Title: Assertive Programming for R Analysis Pipelines
Description: Provides functionality to assert conditions
that have to be met so that errors in data used in
analysis pipelines can fail quickly. Similar to
'stopifnot()' but more powerful, friendly, and easier
for use in pipelines.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between assertr versions 3.0.1 dated 2023-11-22 and 3.1.0 dated 2026-11-12
assertr-3.0.1/assertr/man/assertr.Rd |only assertr-3.1.0/assertr/DESCRIPTION | 16 assertr-3.1.0/assertr/MD5 | 56 - assertr-3.1.0/assertr/NEWS | 76 ++ assertr-3.1.0/assertr/R/assertions.R | 94 +- assertr-3.1.0/assertr/R/assertr-package.R | 3 assertr-3.1.0/assertr/R/assertr.R | 6 assertr-3.1.0/assertr/R/errors.R | 24 assertr-3.1.0/assertr/R/predicates.R | 32 assertr-3.1.0/assertr/R/row-redux.R | 31 assertr-3.1.0/assertr/R/utils.R | 48 - assertr-3.1.0/assertr/README.md | 42 - assertr-3.1.0/assertr/build/vignette.rds |binary assertr-3.1.0/assertr/inst/doc/assertr.R | 2 assertr-3.1.0/assertr/inst/doc/assertr.Rmd | 9 assertr-3.1.0/assertr/inst/doc/assertr.html | 521 +++++++-------- assertr-3.1.0/assertr/man/assertr-package.Rd |only assertr-3.1.0/assertr/man/col_concat.Rd | 11 assertr-3.1.0/assertr/man/generate_id.Rd | 2 assertr-3.1.0/assertr/man/has_all_names.Rd | 7 assertr-3.1.0/assertr/man/has_class.Rd | 6 assertr-3.1.0/assertr/man/has_only_names.Rd | 7 assertr-3.1.0/assertr/man/is_uniq.Rd | 10 assertr-3.1.0/assertr/man/success_and_error_functions.Rd | 4 assertr-3.1.0/assertr/man/verify.Rd | 6 assertr-3.1.0/assertr/tests/testthat/test-assertions.R | 352 ++++++++++ assertr-3.1.0/assertr/tests/testthat/test-predicates.R | 57 + assertr-3.1.0/assertr/tests/testthat/test-row-redux.R | 121 +++ assertr-3.1.0/assertr/tests/testthat/test-utils.R | 48 + assertr-3.1.0/assertr/vignettes/assertr.Rmd | 9 30 files changed, 1205 insertions(+), 395 deletions(-)
Title: Superpixels of Spatial Data
Description: Creates superpixels based on input spatial data.
This package works on spatial data with one variable (e.g., continuous raster), many variables (e.g., RGB rasters), and spatial patterns (e.g., areas in categorical rasters).
It is based on the SLIC algorithm (Achanta et al. (2012) <doi:10.1109/TPAMI.2012.120>), and readapts it to work with arbitrary dissimilarity measures.
Author: Jakub Nowosad [aut, cre] ,
Pascal Mettes [ctb] ,
Lucas De Oto [ctb]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between supercells versions 1.0.0 dated 2024-02-11 and 2.0.1 dated 2026-11-12
supercells-1.0.0/supercells/src/dtw |only supercells-1.0.0/supercells/src/slic.h |only supercells-1.0.0/supercells/tests/testthat/test-supercells-chunks.R |only supercells-1.0.0/supercells/tests/testthat/test-supercells-custom-centers.R |only supercells-1.0.0/supercells/tests/testthat/test-supercells-iter0.R |only supercells-1.0.0/supercells/tests/testthat/test-supercells-v1.R |only supercells-1.0.0/supercells/tests/testthat/test-supercells-v3.R |only supercells-2.0.1/supercells/DESCRIPTION | 21 supercells-2.0.1/supercells/MD5 | 101 +- supercells-2.0.1/supercells/NAMESPACE | 15 supercells-2.0.1/supercells/NEWS.md | 82 ++ supercells-2.0.1/supercells/R/cpp11.R | 20 supercells-2.0.1/supercells/R/helpers-chunks.R |only supercells-2.0.1/supercells/R/helpers-general.R |only supercells-2.0.1/supercells/R/helpers-metrics.R |only supercells-2.0.1/supercells/R/helpers-runners.R |only supercells-2.0.1/supercells/R/helpers-sc_slic.R |only supercells-2.0.1/supercells/R/sc_list_distances.R |only supercells-2.0.1/supercells/R/sc_metrics_global.R |only supercells-2.0.1/supercells/R/sc_metrics_pixels.R |only supercells-2.0.1/supercells/R/sc_metrics_supercells.R |only supercells-2.0.1/supercells/R/sc_slic.R |only supercells-2.0.1/supercells/R/sc_slic_convergence.R |only supercells-2.0.1/supercells/R/sc_slic_params.R |only supercells-2.0.1/supercells/R/sc_slic_points.R |only supercells-2.0.1/supercells/R/sc_slic_raster.R |only supercells-2.0.1/supercells/R/sc_tune_compactness.R |only supercells-2.0.1/supercells/R/supercells.R | 361 +++------- supercells-2.0.1/supercells/R/use_adaptive.R |only supercells-2.0.1/supercells/R/use_meters.R |only supercells-2.0.1/supercells/README.md | 70 + supercells-2.0.1/supercells/build/partial.rdb |binary supercells-2.0.1/supercells/inst/refs.bib | 2 supercells-2.0.1/supercells/man/figures/README-unnamed-chunk-2-1.png |binary supercells-2.0.1/supercells/man/figures/README-unnamed-chunk-3-1.png |binary supercells-2.0.1/supercells/man/sc_list_distances.Rd |only supercells-2.0.1/supercells/man/sc_metrics_global.Rd |only supercells-2.0.1/supercells/man/sc_metrics_pixels.Rd |only supercells-2.0.1/supercells/man/sc_metrics_supercells.Rd |only supercells-2.0.1/supercells/man/sc_slic.Rd |only supercells-2.0.1/supercells/man/sc_slic_convergence.Rd |only supercells-2.0.1/supercells/man/sc_slic_get_params.Rd |only supercells-2.0.1/supercells/man/sc_slic_points.Rd |only supercells-2.0.1/supercells/man/sc_slic_raster.Rd |only supercells-2.0.1/supercells/man/sc_slic_set_params.Rd |only supercells-2.0.1/supercells/man/sc_tune_compactness.Rd |only supercells-2.0.1/supercells/man/supercells-package.Rd | 8 supercells-2.0.1/supercells/man/supercells.Rd | 55 + supercells-2.0.1/supercells/man/use_adaptive.Rd |only supercells-2.0.1/supercells/man/use_meters.Rd |only supercells-2.0.1/supercells/src/calc_stats.cpp | 12 supercells-2.0.1/supercells/src/calc_stats.h | 9 supercells-2.0.1/supercells/src/cpp11.cpp | 40 - supercells-2.0.1/supercells/src/create_connectivity.cpp | 155 ++-- supercells-2.0.1/supercells/src/distances.cpp | 138 ++- supercells-2.0.1/supercells/src/distances.h | 28 supercells-2.0.1/supercells/src/generate_superpixels.cpp | 214 ++++- supercells-2.0.1/supercells/src/metrics_global.cpp |only supercells-2.0.1/supercells/src/metrics_helpers.h |only supercells-2.0.1/supercells/src/metrics_local_mean.cpp |only supercells-2.0.1/supercells/src/metrics_pixels.cpp |only supercells-2.0.1/supercells/src/metrics_supercells.cpp |only supercells-2.0.1/supercells/src/private_functions.cpp | 241 +++--- supercells-2.0.1/supercells/src/run_slic.cpp | 110 ++- supercells-2.0.1/supercells/src/slic_core.h |only supercells-2.0.1/supercells/src/writers.cpp | 38 - supercells-2.0.1/supercells/tests/testthat.R | 5 supercells-2.0.1/supercells/tests/testthat/setup.R |only supercells-2.0.1/supercells/tests/testthat/test-sc-create.R |only supercells-2.0.1/supercells/tests/testthat/test-sc-list-distances.R |only supercells-2.0.1/supercells/tests/testthat/test-sc-metrics.R |only supercells-2.0.1/supercells/tests/testthat/test-sc-slic-convergence.R |only supercells-2.0.1/supercells/tests/testthat/test-sc-slic-params.R |only supercells-2.0.1/supercells/tests/testthat/test-sc-tune-compactness.R |only supercells-2.0.1/supercells/tests/testthat/test-supercells-legacy.R |only supercells-2.0.1/supercells/tests/testthat/testdata |only 76 files changed, 1024 insertions(+), 701 deletions(-)
Title: Latent Variable Models
Description: A general implementation of Structural Equation Models
with latent variables (MLE, 2SLS, and composite likelihood
estimators) with both continuous, censored, and ordinal
outcomes (Holst and Budtz-Joergensen (2013) <doi:10.1007/s00180-012-0344-y>).
Mixture latent variable models and non-linear latent variable models
(Holst and Budtz-Joergensen (2020) <doi:10.1093/biostatistics/kxy082>).
The package also provides methods for graph exploration (d-separation,
back-door criterion), simulation of general non-linear latent variable
models, and estimation of influence functions for a broad range of
statistical models.
Author: Klaus K. Holst [aut, cre],
Benedikt Sommer [ctb],
Brice Ozenne [ctb],
Thomas Gerds [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between lava versions 1.10 dated 2026-10-22 and 1.11 dated 2026-11-12
DESCRIPTION | 10 MD5 | 61 ++--- NAMESPACE | 9 NEWS.md | 23 + R/diagtest.R | 4 R/estimate.default.R | 46 +++ R/estimate.list.R | 4 R/estimate_calculus.R | 13 - R/expectation.R | 49 ++-- R/merge.R | 18 + R/mmrm_predict.R |only R/mmrm_tools.R |only R/plot.estimate.R | 24 +- R/sim.default.R | 50 ++++ R/summary.estimate.R | 36 ++- inst/doc/influencefunction.R | 38 +-- inst/doc/influencefunction.html | 374 ++++++++++++++------------------ inst/doc/influencefunction.qmd | 184 +++++++-------- inst/doc/nonlinear.html | 10 inst/doc/partialcorrelation.html | 10 man/complete_visits.Rd |only man/expectation.Rd | 36 ++- man/predict.estimate.mmrm.Rd |only man/sim.default.Rd | 8 man/summary.estimate.Rd | 3 man/vec2sigma.Rd |only tests/testthat/test-estimate-calculus.R | 1 tests/testthat/test-estimate-id.R | 4 tests/testthat/test-expectation.R | 79 ++++++ tests/testthat/test-influence.R | 23 + tests/testthat/test-merge-estimate.R | 18 + tests/testthat/test-mmrm-predict.R |only tests/testthat/test-mmrm.R |only tests/testthat/test-simdef.R | 68 +++++ vignettes/influencefunction.qmd | 184 +++++++-------- 35 files changed, 875 insertions(+), 512 deletions(-)
Title: Helper Functions for Simulation Studies
Description: Calculates performance criteria measures and associated Monte Carlo standard errors for simulation results. Includes functions to help run simulation studies, following a general simulation workflow that closely aligns with the approach described by Morris, White, and Crowther (2019) <DOI:10.1002/sim.8086>. Also includes functions for calculating bootstrap confidence intervals (including normal, basic, studentized, percentile, bias-corrected, and bias-corrected-and-accelerated) with tidy output, as well as for extrapolating confidence interval coverage rates and hypothesis test rejection rates following techniques suggested by Boos and Zhang (2000) <DOI:10.1080/01621459.2000.10474226>.
Author: Megha Joshi [aut, cre] ,
James Pustejovsky [aut]
Maintainer: Megha Joshi <megha.j456@gmail.com>
Diff between simhelpers versions 0.3.1 dated 2025-01-10 and 0.3.2 dated 2026-11-12
DESCRIPTION | 17 MD5 | 93 NAMESPACE | 11 NEWS.md | 12 R/Chen_Pusto.R |only R/bundle_sim.R | 39 R/calc_absolute.R | 2 R/calc_coverage.R | 89 R/calc_rejection.R | 50 R/calc_relative.R | 6 R/evaluate_by_row.R | 57 R/factorial_summary.R |only R/repeat_and_stack.R | 28 build/partial.rdb |binary build/vignette.rds |binary data/Chen_Pusto.rda |only inst/REFERENCES.bib | 13 inst/WORDLIST |only inst/doc/MCSE.R | 6 inst/doc/MCSE.Rmd | 8 inst/doc/MCSE.html | 3585 ++++------------ inst/doc/simulation_workflow.R | 148 inst/doc/simulation_workflow.html | 733 --- inst/doc/visualization.html | 70 man/Chen_Pusto.Rd |only man/Tipton_Pusto.Rd | 16 man/alpha_res.Rd | 6 man/bootstrap_CIs.Rd | 34 man/bootstrap_pvals.Rd | 44 man/bundle_sim.Rd | 23 man/calc_absolute.Rd | 6 man/calc_rejection.Rd | 4 man/calc_relative_var.Rd | 8 man/evaluate_by_row.Rd | 29 man/extrapolate_coverage.Rd | 26 man/extrapolate_rejection.Rd | 20 man/factorial_summary.Rd |only man/figures/logo.png |only man/repeat_and_stack.Rd | 18 man/t_res.Rd | 10 man/welch_res.Rd | 22 tests/testthat/test_bootstrap_CI_extrapolation.R | 112 tests/testthat/test_bootstrap_rejection_extrapolation.R | 223 tests/testthat/test_bundle_sim.R | 105 tests/testthat/test_bundle_sim_with_ebr.R | 40 tests/testthat/test_ebr.R | 62 tests/testthat/test_factorial_summary.R |only tests/testthat/test_perfm_conv.R | 6 tests/testthat/test_perfm_mcse.R | 6 tests/testthat/test_repeat_and_stack.R | 34 tests/testthat/test_tibble.R |only vignettes/MCSE.Rmd | 8 52 files changed, 2314 insertions(+), 3515 deletions(-)
Title: Bayesian Age-at-Maturity Analysis from Increment-Width Growth
Series
Description: Bayesian hierarchical nonlinear mixed-effects analysis for
estimating age at sexual maturity from annual increment-width growth
series. The method estimates age at maturity using tangent-ratio and
jerk approaches, including the hierarchical population-median
tangent-ratio estimate and an analytical posterior crossing ogive
with Bayesian credible intervals and estimated A50. Methodological details and applications are described in
Campana, Smoliński, Morrongiello and Black (2027, in press).
Author: Steven Campana [aut, cre],
Szymon Smolinski [aut],
Bryan Black [aut],
John Morrongiello [aut]
Maintainer: Steven Campana <steven.e.campana@gmail.com>
Diff between IncAAM versions 1.8 dated 2026-10-06 and 1.9 dated 2026-11-12
DESCRIPTION | 16 MD5 | 17 NAMESPACE | 3 NEWS.md |only R/IncAAM.R | 4406 ++++++++++++++++++++++++------------------------------- R/globals.R | 62 R/hierarchical.R |only README.md | 84 - man/IncAAM.Rd | 81 - tests |only 10 files changed, 2103 insertions(+), 2566 deletions(-)
Title: Univariate Analysis of Cluster Trials with Multiple Outcomes
Description: Frequentist statistical inference for cluster randomised trials with
multiple outcomes that controls the family-wise error rate and provides nominal
coverage of confidence sets. A full description of the methods can be found in Watson et al. (2023) <doi:10.1002/sim.9831>.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <s.i.watson@bham.ac.uk>
Diff between crctStepdown versions 0.5.2 dated 2024-02-02 and 0.5.3 dated 2026-11-12
DESCRIPTION | 10 MD5 | 20 NAMESPACE | 30 - R/stepdown.R | 922 ++++++++++++++++++++++----------------------- R/teststats.R | 224 +++++----- man/confint_search.Rd | 134 +++--- man/setParallelCRT.Rd | 42 +- man/simpleLM.Rd | 40 - src/eigenext.h | 13 src/simple_lm.cpp | 2 tests/testthat/test-test.R | 56 +- 11 files changed, 753 insertions(+), 740 deletions(-)
Title: Training Set Determination for Genomic Selection
Description: Finds a training set for genomic selection and the size it needs.
