data-rppi.R |only realestatebr-1.2.0/realestatebr/R/data-rppi_bis.R |only realestatebr-1.2.0/realestatebr/R/data-secovi.R |only realestatebr-1.2.0/realestatebr/R/data-sinapi.R |only realestatebr-1.2.0/realestatebr/R/data.R | 8 realestatebr-1.2.0/realestatebr/R/get_abecip_indicators.R | 11 realestatebr-1.2.0/realestatebr/R/get_bcb_realestate.R | 51 realestatebr-1.2.0/realestatebr/R/get_bcb_series.R | 130 + realestatebr-1.2.0/realestatebr/R/get_dataset.R | 282 +++- realestatebr-1.2.0/realestatebr/R/get_paic.R |only realestatebr-1.2.0/realestatebr/R/get_pim_pf_construction.R |only realestatebr-1.2.0/realestatebr/R/get_rppi.R | 21 realestatebr-1.2.0/realestatebr/R/get_secovi.R | 230 ++- realestatebr-1.2.0/realestatebr/R/get_sinapi.R |only realestatebr-1.2.0/realestatebr/R/helpers_download.R | 52 realestatebr-1.2.0/realestatebr/R/ibge_aggregates.R |only realestatebr-1.2.0/realestatebr/R/list_datasets.R | 26 realestatebr-1.2.0/realestatebr/R/query_dataset.R |only realestatebr-1.2.0/realestatebr/R/rppi_helpers.R | 24 realestatebr-1.2.0/realestatebr/R/sysdata.rda |binary realestatebr-1.2.0/realestatebr/R/utils.R | 2 realestatebr-1.2.0/realestatebr/R/utils_globals.R | 3 realestatebr-1.2.0/realestatebr/README.md | 107 - realestatebr-1.2.0/realestatebr/build/vignette.rds |binary realestatebr-1.2.0/realestatebr/inst/WORDLIST | 2 realestatebr-1.2.0/realestatebr/inst/doc/getting-started.R | 121 - realestatebr-1.2.0/realestatebr/inst/doc/getting-started.Rmd | 139 +- realestatebr-1.2.0/realestatebr/inst/doc/getting-started.html | 685 ++++++++-- realestatebr-1.2.0/realestatebr/inst/extdata/datasets.yaml | 631 +++++++++ realestatebr-1.2.0/realestatebr/man/abecip.Rd |only realestatebr-1.2.0/realestatebr/man/abrainc.Rd |only realestatebr-1.2.0/realestatebr/man/bcb_realestate.Rd |only realestatebr-1.2.0/realestatebr/man/bcb_series.Rd |only realestatebr-1.2.0/realestatebr/man/bcb_series_first_date.Rd |only realestatebr-1.2.0/realestatebr/man/cno.Rd |only realestatebr-1.2.0/realestatebr/man/dim_city.Rd | 8 realestatebr-1.2.0/realestatebr/man/download_bcb_series.Rd | 8 realestatebr-1.2.0/realestatebr/man/download_secovi.Rd | 8 realestatebr-1.2.0/realestatebr/man/fetch_github_release_asset.Rd | 3 realestatebr-1.2.0/realestatebr/man/fetch_sgs_series.Rd |only realestatebr-1.2.0/realestatebr/man/fgv_ibre.Rd |only realestatebr-1.2.0/realestatebr/man/figures/README-bis-example-1.png |binary realestatebr-1.2.0/realestatebr/man/figures/README-rppi-example-1.png |binary realestatebr-1.2.0/realestatebr/man/figures/hexlogo.png |binary realestatebr-1.2.0/realestatebr/man/figures/hexlogo.svg | 2 realestatebr-1.2.0/realestatebr/man/figures/inner_temp.png |binary realestatebr-1.2.0/realestatebr/man/figures/logo_cropped.png |only realestatebr-1.2.0/realestatebr/man/get_bcb_series.Rd | 16 realestatebr-1.2.0/realestatebr/man/get_dataset.Rd | 44 realestatebr-1.2.0/realestatebr/man/get_dataset_from_source.Rd | 13 realestatebr-1.2.0/realestatebr/man/get_dataset_info.Rd | 3 realestatebr-1.2.0/realestatebr/man/get_dataset_with_fallback.Rd | 6 realestatebr-1.2.0/realestatebr/man/get_from_github_cache.Rd | 2 realestatebr-1.2.0/realestatebr/man/get_from_internal_function.Rd | 12 realestatebr-1.2.0/realestatebr/man/get_paic.Rd |only realestatebr-1.2.0/realestatebr/man/get_pim_pf_construction.Rd |only realestatebr-1.2.0/realestatebr/man/get_sinapi.Rd |only realestatebr-1.2.0/realestatebr/man/list_datasets.Rd | 8 realestatebr-1.2.0/realestatebr/man/mcmv.Rd |only realestatebr-1.2.0/realestatebr/man/paic.Rd |only realestatebr-1.2.0/realestatebr/man/pim_pf_construction.Rd |only realestatebr-1.2.0/realestatebr/man/query_dataset.Rd |only realestatebr-1.2.0/realestatebr/man/realestatebr-package.Rd | 4 realestatebr-1.2.0/realestatebr/man/rppi.Rd |only realestatebr-1.2.0/realestatebr/man/rppi_bis.Rd |only realestatebr-1.2.0/realestatebr/man/secovi.Rd |only realestatebr-1.2.0/realestatebr/man/show_import_message.Rd | 9 realestatebr-1.2.0/realestatebr/man/sinapi.Rd |only realestatebr-1.2.0/realestatebr/tests/testthat/_snaps |only realestatebr-1.2.0/realestatebr/tests/testthat/fixtures |only realestatebr-1.2.0/realestatebr/tests/testthat/test-bcb-sgs.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-code-review-fixes.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-get-paic.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-get_dataset-interface.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-get_pim_pf_construction.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-get_secovi.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-get_sinapi.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-helpers-download.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-ibge_aggregates.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-integration-get_dataset.R | 51 realestatebr-1.2.0/realestatebr/tests/testthat/test-internal-functions.R | 31 realestatebr-1.2.0/realestatebr/tests/testthat/test-mcmv-discovery.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-mcmv-snapshot.R |only realestatebr-1.2.0/realestatebr/tests/testthat/test-query_dataset.R |only realestatebr-1.2.0/realestatebr/vignettes/getting-started.Rmd | 139 +- 105 files changed, 2384 insertions(+), 847 deletions(-)
Title: Heuristics for the Quadratic Assignment Problem (QAP)
Description: Implements a simulated annealing heuristic for the Quadratic Assignment Problem (QAP). Originally formulated as a facility location problem in operations research, the QAP also has applications in data analysis. The problem is NP-hard.
Author: Michael Hahsler [aut, cre, cph] ,
Franz Rendl [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between qap versions 0.1-2 dated 2022-06-27 and 0.1-3 dated 2026-10-01
DESCRIPTION | 27 +++---- MD5 | 27 +++---- NAMESPACE | 11 +- NEWS.md | 7 + R/qap.R | 95 ++++++++++++++++++++++++ R/qapSA.R | 34 +++++--- R/read_qaplib.R | 58 +++++++++++++-- R/validate.R |only README.md | 93 +++++++++++++++--------- build/partial.rdb |binary inst/CITATION |only man/figures |only man/qap.Rd | 145 ++++++++++++++++++-------------------- man/read_qaplib.Rd | 53 +++++-------- tests/testthat/test-qap.R | 64 ++++++++++++++-- tests/testthat/test-read_qaplib.R | 69 +++++++++++++++--- 16 files changed, 475 insertions(+), 208 deletions(-)
Title: Import Data from Spanish Sociological Research Center (CIS)
Description: Search and import data directly to R from the Spanish Sociological
Research Center (CIS) <https://www.cis.es/inicio>. The CIS is a public
institution that conducts electoral and sociological research studies on the
Spanish society. The CIS has a large database of surveys that can be
accessed through its website. The package includes functions to search for
surveys, survey questions and timeseries, and import the data directly to R.
Author: Hector Meleiro [aut, cre]
Maintainer: Hector Meleiro <hmeleiros@gmail.com>
Diff between opencis versions 0.1.2 dated 2026-09-07 and 0.1.4 dated 2026-10-01
DESCRIPTION | 6 MD5 | 34 ++--- NEWS.md | 43 ++++++ R/examples/search_cis.R | 22 ++- R/http.R | 64 +++++++++ R/search.R | 103 +++++++++++---- R/zzz.R | 5 README.md | 40 +++++- inst/doc/usage.R | 25 +++ inst/doc/usage.Rmd | 70 +++++++++- inst/doc/usage.html | 192 +++++++++++++++++++++++------ man/cis_catalog_url_date.Rd | 4 man/clear_cache.Rd | 4 man/search_all_cis.Rd | 27 +++- man/search_cis.Rd | 27 +++- tests/testthat/test-cis_catalog_url_date.R | 24 +++ tests/testthat/test-http-retry.R |only tests/testthat/test-search-parsers.R |only vignettes/usage.Rmd | 70 +++++++++- 19 files changed, 647 insertions(+), 113 deletions(-)
Title: Most Likely Transformations: Documentation and Regression Tests
Description: Additional documentation, a package vignette and
regression tests for package mlt.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt.docreg versions 1.1-13 dated 2026-06-09 and 1.1-14 dated 2026-10-01
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- build/vignette.rds |binary inst/NEWS.Rd | 6 ++++++ inst/doc/mlt.R | 2 +- inst/doc/mlt.Rnw | 2 +- inst/doc/mlt.pdf |binary tests/truncreg-Ex.R | 2 ++ tests/truncreg-Ex.Rout.save | 8 +++++--- vignettes/mlt.Rnw | 2 +- 10 files changed, 30 insertions(+), 20 deletions(-)
Title: Calculation of Maritime Distances
Description: Tools for calculating and visualizing maritime distances and routes between geographic points. At its core, it implements a fast Haversine formula implemented in data.table to compute great circle distances across sea regions (i.e. avoiding land mass). The package builds a spatial network graph from port and cluster coordinates and uses a shortest path algorithm to identify optimal maritime routes between origin-destination pairs. For visualization, the package exports maps displaying individual routes, multi-destination networks, or continuous routes through specified waypoints. Utility functions identify the nearest network nodes to arbitrary coordinates and handle the antimeridian discontinuities common in Pacific maritime mapping. The package is particularly suited for analyzing shipping lanes, trade routes, and vessel trajectory data.
Author: Panayotis Christidis [cre, aut]
Maintainer: Panayotis Christidis <Panayotis.Christidis@ec.europa.eu>
Diff between mardist versions 1.0.1 dated 2026-09-14 and 1.1.1 dated 2026-10-01
DESCRIPTION | 10 ++--- MD5 | 9 ++-- NAMESPACE | 1 R/mardist.R | 86 +++++++++++++++++++++++++++++++++-------------- R/route_wrapper.R | 3 + man/multi_point_route.Rd |only 6 files changed, 75 insertions(+), 34 deletions(-)
Title: Reference-Compatible Outdoor Wet Bulb Globe Temperature
Description: Computes outdoor wet bulb globe temperature using the
reference-compatible Liljegren numerical model described by Liljegren et
al. (2008) <doi:10.1080/15459620802310770>. Provides dependency-free,
vectorized access to the native calculation with explicit input units,
per-row validation, and deterministic failure reporting.
Author: Yifei Zheng [aut, cre, cph] ,
James C. Liljegren [ctb],
Nels Larson [ctb],
UChicago Argonne, LLC [cph]
Maintainer: Yifei Zheng <zyf0717@gmail.com>
Diff between lwbgt versions 0.4.1 dated 2026-09-29 and 1.0.1 dated 2026-10-01
DESCRIPTION | 7 +-- MD5 | 24 +++++------ NEWS.md | 24 +++++++++++ R/lwbgt.R | 7 ++- README.md | 2 configure | 8 +-- inst/COPYRIGHTS | 2 inst/NOTICE | 2 man/calculate.Rd | 2 man/lwbgt_input.Rd | 9 ++-- src/lwbgt.h | 8 ++- src/wbgt.c | 110 ++++++++++++++++++++++++----------------------------- tests/test-api.R | 23 +++++++---- 13 files changed, 130 insertions(+), 98 deletions(-)
Title: Resistant Clustering via Chopping Up Mutual Reachability Minimum
Spanning Trees
Description: Implements a fast and resistant divisive clustering algorithm which
identifies a specified number of clusters: 'lumbermark' iteratively
chops off sizeable limbs that are joined by protruding segments
of a dataset's mutual reachability minimum spanning tree
(Gagolewski, 2026 <DOI:10.48550/arXiv.2604.07143>). The use of a mutual
reachability distance pulls peripheral points farther away from each other.
It is a viable alternative to the 'HDBSCAN*' algorithm
and can be viewed as a divisive version of Genie.
The resulting partitions of different granularities are properly nested.
When combined with the 'deadwood' package, it can act as an outlier detector.
The 'Python' version of 'lumbermark' is available via 'PyPI'.
Author: Marek Gagolewski [aut, cre, cph]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between lumbermark versions 0.9.0 dated 2026-03-16 and 0.9.1 dated 2026-10-01
DESCRIPTION | 26 +++++++++++---------- MD5 | 20 ++++++++-------- NEWS | 16 +++++++++++++ R/RcppExports.R | 4 +-- R/lumbermark.R | 53 ++++++++++++++++++++++++++++++-------------- man/lumbermark-package.Rd | 5 ++++ man/lumbermark.Rd | 55 +++++++++++++++++++++++++++++----------------- src/RcppExports.cpp | 9 ++++--- src/RcppLumbermark.cpp | 4 ++- src/c_common.h | 5 +--- src/c_lumbermark.h | 39 +++++++++++++++++++++----------- 11 files changed, 154 insertions(+), 82 deletions(-)
Title: Hatemi-J Cointegration Test with Two Unknown Regime Shifts
Description: Implements the Hatemi-J (2008) cointegration test which allows
for two unknown structural breaks (regime shifts) in the cointegrating
relationship. The test provides three test statistics: ADF* (Augmented
Dickey-Fuller), Zt* (Phillips-Perron Z_t), and Za* (Phillips-Perron Z_alpha),
along with endogenously determined break dates. Critical values are based
on simulations from Hatemi-J (2008) <doi:10.1007/s00181-007-0175-9>.
The long-run variance in the Phillips statistics is estimated by default
with a prewhitened quadratic spectral kernel and the automatic bandwidth
of Andrews (1991) <doi:10.2307/2938229>, following Andrews and Monahan
(1992) <doi:10.2307/2951574>.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between hatemicoint versions 1.0.1 dated 2026-03-13 and 1.1.0 dated 2026-10-01
DESCRIPTION | 13 MD5 | 28 - NEWS.md | 94 +++- R/hatemicoint-package.R | 94 ++-- R/hatemicoint.R | 935 ++++++++++++++++++++++++++------------------- R/utils.R | 629 ++++++++++++++++-------------- README.md | 219 +++++----- build/partial.rdb |binary inst |only man/hatemicoint-package.Rd | 123 +++-- man/hatemicoint.Rd | 344 +++++++++++----- man/print.hatemicoint.Rd | 38 - man/summary.hatemicoint.Rd | 38 - tests |only 14 files changed, 1500 insertions(+), 1055 deletions(-)
Title: Download Geographic Data on Various Topics Provided and Managed
by the Spatial Data Infrastructure of Peru
Description: Provides R users with easy access to official cartographic
data from Peru across a range of topics, including society,
transport, environment, agriculture, climate, and more. It
also includes data from regional government entities and
technical-scientific institutions, all managed by Peru's
Spatial Data Infrastructure. For more information, please
visit: <https://www.geoidep.gob.pe/>.
Author: antony barja [aut, cre, cph]
Maintainer: antony barja <geografo.pe@gmail.com>
Diff between geoidep versions 0.4.0 dated 2026-09-27 and 0.5.0 dated 2026-10-01
DESCRIPTION | 23 +-- MD5 | 118 +++++++++------- NAMESPACE | 4 NEWS.md | 47 ++++++ R/ana.R |only R/ceplan.R |only R/geobosque.R | 150 ++++++++++++++++----- R/igp.R |only R/mapbiomas-alerta.R | 2 R/mapbiomas-fire.R | 71 +++++----- R/mapbiomas-lulc.R | 86 +++++++----- R/oefa.R |only R/sysdata.rda |binary R/utils.R | 65 ++++++++- R/zzz.R | 40 ++--- README.md | 26 ++- inst/doc/geoidep.R | 27 ++- inst/doc/geoidep.Rmd | 28 ++- inst/doc/geoidep.html | 38 ++--- inst/sources-idep/sources_geoidep.csv | 205 ++++++++++++++++++++++++++++- man/geoidep-package.Rd | 56 +++---- man/get_ana_data.Rd |only man/get_ceplan_data.Rd |only man/get_data_sources.Rd | 46 +++--- man/get_departaments.Rd | 84 +++++------ man/get_districts.Rd | 108 +++++++-------- man/get_early_warning.Rd | 64 ++++----- man/get_forest_loss_data.Rd | 88 ++++++------ man/get_hotspots_data.Rd | 60 ++++---- man/get_igp_seismic_data.Rd |only man/get_inaigem_data.Rd | 82 +++++------ man/get_mapbiomas_alert_images.Rd | 104 +++++++------- man/get_mapbiomas_peru_alerta.Rd | 96 ++++++------- man/get_mapbiomas_peru_fire.Rd | 72 +++++----- man/get_mapbiomas_peru_fire_legend.Rd | 70 ++++----- man/get_mapbiomas_peru_fire_products.Rd | 44 +++--- man/get_mapbiomas_peru_lulc.Rd | 68 ++++----- man/get_mapbiomas_peru_lulc_series.Rd | 76 +++++----- man/get_mtc_data.Rd | 82 +++++------ man/get_oefa_data.Rd |only man/get_providers.Rd | 46 +++--- man/get_provinces.Rd | 86 ++++++------ man/get_sernanp_data.Rd | 80 +++++------ man/scale_fill_mapbiomas_peru_fire_d.Rd | 90 ++++++------ man/scale_fill_mapbiomas_peru_lulc_d.Rd | 82 +++++------ man/senamhi_alert_by_number.Rd | 38 ++--- man/senamhi_alerts_by_year.Rd | 38 ++--- man/senamhi_geometry_by_level.Rd | 58 ++++---- man/senamhi_get_meteorological_table.Rd | 52 +++---- man/senamhi_get_spatial_alerts.Rd | 74 +++++----- tests/testthat/helper-proj.R |only tests/testthat/test-ana.R |only tests/testthat/test-ceplan.R |only tests/testthat/test-get_data_sources.R | 91 +++++++----- tests/testthat/test-get_departaments.R |only tests/testthat/test-get_early_warning.R |only tests/testthat/test-get_forest_loss_data.R | 54 +++++-- tests/testthat/test-get_igp_seismic_data.R |only tests/testthat/test-get_inaigem_data.R |only tests/testthat/test-get_mtc_data.R |only tests/testthat/test-get_providers.R | 50 +++---- tests/testthat/test-get_provinces.R |only tests/testthat/test-get_sernanp.R | 2 tests/testthat/test-mapbiomas-alerta.R |only tests/testthat/test-mapbiomas-fire.R |only tests/testthat/test-mapbiomas-lulc.R |only tests/testthat/test-oefa.R |only tests/testthat/test-senamhi.R |only tests/testthat/test-utils.R | 84 +++++++++++ tests/testthat/test-zzz.R | 48 +++--- vignettes/geoidep.Rmd | 28 ++- 71 files changed, 1859 insertions(+), 1272 deletions(-)
Title: Factor Analysis for All
Description: Provides a comprehensive Shiny-based graphical user interface
for conducting a wide range of factor analysis procedures. 'FAfA'
(Factor Analysis for All) guides users through data uploading,
assumption checking (descriptive statistics, collinearity, multivariate
normality, outliers), data wrangling (variable exclusion, data
splitting), exploratory factor analysis (EFA) with various rotation
and extraction methods, confirmatory factor analysis (CFA), reliability
analysis (e.g., Cronbach's Alpha, McDonald's Omega), and measurement
invariance testing across groups. Factor retention methods include
parallel analysis following Horn (1965) <doi:10.1007/BF02289447>,
optimized parallel analysis following Timmerman and Lorenzo-Seva
(2011) <doi:10.1037/a0023353>, permutation parallel analysis for
categorical variables following Lubbe (2019) <doi:10.1037/met0000171>,
the Hull method following Lorenzo-Seva et al. (2011)
<doi:10.1080/00273171.2011.564527>, minimum average pa [...truncated...]
Author: Abdullah Faruk KILIC [aut, cre, cph],
Ahmet Caliskan [aut, cph],
Melissa G. Wolf [ctb, cph] ,
Daniel McNeish [ctb, cph] ,
Brian P. O'Connor [ctb, cph]
Maintainer: Abdullah Faruk KILIC <afarukkilic@trakya.edu.tr>
Diff between FAfA versions 1.4 dated 2026-09-30 and 1.4.1 dated 2026-10-01
FAfA-1.4.1/FAfA/DESCRIPTION | 46 ++-- FAfA-1.4.1/FAfA/MD5 | 30 +- FAfA-1.4.1/FAfA/NEWS.md | 14 + FAfA-1.4.1/FAfA/R/mod_about_server.r | 5 FAfA-1.4.1/FAfA/R/mod_about_ui.r | 2 FAfA-1.4.1/FAfA/R/mod_ega_server.r | 5 FAfA-1.4.1/FAfA/R/mod_missing_server.r | 11 - FAfA-1.4.1/FAfA/R/project_utils.R | 2 FAfA-1.4.1/FAfA/README.md | 117 ++++------- FAfA-1.4.1/FAfA/inst/COPYRIGHTS | 2 FAfA-1.4.1/FAfA/inst/WORDLIST | 38 ++- FAfA-1.4.1/FAfA/inst/extdata/ui-test-data.csv | 2 FAfA-1.4.1/FAfA/inst/golem-config.yml | 2 FAfA-1.4.1/FAfA/tests/testthat/test-critical-flow.R |only FAfA-1.4.1/FAfA/tests/testthat/test-golem-recommended.R | 22 +- FAfA-1.4.1/FAfA/tests/testthat/test-removed-efatools.R | 23 +- FAfA-1.4/FAfA/tests/testthat/test-shinytest2-critical-flow.R |only 17 files changed, 178 insertions(+), 143 deletions(-)
Title: Goodness-of-Fit and Calibration Tests for Logistic Regression
Description: Provides a unified battery of goodness-of-fit and calibration
tests for binary logistic regression, runnable in a single call via
'run.all.gof()'. Around twenty-five tests spanning five decades of
literature are aggregated and grouped by the departure each is built to
detect: global and standardized statistics, partition tests such as
Hosmer-Lemeshow, directed and covariate-space tests, smoothing and
resampling tests, and calibration tests. Each is obtained from its own
package where installed and attributed to its authors. The package also
implements the author's own procedures for sparse data, where the
Hosmer-Lemeshow test loses power: the omnibus Ebrahim-Farrington test
'ef.gof()', the directed 'edge.gof()' and its covariate-space variant
'cdef.gof()', the Cauchy-combination ensemble 'edges.gof()', 'DeepGOF-1'
(a pretrained convolutional statistic whose level comes from the analyst's
own parametric bootstrap rather than from the network), and 'legoft()'
(a frozen-weight combination [...truncated...]
Author: Ebrahim Khaled Ebrahim [aut, cre] ,
Jiawei Zhang [ctb, cph] ,
Jie Ding [ctb, cph] ,
Yuhong Yang [ctb, cph]
Maintainer: Ebrahim Khaled Ebrahim <ebrahimkhaled@alexu.edu.eg>
Diff between ebrahim.gof versions 2.8.0 dated 2026-09-26 and 2.9.0 dated 2026-10-01
DESCRIPTION | 8 MD5 | 63 NAMESPACE | 6 NEWS.md | 126 + R/bagoft_fast.R | 646 ++--- R/deepgof.R | 533 ++++ R/def_ensemble_gof.R | 2 R/def_gof.R | 108 R/ebrahim.gof-package.R | 3 R/edge_gof.R | 66 R/edge_stream.R |only R/proj_gof.R | 428 +-- R/run_all_external.R |only R/run_all_gof.R | 3679 ++++++++++++++++----------------- README.md | 31 inst/doc/ebrahim-farrington-intro.html | 57 inst/doc/ebrahim-gof-toolbox.html | 132 - man/bagoft.fast.Rd | 274 +- man/deepgof1.Rd | 86 man/deepgof1.external.Rd |only man/def.ensemble.gof.Rd | 2 man/def.gof.Rd | 45 man/ebrahim.gof-package.Rd | 3 man/edge.gof.Rd | 55 man/edge.stream.Rd |only man/projection.gof.Rd | 214 - man/run.all.external.Rd |only man/run.all.gof.Rd | 11 tests/testthat/test-bagoft-fast.R | 180 - tests/testthat/test-deepgof1.R | 207 + tests/testthat/test-def-external.R |only tests/testthat/test-def-gof.R | 4 tests/testthat/test-edge-stream.R |only tests/testthat/test-exports-smoke.R | 6 tests/testthat/test-hl-largeN.R |only tests/testthat/test-proj-gof.R | 200 - tests/testthat/test-run-all-external.R |only 37 files changed, 4161 insertions(+), 3014 deletions(-)
Title: Dose Transition Pathways for Continual Reassessment Method
Description: Provides the dose transition pathways (DTP) to project in advance
the doses recommended by a model-based design for subsequent patients (stay,
escalate, deescalate or stop early) using all the accumulated toxicity
information; See Yap et al (2017) <doi:10.1158/1078-0432.CCR-17-0582>. DTP
can be used as a design and an operational tool and can be displayed as a
table or flow diagram. The 'dtpcrm' package also provides the modified
continual reassessment method (CRM) and time-to-event CRM (TITE-CRM) with
added practical considerations to allow stopping early when there is
sufficient evidence that the lowest dose is too toxic and/or there is a
sufficient number of patients dosed at the maximum tolerated dose.
Author: Christina Yap [aut],
Daniel Slade [aut],
Kristian Brock [aut],
Yi Pan [aut],
Xiaoran Lai [cre]
Maintainer: Xiaoran Lai <xiaoran.lai@icr.ac.uk>
Diff between dtpcrm versions 0.1.1 dated 2019-08-20 and 0.1.3 dated 2026-10-01
DESCRIPTION | 27 + MD5 | 17 - NEWS.md |only R/applied_crm.R | 2 R/simulation_titecrm.R | 28 + build/vignette.rds |binary inst/doc/dtpcrm_vignettev02.R | 60 ++-- inst/doc/dtpcrm_vignettev02.html | 581 ++++++++++++++++++++++++--------------- man/applied_crm.Rd | 16 - man/applied_titecrm_sim.Rd | 2 10 files changed, 463 insertions(+), 270 deletions(-)
Title: Outlier Detection via Pruning Mutual Reachability Minimum
Spanning Trees
Description: Implements an anomaly detection algorithm based on a dataset's
mutual reachability minimum spanning tree: 'deadwood' prunes
protruding tree segments and marks small debris as outliers;
see Gagolewski (2026) <https://deadwood.gagolewski.com/>.
More precisely, tree edges with weights greater than the detected elbow
point are removed. All the resulting connected components whose sizes do
not exceed a prespecified threshold are deemed anomalous. The use of
a mutual reachability distance pulls peripheral observations farther away
from one another. If the dataset is comprised of well-separated clusters
of heterogeneous densities, an attempt to split the dataset and refine
the outlierness markers will be made.
The 'Python' version of 'deadwood' is available via 'PyPI'.
Author: Marek Gagolewski [aut, cre, cph]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between deadwood versions 0.9.1 dated 2026-09-29 and 0.9.2 dated 2026-10-01
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS | 12 ++++++++++-- R/deadwood.R | 3 +++ man/deadwood.Rd | 3 +++ src/RcppDeadwood.cpp | 6 ++++++ src/c_deadwood.h | 8 ++++++-- 7 files changed, 38 insertions(+), 14 deletions(-)
Title: Fast, Efficient, and Versatile Data Preprocessing and Reshaping
with 'C++', 'OpenMP' & 'SIMD'
Description: Fast, efficient, and versatile preprocessing and reshaping of tabular
and time-series data. Most heavy routines are implemented in 'C++' via
'Rcpp', with optional 'OpenMP' parallelization and 'SIMD' acceleration
('AVX2' / 'AVX-512') on supported hardware. The 0.1.8 release rewrites
the cleaning routines in 'C++' and delivers a 1.1–1146× speedup over
0.1.5. The 'melt()' and 'dcast()' reshaping functions achieve a
0.6×–1628.9× speedup for 'melt()' and a 1.9×–799.8× speedup for
'dcast()' relative to every one of the seven major alternatives in
the R and Python ecosystems, at every tested scale (from 1,000 to
100,000,000 rows), and produce output identical to 'reshape2',
'data.table', 'tidyr', 'pandas', 'polars', 'dask', and 'duckdb'.
Core preprocessing steps include variable deletion by missing
fraction, observation deletion by consecutive missing runs,
point-by-point weighted outlier removal via conditional extremum,
traditional percentile-based outlier removal, and linear
interpolation [...truncated...]
Author: Chun-Sheng Liang [aut, cre] ,
Hao Wu [aut],
Hai-Yan Li [aut],
Qiang Zhang [aut],
Zhanqing Li [aut],
Ke-Bin He [aut]
Maintainer: Chun-Sheng Liang <chun-shengliang@qq.com>
Diff between dataprep versions 0.1.5 dated 2022-01-15 and 0.1.8 dated 2026-10-01
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Title: Join World Bank Data, Country Codes and Maps on the ISO Spine
Description: A complete toolkit for getting country data onto honest maps.
Country names rarely line up across data sources ("US", "U.S.",
"United States", "United States of America" are one country, but a
naive join treats them as four), so 'countryatlas' makes ISO codes the
universal join key. It generalises a one-call, map-ready table that
stitches together 'ggplot2' map geometry, 'WDI' World Bank indicators
and the 'countrycode' Rosetta stone; exposes the join machinery for the
user's own data; ships curated reference data (metadata, group
memberships, an indicator catalogue, flags and currencies); adds
analysis helpers (per-capita, regional roll-ups, ranking, inequality and
convergence statistics); and turns one hand-drawn choropleth into a full
vocabulary of projected, area-honest maps (binned and quantile
choropleths, proportional-symbol, spike, bivariate, value-by-alpha,
cartogram, tile-grid, flow, small-multiple, animated, globe and
interactive), and can hand its curated, ISO-reconciled ta [...truncated...]
Author: Youzhi Yu [aut, cre]
Maintainer: Youzhi Yu <yuyouzhi666@icloud.com>
Diff between countryatlas versions 2.0.1 dated 2026-08-28 and 3.0.0 dated 2026-10-01
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countryatlas-3.0.0/countryatlas/tests/testthat/test-untested-exports.R | 80 countryatlas-3.0.0/countryatlas/tests/testthat/test-visual-regression.R |only countryatlas-3.0.0/countryatlas/tests/testthat/test-visualization.R | 142 countryatlas-3.0.0/countryatlas/tests/testthat/test-world-data.R | 16 countryatlas-3.0.0/countryatlas/vignettes/beyond-the-choropleth.Rmd | 69 countryatlas-3.0.0/countryatlas/vignettes/countryatlas-and-ggsql.Rmd | 14 countryatlas-3.0.0/countryatlas/vignettes/countryatlas.Rmd | 54 countryatlas-3.0.0/countryatlas/vignettes/getting-started.Rmd | 24 countryatlas-3.0.0/countryatlas/vignettes/honest-maps.Rmd |only countryatlas-3.0.0/countryatlas/vignettes/joining-your-own-data.Rmd | 16 countryatlas-3.0.0/countryatlas/vignettes/sf-and-projections.Rmd | 28 213 files changed, 16524 insertions(+), 1775 deletions(-)
Title: Risk Assessment Plot and Reclassification Metrics
Description: Assessing the comparative performance of two logistic regression models or results of such models or classification models. Discrimination metrics include Integrated Discrimination Improvement (IDI), Net Reclassification Improvement (NRI), and difference in Area Under the Curves (AUCs), Brier scores and Brier skill. Plots include Risk Assessment Plots, Decision curves and Calibration plots. Methods are described in Pickering and Endre (2012) <doi:10.2215/CJN.09590911> and Pencina et al. (2008) <doi:10.1002/sim.2929>.
Author: John W Pickering [aut],
Dimitrios Doudesis [aut],
Daniel Perez Vicencio [cre]
Maintainer: Daniel Perez Vicencio <dvicencio947@gmail.com>
Diff between raptools versions 1.23.0 dated 2025-12-09 and 1.24.0 dated 2026-10-01
DESCRIPTION | 8 MD5 | 18 + NAMESPACE | 1 NEWS.md | 20 + R/raptools.R | 279 +++++++++++++++++---------- README.md | 116 +++++++---- man/figures/README-ggcalibrate-1.png |binary man/figures/README-ggcalibrate_BA-1.png |only man/figures/README-ggcalibrate_BA_zoom-1.png |only man/figures/README-ggcalibrate_actuals-1.png |only man/ggcalibrate.Rd | 29 ++ man/ggcalibrate_BA.Rd |only 12 files changed, 317 insertions(+), 154 deletions(-)
Title: Likelihood-Based Inference for Joint Modeling of Correlated
Count and Binary Outcomes with Extra Variability and Zeros
Description: Inference approach for jointly modeling correlated count and binary outcomes. This formulation allows simultaneous modeling of zero inflation via the Bernoulli component while providing a more accurate assessment of the Hierarchical Zero-Inflated Poisson's parsimony (Lizandra C. Fabio, Jalmar M. F. Carrasco, Victor H. Lachos and Ming-Hui Chen, Likelihood-based inference for joint modeling of correlated count and binary outcomes with extra variability and zeros, 2026, under submission).
Author: Lizandra C. Fabio [aut],
Jalmar M. F. Carrasco [aut, cre],
Victor H. Lachos [aut],
Ming-Hui Chen [aut]
Maintainer: Jalmar M. F. Carrasco <carrasco.jalmar@ufba.br>
Diff between HZIP versions 0.1.2 dated 2026-06-02 and 0.1.3 dated 2026-10-01
HZIP-0.1.2/HZIP/R/generics.R |only HZIP-0.1.2/HZIP/R/rHZIP.R |only HZIP-0.1.2/HZIP/man/envelope.HZIP.Rd |only HZIP-0.1.2/HZIP/man/print.hzip_test.Rd |only HZIP-0.1.2/HZIP/man/rHZIP.Rd |only HZIP-0.1.2/HZIP/man/residuals.HZIP.Rd |only HZIP-0.1.2/HZIP/man/simulate.HZIP.Rd |only HZIP-0.1.2/HZIP/man/testDisp.HZIP.Rd |only HZIP-0.1.2/HZIP/man/testZI.HZIP.Rd |only HZIP-0.1.3/HZIP/DESCRIPTION | 8 HZIP-0.1.3/HZIP/MD5 | 47 - HZIP-0.1.3/HZIP/NAMESPACE | 96 +-- HZIP-0.1.3/HZIP/R/RcppExports.R | 70 +- HZIP-0.1.3/HZIP/R/envelope.R | 28 HZIP-0.1.3/HZIP/R/hzip.R | 1005 ++++++++++++++++----------------- HZIP-0.1.3/HZIP/R/residuals.R | 456 +++++++------- HZIP-0.1.3/HZIP/R/rhzip.R |only HZIP-0.1.3/HZIP/R/salamanders.R | 72 +- HZIP-0.1.3/HZIP/R/simulate.R | 207 +++--- HZIP-0.1.3/HZIP/R/testDisp.R | 25 HZIP-0.1.3/HZIP/R/testZI.R | 25 HZIP-0.1.3/HZIP/R/utils.R | 109 +-- HZIP-0.1.3/HZIP/R/zzz.R | 15 HZIP-0.1.3/HZIP/data/salamanders.rda |binary HZIP-0.1.3/HZIP/man/envelope.Rd |only HZIP-0.1.3/HZIP/man/hzip.Rd | 21 HZIP-0.1.3/HZIP/man/residuals.hzip.Rd |only HZIP-0.1.3/HZIP/man/rhzip.Rd |only HZIP-0.1.3/HZIP/man/salamanders.Rd | 14 HZIP-0.1.3/HZIP/man/testDisp.Rd | 69 ++ HZIP-0.1.3/HZIP/man/testZI.Rd | 68 ++ 31 files changed, 1235 insertions(+), 1100 deletions(-)
Title: Download 'Eurostat' 'GISCO' Spatial Data
Description: Tools to download global and European spatial data from the
'Eurostat' 'GISCO' (Geographic Information System of the Commission)
data distribution <https://ec.europa.eu/eurostat/web/gisco>. The
package provides helpers for country boundaries, Nomenclature of
Territorial Units for Statistics ('NUTS') regions, administrative
units, statistical units, transport networks, basic service locations
and other 'GISCO' datasets. This package is neither affiliated with
nor endorsed by 'Eurostat'.
Author: Diego Hernangomez [aut, cre, cph] ,
Eurostat [cph] ,
EuroGeographics [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between giscoR versions 1.2.0 dated 2026-08-27 and 1.3.0 dated 2026-10-01
DESCRIPTION | 15 - MD5 | 214 ++++++++-------- NAMESPACE | 1 NEWS.md | 101 +++---- R/data.R | 45 +-- R/gisco-address-api.R | 110 +++++++- R/gisco-attributions.R | 6 R/gisco-bulk-download.R | 4 R/gisco-cache.R | 8 R/gisco-check-access.R | 7 R/gisco-get-cached-db.R | 14 - R/gisco-get-census.R | 2 R/gisco-get-coastal-lines.R | 2 R/gisco-get-communes.R | 16 - R/gisco-get-countries.R | 17 - R/gisco-get-grid.R | 2 R/gisco-get-lau.R | 12 R/gisco-get-metadata.R | 2 R/gisco-get-nuts.R | 16 - R/gisco-get-postal-codes.R | 2 R/gisco-get-unit-country.R | 4 R/gisco-get-units.R | 3 R/gisco-get-urban-audit.R | 4 R/gisco-id-api.R | 104 +++++--- R/utils-country.R | 4 R/utils-dataset.R | 12 R/utils-request.R | 55 ++-- R/utils-sf.R | 28 +- R/utils-units.R | 5 R/utils-url.R | 103 ++++++- R/utils.R | 14 - README.md | 18 - build/stage23.rdb |binary data/gisco_db.rda |binary inst/WORDLIST | 14 - inst/doc/apis.html | 150 +++++------ inst/doc/apis.qmd | 97 ++++--- inst/doc/giscoR.html | 14 - inst/doc/giscoR.qmd | 18 - inst/schemaorg.json | 4 man/chunks/address_api.Rmd | 24 + man/chunks/education_meta.Rmd | 8 man/chunks/healthcare_meta.Rmd | 4 man/figures/README-resolution-map-1.png |binary man/figures/README-thematic-map-1.png |binary man/giscoR-package.Rd | 2 man/gisco_address_api.Rd | 80 ++++-- man/gisco_attributions.Rd | 6 man/gisco_bulk_download.Rd | 4 man/gisco_coastal_lines.Rd | 4 man/gisco_countries_2024.Rd | 6 man/gisco_countrycode.Rd | 17 - man/gisco_db.Rd | 6 man/gisco_get_airports.Rd | 4 man/gisco_get_census.Rd | 6 man/gisco_get_coastal_lines.Rd | 9 man/gisco_get_communes.Rd | 20 - man/gisco_get_countries.Rd | 13 - man/gisco_get_education.Rd | 15 - man/gisco_get_grid.Rd | 6 man/gisco_get_healthcare.Rd | 11 man/gisco_get_lau.Rd | 16 - man/gisco_get_nuts.Rd | 19 - man/gisco_get_ports.Rd | 4 man/gisco_get_postal_codes.Rd | 6 man/gisco_get_unit.Rd | 11 man/gisco_get_units.Rd | 9 man/gisco_get_urban_audit.Rd | 11 man/gisco_id_api.Rd | 84 +++--- man/gisco_nuts_2024.Rd | 14 - man/gisco_set_cache_dir.Rd | 2 tests/testthat/_snaps/gisco-address-api.md | 4 tests/testthat/_snaps/gisco-bulk-download.md | 4 tests/testthat/_snaps/gisco-get-cached-db.md | 4 tests/testthat/_snaps/gisco-get-metadata.md | 4 tests/testthat/_snaps/gisco-get-nuts.md | 4 tests/testthat/_snaps/gisco-get-unit-country.md | 4 tests/testthat/_snaps/gisco-get-unit-nuts.md | 4 tests/testthat/_snaps/gisco-get-unit-urban-audit.md | 4 tests/testthat/_snaps/gisco-id-api.md | 21 - tests/testthat/_snaps/utils-url.md | 16 - tests/testthat/helper.R | 4 tests/testthat/test-docs.R | 2 tests/testthat/test-gisco-address-api.R | 258 +++++++++++++++++++- tests/testthat/test-gisco-bulk-download.R | 8 tests/testthat/test-gisco-cache.R | 8 tests/testthat/test-gisco-check-access.R | 25 + tests/testthat/test-gisco-get-cached-db.R | 14 - tests/testthat/test-gisco-get-coastal-lines.R | 2 tests/testthat/test-gisco-get-countries.R | 2 tests/testthat/test-gisco-get-metadata.R | 8 tests/testthat/test-gisco-get-nuts.R | 14 - tests/testthat/test-gisco-get-unit-country.R | 10 tests/testthat/test-gisco-get-unit-nuts.R | 10 tests/testthat/test-gisco-get-unit-urban-audit.R | 10 tests/testthat/test-gisco-get-units.R | 9 tests/testthat/test-gisco-get-urban-audit.R | 2 tests/testthat/test-gisco-id-api.R | 158 ++++++++++-- tests/testthat/test-utils-sf.R | 6 tests/testthat/test-utils-url.R | 226 ++++++++++++++++- tests/testthat/test-utils.R | 28 +- vignettes/apis.qmd | 97 ++++--- vignettes/fig-address-api-1.png |binary vignettes/fig-africa-1.png |binary vignettes/fig-api-id-1.png |binary vignettes/fig-country-1.png |binary vignettes/fig-giscor-1.png |binary vignettes/giscoR.qmd | 18 - 108 files changed, 1779 insertions(+), 877 deletions(-)
Title: Connecting to Various Database Platforms
Description: An R 'DataBase Interface' ('DBI') compatible interface to various database platforms ('PostgreSQL', 'Oracle', 'Microsoft SQL Server',
'Amazon Redshift', 'Microsoft Parallel Database Warehouse', 'IBM Netezza', 'Apache Impala', 'Google BigQuery', 'Snowflake', 'Spark', 'SQLite',
and 'InterSystems IRIS'). Also includes support for fetching data as 'Andromeda' objects. Uses either 'Java Database Connectivity' ('JDBC') or
other 'DBI' drivers to connect to databases.
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut],
Adam Black [aut],
Observational Health Data Science and Informatics [cph],
Microsoft Inc. [cph] ,
PostgreSQL Global Development Group [cph] ,
Oracle Inc. [cph] ,
Amazon Inc. [cph]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between DatabaseConnector versions 7.2.0 dated 2026-06-26 and 8.0.0 dated 2026-10-01
DESCRIPTION | 12 - MD5 | 63 +++--- NAMESPACE | 44 ++-- NEWS.md | 22 ++ R/Andromeda.R | 9 R/BulkLoad.R | 14 + R/Connect.R | 196 ++++++++++--------- R/Drivers.R | 6 R/Sql.R | 38 +++ README.md | 5 build/vignette.rds |binary inst/csv/jarChecksum.txt | 2 inst/doc/Connecting.pdf |binary inst/doc/DbiAndDbplyr.pdf |binary inst/doc/Querying.pdf |binary inst/java/DatabaseConnector.jar |binary inst/sql/sql_server/sparkCopy.sql | 5 java/org/ohdsi/databaseConnector/Authentication.java | 44 ++-- man/connect.Rd | 14 + man/createConnectionDetails.Rd | 13 + man/downloadJdbcDrivers.Rd | 2 man/executeSql.Rd | 9 man/querySql.Rd | 7 man/querySqlToAndromeda.Rd | 7 man/renderTranslateExecuteSql.Rd | 9 man/renderTranslateQueryApplyBatched.Rd | 7 man/renderTranslateQuerySql.Rd | 7 man/renderTranslateQuerySqlToAndromeda.Rd | 7 tests/testthat/setup.R | 26 +- tests/testthat/test-connection.R | 20 + tests/testthat/test-errorReportFileLocation.R |only tests/testthat/test-fetchResults.R | 2 tests/testthat/test-insertTable.R | 3 33 files changed, 371 insertions(+), 222 deletions(-)
More information about DatabaseConnector at CRAN
Permanent link
Title: Three-Step Estimation for Latent Class Analysis
Description: Bias-adjusted three-step estimation of latent class models with
covariates and distal outcomes. The latent class measurement model is
estimated first, with 'multilevLCA' (Lyrvall et al., 2025)
<doi:10.1080/00273171.2025.2473935>, and held fixed; observations are then
classified; and the classes are related to covariates and distal outcomes
with the maximum likelihood correction of Vermunt (2010)
<doi:10.1093/pan/mpq025> and Bakk, Tekle and Vermunt (2013)
<doi:10.1177/0081175012470644>, or the correction of Bolck, Croon and
Hagenaars (2004) <doi:10.1093/pan/mph001>. Standard errors account for the
uncertainty of the measurement model (Bakk, Oberski and Vermunt, 2014)
<doi:10.1093/pan/mpu003>. Includes class enumeration, modal and
proportional class assignment, covariate formulas, Gaussian, Poisson,
binomial, and multinomial distal outcomes, the two-step estimator of Bakk
and Kuha (2018) <doi:10.1007/s11336-017-9592-7>, measurement models
applied to ne [...truncated...]
Author: Sam Lee [aut, cre, cph] ,
Jay Goodliffe [aut, cph]
Maintainer: Sam Lee <samlee@arizona.edu>
Diff between tseLCA versions 1.1.1 dated 2026-09-23 and 2.0.0 dated 2026-10-01
tseLCA-1.1.1/tseLCA/inst/examples |only tseLCA-1.1.1/tseLCA/man/coef.tseLCA_measurement.Rd |only tseLCA-1.1.1/tseLCA/man/compress_Y.Rd |only tseLCA-1.1.1/tseLCA/man/plot.tseLCA_measurement.Rd |only tseLCA-1.1.1/tseLCA/man/print.tseLCA_measurement.Rd |only tseLCA-1.1.1/tseLCA/man/summary.tseLCA_measurement.Rd |only tseLCA-1.1.1/tseLCA/man/vcov.tseLCA_measurement.Rd |only tseLCA-2.0.0/tseLCA/DESCRIPTION | 29 tseLCA-2.0.0/tseLCA/MD5 | 113 tseLCA-2.0.0/tseLCA/NAMESPACE | 156 tseLCA-2.0.0/tseLCA/NEWS.md | 574 + tseLCA-2.0.0/tseLCA/R/clean.R | 357 - tseLCA-2.0.0/tseLCA/R/control.R |only tseLCA-2.0.0/tseLCA/R/deprecated.R |only tseLCA-2.0.0/tseLCA/R/distal-ml.R |only tseLCA-2.0.0/tseLCA/R/imports.R | 3 tseLCA-2.0.0/tseLCA/R/lca_measurement.R | 104 tseLCA-2.0.0/tseLCA/R/likelihood.R |only tseLCA-2.0.0/tseLCA/R/methods-tseLCA.R |only tseLCA-2.0.0/tseLCA/R/step1.R |only tseLCA-2.0.0/tseLCA/R/step2.R |only tseLCA-2.0.0/tseLCA/R/step3-covariate.R |only tseLCA-2.0.0/tseLCA/R/step3-distal.R |only tseLCA-2.0.0/tseLCA/R/three_step.R | 4475 +-------------- tseLCA-2.0.0/tseLCA/R/tseLCA-package.R | 274 tseLCA-2.0.0/tseLCA/R/tseLCA.R |only tseLCA-2.0.0/tseLCA/R/tse_classify.R |only tseLCA-2.0.0/tseLCA/R/tse_lca.R |only tseLCA-2.0.0/tseLCA/R/tse_structural.R |only tseLCA-2.0.0/tseLCA/R/vcov.R |only tseLCA-2.0.0/tseLCA/README.md | 112 tseLCA-2.0.0/tseLCA/inst/CITATION | 168 tseLCA-2.0.0/tseLCA/inst/WORDLIST | 79 tseLCA-2.0.0/tseLCA/inst/doc/tseLCA-workflow.R | 534 - tseLCA-2.0.0/tseLCA/inst/doc/tseLCA-workflow.Rmd | 1121 +-- tseLCA-2.0.0/tseLCA/inst/doc/tseLCA-workflow.html | 1738 +---- tseLCA-2.0.0/tseLCA/man/anova.tseLCA_covariate.Rd |only tseLCA-2.0.0/tseLCA/man/as_tse_lca.Rd |only tseLCA-2.0.0/tseLCA/man/best_model.Rd |only tseLCA-2.0.0/tseLCA/man/class_sizes.Rd |only tseLCA-2.0.0/tseLCA/man/clean_data.Rd | 114 tseLCA-2.0.0/tseLCA/man/coef.tseLCA_structural.Rd |only tseLCA-2.0.0/tseLCA/man/extract_Y_from_mU.Rd | 74 tseLCA-2.0.0/tseLCA/man/fitZ_from_fit0.Rd | 195 tseLCA-2.0.0/tseLCA/man/fitZ_from_multiLCA.Rd | 232 tseLCA-2.0.0/tseLCA/man/lca_indiv_varmat.Rd | 162 tseLCA-2.0.0/tseLCA/man/lca_step1.Rd | 240 tseLCA-2.0.0/tseLCA/man/lca_step1_startval.Rd | 262 tseLCA-2.0.0/tseLCA/man/logLik.tseLCA.Rd |only tseLCA-2.0.0/tseLCA/man/measurement.Rd |only tseLCA-2.0.0/tseLCA/man/omnibus_test.Rd | 107 tseLCA-2.0.0/tseLCA/man/plot.tseLCA.Rd |only tseLCA-2.0.0/tseLCA/man/posterior.Rd |only tseLCA-2.0.0/tseLCA/man/predict.tseLCA_covariate.Rd |only tseLCA-2.0.0/tseLCA/man/predict.tseLCA_measurement.Rd |only tseLCA-2.0.0/tseLCA/man/relevel.tseLCA_covariate.Rd |only tseLCA-2.0.0/tseLCA/man/summary.tseLCA_structural.Rd |only tseLCA-2.0.0/tseLCA/man/three_step.Rd | 759 +- tseLCA-2.0.0/tseLCA/man/tseLCA-package.Rd | 315 - tseLCA-2.0.0/tseLCA/man/tseLCA.Rd |only tseLCA-2.0.0/tseLCA/man/tse_classify.Rd |only tseLCA-2.0.0/tseLCA/man/tse_control.Rd |only tseLCA-2.0.0/tseLCA/man/tse_covariate.Rd |only tseLCA-2.0.0/tseLCA/man/tse_distal.Rd |only tseLCA-2.0.0/tseLCA/man/tse_lca.Rd |only tseLCA-2.0.0/tseLCA/man/tse_twostep.Rd |only tseLCA-2.0.0/tseLCA/man/vcov.tseLCA_structural.Rd |only tseLCA-2.0.0/tseLCA/tests/testthat/fixtures |only tseLCA-2.0.0/tseLCA/tests/testthat/helper-options.R |only tseLCA-2.0.0/tseLCA/tests/testthat/helper-v1-reference.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-bugfixes-2.0.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-classify.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-data.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-deprecated.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-dgp.R | 232 tseLCA-2.0.0/tseLCA/tests/testthat/test-distal-ml.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-integration.R | 2369 +++---- tseLCA-2.0.0/tseLCA/tests/testthat/test-lca.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-methods.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-regression-v1.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-s3.R | 485 - tseLCA-2.0.0/tseLCA/tests/testthat/test-structural.R |only tseLCA-2.0.0/tseLCA/tests/testthat/test-wrapper.R |only tseLCA-2.0.0/tseLCA/vignettes/tseLCA-workflow.Rmd | 1121 +-- 84 files changed, 5833 insertions(+), 10671 deletions(-)
Title: Multivariate Comparative Tools for Fitting Evolutionary Models
to Morphometric Data
Description: Fits multivariate (Brownian Motion, Early Burst, ACDC, Ornstein-Uhlenbeck and Shifts) models of continuous traits evolution on trees and time series. 'mvMORPH' also proposes high-dimensional multivariate comparative tools (linear models using Generalized Least Squares and multivariate tests) based on penalized likelihood and Empirical Bayes approaches. See
Clavel et al. (2015) <DOI:10.1111/2041-210X.12420>, Clavel et al. (2019) <DOI:10.1093/sysbio/syy045>, Clavel & Morlon (2020) <DOI:10.1093/sysbio/syaa010>, and Montoya et al. (2026) <DOI:10.1093/sysbio/syag051>.
Author: Julien Clavel [aut, cre],
with contributions from Aaron King [aut],
Emmanuel Paradis [aut],
Paola Montoya [aut]
Maintainer: Julien Clavel <julien.clavel@hotmail.fr>
Diff between mvMORPH versions 1.2.2 dated 2026-09-24 and 1.2.3 dated 2026-10-01
DESCRIPTION | 14 +++++--- MD5 | 34 ++++++++++----------- NAMESPACE | 1 NEWS.md | 7 +++- R/fun.r | 16 +++++++--- R/mvgls.pca.r | 17 ++++++++-- R/p3ca.r | 2 - R/penalized.r | 64 +++++++++++++++++++++------------------- R/plot_methods.r | 26 ++++++++-------- R/utils.r | 3 + R/zzz.r | 2 - README.md | 10 +++--- inst/doc/How_to_use_mvMORPH.pdf |binary inst/doc/tutorial_mvMORPH.pdf |binary man/mvSIM.Rd | 19 ++++++++++- man/mvgls.Rd | 6 +++ man/p3ca.Rd | 6 +-- man/pcLoadings.Rd | 5 +++ 18 files changed, 148 insertions(+), 84 deletions(-)
Title: Latent Interaction (and Moderation) Analysis in Structural
Equation Models (SEM)
Description: Estimation of interaction (i.e., moderation) effects between latent variables
in structural equation models (SEM).
The supported methods are:
The constrained approach (Algina & Moulder, 2001).
The unconstrained approach (Marsh et al., 2004).
The residual centering approach (Little et al., 2006).
The double centering approach (Lin et al., 2010).
The latent moderated structural equations (LMS) approach (Klein & Moosbrugger, 2000).
The quasi-maximum likelihood (QML) approach (Klein & Muthén, 2007)
The constrained- unconstrained, residual- and double centering- approaches
are estimated via 'lavaan' (Rosseel, 2012), whilst the LMS- and QML- approaches
are estimated via 'modsem' it self. Alternatively model can be
estimated via 'Mplus' (Muthén & Muthén, 1998-2017).
References:
Algina, J., & Moulder, B. C. (2001).
<doi:10.1207/S15328007SEM0801_3>.
"A note on estimating the Jöreskog-Yang model for latent variable interaction using 'LISREL' 8.3."
Klein, A., & Moosb [...truncated...]
Author: Kjell Solem Slupphaug [aut, cre] ,
Mehmet Mehmetoglu [ctb] ,
Matthias Mittner [ctb]
Maintainer: Kjell Solem Slupphaug <slupphaugkjell@gmail.com>
Diff between modsem versions 1.0.22 dated 2026-08-21 and 1.0.23 dated 2026-10-01
modsem-1.0.22/modsem/tests/testthat/mplusResults.inp |only modsem-1.0.22/modsem/tests/testthat/mplusResults.out |only modsem-1.0.22/modsem/tests/testthat/mplusResults_034950db9f6a046dcbf4348715ec98cb.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_0cdf413a1525cdd43e084da9823487b8.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_1902fe5a594fdff027c6f333f1b42374.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_1d99a51710dbe72680bd2167846dfc39.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_2f55eb38256759e6ebc9b0699ecf1d13.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_3d0f8823f6af05dbc789d0ed60a54090.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_6507283a847451aff127c84c87ebd81b.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_6bb11f99c9f63d831155403fa8debc11.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_ad18af3b9c89a45fac7dc52df3607909.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_c0d691516a85482200cebd668c136807.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_cef7da5bcf84a819ec0f66c18d6ea355.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_d4fd46d7e74eb5a0b73e2cb1369c4b51.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_d7630a570fe7052efa569a29540ef19e.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_e8725a6185cbe0286c28c26f935f24e2.dat |only modsem-1.0.23/modsem/DESCRIPTION | 6 modsem-1.0.23/modsem/MD5 | 56 -- modsem-1.0.23/modsem/R/lav_syntax_functions.R | 21 modsem-1.0.23/modsem/R/modsem_da.R | 31 - modsem-1.0.23/modsem/R/modsem_mplus.R | 9 modsem-1.0.23/modsem/R/ordered_mc_correction.R | 273 +--------- modsem-1.0.23/modsem/R/parser.R | 19 modsem-1.0.23/modsem/R/plot_interaction.R | 32 - modsem-1.0.23/modsem/R/simple_slopes.R | 95 ++- modsem-1.0.23/modsem/R/tokenizer.R | 20 modsem-1.0.23/modsem/R/utils_da.R | 2 modsem-1.0.23/modsem/build/vignette.rds |binary modsem-1.0.23/modsem/inst/doc/customize_plot_interactions.html | 8 modsem-1.0.23/modsem/inst/doc/estimation_lms.html | 6 modsem-1.0.23/modsem/inst/doc/observed_lms_qml.html | 6 modsem-1.0.23/modsem/inst/doc/plot_interactions.html | 4 modsem-1.0.23/modsem/inst/doc/ri_clpm_lms.R |only modsem-1.0.23/modsem/inst/doc/ri_clpm_lms.Rmd |only modsem-1.0.23/modsem/inst/doc/ri_clpm_lms.html |only modsem-1.0.23/modsem/man/modsem_da.Rd | 24 modsem-1.0.23/modsem/man/plot_interaction.Rd | 8 modsem-1.0.23/modsem/man/simple_slopes.Rd | 5 modsem-1.0.23/modsem/vignettes/ri_clpm_lms.Rmd |only 39 files changed, 260 insertions(+), 365 deletions(-)
Title: Unifying Estimation Results with Binary Dependent Variables
Description: Calculate unified measures
that quantify the effect of a covariate on a binary dependent variable
(e.g., for meta-analyses).
This can be particularly important
if the estimation results are obtained
with different models/estimators
(e.g., linear probability model, logit, probit, ...)
and/or with different transformations of the explanatory variable of interest
(e.g., linear, quadratic, interval-coded, ...).
