Title: Validation Tools for Artificial Neural Networks
Description: Methods and tools for analysing and validating the outputs
and modelled functions of artificial neural networks (ANNs) in terms
of predictive, replicative and structural validity. Also provides a
method for fitting feed-forward ANNs with a single hidden layer.
Author: Greer B. Humphrey [aut],
Patrice Kiener [cre]
Maintainer: Patrice Kiener <rpackages@inmodelia.com>
This is a re-admission after prior archival of version 1.2.1 dated 2017-04-20
Diff between validann versions 1.2.1 dated 2017-04-20 and 1.3 dated 2026-08-19
DESCRIPTION | 31 +- MD5 | 28 +- NAMESPACE | 87 ++++--- NEWS |only R/ann.R | 1 R/ar9.R | 14 + R/plot.validann.R | 8 R/validann.R | 10 build |only inst/CITATION | 47 ++-- man/ann.Rd | 289 +++++++++++++------------- man/ar9.Rd | 79 +++---- man/observed.Rd | 67 +++--- man/plot.validann.Rd | 256 ++++++++++++----------- man/predict.ann.Rd | 143 ++++++------- man/validann.Rd | 559 +++++++++++++++++++++++++-------------------------- 16 files changed, 836 insertions(+), 783 deletions(-)
Title: Spatially and Temporally Varying Coefficient Models Using
Generalized Additive Models
Description: A framework for undertaking space and time varying coefficient models (varying parameter models) using a Generalized Additive Model (GAM) with smooths approach. The framework suggests the need to investigate for the presence and nature of any space-time dependencies in the data. It proposes a workflow that creates and refines an initial space-time GAM and includes tools to create and evaluate multiple model forms. The workflow sequence is to: i) Prepare the data by lengthening it to have a single location and time variables for each observation. ii) Create all possible space and/or time models in which each predictor is specified in different ways in smooths. iii) Evaluate each model via their AIC value and pick the best one. iv) Create the final model. v) Calculate the varying coefficient estimates to quantify how the relationships between the target and predictor variables vary over space, time or space-time. vi) Create maps, time series plots etc. The number of knots used in each sm [...truncated...]
Author: Lex Comber [aut, cre],
Paul Harris [ctb],
Gonzalo Irisarri [ctb],
Chris Brunsdon [ctb]
Maintainer: Lex Comber <a.comber@leeds.ac.uk>
Diff between stgam versions 1.2.0 dated 2026-01-29 and 1.2.1 dated 2026-08-19
DESCRIPTION | 10 - MD5 | 40 +++---- NAMESPACE | 68 +++++++----- NEWS.md | 7 + R/effect_size.R | 4 R/evaluate_models.R | 194 ++++++++++++++++++++++-------------- R/gam_model_rank.R | 55 +++++----- README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/stgam_intro_chaco.Rmd | 4 inst/doc/stgam_intro_chaco.html | 27 ++--- inst/doc/stgam_vc_models_chaco.R | 1 inst/doc/stgam_vc_models_chaco.Rmd | 3 inst/doc/stgam_vc_models_chaco.html | 79 +++++++------- man/effect_size.Rd | 6 - man/evaluate_models.Rd | 59 +++++++++- man/gam_model_rank.Rd | 6 - man/stgam-package.Rd | 7 + vignettes/stgam_intro_chaco.Rmd | 4 vignettes/stgam_vc_models_chaco.Rmd | 3 21 files changed, 353 insertions(+), 226 deletions(-)
Title: Conduct Additional Modeling and Analysis for 'seminr'
Description: Supplementary tools for evaluating and validating partial least
squares structural equation models estimated with 'seminr'. Provides methods
for predictive model assessment, importance-performance analysis with
necessary condition testing, overfitting diagnostics, measurement model
verification, mediator contribution analysis, unobserved heterogeneity
detection via latent class and prediction-oriented segmentation, and
congruence coefficient testing. All functions accept estimated 'seminr'
model objects and return results with print, summary, and plot methods.
Author: Soumya Ray [aut, ths],
Nicholas Patrick Danks [aut, cre]
Maintainer: Nicholas Patrick Danks <seminrgroup@gmail.com>
Diff between seminrExtras versions 1.0.2 dated 2026-06-30 and 1.0.3 dated 2026-08-19
DESCRIPTION | 14 - MD5 | 76 +++--- NEWS.md | 62 ++++- R/feature_cipma.R | 18 + R/feature_coa.R | 6 R/feature_congruence.R | 139 +++++++++++- R/feature_nca.R | 4 R/feature_pos.R | 2 build/vignette.rds |binary inst/doc/SEMinRExtras.R | 9 inst/doc/SEMinRExtras.Rmd | 23 +- inst/doc/SEMinRExtras.html | 112 +++++----- man/assess_cipma.Rd | 28 +- man/assess_coa.Rd | 32 +- man/assess_cta.Rd | 54 ++-- man/assess_cvpat.Rd | 12 - man/assess_cvpat_compare.Rd | 4 man/assess_fimix.Rd | 30 +- man/assess_fimix_compare.Rd | 10 man/assess_ipma.Rd | 4 man/assess_nca.Rd | 18 - man/assess_nca_esse.Rd | 34 +-- man/assess_pcm.Rd | 32 +- man/assess_pos.Rd | 28 +- man/assess_pos_compare.Rd | 12 - man/competes.Rd | 12 - man/congruence_test.Rd | 58 ++++- man/deviance_tree.Rd | 10 man/group_rules.Rd | 16 - man/plot.coa_analysis.Rd | 6 man/pos_segments.Rd | 2 man/predictive_deviance.Rd | 12 - man/unstable_params.Rd | 14 - tests/testthat/test-cipma-comprehensive.R | 44 +++ tests/testthat/test-congruence.R | 331 ++++++++++++++++++++++++++++-- tests/testthat/test-cvpat-comprehensive.R | 5 tests/testthat/test-pcm.R | 10 tests/testthat/test-pos.R | 14 - vignettes/SEMinRExtras.Rmd | 23 +- 39 files changed, 967 insertions(+), 353 deletions(-)
Title: UNHCR Refugee Population Statistics Database
Description: The Refugee Population Statistics Database published by
The Office of The United Nations High Commissioner for Refugees (UNHCR)
contains information about forcibly displaced populations
spanning more than 70 years of statistical activities.
It covers displaced populations such as refugees, asylum-seekers and
internally displaced people, including their demographics.
Stateless people are also included, most of who have never been displaced.
The database also reflects the different types of solutions
for displaced populations such as repatriation or resettlement.
More information on the data and methodology can be found on
the UNHCR Refugee Data Finder <https://www.unhcr.org/refugee-statistics/>.
Author: Hisham Galal [aut],
Ahmadou Dicko [aut],
Janis Kreuder [cre],
UNHCR [cph]
Maintainer: Janis Kreuder <kreuder@unhcr.org>
Diff between refugees versions 2025.12.1 dated 2026-06-25 and 2025.12.2 dated 2026-08-19
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 3 +++ data/demographics.rda |binary 4 files changed, 9 insertions(+), 6 deletions(-)
Title: Access the 'Quickbase' JSON API
Description: Programmatically access the 'Quickbase' JSON API <https://developer.quickbase.com>.
You supply parameters for an API call, 'qbr' delivers an http request to the
API endpoint and returns its response. Outputs follow 'tidyverse' philosophy.
Author: John Erdmann [aut, cre],
Keene State College [cph, fnd]
Maintainer: John Erdmann <john.erdmann@keene.edu>
Diff between qbr versions 1.3.0 dated 2025-01-10 and 1.4.0 dated 2026-08-19
DESCRIPTION | 14 +++---- MD5 | 25 ++++++------- NAMESPACE | 2 - NEWS.md | 4 ++ R/qb_apps.R | 101 +++++++++++++++++++++++++++++++++++++++++++++++++---- R/qb_extras.R | 6 +-- R/qb_fields.R | 40 ++++++++++---------- R/qb_records.R | 40 ++++++++++---------- R/qb_reports.R | 18 +++------ R/qb_tables.R | 4 +- R/tabularization.R | 24 ++++++------ README.md | 32 ++++++++-------- man/create_app.Rd |only man/qbr-package.Rd | 5 ++ 14 files changed, 205 insertions(+), 110 deletions(-)
Title: A Comprehensive Toolkit for Clinical HLA Informatics
Description: A comprehensive toolkit for clinical Human Leukocyte Antigen (HLA) informatics, built on 'tidyverse' <https://tidyverse.tidyverse.org/> principles and making use of Genotype List String (GL String, Mack et al. (2023) <doi:10.1111/tan.15126>) for storing and computing HLA genotype data. Specific functionalities include: coercion of HLA data in tabular format to and from GL String; calculation of matching and mismatching in all directions, with multiple output formats; automatic formatting of HLA data for searching within a GL String; truncation of molecular HLA data to a specific number of fields; and reading HLA genotypes in HML files and extracting the GL String. This library is intended for research use. Any application making use of this package in a clinical setting will need to be independently validated according to local regulations.
Author: Nicholas Brown [cre, aut] ,
Busra Coskun [aut]
Maintainer: Nicholas Brown <nicholas.brown@pennmedicine.upenn.edu>
Diff between immunogenetr versions 1.4.0 dated 2026-07-06 and 1.5.0 dated 2026-08-19
DESCRIPTION | 8 MD5 | 72 +++--- NAMESPACE | 80 ++++--- NEWS.md | 20 + R/GLstring_drop_non_expressed.R |only R/GLstring_regex.R | 88 ++++++- R/HLA_columns_to_GLstring.R | 15 + R/HLA_mismatch_base.R | 39 ++- R/HLA_mismatch_logical.R | 10 R/HLA_mismatch_number.R | 13 + R/HLA_validate.R | 28 ++ R/ambiguity_table_to_GLstring.R | 10 R/immunogenetr-package.R | 1 R/utils-release.R |only R/utils-validation.R | 9 build/partial.rdb |binary build/vignette.rds |binary inst/doc/immunogenetr.R | 24 ++ inst/doc/immunogenetr.Rmd | 48 ++++ inst/doc/immunogenetr.html | 251 ++++++++++++---------- man/GLstring_drop_non_expressed.Rd |only man/GLstring_regex.Rd | 55 ++++ man/HLA_columns_to_GLstring.Rd | 15 + man/HLA_mismatch_base.Rd | 6 man/HLA_mismatch_logical.Rd | 1 man/HLA_validate.Rd | 14 + man/ambiguity_table_to_GLstring.Rd | 4 tests/testthat/HML_duplicate_locus.hml |only tests/testthat/test-GLstring_drop_non_expressed.R |only tests/testthat/test-GLstring_genes_expanded.R | 68 +++++ tests/testthat/test-GLstring_regex.R | 211 +++++++++++++++++- tests/testthat/test-HLA_columns_to_GLstring.R | 51 ++++ tests/testthat/test-HLA_mismatch_base.R | 50 ++++ tests/testthat/test-HLA_truncate.R | 37 +++ tests/testthat/test-HLA_validate.R | 30 ++ tests/testthat/test-NA_propagation.R |only tests/testthat/test-ambiguity_table_to_GLstring.R | 8 tests/testthat/test-read_HML.R | 62 +++++ tests/testthat/test-validation.R | 6 vignettes/immunogenetr.Rmd | 48 ++++ 40 files changed, 1143 insertions(+), 239 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2022, JMLR) <https://www.jmlr.org/papers/v23/20-322.html> and Sigrist (2023, TPAMI) <doi:10.1109/TPAMI.2022.3168152> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Tim Gyger [aut],
Pascal Kuendig [aut],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the incl [...truncated...]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 1.7.1.1 dated 2026-07-23 and 1.7.2 dated 2026-08-19
gpboost-1.7.1.1/gpboost/tests/testthat/Rplots.pdf |only gpboost-1.7.2/gpboost/DESCRIPTION | 8 gpboost-1.7.2/gpboost/MD5 | 63 +- gpboost-1.7.2/gpboost/R/utils.R | 18 gpboost-1.7.2/gpboost/README.md | 28 + gpboost-1.7.2/gpboost/configure.ac | 2 gpboost-1.7.2/gpboost/src/CG_utils.cpp | 60 ++ gpboost-1.7.2/gpboost/src/GP_utils.cpp | 51 +- gpboost-1.7.2/gpboost/src/Vecchia_utils.cpp | 52 -- gpboost-1.7.2/gpboost/src/c_api.cpp | 6 gpboost-1.7.2/gpboost/src/gpboost_R.cpp | 8 gpboost-1.7.2/gpboost/src/gpboost_R.h | 11 gpboost-1.7.2/gpboost/src/include/GPBoost/GP_utils.h | 115 +++-- gpboost-1.7.2/gpboost/src/include/GPBoost/cov_fcts.h | 2 gpboost-1.7.2/gpboost/src/include/GPBoost/likelihoods.h | 213 ++++++---- gpboost-1.7.2/gpboost/src/include/GPBoost/optim_utils.h | 5 gpboost-1.7.2/gpboost/src/include/GPBoost/re_comp.h | 55 +- gpboost-1.7.2/gpboost/src/include/GPBoost/re_model_template.h | 190 ++++++-- gpboost-1.7.2/gpboost/src/include/GPBoost/sparse_matrix_utils.h | 58 +- gpboost-1.7.2/gpboost/src/include/GPBoost/utils.h | 76 ++- gpboost-1.7.2/gpboost/src/include/LightGBM/c_api.h | 11 gpboost-1.7.2/gpboost/src/include/unconstrained/bfgs.hpp | 7 gpboost-1.7.2/gpboost/src/include/unconstrained/cg.hpp | 2 gpboost-1.7.2/gpboost/src/include/unconstrained/gd.hpp | 2 gpboost-1.7.2/gpboost/src/include/unconstrained/lbfgs.hpp | 2 gpboost-1.7.2/gpboost/src/include/unconstrained/newton.hpp | 2 gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_ar1_multifidelity.R | 37 + gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_combined_GP_random_effects.R | 17 gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_egpd.R | 55 +- gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_gaussian_process.R | 39 - gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_grouped_random_effects.R | 13 gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_non_Gaussian_data.R | 173 ++++---- gpboost-1.7.2/gpboost/tests/testthat/test_GPModel_tweedie.R | 14 33 files changed, 940 insertions(+), 455 deletions(-)
Title: Discontinuous Regression and Image Processing
Description: A collection of functions that perform jump regression
and image analysis such as denoising, deblurring and
jump detection. The implemented methods are based on
the following research: Qiu, P. (1998) <doi:10.1214/aos/1024691468>,
Qiu, P. and Yandell, B. (1997) <doi: 10.1080/10618600.1997.10474746>,
Qiu, P. (2009) <doi: 10.1007/s10463-007-0166-9>,
Kang, Y. and Qiu, P. (2014) <doi: 10.1080/00401706.2013.844732>,
Qiu, P. and Kang, Y. (2015) <doi: 10.5705/ss.2014.054>,
Kang, Y., Mukherjee, P.S. and Qiu, P. (2018) <doi: 10.1080/00401706.2017.1415975>,
Kang, Y. (2020) <doi: 10.1080/10618600.2019.1665536>.
Author: Yicheng Kang [aut, cre],
Peihua Qiu [aut, ctb]
Maintainer: Yicheng Kang <kangyicheng0527@gmail.com>
Diff between DRIP versions 2.4 dated 2026-01-15 and 2.5 dated 2026-08-19
DESCRIPTION | 6 +-- MD5 | 32 ++++++++++----------- R/JPLLK_surface.R | 4 -- build/partial.rdb |binary build/vignette.rds |binary data/brain.RData |binary data/circles.RData |binary data/kid.RData |binary data/sar.RData |binary inst/doc/DRIP-vignette.html | 5 +-- tests/testthat/test-JPLLK_surface.R | 12 +++++++ tests/testthat/test-dKQ.R | 9 +++++ tests/testthat/test-jpex.R | 53 +++++++++++++++++++++++++++++++++++ tests/testthat/test-restore3Stage.R | 16 ++++++++++ tests/testthat/test-roofEdge.R | 50 +++++++++++++++++++++++++++++++++ tests/testthat/test-stepEdge.R | 13 ++++++++ tests/testthat/test-surfaceCluster.R | 11 +++++++ 17 files changed, 186 insertions(+), 25 deletions(-)
Title: Parametric Mortality Curve Fitting and Mortality Forecasting
Tools
Description: Provides tools for fitting parametric mortality curves. Implements multiple optimisation strategies to enhance robustness and stability of parameter estimation. Offers tools for forecasting mortality rates guided by mortality curves.
For modelling details see:
Tabeau (2001) <doi:10.1007/0-306-47562-6_1>,
Renshaw and Haberman (2006) <doi:10.1016/j.insmatheco.2005.12.001>,
Cairns et al. (2009) <doi:10.1080/10920277.2009.10597538>,
Li and Lee (2005) <doi: 10.1353/dem.2005.0021>.
Author: Jackie Li [aut, cre, cph]
Maintainer: Jackie Li <jackieli@smu.edu.sg>
Diff between demofit versions 0.1.4 dated 2026-06-11 and 0.1.5 dated 2026-08-19
DESCRIPTION | 6 MD5 | 172 +++++------ NAMESPACE | 2 NEWS | 13 R/APCS.R | 32 -- R/CAES.R | 32 -- R/CBDCS.R | 31 -- R/CBDQCS.R | 31 -- R/CBDS.R | 31 -- R/CFM2S.R | 32 -- R/CFMS.R | 32 -- R/ENS.R | 16 - R/FCS.R | 6 R/LCLS.R | 20 - R/LCS.R | 32 -- R/MC.R | 2 R/PAPCS.R | 32 -- R/PCAES.R | 32 -- R/PCBDCS.R | 31 -- R/PCBDQCS.R | 31 -- R/PCBDS.R | 31 -- R/PCFM2S.R | 32 -- R/PCFMS.R | 32 -- R/PFCS.R |only R/PLCS.R | 32 -- R/PRHS.R | 32 -- R/RHS.R | 32 -- R/STARS.R | 31 -- R/aaahelpers.R |only R/cfit1.R | 31 -- R/cfit10.R | 30 -- R/cfit11.R | 30 -- R/cfit12.R | 30 -- R/cfit13.R | 30 -- R/cfit14.R | 30 -- R/cfit2.R | 30 -- R/cfit3.R | 30 -- R/cfit4.R | 30 -- R/cfit5.R | 30 -- R/cfit6.R | 30 -- R/cfit7.R | 30 -- R/cfit8.R | 30 -- R/cfit9.R | 30 -- R/fit1.R | 27 - R/fit10.R | 30 -- R/fit11.R | 30 -- R/fit12.R | 30 -- R/fit13.R | 30 -- R/fit14.R | 30 -- R/fit2.R | 30 -- R/fit3.R | 30 -- R/fit4.R | 30 -- R/fit5.R | 30 -- R/fit6.R | 30 -- R/fit7.R | 26 - R/fit8.R | 30 -- R/fit9.R | 30 -- R/mortalitymatrix.R |only README.md |only inst/CITATION | 2 inst/doc/demofit.R | 95 +++++- inst/doc/demofit.Rmd | 144 ++++++++- inst/doc/demofit.html | 340 +++++++++++++++++----- man/APCS.Rd | 14 man/CAES.Rd | 15 - man/CBDCS.Rd | 11 man/CBDQCS.Rd | 11 man/CBDS.Rd | 11 man/CFM2S.Rd | 15 - man/CFMS.Rd | 15 - man/ENS.Rd | 15 - man/FCS.Rd | 8 man/LCLS.Rd | 15 - man/LCS.Rd | 14 man/MC.Rd | 11 man/PAPCS.Rd | 15 - man/PCAES.Rd | 17 - man/PCBDCS.Rd | 12 man/PCBDQCS.Rd | 12 man/PCBDS.Rd | 12 man/PCFM2S.Rd | 17 - man/PCFMS.Rd | 17 - man/PFCS.Rd |only man/PLCS.Rd | 15 - man/PRHS.Rd | 15 - man/RHS.Rd | 14 man/STARS.Rd | 13 man/mortalitymatrix.Rd |only tests/testthat/test-basic.R | 658 ++++++++++++++++++++++++++++++++++++++++++++ vignettes/demofit.Rmd | 144 ++++++++- 90 files changed, 1797 insertions(+), 1572 deletions(-)
Title: Remedy the Violation of the Proportional Hazards Assumption in
Cox Proportional Hazards Models
Description: Remedying proportional hazards
assumption violations of a Cox proportional hazards model using
stepwise changepoint and time-varying coefficient methods based on
Cox (1972) <doi:10.1111/j.2517-6161.1972.tb00899.x> and Klein
and Moeschberger (1997) <doi:10.1007/978-1-4757-2728-9>.