The r-score of Ou and Liao (2019) <doi:10.1007/s00122-019-03387-0> is derived
from Pearson's correlation between the genomic estimated breeding values and the
phenotypic values of the test set. optTrain() searches for a good training set,
and SSDFGS() searches for its size. Eighteen criteria are available to score or
optimize a training set, among them A-, D-, E- and G-optimality, PEVmax, MSPE,
CDmean, CDmax, and genomic relationship criteria (Chen et al. (2024)
<doi:10.1007/s00122-024-04766-y>; Fernandez-Gonzalez et al. (2023)
<doi:10.1007/s00122-023-04265-6>). The computation uses 'Rcpp' and 'RcppEigen',
and independent searches can run on several threads with 'OpenMP'.
Author: Jen-Hsiang Ou [aut, cre] ,
Po-Ya Wu [aut] ,
Chen-Tuo Liao [aut, ths]
Maintainer: Jen-Hsiang Ou <oumark.me@outlook.com>
Diff between TSDFGS versions 2.0 dated 2022-06-07 and 3.0.0 dated 2026-11-12
TSDFGS-2.0/TSDFGS/R/SSDFGS.R |only TSDFGS-2.0/TSDFGS/build |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-archived.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-defunct.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-deprecated.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-experimental.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-maturing.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-questioning.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-stable.svg |only TSDFGS-2.0/TSDFGS/man/figures/lifecycle-superseded.svg |only TSDFGS-2.0/TSDFGS/src/cdscore.cpp |only TSDFGS-2.0/TSDFGS/src/pevscore.cpp |only TSDFGS-2.0/TSDFGS/src/rscore.cpp |only TSDFGS-3.0.0/TSDFGS/DESCRIPTION | 50 - TSDFGS-3.0.0/TSDFGS/MD5 | 89 +- TSDFGS-3.0.0/TSDFGS/NAMESPACE | 43 - TSDFGS-3.0.0/TSDFGS/NEWS.md |only TSDFGS-3.0.0/TSDFGS/R/RcppExports.R | 102 -- TSDFGS-3.0.0/TSDFGS/R/TSDFGS-package.R | 20 TSDFGS-3.0.0/TSDFGS/R/criteria.R |only TSDFGS-3.0.0/TSDFGS/R/data.R | 42 - TSDFGS-3.0.0/TSDFGS/R/optTrain.R | 547 ++------------- TSDFGS-3.0.0/TSDFGS/R/plot-size.R |only TSDFGS-3.0.0/TSDFGS/R/sample-size.R |only TSDFGS-3.0.0/TSDFGS/R/scores.R |only TSDFGS-3.0.0/TSDFGS/R/search.R |only TSDFGS-3.0.0/TSDFGS/README.md | 297 ++++++-- TSDFGS-3.0.0/TSDFGS/man/FGCM.Rd | 56 - TSDFGS-3.0.0/TSDFGS/man/SSDFGS.Rd | 64 - TSDFGS-3.0.0/TSDFGS/man/TSDFGS-package.Rd | 59 - TSDFGS-3.0.0/TSDFGS/man/aopt_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/avg_grm_minmax_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/avg_grm_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/avg_grm_self_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/cd_score.Rd | 55 - TSDFGS-3.0.0/TSDFGS/man/cdmax_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/cdmean2_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/cdmean_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/criteria.Rd |only TSDFGS-3.0.0/TSDFGS/man/dopt_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/eopt_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/figures/speed-50-cores.jpeg |only TSDFGS-3.0.0/TSDFGS/man/geno.Rd | 44 - TSDFGS-3.0.0/TSDFGS/man/gopt_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/gv_average_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/gv_overall_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/mspe_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/nt2r.Rd | 56 - TSDFGS-3.0.0/TSDFGS/man/optTrain.Rd | 117 +-- TSDFGS-3.0.0/TSDFGS/man/pam_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/pev_score.Rd | 55 - TSDFGS-3.0.0/TSDFGS/man/pevmax_score.Rd |only TSDFGS-3.0.0/TSDFGS/man/r_score.Rd | 65 + TSDFGS-3.0.0/TSDFGS/man/subpop.Rd | 44 - TSDFGS-3.0.0/TSDFGS/src/Makevars | 11 TSDFGS-3.0.0/TSDFGS/src/Makevars.win | 11 TSDFGS-3.0.0/TSDFGS/src/RcppExports.cpp | 137 +++ TSDFGS-3.0.0/TSDFGS/src/criteria_v3.cpp |only TSDFGS-3.0.0/TSDFGS/src/engine.cpp |only TSDFGS-3.0.0/TSDFGS/src/linalg.h |only TSDFGS-3.0.0/TSDFGS/src/scores.cpp |only TSDFGS-3.0.0/TSDFGS/src/scores.h |only TSDFGS-3.0.0/TSDFGS/tests |only 63 files changed, 987 insertions(+), 977 deletions(-)
Title: Tidy Data Manipulation on Remote 'H2O' Frames
Description: Provides selection, filtering, mutation, aggregation, joins,
reshaping and window operations on remote 'H2O' frames. Data manipulation
is delegated to 'H2O'; no local table backend is used. Includes an English
tutorial and reproducible examples using Palmer penguin measurements.
Author: Carlos Ortega [aut, cre]
Maintainer: Carlos Ortega <cof@qualityexcellence.es>
Diff between h2oplyr versions 0.2.6 dated 2026-10-15 and 0.3.0 dated 2026-11-12
DESCRIPTION | 6 MD5 | 46 +- NAMESPACE | 3 NEWS.md | 17 R/core.R | 3 R/verbs.R | 6 R/windows.R |only README.md | 23 + inst/doc/h2oplyr-penguins.R | 75 ++++ inst/doc/h2oplyr-penguins.Rmd | 165 ++++++++ inst/doc/h2oplyr-penguins.html | 668 ++++++++++++++++++++++++++++++++++-- inst/examples/examples.R | 3 inst/examples/regressions.R | 3 inst/examples/windows-regressions.R |only inst/extdata/PROVENANCE.md | 5 inst/extdata/windows.csv |only man/desc.Rd | 2 man/h_across.Rd | 2 man/h_lag.Rd | 2 man/h_lead.Rd | 2 man/h_min_rank.Rd |only man/h_mutate.Rd | 5 man/h_mutate_across.Rd | 2 man/h_roll_mean.Rd |only man/h_row_number.Rd |only man/h_transmute.Rd | 2 vignettes/h2oplyr-penguins.Rmd | 165 ++++++++ 27 files changed, 1116 insertions(+), 89 deletions(-)
Title: Error Correction Term Based Support Vector Regression for Time
Series
Description: The cointegration based support vector regression model is a combination of error correction model and support vector regression. This hybrid model allows the researcher to make use of the information extracted by the cointegrating vector as an input in the support vector regression mode. Implements the models with multiple kernel functions (linear, polynomial, radial, sigmoid) for time series forecasting. Includes stationarity tests, Johansen cointegration, and comprehensive model evaluation.
Author: Pankaj Das [aut, cre]
Maintainer: Pankaj Das <pankaj.iasri@gmail.com>
Diff between ECTSVR versions 0.1.0 dated 2023-08-28 and 0.2.0 dated 2026-11-12
ECTSVR-0.1.0/ECTSVR/LICENSE |only ECTSVR-0.1.0/ECTSVR/R/ECTSVR.R |only ECTSVR-0.1.0/ECTSVR/inst/doc/ECTSVR.R |only ECTSVR-0.1.0/ECTSVR/inst/doc/ECTSVR.Rmd |only ECTSVR-0.1.0/ECTSVR/inst/doc/ECTSVR.html |only ECTSVR-0.1.0/ECTSVR/man/ECTSVR.Rd |only ECTSVR-0.1.0/ECTSVR/tests/testthat/test.ECTSVR.R |only ECTSVR-0.1.0/ECTSVR/vignettes/ECTSVR.Rmd |only ECTSVR-0.2.0/ECTSVR/DESCRIPTION | 29 ++++--- ECTSVR-0.2.0/ECTSVR/MD5 | 44 ++++++++---- ECTSVR-0.2.0/ECTSVR/NAMESPACE | 33 ++++++--- ECTSVR-0.2.0/ECTSVR/R/calculate_metrics.R |only ECTSVR-0.2.0/ECTSVR/R/evaluate_models.R |only ECTSVR-0.2.0/ECTSVR/R/plot_comparisons.R |only ECTSVR-0.2.0/ECTSVR/R/prepare_ectsvr_data.R |only ECTSVR-0.2.0/ECTSVR/R/run_ectsvr_analysis.R |only ECTSVR-0.2.0/ECTSVR/R/test_cointegration.R |only ECTSVR-0.2.0/ECTSVR/R/test_stationarity.R |only ECTSVR-0.2.0/ECTSVR/R/train_svr_models.R |only ECTSVR-0.2.0/ECTSVR/build/vignette.rds |binary ECTSVR-0.2.0/ECTSVR/inst/doc/ECTSVR_guide.R |only ECTSVR-0.2.0/ECTSVR/inst/doc/ECTSVR_guide.Rmd |only ECTSVR-0.2.0/ECTSVR/inst/doc/ECTSVR_guide.html |only ECTSVR-0.2.0/ECTSVR/inst/examples |only ECTSVR-0.2.0/ECTSVR/man/calculate_metrics.Rd |only ECTSVR-0.2.0/ECTSVR/man/evaluate_models.Rd |only ECTSVR-0.2.0/ECTSVR/man/plot_comparisons.Rd |only ECTSVR-0.2.0/ECTSVR/man/prepare_ectsvr_data.Rd |only ECTSVR-0.2.0/ECTSVR/man/run_ectsvr_analysis.Rd |only ECTSVR-0.2.0/ECTSVR/man/test_cointegration.Rd |only ECTSVR-0.2.0/ECTSVR/man/test_stationarity.Rd |only ECTSVR-0.2.0/ECTSVR/man/train_svr_models.Rd |only ECTSVR-0.2.0/ECTSVR/tests/testthat.R | 15 ---- ECTSVR-0.2.0/ECTSVR/tests/testthat/test_calculate_metrics.R |only ECTSVR-0.2.0/ECTSVR/tests/testthat/test_cointegration.R |only ECTSVR-0.2.0/ECTSVR/tests/testthat/test_data_preparation.R |only ECTSVR-0.2.0/ECTSVR/tests/testthat/test_evaluate_models.R |only ECTSVR-0.2.0/ECTSVR/tests/testthat/test_integration.R |only ECTSVR-0.2.0/ECTSVR/tests/testthat/test_stationarity.R |only ECTSVR-0.2.0/ECTSVR/tests/testthat/test_svr_models.R |only ECTSVR-0.2.0/ECTSVR/vignettes/ECTSVR_guide.Rmd |only 41 files changed, 73 insertions(+), 48 deletions(-)
Title: Visualization and Polytomous Modeling of Survival and Competing
Risks
Description: A publication-ready toolkit for modern survival and competing risks
analysis with a minimal, formula-based interface. Both nonparametric
estimation and direct polytomous regression of cumulative incidence
functions (CIFs) are supported. The main functions 'cifcurve()', 'cifplot()',
and 'cifpanel()' estimate survival and CIF curves and produce high-quality
graphics with risk tables, censoring and competing-risk marks, and
multi-panel or inset layouts built on 'ggplot2' and 'ggsurvfit'. The modeling
function 'polyreg()' performs direct polytomous regression for coherent joint
modeling of all cause-specific CIFs to estimate risk ratios, odds ratios, or
subdistribution hazard ratios at user-specified time points. The function
'ciftest()' provides log-rank, Gray, robust score, augmented score, and
multiple-direction tests for survival and competing-risk outcomes. All core
functions adopt a formula-and-data syntax and return tidy and extensible
outputs that integrate smoothly with 'modelsumm [...truncated...]
Author: Shiro Tanaka [aut, cre, cph] ,
Shigetaka Kobari [ctb],
Chisato Honda [ctb]
Maintainer: Shiro Tanaka <gestimation@gmail.com>
Diff between cifmodeling versions 1.2.3 dated 2026-11-11 and 1.2.4 dated 2026-11-12
DESCRIPTION | 6 MD5 | 50 - NEWS.md | 578 ++++++++------- build/cifmodeling.pdf |binary build/stage23.rdb |binary inst/doc/v4_examples.R | 14 inst/doc/v4_examples.Rmd | 4 inst/doc/v4_examples.html | 27 inst/doc/v5_gallery.R | 430 +++++------ inst/doc/v5_gallery.Rmd | 98 +- inst/doc/v5_gallery.html | 482 ++++++------- inst/doc/v8_reporting_cif.R | 4 inst/doc/v8_reporting_cif.Rmd | 288 +++---- inst/doc/v8_reporting_cif.html | 392 +++++----- inst/doc/v9_reporting_polyreg.R | 22 inst/doc/v9_reporting_polyreg.Rmd | 274 +++---- inst/doc/v9_reporting_polyreg.html | 916 ++++++------------------- tests/testthat/test-cifcurve-inference.R | 483 ++++++------- tests/testthat/test-cifcurve-weight-presence.R | 184 ++--- tests/testthat/test-cifplot.R | 92 -- tests/testthat/test-release-regressions.R | 399 +++++----- tests/testthat/test-reporting-polyreg.R | 328 ++++---- vignettes/v4_examples.Rmd | 4 vignettes/v5_gallery.Rmd | 98 +- vignettes/v8_reporting_cif.Rmd | 288 +++---- vignettes/v9_reporting_polyreg.Rmd | 274 +++---- 26 files changed, 2623 insertions(+), 3112 deletions(-)
Title: eXtended Empirical Mode Decomposition
Description: Signals are decomposed into oscillatory modes by empirical mode
decomposition and its ensemble, complementary ensemble, complete
ensemble, masked, bivariate and multivariate variants, by variational
mode decomposition and its multivariate and successive variants, and by
local mean decomposition, iterative filtering, time varying filter
empirical mode decomposition and the empirical wavelet transform; the
synchrosqueezed wavelet transform is also provided. Empirical mode
decomposition is due to Huang et al. (1998)
<doi:10.1098/rspa.1998.0193>, its ensemble variant to Wu and Huang (2009)
<doi:10.1142/S1793536909000047> and variational mode decomposition to
Dragomiretskiy and Zosso (2014) <doi:10.1109/TSP.2013.2288675>. The
modes can be described by their instantaneous amplitude and frequency and
their Hilbert spectrum, tested as intrinsic mode functions or against
white noise, selected by energy and compared through orthogonality, mode
splitting, reconstruction quality, [...truncated...]