The calculated unified measures are:
(a) semi-elasticities of linear, quadratic, or interval-coded covariates and
(b) effects of linear, quadratic, interval-coded, or categorical covariates
when a linear or quadratic covariate changes between distinct intervals,
the reference category of a categorical variable
or the reference interval of an interval-coded variable needs to be changed,
or some categories of a categorical covariate
or some intervals of an interval-coded covariate need to be grouped together.
Approximate standard errors of the unified measures are also calculated.
All [...truncated...]
Author: Arne Henningsen [aut, cre] ,
Geraldine Henningsen [aut]
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between urbin versions 0.1-16 dated 2025-07-06 and 0.1-18 dated 2026-10-01
DESCRIPTION | 8 +++--- MD5 | 54 +++++++++++++++++++++--------------------- NEWS | 7 +++++ build/vignette.rds |binary inst/doc/ExtendedAppendix.pdf |binary inst/doc/Manuscript.Rnw | 4 +-- inst/doc/Manuscript.pdf |binary tests/logit.R | 8 +++--- tests/logit.Rout.save | 36 +++++----------------------- tests/logitEffCat.R | 2 - tests/logitEffCat.Rout.save | 11 +++----- tests/logitEffInt.R | 2 - tests/logitEffInt.Rout.save | 11 +++----- tests/logitEla.R | 2 - tests/logitEla.Rout.save | 11 +++----- tests/logitElaInt.R | 2 - tests/logitElaInt.Rout.save | 11 +++----- tests/lpm.R | 6 ++-- tests/lpm.Rout.save | 23 +++++------------ tests/mlogit.R | 8 +++--- tests/mlogit.Rout.save | 23 +++++------------ tests/mvprobit.R | 8 +++--- tests/mvprobit.Rout.save | 28 ++++++--------------- tests/oprobit.R | 8 +++--- tests/oprobit.Rout.save | 26 ++++++-------------- tests/probit.R | 8 +++--- tests/probit.Rout.save | 36 +++++----------------------- vignettes/Manuscript.Rnw | 4 +-- 28 files changed, 133 insertions(+), 214 deletions(-)
Title: Extract Trends from Time Series
Description: Provides a unified interface to extract trends, cycles, and
seasonal components from monthly and quarterly time series using
established filters and smoothers from econometrics and signal extraction,
with frequency-aware defaults for common economic frequencies. Rolling and
year-to-date aggregations are also available, including the compounded
accumulation of rates of change.
Author: Vinicius Oike [aut, cre, cph]
Maintainer: Vinicius Oike <viniciusoike@gmail.com>
Diff between trendseries versions 1.4.0 dated 2026-07-13 and 1.7.0 dated 2026-10-01
trendseries-1.4.0/trendseries/inst/doc/augment-trends.R |only trendseries-1.4.0/trendseries/inst/doc/augment-trends.Rmd |only trendseries-1.4.0/trendseries/inst/doc/augment-trends.html |only trendseries-1.4.0/trendseries/inst/doc/decompose-series.R |only trendseries-1.4.0/trendseries/inst/doc/decompose-series.Rmd |only trendseries-1.4.0/trendseries/inst/doc/decompose-series.html |only trendseries-1.4.0/trendseries/inst/doc/detrend-series.R |only trendseries-1.4.0/trendseries/inst/doc/detrend-series.Rmd |only trendseries-1.4.0/trendseries/inst/doc/detrend-series.html |only trendseries-1.4.0/trendseries/inst/doc/econometric-filters.R |only trendseries-1.4.0/trendseries/inst/doc/econometric-filters.Rmd |only trendseries-1.4.0/trendseries/inst/doc/econometric-filters.html |only trendseries-1.4.0/trendseries/inst/doc/methods.R |only trendseries-1.4.0/trendseries/inst/doc/methods.Rmd |only trendseries-1.4.0/trendseries/inst/doc/methods.html |only trendseries-1.4.0/trendseries/inst/doc/moving-averages.R |only trendseries-1.4.0/trendseries/inst/doc/moving-averages.Rmd |only trendseries-1.4.0/trendseries/inst/doc/moving-averages.html |only trendseries-1.4.0/trendseries/inst/figures |only trendseries-1.4.0/trendseries/man/figures/README-unnamed-chunk-4-1.png |only trendseries-1.4.0/trendseries/vignettes/augment-trends.Rmd |only trendseries-1.4.0/trendseries/vignettes/decompose-series.Rmd |only trendseries-1.4.0/trendseries/vignettes/detrend-series.Rmd |only trendseries-1.4.0/trendseries/vignettes/econometric-filters.Rmd |only trendseries-1.4.0/trendseries/vignettes/methods.Rmd |only trendseries-1.4.0/trendseries/vignettes/moving-averages.Rmd |only trendseries-1.7.0/trendseries/DESCRIPTION | 18 trendseries-1.7.0/trendseries/MD5 | 159 +- trendseries-1.7.0/trendseries/NAMESPACE | 10 trendseries-1.7.0/trendseries/NEWS.md | 433 ++++-- trendseries-1.7.0/trendseries/R/augment_rolling.R |only trendseries-1.7.0/trendseries/R/augment_trends.R | 624 +++++---- trendseries-1.7.0/trendseries/R/converters.R | 654 ++++++++-- trendseries-1.7.0/trendseries/R/data.R | 391 ++++- trendseries-1.7.0/trendseries/R/decompose_series.R | 114 + trendseries-1.7.0/trendseries/R/deseason_series.R | 14 trendseries-1.7.0/trendseries/R/detrend_series.R | 68 - trendseries-1.7.0/trendseries/R/extract_trends.R | 199 ++- trendseries-1.7.0/trendseries/R/filters_econometric.R | 228 +-- trendseries-1.7.0/trendseries/R/filters_ma.R | 117 - trendseries-1.7.0/trendseries/R/filters_signal.R | 113 - trendseries-1.7.0/trendseries/R/filters_smoothing.R | 48 trendseries-1.7.0/trendseries/R/index_series.R |only trendseries-1.7.0/trendseries/R/method_registry.R | 139 +- trendseries-1.7.0/trendseries/R/roll_series.R |only trendseries-1.7.0/trendseries/R/tsibble.R |only trendseries-1.7.0/trendseries/R/utils.R | 241 ++- trendseries-1.7.0/trendseries/README.md | 237 ++- trendseries-1.7.0/trendseries/build/vignette.rds |binary trendseries-1.7.0/trendseries/data/coffee_arabica.rda |binary trendseries-1.7.0/trendseries/data/coffee_robusta.rda |binary trendseries-1.7.0/trendseries/data/metadata_series.rda |binary trendseries-1.7.0/trendseries/inst/doc/trendseries.R | 49 trendseries-1.7.0/trendseries/inst/doc/trendseries.Rmd | 185 +- trendseries-1.7.0/trendseries/inst/doc/trendseries.html | 213 +-- trendseries-1.7.0/trendseries/man/augment_rolling.Rd |only trendseries-1.7.0/trendseries/man/augment_trends.Rd | 51 trendseries-1.7.0/trendseries/man/coffee_arabica.Rd | 50 trendseries-1.7.0/trendseries/man/coffee_robusta.Rd | 47 trendseries-1.7.0/trendseries/man/decompose_series.Rd | 41 trendseries-1.7.0/trendseries/man/deseason_series.Rd | 13 trendseries-1.7.0/trendseries/man/detrend_series.Rd | 38 trendseries-1.7.0/trendseries/man/df_to_ts.Rd | 8 trendseries-1.7.0/trendseries/man/electric.Rd | 17 trendseries-1.7.0/trendseries/man/electricity.Rd | 20 trendseries-1.7.0/trendseries/man/extract_trends.Rd | 44 trendseries-1.7.0/trendseries/man/figures/logo.png |binary trendseries-1.7.0/trendseries/man/gdp_construction.Rd | 19 trendseries-1.7.0/trendseries/man/ibcbr.Rd | 23 trendseries-1.7.0/trendseries/man/index_series.Rd |only trendseries-1.7.0/trendseries/man/metadata_series.Rd | 4 trendseries-1.7.0/trendseries/man/oil_derivatives.Rd | 19 trendseries-1.7.0/trendseries/man/retail_autofuel.Rd | 41 trendseries-1.7.0/trendseries/man/retail_volume.Rd | 45 trendseries-1.7.0/trendseries/man/roll_series.Rd |only trendseries-1.7.0/trendseries/man/transit_london_avgs.Rd | 38 trendseries-1.7.0/trendseries/man/transit_london_monthly.Rd | 34 trendseries-1.7.0/trendseries/man/ts_to_df.Rd | 8 trendseries-1.7.0/trendseries/man/utils.Rd | 2 trendseries-1.7.0/trendseries/man/vehicles.Rd | 19 trendseries-1.7.0/trendseries/tests/testthat/_snaps |only trendseries-1.7.0/trendseries/tests/testthat/test-augment_rolling.R |only trendseries-1.7.0/trendseries/tests/testthat/test-augment_trends.R | 401 +++++- trendseries-1.7.0/trendseries/tests/testthat/test-decompose_series.R | 519 +++++-- trendseries-1.7.0/trendseries/tests/testthat/test-deseason_series.R | 76 - trendseries-1.7.0/trendseries/tests/testthat/test-detrend_series.R | 70 - trendseries-1.7.0/trendseries/tests/testthat/test-df_to_ts.R | 117 + trendseries-1.7.0/trendseries/tests/testthat/test-edge-cases.R | 595 ++++++++- trendseries-1.7.0/trendseries/tests/testthat/test-extract_trends.R | 143 ++ trendseries-1.7.0/trendseries/tests/testthat/test-filters-econometric.R | 273 +++- trendseries-1.7.0/trendseries/tests/testthat/test-filters-ma.R | 166 ++ trendseries-1.7.0/trendseries/tests/testthat/test-index_series.R |only trendseries-1.7.0/trendseries/tests/testthat/test-method_registry.R | 71 + trendseries-1.7.0/trendseries/tests/testthat/test-params-stl.R | 36 trendseries-1.7.0/trendseries/tests/testthat/test-roll_series.R |only trendseries-1.7.0/trendseries/tests/testthat/test-tsibble.R |only trendseries-1.7.0/trendseries/tests/testthat/test-utils.R | 188 ++ trendseries-1.7.0/trendseries/vignettes/trendseries.Rmd | 185 +- 98 files changed, 5545 insertions(+), 2130 deletions(-)
Title: 'Rcpp' Bindings to 'FastAD' Auto-Differentiation
Description: The header-only 'C++' template library 'FastAD' for automatic
differentiation <https://github.com/JamesYang007/FastAD> is provided by
this package, along with a few illustrative examples that can all be called
from R.
Author: Dirk Eddelbuettel [aut, cre] ,
James Yang [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppFastAD versions 0.0.5 dated 2026-09-24 and 0.0.6 dated 2026-10-01
ChangeLog | 17 ++++++++++++ DESCRIPTION | 8 +++--- MD5 | 18 ++++++------- README.md | 8 +++--- build/partial.rdb |binary inst/NEWS.Rd | 14 ++++++++++ inst/include/fastad_bits/reverse/core/value_view.hpp | 25 +++++++++++++++++-- src/Makevars.in | 2 - src/Makevars.win.in | 2 - tools/configure.R | 2 - 10 files changed, 75 insertions(+), 21 deletions(-)
Title: Drawing Chinese National and Historical Flags with 'ggplot2'
Description: Provides programmatic implementations for drawing
Chinese national and historical flags using analytic geometry and
'ggplot2'-based vector graphics. Flag designs are constructed
entirely from geometric primitives such as polygons and rectangles,
without relying on external image files. The package is intended
for educational demonstration, reproducible visualization, and
procedural graphics in R.
Author: Zhaoshuo Liu [aut, cre]
Maintainer: Zhaoshuo Liu <liuzhaoshuo1997@outlook.com>
Diff between ggChinaFlag versions 0.4.0 dated 2026-09-14 and 1.0.0 dated 2026-10-01
DESCRIPTION | 6 MD5 | 28 - NAMESPACE | 1 NEWS.md | 15 R/flag_interface.R | 10 R/globals.R | 16 R/package_logo.R | 1043 +++++-------------------------------------- R/plot_military.R | 71 ++ man/figures |only man/plot_Han18Star.Rd | 37 - man/plot_P.R.CHINA_flag.Rd | 30 - man/plot_PLA.Rd | 1 man/plot_ROC_Beiyang_flag.Rd | 30 - man/plot_ROC_KMT_flag.Rd | 31 - man/plot_ggChinaFlag_logo.Rd |only 15 files changed, 259 insertions(+), 1060 deletions(-)
Title: Estimate Survival from Common Data Model Cohorts
Description: Estimate survival using data mapped to the Observational Medical Outcomes Partnership common data model. Survival can be estimated based on user-defined study cohorts.
Author: Kim Lopez-Gueell [aut, cre] ,
Edward Burn [aut] ,
Marti Catala [aut] ,
Xintong Li [aut] ,
Danielle Newby [aut] ,
Nuria Mercade-Besora [aut]
Maintainer: Kim Lopez-Gueell <kim.lopez@spc.ox.ac.uk>
Diff between CohortSurvival versions 1.1.2 dated 2026-07-03 and 1.2.0 dated 2026-10-01
DESCRIPTION | 16 MD5 | 60 NAMESPACE | 1 NEWS.md | 21 R/addCohortSurvival.R | 139 +- R/estimateSurvival.R | 212 ++- R/filterSurvivalChanges.R |only R/tableSurvival.R | 32 build/vignette.rds |binary inst/doc/a00_Creating_cohorts_for_survival.html | 381 ++--- inst/doc/a01_Single_event_of_interest.Rmd | 8 inst/doc/a01_Single_event_of_interest.html | 1477 +++++++++++------------ inst/doc/a02_Competing_risk_survival.Rmd | 25 inst/doc/a02_Competing_risk_survival.html | 312 ++-- inst/doc/a03_Further_survival_analyses.html | 94 - man/CohortSurvival-package.Rd | 1 man/addCohortSurvival.Rd | 28 man/estimateCompetingRiskSurvival.Rd | 38 man/estimateSingleEventSurvival.Rd | 25 man/filterSurvivalChanges.Rd |only man/reexports.Rd | 2 man/riskTable.Rd | 2 man/tableSurvival.Rd | 2 man/tableSurvivalAttrition.Rd | 2 man/tableSurvivalEvents.Rd | 2 tests/testthat/test-addCohortSurvival-multiple.R |only tests/testthat/test-addCohortSurvival.R | 42 tests/testthat/test-estimateSurvival.R | 83 + tests/testthat/test-filterSurvivalChanges.R |only tests/testthat/test-outcomeHierarchy.R |only tests/testthat/test-selectResults.R |only tests/testthat/test-tableSurvival.R | 16 vignettes/a01_Single_event_of_interest.Rmd | 8 vignettes/a02_Competing_risk_survival.Rmd | 25 34 files changed, 1800 insertions(+), 1254 deletions(-)
More information about CohortSurvival at CRAN
Permanent link
Title: Secure and Intuitive Access to 'BigDataPE' 'API' Datasets
Description: Designed to simplify the process of retrieving datasets from the 'Big Data PE' platform using secure token-based authentication. It provides functions for securely storing, retrieving, and managing tokens associated with specific datasets, as well as fetching and processing data. The data-retrieval engine is provided by the generic 'apifetch' package, which 'BigDataPE' configures for the Big Data PE service.
Author: Andre Leite [aut, cre] ,
Hugo Vasconcelos [aut] ,
Diogo Bezerra [aut] ,
Marcos Wasiliew [aut] ,
Carlos Amorim [aut] ,
Julia Nascimento Barreto [aut]
Maintainer: Andre Leite <leite@castlab.org>
Diff between BigDataPE versions 0.2.0 dated 2026-07-15 and 0.3.0 dated 2026-10-01
DESCRIPTION | 49 +++++++++++++++++++++++++++++------------------ MD5 | 20 ++++++++++--------- NEWS.md | 29 +++++++++++++++++++++++++++ R/BigDataPE.R | 45 ++++++++++++++++++++++++++++++------------- README.md | 35 ++++++++++++++++++++++----------- man/bdpe_fetch_chunks.Rd | 11 ++++++---- man/bdpe_fetch_data.Rd | 3 +- man/bdpe_get_token.Rd | 2 - man/bdpe_store_token.Rd | 12 +++++++++-- man/parse_queries.Rd | 7 ++++-- tests |only 11 files changed, 151 insertions(+), 62 deletions(-)
Title: Methods to Analyse Signed Networks
Description: Methods for the analysis of signed networks. This includes
several measures for structural balance as introduced by Cartwright
and Harary (1956) <doi:10.1037/h0046049>, blockmodeling algorithms
from Doreian (2008) <doi:10.1016/j.socnet.2008.03.005>, various
centrality indices, and projections of signed two-mode networks
introduced by Schoch (2020) <doi:10.1080/0022250X.2019.1711376>.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david@schochastics.net>
Diff between signnet versions 1.0.6 dated 2025-11-06 and 1.1.0 dated 2026-10-01
signnet-1.0.6/signnet/src/circArc.cpp |only signnet-1.0.6/signnet/src/optimBlocks.cpp |only signnet-1.0.6/signnet/src/optimBlocksGen.cpp |only signnet-1.1.0/signnet/DESCRIPTION | 10 signnet-1.1.0/signnet/MD5 | 103 signnet-1.1.0/signnet/NEWS.md | 36 signnet-1.1.0/signnet/R/RcppExports.R | 44 signnet-1.1.0/signnet/R/balance_scores.R | 56 signnet-1.1.0/signnet/R/blockmodel.R | 139 signnet-1.1.0/signnet/R/centrality_indices.R | 68 signnet-1.1.0/signnet/R/complex_matrices.R | 132 signnet-1.1.0/signnet/R/laplace_matrix.R | 18 signnet-1.1.0/signnet/R/plot.R | 35 signnet-1.1.0/signnet/R/random_graphs.R | 74 signnet-1.1.0/signnet/R/signed_triangles.R | 1788 ---------- signnet-1.1.0/signnet/R/sysdata.rda |only signnet-1.1.0/signnet/R/utils.R | 82 signnet-1.1.0/signnet/README.md | 19 signnet-1.1.0/signnet/build/vignette.rds |binary signnet-1.1.0/signnet/inst/doc/blockmodeling.R | 6 signnet-1.1.0/signnet/inst/doc/blockmodeling.Rmd | 6 signnet-1.1.0/signnet/inst/doc/blockmodeling.html | 20 signnet-1.1.0/signnet/inst/doc/centrality.html | 3 signnet-1.1.0/signnet/inst/doc/complex_matrices.R | 4 signnet-1.1.0/signnet/inst/doc/complex_matrices.Rmd | 4 signnet-1.1.0/signnet/inst/doc/signed_2mode.html | 28 signnet-1.1.0/signnet/inst/doc/signed_networks.html | 14 signnet-1.1.0/signnet/inst/doc/structural_balance.html | 16 signnet-1.1.0/signnet/man/balance_score.Rd | 2 signnet-1.1.0/signnet/man/complex_walks.Rd | 2 signnet-1.1.0/signnet/man/count_complex_triangles.Rd | 2 signnet-1.1.0/signnet/man/eigen_centrality_signed.Rd | 1 signnet-1.1.0/signnet/man/figures/README-block_example-1.png |binary signnet-1.1.0/signnet/man/frustration_exact.Rd | 6 signnet-1.1.0/signnet/man/ggblock.Rd | 4 signnet-1.1.0/signnet/man/ggsigned.Rd | 8 signnet-1.1.0/signnet/man/signed_blockmodel.Rd | 7 signnet-1.1.0/signnet/man/signed_blockmodel_general.Rd | 12 signnet-1.1.0/signnet/man/triad_census_signed.Rd | 2 signnet-1.1.0/signnet/src/Makevars |only signnet-1.1.0/signnet/src/Makevars.win |only signnet-1.1.0/signnet/src/RcppExports.cpp | 157 signnet-1.1.0/signnet/src/blockmodel.cpp |only signnet-1.1.0/signnet/src/complex_walks.cpp | 31 signnet-1.1.0/signnet/src/triadCensus.cpp | 28 signnet-1.1.0/signnet/tests/testthat/test-balance_scores.R | 16 signnet-1.1.0/signnet/tests/testthat/test-blockmodel.R | 69 signnet-1.1.0/signnet/tests/testthat/test-centrality_indices.R | 8 signnet-1.1.0/signnet/tests/testthat/test-complex_matrices.R | 52 signnet-1.1.0/signnet/tests/testthat/test-laplace_matrix.R | 24 signnet-1.1.0/signnet/tests/testthat/test-plot.R | 16 signnet-1.1.0/signnet/tests/testthat/test-random_graphs.R | 9 signnet-1.1.0/signnet/tests/testthat/test-signed_triangles.R | 12 signnet-1.1.0/signnet/tests/testthat/test-utils.R | 31 signnet-1.1.0/signnet/vignettes/blockmodeling.Rmd | 6 signnet-1.1.0/signnet/vignettes/complex_matrices.Rmd | 4 56 files changed, 838 insertions(+), 2376 deletions(-)
Title: Get XKCD Comic from R
Description: Visualize your favorite XKCD comic strip directly from R.
Includes full-text search with BM25 ranking and semantic similarity search
via latent semantic analysis, powered by a local 'DuckDB' cache.
Author: Paolo Sonego [aut, cph, cre],
Mikko Korpela [aut]
Maintainer: Paolo Sonego <paolo.sonego@gmail.com>
Diff between RXKCD versions 2.0.1 dated 2026-04-15 and 2.0.2 dated 2026-10-01
DESCRIPTION | 14 ++++++------- MD5 | 12 ++++++----- NAMESPACE | 6 +++-- NEWS.md |only R/embeddings.R |only R/getXKCD.R | 57 ++++++++++++++--------------------------------------- README.md | 10 ++++----- man/similarXKCD.Rd | 6 ++--- 8 files changed, 42 insertions(+), 63 deletions(-)
Title: Sleep Data Filtering and Visualisation
Description: An online app and command-line utility to import, filter and visualise sleep data. Can be used with sleep data collected from any type of device (e.g. radar, sleep diary,...) as long as the data contains sleep onset and wake-up times for each sleep session.
Author: Daniel Thedie [aut, cre, cph]
Maintainer: Daniel Thedie <daniel.thedie@ed.ac.uk>
Diff between nocturn versions 1.2.0 dated 2026-07-29 and 1.2.1 dated 2026-10-01
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NAMESPACE | 8 ++++++++ NEWS.md | 6 ++++++ R/colnames_key.R | 8 ++++++++ README.md | 2 +- man/plot_bland_altman.Rd | 21 ++++++++++++++++++++- 7 files changed, 52 insertions(+), 11 deletions(-)
Title: Geometric Data Analysis
Description: Many tools for Geometric Data Analysis (Le Roux & Rouanet (2005) <doi:10.1007/1-4020-2236-0>), such as MCA variants (Specific Multiple Correspondence Analysis, Class Specific Analysis), many graphical and statistical aids to interpretation (structuring factors, concentration ellipses, inductive tests, bootstrap validation, etc.) and multiple-table analysis (Multiple Factor Analysis, between- and inter-class analysis, Principal Component Analysis and Correspondence Analysis with Instrumental Variables, etc.).
Author: Nicolas Robette [aut, cre]
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>
Diff between GDAtools versions 2.3 dated 2025-05-29 and 2.3.1 dated 2026-10-01
DESCRIPTION | 8 ++-- MD5 | 26 ++++++------- NEWS.md | 10 ++++- R/angles.csa.R | 82 +++++++++++++++++++++++++++++++++++-------- R/ggbootvalid_supvars.R | 5 ++ R/ggbootvalid_variables.R | 5 ++ R/ggcloud_indiv.R | 5 ++ R/ggcloud_variables.R | 4 +- README.md | 12 +++--- man/angles.csa.Rd | 15 +++---- man/ggbootvalid_supvars.Rd | 4 +- man/ggbootvalid_variables.Rd | 3 + man/ggcloud_indiv.Rd | 4 +- man/ggcloud_variables.Rd | 3 + 14 files changed, 131 insertions(+), 55 deletions(-)
Title: Projection Pursuit Oblique Decision Trees and Random Forests
Description: Builds decision trees by splitting on linear combinations of
randomly chosen variables. Projection pursuit is used to choose a
projection of the variables that best separates the groups. Using linear
combinations of variables to separate groups takes the correlation between
variables into account, which allows the model to outperform a traditional
decision tree when the separation between groups occurs in combinations of
variables. Single trees can be assembled into random forests for improved
accuracy. Implements projection pursuit classification trees (Lee, Cook,
Park and Lee (2013) <doi:10.1214/13-EJS810>) and projection
pursuit forests (da Silva, Cook and Lee (2021)
<doi:10.1080/10618600.2020.1870480>), following the earlier 'PPforest'
package.
Author: Andres Vidal [aut, cre, cph],
Natalia da Silva [aut]
Maintainer: Andres Vidal <andres@andresvidal.dev>
Diff between ppforest2 versions 0.1.2 dated 2026-07-21 and 0.1.3 dated 2026-10-01
DESCRIPTION | 17 - MD5 | 67 ++-- NEWS.md | 87 +++--- R/plot-design.R | 12 R/plot-structure.R | 14 R/pprf.R | 2 R/pptr.R | 1 R/util.R | 57 +++- README.md | 15 - configure | 21 - configure.win | 13 inst/WORDLIST | 3 inst/doc/introduction.html | 142 ++++------ man/figures |only src/Makevars.in | 2 src/core/src/models/Bagged.hpp | 2 src/core/src/models/ClassificationForest.cpp | 2 src/core/src/models/Evaluation.cpp | 10 src/core/src/models/RegressionForest.cpp | 4 src/core/src/models/TrainingSpec.hpp | 5 src/core/src/models/strategies/cutpoint/MeanOfMeans.cpp | 4 src/core/src/models/strategies/grouping/ByCutpoint.cpp | 2 src/core/src/models/strategies/pp/PDA.cpp | 2 src/core/src/stats/GroupPartition.cpp | 14 src/core/src/stats/GroupPartition.hpp | 7 src/core/src/stats/Stats.hpp | 4 src/main.cpp | 11 tests/testthat/_snaps/plot-structure/pprf-structure.svg | 4 tests/testthat/_snaps/plot-structure/pptr-regression-structure.svg | 10 tests/testthat/_snaps/plot-structure/pptr-structure.svg | 4 tests/testthat/test-parsnip.R | 2 tests/testthat/test-pprf.R | 80 +++++ tests/testthat/test-pptr.R | 55 +++ tests/testthat/test-reproducibility.R | 37 ++ tests/testthat/test-variable-importance.R | 2 35 files changed, 458 insertions(+), 256 deletions(-)
Title: Official 'GenderAPI.io' V2 Client
Description: Official 'GenderAPI.io' V2 client for R. Provides an interface to
the 'GenderAPI.io' V2 web service <https://www.genderapi.io/api-documentation>
that infers gender from personal names, email addresses and usernames, runs
batches of up to 50 items, reads credit usage and validates phone numbers.
Responses are returned as parsed lists with all fields kept, including
unknown results, confidence metadata, billing status and batch summaries;
errors are raised as structured conditions. Requests are never retried and
redirects are never followed. Results are inferences, not verified identity,
and can be unknown.
Author: Onur Ozturk [aut, cre]
Maintainer: Onur Ozturk <onurozturk1980@gmail.com>
Diff between genderapi versions 1.0.3 dated 2025-07-14 and 2.0.0 dated 2026-10-01
genderapi-1.0.3/genderapi/R/genderapi.R |only genderapi-1.0.3/genderapi/README.md |only genderapi-1.0.3/genderapi/man/get_gender_by_email.Rd |only genderapi-1.0.3/genderapi/man/get_gender_by_email_bulk.Rd |only genderapi-1.0.3/genderapi/man/get_gender_by_name.Rd |only genderapi-1.0.3/genderapi/man/get_gender_by_name_bulk.Rd |only genderapi-1.0.3/genderapi/man/get_gender_by_username.Rd |only genderapi-1.0.3/genderapi/man/get_gender_by_username_bulk.Rd |only genderapi-1.0.3/genderapi/tests/testthat/test-get_gender_by_email.R |only genderapi-1.0.3/genderapi/tests/testthat/test-get_gender_by_email_bulk.R |only genderapi-1.0.3/genderapi/tests/testthat/test-get_gender_by_name.R |only genderapi-1.0.3/genderapi/tests/testthat/test-get_gender_by_name_bulk.R |only genderapi-1.0.3/genderapi/tests/testthat/test-get_gender_by_username.R |only genderapi-1.0.3/genderapi/tests/testthat/test-get_gender_by_username_bulk.R |only genderapi-2.0.0/genderapi/DESCRIPTION | 30 +++-- genderapi-2.0.0/genderapi/MD5 | 57 +++++++--- genderapi-2.0.0/genderapi/NAMESPACE | 26 ++++ genderapi-2.0.0/genderapi/R/account.R |only genderapi-2.0.0/genderapi/R/client.R |only genderapi-2.0.0/genderapi/R/defunct.R |only genderapi-2.0.0/genderapi/R/errors.R |only genderapi-2.0.0/genderapi/R/gender.R |only genderapi-2.0.0/genderapi/R/genderapi-package.R |only genderapi-2.0.0/genderapi/R/response.R |only genderapi-2.0.0/genderapi/man/as.data.frame.genderapi.Rd |only genderapi-2.0.0/genderapi/man/genderapi-defunct.Rd |only genderapi-2.0.0/genderapi/man/genderapi-package.Rd |only genderapi-2.0.0/genderapi/man/genderapi_batch.Rd |only genderapi-2.0.0/genderapi/man/genderapi_capabilities.Rd |only genderapi-2.0.0/genderapi/man/genderapi_client.Rd |only genderapi-2.0.0/genderapi/man/genderapi_error.Rd |only genderapi-2.0.0/genderapi/man/genderapi_failed.Rd |only genderapi-2.0.0/genderapi/man/genderapi_gender.Rd |only genderapi-2.0.0/genderapi/man/genderapi_item.Rd |only genderapi-2.0.0/genderapi/man/genderapi_usage.Rd |only genderapi-2.0.0/genderapi/man/genderapi_validate_phone.Rd |only genderapi-2.0.0/genderapi/tests/testthat/fixtures |only genderapi-2.0.0/genderapi/tests/testthat/helper-server.R |only genderapi-2.0.0/genderapi/tests/testthat/test-access-mode.R |only genderapi-2.0.0/genderapi/tests/testthat/test-account.R |only genderapi-2.0.0/genderapi/tests/testthat/test-batch.R |only genderapi-2.0.0/genderapi/tests/testthat/test-client.R |only genderapi-2.0.0/genderapi/tests/testthat/test-defunct.R |only genderapi-2.0.0/genderapi/tests/testthat/test-errors.R |only genderapi-2.0.0/genderapi/tests/testthat/test-gender.R |only genderapi-2.0.0/genderapi/tests/testthat/test-transport.R |only genderapi-2.0.0/genderapi/tests/testthat/test-validation.R |only 47 files changed, 84 insertions(+), 29 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Ian Kopacka [ctb],
Klemens Fuchs [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.98 dated 2026-09-19 and 2.0.99 dated 2026-10-01
DESCRIPTION | 8 +++--- MD5 | 28 ++++++++++++--------- NAMESPACE | 15 ++++++----- NEWS | 7 +++++ R/epi.iref.R |only R/zbrenner.R |only R/zgart_buck.R |only R/zhabibzadeh.R |only R/zstaquet.R |only inst/doc/epiR_descriptive_epi.html | 18 ++++++------- inst/doc/epiR_diagnostic_tests.html | 20 +++++++-------- inst/doc/epiR_measures_of_assoc.html | 12 ++++----- inst/doc/epiR_sample_size.html | 4 +-- inst/doc/epiR_surveillance.html | 14 +++++----- man/epi.2by2.Rd | 46 +++++++++++++++++------------------ man/epi.about.Rd | 2 + man/epi.iref.Rd |only man/epi.tests.Rd | 21 +++++++-------- 18 files changed, 105 insertions(+), 90 deletions(-)
Title: Data Science Infrastructure for Global Health
Description: Supports global health data analysis, including a
publication-ready 'ggplot2' theme, a 'flextable' defaults helper,
a thin pie chart wrapper, built-in regional country-code datasets
with a WHO region lookup helper, a geometric mean function for
indicator aggregation, an average annual rate of reduction function
for indicator progress tracking, direct age standardization against
the bundled WHO World Standard Population, period life-table
construction, a snapshot helper for reproducible data pulls, and
convenience clients for the World Health Organization Global Health
Observatory (GHO) OData API <https://ghoapi.azureedge.net/api/> and
the United Nations Sustainable Development Goals (SDG) API
<https://unstats.un.org/SDGAPI/swagger/>.
Author: Shanlong Ding [aut, cre]
Maintainer: Shanlong Ding <dings@who.int>
Diff between DSIR versions 0.9.0 dated 2026-08-28 and 0.10.0 dated 2026-10-01
DESCRIPTION | 8 MD5 | 51 +++-- NAMESPACE | 13 - NEWS.md | 61 +++++- R/DSIR-package.R | 6 R/bind_indicators.R | 22 +- R/clean_metadata.R |only R/gho.R | 56 ++++- R/sdg.R | 158 +++++++++------ R/sdg_coverage.R | 25 +- R/sdg_dimensions.R |only R/sdg_metadata.R |only R/sdg_pagination.R |only README.md | 129 +++++++++++- inst/CITATION | 2 inst/doc/DSIR.R | 31 +++ inst/doc/DSIR.Rmd | 121 +++++++++++- inst/doc/DSIR.html | 349 ++++++++++++++++++++++++++--------- inst/doc/visualizing-indicators.html | 4 man/DSIR-package.Rd | 6 man/bind_indicators.Rd | 14 + man/gho_clean.Rd | 25 ++ man/sdg_clean.Rd | 39 +++ man/sdg_coverage.Rd | 17 + man/sdg_data.Rd | 31 ++- man/sdg_dimensions.Rd |only tests/testthat/test-clean-metadata.R |only tests/testthat/test-sdg-dimensions.R |only tests/testthat/test-sdg-metadata.R |only tests/testthat/test-sdg-pagination.R |only vignettes/DSIR.Rmd | 121 +++++++++++- 31 files changed, 1019 insertions(+), 270 deletions(-)
Title: Panel Fixed Effects Filtered and Variance Decomposition
Estimation
Description: Implements fixed effects estimators for time-invariant variables
in panel data models. Provides three estimation methods: FEVD (Fixed Effects
Vector Decomposition) from Plumper and Troeger (2007)
<doi:10.1093/pan/mpm002>, and FEF (Fixed Effects Filtered) and FEF-IV
(instrumental variables variant) from Pesaran and Zhou (2018)
<doi:10.1080/07474938.2016.1222225>. All methods use the Pesaran and Zhou
variance estimators, which account for generated regressor uncertainty,
and report the full covariance matrix of the time-varying,
time-invariant and intercept coefficients.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between xtfifevd versions 1.0.2 dated 2026-04-28 and 1.1.0 dated 2026-10-01
DESCRIPTION | 18 MD5 | 37 - NAMESPACE | 57 - NEWS.md | 120 ++- R/diagnostics.R | 301 ++++---- R/estimation.R | 1263 +++++++++++++++++++------------------ R/methods.R | 312 ++++----- R/xtfifevd-package.R | 115 +-- R/xtfifevd.R | 407 +++++++---- README.md | 337 +++++---- build/partial.rdb |binary inst/CITATION | 2 man/bw_ratio.Rd | 145 ++-- man/estimation-internal.Rd | 18 man/xtfifevd-methods.Rd | 18 man/xtfifevd-package.Rd | 141 ++-- man/xtfifevd.Rd | 425 ++++++++---- tests/testthat.R | 12 tests/testthat/test-pesaran-zhou.R |only tests/testthat/test-xtfifevd.R | 470 ++++++------- 20 files changed, 2343 insertions(+), 1855 deletions(-)
Title: Durbin-Hausman Panel Cointegration Tests
Description: Implements the Durbin-Hausman panel cointegration tests of
Westerlund (2008) <doi:10.1002/jae.967>. The tests are robust to
cross-sectional dependence through common factor extraction using
principal components. Provides both group-mean (DHg) and panel (DHp)
test statistics with automatic factor number selection via information
criteria.
Author: Muhammad Alkhalaf [aut, cre, cph] ,
Joakim Westerlund [ctb]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between xtdhcoint versions 1.0.1 dated 2026-03-12 and 1.0.3 dated 2026-10-01
DESCRIPTION | 18 +++++++----------- MD5 | 17 +++++++++-------- NEWS.md | 9 +++++++++ R/xtdhcoint-package.R | 2 +- R/xtdhcoint.R | 2 +- README.md | 2 +- build/partial.rdb |binary inst |only man/xtdhcoint-package.Rd | 5 ++--- man/xtdhcoint.Rd | 2 +- 10 files changed, 31 insertions(+), 26 deletions(-)
Title: Cross-Sectionally Augmented Panel Quantile ARDL
Description: Implements the Cross-Sectionally Augmented Panel Quantile
Autoregressive Distributed Lag (CS-PQARDL) model and the Quantile
Common Correlated Effects Mean Group (QCCEMG) estimator for panel data
with cross-sectional dependence. The package handles unobserved common
factors through cross-sectional averages following Pesaran (2006)
<doi:10.1111/j.1468-0262.2006.00692.x> and Chudik and Pesaran (2015)
<doi:10.1016/j.jeconom.2015.03.007>. Quantile regression for dynamic
panels follows Harding, Lamarche, and Pesaran (2020)
<doi:10.1002/jae.2753>. The ARDL approach to cointegration
testing is based on Pesaran, Shin, and Smith (2001)
<doi:10.1002/jae.616>.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between xtcspqardl versions 1.0.2 dated 2026-03-12 and 1.0.5 dated 2026-10-01
DESCRIPTION | 24 ++++++-------- MD5 | 21 ++++++------- NEWS.md | 17 ++++++++++ R/estimate.R | 74 +++++++++++++++++++++++++++++----------------- R/xtcspqardl-package.R | 6 +-- R/xtcspqardl.R | 4 +- README.md | 4 -- build/partial.rdb |binary inst |only man/estimate_qccemg.Rd | 6 +-- man/xtcspqardl-package.Rd | 10 +----- man/xtcspqardl.Rd | 4 +- 12 files changed, 100 insertions(+), 70 deletions(-)
Title: Bootstrap Slope Heterogeneity Test for Panel Data
Description: Implements the bootstrap slope heterogeneity test for panel data
of Blomquist and Westerlund (2016) <doi:10.1007/s00181-015-0978-z>.
Tests the null hypothesis that slope coefficients are homogeneous across
cross-sectional units using a block bootstrap of the Swamy-type statistic,
with the unit-specific variance estimator of the paper or that of Pesaran
and Yamagata (2008) <doi:10.1016/j.jeconom.2007.05.010>, whose Delta and
adjusted Delta statistics are reported with asymptotic p-values. Supports
partialling out of control variables and cross-sectional averages.
Author: Muhammad Alkhalaf [aut, cre, cph] ,
Tore Bersvendsen [ctb]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between xtbhst versions 1.0.2 dated 2026-04-27 and 1.1.0 dated 2026-10-01
DESCRIPTION | 21 MD5 | 34 - NAMESPACE | 38 - NEWS.md | 96 ++- R/imports.R | 10 R/methods.R | 527 +++++++++-------- R/xtbhst-package.R | 122 ++-- R/xtbhst.R | 1273 ++++++++++++++++++++++++------------------- README.md | 252 ++++---- build/partial.rdb |binary inst/CITATION | 2 man/plot.xtbhst.Rd | 58 + man/print.xtbhst.Rd | 42 - man/summary.xtbhst.Rd | 42 - man/xtbhst-package.Rd | 185 +++--- man/xtbhst.Rd | 349 +++++++---- tests/testthat.R | 24 tests/testthat/test-xtbhst.R | 522 +++++++++++------ 18 files changed, 2055 insertions(+), 1542 deletions(-)
Title: Universal Turning Point and Inflection Point Tests
Description: Performs turning point and inflection point tests for
U-shaped and inverse U-shaped relationships in regression models.
Implements the Sasabuchi (1980) test as extended by Lind and Mehlum (2010)
with support for quadratic, cubic, log-quadratic, and inverse functional
forms. Features include delta-method standard errors, Fieller confidence
intervals, Simonsohn (2018) two-lines test, and parametric bootstrap.
Designed for post-estimation analysis of linear models, panel models,
and quantile regression.
References: Lind and Mehlum (2010) <doi:10.1111/j.1468-0084.2009.00569.x>;
Sasabuchi (1980); Fieller (1954) <doi:10.1111/j.2517-6161.1954.tb00159.x>.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between tptest versions 1.0.3 dated 2026-04-09 and 1.1.0 dated 2026-10-01
DESCRIPTION | 8 MD5 | 32 NAMESPACE | 20 NEWS.md | 168 +++- R/data.R | 84 +- R/tptest-methods.R | 654 +++++++++--------- R/tptest.R | 1812 +++++++++++++++++++++++++++++--------------------- R/zzz.R | 14 README.md | 230 +++--- build/partial.rdb |binary inst |only man/ekc.Rd | 113 +-- man/fieller_ci.Rd | 120 ++- man/tptest-methods.Rd | 127 +-- man/tptest.Rd | 368 ++++++---- man/twolines_test.Rd | 68 - tests |only 17 files changed, 2211 insertions(+), 1607 deletions(-)
Title: Interface to the 'SymEngine' Library
Description: Provides an R interface to 'SymEngine' <https://github.com/symengine/>,
a standalone 'C++' library for fast symbolic manipulation. The package has functionalities
for symbolic computation like calculating exact mathematical expressions, solving
systems of linear equations and code generation.
Author: Jialin Ma [cre, aut],
Isuru Fernando [aut],
Xin Chen [aut]
Maintainer: Jialin Ma <jialin.ma@gmx.com>
Diff between symengine versions 0.2.13 dated 2026-06-11 and 0.2.14 dated 2026-10-01
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- src/upstream.tar |binary 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Transmission Channel Analysis in Structural VAR Models
Description: Implements Transmission Channel Analysis (TCA) for structural
vector autoregressive (SVAR) models following the methodology of
Wegner, Lieb, Smeekes and Wilms (2025) <doi:10.48550/arXiv.2405.18987>.
TCA decomposes impulse response functions (IRFs) into contributions
from distinct transmission channels using a systems form representation
and directed acyclic graph (DAG) path analysis. Supports overlapping channels,
exhaustive 3-way and 4-way decompositions via inclusion-exclusion
principle. This is a parallel R implementation of the
'tca-matlab-toolbox' (<https://github.com/enweg/tca-matlab-toolbox>).
Author: Muhammad Alkhalaf [aut, cre] ,
Enrico Wegner [ctb] ,
Lenard Lieb [ctb] ,
Stephan Smeekes [ctb] ,
Ines Wilms [ctb]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between SVARtca versions 1.0.2 dated 2026-04-08 and 1.0.3 dated 2026-10-01
DESCRIPTION | 34 +- LICENSE | 4 MD5 | 47 +-- NAMESPACE | 52 +-- NEWS.md | 76 ++++- R/plot_tca.R | 252 ++++++++--------- R/systems_form.R | 409 +++++++++++++++------------- R/tca_analyze.R | 584 +++++++++++++++++++++++----------------- R/tca_from_var.R | 178 ++++++------ R/transmission.R | 361 ++++++++++++++----------- build |only inst/CITATION | 27 - inst/doc/tca-introduction.R | 135 +++++++-- inst/doc/tca-introduction.Rmd | 329 +++++++++++----------- inst/doc/tca-introduction.html | 590 ++++++++++++++++++++++++++++++++++++++++- man/SVARtca-package.Rd | 160 +++++------ man/plot_tca.Rd | 84 ++--- man/print.tca_result.Rd | 42 +- man/tca_analyze.Rd | 159 +++++------ man/tca_decompose_binary.Rd | 64 ++-- man/tca_from_var.Rd | 92 +++--- man/tca_systems_form.Rd | 105 ++++--- man/tca_validate_additivity.Rd | 120 ++++++-- tests/testthat.R | 14 tests/testthat/test-tca.R | 520 ++++++++++++++++++++++++------------ 25 files changed, 2797 insertions(+), 1641 deletions(-)
Title: Publication-Ready Tables for Descriptive Statistics and
Regression Models
Description: Provides publication-ready tables for descriptive statistics
and regression models: frequency tables and cross-tabulations with
association measures (Cramer's V, Kendall's Tau-b, and others),
categorical and continuous summary tables, by group or from a complex
survey design, and regression tables for one or more models side by
side, across more than thirty model classes from mixed-effects to
survival and Bayesian, with robust standard errors, average marginal
effects, and univariable screening. Tables follow APA conventions by
default, can switch to named journal styles such as JAMA, NEJM, or
The Lancet, and render identically in the console and in 'gt',
'tinytable', 'flextable', 'Word', 'Excel', or the clipboard. Declared
missing values in labelled data are honored and disclosed throughout
the descriptive tables. Helpers cover codebooks, variable inspection,
and row-wise summaries.
Author: Amal Tawfik [aut, cre, cph]
Maintainer: Amal Tawfik <amal.tawfik@hesav.ch>
Diff between spicy versions 0.12.0 dated 2026-05-19 and 0.13.0 dated 2026-10-01
spicy-0.12.0/spicy/inst/doc/association-measures.R |only spicy-0.12.0/spicy/inst/doc/association-measures.Rmd |only spicy-0.12.0/spicy/inst/doc/association-measures.html |only spicy-0.12.0/spicy/inst/doc/frequency-tables.R |only spicy-0.12.0/spicy/inst/doc/frequency-tables.Rmd |only spicy-0.12.0/spicy/inst/doc/frequency-tables.html |only spicy-0.12.0/spicy/inst/doc/summary-tables-reporting.R |only spicy-0.12.0/spicy/inst/doc/summary-tables-reporting.Rmd |only spicy-0.12.0/spicy/inst/doc/summary-tables-reporting.html |only spicy-0.12.0/spicy/inst/doc/table-categorical.R |only spicy-0.12.0/spicy/inst/doc/table-categorical.Rmd |only spicy-0.12.0/spicy/inst/doc/table-categorical.html |only spicy-0.12.0/spicy/inst/doc/table-continuous-lm.R |only spicy-0.12.0/spicy/inst/doc/table-continuous-lm.Rmd |only spicy-0.12.0/spicy/inst/doc/table-continuous-lm.html |only spicy-0.12.0/spicy/inst/doc/table-continuous.R |only spicy-0.12.0/spicy/inst/doc/table-continuous.Rmd |only spicy-0.12.0/spicy/inst/doc/table-continuous.html |only spicy-0.12.0/spicy/inst/doc/table-regression.R |only spicy-0.12.0/spicy/inst/doc/table-regression.Rmd |only spicy-0.12.0/spicy/inst/doc/table-regression.html |only spicy-0.12.0/spicy/inst/doc/variable-exploration.R |only spicy-0.12.0/spicy/inst/doc/variable-exploration.Rmd |only spicy-0.12.0/spicy/inst/doc/variable-exploration.html |only spicy-0.12.0/spicy/man/figures/animation_varlist.gif |only spicy-0.12.0/spicy/tests/testthat/test-regression_coverage_push.R |only spicy-0.12.0/spicy/tests/testthat/test-regression_titlefooter.R |only spicy-0.12.0/spicy/vignettes/_pkgdown-helpers.R |only spicy-0.12.0/spicy/vignettes/association-measures.Rmd |only spicy-0.12.0/spicy/vignettes/frequency-tables.Rmd |only spicy-0.12.0/spicy/vignettes/summary-tables-reporting.Rmd |only spicy-0.12.0/spicy/vignettes/table-categorical.Rmd |only spicy-0.12.0/spicy/vignettes/table-continuous-lm.Rmd |only spicy-0.12.0/spicy/vignettes/table-continuous.Rmd |only spicy-0.12.0/spicy/vignettes/table-regression.Rmd |only spicy-0.12.0/spicy/vignettes/variable-exploration.Rmd |only spicy-0.13.0/spicy/DESCRIPTION | 64 spicy-0.13.0/spicy/MD5 | 603 - spicy-0.13.0/spicy/NAMESPACE | 77 spicy-0.13.0/spicy/NEWS.md | 1391 +- spicy-0.13.0/spicy/R/abort.R | 398 spicy-0.13.0/spicy/R/assoc.R | 591 - spicy-0.13.0/spicy/R/clipboard_helpers.R |only spicy-0.13.0/spicy/R/code_book-filename.R | 3 spicy-0.13.0/spicy/R/code_book.R | 333 spicy-0.13.0/spicy/R/copy_clipboard.R | 463 spicy-0.13.0/spicy/R/count_n.R | 183 spicy-0.13.0/spicy/R/cross_tab.R | 720 + spicy-0.13.0/spicy/R/data.R | 2 spicy-0.13.0/spicy/R/excel_helpers.R |only spicy-0.13.0/spicy/R/flextable_helpers.R | 317 spicy-0.13.0/spicy/R/freq.R | 356 spicy-0.13.0/spicy/R/freq_print.R | 89 spicy-0.13.0/spicy/R/glm_compute.R | 1144 + spicy-0.13.0/spicy/R/i18n.R |only spicy-0.13.0/spicy/R/i18n_fr.R |only spicy-0.13.0/spicy/R/inline.R |only spicy-0.13.0/spicy/R/label_from_names.R | 377 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spicy-0.13.0/spicy/tests/testthat/test-regression_frame_fixest.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_flexsurv_selection.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_geepack.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_glmmTMB.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_lm.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_merMod.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_mgcv.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_mlogit_betareg.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_multinom.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_nlme.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_nls.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_ordinal.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_pscl.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_quantreg_AER.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_rms.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_stan.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_survival.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_svycoxph.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_svyglm.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_frame_svyolr.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_glm.R | 2047 ++- spicy-0.13.0/spicy/tests/testthat/test-regression_nested.R | 558 spicy-0.13.0/spicy/tests/testthat/test-regression_render.R | 179 spicy-0.13.0/spicy/tests/testthat/test-regression_structured.R | 407 spicy-0.13.0/spicy/tests/testthat/test-regression_transform.R | 334 spicy-0.13.0/spicy/tests/testthat/test-regression_uv.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_uv_coxph.R |only spicy-0.13.0/spicy/tests/testthat/test-regression_validate_branches.R | 613 - spicy-0.13.0/spicy/tests/testthat/test-reserved_residual_group.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-cbind.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-glm-classes.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-mixed.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-multinom.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-phase3-matrix.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-rank-deficient.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-rms.R |only spicy-0.13.0/spicy/tests/testthat/test-robust-vcov-survival.R |only spicy-0.13.0/spicy/tests/testthat/test-rq_vcov_family.R |only spicy-0.13.0/spicy/tests/testthat/test-selection_helpers.R | 124 spicy-0.13.0/spicy/tests/testthat/test-singular_footer_mixed.R |only spicy-0.13.0/spicy/tests/testthat/test-smd-engines.R |only spicy-0.13.0/spicy/tests/testthat/test-smd.R |only spicy-0.13.0/spicy/tests/testthat/test-snapshots.R | 486 spicy-0.13.0/spicy/tests/testthat/test-spicy_style.R |only spicy-0.13.0/spicy/tests/testthat/test-stan_bayes_gates_re.R |only spicy-0.13.0/spicy/tests/testthat/test-stan_fixture_cache.R |only spicy-0.13.0/spicy/tests/testthat/test-standardize_interactions.R |only spicy-0.13.0/spicy/tests/testthat/test-standardized-classes.R |only spicy-0.13.0/spicy/tests/testthat/test-standardized_mixed.R |only spicy-0.13.0/spicy/tests/testthat/test-stat_header_and_guards.R |only spicy-0.13.0/spicy/tests/testthat/test-structured-descriptives.R |only spicy-0.13.0/spicy/tests/testthat/test-structured-parity.R |only spicy-0.13.0/spicy/tests/testthat/test-sum_n.R | 16 spicy-0.13.0/spicy/tests/testthat/test-survey-design-guards.R |only spicy-0.13.0/spicy/tests/testthat/test-survey_ame_reference.R |only spicy-0.13.0/spicy/tests/testthat/test-survey_edges.R |only spicy-0.13.0/spicy/tests/testthat/test-survey_fit_stats_footer.R |only 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spicy-0.13.0/spicy/tests/testthat/test-uv_estimands.R |only spicy-0.13.0/spicy/tests/testthat/test-varlist.R | 1687 +- spicy-0.13.0/spicy/tests/testthat/test-vcov-robust-no-silent-fallback.R |only spicy-0.13.0/spicy/tests/testthat/test-vcov_kind_canon.R |only spicy-0.13.0/spicy/tests/testthat/test-vignette-index.R |only spicy-0.13.0/spicy/tools/ascii_sentinel.R |only spicy-0.13.0/spicy/tools/benchmark_cross_tab.R | 268 spicy-0.13.0/spicy/tools/coverage.R |only spicy-0.13.0/spicy/tools/coverage_table_continuous_lm_probes.R | 16 spicy-0.13.0/spicy/tools/run_suite.R |only spicy-0.13.0/spicy/vignettes/spicy.Rmd | 497 473 files changed, 60430 insertions(+), 24702 deletions(-)
Title: The 'pic' Graphics Language Rendered to SVG, PNG and PDF
Description: Renders diagrams written in the 'pic' picture-drawing language
(Kernighan, 1984) to SVG, PNG and PDF, using 'rpic'
<https://github.com/milkway/rpic-lang>, a reimplementation of 'pic' in
'Rust' with no system dependencies. Includes a native circuit-element
library in the spirit of 'circuit_macros', TeX math labels typeset
natively, structured compile diagnostics, and a 'knitr' language engine
for inline diagrams in 'R Markdown' and 'Quarto' documents.
Author: Andre Leite [aut, cre, cph] ,
The authors of the dependency Rust crates [cph]
Maintainer: Andre Leite <leite@castlab.org>
Diff between rpic versions 0.6.2 dated 2026-07-15 and 0.11.3 dated 2026-10-01
DESCRIPTION | 14 - MD5 | 26 +- NEWS.md | 27 ++ R/rpic.R | 9 inst/AUTHORS | 144 ++++++------ inst/doc/circuits.html | 4 man/rpic-package.Rd | 4 man/rpic_manifest.Rd | 9 src/rust/Cargo.lock | 481 +++++++++++++++++++++++++---------------- src/rust/Cargo.toml | 8 src/rust/vendor.tar.xz |binary vignettes/figures/animate.json | 2 vignettes/figures/elements.svg | 16 - vignettes/figures/npn.svg | 30 +- 14 files changed, 465 insertions(+), 309 deletions(-)
Title: Causal Mediation Analysis Using Weighting Approach
Description: We implement causal mediation analysis using the methods proposed by Hong (2010) and Hong, Deutsch & Hill (2015) <doi:10.3102/1076998615583902>. It allows the estimation and hypothesis testing of causal mediation effects through ratio of mediator probability weights (RMPW). This strategy conveniently relaxes the assumption of no treatment-by-mediator interaction while greatly simplifying the outcome model specification without invoking strong distributional assumptions. We also implement a sensitivity analysis by extending the RMPW method to assess potential bias in the presence of omitted pretreatment or posttreatment covariates. The sensitivity analysis strategy was proposed by Hong, Qin, and Yang (2018) <doi:10.3102/1076998617749561>.
Author: Xu Qin [aut, cre],
Guanglei Hong [aut],
Fan Yang [aut]
Maintainer: Xu Qin <xuqin@uchicago.edu>
Diff between rmpw versions 0.0.6 dated 2025-11-17 and 0.0.7 dated 2026-10-01
DESCRIPTION | 12 - MD5 | 18 - NAMESPACE | 2 R/rmpw.R | 481 ++++++++++++++++++++---------------------------- build/partial.rdb |binary data/Riverside.rda |binary man/Riverside.Rd | 3 man/rmpw.Rd | 49 ++-- man/sensitivity.Rd | 32 ++- man/sensitivity.plot.Rd | 30 ++ 10 files changed, 299 insertions(+), 328 deletions(-)
Title: Quantile Autoregressive Distributed Lag Model
Description: Implements the Quantile Autoregressive Distributed Lag (QARDL)
model of Cho, Kim and Shin (2015) <doi:10.1016/j.jeconom.2015.05.003>.
Estimates quantile-specific long-run (beta), short-run autoregressive (phi),
and impact (gamma) parameters. Features include BIC-based automatic lag
selection, Error Correction Model (ECM) parameterization, Wald tests for
parameter constancy across quantiles, rolling/recursive QARDL estimation,
Monte Carlo simulation, and publication-ready output tables.
Author: Muhammad Alkhalaf [aut, cre, cph] ,
Jin Seo Cho [ctb] ,
Tae-Hwan Kim [ctb] ,
Yongcheol Shin [ctb]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between qardlr versions 1.0.1 dated 2026-03-13 and 1.1.1 dated 2026-10-01
DESCRIPTION | 14 +--- MD5 | 47 +++++++------- NEWS.md |only R/data.R | 2 R/qardl.R | 144 ++++++++++++++++++++------------------------ R/qardl_bic.R | 2 R/qardl_cks.R |only R/qardl_print.R | 6 - R/qardl_rolling.R | 27 ++++---- R/qardl_simulate.R | 21 ++++-- R/qardl_wald.R | 132 ++++++++++++++++------------------------ R/qardlr-package.R | 2 README.md | 25 ++++++- build/partial.rdb |binary inst |only man/cks_blocks.Rd |only man/cks_covariance.Rd |only man/compute_longrun.Rd | 2 man/qardl.Rd | 25 +++++-- man/qardl_bic_select.Rd | 2 man/qardl_rolling.Rd | 4 - man/qardl_sim.Rd | 2 man/qardl_simulate.Rd | 2 man/qardl_wald.Rd | 5 - man/qardlr-package.Rd | 3 man/wald_constancy_test.Rd | 14 ++-- tests/testthat/test-qardl.R | 17 +++++ 27 files changed, 266 insertions(+), 232 deletions(-)
Title: Multivariate ARDL Unit Root Test
Description: Implements the multivariate autoregressive distributed lag (ARDL)
unit root test of Sam, McNown, Goh and Goh (2025)
<doi:10.1080/03796205.2024.2439101>. The test augments the ADF regression
with the lagged level, the current difference and lagged differences of
one or more covariates so that cointegration between the series under
test and the covariates is taken into account. The t statistic on the
lagged level of the series and the joint F statistic on the lagged levels
of the covariates are bootstrapped with the respective null imposed
(residual bootstrap), giving critical values and p-values. Provides
automatic lag selection via AIC or BIC, diagnostic plots, and the
four-case classification of the order of integration of the series.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between mvardlurt versions 1.0.2 dated 2026-03-16 and 1.1.0 dated 2026-10-01
DESCRIPTION | 28 + MD5 | 31 + NAMESPACE | 5 NEWS.md | 81 +++++ R/mvardlurt.R | 384 +++++++++++++----------- R/plot.R | 29 + R/print.R | 193 ++++++------ R/utils.R | 626 +++++++++++++++------------------------- README.md | 152 +++++---- build/partial.rdb |binary inst |only man/autoplot.mvardlurt.Rd | 62 +-- man/mvardlurt-package.Rd | 130 ++++---- man/mvardlurt.Rd | 302 +++++++++++-------- man/plot.mvardlurt.Rd | 100 +++--- man/print.mvardlurt.Rd | 131 ++++---- tests/testthat/test-mvardlurt.R | 480 +++++++++++++++--------------- 17 files changed, 1416 insertions(+), 1318 deletions(-)
Title: Spatial MIDAS Models Using INLA
Description: Provides tools for fitting spatial Mixed-Data Sampling (MIDAS) regression models using Integrated Nested Laplace Approximation (INLA) (Rue et al., 2009) <doi:10.1111/j.1467-9868.2008.00700.x>. The package is designed for settings where responses and explanatory variables are observed at different temporal frequencies and supports both constant and spatially varying regression coefficients.