Author: Hamin Kim [aut, cre]
Maintainer: Hamin Kim <haaamin@korea.ac.kr>
Diff between cox.rvph versions 0.1.4 dated 2026-07-30 and 0.1.5 dated 2026-08-19
DESCRIPTION | 12 ++--- MD5 | 8 +-- NAMESPACE | 20 +++++--- R/cox.rvph.R | 130 +++++++++++++++++++++++++++++++------------------------- man/cox.rvph.Rd | 109 ++++++++++++++++++++++++++-------------------- 5 files changed, 157 insertions(+), 122 deletions(-)
Title: Functions to Streamline Statistical Analysis and Reporting
Description: Built upon popular R packages such as 'ggstatsplot' and 'ARTool', this collection offers a wide array of tools for simplifying reproducible analyses, generating high-quality visualizations, and producing 'APA'-compliant outputs. The primary goal of this package is to significantly reduce repetitive coding efforts, allowing you to focus on interpreting results. Whether you're dealing with ANOVA assumptions, reporting effect sizes, or creating publication-ready visualizations, this package makes these tasks easier.
Author: Mark Colley [aut, cre, cph]
Maintainer: Mark Colley <mark.colley@yahoo.de>
Diff between colleyRstats versions 0.1.4 dated 2026-07-25 and 0.1.5 dated 2026-08-19
DESCRIPTION | 21 MD5 | 85 +- NAMESPACE | 68 + NEWS.md | 33 R/paper.R | 66 + R/plotting.R | 55 + R/setup.R | 289 +++++++- R/zzz-aliases.R | 76 ++ README.md | 659 ++++++++++--------- inst/doc/analyzing-a-user-study.html | 6 inst/doc/getting-started.R | 18 inst/doc/getting-started.Rmd | 201 +++-- inst/doc/getting-started.html | 112 +-- inst/doc/overleaf.html | 10 man/checkAssumptionsForAnova.Rd | 12 man/colleyRstats_setup.Rd | 65 + man/colley_theme.Rd |only man/figure_base_size.Rd |only man/figures |only man/generateEffectPlot.Rd | 12 man/generateMoboPlot.Rd | 12 man/generateMoboPlot2.Rd | 12 man/ggbetweenstatsWithPriorNormalityCheck.Rd | 12 man/ggbetweenstatsWithPriorNormalityCheckAsterisk.Rd | 12 man/ggwithinstatsWithPriorNormalityCheck.Rd | 12 man/ggwithinstatsWithPriorNormalityCheckAsterisk.Rd | 12 man/recommend_test.Rd | 6 man/reportART.Rd | 12 man/reportArtCon.Rd | 12 man/reportArtConTable.Rd | 12 man/reportCLMM.Rd | 12 man/reportDunnTest.Rd | 12 man/reportDunnTestTable.Rd | 12 man/reportGLMM.Rd | 12 man/reportMeanAndSD.Rd | 12 man/reportNparLD.Rd | 12 man/reportggstatsplot.Rd | 12 man/reportggstatsplotPostHoc.Rd | 12 man/save_paper_figure.Rd | 9 tests/testthat/helper-subprocess.R |only tests/testthat/setup.R |only tests/testthat/test-paper.R | 105 +++ tests/testthat/test-setup.R | 189 +++++ vignettes/getting-started.Rmd | 201 +++-- 44 files changed, 1803 insertions(+), 699 deletions(-)
Title: Bioinformatic Distances
Description: Provides a unified interface for computing, comparing, and
examining distances, dissimilarities, divergences, and selected
similarities for bioinformatics data. The core installation exposes 60
canonical named routes for numerical data and more than 90 when the
suggested 'philentropy' backend is installed; aliases, user-defined
functions, and mixed-data combinations are not included in these counts.
Weighted Minkowski distances can be computed through 'parallelDist', an
internal multicore implementation, or optional 'OpenCL' kernels, while the
established weighted Euclidean GPU implementation is retained as the
optimized p = 2 route. The package also supports theory-guided comparison
of distance distributions for clustering, explicit mathematical property
classifications, mixed-data constructions through 'manydist', and a
specialized Gene Ontology-derived TF-IDF distance.
Author: Quirin Stier [aut, rev, ctb] ,
Michael Thrun [aut, cre] ,
Luca Brinkmann [ctb]
Maintainer: Michael Thrun <m.thrun@gmx.net>
Diff between BIDistances versions 0.1.5 dated 2026-08-04 and 1.0.0 dated 2026-08-19
BIDistances-0.1.5/BIDistances/R/CosinusDistance.R |only BIDistances-0.1.5/BIDistances/R/Dist2All.R |only BIDistances-0.1.5/BIDistances/R/EuclideanDistances_GPU.R |only BIDistances-0.1.5/BIDistances/R/FractionalDistance.R |only BIDistances-0.1.5/BIDistances/R/GiniDist.R |only BIDistances-0.1.5/BIDistances/R/Hellinger4ConditionalPDF.R |only BIDistances-0.1.5/BIDistances/R/Mahalanobis.R |only BIDistances-0.1.5/BIDistances/R/SharedNeighborDistance.R |only BIDistances-0.1.5/BIDistances/R/Tfidf_dist.R |only BIDistances-0.1.5/BIDistances/R/ToroidDist2All.R |only BIDistances-0.1.5/BIDistances/R/WassersteinDist.R |only BIDistances-0.1.5/BIDistances/R/fastPdist.R |only BIDistances-0.1.5/BIDistances/R/jaccard.R |only BIDistances-0.1.5/BIDistances/R/knneighborDistances.R |only BIDistances-0.1.5/BIDistances/R/msmd.R |only BIDistances-0.1.5/BIDistances/R/nearest.R |only BIDistances-0.1.5/BIDistances/R/pdistToroid.R |only BIDistances-0.1.5/BIDistances/R/twed.R |only BIDistances-0.1.5/BIDistances/man/CosinusDistance.Rd |only BIDistances-0.1.5/BIDistances/man/Dist2All.Rd |only BIDistances-0.1.5/BIDistances/man/EuclideanDistances_GPU.Rd |only BIDistances-0.1.5/BIDistances/man/FractionalDistance.Rd |only BIDistances-0.1.5/BIDistances/man/GiniDist.Rd |only BIDistances-0.1.5/BIDistances/man/Hellinger4ConditionalPDF.Rd |only BIDistances-0.1.5/BIDistances/man/Mahalanobis.Rd |only BIDistances-0.1.5/BIDistances/man/SharedNeighborDistance.Rd |only BIDistances-0.1.5/BIDistances/man/Tfidf_dist.Rd |only BIDistances-0.1.5/BIDistances/man/ToroidDist2All.Rd |only BIDistances-0.1.5/BIDistances/man/WassersteinDist.Rd |only BIDistances-0.1.5/BIDistances/man/fastPdist.Rd |only BIDistances-0.1.5/BIDistances/man/jaccard.Rd |only BIDistances-0.1.5/BIDistances/man/knneighborDistances.Rd |only BIDistances-0.1.5/BIDistances/man/msmd.Rd |only BIDistances-0.1.5/BIDistances/man/nearest.Rd |only BIDistances-0.1.5/BIDistances/man/pdistToroid.Rd |only BIDistances-0.1.5/BIDistances/man/twed.Rd |only BIDistances-1.0.0/BIDistances/DESCRIPTION | 40 BIDistances-1.0.0/BIDistances/MD5 | 179 - BIDistances-1.0.0/BIDistances/NAMESPACE | 90 BIDistances-1.0.0/BIDistances/R/Cosine_Distance.R |only BIDistances-1.0.0/BIDistances/R/DTW_Distance.R |only BIDistances-1.0.0/BIDistances/R/DistanceDistributionAnalysis.R |only BIDistances-1.0.0/BIDistances/R/DistanceDistributions.R | 621 +++- BIDistances-1.0.0/BIDistances/R/DistanceMatrix.R | 478 ++- BIDistances-1.0.0/BIDistances/R/DistanceOneToAll.R |only BIDistances-1.0.0/BIDistances/R/DistanceProperties.R |only BIDistances-1.0.0/BIDistances/R/EndresSchindelin_Distance.R |only BIDistances-1.0.0/BIDistances/R/EuclideanGPU_Distance.R |only BIDistances-1.0.0/BIDistances/R/EuclideanMulticore_Distance.R |only BIDistances-1.0.0/BIDistances/R/FastDipCriticalValues.R |only BIDistances-1.0.0/BIDistances/R/FastDipTest.R |only BIDistances-1.0.0/BIDistances/R/Fractional_Distance.R |only BIDistances-1.0.0/BIDistances/R/Gini_Distance.R |only BIDistances-1.0.0/BIDistances/R/Hellinger_Distance.R |only BIDistances-1.0.0/BIDistances/R/InnerVariableDifferences.R | 35 BIDistances-1.0.0/BIDistances/R/IntraClusterBoundaryCounts.R |only BIDistances-1.0.0/BIDistances/R/Jaccard_Distance.R |only BIDistances-1.0.0/BIDistances/R/KNearestNeighborsFromDistance.R |only BIDistances-1.0.0/BIDistances/R/Kullback_Leibler_div.R | 232 - BIDistances-1.0.0/BIDistances/R/MSMD_Distance.R |only BIDistances-1.0.0/BIDistances/R/Mahalanobis_Distance.R |only BIDistances-1.0.0/BIDistances/R/MinkowskiOpenCL.R |only BIDistances-1.0.0/BIDistances/R/Minkowski_Distance.R |only BIDistances-1.0.0/BIDistances/R/NearestNeighborIndex.R |only BIDistances-1.0.0/BIDistances/R/RcppExports.R | 34 BIDistances-1.0.0/BIDistances/R/SharedNeighbor_Distance.R |only BIDistances-1.0.0/BIDistances/R/TWED_Distance.R |only BIDistances-1.0.0/BIDistances/R/Tfidf_Distance.R |only BIDistances-1.0.0/BIDistances/R/ToroidalEuclideanDistanceOneToAll.R |only BIDistances-1.0.0/BIDistances/R/ToroidalEuclidean_Distance.R |only BIDistances-1.0.0/BIDistances/R/TransformSimilarity2MetricDistance.R | 65 BIDistances-1.0.0/BIDistances/R/VariablePrecision.R | 119 BIDistances-1.0.0/BIDistances/R/Wasserstein_Distance.R |only BIDistances-1.0.0/BIDistances/R/calculateMemoryDemandGPU.R | 70 BIDistances-1.0.0/BIDistances/R/endresSchindelin_Distribution.R |only BIDistances-1.0.0/BIDistances/R/endresSchindelin_TwoSamplePDF.R |only BIDistances-1.0.0/BIDistances/R/ocl4BID.R | 118 BIDistances-1.0.0/BIDistances/README.md |only BIDistances-1.0.0/BIDistances/build/partial.rdb |binary BIDistances-1.0.0/BIDistances/build/vignette.rds |binary BIDistances-1.0.0/BIDistances/inst/CITATION | 60 BIDistances-1.0.0/BIDistances/inst/WeightedMinkowskiBatchOCL.cl |only BIDistances-1.0.0/BIDistances/inst/WeightedMinkowskiBlockOCL.cl |only BIDistances-1.0.0/BIDistances/inst/WeightedMinkowskiOCL.cl |only BIDistances-1.0.0/BIDistances/inst/doc/BIDistances.R | 246 + BIDistances-1.0.0/BIDistances/inst/doc/BIDistances.Rmd | 470 ++- BIDistances-1.0.0/BIDistances/inst/doc/BIDistances.html | 1445 ++++++---- BIDistances-1.0.0/BIDistances/man/Cosine_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/DTW_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/DistanceDistributionAnalysis.Rd |only BIDistances-1.0.0/BIDistances/man/DistanceDistributions.Rd | 246 + BIDistances-1.0.0/BIDistances/man/DistanceMatrix.Rd | 236 + BIDistances-1.0.0/BIDistances/man/DistanceOneToAll.Rd |only BIDistances-1.0.0/BIDistances/man/DistanceProperties.Rd |only BIDistances-1.0.0/BIDistances/man/EndresSchindelin_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/EuclideanGPU_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/EuclideanMulticore_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Fractional_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Gini_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Hearingloss_N109.Rd | 55 BIDistances-1.0.0/BIDistances/man/Hellinger_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Hepta.Rd | 60 BIDistances-1.0.0/BIDistances/man/IntraClusterBoundaryCounts.Rd |only BIDistances-1.0.0/BIDistances/man/Jaccard_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/KNearestNeighborsFromDistance.Rd |only BIDistances-1.0.0/BIDistances/man/Kullback_Leibler_div.Rd | 104 BIDistances-1.0.0/BIDistances/man/MSMD_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Mahalanobis_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Minkowski_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/NearestNeighborIndex.Rd |only BIDistances-1.0.0/BIDistances/man/SharedNeighbor_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/TWED_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/Tfidf_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/ToroidalEuclideanDistanceOneToAll.Rd |only BIDistances-1.0.0/BIDistances/man/ToroidalEuclidean_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/TransformSimilarity2MetricDistance.Rd | 42 BIDistances-1.0.0/BIDistances/man/VariablePrecision.Rd | 61 BIDistances-1.0.0/BIDistances/man/Wasserstein_Distance.Rd |only BIDistances-1.0.0/BIDistances/man/calculateMemoryDemandGPU.Rd | 90 BIDistances-1.0.0/BIDistances/man/distance-conventions.Rd |only BIDistances-1.0.0/BIDistances/man/endresSchindelin_Distribution.Rd |only BIDistances-1.0.0/BIDistances/man/endresSchindelin_TwoSamplePDF.Rd |only BIDistances-1.0.0/BIDistances/man/fastPdistC.Rd | 47 BIDistances-1.0.0/BIDistances/man/fast_dip_stat.Rd |only BIDistances-1.0.0/BIDistances/man/fast_dip_test.Rd |only BIDistances-1.0.0/BIDistances/man/fast_dip_test_matrix.Rd |only BIDistances-1.0.0/BIDistances/src/FastDip.cpp |only BIDistances-1.0.0/BIDistances/src/FastDipCore.h |only BIDistances-1.0.0/BIDistances/src/InnerVariableDifferencesRcpp.cpp | 3 BIDistances-1.0.0/BIDistances/src/MinkowskiMulticore.cpp |only BIDistances-1.0.0/BIDistances/src/RcppExports.cpp | 34 BIDistances-1.0.0/BIDistances/src/SND.cpp | 4 BIDistances-1.0.0/BIDistances/src/fastPdistC.cpp | 70 BIDistances-1.0.0/BIDistances/src/r_boolean_compat.h |only BIDistances-1.0.0/BIDistances/tests |only BIDistances-1.0.0/BIDistances/vignettes/BIDistances.Rmd | 470 ++- 136 files changed, 3935 insertions(+), 1889 deletions(-)
Title: Access the 'City of Vancouver' Open Data API
Description: Wrapper around the 'City of Vancouver' Open Data API <https://opendata.vancouver.ca/api-console/explore/v2.1/> to simplify and standardize access to 'City of Vancouver' open data.
Functionality to list the data catalogue and access data and geographic records.
Author: Jens von Bergmann [aut, cre]
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Diff between VancouvR versions 0.1.9 dated 2026-03-03 and 0.1.11 dated 2026-08-19
DESCRIPTION | 15 - MD5 | 62 +++- NAMESPACE | 23 + NEWS.md | 108 ++++++++ R/datasets.R | 507 ++++++++++++++++++++++++++++++--------- R/helpers.R | 217 ++++++++++++++++ R/rate_limit.R |only README.md | 64 +++- build/vignette.rds |binary inst/CITATION |only inst/doc/Demo.R | 3 inst/doc/Demo.Rmd | 3 inst/doc/Demo.html | 43 +-- inst/doc/Isolines.R | 4 inst/doc/Isolines.Rmd | 9 inst/doc/Isolines.html | 27 +- man/aggregate_cov_data.Rd | 31 ++ man/get_cov_data.Rd | 66 ++++- man/get_cov_facets.Rd |only man/get_cov_metadata.Rd | 9 man/get_cov_rate_limit.Rd |only man/list_cov_datasets.Rd | 30 ++ man/list_cov_facets.Rd |only man/search_cov_datasets.Rd | 5 tests/testthat/fixtures |only tests/testthat/helper-cov-mock.R |only tests/testthat/test-api-v21.R |only tests/testthat/test-helpers.R | 12 tests/testthat/test-request.R |only vignettes/Demo.Rmd | 3 vignettes/Isolines.Rmd | 9 31 files changed, 1043 insertions(+), 207 deletions(-)
Title: Multivariate Sensitivity Analysis
Description: Functions to perform sensitivity analysis on a model with multivariate output.
Author: Caroline Bidot [aut],
Matieyendou Lamboni [aut],
Herve Monod [aut, cre]
Maintainer: Herve Monod <herve.monod@inrae.fr>
Diff between multisensi versions 2.1-1 dated 2018-04-10 and 2.2-1 dated 2026-08-19
DESCRIPTION | 26 + MD5 | 42 +- NEWS | 26 + R/analysis.anoasg.r | 526 ++++++++++++++++++------------------ R/analysis.sensitivity.r | 28 + R/basis.ACP.r | 14 R/basis.mine.r | 188 ++++++------- R/biomasse.r | 3 R/fctspline.jbrf.r | 248 ++++++++--------- R/graph.pc.r | 2 R/multisensi.r | 6 R/plot.dynsi.r | 562 +++++++++++++++++++-------------------- R/plot.gsi.r | 2 R/predict.gsi.r | 220 +++++++-------- R/zzz.r | 118 ++++---- build/vignette.rds |binary inst/CITATION | 22 - inst/doc/multisensi-manual.pdf |binary inst/doc/multisensi-vignette.pdf |binary man/biomasse.Rd | 2 man/climat.Rd | 2 man/simulmodel.Rd | 2 22 files changed, 1046 insertions(+), 993 deletions(-)
Title: Corrected Sandwich Inference for Inverse Probability Weighted
Cox Models
Description: An implementation of the corrected sandwich variance (CSV) method for inverse probability weighted (IPW) Cox models described in Shu et al. (2021) <doi:10.1111/biom.13332>. The method accounts for the uncertainty in estimating propensity score weights to improve variance and confidence interval estimation for adjusted marginal hazard ratios (HRs) in observational and randomized studies. The package supports estimation of the average treatment effect (ATE) using conventional and stabilized ATE weights, and the average treatment effect in the treated (ATT) using ATT weights, for both independent and clustered data. Propensity scores are estimated using logistic regression.
Author: Di Shu [aut, cre],
Rui Wang [aut]
Maintainer: Di Shu <shudi1991@gmail.com>
Diff between ipwCoxCSV versions 1.1 dated 2026-08-02 and 1.2 dated 2026-08-19
DESCRIPTION | 9 ++++----- MD5 | 12 ++++++------ NEWS.md | 9 +++++++++ R/ipwCoxCluster.R | 33 ++++++++++++++++++++++++--------- R/ipwCoxInd.R | 32 ++++++++++++++++++++++++-------- man/ipwCoxCluster.Rd | 4 ++-- man/ipwCoxInd.Rd | 4 ++-- 7 files changed, 71 insertions(+), 32 deletions(-)
Title: Query the 'Google Trends for Health' API
Description: Connects to the 'Google Trends for Health' API hosted at
<https://trends.google.com/trends/>, allowing projects authorized to use the
health research data to query 'Google Trends'.