Author: Alejandro Daniel Verri [aut, cre, cph, trl] ,
G. Rilling [ctb] ,
Marcelo A. Colominas [cph] ,
Pierre Masselot [ctb] ,
Vinicius Rezende Carvalho [ctb, cph] ,
Eduardo Mazoni [cph] ,
Jerome Gilles [ctb, cph] ,
Kathryn Heal [ctb] ,
Emanuele Papini [ctb, [...truncated...]
Maintainer: Alejandro Daniel Verri <averri@fi.uba.ar>
Diff between xemd versions 0.1.6 dated 2026-11-11 and 0.1.7 dated 2026-11-12
xemd-0.1.6/xemd/LICENSE.note |only xemd-0.1.7/xemd/DESCRIPTION | 6 xemd-0.1.7/xemd/MD5 | 207 ++++++++++----------- xemd-0.1.7/xemd/NEWS.md | 4 xemd-0.1.7/xemd/R/alignRealizations.R | 4 xemd-0.1.7/xemd/R/analyzeBands.R | 4 xemd-0.1.7/xemd/R/approximateSpline.R | 6 xemd-0.1.7/xemd/R/assessFractionalNoise.R | 4 xemd-0.1.7/xemd/R/assessIMF.R | 4 xemd-0.1.7/xemd/R/assessWhiteNoise.R | 4 xemd-0.1.7/xemd/R/averageDecompositions.R | 4 xemd-0.1.7/xemd/R/averageFirstMode.R | 4 xemd-0.1.7/xemd/R/buildAnalytic.R | 4 xemd-0.1.7/xemd/R/buildDirections.R | 4 xemd-0.1.7/xemd/R/buildEnvelopes.R | 4 xemd-0.1.7/xemd/R/buildFilterBank.R | 6 xemd-0.1.7/xemd/R/buildHilbertSpectrum.R | 4 xemd-0.1.7/xemd/R/buildLocalLevels.R | 4 xemd-0.1.7/xemd/R/buildVectorEnvelope.R | 4 xemd-0.1.7/xemd/R/checkDecomposition.R | 4 xemd-0.1.7/xemd/R/checkSifting.R | 4 xemd-0.1.7/xemd/R/computeCenter.R | 4 xemd-0.1.7/xemd/R/computeCenterPenalty.R | 4 xemd-0.1.7/xemd/R/computeInstantaneousAttributes.R | 4 xemd-0.1.7/xemd/R/computeMaskAmplitude.R | 4 xemd-0.1.7/xemd/R/computeProjectedMean.R | 4 xemd-0.1.7/xemd/R/decomposeBEMD.R | 4 xemd-0.1.7/xemd/R/decomposeCEEMD.R | 4 xemd-0.1.7/xemd/R/decomposeCEEMDAN.R | 4 xemd-0.1.7/xemd/R/decomposeEEMD.R | 4 xemd-0.1.7/xemd/R/decomposeEMD.R | 4 xemd-0.1.7/xemd/R/decomposeEWT.R | 4 xemd-0.1.7/xemd/R/decomposeGroup.R | 4 xemd-0.1.7/xemd/R/decomposeICEEMDAN.R | 4 xemd-0.1.7/xemd/R/decomposeIF.R | 4 xemd-0.1.7/xemd/R/decomposeIteratedMaskedEMD.R | 4 xemd-0.1.7/xemd/R/decomposeLMD.R | 4 xemd-0.1.7/xemd/R/decomposeMEMD.R | 4 xemd-0.1.7/xemd/R/decomposeMVMD.R | 4 xemd-0.1.7/xemd/R/decomposeMasked.R | 4 xemd-0.1.7/xemd/R/decomposeMaskedEMD.R | 4 xemd-0.1.7/xemd/R/decomposeNAMEMD.R | 4 xemd-0.1.7/xemd/R/decomposeNoise.R | 4 xemd-0.1.7/xemd/R/decomposeSVMD.R | 4 xemd-0.1.7/xemd/R/decomposeScalar.R | 4 xemd-0.1.7/xemd/R/decomposeTSL.R | 4 xemd-0.1.7/xemd/R/decomposeTVFEMD.R | 6 xemd-0.1.7/xemd/R/decomposeVMD.R | 4 xemd-0.1.7/xemd/R/decomposeVector.R | 4 xemd-0.1.7/xemd/R/describeModule.R | 4 xemd-0.1.7/xemd/R/estimateCutoff.R | 6 xemd-0.1.7/xemd/R/estimateMaskFrequency.R | 4 xemd-0.1.7/xemd/R/evaluateMorlet.R | 4 xemd-0.1.7/xemd/R/extendExtrema.R | 5 xemd-0.1.7/xemd/R/extractIMF.R | 4 xemd-0.1.7/xemd/R/extractProduct.R | 4 xemd-0.1.7/xemd/R/extractSSTModes.R | 4 xemd-0.1.7/xemd/R/extractTVFMode.R | 6 xemd-0.1.7/xemd/R/extractVariationalMode.R | 4 xemd-0.1.7/xemd/R/extractVectorIMF.R | 4 xemd-0.1.7/xemd/R/findExtrema.R | 4 xemd-0.1.7/xemd/R/generateNoise.R | 4 xemd-0.1.7/xemd/R/interpolateSpline.R | 5 xemd-0.1.7/xemd/R/invertSST.R | 4 xemd-0.1.7/xemd/R/iterateFluctuationPeriodic.R | 5 xemd-0.1.7/xemd/R/iterateFluctuationZero.R | 5 xemd-0.1.7/xemd/R/listDecompositions.R | 4 xemd-0.1.7/xemd/R/listOperations.R | 4 xemd-0.1.7/xemd/R/measureBandwidth.R | 6 xemd-0.1.7/xemd/R/measureDTW.R | 4 xemd-0.1.7/xemd/R/measureDeviation.R | 4 xemd-0.1.7/xemd/R/measureDispersion.R | 4 xemd-0.1.7/xemd/R/measureFCF.R | 4 xemd-0.1.7/xemd/R/measureModesTSL.R | 4 xemd-0.1.7/xemd/R/measureOrthogonality.R | 4 xemd-0.1.7/xemd/R/measurePMSI.R | 4 xemd-0.1.7/xemd/R/measureQRF.R | 4 xemd-0.1.7/xemd/R/measureRelativeChange.R | 4 xemd-0.1.7/xemd/R/measureSD.R | 4 xemd-0.1.7/xemd/R/measureSweepChange.R | 4 xemd-0.1.7/xemd/R/measureVectorAmplitude.R | 4 xemd-0.1.7/xemd/R/meetsDoubleThreshold.R | 4 xemd-0.1.7/xemd/R/placeKnots.R | 6 xemd-0.1.7/xemd/R/rationalizeStep.R | 4 xemd-0.1.7/xemd/R/realignCutoff.R | 6 xemd-0.1.7/xemd/R/reassignCWT.R | 4 xemd-0.1.7/xemd/R/reconstructTSL.R | 4 xemd-0.1.7/xemd/R/regularizeSeries.R | 4 xemd-0.1.7/xemd/R/resampleFilter.R | 5 xemd-0.1.7/xemd/R/resiftModes.R | 4 xemd-0.1.7/xemd/R/restoreObserved.R | 4 xemd-0.1.7/xemd/R/segmentSpectrum.R | 6 xemd-0.1.7/xemd/R/selectHalfWidth.R | 5 xemd-0.1.7/xemd/R/selectModesEnergy.R | 4 xemd-0.1.7/xemd/R/selectModesTSL.R | 4 xemd-0.1.7/xemd/R/smoothLocalLevels.R | 4 xemd-0.1.7/xemd/R/stepSVMD.R | 4 xemd-0.1.7/xemd/R/sweepVMD.R | 4 xemd-0.1.7/xemd/R/synthesizeBands.R | 5 xemd-0.1.7/xemd/R/traceSSTRidge.R | 4 xemd-0.1.7/xemd/R/transformCWT.R | 4 xemd-0.1.7/xemd/R/transformEWT.R | 6 xemd-0.1.7/xemd/R/transformReflection.R | 4 xemd-0.1.7/xemd/R/transformSST.R | 4 xemd-0.1.7/xemd/R/unwrapPhase.R | 4 105 files changed, 541 insertions(+), 107 deletions(-)
Title: R Interface to the 'Uno' Nonlinear Optimization Solver
Description: Bindings to 'Uno' (Unifying Nonlinear Optimization), a C++ solver
for smooth nonlinearly constrained optimization. 'Uno' unifies Lagrange-Newton
methods, including sequential quadratic programming and interior-point
methods, by decomposing them into interacting building blocks
(constraint-relaxation, inequality-handling, Hessian, and globalization
strategies) that can be freely combined, either through options or through
presets that reproduce established solvers such as 'filterSQP' and 'IPOPT'.
The framework is described in Vanaret and Leyffer (2026)
<doi:10.1007/s12532-026-00310-9>.
Author: Balasubramanian Narasimhan [aut, cre, cph] ,
Charlie Vanaret [aut, cph] ;
designed and implemented Uno),
Alexis Montoison [ctb, cph] and
Fortran interface, MA86 interface),
Joris Gillis [ctb, cph] ),
David Kiessling [ctb, cph] ),
Manuel Schaich [ctb [...truncated...]
Maintainer: Balasubramanian Narasimhan <naras@stanford.edu>
Diff between Uno versions 2.9.2-1 dated 2026-10-30 and 2.9.2-2 dated 2026-11-12
Uno-2.9.2-1/Uno/inst/HiGHS |only Uno-2.9.2-1/Uno/inst/build_highs.sh |only Uno-2.9.2-1/Uno/tools/r_io_probe_fopencookie.c |only Uno-2.9.2-1/Uno/tools/r_io_probe_funopen.c |only Uno-2.9.2-2/Uno/.Rinstignore | 1 Uno-2.9.2-2/Uno/DESCRIPTION | 22 Uno-2.9.2-2/Uno/MD5 | 785 ---------- Uno-2.9.2-2/Uno/NAMESPACE | 6 Uno-2.9.2-2/Uno/NEWS.md | 28 Uno-2.9.2-2/Uno/R/Uno-package.R | 9 Uno-2.9.2-2/Uno/README.md | 22 Uno-2.9.2-2/Uno/cleanup | 4 Uno-2.9.2-2/Uno/configure | 70 Uno-2.9.2-2/Uno/configure.win | 32 Uno-2.9.2-2/Uno/inst/COPYRIGHTS | 81 - Uno-2.9.2-2/Uno/inst/build_uno.sh | 47 Uno-2.9.2-2/Uno/inst/doc/Uno.Rmd | 5 Uno-2.9.2-2/Uno/inst/doc/Uno.html | 7 Uno-2.9.2-2/Uno/inst/uno/CMakeLists.txt | 21 Uno-2.9.2-2/Uno/inst/uno/uno/ingredients/subproblem_solvers/HiGHS/HiGHSCApi.hpp |only Uno-2.9.2-2/Uno/inst/uno/uno/ingredients/subproblem_solvers/HiGHS/HiGHSQuadraticProgram.cpp | 12 Uno-2.9.2-2/Uno/inst/uno/uno/ingredients/subproblem_solvers/HiGHS/HiGHSQuadraticProgram.hpp | 4 Uno-2.9.2-2/Uno/inst/uno/uno/ingredients/subproblem_solvers/HiGHS/HiGHSSolver.cpp | 125 + Uno-2.9.2-2/Uno/inst/uno/uno/ingredients/subproblem_solvers/HiGHS/HiGHSSolver.hpp | 15 Uno-2.9.2-2/Uno/man/Uno-package.Rd | 21 Uno-2.9.2-2/Uno/vignettes/Uno.Rmd | 5 26 files changed, 345 insertions(+), 977 deletions(-)
Title: Download and Read Brazilian Meteorological Data from INMET
Description: Automates the download and processing of historical hourly
weather data from automatic stations of the Brazilian National Institute
of Meteorology (INMET). It provides the official station catalogue with
an offline snapshot and nearest-station search, validated and resumable
downloads that detect updated archives, and a fast parser for the
formatting and encoding inconsistencies of raw CSV files across years. It
returns analysis-ready data frames with standardized column names and UTC
timestamps. It flags implausible values with transparent quality-control
checks, reports data completeness, and builds daily summaries in each
station's local time with explicit rules for incomplete days. Data are
retrieved from <https://portal.inmet.gov.br/dadoshistoricos> and
<https://apitempo.inmet.gov.br/estacoes/T>.
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between rmet versions 0.3.0 dated 2026-10-20 and 0.4.0 dated 2026-11-12
DESCRIPTION | 10 MD5 | 115 ++++-- NAMESPACE | 22 + NEWS.md | 66 +++ R/availability.R |only R/cache.R | 68 ++- R/classes.R |only R/climate.R |only R/completeness.R | 1 R/daily.R | 3 R/data.R | 2 R/derive.R |only R/download.R | 19 - R/et0.R |only R/fill.R |only R/get.R | 2 R/indices.R |only R/interpolate.R |only R/monthly.R |only R/parse.R | 643 ++++++++++++++++++------------------- R/qc.R | 1 R/read.R | 76 ++-- R/rmet-package.R | 11 R/stations.R | 116 +++++- R/validate.R | 17 R/water.R |only README.md | 17 build/vignette.rds |binary data/rmet_example.rda |binary inst/WORDLIST | 50 ++ inst/doc/daily-data.html | 27 - inst/doc/monthly-et0.R |only inst/doc/monthly-et0.Rmd |only inst/doc/monthly-et0.html |only inst/doc/rmet-intro.html | 32 + man/inmet_anomaly.Rd |only man/inmet_availability.Rd |only man/inmet_cache_clear.Rd | 2 man/inmet_cache_dir.Rd |only man/inmet_cache_status.Rd | 5 man/inmet_convert_radiation.Rd |only man/inmet_derive.Rd |only man/inmet_design_et0.Rd |only man/inmet_download.Rd | 5 man/inmet_et0.Rd |only man/inmet_extract.Rd | 2 man/inmet_fill.Rd |only man/inmet_get.Rd | 2 man/inmet_indices.Rd |only man/inmet_interpolate.Rd |only man/inmet_monthly.Rd |only man/inmet_nearest.Rd | 22 - man/inmet_normals.Rd |only man/inmet_pet_thornthwaite.Rd |only man/inmet_read.Rd | 2 man/inmet_spi.Rd |only man/inmet_stations.Rd | 2 man/inmet_stations_within.Rd |only man/inmet_water_balance.Rd |only man/rmet-classes.Rd |only man/rmet-package.Rd | 10 man/rmet_example.Rd | 2 src |only tests/testthat/helper-data.R | 11 tests/testthat/test-availability.R |only tests/testthat/test-cache-dir.R |only tests/testthat/test-classes.R |only tests/testthat/test-climate.R |only tests/testthat/test-derive.R |only tests/testthat/test-edge-cases.R | 2 tests/testthat/test-et0.R |only tests/testthat/test-fill.R |only tests/testthat/test-indices.R |only tests/testthat/test-monthly.R |only tests/testthat/test-parse.R | 103 +++++ tests/testthat/test-read.R | 20 - tests/testthat/test-stations-new.R |only tests/testthat/test-stations.R | 10 tests/testthat/test-water.R |only vignettes/monthly-et0.Rmd |only 80 files changed, 972 insertions(+), 526 deletions(-)
Title: Markdown Parser and Renderer for R Graphics
Description: Provides the mean to parse and render markdown text with grid
along with facilities to define the styling of the text.