Author: Stephen Jun Villejo [aut, cre]
Maintainer: Stephen Jun Villejo <s.villejo@imperial.ac.uk>
Diff between midasINLA versions 0.1.0 dated 2026-09-17 and 0.1.1 dated 2026-10-01
DESCRIPTION | 8 MD5 | 25 +-- R/estimation_functions.R | 8 inst/doc/midasINLA.R | 104 ++++++++---- inst/doc/midasINLA.Rmd | 109 +++++++++---- inst/doc/midasINLA.html | 329 ++++++++++++++++++---------------------- inst/extdata |only man/compute_beta_spatial.Rd | 2 man/compute_weights.Rd | 2 man/fit_Minla_spatial.Rd | 2 man/predict_midas.Rd | 2 tests/testthat/fixtures |only tests/testthat/test-functions.R | 148 ++++++----------- vignettes/midasINLA.Rmd | 109 +++++++++---- 14 files changed, 469 insertions(+), 379 deletions(-)
Title: Graphic Styles of Emile Cheysson for 'ggplot2'
Description: Implements for 'ggplot2' the stylistic elements (fonts, hatched patterns, color palettes) used by 'Emile
Cheysson' in the 'Albums de Statistique Graphique', sometimes called the pinnacle of the
Golden Age of Statistical Graphics.
Author: Michael Friendly [aut, cre] ,
RJ Andrews [ctb],
Tom Shanley [ctb],
Kenneth Fields [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between ggCheysson versions 1.0.1 dated 2026-09-26 and 1.1.0 dated 2026-10-01
DESCRIPTION | 8 MD5 | 116 +- NAMESPACE | 4 NEWS.md | 105 ++ R/cheysson_name.R |only R/data.R | 141 ++- R/fonts.R | 447 +++++----- R/globals.R | 2 R/migration.R |only R/palettes.R | 649 +++++++-------- R/patterns.R | 88 -- R/scale_cheysson.R |only R/scale_patterns.R | 392 +++------ R/scales.R | 182 ++-- R/theme.R | 757 +++++++++-------- README.md | 259 ++++-- build/vignette.rds |binary data/cheysson_labels.rda |only data/cheysson_palettes.rda |binary data/cheysson_patterns.rda |binary inst/WORDLIST | 118 +- inst/doc/combining-colors-patterns.R |only inst/doc/combining-colors-patterns.Rmd |only inst/doc/combining-colors-patterns.html |only inst/doc/getting-started.R | 61 - inst/doc/getting-started.Rmd | 69 - inst/doc/getting-started.html | 220 ++--- inst/doc/guerry-maps.R | 123 +- inst/doc/guerry-maps.Rmd | 1181 +++++++++++++--------------- inst/doc/guerry-maps.html | 376 ++++---- man/albumImages.Rd | 127 +-- man/cheysson_font.Rd | 44 - man/cheysson_font_size_adjust.Rd |only man/cheysson_fonts.Rd | 123 +- man/cheysson_fonts_available.Rd | 48 - man/cheysson_labels.Rd |only man/cheysson_name.Rd |only man/cheysson_pal.Rd | 84 + man/cheysson_palettes.Rd | 131 +-- man/cheysson_pattern.Rd | 69 - man/cheysson_pattern_params.Rd | 57 - man/cheysson_patterns.Rd | 110 +- man/figures/README-base-size-14-1.png |only man/figures/README-base-size-16-1.png |only man/figures/README-complete-aesthetic-1.png |binary man/figures/README-pattern-bars-1.png |only man/figures/README-pattern-swatches-1.png |only man/figures/README-show-palette-1.png |binary man/figures/README-show-palette-grid-1.png |binary man/figures/README-show-palette-multi-1.png |binary man/figures/README-with-fonts-1.png |binary man/get_pattern_param.Rd | 44 - man/list_cheysson_pals.Rd | 60 - man/list_cheysson_patterns.Rd | 52 - man/load_cheysson_fonts.Rd | 137 +-- man/scale_cheysson.Rd | 166 ++- man/scale_color_cheysson.Rd |only man/scale_fill_cheysson_pattern.Rd | 90 +- man/scale_pattern_cheysson.Rd | 173 ++-- man/show_palette.Rd | 86 +- man/show_palettes.Rd | 70 - man/theme_cheysson.Rd | 148 +-- man/theme_cheysson_map.Rd | 96 +- man/theme_cheysson_minimal.Rd | 96 +- vignettes/combining-colors-patterns.Rmd |only vignettes/getting-started.Rmd | 69 - vignettes/guerry-maps.Rmd | 1181 +++++++++++++--------------- 67 files changed, 4481 insertions(+), 4078 deletions(-)
Title: Estimation and Visualization of Linear Panel Event Studies
Description: Estimates linear panel event study models. Plots coefficients following the recommendations in Freyaldenhoven et al. (2021) <doi:10.3386/w29170>. Includes sup-t bands, testing for key hypotheses, least wiggly path through the Wald region. Allows instrumental variables estimation following Freyaldenhoven et al. (2019) <doi:10.1257/aer.20180609>.
Author: Simon Freyaldenhoven [aut],
Christian Hansen [aut],
Jorge Perez Perez [aut],
Jesse Shapiro [aut],
Veli Andirin [aut],
Richard Calvo [aut],
Santiago Hermo [aut, cre],
Nathan Schor [aut],
Emily Wang [aut],
JMSLab [cph],
Ryan Kessler [cph]
Maintainer: Santiago Hermo <santiago.hermo@monash.edu>
Diff between eventstudyr versions 1.2.0 dated 2026-04-05 and 1.2.1 dated 2026-10-01
DESCRIPTION | 8 - MD5 | 22 +-- NAMESPACE | 62 ++++---- R/AddSmPath.R | 2 R/AddSuptBand.R | 2 R/EventStudyPlot.R | 2 build/vignette.rds |binary inst/doc/documentation.R | 16 +- inst/doc/documentation.html | 260 ++++++++++++++++++------------------ tests/testthat/test-AddSmPath.R | 18 ++ tests/testthat/test-EventStudyFHS.R | 3 tests/testthat/test-EventStudyOLS.R | 6 12 files changed, 213 insertions(+), 188 deletions(-)
Title: Detecting Extremal Values in a Normal Linear Model
Description: Provides a method to detect values poorly explained by a Gaussian linear model. The procedure is based on the maximum of the absolute value of the studentized residuals, which is a parameter-free statistic. This approach generalizes several procedures used to detect abnormal values during longitudinal monitoring of biological markers. Methodological details are provided in Berthelot G., Saulière G., and Dedecker J. (2025), "DEViaN-LM An R Package for Detecting Abnormal Values in the Gaussian Linear Model", HAL Id: hal-05230549, <https://hal.science/hal-05230549>, and in Berthelot G., Gelein B., Meinadier E., Orhant E., and Dedecker J. (2026), "A guide to z-score-based methods, with illustrations from biological data sets", The Journal of Sport and Exercise Science 10, 54–70, <doi:10.36905/jses.2026.01.06>.
Author: Guillaume Sauliere [aut] ,
Geoffroy Berthelot [aut, cre] ,
Jerome Dedecker [aut]
Maintainer: Geoffroy Berthelot <geoffroy.berthelot@insep.fr>
Diff between devianLM versions 1.1.0 dated 2026-04-30 and 1.1.1 dated 2026-10-01
DESCRIPTION | 12 +- MD5 | 22 ++-- NAMESPACE | 13 +- NEWS.md | 12 ++ R/data.R | 6 - R/devianlm_stats.R | 41 +++++++- build/partial.rdb |binary man/devianLM-package.Rd | 1 man/devianlm_stats.Rd | 1 man/get_devianlm_threshold.Rd | 7 + man/salary.Rd | 6 - src/devianlm_cpp.cpp | 206 ++++++++++++++++++++++-------------------- 12 files changed, 192 insertions(+), 135 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt' (<DOI:10.32614/CRAN.package.mlt>, <DOI:10.32614/CRAN.package.mlt.docreg>).
Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Barbanti and Hothorn, 2022,
<DOI:10.1093/biostatistics/kxac048>) and a tutorial explains applications in survival analysis
(Siegfried et al., 2025, <DOI:10.48550/arXiv.2402.06428>). Multivariate conditional transformation models
(Klein et al, 2022, <DOI:10.1111/sjos.12501>) and shift-scale transformation models (Siegfried et al, 2023,
<DOI:10.108 [...truncated...]
Author: Torsten Hothorn [aut, cre] ,
Luisa Barbanti [ctb] ,
Sandra Siegfried [aut] ,
Lucas Kook [aut] ,
Susanne Dandl [ctb] ,
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 1.4-5 dated 2026-08-23 and 1.4-6 dated 2026-10-01
tram-1.4-5/tram/tests/Polr-Ex.Rout.save |only tram-1.4-6/tram/DESCRIPTION | 6 +-- tram-1.4-6/tram/MD5 | 43 ++++++++++++-------------- tram-1.4-6/tram/build/partial.rdb |binary tram-1.4-6/tram/inst/CITATION | 3 + tram-1.4-6/tram/inst/NEWS.Rd | 6 +++ tram-1.4-6/tram/inst/doc/NAMI.pdf |binary tram-1.4-6/tram/inst/doc/mtram.R | 2 - tram-1.4-6/tram/inst/doc/mtram.Rnw | 6 ++- tram-1.4-6/tram/inst/doc/mtram.pdf |binary tram-1.4-6/tram/inst/doc/survtram.pdf |binary tram-1.4-6/tram/inst/doc/tram.pdf |binary tram-1.4-6/tram/tests/Coxph-Ex.Rout.save | 6 +-- tram-1.4-6/tram/tests/Polr-Ex.R | 17 ++++------ tram-1.4-6/tram/tests/Survreg-Ex.Rout.save | 6 +-- tram-1.4-6/tram/tests/bugfixes.R | 19 ++++++----- tram-1.4-6/tram/tests/intercepts-Ex.R | 2 - tram-1.4-6/tram/tests/intercepts-Ex.Rout.save | 10 +++--- tram-1.4-6/tram/tests/mmlt-Ex.Rout.save | 6 +-- tram-1.4-6/tram/tests/mtram-Ex.R | 4 +- tram-1.4-6/tram/tests/mtram-Ex.Rout.save | 10 +++--- tram-1.4-6/tram/tests/stram-Ex.Rout.save | 4 +- tram-1.4-6/tram/vignettes/mtram.Rnw | 6 ++- 23 files changed, 85 insertions(+), 71 deletions(-)
Title: Reporting Tables
Description: Reporting tables often have structure that goes beyond simple
rectangular data. The 'rtables' package provides a framework for
declaring complex multi-level tabulations and then applying them to
data. This framework models both tabulation and the resulting tables
as hierarchical, tree-like objects which support sibling sub-tables,
arbitrary splitting or grouping of data in row and column dimensions,
cells containing multiple values, and the concept of contextual
summary computations. A convenient pipe-able interface is provided for
declaring table layouts and the corresponding computations, and then
applying them to data.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Daniel Sabanes Bove [ctb],
Maximilian Mordig [ctb],
Davide Garolini [aut] ,
Emily de la Rua [aut] ,
Abinaya Yogasekaram [ctb] ,
Joe Zhu [aut, cre] ,
David Munoz Tord [ctb],
F. Hoffmann-La Roche AG [cph, fn [...truncated...]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between rtables versions 0.6.16 dated 2026-04-22 and 0.6.17 dated 2026-10-01
DESCRIPTION | 36 MD5 | 502 - NAMESPACE | 23 NEWS.md | 72 R/00tabletrees.R | 157 R/Viewer.R | 240 R/argument_conventions.R | 7 R/colby_constructors.R | 682 -- R/custom_split_funs.R | 14 R/default_split_funs.R | 70 R/indent.R | 176 R/make_split_fun.R | 24 R/nesting_impl.R |only R/package.R | 15 R/summary.R | 880 +- R/tree_accessors.R | 259 R/tt_afun_utils.R | 1282 +-- R/tt_as_df.R | 1424 ++-- R/tt_compare_tables.R | 560 - R/tt_compatibility.R | 2472 +++---- R/tt_dotabulation.R | 169 R/tt_export.R | 182 R/tt_paginate.R | 4 R/tt_pos_and_access.R | 3604 +++++------ R/tt_showmethods.R | 856 +- R/tt_sort.R | 614 - R/tt_toString.R | 1942 ++--- R/utils.R | 354 - R/validate_table_struct.R | 420 - README.md | 466 - build/vignette.rds |binary inst/WORDLIST | 92 inst/doc/advanced_usage.R | 342 - inst/doc/advanced_usage.Rmd | 508 - inst/doc/advanced_usage.html | 1272 +-- inst/doc/ard_how_to.R | 230 inst/doc/ard_how_to.Rmd | 334 - inst/doc/ard_how_to.html | 1791 ++--- inst/doc/baseline.R | 140 inst/doc/baseline.Rmd | 266 inst/doc/baseline.html | 967 +- inst/doc/clinical_trials.R | 1425 ++-- inst/doc/clinical_trials.Rmd | 2259 +++--- inst/doc/clinical_trials.html | 4579 ++++++-------- inst/doc/col_counts.R | 180 inst/doc/col_counts.Rmd | 466 - inst/doc/col_counts.html | 1125 +-- inst/doc/custom_appearance.R | 626 - inst/doc/custom_appearance.Rmd | 1132 +-- inst/doc/custom_appearance.html | 2620 +++----- inst/doc/example_analysis_coxreg.R | 604 - inst/doc/example_analysis_coxreg.Rmd | 784 +- inst/doc/example_analysis_coxreg.html | 1588 ++-- inst/doc/exploratory_analysis.R | 240 inst/doc/exploratory_analysis.Rmd | 576 - inst/doc/exploratory_analysis.html | 1528 ++-- inst/doc/format_precedence.R | 406 - inst/doc/format_precedence.Rmd | 782 +- inst/doc/format_precedence.html | 1550 ++-- inst/doc/guided_advanced.R |only inst/doc/guided_advanced.Rmd |only inst/doc/guided_advanced.html |only inst/doc/guided_advanced_afuns.R |only inst/doc/guided_advanced_afuns.Rmd |only inst/doc/guided_advanced_afuns.html |only inst/doc/guided_advanced_afuns_building_blocks.R |only inst/doc/guided_advanced_afuns_building_blocks.Rmd |only inst/doc/guided_advanced_afuns_building_blocks.html |only inst/doc/guided_advanced_afuns_rowsverticalsection.R |only inst/doc/guided_advanced_afuns_rowsverticalsection.Rmd |only inst/doc/guided_advanced_afuns_rowsverticalsection.html |only inst/doc/guided_advanced_afuns_spl_context.R |only inst/doc/guided_advanced_afuns_spl_context.Rmd |only inst/doc/guided_advanced_afuns_spl_context.html |only inst/doc/guided_advanced_split_funs.R |only inst/doc/guided_advanced_split_funs.Rmd |only inst/doc/guided_advanced_split_funs.html |only inst/doc/guided_advanced_split_funs_make_split_fun.R |only inst/doc/guided_advanced_split_funs_make_split_fun.Rmd |only inst/doc/guided_advanced_split_funs_make_split_fun.html |only inst/doc/guided_advanced_split_funs_new_bbbs.R |only inst/doc/guided_advanced_split_funs_new_bbbs.Rmd |only inst/doc/guided_advanced_split_funs_new_bbbs.html |only inst/doc/guided_advanced_split_funs_worked_ex.R |only inst/doc/guided_advanced_split_funs_worked_ex.Rmd |only inst/doc/guided_advanced_split_funs_worked_ex.html |only inst/doc/guided_advanced_tt.R |only inst/doc/guided_advanced_tt.Rmd |only inst/doc/guided_advanced_tt.html |only inst/doc/guided_advanced_tt_access.R |only inst/doc/guided_advanced_tt_access.Rmd |only inst/doc/guided_advanced_tt_access.html |only inst/doc/guided_advanced_tt_prune_funs.R |only inst/doc/guided_advanced_tt_prune_funs.Rmd |only inst/doc/guided_advanced_tt_prune_funs.html |only inst/doc/guided_advanced_tt_score_funs.R |only inst/doc/guided_advanced_tt_score_funs.Rmd |only inst/doc/guided_advanced_tt_score_funs.html |only inst/doc/guided_intermediate.R | 32 inst/doc/guided_intermediate.html | 3215 ++++----- inst/doc/guided_intermediate_afun_reqs.R | 408 - inst/doc/guided_intermediate_afun_reqs.html | 4417 ++++++------- inst/doc/guided_intermediate_split_reqs.R | 371 - inst/doc/guided_intermediate_split_reqs.Rmd | 1051 +-- inst/doc/guided_intermediate_split_reqs.html | 4485 ++++++------- inst/doc/guided_intermediate_translating_shells.R | 976 +- inst/doc/guided_intermediate_translating_shells.Rmd | 1980 +++--- inst/doc/guided_intermediate_translating_shells.html | 5228 +++++++--------- inst/doc/guided_intro_basics.R |only inst/doc/guided_intro_basics.Rmd |only inst/doc/guided_intro_basics.html |only inst/doc/guided_intro_nesting.R |only inst/doc/guided_intro_nesting.Rmd |only inst/doc/guided_intro_nesting.html |only inst/doc/introspecting_tables.R | 152 inst/doc/introspecting_tables.Rmd | 346 - inst/doc/introspecting_tables.html | 1316 +--- inst/doc/manual_table_construction.R | 48 inst/doc/manual_table_construction.html | 935 +- inst/doc/pathing.R | 376 - inst/doc/pathing.html | 2569 +++---- inst/doc/rtables.R | 312 inst/doc/rtables.Rmd | 808 +- inst/doc/rtables.html | 1521 ++-- inst/doc/sorting_pruning.R | 364 - inst/doc/sorting_pruning.Rmd | 1078 +-- inst/doc/sorting_pruning.html | 2509 +++---- inst/doc/split_functions.R | 386 - inst/doc/split_functions.Rmd | 958 +- inst/doc/split_functions.html | 1733 ++--- inst/doc/subsetting_tables.R | 226 inst/doc/subsetting_tables.Rmd | 548 - inst/doc/subsetting_tables.html | 1561 ++-- inst/doc/tabulation_concepts.R | 564 - inst/doc/tabulation_concepts.Rmd | 1224 +-- inst/doc/tabulation_concepts.html | 2309 +++---- inst/doc/tabulation_dplyr.R | 292 inst/doc/tabulation_dplyr.Rmd | 494 - inst/doc/tabulation_dplyr.html | 1376 ++-- inst/doc/title_footer.R | 282 inst/doc/title_footer.Rmd | 516 - inst/doc/title_footer.html | 1807 ++--- man/CellValue.Rd | 110 man/RefFootnote.Rd |only man/SplitValue.Rd |only man/Viewer.Rd | 96 man/add_colcounts.Rd | 84 man/add_combo_facet.Rd | 16 man/add_existing_table.Rd | 92 man/add_overall_col.Rd | 68 man/add_overall_level.Rd | 39 man/additional_fun_params.Rd | 101 man/analyze.Rd | 57 man/analyze_colvars.Rd | 259 man/append_topleft.Rd | 106 man/as_html.Rd | 152 man/basic_table.Rd | 218 man/brackets.Rd | 260 man/build_table.Rd | 246 man/c.RowsVerticalSection.Rd |only man/cell_values.Rd | 198 man/clear_imods.Rd | 70 man/coltree_structure.Rd | 58 man/compat_args.Rd | 78 man/constr_args.Rd | 258 man/custom_split_funs.Rd | 174 man/data.frame_export.Rd | 226 man/dimensions.Rd | 76 man/do_base_split.Rd | 106 man/drop_facet_levels.Rd | 12 man/facet_colcount.Rd | 184 man/find_degen_struct.Rd | 60 man/formatters_methods.Rd | 582 - man/gen_args.Rd | 252 man/get_anchor_df.Rd |only man/gfc.Rd | 136 man/in_rows.Rd | 174 man/insert_row_at_path.Rd | 104 man/insert_rrow.Rd | 120 man/int_methods.Rd | 247 man/label_at_path.Rd | 94 man/lyt_args.Rd | 22 man/make_col_row_df.Rd | 74 man/make_split_fun.Rd | 30 man/make_split_result.Rd | 19 man/matrix_form-VTableTree-method.Rd | 166 man/paginate.Rd | 472 - man/prune_table.Rd | 108 man/qtable_layout.Rd | 262 man/rbind.Rd | 152 man/rcell.Rd | 170 man/reexports.Rd | 92 man/ref_fnotes.Rd | 180 man/restrict_facets.Rd | 12 man/rheader.Rd | 84 man/rm_all_colcounts.Rd | 82 man/row_accessors.Rd | 107 man/row_paths_summary.Rd | 102 man/rowclasses.Rd | 208 man/rrow.Rd | 100 man/rrowl.Rd | 124 man/rtable.Rd | 268 man/rtables-package.Rd | 10 man/sanitize_table_struct.Rd | 92 man/score_funs.Rd | 54 man/section_div.Rd | 502 - man/sf_args.Rd | 60 man/sort_at_path.Rd | 322 man/split_cols_by.Rd | 336 - man/split_cols_by_multivar.Rd | 176 man/split_funcs.Rd | 370 - man/split_rows_by.Rd | 403 - man/split_rows_by_multivar.Rd | 217 man/splv_extra.Rd |only man/subset_cols.Rd | 266 man/summarize_row_groups.Rd | 218 man/tabclasses.Rd | 280 man/table_shell.Rd | 152 man/table_structure.Rd | 92 man/tostring.Rd | 184 man/trim_levels_in_facets.Rd | 14 man/trim_levels_to_map.Rd | 102 man/trim_prune_funs.Rd | 200 man/trim_rows.Rd | 104 man/ttap.Rd | 110 man/validate_table_struct.Rd | 106 man/value_expr.Rd |only man/value_formats.Rd | 88 man/varcuts.Rd | 557 - man/vil.Rd | 137 tests/testthat/test-accessors.R | 108 tests/testthat/test-as_html.R | 292 tests/testthat/test-binding.R | 604 - tests/testthat/test-colby_constructors.R | 14 tests/testthat/test-default_split_funs.R | 838 +- tests/testthat/test-deprecated.R | 184 tests/testthat/test-exporters.R | 14 tests/testthat/test-formatting.R | 36 tests/testthat/test-header-footer.R | 22 tests/testthat/test-indent-mod.R | 82 tests/testthat/test-lyt-tabulation.R | 52 tests/testthat/test-make-afun.R | 36 tests/testthat/test-matrix_form.R | 26 tests/testthat/test-nesting.R |only tests/testthat/test-pagination.R | 78 tests/testthat/test-printing.R | 1973 +++--- tests/testthat/test-regressions.R | 196 tests/testthat/test-result_data_frame.R | 1196 +-- tests/testthat/test-rowsverticalsection.R |only tests/testthat/test-sanitize-struct.R | 108 tests/testthat/test-sort-prune.R | 100 tests/testthat/test-tab_afun_cfun.R | 790 +- vignettes/advanced_usage.Rmd | 508 - vignettes/analysis_basics_a.png |only vignettes/ard_how_to.Rmd | 334 - vignettes/baseline.Rmd | 266 vignettes/clinical_trials.Rmd | 2259 +++--- vignettes/col_counts.Rmd | 466 - vignettes/custom_appearance.Rmd | 1132 +-- vignettes/example_analysis_coxreg.Rmd | 784 +- vignettes/exploratory_analysis.Rmd | 576 - vignettes/format_precedence.Rmd | 782 +- vignettes/guided_advanced.Rmd |only vignettes/guided_advanced_afuns.Rmd |only vignettes/guided_advanced_afuns_building_blocks.Rmd |only vignettes/guided_advanced_afuns_rowsverticalsection.Rmd |only vignettes/guided_advanced_afuns_spl_context.Rmd |only vignettes/guided_advanced_split_funs.Rmd |only vignettes/guided_advanced_split_funs_make_split_fun.Rmd |only vignettes/guided_advanced_split_funs_new_bbbs.Rmd |only vignettes/guided_advanced_split_funs_worked_ex.Rmd |only vignettes/guided_advanced_tt.Rmd |only vignettes/guided_advanced_tt_access.Rmd |only vignettes/guided_advanced_tt_prune_funs.Rmd |only vignettes/guided_advanced_tt_score_funs.Rmd |only vignettes/guided_intermediate_split_reqs.Rmd | 1051 +-- vignettes/guided_intermediate_translating_shells.Rmd | 1980 +++--- vignettes/guided_intro_basics.Rmd |only vignettes/guided_intro_nesting.Rmd |only vignettes/introspecting_tables.Rmd | 346 - vignettes/rtables.Rmd | 808 +- vignettes/sorting_pruning.Rmd | 1078 +-- vignettes/split_functions.Rmd | 958 +- vignettes/subsetting_tables.Rmd | 548 - vignettes/tabulation_concepts.Rmd | 1224 +-- vignettes/tabulation_dplyr.Rmd | 494 - vignettes/title_footer.Rmd | 516 - 287 files changed, 64817 insertions(+), 65832 deletions(-)
Title: External Control Borrowing for Rare Disease Trials
Description: Implements causal inference methods for incorporating external
control data into randomized controlled trials (RCTs) with longitudinal
outcomes. Provides an analysis module supporting weighting-based methods
such as inverse probability weighting (IPW) and augmented inverse
probability weighting (AIPW), difference-in-differences (DID), and
synthetic control approaches for borrowing external control information,
as well as a simulation module for generating trial and external control
data, evaluating estimator performance via Monte Carlo studies, and
conducting power analyses for sample size determination. Methods are
based on Zhou et al. (2024) <doi:10.1093/jrsssa/qnae075> and
Zhou et al. (2024) <doi:10.1080/10543406.2024.2330209>.
Author: Lei Shi [aut],
Matt Secrest [cre, aut] ,
Herbert Pang [aut],
Chen Chen [aut],
Jiawen Zhu [aut],
Genentech, Inc. [cph]
Maintainer: Matt Secrest <secrmatt@gmail.com>
Diff between rdborrow versions 0.0.4.1 dated 2026-09-24 and 0.0.4.2 dated 2026-10-01
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 5 +++++ inst/WORDLIST | 2 ++ inst/doc/OLE_analysis_workflow.html | 20 ++++++++++---------- inst/doc/OLE_simulation_workflow.html | 4 ++-- inst/doc/introduction.html | 4 ++-- inst/doc/primary_analysis_workflow.html | 4 ++-- inst/doc/primary_simulation_workflow.html | 4 ++-- tests/testthat/test-full_pipeline_did_ec_aipw.R | 2 +- tests/testthat/test-full_pipeline_did_ec_ipw.R | 2 +- tests/testthat/test-full_pipeline_ec_ipw.R | 5 ++++- 12 files changed, 45 insertions(+), 35 deletions(-)
Title: Maximum Likelihood Estimation and Related Tools
Description: Functions for Maximum Likelihood (ML) estimation, non-linear
optimization, and related tools. It includes a unified way to call
different optimizers, and classes and methods to handle the results from
the Maximum Likelihood viewpoint. It also includes a number of convenience
tools for testing and developing your own models.
Author: Ott Toomet [aut, cre],
Arne Henningsen [aut],
Spencer Graves [ctb],
Yves Croissant [ctb],
David Hugh-Jones [ctb],
Luca Scrucca [ctb]
Maintainer: Ott Toomet <otoomet@gmail.com>
Diff between maxLik versions 1.5-2.2 dated 2025-12-29 and 1.6-10 dated 2026-10-01
maxLik-1.5-2.2/maxLik/R/nObs.R |only maxLik-1.5-2.2/maxLik/R/tidyMethods.R |only maxLik-1.5-2.2/maxLik/man/nObs.Rd |only maxLik-1.5-2.2/maxLik/tests/finalHessian.R |only maxLik-1.5-2.2/maxLik/tests/finalHessian.Rout.save |only maxLik-1.5-2.2/maxLik/vignettes/probability-density.asy |only maxLik-1.6-10/maxLik/DESCRIPTION | 12 maxLik-1.6-10/maxLik/MD5 | 115 +++---- maxLik-1.6-10/maxLik/NAMESPACE | 11 maxLik-1.6-10/maxLik/NEWS | 33 ++ maxLik-1.6-10/maxLik/R/10-MaxControl_class.R | 8 maxLik-1.6-10/maxLik/R/25-addControlList.R | 23 + maxLik-1.6-10/maxLik/R/confint.maxLik.R | 4 maxLik-1.6-10/maxLik/R/glance.R |only maxLik-1.6-10/maxLik/R/maxBFGSR.R | 33 -- maxLik-1.6-10/maxLik/R/maxBFGSRCompute.R | 133 ++++----- maxLik-1.6-10/maxLik/R/maxNR.R | 3 maxLik-1.6-10/maxLik/R/maxNRCompute.R | 8 maxLik-1.6-10/maxLik/R/maxOptim.R | 8 maxLik-1.6-10/maxLik/R/maxSGA.R | 1 maxLik-1.6-10/maxLik/R/nobs.R |only maxLik-1.6-10/maxLik/R/print.maxLik.R | 9 maxLik-1.6-10/maxLik/R/print.maxim.R |only maxLik-1.6-10/maxLik/R/returnCode.R | 4 maxLik-1.6-10/maxLik/R/sumt.R | 29 + maxLik-1.6-10/maxLik/R/tidy.R |only maxLik-1.6-10/maxLik/R/vcov.maxLik.R | 10 maxLik-1.6-10/maxLik/R/zzz.R | 4 maxLik-1.6-10/maxLik/build/partial.rdb |binary maxLik-1.6-10/maxLik/build/vignette.rds |binary maxLik-1.6-10/maxLik/inst/CITATION | 29 + maxLik-1.6-10/maxLik/inst/doc/intro-to-maximum-likelihood.R | 72 ---- maxLik-1.6-10/maxLik/inst/doc/intro-to-maximum-likelihood.Rnw | 105 ++++--- maxLik-1.6-10/maxLik/inst/doc/intro-to-maximum-likelihood.pdf |binary maxLik-1.6-10/maxLik/inst/doc/stochastic-gradient-maxLik.R | 2 maxLik-1.6-10/maxLik/inst/doc/stochastic-gradient-maxLik.pdf |binary maxLik-1.6-10/maxLik/inst/doc/using-maxlik.R | 147 +--------- maxLik-1.6-10/maxLik/inst/doc/using-maxlik.Rnw | 40 +- maxLik-1.6-10/maxLik/inst/doc/using-maxlik.pdf |binary maxLik-1.6-10/maxLik/inst/tinytest/test-finalHessian.R |only maxLik-1.6-10/maxLik/inst/tinytest/test-maxControl.R | 7 maxLik-1.6-10/maxLik/inst/tinytest/test-methods.R | 45 ++- maxLik-1.6-10/maxLik/inst/tinytest/test-optimizers.R | 21 - maxLik-1.6-10/maxLik/inst/tinytest/test-parameters.R | 18 - maxLik-1.6-10/maxLik/man/hessian.Rd | 2 maxLik-1.6-10/maxLik/man/maxBFGS.Rd | 50 ++- maxLik-1.6-10/maxLik/man/maxLik-methods.Rd | 11 maxLik-1.6-10/maxLik/man/maxLik.Rd | 9 maxLik-1.6-10/maxLik/man/maxNR.Rd | 102 +++--- maxLik-1.6-10/maxLik/man/nobs.Rd |only maxLik-1.6-10/maxLik/man/returnCode.Rd | 24 + maxLik-1.6-10/maxLik/man/summary.maxim.Rd | 3 maxLik-1.6-10/maxLik/man/sumt.Rd | 19 - maxLik-1.6-10/maxLik/man/tidy.maxLik.Rd | 39 ++ maxLik-1.6-10/maxLik/man/vcov.maxLik.Rd | 4 maxLik-1.6-10/maxLik/tests/BFGSR.R | 23 - maxLik-1.6-10/maxLik/tests/BFGSR.Rout.save | 34 +- maxLik-1.6-10/maxLik/tests/constraints.R | 47 +-- maxLik-1.6-10/maxLik/tests/constraints.Rout.save | 90 +++--- maxLik-1.6-10/maxLik/tests/libs.R |only maxLik-1.6-10/maxLik/tests/numericGradient.R | 2 maxLik-1.6-10/maxLik/tests/numericGradient.Rout.save | 14 maxLik-1.6-10/maxLik/vignettes/intro-to-maximum-likelihood.Rnw | 105 ++++--- maxLik-1.6-10/maxLik/vignettes/probability-density.pdf |binary maxLik-1.6-10/maxLik/vignettes/using-maxlik.Rnw | 40 +- 65 files changed, 833 insertions(+), 719 deletions(-)
Title: Dendrochronology Program Library in R
Description: Perform tree-ring analyses such as detrending, chronology
building, and cross dating. Read and write standard file formats
used in dendrochronology.
Author: Andy Bunn [aut, cph, cre, trl],
Mikko Korpela [aut, cph, trl],
Franco Biondi [aut, cph],
Filipe Campelo [aut, cph],
Stefan Klesse [aut, cph],
Pierre Merian [aut, cph],
Fares Qeadan [aut, cph],
Christian Zang [aut, cph],
Allan Buras [ctb],
Alice Cecil [...truncated...]
Maintainer: Andy Bunn <bunna@wwu.edu>
Diff between dplR versions 1.7.9 dated 2026-05-21 and 1.8.0 dated 2026-10-01
dplR-1.7.9/dplR/man/csv2rwl.Rd |only dplR-1.8.0/dplR/ChangeLog | 1658 ++++++++++++++ dplR-1.8.0/dplR/DESCRIPTION | 15 dplR-1.8.0/dplR/MD5 | 239 +- dplR-1.8.0/dplR/NAMESPACE | 49 dplR-1.8.0/dplR/NEWS.md |only dplR-1.8.0/dplR/R/Extract.rwl.R |only dplR-1.8.0/dplR/R/as.bai.R |only dplR-1.8.0/dplR/R/as.rwi.R |only dplR-1.8.0/dplR/R/as.rwl.R | 9 dplR-1.8.0/dplR/R/bai.in.R | 13 dplR-1.8.0/dplR/R/bai.out.R | 12 dplR-1.8.0/dplR/R/caps.R | 10 dplR-1.8.0/dplR/R/ccf.series.rwl.R | 7 dplR-1.8.0/dplR/R/chron.R | 19 dplR-1.8.0/dplR/R/chron.ars.R | 25 dplR-1.8.0/dplR/R/chron.stabilized.R | 3 dplR-1.8.0/dplR/R/cms.R | 20 dplR-1.8.0/dplR/R/common.interval.R | 55 dplR-1.8.0/dplR/R/corr.rwl.seg.R | 75 dplR-1.8.0/dplR/R/corr.series.seg.R | 15 dplR-1.8.0/dplR/R/csv2rwl.R | 60 dplR-1.8.0/dplR/R/detrend.R | 34 dplR-1.8.0/dplR/R/detrend.series.R | 39 dplR-1.8.0/dplR/R/encoding.R |only dplR-1.8.0/dplR/R/helpers.R | 372 +++ dplR-1.8.0/dplR/R/i.detrend.R | 26 dplR-1.8.0/dplR/R/i.detrend.series.R | 13 dplR-1.8.0/dplR/R/insert.ring.R | 10 dplR-1.8.0/dplR/R/interseries.cor.R | 17 dplR-1.8.0/dplR/R/normalize.xdate.R | 36 dplR-1.8.0/dplR/R/normalize1.R | 29 dplR-1.8.0/dplR/R/plot.crs.R | 26 dplR-1.8.0/dplR/R/pointer.R | 4 dplR-1.8.0/dplR/R/rcs.R | 21 dplR-1.8.0/dplR/R/read.fh.R | 23 dplR-1.8.0/dplR/R/read.rwl.R | 196 + dplR-1.8.0/dplR/R/read.sheet.R |only dplR-1.8.0/dplR/R/read.tucson.R | 2033 +++++++++++++----- dplR-1.8.0/dplR/R/read.tucson.legacy.R |only dplR-1.8.0/dplR/R/rwi.image.R |only dplR-1.8.0/dplR/R/rwi.stats.running.R | 21 dplR-1.8.0/dplR/R/rwl.check.R |only dplR-1.8.0/dplR/R/rwl.report.R | 143 + dplR-1.8.0/dplR/R/rwl.stats.R | 1 dplR-1.8.0/dplR/R/seg.plot.R | 4 dplR-1.8.0/dplR/R/series.rwl.plot.R | 17 dplR-1.8.0/dplR/R/sgc.R | 20 dplR-1.8.0/dplR/R/spag.plot.R | 13 dplR-1.8.0/dplR/R/ssf.R | 10 dplR-1.8.0/dplR/R/sss.R | 2 dplR-1.8.0/dplR/R/strip.rwl.R | 8 dplR-1.8.0/dplR/R/summary.rwi.R |only dplR-1.8.0/dplR/R/window.rwl.R |only dplR-1.8.0/dplR/R/write.rwl.R | 8 dplR-1.8.0/dplR/R/write.sheet.R |only dplR-1.8.0/dplR/R/write.tucson.R | 145 + dplR-1.8.0/dplR/R/xdate.floater.R | 7 dplR-1.8.0/dplR/R/xdate.report.R |only dplR-1.8.0/dplR/R/xskel.ccf.plot.R | 6 dplR-1.8.0/dplR/R/xskel.plot.R | 10 dplR-1.8.0/dplR/R/zzz.R | 3 dplR-1.8.0/dplR/TODO | 18 dplR-1.8.0/dplR/build |only dplR-1.8.0/dplR/data/ca533.rda |binary dplR-1.8.0/dplR/data/co021.rda |binary dplR-1.8.0/dplR/data/nm046.rda |binary dplR-1.8.0/dplR/data/wa082.rda |binary dplR-1.8.0/dplR/inst/doc |only dplR-1.8.0/dplR/man/Extract.rwl.Rd |only dplR-1.8.0/dplR/man/as.bai.Rd |only dplR-1.8.0/dplR/man/as.rwi.Rd |only dplR-1.8.0/dplR/man/bai.in.Rd | 11 dplR-1.8.0/dplR/man/bai.out.Rd | 11 dplR-1.8.0/dplR/man/ca533.Rd | 15 dplR-1.8.0/dplR/man/caps.Rd | 36 dplR-1.8.0/dplR/man/ccf.series.rwl.Rd | 22 dplR-1.8.0/dplR/man/check.rwl.Rd |only dplR-1.8.0/dplR/man/chron.Rd | 8 dplR-1.8.0/dplR/man/chron.ars.Rd | 10 dplR-1.8.0/dplR/man/cms.Rd | 8 dplR-1.8.0/dplR/man/co021.Rd | 15 dplR-1.8.0/dplR/man/common.interval.Rd | 13 dplR-1.8.0/dplR/man/corr.rwl.seg.Rd | 153 + dplR-1.8.0/dplR/man/corr.series.seg.Rd | 22 dplR-1.8.0/dplR/man/detrend.Rd | 34 dplR-1.8.0/dplR/man/detrend.series.Rd | 17 dplR-1.8.0/dplR/man/gini.coef.Rd | 7 dplR-1.8.0/dplR/man/glk.Rd | 2 dplR-1.8.0/dplR/man/i.detrend.Rd | 13 dplR-1.8.0/dplR/man/i.detrend.series.Rd | 5 dplR-1.8.0/dplR/man/interseries.cor.Rd | 16 dplR-1.8.0/dplR/man/latexify.Rd | 2 dplR-1.8.0/dplR/man/nm046.Rd | 15 dplR-1.8.0/dplR/man/plot.crs.Rd | 8 dplR-1.8.0/dplR/man/rcs.Rd | 6 dplR-1.8.0/dplR/man/read.fh.Rd | 14 dplR-1.8.0/dplR/man/read.rwl.Rd | 36 dplR-1.8.0/dplR/man/read.sheet.Rd |only dplR-1.8.0/dplR/man/read.tucson.Rd | 200 + dplR-1.8.0/dplR/man/read.tucson.legacy.Rd |only dplR-1.8.0/dplR/man/rwi.stats.running.Rd | 23 dplR-1.8.0/dplR/man/rwl.check.Rd |only dplR-1.8.0/dplR/man/rwl.report.Rd | 22 dplR-1.8.0/dplR/man/series.rwl.plot.Rd | 16 dplR-1.8.0/dplR/man/sgc.Rd | 6 dplR-1.8.0/dplR/man/skel.plot.Rd | 2 dplR-1.8.0/dplR/man/spag.plot.Rd | 5 dplR-1.8.0/dplR/man/ssf.Rd | 2 dplR-1.8.0/dplR/man/treeMean.Rd | 12 dplR-1.8.0/dplR/man/wa082.Rd | 27 dplR-1.8.0/dplR/man/window.rwl.Rd |only dplR-1.8.0/dplR/man/write.rwl.Rd | 14 dplR-1.8.0/dplR/man/write.sheet.Rd |only dplR-1.8.0/dplR/man/write.tucson.Rd | 106 dplR-1.8.0/dplR/man/xdate.floater.Rd | 16 dplR-1.8.0/dplR/man/xdate.report.Rd |only dplR-1.8.0/dplR/man/xskel.ccf.plot.Rd | 33 dplR-1.8.0/dplR/man/xskel.plot.Rd | 33 dplR-1.8.0/dplR/tests/testthat/Rplots.pdf |only dplR-1.8.0/dplR/tests/testthat/test-Extract.rwl.R |only dplR-1.8.0/dplR/tests/testthat/test-bai.R |only dplR-1.8.0/dplR/tests/testthat/test-check.rwl.R |only dplR-1.8.0/dplR/tests/testthat/test-common.interval.R |only dplR-1.8.0/dplR/tests/testthat/test-corr.rwl.seg.R |only dplR-1.8.0/dplR/tests/testthat/test-difference.R |only dplR-1.8.0/dplR/tests/testthat/test-empty-series.R |only dplR-1.8.0/dplR/tests/testthat/test-encoding.R |only dplR-1.8.0/dplR/tests/testthat/test-insert.ring.R |only dplR-1.8.0/dplR/tests/testthat/test-io.R | 69 dplR-1.8.0/dplR/tests/testthat/test-normalize.R |only dplR-1.8.0/dplR/tests/testthat/test-read.sheet.R |only dplR-1.8.0/dplR/tests/testthat/test-read.tucson.R |only dplR-1.8.0/dplR/tests/testthat/test-rwi.R |only dplR-1.8.0/dplR/tests/testthat/test-rwl.check.R |only dplR-1.8.0/dplR/tests/testthat/test-sniff.rwl.R |only dplR-1.8.0/dplR/tests/testthat/test-write.sheet.R |only dplR-1.8.0/dplR/tests/testthat/test-write.tucson.R |only dplR-1.8.0/dplR/tests/testthat/test-xdate.report.R |only dplR-1.8.0/dplR/vignettes |only 140 files changed, 5600 insertions(+), 1084 deletions(-)
Title: Base Functions for the 'DescToolsX' Ecosystem
Description: Provides the low level utilities on which the 'DescToolsX'
ecosystem is built. Covered are data manipulation and reshaping,
predicates for data inspection and validation, vector and string
operations, handling of labels and metadata, and routines from
number theory and combinatorics. All functions share a common
naming and argument scheme and are implemented as S3 generics
wherever several input types are meaningful, with performance
critical parts written in C++. The package is self contained and
can be used on its own, independently of the higher level packages
of the suite.
Author: Andri Signorell [aut, cre] ,
R Core Team [ctb],
Hans W. Borchers [ctb],
Daniel Chessel [ctb],
Nicholas Cooper [ctb],
Stephane Dray [ctb],
Martin Elff [ctb],
Michael Friendly [ctb],
Friedrich Leisch [ctb],
Thomas Lumley [ctb],
Martin Maechler [ctb],
N [...truncated...]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between bedrock versions 0.1.9 dated 2026-09-29 and 0.1.16 dated 2026-10-01
bedrock-0.1.16/bedrock/DESCRIPTION | 6 bedrock-0.1.16/bedrock/MD5 | 47 bedrock-0.1.16/bedrock/NAMESPACE | 5 bedrock-0.1.16/bedrock/NEWS.md | 11 bedrock-0.1.16/bedrock/R/applySides.R | 17 bedrock-0.1.16/bedrock/R/concepts.R |only bedrock-0.1.16/bedrock/R/resolveContingency.R | 22 bedrock-0.1.16/bedrock/R/resolveFormula.R | 1114 +++++----- bedrock-0.1.16/bedrock/R/strX.R | 54 bedrock-0.1.16/bedrock/R/zzz.R | 2 bedrock-0.1.16/bedrock/man/applySides.Rd | 9 bedrock-0.1.16/bedrock/man/concepts.Rd |only bedrock-0.1.16/bedrock/man/resolveContingency.Rd | 15 bedrock-0.1.16/bedrock/man/resolveFormula.Rd | 145 + bedrock-0.1.16/bedrock/man/strX.Rd | 5 bedrock-0.1.16/bedrock/tests/testthat/test-concepts.R |only bedrock-0.1.16/bedrock/tests/testthat/test-precision.R | 5 bedrock-0.1.16/bedrock/tests/testthat/test-printCharMatrix.R | 22 bedrock-0.1.16/bedrock/tests/testthat/test-recycle.R | 140 - bedrock-0.1.16/bedrock/tests/testthat/test-resolveFormula.R | 987 ++++++-- bedrock-0.1.16/bedrock/tests/testthat/test-set-remove-keep-attr.R | 76 bedrock-0.1.16/bedrock/tests/testthat/test-strX.R | 82 bedrock-0.1.16/bedrock/tests/testthat/test-vRot-vShift.R | 16 bedrock-0.1.9/bedrock/R/getConcepts.R |only bedrock-0.1.9/bedrock/tests/testthat/test-getConcepts.R |only bedrock-0.1.9/bedrock/tests/testthat/test-recyle.R |only bedrock-0.1.9/bedrock/tests/testthat/test-set-and-remove-attributes.R |only bedrock-0.1.9/bedrock/tests/testthat/test-vRot.R |only bedrock-0.1.9/bedrock/tests/testthat/test-vShift.R |only 29 files changed, 1691 insertions(+), 1089 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-13 1.1.2
Title: Graphical User Interface for Manipulating PDF and Image Files
Description: A 'shiny' app that supports merging of PDF and/or image files with page selection, removal, or rotation options.
It is a fast, free, and secure alternative to commercial software or various online websites which require users to sign-up, and it avoids any potential risks associated with uploading files elsewhere.
Author: Steve Choy [aut, cre, cph]
Maintainer: Steve Choy <steve.choy@outlook.com>
Diff between pdfcombiner versions 1.9.8 dated 2025-09-09 and 1.9.9 dated 2026-09-30
DESCRIPTION | 8 LICENSE | 4 MD5 | 77 NAMESPACE | 18 NEWS.md | 27 R/convert_to_excel.R | 46 R/convert_to_images.R | 107 - R/convert_to_powerpoint.R | 48 R/convert_to_word.R | 46 R/format_kb.R |only R/image_to_pdf.R |only R/is_non_negative_numeric.R | 58 R/magick_formats.R | 14 R/package_check.R | 68 R/page_placeholder_text.R | 12 R/parse_pages_to_remove.R | 42 R/pdfcombiner.R | 2273 ++++++++++++-------------- R/sanitize_filename.R | 46 R/sum_disk_space.R | 56 R/watermark_stamp.R | 142 - README.md | 181 +- man/convert_to_excel.Rd | 40 man/convert_to_images.Rd | 47 man/convert_to_powerpoint.Rd | 40 man/convert_to_word.Rd | 40 man/format_kb.Rd |only man/image_to_pdf.Rd |only man/is_non_negative_numeric.Rd | 64 man/parse_pages_to_remove.Rd | 36 man/pdfcombiner.Rd | 154 - man/sanitize_filename.Rd | 36 man/sum_disk_space.Rd | 36 man/watermark_stamp.Rd | 100 - tests/testthat.R | 24 tests/testthat/test-is_non_negative_numeric.R | 70 tests/testthat/test-package_check.R | 32 tests/testthat/test-parse_pages_to_remove.R | 84 tests/testthat/test-pdfcombiner.R | 60 tests/testthat/test-sanitize_filename.R | 88 - tests/testthat/test-sum_disk_space.R | 192 +- tests/testthat/test-watermark_stamp.R | 120 - tests/testthat/testfile.pdf |only 42 files changed, 2285 insertions(+), 2251 deletions(-)
Title: Hot-Spot Analysis with Simple Features
Description: Identify and understand clusters of points (typically representing
the locations of places or events) stored in simple-features (SF) objects.
This is useful for analysing, for example, hot-spots of crime events. The
package emphasises producing results from point SF data in a single step
using reasonable default values for all other arguments, to aid rapid data
analysis by users who are starting out. Functions available include kernel
density estimation (for details, see Yip (2020)
<doi:10.22224/gistbok/2020.1.12>), analysis of spatial association (Getis
and Ord (1992) <doi:10.1111/j.1538-4632.1992.tb00261.x>) and hot-spot
classification (Chainey (2020) ISBN:158948584X).
Author: Matt Ashby [aut, cre]
Maintainer: Matt Ashby <matthew.ashby@ucl.ac.uk>
Diff between sfhotspot versions 1.0.0 dated 2025-07-29 and 1.1.1 dated 2026-09-30
sfhotspot-1.0.0/sfhotspot/inst/doc/introduction.qmd |only sfhotspot-1.0.0/sfhotspot/vignettes/introduction.qmd |only sfhotspot-1.0.0/sfhotspot/vignettes/rosm.cache |only sfhotspot-1.1.1/sfhotspot/DESCRIPTION | 19 sfhotspot-1.1.1/sfhotspot/MD5 | 153 - sfhotspot-1.1.1/sfhotspot/NAMESPACE | 28 sfhotspot-1.1.1/sfhotspot/NEWS.md | 68 sfhotspot-1.1.1/sfhotspot/R/autoplot.R | 1245 ++++++++-- sfhotspot-1.1.1/sfhotspot/R/create_grid.R | 9 sfhotspot-1.1.1/sfhotspot/R/get_cell_size.R | 1 sfhotspot-1.1.1/sfhotspot/R/gistar.R | 37 sfhotspot-1.1.1/sfhotspot/R/hotspot_change.R | 26 sfhotspot-1.1.1/sfhotspot/R/hotspot_classify.R | 129 - sfhotspot-1.1.1/sfhotspot/R/hotspot_classify_params.R | 9 sfhotspot-1.1.1/sfhotspot/R/hotspot_clip.R | 144 - sfhotspot-1.1.1/sfhotspot/R/hotspot_count.R | 19 sfhotspot-1.1.1/sfhotspot/R/hotspot_dbscan.R |only sfhotspot-1.1.1/sfhotspot/R/hotspot_dual_kde.R | 209 + sfhotspot-1.1.1/sfhotspot/R/hotspot_gistar.R | 93 sfhotspot-1.1.1/sfhotspot/R/hotspot_isoband.R |only sfhotspot-1.1.1/sfhotspot/R/hotspot_kde.R | 14 sfhotspot-1.1.1/sfhotspot/R/hotspot_layer.R |only sfhotspot-1.1.1/sfhotspot/R/hotspot_map.R |only sfhotspot-1.1.1/sfhotspot/R/kernel_density.R | 23 sfhotspot-1.1.1/sfhotspot/R/set_bandwidth.R | 7 sfhotspot-1.1.1/sfhotspot/R/set_cell_size.R | 7 sfhotspot-1.1.1/sfhotspot/R/st_transform_auto.R | 9 sfhotspot-1.1.1/sfhotspot/R/validate_inputs.R | 182 + sfhotspot-1.1.1/sfhotspot/README.md | 55 sfhotspot-1.1.1/sfhotspot/build/partial.rdb |binary sfhotspot-1.1.1/sfhotspot/build/vignette.rds |binary sfhotspot-1.1.1/sfhotspot/inst/doc/introduction.R | 32 sfhotspot-1.1.1/sfhotspot/inst/doc/introduction.Rmd |only sfhotspot-1.1.1/sfhotspot/inst/doc/introduction.html | 623 +++-- sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_c.Rd | 75 sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_d.Rd | 69 sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_dk.Rd |only sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_g.Rd |only sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_ib.Rd |only sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_k.Rd | 71 sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_n.Rd | 73 sfhotspot-1.1.1/sfhotspot/man/autoplot.hspt_s.Rd |only sfhotspot-1.1.1/sfhotspot/man/figures/README-example-1.png |binary sfhotspot-1.1.1/sfhotspot/man/hotspot_classify.Rd | 4 sfhotspot-1.1.1/sfhotspot/man/hotspot_classify_params.Rd | 11 sfhotspot-1.1.1/sfhotspot/man/hotspot_clip.Rd | 15 sfhotspot-1.1.1/sfhotspot/man/hotspot_dbscan.Rd |only sfhotspot-1.1.1/sfhotspot/man/hotspot_dual_kde.Rd | 33 sfhotspot-1.1.1/sfhotspot/man/hotspot_gistar.Rd | 35 sfhotspot-1.1.1/sfhotspot/man/hotspot_isoband.Rd |only sfhotspot-1.1.1/sfhotspot/man/hotspot_layer.Rd |only sfhotspot-1.1.1/sfhotspot/man/hotspot_map.Rd |only sfhotspot-1.1.1/sfhotspot/man/reexports.Rd | 2 sfhotspot-1.1.1/sfhotspot/tests/testthat/_snaps/set_cell_size.md | 6 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-autoplot.R | 410 +++ sfhotspot-1.1.1/sfhotspot/tests/testthat/test-create_grid.R | 17 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-geometry-preparation.R |only sfhotspot-1.1.1/sfhotspot/tests/testthat/test-gistar.R | 79 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_change.R | 37 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_classify.R | 79 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_clip.R | 198 + sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_count.R | 39 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_dbscan.R |only sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_dual_kde.R | 191 + sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_gistar.R | 116 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_isoband.R |only sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_kde.R | 52 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-hotspot_map.R |only sfhotspot-1.1.1/sfhotspot/tests/testthat/test-kernel_density.R | 61 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-set_cell_size.R | 5 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-st_transform_auto.R | 11 sfhotspot-1.1.1/sfhotspot/tests/testthat/test-validate_inputs.R | 11 sfhotspot-1.1.1/sfhotspot/vignettes/articles |only sfhotspot-1.1.1/sfhotspot/vignettes/introduction.Rmd |only 74 files changed, 3906 insertions(+), 935 deletions(-)
Title: Clinical Significance Measures
Description: Provides measures of effect sizes for summarized continuous
variables as well as diagnostic accuracy statistics for 2x2 table data.
Includes functions for Cohen's d, robust effect size, Cohen's q,
partial eta-squared, coefficient of variation, odds ratio, likelihood
ratios, sensitivity, specificity, positive and negative predictive
values, Youden index, number needed to treat, number needed to diagnose,
and predictive summary index.
Author: Mike Malek-Ahmadi [aut, cre],
Kjera Schack [aut]
Maintainer: Mike Malek-Ahmadi <michael.malekahmadi@bannerhealth.com>
Diff between ClinSigMeasures versions 1.2 dated 2024-07-01 and 1.3 dated 2026-09-30
DESCRIPTION | 30 +++++++++++++++++++++++------- MD5 | 4 ++-- R/robust_effect_size.R | 5 ++++- 3 files changed, 29 insertions(+), 10 deletions(-)
More information about ClinSigMeasures at CRAN
Permanent link
Title: Fast Kriging and Geostatistics on Grids with Kronecker
Covariance
Description: Geostatistical modeling and kriging with
gridded data using spatially separable covariance functions (Kronecker
covariances). Kronecker products in these models provide shortcuts for
solving large matrix problems in likelihood and conditional mean,
making 'snapKrig' computationally efficient with large grids. The package
supplies its own S3 grid object class, and a host of methods including
plot, print, Ops, square bracket replace/assign, and more. Our computational
methods are described in Koch, Lele, Lewis (2020) <doi:10.7939/r3-g6qb-bq70>.
Author: Dean Koch [aut, cre, cph]
Maintainer: Dean Koch <deankoch@gmail.com>
Diff between snapKrig versions 0.0.3 dated 2026-07-04 and 0.0.4 dated 2026-09-30
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 14 ++++++++++++++ R/sk_index.R | 18 +++++++++++++----- README.md | 8 +++++++- build/vignette.rds |binary inst/doc/snapKrig_introduction.html | 28 ++++++++++++++-------------- man/figures/README-preview-1.png |binary man/sk_sub.Rd | 1 + man/sk_sub_find.Rd | 10 +++++++--- tests/testthat/test-sk_index.R | 19 +++++++++---------- 11 files changed, 79 insertions(+), 47 deletions(-)
Title: Utility Functions for Production R Code
Description: A suite of utility functions providing functionality commonly
needed for production level projects such as logging, error handling,
cache management and date-time parsing. Functions for date-time parsing and
formatting require that time zones be specified explicitly, avoiding a common
source of error when working with environmental time series.