Author: Oscar de Leon [aut, cre] ,
US Centers for Disease Control and Prevention [cph]
Maintainer: Oscar de Leon <odeleon@alumni.emory.edu>
Diff between gtrendshealth versions 1.0.0 dated 2025-06-17 and 1.0.1 dated 2026-08-19
DESCRIPTION | 12 LICENSE | 4 MD5 | 36 - NAMESPACE | 20 NEWS.md | 65 +-- R/get_health_trends.R | 558 ++++++++++++------------- R/gtrendshealth-package.R | 6 R/helpers.R | 462 ++++++++++----------- README.md | 219 +++++----- man/figures/README-example-1.png |binary man/get_gt_api_key.Rd | 70 +-- man/get_health_trends.Rd | 238 +++++------ man/gt_verify_path.Rd | 30 - man/gtrendshealth-package.Rd | 61 +- man/remove_gt_api_key.Rd | 38 - man/set_gt_api_key.Rd | 132 +++--- tests/testthat.R | 24 - tests/testthat/test-get_health_trends.R | 692 ++++++++++++++++---------------- tests/testthat/test-helpers.R | 194 ++++---- 19 files changed, 1453 insertions(+), 1408 deletions(-)
Title: Access 'Google Charts' Map Data
Description: Connects to the 'Google Charts' geographic data resources described in
<https://developers.google.com/chart/interactive/docs/gallery/geochart>, allowing
the user to download contents to use as a reference for related services
like 'Google Trends'.
Author: Oscar de Leon [aut, cre, cph]
Maintainer: Oscar de Leon <odeleon@alumni.emory.edu>
Diff between gchartsmap versions 1.0.1 dated 2025-07-19 and 1.0.2 dated 2026-08-19
DESCRIPTION | 12 MD5 | 56 - NAMESPACE | 52 - NEWS.md | 64 +- R/gcharts_geo_process.R | 524 ++++++++-------- R/gcharts_global_areas.R | 916 ++++++++++++++--------------- R/gcharts_us_areas.R | 258 ++++---- R/gchartsmap-package.R | 6 R/helpers.R | 488 +++++++-------- README.md | 114 +++ man/figures |only man/gchart_available_areas.Rd | 38 - man/gchart_cache_dir.Rd | 32 - man/gchart_countries.Rd | 74 +- man/gchart_generate_countries.Rd | 102 +-- man/gchart_generate_us_areas.Rd | 84 +- man/gchart_get_cache_path.Rd | 62 - man/gchart_get_countries.Rd | 60 - man/gchart_get_us_areas.Rd | 60 - man/gchart_process_areas.Rd | 56 - man/gchart_remove_cache_path.Rd | 38 - man/gchart_set_cache.Rd | 114 +-- man/gchartsmap-package.Rd | 51 - man/path_existing_root.Rd | 30 tests/testthat.R | 24 tests/testthat/test-gcharts_geo_process.R | 110 +-- tests/testthat/test-gcharts_global_areas.R | 62 - tests/testthat/test-gcharts_us_areas.R | 362 +++++------ tests/testthat/test-helpers.R | 320 +++++----- 29 files changed, 2133 insertions(+), 2036 deletions(-)
Title: Composite Index Builder & Analytics 'shiny' App
Description: Provides an interactive 'shiny' application for constructing,
analysing, comparing, and visualising composite indices from tabular
multidimensional data. Supports multi-sheet 'Excel' workbooks with
active-sheet selection, refresh controls, per-sheet and workbook-wide
exports, missing-data processing, indicator direction and normalisation
controls, equal and custom weighting, entity-level ranking, time-series
analysis and forecasting, entity comparisons, pillar-based sub-indices
with equal, custom, correlation-based, or principal-component weights, and
diagnostic tools including internal-consistency reliability assessment,
coefficient of variation, principal component analysis, sensitivity analysis,
correlation heatmaps, and weighted flow visualizations.
Author: Hossein Hassani [aut],
Steve Macfeely [aut],
Petra Kynclova [aut],
Nour Barnat [aut],
Leila Marvian Mashhad [aut, cre],
Fernando CANTU BAZALDUA [aut]
Maintainer: Leila Marvian Mashhad <leila.marveian@gmail.com>
Diff between compIndexBuilder versions 1.0.0 dated 2025-10-20 and 2.0.0 dated 2026-08-19
compIndexBuilder-1.0.0/compIndexBuilder/R/helper-testdata.R |only compIndexBuilder-1.0.0/compIndexBuilder/R/zzz.R |only compIndexBuilder-1.0.0/compIndexBuilder/inst/extdata |only compIndexBuilder-1.0.0/compIndexBuilder/tests/testthat/helper-testdata.R |only compIndexBuilder-1.0.0/compIndexBuilder/tests/testthat/test-internal-net.R |only compIndexBuilder-1.0.0/compIndexBuilder/tests/testthat/test-run_app.R |only compIndexBuilder-1.0.0/compIndexBuilder/tests/testthat/test-utils.R |only compIndexBuilder-1.0.0/compIndexBuilder/tests/testthat/testthat.R |only compIndexBuilder-2.0.0/compIndexBuilder/DESCRIPTION | 89 compIndexBuilder-2.0.0/compIndexBuilder/MD5 | 22 compIndexBuilder-2.0.0/compIndexBuilder/NAMESPACE | 33 compIndexBuilder-2.0.0/compIndexBuilder/NEWS.md |only compIndexBuilder-2.0.0/compIndexBuilder/R/compIndexBuilder.R | 2998 ---------- compIndexBuilder-2.0.0/compIndexBuilder/README.md |only compIndexBuilder-2.0.0/compIndexBuilder/inst/shiny-app |only compIndexBuilder-2.0.0/compIndexBuilder/man/compIndexBuilder-package.Rd |only compIndexBuilder-2.0.0/compIndexBuilder/man/compIndexBuilder.Rd | 52 compIndexBuilder-2.0.0/compIndexBuilder/tests/testthat.R |only compIndexBuilder-2.0.0/compIndexBuilder/tests/testthat/test-package.R |only 19 files changed, 115 insertions(+), 3079 deletions(-)
More information about compIndexBuilder at CRAN
Permanent link
Title: Check 'R' Configuration Set Up Correctly Before Class
Description: Checks that students have the correct version of 'R', 'R' packages,
'RStudio' and other dependencies installed, and that the recommended 'RStudio'
configuration has been applied.
Author: Richard J. Telford [aut, cre]
Maintainer: Richard J. Telford <richard.telford@uib.no>
Diff between checker versions 0.1.3 dated 2023-04-26 and 0.1.5 dated 2026-08-19
DESCRIPTION | 16 +++++++++------- MD5 | 12 ++++++------ NAMESPACE | 14 +++++++++----- NEWS.md | 8 ++++++++ R/checker.R | 2 +- README.md | 36 ++++++++++++++++++++---------------- inst/default.yaml | 7 +++---- 7 files changed, 56 insertions(+), 39 deletions(-)
Title: Accessing Statistics Canada Data Table and Vectors
Description: Searches for, accesses, and retrieves Statistics Canada data
tables, as well as individual vectors, as tidy data frames.
This package enriches the tables with metadata, deals
with encoding issues, allows for bilingual English or French language data retrieval, and bundles
convenience functions to make it easier to work with retrieved table data. For more efficient data
access the package allows for caching data in a local database and database level filtering, data
manipulation and summarizing.
Author: Jens von Bergmann [aut, cre],
Dmitry Shkolnik [aut]
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Diff between cansim versions 0.4.4 dated 2025-08-19 and 0.5.0 dated 2026-08-19
cansim-0.4.4/cansim/R/cansim_members.R |only cansim-0.5.0/cansim/DESCRIPTION | 12 cansim-0.5.0/cansim/MD5 | 132 + cansim-0.5.0/cansim/NAMESPACE | 4 cansim-0.5.0/cansim/NEWS.md | 212 ++ cansim-0.5.0/cansim/R/cansim.R | 321 ++-- cansim-0.5.0/cansim/R/cansim_changed_series.R |only cansim-0.5.0/cansim/R/cansim_character_scan.R |only cansim-0.5.0/cansim/R/cansim_helpers.R | 724 ++++++++-- cansim-0.5.0/cansim/R/cansim_metadata.R | 414 +++-- cansim-0.5.0/cansim/R/cansim_parquet.R | 351 +++- cansim-0.5.0/cansim/R/cansim_sql.R | 52 cansim-0.5.0/cansim/R/cansim_tables_list.R | 163 +- cansim-0.5.0/cansim/R/cansim_vectors.R | 458 +++--- cansim-0.5.0/cansim/README.md | 14 cansim-0.5.0/cansim/build/vignette.rds |binary cansim-0.5.0/cansim/inst/doc/cansim.html | 34 cansim-0.5.0/cansim/inst/doc/partial_table_data_download.html | 19 cansim-0.5.0/cansim/inst/doc/working_with_large_tables.R | 2 cansim-0.5.0/cansim/inst/doc/working_with_large_tables.Rmd | 4 cansim-0.5.0/cansim/inst/doc/working_with_large_tables.html | 160 +- cansim-0.5.0/cansim/man/add_cansim_vectors_to_template.Rd | 2 cansim-0.5.0/cansim/man/cansim_old_to_new.Rd | 2 cansim-0.5.0/cansim/man/cansim_repartition_cached_table.Rd | 2 cansim-0.5.0/cansim/man/csv2arrow.Rd | 4 cansim-0.5.0/cansim/man/disconnect_cansim_connection.Rd |only cansim-0.5.0/cansim/man/disconnect_cansim_sqlite.Rd | 10 cansim-0.5.0/cansim/man/get_cansim.Rd | 6 cansim-0.5.0/cansim/man/get_cansim_changed_series_data_for_coordinates.Rd |only cansim-0.5.0/cansim/man/get_cansim_changed_series_data_for_vectors.Rd |only cansim-0.5.0/cansim/man/get_cansim_changed_series_list.Rd |only cansim-0.5.0/cansim/man/get_cansim_changed_tables.Rd | 4 cansim-0.5.0/cansim/man/get_cansim_code_set.Rd | 4 cansim-0.5.0/cansim/man/get_cansim_column_categories.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_column_list.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_connection.Rd | 6 cansim-0.5.0/cansim/man/get_cansim_cube_metadata.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_data_for_table_coord_periods.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_key_release_schedule.Rd | 4 cansim-0.5.0/cansim/man/get_cansim_series_info_cube_coord.Rd | 12 cansim-0.5.0/cansim/man/get_cansim_sqlite.Rd | 14 cansim-0.5.0/cansim/man/get_cansim_table_info.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_table_last_release_date.Rd | 4 cansim-0.5.0/cansim/man/get_cansim_table_notes.Rd | 10 cansim-0.5.0/cansim/man/get_cansim_table_overview.Rd | 6 cansim-0.5.0/cansim/man/get_cansim_table_short_notes.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_table_subject.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_table_survey.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_table_template.Rd | 10 cansim-0.5.0/cansim/man/get_cansim_table_url.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_vector.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_vector_for_latest_periods.Rd | 8 cansim-0.5.0/cansim/man/get_cansim_vector_info.Rd | 4 cansim-0.5.0/cansim/man/list_cansim_cubes.Rd | 2 cansim-0.5.0/cansim/man/list_cansim_sqlite_cached_tables.Rd | 5 cansim-0.5.0/cansim/man/list_cansim_tables.Rd | 2 cansim-0.5.0/cansim/man/normalize_cansim_values.Rd | 4 cansim-0.5.0/cansim/man/remove_cansim_cached_tables.Rd | 2 cansim-0.5.0/cansim/man/remove_cansim_sqlite_cached_table.Rd | 11 cansim-0.5.0/cansim/man/search_cansim_cubes.Rd | 2 cansim-0.5.0/cansim/man/search_cansim_tables.Rd | 2 cansim-0.5.0/cansim/tests/testthat/helper-vector-data.R |only cansim-0.5.0/cansim/tests/testthat/helper-warnings.R |only cansim-0.5.0/cansim/tests/testthat/test-api_availability.R |only cansim-0.5.0/cansim/tests/testthat/test-cache_info.R |only cansim-0.5.0/cansim/tests/testthat/test-changed-series.R |only cansim-0.5.0/cansim/tests/testthat/test-character_repair.R |only cansim-0.5.0/cansim/tests/testthat/test-character_scan.R |only cansim-0.5.0/cansim/tests/testthat/test-cube_metadata.R |only cansim-0.5.0/cansim/tests/testthat/test-data_consistency.R | 52 cansim-0.5.0/cansim/tests/testthat/test-deprecation.R |only cansim-0.5.0/cansim/tests/testthat/test-language_parameter.R |only cansim-0.5.0/cansim/tests/testthat/test-value_normalization.R |only cansim-0.5.0/cansim/tests/testthat/test-vector-batching.R |only cansim-0.5.0/cansim/tests/testthat/test-vector-naming.R |only cansim-0.5.0/cansim/tests/testthat/test-vector-periods.R |only cansim-0.5.0/cansim/tests/testthat/test-wds-records.R |only cansim-0.5.0/cansim/vignettes/working_with_large_tables.Rmd | 4 78 files changed, 2253 insertions(+), 1101 deletions(-)
Title: Streamlining Complex Survey Estimation and Reliability
Assessment in R
Description: Short and understandable commands that generate tabulated,
formatted, and rounded survey estimates. Mostly a wrapper for the
'survey' package (Lumley (2004) <doi:10.18637/jss.v009.i08>
<https://CRAN.R-project.org/package=survey>) that identifies
low-precision estimates using the National Center for Health
Statistics (NCHS) presentation standards (Parker et al. (2017)
<https://www.cdc.gov/nchs/data/series/sr_02/sr02_175.pdf>,
Parker et al. (2023) <doi:10.15620/cdc:124368>).
Author: Alex Strashny [aut, cre]
Maintainer: Alex Strashny <alex.strashny@gmail.com>
Diff between surveytable versions 0.9.10 dated 2025-09-30 and 0.10.0 dated 2026-08-19
surveytable-0.10.0/surveytable/DESCRIPTION | 11 surveytable-0.10.0/surveytable/MD5 | 154 - surveytable-0.10.0/surveytable/NAMESPACE | 9 surveytable-0.10.0/surveytable/NEWS.md | 9 surveytable-0.10.0/surveytable/R/as.data.frame.R | 11 surveytable-0.10.0/surveytable/R/codebook.R | 2 surveytable-0.10.0/surveytable/R/print.astra_table.R |only surveytable-0.10.0/surveytable/R/restructure.R |only surveytable-0.10.0/surveytable/R/set_opts.R | 117 - surveytable-0.10.0/surveytable/R/set_survey.R | 122 + surveytable-0.10.0/surveytable/R/show_options.R | 8 surveytable-0.10.0/surveytable/R/show_opts.R | 21 surveytable-0.10.0/surveytable/R/surveytable.R | 14 surveytable-0.10.0/surveytable/R/svyciprop_adjusted.R | 258 +- surveytable-0.10.0/surveytable/R/tab.R | 22 surveytable-0.10.0/surveytable/R/tab_rate.R | 4 surveytable-0.10.0/surveytable/R/tab_subset.R | 2 surveytable-0.10.0/surveytable/R/tab_subset_rate.R | 4 surveytable-0.10.0/surveytable/R/total_rate.R | 2 surveytable-0.10.0/surveytable/R/z_astra.R |only surveytable-0.10.0/surveytable/R/z_data.R | 38 surveytable-0.10.0/surveytable/R/z_finalize_tab.R | 10 surveytable-0.10.0/surveytable/R/z_lpe.R | 8 surveytable-0.10.0/surveytable/R/z_print_csv.R | 98 - surveytable-0.10.0/surveytable/R/z_print_excel.R | 180 - surveytable-0.10.0/surveytable/R/z_print_excel_v1.R |only surveytable-0.10.0/surveytable/R/z_print_flextable.R |only surveytable-0.10.0/surveytable/R/z_print_gt.R | 111 - surveytable-0.10.0/surveytable/R/z_print_huxtable.R | 133 - surveytable-0.10.0/surveytable/R/z_print_kableExtra.R | 191 - surveytable-0.10.0/surveytable/R/z_print_screen.R |only surveytable-0.10.0/surveytable/R/z_print_word.R |only surveytable-0.10.0/surveytable/R/z_utils.R | 24 surveytable-0.10.0/surveytable/R/zzz.R | 24 surveytable-0.10.0/surveytable/README.md | 6 surveytable-0.10.0/surveytable/build/partial.rdb |binary surveytable-0.10.0/surveytable/build/vignette.rds |binary surveytable-0.10.0/surveytable/data/namcs2019sv.rda |binary surveytable-0.10.0/surveytable/data/namcs2019sv_df.rda |binary surveytable-0.10.0/surveytable/data/nhis2024a.rda |only surveytable-0.10.0/surveytable/data/rccsu2018.rda |binary surveytable-0.10.0/surveytable/data/uspop_example.rda |only surveytable-0.10.0/surveytable/inst/CITATION | 14 surveytable-0.10.0/surveytable/inst/WORDLIST | 1 surveytable-0.10.0/surveytable/inst/doc/Age-adjusted-estimates.R |only surveytable-0.10.0/surveytable/inst/doc/Age-adjusted-estimates.Rmd |only surveytable-0.10.0/surveytable/inst/doc/Age-adjusted-estimates.html |only surveytable-0.10.0/surveytable/inst/doc/Example-National-Ambulatory-Medical-Care-Survey-NAMCS-tables.R | 26 surveytable-0.10.0/surveytable/inst/doc/Example-National-Ambulatory-Medical-Care-Survey-NAMCS-tables.Rmd | 28 surveytable-0.10.0/surveytable/inst/doc/Example-National-Ambulatory-Medical-Care-Survey-NAMCS-tables.html | 273 +- surveytable-0.10.0/surveytable/inst/doc/Example-Residential-Care-Community-Services-User-NSLTCP-RCC-SU-report.html | 193 -- surveytable-0.10.0/surveytable/inst/doc/Printing-PDF.R | 38 surveytable-0.10.0/surveytable/inst/doc/Printing-PDF.Rmd | 124 - 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Title: Bayesian Error Propagation and Forecast Uncertainty
Decomposition
Description: Provides a full pipeline from regularized or standard regression
models (elastic net, linear models, generalized linear models, random
forests) to informed Bayesian priors, structured forecast uncertainty
decomposition (parameter / environmental / residual, plus a temporal
component when the model carries an autocorrelation term), and forecast
shelf life analysis (the quantification of when a forecast becomes
uninformative). Designed for ecological and genomic forecasting with
climate or environmental covariates. Methods build on Bürkner (2017)
<doi:10.18637/jss.v080.i01> for Bayesian regression via 'Stan',
Friedman, Hastie, and Tibshirani (2010) <doi:10.18637/jss.v033.i01>
for elastic net regularization, Wright and Ziegler (2017)
<doi:10.18637/jss.v077.i01> for random forests, and Vehtari, Gelman,
and Gabry (2017) <doi:10.1007/s11222-016-9696-4> for leave-one-out
cross-validation.