Author: Thomas Lin Pedersen [aut, cre] ,
Martin Mitas [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between marquee versions 1.2.1 dated 2025-09-15 and 1.3.0 dated 2026-11-12
DESCRIPTION | 8 MD5 | 81 NAMESPACE | 1 NEWS.md | 41 R/classic_style.R | 10 R/element_marquee.R | 218 + R/geom_marquee.R | 53 R/grob.R | 356 ++ R/guide_marquee.R | 7 R/marquee-package.R | 1 R/parse.R | 6 R/style.R | 4 R/style_set.R | 4 R/zzz.R | 13 README.md | 2 build/vignette.rds |binary inst/doc/marquee.R | 4 inst/doc/marquee.Rmd | 4 inst/doc/marquee.html | 30 man/classic_style.Rd | 4 man/element_marquee.Rd | 16 man/figures/README-unnamed-chunk-2-1.png |binary man/geom_marquee.Rd | 8 man/guide_marquee.Rd | 2 man/marquee-package.Rd | 2 man/marquee_grob.Rd | 22 man/marquee_parse.Rd | 6 man/marquefy_theme.Rd | 2 src/marquee.cpp | 26 src/md4c.c | 161 + src/md4c.h | 14 src/named_entities.h | 4386 +++++++++++++--------------- tests/testthat/_snaps/grob/marquee_grob.png |binary tests/testthat/test-element_marquee.R | 107 tests/testthat/test-entities.R |only tests/testthat/test-geom_marquee.R | 20 tests/testthat/test-grob.R | 38 tests/testthat/test-guide_marquee.R | 37 tests/testthat/test-math.R |only tests/testthat/test-style.R | 12 tests/testthat/test-style_set.R | 10 vignettes/Rlogo.svg |only vignettes/marquee.Rmd | 4 43 files changed, 3343 insertions(+), 2377 deletions(-)
Title: Data Profiling and Quality Measurement
Description: Profiles tabular data and measures its quality. Discovers
structural patterns, implicit types, mixed date formats and reusable
findings about potential data issues; defines quality frameworks with
user-declared dimensions, reusable metrics with explicit granularity and
typed aggregation; keeps versioned histories and detects structural drift;
writes self-contained HyperText Markup Language reports; and produces
editable cleaning plans that apply only the actions the user selects, with
an audit log. The general model follows Batini and Scannapieco (2016)
<doi:10.1007/978-3-319-24106-7>. The package implements version 1.6 of the
data quality management framework for digital government of the Uruguayan
Agency for Electronic Government and Information and Knowledge Society,
AGESIC (2020) <https://www.gub.uy/agencia-gobierno-electronico-sociedad-informacion-conocimiento/comunicacion/publicaciones/marco-trabajo-para-gestion-calidad-datos>;
an optional taxonomy of the fifteen char [...truncated...]
Author: Sebastian Lucas [aut, cre, cph] ,
Robyn Speer [ctb, cph] ),
Nicholas Tierney [ctb, cph] )
Maintainer: Sebastian Lucas <sebalucas@gmail.com>
Diff between lupa versions 0.1.0 dated 2026-11-10 and 0.1.1 dated 2026-11-12
DESCRIPTION | 10 MD5 | 591 NEWS.md | 921 + R/acumuladores-bloques.R | 1423 + R/acumuladores-lsh.R | 4 R/agregacion.R | 217 R/analisis.R | 66 R/aplicabilidad.R | 29 R/ausencia-estructural.R | 47 R/benford.R | 253 R/clave-primaria-dbi.R | 46 R/claves-relaciones.R | 219 R/cobertura-analisis.R | 136 R/coleccion.R | 251 R/columnas.R | 626 R/concentracion.R | 15 R/contratos-medicion.R | 2 R/datos-personales.R | 120 R/dependencias.R | 302 R/deriva-perfil.R | 427 R/duplicados-aproximados.R | 251 R/escalas-variables.R | 50 R/estimaciones-externas.R | 20 R/evaluacion.R | 79 R/faltantes.R | 5 R/fechas.R | 151 R/fuente-bloques-dbi.R | 2282 ++ R/geometrias.R | 124 R/hallazgos.R | 1367 + R/historico.R | 21 R/lupa-package.R | 2 R/marco-calidad.R | 11 R/metodos-perfil.R | 54 R/metricas-catalogo.R | 994 + R/modelo-calidad.R | 144 R/normalizacion.R | 14 R/organizacion.R | 8 R/patrones.R | 11 R/perfilar-dbi.R | 7918 ++++++++-- R/perfilar-por.R | 60 R/perfilar.R | 527 R/pliegue-caja.R | 167 R/profiling-avanzado.R | 104 R/propuesta-modelo.R | 9 R/referencial.R | 89 R/regla-digitos.R | 6 R/relaciones-aritmeticas.R | 1701 ++ R/remediacion.R | 1656 +- R/reparacion-texto.R | 389 R/reportar.R | 135 R/requisitos.R | 57 R/senales-redundantes.R | 32 R/spool-muestra-dbi.R | 1192 + R/sugerir-clave.R | 27 R/tablero-calidad.R | 49 R/tipos.R | 217 R/transliteracion-ascii.R | 74 R/utils.R | 890 + R/validadores.R | 70 README.md | 61 build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/estructura-no-declarada.Rmd | 46 inst/doc/estructura-no-declarada.html | 36 inst/doc/explorar-columnas.Rmd | 204 inst/doc/explorar-columnas.html | 97 inst/doc/leer-un-perfil.Rmd | 226 inst/doc/leer-un-perfil.html | 124 inst/doc/limpiar-con-un-plan.Rmd | 128 inst/doc/limpiar-con-un-plan.html | 72 inst/doc/lupa.Rmd | 97 inst/doc/lupa.html | 61 inst/doc/vacio-por-diseno.Rmd | 161 inst/doc/vacio-por-diseno.html | 98 man/accesores_perfil.Rd | 7 man/agregar.Rd | 4 man/analizar.Rd | 4 man/clasificar_variables.Rd | 4 man/cobertura_analisis.Rd | 13 man/comparar_perfiles.Rd | 16 man/detectar_asociaciones.Rd | 8 man/detectar_dependencias.Rd | 45 man/detectar_duplicados_aproximados.Rd | 23 man/detectar_formatos_fecha.Rd | 4 man/detectar_relaciones.Rd | 16 man/elegir_clave.Rd | 4 man/estimar_costo.Rd | 12 man/evaluar.Rd | 3 man/figures/informe-html.png |only man/figures/logo.png |binary man/inferir_tipo.Rd | 8 man/lupa-package.Rd | 2 man/marco_calidad.Rd | 6 man/modelo_calidad.Rd | 7 man/perfilar.Rd | 272 man/perfilar_dbi.Rd | 460 man/plan_perfilado_dbi.Rd | 99 man/planificar_limpieza.Rd | 93 man/tablero_calidad.Rd | 6 man/validadores_formato.Rd | 6 man/validadores_uy.Rd | 8 tests/testthat/helper-cuenta-sin-valores.R |only tests/testthat/helper-decimal-exacto-lotes.R |only tests/testthat/helper-decimal-exacto-sin-valores.R |only tests/testthat/helper-decimal-exacto-tabla.R |only tests/testthat/helper-decimal-exacto.R |only tests/testthat/helper-mediana-cte-muestra.R |only 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Title: Automatically Fetching References Metadata from Literature
Databases
Description: Provides functions to automatically retrieve and deduplicate reference metadata based on saved search strings. Access to Web of Science and Scopus requires personal API keys, while PubMed can be queried without one. The optional deduplication functionality requires the package 'ASySD' available from <https://github.com/camaradesuk/ASySD>.
Author: Thomas Dumond [cre, aut, cph] ,
Charles Caraguel [ctb] ,
Torben Nielsen [ctb]
Maintainer: Thomas Dumond <thomas.dumond@adelaide.edu.au>
Diff between LitFetchR versions 1.0.0 dated 2026-06-18 and 1.1.0 dated 2026-11-12
DESCRIPTION | 9 MD5 | 78 ++-- NEWS.md | 54 ++ R/auto_LitFetchR_setup.R | 487 ++++++++++++++++--------- R/build_platform_query.R |only R/commit_id_history.R |only R/create_id_history.R | 14 R/create_save_search.R | 371 +++++++++++++------ R/create_search_history.R | 14 R/dedup_refs.R | 307 ++++++++-------- R/extract_pmd_list.R | 490 ++++++++++++------------- R/extract_scp_list.R | 449 +++++++++++------------ R/extract_wos_list.R | 812 +++++++++++++++++++++---------------------- R/history_helpers.R |only R/http_helper.R | 20 - R/manual_fetch.R | 510 ++++++++++++++++++--------- R/read_search_list.R |only R/remove_scheduled_task.R | 78 ++-- R/run_extraction.R |only R/scheduler_helpers.R |only R/write_ris.R |only R/write_run_log.R |only README.md | 68 +++ inst/doc/LitFetchr.R | 34 + inst/doc/LitFetchr.Rmd | 94 +++- inst/doc/LitFetchr.html | 322 ++++++++++------- inst/doc/manual_fetch.R | 62 +-- inst/doc/manual_fetch.Rmd | 179 +++++---- inst/doc/manual_fetch.html | 115 +++--- inst/doc/remove_task.R | 6 inst/doc/remove_task.Rmd | 10 inst/doc/remove_task.html | 12 man/auto_LitFetchR_setup.Rd | 183 +++++---- man/build_platform_query.Rd |only man/create_save_search.Rd | 103 ++--- man/dedup_refs.Rd | 10 man/extract_pmd_list.Rd | 93 ++-- man/extract_scp_list.Rd | 93 ++-- man/extract_wos_list.Rd | 93 ++-- man/manual_fetch.Rd | 139 ++++--- man/read_search_list.Rd |only man/remove_scheduled_task.Rd | 63 +-- vignettes/LitFetchr.Rmd | 94 +++- vignettes/manual_fetch.Rmd | 179 +++++---- vignettes/remove_task.Rmd | 10 45 files changed, 3337 insertions(+), 2318 deletions(-)
Title: Isodar-Adjusted, Abundance-Independent Niche Breadth
Description: Estimates habitat niche breadth corrected for the effects of
abundance, using isodars (the relationships between a species' densities in
pairs of habitats under density-dependent habitat selection). Fits pairwise
and n-dimensional isodars, including data where sites lack some habitats,
and computes the isodar-adjusted inequality (IAI) at any total abundance,
with density-independent and density-dependent niche breadth, bootstrap
confidence intervals and diagnostics. Method described in Granot, Dubiner and
Belmaker (in revision, Ecology Letters).
Author: Itai Granot [aut, cre] ,
Shahar Dubiner [aut] ,
Jonathan Belmaker [aut]
Maintainer: Itai Granot <itai811@gmail.com>
Diff between isoniche versions 1.0.0 dated 2026-08-25 and 1.1.0 dated 2026-11-12
isoniche-1.0.0/isoniche/R/globals.R |only isoniche-1.1.0/isoniche/DESCRIPTION | 60 - isoniche-1.1.0/isoniche/MD5 | 78 + isoniche-1.1.0/isoniche/NAMESPACE | 28 isoniche-1.1.0/isoniche/NEWS.md |only isoniche-1.1.0/isoniche/R/allocation.R |only isoniche-1.1.0/isoniche/R/community.R |only isoniche-1.1.0/isoniche/R/coverage.R |only isoniche-1.1.0/isoniche/R/data.R |only isoniche-1.1.0/isoniche/R/fit_isodars.R | 660 ++++++++------ isoniche-1.1.0/isoniche/R/iai.R | 885 +++++-------------- isoniche-1.1.0/isoniche/R/iai_curve.R |only isoniche-1.1.0/isoniche/R/isoderr.R | 393 +------- isoniche-1.1.0/isoniche/R/isoniche-package.R |only isoniche-1.1.0/isoniche/R/long.R |only isoniche-1.1.0/isoniche/R/niche_breadth.R |only isoniche-1.1.0/isoniche/R/pairwise_niche.R |only isoniche-1.1.0/isoniche/R/simulate_isodars.R | 181 +-- isoniche-1.1.0/isoniche/README.md |only isoniche-1.1.0/isoniche/build |only isoniche-1.1.0/isoniche/data |only isoniche-1.1.0/isoniche/inst |only isoniche-1.1.0/isoniche/man/check_coverage.Rd |only isoniche-1.1.0/isoniche/man/community_to_long.Rd |only isoniche-1.1.0/isoniche/man/fit_isodars.Rd | 235 +++-- isoniche-1.1.0/isoniche/man/group_sites.Rd |only isoniche-1.1.0/isoniche/man/iai.Rd | 158 +-- isoniche-1.1.0/isoniche/man/iai_curve.Rd |only isoniche-1.1.0/isoniche/man/isoderr.Rd | 165 +-- isoniche-1.1.0/isoniche/man/isoniche-package.Rd |only isoniche-1.1.0/isoniche/man/moorea_fish.Rd |only isoniche-1.1.0/isoniche/man/niche_breadth.Rd |only isoniche-1.1.0/isoniche/man/pairwise_niche.Rd |only isoniche-1.1.0/isoniche/man/plot.iai_curve.Rd |only isoniche-1.1.0/isoniche/man/plot.niche_breadth.Rd |only isoniche-1.1.0/isoniche/man/radius_sensitivity.Rd |only isoniche-1.1.0/isoniche/man/simulate_isodars.Rd | 126 +- isoniche-1.1.0/isoniche/man/summary.niche_breadth.Rd |only isoniche-1.1.0/isoniche/tests |only isoniche-1.1.0/isoniche/vignettes |only 40 files changed, 1358 insertions(+), 1611 deletions(-)
More information about googlesecretmanager at CRAN
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Title: VCG Sampling using Energy-Based Covariate Balancing
Description: Provides a principled framework for sampling Virtual Control Group (VCG) using energy distance-based covariate balancing. The package offers visualization tools to assess covariate balance and includes a permutation test to evaluate the statistical significance of observed deviations.
Author: Andreas Schulz [aut, cre] ,
Sanofi [cph, fnd]
Maintainer: Andreas Schulz <andreas.schulz2@sanofi.com>
Diff between eVCGsampler versions 1.2.0 dated 2026-10-15 and 1.2.1 dated 2026-11-12
DESCRIPTION | 6 +++--- MD5 | 32 ++++++++++++++++---------------- R/BestVCGsize.R | 9 +++++---- R/VCG_sampler.R | 20 ++++++++++++++++---- R/combine_data.R | 11 +++++------ R/energy_distance.R | 1 + R/energy_test.R | 16 +++++++++------- R/multiSampler.R | 7 ++++--- R/plot_var.R | 3 ++- R/robust_scale.R | 10 ++++++++++ inst/app/R/R_Functions.R | 6 +++--- inst/app/R/mod_pretest_server.R | 2 +- inst/doc/eVCGsampler_user_guide.html | 16 ++++++++-------- tests/testthat/test-VCG_sampler.R | 27 +++++++++++++++++++++++++++ tests/testthat/test-combine_data.R | 6 ++++++ tests/testthat/test-energy_test.R | 15 +++++++++++++++ tests/testthat/test-plot_var.R | 7 +++++++ 17 files changed, 138 insertions(+), 56 deletions(-)
Title: Dynamic VAR - Based Control Charts for Batch Process Monitoring
Description: A set of control charts for batch processes based on the VAR model. The package contains the implementation of T2.var and W.var control charts based on VAR model coefficients using the couple vectors theory. In each time-instant the VAR coefficients are estimated from a historical in-control dataset and a decision rule is made for online classifying of a new batch data. Those charts allow efficient online monitoring since the very first time-instant. The offline version is available too. In order to evaluate the chart's performance, this package contains functions to generate batch data for offline and online monitoring. See in Danilo Marcondes Filho and Marcio Valk (2020) <doi:10.1016/j.ejor.2019.12.038>.