Author: Jonathan Callahan [aut, cre],
Eli Grosman [ctb],
Spencer Pease [ctb],
Thomas Bergamaschi [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaCoreUtils versions 0.6.2 dated 2026-05-06 and 0.6.3 dated 2026-09-30
DESCRIPTION | 6 - MD5 | 123 ++++++++++++------------ NEWS.md | 48 +++++++++ R/MazamaCoreUtils-package.R | 62 +++++++++++- R/cacheManagement.R | 50 +++++---- R/createLocationID.R | 8 - R/createLocationMask.R | 2 R/dateRange.R | 21 +--- R/dateSequence.R | 15 +- R/devtools_check.R | 5 R/errorHandling.R | 10 + R/functionArgument_linting.R | 51 +++++---- R/html_getLinks.R | 57 +++++++---- R/html_getTables.R | 19 ++- R/initializeLogging.R | 23 +++- R/loadDataFile.R | 30 +++++ R/parseDatetime.R | 21 ++-- R/setIfNull.R | 1 R/timeRange.R | 19 +-- R/timeStamp.R | 13 +- R/utils-files.R |only R/utils-logging.R | 64 ++++++++++-- R/utils-timezone.R |only README.md | 128 +++++++++++++++++-------- inst/doc/date-parsing.Rmd | 26 ++--- inst/doc/date-parsing.html | 27 ++--- inst/doc/error-handling.Rmd | 13 +- inst/doc/error-handling.html | 14 +- inst/doc/logging.R | 2 inst/doc/logging.Rmd | 11 +- inst/doc/logging.html | 47 ++++----- man/MazamaCoreUtils-package.Rd | 8 - man/getAPIKey.Rd | 10 + man/html_getLinks.Rd | 11 +- man/html_getTables.Rd | 3 man/initializeLogging.Rd | 12 ++ man/lintFunctionArgs.Rd | 27 +++-- man/loadDataFile.Rd | 7 + man/logLevels.Rd | 11 ++ man/logger.debug.Rd | 5 man/logger.error.Rd | 5 man/logger.fatal.Rd | 5 man/logger.info.Rd | 5 man/logger.setLevel.Rd | 5 man/logger.trace.Rd | 5 man/logger.warn.Rd | 5 man/manageCache.Rd | 8 - man/packageCheck.Rd | 7 + man/parseDatetime.Rd | 5 man/setAPIKey.Rd | 11 ++ man/setIfNull.Rd | 1 man/showAPIKeys.Rd | 22 ++++ tests/testthat/test-APIKeys.R | 9 + tests/testthat/test-cacheManagement.R | 72 +++++++++++++- tests/testthat/test-errorHandling.R | 9 + tests/testthat/test-functionArgument_linting.R |only tests/testthat/test-html_getLinks.R |only tests/testthat/test-html_getTables.R |only tests/testthat/test-loadDataFile.R |only tests/testthat/test-locationUtils.R | 9 + tests/testthat/test-logging.R | 40 +++++++ tests/testthat/test-timeRange.R | 10 + tests/testthat/test-timezoneValidation.R |only vignettes/date-parsing.Rmd | 26 ++--- vignettes/error-handling.Rmd | 13 +- vignettes/logging.Rmd | 11 +- 66 files changed, 943 insertions(+), 350 deletions(-)
More information about MazamaCoreUtils at CRAN
Permanent link
Title: Columnar Query Engine for Larger-than-RAM Data
Description: A minimal columnar query engine with lazy execution on datasets
larger than RAM. Provides 'dplyr'-like verbs (filter(), select(), mutate(),
group_by(), summarise(), joins, window functions) and common aggregations
(n(), sum(), mean(), min(), max(), sd(), first(), last()) backed by a
pure C11 pull-based execution engine and a custom on-disk format ('.vtr').
Reads and writes 'GeoTIFF' (including tiled and 'BigTIFF' layouts) and a
tiled raster format ('.vec') with overview pyramids and time cubes for
larger-than-RAM raster data. Streams vector operations (spatial transforms,
point-in-polygon and nearest-feature joins including a two-sided
grid-partitioned join, select-by-location, clip, erase, dissolve,
'rasterization', 'polygonization', and contouring) through 'sf', and runs
raster operations (zonal statistics, focal windows, terrain derivatives,
resample or 'reproject' warp, polygon masking, map algebra, and 'mosaicking')
in native C or over the tiled '.vec' format, one batch or tile at [...truncated...]
Author: Gilles Colling [aut, cre, cph] ,
Yann Collet [ctb, cph] ,
Meta Platforms, Inc. and affiliates [cph] ,
Rich Geldreich [ctb] ,
Martin Raiber [ctb, cph] ,
Alistair Moffat [ctb] ,
Jyrki Katajainen [ctb] ,
RAD Game Tools and Valve Software [cph] ,
Rich Ge [...truncated...]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between vectra versions 0.12.4 dated 2026-09-16 and 0.13.0 dated 2026-09-30
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Title: Rapid Easy Synthesis to Inform Data Extraction
Description: Assists researchers with planning analysis prior to obtaining
data from Trusted Research Environments (TREs), also known as safe havens.
Marginal distributions of one or more related data frames can be exported
from a TRE and imported elsewhere, where data can be synthesised from them,
with or without user specified correlations, by sampling from a
multivariate cumulative distribution (copula).
The International Stroke Trial (IST) is included as an example dataset
under the ODC-By licence, Sandercock et al. (2011) <doi:10.7488/ds/104>,
Sandercock et al. (2011) <doi:10.1186/1745-6215-12-101>.
Author: Ryan Field [aut, cre] ,
David McAllister [aut] ,
Claudia Geue [ctb]
Maintainer: Ryan Field <ryan.field@glasgow.ac.uk>
Diff between RESIDE versions 0.3.2 dated 2024-10-17 and 0.4.0 dated 2026-09-30
RESIDE-0.3.2/RESIDE/inst/doc/exporting_marginal-distributions.R |only RESIDE-0.3.2/RESIDE/inst/doc/exporting_marginal-distributions.Rmd |only RESIDE-0.3.2/RESIDE/inst/doc/exporting_marginal-distributions.html |only RESIDE-0.3.2/RESIDE/tests/testthat/test-get_missing_variables.R |only RESIDE-0.3.2/RESIDE/tests/testthat/testdata/continuous_quantiles.csv |only RESIDE-0.3.2/RESIDE/vignettes/correlation_matrix.csv |only RESIDE-0.3.2/RESIDE/vignettes/exporting_marginal-distributions.Rmd |only RESIDE-0.4.0/RESIDE/DESCRIPTION | 38 RESIDE-0.4.0/RESIDE/MD5 | 119 RESIDE-0.4.0/RESIDE/NAMESPACE | 42 RESIDE-0.4.0/RESIDE/NEWS.md | 39 RESIDE-0.4.0/RESIDE/R/correlations.R |only RESIDE-0.4.0/RESIDE/R/export_marginal_distributions.R | 195 RESIDE-0.4.0/RESIDE/R/get_continuous_summary.R | 14 RESIDE-0.4.0/RESIDE/R/get_marginal_distributions.R | 302 RESIDE-0.4.0/RESIDE/R/import_marginal_distributions.R | 224 RESIDE-0.4.0/RESIDE/R/print.RESIDE.R | 188 RESIDE-0.4.0/RESIDE/R/summary.RESIDE.R |only RESIDE-0.4.0/RESIDE/R/synthesise_data.R | 1705 +++-- RESIDE-0.4.0/RESIDE/R/utils.R | 399 + RESIDE-0.4.0/RESIDE/R/validation.R | 341 - RESIDE-0.4.0/RESIDE/R/zzz.R | 12 RESIDE-0.4.0/RESIDE/build/partial.rdb |binary RESIDE-0.4.0/RESIDE/build/vignette.rds |binary RESIDE-0.4.0/RESIDE/inst/doc/RESIDE.Rmd | 6 RESIDE-0.4.0/RESIDE/inst/doc/RESIDE.html | 767 +- RESIDE-0.4.0/RESIDE/inst/doc/exporting_marginal_distributions.R |only RESIDE-0.4.0/RESIDE/inst/doc/exporting_marginal_distributions.Rmd |only RESIDE-0.4.0/RESIDE/inst/doc/exporting_marginal_distributions.html |only RESIDE-0.4.0/RESIDE/inst/doc/importing_marginal_distributions.R | 34 RESIDE-0.4.0/RESIDE/inst/doc/importing_marginal_distributions.html | 805 +- RESIDE-0.4.0/RESIDE/inst/doc/pharmaverse_example.R |only RESIDE-0.4.0/RESIDE/inst/doc/pharmaverse_example.Rmd |only RESIDE-0.4.0/RESIDE/inst/doc/pharmaverse_example.html |only RESIDE-0.4.0/RESIDE/inst/doc/synthesising_data.R | 91 RESIDE-0.4.0/RESIDE/inst/doc/synthesising_data.Rmd | 74 RESIDE-0.4.0/RESIDE/inst/doc/synthesising_data.html | 3364 +--------- RESIDE-0.4.0/RESIDE/inst/doc/worked_example.R |only RESIDE-0.4.0/RESIDE/inst/doc/worked_example.Rmd |only RESIDE-0.4.0/RESIDE/inst/doc/worked_example.html |only RESIDE-0.4.0/RESIDE/man/RESIDE-package.Rd | 7 RESIDE-0.4.0/RESIDE/man/correlation.Rd |only RESIDE-0.4.0/RESIDE/man/export_empty_cor_matrix.Rd | 46 RESIDE-0.4.0/RESIDE/man/export_marginal_distributions.Rd | 19 RESIDE-0.4.0/RESIDE/man/figures/logo.png |only RESIDE-0.4.0/RESIDE/man/filter_variables.Rd |only RESIDE-0.4.0/RESIDE/man/get_marginal_distributions.Rd | 18 RESIDE-0.4.0/RESIDE/man/get_missing_variables.Rd |only RESIDE-0.4.0/RESIDE/man/import_cor_matrix.Rd | 30 RESIDE-0.4.0/RESIDE/man/import_marginal_distributions.Rd | 20 RESIDE-0.4.0/RESIDE/man/print.RESIDE.Rd | 14 RESIDE-0.4.0/RESIDE/man/print.summary.RESIDE.Rd |only RESIDE-0.4.0/RESIDE/man/summary.RESIDE.Rd |only RESIDE-0.4.0/RESIDE/man/synthesise_data.Rd | 45 RESIDE-0.4.0/RESIDE/tests/testthat/helper-data.R | 41 RESIDE-0.4.0/RESIDE/tests/testthat/test-correlations.R |only RESIDE-0.4.0/RESIDE/tests/testthat/test-export_marginal_distributions.R | 5 RESIDE-0.4.0/RESIDE/tests/testthat/test-get_marginal_distributions.R | 173 RESIDE-0.4.0/RESIDE/tests/testthat/test-import_marginal_distributions.R | 10 RESIDE-0.4.0/RESIDE/tests/testthat/test-print.R | 130 RESIDE-0.4.0/RESIDE/tests/testthat/test-summary.R |only RESIDE-0.4.0/RESIDE/tests/testthat/test-synthesise_data.R | 631 + RESIDE-0.4.0/RESIDE/tests/testthat/test-to_df.R | 12 RESIDE-0.4.0/RESIDE/tests/testthat/test-utils.R | 323 RESIDE-0.4.0/RESIDE/tests/testthat/test-validation.R | 528 + RESIDE-0.4.0/RESIDE/tests/testthat/testdata/binary_variables.csv | 6 RESIDE-0.4.0/RESIDE/tests/testthat/testdata/categorical_variables.csv | 12 RESIDE-0.4.0/RESIDE/tests/testthat/testdata/continuous_variables.csv | 21 RESIDE-0.4.0/RESIDE/tests/testthat/testdata/summary.csv | 4 RESIDE-0.4.0/RESIDE/vignettes/RESIDE.Rmd | 6 RESIDE-0.4.0/RESIDE/vignettes/bibliography.bib | 4 RESIDE-0.4.0/RESIDE/vignettes/exporting_marginal_distributions.Rmd |only RESIDE-0.4.0/RESIDE/vignettes/pharmaverse_example.Rmd |only RESIDE-0.4.0/RESIDE/vignettes/synthesising_data.Rmd | 74 RESIDE-0.4.0/RESIDE/vignettes/worked_example.Rmd |only 75 files changed, 5766 insertions(+), 5172 deletions(-)
Title: Projection Predictive Feature Selection
Description: Performs projection predictive feature selection for generalized linear
models (Piironen, Paasiniemi, and Vehtari, 2020, <doi:10.1214/20-EJS1711>)
with or without multilevel or additive terms (Catalina, Bürkner, and
Vehtari, 2022, <https://proceedings.mlr.press/v151/catalina22a.html>), for
some ordinal and nominal regression models (Weber, Glass, and Vehtari, 2025,
<doi:10.1007/s00180-024-01506-0>), and for many other regression models
(using the latent projection by Catalina, Bürkner, and Vehtari, 2021,
<doi:10.48550/arXiv.2109.04702>, which can also be applied to most of the
former models). The package is compatible with the 'rstanarm' and 'brms'
packages, but other reference models can also be used. See the vignettes and
the documentation for more information and examples.
Author: Juho Piironen [aut],
Markus Paasiniemi [aut],
Alejandro Catalina [aut],
Frank Weber [aut],
Osvaldo Martin [cre, aut],
Aki Vehtari [aut],
Jonah Gabry [ctb],
Marco Colombo [ctb],
Paul-Christian Buerkner [ctb],
Hamada S. Badr [ctb],
Brian Sullivan [ctb], [...truncated...]
Maintainer: Osvaldo Martin <aloctavodia@gmail.com>
Diff between projpred versions 2.10.0 dated 2025-12-06 and 2.11.0 dated 2026-09-30
DESCRIPTION | 10 +- MD5 | 66 +++++++++--------- NAMESPACE | 1 NEWS.md | 21 +++++ R/divergence_minimizers.R | 22 +++++- R/methods.R | 133 +++++++++++++++++++++++++++--------- R/projfun.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/latent.html | 4 - inst/doc/projpred.html | 4 - man/as.matrix.projection.Rd | 2 man/as_draws_matrix.projection.Rd | 4 - man/cl_agg.Rd | 2 man/cv_varsel.Rd | 8 +- man/df_binom.Rd | 2 man/df_gaussian.Rd | 2 man/extend_family.Rd | 4 - man/mesquite.Rd | 2 man/plot.cv_proportions.Rd | 2 man/plot.vsel.Rd | 8 +- man/pred-projection.Rd | 87 +++++++++++++++++------- man/predict.refmodel.Rd | 2 man/project.Rd | 2 man/projpred-package.Rd | 15 ++-- man/refmodel-init-get.Rd | 2 man/summary.vsel.Rd | 18 ++-- man/varsel.Rd | 2 tests/testthat/helpers/expectors.R |only tests/testthat/helpers/testers.R | 74 +++++++++++++++++++- tests/testthat/setup.R | 134 +++++++++++++++++++++++++++++++++---- tests/testthat/test_datafit.R | 15 +++- tests/testthat/test_glm_elnet.R | 28 +++++-- tests/testthat/test_methods_vsel.R | 4 - tests/testthat/test_proj_epred.R |only 35 files changed, 513 insertions(+), 169 deletions(-)
Title: Objective Bayesian Distribution Fitting
Description: Fits common univariate distributions using registered objective
Bayesian priors, including Jeffreys, reference, and maximal data information
priors, and supports user-defined distributions and priors through an
extensible model specification. Model-specific posterior propriety and
moment conditions are checked before computation when registered or supplied.
Exact simulation, marginalization, slice sampling, adaptive Metropolis, and
user-supplied posterior samplers share a common interface for summaries,
diagnostics, prediction, and pointwise log-likelihood evaluation.
A separate interface fits independently right-censored observations using
the registered complete-data priors, observed-data likelihood sampling or
data augmentation, with sufficient posterior-propriety checks. Optional
post-processing provides WAIC, PSIS-LOO, and DIC for observed-data likelihoods.
The reference-prior framework follows Bernardo (1979)
<doi:10.1111/j.2517-6161.1979.tb01066.x>.
Author: Pedro Luiz Ramos [aut, cre, cph]
Maintainer: Pedro Luiz Ramos <pedro.ramos@uc.cl>
Diff between fitdistrBayes versions 0.5.0 dated 2026-09-21 and 0.5.1 dated 2026-09-30
DESCRIPTION | 6 ++-- MD5 | 15 +++++----- NEWS.md | 13 ++++++++ R/criteria.R | 51 ++++++++++++++++++++++++---------- README.md | 4 +- inst/examples/tutorial_criteria.R | 2 - inst/examples/tutorial_fitcensBayes.R | 2 - man/criteria.Rd | 12 ++++++-- tests/tests_criteria_portability.R |only 9 files changed, 74 insertions(+), 31 deletions(-)
Title: Access and Manage 'Microsoft Fabric'
Description: Access 'Microsoft Fabric' workspaces, items, and workload
endpoints through its web application programming interfaces (APIs).
Connect to data in 'OneLake', 'Lakehouse', 'Warehouse', semantic model,
and 'Eventhouse' items, with support for 'DBI', 'Arrow', 'GraphQL', and
'Spark'. Manage files, tables, refreshes, jobs, schedules, ingestion,
and long-running operations.
Author: Luka Koning [aut, cre, cph],
Kennispunt Twente [fnd]
Maintainer: Luka Koning <koningluka@gmail.com>
Diff between fabricQueryR versions 1.0.0 dated 2026-09-24 and 1.0.1 dated 2026-09-30
DESCRIPTION | 6 MD5 | 6 NEWS.md | 283 ++++++++++++++--------------- tests/testthat/test-fabric_graphql_query.R | 2 4 files changed, 151 insertions(+), 146 deletions(-)
Title: Conditional Logistic Regression
Description: Performs inference for Bayesian conditional logistic regression with informative priors built from the concordant pair data. We include many options to build the priors. And we include many options during the inference step for estimation, testing and confidence set creation. For details, see Kapelner and Tennenbaum (2026) "Improved Conditional Logistic Regression using Information in Concordant Pairs with Software" <doi:10.48550/arXiv.2602.08212>.
Author: Adam Kapelner [aut, cre] ,
Jacob Tennenbaum [aut]
Maintainer: Adam Kapelner <kapelner@qc.cuny.edu>
Diff between bclogit versions 1.1 dated 2026-03-01 and 1.1.1 dated 2026-09-30
bclogit-1.1.1/bclogit/DESCRIPTION | 30 ++++++++------- bclogit-1.1.1/bclogit/MD5 | 28 +++++++------- bclogit-1.1.1/bclogit/NEWS.md |only bclogit-1.1.1/bclogit/R/bclogit_S3.R | 13 ++++++ bclogit-1.1.1/bclogit/R/default.bclogit.R | 24 ++++++++++-- bclogit-1.1.1/bclogit/R/zzz.R | 5 ++ bclogit-1.1.1/bclogit/inst/CITATION |only bclogit-1.1.1/bclogit/inst/stan/mvn_logistic.stan | 2 - bclogit-1.1.1/bclogit/inst/stan/mvn_logistic_Hybrid.stan | 2 - bclogit-1.1.1/bclogit/inst/stan/mvn_logistic_PMP.stan | 2 - bclogit-1.1.1/bclogit/inst/stan/mvn_logistic_gprior.stan | 2 - bclogit-1.1.1/bclogit/man/bclogit-package.Rd | 4 +- bclogit-1.1.1/bclogit/man/bclogit.Rd | 20 ++++++++-- bclogit-1.1.1/bclogit/man/figures |only bclogit-1.1.1/bclogit/tests/testthat/test-bclogit.R | 15 +++++++ bclogit-1.1.1/bclogit/tests/testthat/test-combinations.R | 4 +- bclogit-1.1/bclogit/CHANGELOG |only 17 files changed, 109 insertions(+), 42 deletions(-)
Title: Panel Unit Root Test Based on Recursive Detrending
Description: Implements the recursively detrended panel unit root tests proposed
by Westerlund (2015) <doi:10.1016/j.jeconom.2014.06.015>. Two variants are
provided: the basic t-REC test assuming iid errors, and the robust t-RREC
test that accounts for serial correlation, cross-sectional dependence, and
heteroskedasticity via defactoring and BIC-selected lag augmentation. Both
tests have a standard normal null distribution requiring no mean or variance
correction. The panel must be strongly balanced.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between xtrec versions 1.0.0 dated 2026-03-29 and 1.0.1 dated 2026-09-30
DESCRIPTION | 8 ++++---- MD5 | 9 +++++---- NEWS.md | 6 +++++- R/xtrec.R | 2 +- build |only man/xtrec.Rd | 2 +- 6 files changed, 16 insertions(+), 11 deletions(-)
Title: Panel Cointegration Tests with Structural Breaks
Description: Implements panel cointegration tests allowing for structural breaks
and cross-section dependence following the methodology of Banerjee and
Carrion-i-Silvestre (2015) <doi:10.1002/jae.2348>. The package provides
iterative factor-break estimation, individual ADF tests on defactored
residuals, standardized panel test statistics, and the Bai and Ng (2004)
<doi:10.1111/j.1468-0262.2004.00528.x> MQ test for identifying common
stochastic trends. Supports five model specifications with varying
deterministic components and break structures.
Author: Muhammad Alkhalaf [aut, cre, cph] ,
Anindya Banerjee [ctb] ,
Josep Lluis Carrion-i-Silvestre [ctb]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between xtbreakcoint versions 1.0.4 dated 2026-03-16 and 1.0.6 dated 2026-09-30
xtbreakcoint-1.0.4/xtbreakcoint/R/adf_tests.R |only xtbreakcoint-1.0.4/xtbreakcoint/R/factor_estimation.R |only xtbreakcoint-1.0.4/xtbreakcoint/R/mq_test.R |only xtbreakcoint-1.0.6/xtbreakcoint/DESCRIPTION | 10 xtbreakcoint-1.0.6/xtbreakcoint/MD5 | 21 xtbreakcoint-1.0.6/xtbreakcoint/NAMESPACE | 20 xtbreakcoint-1.0.6/xtbreakcoint/NEWS.md | 15 xtbreakcoint-1.0.6/xtbreakcoint/R/bcs_engine.R |only xtbreakcoint-1.0.6/xtbreakcoint/R/xtbreakcoint.R | 138 ++--- xtbreakcoint-1.0.6/xtbreakcoint/README.md | 198 +++---- xtbreakcoint-1.0.6/xtbreakcoint/build/partial.rdb |binary xtbreakcoint-1.0.6/xtbreakcoint/inst |only xtbreakcoint-1.0.6/xtbreakcoint/man/xtbreakcoint-package.Rd | 98 +-- xtbreakcoint-1.0.6/xtbreakcoint/man/xtbreakcoint.Rd | 302 ++++++------ 14 files changed, 397 insertions(+), 405 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 optional package 'WeightIt' uses, including those that may not be on CRAN.
Author: Noah Greifer [aut, cre, cph]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between WeightIt versions 2.0.0 dated 2026-08-03 and 2.1.0 dated 2026-09-30
DESCRIPTION | 18 - MD5 | 194 ++++++------- NAMESPACE | 20 - NEWS.md | 62 ++++ R/ESS.R | 5 R/anova.glm_weightit.R | 4 R/as.weightit.R | 5 R/calibrate.R | 9 R/cens.R | 40 +- R/coxph_weightit.R | 2 R/dist_functions.R | 2 R/functions_for_processing.R | 100 ++++--- R/get_w_from_ps.R | 19 - R/glm_weightit-methods.R | 2 R/glm_weightit.R | 2 R/glm_weightit_helpers.R | 2 R/make_full_rank.R | 6 R/msmdata.R | 4 R/ordinal_weightit.R | 5 R/plot.weightit.R | 2 R/predict.glm_weightit.R | 2 R/sbps.R | 11 R/summary.weightit.R | 356 +++++++++++++++++++++---- R/treat.R | 36 +- R/trim.R | 20 - R/utils.R | 112 ++++--- R/weightit.R | 184 ++++++++---- R/weightit.fit.R | 6 R/weightit2bart.R | 87 +++++- R/weightit2cbps.R | 15 - R/weightit2cfd.R | 27 + R/weightit2ebal.R | 46 ++- R/weightit2energy.R | 42 +- R/weightit2gbm.R | 61 +++- R/weightit2glm.R | 75 +++-- R/weightit2ipt.R | 9 R/weightit2npcbps.R | 11 R/weightit2optweight.R | 16 - R/weightit2ps.R | 127 ++++++++ R/weightit2super.R | 9 R/weightit2user.R | 8 R/weightitMSM.R | 335 ++++++++++++----------- R/weightit_methods.R | 7 README.md | 44 +-- build/stage23.rdb |binary inst/doc/WeightIt.Rmd | 31 +- inst/doc/WeightIt.html | 253 +++++++++-------- inst/doc/estimating-effects.Rmd | 38 +- inst/doc/estimating-effects.html | 115 ++++---- inst/doc/installing-packages.Rmd | 20 + inst/doc/installing-packages.html | 38 +- man/ESS.Rd | 5 man/WeightIt-package.Rd | 4 man/anova.glm_weightit.Rd | 2 man/as.weightit.Rd | 5 man/calibrate.Rd | 4 man/dot-cens.Rd | 14 man/dot-weightit_methods.Rd | 3 man/get_w_from_ps.Rd | 4 man/glm_weightit.Rd | 2 man/make_full_rank.Rd | 6 man/method_bart.Rd | 26 + man/method_cbps.Rd | 8 man/method_cfd.Rd | 22 - man/method_ebal.Rd | 19 - man/method_energy.Rd | 37 +- man/method_gbm.Rd | 21 + man/method_glm.Rd | 47 ++- man/method_ipt.Rd | 4 man/method_npcbps.Rd | 9 man/method_optweight.Rd | 16 - man/method_ps.Rd |only man/method_super.Rd | 4 man/method_user.Rd | 8 man/msmdata.Rd | 4 man/plot.weightit.Rd | 2 man/predict.glm_weightit.Rd | 2 man/sbps.Rd | 2 man/summary.weightit.Rd | 42 ++ man/trim.Rd | 13 man/weightit.Rd | 72 ++--- man/weightit.fit.Rd | 4 man/weightitMSM.Rd | 48 +-- tests/testthat/test-calibrate.R | 12 tests/testthat/test-censoring.R | 330 ++++++++++++++++++++--- tests/testthat/test-get_w_from_ps.R | 32 ++ tests/testthat/test-internal_helpers.R |only tests/testthat/test-method_bart.R | 33 ++ tests/testthat/test-method_ebal.R | 65 ++++ tests/testthat/test-method_gbm.R | 16 + tests/testthat/test-method_glm.R | 33 ++ tests/testthat/test-sbps.R | 12 tests/testthat/test-stabilize.R |only tests/testthat/test-summary_plot_as_weightit.R | 180 ++++++++++++ tests/testthat/test-trim_ESS_full_rank.R | 28 + tests/testthat/test-weightitMSM.R | 47 +++ tests/testthat/test-weightitMSM_re.R |only vignettes/WeightIt.Rmd | 31 +- vignettes/estimating-effects.Rmd | 38 +- vignettes/installing-packages.Rmd | 20 + 100 files changed, 2787 insertions(+), 1193 deletions(-)
Title: Vehicle Routing Problem Solver Built on 'PyVRP'
Description: A 'tidyverse'-style interface to high-performance vehicle routing
problem (VRP) solving. Vendors the C++ core of the 'PyVRP' solver
(<https://github.com/PyVRP/PyVRP>) and rewires it through 'cpp11', with no
'Python' runtime dependency. Supports the capacitated VRP, time windows,
multiple depots, heterogeneous fleets, prize-collecting and multi-trip
variants, driven by an iterated local search metaheuristic.
Author: Andre Leite [aut, cre] ,
Marcos Wasiliew [aut] ,
Hugo Vasconcelos [aut] ,
Carlos Amorim [aut] ,
Diogo Bezerra [aut] ,
Julia Nascimento Barreto [aut] ,
Niels Wouda [ctb, cph] ,
Thibaut Vidal [cph] ,
ORTEC [cph]
Maintainer: Andre Leite <leite@castlab.org>
Diff between vrpr versions 0.2.0 dated 2026-09-28 and 0.2.1 dated 2026-09-30
DESCRIPTION | 37 +++++++++++++++++++------------- MD5 | 12 +++++----- NEWS.md | 9 +++++++ inst/CITATION | 4 +-- inst/COPYRIGHTS | 2 - man/vrpr-package.Rd | 13 ++++++----- src/vendor/pyvrp/search/SearchSpace.cpp | 3 +- 7 files changed, 50 insertions(+), 30 deletions(-)
Title: Diagnostics and Models for Underdispersed Count Data
Description: Tools for detecting and modeling underdispersion in count data
(conditional variance below the conditional mean), the case the Poisson and
negative binomial defaults cannot represent. Provides a screening diagnostic
that benchmarks at-risk dispersion against a zero-truncated Poisson,
regression-adjusted tests of equidispersion, and a dispersion profile that
compares the variance-to-mean curves of competing families against the data;
the continuous parameter binomial (CPB) and generalized event count (Katz)
regressions with zero-truncated, hurdle, and zero-inflated forms and
high-dimensional fixed effects with a split-panel jackknife bias correction;
matched Poisson, negative binomial, COM-Poisson (rate- and mean-parameterized),
generalized Poisson, gamma-count, and double Poisson regressions through the
same interface, with frequency weights, offsets, and analytic, robust, and
cluster-robust standard errors; bootstrap and profile-likelihood inference;
proper scoring rules, rootograms, [...truncated...]
Author: Benjamin E. Bagozzi [aut, cre]
Maintainer: Benjamin E. Bagozzi <bagozzib@udel.edu>
Diff between underdisp versions 0.1.1 dated 2026-09-28 and 0.1.2 dated 2026-09-30
DESCRIPTION | 6 +++--- MD5 | 12 +++++++----- NEWS.md | 21 +++++++++++++++++++++ src/cpb_fe.cpp | 10 ++++++---- src/cpb_pmf.h | 3 ++- src/gec_fe.cpp | 3 ++- src/support_cap.h |only tests/testthat/test-support-cap.R |only 8 files changed, 41 insertions(+), 14 deletions(-)
Title: Offline Taxonomic Name Matching Against Darwin Core Backbones
Description: Match taxonomic names against locally stored Darwin Core backbone
databases ('WFO', 'COL', 'GBIF', 'ITIS', 'NCBI Taxonomy', 'Open Tree of Life',
'WoRMS', 'Euro+Med', 'Species Fungorum', 'AlgaeBase', 'FishBase',
'SeaLifeBase', 'Reptile Database', 'LCVP', 'WCVP',
'Mammal Diversity Database', 'AviList', 'LPSN'). Provides offline fuzzy and
exact matching with synonym resolution, hybrid name detection, and a unified
output schema across all sources. All heavy computation runs in the 'vectra'
C11 columnar engine.
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between taxify versions 0.5.5 dated 2026-09-18 and 0.6.0 dated 2026-09-30
taxify-0.5.5/taxify/man/taxify_candidates.Rd |only taxify-0.6.0/taxify/DESCRIPTION | 10 taxify-0.6.0/taxify/MD5 | 232 taxify-0.6.0/taxify/NAMESPACE | 8 taxify-0.6.0/taxify/NEWS.md | 4552 +++++----- taxify-0.6.0/taxify/R/add-animaltraits.R | 4 taxify-0.6.0/taxify/R/add-common-names.R | 116 taxify-0.6.0/taxify/R/add-diaz-traits.R | 96 taxify-0.6.0/taxify/R/add-euromed-distribution.R |only taxify-0.6.0/taxify/R/add-glonaf.R | 123 taxify-0.6.0/taxify/R/add-wcvp.R | 133 taxify-0.6.0/taxify/R/backbones.R | 34 taxify-0.6.0/taxify/R/backend.R | 52 taxify-0.6.0/taxify/R/basionym.R | 3 taxify-0.6.0/taxify/R/browse.R | 189 taxify-0.6.0/taxify/R/cache.R | 36 taxify-0.6.0/taxify/R/cite.R | 73 taxify-0.6.0/taxify/R/disambiguate-authorship.R | 8 taxify-0.6.0/taxify/R/enrichment-meta.R | 11 taxify-0.6.0/taxify/R/enrichment.R | 1236 ++ taxify-0.6.0/taxify/R/gbif-request.R |only taxify-0.6.0/taxify/R/inspect.R | 9 taxify-0.6.0/taxify/R/pick.R | 354 taxify-0.6.0/taxify/R/reconcile.R | 16 taxify-0.6.0/taxify/R/taxify-package.R | 2 taxify-0.6.0/taxify/R/taxify-result.R | 26 taxify-0.6.0/taxify/R/taxify.R | 237 taxify-0.6.0/taxify/README.md | 21 taxify-0.6.0/taxify/build/vignette.rds |binary taxify-0.6.0/taxify/inst/doc/backbones.R | 5 taxify-0.6.0/taxify/inst/doc/backbones.Rmd | 1112 +- taxify-0.6.0/taxify/inst/doc/backbones.html | 1403 +-- taxify-0.6.0/taxify/inst/doc/custom-data.R | 16 taxify-0.6.0/taxify/inst/doc/custom-data.Rmd | 876 - taxify-0.6.0/taxify/inst/doc/custom-data.html | 695 - taxify-0.6.0/taxify/inst/doc/enrichments.R | 153 taxify-0.6.0/taxify/inst/doc/enrichments.Rmd | 1459 +-- taxify-0.6.0/taxify/inst/doc/enrichments.html | 2733 +++--- taxify-0.6.0/taxify/inst/doc/fuzzy-matching.R | 138 taxify-0.6.0/taxify/inst/doc/fuzzy-matching.Rmd | 1118 +- taxify-0.6.0/taxify/inst/doc/fuzzy-matching.html | 1027 +- taxify-0.6.0/taxify/inst/doc/gbif-requests.R |only taxify-0.6.0/taxify/inst/doc/gbif-requests.Rmd |only taxify-0.6.0/taxify/inst/doc/gbif-requests.html |only taxify-0.6.0/taxify/inst/doc/hybrids-and-aggregates.R | 22 taxify-0.6.0/taxify/inst/doc/hybrids-and-aggregates.Rmd | 882 - taxify-0.6.0/taxify/inst/doc/hybrids-and-aggregates.html | 695 - taxify-0.6.0/taxify/inst/doc/inspecting-names.R | 12 taxify-0.6.0/taxify/inst/doc/inspecting-names.Rmd | 549 - taxify-0.6.0/taxify/inst/doc/inspecting-names.html | 310 taxify-0.6.0/taxify/inst/doc/large-scale.R | 87 taxify-0.6.0/taxify/inst/doc/large-scale.Rmd | 876 - taxify-0.6.0/taxify/inst/doc/large-scale.html | 1003 +- taxify-0.6.0/taxify/inst/doc/migration.R | 4 taxify-0.6.0/taxify/inst/doc/migration.Rmd | 486 - taxify-0.6.0/taxify/inst/doc/migration.html | 636 - taxify-0.6.0/taxify/inst/doc/quickstart.R | 176 taxify-0.6.0/taxify/inst/doc/quickstart.Rmd | 369 taxify-0.6.0/taxify/inst/doc/quickstart.html | 481 - taxify-0.6.0/taxify/inst/doc/regions.R | 31 taxify-0.6.0/taxify/inst/doc/regions.Rmd | 283 taxify-0.6.0/taxify/inst/doc/regions.html | 372 taxify-0.6.0/taxify/inst/exampledb/enrichment/animaltraits/latest/meta.json | 2 taxify-0.6.0/taxify/inst/exampledb/enrichment/euromed_distribution |only taxify-0.6.0/taxify/inst/exampledb/enrichment/glonaf/latest/glonaf.vtr |binary taxify-0.6.0/taxify/inst/exampledb/enrichment/glonaf/latest/meta.json | 53 taxify-0.6.0/taxify/inst/exampledb/enrichment/wcvp/latest/meta.json | 42 taxify-0.6.0/taxify/inst/exampledb/enrichment/wcvp/latest/wcvp.vtr |binary taxify-0.6.0/taxify/inst/manifest.json | 639 - taxify-0.6.0/taxify/man/add_animaltraits.Rd | 4 taxify-0.6.0/taxify/man/add_common_names.Rd | 6 taxify-0.6.0/taxify/man/add_diaz_traits.Rd | 10 taxify-0.6.0/taxify/man/add_euromed_distribution.Rd |only taxify-0.6.0/taxify/man/add_glonaf.Rd | 17 taxify-0.6.0/taxify/man/add_wcvp.Rd | 17 taxify-0.6.0/taxify/man/candidate_order.Rd | 7 taxify-0.6.0/taxify/man/enrichment_authorship_col.Rd |only taxify-0.6.0/taxify/man/euromed_areas.Rd |only taxify-0.6.0/taxify/man/gbif_backmatch.Rd |only taxify-0.6.0/taxify/man/gbif_fetch.Rd |only taxify-0.6.0/taxify/man/gbif_request.Rd |only taxify-0.6.0/taxify/man/inspect.Rd | 4 taxify-0.6.0/taxify/man/list_backbones.Rd | 5 taxify-0.6.0/taxify/man/reconcile.Rd | 11 taxify-0.6.0/taxify/man/score_candidates.Rd | 21 taxify-0.6.0/taxify/man/sub-.taxify_result.Rd | 2 taxify-0.6.0/taxify/man/taxify.Rd | 47 taxify-0.6.0/taxify/man/taxify_ids.Rd |only taxify-0.6.0/taxify/tests/e2e/README.md | 2 taxify-0.6.0/taxify/tests/e2e/test-asaas-validation.R | 434 taxify-0.6.0/taxify/tests/testthat/setup.R | 65 taxify-0.6.0/taxify/tests/testthat/test-abbrev.R | 17 taxify-0.6.0/taxify/tests/testthat/test-add-euromed-distribution.R |only taxify-0.6.0/taxify/tests/testthat/test-author-citations.R |only taxify-0.6.0/taxify/tests/testthat/test-basionym.R | 21 taxify-0.6.0/taxify/tests/testthat/test-browse.R | 369 taxify-0.6.0/taxify/tests/testthat/test-cache-scope.R |only taxify-0.6.0/taxify/tests/testthat/test-cite.R | 482 - taxify-0.6.0/taxify/tests/testthat/test-cross-backbone-recovery.R | 16 taxify-0.6.0/taxify/tests/testthat/test-cross-backbone-within.R |only taxify-0.6.0/taxify/tests/testthat/test-enrich-by-group-authorship.R | 120 taxify-0.6.0/taxify/tests/testthat/test-enrich-group-prefer.R |only taxify-0.6.0/taxify/tests/testthat/test-enrichment-side-paths.R | 4 taxify-0.6.0/taxify/tests/testthat/test-exports-direct.R | 6 taxify-0.6.0/taxify/tests/testthat/test-extensions.R | 391 taxify-0.6.0/taxify/tests/testthat/test-fungalroot.R | 165 taxify-0.6.0/taxify/tests/testthat/test-fuzzy-boundary.R | 19 taxify-0.6.0/taxify/tests/testthat/test-gap-verbs.R | 23 taxify-0.6.0/taxify/tests/testthat/test-gbif-request.R |only taxify-0.6.0/taxify/tests/testthat/test-inspect.R | 32 taxify-0.6.0/taxify/tests/testthat/test-match.R | 30 taxify-0.6.0/taxify/tests/testthat/test-multiple-ids.R |only taxify-0.6.0/taxify/tests/testthat/test-region.R | 7 taxify-0.6.0/taxify/tests/testthat/test-register.R | 34 taxify-0.6.0/taxify/tests/testthat/test-source-date.R | 23 taxify-0.6.0/taxify/tests/testthat/test-untested-verbs.R | 32 taxify-0.6.0/taxify/vignettes/backbones.Rmd | 1112 +- taxify-0.6.0/taxify/vignettes/custom-data.Rmd | 876 - taxify-0.6.0/taxify/vignettes/enrichments.Rmd | 1459 +-- taxify-0.6.0/taxify/vignettes/fuzzy-matching.Rmd | 1118 +- taxify-0.6.0/taxify/vignettes/gbif-requests.Rmd |only taxify-0.6.0/taxify/vignettes/hybrids-and-aggregates.Rmd | 882 - taxify-0.6.0/taxify/vignettes/inspecting-names.Rmd | 549 - taxify-0.6.0/taxify/vignettes/large-scale.Rmd | 876 - taxify-0.6.0/taxify/vignettes/migration.Rmd | 486 - taxify-0.6.0/taxify/vignettes/quickstart.Rmd | 369 taxify-0.6.0/taxify/vignettes/regions.Rmd | 283 127 files changed, 19413 insertions(+), 17366 deletions(-)
Title: Study Indicators Based on Dutch Higher Education Data (1CHO)
Description: Calculates enrolment, graduation, dropout, and programme-switch
indicators from the Dutch higher education registration data (1CHO)
supplied by DUO. Includes an interactive 'Shiny' dashboard for exploring
results.
Author: Aslam Tanjung [aut, cre],
Veerle van Son [aut],
Damiette Bakx-van den Brink [aut]
Maintainer: Aslam Tanjung <aslam.tanjung@surf.nl>
Diff between staat1cho versions 0.1.0 dated 2026-05-18 and 0.2.0 dated 2026-09-30
DESCRIPTION | 10 MD5 | 83 +- NAMESPACE | 34 NEWS.md |only R/bekostiging.R |only R/combineer.R | 167 +++- R/dashboard.R | 49 - R/definities.R |only R/instroom.R | 203 ++-- R/pseudonimisering.R |only R/rapportage.R |only R/rendement.R | 302 ++++--- R/staat1cho-package.R | 40 R/studiewissel.R | 593 +++++++------- R/synthetisch.R |only R/uitval.R | 254 +++--- R/utils.R |only R/vakhawv.R |only inst/app/app.R | 1342 ++++++++++++++++++++++++++++----- inst/doc/staat1cho.R | 86 -- inst/doc/staat1cho.Rmd | 159 ++- inst/doc/staat1cho.html | 356 ++++++-- inst/extdata/voorbeeld_1cho.csv | 14 inst/extdata/voorbeeld_vakhawv.csv |only inst/extdata/voorbeeld_vlpbek.csv |only man/BEKOSTIGINGSTATUS_CODES.Rd |only man/DEFINITIES.Rd |only man/bereken_rendement.Rd | 87 +- man/bereken_studiewissel.Rd | 132 +-- man/bereken_uitval.Rd | 112 +- man/combineer_indicatoren.Rd | 191 ++-- man/is_gepseudonimiseerd.Rd |only man/lees_bekostiging.Rd |only man/lees_vakhawv.Rd |only man/maak_basisbestand.Rd | 52 - man/maak_benchmarkrapport.Rd |only man/maak_diploma_behaald.Rd | 71 - man/maak_instroom_cohort.Rd | 80 + man/maak_synthetische_1cho.Rd |only man/schrijf_benchmarkrapport.Rd |only man/start_dashboard.Rd | 40 man/verrijk_met_bekostiging.Rd |only man/verrijk_met_vakhawv.Rd |only tests/testthat/test-bekostiging.R |only tests/testthat/test-combineer.R | 534 +++++++------ tests/testthat/test-definities.R |only tests/testthat/test-e2e.R |only tests/testthat/test-instroom.R | 335 ++++---- tests/testthat/test-pseudonimisering.R |only tests/testthat/test-rapportage.R |only tests/testthat/test-rendement.R | 603 ++++++++------ tests/testthat/test-studiewissel.R | 533 +++++++------ tests/testthat/test-uitval.R | 531 +++++++------ tests/testthat/test-vakhawv.R |only tests/testthat/test-vooropleiding.R |only vignettes/staat1cho.Rmd | 159 ++- 56 files changed, 4464 insertions(+), 2688 deletions(-)
Title: Standardized Economic Reporting and Automated Dynamic Writing /
Synthèse d'Écrits Avec des Règles Automatisées et Dynamiques
Description: Provides tools for generating dynamic and standardized
economic narratives in R Markdown documents. The package is primarily
designed for French-language statistical and economic publications.
It includes functions to describe changes in levels, percentages,
trends, accelerations and short-term economic developments using
consistent linguistic rules. The package supports automated reporting
workflows and reproducible economic writing.
Fournit des outils permettant de générer des textes économiques
dynamiques et standardisés dans des documents R Markdown. Le package
est principalement conçu pour les publications statistiques et
économiques en français. Il propose des fonctions permettant de
décrire les évolutions de niveaux, de pourcentages, de tendances,
d'accélérations et les évolutions conjoncturelles à l'aide de règles
linguistiques homogènes. Le package facilite l'automatisation de la
rédaction et la reproductibilité des publications économiques.
Author: Alexandre Cazenave-Lacroutz [aut] ,
Jules Lejas [cre],
Direction de l'animation de la recherche, des etudes et des
statistiques [cph]
Maintainer: Jules Lejas <jules.lejas@gmail.com>
Diff between serad versions 0.2.4 dated 2026-09-03 and 0.2.5 dated 2026-09-30
serad-0.2.4/serad/R/contributions.R |only serad-0.2.4/serad/R/format_delta.R |only serad-0.2.4/serad/R/format_g.R |only serad-0.2.4/serad/R/g_nom_taux.R |only serad-0.2.4/serad/R/g_verbe_taux.R |only serad-0.2.4/serad/R/plushautniveau.R |only serad-0.2.4/serad/R/quelTrim.R |only serad-0.2.4/serad/R/s.R |only serad-0.2.4/serad/man/alahausse.Rd |only serad-0.2.4/serad/man/audessus.Rd |only serad-0.2.4/serad/man/contributions.Rd |only serad-0.2.4/serad/man/davantage.Rd |only serad-0.2.4/serad/man/depasse.Rd |only serad-0.2.4/serad/man/format_delta.Rd |only serad-0.2.4/serad/man/format_g.Rd |only serad-0.2.4/serad/man/g_nom_simple.Rd |only serad-0.2.4/serad/man/g_nom_taux.Rd |only serad-0.2.4/serad/man/g_verbe_taux.Rd |only serad-0.2.4/serad/man/nextMois.Rd |only serad-0.2.4/serad/man/nextTrim.Rd |only serad-0.2.4/serad/man/plushautniveau.Rd |only serad-0.2.4/serad/man/prevMois.Rd |only serad-0.2.4/serad/man/prevTrim.Rd |only serad-0.2.4/serad/man/quelMois.Rd |only serad-0.2.4/serad/man/quelTrim.Rd |only serad-0.2.4/serad/man/s.Rd |only serad-0.2.4/serad/man/whichMois.Rd |only serad-0.2.4/serad/tests/testthat/test-contributions.R |only serad-0.2.4/serad/tests/testthat/test-format_delta.R |only serad-0.2.4/serad/tests/testthat/test-format_g.R |only serad-0.2.4/serad/tests/testthat/test-g_nom_taux.R |only serad-0.2.4/serad/tests/testthat/test-g_verbe_taux.R |only serad-0.2.4/serad/tests/testthat/test-plushautniveau.R |only serad-0.2.4/serad/tests/testthat/test-quelTrim.R |only serad-0.2.4/serad/tests/testthat/test-s.R |only serad-0.2.5/serad/DESCRIPTION | 8 serad-0.2.5/serad/MD5 | 116 +-- serad-0.2.5/serad/NAMESPACE | 24 serad-0.2.5/serad/R/a.R | 2 serad-0.2.5/serad/R/comparaison.R | 276 ++------- serad-0.2.5/serad/R/comparaison_taux.R | 2 serad-0.2.5/serad/R/format_niv.R | 37 - serad-0.2.5/serad/R/format_pts.R | 17 serad-0.2.5/serad/R/format_taux.R |only serad-0.2.5/serad/R/g.R | 2 serad-0.2.5/serad/R/g_nom.R | 33 + serad-0.2.5/serad/R/g_nom_evo.R |only serad-0.2.5/serad/R/g_verbe.R | 72 +- serad-0.2.5/serad/R/g_verbe_evo.R |only serad-0.2.5/serad/R/init_serad_doc.R | 6 serad-0.2.5/serad/R/init_serad_en.R | 8 serad-0.2.5/serad/R/init_serad_fr.R | 12 serad-0.2.5/serad/R/libelle_periode.R |only serad-0.2.5/serad/R/pluriel.R |only serad-0.2.5/serad/inst/doc/exemple.Rmd | 8 serad-0.2.5/serad/inst/doc/exemple.html | 4 serad-0.2.5/serad/inst/doc/serad.R | 149 ++--- serad-0.2.5/serad/inst/doc/serad.Rmd | 206 ++----- serad-0.2.5/serad/inst/doc/serad.html | 469 +++++++--------- serad-0.2.5/serad/man/a.Rd | 2 serad-0.2.5/serad/man/comparaison.Rd | 78 ++ serad-0.2.5/serad/man/comparaison_taux.Rd | 2 serad-0.2.5/serad/man/format_niv.Rd | 17 serad-0.2.5/serad/man/format_pts.Rd | 2 serad-0.2.5/serad/man/format_taux.Rd |only serad-0.2.5/serad/man/g.Rd | 2 serad-0.2.5/serad/man/g_nom.Rd | 9 serad-0.2.5/serad/man/g_nom_evo.Rd |only serad-0.2.5/serad/man/g_verbe.Rd | 55 + serad-0.2.5/serad/man/g_verbe_evo.Rd |only serad-0.2.5/serad/man/init_serad.Rd | 6 serad-0.2.5/serad/man/libelle_periode.Rd |only serad-0.2.5/serad/man/pluriel.Rd |only serad-0.2.5/serad/tests/testthat/test-comparaison.R | 55 - serad-0.2.5/serad/tests/testthat/test-format_niv.R | 13 serad-0.2.5/serad/tests/testthat/test-format_taux.R |only serad-0.2.5/serad/tests/testthat/test-gETa_verbe.R | 8 serad-0.2.5/serad/tests/testthat/test-gETa_verbe_taux.R | 2 serad-0.2.5/serad/tests/testthat/test-g_nom_evo.R |only serad-0.2.5/serad/tests/testthat/test-g_verbe_evo.R |only serad-0.2.5/serad/tests/testthat/test-libelle_periode.R |only serad-0.2.5/serad/tests/testthat/test-pluriel.R |only serad-0.2.5/serad/vignettes/exemple.Rmd | 8 serad-0.2.5/serad/vignettes/serad.Rmd | 206 ++----- 84 files changed, 883 insertions(+), 1033 deletions(-)
Title: Quantile Autoregressive Distributed Lag Unit Root Test
Description: Implements the Quantile Autoregressive Distributed Lag (QADF)
unit root test proposed by Koenker and Xiao (2004)
<doi:10.1198/016214504000001114>. The test examines unit root behaviour
across the conditional distribution of a time series using quantile
regression, providing a richer characterisation of persistence than
standard ADF tests. Critical values follow Hansen (1995)
<doi:10.1017/S0266466600009993>. Lag order selection is supported via
AIC, BIC, or the t-statistic sequential testing approach.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between qadf versions 1.0.0 dated 2026-03-20 and 1.0.2 dated 2026-09-30
DESCRIPTION | 8 MD5 | 16 - NAMESPACE | 13 - NEWS.md | 13 + R/qadf.R | 415 ++++++++++++++++++--------------------------- README.md | 2 build/partial.rdb |binary man/qadf.Rd | 34 ++- tests/testthat/test-qadf.R | 22 ++ 9 files changed, 241 insertions(+), 282 deletions(-)
Title: Parallel Bayesian Optimization of Hyperparameters
Description: Fast, flexible framework for implementing Bayesian optimization of model
hyperparameters according to the methods described in Snoek et al. (2012)
<doi:10.48550/arXiv.1206.2944>.
The package allows the user to run scoring function in parallel, save intermediary
results, and tweak other aspects of the process to fully utilize the computing resources
available to the user.
Author: Novica Nakov [cre],
Samuel Wilson [aut]
Maintainer: Novica Nakov <nnovica@gmail.com>
This is a re-admission after prior archival of version 1.2.6 dated 2022-10-18
Diff between ParBayesianOptimization versions 1.2.6 dated 2022-10-18 and 1.3.0 dated 2026-09-30
ParBayesianOptimization-1.2.6/ParBayesianOptimization/inst/doc/functionMaximization.Rmd |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/inst/doc/multiPointSampling.Rmd |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/inst/doc/tuningHyperparameters.Rmd |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/vignettes/functionMaximization.Rmd |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/vignettes/multiPointSampling.Rmd |only ParBayesianOptimization-1.2.6/ParBayesianOptimization/vignettes/tuningHyperparameters.Rmd |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/DESCRIPTION | 32 ParBayesianOptimization-1.3.0/ParBayesianOptimization/MD5 | 85 ParBayesianOptimization-1.3.0/ParBayesianOptimization/NAMESPACE | 105 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/NEWS.md | 75 ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/SmallFuncs.R | 452 ++-- ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/addIterations.R | 620 +++--- ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/applyNoise.R | 106 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/bayesOpt.R | 785 ++++---- ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/calcAcq.R | 70 ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/changeSaveFile.R | 78 ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/getBestPars.R | 84 ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/getLocalOptimums.R | 306 +-- ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/getNextParameters.R | 232 +- ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/plot.R | 190 +- ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/print.R | 46 ParBayesianOptimization-1.3.0/ParBayesianOptimization/R/updateGP.R | 224 +- ParBayesianOptimization-1.3.0/ParBayesianOptimization/README.md | 933 +++++----- ParBayesianOptimization-1.3.0/ParBayesianOptimization/build/vignette.rds |binary ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/functionMaximization.R | 99 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/functionMaximization.html | 652 ++---- ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/functionMaximization.qmd |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/multiPointSampling.R | 26 ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/multiPointSampling.html | 644 ++---- ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/multiPointSampling.qmd |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/tuningHyperparameters.R | 107 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/tuningHyperparameters.html | 775 +++----- ParBayesianOptimization-1.3.0/ParBayesianOptimization/inst/doc/tuningHyperparameters.qmd |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/man/bayesOpt.Rd | 4 ParBayesianOptimization-1.3.0/ParBayesianOptimization/man/changeSaveFile.Rd | 6 ParBayesianOptimization-1.3.0/ParBayesianOptimization/man/print.Rd | 38 ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat.R | 8 ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/setup.R |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-ExhaustedParameterSpace.R | 100 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-bayesOpt1D.R | 104 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-bayesOpt2D.R | 134 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-errorHandling.R | 300 +-- ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-errorHandlingInitialization.R | 284 +-- ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-hyperparameterTuning.R | 278 +- ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-iters.kTooHigh.R | 104 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-otherHalting.R | 150 - ParBayesianOptimization-1.3.0/ParBayesianOptimization/tests/testthat/test-plotting.R | 68 ParBayesianOptimization-1.3.0/ParBayesianOptimization/vignettes/functionMaximization.qmd |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/vignettes/multiPointSampling.qmd |only ParBayesianOptimization-1.3.0/ParBayesianOptimization/vignettes/tuningHyperparameters.qmd |only 50 files changed, 3947 insertions(+), 4357 deletions(-)
More information about ParBayesianOptimization at CRAN
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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] ,
Yoel Diaz-Saucedo [aut] ,
Victor-Hugo Baldera-Chaponan [aut] ,
Maria Belen Kistner [ctb] ,
QuipoLab [ctb],
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flozanoisla@gmail.com>
Diff between inti versions 0.7.4 dated 2026-09-06 and 0.7.5 dated 2026-09-30
inti-0.7.4/inti/inst/extdata/_extensions/scihub/files/render2rticle.qmd |only inti-0.7.4/inti/inst/extdata/_extensions/scihub/files/render2rticle_V1.qmd |only inti-0.7.4/inti/inst/extdata/_extensions/scihub/index.qmd |only inti-0.7.4/inti/inst/extdata/_extensions/scihub/labels.qmd |only inti-0.7.4/inti/inst/extdata/_extensions/scihub/manuscript/Figure-1.jpg |only inti-0.7.5/inti/DESCRIPTION | 6 inti-0.7.5/inti/MD5 | 88 - inti-0.7.5/inti/NAMESPACE | 10 inti-0.7.5/inti/NEWS.md | 7 inti-0.7.5/inti/R/H2cal.R | 645 +++++-- inti-0.7.5/inti/inst/doc/DoE-1_DCA.R | 24 inti-0.7.5/inti/inst/doc/DoE-1_DCA.html | 258 ++- inti-0.7.5/inti/inst/doc/DoE-1_DCA.qmd | 24 inti-0.7.5/inti/inst/doc/DoE-1_RCBD.R | 30 inti-0.7.5/inti/inst/doc/DoE-1_RCBD.html | 157 + inti-0.7.5/inti/inst/doc/DoE-1_RCBD.qmd | 30 inti-0.7.5/inti/inst/doc/DoE-2_AUG.R | 23 inti-0.7.5/inti/inst/doc/DoE-2_AUG.html | 822 ++++++++-- inti-0.7.5/inti/inst/doc/DoE-2_AUG.qmd | 25 inti-0.7.5/inti/inst/doc/DoE-2_DCA.R | 28 inti-0.7.5/inti/inst/doc/DoE-2_DCA.html | 289 ++- inti-0.7.5/inti/inst/doc/DoE-2_DCA.qmd | 30 inti-0.7.5/inti/inst/doc/DoE-2_RCBD.R | 63 inti-0.7.5/inti/inst/doc/DoE-2_RCBD.html | 476 ++++- inti-0.7.5/inti/inst/doc/DoE-2_RCBD.qmd | 65 inti-0.7.5/inti/inst/doc/DoE-2_SPLIT.R | 26 inti-0.7.5/inti/inst/doc/DoE-2_SPLIT.html | 379 +++- inti-0.7.5/inti/inst/doc/DoE-2_SPLIT.qmd | 28 inti-0.7.5/inti/inst/doc/DoE-3_DCA.R | 24 inti-0.7.5/inti/inst/doc/DoE-3_DCA.html | 461 ++++- inti-0.7.5/inti/inst/doc/DoE-3_DCA.qmd | 24 inti-0.7.5/inti/inst/doc/DoE-3_RCBD.R | 26 inti-0.7.5/inti/inst/doc/DoE-3_RCBD.html | 411 ++++- inti-0.7.5/inti/inst/doc/DoE-3_RCBD.qmd | 26 inti-0.7.5/inti/inst/doc/apps.html | 2 inti-0.7.5/inti/inst/extdata/_extensions/scihub/ReadMe.qmd |only inti-0.7.5/inti/inst/extdata/_extensions/scihub/analysis.qmd | 117 + inti-0.7.5/inti/inst/extdata/_extensions/scihub/article.qmd | 33 inti-0.7.5/inti/inst/extdata/_extensions/scihub/files/labels.qmd |only inti-0.7.5/inti/inst/extdata/_extensions/scihub/manuscript/cover-letter.pdf |only inti-0.7.5/inti/man/H2cal.Rd | 49 inti-0.7.5/inti/vignettes/DoE-1_DCA.qmd | 24 inti-0.7.5/inti/vignettes/DoE-1_RCBD.qmd | 30 inti-0.7.5/inti/vignettes/DoE-2_AUG.qmd | 25 inti-0.7.5/inti/vignettes/DoE-2_DCA.qmd | 30 inti-0.7.5/inti/vignettes/DoE-2_RCBD.qmd | 65 inti-0.7.5/inti/vignettes/DoE-2_SPLIT.qmd | 28 inti-0.7.5/inti/vignettes/DoE-3_DCA.qmd | 24 inti-0.7.5/inti/vignettes/DoE-3_RCBD.qmd | 26 49 files changed, 3616 insertions(+), 1342 deletions(-)
Title: Reproducible and Flexible Label Design
Description: An open-source R package to deploys reproducible and flexible labels using layers.