Author: Luis Javier Madrigal-Roca [aut, cre],
John Kelly [aut]
Maintainer: Luis Javier Madrigal-Roca <madrigalrocalj@yahoo.com>
Diff between ErrorTracer versions 1.3.0 dated 2026-07-30 and 1.3.1 dated 2026-08-19
DESCRIPTION | 15 - MD5 | 39 ++-- NAMESPACE | 2 NEWS.md | 99 +++++++++++ R/fit.R | 20 +- R/predict.R | 93 +++++++++-- R/priors_split.R |only R/shelf_life.R | 208 +++++++++++++++++++------ R/shelf_life_rolling.R |only R/skill.R | 56 ++++-- R/utils.R | 57 ++++++ README.md | 113 ++++++++++++- inst/doc/introduction.html | 6 inst/doc/worked_example.html | 6 man/et_fit.Rd | 20 +- man/et_priors_split.Rd |only man/et_shelf_life_pool.Rd |only man/et_skill_score.Rd | 16 + man/shelf_life.Rd | 60 +++++-- tests/testthat/test-decompose-families-truth.R |only tests/testthat/test-decompose-hierarchical.R |only tests/testthat/test-priors-split.R |only tests/testthat/test-shelf-life-pool.R |only tests/testthat/test-shelf-life-sustained.R |only tests/testthat/test-skill.R | 71 ++++++++ 25 files changed, 742 insertions(+), 139 deletions(-)
Title: Tools for Managing Imaging FlowCytobot (IFCB) Data
Description: A comprehensive suite of tools for managing, processing, and
analyzing data from the IFCB. I R FlowCytobot ('iRfcb') supports
quality control, geospatial analysis, and preparation of IFCB data for
publication in databases like <https://www.gbif.org>,
<https://www.obis.org>, <https://emodnet.ec.europa.eu/en>,
<https://shark.smhi.se/en/>, and <https://www.ecotaxa.org>. The package
integrates with the MATLAB 'ifcb-analysis' tool, which is described in
Sosik and Olson (2007) <doi:10.4319/lom.2007.5.204>, and provides
features for working with raw, manually classified, and machine
learning–classified image datasets. Key functionalities include image
extraction, particle size distribution analysis, taxonomic data
handling, and biomass concentration calculations, essential for
plankton research.
Author: Anders Torstensson [aut, cre] ,
Kendra Hayashi [ctb] ,
Jamie Enslein [ctb],
Raphael Kudela [ctb] ,
Alle Lie [ctb] ,
Jayme Smith [ctb] ,
DTO-BioFlow [fnd] ,
SBDI [fnd]
Maintainer: Anders Torstensson <anders.torstensson@smhi.se>
Diff between iRfcb versions 0.9.0 dated 2026-06-08 and 0.10.0 dated 2026-08-19
iRfcb-0.10.0/iRfcb/DESCRIPTION | 14 iRfcb-0.10.0/iRfcb/LICENSE | 4 iRfcb-0.10.0/iRfcb/LICENSE.note | 64 iRfcb-0.10.0/iRfcb/MD5 | 474 +- iRfcb-0.10.0/iRfcb/NAMESPACE | 441 - iRfcb-0.10.0/iRfcb/NEWS.md | 49 iRfcb-0.10.0/iRfcb/R/defunct.R | 56 iRfcb-0.10.0/iRfcb/R/iRfcb-package.R | 47 iRfcb-0.10.0/iRfcb/R/ifcb_adjust_classes.R | 151 iRfcb-0.10.0/iRfcb/R/ifcb_annotate_batch.R | 356 - iRfcb-0.10.0/iRfcb/R/ifcb_annotate_samples.R | 429 - iRfcb-0.10.0/iRfcb/R/ifcb_classify_images.R | 1014 ++-- iRfcb-0.10.0/iRfcb/R/ifcb_classify_models.R | 155 iRfcb-0.10.0/iRfcb/R/ifcb_classify_sample.R | 218 iRfcb-0.10.0/iRfcb/R/ifcb_convert_filenames.R | 148 iRfcb-0.10.0/iRfcb/R/ifcb_correct_annotation.R | 260 - iRfcb-0.10.0/iRfcb/R/ifcb_count_mat_annotations.R | 270 - iRfcb-0.10.0/iRfcb/R/ifcb_create_class2use.R | 91 iRfcb-0.10.0/iRfcb/R/ifcb_create_empty_manual_file.R | 133 iRfcb-0.10.0/iRfcb/R/ifcb_create_manifest.R | 134 iRfcb-0.10.0/iRfcb/R/ifcb_create_manual_file.R | 138 iRfcb-0.10.0/iRfcb/R/ifcb_download_dashboard_data.R | 785 +-- iRfcb-0.10.0/iRfcb/R/ifcb_download_dashboard_metadata.R | 150 iRfcb-0.10.0/iRfcb/R/ifcb_download_test_data.R | 266 - iRfcb-0.10.0/iRfcb/R/ifcb_download_whoi_plankton.R | 348 - iRfcb-0.10.0/iRfcb/R/ifcb_extract_annotated_images.R | 356 - iRfcb-0.10.0/iRfcb/R/ifcb_extract_biovolumes.R | 973 ++-- iRfcb-0.10.0/iRfcb/R/ifcb_extract_classified_images.R | 325 - iRfcb-0.10.0/iRfcb/R/ifcb_extract_features.R | 682 +- iRfcb-0.10.0/iRfcb/R/ifcb_extract_pngs.R | 408 - iRfcb-0.10.0/iRfcb/R/ifcb_get_ecotaxa_example.R | 86 iRfcb-0.10.0/iRfcb/R/ifcb_get_ferrybox_data.R | 430 - iRfcb-0.10.0/iRfcb/R/ifcb_get_mat_names.R | 90 iRfcb-0.10.0/iRfcb/R/ifcb_get_mat_variable.R | 124 iRfcb-0.10.0/iRfcb/R/ifcb_get_runtime.R | 163 iRfcb-0.10.0/iRfcb/R/ifcb_get_shark_colnames.R | 80 iRfcb-0.10.0/iRfcb/R/ifcb_get_shark_example.R | 48 iRfcb-0.10.0/iRfcb/R/ifcb_get_trophic_type.R | 172 iRfcb-0.10.0/iRfcb/R/ifcb_helper_functions.R | 2363 +++++----- iRfcb-0.10.0/iRfcb/R/ifcb_is_diatom.R | 185 iRfcb-0.10.0/iRfcb/R/ifcb_is_in_basin.R | 186 iRfcb-0.10.0/iRfcb/R/ifcb_is_near_land.R | 549 +- iRfcb-0.10.0/iRfcb/R/ifcb_list_dashboard_bins.R | 160 iRfcb-0.10.0/iRfcb/R/ifcb_mat_io.R |only iRfcb-0.10.0/iRfcb/R/ifcb_match_taxa_names.R | 239 - iRfcb-0.10.0/iRfcb/R/ifcb_merge_manual.R | 405 - iRfcb-0.10.0/iRfcb/R/ifcb_prepare_whoi_plankton.R | 686 +- iRfcb-0.10.0/iRfcb/R/ifcb_psd.R | 565 +- iRfcb-0.10.0/iRfcb/R/ifcb_psd_plot.R | 332 - iRfcb-0.10.0/iRfcb/R/ifcb_py_install.R | 357 - iRfcb-0.10.0/iRfcb/R/ifcb_qc_sample.R |only iRfcb-0.10.0/iRfcb/R/ifcb_read_features.R | 182 iRfcb-0.10.0/iRfcb/R/ifcb_read_hdr_data.R | 247 - iRfcb-0.10.0/iRfcb/R/ifcb_read_mat.R | 122 iRfcb-0.10.0/iRfcb/R/ifcb_read_summary.R | 358 - iRfcb-0.10.0/iRfcb/R/ifcb_replace_mat_values.R | 158 iRfcb-0.10.0/iRfcb/R/ifcb_run_image_gallery.R | 94 iRfcb-0.10.0/iRfcb/R/ifcb_save_classification.R | 485 +- iRfcb-0.10.0/iRfcb/R/ifcb_summarize_biovolumes.R | 509 +- iRfcb-0.10.0/iRfcb/R/ifcb_summarize_cell_counts.R |only iRfcb-0.10.0/iRfcb/R/ifcb_summarize_class_counts.R | 286 - iRfcb-0.10.0/iRfcb/R/ifcb_summarize_png_counts.R | 368 - iRfcb-0.10.0/iRfcb/R/ifcb_summarize_png_metadata.R | 179 iRfcb-0.10.0/iRfcb/R/ifcb_volume_analyzed.R | 138 iRfcb-0.10.0/iRfcb/R/ifcb_volume_analyzed_from_adc.R | 245 - iRfcb-0.10.0/iRfcb/R/ifcb_which_basin.R | 198 iRfcb-0.10.0/iRfcb/R/ifcb_zip_images_by_class.R | 241 - iRfcb-0.10.0/iRfcb/R/ifcb_zip_matlab.R | 634 +- iRfcb-0.10.0/iRfcb/R/ifcb_zip_pngs.R | 390 - iRfcb-0.10.0/iRfcb/R/zzz.R | 148 iRfcb-0.10.0/iRfcb/README.md | 224 iRfcb-0.10.0/iRfcb/build/partial.rdb |binary iRfcb-0.10.0/iRfcb/build/vignette.rds |binary iRfcb-0.10.0/iRfcb/inst/CITATION | 22 iRfcb-0.10.0/iRfcb/inst/WORDLIST | 443 - iRfcb-0.10.0/iRfcb/inst/doc/introduction.R | 434 - iRfcb-0.10.0/iRfcb/inst/doc/introduction.Rmd | 712 +-- iRfcb-0.10.0/iRfcb/inst/doc/introduction.html | 1735 +++---- iRfcb-0.10.0/iRfcb/inst/exdata/MATLAB-template.md | 232 iRfcb-0.10.0/iRfcb/inst/exdata/README-template.md | 36 iRfcb-0.10.0/iRfcb/inst/exdata/ecotaxa_table_minimum.tsv | 10 iRfcb-0.10.0/iRfcb/inst/exdata/ecotaxa_table_with_classification.tsv | 22 iRfcb-0.10.0/iRfcb/inst/exdata/ecotaxa_table_without_classification.tsv | 18 iRfcb-0.10.0/iRfcb/inst/exdata/example.txt | 6 iRfcb-0.10.0/iRfcb/inst/exdata/example_ferrybox.txt | 6 iRfcb-0.10.0/iRfcb/inst/exdata/shark_col.txt | 12 iRfcb-0.10.0/iRfcb/inst/python/extract_slim_features.py | 1196 +++-- iRfcb-0.10.0/iRfcb/inst/python/ifcb_reader.py |only iRfcb-0.10.0/iRfcb/inst/python/psd.py | 941 ++- iRfcb-0.10.0/iRfcb/inst/python/read_mat_file.py | 150 iRfcb-0.10.0/iRfcb/inst/python/requirements.txt | 6 iRfcb-0.10.0/iRfcb/inst/shiny/ifcb_image_gallery/server.R | 304 - 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Title: Deal with Check Outputs
Description: Deal with packages 'check' outputs and reduce the risk of
rejection by 'CRAN' by following policies.
Author: Vincent Guyader [aut, cre] ,
Sebastien Rochette [aut] ,
Arthur Breant [aut] ,
Murielle Delmotte [aut] ,
ThinkR [cph]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Diff between checkhelper versions 1.0.0 dated 2026-05-13 and 1.0.1 dated 2026-08-19
DESCRIPTION | 19 LICENSE | 4 MD5 | 129 - NAMESPACE | 50 NEWS.md | 49 R/audit_ascii.R | 14 R/audit_globals.R | 67 R/audit_tags.R | 7 R/create_example_pkg.R | 5 R/globals.R | 2 build/vignette.rds |binary inst/WORDLIST | 58 inst/cran/CRAN_incoming/CRAN_incoming.Rproj | 32 inst/cran/CRAN_incoming/check.Renviron | 190 +- inst/cran/bin/check_CRAN_Incoming.sh | 332 ++-- inst/cran/lib/check_R_cp_logs.sh | 246 +-- inst/cran/lib/check_R_stoplists.sh | 1516 ++++++++++----------- inst/cran/lib/check_R_summary.sh | 44 inst/cran/lib/cran_daily_check_results.sh | 490 +++--- inst/cran/lib/rsync_daily_check_flavor.sh | 40 inst/doc/auditing-an-r-package.R | 214 +- inst/doc/auditing-an-r-package.html | 1371 +++++++++--------- inst/doc/pre-submission-gates.R | 62 inst/doc/pre-submission-gates.html | 943 ++++++------- man/audit_ascii.Rd | 7 man/audit_tags.Rd | 7 man/checkhelper-package.Rd | 1 man/create_example_pkg.Rd | 5 man/find_missing_tags.Rd | 11 man/fix_ascii.Rd | 7 tests/testthat/helpers.R | 37 tests/testthat/test-asciify-edge-cases.R | 13 tests/testthat/test-asciify.R | 10 tests/testthat/test-audit-ascii.R | 15 tests/testthat/test-audit-check.R | 8 tests/testthat/test-audit-citation.R | 8 tests/testthat/test-audit-dataset-doc.R | 6 tests/testthat/test-audit-dontrun.R | 13 tests/testthat/test-audit-globals-coverage.R | 11 tests/testthat/test-audit-globals.R | 6 tests/testthat/test-audit-tags.R | 6 tests/testthat/test-audit-userspace.R | 11 tests/testthat/test-check_as_cran.R | 3 tests/testthat/test-check_as_cran_args.R | 2 tests/testthat/test-check_clean_userspace.R | 4 tests/testthat/test-check_clean_userspace_robust.R | 16 tests/testthat/test-checkhelper.R | 19 tests/testthat/test-create_example_pkg.R | 7 tests/testthat/test-deprecated.R | 30 tests/testthat/test-empty_package.R | 2 tests/testthat/test-env_pollution.R | 2 tests/testthat/test-find_missing_values.R | 25 tests/testthat/test-fix-ascii.R | 15 tests/testthat/test-fix-dataset-doc.R | 4 tests/testthat/test-fix-globals-merge.R | 109 + tests/testthat/test-fix-globals-multi-run.R |only tests/testthat/test-fix-globals.R | 54 tests/testthat/test-get_data_info.R | 3 tests/testthat/test-inherit_return.R | 2 tests/testthat/test-namespace-shape.R | 4 tests/testthat/test-rdname_topic_block.R | 2 tests/testthat/test-requirements.R |only tests/testthat/test-returns_alias.R | 2 tests/testthat/test-roxygen2-8x-compat.R |only tests/testthat/test-s3_missing_value.R | 5 tests/testthat/test-use_data_doc.R | 5 tests/testthat/test-use_data_doc_overwrite.R | 2 67 files changed, 3391 insertions(+), 2992 deletions(-)
Title: Download, Clean, Classify, Enrich and Export Biodiversity
Occurrence Data
Description: Downloads, imports, cleans, classifies, enriches and exports biodiversity
occurrence data, with an emphasis on reproducible Global Biodiversity
Information Facility (GBIF) <https://api.gbif.org/v1/> workflows. The package
supports batch occurrence downloads, taxonomic standardisation, coordinate
cleaning, optional spatial thinning, spatial attribution and structured
export of processed occurrence records and audit outputs. Terrestrial and
freshwater workflows can join records to administrative units, protected
areas, freshwater ecoregions, basins, rivers, lakes, reservoirs, wetlands and
other contextual spatial overlays. Marine workflows support offshore and
coastal records through joins to Marine Regions
<https://www.marineregions.org/> style layers, Exclusive Economic Zone (EEZ)
units, marine ecoregions, Large Marine Ecosystems and user-supplied marine
overlays. The package also supports native-range and invasive-status evidence
workflows using the World Register of Marin [...truncated...]
Author: Darren Stuart [aut, cre]
Maintainer: Darren Stuart <dstuart04@qub.ac.uk>
Diff between biofetchR versions 0.1.0 dated 2026-07-21 and 0.1.1 dated 2026-08-19
DESCRIPTION | 6 MD5 | 27 NAMESPACE | 2 R/gbif_download_backends.R | 971 ++++++++++++++++---- R/marine_pipeline.R | 464 +++++++-- R/terrestrial_freshwater_pipeline.R | 563 +++++++++-- R/utils_gbif.R | 395 ++++++-- inst/doc/biofetchR-auditing-and-scaling.html | 22 inst/doc/biofetchR-batch-pipelines.html | 2 man/download_gbif_batch.Rd | 68 + man/download_gbif_batch_gadm.Rd | 303 +++++- man/process_gbif_marine_pipeline.Rd | 93 + man/process_gbif_terrestrial_freshwater_pipeline.Rd | 156 ++- man/wait_and_import_gbif.Rd | 102 +- tests/testthat/test-gbif-queue-patch.R |only 15 files changed, 2600 insertions(+), 574 deletions(-)
Title: Bayesian Inference of Boolean Genetic Networks
Description: Implements a fully Bayesian Markov chain Monte Carlo (MCMC) approach for inferring the topology and Boolean logic transition functions of gene regulatory networks from noisy, binary time-series expression data. Network structure and Boolean rules are sampled jointly from their posterior distribution, providing principled uncertainty quantification rather than a single point estimate. Method described in Han et al. (2014) <doi:10.1371/journal.pone.0115806>.
Author: Anson Li [aut, cre],
Shengtong Han [aut]
Maintainer: Anson Li <liyuanrui618@gmail.com>
Diff between BBNI versions 0.1.1 dated 2026-07-15 and 0.2.2 dated 2026-08-19
BBNI-0.1.1/BBNI/man/figures |only BBNI-0.2.2/BBNI/DESCRIPTION | 11 BBNI-0.2.2/BBNI/MD5 | 48 BBNI-0.2.2/BBNI/NAMESPACE | 25 BBNI-0.2.2/BBNI/NEWS.md | 27 BBNI-0.2.2/BBNI/R/bbni.r | 201 ++- BBNI-0.2.2/BBNI/R/data.R |only BBNI-0.2.2/BBNI/R/likelihood.R | 172 +-- BBNI-0.2.2/BBNI/R/proposals.R | 54 - BBNI-0.2.2/BBNI/R/simulate.R | 78 - BBNI-0.2.2/BBNI/R/utils.R | 28 BBNI-0.2.2/BBNI/R/visualize.R |only BBNI-0.2.2/BBNI/README.md | 24 BBNI-0.2.2/BBNI/data |only BBNI-0.2.2/BBNI/inst/doc/Introduction_to_BBNI.Rmd | 746 ++++++-------- BBNI-0.2.2/BBNI/inst/doc/Introduction_to_BBNI.html | 550 +++++----- BBNI-0.2.2/BBNI/man/GenerateNetwork.Rd | 6 BBNI-0.2.2/BBNI/man/GenerateSample.Rd | 36 BBNI-0.2.2/BBNI/man/plot_bbni.Rd |only BBNI-0.2.2/BBNI/man/plot_network.Rd |only BBNI-0.2.2/BBNI/man/plot_trace.Rd |only BBNI-0.2.2/BBNI/man/run_bbni.Rd | 130 +- BBNI-0.2.2/BBNI/man/yeast_data.Rd |only BBNI-0.2.2/BBNI/tests/testthat/test-likelihood.R | 81 + BBNI-0.2.2/BBNI/vignettes/Introduction_to_BBNI.Rmd | 746 ++++++-------- BBNI-0.2.2/BBNI/vignettes/figures/simulate-data-1.png |only BBNI-0.2.2/BBNI/vignettes/figures/trace-plot-1.png |binary BBNI-0.2.2/BBNI/vignettes/figures/view-results-1.png |only BBNI-0.2.2/BBNI/vignettes/figures/visualize-network-1.png |binary BBNI-0.2.2/BBNI/vignettes/figures/yeast-plot-1.png |only BBNI-0.2.2/BBNI/vignettes/figures/yeast-trace-1.png |only 31 files changed, 1569 insertions(+), 1394 deletions(-)
Title: R Client for the 'OMOPHub' Medical Vocabulary API
Description: Provides an R interface to the 'OMOPHub' API for accessing
'OHDSI ATHENA' standardized medical vocabularies. Supports concept search,
semantic search using neural embeddings, concept similarity, vocabulary
exploration, hierarchy navigation, relationship queries, concept
mappings, and FHIR-to-OMOP concept resolution with automatic pagination.