Author: Marcio Valk [aut],
Danilo Marcondes Filho [aut, cre],
Gabriela Cybis [aut]
Maintainer: Danilo Marcondes Filho <marcondes.filho@ufrgs.br>
This is a re-admission after prior archival of version 0.1.0 dated 2020-06-09
Diff between dvqcc versions 0.1.0 dated 2020-06-09 and 0.1.1 dated 2026-11-12
DESCRIPTION | 9 ++++----- MD5 | 12 ++++++------ NEWS.md | 12 ++++++++++-- R/offlinem.R | 8 ++++---- R/onlinem.R | 2 +- man/offlinem.Rd | 8 ++++---- man/onlinem.Rd | 2 +- 7 files changed, 30 insertions(+), 23 deletions(-)
Title: Disaster Victim Identification
Description: Joint DNA-based disaster victim identification (DVI), as
described in Vigeland and Egeland (2021)
<doi:10.1038/s41598-021-93071-5>. Identification is performed by
optimising the joint likelihood of all victim samples and reference
individuals. Individual identification probabilities, conditional on
all available information, are derived from the joint solution in the
form of posterior pairing probabilities. 'dvir' is part of the
'pedsuite' collection of packages for pedigree analysis.
Author: Magnus Dehli Vigeland [aut, cre] ,
Thore Egeland [aut]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between dvir versions 3.4.2 dated 2026-06-30 and 3.5.1 dated 2026-11-12
dvir-3.4.2/dvir/R/addVictims.R |only dvir-3.4.2/dvir/man/addVictims.Rd |only dvir-3.5.1/dvir/DESCRIPTION | 16 dvir-3.5.1/dvir/MD5 | 91 +-- dvir-3.5.1/dvir/NAMESPACE | 41 + dvir-3.5.1/dvir/NEWS.md | 28 + dvir-3.5.1/dvir/R/amDrivenDVI.R | 18 dvir-3.5.1/dvir/R/buildAM.R |only dvir-3.5.1/dvir/R/data.R | 32 + dvir-3.5.1/dvir/R/dviData.R | 85 ++- dvir-3.5.1/dvir/R/dviGridSize.R | 11 dvir-3.5.1/dvir/R/dviJoint.R | 86 ++- dvir-3.5.1/dvir/R/dviSolve.R | 88 ++- dvir-3.5.1/dvir/R/familias2dvir.R | 189 ++++++- dvir-3.5.1/dvir/R/findExcluded.R | 27 - dvir-3.5.1/dvir/R/findUndisputed.R | 18 dvir-3.5.1/dvir/R/formatSummary.R | 39 - dvir-3.5.1/dvir/R/generatePairings.R | 4 dvir-3.5.1/dvir/R/jointDVI.R | 75 +- dvir-3.5.1/dvir/R/mergePM.R | 493 +++++++++++++++---- dvir-3.5.1/dvir/R/pairwiseGLR.R | 2 dvir-3.5.1/dvir/R/plotUndisputed.R | 10 dvir-3.5.1/dvir/R/relabelDVI.R | 201 ++++--- dvir-3.5.1/dvir/R/setPairing.R | 38 + dvir-3.5.1/dvir/R/setVictims.R |only dvir-3.5.1/dvir/R/utils.R | 4 dvir-3.5.1/dvir/R/writeFamDVI.R |only dvir-3.5.1/dvir/README.md | 86 +-- dvir-3.5.1/dvir/data/heli.rda |only dvir-3.5.1/dvir/man/buildAM.Rd |only dvir-3.5.1/dvir/man/directMatch.Rd | 78 ++- dvir-3.5.1/dvir/man/dviData.Rd | 14 dvir-3.5.1/dvir/man/dviJoint.Rd | 46 + dvir-3.5.1/dvir/man/dviSolve.Rd | 37 - dvir-3.5.1/dvir/man/dvir-package.Rd | 2 dvir-3.5.1/dvir/man/familias2dvir.Rd | 36 - dvir-3.5.1/dvir/man/findUndisputed.Rd | 3 dvir-3.5.1/dvir/man/heli.Rd |only dvir-3.5.1/dvir/man/isComplexDVI.Rd |only dvir-3.5.1/dvir/man/jointDVI.Rd | 58 +- dvir-3.5.1/dvir/man/mergePM.Rd | 82 ++- dvir-3.5.1/dvir/man/plotUndisputed.Rd | 6 dvir-3.5.1/dvir/man/relabelDVI.Rd | 69 +- dvir-3.5.1/dvir/man/setPairing.Rd | 13 dvir-3.5.1/dvir/man/setVictims.Rd |only dvir-3.5.1/dvir/man/writeFamDVI.Rd |only dvir-3.5.1/dvir/tests/testthat/test-data.R | 8 dvir-3.5.1/dvir/tests/testthat/test-directMatch.R |only dvir-3.5.1/dvir/tests/testthat/test-fire-solve.R | 7 dvir-3.5.1/dvir/tests/testthat/test-format-summary.R |only dvir-3.5.1/dvir/tests/testthat/test-joint.R | 26 - dvir-3.5.1/dvir/tests/testthat/test-pairwise.R | 6 dvir-3.5.1/dvir/tests/testthat/test-synthetic.R | 11 53 files changed, 1521 insertions(+), 663 deletions(-)
Title: Power Analysis for Differential Expression Studies
Description: Provides a convenient framework to simulate data, run hypothesis tests,
estimate power, and plot the results for differential expression studies. The
simulation-based framework is described in Klamer and Yu (2026)
<doi:10.1177/11769351261431247>. Outcomes may be lognormal, negative
binomial, or bivariate negative binomial. Supported designs are one-sample,
independent two-sample, and dependent two-sample comparisons. Built-in tests
include t-tests, Wald tests, and likelihood ratio tests. User-defined tests are
also accepted. The significance level can be set to control the per-family error
rate or the family-wise error rate. Negative binomial methods are described
in Yu, Fernandez, and Brock (2017) <doi:10.1186/s12859-017-1648-2>
and Yu, Fernandez, and Brock (2020) <doi:10.1186/s12859-020-3541-7>.
Author: Brett Klamer [aut, cre] ,
Lianbo Yu [aut]
Maintainer: Brett Klamer <code@brettklamer.com>
Diff between depower versions 2026.1.30 dated 2026-01-30 and 2026.11.11 dated 2026-11-12
DESCRIPTION | 26 +++-- MD5 | 69 +++++++------- NAMESPACE | 112 ++++++++++++----------- NEWS.md | 22 ++++ R/depower-package.r | 1 R/lrt_bnb.r | 31 +++--- R/lrt_nb.r | 18 +-- R/mle_bnb.r | 17 +-- R/mle_nb.r | 23 ++-- R/nll_bnb.r | 9 + R/nll_nb.r | 6 - R/plot.r | 10 -- R/power.r | 12 +- R/sim_bnb.r | 2 R/simulated.r | 7 + R/utils.r | 8 + R/wald_test_bnb.r | 65 +++++++------ README.md | 16 ++- build/partial.rdb |binary inst/CITATION | 27 +++++ inst/REFERENCES.bib | 28 ++++- inst/tinytest/test-behavior-randomization_ties.r |only inst/tinytest/test-power.r | 2 inst/tinytest/test-wald_test_bnb.r | 95 ++++++++++++++++++- man/depower-package.Rd | 3 man/distribution.Rd | 7 + man/figures/README-power_bnb-1.png |binary man/lrt_bnb.Rd | 23 ++-- man/mle_bnb.Rd | 9 + man/mle_nb.Rd | 9 - man/nll_bnb.Rd | 9 + man/nll_nb.Rd | 6 - man/plot.depower.Rd | 2 man/power.Rd | 10 -- man/sim_bnb.Rd | 2 man/wald_test_bnb.Rd | 51 ++++++---- 36 files changed, 470 insertions(+), 267 deletions(-)
Title: Exact Date and Duration Arithmetic on an Annual Grid
Description: Standardised mapping of dates onto a discrete annual grid,
together with exact date and duration arithmetic. This matters when
the primary unit is years but the input data uses dates. Examples are
actuarial mortality experience analysis and valuation of life
assurance and annuities, for which mortality rates are defined per
year but experience and valuation data are typically defined using
dates.
Author: Tim Gordon [aut, cre]
Maintainer: Tim Gordon <tim@timgord.com>
Diff between datey versions 0.1.2 dated 2026-09-16 and 0.1.3 dated 2026-11-12
DESCRIPTION | 12 MD5 | 128 +-- NAMESPACE | 3 NEWS.md | 14 R/checks.R | 194 ++-- R/common.R | 430 +++++----- R/constants.R | 9 R/cpp11.R | 8 R/datey-package.R | 52 - R/datey.R | 114 ++ R/datey_interval.R | 936 +++++++++++------------ R/durationy.R | 6 R/is_leap_year.R | 118 +- R/ops.R | 480 +++++------ R/pillar.R | 42 - R/summary.R | 270 +++--- R/zzz.R | 32 README.md | 4 inst/WORDLIST | 33 inst/doc/datey.Rmd | 701 ++++++++--------- inst/doc/spec.Rmd | 565 +++++++------- inst/doc/why-datey.Rmd | 305 +++---- man/NAs.Rd | 74 - man/all_of_time.Rd | 52 - man/anniversary_days.Rd |only man/as_years_datey.Rd | 94 +- man/as_years_durationy.Rd | 86 +- man/combine.Rd | 84 +- man/datey-package.Rd | 76 - man/datey.Rd | 454 +++++------ man/datey_components.Rd | 122 +-- man/datey_interval.Rd | 228 ++--- man/durationy.Rd | 250 +++--- man/figures/logo.svg | 58 - man/integer_constants.Rd | 75 - man/interval_includes.Rd | 106 +- man/interval_nature.Rd | 232 ++--- man/interval_properties.Rd | 80 - man/is_NA.Rd | 172 ++-- man/is_leap_year.Rd | 120 +- man/is_type.Rd | 100 +- man/is_xxx_day.Rd | 87 +- man/max_min.Rd | 88 +- man/mean.Rd | 82 +- man/ops.Rd | 232 ++--- man/replicate.Rd | 72 - man/seq.Rd | 78 - man/subset.Rd | 100 +- man/text_from_datey.Rd | 116 +- man/text_from_datey_interval.Rd | 88 +- man/text_from_durationy.Rd | 134 +-- src/R_datey.cpp | 85 ++ src/S_datey.cpp | 115 ++ src/cpp11.cpp | 16 src/datey.h | 2 tests/testthat/test-common.R | 428 +++++----- tests/testthat/test-datey-anniversary.R |only tests/testthat/test-datey.R | 1282 ++++++++++++++++---------------- tests/testthat/test-datey_interval.R | 398 +++++---- tests/testthat/test-durationy.R | 520 ++++++------ tests/testthat/test-is_leap_year.R | 72 - tests/testthat/test-ops.R | 664 ++++++++-------- tests/testthat/test-pillar.R | 24 vignettes/datey.Rmd | 701 ++++++++--------- vignettes/spec.Rmd | 565 +++++++------- vignettes/why-datey.Rmd | 305 +++---- 66 files changed, 6783 insertions(+), 6390 deletions(-)
Title: Align Regressions with Target Estimands
Description: Provides tools 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. Supports exporting 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 0.3.0 dated 2026-08-19 and 0.3.1 dated 2026-11-12
DESCRIPTION | 13 MD5 | 76 - NEWS.md | 8 R/add_edges.R | 7 R/assist.R | 82 + R/assist_helpers.R | 47 - R/balance_models.R | 9 R/classify.R | 45 - R/compare.R | 28 R/data.R |only R/export_helpers.R | 7 R/pdag.R | 7 R/report_latex.R | 7 R/report_text.R | 15 R/report_word.R | 2 R/seqg.R | 6 R/weights.R | 22 README.md | 266 +++-- build/vignette.rds |binary data |only inst/CITATION |only inst/doc/DAGassist.R | 813 +----------------- inst/doc/DAGassist.Rmd | 954 ++------------------- inst/doc/DAGassist.html | 1958 +++++++++++++++----------------------------- inst/doc/compatibility.Rmd | 2 inst/doc/compatibility.html | 4 man/DAGassist.Rd | 46 - man/add_edges_robustness.Rd | 7 man/art/DAGassist.png |binary man/bad_controls_in.Rd | 19 man/balance_models.Rd | 10 man/classify_nodes.Rd | 3 man/figures/logo.png |binary man/pdag_robustness.Rd | 7 man/toy_dag.Rd |only man/toy_data.Rd |only man/turnout_dag.Rd |only man/turnout_data.Rd |only vignettes/DAGassist.Rmd | 954 ++------------------- vignettes/compatibility.Rmd | 2 vignettes/references.bib | 116 ++ 41 files changed, 1543 insertions(+), 3999 deletions(-)
More information about baggingReserve at CRAN
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Title: Diagnostics and Models for Underdispersed Count Data
Description: Tools for detecting and modeling underdispersion in count data
(conditional variance below the conditional mean), the case the Poisson and
negative binomial defaults cannot represent. Provides a screening diagnostic
that benchmarks at-risk dispersion against a zero-truncated Poisson,
regression-adjusted tests of equidispersion, and a dispersion profile that
compares the variance-to-mean curves of competing families against the data;
the continuous parameter binomial (CPB) and generalized event count (Katz)
regressions with zero-truncated, hurdle, and zero-inflated forms and
high-dimensional fixed effects with a split-panel jackknife bias correction;
matched Poisson, negative binomial, COM-Poisson (rate- and mean-parameterized),
generalized Poisson, gamma-count, double Poisson, hyper-Poisson, and
exponentially weighted Poisson regressions through the same interface, with
frequency weights, offsets, and analytic, robust, and cluster-robust
standard errors; bootstrap and profile-likelihoo [...truncated...]
Author: Benjamin E. Bagozzi [aut, cre]
Maintainer: Benjamin E. Bagozzi <bagozzib@udel.edu>
Diff between underdisp versions 0.2.0 dated 2026-11-04 and 0.2.1 dated 2026-11-12
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 20 ++++++++++++++++++++ R/ud_screen.R | 6 +++--- man/ud_screen.Rd | 6 +++--- tests/testthat/test-newdata-units.R | 3 ++- 6 files changed, 36 insertions(+), 15 deletions(-)
Title: Serology-Based Data Analysis and Visualization
Description: Data wrangling and cleaning, quality control checks and
implementation of machine learning classification algorithm.