The 'huito' package is part of the 'inkaverse' project for developing different procedures and
tools used in plant science and experimental designs.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
Victor-Hugo Baldera-Chaponan [aut] ,
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flozanoisla@gmail.com>
Diff between huito versions 0.2.7 dated 2026-08-21 and 0.2.8 dated 2026-09-30
DESCRIPTION | 10 ++--- MD5 | 34 ++++++++++++------ NEWS.md | 4 ++ build/vignette.rds |binary inst/doc/GerminaR.R | 2 - inst/doc/GerminaR.html | 2 - inst/doc/GerminaR.qmd | 2 - inst/doc/horizontal.R | 3 + inst/doc/horizontal.html | 61 +++++++++++++++++----------------- inst/doc/horizontal.qmd | 3 + inst/doc/tocapu.R |only inst/doc/tocapu.html |only inst/doc/tocapu.qmd |only inst/doc/vertical.html | 8 ++-- vignettes/GerminaR.qmd | 2 - vignettes/horizontal.qmd | 3 + vignettes/tocapu-1.png |only vignettes/tocapu.qmd |only vignettes/tocapu_design_logo.jpeg |only vignettes/tocapu_design_qr.jpeg |only vignettes/tocapu_download_a4.jpeg |only vignettes/tocapu_download_hexbin.jpeg |only vignettes/tocapu_intro.jpeg |only 23 files changed, 76 insertions(+), 58 deletions(-)
Title: Generalized Covariate Field
Description: Generates generalized covariate field (GCF) variables from
spatial covariates observed at projected coordinates, and selects a
stable subset of them for geospatial prediction. For each input
covariate the method builds spatial-pattern features (local indicator
of spatial association, local Geary's c, log local variance, rank
quantile entropy, geocomplexity, log scale variance, local variogram
exponent, and signed z-score and median absolute deviation outlier
strengths over a series of buffer radii) and neighbourhood-distribution
features (buffer-wise quantiles of the covariate values surrounding
each location), reduces the buffer and quantile sweeps to a compact set
of interpretable functional summaries, and selects variables by random
forest importance combined with spatial-block stability resampling and
group voting. The GCF method is positioned as prediction-oriented
feature construction: its output feeds any downstream regression
learner. Methods are described in Song (2026)
<do [...truncated...]
Author: Yongze Song [aut, cre, cph]
Maintainer: Yongze Song <yongze.song@outlook.com>
Diff between gcf versions 0.1.0 dated 2026-09-26 and 0.1.1 dated 2026-09-30
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 16 ++++++++++++++++ R/psi.R | 10 ++++++++-- tests/testthat/test-features.R | 16 ++++++++++++++++ 5 files changed, 48 insertions(+), 10 deletions(-)
Title: Fourier ARDL Methods: Quantile, Nonlinear, Multi-Threshold &
Unit Root Tests
Description: Comprehensive implementation of advanced ARDL methodologies for
cointegration analysis with structural breaks and asymmetric effects.
Includes: (1) Fourier Quantile ARDL (FQARDL) - quantile regression with
Fourier approximation for analyzing relationships across the conditional
distribution; (2) Fourier Nonlinear ARDL (FNARDL) - asymmetric cointegration
with partial sum decomposition following Shin, Yu & Greenwood-Nimmo (2014)
<doi:10.1007/978-1-4899-8008-3_9>; (3) Multi-Threshold NARDL (MTNARDL) -
multiple regime asymmetry analysis; (4) Fourier Unit Root Tests - ADF and
KPSS tests with Fourier terms following Enders & Lee (2012)
<doi:10.1016/j.econlet.2012.04.081> and Becker, Enders & Lee (2006)
<doi:10.1111/j.1467-9892.2006.00478.x>. Features automatic lag and frequency
selection, PSS bounds testing following Pesaran, Shin & Smith (2001)
<doi:10.1002/jae.616>, bootstrap cointegration tests, Wald tests for
asymmetry, dynamic multiplier computati [...truncated...]
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between fqardl versions 1.0.5 dated 2026-09-28 and 1.0.6 dated 2026-09-30
fqardl-1.0.5/fqardl/man/fadf_pvalue.Rd |only fqardl-1.0.6/fqardl/DESCRIPTION | 6 fqardl-1.0.6/fqardl/MD5 | 16 - fqardl-1.0.6/fqardl/NEWS.md | 8 fqardl-1.0.6/fqardl/R/fourier.R | 112 +---------- fqardl-1.0.6/fqardl/R/funitroot.R | 162 ++++++++--------- fqardl-1.0.6/fqardl/man/fadf_f_test.Rd | 3 fqardl-1.0.6/fqardl/man/fourier_adf.Rd | 3 fqardl-1.0.6/fqardl/man/get_fkpss_critical_values.Rd | 2 fqardl-1.0.6/fqardl/tests/testthat/test-funitroot-cv.R |only 10 files changed, 113 insertions(+), 199 deletions(-)
Title: Fourier Bootstrap ARDL Cointegration Test
Description: Implements the Fourier Bootstrap Autoregressive Distributed Lag
(FBARDL) bounds testing approach for cointegration analysis. Combines the
Pesaran, Shin & Smith (2001) <doi:10.1002/jae.616> ARDL bounds testing
framework with Fourier terms to capture structural breaks following
Yilanci, Bozoklu & Gorus (2020) <doi:10.1016/j.scs.2020.102035>,
and bootstrap critical values based on McNown, Sam & Goh (2018)
<doi:10.1080/00036846.2017.1366643> and Bertelli, Vacca & Zoia (2022)
<doi:10.1016/j.econmod.2022.105987>, with finite-sample bounds test critical
values from Kripfganz and Schneider (2020) <doi:10.1111/obes.12377>. Features include automatic lag
selection via AIC/BIC, optimal Fourier frequency selection by minimum
SSR, long-run and short-run coefficient estimation, diagnostic tests,
and dynamic multiplier analysis.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between fbardl versions 1.0.2 dated 2026-03-12 and 1.1.0 dated 2026-09-30
DESCRIPTION | 20 - MD5 | 20 + NEWS.md |only R/fbardl.R | 135 +++++++--- R/helpers.R | 644 +++++++++++++++++++++----------------------------- R/ks_bounds.R |only R/sysdata.rda |only README.md | 2 build/partial.rdb |binary inst/CITATION |only man/fbardl-package.Rd | 6 man/fbardl.Rd | 35 ++ tests |only 13 files changed, 424 insertions(+), 438 deletions(-)
Title: Factor Analysis for All
Description: Provides a comprehensive Shiny-based graphical user interface
for conducting a wide range of factor analysis procedures. 'FAfA'
(Factor Analysis for All) guides users through data uploading,
assumption checking (descriptives, collinearity, multivariate
normality, outliers), data wrangling (variable exclusion, data
splitting), factor retention analysis (e.g., Parallel Analysis, Hull
method, EGA), Exploratory Factor Analysis (EFA) with various rotation
and extraction methods, internal split-sample EFA replication analysis,
Confirmatory Factor Analysis (CFA) for model
testing, Reliability Analysis (e.g., Cronbach's Alpha, McDonald's
Omega), Measurement Invariance testing across groups, and item
weighting techniques. The application leverages established R packages
such as 'lavaan' and 'psych' to perform these analyses, offering an
accessible platform for researchers and students. Results are
presented in user-friendly tables and plots, with options for
downloading outputs. Analysis projec [...truncated...]
Author: Abdullah Faruk KILIC [aut, cre, cph],
Ahmet Caliskan [aut, cph],
Melissa G. Wolf [ctb, cph] ,
Daniel McNeish [ctb, cph] ,
Brian P. O'Connor [ctb, cph]
Maintainer: Abdullah Faruk KILIC <afarukkilic@trakya.edu.tr>
This is a re-admission after prior archival of version 1.2 dated 2026-08-02
Diff between FAfA versions 1.2 dated 2026-08-02 and 1.4 dated 2026-09-30
FAfA-1.2/FAfA/tests/testthat/testthat-problems.rds |only FAfA-1.4/FAfA/DESCRIPTION | 30 ++-- FAfA-1.4/FAfA/MD5 | 46 +++--- FAfA-1.4/FAfA/NAMESPACE | 69 ++++----- FAfA-1.4/FAfA/NEWS.md | 10 + FAfA-1.4/FAfA/R/app_server.R | 6 FAfA-1.4/FAfA/R/app_ui.R | 1 FAfA-1.4/FAfA/R/efa_replication_utils.R |only FAfA-1.4/FAfA/R/mod_about_server.r | 8 - FAfA-1.4/FAfA/R/mod_about_ui.r | 2 FAfA-1.4/FAfA/R/mod_efa_replication_server.R |only FAfA-1.4/FAfA/R/mod_efa_replication_ui.R |only FAfA-1.4/FAfA/R/mod_efa_ui.r | 3 FAfA-1.4/FAfA/R/mod_ega_server.r | 1 FAfA-1.4/FAfA/R/mod_missing_server.r | 2 FAfA-1.4/FAfA/R/mod_project_server.R | 24 +++ FAfA-1.4/FAfA/R/project_utils.R | 33 ++++ FAfA-1.4/FAfA/R/utils.r | 132 ++++++++++++++++--- FAfA-1.4/FAfA/README.md | 13 + FAfA-1.4/FAfA/inst/COPYRIGHTS | 22 +++ FAfA-1.4/FAfA/inst/WORDLIST | 64 ++++----- FAfA-1.4/FAfA/inst/app/www/fafa-project.js | 23 +++ FAfA-1.4/FAfA/man/efa_replication_analysis.Rd |only FAfA-1.4/FAfA/man/efa_replication_server.Rd |only FAfA-1.4/FAfA/tests/testthat/test-about.R | 3 FAfA-1.4/FAfA/tests/testthat/test-efa-replication.R |only FAfA-1.4/FAfA/tests/testthat/test-project-reports.R | 15 ++ FAfA-1.4/FAfA/tests/testthat/test-removed-efatools.R |only 28 files changed, 373 insertions(+), 134 deletions(-)
Title: Methods to Enrich R Objects with Extra Components
Description: Provides the "enrich()" method for augmenting list-like R objects with additional, model-specific components. Methods are currently available for objects of class "family", "link-glm", "lm", "glm", and "betareg". Enriched objects retain their original class and remain compatible with existing methods. For example, enriching a "glm" object produces an "enriched_glm" object that also inherits from "glm". In addition to the standard components, the "enriched_glm" object includes methods for simulation and functions to compute scores, observed and expected information matrices, first-order bias, and other model quantities such as densities, probabilities, and quantiles, which can be evaluated at use-supplied parameter values. The package also provides tools for generating customizable source code templates for the structured implementation of methods to compute new components and enrich arbitrary objects.
Author: Ioannis Kosmidis [aut, cre]
Maintainer: Ioannis Kosmidis <ioannis.kosmidis@warwick.ac.uk>
Diff between enrichwith versions 0.5.0 dated 2026-04-29 and 0.6 dated 2026-09-30
enrichwith-0.5.0/enrichwith/inst/dev_resids.R |only enrichwith-0.6/enrichwith/DESCRIPTION | 10 enrichwith-0.6/enrichwith/MD5 | 68 - enrichwith-0.6/enrichwith/NAMESPACE | 32 enrichwith-0.6/enrichwith/NEWS.md | 43 - enrichwith-0.6/enrichwith/R/create_enrichwith_skeleton.R | 3 enrichwith-0.6/enrichwith/R/enrich.betareg.R | 340 ++++++-- enrichwith-0.6/enrichwith/R/enrich.family.R | 23 enrichwith-0.6/enrichwith/R/enrich.glm.R | 410 +++------- enrichwith-0.6/enrichwith/R/enrich.link-glm.R | 3 enrichwith-0.6/enrichwith/R/enrich.lm.R | 37 enrichwith-0.6/enrichwith/R/enriched_glm.R | 15 enrichwith-0.6/enrichwith/build/partial.rdb |binary enrichwith-0.6/enrichwith/build/vignette.rds |binary enrichwith-0.6/enrichwith/inst/doc/GLMs.R | 31 enrichwith-0.6/enrichwith/inst/doc/GLMs.Rmd | 47 - enrichwith-0.6/enrichwith/inst/doc/GLMs.html | 117 -- enrichwith-0.6/enrichwith/inst/doc/bias.Rmd | 2 enrichwith-0.6/enrichwith/inst/doc/exponential_family.Rmd | 2 enrichwith-0.6/enrichwith/inst/doc/exponential_family.html | 16 enrichwith-0.6/enrichwith/man/enrich.betareg.Rd | 12 enrichwith-0.6/enrichwith/man/enrich.glm.Rd | 10 enrichwith-0.6/enrichwith/man/enriched_glm.Rd | 14 enrichwith-0.6/enrichwith/man/enrichwith.Rd | 5 enrichwith-0.6/enrichwith/man/get_dmodel_function.betareg.Rd |only enrichwith-0.6/enrichwith/man/get_dmodel_function.glm.Rd | 8 enrichwith-0.6/enrichwith/man/get_information_function.betareg.Rd | 4 enrichwith-0.6/enrichwith/man/get_information_function.glm.Rd | 5 enrichwith-0.6/enrichwith/man/get_pmodel_function.betareg.Rd |only enrichwith-0.6/enrichwith/man/get_pmodel_function.glm.Rd | 9 enrichwith-0.6/enrichwith/man/get_qmodel_function.betareg.Rd |only enrichwith-0.6/enrichwith/man/get_qmodel_function.glm.Rd | 8 enrichwith-0.6/enrichwith/man/get_score_function.betareg.Rd | 4 enrichwith-0.6/enrichwith/man/get_score_function.glm.Rd | 5 enrichwith-0.6/enrichwith/vignettes/GLMs.Rmd | 47 - enrichwith-0.6/enrichwith/vignettes/bias.Rmd | 2 enrichwith-0.6/enrichwith/vignettes/exponential_family.Rmd | 2 37 files changed, 703 insertions(+), 631 deletions(-)
Title: Extracting and Visualizing Bayesian Graphical Models
Description: Fit and visualize the results of a Bayesian analysis of networks commonly found in psychology.
The package supports cross-sectional network models for ordinal, binary, continuous, and mixed data,
fitted using the packages 'bgms' (default), 'BDgraph', and 'BGGM',
as well as network comparison tests fitted using the packages 'bgms' and 'BGGM'.
The package provides the parameter estimates, posterior inclusion probabilities, inclusion Bayes factor, and the
posterior density of the parameters. In addition, for 'BDgraph' and 'bgms' it allows to assess the posterior
structure space. Furthermore, the package comes with an extensive suite for visualizing results.
Author: Karoline Huth [aut, cre] ,
Sara Keetelaar [ctb],
Nikola Sekulovski [ctb],
Gali Geller [ctb]
Maintainer: Karoline Huth <k.huth@uva.nl>
Diff between easybgm versions 0.5.0 dated 2026-09-10 and 0.5.1 dated 2026-09-30
DESCRIPTION | 6 MD5 | 32 ++-- NEWS.md | 64 ++++++++ R/AuxiliaryFunctions.R | 40 ++++- R/easybgm.R | 2 R/easybgm_compare.R | 39 +++-- R/functions.bgms.R | 58 ++++++- R/functions.bgmscompare.R | 65 +++++--- R/plottingfunctions.bgmCompare.R | 180 +++++++++++++---------- R/plottingfunctions.bgms.R | 176 ++++++++++++---------- R/plottingfunctions.easybgm.R | 205 +++++++++++++++----------- R/summary.easybgm.R | 14 + R/summary.easybgm_compare.R | 32 +++- man/easybgm.Rd | 2 man/easybgm_compare.Rd | 19 ++ tests/testthat/Rplots.pdf |binary tests/testthat/test-easybgm.R | 304 ++++++++++++++++++++++++++++++--------- 17 files changed, 861 insertions(+), 377 deletions(-)
Title: Tidy Interface for Reproducible Web Crawling
Description: A tidy, pipe-friendly toolkit for reproducible web crawling
and structured data collection, inspired by the architecture of the
'Crawlee' library. Provides a unified crawler with a deduplicating,
resumable request queue, content-type aware handlers, structured
storage backends and rich console logging via 'cli'. Supports crawling
HTML pages, sitemaps, RSS and Atom feeds and PDF documents, with optional
headless-browser rendering and helpers for retrieval-augmented generation.
Author: Andre Leite [aut, cre],
Marcos Wasiliew [aut] ,
Hugo Vasconcelos [aut],
Carlos Amorim [aut],
Diogo Bezerra [aut],
Julia Nascimento Barreto [aut]
Maintainer: Andre Leite <leite@castlab.org>
Diff between crawlee versions 0.1.0 dated 2026-07-03 and 0.1.1 dated 2026-09-30
DESCRIPTION | 27 ++++++++++++++++----------- MD5 | 9 +++++---- NEWS.md | 7 +++++++ inst/WORDLIST | 3 +++ man/crawlee-package.Rd | 5 +++-- man/figures/crawlee-rpkg.svg |only 6 files changed, 34 insertions(+), 17 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 1.7.1 dated 2026-09-16 and 1.8.0 dated 2026-09-30
couplr-1.7.1/couplr/src/solvers/solve_hungarian_rcpp.cpp |only couplr-1.7.1/couplr/src/solvers/solve_jv_lazy_rcpp.cpp |only couplr-1.7.1/couplr/src/solvers/solve_jv_rcpp.cpp |only couplr-1.8.0/couplr/DESCRIPTION | 8 couplr-1.8.0/couplr/LICENSE | 4 couplr-1.8.0/couplr/MD5 | 301 - couplr-1.8.0/couplr/NEWS.md | 148 couplr-1.8.0/couplr/R/RcppExports.R | 614 +-- couplr-1.8.0/couplr/R/couplr-package.R | 78 couplr-1.8.0/couplr/R/data.R | 606 +-- couplr-1.8.0/couplr/R/flow_model.R | 71 couplr-1.8.0/couplr/R/lap_certify.R | 101 couplr-1.8.0/couplr/R/lap_dispatch.R | 4 couplr-1.8.0/couplr/R/lap_implicit.R | 14 couplr-1.8.0/couplr/R/lap_solve.R | 101 couplr-1.8.0/couplr/R/matching_cardinality.R | 34 couplr-1.8.0/couplr/R/matching_cardinality_exact.R | 468 +- couplr-1.8.0/couplr/R/matching_core.R | 140 couplr-1.8.0/couplr/R/matching_distance_cache.R | 5 couplr-1.8.0/couplr/R/matching_full.R | 6 couplr-1.8.0/couplr/R/matching_memory.R | 17 couplr-1.8.0/couplr/R/matching_parallel.R | 4 couplr-1.8.0/couplr/R/matching_plots.R | 466 +- couplr-1.8.0/couplr/R/matching_preprocessing.R | 1024 +++--- couplr-1.8.0/couplr/R/matching_propensity.R | 304 - couplr-1.8.0/couplr/R/morph_pixel.R | 1678 +++++----- couplr-1.8.0/couplr/R/trace_aliases.R | 5 couplr-1.8.0/couplr/README.md | 31 couplr-1.8.0/couplr/inst/CITATION | 16 couplr-1.8.0/couplr/inst/NOTICE | 4 couplr-1.8.0/couplr/inst/WORDLIST | 234 - couplr-1.8.0/couplr/inst/doc/algorithms.R | 108 couplr-1.8.0/couplr/inst/doc/algorithms.Rmd | 149 couplr-1.8.0/couplr/inst/doc/algorithms.html | 106 couplr-1.8.0/couplr/inst/doc/comparison.html | 4 couplr-1.8.0/couplr/inst/doc/getting-started.html | 4 couplr-1.8.0/couplr/inst/doc/matching-workflows.html | 16 couplr-1.8.0/couplr/inst/doc/pixel-morphing.html | 4 couplr-1.8.0/couplr/inst/doc/troubleshooting.html | 4 couplr-1.8.0/couplr/inst/extdata/solver-benchmark.csv |only couplr-1.8.0/couplr/inst/scripts/generate_examples.R | 748 ++-- couplr-1.8.0/couplr/inst/scripts/speed_comparison.R | 332 - couplr-1.8.0/couplr/man/assignment.Rd | 32 couplr-1.8.0/couplr/man/cardinality_match.Rd | 23 couplr-1.8.0/couplr/man/dot-cardinality_branch_bound.Rd | 5 couplr-1.8.0/couplr/man/dot-cardinality_flow.Rd | 37 couplr-1.8.0/couplr/man/dot-cardinality_lagrangian.Rd | 25 couplr-1.8.0/couplr/man/dot-cardinality_report.Rd | 7 couplr-1.8.0/couplr/man/dot-cardinality_solve.Rd | 5 couplr-1.8.0/couplr/man/dot-couples_replace.Rd | 10 couplr-1.8.0/couplr/man/estimate_dense_matrix_mb.Rd | 8 couplr-1.8.0/couplr/man/estimate_dense_solve_mb.Rd | 9 couplr-1.8.0/couplr/man/match_couples.Rd | 15 couplr-1.8.0/couplr/man/verify_assignment.Rd | 51 couplr-1.8.0/couplr/man/verify_flow.Rd | 52 couplr-1.8.0/couplr/src/Makevars | 6 couplr-1.8.0/couplr/src/Makevars.win | 6 couplr-1.8.0/couplr/src/RcppExports.cpp | 175 - couplr-1.8.0/couplr/src/core/lap_certify.h | 115 couplr-1.8.0/couplr/src/core/lap_certify_rcpp.cpp | 247 + couplr-1.8.0/couplr/src/core/lap_exact.h | 257 + couplr-1.8.0/couplr/src/core/lap_exact_potentials.h |only couplr-1.8.0/couplr/src/core/lap_internal.h | 7 couplr-1.8.0/couplr/src/core/lap_rcpp_convert.h | 10 couplr-1.8.0/couplr/src/flow/flow_certify.h | 314 + couplr-1.8.0/couplr/src/flow/flow_implicit.h | 208 + couplr-1.8.0/couplr/src/flow/flow_implicit_rcpp.cpp | 36 couplr-1.8.0/couplr/src/flow/flow_lagrangian.h |only couplr-1.8.0/couplr/src/flow/flow_pricing.h | 17 couplr-1.8.0/couplr/src/flow/flow_rcpp.cpp | 168 - couplr-1.8.0/couplr/src/flow/flow_row_search.h | 12 couplr-1.8.0/couplr/src/flow/flow_tree_pricing.h | 34 couplr-1.8.0/couplr/src/rcpp_interface.cpp | 126 couplr-1.8.0/couplr/src/solvers/solve_hungarian.cpp | 44 couplr-1.8.0/couplr/src/solvers/solve_jv_duals.cpp | 5 couplr-1.8.0/couplr/src/solvers/solve_jv_duals.h | 7 couplr-1.8.0/couplr/src/solvers/solve_jv_duals_impl.h | 5 couplr-1.8.0/couplr/src/solvers/solve_jv_duals_rcpp.cpp | 22 couplr-1.8.0/couplr/tests/testthat.R | 24 couplr-1.8.0/couplr/tests/testthat/README.md | 256 - couplr-1.8.0/couplr/tests/testthat/gabow-tarjan/test_gabow_tarjan_moduleA.R | 258 - couplr-1.8.0/couplr/tests/testthat/gabow-tarjan/test_gabow_tarjan_moduleB.R | 316 - couplr-1.8.0/couplr/tests/testthat/gabow-tarjan/test_gabow_tarjan_moduleC.R | 318 - couplr-1.8.0/couplr/tests/testthat/gabow-tarjan/test_gabow_tarjan_moduleD.R | 344 +- couplr-1.8.0/couplr/tests/testthat/gabow-tarjan/test_gabow_tarjan_moduleE.R | 656 +-- couplr-1.8.0/couplr/tests/testthat/gabow-tarjan/test_gabow_tarjan_moduleF.R | 652 +-- couplr-1.8.0/couplr/tests/testthat/helper-gabow_tarjan.R | 114 couplr-1.8.0/couplr/tests/testthat/test-additional-coverage.R | 850 ++--- couplr-1.8.0/couplr/tests/testthat/test-assign.R | 614 +-- couplr-1.8.0/couplr/tests/testthat/test-assignment-auction-gs.R | 370 +- couplr-1.8.0/couplr/tests/testthat/test-assignment-auto.R | 86 couplr-1.8.0/couplr/tests/testthat/test-assignment-bottleneck.R | 724 ++-- couplr-1.8.0/couplr/tests/testthat/test-assignment-csa.R | 488 +- couplr-1.8.0/couplr/tests/testthat/test-assignment-csflow.R | 128 couplr-1.8.0/couplr/tests/testthat/test-assignment-hk01.R | 56 couplr-1.8.0/couplr/tests/testthat/test-assignment-hungarian.R | 76 couplr-1.8.0/couplr/tests/testthat/test-assignment-jv.R | 188 - couplr-1.8.0/couplr/tests/testthat/test-assignment-network-simplex.R | 206 - couplr-1.8.0/couplr/tests/testthat/test-assignment-push_relabel.R | 692 ++-- couplr-1.8.0/couplr/tests/testthat/test-assignment-ramshaw_tarjan.R | 636 +-- couplr-1.8.0/couplr/tests/testthat/test-assignment.R | 52 couplr-1.8.0/couplr/tests/testthat/test-auction-hang.R | 114 couplr-1.8.0/couplr/tests/testthat/test-batch-coverage-final.R | 202 - couplr-1.8.0/couplr/tests/testthat/test-batch-kbest-extended.R | 356 +- couplr-1.8.0/couplr/tests/testthat/test-batch-processing.R | 410 +- couplr-1.8.0/couplr/tests/testthat/test-blocks-coverage.R | 510 +-- couplr-1.8.0/couplr/tests/testthat/test-cardinality-exact.R | 101 couplr-1.8.0/couplr/tests/testthat/test-certificate.R | 9 couplr-1.8.0/couplr/tests/testthat/test-certify-exact.R | 97 couplr-1.8.0/couplr/tests/testthat/test-constraints-coverage.R | 398 +- couplr-1.8.0/couplr/tests/testthat/test-cpp-interface.R | 867 ++--- couplr-1.8.0/couplr/tests/testthat/test-cycle-cancel-coverage-2.R | 288 - couplr-1.8.0/couplr/tests/testthat/test-cycle-cancel-coverage.R | 272 - couplr-1.8.0/couplr/tests/testthat/test-cycle-cancel.R | 260 - couplr-1.8.0/couplr/tests/testthat/test-distance-cache-coverage.R | 2 couplr-1.8.0/couplr/tests/testthat/test-exact-arithmetic.R |only couplr-1.8.0/couplr/tests/testthat/test-external-reference.R |only couplr-1.8.0/couplr/tests/testthat/test-gabow_tarjan_complexity.R | 416 +- couplr-1.8.0/couplr/tests/testthat/test-kbest-coverage-final.R | 132 couplr-1.8.0/couplr/tests/testthat/test-kbest-lawler.R | 258 - couplr-1.8.0/couplr/tests/testthat/test-kbest-murty.R | 78 couplr-1.8.0/couplr/tests/testthat/test-lap-solve-batch-coverage-2.R | 386 +- couplr-1.8.0/couplr/tests/testthat/test-lap-solve-batch-coverage-3.R | 434 +- couplr-1.8.0/couplr/tests/testthat/test-lap-solve-batch-coverage.R | 778 ++-- couplr-1.8.0/couplr/tests/testthat/test-lap-solve-batch-extended.R | 480 +- couplr-1.8.0/couplr/tests/testthat/test-line-metric.R | 514 +-- couplr-1.8.0/couplr/tests/testthat/test-matching-cem.R | 322 - couplr-1.8.0/couplr/tests/testthat/test-matching-diagnostics-extended.R | 768 ++-- couplr-1.8.0/couplr/tests/testthat/test-matching-full.R | 326 - couplr-1.8.0/couplr/tests/testthat/test-matching-interop.R | 316 - couplr-1.8.0/couplr/tests/testthat/test-matching-join-coverage.R | 626 +-- couplr-1.8.0/couplr/tests/testthat/test-matching-messages.R | 772 ++-- couplr-1.8.0/couplr/tests/testthat/test-matching-output.R | 166 couplr-1.8.0/couplr/tests/testthat/test-matching-parallel.R | 552 +-- couplr-1.8.0/couplr/tests/testthat/test-matching-preprocessing-coverage-2.R | 830 ++-- couplr-1.8.0/couplr/tests/testthat/test-matching-preprocessing-coverage.R | 640 +-- couplr-1.8.0/couplr/tests/testthat/test-matching-subclass.R | 344 +- couplr-1.8.0/couplr/tests/testthat/test-matching-utils-coverage.R | 704 ++-- couplr-1.8.0/couplr/tests/testthat/test-matching-utils-extended.R | 798 ++-- couplr-1.8.0/couplr/tests/testthat/test-messages-coverage.R | 322 - couplr-1.8.0/couplr/tests/testthat/test-messages-extended.R | 456 +- couplr-1.8.0/couplr/tests/testthat/test-morph-pixel-cpp-coverage.R | 778 ++-- couplr-1.8.0/couplr/tests/testthat/test-morph-tiling.R | 434 +- couplr-1.8.0/couplr/tests/testthat/test-network-simplex-coverage.R | 268 - couplr-1.8.0/couplr/tests/testthat/test-parallel-join-coverage.R | 9 couplr-1.8.0/couplr/tests/testthat/test-potentials.R |only couplr-1.8.0/couplr/tests/testthat/test-prepare-cost-matrix.R | 34 couplr-1.8.0/couplr/tests/testthat/test-preprocessing-coverage.R | 452 +- couplr-1.8.0/couplr/tests/testthat/test-print-methods.R | 570 +-- couplr-1.8.0/couplr/tests/testthat/test-sensitivity.R | 248 - couplr-1.8.0/couplr/tests/testthat/test-sinkhorn.R | 418 +- couplr-1.8.0/couplr/tests/testthat/test-solver-csa.R | 600 +-- couplr-1.8.0/couplr/tests/testthat/test-utility-functions.R | 652 +-- couplr-1.8.0/couplr/tests/testthat/test-utils-extended-2.R | 396 +- couplr-1.8.0/couplr/tests/testthat/test-zzz-onload.R | 74 couplr-1.8.0/couplr/vignettes/algorithms.Rmd | 149 156 files changed, 20330 insertions(+), 18221 deletions(-)
Title: Visualization Tools for Sensitivity Analysis of Unmeasured
Confounding
Description: Visualization and reporting tools for sensitivity analysis to
unmeasured confounding in observational studies. A common
'confoundsens' object stores a sensitivity path (the treatment effect
as a function of hypothetical confounder strength) regardless of the
framework that produced it, so the same robustness curves, contour
plots, covariate benchmark ("sensitivity Love") plots, and plain-language
reports can be drawn for impact threshold analysis (Frank, 2000,
<doi:10.1177/0049124100029002001>), partial R-squared omitted-variable
bias analysis (Cinelli and Hazlett, 2020, <doi:10.1111/rssb.12348>),
and E-values (VanderWeele and Ding, 2017, <doi:10.7326/M16-2607>).
Paths can be computed directly from fitted linear models or converted
from results produced by the 'sensemakr', 'konfound', and 'EValue'
packages.
Author: Subir Hait [aut, cre]
Maintainer: Subir Hait <haitsubi@msu.edu>
Diff between confoundvis versions 0.1.0 dated 2026-03-30 and 0.2.0 dated 2026-09-30
confoundvis-0.1.0/confoundvis/R/plot_figure2_taylor_panels.R |only confoundvis-0.1.0/confoundvis/man/figures |only confoundvis-0.1.0/confoundvis/man/plot_figure2_taylor_panels.Rd |only confoundvis-0.2.0/confoundvis/DESCRIPTION | 44 - confoundvis-0.2.0/confoundvis/MD5 | 90 +- confoundvis-0.2.0/confoundvis/NAMESPACE | 14 confoundvis-0.2.0/confoundvis/NEWS.md | 66 + confoundvis-0.2.0/confoundvis/R/adapters.R |only confoundvis-0.2.0/confoundvis/R/as_confoundsens.R | 51 + confoundvis-0.2.0/confoundvis/R/new_confoundsens.R | 12 confoundvis-0.2.0/confoundvis/R/plot_reversal_cone.R | 15 confoundvis-0.2.0/confoundvis/R/plot_robustness_curve.R | 32 confoundvis-0.2.0/confoundvis/R/plot_sensitivity_love.R | 30 confoundvis-0.2.0/confoundvis/R/plot_taylor_panels.R |only confoundvis-0.2.0/confoundvis/R/print_confoundsens.R | 5 confoundvis-0.2.0/confoundvis/R/report.R |only confoundvis-0.2.0/confoundvis/R/sens_lm.R |only confoundvis-0.2.0/confoundvis/R/validate_confoundsens.R | 14 confoundvis-0.2.0/confoundvis/R/zzz-globals.R | 2 confoundvis-0.2.0/confoundvis/R/zzz.R | 36 confoundvis-0.2.0/confoundvis/README.md | 375 ++-------- confoundvis-0.2.0/confoundvis/build/partial.rdb |only confoundvis-0.2.0/confoundvis/build/vignette.rds |binary confoundvis-0.2.0/confoundvis/inst/doc/confoundvis-intro.Rmd | 25 confoundvis-0.2.0/confoundvis/inst/doc/confoundvis-intro.html | 38 - confoundvis-0.2.0/confoundvis/inst/doc/confoundvis-workflow.R |only confoundvis-0.2.0/confoundvis/inst/doc/confoundvis-workflow.Rmd |only confoundvis-0.2.0/confoundvis/inst/doc/confoundvis-workflow.html |only confoundvis-0.2.0/confoundvis/man/as.data.frame.confoundsens.Rd | 6 confoundvis-0.2.0/confoundvis/man/as_confoundsens.Rd | 46 - confoundvis-0.2.0/confoundvis/man/confoundvis-package.Rd | 41 - confoundvis-0.2.0/confoundvis/man/covariate_impacts.Rd |only confoundvis-0.2.0/confoundvis/man/fit_local_quadratic.Rd | 28 confoundvis-0.2.0/confoundvis/man/from_evalue.Rd |only confoundvis-0.2.0/confoundvis/man/from_konfound.Rd |only confoundvis-0.2.0/confoundvis/man/from_sensemakr.Rd |only confoundvis-0.2.0/confoundvis/man/itcv_lm.Rd |only confoundvis-0.2.0/confoundvis/man/new_confoundsens.Rd | 31 confoundvis-0.2.0/confoundvis/man/plot_cone_comparison.Rd | 8 confoundvis-0.2.0/confoundvis/man/plot_local_taylor.Rd | 20 confoundvis-0.2.0/confoundvis/man/plot_reversal_cone.Rd | 22 confoundvis-0.2.0/confoundvis/man/plot_robustness_curve.Rd | 30 confoundvis-0.2.0/confoundvis/man/plot_sensitivity_contour.Rd | 10 confoundvis-0.2.0/confoundvis/man/plot_sensitivity_love.Rd | 33 confoundvis-0.2.0/confoundvis/man/plot_taylor_panels.Rd |only confoundvis-0.2.0/confoundvis/man/print.confoundsens.Rd | 6 confoundvis-0.2.0/confoundvis/man/robustness_points.Rd |only confoundvis-0.2.0/confoundvis/man/sens_path_lm.Rd |only confoundvis-0.2.0/confoundvis/man/sens_report.Rd |only confoundvis-0.2.0/confoundvis/man/simulate_taylor_demo.Rd | 10 confoundvis-0.2.0/confoundvis/man/summary.confoundsens.Rd | 6 confoundvis-0.2.0/confoundvis/man/validate_confoundsens.Rd | 6 confoundvis-0.2.0/confoundvis/tests/testthat.R |only confoundvis-0.2.0/confoundvis/tests/testthat/test-adapters.R |only confoundvis-0.2.0/confoundvis/tests/testthat/test-geometry_plots.R |only confoundvis-0.2.0/confoundvis/tests/testthat/test-report.R |only confoundvis-0.2.0/confoundvis/tests/testthat/test-sens_lm.R |only confoundvis-0.2.0/confoundvis/vignettes/confoundvis-intro.Rmd | 25 confoundvis-0.2.0/confoundvis/vignettes/confoundvis-workflow.Rmd |only 59 files changed, 657 insertions(+), 520 deletions(-)
Title: Multiple Granger Causality Tests for Time Series and Panel Data
Description: Comprehensive suite of Granger causality tests for time series
and panel data. For time series: Toda-Yamamoto (1995)
<doi:10.1016/0304-4076(94)01616-8>, Fourier-based tests with single
frequency (Enders and Jones, 2016) <doi:10.1515/snde-2014-0101> and
cumulative frequencies (Nazlioglu et al., 2019)
<doi:10.1080/1540496X.2018.1434072>, quantile causality tests (Cai et al.,
2023) <doi:10.1016/j.frl.2023.104327>, and Bootstrap Fourier Granger
Causality in Quantiles (Cheng et al., 2021)
<doi:10.1007/s12076-020-00263-0>. For panel data: Panel Fourier
Toda-Yamamoto (Yilanci and Gorus, 2020)
<doi:10.1007/s11356-020-10092-9> and Panel Quantile Causality tests
(Wang and Nguyen, 2022) <doi:10.1080/1331677X.2021.1948436>, as well as
Group-Mean and Pooled Fully Modified OLS estimators for panel
cointegrating polynomial regressions (Wagner and Reichold, 2023)
<doi:10.1080/07474938.2023.2178141>. All tests include bootstrap
inference for robust p-valu [...truncated...]
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between caustests versions 1.1.1 dated 2026-04-05 and 1.1.4 dated 2026-09-30
DESCRIPTION | 8 - MD5 | 26 ++-- NEWS.md | 19 ++ R/caustests-package.R | 4 R/caustests.R | 30 ++-- R/xtpcaus.R | 2 R/xtpcmg.R | 102 ++++++++++++--- README.md | 126 +++++++++---------- build/partial.rdb |binary inst |only man/caustests-package.Rd | 239 ++++++++++++++++++------------------- man/xtpcaus.Rd | 2 man/xtpcmg.Rd | 1 tests/testthat.R | 2 tests/testthat/test-xtpcmg-stata.R |only 15 files changed, 322 insertions(+), 239 deletions(-)
Title: Comprehensive ARDL: Panel, Bootstrap and Fourier Methods
Description: A unified framework for Autoregressive Distributed Lag (ARDL) modeling
and cointegration analysis. Implements Panel ARDL with Pooled Mean Group (PMG),
Mean Group (MG), and Dynamic Fixed Effects (DFE) estimators following
Pesaran, Shin and Smith (1999) <doi:10.1080/01621459.1999.10474156>.
Provides bootstrap-based bounds testing per Pesaran, Shin & Smith (2001)
<doi:10.1002/jae.616>. Includes Quantile Nonlinear ARDL (QNARDL) combining
distributional and asymmetric effects based on Shin, Yu & Greenwood-Nimmo (2014)
<doi:10.1007/978-1-4899-8008-3_9>, and Fourier ARDL for modeling smooth
structural breaks following Enders & Lee (2012) <doi:10.1016/j.econlet.2012.04.081>.
Features include Augmented ARDL (AARDL) with deferred t and F tests,
Multiple-Threshold NARDL for complex asymmetries, Rolling/Recursive ARDL
for time-varying relationships, and Panel NARDL for nonlinear panel cointegration.
All methods include comprehensive diagnostics, publication-read [...truncated...]
Author: Muhammad Abdullah Alkhalaf [aut, cre] ,
Yeleazar Levchenko [ctb] )
Maintainer: Muhammad Abdullah Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between ardlverse versions 2.0.2 dated 2026-09-28 and 2.0.3 dated 2026-09-30
DESCRIPTION | 6 - MD5 | 38 +++++---- NEWS.md | 12 ++ R/augmented_ardl.R | 75 +++++++++--------- R/bootstrap_ardl.R | 158 ++++++++++++++++++--------------------- R/diagnostics.R | 22 +++-- R/fourier_ardl.R | 87 +++++++++++---------- R/ks_bounds.R |only R/mtnardl.R | 28 ++++-- R/panel_nardl.R | 52 +++++++++--- R/qnardl.R | 51 +++++++----- R/rolling_ardl.R | 30 +++++-- R/sysdata.rda |only build |only man/dot-aardl_bootstrap.Rd | 2 man/dot-aardl_critical_values.Rd | 7 + man/dot-mtnardl_bootstrap.Rd | 2 man/dot-pss_pvalues.Rd |only man/fourier_bounds_test.Rd | 49 +++++------- man/pss_critical_values.Rd | 76 +++++++++--------- tests/testthat/Rplots.pdf |only tests/testthat/test-ks-bounds.R |only tests/testthat/test-panel_ardl.R | 2 23 files changed, 385 insertions(+), 312 deletions(-)
Title: Sampling Error Estimation for Complex Surveys
Description: Estimates sampling errors and produces indicator tables for
complex survey data. Supports weighted totals, proportions, standard
errors, confidence intervals (Wald or logit-transformed for
proportions), coefficients of variation, design effects,
unweighted frequencies, grouped estimates, domain estimates, optional
stratification and clustering variables, and customizable exports to
'.xlsx' files. Survey estimation is based on design-based inference using
Taylor series linearization implemented in the 'survey' package (Lumley,
2004, <doi:10.18637/jss.v009.i08>; Lumley, 2010,
ISBN:9780470284308). The package provides a reproducible workflow for
official statistics, household surveys, and applied survey research.
Author: Luis Burgos [aut, cre]
Maintainer: Luis Burgos <lburgoss1996@gmail.com>
Diff between svySE versions 0.2.1 dated 2026-07-31 and 0.3.0 dated 2026-09-30
DESCRIPTION | 9 MD5 | 74 - NAMESPACE | 36 NEWS.md | 32 R/calculo.R | 77 + R/columnas.R | 732 +++++----- R/config.R | 94 + R/exportar.R | 2046 ++++++++++++++--------------- R/simple.R | 1288 +++++++++--------- README.md | 1784 +++++++++++++------------ build/vignette.rds |binary inst/CITATION | 4 inst/doc/svySE-basic-workflow.R | 82 + inst/doc/svySE-basic-workflow.Rmd | 1572 ++++++++++++---------- inst/doc/svySE-basic-workflow.html | 1091 +++++++++------ man/figures/workflow.png |only man/print.svySE_cfg.Rd | 40 man/print.svySE_result.Rd | 44 man/print.svySE_simple_result.Rd | 38 man/svySE_calc.Rd | 122 - man/svySE_cfg.Rd | 68 man/svySE_chk_bool.Rd | 42 man/svySE_chk_cols.Rd | 46 man/svySE_cols_err.Rd | 54 man/svySE_cols_err_all.Rd | 32 man/svySE_cols_tab.Rd | 72 - man/svySE_cols_tab_all.Rd | 30 man/svySE_is_cfg.Rd | 38 man/svySE_simple.Rd | 148 +- man/svySE_xlsx.Rd | 174 +- tests/testthat/test-calculo-ci.R |only tests/testthat/test-calculo-diseno.R | 522 +++---- tests/testthat/test-calculo-division.R | 528 +++---- tests/testthat/test-calculo-validaciones.R | 962 ++++++------- tests/testthat/test-columnas.R | 396 ++--- tests/testthat/test-config.R | 388 ++--- tests/testthat/test-exportar.R | 536 +++---- tests/testthat/test-simple.R | 788 +++++------ vignettes/svySE-basic-workflow.Rmd | 1572 ++++++++++++---------- 39 files changed, 8324 insertions(+), 7237 deletions(-)
Title: Fit Difference-in-Differences Models with Staggered
Interventions
Description: Fits linear difference-in-differences models in scenarios where
intervention roll-outs are staggered over time. The package implements a
version of an approach proposed by Sun and Abraham (2021)
<doi:10.1016/j.jeconom.2020.09.006> to estimate cohort- and
time-since-treatment specific difference-in-differences parameters, and it
provides convenience functions both for specifying the model and for
flexibly aggregating coefficients to answer a variety of research questions.
Author: Kyle Hart [aut, cre, cph] ,
Stephan Lindner [aut]
Maintainer: Kyle Hart <hartky@ohsu.edu>
Diff between staggR versions 0.2.1 dated 2026-09-22 and 0.2.2 dated 2026-09-30
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/prep_data.R | 2 -- R/sdid.R | 5 +++++ R/select_terms.R | 17 +++++++++++------ inst/doc/staggR.html | 2 +- 7 files changed, 31 insertions(+), 18 deletions(-)
Title: Read and Write MAT Files and Call MATLAB from Within R
Description: Methods readMat() and writeMat() for reading and writing MAT files. For users with MATLAB v6 or newer installed (either locally or on a remote host), the package also provides methods for controlling MATLAB (trademark) via R and sending and retrieving data between R and MATLAB.
Author: Henrik Bengtsson [aut, cre, cph] ,
Andy Jacobson [ctb] ,
Jason Riedy [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between R.matlab versions 3.8.0 dated 2026-09-09 and 3.8.1 dated 2026-09-30
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- NEWS.md | 7 +++++++ R/readMat.R | 2 ++ inst/mat-files/emptyString_issue59-v5.mat |only man/R.matlab-package.Rd | 2 +- 6 files changed, 18 insertions(+), 8 deletions(-)
Title: Phylogenetic Tree Models and the Power of Tree Shape Statistics
Description: The first goal of this package is to provide a multitude of tree models,
i.e., functions that generate rooted binary trees with a given number of leaves.
Second, the package allows for an easy evaluation and comparison of tree shape
statistics by estimating their power to differentiate between different tree models.
Please note that this R package was developed alongside the manuscript
'Tree balance in phylogenetic models' by
S. J. Kersting, K. Wicke, and M. Fischer (2025) <doi:10.1098/rstb.2023.0303>,
which provides further background and the respective mathematical definitions.
This project was supported by the project ArtIGROW, which is a part of the
WIR!-Alliance ArtIFARM – Artificial Intelligence in Farming funded by the
German Federal Ministry of Education and Research (No. 03WIR4805).
Author: Sophie Kersting [aut, cre] ,
Kristina Wicke [aut] ,
Mareike Fischer [aut]
Maintainer: Sophie Kersting <sophie.kersting@uni-greifswald.de>
Diff between poweRbal versions 0.1.0 dated 2026-04-15 and 0.1.1 dated 2026-09-30
DESCRIPTION | 6 +++--- MD5 | 11 ++++++----- NEWS.md |only R/powerData.R | 4 ++++ R/powerRegAcc.R | 24 ++++++++++++------------ R/tmAll.R | 10 ++++++---- man/generateTrees.Rd | 4 ++-- 7 files changed, 33 insertions(+), 26 deletions(-)
Title: Fast and Efficient Access to MODIS Earth Observation Data
Description: Programmatic interface to several NASA Earth Observation 'OPeNDAP' servers (Open-source Project for a Network Data Access Protocol) (<https://www.opendap.org/>). Allows for easy downloads of MODIS subsets, as well as other Earth Observation datacubes, in a time-saving and efficient way : by sampling it at the very downloading phase (spatially, temporally and dimensionally).
Author: Paul Taconet [aut, cre, cph] ,
Nicolas Moiroux [fnd] ,
French National Research Institute for Sustainable Development, IRD
[fnd]
Maintainer: Paul Taconet <paul.taconet@gmail.com>
Diff between modisfast versions 1.0.2 dated 2025-07-17 and 2.0.0 dated 2026-09-30
modisfast-1.0.2/modisfast/R/mf_get_opt_param.R |only modisfast-1.0.2/modisfast/R/mf_login.R |only modisfast-1.0.2/modisfast/man/mf_get_opt_param.Rd |only modisfast-1.0.2/modisfast/man/mf_login.Rd |only modisfast-1.0.2/modisfast/tests/testthat/test-mf_login.R |only modisfast-2.0.0/modisfast/DESCRIPTION | 21 modisfast-2.0.0/modisfast/MD5 | 70 modisfast-2.0.0/modisfast/NAMESPACE | 33 modisfast-2.0.0/modisfast/NEWS.md | 41 modisfast-2.0.0/modisfast/R/buildUrls.R | 257 - modisfast-2.0.0/modisfast/R/functions_import_data.R | 64 modisfast-2.0.0/modisfast/R/gpm_parameters.R |only modisfast-2.0.0/modisfast/R/import_modis_cloud.R |only modisfast-2.0.0/modisfast/R/internal_gpm_metadata.R |only modisfast-2.0.0/modisfast/R/internal_gpm_variables.R |only modisfast-2.0.0/modisfast/R/internal_opendap.R | 12 modisfast-2.0.0/modisfast/R/internal_tests.R | 110 modisfast-2.0.0/modisfast/R/mf_download_data.R | 77 modisfast-2.0.0/modisfast/R/mf_get_url.R | 441 +- modisfast-2.0.0/modisfast/R/mf_get_url_gpm.R |only modisfast-2.0.0/modisfast/R/mf_import_data.R | 44 modisfast-2.0.0/modisfast/R/mf_list_collections_cloud.R |only modisfast-2.0.0/modisfast/R/mf_list_variables.R | 164 modisfast-2.0.0/modisfast/R/mf_modisfast.R | 23 modisfast-2.0.0/modisfast/R/sysdata.rda |binary modisfast-2.0.0/modisfast/README.md | 1889 ++++++++-- modisfast-2.0.0/modisfast/data/entomological_data.rda |binary modisfast-2.0.0/modisfast/inst/extdata |only modisfast-2.0.0/modisfast/man/mf_download_data.Rd | 20 modisfast-2.0.0/modisfast/man/mf_get_url.Rd | 105 modisfast-2.0.0/modisfast/man/mf_import_data.Rd | 22 modisfast-2.0.0/modisfast/man/mf_list_collections_cloud.Rd |only modisfast-2.0.0/modisfast/man/mf_list_variables.Rd | 37 modisfast-2.0.0/modisfast/man/mf_modisfast.Rd | 36 modisfast-2.0.0/modisfast/man/modisfast-package.Rd | 5 modisfast-2.0.0/modisfast/tests/testthat/helper-modisfast.R | 17 modisfast-2.0.0/modisfast/tests/testthat/test-import_modis_cloud.R |only modisfast-2.0.0/modisfast/tests/testthat/test-mf_download_data.R | 37 modisfast-2.0.0/modisfast/tests/testthat/test-mf_get_url.R | 201 - modisfast-2.0.0/modisfast/tests/testthat/test-mf_get_url_cloud.R |only modisfast-2.0.0/modisfast/tests/testthat/test-mf_import_data.R | 86 modisfast-2.0.0/modisfast/tests/testthat/test-mf_list_collections.R | 13 modisfast-2.0.0/modisfast/tests/testthat/test-mf_list_variables.R | 88 43 files changed, 2568 insertions(+), 1345 deletions(-)
Title: Fast, Simple API Tools for Retrieving Data from 'DeltaBreed'
Description: Simplified data retrieval from the 'DeltaBreed' breeding
data management platform (<https://sandbox.breedinginsight.net/>) via the
'BrAPI' open-source breeding data API (<https://brapi.org/specification>).
Each of the four main data types stored in 'DeltaBreed' (germplasm, trait variables,
experiments/environments, and observations) are handled by a get_datatype()
function that constructs and executes the request, handles paginated responses,
and parses the retrieved data. Responses are reformatted into a consistent,
R-friendly data frame format that resembles how the data appears on the
'DeltaBreed' web interface as closely as possible.
Author: Tyr Wiesner-Hanks [aut, cre]
Maintainer: Tyr Wiesner-Hanks <twiesnerhanks@ufl.edu>
Diff between deltabreedquery versions 1.0.3 dated 2026-08-25 and 1.0.4 dated 2026-09-30
DESCRIPTION | 6 - MD5 | 27 +++--- R/authentication.R | 2 R/experiments.R | 9 +- R/observations.R | 134 +++++++++++++++++++++++++--------- R/variables.R | 6 - README.md | 3 man/figures/logo_deltabreedquery.png |only man/filter_observations.Rd | 18 +++- man/get_experiments.Rd | 9 +- man/get_observations.Rd | 18 +++- man/get_variables.Rd | 5 - man/login_deltabreed.Rd | 2 tests/testthat/test-empty_endpoints.R | 5 - tests/testthat/test-get_functions.R | 2 15 files changed, 162 insertions(+), 84 deletions(-)
More information about deltabreedquery at CRAN
Permanent link
Title: Conditional Inference Procedures in a Permutation Test Framework
Description: Conditional inference procedures for the general independence
problem including two-sample, K-sample (non-parametric ANOVA),
correlation, censored, ordered and multivariate problems described
in <doi:10.18637/jss.v028.i08>.
Author: Torsten Hothorn [aut, cre] ,
Henric Winell [aut] ,
Kurt Hornik [aut] ,
Mark A. van de Wiel [aut] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between coin versions 1.4-5 dated 2026-07-10 and 1.4-6 dated 2026-09-30
DESCRIPTION | 6 ++-- MD5 | 44 ++++++++++++++++---------------- R/InitMethods.R | 37 +++++++++++++++++++++----- R/SymmetryTests.R | 16 +++++++---- build/partial.rdb |binary build/vignette.rds |binary cleanup | 8 +++++ inst/NEWS.Rd | 10 ++++++- inst/doc/Implementation.pdf |binary inst/doc/LegoCondInf.pdf |binary inst/doc/MAXtest.pdf |binary inst/doc/coin.pdf |binary man/ContingencyTests.Rd | 3 ++ man/CorrelationTests.Rd | 4 ++ man/IndependenceTest.Rd | 1 man/LocationTests.Rd | 6 ++++ man/MarginalHomogeneityTests.Rd | 1 man/MaximallySelectedStatisticsTests.Rd | 1 man/ScaleTests.Rd | 6 ++++ man/SurvivalTests.Rd | 2 + man/SymmetryTest.Rd | 1 man/SymmetryTests.Rd | 4 ++ tests/bugfixes.Rout.save | 16 ++++------- 23 files changed, 116 insertions(+), 50 deletions(-)
Title: Extracts Risk Neutral Densities of Prices, Money Market Rates
and Government Bond Yields from Interest Rates Futures Options
Prices
Description: Provides with parametric Risk Neutral Densities (RNDs) and cumulative densities of futures prices on fixed-income products. It relies on options on Short Term Interest Rate futures or options on government bond futures. It models the futures price at options' maturity as a mixture of lognormal densities. Leveraging on this, the package provides with the RNDs and cumulative densities of the money market rate or the government bond yield inferred from the futures price, using the RND of the futures price. The package also extracts from options prices on bond futures in one go the RND of the cheapest-to-deliver (ctd) bond repo rate from options' to futures' maturity and the RND of the ctd bond yield at options' maturity. The package also provides with the probability attached to each bond in the delivery basket of a government bond futures to be the cheapest at options' maturity from an examination of either the implied repo rate or the net basis of bonds in the delivery basket. At last, [...truncated...]
Author: William Arrata [aut, cre]
Maintainer: William Arrata <william.arrata@gmail.com>
Diff between yrnd versions 0.1.6 dated 2026-08-28 and 0.1.7 dated 2026-09-30
DESCRIPTION | 8 MD5 | 56 NAMESPACE | 2 R/bond_fut_irr_ytm.R | 225 R/bond_future_charac_bbg.R | 1 R/bond_future_price.R | 7 R/bond_yield_spread.R | 7 R/ctd_bond_yield.R | 7 R/deliv_bonds_charac_bbg.R | 14 R/globals.R | 3 R/option_prices_bbg.R | 6 R/proba_ctd.R | 15 R/proba_ctd_irr.R |only R/proba_ctd_opt.R | 76 R/stir_future_price.R | 7 R/stir_rate.R | 7 inst/doc/yrnd-functions.R | 213 inst/doc/yrnd-functions.Rmd | 243 inst/doc/yrnd-functions.html |10829 +----------------------------------------- man/bond_fut_irr_ytm.Rd | 28 man/bond_future_price.Rd | 2 man/bond_yield_spread.Rd | 2 man/ctd_bond_yield.Rd | 2 man/deliv_bonds_charac_bbg.Rd | 2 man/proba_ctd.Rd | 6 man/proba_ctd_irr.Rd |only man/proba_ctd_opt.Rd | 6 man/stir_future_price.Rd | 2 man/stir_rate.Rd | 2 vignettes/yrnd-functions.Rmd | 243 30 files changed, 687 insertions(+), 11334 deletions(-)
Title: Spatial Concentration and Radius-Based Risk Calculations
Description: Provides computational building blocks for fixed-radius spatial
aggregation, weighted circle-placement problems, hotspot detection, and
polygon-based spatial summaries. The package focuses on efficient
determination of the sum of observations within a given radius, identifying
areas of high local concentration, and aggregating point data to polygon
geometries. These methods are useful for applications such as insurance,
urban analytics, environmental exposure analysis, and other spatial point
pattern workflows. The fixed-radius circle placement problem is discussed
by Chazelle and Lee (1986) <doi:10.1007/BF02238188>, and
related maximum covering problems are described by Church (1974)
<doi:10.1007/BF01942293>.
Author: Martin Haringa [aut, cre]
Maintainer: Martin Haringa <mtharinga@gmail.com>
Diff between spatialrisk versions 0.8.2 dated 2026-09-01 and 0.8.3 dated 2026-09-30
DESCRIPTION | 8 MD5 | 31 +- NAMESPACE | 88 ++++--- NEWS.md | 18 + R/RcppExports.R | 4 R/concentration_hotspot_pair_refine.R | 14 - R/highest_concentration_terra.R | 59 +++-- R/hotspot-workflow.R | 3 inst/doc/fixed-radius-concentration.Rmd | 12 - inst/doc/fixed-radius-concentration.html | 61 +++-- inst/doc/visualisation.html | 2 man/concentration_hotspot.Rd | 16 + man/prepare_spatialrisk.Rd | 3 src/RcppExports.cpp | 20 + src/concentration_hotspot_indexed.cpp | 224 +++++++++++++++----- tests/testthat/test-hotspot-numerical-consistency.R |only vignettes/fixed-radius-concentration.Rmd | 12 - 17 files changed, 398 insertions(+), 177 deletions(-)
Title: qPCR Data Analysis
Description: Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, Wilcoxon-test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.
Author: Ghader Mirzaghaderi [aut, cre, cph]
Maintainer: Ghader Mirzaghaderi <mirzaghaderi@gmail.com>
Diff between rtpcr versions 2.1.9 dated 2026-08-21 and 2.2.0 dated 2026-09-30
DESCRIPTION | 6 MD5 | 35 - NAMESPACE | 1 NEWS.md | 8 R/ANOVA_DCt.R | 2 R/ANOVA_DDCt.R | 2 R/TTEST_DDCt.R | 2 R/WILCOX_DDCt.R | 2 R/compute_wDCt.R | 84 +-- R/plotFactor.R | 333 ++++++------ R/qpcrhlpr.R | 243 ++++++++ inst/doc/manual.Rmd | 6 inst/doc/manual.html | 7 inst/extdata/data_3factorMultiTarget.csv |only inst/shinyapp/app.R | 134 ++++ inst/shinyapp/rsconnect/shinyapps.io/mirzaghaderi/rtpcr.dcf | 2 man/compute_wDCt.Rd | 27 man/plotFactor.Rd | 180 +++--- vignettes/manual.Rmd | 6 19 files changed, 746 insertions(+), 334 deletions(-)
Title: 'Rcpp' Bindings for the 'fast_float' Header-Only Library for
Number Parsing
Description: Converting ascii text into (floating-point) numeric values is a
very common problem. The 'fast_float' header-only 'C++' library by Daniel Lemire
does it very well and very fast at up to or over to 1 gigabyte per second as
described in more detail in <doi:10.1002/spe.2984>. 'fast_float' is
licensed under the Apache 2.0 license and provided here for use by other R
packages via a simple 'LinkingTo:' statement.