Author: Alex Chen [aut, cre, cph],
Observational Health Data Science and Informatics [cph]
Maintainer: Alex Chen <alex@omophub.com>
Diff between omophub versions 1.8.1 dated 2026-06-01 and 1.9.0 dated 2026-08-19
DESCRIPTION | 6 MD5 | 23 +- NEWS.md | 46 ++++- R/mappings.R | 137 ++++++++++++++- README.md | 8 inst/doc/getting-started.R | 24 ++ inst/doc/getting-started.Rmd | 38 +++- inst/doc/getting-started.html | 253 ++++++++++++++++------------- inst/examples/map_between_vocabularies.R | 132 ++++++++++----- man/MappingsResource.Rd | 83 +++++++++ tests/testthat/test-mappings.R | 257 +++++++++++++++++++++++++++++- tests/testthat/test-roxygen-param-order.R |only vignettes/getting-started.Rmd | 38 +++- 13 files changed, 837 insertions(+), 208 deletions(-)
Title: Lightweight Tables via JSON Specs and JavaScript
Description: A lightweight grammar of tables. Build a table by declaring a JSON
spec (titles, spanners, row groups, footnotes, formatting functions, etc.); a tiny
vanilla JavaScript runtime builds the HTML table from the spec on page
load. No 'sass', no 'V8', no 'htmlwidgets' — just base R and 'xfun'
('htmltools' is used only for the optional Shiny binding).
Author: Yihui Xie [aut, cre, cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between lt versions 0.2 dated 2026-07-09 and 0.3 dated 2026-08-19
DESCRIPTION | 8 ++-- MD5 | 46 ++++++++++++------------ NEWS.md | 6 +++ R/lt.R | 10 ++++- R/render.R | 23 +++++++++++- R/shiny.R | 2 - R/tab.R | 83 ++++++++++++++++++++++++--------------------- README.md | 5 ++ inst/www/lt.js | 25 ++++++++----- man/lt_align.Rd | 3 + man/lt_date.Rd | 3 + man/lt_export.Rd | 3 - man/lt_footnote.Rd | 6 +-- man/lt_format.Rd | 4 +- man/lt_group.Rd | 4 +- man/lt_html.Rd | 5 +- man/lt_merge.Rd | 2 - man/lt_move.Rd | 7 ++- man/lt_spanner.Rd | 4 +- man/lt_style.Rd | 2 - man/lt_sub.Rd | 2 - man/lt_width.Rd | 14 ++++--- tests/testit/test-render.R | 19 ++++++++++ tests/testit/test-tab.R | 64 ++++++++++++++++++++++++++++++++++ 24 files changed, 245 insertions(+), 105 deletions(-)
Title: Fitting and Assessing Neighborhood Models of the Effect of
Interspecific Competition on the Growth of Trees
Description: Code for fitting and assessing models for the growth of trees. In
particular for the Bayesian neighborhood competition linear regression model
of Allen (2020): methods for model fitting and generating fitted/predicted
values, evaluating the effect of competitor species identity using
permutation tests, and evaluating model performance using spatial
cross-validation.
Author: Albert Y. Kim [aut, cre] ,
David Allen [aut] ,
Simon Couch [aut]
Maintainer: Albert Y. Kim <albert.ys.kim@gmail.com>
Diff between forestecology versions 0.2.1 dated 2025-08-27 and 0.2.2 dated 2026-08-19
DESCRIPTION | 12 ++-- MD5 | 46 ++++++++--------- NAMESPACE | 34 ++++++++---- NEWS.md | 53 ++++++++------------ data/blocks_ex.rda |binary data/census_1_ex.rda |binary data/census_2008_bw.rda |binary data/census_2014_bw.rda |binary data/census_2_ex.rda |binary data/comp_bayes_lm_ex.rda |binary data/focal_vs_comp_ex.rda |binary data/growth_ex.rda |binary data/growth_spatial_ex.rda |binary data/growth_toy.rda |binary data/species_bw.rda |binary data/study_region_bw.rda |binary data/study_region_ex.rda |binary inst/doc/forestecology.html | 4 - man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-15-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary vignettes/man/figures/README-unnamed-chunk-13-1.png |binary vignettes/man/figures/README-unnamed-chunk-3-1.png |binary 24 files changed, 76 insertions(+), 73 deletions(-)
Title: Build 'Tidyverse'-Style Meta-Packages from Local Package Files
Description: Turns a curated set of package archives (.tar.gz, .zip) into one
meta-package in the style of the 'tidyverse', so that a group of
interdependent packages can be distributed and installed as a single
unit. The generated meta-package records the exact archive versions it
was built from and installs its components in dependency order, so that
whoever receives it does not have to work out which package to install
first.
The component archives are copied into the generated meta-package, so it
is the only artifact that has to be distributed and no directory has to be
agreed on between machines. Resolves dependencies by building a graph with
topological ordering and cycle detection, classifies them as local or
external, and detects implicit dependencies by scanning source code.
Installation needs no repository access unless a component depends on a
package that only exists in one, which suits teams working behind
institutional firewalls. Generates the complete meta-package scaffold,
including [...truncated...]
Author: Sebastian Lucas [aut, cre] ,
Richard Detomasi [ctb]
Maintainer: Sebastian Lucas <sebalucas@gmail.com>
Diff between bigbang versions 0.1.0 dated 2026-08-08 and 0.4.0 dated 2026-08-19
bigbang-0.1.0/bigbang/man/crear_meta_paquete_local.Rd |only bigbang-0.1.0/bigbang/man/diagnosticar_dependencias.Rd |only bigbang-0.1.0/bigbang/man/install_loc_pkg_w_dep.Rd |only bigbang-0.4.0/bigbang/DESCRIPTION | 48 bigbang-0.4.0/bigbang/MD5 | 93 bigbang-0.4.0/bigbang/NAMESPACE | 3 bigbang-0.4.0/bigbang/NEWS.md | 379 ++ bigbang-0.4.0/bigbang/R/create_metapackage.R | 1421 +++++++-- bigbang-0.4.0/bigbang/R/dependencies.R | 1516 +++++++++- bigbang-0.4.0/bigbang/R/fs-utils.R | 150 bigbang-0.4.0/bigbang/R/i18n-tools.R | 6 bigbang-0.4.0/bigbang/R/install_local_pkg.R | 515 ++- bigbang-0.4.0/bigbang/R/results.R | 10 bigbang-0.4.0/bigbang/R/scaffold.R | 531 +-- bigbang-0.4.0/bigbang/R/scan_bigbang_artifact.R | 47 bigbang-0.4.0/bigbang/R/templates-engine.R | 913 ++++-- bigbang-0.4.0/bigbang/R/translations.R | 243 + bigbang-0.4.0/bigbang/README.md | 233 + bigbang-0.4.0/bigbang/inst/WORDLIST | 11 bigbang-0.4.0/bigbang/inst/doc/bigbang-es.R | 2 bigbang-0.4.0/bigbang/inst/doc/bigbang-es.Rmd | 48 bigbang-0.4.0/bigbang/inst/doc/bigbang-es.html | 262 + bigbang-0.4.0/bigbang/inst/doc/getting-started.R | 2 bigbang-0.4.0/bigbang/inst/doc/getting-started.Rmd | 46 bigbang-0.4.0/bigbang/inst/doc/getting-started.html | 314 +- bigbang-0.4.0/bigbang/inst/po/es/LC_MESSAGES/R-bigbang.mo |binary bigbang-0.4.0/bigbang/man/create_metapackage.Rd | 187 + bigbang-0.4.0/bigbang/man/diagnose_dependencies.Rd | 8 bigbang-0.4.0/bigbang/man/install_local_pkg.Rd | 53 bigbang-0.4.0/bigbang/po/R-bigbang.pot | 284 + bigbang-0.4.0/bigbang/po/R-es.po | 314 +- bigbang-0.4.0/bigbang/tests/testthat/helper-path-assertions.R |only bigbang-0.4.0/bigbang/tests/testthat/test-algorithms.R | 2 bigbang-0.4.0/bigbang/tests/testthat/test-api.R | 44 bigbang-0.4.0/bigbang/tests/testthat/test-component-inputs.R |only bigbang-0.4.0/bigbang/tests/testthat/test-data-loss-regression.R | 2 bigbang-0.4.0/bigbang/tests/testthat/test-generated-features.R |only bigbang-0.4.0/bigbang/tests/testthat/test-generated-long-path-check.R |only bigbang-0.4.0/bigbang/tests/testthat/test-generation-corrections.R |only bigbang-0.4.0/bigbang/tests/testthat/test-generation-safety.R |only bigbang-0.4.0/bigbang/tests/testthat/test-group-c-features.R |only bigbang-0.4.0/bigbang/tests/testthat/test-i18n.R | 253 + bigbang-0.4.0/bigbang/tests/testthat/test-install-local-cleanup.R | 196 + bigbang-0.4.0/bigbang/tests/testthat/test-portability.R | 39 bigbang-0.4.0/bigbang/tests/testthat/test-reexport-active-bindings.R |only bigbang-0.4.0/bigbang/tests/testthat/test-results-conditions.R | 13 bigbang-0.4.0/bigbang/tests/testthat/test-round104-107.R |only bigbang-0.4.0/bigbang/tests/testthat/test-round108-109.R |only bigbang-0.4.0/bigbang/tests/testthat/test-round76-81.R |only bigbang-0.4.0/bigbang/tests/testthat/test-round82-manifest-and-identity.R |only bigbang-0.4.0/bigbang/tests/testthat/test-round83-85.R |only bigbang-0.4.0/bigbang/tests/testthat/test-round87-89.R |only bigbang-0.4.0/bigbang/tests/testthat/test-round99-update-transaction.R |only bigbang-0.4.0/bigbang/tests/testthat/test-scanner-remediation.R | 3 bigbang-0.4.0/bigbang/tests/testthat/test-self-contained-metapackage.R |only bigbang-0.4.0/bigbang/vignettes/bigbang-es.Rmd | 48 bigbang-0.4.0/bigbang/vignettes/getting-started.Rmd | 46 57 files changed, 6892 insertions(+), 1393 deletions(-)
Title: Bayesian Analysis of Non-Stationary Gaussian Process Models
Description: Enables off-the-shelf functionality for fully Bayesian, nonstationary Gaussian process modeling. The approach to nonstationary modeling involves a closed-form, convolution-based covariance function with spatially-varying parameters; these parameter processes can be specified either deterministically (using covariates or basis functions) or stochastically (using approximate Gaussian processes). Stationary Gaussian processes are a special case of our methodology, and we furthermore implement approximate Gaussian process inference to account for very large spatial data sets (Finley, et al (2017) <doi:10.48550/arXiv.1702.00434>). Bayesian inference is carried out using Markov chain Monte Carlo methods via the "nimble" package, and posterior prediction for the Gaussian process at unobserved locations is provided as a post-processing step.
Author: Daniel Turek [aut, cre],
Mark Risser [aut],
Fabian Ketwaroo [aut]
Maintainer: Daniel Turek <danielturek@gmail.com>
Diff between BayesNSGP versions 0.2.0 dated 2025-12-11 and 0.3.0 dated 2026-08-19
DESCRIPTION | 20 +++++++++++--------- MD5 | 21 +++++++++++++++++++-- NAMESPACE | 18 ++++++++++++++++-- R/v03_NNGP_density.R |only R/v03_NNGP_neighbors.R |only R/v03_RWNNGP_sampler.R |only R/zzz.R |only build |only man/NNGP.pred.Rd |only man/RWNNGP_setup.Rd |only man/computeAD.Rd |only man/computeC.Rd |only man/computeNeighbors.Rd |only man/computeQF.Rd |only man/displayNeighbors.Rd |only man/dmnorm_NN_GP.Rd |only man/expcov.Rd |only man/get_single_reverse_neighbors.Rd |only man/rmnorm_NN_GP.Rd |only man/sampler_RW_NN_GP.Rd |only 20 files changed, 46 insertions(+), 13 deletions(-)
Title: 'MsgPack' C++ Header Files and Interface Functions for R
Description: 'MsgPack' header files are provided for use by R packages, along
with the ability to access, create and alter 'MsgPack' objects directly from R.
'MsgPack' is an efficient binary serialization format. It lets you exchange
data among multiple languages like 'JSON' but it is faster and smaller.
Small integers are encoded into a single byte, and typical short strings
require only one extra byte in addition to the strings themselves. This
package provides headers from the 'msgpack-c' implementation for C and
C++(11) for use by R, particularly 'Rcpp'. The included 'msgpack-c' headers
are licensed under the Boost Software License (Version 1.0); the code added
by this package as well the R integration are licensed under the GPL (>= 2).
See the files 'COPYRIGHTS' and 'AUTHORS' for a full list of copyright holders
and contributors to 'msgpack-c'.
Author: Dirk Eddelbuettel [aut, cre] ,
Travers Ching [aut],
MsgPack Authors [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppMsgPack versions 0.2.4 dated 2025-01-19 and 0.2.5 dated 2026-08-19
ChangeLog | 25 +++++++++++++++++++++++++ DESCRIPTION | 11 ++++++----- MD5 | 17 +++++++++-------- README.md | 16 +++++++++++----- build/partial.rdb |binary build/vignette.rds |binary cleanup |only inst/NEWS.Rd | 8 ++++++++ inst/doc/vignette.html | 17 +++++++++-------- inst/include/msgpack.hpp | 4 ++++ 10 files changed, 72 insertions(+), 26 deletions(-)
Title: Enterprise Streamlined 'shiny' Application Framework Using
'bs4Dash'
Description: A framework for building enterprise, scalable and UI-standardized 'shiny' applications.
It brings enhanced features such as 'bootstrap' v4 <https://getbootstrap.com/docs/4.0/getting-started/introduction/>,
additional and enhanced 'shiny' modules, customizable UI features, as well as an enhanced application file
organization paradigm. This update allows developers to harness the ability to build powerful applications and
enriches the 'shiny' developers' experience when building and maintaining applications.
Author: Mohammed Ali [aut, cre],
Constance Brett [ctb],
Aggregate Genius Inc [spn]
Maintainer: Mohammed Ali <mohammed@aggregate-genius.com>
Diff between periscope2 versions 0.3.0 dated 2025-09-04 and 0.4.0 dated 2026-08-19
periscope2-0.3.0/periscope2/tests/testthat/sample_app_both_sidebars/log |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_both_sidebars/program/data |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_left_sidebar/log |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_left_sidebar/program/data |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_no_both_sidebars/log |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_no_both_sidebars/program/data |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_right_sidebar/log |only periscope2-0.3.0/periscope2/tests/testthat/sample_app_right_sidebar/program/data |only periscope2-0.4.0/periscope2/DESCRIPTION | 12 + periscope2-0.4.0/periscope2/MD5 | 65 +++------- periscope2-0.4.0/periscope2/NEWS.md | 11 + periscope2-0.4.0/periscope2/R/downloadableReactTable.R | 39 +++++- periscope2-0.4.0/periscope2/build/vignette.rds |binary periscope2-0.4.0/periscope2/inst/WORDLIST | 13 -- periscope2-0.4.0/periscope2/inst/doc/announcement-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/announcement_addin.html | 4 periscope2-0.4.0/periscope2/inst/doc/applicationReset-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/downloadFile-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/downloadablePlot-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/downloadableReactTable-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/downloadableTable-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/logViewer-module.html | 9 - periscope2-0.4.0/periscope2/inst/doc/migrate_to_v0_2_0.html | 5 periscope2-0.4.0/periscope2/inst/doc/new-application.html | 9 - periscope2-0.4.0/periscope2/inst/doc/themeBuilder_addin.html | 4 periscope2-0.4.0/periscope2/tests/testthat/_snaps/log_viewer.md | 4 periscope2-0.4.0/periscope2/tests/testthat/_snaps/ui_functions.md | 2 periscope2-0.4.0/periscope2/tests/testthat/sample_app_right_sidebar/program/ui_body.R | 2 periscope2-0.4.0/periscope2/tests/testthat/test_download_file.R | 16 +- periscope2-0.4.0/periscope2/tests/testthat/test_downloadable_plot.R | 16 +- periscope2-0.4.0/periscope2/tests/testthat/test_downloadable_react_table.R | 58 +++++++- periscope2-0.4.0/periscope2/tests/testthat/test_log_viewer.R | 3 32 files changed, 205 insertions(+), 121 deletions(-)
Title: 1d Water Level Interpolation along the Rivers Elbe and Rhine
Description: An S4 class and several functions which utilize internally stored
datasets and gauging data enable 1d water level interpolation. The S4 class
(WaterLevelDataFrame) structures the computation and visualisation
of 1d water level information along the German federal waterways Elbe and
Rhine. 'hyd1d' delivers 1d water level data - extracted from the 'FLYS'
database - and validated gauging data - extracted from the hydrological
database 'WISKI7' - package-internally. For computations near real time
gauging data are queried externally from the 'PEGELONLINE REST API'
<https://pegelonline.wsv.de/webservice/dokuRestapi>.
Author: Arnd Weber [aut, cre] ,
Marcus Hatz [aut],
Wolfgang Stuermer [ctb],
Wilfried Wiechmann [ctb],
Benjamin Eberhardt [ctb]
Maintainer: Arnd Weber <arnd.weber@bafg.de>
Diff between hyd1d versions 0.5.4 dated 2025-12-03 and 0.5.5 dated 2026-08-19
DESCRIPTION | 22 MD5 | 63 - NAMESPACE | 2 NEWS.md | 9 R/Class-WaterLevelDataFrame.R | 131 +- R/data.R | 8 R/getPegelonlineCharacteristicValues.R |only R/getPegelonlineW.R | 29 R/hyd1d-internal.R | 9 R/hyd1d.R | 1 R/plotShiny.R | 12 R/waterLevelFlood2.R | 717 ++++++++++----- README.md | 8 build/partial.rdb |binary build/vignette.rds |binary data/df.gauging_station_data.rda |binary inst/REFERENCES.bib | 2 inst/doc/hyd1d.R | 6 inst/doc/hyd1d.Rmd | 10 inst/doc/hyd1d.html | 48 - inst/doc/vignette_DE.R | 6 inst/doc/vignette_DE.Rmd | 10 inst/doc/vignette_DE.html | 44 man/WaterLevelDataFrame-class.Rd | 2 man/WaterLevelDataFrame.Rd | 12 man/df.flys.Rd | 2 man/df.gauging_data.Rd | 4 man/getPegelonlineCharacteristicValues.Rd |only man/hyd1d.Rd | 5 man/waterLevelFlood2.Rd | 42 tests/testthat/test_getPegelonlineCharacteristicValues.R |only tests/testthat/test_waterLevelFlood2.R | 25 vignettes/hyd1d.Rmd | 10 vignettes/vignette_DE.Rmd | 10 34 files changed, 809 insertions(+), 440 deletions(-)
Title: Hypergraph Variable Selection
Description: Performs hypergraph-based setwise variable selection with false discovery rate control (Organ, Kenney & Gu, 2026, <doi:10.48550/arXiv.2606.20514>). The idea is, in addition to selecting individual predictors when there is sufficient evidence, to also test all pairs of predictors, and when there is insufficient evidence to be sure which is the true predictor, it will select possibly overlapping pairs, for which there is strong evidence that at least one is a true predictor. The method is designed to control a generalised false discovery rate, where discoveries are counted based on the number of independent sets. The function of this package is similar to the 'hypergraph.sizing' package, but this package is optimised for faster computation in the case where we test all pairs of predictors. The package also includes functions for counting independent sets in a graph or hypergraph, either exactly or approximately. There is also a very limited function for isotonic regression, whi [...truncated...]