Author: Dionne Argyropoulos, PhD [aut, cre] ,
Eamon Conway, PhD [aut],
Caitlin Bourke, PhD [aut],
Connie Li-Wai-Suen, PhD [aut],
Shazia Ruybal-Pesantez, PhD [aut],
Ivo Mueller, PhD [ctb],
Rhea Longley, DPhil [ctb],
Lauren Smith, PhD [aut]
Maintainer: "Dionne Argyropoulos, PhD" <argyropoulos.d@wehi.edu.au>
Diff between SeroTrackR versions 1.1.1 dated 2026-05-27 and 1.1.2 dated 2026-11-12
SeroTrackR-1.1.1/SeroTrackR/man/figures/SeroTrackR_Pk_Pf_Pv.jpg |only SeroTrackR-1.1.1/SeroTrackR/man/figures/SeroTrackR_PvSeroApp.jpg |only SeroTrackR-1.1.1/SeroTrackR/man/figures/SeroTrackR_sticker.jpg |only SeroTrackR-1.1.1/SeroTrackR/man/figures/bioplex_raw.jpg |only SeroTrackR-1.1.1/SeroTrackR/man/figures/logo.jpg |only SeroTrackR-1.1.1/SeroTrackR/man/figures/magpix_raw.jpg |only SeroTrackR-1.1.1/SeroTrackR/man/figures/plate_layout_1.jpg |only SeroTrackR-1.1.2/SeroTrackR/DESCRIPTION | 61 ++++++++-- SeroTrackR-1.1.2/SeroTrackR/MD5 | 58 +++++---- SeroTrackR-1.1.2/SeroTrackR/NEWS.md | 5 SeroTrackR-1.1.2/SeroTrackR/README.md | 44 ++++++- SeroTrackR-1.1.2/SeroTrackR/build/vignette.rds |binary SeroTrackR-1.1.2/SeroTrackR/inst/CITATION |only SeroTrackR-1.1.2/SeroTrackR/inst/doc/Pathogen_Agnostic_Tutorial.R |only SeroTrackR-1.1.2/SeroTrackR/inst/doc/Pathogen_Agnostic_Tutorial.Rmd |only SeroTrackR-1.1.2/SeroTrackR/inst/doc/Pathogen_Agnostic_Tutorial.html |only SeroTrackR-1.1.2/SeroTrackR/inst/doc/Pk_Pv_Pf_Serology_Tutorial.Rmd | 2 SeroTrackR-1.1.2/SeroTrackR/inst/doc/Pk_Pv_Pf_Serology_Tutorial.html | 2 SeroTrackR-1.1.2/SeroTrackR/inst/doc/PvLDH_Tutorial.R | 4 SeroTrackR-1.1.2/SeroTrackR/inst/doc/PvLDH_Tutorial.Rmd | 4 SeroTrackR-1.1.2/SeroTrackR/inst/doc/PvSeroApp_R_Tutorial.R | 8 - SeroTrackR-1.1.2/SeroTrackR/inst/doc/PvSeroApp_R_Tutorial.Rmd | 10 - SeroTrackR-1.1.2/SeroTrackR/inst/doc/PvSeroApp_R_Tutorial.html | 22 +-- SeroTrackR-1.1.2/SeroTrackR/inst/doc/setup.Rmd | 6 SeroTrackR-1.1.2/SeroTrackR/inst/doc/setup.html | 6 SeroTrackR-1.1.2/SeroTrackR/man/SeroTrackR-package.Rd | 18 ++ SeroTrackR-1.1.2/SeroTrackR/man/figures/SeroTrackR_Pk_Pf_Pv.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/SeroTrackR_PvSeroApp.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/SeroTrackR_sticker.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/bioplex_raw.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/logo.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/magpix_raw.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/plate_layout_1.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/plate_layout_2.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/plate_layout_3.png |only SeroTrackR-1.1.2/SeroTrackR/man/figures/plate_layout_4.png |only SeroTrackR-1.1.2/SeroTrackR/vignettes/Pathogen_Agnostic_Tutorial.Rmd |only SeroTrackR-1.1.2/SeroTrackR/vignettes/Pk_Pv_Pf_Serology_Tutorial.Rmd | 2 SeroTrackR-1.1.2/SeroTrackR/vignettes/PvLDH_Tutorial.Rmd | 4 SeroTrackR-1.1.2/SeroTrackR/vignettes/PvSeroApp_R_Tutorial.Rmd | 10 - SeroTrackR-1.1.2/SeroTrackR/vignettes/setup.Rmd | 6 41 files changed, 173 insertions(+), 99 deletions(-)
Title: Extracting a Data Portion
Description: Extracts a portion of the data in vectors, matrices, data frames,
time series, and lists of these objects. The size of the portion is given
relative to the size of the object. The portion can consist of the first,
the last, random, similar, or dissimilar elements, rows, or columns.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between portion versions 0.1.3 dated 2026-06-30 and 0.2.0 dated 2026-11-12
DESCRIPTION | 14 - MD5 | 16 - NAMESPACE | 1 NEWS.md | 10 + R/portion.R | 188 ++++++++++++++++----- README.md | 26 ++- man/portion-package.Rd | 2 man/portion.Rd | 48 ++++- tests/testthat/test-portion.R | 359 ++++++++++++++++++++++++++++++++++++++++++ 9 files changed, 584 insertions(+), 80 deletions(-)
Title: Centering and Scaling of Numeric Data
Description: Centers and scales numeric data in vectors, matrices, data
frames, time series, and lists of these objects. Rows or columns can be
left unchanged or be normalized jointly. The values used for centering and
scaling are returned as attributes.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between normalize versions 0.1.3 dated 2026-07-01 and 0.2.0 dated 2026-11-12
DESCRIPTION | 14 - MD5 | 16 - NAMESPACE | 2 NEWS.md | 12 + R/normalize.R | 413 ++++++++++++++++++++++---------------- README.md | 31 ++ man/normalize-package.Rd | 2 man/normalize.Rd | 66 +++++- tests/testthat/test-normalize.R | 424 +++++++++++++++++++++++++++++++++++++++- 9 files changed, 768 insertions(+), 212 deletions(-)
Title: Maximal Fat Oxidation and Kinetics Calculation
Description: Computes the maximal fat oxidation (MFO), the exercise intensity
that elicits it (Fatmax), the Fatmax zone and the crossover point from
indirect calorimetry data of a graded exercise test. Substrate oxidation is
estimated with the stoichiometric equations of Frayn (1983)
<doi:10.1152/jappl.1983.55.2.628>, Peronnet and Massicotte (1991, Can J
Sport Sci 16(1):23-29) or Jeukendrup and Wallis (2005)
<doi:10.1055/s-2004-830512>, and Fatmax is located with a third- or
second-degree polynomial, the measured values or the MRER method. Fat oxidation kinetics are described with the SIN model of
Cheneviere et al. (2009) <doi:10.1249/MSS.0b013e31819e2f91>, which returns
dilatation, symmetry and translation, together with the intensity at which
fat oxidation becomes negligible (Fatmin). Applications of these methods
are given in Achten et al. (2002) <doi:10.1097/00005768-200201000-00015>
and Montes de Oca et al. (2021) <doi:10.1080/17461391.2020.1788650>.
Author: Jorge R Fernandez-Santos [aut, cre] ,
Jesus G Ponce-Gonzalez [ctb] ,
Cristina Casals [ctb] ,
Jose L Gonzalez-Montesinos [ctb] ,
Juan Corral-Perez [ctb] ,
Alejandro Perez-Bey [ctb]
Maintainer: Jorge R Fernandez-Santos <jorgedelrosario.fernandez@uca.es>
Diff between MFO versions 0.1.0 dated 2022-02-11 and 0.2.1 dated 2026-11-12
MFO-0.1.0/MFO/man/calculate_steps.Rd |only MFO-0.1.0/MFO/man/figures/README-unnamed-chunk-4-1.png |only MFO-0.1.0/MFO/man/figures/README-unnamed-chunk-6-1.png |only MFO-0.1.0/MFO/man/get_5min.Rd |only MFO-0.2.1/MFO/DESCRIPTION | 59 - MFO-0.2.1/MFO/MD5 | 78 + MFO-0.2.1/MFO/NAMESPACE | 10 MFO-0.2.1/MFO/NEWS.md | 267 +++++ MFO-0.2.1/MFO/R/MFO.R | 757 +++++++++++++--- MFO-0.2.1/MFO/R/MFO_df.R | 19 MFO-0.2.1/MFO/R/MFO_kinetics.R | 341 ++++--- MFO-0.2.1/MFO/R/MFOs.R | 387 +++++--- MFO-0.2.1/MFO/R/VO2max_df.R | 20 MFO-0.2.1/MFO/R/basal_df.R | 19 MFO-0.2.1/MFO/R/globals.R | 50 - MFO-0.2.1/MFO/R/utils-sin.R |only MFO-0.2.1/MFO/R/utils-stoichiometry.R |only MFO-0.2.1/MFO/R/utils-vo2max.R |only MFO-0.2.1/MFO/R/utils.R | 737 +++++++++------ MFO-0.2.1/MFO/README.md | 290 ++++-- MFO-0.2.1/MFO/build |only MFO-0.2.1/MFO/data/MFO_df.rda |binary MFO-0.2.1/MFO/data/VO2max_df.rda |binary MFO-0.2.1/MFO/data/basal_df.rda |binary MFO-0.2.1/MFO/inst |only MFO-0.2.1/MFO/man/MFO.Rd | 187 +++ MFO-0.2.1/MFO/man/MFO_df.Rd | 31 MFO-0.2.1/MFO/man/MFO_kinetics.Rd | 102 +- MFO-0.2.1/MFO/man/MFOs.Rd | 172 ++- MFO-0.2.1/MFO/man/VO2max_df.Rd | 32 MFO-0.2.1/MFO/man/basal_df.Rd | 23 MFO-0.2.1/MFO/man/calculate_vars.Rd | 43 MFO-0.2.1/MFO/man/fat_oxidation_MRER.Rd |only MFO-0.2.1/MFO/man/figures/README-mfo-plot-1.png |only MFO-0.2.1/MFO/man/figures/README-sin-plot-1.png |only MFO-0.2.1/MFO/man/met_basal.Rd | 27 MFO-0.2.1/MFO/man/preprocess_bxb.Rd |only MFO-0.2.1/MFO/man/read_MFO_databases.Rd | 21 MFO-0.2.1/MFO/man/substrate_oxidation.Rd |only MFO-0.2.1/MFO/tests/testthat/test-MFO.R | 616 ++++++++++++- MFO-0.2.1/MFO/tests/testthat/test-MFO_kinetics.R | 228 +++- MFO-0.2.1/MFO/tests/testthat/test-MFOs.R |only MFO-0.2.1/MFO/tests/testthat/test-utils-sin.R |only MFO-0.2.1/MFO/tests/testthat/test-utils-stoichiometry.R |only MFO-0.2.1/MFO/tests/testthat/test-utils-vo2max.R |only MFO-0.2.1/MFO/tests/testthat/test-utils.R |only MFO-0.2.1/MFO/vignettes |only 47 files changed, 3503 insertions(+), 1013 deletions(-)
Title: Algorithms for Routing and Solving the Traffic Assignment
Problem
Description: Calculation of distances, shortest paths and isochrones on weighted graphs using several variants of Dijkstra algorithm.
Proposed algorithms are unidirectional Dijkstra (Dijkstra, E. W. (1959) <doi:10.1007/BF01386390>),
bidirectional Dijkstra (Goldberg, Andrew & Fonseca F. Werneck, Renato (2005) <https://www.cs.princeton.edu/courses/archive/spr06/cos423/Handouts/EPP%20shortest%20path%20algorithms.pdf>),
A* search (P. E. Hart, N. J. Nilsson et B. Raphael (1968) <doi:10.1109/TSSC.1968.300136>),
new bidirectional A* (Pijls & Post (2009) <https://repub.eur.nl/pub/16100/ei2009-10.pdf>),
Contraction hierarchies (R. Geisberger, P. Sanders, D. Schultes and D. Delling (2008) <doi:10.1007/978-3-540-68552-4_24>),
PHAST (D. Delling, A.Goldberg, A. Nowatzyk, R. Werneck (2011) <doi:10.1016/j.jpdc.2012.02.007>).
Algorithms for solving the traffic assignment problem are All-or-Nothing assignment,
Method of Successive Averages,
Frank-Wolfe algorithm (M. Fukus [...truncated...]
Author: Vincent Larmet [aut, cre]
Maintainer: Vincent Larmet <larmet.vincent@gmail.com>
Diff between cppRouting versions 4.0 dated 2026-11-10 and 4.1 dated 2026-11-12
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ inst/doc/cppRouting.html | 4 ++-- src/aon.cpp | 7 +++---- src/distance_pair.cpp | 14 ++++++-------- src/external_sort.h | 3 ++- src/io_osm_graph_disk.cpp | 6 ++++-- src/path_pair.cpp | 7 +++---- 9 files changed, 38 insertions(+), 33 deletions(-)
Title: Access Data from Brazilian Central Bank: IFdata, Active
Institutions, Balance Sheets and Normative Acts
Description: Provides functions to query, retrieve, and tidy economic and
financial data from Brazilian Central Bank web services for use in R
analyses and workflows. Active institutions information, bank branches,
balance sheets, banking statistics by municipality (ESTBAN) and normative acts.
Author: Ricardo Theodoro [aut, cre]
Maintainer: Ricardo Theodoro <rtheodoro@usp.br>
Diff between bacenR versions 0.5.1 dated 2026-10-23 and 0.6.0 dated 2026-11-12
DESCRIPTION | 11 +++--- MD5 | 34 ++++++++++++-------- NAMESPACE | 4 ++ NEWS.md | 14 ++++++++ R/get_branches.R |only R/get_estban.R |only R/get_institutions.R | 34 ++++++++++++++++++-- R/tidy_balance_sheets.R | 14 +++++--- R/tidy_ifdata_reports.R | 51 ++++++++++++++++++++++++------ R/utils_download.R |only README.md | 10 +++++ build/vignette.rds |binary man/bacenR-package.Rd | 2 - man/get_branches.Rd |only man/get_estban.Rd |only man/tidy_balance_sheets.Rd | 11 +++--- man/tidy_branches.Rd |only man/tidy_estban.Rd |only man/tidy_ifdata_reports.Rd | 6 ++- tests/testthat/test-get_branches.R |only tests/testthat/test-get_estban.R |only tests/testthat/test-get_institutions.R | 1 tests/testthat/test-tidy_ifdata_reports.R |only 23 files changed, 150 insertions(+), 42 deletions(-)
Title: Statistical Auditing, Drift Monitoring and Governance Reporting
for AI Decision Systems
Description: Provides statistical auditing, risk documentation, and reporting
tools to support AI governance workflows for employment, hiring and other
AI-assisted decision systems. Implements the EEOC four-fifths adverse impact rule
(Equal Employment Opportunity Commission, 1978,
<https://www.ecfr.gov/current/title-29/subtitle-B/chapter-XIV/part-1607>),
NYC Local Law 144 bias audit requirements (New York City, 2023,
<https://www.nyc.gov/site/dca/about/automated-employment-decision-tools.page>),
and the AI Risk Management Framework checklist items from the National
Institute of Standards and Technology
(2023, <doi:10.6028/NIST.AI.100-1>). Optionally supports EU AI Act
high-risk classification (European Parliament and Council, 2024,
<https://digital-strategy.ec.europa.eu/en/policies/regulatory-framework-ai>).
It also audits decision drift over time: the change in a
decision rate is decomposed into case-mix, allocation (routing of cases to
decision units) and rule-change compo [...truncated...]