Author: Dirk Eddelbuettel [aut, cre] ,
Brendan Knapp [aut] ,
Daniel Lemire [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppFastFloat versions 0.0.5 dated 2025-01-15 and 0.0.6 dated 2026-09-30
.aspell |only ChangeLog | 38 + DESCRIPTION | 18 MD5 | 30 R/RcppExports.R | 2 README.md | 3 inst/NEWS.Rd | 9 inst/include/fast_float/ascii_number.h | 385 ++++++++++-- inst/include/fast_float/bigint.h | 4 inst/include/fast_float/constexpr_feature_detect.h | 9 inst/include/fast_float/decimal_to_binary.h | 7 inst/include/fast_float/digit_comparison.h | 19 inst/include/fast_float/fast_float.h | 44 + inst/include/fast_float/float_common.h | 658 +++++++++++++++++++-- inst/include/fast_float/parse_number.h | 264 ++++++-- man/as.double2.Rd | 3 src/as_double2.cpp | 2 17 files changed, 1283 insertions(+), 212 deletions(-)
Title: Tools and Classes for Statistical Models
Description: A collection of tools to deal with statistical models.
The functionality is experimental and the user interface is likely to
change in the future. The documentation is rather terse, but packages `coin'
and `party' have some working examples. However, if you find the
implemented ideas interesting we would be very interested in a discussion
of this proposal. Contributions are more than welcome!
Author: Torsten Hothorn [aut, cre] ,
Friedrich Leisch [aut] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between modeltools versions 0.2-24 dated 2025-05-02 and 0.2-25 dated 2026-09-30
DESCRIPTION | 9 +++++---- MD5 | 8 ++++---- R/Generics.R | 6 ------ R/survReg.R | 11 ++++------- inst/NEWS | 8 ++++++++ 5 files changed, 21 insertions(+), 21 deletions(-)
Title: Index Construction for Time Series Data
Description: Derivation of indexes for benchmarking purposes. A methodology with flexible number of constituents is implemented. Also functions for market capitalization and volume weighted indexes with fixed number of constituents are available. The main function of the package, indexComp(), provides the derived index, suitable for analysis purposes. The functions indexUpdate(), indexMemberSelection() and indexMembersUpdate() are components of indexComp() and enable one to construct and continuously update an index, e.g. for display on a website. The methodology behind the functions provided gets introduced in Trimborn and Haerdle (2018) <doi:10.1016/j.jempfin.2018.08.004>.
Author: Simon Trimborn [aut, cre]
Maintainer: Simon Trimborn <trimborn.econometrics@gmail.com>
Diff between IndexConstruction versions 0.1-3 dated 2020-06-02 and 0.2-1 dated 2026-09-30
IndexConstruction-0.1-3/IndexConstruction/data/datalist |only IndexConstruction-0.2-1/IndexConstruction/DESCRIPTION | 17 IndexConstruction-0.2-1/IndexConstruction/MD5 | 32 - IndexConstruction-0.2-1/IndexConstruction/R/IndexComp.R | 102 +++- IndexConstruction-0.2-1/IndexConstruction/R/IndexEval.R | 2 IndexConstruction-0.2-1/IndexConstruction/R/IndexLoop.R | 22 - IndexConstruction-0.2-1/IndexConstruction/R/IndexMemberSelection.R | 6 IndexConstruction-0.2-1/IndexConstruction/build |only IndexConstruction-0.2-1/IndexConstruction/data/CryptoData.RData |binary IndexConstruction-0.2-1/IndexConstruction/man/IndexComp.Rd | 220 +++++----- IndexConstruction-0.2-1/IndexConstruction/man/IndexMemberSelection.Rd | 162 +++---- IndexConstruction-0.2-1/IndexConstruction/man/IndexMembersUpdate.Rd | 94 ++-- IndexConstruction-0.2-1/IndexConstruction/man/IndexUpdate.Rd | 78 +-- IndexConstruction-0.2-1/IndexConstruction/man/RelativeWeights.Rd | 2 IndexConstruction-0.2-1/IndexConstruction/man/SwitchDates.Rd | 70 +-- IndexConstruction-0.2-1/IndexConstruction/man/marketData.Rd | 34 - IndexConstruction-0.2-1/IndexConstruction/man/priceData.Rd | 34 - IndexConstruction-0.2-1/IndexConstruction/man/volData.Rd | 34 - 18 files changed, 498 insertions(+), 411 deletions(-)
More information about IndexConstruction at CRAN
Permanent link
Title: Icon-Based Population Charts and Plots for 'ggplot2'
Description: Create engaging population charts and point plots in R. 'ggpop' allows users to represent population data and points proportionally using customizable icons, facilitating the creation of circular representative population charts as well as any point-plots.
Author: Jorge A. Roa-Contreras [aut, cre] ,
Ralitza Soultanova [aut] ,
Fernando Alarid-Escudero [aut] ,
Carlos Pineda-Antunez [aut]
Maintainer: Jorge A. Roa-Contreras <jorgeroa@stanford.edu>
Diff between ggpop versions 1.8.0 dated 2026-08-23 and 1.9.0 dated 2026-09-30
ggpop-1.8.0/ggpop/tests/testthat/Rplots.pdf |only ggpop-1.9.0/ggpop/DESCRIPTION | 8 +- ggpop-1.9.0/ggpop/MD5 | 43 +++++++------ ggpop-1.9.0/ggpop/NAMESPACE | 5 + ggpop-1.9.0/ggpop/NEWS.md | 31 +++++++++ ggpop-1.9.0/ggpop/R/key_legend.R | 13 ++- ggpop-1.9.0/ggpop/R/legend-canvas.R | 14 ++-- ggpop-1.9.0/ggpop/R/legend-spec.R |only ggpop-1.9.0/ggpop/R/marker-encode.R |only ggpop-1.9.0/ggpop/README.md | 2 ggpop-1.9.0/ggpop/inst/CITATION | 2 ggpop-1.9.0/ggpop/inst/doc/v-geom-pop.html | 6 - ggpop-1.9.0/ggpop/inst/doc/v-ggpop.html | 2 ggpop-1.9.0/ggpop/inst/doc/v-process-data.html | 8 +- ggpop-1.9.0/ggpop/inst/doc/v-themes.html | 6 - ggpop-1.9.0/ggpop/inst/icons/circle-cross.svg | 8 +- ggpop-1.9.0/ggpop/inst/icons/circle-hollow.svg | 2 ggpop-1.9.0/ggpop/inst/icons/circle-solid.svg | 2 ggpop-1.9.0/ggpop/man/key_legend.Rd | 5 - ggpop-1.9.0/ggpop/man/legend_add_key.Rd |only ggpop-1.9.0/ggpop/man/legend_box.Rd | 7 +- ggpop-1.9.0/ggpop/man/legend_render.Rd |only ggpop-1.9.0/ggpop/man/legend_spec.Rd |only ggpop-1.9.0/ggpop/man/legend_subset.Rd |only ggpop-1.9.0/ggpop/man/marker_encode.Rd |only ggpop-1.9.0/ggpop/tests/testthat/test-18_marker-encode.R |only ggpop-1.9.0/ggpop/tests/testthat/test-19_legend-spec.R |only ggpop-1.9.0/ggpop/tests/testthat/test-20_legend-variants.R |only 28 files changed, 109 insertions(+), 55 deletions(-)
Title: Data Validation Based on 'YAML' Rules
Description: A comprehensive data validation package that allows comparing
datasets using configurable validation rules defined in 'YAML' files.
Built on top of the 'pointblank' package for robust data validation, it
supports exact matching, tolerance-based numeric comparisons, text
normalization, and row count validation.
Author: Vincent Guyader [cre, aut] ,
ThinkR [cph],
Agence technique de l'information sur l'hospitalisation [spn]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between datadiff versions 0.6.0 dated 2026-07-12 and 0.6.1 dated 2026-09-30
DESCRIPTION | 6 MD5 | 118 - NAMESPACE | 66 NEWS.md | 1332 ++++++++--------- R/compare_datasets_from_yaml.R | 2035 +++++++++++++------------- R/constants.R | 82 - R/coverage.R | 373 ++-- R/data_types.R | 120 - R/datadiff-result.R | 102 - R/duplicate_keys.R | 158 +- R/fast_path.R | 182 +- R/pointblank_setup.R | 375 ++-- R/preprocessing.R | 260 +-- R/report.R | 652 ++++---- R/tolerance.R | 806 +++++----- R/utils.R | 130 - R/validation.R | 166 +- README.md | 870 +++++------ build/vignette.rds |binary inst/doc/datadiff.Rmd | 1970 ++++++++++++------------- inst/doc/datadiff.html | 2 man/compare_datasets_from_yaml.Rd | 347 ++-- man/datadiff_report_html.Rd | 66 man/detect_column_types.Rd | 58 man/preprocess_dataframe.Rd | 74 man/print.datadiff_report.Rd | 42 man/setup_pointblank_agent.Rd | 205 +- man/validate_row_counts.Rd | 82 - man/write_rules_template.Rd | 175 +- tests/testthat/helper-equivalence.R | 266 +-- tests/testthat/test-arrow-dataset-to-duckdb.R | 164 +- tests/testthat/test-avoidable-scans.R | 136 - tests/testthat/test-boolean-column-guards.R | 68 tests/testthat/test-coverage.R | 506 +++--- tests/testthat/test-default-rules.R | 528 +++--- tests/testthat/test-duplicate-keys.R | 298 +-- tests/testthat/test-edge-cases.R | 1762 +++++++++++----------- tests/testthat/test-equivalence-guard.R | 358 ++-- tests/testthat/test-extract-diagnostics.R | 198 +- tests/testthat/test-extraction-params.R | 942 ++++++------ tests/testthat/test-factor-columns.R | 198 +- tests/testthat/test-input-validation.R | 424 ++--- tests/testthat/test-internal-coverage.R | 110 - tests/testthat/test-internal-helpers.R | 94 - tests/testthat/test-key-parameter.R | 718 ++++----- tests/testthat/test-keys-empty-list.R |only tests/testthat/test-lazy-aggregates.R | 272 +-- tests/testthat/test-main.R | 254 +-- tests/testthat/test-na-equality-semantics.R | 164 +- tests/testthat/test-nan-inf-sql-equivalence.R | 294 +-- tests/testthat/test-pointblank-setup.R | 402 ++--- tests/testthat/test-report-extracts-dir.R | 144 - tests/testthat/test-report-robustness.R | 142 - tests/testthat/test-report.R | 808 +++++----- tests/testthat/test-response-field.R | 152 - tests/testthat/test-temp-tables.R | 116 - tests/testthat/test-tolerance-non-numeric.R |only tests/testthat/test-tolerance-ok.R | 208 +- tests/testthat/test-utils.R | 342 ++-- tests/testthat/test-yaml-arg-precedence.R | 312 +-- vignettes/datadiff.Rmd | 1970 ++++++++++++------------- 61 files changed, 11710 insertions(+), 11494 deletions(-)
Title: Bayesian Analyses for One- and Two-Sample Inference and
Regression Methods
Description: Perform fundamental analyses using Bayesian parametric and non-parametric inference (regression, anova, 1 and 2 sample inference, non-parametric tests, etc.). (Practically) no Markov chain Monte Carlo (MCMC) is used; all exact finite sample inference is completed via closed form solutions or else through posterior sampling automated to ensure precision in interval estimate bounds. Diagnostic plots for model assessment, and key inferential quantities (point and interval estimates, probability of direction, region of practical equivalence, and Bayes factors) and model visualizations are provided. Bayes factors are computed either by the Savage Dickey ratio given in Dickey (1971) <doi:10.1214/aoms/1177693507> or by Chib's method as given in <doi:10.1080/01621459.1995.10476635>. Interpretations are from Kass and Raftery (1995) <doi:10.1080/01621459.1995.10476572>. ROPE bounds are based on discussions in Kruschke (2018) <doi:10.1177/2515245918771304>. Methods for d [...truncated...]
Author: Daniel K. Sewell [aut, cre, cph] ,
Alan Arakkal [aut]
Maintainer: Daniel K. Sewell <daniel-sewell@uiowa.edu>
Diff between bayesics versions 3.0.2 dated 2026-08-28 and 3.1.0 dated 2026-09-30
DESCRIPTION | 6 MD5 | 136 ++++++------ NAMESPACE | 366 ++++++++++++++++---------------- NEWS.md | 15 + R/IC.R | 19 + R/aov_b.R | 9 R/bayes_factors.R | 5 R/bayes_pvalue.R | 11 R/bma_inference.R | 2 R/case_control_b.R | 6 R/chisq_test_b.R | 16 + R/coef.R | 5 R/cor_test_b.R | 13 - R/find_beta_parms.R | 5 R/find_invgamma_parms.R | 7 R/get_posterior_draws.R | 8 R/glm_b.R | 13 - R/lm_b-class.R | 2 R/mediate_b.R | 9 R/np_glm_b.R | 6 R/plot.R | 12 - R/plot_bands.R | 7 R/plot_dx.R | 13 + R/poisson_test_b.R | 6 R/predict.R | 10 R/print.R | 119 ++-------- R/prop_test_b.R | 10 R/sign_test_b.R | 2 R/summary.R | 382 +++++++++++++++++++++++++++++++++- R/t_test_b.R | 6 R/vcov.R | 7 R/wilcoxon_test_b.R | 10 man/IC.Rd | 19 - man/aov_b.Rd | 8 man/bayes_factors.Rd | 5 man/bayes_pvalue.Rd | 9 man/bma_inference.Rd | 2 man/case_control_b.Rd | 6 man/chisq_test_b.Rd | 10 man/coef.Rd | 3 man/cor_test_b.Rd | 10 man/find_beta_parms.Rd | 4 man/find_invgamma_parms.Rd | 6 man/get_posterior_draws.Rd | 6 man/glm_b.Rd | 13 - man/lm_b-class.Rd | 2 man/mediate_b.Rd | 9 man/np_glm_b.Rd | 6 man/plot.Rd | 11 man/plot_bands.Rd | 5 man/plot_dx.Rd | 11 man/poisson_test_b.Rd | 6 man/predict.Rd | 9 man/print.Rd | 4 man/prop_test_b.Rd | 8 man/sign_test_b.Rd | 2 man/summary.Rd | 20 + man/t_test_b.Rd | 6 man/vcov.Rd | 5 man/wilcoxon_test_b.Rd | 6 tests/testthat/test-case_control_b.R | 9 tests/testthat/test-chisq_test_b.R | 1 tests/testthat/test-cor_test_b.R | 5 tests/testthat/test-poisson_test_b.R | 9 tests/testthat/test-prop_test_b.R | 6 tests/testthat/test-sign_test_b.R | 6 tests/testthat/test-survfit_b.R | 10 tests/testthat/test-t_test_b.R | 7 tests/testthat/test-wilcoxon_test_b.R | 5 69 files changed, 1050 insertions(+), 462 deletions(-)
Title: Deal with Dependencies
Description: Manage dependencies during package development. This can
retrieve all dependencies that are used in ".R" files in the "R/"
directory, in ".Rmd" files in "vignettes/" directory and in 'roxygen2'
documentation of functions. There is a function to update the
"DESCRIPTION" file of your package with 'CRAN' packages or any other
remote package. All functions to retrieve dependencies of ".R"
scripts and ".Rmd" or ".qmd" files can be used independently of a
package development.
Author: Vincent Guyader [cre, aut] ,
Sebastien Rochette [aut] ,
Murielle Delmotte [aut] ,
Swann Floc'hlay [aut] ,
ThinkR [cph, fnd]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between attachment versions 1.1.0 dated 2026-08-20 and 1.2.0 dated 2026-09-30
DESCRIPTION | 8 MD5 | 55 NEWS.md | 70 R/att_from_rscripts.R | 150 + R/att_to_description.R | 92 + build/vignette.rds |binary inst/doc/a-fill-pkg-description.R | 198 +- inst/doc/a-fill-pkg-description.Rmd | 14 inst/doc/a-fill-pkg-description.html | 1212 ++++++++-------- inst/doc/b-bookdown-and-scripts.R | 102 - inst/doc/b-bookdown-and-scripts.html | 955 ++++++------ inst/doc/create-dependencies-file.R | 68 inst/doc/create-dependencies-file.html | 825 +++++----- inst/doc/use_renv.R | 40 inst/doc/use_renv.html | 785 +++++----- man/att_amend_desc.Rd | 6 man/attachment-deprecated.Rd | 6 tests/testthat/f1.Rmd | 15 tests/testthat/f1Rmd | 174 +- tests/testthat/f2.R | 15 tests/testthat/f2R | 96 - tests/testthat/fake_namespace | 12 tests/testthat/quarto.qmd | 94 - tests/testthat/test-att_amend_desc_depends.R |only tests/testthat/test-att_amend_desc_pin_kept.R |only tests/testthat/test-att_amend_desc_version_pins_types.R |only tests/testthat/test-renv_create.R | 60 tests/testthat/test-renv_create2.R | 8 tests/testthat/test-rscript-partial-arg-matching.R |only tests/testthat/test-rscript-variable-is-not-a-package.R |only vignettes/a-fill-pkg-description.Rmd | 14 31 files changed, 2715 insertions(+), 2359 deletions(-)
Title: Text Mining Package
Description: A framework for text mining applications within R.
Author: Ingo Feinerer [aut] ,
Kurt Hornik [aut, cre] ,
Artifex Software, Inc. [ctb, cph]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tm versions 0.7-19 dated 2026-08-13 and 0.7-20 dated 2026-09-30
DESCRIPTION | 12 ++++++------ MD5 | 20 +++++++++++--------- NAMESPACE | 2 ++ R/generics.R |only R/pdftools.R | 4 ++-- build/partial.rdb |binary inst/NEWS.Rd | 11 +++++++++++ inst/doc/extensions.pdf |binary inst/doc/tm.pdf |binary man/generics.Rd |only man/meta.Rd | 1 - man/readTagged.Rd | 2 +- 12 files changed, 33 insertions(+), 19 deletions(-)
Title: Prior Diagnostics and Sensitivity Analysis
Description: Provides functions for prior and likelihood sensitivity analysis in Bayesian models. Currently it implements methods to determine the sensitivity of the posterior to power-scaling perturbations of the prior and likelihood.
Author: Noa Kallioinen [aut, cre] ,
Topi Paananen [aut] ,
Paul-Christian Buerkner [aut] ,
Aki Vehtari [aut] ,
Frank Weber [ctb] ,
Simon Taylor [rev],
Dylan Dijk [rev]
Maintainer: Noa Kallioinen <noa.kallioinen@helsinki.fi>
Diff between priorsense versions 1.2.0 dated 2025-10-28 and 1.4.0 dated 2026-09-30
priorsense-1.2.0/priorsense/R/get_draws.R |only priorsense-1.2.0/priorsense/inst/doc/powerscaling.R |only priorsense-1.2.0/priorsense/inst/doc/powerscaling.html |only priorsense-1.2.0/priorsense/inst/doc/powerscaling.qmd |only priorsense-1.2.0/priorsense/man/powerscale_plots.Rd |only priorsense-1.2.0/priorsense/vignettes/powerscaling.qmd |only priorsense-1.4.0/priorsense/DESCRIPTION | 57 priorsense-1.4.0/priorsense/MD5 | 164 +- priorsense-1.4.0/priorsense/NAMESPACE | 2 priorsense-1.4.0/priorsense/NEWS.md | 24 priorsense-1.4.0/priorsense/R/additional_divergence_measures.R | 194 +- priorsense-1.4.0/priorsense/R/brms-functions.R | 48 priorsense-1.4.0/priorsense/R/cjs.R | 67 priorsense-1.4.0/priorsense/R/create_priorsense_data.R | 70 priorsense-1.4.0/priorsense/R/ewcdf.R | 14 priorsense-1.4.0/priorsense/R/example_powerscale_model.R | 214 +- priorsense-1.4.0/priorsense/R/find_alpha_threshold.R | 50 priorsense-1.4.0/priorsense/R/helpers.R | 40 priorsense-1.4.0/priorsense/R/log_lik_draws.R | 48 priorsense-1.4.0/priorsense/R/log_prior_draws.R | 67 priorsense-1.4.0/priorsense/R/measure_divergence.R | 13 priorsense-1.4.0/priorsense/R/plots.R | 819 ++++++---- priorsense-1.4.0/priorsense/R/powerscale.R | 181 +- priorsense-1.4.0/priorsense/R/powerscale_derivative.R | 27 priorsense-1.4.0/priorsense/R/powerscale_gradients.R | 115 - priorsense-1.4.0/priorsense/R/powerscale_sensitivity.R | 147 + priorsense-1.4.0/priorsense/R/powerscale_sequence.R | 121 - priorsense-1.4.0/priorsense/R/print.R | 33 priorsense-1.4.0/priorsense/R/priorsense-package.R | 22 priorsense-1.4.0/priorsense/R/scale_draws.R | 10 priorsense-1.4.0/priorsense/R/scaled_log_ratio.R | 10 priorsense-1.4.0/priorsense/R/srr-stats-standards.R | 4 priorsense-1.4.0/priorsense/R/summarise_draws.R | 46 priorsense-1.4.0/priorsense/R/sysdata.rda |binary priorsense-1.4.0/priorsense/R/weighted_quantities.R | 88 - priorsense-1.4.0/priorsense/R/whiten_draws.R | 4 priorsense-1.4.0/priorsense/README.md | 184 -- priorsense-1.4.0/priorsense/build/vignette.rds |binary priorsense-1.4.0/priorsense/inst/CITATION | 149 + priorsense-1.4.0/priorsense/inst/auto |only priorsense-1.4.0/priorsense/inst/doc/getting_started.R |only priorsense-1.4.0/priorsense/inst/doc/getting_started.html |only priorsense-1.4.0/priorsense/inst/doc/getting_started.qmd |only priorsense-1.4.0/priorsense/inst/doc/papers.html |only priorsense-1.4.0/priorsense/inst/doc/papers.qmd |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_brms.R |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_brms.html |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_brms.qmd |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_jags.R | 70 priorsense-1.4.0/priorsense/inst/doc/priorsense_with_jags.html | 153 - priorsense-1.4.0/priorsense/inst/doc/priorsense_with_jags.qmd | 72 priorsense-1.4.0/priorsense/inst/doc/priorsense_with_nimble.R |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_nimble.html |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_nimble.qmd |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_stan.R |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_stan.html |only priorsense-1.4.0/priorsense/inst/doc/priorsense_with_stan.qmd |only priorsense-1.4.0/priorsense/inst/extdata |only priorsense-1.4.0/priorsense/inst/logo/logo.R | 47 priorsense-1.4.0/priorsense/man/cjs_dist.Rd | 2 priorsense-1.4.0/priorsense/man/create-priorsense-data.Rd | 6 priorsense-1.4.0/priorsense/man/example_powerscale_model.Rd | 16 priorsense-1.4.0/priorsense/man/figures/logo.svg |only priorsense-1.4.0/priorsense/man/log_prior_draws.Rd | 2 priorsense-1.4.0/priorsense/man/powerscale-gradients.Rd | 33 priorsense-1.4.0/priorsense/man/powerscale-overview.Rd | 49 priorsense-1.4.0/priorsense/man/powerscale-plots.Rd |only priorsense-1.4.0/priorsense/man/powerscale-sensitivity.Rd | 58 priorsense-1.4.0/priorsense/man/priorsense-package.Rd | 23 priorsense-1.4.0/priorsense/tests/testthat/_snaps/plots/normal-model-density-plot.svg | 516 ++---- priorsense-1.4.0/priorsense/tests/testthat/_snaps/plots/normal-model-ecdf-plot.svg | 486 ++--- priorsense-1.4.0/priorsense/tests/testthat/_snaps/plots/normal-model-quantities-plot.svg | 548 +++--- priorsense-1.4.0/priorsense/tests/testthat/test_brms.R |only priorsense-1.4.0/priorsense/tests/testthat/test_cjs.R | 3 priorsense-1.4.0/priorsense/tests/testthat/test_cmdstan.R | 4 priorsense-1.4.0/priorsense/tests/testthat/test_component_name.R |only priorsense-1.4.0/priorsense/tests/testthat/test_conjugate.R | 191 +- priorsense-1.4.0/priorsense/tests/testthat/test_deriv.R | 18 priorsense-1.4.0/priorsense/tests/testthat/test_div_measures.R | 26 priorsense-1.4.0/priorsense/tests/testthat/test_jags.R |only priorsense-1.4.0/priorsense/tests/testthat/test_moment_matching.R | 34 priorsense-1.4.0/priorsense/tests/testthat/test_nimble.R |only priorsense-1.4.0/priorsense/tests/testthat/test_plots.R | 120 - priorsense-1.4.0/priorsense/tests/testthat/test_powerscale.R | 181 +- priorsense-1.4.0/priorsense/tests/testthat/test_print.R | 1 priorsense-1.4.0/priorsense/tests/testthat/test_resample.R | 37 priorsense-1.4.0/priorsense/tests/testthat/test_rstan.R | 89 - priorsense-1.4.0/priorsense/tests/testthat/test_scale_draws.R | 15 priorsense-1.4.0/priorsense/tests/testthat/test_variables.R | 28 priorsense-1.4.0/priorsense/tests/testthat/test_whiten_draws.R | 10 priorsense-1.4.0/priorsense/vignettes/_quarto.yaml |only priorsense-1.4.0/priorsense/vignettes/getting_started.qmd |only priorsense-1.4.0/priorsense/vignettes/papers.bib |only priorsense-1.4.0/priorsense/vignettes/papers.csl |only priorsense-1.4.0/priorsense/vignettes/papers.qmd |only priorsense-1.4.0/priorsense/vignettes/priorsense_with_brms.qmd |only priorsense-1.4.0/priorsense/vignettes/priorsense_with_jags.qmd | 72 priorsense-1.4.0/priorsense/vignettes/priorsense_with_nimble.qmd |only priorsense-1.4.0/priorsense/vignettes/priorsense_with_stan.qmd |only 99 files changed, 3340 insertions(+), 2602 deletions(-)
Title: 'PLINK' 2 Binary (.pgen) Reader
Description: A thin wrapper over 'PLINK' 2's core libraries which provides an R
interface for reading .pgen files. A minimal .pvar loader and a basic
.pgen writer are also included. Chang et al. (2015) <doi:10.1186/s13742-015-0047-8>.
Author: Christopher Chang [aut, cre],
Eric Biggers [ctb, cph] ,
Yann Collet [ctb] ,
Meta Platforms, Inc. [cph] ,
Evan Nemerson [ctb, cph] ,
Przemyslaw Skibinski [ctb] ,
Nick Terrell [ctb]
Maintainer: Christopher Chang <chrchang@alumni.caltech.edu>
Diff between pgenlibr versions 0.6.2 dated 2026-06-05 and 0.7.0 dated 2026-09-30
DESCRIPTION | 16 MD5 | 92 +- NAMESPACE | 6 NEWS.md | 6 R/RcppExports.R | 111 +++ build/partial.rdb |binary configure.ac | 2 man/AppendAlleles.Rd |only man/AppendBiallelic.Rd |only man/AppendDosages.Rd |only man/ClosePgenWriter.Rd |only man/GetWrittenVariantCt.Rd |only man/NewPgenWriter.Rd |only man/pgenlibr-package.Rd | 8 src/Makevars.in | 10 src/Makevars.win | 2 src/RcppExports.cpp | 80 ++ src/pgenlibr.cpp | 548 ++++++++++++++ tests |only tools/include/include/pgenlib_ffi_support.cc | 174 ++++ tools/include/include/pgenlib_ffi_support.h | 24 tools/include/include/pgenlib_misc.cc | 45 + tools/include/include/pgenlib_misc.h | 17 tools/include/include/pgenlib_read.cc | 992 +++++++++++++++++++++------ tools/include/include/pgenlib_read.h | 2 tools/include/include/pgenlib_write.cc |only tools/include/include/pgenlib_write.h |only tools/include/include/plink2_base.cc | 24 tools/include/include/plink2_base.h | 13 tools/include/include/plink2_bgzf.cc | 2 tools/include/include/plink2_bgzf.h | 2 tools/include/include/plink2_bits.cc | 4 tools/include/include/plink2_bits.h | 18 tools/include/include/plink2_float.cc | 86 ++ tools/include/include/plink2_float.h | 300 ++++++++ tools/include/include/plink2_htable.cc | 2 tools/include/include/plink2_htable.h | 2 tools/include/include/plink2_memory.cc | 2 tools/include/include/plink2_memory.h | 2 tools/include/include/plink2_simd.cc | 2 tools/include/include/plink2_simd.h | 2 tools/include/include/plink2_string.cc | 2 tools/include/include/plink2_string.h | 33 tools/include/include/plink2_text.cc | 2 tools/include/include/plink2_text.h | 2 tools/include/include/plink2_thread.cc | 2 tools/include/include/plink2_thread.h | 2 tools/include/include/plink2_zstfile.cc | 2 tools/include/include/plink2_zstfile.h | 2 tools/include/include/pvar_ffi_support.cc | 2 tools/include/include/pvar_ffi_support.h | 2 51 files changed, 2325 insertions(+), 322 deletions(-)
Title: Stepwise Covariate Modeling for 'nlmixr2' Models
Description: Stepwise covariate modeling (SCM) for nonlinear mixed-effects
models fitted with 'nlmixr2'. Forward inclusion and backward elimination
are driven by likelihood-ratio tests, and the covariate terms are
generated inside the model body, so continuous covariates are centered
and categorical covariates expanded into indicator columns without
editing the model by hand. Candidate fits can be cached and resumed,
fitted in parallel, and reviewed through per-step and all-candidate
summary tables. The approach follows Jonsson and Karlsson (1998)
<doi:10.1023/A:1011970125687>, and the implementation in
'Perl-speaks-NONMEM' described by Lindbom, Ribbing and Jonsson (2004)
<doi:10.1016/j.cmpb.2003.11.003>.
Author: Justin Wilkins [aut, cre, cph] ,
Matthew Fidler [aut] ,
Yaping Liu [aut] ,
Bill Denney [aut] ,
Vipul Mann [aut],
Vishal Sarsani [aut] ,
Christian Bartels [ctb]
Maintainer: Justin Wilkins <justin.wilkins@occams.com>
Diff between nlmixr2scm versions 0.4 dated 2026-09-24 and 0.4.1 dated 2026-09-30
DESCRIPTION | 6 MD5 | 23 NAMESPACE | 3 NEWS.md | 149 - R/scm.R | 117 - R/summary.R |only README.md | 388 +-- inst/doc/runSCM.Rmd | 375 ++- inst/doc/runSCM.html | 485 ++-- man/runSCM.Rd | 24 man/summary.nlmixr2scm.Rd |only tests/testthat/test-scm.R | 4395 +++++++++++++++++++++--------------------- tests/testthat/test-summary.R |only vignettes/runSCM.Rmd | 375 ++- 14 files changed, 3430 insertions(+), 2910 deletions(-)
Title: Multivariate Probit Models
Description: Tools for estimating multivariate probit models,
calculating conditional and unconditional expectations,
and calculating marginal effects on conditional and unconditional
expectations.
Author: Arne Henningsen [aut, cre]
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between mvProbit versions 0.1-10 dated 2021-01-11 and 0.1-12 dated 2026-09-30
DESCRIPTION | 16 ++++++++++------ MD5 | 22 +++++++++++----------- R/mvProbitExp.R | 2 +- R/mvProbitLogLik.R | 2 +- R/mvProbitMargEff.R | 2 +- inst/NEWS.Rd | 5 +++++ tests/mvProbitEst.R | 2 +- tests/mvProbitMargEff2.R | 2 +- tests/mvProbitMargEff2.Rout.save | 20 +++++--------------- tests/mvProbitTest.R | 2 +- tests/pmvnormWrapTest.R | 4 ++-- tests/pmvnormWrapTest.Rout.save | 22 ++++++---------------- 12 files changed, 45 insertions(+), 56 deletions(-)
Title: Information-Theoretic Measures for Revealing Variable
Interactions
Description: Implements information-theoretic measures to explore variable interactions, including KSG mutual information estimation for continuous variables from Kraskov et al. (2004) <doi:10.1103/PhysRevE.69.066138>, knockoff conditional mutual information described in Zhang & Chen (2025) <doi:10.1126/sciadv.adu6464>, synergistic-unique-redundant decomposition introduced by Martinez-Sanchez et al. (2024) <doi:10.1038/s41467-024-53373-4>, and information imbalance gain following Del Tatto et al. (2024) <doi:10.1073/pnas.2317256121>, allowing detection of complex and diverse relationships among variables.
Author: Wenbo Lyu [aut, cre, cph]
Maintainer: Wenbo Lyu <lyu.geosocial@gmail.com>
Diff between infoxtr versions 0.2 dated 2026-03-30 and 0.3 dated 2026-09-30
infoxtr-0.2/infoxtr/inst/doc/surd.Rmd |only infoxtr-0.2/infoxtr/inst/doc/surd.html |only infoxtr-0.2/infoxtr/vignettes/surd.Rmd |only infoxtr-0.2/infoxtr/vignettes/surd.Rmd.orig |only infoxtr-0.3/infoxtr/DESCRIPTION | 11 infoxtr-0.3/infoxtr/MD5 | 96 ++-- infoxtr-0.3/infoxtr/NAMESPACE | 26 - infoxtr-0.3/infoxtr/NEWS.md | 42 + infoxtr-0.3/infoxtr/R/Agenerics.R | 24 - infoxtr-0.3/infoxtr/R/RcppExports.R | 56 +- infoxtr-0.3/infoxtr/R/discretize.R | 81 +-- infoxtr-0.3/infoxtr/R/entropy.R | 242 +++++------ infoxtr-0.3/infoxtr/R/infoimbalance.R |only infoxtr-0.3/infoxtr/R/infoxtr-package.R | 8 infoxtr-0.3/infoxtr/R/internal_utility.R | 76 +-- infoxtr-0.3/infoxtr/R/kocmi.R | 106 ++-- infoxtr-0.3/infoxtr/R/surd.R | 134 +++--- infoxtr-0.3/infoxtr/R/te.R | 60 +- infoxtr-0.3/infoxtr/R/zzz.R | 7 infoxtr-0.3/infoxtr/README.md | 36 + infoxtr-0.3/infoxtr/build/vignette.rds |binary infoxtr-0.3/infoxtr/inst/CITATION | 20 infoxtr-0.3/infoxtr/inst/doc/main1_imbalance.Rmd |only infoxtr-0.3/infoxtr/inst/doc/main1_imbalance.html |only infoxtr-0.3/infoxtr/inst/doc/main2_surd.Rmd |only infoxtr-0.3/infoxtr/inst/doc/main2_surd.html |only infoxtr-0.3/infoxtr/inst/include/infoxtr.h | 1 infoxtr-0.3/infoxtr/inst/include/infoxtr/distance.hpp | 135 +++++- infoxtr-0.3/infoxtr/inst/include/infoxtr/infoimbalance.hpp |only infoxtr-0.3/infoxtr/inst/include/infoxtr/kocmi.hpp | 35 - infoxtr-0.3/infoxtr/inst/include/infoxtr/ksginfo.hpp | 26 - infoxtr-0.3/infoxtr/inst/include/infoxtr/lagg.hpp | 36 + infoxtr-0.3/infoxtr/inst/include/infoxtr/neighbor.hpp | 35 + infoxtr-0.3/infoxtr/inst/include/infoxtr/transferentropy.hpp | 9 infoxtr-0.3/infoxtr/man/ce.Rd | 68 +-- infoxtr-0.3/infoxtr/man/cmi.Rd | 97 ++-- infoxtr-0.3/infoxtr/man/discretize.Rd | 124 ++--- infoxtr-0.3/infoxtr/man/entropy.Rd | 65 +- infoxtr-0.3/infoxtr/man/figures/ig |only infoxtr-0.3/infoxtr/man/figures/surd/fig_surd_cvds-1.png |binary infoxtr-0.3/infoxtr/man/imbalance_gain.Rd |only infoxtr-0.3/infoxtr/man/info_imbalance.Rd |only infoxtr-0.3/infoxtr/man/je.Rd | 64 +- infoxtr-0.3/infoxtr/man/kocmi.Rd | 182 ++++---- infoxtr-0.3/infoxtr/man/mi.Rd | 88 ++-- infoxtr-0.3/infoxtr/man/surd.Rd | 206 ++++----- infoxtr-0.3/infoxtr/man/te.Rd | 114 ++--- infoxtr-0.3/infoxtr/src/DistExps.cpp | 11 infoxtr-0.3/infoxtr/src/InfoImbalance.cpp |only infoxtr-0.3/infoxtr/src/InfotheoExps.cpp | 24 - infoxtr-0.3/infoxtr/src/KOCMI.cpp | 5 infoxtr-0.3/infoxtr/src/NNExps.cpp | 6 infoxtr-0.3/infoxtr/src/RcppExports.cpp | 163 +++++-- infoxtr-0.3/infoxtr/src/SURD.cpp | 19 infoxtr-0.3/infoxtr/vignettes/main1_imbalance.Rmd |only infoxtr-0.3/infoxtr/vignettes/main1_imbalance.Rmd.orig |only infoxtr-0.3/infoxtr/vignettes/main2_surd.Rmd |only infoxtr-0.3/infoxtr/vignettes/main2_surd.Rmd.orig |only 58 files changed, 1412 insertions(+), 1126 deletions(-)
Title: Taichi-Diagram Visualization for Two Data Sources
Description: A data visualization design that compares two (usually on a par
with each other) data sources on one grid of taichi (yin-yang) diagrams,
where the two interlocking fish of every symbol are filled by the two
sources, while inheriting 'ggplot2' features.
Author: Youzhi Yu [aut, cre]
Maintainer: Youzhi Yu <yuyouzhi666@icloud.com>
Diff between ggtaichi versions 0.2.0 dated 2026-08-24 and 0.3.0 dated 2026-09-30
ggtaichi-0.2.0/ggtaichi/man/figures/README-palettes-1.png |only ggtaichi-0.2.0/ggtaichi/man/figures/README-pitts-small-1.png |only ggtaichi-0.2.0/ggtaichi/man/figures/README-states-1.png |only ggtaichi-0.3.0/ggtaichi/DESCRIPTION | 14 ggtaichi-0.3.0/ggtaichi/MD5 | 120 - ggtaichi-0.3.0/ggtaichi/NAMESPACE | 21 ggtaichi-0.3.0/ggtaichi/NEWS.md | 412 ++++ ggtaichi-0.3.0/ggtaichi/R/data.R | 12 ggtaichi-0.3.0/ggtaichi/R/explicit.R |only ggtaichi-0.3.0/ggtaichi/R/geom-taichi.R | 975 ++++++++-- ggtaichi-0.3.0/ggtaichi/R/ggtaichi-package.R | 12 ggtaichi-0.3.0/ggtaichi/R/interactive.R |only ggtaichi-0.3.0/ggtaichi/R/keys.R |only ggtaichi-0.3.0/ggtaichi/R/palette.R |only ggtaichi-0.3.0/ggtaichi/R/remove-padding.R | 70 ggtaichi-0.3.0/ggtaichi/R/scales.R |only ggtaichi-0.3.0/ggtaichi/R/theme-options.R | 17 ggtaichi-0.3.0/ggtaichi/R/utils.R |only ggtaichi-0.3.0/ggtaichi/R/zzz.R |only ggtaichi-0.3.0/ggtaichi/README.md | 340 +-- ggtaichi-0.3.0/ggtaichi/inst/CITATION |only ggtaichi-0.3.0/ggtaichi/inst/WORDLIST |only ggtaichi-0.3.0/ggtaichi/inst/doc/animations.R | 89 ggtaichi-0.3.0/ggtaichi/inst/doc/animations.Rmd | 65 ggtaichi-0.3.0/ggtaichi/inst/doc/animations.html | 88 ggtaichi-0.3.0/ggtaichi/inst/doc/ggtaichi.R | 63 ggtaichi-0.3.0/ggtaichi/inst/doc/ggtaichi.Rmd | 271 ++ ggtaichi-0.3.0/ggtaichi/inst/doc/ggtaichi.html | 364 +++ ggtaichi-0.3.0/ggtaichi/man/cafes_tg.Rd | 8 ggtaichi-0.3.0/ggtaichi/man/draw_key_taichi.Rd |only ggtaichi-0.3.0/ggtaichi/man/figures/README-anatomy-1.png |binary ggtaichi-0.3.0/ggtaichi/man/figures/README-balanced-1.png |only ggtaichi-0.3.0/ggtaichi/man/figures/README-binned-1.png |only ggtaichi-0.3.0/ggtaichi/man/figures/README-categorical-1.png |binary ggtaichi-0.3.0/ggtaichi/man/figures/README-crossover-1.gif |only ggtaichi-0.3.0/ggtaichi/man/figures/README-explicit-angle-1.png |only ggtaichi-0.3.0/ggtaichi/man/figures/README-explicit-eye-1.png |only ggtaichi-0.3.0/ggtaichi/man/figures/README-eyes-1.png |binary ggtaichi-0.3.0/ggtaichi/man/figures/README-pitts-1.png |only ggtaichi-0.3.0/ggtaichi/man/figures/README-rotation-1.png |binary ggtaichi-0.3.0/ggtaichi/man/figures/README-season-1.gif |only ggtaichi-0.3.0/ggtaichi/man/figures/README-shared-1.png |binary ggtaichi-0.3.0/ggtaichi/man/figures/README-spin-1.gif |only ggtaichi-0.3.0/ggtaichi/man/geom_taichi.Rd | 301 ++- ggtaichi-0.3.0/ggtaichi/man/geom_taichi_diff.Rd |only ggtaichi-0.3.0/ggtaichi/man/geom_yin_fish.Rd | 49 ggtaichi-0.3.0/ggtaichi/man/ggtaichi-ggproto.Rd | 4 ggtaichi-0.3.0/ggtaichi/man/ggtaichi-package.Rd | 10 ggtaichi-0.3.0/ggtaichi/man/pitts_emojis.Rd | 2 ggtaichi-0.3.0/ggtaichi/man/pitts_tg.Rd | 20 ggtaichi-0.3.0/ggtaichi/man/remove_padding.Rd | 34 ggtaichi-0.3.0/ggtaichi/man/scale_taichi.Rd |only ggtaichi-0.3.0/ggtaichi/man/states_tg.Rd | 20 ggtaichi-0.3.0/ggtaichi/man/taichi_check_palette.Rd |only ggtaichi-0.3.0/ggtaichi/man/taichi_palette.Rd |only ggtaichi-0.3.0/ggtaichi/man/taichi_palette_pair.Rd |only ggtaichi-0.3.0/ggtaichi/man/taichi_summary.Rd |only ggtaichi-0.3.0/ggtaichi/man/theme_taichi.Rd | 7 ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/messages.md |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-binned.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-categorical.svg | 15 ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-diff-tiles.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-explicit-angle.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-explicit-border.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-explicit-eye.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-explicit-radius.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-key-glyph.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/_snaps/snapshots/taichi-palette-balanced.svg |only ggtaichi-0.3.0/ggtaichi/tests/testthat/helper-scene.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-animation.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-explicit.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-geom-taichi.R | 438 ++++ ggtaichi-0.3.0/ggtaichi/tests/testthat/test-ggplot2-compat.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-interactive.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-keys.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-messages.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-palette.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-remove-padding.R | 67 ggtaichi-0.3.0/ggtaichi/tests/testthat/test-scales.R |only ggtaichi-0.3.0/ggtaichi/tests/testthat/test-snapshots.R | 120 + ggtaichi-0.3.0/ggtaichi/tests/testthat/test-taichi-fish.R | 10 ggtaichi-0.3.0/ggtaichi/tests/testthat/test-theme.R |only ggtaichi-0.3.0/ggtaichi/vignettes/animations.Rmd | 65 ggtaichi-0.3.0/ggtaichi/vignettes/ggtaichi.Rmd | 271 ++ 84 files changed, 3647 insertions(+), 727 deletions(-)
Title: Simplify Survival Data Analysis and Model Fitting
Description: Inspect survival data, plot Kaplan-Meier curves, assess the
proportional hazards assumption, fit parametric survival models,
predict and plot survival and hazards, and export the outputs to
'Excel'. A simple interface for fitting survival models using
flexsurv::flexsurvreg(), flexsurv::flexsurvspline(),
flexsurvcure::flexsurvcure(), and survival::survreg().
Author: Niall Davison [aut, cre] ,
Brad Kievit [aut],
Maple Health Group, LLC [cph, fnd]
Maintainer: Niall Davison <niall.davison@maplehealthgroup.com>
Diff between easysurv versions 2.0.2 dated 2025-10-08 and 2.0.3 dated 2026-09-30
DESCRIPTION | 6 ++-- MD5 | 12 ++++---- NEWS.md | 4 ++ R/predict.R | 11 ++----- README.md | 23 ++++++++------- inst/doc/easysurv.html | 8 ++--- tests/testthat/test-predict_and_plot.R | 49 +++++++++++++++++++++++++++++++++ 7 files changed, 83 insertions(+), 30 deletions(-)
Title: Enhances 'xpose' Diagnostics for Pharmacometric Models from
'Certara.RsNLME' and Phoenix NLME
Description: Facilitates the creation of 'xpose' data objects from Nonlinear Mixed
Effects (NLME) model outputs produced by 'Certara.RsNLME' or Phoenix NLME. This
integration enables users to utilize all 'ggplot2'-based plotting functions available
in 'xpose' for thorough model diagnostics and data visualization. Additionally, the
package introduces specialized plotting functions tailored for covariate model
evaluation, extending the analytical capabilities beyond those offered by 'xpose' alone.
Author: James Craig [aut, cre],
Michael Tomashevskiy [aut],
Soltanshahi Fred [aut],
Shuhua Hu [ctb],
Certara USA, Inc [cph, fnd]
Maintainer: James Craig <james.craig@certara.com>
Diff between Certara.Xpose.NLME versions 2.0.2 dated 2025-01-28 and 2.1.0 dated 2026-09-30
Certara.Xpose.NLME-2.0.2/Certara.Xpose.NLME/tests/testthat/_snaps/cov_distrib |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/DESCRIPTION | 13 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/MD5 | 200 +- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/NAMESPACE | 62 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/add_descrXpose.R | 96 - Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/add_unitsdata_ind.R | 45 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/compare_etaShrinkageNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/compare_prmNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/create_input.R | 121 - Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/create_overallDF.R | 97 - Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/create_prmDF.R | 759 ++++----- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/create_xposeNlme.R | 780 +++++++--- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/eta_shrinkage_subject.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/examples.R | 52 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_bootSummaryNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_conditionNumber.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_method.R | 128 + Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_overallNlme.R | 157 +- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_prmNlme.R | 228 +- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_summaryNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/get_term.R | 43 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/globals.R | 76 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/join_d1Etas.R | 52 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/load_convergenceData.R | 210 +- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/load_dmp_txt.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/mcp_session.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/mcp_tools.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/nlme_time_conversion.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/pair_by_occurrence.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/parse_cols1_mappings.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/parse_engine_metadata.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/parse_modelInfo.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/parse_outTxtCondition.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/parse_outTxtUnits.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/parse_pml_observes.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/prepare_inputStparm.R | 319 ++-- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/prepare_inputStparmResid.R | 281 ++- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/read_dataFile.R | 129 - Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/read_progressFile.R | 114 - Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/update_etaShrinkageNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/xposeNlme.R | 542 +++++- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/xposeNlmeModel.R | 346 +++- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/R/xposeNlmeUtils.r | 362 ++-- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/data/xpdb_ex_Nlme.rda |binary Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/inst/extdata/bootstrap |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/inst/extdata/hhmm_time |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/inst/extdata/phoenix_temp |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/inst/extdata/units_outtxt |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/inst/mcp |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/inst/scripts |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/as_flextable.prmComparisonNlme.Rd |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/compare_etaShrinkageNlme.Rd |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/compare_prmNlme.Rd |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/eta_vs_cov.Rd | 236 +-- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/get_bootSummaryNlme.Rd |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/get_etaSubjectNlme.Rd |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/get_overallNlme.Rd | 130 + Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/man/get_prmNlme.Rd | 119 - 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Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/_snaps/time_xposeNlmeModel.md | 234 +-- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/helper-mcp.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/helper-xpdb.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_Emax_Baseline_T_SpecialCovNameSaveAsInputData.R | 43 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_compare_prmNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_cov_distrib.R | 181 -- Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_dmp_embedded_model.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_engine_metadata_import.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_eta_distrib.R | 54 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_eta_shrinkage_subject.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_get_bootSummaryNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_get_overallNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_get_summaryNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_hhmm_time_xposeNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_import_edge_cases.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_load_convergenceData.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_load_dmp_txt.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_log_parsers.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_mcp_artifacts.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_mcp_session.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_mcp_tools.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_nlme_time_conversion.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_pair_by_occurrence.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_parse_modelInfo.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_parse_pml_observes.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_phoenix_temp_xposeNlme.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_prepare_inputStparm.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_prepare_inputStparmResid.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_prm_iteration.R | 75 Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_read_dataFile.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_splice_dmpResidualsPosthoc.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_xplot_box.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_xposeNlmeModel_dispatch.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_xposeNlmeModel_units.R |only Certara.Xpose.NLME-2.1.0/Certara.Xpose.NLME/tests/testthat/test_xposeNlme_bootstrap_guard.R |only 114 files changed, 5266 insertions(+), 3447 deletions(-)
More information about Certara.Xpose.NLME at CRAN
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Title: Bradley-Terry Models
Description: Specify and fit the Bradley-Terry model, including structured
versions in which the parameters are related to explanatory variables
through a linear predictor and versions with contest-specific effects,
such as a home advantage.
Author: Heather Turner [aut, cre],
David Firth [aut]
Maintainer: Heather Turner <ht@heatherturner.net>
Diff between BradleyTerry2 versions 1.1.3 dated 2025-04-10 and 1.1.4 dated 2026-09-30
BradleyTerry2-1.1.3/BradleyTerry2/tests/testthat/outputs/nested.rds |only BradleyTerry2-1.1.4/BradleyTerry2/DESCRIPTION | 14 BradleyTerry2-1.1.4/BradleyTerry2/MD5 | 59 BradleyTerry2-1.1.4/BradleyTerry2/NAMESPACE | 102 - BradleyTerry2-1.1.4/BradleyTerry2/NEWS.md | 9 BradleyTerry2-1.1.4/BradleyTerry2/R/BTabilities.R | 12 BradleyTerry2-1.1.4/BradleyTerry2/R/BTm.R | 10 BradleyTerry2-1.1.4/BradleyTerry2/R/Diff.R | 1 BradleyTerry2-1.1.4/BradleyTerry2/R/add1.BTm.R | 2 BradleyTerry2-1.1.4/BradleyTerry2/R/flatlizards.R | 2 BradleyTerry2-1.1.4/BradleyTerry2/R/icehockey.R | 2 BradleyTerry2-1.1.4/BradleyTerry2/build/partial.rdb |binary BradleyTerry2-1.1.4/BradleyTerry2/build/vignette.rds |binary BradleyTerry2-1.1.4/BradleyTerry2/data/CEMS.R | 985 ++++------ BradleyTerry2-1.1.4/BradleyTerry2/data/chameleons.R | 291 +- BradleyTerry2-1.1.4/BradleyTerry2/data/citations.R | 7 BradleyTerry2-1.1.4/BradleyTerry2/data/icehockey.R | 208 +- BradleyTerry2-1.1.4/BradleyTerry2/data/seeds.R | 17 BradleyTerry2-1.1.4/BradleyTerry2/data/sound.fields.R | 39 BradleyTerry2-1.1.4/BradleyTerry2/data/springall.R | 67 BradleyTerry2-1.1.4/BradleyTerry2/inst/doc/BradleyTerry.R | 55 BradleyTerry2-1.1.4/BradleyTerry2/inst/doc/BradleyTerry.Rmd | 11 BradleyTerry2-1.1.4/BradleyTerry2/inst/doc/BradleyTerry.html | 32 BradleyTerry2-1.1.4/BradleyTerry2/man/BTabilities.Rd | 10 BradleyTerry2-1.1.4/BradleyTerry2/man/BTm.Rd | 10 BradleyTerry2-1.1.4/BradleyTerry2/man/flatlizards.Rd | 2 BradleyTerry2-1.1.4/BradleyTerry2/man/icehockey.Rd | 2 BradleyTerry2-1.1.4/BradleyTerry2/man/reexports.Rd | 2 BradleyTerry2-1.1.4/BradleyTerry2/tests/testthat/test-BTabilities.R | 11 BradleyTerry2-1.1.4/BradleyTerry2/tests/testthat/test-nested.R | 24 BradleyTerry2-1.1.4/BradleyTerry2/vignettes/BradleyTerry.Rmd | 11 31 files changed, 1041 insertions(+), 956 deletions(-)
Title: Automatic Scoring of the Cognitive Reflection Test
Description: Automatic coding of open-ended responses to the Cognitive Reflection Test (CRT), a widely used class of tests in cognitive science and psychology that assess the tendency to override an initial intuitive (but incorrect) answer and engage in reflection to reach a correct solution. The package standardizes CRT response coding across datasets in cognitive psychology, decision-making, and related fields. Automated coding reduces manual effort and improves reproducibility by limiting variability from subjective interpretation of open-ended responses. The package supports automatic coding and machine scoring for the original English-language CRT (Frederick, 2005) <doi:10.1257/089533005775196732>, CRT4 and CRT7 (Toplak et al., 2014) <doi:10.1080/13546783.2013.844729>, CRT-long (Primi et al., 2016) <doi:10.1002/bdm.1883>, and CRT-2 (Thomson & Oppenheimer, 2016) <doi:10.1017/s1930297500007622>.
Author: Giuseppe Corbelli [aut, cre]
Maintainer: Giuseppe Corbelli <giuseppe.corbelli@uninettunouniversity.net>
Diff between reflectR versions 2.1.4 dated 2025-08-27 and 2.2.0 dated 2026-09-30
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/CRT.R | 14 ++++++++------ R/CRT4.R | 18 ++++++++++-------- R/CRT7.R | 30 ++++++++++++++++-------------- R/CRTlong.R | 26 ++++++++++++++------------ R/CRTtwo.R | 14 ++++++++------ R/itaCRTtwo.R | 21 +++++++++------------ R/zzz.R | 2 +- inst/WORDLIST | 1 + 11 files changed, 84 insertions(+), 72 deletions(-)
Title: Optimal Binning and Weight of Evidence Framework for Modeling
Description: High-performance implementation of 37 optimal binning algorithms
(16 categorical, 21 numerical) for Weight of Evidence ('WoE') transformation,
credit scoring, and risk modeling. Includes advanced methods such as Mixed
Integer Linear Programming ('MILP'), Genetic Algorithms, Simulated Annealing,
and Monotonic Regression. Features automatic method selection based on
Information Value ('IV') maximization, strict monotonicity enforcement, and
efficient handling of large datasets via 'Rcpp'. Provides automated variable
screening by Information Value strength and bin ordering, and generation of
the equivalent 'SQL' 'CASE' expressions for in-database scoring. Fully
integrated with the 'tidymodels' ecosystem for building robust machine
learning pipelines.
Based on methods described in Siddiqi (2006) <doi:10.1002/9781119201731>
and Navas-Palencia (2020) <doi:10.48550/arXiv.2001.08025>.