Author: Toby Kenney [cre],
Sarah Organ [aut]
Maintainer: Toby Kenney <tkenney@mathstat.dal.ca>
This is a re-admission after prior archival of version 1.0.0 dated 2026-06-30
Diff between HVS versions 1.0.0 dated 2026-06-30 and 1.0.1 dated 2026-08-19
DESCRIPTION | 6 +++--- MD5 | 6 +++--- src/CountIndep.cpp | 4 +++- src/Set.h | 2 +- 4 files changed, 10 insertions(+), 8 deletions(-)
Title: Categorical Regression Splines
Description: Regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://www.sharcnet.ca>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Zhenghua Nie [aut],
Brian D. Ripley [ctb]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between crs versions 0.15-45 dated 2026-06-26 and 0.15-46 dated 2026-08-19
crs-0.15-45/crs/demo/spline.R |only crs-0.15-46/crs/CHANGELOG | 6 crs-0.15-46/crs/DESCRIPTION | 8 crs-0.15-46/crs/MD5 | 55 crs-0.15-46/crs/NAMESPACE | 10 crs-0.15-46/crs/NEWS.md | 72 + crs-0.15-46/crs/R/clsd.R | 17 crs-0.15-46/crs/R/crs.plot.engine.curves.R | 10 crs-0.15-46/crs/R/crs.plot.payload.R | 8 crs-0.15-46/crs/R/crsiv.R | 85 - crs-0.15-46/crs/R/crsiv.interface.R |only crs-0.15-46/crs/R/crsivderiv.R | 197 +-- crs-0.15-46/crs/R/util.R | 2 crs-0.15-46/crs/build/vignette.rds |binary crs-0.15-46/crs/demo/00Index | 1 crs-0.15-46/crs/inst/doc/crs_getting_started.html | 2 crs-0.15-46/crs/inst/include/crs_nomad_native.h | 128 ++ crs-0.15-46/crs/man/clsd.Rd | 18 crs-0.15-46/crs/man/crs_nomad_api.Rd | 17 crs-0.15-46/crs/man/crsiv.Rd | 131 +- crs-0.15-46/crs/man/crsivderiv.Rd | 114 +- crs-0.15-46/crs/man/plot.crs.Rd | 2 crs-0.15-46/crs/src/crs_init.c | 4 crs-0.15-46/crs/src/nomad4_src/interfaces/CInterface/NomadStdCInterface.cpp | 95 + crs-0.15-46/crs/src/nomad4_src/interfaces/CInterface/NomadStdCInterface.h | 3 crs-0.15-46/crs/src/nomad4_src/src/Algos/Algorithm.cpp | 5 crs-0.15-46/crs/src/nomad4_src/src/Algos/Step.cpp | 47 crs-0.15-46/crs/src/nomad4_src/src/Algos/Step.hpp | 11 crs-0.15-46/crs/src/snomadr_native.cpp | 565 +++++++++- crs-0.15-46/crs/tools/nomad/NOMAD_VENDOR_PATCH_MANIFEST.md |only 30 files changed, 1236 insertions(+), 377 deletions(-)
Title: Scalable Bayesian Disease Mapping Models for High-Dimensional
Data
Description: Implements several spatial and spatio-temporal scalable disease mapping models for high-dimensional count data using the INLA technique for approximate Bayesian inference in latent Gaussian models (Orozco-Acosta et al., 2021 <doi:10.1016/j.spasta.2021.100496>; Orozco-Acosta et al., 2023 <doi:10.1016/j.cmpb.2023.107403> and Vicente et al., 2023 <doi:10.1007/s11222-023-10263-x>). The creation and develpment of this package has been supported by Project MTM2017-82553-R (AEI/FEDER, UE) and Project PID2020-113125RB-I00/MCIN/AEI/10.13039/501100011033. It has also been partially funded by the Public University of Navarra (project PJUPNA2001).
Author: Aritz Adin [aut, cre] ,
Erick Orozco-Acosta [aut] ,
Maria Dolores Ugarte [aut]
Maintainer: Aritz Adin <aritz.adin@unavarra.es>
Diff between bigDM versions 0.5.7 dated 2025-09-16 and 0.5.8 dated 2026-08-19
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS | 4 ++++ R/CAR_INLA.R | 1 + R/MCAR_INLA.R | 1 + R/STCAR_INLA.R | 1 + README.md | 6 +++++- build/partial.rdb |binary inst/CITATION | 8 ++++---- 9 files changed, 29 insertions(+), 18 deletions(-)
Title: Access Brazilian National Treasury Open Data APIs
Description: Provides a unified interface to access open data from the
Brazilian National Treasury ('Tesouro Nacional') and related government
APIs. Covers six data sources: 'SICONFI'
<https://apidatalake.tesouro.gov.br/docs/siconfi/> for fiscal reports
('RREO', 'RGF', 'DCA', 'MSC') and entity information; 'CUSTOS'
<https://apidatalake.tesouro.gov.br/docs/custos/> for federal
government cost data; 'SADIPEM'
<https://apidatalake.tesouro.gov.br/docs/sadipem/> for public debt and
credit operations; 'Transferencias Constitucionais'
<https://apiapex.tesouro.gov.br/aria/v1/transferencias_constitucionais/docs>
for constitutional transfers to states and municipalities; 'SIORG'
<https://estruturaorganizacional.dados.gov.br> for federal
organizational structure; and 'SIOPE' ('FNDE'/'MEC') for education
spending data. Features automatic pagination, in-memory caching,
retry logic, and tidy output.
Author: Andre Leite [aut, cre],
Marcos Wasilew [aut],
Hugo Vasconcelos [aut],
Carlos Amorim [aut],
Diogo Bezerra [aut],
Tiago Pereira [aut],
Fernando Barbalho [aut]
Maintainer: Andre Leite <leite@castlab.org>
Diff between tesouror versions 0.2.3 dated 2026-06-09 and 0.3.0 dated 2026-08-19
tesouror-0.2.3/tesouror/man/get_dca.Rd |only tesouror-0.2.3/tesouror/man/get_dca_for_state.Rd |only tesouror-0.2.3/tesouror/man/get_rgf.Rd |only tesouror-0.2.3/tesouror/man/get_rgf_for_state.Rd |only tesouror-0.2.3/tesouror/man/get_rreo.Rd |only tesouror-0.2.3/tesouror/man/get_rreo_for_state.Rd |only tesouror-0.3.0/tesouror/DESCRIPTION | 12 tesouror-0.3.0/tesouror/MD5 | 158 +++++---- tesouror-0.3.0/tesouror/NAMESPACE | 12 tesouror-0.3.0/tesouror/NEWS.md | 30 + tesouror-0.3.0/tesouror/R/deprecated.R |only tesouror-0.3.0/tesouror/R/rreo_tidy.R | 28 - tesouror-0.3.0/tesouror/R/siconfi.R | 160 +++++---- tesouror-0.3.0/tesouror/R/siope.R | 123 +++++-- tesouror-0.3.0/tesouror/README.md | 11 tesouror-0.3.0/tesouror/inst/doc/getting-started.R | 8 tesouror-0.3.0/tesouror/inst/doc/getting-started.Rmd | 8 tesouror-0.3.0/tesouror/inst/doc/getting-started.html | 8 tesouror-0.3.0/tesouror/inst/doc/rreo-longitudinal.R | 4 tesouror-0.3.0/tesouror/inst/doc/rreo-longitudinal.Rmd | 10 tesouror-0.3.0/tesouror/inst/doc/rreo-longitudinal.html | 12 tesouror-0.3.0/tesouror/inst/doc/siconfi.R | 8 tesouror-0.3.0/tesouror/inst/doc/siconfi.Rmd | 14 tesouror-0.3.0/tesouror/inst/doc/siconfi.html | 20 - tesouror-0.3.0/tesouror/inst/doc/siope.R | 11 tesouror-0.3.0/tesouror/inst/doc/siope.Rmd | 23 + tesouror-0.3.0/tesouror/inst/doc/siope.html | 164 +++++----- tesouror-0.3.0/tesouror/inst/doc/transferencias_pernambuco.R | 2 tesouror-0.3.0/tesouror/inst/doc/transferencias_pernambuco.Rmd | 2 tesouror-0.3.0/tesouror/inst/doc/transferencias_pernambuco.html | 6 tesouror-0.3.0/tesouror/man/figures/tesouror_pypkg.svg |only tesouror-0.3.0/tesouror/man/figures/tesouror_rpkg.svg |only tesouror-0.3.0/tesouror/man/get_anexos.Rd | 24 - tesouror-0.3.0/tesouror/man/get_custos_demais.Rd | 12 tesouror-0.3.0/tesouror/man/get_custos_depreciacao.Rd | 12 tesouror-0.3.0/tesouror/man/get_custos_pensionistas.Rd | 12 tesouror-0.3.0/tesouror/man/get_custos_pessoal_ativo.Rd | 12 tesouror-0.3.0/tesouror/man/get_custos_pessoal_inativo.Rd | 12 tesouror-0.3.0/tesouror/man/get_custos_transferencias.Rd | 12 tesouror-0.3.0/tesouror/man/get_dca_municipios.Rd |only tesouror-0.3.0/tesouror/man/get_dca_ufs.Rd |only tesouror-0.3.0/tesouror/man/get_entes.Rd | 24 - tesouror-0.3.0/tesouror/man/get_extrato.Rd | 24 - tesouror-0.3.0/tesouror/man/get_msc_controle.Rd | 24 - tesouror-0.3.0/tesouror/man/get_msc_orcamentaria.Rd | 24 - tesouror-0.3.0/tesouror/man/get_msc_patrimonial.Rd | 24 - tesouror-0.3.0/tesouror/man/get_opc_cronograma_liberacoes.Rd | 14 tesouror-0.3.0/tesouror/man/get_opc_cronograma_pagamentos.Rd | 14 tesouror-0.3.0/tesouror/man/get_opc_taxa_cambio.Rd | 14 tesouror-0.3.0/tesouror/man/get_pvl.Rd | 14 tesouror-0.3.0/tesouror/man/get_pvl_tramitacao.Rd | 14 tesouror-0.3.0/tesouror/man/get_res_cdp.Rd | 14 tesouror-0.3.0/tesouror/man/get_res_cronograma_pagamentos.Rd | 14 tesouror-0.3.0/tesouror/man/get_rgf_municipios.Rd |only tesouror-0.3.0/tesouror/man/get_rgf_ufs.Rd |only tesouror-0.3.0/tesouror/man/get_rreo_municipios.Rd |only tesouror-0.3.0/tesouror/man/get_rreo_ufs.Rd |only tesouror-0.3.0/tesouror/man/get_siope_dados_gerais.Rd | 34 +- tesouror-0.3.0/tesouror/man/get_siope_despesas.Rd | 29 + tesouror-0.3.0/tesouror/man/get_siope_despesas_funcao.Rd | 29 + tesouror-0.3.0/tesouror/man/get_siope_indicadores.Rd | 29 + tesouror-0.3.0/tesouror/man/get_siope_info_complementares.Rd | 29 + tesouror-0.3.0/tesouror/man/get_siope_receitas.Rd | 29 + tesouror-0.3.0/tesouror/man/get_siope_remuneracao.Rd | 27 + tesouror-0.3.0/tesouror/man/get_siope_responsaveis.Rd | 29 + tesouror-0.3.0/tesouror/man/get_siorg_estrutura.Rd | 6 tesouror-0.3.0/tesouror/man/get_siorg_orgaos.Rd | 6 tesouror-0.3.0/tesouror/man/get_siorg_unidade.Rd | 6 tesouror-0.3.0/tesouror/man/get_tc_estados.Rd | 20 - tesouror-0.3.0/tesouror/man/get_tc_municipios.Rd | 20 - tesouror-0.3.0/tesouror/man/get_tc_por_estados.Rd | 14 tesouror-0.3.0/tesouror/man/get_tc_por_estados_detalhe.Rd | 14 tesouror-0.3.0/tesouror/man/get_tc_por_municipio.Rd | 14 tesouror-0.3.0/tesouror/man/get_tc_por_municipio_detalhe.Rd | 14 tesouror-0.3.0/tesouror/man/get_tc_transferencias.Rd | 20 - tesouror-0.3.0/tesouror/man/rreo_layout.Rd | 8 tesouror-0.3.0/tesouror/man/rreo_normalize_columns.Rd | 8 tesouror-0.3.0/tesouror/man/tesouror-deprecated.Rd |only tesouror-0.3.0/tesouror/man/tesouror-package.Rd | 5 tesouror-0.3.0/tesouror/man/tidy_rreo.Rd | 28 - tesouror-0.3.0/tesouror/tests/testthat/helper-mocks.R | 15 tesouror-0.3.0/tesouror/tests/testthat/test-deprecated.R |only tesouror-0.3.0/tesouror/tests/testthat/test-siope-tipo.R |only tesouror-0.3.0/tesouror/tests/testthat/test-url-construction.R | 24 - tesouror-0.3.0/tesouror/vignettes/getting-started.Rmd | 8 tesouror-0.3.0/tesouror/vignettes/rreo-longitudinal.Rmd | 10 tesouror-0.3.0/tesouror/vignettes/siconfi.Rmd | 14 tesouror-0.3.0/tesouror/vignettes/siope.Rmd | 23 + tesouror-0.3.0/tesouror/vignettes/transferencias_pernambuco.Rmd | 2 89 files changed, 991 insertions(+), 671 deletions(-)
Title: Processing Time Series Data Using the Matching Pursuit Algorithm
Description: Provides tools for analysing and decomposing time series data using the Matching Pursuit (MP) algorithm, a greedy signal decomposition technique that represents complex signals as a linear combination of simpler functions (called atoms) selected from a redundant dictionary. Support for the Orthogonal Matching Pursuit (OMP) variant of the classical MP algorithm is also provided. For more details see Mallat and Zhang (1993) <doi:10.1109/78.258082>, Pati et al. (1993) <doi:10.1109/ACSSC.1993.342465>, Elad (2010) <doi:10.1007/978-1-4419-7011-4> and Różański (2024) <doi:10.1145/3674832>.
Author: Artur Gramacki [aut, cre] ,
Jaroslaw Gramacki [ctb] ,
Piotr T. Rożanski [ctb]
Maintainer: Artur Gramacki <a.gramacki@gmail.com>
Diff between MatchingPursuit versions 1.1.0 dated 2026-06-24 and 1.2.0 dated 2026-08-19
MatchingPursuit-1.1.0/MatchingPursuit/R/atom_params.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/filters_coeff.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/gabor_fun.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/gabor_proj_fft.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/omp_execute.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/plot.ecg.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_dict.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_ecg_signals.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/read_empi_db_file.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/run_omp_pipeline.R |only MatchingPursuit-1.1.0/MatchingPursuit/R/sig2bin.R |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered.bin |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered.csv |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered.db |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/EEG_bipolar_filtered_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/one_block_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample1_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample2_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample3_dict.xml |only MatchingPursuit-1.1.0/MatchingPursuit/inst/extdata/sample3_dict_EMPI.xml |only MatchingPursuit-1.1.0/MatchingPursuit/man/atom_params.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/filters_coeff.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/gabor_fun.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/gabor_proj_fft.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/omp_execute.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/plot.ecg.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_dict.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_ecg_signals.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/read_empi_db_file.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/run_omp_pipeline.Rd |only MatchingPursuit-1.1.0/MatchingPursuit/man/sig2bin.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/DESCRIPTION | 12 MatchingPursuit-1.2.0/MatchingPursuit/MD5 | 149 - 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MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/00001_lr.xml |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/EEG_filter_resample_montage.bin |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/EEG_filter_resample_montage.csv |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/EEG_filter_resample_montage.db |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/EEG_filter_resample_montage.xml |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/one_block.xml |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/sample1.xml |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/sample2.xml |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/sample3.xml |only MatchingPursuit-1.2.0/MatchingPursuit/inst/extdata/sample3_EMPI.xml |only MatchingPursuit-1.2.0/MatchingPursuit/man/MatchingPursuit.Rd | 32 MatchingPursuit-1.2.0/MatchingPursuit/man/as_sig.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/design_filters.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/eeg_montage.Rd | 20 MatchingPursuit-1.2.0/MatchingPursuit/man/empi_check.Rd | 17 MatchingPursuit-1.2.0/MatchingPursuit/man/empi_execute.Rd | 39 MatchingPursuit-1.2.0/MatchingPursuit/man/empi_install.Rd | 6 MatchingPursuit-1.2.0/MatchingPursuit/man/empi_locate.Rd | 14 MatchingPursuit-1.2.0/MatchingPursuit/man/gabor_atom.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/gabor_projection_fft.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/generate_xml_dict.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/mp_core.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/mp_omp_execute.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/mp_omp_pipeline.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/omp_core.Rd | 65 MatchingPursuit-1.2.0/MatchingPursuit/man/plot.edf.Rd | 18 MatchingPursuit-1.2.0/MatchingPursuit/man/plot.mp.Rd | 8 MatchingPursuit-1.2.0/MatchingPursuit/man/plot.wfdb.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/read_atom_params.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/read_csv_signals.Rd | 9 MatchingPursuit-1.2.0/MatchingPursuit/man/read_edf_params.Rd | 8 MatchingPursuit-1.2.0/MatchingPursuit/man/read_edf_signals.Rd | 16 MatchingPursuit-1.2.0/MatchingPursuit/man/read_empi_db.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/read_gabor_dict.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/read_wfdb_signals.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/resample_signal.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/signal_to_bin.Rd |only MatchingPursuit-1.2.0/MatchingPursuit/man/tf_map.Rd | 12 MatchingPursuit-1.2.0/MatchingPursuit/man/topk_atoms.Rd | 44 MatchingPursuit-1.2.0/MatchingPursuit/vignettes/MatchingPursuit.Rmd | 601 +++-- 111 files changed, 2451 insertions(+), 1572 deletions(-)
More information about MatchingPursuit at CRAN
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Title: Flexible Procedures for Clustering
Description: Various methods for clustering and cluster validation.
Fixed point clustering. Linear regression clustering. Clustering by
merging Gaussian mixture components. Symmetric
and asymmetric discriminant projections for visualisation of the
separation of groupings. Cluster validation statistics
for distance based clustering including corrected Rand index.
Standardisation of cluster validation statistics by random clusterings and
comparison between many clustering methods and numbers of clusters based on
this.
Cluster-wise cluster stability assessment. Methods for estimation of
the number of clusters: Calinski-Harabasz, Tibshirani and Walther's
prediction strength, Fang and Wang's bootstrap stability.
Gaussian/multinomial mixture fitting for mixed
continuous/categorical variables. Variable-wise statistics for cluster
interpretation. DBSCAN clustering. Interface functions for many
clustering methods implemented in R, including estimating the number of
clusters with kmeans, pam and clara. Modal [...truncated...]
Author: Christian Hennig [aut, cre]
Maintainer: Christian Hennig <christian.hennig@unibo.it>
Diff between fpc versions 2.2-14 dated 2026-01-14 and 2.2-15 dated 2026-08-19
DESCRIPTION | 8 +- MD5 | 18 +++--- man/extract.mixturepars.Rd | 21 +++---- man/mergenormals.Rd | 22 +++---- man/mergeparameters.Rd | 26 ++++---- man/mixdens.Rd | 12 ++-- man/weightplots.Rd | 18 +++--- tests/Examples/fpc-Ex.Rout.save | 113 +++++++++++++++++++-------------------- tests/fpctest_notallin.R | 2 tests/fpctest_notallin.Rout.save | 6 +- 10 files changed, 124 insertions(+), 122 deletions(-)
Title: Model-Based Clustering of Mixed-Type Longitudinal Data
Description: Provides tools for Bayesian estimation and inference for modelling clusterwise multivariate regression models for numeric, count, binary, ordinal and count outcomes observed repeatedly on the same units and where possible relations among outcomes are captured through a joint distribution of random effects. The clusters are defined through cluster-specific parameters, which the analyst can choose, e.g., with respect to the regression coefficients. In particular, the model specification for each regression model via the formula is specific to the outcome and consists of four parts: (1) fixed - regression coefficients common to all clusters, (2) group - group-specific regression coefficients, (3) random - random effects specific for each unit, (3) offset - name of an offset variable (if needed). Estimation is performed using MCMC sampling combining Gibbs and Metropolis-Hastings steps. Post-processing tools allow to assess convergence and address label switching and provide visual diagnost [...truncated...]