Author: Subir Hait [aut, cre]
Maintainer: Subir Hait <haitsubi@msu.edu>
Diff between AIGovernance versions 0.1.0 dated 2026-05-27 and 0.2.0 dated 2026-11-12
DESCRIPTION | 37 +- LICENSE | 4 MD5 | 77 ++-- NAMESPACE | 4 NEWS.md | 94 ++++- R/adverse_impact.R | 312 +++++++++---------- R/audit_nist.R | 347 +++++++++++---------- R/audit_nyc_ll144.R | 322 +++++++++---------- R/build.R | 390 ++++++++++++------------ R/checklist.R | 537 ++++++++++++++++----------------- R/classify_risk.R | 319 +++++++++---------- R/data.R | 106 ++++-- R/drift.R |only R/drift_core.R |only R/monitor.R |only R/report.R | 567 +++++++++++++++++++---------------- R/simulate.R |only R/utils.R | 28 - README.md | 83 +++-- build/partial.rdb |binary build/vignette.rds |binary data/hiring_panel.rda |only inst/doc/decision_drift.R |only inst/doc/decision_drift.Rmd |only inst/doc/decision_drift.html |only inst/doc/employment_bias_audit.Rmd | 2 inst/doc/employment_bias_audit.html | 19 - man/aigov_adverse_impact.Rd | 116 +++---- man/aigov_audit_nist.Rd | 112 +++--- man/aigov_audit_nyc.Rd | 118 +++---- man/aigov_build.Rd | 158 ++++----- man/aigov_checklist.Rd | 60 +-- man/aigov_classify.Rd | 110 +++--- man/aigov_drift.Rd |only man/aigov_monitor.Rd |only man/aigov_report.Rd | 82 ++--- man/aigov_scope.Rd | 60 +-- man/aigov_simulate_drift.Rd |only man/hiring_panel.Rd |only man/hiring_sim.Rd | 86 ++--- tests/testthat.R |only tests/testthat/test-adverse-impact.R | 88 ++--- tests/testthat/test-build.R | 78 ++-- tests/testthat/test-drift.R |only tests/testthat/test-modules.R | 180 +++++------ vignettes/decision_drift.Rmd |only vignettes/employment_bias_audit.Rmd | 2 47 files changed, 2372 insertions(+), 2126 deletions(-)
Title: Read Licensed Market Data on AI Training Data
Description: Reads the tables that 'AIData.Broker' keeps on the market for AI
training data (prices, licensing deals, buyers, vendors, lawsuits and
related tables, each row with its source) for holders of its Market Data
Licence, using the licence's API key. Since 11 November 2026 the tables
are sold under that licence, not published openly; see
<https://aidata.broker/datasets> for the licence and its terms.
Author: Yuma Heymans [aut, cre]
Maintainer: Yuma Heymans <hello@aidata.broker>
Diff between aidatabroker versions 0.1.0 dated 2026-10-29 and 0.2.0 dated 2026-11-12
DESCRIPTION | 19 +++++++++++-------- MD5 | 6 +++--- R/aidatabroker.R | 25 ++++++++++++++++++++----- man/aidb_read.Rd | 20 ++++++++++++-------- 4 files changed, 46 insertions(+), 24 deletions(-)
Title: Hodrick-Prescott Filter and Spline Smoothing with Jumps
Description: A set of functions to compute the Hodrick-Prescott (HP)
filter and spline smoothing with automatically selected jumps. The original
HP filter and spline smoothing extract a smooth signal, and our version
allows for a small number of automatically identified jumps. Smoothing
splines with discontinuities are obtained either by time warping, or by the
dynamic-programming algorithm of Storath and Weinmann (2024)
<doi:10.1080/10618600.2023.2262000>. See Pelagatti, Maranzano and Gatto
Ronchieri (2026) <doi:10.48550/arXiv.2610.33137> for details on the
smoothing splines with discontinuities, and Maranzano and Pelagatti (2025)
<doi:10.1016/j.econmod.2025.107132> for details on the HP filter with
jumps.
Author: Matteo Pelagatti [aut, cre, cph] ,
Paolo Maranzano [aut, cph] ,
Giulio Cesare Gatto Ronchieri [ctb]
Maintainer: Matteo Pelagatti <matteo.pelagatti@unimib.it>
Diff between jumps versions 2.0.0 dated 2026-10-30 and 2.0.3 dated 2026-11-12
jumps-2.0.0/jumps/data/load_temp.rda |only jumps-2.0.0/jumps/man/load_temp.Rd |only jumps-2.0.3/jumps/DESCRIPTION | 10 jumps-2.0.3/jumps/MD5 | 32 -- jumps-2.0.3/jumps/NAMESPACE | 34 +- jumps-2.0.3/jumps/NEWS.md | 44 ++ jumps-2.0.3/jumps/R/data.R | 40 -- jumps-2.0.3/jumps/build/partial.rdb |binary jumps-2.0.3/jumps/build/vignette.rds |binary jumps-2.0.3/jumps/inst/doc/introduction.Rmd | 8 jumps-2.0.3/jumps/inst/doc/introduction.html | 37 +- jumps-2.0.3/jumps/inst/scripts/load_temperature.R | 22 - jumps-2.0.3/jumps/man/demand_temp.Rd | 17 - jumps-2.0.3/jumps/man/jumps-package.Rd | 1 jumps-2.0.3/jumps/tests/testthat/test-kfs-mle-agreement.R | 221 +++++++------- jumps-2.0.3/jumps/tests/testthat/test-loglik-scale.R | 164 +++++----- jumps-2.0.3/jumps/tests/testthat/test-ssj.R | 7 jumps-2.0.3/jumps/vignettes/introduction.Rmd | 8 18 files changed, 352 insertions(+), 293 deletions(-)
Title: Generalised Survival Trial Assessment Tool Environment
Description: Provides tools to assist planning and monitoring of time-to-event trials under complicated censoring assumptions and/or non-proportional hazards. There are three main components: The first is analytic calculation of predicted time-to-event trial properties, providing estimates of expected hazard ratio, event numbers and power under different analysis methods. The second is simulation, allowing stochastic estimation of these same properties. Thirdly, it provides parametric event prediction using blinded trial data, including creation of prediction intervals. Methods are based upon numerical integration and a flexible object-orientated structure for defining event, censoring and recruitment distributions (Curves).
Author: James Bell [aut, cre],
Jasmin Ruehl [ctb]
Maintainer: James Bell <james.bell.ext@boehringer-ingelheim.com>
Diff between gestate versions 1.6.0 dated 2023-04-26 and 1.6.2 dated 2026-11-12
DESCRIPTION | 8 - MD5 | 52 +++---- R/deprecated.R | 8 - R/event_prediction.R | 105 ++++++++------ R/nph_traj.R | 82 +++++------ R/plotting.R | 2 R/simulation_functions.R | 186 +++++++++++++------------- build/vignette.rds |binary inst/doc/event_prediction.R | 8 - inst/doc/event_prediction.html | 17 +- inst/doc/trial_planning.R | 2 inst/doc/trial_planning.html | 7 man/analyse_sim.Rd | 220 +++++++++++++++---------------- man/create_tte_prior.Rd | 3 man/event_prediction.Rd | 24 +-- man/event_prediction_KM.Rd | 8 - man/event_prediction_prior.Rd | 24 +-- man/fit_KM.Rd | 10 - man/fit_tte_data.Rd | 10 - man/fit_tte_data_prior.Rd | 10 - man/nph_traj.Rd | 268 +++++++++++++++++++------------------- man/plot_npht.Rd | 152 ++++++++++----------- man/simulate_trials.Rd | 176 ++++++++++++------------ man/simulate_trials_strata.Rd | 192 +++++++++++++-------------- man/summarise_analysis.Rd | 138 +++++++++---------- man/survfit_fast.Rd | 68 ++++----- tests/testthat/testarchitecture.R | 16 +- 27 files changed, 910 insertions(+), 886 deletions(-)
Title: Geometric Methods for Nonparametric Regression and Density
Estimation
Description: Provides geometric methods for nonparametric regression and
density estimation on data represented as coordinate matrices or weighted
graphs.
Methods include local polynomial smoothing, model-averaged local polynomial
smoothing, local polynomial lifting trend filtering, synchronized local
polynomial lifting trend filtering, order-2 Gaussian and logistic trend filtering,
graph low-pass filtering, and
Hessian-energy regression. Methodological references include Gajer and
Ravel (2025) "Adaptive Geometric Regression for High-Dimensional Structured
Data" <doi:10.48550/arXiv.2511.03817>, Fan and Gijbels (1996,
ISBN:9780412983214), Wang et al. (2016) "Trend Filtering on Graphs"
<https://www.jmlr.org/papers/v17/15-147.html>, and Kim et al. (2009)
"Semi-Supervised Regression Using Hessian Energy"
<https://papers.nips.cc/paper/3741-semi-supervised-regression-using-hessian-energy-with-an-application-to-semi-supervised-dimensionality-reduction>.
Author: Pawel Gajer [aut, cre],
Gael Guennebaud [ctb] ,
Benoit Jacob [ctb] ,
Authors of Eigen [cph] ,
Yixuan Qiu [ctb, cph] ,
Contributors to Spectra [cph] ,
Sunil Arya [ctb, cph] ,
David M. Mount [ctb, cph] ,
University of Maryland [cph]
Maintainer: Pawel Gajer <pgajer@gmail.com>
Diff between geosmooth versions 0.2.0 dated 2026-11-10 and 0.2.1 dated 2026-11-12
DESCRIPTION | 10 MD5 | 152 + NAMESPACE | 10 NEWS.md | 142 + R/chart_kernel.R | 9 R/local_likelihood.R | 8 R/logistic_trend_filtering.R | 8 R/lps.R | 55 R/malps.R | 59 R/metric_graph_lowpass.R | 26 R/neighbor_probability.R | 11 R/package.R | 80 R/projection_trend_filtering.R |only R/projection_trend_filtering_cv.R |only R/projection_trend_filtering_gn.R |only R/projection_trend_filtering_joint.R |only R/projection_trend_filtering_numerics.R |only R/projection_trend_filtering_observer.R |only R/projection_trend_filtering_search.R |only R/projection_trend_filtering_visit.R |only R/ps_lps.R | 9 R/slpl_tf.R | 11 R/ssrhe_hessian_energy.R | 32 R/state_density.R | 42 R/transported_graph_hessian.R | 66 R/univariate_trend_filtering.R | 24 README.md | 240 +- build/vignette.rds |binary inst/doc/function-guide.R | 14 inst/doc/function-guide.Rmd | 652 ++++--- inst/doc/function-guide.html | 816 +++++----- inst/doc/local-simplex-charts.Rmd | 48 inst/doc/local-simplex-charts.html | 62 inst/doc/logistic-trend-filtering.Rmd | 4 inst/doc/logistic-trend-filtering.html | 12 inst/doc/pca-pls-chart-comparison.Rmd | 276 +-- inst/doc/pca-pls-chart-comparison.html | 292 +-- inst/doc/projection-trend-filtering.R |only inst/doc/projection-trend-filtering.Rmd |only inst/doc/projection-trend-filtering.html |only inst/doc/synthetic-datasets.Rmd | 74 inst/doc/synthetic-datasets.html | 88 - inst/extdata/vignette-results/pca-pls-comparison.rds |binary man/cv.projection.trend.filtering.Rd |only man/fit.chart.kernel.Rd | 9 man/fit.density.Rd | 8 man/fit.local.likelihood.Rd | 8 man/fit.logistic.trend.filtering.Rd | 8 man/fit.lps.Rd | 29 man/fit.malps.Rd | 59 man/fit.metric.graph.lowpass.Rd | 10 man/fit.neighbor.probability.Rd | 11 man/fit.projection.trend.filtering.Rd |only man/fit.ps.lps.Rd | 9 man/fit.ssrhe.hessian.l1.regression.Rd | 6 man/fit.ssrhe.hessian.regression.Rd | 13 man/fit.subject.od.Rd | 24 man/geosmooth-package.Rd | 77 man/lps.backend.diagnostics.Rd | 22 man/metric.graph.lowpass.basis.Rd | 8 man/metric.graph.lowpass.operator.Rd | 8 man/normalize.density.Rd | 10 man/predict.projection.trend.filtering.fit.Rd |only man/slpl.tf.operator.Rd | 11 man/ssrhe.hessian.operator.Rd | 13 man/transported.graph.hessian.operator.Rd | 66 tests/fixtures/metric-graph-heat-tolerance-boundary.rds |only tests/testthat.R | 9 tests/testthat/test-metric-graph-lowpass-dense-reference.R |only tests/testthat/test-metric-graph-lowpass-permutation-invariance.R |only tests/testthat/test-metric-graph-lowpass-tolerance-boundary.R |only tests/testthat/test-neighbor-ann.R | 6 tests/testthat/test-neighbor-intrinsic.R | 6 tests/testthat/test-neighbor-probability.R | 22 tests/testthat/test-projection-trend-filtering-cv.R |only tests/testthat/test-projection-trend-filtering-depth.R |only tests/testthat/test-projection-trend-filtering-gn-contracts.R |only tests/testthat/test-projection-trend-filtering-gn-numerics.R |only tests/testthat/test-projection-trend-filtering-joint.R |only tests/testthat/test-projection-trend-filtering-observer.R |only tests/testthat/test-projection-trend-filtering-search.R |only tests/testthat/test-projection-trend-filtering.R |only tests/testthat/test-simplex-charts.R | 14 tests/testthat/test-synthetic-registry.R | 68 tests/testthat/test-univariate-trend-filtering-constant-covariates.R |only vignettes/function-guide.Rmd | 652 ++++--- vignettes/local-simplex-charts.Rmd | 48 vignettes/logistic-trend-filtering.Rmd | 4 vignettes/pca-pls-chart-comparison.Rmd | 276 +-- vignettes/projection-trend-filtering.Rmd |only vignettes/synthetic-datasets.Rmd | 74 91 files changed, 2810 insertions(+), 2110 deletions(-)
Title: Methods for Statistical Disclosure Control in Tabular Data
Description: Methods for statistical disclosure control in
tabular data such as primary and secondary cell suppression as described for example
in Hundepol et al. (2012) <doi:10.1002/9781118348239> are covered in this package.
Author: Bernhard Meindl [aut, cre]
Maintainer: Bernhard Meindl <bernhard.meindl@gmail.com>
Diff between sdcTable versions 0.34.0 dated 2026-05-09 and 0.34.1 dated 2026-11-12
sdcTable-0.34.0/sdcTable/vignettes/sdcTable_cache |only sdcTable-0.34.1/sdcTable/DESCRIPTION | 10 ++-- sdcTable-0.34.1/sdcTable/MD5 | 19 +++---- sdcTable-0.34.1/sdcTable/NAMESPACE | 26 ++++++---- sdcTable-0.34.1/sdcTable/R/createArgusInput.R | 5 +- sdcTable-0.34.1/sdcTable/R/tauBatch_helpers.R | 35 +++++++++++--- sdcTable-0.34.1/sdcTable/build/vignette.rds |binary sdcTable-0.34.1/sdcTable/inst/doc/sdcTable.html | 16 +++--- sdcTable-0.34.1/sdcTable/man/createArgusInput.Rd | 5 +- sdcTable-0.34.1/sdcTable/tests/testthat/test-argusinput.R |only 10 files changed, 73 insertions(+), 43 deletions(-)
Title: Functions to Simplify the Use of 'glmnet' for Machine Learning
Description: Provides several functions to simplify using the 'glmnet' package: a) converting data frames into matrices ready for 'glmnet'; b) imputing missing variables multiple times; c) fitting and applying prediction models straightforwardly; d) assigning observations to folds in a balanced way; e) cross-validate the models and estimating the accuracy and calibration; f) selecting the most representative model across imputations and folds; and g) getting the count and relevance of the model regressors; as described in several publications: Solanes et al. (2022) <doi:10.1038/s41537-022-00309-w>, Palau et al. (2023) <doi:10.1016/j.rpsm.2023.01.001>, Salazar de Pablo et al. (2025) <doi:10.1038/s41380-025-03244-1>.