Author: Jose Evandeilton Lopes [aut, cre, cph]
Maintainer: Jose Evandeilton Lopes <evandeilton@gmail.com>
Diff between OptimalBinningWoE versions 1.13.5 dated 2026-08-31 and 1.14.0 dated 2026-09-30
DESCRIPTION | 10 MD5 | 333 +++---- NEWS.md | 187 ++++ R/ob_apply_woe_cat.R | 33 R/ob_apply_woe_num.R | 23 R/ob_binning_cutpoints_cat.R | 22 R/ob_binning_cutpoints_num.R | 21 R/ob_check_distincts.R | 11 R/ob_logistic_regression.R | 40 R/ob_preprocess.R | 8 R/ob_utilities.R | 52 + R/obc_cm.R | 16 R/obc_dmiv.R | 17 R/obc_dp.R | 16 R/obc_fetb.R | 31 R/obc_gmb.R | 9 R/obc_ivb.R | 10 R/obc_jedi.R | 8 R/obc_jedi_mwoe.R | 6 R/obc_mba.R | 7 R/obc_milp.R | 11 R/obc_mob.R | 2 R/obc_sab.R | 10 R/obc_sblp.R | 2 R/obc_sketch.R | 7 R/obc_swb.R | 6 R/obc_udt.R | 6 R/obn_bb.R | 16 R/obn_cm.R | 5 R/obn_dmiv.R | 16 R/obn_dp.R | 11 R/obn_ewb.R | 11 R/obn_fast_mdlp.R | 49 - R/obn_fetb.R | 18 R/obn_ir.R | 13 R/obn_jedi.R | 33 R/obn_jedi_mwoe.R | 15 R/obn_kmb.R | 34 R/obn_ldb.R | 31 R/obn_lpdb.R | 19 R/obn_mblp.R | 47 - R/obn_mdlp.R | 27 R/obn_mob.R | 43 - R/obn_mrblp.R | 34 R/obn_oslp.R | 27 R/obn_sketch.R | 84 - R/obn_ubsd.R | 24 R/obn_udt.R | 7 R/obwoe.R | 225 +++-- R/obwoe_engine.R | 2 R/obwoe_report.R | 70 + R/obwoe_score.R | 29 R/obwoe_scorecard.R | 66 + R/obwoe_select.R | 38 R/obwoe_sql.R | 43 - R/step_obwoe.R | 37 README.md | 2 inst/WORDLIST | 2 inst/doc/algorithms.html | 110 +- inst/doc/industrial-pipeline.html | 12 inst/doc/introduction.html | 78 - man/ob_apply_woe_cat.Rd | 33 man/ob_apply_woe_num.Rd | 23 man/ob_categorical_cm.Rd | 14 man/ob_categorical_dmiv.Rd | 17 man/ob_categorical_dp.Rd | 16 man/ob_categorical_fetb.Rd | 31 man/ob_categorical_gmb.Rd | 9 man/ob_categorical_ivb.Rd | 10 man/ob_categorical_jedi.Rd | 6 man/ob_categorical_jedi_mwoe.Rd | 4 man/ob_categorical_mba.Rd | 5 man/ob_categorical_milp.Rd | 9 man/ob_categorical_sab.Rd | 8 man/ob_categorical_sketch.Rd | 5 man/ob_categorical_swb.Rd | 4 man/ob_categorical_udt.Rd | 4 man/ob_check_distincts.Rd | 9 man/ob_cutpoints_cat.Rd | 13 man/ob_cutpoints_num.Rd | 12 man/ob_numerical_bb.Rd | 14 man/ob_numerical_cm.Rd | 3 man/ob_numerical_dmiv.Rd | 14 man/ob_numerical_dp.Rd | 4 man/ob_numerical_ewb.Rd | 4 man/ob_numerical_fast_mdlp.Rd | 44 - man/ob_numerical_fetb.Rd | 16 man/ob_numerical_ir.Rd | 8 man/ob_numerical_jedi.Rd | 28 man/ob_numerical_jedi_mwoe.Rd | 15 man/ob_numerical_kmb.Rd | 29 man/ob_numerical_ldb.Rd | 21 man/ob_numerical_lpdb.Rd | 7 man/ob_numerical_mblp.Rd | 37 man/ob_numerical_mdlp.Rd | 17 man/ob_numerical_mob.Rd | 35 man/ob_numerical_mrblp.Rd | 26 man/ob_numerical_oslp.Rd | 19 man/ob_numerical_sketch.Rd | 44 - man/ob_numerical_ubsd.Rd | 16 man/ob_numerical_udt.Rd | 5 man/ob_preprocess.Rd | 8 man/obwoe_apply.Rd | 3 man/obwoe_gains.Rd | 5 man/obwoe_psi.Rd | 2 man/obwoe_select.Rd | 3 man/obwoe_sql.Rd | 5 src/Makevars | 2 src/Makevars.win | 2 src/OBC_CM_v5.cpp | 187 ++-- src/OBC_DMIV_v5.cpp | 763 ++++++----------- src/OBC_DP_v5.cpp | 852 ++++++++----------- src/OBC_FETB_v5.cpp | 417 ++++++--- src/OBC_GMB_v5.cpp | 678 +++++++-------- src/OBC_IVB_v5.cpp | 313 ++++--- src/OBC_JEDIMWoE_v5.cpp | 997 +++++++++-------------- src/OBC_JEDI_v5.cpp | 568 +++++-------- src/OBC_MBA_v5.cpp | 273 ++---- src/OBC_MILP_v5.cpp | 544 +++++------- src/OBC_MOB_v5.cpp | 207 +++- src/OBC_SAB_v5.cpp | 250 +++-- src/OBC_SBLP_v5.cpp | 827 ++++++++----------- src/OBC_SWB_v5.cpp | 473 +++++++---- src/OBC_Sketch_v5.cpp | 382 ++++++-- src/OBC_UDT_v5.cpp | 470 +++++++--- src/OBN_BB_v5.cpp | 187 ++-- src/OBN_CM_v5.cpp | 673 +++++---------- src/OBN_DMIV_v5.cpp | 212 +++- src/OBN_DP_v5.cpp | 191 ++-- src/OBN_EWB_v5.cpp | 310 +++---- src/OBN_FETB_v5.cpp | 339 +++++-- src/OBN_FastMDLPM_v5.cpp | 1417 +++++++++++---------------------- src/OBN_IR_v5.cpp | 741 +++++++---------- src/OBN_JEDIMWoE_v5.cpp | 586 ++++++------- src/OBN_JEDI_v5.cpp | 466 +++++----- src/OBN_KMB_v5.cpp | 611 +++++++------- src/OBN_LDB_v5.cpp | 309 ++++--- src/OBN_LPDB_v5.cpp | 854 +++++++++++-------- src/OBN_MBLP_v5.cpp | 306 +++---- src/OBN_MDLP_v5.cpp | 656 +++++---------- src/OBN_MOB_v5.cpp | 1058 +++++++----------------- src/OBN_MRBLP_v5.cpp | 850 ++++++------------- src/OBN_OSLP_v5.cpp | 845 ++++++------------- src/OBN_Sketch_v5.cpp | 1159 ++++++++------------------ src/OBN_UBSD_v5.cpp | 993 +++++++---------------- src/OBN_UDT_v5.cpp | 520 ++++++------ src/OB_ApplyWoECat.cpp | 403 +++++---- src/OB_ApplyWoENum.cpp | 409 ++++----- src/OB_CheckDistinctsLength.cpp | 144 +-- src/OB_Correlation.cpp | 1231 +++++++++++++++++----------- src/OB_Cutpoints.cpp | 256 +++-- src/OB_DataPrep.cpp | 485 +++++------ src/OB_LogisticRegression.cpp | 449 +++++++--- src/OB_Utils.cpp | 253 ++++- src/RcppExports.cpp | 1 src/common/bin_structures.h | 27 src/common/chi_square_utils.h | 13 src/common/entropy_utils.h | 6 src/common/monotonicity_utils.h | 18 src/common/optimal_binning_common.h | 12 src/common/woe_iv_utils.h | 4 tests/testthat/test-audit-catA.R |only tests/testthat/test-audit-catB.R |only tests/testthat/test-audit-catC.R |only tests/testthat/test-audit-core.R |only tests/testthat/test-audit-numA.R |only tests/testthat/test-audit-numB.R |only tests/testthat/test-audit-numC.R |only tests/testthat/test-audit-numD.R |only tests/testthat/test-audit-rlayer.R |only tests/testthat/test-obwoe-scorecard.R | 7 tests/testthat/test-regression-audit.R | 6 172 files changed, 13768 insertions(+), 14290 deletions(-)
More information about OptimalBinningWoE at CRAN
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Title: Tests for Survival Data in General Factorial Designs
Description: Implemented are three Wald-type statistic and respective
permuted versions for null hypotheses formulated in terms of cumulative hazard rate functions, medians and the concordance measure, respectively, in the general framework of survival factorial designs with possibly heterogeneous survival and/or censoring distributions, for crossed designs with an arbitrary number of factors and nested designs with up to three factors.
Ditzhaus, Dobler and Pauly (2020) <doi:10.1177/0962280220980784>
Ditzhaus, Genuneit, Janssen, Pauly (2023) <doi:10.1111/biom.13575>
Dobler and Pauly (2019) <doi:10.1177/0962280219831316>.
Author: Marc Ditzhaus [aut],
Dennis Dobler [aut],
Markus Pauly [aut],
Philipp Steinhauer [aut],
Merle Munko [aut, cre]
Maintainer: Merle Munko <mmunko@novaims.unl.pt>
Diff between GFDsurv versions 0.1.2 dated 2026-05-14 and 0.1.3 dated 2026-09-30
DESCRIPTION | 10 +- MD5 | 8 +- NEWS | 4 + R/medsanova.R | 154 ++++++++++++++++++++++++---------------- man/medsanova.Rd | 209 ++++++++++++++++++++++++++++--------------------------- 5 files changed, 214 insertions(+), 171 deletions(-)
Title: Create a Flexible Forest Plot
Description: Create a forest plot based on the layout of the data. Confidence intervals in multiple columns by groups can be done easily. The plot is built step by step with the pipe, adding the axis, the labels and a style, editing the plot, inserting/adding text, and much more.
Author: Alimu Dayimu [aut, cre]
Maintainer: Alimu Dayimu <ad938@cam.ac.uk>
Diff between forestploter versions 1.1.4 dated 2026-04-27 and 1.2.0 dated 2026-09-30
forestploter-1.1.4/forestploter/R/add_grob.r |only forestploter-1.1.4/forestploter/tests/testthat/Rplots.pdf |only forestploter-1.1.4/forestploter/tests/testthat/_snaps/addgrob/add-grob-header.new.svg |only forestploter-1.2.0/forestploter/DESCRIPTION | 18 forestploter-1.2.0/forestploter/MD5 | 150 - forestploter-1.2.0/forestploter/NAMESPACE | 9 forestploter-1.2.0/forestploter/NEWS.md | 280 +- forestploter-1.2.0/forestploter/R/add_border.R | 2 forestploter-1.2.0/forestploter/R/add_grob.R |only forestploter-1.2.0/forestploter/R/add_text.R | 222 - forestploter-1.2.0/forestploter/R/check_errors.R | 159 - forestploter-1.2.0/forestploter/R/draw_forest.R |only forestploter-1.2.0/forestploter/R/edit_plot.R | 2 forestploter-1.2.0/forestploter/R/forest.R | 1246 ++++------ forestploter-1.2.0/forestploter/R/forestploter.R | 48 forestploter-1.2.0/forestploter/R/helper.R | 108 forestploter-1.2.0/forestploter/R/insert_text.R | 314 +- forestploter-1.2.0/forestploter/R/make-arrow.R | 16 forestploter-1.2.0/forestploter/R/make-boxplot.R | 3 forestploter-1.2.0/forestploter/R/make-xaixs.R | 172 - forestploter-1.2.0/forestploter/R/makeci.R | 15 forestploter-1.2.0/forestploter/R/scale_sizes.R |only forestploter-1.2.0/forestploter/R/set_labs.R |only forestploter-1.2.0/forestploter/R/set_xaxis.R |only forestploter-1.2.0/forestploter/R/style.R |only forestploter-1.2.0/forestploter/R/theme.R | 916 +++---- forestploter-1.2.0/forestploter/R/utils.R | 2 forestploter-1.2.0/forestploter/README.md | 124 forestploter-1.2.0/forestploter/build/vignette.rds |binary forestploter-1.2.0/forestploter/inst/doc/forestploter-intro.R | 149 - forestploter-1.2.0/forestploter/inst/doc/forestploter-intro.Rmd | 940 +++---- forestploter-1.2.0/forestploter/inst/doc/forestploter-intro.html | 464 ++- forestploter-1.2.0/forestploter/inst/doc/forestploter-post.R | 78 forestploter-1.2.0/forestploter/inst/doc/forestploter-post.Rmd | 543 ++-- forestploter-1.2.0/forestploter/inst/doc/forestploter-post.html | 132 - forestploter-1.2.0/forestploter/inst/examples/boxplot-example.r | 4 forestploter-1.2.0/forestploter/inst/examples/forestplot-example.r | 93 forestploter-1.2.0/forestploter/inst/examples/layout-example.R |only forestploter-1.2.0/forestploter/inst/examples/scale-sizes-example.R |only forestploter-1.2.0/forestploter/inst/examples/set-labs-example.R |only forestploter-1.2.0/forestploter/inst/examples/set-style-example.R |only forestploter-1.2.0/forestploter/inst/examples/set-xaxis-example.R |only forestploter-1.2.0/forestploter/man/add_grob.Rd | 2 forestploter-1.2.0/forestploter/man/check_errors.Rd | 89 forestploter-1.2.0/forestploter/man/forest.Rd | 150 - 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forestploter-1.2.0/forestploter/tests/testthat/test-check_errors.r | 189 - forestploter-1.2.0/forestploter/tests/testthat/test-fit.R |only forestploter-1.2.0/forestploter/tests/testthat/test-forest.R | 919 +++---- forestploter-1.2.0/forestploter/tests/testthat/test-make-boxplot.R | 7 forestploter-1.2.0/forestploter/tests/testthat/test-recipe.R |only forestploter-1.2.0/forestploter/tests/testthat/test-sizes.R |only forestploter-1.2.0/forestploter/tests/testthat/test-style.R |only forestploter-1.2.0/forestploter/tests/testthat/test-theme.R | 120 forestploter-1.2.0/forestploter/tests/testthat/test-utils.R | 15 forestploter-1.2.0/forestploter/tests/testthat/test-verbs.R |only forestploter-1.2.0/forestploter/vignettes/forestploter-intro.Rmd | 940 +++---- forestploter-1.2.0/forestploter/vignettes/forestploter-post.Rmd | 543 ++-- 89 files changed, 5334 insertions(+), 5172 deletions(-)
Title: Processing and Analyzing AIS Vessel Tracking Data
Description: Processes Automatic Identification
System (AIS) vessel tracking data, including travel estimation,
trajectory correction, interpolation, extraction, and summarising
vessel information. The package is designed to facilitate
reproducible analyses of maritime traffic in ecological,
environmental, and marine spatial planning applications.
For more details see <https://remip48.github.io/AISanalyze/>.
Author: Remi Pigeault [aut, cre]
Maintainer: Remi Pigeault <remi.pigeault@tiho-hannover.de>
Diff between AISanalyze versions 3.1.2 dated 2026-08-26 and 3.1.3 dated 2026-09-30
DESCRIPTION | 6 MD5 | 40 +-- NEWS.md | 14 + R/AIScorrect_speed.R | 8 R/AISextract.R | 33 -- R/AISidentify_stations_aircraft.R | 10 R/AISinterpolate.R | 8 R/AIStravel.R | 8 R/add_coordinates_meters.R | 94 ++++---- R/method_interpolation_exact_time.R | 328 ++++++++++++++-------------- README.md | 34 +- inst/doc/AISanalyze.R | 27 +- inst/doc/AISanalyze.Rmd | 409 +++++++++++++++++------------------ inst/doc/AISanalyze.html | 41 ++- man/AIScorrect_speed.Rd | 8 man/AISextract.Rd | 9 man/AISidentify_stations_aircraft.Rd | 10 man/AISinterpolate.Rd | 8 man/AIStravel.Rd | 8 tests/testthat/test-AISextract.R | 212 +++++++++--------- vignettes/AISanalyze.Rmd | 409 +++++++++++++++++------------------ 21 files changed, 893 insertions(+), 831 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-22 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-06 3.5.4
2024-01-29 3.5.2
2023-09-28 3.4.2
2023-07-01 3.4.1
2023-06-06 3.4.0
2023-02-07 3.3.1
2023-01-25 3.3.0
2022-11-03 3.2.0
2022-08-19 3.1.4
2022-04-01 3.1.3
2021-11-03 3.0.7
2021-09-30 3.0.6
2021-07-13 3.0.4
2021-06-01 3.0.3
2020-11-26 3.0.1
2019-12-06 2.2.9
2019-06-07 2.2.4
2019-04-28 2.2.3
2019-04-25 2.2.2
2019-04-08 2.2.1
2018-06-22 2.1.2
2018-05-08 2.1.1
2018-01-05 1.9.6
2017-05-26 1.9.5
2017-03-08 1.9.4
2017-03-07 1.9.3
2017-03-06 1.9.2
2016-11-18 1.8.3
2016-11-04 1.8.2
2016-08-06 1.8.1
2016-08-05 1.8.0
2016-05-17 1.7.1
2015-11-17 1.6.1
2015-07-24 1.6.0
2014-11-11 1.5.9
2014-04-04 1.5.7
2013-08-23 1.5.4
2013-06-17 1.5.2
2013-04-05 1.4.1
2013-03-27 1.4.0
2013-03-26 1.3.8
2013-03-22 1.3.7
2012-09-05 1.3.5
2012-01-04 1.3.4
2011-11-25 1.3.3
2011-02-28 1.1.2
2011-01-24 1.1.1
2009-07-24 1.0.4
2009-01-26 1.0.3
2008-07-05 1.0.2
2008-04-24 1.0.0
2008-04-14 0.0.1
2008-04-03 0.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-09 0.5
2021-08-14 0.4
2017-03-15 0.3-10
2015-07-07 0.3-7
2013-07-15 0.3-5
2013-03-31 0.3-4
2007-10-09 0.3-2
2006-01-01 0.3-1
Title: Topological Data Analysis: Simplicial Complex
Description: Provides an implementation of simplicial complexes for
Topological Data Analysis (TDA). The package includes functions to
compute faces, boundary operators, Betti numbers, Euler characteristic,
and to construct simplicial complexes, including Vietoris-Rips, Cech,
Alpha, Delaunay, Witness, flood, and (via a Freudenthal triangulation)
cubical complexes for grid and image data. It also implements persistent
homology, from building filtrations (via a single build_filtration()
entry point covering all of the above) to computing persistence
diagrams, persistence landscapes, and Wasserstein/bottleneck distances
between diagrams, with the aim of helping readers understand the core
concepts of computational topology.
Methods are based on standard references in persistent homology such as
Zomorodian and Carlsson (2005) <doi:10.1007/s00454-004-1146-y>,
Chazal and Michel (2021) <doi:10.3389/frai.2021.667963>, and
Otter, Porter, Tillmann, Grindrod and Harrington (2017)
<doi:10.1140/e [...truncated...]
Author: ChiChien Wang [aut, cre, trl]
Maintainer: ChiChien Wang <kennywang2003@gmail.com>
Diff between SimplicialComplex versions 0.1.2 dated 2026-08-24 and 0.2.1 dated 2026-09-30
SimplicialComplex-0.1.2/SimplicialComplex/inst/example/TestingBasic.R |only SimplicialComplex-0.1.2/SimplicialComplex/inst/example/TestingCompareDistance.R |only SimplicialComplex-0.1.2/SimplicialComplex/inst/example/TestingComplexes.R |only SimplicialComplex-0.1.2/SimplicialComplex/inst/example/TestingFlood.R |only SimplicialComplex-0.2.1/SimplicialComplex/DESCRIPTION | 11 SimplicialComplex-0.2.1/SimplicialComplex/MD5 | 68 ++-- SimplicialComplex-0.2.1/SimplicialComplex/NAMESPACE | 22 + SimplicialComplex-0.2.1/SimplicialComplex/R/ComplexUtils.R | 135 ++++--- SimplicialComplex-0.2.1/SimplicialComplex/R/Crocker.R |only SimplicialComplex-0.2.1/SimplicialComplex/R/DiscreteMorse.R |only SimplicialComplex-0.2.1/SimplicialComplex/R/FloodComplex.R | 169 ++-------- SimplicialComplex-0.2.1/SimplicialComplex/R/Homology.R |only SimplicialComplex-0.2.1/SimplicialComplex/R/Laplacian.R |only SimplicialComplex-0.2.1/SimplicialComplex/R/Persistence.R | 33 - SimplicialComplex-0.2.1/SimplicialComplex/R/PlotMorse.R |only SimplicialComplex-0.2.1/SimplicialComplex/R/VRComplex.R | 7 SimplicialComplex-0.2.1/SimplicialComplex/R/Zigzag.R |only SimplicialComplex-0.2.1/SimplicialComplex/README.md | 9 SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestBasic.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestCROCKER.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestCompareDistance.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestComplexes.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestFlood.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestLaplacian.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestMorse.R |only SimplicialComplex-0.2.1/SimplicialComplex/inst/example/TestZigzag.R |only SimplicialComplex-0.2.1/SimplicialComplex/man/build_clique_complex.Rd | 12 SimplicialComplex-0.2.1/SimplicialComplex/man/build_flood_filtration.Rd | 18 - SimplicialComplex-0.2.1/SimplicialComplex/man/circumsphere.Rd | 14 SimplicialComplex-0.2.1/SimplicialComplex/man/collect_g.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/crocker.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/dot-reduce_gf2_boundary.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/flood_complex.Rd | 6 SimplicialComplex-0.2.1/SimplicialComplex/man/flood_persistence.Rd | 16 SimplicialComplex-0.2.1/SimplicialComplex/man/gauss_jordan_eliminate.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/generate_landmarks.Rd | 19 - SimplicialComplex-0.2.1/SimplicialComplex/man/graph_laplacian.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/hodge_laplacian.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/homology.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/im.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/ker.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/lower_star_filtration.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/min_enclosing_ball.Rd | 14 SimplicialComplex-0.2.1/SimplicialComplex/man/morse_recon.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/pairwise_dist.Rd | 3 SimplicialComplex-0.2.1/SimplicialComplex/man/partial_pers_dmvf.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/persistent_laplacian.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/plot_crocker.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/plot_morse_landscape.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/plot_morse_recon.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/plot_morse_vpath.Rd |only SimplicialComplex-0.2.1/SimplicialComplex/man/simplices_to_filtration.Rd | 26 - SimplicialComplex-0.2.1/SimplicialComplex/man/zigzag_persistence.Rd |only 53 files changed, 247 insertions(+), 335 deletions(-)
More information about SimplicialComplex at CRAN
Permanent link
Title: Spatial Octahedral Quantum Wave Functions
Description: Provides mathematical tools for simulating and visualizing three-dimensional octahedral quantum wave interferences and spatial resonance fields. Includes functions for MRI slice generation of fullerene structures and wave models. Computational modeling and three-dimensional visualization of fullerene and octahedral topologies are implemented within the R statistical environment, with interactive plotting powered by 'plotly'. Theoretical foundations are based on the topological frameworks of Cataldo et al. (2015) <doi:10.1002/wcms.1207>, Dresselhaus et al. (1996, ISBN:9780122218200), and Coxeter (1973, ISBN:9780486614809); the geometric principles of equations of the octahedron type are outlined in Bobenko and Suris (2012) <doi:10.1093/imrn/rnr083>. Additional structural and biological symmetry contexts are derived from Bragg (1914) <doi:10.1098/rspa.1914.0015> and Caspar and Klug (1962) <doi:10.1101/sqb.1962.027.001.005>.
Author: Katharina Brecht [aut, cre]
Maintainer: Katharina Brecht <katharina.quantumdata@proton.me>
Diff between octawave versions 0.1.0 dated 2026-09-08 and 0.1.1 dated 2026-09-30
octawave-0.1.0/octawave/R/sandbox.R |only octawave-0.1.1/octawave/DESCRIPTION | 8 - octawave-0.1.1/octawave/MD5 | 43 +++++---- octawave-0.1.1/octawave/NAMESPACE | 6 + octawave-0.1.1/octawave/NEWS.md | 9 +- octawave-0.1.1/octawave/R/prep_sync3d.R |only octawave-0.1.1/octawave/R/run_mri_simulation.R |only octawave-0.1.1/octawave/R/wave2lyze.R |only octawave-0.1.1/octawave/README.md | 45 ++++++++++ octawave-0.1.1/octawave/build/vignette.rds |binary octawave-0.1.1/octawave/inst/doc/introduction_to_octawave.R | 8 + octawave-0.1.1/octawave/inst/doc/introduction_to_octawave.Rmd | 21 ++++ octawave-0.1.1/octawave/inst/doc/introduction_to_octawave.html | 24 ++++- octawave-0.1.1/octawave/inst/doc/octawave-theory.Rmd | 16 ++- octawave-0.1.1/octawave/inst/doc/octawave-theory.html | 30 ++++-- octawave-0.1.1/octawave/inst/doc/octawave-visuals.R | 2 octawave-0.1.1/octawave/inst/doc/octawave-visuals.Rmd | 18 ++-- octawave-0.1.1/octawave/inst/doc/octawave-visuals.html | 30 ++++-- octawave-0.1.1/octawave/inst/doc/octawave-wave2lyze-interface.R |only octawave-0.1.1/octawave/inst/doc/octawave-wave2lyze-interface.Rmd |only octawave-0.1.1/octawave/inst/doc/octawave-wave2lyze-interface.html |only octawave-0.1.1/octawave/man/prep_sync3d.Rd |only octawave-0.1.1/octawave/man/run_mri_simulation.Rd |only octawave-0.1.1/octawave/man/wave2lyze.Rd |only octawave-0.1.1/octawave/vignettes/introduction_to_octawave.Rmd | 21 ++++ octawave-0.1.1/octawave/vignettes/octawave-theory.Rmd | 16 ++- octawave-0.1.1/octawave/vignettes/octawave-visuals.Rmd | 18 ++-- octawave-0.1.1/octawave/vignettes/octawave-wave2lyze-interface.Rmd |only 28 files changed, 225 insertions(+), 90 deletions(-)
Title: A Collection of Tools for Network Analysis
Description: Provides a collection of network analytic (convenience) functions which are missing in other standard packages. This includes triad census with attributes <doi:10.1016/j.socnet.2019.04.003>, core-periphery models <doi:10.1016/S0378-8733(99)00019-2>, and several graph generators. Most functions are build upon 'igraph'.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david@schochastics.net>
Diff between netUtils versions 0.8.6 dated 2026-06-12 and 1.0.0 dated 2026-09-30
netUtils-0.8.6/netUtils/R/fast_cliques.R |only netUtils-0.8.6/netUtils/man/fast_cliques.Rd |only netUtils-1.0.0/netUtils/DESCRIPTION | 12 netUtils-1.0.0/netUtils/MD5 | 89 netUtils-1.0.0/netUtils/NEWS.md | 29 netUtils-1.0.0/netUtils/R/RcppExports.R | 12 netUtils-1.0.0/netUtils/R/core_periphery.R | 9 netUtils-1.0.0/netUtils/R/dyad_census_attr.R | 82 netUtils-1.0.0/netUtils/R/graph_products.R | 96 netUtils-1.0.0/netUtils/R/graph_structures.R | 47 netUtils-1.0.0/netUtils/R/graphs.R | 49 netUtils-1.0.0/netUtils/R/lfr_benchmark.R | 84 netUtils-1.0.0/netUtils/R/print_igraph.R | 8 netUtils-1.0.0/netUtils/R/qap.R | 38 netUtils-1.0.0/netUtils/R/sample_kcores.R | 37 netUtils-1.0.0/netUtils/R/sample_pa_homophilic.R | 62 netUtils-1.0.0/netUtils/R/structural_equivalence.R | 34 netUtils-1.0.0/netUtils/R/triad_census_attr.R | 164 - netUtils-1.0.0/netUtils/R/utils.R | 17 netUtils-1.0.0/netUtils/README.md | 2 netUtils-1.0.0/netUtils/man/as_adj_list1.Rd | 2 netUtils-1.0.0/netUtils/man/bipartite_from_data_frame.Rd | 9 netUtils-1.0.0/netUtils/man/dyad_census_attr.Rd | 14 netUtils-1.0.0/netUtils/man/graph_cartesian.Rd | 4 netUtils-1.0.0/netUtils/man/graph_cor.Rd | 19 netUtils-1.0.0/netUtils/man/graph_direct.Rd | 4 netUtils-1.0.0/netUtils/man/graph_from_multi_edgelist.Rd | 2 netUtils-1.0.0/netUtils/man/graph_kpartite.Rd | 6 netUtils-1.0.0/netUtils/man/sample_lfr.Rd | 30 netUtils-1.0.0/netUtils/man/sample_pa_homophilic.Rd | 10 netUtils-1.0.0/netUtils/man/triad_census_attr.Rd | 4 netUtils-1.0.0/netUtils/src/RcppExports.cpp | 39 netUtils-1.0.0/netUtils/src/lfr.cpp | 1471 ---------- netUtils-1.0.0/netUtils/src/mse.cpp | 55 netUtils-1.0.0/netUtils/src/triad_census_col.cpp | 130 netUtils-1.0.0/netUtils/tests/testthat/test-core_periphery.R | 16 netUtils-1.0.0/netUtils/tests/testthat/test-dyad_census_attr.R | 134 netUtils-1.0.0/netUtils/tests/testthat/test-graph_products.R | 45 netUtils-1.0.0/netUtils/tests/testthat/test-graph_structures.R | 21 netUtils-1.0.0/netUtils/tests/testthat/test-graphs.R | 42 netUtils-1.0.0/netUtils/tests/testthat/test-lfr_benchmark.R | 72 netUtils-1.0.0/netUtils/tests/testthat/test-print_igraph.R | 17 netUtils-1.0.0/netUtils/tests/testthat/test-qap.R |only netUtils-1.0.0/netUtils/tests/testthat/test-sample_kcores.R | 18 netUtils-1.0.0/netUtils/tests/testthat/test-sample_pa_homophilic.R | 30 netUtils-1.0.0/netUtils/tests/testthat/test-structural_equivalence.R | 7 netUtils-1.0.0/netUtils/tests/testthat/test-triad_census_attr.R | 116 47 files changed, 1310 insertions(+), 1878 deletions(-)
Title: Deep Compositional Spatial Models
Description: Deep compositional spatial models are standard spatial covariance
models coupled with an injective warping function of the spatial
domain. The warping function is constructed through a composition
of multiple elemental injective functions in a deep-learning
framework. The package implements two cases for the univariate setting; first,
when these warping functions are known up to some weights that
need to be estimated, and, second, when the weights in each layer are random.
In the multivariate setting only the former case is available.
Estimation and inference is done using `tensorflow`, which makes use of
graphics processing units.
For more details see Zammit-Mangion et al. (2022) <doi:10.1080/01621459.2021.1887741>,
Vu et al. (2022) <doi:10.5705/ss.202020.0156>,
Vu et al. (2023) <doi:10.1016/j.spasta.2023.100742>, and
Shao et al. (2025) <doi:10.48550/arXiv.2505.12548>.
Author: Andrew Zammit-Mangion [aut],
Quan Vu [aut, cre],
Xuanjie Shao [aut]
Maintainer: Quan Vu <quanvustats@gmail.com>
Diff between deepspat versions 0.3.3 dated 2026-09-16 and 0.3.4 dated 2026-09-30
DESCRIPTION | 8 MD5 | 16 - NEWS.md | 4 R/predict.deepspat_GP.R | 1 R/predict.deepspat_MSP.R | 541 ++++++++++++++++++++--------------------- R/predict.deepspat_bivar_GP.R | 1 R/predict.deepspat_nn_GP.R | 1 R/predict.deepspat_nn_ST_GP.R | 1 R/predict.deepspat_trivar_GP.R | 1 9 files changed, 289 insertions(+), 285 deletions(-)
Title: Analysis and Visualization of Complex Networks
Description: Provides tools for the analysis, visualization, and manipulation
of dynamical, social (Saqr et al. (2024) <doi:10.1007/978-3-031-54464-4_10>) and
complex networks (Saqr et al. (2025) <doi:10.1145/3706468.3706513>). The package
supports multiple network formats and offers flexible tools for heterogeneous,
multi-layer, and hierarchical network analysis with simple syntax and
extensive toolset.
Author: Mohammed Saqr [aut, cph],
Sonsoles Lopez-Pernas [aut, cre, cph]
Maintainer: Sonsoles Lopez-Pernas <sonsoles.lopez@uef.fi>
Diff between cograph versions 2.4.4 dated 2026-07-10 and 2.7.2 dated 2026-09-30
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cograph-2.7.2/cograph/tests/testthat/test-centrality-batch39.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch40.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch41.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch42.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch43.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch44.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch45.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch46.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch47.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch48.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch49.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch50.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch51.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch7.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch8.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-batch9.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-extended.R | 268 - cograph-2.7.2/cograph/tests/testthat/test-centrality-label-fallback.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-metadata.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-scale-invariance.R |only cograph-2.7.2/cograph/tests/testthat/test-centrality-zoo.R | 138 cograph-2.7.2/cograph/tests/testthat/test-centrality.R | 215 - cograph-2.7.2/cograph/tests/testthat/test-cluster-metrics.R | 9 cograph-2.7.2/cograph/tests/testthat/test-combined.R | 3 cograph-2.7.2/cograph/tests/testthat/test-data-regulation-net.R |only cograph-2.7.2/cograph/tests/testthat/test-edge-cases.R | 38 cograph-2.7.2/cograph/tests/testthat/test-edge-label-coupling.R | 5 cograph-2.7.2/cograph/tests/testthat/test-ggplot.R | 53 cograph-2.7.2/cograph/tests/testthat/test-igraph-suggest-guard.R |only cograph-2.7.2/cograph/tests/testthat/test-integer-weight-labels.R | 3 cograph-2.7.2/cograph/tests/testthat/test-integration.R | 3 cograph-2.7.2/cograph/tests/testthat/test-motifs-adversarial-fixes.R |only cograph-2.7.2/cograph/tests/testthat/test-motifs-api.R | 211 cograph-2.7.2/cograph/tests/testthat/test-motifs-as-data-frame.R |only cograph-2.7.2/cograph/tests/testthat/test-motifs-triad-index-cache.R |only cograph-2.7.2/cograph/tests/testthat/test-motifs-triad-patterns.R |only cograph-2.7.2/cograph/tests/testthat/test-multi-step-styling-args.R |only cograph-2.7.2/cograph/tests/testthat/test-network-summary.R | 48 cograph-2.7.2/cograph/tests/testthat/test-networks-manifest.R |only cograph-2.7.2/cograph/tests/testthat/test-oob-squish.R |only cograph-2.7.2/cograph/tests/testthat/test-panel-layout.R | 87 cograph-2.7.2/cograph/tests/testthat/test-plot-compare.R | 10 cograph-2.7.2/cograph/tests/testthat/test-plot-htna-legend.R |only cograph-2.7.2/cograph/tests/testthat/test-plot-mcml-expand.R |only cograph-2.7.2/cograph/tests/testthat/test-plot-mcml-layer-spacing.R |only cograph-2.7.2/cograph/tests/testthat/test-plot-mixed-network.R | 3 cograph-2.7.2/cograph/tests/testthat/test-plot-tna-arg-merge.R | 3 cograph-2.7.2/cograph/tests/testthat/test-port-batches-12-51.R |only cograph-2.7.2/cograph/tests/testthat/test-port-extended.R |only cograph-2.7.2/cograph/tests/testthat/test-robustness.R | 25 cograph-2.7.2/cograph/tests/testthat/test-show-zero-edges.R |only cograph-2.7.2/cograph/tests/testthat/test-sn-save.R | 3 cograph-2.7.2/cograph/tests/testthat/test-splot-device-scaling.R | 3 cograph-2.7.2/cograph/tests/testthat/test-splot-metadata-contract.R | 252 - cograph-2.7.2/cograph/tests/testthat/test-splot-predictability.R | 3 cograph-2.7.2/cograph/tests/testthat/test-splot.R | 24 cograph-2.7.2/cograph/tests/testthat/test-tna-temporal.R | 3 cograph-2.7.2/cograph/tests/testthat/test-to-df-contract.R |only cograph-2.7.2/cograph/tests/testthat/test-visual-scale.R | 3 cograph-2.7.2/cograph/tests/testthat/test-wrangle-edit.R |only cograph-2.7.2/cograph/tests/testthat/test-wrangle-signed.R |only cograph-2.7.2/cograph/tests/testthat/test-wrangle-structure.R |only cograph-2.7.2/cograph/tests/testthat/test-wrangle-vocabulary.R |only cograph-2.7.2/cograph/tests/testthat/test-wrangle-weights.R |only cograph-2.7.2/cograph/tests/testthat/test-wrangling-invariants.R |only cograph-2.7.2/cograph/vignettes/centrality-catalogue.Rmd | 1062 +++- cograph-2.7.2/cograph/vignettes/introduction.Rmd | 444 +- 635 files changed, 16740 insertions(+), 7900 deletions(-)
Title: Standard TLGs for Clinical Trials Reporting
Description: Provide standard tables, listings, and graphs (TLGs)
libraries used in clinical trials. This package implements a structure
to reformat the data with 'dunlin', create reporting tables using
'rtables' and 'tern' with standardized input arguments to enable quick
generation of standard outputs. In addition, it also provides
comprehensive data checks and script generation functionality.
Author: Liming Li [aut] ,
Benoit Falquet [aut] ,
Xiaoli Duan [aut],
Adrian Waddell [ctb],
Chenkai Lv [ctb],
Pawel Rucki [ctb],
Tim Barnett [ctb],
Tian Fang [ctb],
Joe Zhu [cre] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between chevron versions 0.2.14 dated 2026-09-16 and 0.2.15 dated 2026-09-30
DESCRIPTION | 8 MD5 | 14 NAMESPACE | 612 +++++++++++++++++++++---------------------- NEWS.md | 4 inst/doc/chevron.html | 2 tests/testthat/test-fstg01.R | 92 +++--- tests/testthat/test-fstg02.R | 130 ++++----- tests/testthat/test-rspt01.R | 1 8 files changed, 434 insertions(+), 429 deletions(-)
Title: Text to Speech Conversion
Description: Converts text into speech using various text-to-speech (TTS) engines and provides an unified interface for accessing their functionality.
With this package, users can easily generate audio files of spoken words, phrases, or sentences from plain text data. The package supports multiple TTS engines,
including Google's 'Cloud Text-to-Speech API', 'Amazon Polly', Microsoft's 'Cognitive Services Text to Speech REST API', the 'Speechify Text-to-Speech API', and a free TTS engine called 'Coqui TTS'.
Author: Howard Baek [aut] ,
John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
This is a re-admission after prior archival of version 1.0.0 dated 2023-07-19
Diff between text2speech versions 1.0.0 dated 2023-07-19 and 1.2.0 dated 2026-09-30
DESCRIPTION | 32 ++---- MD5 | 51 +++++---- NAMESPACE | 3 NEWS.md | 10 + R/aaa_utils.R | 56 ++++++---- R/pcm_to_wav.R | 4 R/tts.R | 180 ++++++++++++++++++++++++----------- R/tts_auth.R | 70 ++++++++++++- R/tts_speak_engine.R | 2 R/tts_voices.R | 71 ++++++++++++- README.md | 88 +++++++++++------ build/vignette.rds |binary inst/doc/coqui-tts.R | 38 +++---- inst/doc/coqui-tts.Rmd | 2 inst/doc/coqui-tts.html | 41 ++++--- man/pcm_to_wav.Rd | 4 man/set_coqui_path.Rd | 14 +- man/text2speech-package.Rd | 7 - man/tts.Rd | 41 ++++++- man/tts_auth.Rd | 24 +++- man/tts_default_voice.Rd | 4 man/tts_speak_engine.Rd | 2 man/tts_voices.Rd | 23 +++- tests/testthat/test-tts-split-text.R |only tests/testthat/test-tts.R | 13 +- tests/testthat/test-tts_voices.R | 6 - vignettes/coqui-tts.Rmd | 2 27 files changed, 542 insertions(+), 246 deletions(-)
Title: Semi-Supervised Learning with Mixed Missingness in Finite
Mixture Models
Description: Semi-supervised Gaussian finite mixture models for partially labelled data
under complete-case, missing completely at random (MCAR), entropy-dependent missing
at random (MAR), and mixed MCAR/MAR label-missingness formulations. For the mixed
formulation, the source of a missing label may be observed or latent. The package
supports equal and component-specific covariance matrices, model fitting, simulation,
initialization, prediction, classification performance assessment, and entropy-based
diagnostics. A semi-synthetic Blood Transfusion data set is included to illustrate the
applied workflow.
Author: Geoffrey J. McLachlan [aut] ,
Jinran Wu [aut, cre]
Maintainer: Jinran Wu <jinran.wu@uq.edu.au>
Diff between SSLfmm versions 0.2.1 dated 2026-09-07 and 0.2.2 dated 2026-09-30
SSLfmm-0.2.1/SSLfmm/data/blood_transfusion.csv |only SSLfmm-0.2.2/SSLfmm/DESCRIPTION | 19 ++++++++------ SSLfmm-0.2.2/SSLfmm/MD5 | 14 +++++++--- SSLfmm-0.2.2/SSLfmm/NEWS.md |only SSLfmm-0.2.2/SSLfmm/README.md | 15 ++++++++--- SSLfmm-0.2.2/SSLfmm/build |only SSLfmm-0.2.2/SSLfmm/data/blood_transfusion.csv.gz |only SSLfmm-0.2.2/SSLfmm/inst |only SSLfmm-0.2.2/SSLfmm/tests/testthat/test-output-contract.R | 4 +- SSLfmm-0.2.2/SSLfmm/vignettes |only 10 files changed, 35 insertions(+), 17 deletions(-)
Title: Prepare for Production of Seasonal Adjustment with 'JDemetra+'
Description: A comprehensive tool for setting up seasonal data pipelines
using 'JDemetra+' (version 3) and 'rjdverse'. This includes setting up
a new working environment, creating and selecting calendar regressors,
managing specifications (trading-days regressors and outliers) at the
workspace level, making a workspace usable by the 'cruncher', removing
insignificant outliers, and comparing workspaces.
Author: Tanguy Barthelemy [aut, cre, art, cph],
Eulalie Delaune [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
This is a re-admission after prior archival of version 1.1.1 dated 2026-07-17
Diff between rjd3production versions 1.1.1 dated 2026-07-17 and 1.2.0 dated 2026-09-30
rjd3production-1.1.1/rjd3production/inst/IMPORTLIST |only rjd3production-1.1.1/rjd3production/inst/autoimport_cache.rds |only rjd3production-1.2.0/rjd3production/DESCRIPTION | 26 rjd3production-1.2.0/rjd3production/MD5 | 146 rjd3production-1.2.0/rjd3production/NAMESPACE | 285 rjd3production-1.2.0/rjd3production/NEWS.md | 31 rjd3production-1.2.0/rjd3production/R/assign.R | 388 rjd3production-1.2.0/rjd3production/R/compare.R | 475 rjd3production-1.2.0/rjd3production/R/create.R | 670 rjd3production-1.2.0/rjd3production/R/deprecated.R | 83 rjd3production-1.2.0/rjd3production/R/env.R | 243 rjd3production-1.2.0/rjd3production/R/extraction.R | 417 rjd3production-1.2.0/rjd3production/R/io.R | 276 rjd3production-1.2.0/rjd3production/R/modify-sao.R | 475 rjd3production-1.2.0/rjd3production/R/modify-specification.R | 561 rjd3production-1.2.0/rjd3production/R/random-spec.R | 962 rjd3production-1.2.0/rjd3production/R/regression-tools.R | 269 rjd3production-1.2.0/rjd3production/R/retrieve.R | 412 rjd3production-1.2.0/rjd3production/R/rjd3production-package.R | 14 rjd3production-1.2.0/rjd3production/R/select.R | 962 rjd3production-1.2.0/rjd3production/R/translate-spec.R | 1093 rjd3production-1.2.0/rjd3production/R/zzz.R |only rjd3production-1.2.0/rjd3production/README.md | 478 rjd3production-1.2.0/rjd3production/build/vignette.rds |binary rjd3production-1.2.0/rjd3production/inst/WORDLIST |only rjd3production-1.2.0/rjd3production/inst/doc/process-en.R | 232 rjd3production-1.2.0/rjd3production/inst/doc/process-en.html | 711 rjd3production-1.2.0/rjd3production/inst/doc/process-en.qmd | 361 rjd3production-1.2.0/rjd3production/inst/doc/process-fr.R | 232 rjd3production-1.2.0/rjd3production/inst/doc/process-fr.html | 709 rjd3production-1.2.0/rjd3production/inst/doc/process-fr.qmd | 360 rjd3production-1.2.0/rjd3production/inst/doc/td-selection-en.R | 196 rjd3production-1.2.0/rjd3production/inst/doc/td-selection-en.html | 771 rjd3production-1.2.0/rjd3production/inst/doc/td-selection-en.qmd | 276 rjd3production-1.2.0/rjd3production/inst/doc/td-selection-fr.R | 196 rjd3production-1.2.0/rjd3production/inst/doc/td-selection-fr.html | 771 rjd3production-1.2.0/rjd3production/inst/doc/td-selection-fr.qmd | 276 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example.xml | 130 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Calendars/Calendars.xml | 126 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/SAProcessing/SAProcessing-1.xml |17750 +++++----- rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-1.xml | 22 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-10.xml | 102 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-11.xml | 118 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-2.xml | 38 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-3.xml | 54 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-4.xml | 86 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-5.xml | 102 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-6.xml | 22 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-7.xml | 38 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-8.xml | 54 rjd3production-1.2.0/rjd3production/inst/workspaces/ws_example/Variables/Vars-9.xml | 70 rjd3production-1.2.0/rjd3production/man/add_raw_data_path.Rd | 102 rjd3production-1.2.0/rjd3production/man/compare.Rd | 104 rjd3production-1.2.0/rjd3production/man/create_specs_set.Rd | 80 rjd3production-1.2.0/rjd3production/man/create_ws_from_data.Rd | 91 rjd3production-1.2.0/rjd3production/man/deprecated-rjd3production.Rd | 77 rjd3production-1.2.0/rjd3production/man/get_jsai_by_name.Rd | 76 rjd3production-1.2.0/rjd3production/man/get_named_variables.Rd | 46 rjd3production-1.2.0/rjd3production/man/get_series.Rd | 118 rjd3production-1.2.0/rjd3production/man/init_env.Rd | 66 rjd3production-1.2.0/rjd3production/man/insee_modelling.Rd | 202 rjd3production-1.2.0/rjd3production/man/make_ws_crunchable.Rd | 87 rjd3production-1.2.0/rjd3production/man/random-spec.Rd | 62 rjd3production-1.2.0/rjd3production/man/regression_tools.Rd | 372 rjd3production-1.2.0/rjd3production/man/remove_non_significant_outliers.Rd | 149 rjd3production-1.2.0/rjd3production/man/rjd3production-package.Rd | 57 rjd3production-1.2.0/rjd3production/man/run_app.Rd | 100 rjd3production-1.2.0/rjd3production/man/select_td.Rd | 134 rjd3production-1.2.0/rjd3production/man/set_minimum_span.Rd | 104 rjd3production-1.2.0/rjd3production/man/translate-spec.Rd | 104 rjd3production-1.2.0/rjd3production/tests/testthat.R | 24 rjd3production-1.2.0/rjd3production/tests/testthat/test-translation.R | 573 rjd3production-1.2.0/rjd3production/vignettes/process-en.qmd | 361 rjd3production-1.2.0/rjd3production/vignettes/process-fr.qmd | 360 rjd3production-1.2.0/rjd3production/vignettes/td-selection-en.qmd | 276 rjd3production-1.2.0/rjd3production/vignettes/td-selection-fr.qmd | 276 76 files changed, 18472 insertions(+), 17598 deletions(-)
More information about rjd3production at CRAN
Permanent link
Title: Filter and Query Data Frames in 'shiny' Using an LLM Chat
Interface
Description: Adds an LLM-powered chatbot to your 'shiny' app, that can
turn your users' natural language questions into 'SQL' queries that
run against your data, and return the result as a reactive data frame.
Use it to drive reactive calculations, visualizations, downloads, and
more.
Author: Garrick Aden-Buie [aut, cre] ,
Joe Cheng [aut, ccp],
Carson Sievert [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Garrick Aden-Buie <garrick@posit.co>
This is a re-admission after prior archival of version 0.4.0 dated 2026-09-13
Diff between querychat versions 0.4.0 dated 2026-09-13 and 0.4.1 dated 2026-09-30
DESCRIPTION | 6 ++-- MD5 | 14 +++++----- NEWS.md | 6 ++++ R/querychat-package.R | 5 --- build/vignette.rds |binary tests/testthat/helper-fixtures.R | 37 ++++++++++++++++++++++++---- tests/testthat/test-QueryChat.R | 17 ++++++++++++ tests/testthat/test-QueryChatSystemPrompt.R | 10 +++++++ 8 files changed, 77 insertions(+), 18 deletions(-)
Title: Unicode and Punycode Domain Name Processing
Description: High-performance Unicode and Punycode processing for
internationalized domain names. The 'puny_encode()' / 'puny_decode()'
helpers are a low-level, RFC 3492 compliant Punycode codec for domain
labels (the 'xn--' ASCII-Compatible Encoding of RFC 5890/5891); they
perform the raw transform plus letter-digit-hyphen checks and do not
apply Unicode IDNA normalization. 'host_normalize()' is the Unicode
Technical Standard #46 host-normalization entry point, mapping a host
name to a canonical lowercase ASCII comparison form (non-transitional
profile, pinned default Unicode version, selectable per call from the
set the build ships). Aimed at host normalization and data analysis
workflows. Used as the Punycode and IDNA engine by the 'pslr' and
'rurl' packages.
Author: Bart Turczynski [aut, cre]
Maintainer: Bart Turczynski <bartek@turczynski.pl>
Diff between punycoder versions 1.2.1 dated 2026-07-19 and 1.3.0 dated 2026-09-30
punycoder-1.2.1/punycoder/R/url-utils.R |only punycoder-1.2.1/punycoder/inst/testdata/IdnaTestV2.txt |only punycoder-1.2.1/punycoder/man/parse_url.Rd |only punycoder-1.2.1/punycoder/man/print.punycoder_parsed_url.Rd |only punycoder-1.2.1/punycoder/man/url_decode.Rd |only punycoder-1.2.1/punycoder/man/url_encode.Rd |only punycoder-1.2.1/punycoder/src/punycoder_url.cpp |only punycoder-1.2.1/punycoder/tests/testthat/test-urls.R |only punycoder-1.3.0/punycoder/DESCRIPTION | 23 punycoder-1.3.0/punycoder/MD5 | 127 punycoder-1.3.0/punycoder/NAMESPACE | 9 punycoder-1.3.0/punycoder/NEWS.md | 437 punycoder-1.3.0/punycoder/R/RcppExports.R | 20 punycoder-1.3.0/punycoder/R/helpers.R | 126 punycoder-1.3.0/punycoder/R/normalize.R | 107 punycoder-1.3.0/punycoder/R/punycoder-package.R | 9 punycoder-1.3.0/punycoder/R/punycoder.R | 14 punycoder-1.3.0/punycoder/R/results.R | 174 punycoder-1.3.0/punycoder/R/validators.R | 32 punycoder-1.3.0/punycoder/README.md | 153 punycoder-1.3.0/punycoder/inst/WORDLIST | 56 punycoder-1.3.0/punycoder/inst/doc/punycoder-intro.R | 67 punycoder-1.3.0/punycoder/inst/doc/punycoder-intro.Rmd | 108 punycoder-1.3.0/punycoder/inst/doc/punycoder-intro.html | 258 punycoder-1.3.0/punycoder/inst/testdata/IdnaTestV2-16.0.0.txt |only punycoder-1.3.0/punycoder/inst/testdata/IdnaTestV2-17.0.0.txt |only punycoder-1.3.0/punycoder/man/host_normalize.Rd | 36 punycoder-1.3.0/punycoder/man/is_idn.Rd | 8 punycoder-1.3.0/punycoder/man/is_punycode.Rd | 6 punycoder-1.3.0/punycoder/man/normalization_profile_info.Rd | 18 punycoder-1.3.0/punycoder/man/print.punycoder_validation.Rd | 8 punycoder-1.3.0/punycoder/man/print.punycoder_validation_summary.Rd |only punycoder-1.3.0/punycoder/man/puny_decode.Rd | 5 punycoder-1.3.0/punycoder/man/puny_encode.Rd | 5 punycoder-1.3.0/punycoder/man/punycoder-package.Rd | 17 punycoder-1.3.0/punycoder/man/summary.punycoder_validation.Rd |only punycoder-1.3.0/punycoder/man/unicode_versions.Rd |only punycoder-1.3.0/punycoder/man/validate_domain.Rd | 2 punycoder-1.3.0/punycoder/src/Makevars.in | 2 punycoder-1.3.0/punycoder/src/Makevars.win | 2 punycoder-1.3.0/punycoder/src/RcppExports.cpp | 53 punycoder-1.3.0/punycoder/src/exports.cpp | 173 punycoder-1.3.0/punycoder/src/init.c | 30 punycoder-1.3.0/punycoder/src/punycoder_algorithm.cpp | 20 punycoder-1.3.0/punycoder/src/punycoder_core.h | 36 punycoder-1.3.0/punycoder/src/punycoder_domain.cpp | 18 punycoder-1.3.0/punycoder/src/punycoder_errors.cpp | 28 punycoder-1.3.0/punycoder/src/punycoder_nfc.cpp | 227 punycoder-1.3.0/punycoder/src/punycoder_nfc.h | 15 punycoder-1.3.0/punycoder/src/punycoder_normalize.cpp | 700 punycoder-1.3.0/punycoder/src/punycoder_normalize.h | 43 punycoder-1.3.0/punycoder/src/punycoder_service.cpp | 37 punycoder-1.3.0/punycoder/src/punycoder_unicode_version.cpp |only punycoder-1.3.0/punycoder/src/punycoder_unicode_version.h |only punycoder-1.3.0/punycoder/src/punycoder_utf8.cpp | 7 punycoder-1.3.0/punycoder/src/unicode_tables_16_0_0.cpp |12751 ++++++---- punycoder-1.3.0/punycoder/src/unicode_tables_16_0_0.h | 69 punycoder-1.3.0/punycoder/src/unicode_tables_17_0_0.cpp |only punycoder-1.3.0/punycoder/src/unicode_tables_17_0_0.h |only punycoder-1.3.0/punycoder/src/unicode_tables_registry.h |only punycoder-1.3.0/punycoder/tests/testthat/helper-idna.R | 22 punycoder-1.3.0/punycoder/tests/testthat/helper-security.R |only punycoder-1.3.0/punycoder/tests/testthat/helper-validation.R | 38 punycoder-1.3.0/punycoder/tests/testthat/test-backends.R | 36 punycoder-1.3.0/punycoder/tests/testthat/test-contracts.R | 114 punycoder-1.3.0/punycoder/tests/testthat/test-encoding.R | 47 punycoder-1.3.0/punycoder/tests/testthat/test-idna-conformance.R | 183 punycoder-1.3.0/punycoder/tests/testthat/test-normalize.R | 164 punycoder-1.3.0/punycoder/tests/testthat/test-performance.R | 179 punycoder-1.3.0/punycoder/tests/testthat/test-security.R | 234 punycoder-1.3.0/punycoder/tests/testthat/test-spelling-aliases.R |only punycoder-1.3.0/punycoder/tests/testthat/test-unicode-versions.R |only punycoder-1.3.0/punycoder/tests/testthat/test-unicode.R | 62 punycoder-1.3.0/punycoder/tests/testthat/test-validators.R | 144 punycoder-1.3.0/punycoder/vignettes/punycoder-intro.Rmd | 108 75 files changed, 11464 insertions(+), 5903 deletions(-)
Title: Benchmark for Publication Bias Correction Methods
Description: Implements a unified interface for benchmarking meta-analytic
publication bias correction methods through simulation studies (see
Bartoš et al., 2025, <doi:10.48550/arXiv.2510.19489>). It provides
1) predefined data-generating mechanisms from the literature, 2) functions
for running meta-analytic methods on simulated data, 3) pre-simulated
datasets and pre-computed results for reproducible benchmarks, 4) tools for
visualizing and comparing method performance.
Author: Frantisek Bartos [aut, cre] ,
Samuel Pawel [aut] ,
Bjoern S. Siepe [aut] ,
Petr Čala [aut]
Maintainer: Frantisek Bartos <f.bartos96@gmail.com>
Diff between PublicationBiasBenchmark versions 0.2.1 dated 2026-05-23 and 0.3.0 dated 2026-09-30
DESCRIPTION | 17 ++-- MD5 | 70 ++++++++++-------- NAMESPACE | 9 ++ NEWS.md | 11 ++ R/download.R | 59 ++++++++------- R/measures_compute.R | 72 ++++++++++++++++-- R/measures_pairwise.R | 6 + R/method-MAN.R |only R/method-MMPH.R |only R/method-RTMA.R |only R/method-fit_limit.R |only R/method.R | 41 +++++++++- R/tools.R | 4 - README.md | 47 ++++++++---- build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 33 ++++++++ inst/doc/Computing_Method_Measures.Rmd | 2 inst/doc/Computing_Method_Measures.html | 5 + inst/doc/Computing_Method_Results.R | 6 + inst/doc/Computing_Method_Results.Rmd | 6 + inst/doc/Computing_Method_Results.html | 122 ++++++++++++++++---------------- man/compare_measures.Rd | 3 man/compare_single_measure.Rd | 3 man/compute_measures.Rd | 8 +- man/compute_single_measure.Rd | 8 +- man/create_empty_result.Rd | 42 +++++------ man/measure.Rd | 40 +++++----- man/measure_mcse.Rd | 40 +++++----- man/method.MAN.Rd |only man/method.MMPH.Rd |only man/method.RTMA.Rd |only man/method_extra_columns.Rd | 86 +++++++++++----------- man/method_settings.Rd | 58 +++++++-------- man/run_method.Rd | 36 +++++++++ man/validate_dgm_setting.Rd | 72 +++++++++--------- tests/testthat/test-downloads.R |only tests/testthat/test-methods.R | 82 +++++++++++++++++++++ vignettes/Computing_Method_Measures.Rmd | 2 vignettes/Computing_Method_Results.Rmd | 6 + 40 files changed, 661 insertions(+), 335 deletions(-)
More information about PublicationBiasBenchmark at CRAN
Permanent link
Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A general purpose toolbox developed originally for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Validation and cross validation of scales developed using basic machine learning algorithms are provided, as are functions for simulating and testing particular item and test structures. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, including mediation models, factor analysis and structural equation models are created using basic graphics. Some of the fu [...truncated...]
Author: William Revelle [aut, cre]
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psych versions 2.6.5 dated 2026-05-15 and 2.6.9 dated 2026-09-30
psych-2.6.5/psych/R/densityBy.r |only psych-2.6.9/psych/DESCRIPTION | 8 +- psych-2.6.9/psych/MD5 | 72 ++++++++++++------------ psych-2.6.9/psych/NAMESPACE | 2 psych-2.6.9/psych/R/Pinv.R | 23 ++++++- psych-2.6.9/psych/R/anova.psych.R | 2 psych-2.6.9/psych/R/bassAckward.R | 4 - psych-2.6.9/psych/R/bestScale.R | 8 +- psych-2.6.9/psych/R/cohen.d.R | 26 +++++++- psych-2.6.9/psych/R/cta.R | 2 psych-2.6.9/psych/R/densityBy.R |only psych-2.6.9/psych/R/fa.R | 2 psych-2.6.9/psych/R/factor.congruence.R | 6 +- psych-2.6.9/psych/R/lmCor.R | 29 +++++---- psych-2.6.9/psych/R/misc.R | 14 +++- psych-2.6.9/psych/R/mixed.cor.R | 21 +++++-- psych-2.6.9/psych/R/polychoric.R | 2 psych-2.6.9/psych/R/principal.R | 2 psych-2.6.9/psych/R/print.psych.R | 10 ++- psych-2.6.9/psych/R/statsBy.r | 7 ++ psych-2.6.9/psych/R/tetrachor.R | 8 +- psych-2.6.9/psych/build/partial.rdb |binary psych-2.6.9/psych/build/vignette.rds |binary psych-2.6.9/psych/inst/CITATION | 2 psych-2.6.9/psych/inst/NEWS.Rd | 66 +++++++++++++++++----- psych-2.6.9/psych/inst/doc/scoring.pdf |binary psych-2.6.9/psych/man/Pinv.Rd | 47 ++++++++++----- psych-2.6.9/psych/man/best.scales.Rd | 5 + psych-2.6.9/psych/man/cohen.d.Rd | 21 +++++++ psych-2.6.9/psych/man/cta.Rd | 19 ++++-- psych-2.6.9/psych/man/densityBy.Rd | 7 ++ psych-2.6.9/psych/man/fa.Rd | 6 +- psych-2.6.9/psych/man/lmCor.Rd | 10 +-- psych-2.6.9/psych/man/mediate.Rd | 22 +++---- psych-2.6.9/psych/man/mixed.cor.Rd | 2 psych-2.6.9/psych/man/multilevel.reliability.Rd | 7 +- psych-2.6.9/psych/man/statsBy.Rd | 5 + psych-2.6.9/psych/man/tetrachor.Rd | 4 - 38 files changed, 314 insertions(+), 157 deletions(-)
Title: Policy Learning
Description: Package for learning and evaluating (subgroup) policies via doubly robust loss functions. Policy learning methods include doubly robust blip/conditional average treatment effect learning and sequential policy tree learning. Methods for (subgroup) policy evaluation include doubly robust cross-fitting and online estimation/sequential validation. See Nordland and Holst (2026) <doi:10.18637/jss.v116.i04> for documentation and references.