Author: Jan Vavra [aut, cre] ,
Bettina Gruen [aut] ,
Gertraud Malsiner-Walli [aut] ,
Arnost Komarek [aut]
Maintainer: Jan Vavra <vavraj@karlin.mff.cuni.cz>
This is a re-admission after prior archival of version 1.0 dated 2026-07-22
Diff between clustGLMM versions 1.0 dated 2026-07-22 and 1.0.1 dated 2026-08-19
DESCRIPTION | 6 MD5 | 33 ++- R/permute_cluster_labels.R | 3 build/partial.rdb |binary inst/doc/clustGLMM.R | 11 + inst/doc/clustGLMM.Rmd | 9 - inst/doc/clustGLMM.html | 82 ++++----- man/clustering_probabilities_and_deviance.Rd | 4 man/post_processing.Rd | 3 man/summary.clustglmm.Rd | 2 src/Metropolis_within_Gibbs_MBC_NumPoiBinOrdCat.c | 187 ++++++++++++++-------- src/newton_raphson.c | 4 src/newton_raphson_bi_dev.c | 4 src/newton_raphson_le0.c | 6 src/pUig_dev.c | 150 +++++++++++------ src/pdfs_derivatives_bi_dev.c | 18 +- vignettes/clustGLMM.Rmd | 9 - vignettes/workflow-diagram.png |only 18 files changed, 334 insertions(+), 197 deletions(-)
Title: Radiocarbon Equations
Description: Provides functions for the calibration of radiocarbon dates, as well as options to calculate different radiocarbon-related timescales (cal BP, cal BC/AD, C14 age, F14C, pMC, D14C) and estimating the effects of contamination or local reservoir offsets (Reimer and Reimer 2001 <doi:10.1017/S0033822200038339>). Supporting publication: Blaauw, M., Reimer, P.J., 2026. An open-source toolkit for radiocarbon dating and calibration. Radiocarbon <doi:10.1017/RDC.2026.10221>. The methods follow long-established recommendations such as Stuiver and Polach (1977) <doi:10.1017/S0033822200003672> and Reimer et al. (2004) <doi:10.1017/S0033822200033154>. This package uses the calibration curves from the data package 'rintcal'.
Author: Maarten Blaauw [aut, cre] ,
Paula Reimer [ctb] ,
Vegard Martinsen [ctb]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rice versions 2.2.1 dated 2026-07-09 and 2.3.0 dated 2026-08-19
DESCRIPTION | 8 - MD5 | 51 +++--- NAMESPACE | 146 ++++++++++--------- NEWS.md | 20 ++ R/calibrate.R | 176 ++++++++++++++++++----- R/plots.R | 25 +-- R/rice-package.R | 12 - R/rice.R | 2 R/sources.R | 4 R/timescales.R | 43 +++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/rice.R | 129 ++++++++--------- inst/doc/rice.Rmd | 133 +++++++++-------- inst/doc/rice.html | 386 ++++++++++++++++++++++++++-------------------------- man/caldist.Rd | 3 man/calib.t.Rd | 3 man/calibratable.Rd | 3 man/calibrate.Rd | 6 man/fromto.Rd | 2 man/l.calib.Rd | 8 - man/older.Rd | 9 - man/p.range.Rd | 7 man/r.calib.Rd | 3 man/sim.date.Rd |only man/younger.Rd | 19 +- vignettes/rice.Rmd | 133 +++++++++-------- 27 files changed, 759 insertions(+), 572 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' <https://libgit2.org> with
support for SSH and HTTPS remotes. All functions in 'gert' use basic R data
types (such as vectors and data-frames) for their arguments and return values.
User credentials are shared with command line 'git' through the git-credential
store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] ,
Maelle Salmon [aut] ,
Jennifer Bryan [ctb]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between gert versions 2.4.0 dated 2026-07-22 and 2.4.1 dated 2026-08-19
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ cleanup | 1 - inst/doc/gert.html | 26 +++++++++++++++----------- src/init.c | 5 +++++ 6 files changed, 32 insertions(+), 20 deletions(-)
Title: Bayesian Prior Elicitation and Diagnostics for Clinical Trials
Description: A toolkit for constructing, validating, and justifying Bayesian priors
in clinical trial settings. Implements expert elicitation via quantile
matching, the roulette method, and moment matching across six distribution
families, linear and logarithmic expert pooling, prior-data conflict
diagnostics including the Box p-value, surprise index, information
divergence, and Mahalanobis distance, sensitivity analyses with tornado
and influence heatmap plots, sceptical, robust, and power priors, and
automated prior justification reports. Includes a fully modular 'Shiny'
application for interactive use.
Methods based on O'Hagan et al. (2006, ISBN:9780470029886),
Box (1980) <doi:10.2307/2982063>,
Oakley and O'Hagan (2010) <https://tonyohagan.co.uk/shelf/>,
Schmidli et al. (2014) <doi:10.1111/biom.12242>,
Ibrahim and Chen (2000) <doi:10.1214/ss/1009212673>,
Spiegelhalter et al. (1994) <doi:10.2307/2983527>.
Author: Ndoh Penn [aut, cre]
Maintainer: Ndoh Penn <ndohpenn9@gmail.com>
Diff between bayprior versions 0.3.0 dated 2026-07-30 and 0.3.2 dated 2026-08-19
DESCRIPTION | 6 MD5 | 110 +-- NEWS.md | 149 +++-- R/aggregation.R | 84 +- R/bayprior-package.R | 7 R/conflict_mahalanobis.R | 138 ---- R/conflict_sensitivity.R | 290 ++++++---- R/elicitation.R | 37 + R/mod_report.R | 5 R/mod_robust_priors.R | 4 R/mod_sensitivity.R | 4 R/mod_welcome.R | 10 R/plotting.R | 67 +- R/prior_report.R | 7 R/robust_priors.R | 22 R/zzz_patches.R | 28 README.md | 16 inst/WORDLIST | 21 inst/doc/bayprior-introduction.Rmd | 9 inst/doc/bayprior-introduction.html | 16 inst/doc/conflict-diagnostics.html | 8 inst/doc/prior-elicitation.html | 4 inst/doc/regulatory-reporting.R | 8 inst/doc/regulatory-reporting.Rmd | 34 - inst/doc/regulatory-reporting.html | 64 +- inst/doc/robust-priors.R | 2 inst/doc/robust-priors.Rmd | 13 inst/doc/robust-priors.html | 24 inst/doc/sensitivity-analysis.Rmd | 9 inst/doc/sensitivity-analysis.html | 18 inst/quarto/templates/prior_report/prior_report.qmd | 12 man/aggregate_experts.Rd | 40 + man/bayprior.Rd | 7 man/conflict_mahalanobis.Rd | 13 man/dot-mixture_working_prior.Rd |only man/dot-prior_range.Rd |only man/elicit_beta.Rd | 18 man/elicit_gamma.Rd | 6 man/elicit_lognormal.Rd | 8 man/elicit_normal.Rd | 5 man/sceptical_prior.Rd | 22 man/sensitivity_cri.Rd | 38 - man/sensitivity_grid.Rd | 19 tests/testthat/test-aggregation.R | 63 ++ tests/testthat/test-edge-cases.R | 8 tests/testthat/test-patches.R | 150 +++++ tests/testthat/test-plots-snapshots.R | 79 ++ tests/testthat/test-sensitivity.R | 169 +++++ tests/testthat/test-shiny-modules.R | 18 tests/testthat/test-validation.R | 173 +++++ vignettes/bayprior-introduction.Rmd | 9 vignettes/bayprior-introduction_files/figure-html/full-heatmap-1.png |binary vignettes/bayprior-introduction_files/figure-html/full-sensitivity-1.png |binary vignettes/regulatory-reporting.Rmd | 34 - vignettes/robust-priors.Rmd | 13 vignettes/sensitivity-analysis.Rmd | 9 vignettes/sensitivity-analysis_files/figure-html/mixture-sa-1.png |binary 57 files changed, 1533 insertions(+), 594 deletions(-)
Title: Taxonomic Hierarchy Distances and Lineage Analysis
Description: Computes distances between taxonomic hierarchy nodes using lineage
data retrieved from The Taxonomicon <http://taxonomicon.taxonomy.nl>. For
distinct nodes, distance is defined as the reciprocal of the depth of their
most recent common ancestor; identical nodes have distance zero. This
definition yields an ultrametric within each connected hierarchy. Functions
are provided for lineage retrieval and comparison, clade membership,
pairwise and matrix distance calculation, hierarchical clustering,
principal coordinates analysis, and cache management. Distance matrices are
returned as base R 'dist' objects. The distances represent classification
depth rather than evolutionary time or phylogenetic branch length.
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between taxodist versions 0.5.0 dated 2026-06-02 and 0.6.0 dated 2026-08-19
taxodist-0.5.0/taxodist/README.md |only taxodist-0.6.0/taxodist/DESCRIPTION | 29 taxodist-0.6.0/taxodist/MD5 | 70 taxodist-0.6.0/taxodist/NEWS.md | 41 taxodist-0.6.0/taxodist/R/data.R | 29 taxodist-0.6.0/taxodist/R/distance.R | 119 + taxodist-0.6.0/taxodist/R/fetch.R | 47 taxodist-0.6.0/taxodist/R/taxodist-package.R | 25 taxodist-0.6.0/taxodist/R/utils.R | 61 taxodist-0.6.0/taxodist/build/vignette.rds |binary taxodist-0.6.0/taxodist/data/taxobase.rda |binary taxodist-0.6.0/taxodist/inst/CITATION |only taxodist-0.6.0/taxodist/inst/doc/introduction.R | 342 ++-- taxodist-0.6.0/taxodist/inst/doc/introduction.Rmd | 623 +++++--- taxodist-0.6.0/taxodist/inst/doc/introduction.html | 723 ++++++---- taxodist-0.6.0/taxodist/inst/doc/methodological-notes.R |only taxodist-0.6.0/taxodist/inst/doc/methodological-notes.Rmd |only taxodist-0.6.0/taxodist/inst/doc/methodological-notes.html |only taxodist-0.6.0/taxodist/inst/doc/statistical-applications.R | 332 ++-- taxodist-0.6.0/taxodist/inst/doc/statistical-applications.Rmd | 583 ++++---- taxodist-0.6.0/taxodist/inst/doc/statistical-applications.html | 713 ++++++--- taxodist-0.6.0/taxodist/man/closest_relative.Rd | 7 taxodist-0.6.0/taxodist/man/distance_matrix.Rd | 3 taxodist-0.6.0/taxodist/man/figures |only taxodist-0.6.0/taxodist/man/focal_distances.Rd | 3 taxodist-0.6.0/taxodist/man/get_lineage_by_id.Rd | 9 taxodist-0.6.0/taxodist/man/is_member.Rd | 5 taxodist-0.6.0/taxodist/man/load_cache.Rd | 3 taxodist-0.6.0/taxodist/man/taxo_cluster.Rd | 2 taxodist-0.6.0/taxodist/man/taxo_distance.Rd | 21 taxodist-0.6.0/taxodist/man/taxo_heatmap.Rd | 1 taxodist-0.6.0/taxodist/man/taxo_ordinate.Rd | 2 taxodist-0.6.0/taxodist/man/taxo_path.Rd | 3 taxodist-0.6.0/taxodist/man/taxobase.Rd | 29 taxodist-0.6.0/taxodist/man/taxodist-package.Rd | 25 taxodist-0.6.0/taxodist/tests/testthat/test-distance.R | 643 ++++++-- taxodist-0.6.0/taxodist/vignettes/introduction.Rmd | 623 +++++--- taxodist-0.6.0/taxodist/vignettes/methodological-notes.Rmd |only taxodist-0.6.0/taxodist/vignettes/statistical-applications.Rmd | 583 ++++---- 39 files changed, 3630 insertions(+), 2069 deletions(-)
Title: Test Robustness with Directed Acyclic Graphs
Description: Provides robustness checks to align estimands with the identification
that they require. Given a 'dagitty' object and a model specification,
'DAGassist' classifies variables by causal roles, recovers a target estimand,
and generates a report comparing the original model with DAG-derived
adjustment sets. Exports publication-grade reports in 'LaTeX', 'Word', 'Excel',
'dotwhisker', or plain text/'markdown'. 'DAGassist' is built on 'dagitty', an
'R' package that uses the 'DAGitty' web tool (<https://dagitty.net/>) for
creating and analyzing DAGs. Methods draw on Pearl (2009) <doi:10.1017/CBO9780511803161>
and Textor et al. (2016) <doi:10.1093/ije/dyw341>.
Author: Graham Goff [aut, cre] ,
Michael Denly [aut]
Maintainer: Graham Goff <goffgrahamc@gmail.com>
Diff between DAGassist versions 0.2.8 dated 2026-02-20 and 0.3.0 dated 2026-08-19
DESCRIPTION | 20 - MD5 | 62 +-- NAMESPACE | 7 NEWS.md | 19 R/add_edges.R |only R/assist.R | 108 ++++- R/assist_helpers.R | 295 +++++++-------- R/balance.R |only R/balance_models.R |only R/export_helpers.R | 40 ++ R/pdag.R |only R/report_excel.R | 6 R/report_latex.R | 62 +++ R/report_text.R | 13 R/report_word.R | 14 R/seqg.R | 50 +- R/weights.R | 139 ++----- README.md | 88 ++-- build/vignette.rds |binary inst/doc/DAGassist.R | 98 +++-- inst/doc/DAGassist.Rmd | 164 ++++++-- inst/doc/DAGassist.html | 630 ++++++++++++++++++++++++++++----- inst/doc/compatibility.Rmd | 2 inst/doc/compatibility.html | 4 man/DAGassist.Rd | 41 +- man/add_edges_robustness.Rd |only man/balance_models.Rd |only man/glance_custom.fixest.Rd |only man/pdag_robustness.Rd |only man/print.DAGassist_addedge_summary.Rd |only man/print.DAGassist_pdag_summary.Rd |only tests/testthat/helper-assist.R | 27 + tests/testthat/test-add-edges.R |only tests/testthat/test-balance.R |only tests/testthat/test-estimand.R |only tests/testthat/test-pdag.R |only vignettes/DAGassist.Rmd | 164 ++++++-- vignettes/compatibility.Rmd | 2 vignettes/references.bib | 17 39 files changed, 1502 insertions(+), 570 deletions(-)
Title: Download Rainfall, Temperature, and Wind Data from Brazil
Description: Provides functions to download and import meteorological
data from Brazil's National Institute of Meteorology (INMET)
<https://portal.inmet.gov.br>.
Author: Kaio Barbara [aut, cre, cph]
Maintainer: Kaio Barbara <kaio.rbarbara@ufpe.br>
Diff between climateBR versions 0.1.0 dated 2026-08-07 and 0.2.0 dated 2026-08-19
climateBR-0.1.0/climateBR/inst/doc/inmet-download.R |only climateBR-0.1.0/climateBR/inst/doc/inmet-download.Rmd |only climateBR-0.1.0/climateBR/inst/doc/inmet-download.html |only climateBR-0.1.0/climateBR/inst/doc/inmet-kriging.R |only climateBR-0.1.0/climateBR/inst/doc/inmet-kriging.Rmd |only climateBR-0.1.0/climateBR/inst/doc/inmet-kriging.html |only climateBR-0.1.0/climateBR/vignettes/inmet-download.Rmd |only climateBR-0.1.0/climateBR/vignettes/inmet-kriging.Rmd |only climateBR-0.2.0/climateBR/DESCRIPTION | 20 +- climateBR-0.2.0/climateBR/MD5 | 59 +++--- climateBR-0.2.0/climateBR/NAMESPACE | 3 climateBR-0.2.0/climateBR/NEWS.md | 35 +++ climateBR-0.2.0/climateBR/R/build_inmet_dataset.R | 94 +++++++-- climateBR-0.2.0/climateBR/R/download_inmet.R | 35 ++- climateBR-0.2.0/climateBR/R/floods_rs.R | 5 climateBR-0.2.0/climateBR/R/inmet_stations.R |only climateBR-0.2.0/climateBR/R/mun_stations.R |only climateBR-0.2.0/climateBR/R/municipality.R |only climateBR-0.2.0/climateBR/R/nearest_stations.R |only climateBR-0.2.0/climateBR/R/read_inmet.R | 2 climateBR-0.2.0/climateBR/README.md | 151 +++++++++++++++- climateBR-0.2.0/climateBR/build/vignette.rds |binary climateBR-0.2.0/climateBR/data/floods_rs.rda |binary climateBR-0.2.0/climateBR/data/inmet_stations.rda |only climateBR-0.2.0/climateBR/data/mun_stations.rda |only climateBR-0.2.0/climateBR/data/municipality.rda |only climateBR-0.2.0/climateBR/inst/doc/introduction.R |only climateBR-0.2.0/climateBR/inst/doc/introduction.Rmd |only climateBR-0.2.0/climateBR/inst/doc/introduction.html |only climateBR-0.2.0/climateBR/inst/doc/kriging.R |only climateBR-0.2.0/climateBR/inst/doc/kriging.Rmd |only climateBR-0.2.0/climateBR/inst/doc/kriging.html |only climateBR-0.2.0/climateBR/inst/doc/nearest_station.R |only climateBR-0.2.0/climateBR/inst/doc/nearest_station.Rmd |only climateBR-0.2.0/climateBR/inst/doc/nearest_station.html |only climateBR-0.2.0/climateBR/man/build_inmet_dataset.Rd | 21 ++ climateBR-0.2.0/climateBR/man/download_inmet.Rd | 6 climateBR-0.2.0/climateBR/man/floods_rs.Rd | 5 climateBR-0.2.0/climateBR/man/inmet_stations.Rd |only climateBR-0.2.0/climateBR/man/mun_stations.Rd |only climateBR-0.2.0/climateBR/man/municipality.Rd |only climateBR-0.2.0/climateBR/man/nearest_stations.Rd |only climateBR-0.2.0/climateBR/man/read_inmet.Rd | 2 climateBR-0.2.0/climateBR/vignettes/introduction.Rmd |only climateBR-0.2.0/climateBR/vignettes/kriging.Rmd |only climateBR-0.2.0/climateBR/vignettes/nearest_station.Rmd |only 46 files changed, 364 insertions(+), 74 deletions(-)
Title: Plot and Manipulate Multigraphs
Description: Functions to plot and manipulate multigraphs, signed and valued graphs, bipartite graphs, multilevel graphs, and Cayley colour graphs with various layout options.
Author: Antonio Rivero Ostoic [aut, cre]
Maintainer: Antonio Rivero Ostoic <multiplex@post.com>
Diff between multigraph versions 0.99-3 dated 2024-05-14 and 1.0 dated 2026-08-19
DESCRIPTION | 13 MD5 | 80 +- R/bmgraph.R | 294 ++++++---- R/bzrc.R | 2 R/ccbnd.R | 2 R/ccgraph.R | 538 +++++++++++++++--- R/conc.R | 71 +- R/frcd.R | 39 + R/hc.R | 18 R/lz.R | 2 R/mbnd.R | 79 +- R/mlgraph.R | 1231 +++++++++++++++++++++++++++--------------- R/multigraph.R | 1323 ++++++++++++++++++++++++++++++++-------------- R/nrm.R | 2 R/popl.R | 2 R/rng.R | 2 R/sts.R | 2 R/stsm.R | 13 R/xyrt.R | 2 R/xyrtb.R | 2 inst/CITATION | 2 inst/extdata |only man/bmgraph.Rd | 281 +++------ man/bzrc.Rd | 1 man/ccbnd.Rd | 1 man/ccgraph.Rd | 258 ++------ man/conc.Rd | 77 -- man/extdata.Rd |only man/frcd.Rd | 56 - man/hc.Rd | 2 man/mbnd.Rd | 2 man/mlgraph.Rd | 316 +++------- man/multigraph-package.Rd | 51 - man/multigraph.Rd | 368 ++++-------- man/nrm.Rd | 3 man/popl.Rd | 3 man/rng.Rd | 3 man/stsm.Rd | 65 -- man/xyrt.Rd | 3 man/xyrtb.Rd | 3 40 files changed, 3048 insertions(+), 2164 deletions(-)
Title: Guarded Resampling Workflows for Safe and Automated Machine
Learning in R
Description: Provides a guarded resampling workflow for training and evaluating machine-learning models.
When the guarded resampling path is used, preprocessing and model fitting are re-estimated within
each resampling split to reduce leakage risk. Supports multiple resampling schemes, integrates
with established engines in the 'tidymodels' ecosystem, and aims to improve evaluation reliability by
coordinating preprocessing, fitting, and evaluation within supported workflows. Offers a lightweight
AutoML-style workflow by automating model training, resampling, and tuning across multiple algorithms,
while keeping evaluation design explicit and user-controlled.
Author: Selcuk Korkmaz [aut, cre] ,
Dincer Goksuluk [aut] ,
Eda Karaismailoglu [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between fastml versions 0.7.8 dated 2026-03-17 and 0.7.9 dated 2026-08-19
DESCRIPTION | 6 MD5 | 43 +++--- NEWS.md | 27 ++++ R/engine_helpers.R | 36 +++++ R/explain_ale.R | 12 + R/explain_stability.R | 12 + R/fastml.R | 32 ++++ R/interaction_strength.R | 12 + R/native_survival_utils.R | 37 +++++ R/parallel_utils.R | 17 ++ R/plot_ice.R | 12 + R/process_model.R | 207 ++++++++++++++++++++++---------- R/security_guards.R | 29 +++- R/surrogate_tree.R | 12 + R/train_models.R | 63 ++++++++- R/xgboost_survival.R | 4 man/fastml.Rd | 14 ++ man/train_models.Rd | 11 + tests/testthat/Rplots.pdf |only tests/testthat/test-engine-args-merge.R |only tests/testthat/test-fastml.R | 6 tests/testthat/test-parallel-setup.R |only tests/testthat/test-process-model.R |only tests/testthat/test-resampling.R | 2 tests/testthat/test-security-guards.R |only 25 files changed, 475 insertions(+), 119 deletions(-)
Title: Transform Models into 'LaTeX' Equations
Description: The goal of 'equatiomatic' is to reduce the pain
associated with writing 'LaTeX' formulas from fitted models. The
primary function of the package, extract_eq(), takes a fitted model
object as its input and returns the corresponding 'LaTeX' code for the
model.
Author: Daniel Anderson [aut] ,
Andrew Heiss [aut] ,
Jay Sumners [aut],
Joshua Rosenberg [ctb] ,
Jonathan Sidi [ctb] ,
Ellis Hughes [ctb] ,
Thomas Fung [ctb] ,
Reza Norouzian [ctb] ,
Indrajeet Patil [ctb] ,
Quinn White [ctb] ,
David Kane [ctb],
Philippe Gros [...truncated...]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between equatiomatic versions 0.4.8 dated 2026-04-10 and 0.4.9 dated 2026-08-19
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ inst/WORDLIST | 1 + inst/doc/plotting-integration.html | 10 +++++----- inst/doc/tests_and_coverage.html | 2 +- tests/testthat/test-lmerMod.R | 4 ++-- 7 files changed, 22 insertions(+), 17 deletions(-)
Title: 'Shiny' GUI for the 'biocharkit' Biochar Analysis Toolkit
Description: A point-and-click 'Shiny' interface to the 'biocharkit' package.
Lets a user upload Excel workbooks of biochar characterisation and batch
adsorption data, map spreadsheet columns to the required variables via
dropdown menus, and run sample-ID parsing, adsorption capacity and
removal efficiency calculations, isotherm fitting (Langmuir, Freundlich,
Temkin, Dubinin-Radushkevich, Sips), kinetics fitting (pseudo-first/
second-order, Elovich, intraparticle diffusion), van't Hoff
thermodynamics, batch fitting across many samples at once, FTIR
baseline correction, automatic peak picking and functional-group
analysis, XRD peak deconvolution and crystallinity index, BET surface
area, TGA analysis (DTG curve with auto-detected decomposition peaks,
moisture/volatile-matter/ash/fixed-carbon straight off a curve for a
single sample or in batch across many, and Kissinger non-isothermal
kinetics from multi-heating-rate data), proximate/ultimate analysis,
and correlation matrices, without writing any R [...truncated...]
Author: Sukamal Sarkar [aut, cre]
Maintainer: Sukamal Sarkar <sukamal.sarkar@gm.rkmvu.ac.in>
Diff between biocharkitgui versions 0.3.0 dated 2026-07-30 and 0.3.1 dated 2026-08-19
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 18 ++++++++++++++++++ R/report.R | 13 +++++++++++++ 4 files changed, 37 insertions(+), 6 deletions(-)
Title: Declarative Recipes for Staged Survey Weighting with
Recipe-Aware Replicate Variances
Description: Builds survey analysis weights by declaring the whole weighting
process as an ordered recipe of explicit adjustments and estimating it in a
single call. The recipe follows the stages of a real household survey:
redistribution of unresolved eligibility, within-household selection,
nonresponse adjustment by weighting classes, by response-propensity models
(logistic regression or machine-learning learners such as trees, random
forests and gradient boosting, with optional cross-fitting) or by two-phase
calibration for nonresponse, calibration to known population totals
following Deville and Sarndal (1992)
<doi:10.2307/2290268>, optional model-assisted (model) calibration to
auxiliary predictions following Wu and Sitter (2001)
<doi:10.1198/016214501750333054>, and range-restricted
trimming that bounds the weights while preserving the calibration totals.
Variances come from a recipe-aware bootstrap and jackknife that resample or
delete primary sampling units and re-apply the enti [...truncated...]
Author: Juan Pablo Ferreira [aut, cre] ,
Andres Gutierrez [aut]
Maintainer: Juan Pablo Ferreira <juanpablo.ferreira@fcea.edu.uy>
Diff between weightflow versions 1.0.0 dated 2026-08-04 and 1.1.0 dated 2026-08-19
DESCRIPTION | 62 MD5 | 180 +- NAMESPACE | 3 NEWS.md | 21 R/adjust-calibrate.R |only R/adjust-ml.R |only R/adjust-poststrata.R |only R/adjust-solve.R |only R/adjust-trim.R |only R/adjustments.R | 1558 ++------------------- R/collect-propensities.R |only R/collect-step-detail.R |only R/data.R | 39 R/domain-summary.R |only R/plots.R | 20 R/prep.R | 221 ++ R/print.R | 8 R/r-indicators.R | 36 R/report-assets.R |only R/report-cards.R |only R/report-helpers.R |only R/report-narrative.R |only R/report.R | 1188 ++-------------- R/spec-steps-calibrate.R |only R/spec-steps-cascade.R |only R/spec-steps-final.R |only R/spec.R | 1096 -------------- R/variance.R | 307 +++- R/weightflow-concepts.R |only R/weightflow-package.R | 12 README.md | 138 + build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST | 26 inst/doc/advanced-methods.html | 52 inst/doc/model-calibration.html | 4 inst/doc/nonresponse-propensities.html | 4 inst/doc/preparing-the-sample.html | 70 inst/doc/quality-report.R | 6 inst/doc/quality-report.Rmd | 6 inst/doc/quality-report.html | 196 +- inst/doc/quickstart.html | 6 inst/doc/trimming.R |only inst/doc/trimming.Rmd |only inst/doc/trimming.html |only inst/doc/validation-against-survey.html | 10 inst/doc/variance-estimation.html | 811 ++++++++++ inst/doc/weightflow.html | 14 man/as_svydesign.Rd | 22 man/bootstrap_estimate.Rd | 14 man/bootstrap_weights.Rd | 13 man/collect_propensities.Rd |only man/collect_replicate_weights.Rd | 23 man/collect_step_detail.Rd |only man/collect_weights.Rd | 5 man/design_effect.Rd | 23 man/domain_summary.Rd |only man/jackknife_estimate.Rd | 24 man/jackknife_weights.Rd | 10 man/plot.prepped_weighting_spec.Rd | 6 man/population.Rd | 12 man/prep.Rd | 7 man/print.weightflow_boot.Rd |only man/print.weightflow_jack.Rd |only man/report_weighting.Rd | 24 man/sample_one.Rd | 15 man/sample_survey.Rd | 12 man/step_assert.Rd | 11 man/step_calibrate.Rd | 27 man/step_drop_ineligible.Rd | 10 man/step_model_calibration.Rd | 35 man/step_nonresponse.Rd | 74 man/step_rescale.Rd | 9 man/step_round.Rd | 10 man/step_select_within.Rd | 22 man/step_trim.Rd | 14 man/step_trim_calibrated.Rd | 55 man/step_trim_weights.Rd | 18 man/step_unknown_eligibility.Rd | 16 man/summary.prepped_weighting_spec.Rd | 6 man/weight_factors.Rd | 6 man/weightflow-concepts.Rd |only man/weightflow-package.Rd | 22 man/weighting_spec.Rd | 6 man/y_model.Rd | 9 tests/testthat/test-blindaje-africa-europa.R |only tests/testthat/test-blindaje-datos-feos.R |only tests/testthat/test-blindaje-errors.R |only tests/testthat/test-blindaje-establecimientos.R |only tests/testthat/test-blindaje-haven.R |only tests/testthat/test-blindaje-iterative.R |only tests/testthat/test-blindaje-metodologias-nso.R |only tests/testthat/test-blindaje-practica.R |only tests/testthat/test-blindaje-properties.R |only tests/testthat/test-blindaje-report-safety.R |only tests/testthat/test-blindaje-reporte-en.R |only tests/testthat/test-blindaje-upm-latam.R |only tests/testthat/test-blindaje-variance-edges.R |only tests/testthat/test-bugfixes-2026-08.R |only tests/testthat/test-calibrate-vs-survey.R | 21 tests/testthat/test-collect-replicate-weights.R |only tests/testthat/test-crossfit-alert.R |only tests/testthat/test-degenerate-data.R |only tests/testthat/test-input-guards.R |only tests/testthat/test-invariants.R | 2 tests/testthat/test-nonresponse-classes-collapse.R |only tests/testthat/test-numeric-category-order.R |only tests/testthat/test-trim-by-subgroup.R |only tests/testthat/test-unit-adjust-calibrate.R |only tests/testthat/test-unit-adjust-ml.R |only tests/testthat/test-unit-adjust-poststrata.R |only tests/testthat/test-unit-adjust-solve.R |only tests/testthat/test-unit-adjust-trim.R |only tests/testthat/test-unit-detail-contract.R |only tests/testthat/test-unit-report-helpers.R |only tests/testthat/test-unit-report-narrative.R |only tests/testthat/test-unit-spec-steps.R |only tests/testthat/test-unit-variance.R |only vignettes/quality-report.Rmd | 6 vignettes/trimming.Rmd |only 120 files changed, 2636 insertions(+), 4047 deletions(-)
Title: Sequential Experimental Design via Matching on-the-Fly with
Estimation and Testing
Description: Generates the following sequential two-arm experimental designs:
(1) completely randomized (Bernoulli)
(2) balanced completely randomized
(3) Efron's (1971) Biased Coin
(4) Atkinson's (1982) Covariate-Adjusted Biased Coin
(5) Kapelner and Krieger's (2014) Covariate-Adjusted Matching on the Fly
(6) Kapelner and Krieger's (2021) CARA Matching on the Fly with Differential Covariate Weights
(7) Kapelner and Krieger's (2021) CARA Matching on the Fly with Differential Covariate Weights (Stepwise)
and also provides the following types of inference:
(1) estimation (with both Z-style estimators and OLS estimators),
(2) frequentist testing (via asymptotic distribution results and via employing the nonparameteric randomization test) and
(3) frequentist confidence intervals (only under the superpopulation sampling assumption currently).
Details can be found in Kapelner and Krieger (2021) <doi:10.1111/biom.13561>.
Author: Adam Kapelner [aut, cre],
Abba Krieger [aut]
Maintainer: Adam Kapelner <kapelner@qc.cuny.edu>
This is a re-admission after prior archival of version 0.1.0 dated 2021-06-01
Diff between SeqExpMatch versions 0.1.0 dated 2021-06-01 and 0.1.1 dated 2026-08-19
DESCRIPTION | 31 - MD5 | 19 NEWS.md |only R/SeqExpMatch.R | 40 - R/design.R | 1222 +++++++++++++++++++++++----------------------- R/inference.R | 898 ++++++++++++++++----------------- R/zzz.R | 12 build |only inst |only man/SeqDesign.Rd | 403 +++++++-------- man/SeqDesignInference.Rd | 324 ++++++------ man/SeqExpMatch.Rd | 3 12 files changed, 1471 insertions(+), 1481 deletions(-)
Title: Data Envelopment Analysis for Pollution-Generating Technologies
Description: Nonparametric efficiency analysis for pollution-generating
technologies under the materials-balance principle. Implements the
weak-G-disposability model of Rodseth (2025)
<doi:10.1007/s11123-025-00768-0> and its factorially determined
multi-output representation, the by-production intersection
technology of Murty, Russell and Levkoff (2012)
<doi:10.1016/j.jeem.2012.02.005>, the materials-balance cost model of
Coelli, Lauwers and Van Huylenbroeck (2007)
<doi:10.1007/s11123-007-0052-8> and a weak-disposability reference
model, with an enforced materials-balance identity, a pre-estimation
feasibility audit, metafrontier decompositions, bad-output shadow
prices, marginal abatement cost curves, a cross-axiom comparison
harness, a global Malmquist-Luenberger productivity index and
subsampling inference. Estimators are solved with 'lpSolveAPI'.
Author: Erik Enstad [aut, cre]
Maintainer: Erik Enstad <erik.enstad@nhh.no>
Diff between pgt versions 0.5.0 dated 2026-07-28 and 0.6.1 dated 2026-08-19
DESCRIPTION | 6 MD5 | 115 ++- NEWS.md | 140 ++++ R/boot.R | 797 ++++++++++++++------------- R/compare_models.R | 422 +++++++------- R/data.R | 87 +++ R/decompose.R | 568 ++++++++++--------- R/lp_solvers.R | 332 +++++++++-- R/mb_check.R | 34 - R/ml_index.R | 614 ++++++++++----------- R/pgt-package.R | 19 R/pgt.R | 245 ++++++-- R/pgt_tech.R | 1064 ++++++++++++++++++++----------------- R/shadow_prices.R | 101 ++- README.md | 353 ++++++------ data/uscoal.rda |only inst/REFERENCES.bib | 2 inst/doc/comparing-axioms.Rmd | 4 inst/doc/comparing-axioms.html | 16 inst/doc/introduction.Rmd | 46 - inst/doc/introduction.html | 72 +- inst/doc/models.Rmd | 148 +++-- inst/doc/models.html | 143 +++- inst/doc/multiple-pollutants.R | 20 inst/doc/multiple-pollutants.Rmd | 84 ++ inst/doc/multiple-pollutants.html | 120 ++-- inst/doc/productivity.Rmd | 12 inst/doc/productivity.html | 83 +- inst/doc/replication.R | 5 inst/doc/replication.Rmd | 12 inst/doc/replication.html | 37 - inst/simulations/coverage.R | 10 man/boot_pgt.Rd | 29 - man/compare_models.Rd | 28 man/mac_curve.Rd | 15 man/mb_check.Rd | 28 man/pgt-package.Rd | 19 man/pgt.Rd | 124 ++-- man/pgt_decompose.Rd | 92 +-- man/pgt_ml.Rd | 54 + man/pgt_tech.Rd | 89 +-- man/shadow_prices.Rd | 46 - man/uscoal.Rd |only tests/testthat/Rplots.pdf |only tests/testthat/test-boot.R | 17 tests/testthat/test-byprod.R | 6 tests/testthat/test-coefficients.R | 10 tests/testthat/test-decompose.R | 101 ++- tests/testthat/test-mbcost-wd.R | 5 tests/testthat/test-methods.R | 9 tests/testthat/test-open-account.R |only tests/testthat/test-pigfarms.R | 42 + tests/testthat/test-tech.R | 11 tests/testthat/test-uscoal.R |only tests/testthat/test-wgd.R | 186 ++++-- vignettes/comparing-axioms.Rmd | 4 vignettes/introduction.Rmd | 46 - vignettes/models.Rmd | 148 +++-- vignettes/multiple-pollutants.Rmd | 84 ++ vignettes/productivity.Rmd | 12 vignettes/replication.Rmd | 12 61 files changed, 4191 insertions(+), 2737 deletions(-)
Title: Analysis of Metafrontier Models for Efficiency and Productivity
Description: Implements metafrontier production function models for
estimating technical efficiencies and technology gaps for groups of
firms that face different restrictions of a common underlying
metatechnology (group-specific technologies in the sense of Battese,
Rao, and O'Donnell, 2004). Supports both stochastic frontier
analysis (SFA) and data envelopment analysis (DEA) based
metafrontiers. Includes the deterministic metafrontier of Battese,
Rao, and O'Donnell (2004) <doi:10.1023/B:PROD.0000012454.06094.29>,
the stochastic metafrontier of Huang, Huang, and Liu (2014)
<doi:10.1007/s11123-014-0402-2>, and the metafrontier Malmquist
productivity index of O'Donnell, Rao, and Battese (2008)
<doi:10.1007/s00181-007-0119-4>. The deterministic metafrontier can
be identified by either the minimum sum of absolute deviations (LP)
or the minimum sum of squared deviations (QP) criterion. Additional
features include panel SFA with time-varying inefficiency, bootstrap
confidence intervals [...truncated...]
Author: Erik Enstad [aut, cre]
Maintainer: Erik Enstad <erik.enstad@nhh.no>
Diff between metafrontier versions 0.3.0 dated 2026-07-15 and 0.3.1 dated 2026-08-19
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 16 + R/hypothesis_tests.R | 408 ++++++++++++++++++++++++------------------------ R/sfa_estimation.R | 60 +++++-- R/sfa_panel.R | 27 --- man/poolability_test.Rd | 204 ++++++++++++------------ 7 files changed, 389 insertions(+), 344 deletions(-)
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
Author: Chong Gu [aut, cre]
Maintainer: Chong Gu <chong@purdue.edu>
Diff between gss versions 2.2-10 dated 2025-11-19 and 3.0-0 dated 2026-08-19
ChangeLog | 12 +++ DESCRIPTION | 8 +- INDEX | 8 ++ MD5 | 44 ++++++++----- NAMESPACE | 14 +++- R/clone.gssanova.R |only R/clone.ssanova.R |only R/family.R | 159 ++++++++++++++++++++++++++------------------------ R/family.proj.R | 79 +++++++++++------------- R/fitted.R | 1 R/gssanova.R | 60 ++++++++++-------- R/gssanova0.R | 4 - R/gssanova1.R | 2 R/print.R | 12 +++ R/project.gssanova.R | 45 +++++--------- R/project1.gssanova.R |only R/project1.ssanova.R |only R/retroCI.R |only R/ssanova.R | 2 R/ssanova0.R | 2 R/ssanova9.R | 2 R/sscox.R | 2 man/clone.Rd |only man/family.Rd | 2 man/print.Rd | 2 man/project1.Rd |only man/retroCI.Rd |only 27 files changed, 250 insertions(+), 210 deletions(-)