Author: Andreas Nordland [aut, cre],
Klaus Holst [aut]
Maintainer: Andreas Nordland <andreasnordland@gmail.com>
Diff between polle versions 1.6.4 dated 2026-05-17 and 1.6.5 dated 2026-09-30
polle-1.6.4/polle/tests/testthat/test-q_sl.R |only polle-1.6.5/polle/DESCRIPTION | 18 polle-1.6.5/polle/MD5 | 108 polle-1.6.5/polle/NAMESPACE | 74 polle-1.6.5/polle/NEWS.md | 14 polle-1.6.5/polle/R/Q_function.R | 22 polle-1.6.5/polle/R/blip.R | 51 polle-1.6.5/polle/R/c_function.R | 4 polle-1.6.5/polle/R/drql.R | 4 polle-1.6.5/polle/R/estimate_target.R | 194 + polle-1.6.5/polle/R/fit_functions.R | 2 polle-1.6.5/polle/R/g_function.R | 4 polle-1.6.5/polle/R/g_models.R | 151 - polle-1.6.5/polle/R/m_function.R | 3 polle-1.6.5/polle/R/owl.R | 38 polle-1.6.5/polle/R/policy_data.R | 3 polle-1.6.5/polle/R/policy_def.R | 4 polle-1.6.5/polle/R/policy_eval.R | 278 +- polle-1.6.5/polle/R/policy_eval_functions.R | 224 +- polle-1.6.5/polle/R/policy_eval_online.R | 52 polle-1.6.5/polle/R/policy_learn.R | 29 polle-1.6.5/polle/R/polle-package.R | 27 polle-1.6.5/polle/R/ptl.R | 38 polle-1.6.5/polle/R/q_models.R | 187 - polle-1.6.5/polle/R/rql.R | 2 polle-1.6.5/polle/R/sl_models.R | 72 polle-1.6.5/polle/inst/doc/optimal_subgroup.html | 14 polle-1.6.5/polle/inst/doc/policy_data.html | 55 polle-1.6.5/polle/inst/doc/policy_eval.R | 4 polle-1.6.5/polle/inst/doc/policy_eval.Rmd | 6 polle-1.6.5/polle/inst/doc/policy_eval.html | 72 polle-1.6.5/polle/inst/doc/policy_learn.html | 58 polle-1.6.5/polle/man/control_blip.Rd | 2 polle-1.6.5/polle/man/control_drql.Rd | 2 polle-1.6.5/polle/man/control_owl.Rd | 21 polle-1.6.5/polle/man/fit_g_functions.Rd | 2 polle-1.6.5/polle/man/g_model.Rd | 31 polle-1.6.5/polle/man/policy_data.Rd | 3 polle-1.6.5/polle/man/policy_eval.Rd | 88 polle-1.6.5/polle/man/policy_eval_online.Rd | 7 polle-1.6.5/polle/man/policy_learn.Rd | 9 polle-1.6.5/polle/man/polle-package.Rd | 1 polle-1.6.5/polle/man/q_model.Rd | 38 polle-1.6.5/polle/man/reexports.Rd | 5 polle-1.6.5/polle/tests/testthat/test-Q-function.R |only polle-1.6.5/polle/tests/testthat/test-g_models.R | 89 polle-1.6.5/polle/tests/testthat/test-policy_eval-censoring.R | 117 - polle-1.6.5/polle/tests/testthat/test-policy_eval-subgroup.R | 1112 +++++++++- polle-1.6.5/polle/tests/testthat/test-policy_eval.R | 471 +++- polle-1.6.5/polle/tests/testthat/test-policy_eval_online.R | 2 polle-1.6.5/polle/tests/testthat/test-policy_learn-blip.R | 26 polle-1.6.5/polle/tests/testthat/test-policy_learn-drql.R | 4 polle-1.6.5/polle/tests/testthat/test-policy_learn-owl.R | 58 polle-1.6.5/polle/tests/testthat/test-policy_learn.R | 2 polle-1.6.5/polle/tests/testthat/test-q_models.R | 105 polle-1.6.5/polle/vignettes/policy_eval.Rmd | 6 56 files changed, 2841 insertions(+), 1172 deletions(-)
Title: Client for the Poverty and Inequality Platform ('PIP') API
Description: An interface to compute poverty and inequality
indicators for more than 160 countries and regions from the World
Bank's database of household surveys, through the
Poverty and Inequality Portal (PIP).
Author: Tony Fujs [aut],
Aleksander Eilertsen [aut],
Ronak Shah [aut],
R.Andres Castaneda [aut, cre],
Giorgia Cecchinato [aut],
World Bank [cph]
Maintainer: R.Andres Castaneda <acastanedaa@worldbank.org>
This is a re-admission after prior archival of version 1.4.0 dated 2025-12-22
Diff between pipr versions 1.4.0 dated 2025-12-22 and 1.5.0 dated 2026-09-30
DESCRIPTION | 10 LICENSE | 4 MD5 | 106 +-- NAMESPACE | 34 - NEWS.md | 17 R/aaa.R | 288 ++++---- R/build_request.R | 176 ++--- R/data.R | 72 +- R/display_aux.R | 215 +++--- R/get_aux.R | 894 ++++++++++++++------------- R/get_cp.R | 152 ++-- R/get_cp_ki.R | 249 +++---- R/get_gd.R | 350 +++++----- R/get_stats.R | 555 ++++++++--------- R/other.R | 102 +-- R/utils.R | 1193 ++++++++++++++++++++++++------------- R/zzz.R | 46 - README.md | 192 +---- man/args_to_string.Rd | 40 - man/build_request.Rd | 46 - man/build_request_old.Rd | 46 - man/call_aux.Rd | 56 - man/change_grouped_stats_to_csv.Rd | 37 - man/check_api.Rd | 49 - man/datt_rural.Rd | 53 - man/datt_urban.Rd | 55 - man/delete_cache.Rd | 34 - man/display_aux.Rd | 98 +-- man/get_aux.Rd | 629 +++++++++---------- man/get_cache_info.Rd | 34 - man/get_cp.Rd | 124 +-- man/get_cp_ki.Rd | 114 +-- man/get_gd.Rd | 199 +++--- man/get_pip_info.Rd | 49 - man/get_stats.Rd | 275 ++++---- man/get_versions.Rd | 55 - man/parse_error_body.Rd | 34 - man/parse_response.Rd | 46 - man/pip_is_transient.Rd | 36 - man/rename_cols.Rd | 44 - man/retry_after.Rd | 36 - man/run_cli.Rd | 30 man/set_aux.Rd | 44 - man/unnest_ki.Rd | 44 - tests/testthat.R | 8 tests/testthat/test-caching.R | 66 +- tests/testthat/test-display_aux.R | 34 - tests/testthat/test-get_aux.R | 149 ++-- tests/testthat/test-get_cp.R | 177 +++-- tests/testthat/test-get_cp_ki.R | 263 +++++--- tests/testthat/test-get_gd.R | 228 +++---- tests/testthat/test-get_stats.R | 608 ++++++++++-------- tests/testthat/test-other.R | 100 +-- tests/testthat/test-utils.R | 672 ++++++++++++-------- 54 files changed, 5011 insertions(+), 4256 deletions(-)
Title: Open Population Capture-Recapture
Description: Non-spatial and spatial open-population capture-recapture analysis.
Author: Murray Efford [aut, cre]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between openCR versions 2.2.7 dated 2024-10-23 and 2.2.8 dated 2026-09-30
DESCRIPTION | 11 MD5 | 30 NEWS | 921 +++++++------- R/getfn.R | 7 R/loglik.R | 23 R/logliksecr.R | 68 - R/makeNewData.openCR.R | 364 ++--- R/openCR.design.R | 91 - R/openCR.fit.R | 10 R/utility.R | 2736 +++++++++++++++++++++---------------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/openCR-vignette.R | 174 +- inst/doc/openCR-vignette.pdf |binary man/microtus.Rd | 5 man/openCR-package.Rd | 210 +-- 16 files changed, 2347 insertions(+), 2303 deletions(-)
Title: Actuarial Functions for Non-Life Insurance Modelling
Description: Assists actuaries and other insurance modellers in pricing,
reserving and capital modelling for non-life insurance and
reinsurance modelling. Provides functions that help model
excess levels, capping and pure Incurred but not reported
claims (pure IBNR).
Includes capped mean, exposure curves and increased limit
factor curves (ILFs) for LogNormal, Gamma, Pareto, Sliced
LogNormal-Pareto and Sliced Gamma-Pareto distributions.
Includes mean, probability density function (pdf), cumulative
probability function (cdf) and inverse cumulative probability
function for Sliced LogNormal-Pareto and Sliced Gamma-Pareto
distributions.
Includes calculating pure IBNR exposure with LogNormal and
Gamma distribution for reporting delay.
Includes three 'shiny' tools: a claims simulator with reinsurance
structures, a generalised linear model fitting tool, and a claims
frequency and severity distribution fitting tool.
Methods used in the package refer to
Free for All by Yiannis Parizas (2023) <https://www. [...truncated...]
Author: Yiannis Parizas [aut, cre]
Maintainer: Yiannis Parizas <yiannis.parizas@gmail.com>
Diff between NetSimR versions 0.3.1 dated 2026-09-22 and 0.3.2 dated 2026-09-30
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 9 +++++++++ R/settings_file.R | 4 +++- inst/WORDLIST | 1 + tests/testthat/test-settings-file.R | 20 ++++++++++++++++++-- 6 files changed, 39 insertions(+), 11 deletions(-)
Title: Analyzing Partial Rankings in Networks
Description: Implements methods for centrality related analyses of networks.
While the package includes the possibility to build more than 20 indices,
its main focus lies on index-free assessment of centrality via partial
rankings obtained by neighborhood-inclusion or positional dominance. These
partial rankings can be analyzed with different methods, including
probabilistic methods like computing expected node ranks and relative
rank probabilities (how likely is it that a node is more central than another?).
The methodology is described in depth in the vignettes and in
Schoch (2018) <doi:10.1016/j.socnet.2017.12.003>.
Author: David Schoch [aut, cre] ,
Julian Mueller [ctb]
Maintainer: David Schoch <david@schochastics.net>
Diff between netrankr versions 1.2.4 dated 2025-02-05 and 2.0.0 dated 2026-09-30
netrankr-1.2.4/netrankr/R/plot.rank.intervals.R |only netrankr-1.2.4/netrankr/man/plot_rank_intervals.Rd |only netrankr-1.2.4/netrankr/src/resistanceDistance.cpp |only netrankr-2.0.0/netrankr/DESCRIPTION | 16 netrankr-2.0.0/netrankr/MD5 | 172 +++---- netrankr-2.0.0/netrankr/NAMESPACE | 22 netrankr-2.0.0/netrankr/NEWS.md | 88 +++ netrankr-2.0.0/netrankr/R/RcppExports.R | 42 - netrankr-2.0.0/netrankr/R/aggregate.index.R | 11 netrankr-2.0.0/netrankr/R/approximate.ranks.R | 135 +---- netrankr-2.0.0/netrankr/R/check.preservation.R | 12 netrankr-2.0.0/netrankr/R/comparable.pairs.R | 18 netrankr-2.0.0/netrankr/R/compare.ranks.R | 6 netrankr-2.0.0/netrankr/R/dominance.graph.R | 7 netrankr-2.0.0/netrankr/R/get.rankings.R | 11 netrankr-2.0.0/netrankr/R/hyperbolic.index.R | 46 - netrankr-2.0.0/netrankr/R/index.builder.R | 163 +++--- netrankr-2.0.0/netrankr/R/indirect.relations.R | 239 +++++----- netrankr-2.0.0/netrankr/R/majorization.gap.R | 55 -- netrankr-2.0.0/netrankr/R/mcmc.rank.R | 56 -- netrankr-2.0.0/netrankr/R/neighborhood.inclusion.R | 19 netrankr-2.0.0/netrankr/R/netswan.R | 169 +++---- netrankr-2.0.0/netrankr/R/positional.dominance.R | 39 + netrankr-2.0.0/netrankr/R/rank.analysis.R | 117 +--- netrankr-2.0.0/netrankr/R/rank.interval.R | 15 netrankr-2.0.0/netrankr/R/spectral.gap.R | 29 - netrankr-2.0.0/netrankr/R/threshold.graph.R | 20 netrankr-2.0.0/netrankr/R/transform.relations.R | 19 netrankr-2.0.0/netrankr/R/transitive.reduction.R | 1 netrankr-2.0.0/netrankr/R/utils.R | 56 -- netrankr-2.0.0/netrankr/R/validation.R |only netrankr-2.0.0/netrankr/build/vignette.rds |binary netrankr-2.0.0/netrankr/inst/doc/benchmarks.html | 28 - netrankr-2.0.0/netrankr/inst/doc/centrality_indices.html | 5 netrankr-2.0.0/netrankr/inst/doc/indirect_relations.html | 5 netrankr-2.0.0/netrankr/inst/doc/neighborhood_inclusion.html | 13 netrankr-2.0.0/netrankr/inst/doc/partial_centrality.Rmd | 2 netrankr-2.0.0/netrankr/inst/doc/partial_centrality.html | 37 - netrankr-2.0.0/netrankr/inst/doc/positional_dominance.html | 5 netrankr-2.0.0/netrankr/inst/doc/probabilistic_cent.html | 7 netrankr-2.0.0/netrankr/inst/doc/threshold_graph.R | 2 netrankr-2.0.0/netrankr/inst/doc/threshold_graph.Rmd | 2 netrankr-2.0.0/netrankr/inst/doc/threshold_graph.html | 104 ++-- netrankr-2.0.0/netrankr/inst/doc/use_case.R | 2 netrankr-2.0.0/netrankr/inst/doc/use_case.Rmd | 2 netrankr-2.0.0/netrankr/inst/doc/use_case.html | 42 - netrankr-2.0.0/netrankr/man/incomparable_pairs.Rd | 4 netrankr-2.0.0/netrankr/man/indirect_relations.Rd | 13 netrankr-2.0.0/netrankr/man/majorization_gap.Rd | 3 netrankr-2.0.0/netrankr/man/netrankr-package.Rd | 5 netrankr-2.0.0/netrankr/man/rank_intervals.Rd | 8 netrankr-2.0.0/netrankr/man/spectral_gap.Rd | 5 netrankr-2.0.0/netrankr/man/swan_closeness.Rd | 2 netrankr-2.0.0/netrankr/man/swan_efficiency.Rd | 20 netrankr-2.0.0/netrankr/man/threshold_graph.Rd | 2 netrankr-2.0.0/netrankr/src/Makevars | 3 netrankr-2.0.0/netrankr/src/Makevars.win | 3 netrankr-2.0.0/netrankr/src/RcppExports.cpp | 84 --- netrankr-2.0.0/netrankr/src/approx_expected.cpp | 4 netrankr-2.0.0/netrankr/src/approxrelative.cpp | 9 netrankr-2.0.0/netrankr/src/checkPairs.cpp | 14 netrankr-2.0.0/netrankr/src/dependCurFlow.cpp | 2 netrankr-2.0.0/netrankr/src/dependRspn.cpp | 74 +-- netrankr-2.0.0/netrankr/src/dependency.cpp | 91 +-- netrankr-2.0.0/netrankr/src/latticeOfIdeals.cpp | 2 netrankr-2.0.0/netrankr/src/listingIdeals.cpp | 45 - netrankr-2.0.0/netrankr/src/mcmc_rank.cpp | 146 ++---- netrankr-2.0.0/netrankr/src/nialgo.cpp | 65 +- netrankr-2.0.0/netrankr/src/pdalgo.cpp | 5 netrankr-2.0.0/netrankr/src/preserve.cpp | 2 netrankr-2.0.0/netrankr/src/rankProbs.cpp | 38 - netrankr-2.0.0/netrankr/src/rankings.cpp | 11 netrankr-2.0.0/netrankr/src/transreduct.cpp | 8 netrankr-2.0.0/netrankr/src/treeOfIdeals.cpp | 36 + netrankr-2.0.0/netrankr/tests/testthat/test-comparable.pairs.R | 2 netrankr-2.0.0/netrankr/tests/testthat/test-hyperbolic.index.R | 2 netrankr-2.0.0/netrankr/tests/testthat/test_approximations.R | 1 netrankr-2.0.0/netrankr/tests/testthat/test_coverage_gaps.R |only netrankr-2.0.0/netrankr/tests/testthat/test_cpp_regressions.R |only netrankr-2.0.0/netrankr/tests/testthat/test_dominance.R | 1 netrankr-2.0.0/netrankr/tests/testthat/test_exact_rank_prob.R | 1 netrankr-2.0.0/netrankr/tests/testthat/test_graph_utils.R |only netrankr-2.0.0/netrankr/tests/testthat/test_helpers.R | 1 netrankr-2.0.0/netrankr/tests/testthat/test_index_builder.R |only netrankr-2.0.0/netrankr/tests/testthat/test_indices.R | 1 netrankr-2.0.0/netrankr/tests/testthat/test_indirect_relations.R | 3 netrankr-2.0.0/netrankr/tests/testthat/test_relations_regressions.R |only netrankr-2.0.0/netrankr/tests/testthat/test_threshold_graph.R | 1 netrankr-2.0.0/netrankr/tests/testthat/test_validation.R |only netrankr-2.0.0/netrankr/vignettes/partial_centrality.Rmd | 2 netrankr-2.0.0/netrankr/vignettes/threshold_graph.Rmd | 2 netrankr-2.0.0/netrankr/vignettes/use_case.Rmd | 2 92 files changed, 1221 insertions(+), 1341 deletions(-)
Title: Probing, Plotting, and Interpreting Multilevel Interaction
Effects
Description: Provides a workflow for probing, plotting, and checking
cross-level interaction effects in two-level mixed-effects models fitted
with 'lme4' (Bates et al., 2015) <doi:10.18637/jss.v067.i01>. Implements
simple slopes analysis following Aiken and West (1991,
ISBN:9780761907121), Johnson-Neyman intervals following Johnson and Fay
(1950) <doi:10.1007/BF02288864> and Bauer and Curran (2005)
<doi:10.1207/s15327906mbr4003_5>, and grand- or group-mean centering as
described in Enders and Tofighi (2007) <doi:10.1037/1082-989X.12.2.121>.
Tests and intervals use Satterthwaite degrees of freedom via 'lmerTest'
(Kuznetsova et al., 2017) <doi:10.18637/jss.v082.i13> by default, with
Kenward-Roger and between-cluster alternatives. Also provides confidence
and new-cluster prediction intervals for simple slopes in random-slope
models, contour plots of predicted outcomes over the predictor-by-moderator
space, and leave-one-cluster-out influence diagnostics for the
interactio [...truncated...]
Author: Subir Hait [aut, cre]
Maintainer: Subir Hait <haitsubi@msu.edu>
Diff between mlmoderator versions 0.2.1 dated 2026-04-03 and 0.3.0 dated 2026-09-30
DESCRIPTION | 49 +- MD5 | 71 ++- NAMESPACE | 4 NEWS.md |only R/mlm_jn.R | 150 +++++--- R/mlm_plot.R | 70 +-- R/mlm_probe.R | 66 ++- R/mlm_sensitivity.R | 613 +++++++++++---------------------- R/mlm_summary.R | 44 +- R/mlm_surface.R | 8 R/mlm_variance_decomp.R | 223 +++++------- R/mlmoderator-package.R | 18 R/utils_predict.R | 86 +--- R/utils_vcov.R | 188 +++++++--- README.md | 297 ++------------- build/partial.rdb |only build/vignette.rds |binary inst/doc/cross-level-interactions.html | 56 +-- inst/doc/getting-started.html | 62 +-- inst/doc/hsb-workflow.R |only inst/doc/hsb-workflow.Rmd |only inst/doc/hsb-workflow.html |only man/mlm_center.Rd | 22 - man/mlm_jn.Rd | 73 +++ man/mlm_plot.Rd | 56 ++- man/mlm_probe.Rd | 76 ++-- man/mlm_sensitivity.Rd | 155 ++++---- man/mlm_summary.Rd | 48 +- man/mlm_surface.Rd | 51 +- man/mlm_variance_decomp.Rd | 121 +++--- man/mlmoderator-package.Rd | 48 +- man/plot.mlm_jn.Rd | 12 man/plot.mlm_sensitivity.Rd | 12 man/plot.mlm_variance_decomp.Rd | 4 man/school_data.Rd | 12 tests/testthat/helper.R | 13 tests/testthat/test-inference.R |only tests/testthat/test-jn-exact.R |only tests/testthat/test-sensitivity.R |only tests/testthat/test-surface-summary.R |only tests/testthat/test-variance_decomp.R |only vignettes/hsb-workflow.Rmd |only 42 files changed, 1272 insertions(+), 1436 deletions(-)
Title: Network Analysis and Visualization
Description: Routines for simple graphs and network analysis. It can
handle large graphs very well and provides functions for generating
random and regular graphs, graph visualization, centrality methods and
much more.
Author: Gabor Csardi [aut] ,
Tamas Nepusz [aut] ,
Vincent Traag [aut] ,
Szabolcs Horvat [aut] ,
Fabio Zanini [aut] ,
Daniel Noom [aut],
Kirill Mueller [aut, cre] ,
Michael Antonov [ctb],
Chan Zuckerberg Initiative [fnd] ,
David Schoch [aut] ,
Maelle Salmon [a [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between igraph versions 2.3.3 dated 2026-06-26 and 2.3.4 dated 2026-09-30
DESCRIPTION | 16 MD5 | 714 ++++++++++++++-------------- NAMESPACE | 78 +-- NEWS.md | 11 R/igraph-package.R | 1 R/plot.common.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/benchmarks/time_sgm.R | 2 inst/doc/igraph.html | 86 +-- inst/doc/igraph_ES.html | 114 ++-- man/E.Rd | 10 man/V.Rd | 10 man/aaa-igraph-package.Rd | 1 man/add_edges.Rd | 48 - man/add_layout_.Rd | 44 - man/add_vertices.Rd | 48 - man/adjacent_vertices.Rd | 28 - man/all_simple_paths.Rd | 12 man/alpha_centrality.Rd | 26 - man/are_adjacent.Rd | 28 - man/articulation_points.Rd | 12 man/as.matrix.igraph.Rd | 22 man/as_adj_list.Rd | 22 man/as_adjacency_matrix.Rd | 22 man/as_biadjacency_matrix.Rd | 22 man/as_directed.Rd | 22 man/as_edgelist.Rd | 22 man/as_graphnel.Rd | 22 man/as_ids.Rd | 10 man/as_long_data_frame.Rd | 22 man/as_membership.Rd | 40 - man/automorphism_group.Rd | 4 man/betweenness.Rd | 26 - man/bfs.Rd | 50 - man/biconnected_components.Rd | 12 man/bipartite_mapping.Rd | 8 man/bipartite_projection.Rd | 8 man/c.igraph.es.Rd | 24 man/c.igraph.vs.Rd | 24 man/canonical_permutation.Rd | 18 man/categorical_pal.Rd | 8 man/centr_betw.Rd | 18 man/centr_betw_tmax.Rd | 18 man/centr_clo.Rd | 18 man/centr_clo_tmax.Rd | 18 man/centr_degree.Rd | 18 man/centr_degree_tmax.Rd | 18 man/centr_eigen.Rd | 18 man/centr_eigen_tmax.Rd | 18 man/centralize.Rd | 18 man/cliques.Rd | 10 man/closeness.Rd | 26 - man/cluster_edge_betweenness.Rd | 40 - man/cluster_fast_greedy.Rd | 40 - man/cluster_fluid_communities.Rd | 40 - man/cluster_infomap.Rd | 40 - man/cluster_label_prop.Rd | 40 - man/cluster_leading_eigen.Rd | 42 - man/cluster_leiden.Rd | 40 - man/cluster_louvain.Rd | 40 - man/cluster_optimal.Rd | 40 - man/cluster_spinglass.Rd | 40 - man/cluster_walktrap.Rd | 40 - man/cocitation.Rd | 4 man/communities.Rd | 40 - man/compare.Rd | 40 - man/complementer.Rd | 48 - man/component_wise.Rd | 50 - man/components.Rd | 62 +- man/compose.Rd | 48 - man/consensus_tree.Rd | 16 man/constraint.Rd | 50 - man/contract.Rd | 48 - man/convex_hull.Rd | 6 man/coreness.Rd | 50 - man/count_automorphisms.Rd | 4 man/count_isomorphisms.Rd | 18 man/count_motifs.Rd | 8 man/count_reachable.Rd | 12 man/count_subgraph_isomorphisms.Rd | 18 man/decompose.Rd | 12 man/degree.Rd | 50 - man/delete_edge_attr.Rd | 32 - man/delete_edges.Rd | 48 - man/delete_graph_attr.Rd | 32 - man/delete_vertex_attr.Rd | 32 - man/delete_vertices.Rd | 48 - man/dfs.Rd | 50 - man/diameter.Rd | 12 man/difference.Rd | 48 - man/difference.igraph.Rd | 48 - man/difference.igraph.es.Rd | 24 man/difference.igraph.vs.Rd | 24 man/dim_select.Rd | 6 man/disjoint_union.Rd | 48 - man/distances.Rd | 62 +- man/diverging_pal.Rd | 8 man/diversity.Rd | 26 - man/dominator_tree.Rd | 22 man/dot-data.Rd | 2 man/dyad_census.Rd | 8 man/each_edge.Rd | 6 man/eccentricity.Rd | 12 man/edge.Rd | 48 - man/edge_attr-set.Rd | 32 - man/edge_attr.Rd | 32 - man/edge_attr_names.Rd | 32 - man/edge_connectivity.Rd | 22 man/edge_density.Rd | 50 - man/ego.Rd | 98 +-- man/eigen_centrality.Rd | 26 - man/embed_adjacency_matrix.Rd | 6 man/embed_laplacian_matrix.Rd | 6 man/ends.Rd | 28 - man/erdos.renyi.game.Rd | 54 +- man/feedback_arc_set.Rd | 66 +- man/feedback_vertex_set.Rd | 66 +- man/find_cycle.Rd | 16 man/fit_hrg.Rd | 16 man/get_edge_ids.Rd | 28 - man/girth.Rd | 66 +- man/gorder.Rd | 28 - man/graph.motifs.Rd | 2 man/graph_attr-set.Rd | 32 - man/graph_attr.Rd | 32 - man/graph_attr_names.Rd | 32 - man/graph_center.Rd | 12 man/graph_from_adj_list.Rd | 22 man/graph_from_atlas.Rd | 34 - man/graph_from_biadjacency_matrix.Rd | 4 man/graph_from_data_frame.Rd | 26 - man/graph_from_edgelist.Rd | 34 - man/graph_from_graphdb.Rd | 6 man/graph_from_graphnel.Rd | 22 man/graph_from_isomorphism_class.Rd | 18 man/graph_from_literal.Rd | 34 - man/graph_version.Rd | 4 man/groups.Rd | 40 - man/gsize.Rd | 28 - man/harmonic_centrality.Rd | 26 - man/has_eulerian_path.Rd | 16 man/head_of.Rd | 28 - man/hits_scores.Rd | 26 - man/hrg-methods.Rd | 18 man/hrg.Rd | 16 man/hrg_tree.Rd | 16 man/hub_score.Rd | 26 - man/igraph-attribute-combination.Rd | 34 - man/igraph-dollar.Rd | 34 - man/igraph-es-attributes.Rd | 12 man/igraph-es-indexing.Rd | 38 - man/igraph-es-indexing2.Rd | 38 - man/igraph-minus.Rd | 50 - man/igraph-vs-attributes.Rd | 46 - man/igraph-vs-indexing.Rd | 38 - man/igraph-vs-indexing2.Rd | 38 - man/igraph_options.Rd | 4 man/incident.Rd | 28 - man/incident_edges.Rd | 28 - man/intersection.Rd | 48 - man/intersection.igraph.Rd | 48 - man/intersection.igraph.es.Rd | 24 man/intersection.igraph.vs.Rd | 24 man/is_acyclic.Rd | 66 +- man/is_biconnected.Rd | 12 man/is_bipartite.Rd | 8 man/is_chordal.Rd | 4 man/is_complete.Rd | 8 man/is_dag.Rd | 66 +- man/is_degseq.Rd | 4 man/is_directed.Rd | 28 - man/is_forest.Rd | 10 man/is_graphical.Rd | 4 man/is_min_separator.Rd | 22 man/is_printer_callback.Rd | 4 man/is_separator.Rd | 22 man/is_tree.Rd | 10 man/isomorphic.Rd | 18 man/isomorphism_class.Rd | 18 man/isomorphisms.Rd | 20 man/ivs.Rd | 8 man/k_shortest_paths.Rd | 50 - man/keeping_degseq.Rd | 6 man/knn.Rd | 50 - man/layout_.Rd | 44 - man/layout_as_bipartite.Rd | 44 - man/layout_as_star.Rd | 44 - man/layout_as_tree.Rd | 44 - man/layout_in_circle.Rd | 44 - man/layout_modifier.Rd | 6 man/layout_nicely.Rd | 44 - man/layout_on_grid.Rd | 44 - man/layout_on_sphere.Rd | 44 - man/layout_randomly.Rd | 44 - man/layout_with_dh.Rd | 44 - man/layout_with_fr.Rd | 44 - man/layout_with_gem.Rd | 44 - man/layout_with_graphopt.Rd | 44 - man/layout_with_kk.Rd | 44 - man/layout_with_lgl.Rd | 44 - man/layout_with_mds.Rd | 44 - man/layout_with_sugiyama.Rd | 44 - man/leading.eigenvector.community.Rd | 2 man/local_scan.Rd | 4 man/make_.Rd | 52 +- man/make_bipartite_graph.Rd | 8 man/make_chordal_ring.Rd | 34 - man/make_circulant.Rd | 34 - man/make_clusters.Rd | 40 - man/make_empty_graph.Rd | 34 - man/make_from_prufer.Rd | 10 man/make_full_citation_graph.Rd | 34 - man/make_full_graph.Rd | 34 - man/make_full_multipartite.Rd | 34 - man/make_graph.Rd | 34 - man/make_lattice.Rd | 34 - man/make_ring.Rd | 34 - man/make_star.Rd | 34 - man/make_tree.Rd | 34 - man/make_turan.Rd | 34 - man/make_wheel.Rd | 34 - man/matching.Rd | 50 - man/max_cardinality.Rd | 4 man/max_flow.Rd | 22 man/maximal.cliques.Rd | 2 man/merge_coords.Rd | 44 - man/min_cut.Rd | 22 man/min_separators.Rd | 22 man/min_st_separators.Rd | 22 man/modularity.igraph.Rd | 40 - man/motifs.Rd | 10 man/neighbors.Rd | 28 - man/norm_coords.Rd | 44 - man/normalize.Rd | 50 - man/page_rank.Rd | 26 - man/path.Rd | 48 - man/permute.Rd | 48 - man/pipe.Rd | 3 man/plot.common.Rd | 8 man/plot.igraph.Rd | 4 man/plot.sir.Rd | 4 man/plot_dendrogram.communities.Rd | 40 - man/plus-.igraph.Rd | 48 - man/power_centrality.Rd | 26 - man/predict_edges.Rd | 16 man/print.igraph.es.Rd | 10 man/print.igraph.vs.Rd | 10 man/print.igraphHRG.Rd | 16 man/print.igraphHRGConsensus.Rd | 16 man/printer_callback.Rd | 4 man/r_pal.Rd | 8 man/radius.Rd | 12 man/read_graph.Rd | 6 man/reciprocity.Rd | 50 - man/rep.igraph.Rd | 48 - man/rev.igraph.es.Rd | 24 man/rev.igraph.vs.Rd | 24 man/reverse_edges.Rd | 48 - man/rewire.Rd | 6 man/rglplot.Rd | 4 man/running_mean.Rd | 6 man/sample_.Rd | 72 +- man/sample_bipartite.Rd | 54 +- man/sample_bipartite_gnm.Rd | 54 +- man/sample_chung_lu.Rd | 54 +- man/sample_correlated_gnp.Rd | 54 +- man/sample_correlated_gnp_pair.Rd | 54 +- man/sample_degseq.Rd | 54 +- man/sample_dirichlet.Rd | 6 man/sample_dot_product.Rd | 54 +- man/sample_fitness.Rd | 54 +- man/sample_fitness_pl.Rd | 54 +- man/sample_forestfire.Rd | 54 +- man/sample_gnm.Rd | 54 +- man/sample_gnp.Rd | 54 +- man/sample_grg.Rd | 54 +- man/sample_growing.Rd | 54 +- man/sample_hierarchical_sbm.Rd | 54 +- man/sample_hrg.Rd | 16 man/sample_islands.Rd | 54 +- man/sample_k_regular.Rd | 54 +- man/sample_last_cit.Rd | 54 +- man/sample_motifs.Rd | 8 man/sample_pa.Rd | 54 +- man/sample_pa_age.Rd | 54 +- man/sample_pref.Rd | 54 +- man/sample_sbm.Rd | 54 +- man/sample_seq.Rd | 6 man/sample_smallworld.Rd | 54 +- man/sample_spanning_tree.Rd | 10 man/sample_sphere_surface.Rd | 6 man/sample_sphere_volume.Rd | 6 man/sample_traits_callaway.Rd | 54 +- man/sample_tree.Rd | 54 +- man/scan_stat.Rd | 4 man/sequential_pal.Rd | 8 man/set_edge_attr.Rd | 32 - man/set_graph_attr.Rd | 32 - man/set_vertex_attr.Rd | 32 - man/set_vertex_attrs.Rd | 32 - man/similarity.Rd | 4 man/simple_cycles.Rd | 18 man/simplified.Rd | 18 man/simplify.Rd | 48 - man/sir.Rd | 4 man/spectrum.Rd | 26 - man/split_join_distance.Rd | 40 - man/st_cuts.Rd | 22 man/st_min_cuts.Rd | 22 man/strength.Rd | 26 - man/sub-.igraph.Rd | 28 - man/sub-sub-.igraph.Rd | 28 - man/subcomponent.Rd | 50 - man/subgraph.Rd | 50 - man/subgraph_centrality.Rd | 26 - man/subgraph_isomorphic.Rd | 18 man/subgraph_isomorphisms.Rd | 20 man/tail_of.Rd | 28 - man/to_prufer.Rd | 10 man/topo_sort.Rd | 50 - man/transitive_closure.Rd | 48 - man/transitivity.Rd | 50 - man/unfold_tree.Rd | 50 - man/union.Rd | 48 - man/union.igraph.Rd | 48 - man/union.igraph.es.Rd | 24 man/union.igraph.vs.Rd | 24 man/unique.igraph.es.Rd | 24 man/unique.igraph.vs.Rd | 24 man/upgrade_graph.Rd | 4 man/vertex.Rd | 48 - man/vertex_attr-set.Rd | 32 - man/vertex_attr.Rd | 32 - man/vertex_attr_names.Rd | 32 - man/vertex_connectivity.Rd | 22 man/voronoi_cells.Rd | 40 - man/weighted_cliques.Rd | 8 man/which_multiple.Rd | 50 - man/which_mutual.Rd | 50 - man/with_edge_.Rd | 18 man/with_graph_.Rd | 18 man/with_igraph_opt.Rd | 4 man/with_vertex_.Rd | 18 man/without_attr.Rd | 18 man/without_loops.Rd | 18 man/without_multiples.Rd | 18 man/write_graph.Rd | 6 tests/testthat/test-attributes.R | 2 tests/testthat/test-centrality.R | 4 tests/testthat/test-community.R | 46 - tests/testthat/test-conversion.R | 8 tests/testthat/test-flow.R | 2 tests/testthat/test-indexing.R | 8 tests/testthat/test-layout.R | 7 tests/testthat/test-make.R | 2 tests/testthat/test-other.R | 6 tests/testthat/test-structural-properties.R | 4 358 files changed, 5532 insertions(+), 5489 deletions(-)
Title: Exploratory Factor Analysis Functions for Assessing
Dimensionality
Description: Functions for an assortment of factor analysis-related
procedures, including eleven procedures for determining the number of
factors; for factor analysis with multiple options for methods of extraction
and rotation; for bi-factor analysis; for extension factor analysis;
options for running the analyses using either raw data
or correlation matrices as input and with options
for conducting the analyses using Pearson correlations,
Kendall correlations, Spearman correlations, gamma correlations, or polychoric
correlations; wrapper 'lavaan'-based functions for factorial invariance
and exploratory structural equation modeling;
functions for the factor-ability of a correlation matrix,
for the congruence between factors from different datasets, for the
assessment of local independence, for the assessment of factor solution
complexity, for internal consistency, and for correcting Pearson correlation
coefficients for attenuation due to unreliability.
Auerswald & Moshagen (2019, <doi:10.10 [...truncated...]
Author: Brian P. O'Connor [aut, cre]
Maintainer: Brian P. O'Connor <brian.oconnor@ubc.ca>
Diff between EFA.dimensions versions 0.1.9.1 dated 2026-09-14 and 0.1.9.2 dated 2026-09-30
EFA.dimensions-0.1.9.1/EFA.dimensions/build |only EFA.dimensions-0.1.9.1/EFA.dimensions/inst |only EFA.dimensions-0.1.9.1/EFA.dimensions/vignettes |only EFA.dimensions-0.1.9.2/EFA.dimensions/DESCRIPTION | 11 +- EFA.dimensions-0.1.9.2/EFA.dimensions/MD5 | 39 ++-------- EFA.dimensions-0.1.9.2/EFA.dimensions/R/utilities_bifactor.R | 3 EFA.dimensions-0.1.9.2/EFA.dimensions/R/utilities_boc.R | 2 EFA.dimensions-0.1.9.2/EFA.dimensions/man/BIFACTOR.Rd | 20 +---- EFA.dimensions-0.1.9.2/EFA.dimensions/man/DIMTESTS.Rd | 9 -- EFA.dimensions-0.1.9.2/EFA.dimensions/man/EFA.Rd | 12 --- EFA.dimensions-0.1.9.2/EFA.dimensions/man/ESEM.Rd | 4 - EFA.dimensions-0.1.9.2/EFA.dimensions/man/Factorial_Invariance.Rd | 4 - EFA.dimensions-0.1.9.2/EFA.dimensions/man/INTERNAL_CONSISTENCY.Rd | 10 -- EFA.dimensions-0.1.9.2/EFA.dimensions/man/OMEGA.Rd | 15 +-- EFA.dimensions-0.1.9.2/EFA.dimensions/man/PCA.Rd | 11 -- 15 files changed, 47 insertions(+), 93 deletions(-)
More information about EFA.dimensions at CRAN
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Title: Partial Least Squares Regression Models with Big Matrices
Description: Fast partial least squares (PLS) for dense and out-of-core data.
Provides SIMPLS (straightforward implementation of a statistically inspired
modification of the PLS method) and NIPALS (non-linear iterative partial least-squares) solvers,
plus kernel-style PLS variants ('kernelpls' and 'widekernelpls') with parity to 'pls'. Optimized for
'bigmemory'-backed matrices with streamed cross-products and chunked BLAS (Basic Linear Algebra Subprograms)
(XtX/XtY and XXt/YX), optional file-backed score sinks, and deterministic
testing helpers. Includes an auto-selection strategy that chooses between
XtX SIMPLS, XXt (wide) SIMPLS, and NIPALS based on (n, p) and a configurable
memory budget. About the package, Bertrand and Maumy (2023) <https://hal.science/hal-05352069>,
and <https://hal.science/hal-05352061> highlighted fitting and cross-validating
PLS regression models to big data. For more details about some of the techniques
featured in the package, Dayal and MacGregor (1997)
<d [...truncated...]
Author: Frederic Bertrand [cre, aut] ,
Myriam Maumy [aut]
Maintainer: Frederic Bertrand <frederic.bertrand@lecnam.net>
Diff between bigPLSR versions 0.7.2 dated 2025-12-01 and 0.8.0 dated 2026-09-30
DESCRIPTION | 17 MD5 | 113 ++- NAMESPACE | 2 NEWS.md | 20 R/filematrix_nipals.R |only R/filematrix_provider.R |only R/pls_fit.R | 111 ++- R/predict.R | 30 - build/vignette.rds |binary configure | 74 ++ inst/doc/bigPLSR-auto-selection.html | 4 inst/doc/bigPLSR-kpls-streaming.html | 4 inst/doc/bootstrap-strategies.R | 24 inst/doc/bootstrap-strategies.html | 47 - inst/doc/cross-validation-ic.R | 20 inst/doc/cross-validation-ic.html | 49 - inst/doc/double-rkhs-pls.R | 38 - inst/doc/double-rkhs-pls.html | 7 inst/doc/external-pls-benchmarks-long.R | 396 ++++++------- inst/doc/external-pls-benchmarks-long.html | 55 - inst/doc/external-pls-benchmarks-short.R | 232 ++++---- inst/doc/external-pls-benchmarks-short.html | 38 - inst/doc/kf-pls.html | 4 inst/doc/klogitpls.html | 4 inst/doc/kpls_review.html | 4 inst/doc/plotting-guide.R | 30 - inst/doc/plotting-guide.html | 37 - inst/doc/pls1-benchmark.R | 52 - inst/doc/pls1-benchmark.html | 805 +++++++++++++--------------- inst/doc/pls2-benchmark.R | 62 +- inst/doc/pls2-benchmark.html | 29 - inst/doc/rkhs-overview.html | 4 man/bigPLSR-package.Rd | 1 man/filematrix_provider.Rd |only man/plot_pls_biplot.Rd | 2 man/plot_pls_individuals.Rd | 2 man/plot_pls_variables.Rd | 2 man/pls_fit.Rd | 20 man/pls_predict_scores.Rd | 5 src/Makevars | 1 src/bigmatrix_utils.h | 35 + src/kf_pls.cpp | 68 -- src/pls_cpp.cpp | 28 tests/testthat/Rplots.pdf |binary tests/testthat/test-backends.R | 133 ++++ tests/testthat/test-filematrix-nipals.R |only tests/testthat/test-filematrix-provider.R |only tests/testthat/test-rkhs-bigmem-predict.R | 16 tests/testthat/test-rkhs-predict.R | 35 + vignettes/figures |only 50 files changed, 1410 insertions(+), 1250 deletions(-)
Title: Automatic Replication Tools for Meta-Analysis
Description: Provides a unified and straightforward interface for
performing a variety of meta-analysis methods directly from user data.
Users can input a data frame, specify key parameters, and effortlessly
execute and compare multiple common meta-analytic models. Designed for
immediate usability, the package facilitates transparent, reproducible
research without manual implementation of each analytical method.
Ideal for researchers aiming for efficiency and reproducibility, it
streamlines workflows from data preparation to results interpretation.
Author: Petr Čala [aut, cre],
Matyas Tvrz [ctb]
Maintainer: Petr Čala <61505008@fsv.cuni.cz>
Diff between artma versions 0.4.1 dated 2026-08-20 and 0.5.0 dated 2026-09-30
DESCRIPTION | 28 MD5 | 267 +++-- NAMESPACE | 1 NEWS.md | 87 + R/aaa.R | 93 + R/artma.R | 660 +++++++++++--- R/cli.R | 7 R/generated_check_manifest.R | 24 R/options.R | 42 R/viz.R | 10 inst/CITATION |only inst/artma/calc/methods/stem.R | 91 + inst/artma/const.R | 23 inst/artma/data/column_recognition.R | 660 ++++++++++++-- inst/artma/data/compute.R | 97 +- inst/artma/data/derivation.R |only inst/artma/data/derived_columns.R |only inst/artma/data/external_mapping.R |only inst/artma/data/index.R | 59 + inst/artma/data/interactive_mapping.R | 410 ++++++++ inst/artma/data/method_requirements.R | 15 inst/artma/data/na_handling.R | 54 - inst/artma/data/normalize.R | 199 ++++ inst/artma/data/preprocess.R | 116 ++ inst/artma/data/role_evidence.R |only inst/artma/data/schema_detect.R | 145 ++- inst/artma/data/schema_persist.R | 12 inst/artma/data/schema_reconcile.R | 173 ++- inst/artma/data/schema_ui.R | 366 ++++++- inst/artma/data/smart_detection.R | 178 +++ inst/artma/data/utils.R | 29 inst/artma/data_config/write.R | 46 inst/artma/econometric/bma.R | 245 +++-- inst/artma/econometric/exogeneity.R | 200 ++-- inst/artma/econometric/fma.R | 86 + inst/artma/econometric/nonlinear.R | 62 + inst/artma/econometric/p_hacking.R | 83 + inst/artma/interactive/ask.R | 8 inst/artma/interactive/effect_summary_stats.R | 64 - inst/artma/interactive/hub.R |only inst/artma/interactive/input.R |only inst/artma/interactive/menu.R |only inst/artma/interactive/method_picker.R |only inst/artma/interactive/options_file_menu.R |only inst/artma/interactive/preview.R |only inst/artma/interactive/save_preference.R | 46 inst/artma/interactive/welcome.R | 90 - inst/artma/libs/core/file_picker.R |only inst/artma/methods/best_practice_estimate.R | 63 - inst/artma/methods/bma.R | 10 inst/artma/methods/box_plot.R | 108 +- inst/artma/methods/effect_summary_stats.R | 57 - inst/artma/methods/exogeneity_tests.R | 1 inst/artma/methods/fma.R | 7 inst/artma/methods/funnel_plot.R | 244 ++++- inst/artma/methods/nonlinear_tests.R | 3 inst/artma/methods/p_hacking_tests.R | 45 inst/artma/methods/prima_facie_graphs.R | 60 - inst/artma/methods/robma.R | 23 inst/artma/methods/t_stat_histogram.R | 244 ++--- inst/artma/modules/method_execution.R | 51 - inst/artma/modules/methods_table.R | 12 inst/artma/modules/runtime_methods.R | 31 inst/artma/options/ask.R | 68 - inst/artma/options/column_preprocessing.R | 139 +- inst/artma/options/inspect.R | 11 inst/artma/options/last_used.R |only inst/artma/options/prompts.R | 214 +--- inst/artma/options/template.R | 152 ++- inst/artma/options/templates/options_template.yaml | 195 +++- inst/artma/options/type_registry.R | 9 inst/artma/options/typed_accessors.R | 11 inst/artma/output/export.R | 141 ++ inst/artma/visualization/best_practice_estimate.R | 47 inst/artma/visualization/bma.R |only inst/artma/visualization/colors.R | 279 +++-- inst/artma/visualization/export.R | 261 ++++- inst/artma/visualization/fork_safety.R | 130 ++ inst/artma/visualization/theme.R | 116 ++ inst/artma/visualization/ticks.R | 204 +++- inst/doc/getting-started.Rmd | 42 inst/doc/getting-started.html | 52 - inst/doc/methods-overview.Rmd | 2 inst/doc/methods-overview.html | 3 inst/doc/options-files.Rmd | 9 inst/doc/options-files.html | 14 man/artma-package.Rd | 5 man/artma.Rd | 29 man/execute_run.Rd |only man/invoke_runtime_methods.Rd | 16 man/options_delete.Rd | 9 man/prepare_run_context.Rd |only man/restore_last_options_file.Rd |only man/runtime_setup.Rd | 13 man/summarize_run.Rd |only man/unbound_runtime_options.Rd |only tests/testthat/fixtures |only tests/testthat/test-bma-inclusion-plot.R |only tests/testthat/test-bma.R | 192 ++++ tests/testthat/test-box-plot-study-label.R | 69 + tests/testthat/test-data-column-recognition-provisional.R |only tests/testthat/test-data-column-recognition-scenarios.R |only tests/testthat/test-data-column-recognition.R | 77 + tests/testthat/test-data-column-resolution.R | 9 tests/testthat/test-data-compute.R | 180 +++ tests/testthat/test-data-config-mapping-plausibility.R |only tests/testthat/test-data-derivation.R |only tests/testthat/test-data-derived-columns.R |only tests/testthat/test-data-encoding.R |only tests/testthat/test-data-external-mapping.R |only tests/testthat/test-data-interactive-mapping.R | 283 +++++- tests/testthat/test-data-method-requirements.R | 22 tests/testthat/test-data-na-handling.R | 170 +++ tests/testthat/test-data-prepare-phases.R | 23 tests/testthat/test-data-preprocess.R | 186 +++ tests/testthat/test-data-read.R | 92 + tests/testthat/test-data-role-evidence.R |only tests/testthat/test-data-schema-detect.R | 122 ++ tests/testthat/test-data-schema-reconcile.R | 621 +++++++++++++ tests/testthat/test-data-smart-detection.R | 187 +++ tests/testthat/test-econometric-exogeneity.R | 127 ++ tests/testthat/test-econometric-p-hacking.R | 213 +++- tests/testthat/test-effect-summary-stats-integration.R | 18 tests/testthat/test-effect-summary-stats.R | 117 ++ tests/testthat/test-file-picker.R |only tests/testthat/test-fma.R | 134 ++ tests/testthat/test-funnel-plot.R | 132 ++ tests/testthat/test-interactive-input.R |only tests/testthat/test-interactive-preview.R |only tests/testthat/test-linear-tests-real-data.R |only tests/testthat/test-method-execution.R | 24 tests/testthat/test-method-picker.R |only tests/testthat/test-methods-p-hacking-exogeneity.R | 117 ++ tests/testthat/test-nonlinear-tests.R | 44 tests/testthat/test-options-column-preprocessing.R | 90 + tests/testthat/test-options-file-menu.R |only tests/testthat/test-options-last-used.R |only tests/testthat/test-options-prompt-value.R |only tests/testthat/test-options-prompts.R |only tests/testthat/test-options-type-registry.R | 5 tests/testthat/test-options.R | 10 tests/testthat/test-output-export.R | 102 ++ tests/testthat/test-prima-facie-graphs.R | 39 tests/testthat/test-robma.R | 22 tests/testthat/test-run.R | 483 ++++++++++ tests/testthat/test-runtime-methods.R | 12 tests/testthat/test-session-hub.R |only tests/testthat/test-t-stat-histogram.R | 53 + tests/testthat/test-visualization-fork-safety.R | 70 + tests/testthat/test-visualization-preview.R |only tests/testthat/test-visualization-ticks.R |only tests/testthat/test-visualization.R | 97 +- vignettes/getting-started.Rmd | 42 vignettes/methods-overview.Rmd | 2 vignettes/options-files.Rmd | 9 155 files changed, 10205 insertions(+), 1896 deletions(-)
Title: Processing Agro-Environmental Data
Description: A set of tools for processing and analyzing data developed in the
context of the "Who Has Eaten the Planet" (WHEP) project, funded by the
European Research Council (ERC). For more details on multi-regional
input–output model "Food and Agriculture Biomass Input–Output" (FABIO) see
Bruckner et al. (2019) <doi:10.1021/acs.est.9b03554>.
Author: Catalin Covaci [aut, cre] ,
Eduardo Aguilera [aut, cph] ,
Alice Beckmann [aut] ,
Juan Infante [aut] ,
Justin Morgan [aut] ,
Joao Serra [ctb] ,
European Research Council [fnd]
Maintainer: Catalin Covaci <catalin.covaci@csic.es>
This is a re-admission after prior archival of version 0.3.0 dated 2026-03-03
Diff between whep versions 0.3.0 dated 2026-03-03 and 0.3.1 dated 2026-09-30
whep-0.3.0/whep/inst/doc/trade-sources-coverage.R |only whep-0.3.0/whep/inst/doc/trade-sources-coverage.Rmd |only whep-0.3.0/whep/inst/doc/trade-sources-coverage.html |only whep-0.3.0/whep/vignettes/trade-sources-coverage.Rmd |only whep-0.3.1/whep/DESCRIPTION | 9 ++++----- whep-0.3.1/whep/MD5 | 18 +++++++----------- whep-0.3.1/whep/NEWS.md | 10 ++++------ whep-0.3.1/whep/build/vignette.rds |binary whep-0.3.1/whep/inst/doc/harmonization_function.R | 2 -- whep-0.3.1/whep/inst/doc/harmonization_function.Rmd | 2 -- whep-0.3.1/whep/inst/doc/harmonization_function.html | 4 +--- whep-0.3.1/whep/vignettes/harmonization_function.Rmd | 2 -- 12 files changed, 16 insertions(+), 31 deletions(-)
Title: Interact with the 'Telegram' 'MTProto' API
Description: Provides a full-featured client for the 'Telegram' 'MTProto' protocol
(<https://core.telegram.org/api>), enabling programmatic access to 'Telegram'
chats, channels, messages, media, and stories. Implements binary encoding and
decoding of the 'Telegram' 'TL' (Type Language) schema, authentication
(including two-factor), encrypted transport, and high-level helpers for
downloading channel history and reactions at scale. Intended for
social-science research and data collection tasks that require direct API
access rather than the 'Bot API'.
Author: Roman Kyrychenko [aut, cre, cph]
Maintainer: Roman Kyrychenko <roman.kyrychenko@helsinki.fi>
Diff between telegramR versions 0.0.1 dated 2026-06-02 and 0.0.2 dated 2026-09-30
telegramR-0.0.1/telegramR/inst/extdata/vignettes/downloads |only telegramR-0.0.1/telegramR/man/TelegramBaseClient.Rd |only telegramR-0.0.2/telegramR/DESCRIPTION | 8 telegramR-0.0.2/telegramR/MD5 | 188 telegramR-0.0.2/telegramR/NAMESPACE | 6 telegramR-0.0.2/telegramR/NEWS.md | 21 telegramR-0.0.2/telegramR/R/abstract.R | 22 telegramR-0.0.2/telegramR/R/account.R | 20 telegramR-0.0.2/telegramR/R/aes.R | 18 telegramR-0.0.2/telegramR/R/aesctr.R | 12 telegramR-0.0.2/telegramR/R/authentificator.R | 48 telegramR-0.0.2/telegramR/R/authkey.R | 18 telegramR-0.0.2/telegramR/R/binaryreader.R | 286 telegramR-0.0.2/telegramR/R/channel_downloads.R | 29 telegramR-0.0.2/telegramR/R/chats.R | 566 telegramR-0.0.2/telegramR/R/common.R | 168 telegramR-0.0.2/telegramR/R/connection.R | 153 telegramR-0.0.2/telegramR/R/dialogs.R | 450 telegramR-0.0.2/telegramR/R/downloads.R | 27 telegramR-0.0.2/telegramR/R/entitycache.R | 3 telegramR-0.0.2/telegramR/R/factorization.R | 14 telegramR-0.0.2/telegramR/R/functions.R | 601 telegramR-0.0.2/telegramR/R/functions_account.R | 1411 telegramR-0.0.2/telegramR/R/functions_auth.R | 330 telegramR-0.0.2/telegramR/R/functions_bots.R | 775 telegramR-0.0.2/telegramR/R/functions_channels.R | 2517 telegramR-0.0.2/telegramR/R/functions_chatlists.R | 167 telegramR-0.0.2/telegramR/R/functions_contacts.R | 666 telegramR-0.0.2/telegramR/R/functions_folders.R | 15 telegramR-0.0.2/telegramR/R/functions_fragment.R | 25 telegramR-0.0.2/telegramR/R/functions_help.R | 351 telegramR-0.0.2/telegramR/R/functions_langpack.R | 70 telegramR-0.0.2/telegramR/R/functions_messages.R | 5476 telegramR-0.0.2/telegramR/R/functions_payments.R | 574 telegramR-0.0.2/telegramR/R/functions_phone.R | 549 telegramR-0.0.2/telegramR/R/functions_photos.R | 147 telegramR-0.0.2/telegramR/R/functions_premium.R | 67 telegramR-0.0.2/telegramR/R/functions_smsjobs.R | 91 telegramR-0.0.2/telegramR/R/functions_stats.R | 189 telegramR-0.0.2/telegramR/R/functions_stickers.R | 257 telegramR-0.0.2/telegramR/R/functions_stories.R | 1325 telegramR-0.0.2/telegramR/R/functions_updates.R | 42 telegramR-0.0.2/telegramR/R/functions_upload.R | 263 telegramR-0.0.2/telegramR/R/functions_users.R | 78 telegramR-0.0.2/telegramR/R/gzippacked.R | 22 telegramR-0.0.2/telegramR/R/helpers.R | 236 telegramR-0.0.2/telegramR/R/html.R | 81 telegramR-0.0.2/telegramR/R/http.R | 22 telegramR-0.0.2/telegramR/R/libssl.R | 12 telegramR-0.0.2/telegramR/R/markdown.R | 144 telegramR-0.0.2/telegramR/R/messagecontainer.R | 3 telegramR-0.0.2/telegramR/R/messagepacker.R | 16 telegramR-0.0.2/telegramR/R/messageparse.R | 14 telegramR-0.0.2/telegramR/R/messages.R | 53 telegramR-0.0.2/telegramR/R/mtprotoplainsender.R | 28 telegramR-0.0.2/telegramR/R/mtprotosender.R | 159 telegramR-0.0.2/telegramR/R/mtprotostate.R | 71 telegramR-0.0.2/telegramR/R/password.R | 44 telegramR-0.0.2/telegramR/R/requestiter.R | 15 telegramR-0.0.2/telegramR/R/requests.R | 698 telegramR-0.0.2/telegramR/R/requeststate.R | 12 telegramR-0.0.2/telegramR/R/rpcresult.R | 22 telegramR-0.0.2/telegramR/R/rsa.R | 52 telegramR-0.0.2/telegramR/R/tcpabridget.R | 20 telegramR-0.0.2/telegramR/R/tcpfull.R | 20 telegramR-0.0.2/telegramR/R/tcpintermediate.R | 36 telegramR-0.0.2/telegramR/R/tcpmtproxy.R | 40 telegramR-0.0.2/telegramR/R/tcpobfuscated.R | 19 telegramR-0.0.2/telegramR/R/telegrambaseclient.R | 149 telegramR-0.0.2/telegramR/R/telegramclient.R | 249 telegramR-0.0.2/telegramR/R/tlmessage.R | 10 telegramR-0.0.2/telegramR/R/tlobject.R | 297 telegramR-0.0.2/telegramR/R/types.R |104436 ++++++---- telegramR-0.0.2/telegramR/R/updates.R | 17 telegramR-0.0.2/telegramR/R/utils.R | 1511 telegramR-0.0.2/telegramR/R/zzz.R | 2 telegramR-0.0.2/telegramR/README.md | 4 telegramR-0.0.2/telegramR/configure | 44 telegramR-0.0.2/telegramR/inst/doc/channel-interactions.html | 3 telegramR-0.0.2/telegramR/inst/doc/download-data.html | 3 telegramR-0.0.2/telegramR/inst/doc/download-media.html | 3 telegramR-0.0.2/telegramR/inst/doc/zelenskiy-war-peace.html | 9 telegramR-0.0.2/telegramR/inst/integration |only telegramR-0.0.2/telegramR/man/TelegramClient.Rd | 1587 telegramR-0.0.2/telegramR/tests/testthat/helper-integration.R | 5 telegramR-0.0.2/telegramR/tests/testthat/test-binaryreader-deep.R | 1 telegramR-0.0.2/telegramR/tests/testthat/test-chats.R | 2 telegramR-0.0.2/telegramR/tests/testthat/test-functions_auth-extra.R | 14 telegramR-0.0.2/telegramR/tests/testthat/test-functions_contacts.R | 7 telegramR-0.0.2/telegramR/tests/testthat/test-functions_messages-extra.R | 6 telegramR-0.0.2/telegramR/tests/testthat/test-functions_messages-sweep.R | 19 telegramR-0.0.2/telegramR/tests/testthat/test-functions_stories-coverage.R | 12 telegramR-0.0.2/telegramR/tests/testthat/test-functions_upload.R | 12 telegramR-0.0.2/telegramR/tests/testthat/test-rsa.R | 2 telegramR-0.0.2/telegramR/tests/testthat/test-telegramclient.R | 3 telegramR-0.0.2/telegramR/tests/testthat/test-tl-bulk.R | 5 96 files changed, 83156 insertions(+), 45138 deletions(-)
More information about pediatric.zcalc at CRAN
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