Author: Joaquim Radua [aut, cre]
Maintainer: Joaquim Radua <quimradua@gmail.com>
Diff between easy.glmnet versions 1.2 dated 2026-10-26 and 1.3 dated 2026-11-12
DESCRIPTION | 8 +-- MD5 | 14 ++--- NAMESPACE | 3 - NEWS | 9 +++ R/source.R | 110 ++++++++++++++++++++++++++++------------------ inst/doc/easy.glmnet.html | 18 +++++-- man/glmnet_fit.Rd | 7 +- man/simple.calibration.Rd | 14 +++-- 8 files changed, 115 insertions(+), 68 deletions(-)
Title: Nonparametric Methods for Directional Data
Description: Nonparametric kernel density estimation and bandwidth selection
for directional data on the hypersphere S^q, q >= 1. Implements the kernel
density estimator of Bai et al. (1988) <doi:10.1016/0047-259X(88)90113-3>
in kde_dir(), the likelihood and least squares cross-validation bandwidth
selectors of Hall et al. (1987) <doi:10.1093/biomet/74.4.751> in
bw_dir_lcv() and bw_dir_lscv(), and the rule-of-thumb and plug-in
selectors of García-Portugués (2013) <doi:10.1214/13-EJS821> in
bw_dir_rot(), bw_dir_ami(), and bw_dir_emi(). Also fits mixtures of von
Mises-Fisher distributions with bic_vmf_mix(), integrates on S^q, and
provides fast stable evaluations of the log-Bessel function and the von
Mises-Fisher normalizing constant for large orders and concentrations.
Author: Eduardo Garcia-Portugues [aut, cre]
Maintainer: Eduardo Garcia-Portugues <edgarcia@est-econ.uc3m.es>
Diff between DirStats versions 0.1.10 dated 2024-06-13 and 1.0.0 dated 2026-11-12
DirStats-0.1.10/DirStats/man/conv.Rd |only DirStats-0.1.10/DirStats/man/int.Rd |only DirStats-0.1.10/DirStats/src |only DirStats-1.0.0/DirStats/DESCRIPTION | 40 - DirStats-1.0.0/DirStats/MD5 | 66 +- DirStats-1.0.0/DirStats/NAMESPACE | 6 DirStats-1.0.0/DirStats/NEWS.md | 14 DirStats-1.0.0/DirStats/R/DirStats-package.R | 27 - DirStats-1.0.0/DirStats/R/bessel.R |only DirStats-1.0.0/DirStats/R/bw-cv.R | 420 ++++++++---------- DirStats-1.0.0/DirStats/R/bw-pi.R | 511 ++++++++++------------ DirStats-1.0.0/DirStats/R/data.R | 13 DirStats-1.0.0/DirStats/R/kde.R | 236 ++++++---- DirStats-1.0.0/DirStats/R/sysdata.rda |only DirStats-1.0.0/DirStats/R/utils.R | 445 ++++++++++++++++--- DirStats-1.0.0/DirStats/R/vmf.R | 151 +++++- DirStats-1.0.0/DirStats/R/zzz.R |only DirStats-1.0.0/DirStats/build/partial.rdb |binary DirStats-1.0.0/DirStats/inst/CITATION | 3 DirStats-1.0.0/DirStats/inst/WORDLIST |only DirStats-1.0.0/DirStats/man/DirStats-package.Rd | 29 - DirStats-1.0.0/DirStats/man/bic_vmf_mix.Rd | 89 ++- DirStats-1.0.0/DirStats/man/bw_dir_cv.Rd | 130 +++-- DirStats-1.0.0/DirStats/man/bw_dir_pi.Rd | 114 +++- DirStats-1.0.0/DirStats/man/c_h.Rd |only DirStats-1.0.0/DirStats/man/figures |only DirStats-1.0.0/DirStats/man/int_dir.Rd |only DirStats-1.0.0/DirStats/man/kde_dir.Rd | 75 +-- DirStats-1.0.0/DirStats/man/lebedev.Rd | 14 DirStats-1.0.0/DirStats/man/log_besselI_scaled.Rd |only DirStats-1.0.0/DirStats/man/log_c_vmf.Rd |only DirStats-1.0.0/DirStats/man/normalize.Rd |only DirStats-1.0.0/DirStats/man/to_rad.Rd |only DirStats-1.0.0/DirStats/man/vmf.Rd | 47 +- DirStats-1.0.0/DirStats/man/w_q.Rd |only DirStats-1.0.0/DirStats/tests |only 36 files changed, 1488 insertions(+), 942 deletions(-)
Title: A Simple HTTP Database Interface to 'ClickHouse'
Description: 'ClickHouse' (<https://clickhouse.com/>)
is an open-source, high performance columnar
OLAP (online analytical processing of queries) database management system
for real-time analytics using SQL. This 'DBI' backend
relies on the 'ClickHouse' HTTP interface and support HTTPS protocol.
Author: Patrice Godard [aut, cre, cph] ,
Eusebiu Marcu [ctb]
Maintainer: Patrice Godard <patrice.godard@gmail.com>
Diff between ClickHouseHTTP versions 1.1.2 dated 2026-10-02 and 1.1.3 dated 2026-11-12
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/connection.R | 2 +- R/result.R | 4 ++-- inst/doc/Setting-up-ClickHouse-docker.html | 2 +- inst/doc/Usage.html | 2 +- inst/pkgdown.yml | 2 +- 7 files changed, 16 insertions(+), 16 deletions(-)
More information about ClickHouseHTTP at CRAN
Permanent link
Title: 'KorAP' Web Service Client Package
Description: A client package that makes the 'KorAP' web service API accessible from R. The corpus analysis platform 'KorAP' has been developed as a scientific tool to make potentially large, stratified and multiply annotated corpora, such as the 'German Reference Corpus DeReKo' or the 'Corpus of the Contemporary Romanian Language CoRoLa', accessible for linguists to let them verify hypotheses and to find interesting patterns in real language use. The 'RKorAPClient' package provides access to 'KorAP' and the corpora behind it for user-created R code, as a programmatic alternative to the 'KorAP' web user-interface. You can learn more about 'KorAP' and use it directly on 'DeReKo' at <https://korap.ids-mannheim.de/>.
Author: Marc Kupietz [aut, cre],
Nils Diewald [ctb],
Leibniz Institute for the German Language [cph, fnd]
Maintainer: Marc Kupietz <kupietz@ids-mannheim.de>
Diff between RKorAPClient versions 1.4.1 dated 2026-09-23 and 1.5.0 dated 2026-11-12
DESCRIPTION | 24 MD5 | 226 +++++++-- NAMESPACE | 15 NEWS.md | 17 R/KorAPConnection.R | 71 ++ R/KorAPCorpusStats.R | 4 R/KorAPQuery.R | 235 +++++++-- R/cacheAs.R | 34 + R/chart-helpers.R |only R/collocationAnalysis.R | 5 R/dispersion-metadata.R |only R/dispersion-scores.R |only R/dispersionQuery.R |only R/fetchSamplePages.R |only R/geom_freq_bar_ci.R |only R/hc_add_onclick_korap_search.R | 24 R/hc_dispersion.R |only R/hc_freq_bar_ci.R |only R/hc_freq_by_year_ci.R | 102 ++-- R/logging.R | 8 R/misc.R | 99 +++ build |only demo/00Index | 2 demo/conditionsOverTime.R | 2 demo/dispersion.R |only demo/frequenciesOverDomains.R | 8 demo/mosaicplot.R | 2 demo/writtenVsSpoken_highcharts.R |only inst/js |only man/apiCall-KorAPConnection-method.Rd | 9 man/cacheAsInfo.Rd | 1 man/collocationAnalysis-KorAPConnection-method.Rd | 27 + man/corpusPartition.Rd |only man/corpusQuery-KorAPConnection-method.Rd | 49 + man/dispersion-score-functions.Rd |only man/dispersionAnalysis-KorAPQuery-method.Rd |only man/dispersionQuery-KorAPConnection-method.Rd |only man/fetchAll-KorAPQuery-method.Rd | 7 man/fetchAnnotations-KorAPQuery-method.Rd | 6 man/fetchNext-KorAPQuery-method.Rd | 20 man/fetchRest-KorAPQuery-method.Rd | 5 man/fetchSamplePages-KorAPQuery-method.Rd |only man/figures/Readme-Example-1.png |binary man/frequencyQuery-KorAPConnection-method.Rd | 61 ++ man/geom_freq_bar_ci.Rd |only man/hc_add_onclick_korap_search.Rd | 5 man/hc_dispersion.Rd |only man/hc_freq_bar_ci.Rd |only man/hc_freq_by_year_ci.Rd | 36 + man/initialize-KorAPQuery-method.Rd | 4 man/misc-functions.Rd | 31 + man/print.KorAPDispersion.Rd |only tests/README.md |only tests/testthat.R | 12 tests/testthat/fixtures |only tests/testthat/helper-http-fixtures.R |only tests/testthat/js |only tests/testthat/setup-cache.R |only tests/testthat/setup-http.R |only tests/testthat/setup-keyring.R | 19 tests/testthat/test-KorAPConnection.R | 477 +++++++------------ tests/testthat/test-cache-as.R | 212 +++++--- tests/testthat/test-chart-browser.R |only tests/testthat/test-chart-locale.R |only tests/testthat/test-chart-shared.R |only tests/testthat/test-collocation-cache-parameters.R | 4 tests/testthat/test-collocations.R | 400 ++++++++-------- tests/testthat/test-corpusQuery.R | 525 ++++++++++----------- tests/testthat/test-corpusStats-eta.R | 408 ++++++++-------- tests/testthat/test-corpusStats.R | 61 +- tests/testthat/test-corpusquery-eta.R | 314 ++++++------ tests/testthat/test-demos.R | 236 +++++---- tests/testthat/test-dispersion.R |only tests/testthat/test-fetch.R | 33 - tests/testthat/test-fetchAnnotations.R | 523 ++++++++++---------- tests/testthat/test-geom-freq-bar.R |only tests/testthat/test-hc-dispersion.R |only tests/testthat/test-hc-freq-bar.R |only tests/testthat/test-http-content.R |only tests/testthat/test-http-fixtures.R |only tests/testthat/test-http-transport.R |only tests/testthat/test-interrupts.R |only tests/testthat/test-korapconnection-signature.R | 3 tests/testthat/test-live-http.R |only tests/testthat/test-page-numbering.R | 266 +++++----- tests/testthat/test-rate-limit.R |only tests/testthat/test-readme-against-llm.R | 332 +++++++++++++ tests/testthat/test-readme-consistency.R | 21 tests/testthat/test-show-ci.R |only tests/testthat/test-snippet-parsing.R | 4 tests/testthat/test-textMetadata.R | 235 +++++---- tests/testthat/test-vc-labels.R | 70 +- tests/testthat/test-verbose-env.R | 1 tests/testthat/test-year-smoothing.R |only tools |only 95 files changed, 3157 insertions(+), 2138 deletions(-)
Title: Calculate Results from WHO Model Disability Survey Data
Description: The Model Disability Survey (MDS) <https://www.who.int/activities/collection-of-data-on-disability> is a World Health Organization (WHO) general population survey
instrument to assess the distribution of disability within a country or
region, grounded in the International Classification of Functioning,
Disability and Health <https://www.who.int/standards/classifications/international-classification-of-functioning-disability-and-health>. This package provides fit-for-purpose functions
for calculating and presenting the results from this survey, as used by
the WHO. The package primarily provides functions for implementing
Rasch Analysis (see Andrich (2011) <doi:10.1586/erp.11.59>) to
calculate a metric scale for disability.
Author: Lindsay Lee [aut, cre],
Carolina Fellinghauer [ctb],
World Health Organization [cph]
Maintainer: Lindsay Lee <lindsayevanslee@gmail.com>
Diff between whomds versions 1.1.1 dated 2023-09-08 and 1.2.0 dated 2026-11-12
DESCRIPTION | 18 - MD5 | 193 ++++++----- NAMESPACE | 9 NEWS.md | 14 R/SepRel_101.R | 21 + R/fig_LID.R | 25 + R/fig_density.R | 17 - R/fig_dist.R | 17 - R/helper_disability_cat.R |only R/helper_indicator.R | 9 R/helper_installation.R | 2 R/helper_mapvalues.R |only R/rasch_DIF.R | 37 +- R/rasch_df_nest.R | 9 R/rasch_drop.R | 7 R/rasch_factor.R | 22 + R/rasch_mds.R | 59 +++ R/rasch_mds_children.R | 46 ++ R/rasch_model.R | 48 +- R/rasch_model_children.R | 13 R/rasch_quality_children.R | 14 R/rasch_quality_children_print.R | 15 R/rasch_rawscore.R | 20 - R/rasch_recode.R | 18 - R/rasch_rescale.R | 22 + R/rasch_rescale_children.R | 24 + R/rasch_split.R | 12 R/rasch_split_age.R | 16 R/rasch_testlet.R | 15 R/table_basicstats.R | 7 R/table_weightedpct.R | 4 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/c1_background_EN.html | 24 - inst/doc/c1_background_ES.html | 24 - inst/doc/c2_getting_started_EN.R | 4 inst/doc/c2_getting_started_EN.Rmd | 2 inst/doc/c2_getting_started_EN.html | 18 - inst/doc/c2_getting_started_ES.R | 4 inst/doc/c2_getting_started_ES.Rmd | 2 inst/doc/c2_getting_started_ES.html | 19 - inst/doc/c3_rasch_adults_EN.R | 284 ++++++++--------- inst/doc/c3_rasch_adults_EN.html | 17 - inst/doc/c3_rasch_adults_ES.R | 284 ++++++++--------- inst/doc/c3_rasch_adults_ES.html | 17 - inst/doc/c4_rasch_children_EN.R | 44 +- inst/doc/c4_rasch_children_EN.html | 3 inst/doc/c4_rasch_children_ES.R | 44 +- inst/doc/c4_rasch_children_ES.html | 3 inst/doc/c6_after_rasch_EN.R | 21 - inst/doc/c6_after_rasch_EN.Rmd | 21 + inst/doc/c6_after_rasch_EN.html | 458 ++++++++++++++------------- inst/doc/c6_after_rasch_ES.R | 21 - inst/doc/c6_after_rasch_ES.Rmd | 21 + inst/doc/c6_after_rasch_ES.html | 463 +++++++++++++++------------- inst/examples |only man/SepRel_1.0.1.Rd | 39 ++ man/fig_LID.Rd | 39 ++ man/fig_density.Rd | 15 man/fig_dist.Rd | 13 man/fig_poppyramid.Rd | 8 man/helper_checkrow.Rd | 7 man/helper_disability_cat.Rd |only man/helper_indicator.Rd | 4 man/helper_palette.Rd | 7 man/helper_varslist.Rd | 7 man/rasch_DIF.Rd | 69 +++- man/rasch_df_nest.Rd | 87 +++-- man/rasch_drop.Rd | 75 ++-- man/rasch_factor.Rd | 69 +++- man/rasch_mds.Rd | 78 +++- man/rasch_mds_children.Rd | 95 +++-- man/rasch_model.Rd | 71 +++- man/rasch_model_children.Rd | 91 +++-- man/rasch_quality_children.Rd | 92 +++-- man/rasch_quality_children_print.Rd | 93 +++-- man/rasch_rawscore.Rd | 57 ++- man/rasch_recode.Rd | 82 +++- man/rasch_rescale.Rd | 68 +++- man/rasch_rescale_children.Rd | 95 +++-- man/rasch_split.Rd | 80 +++- man/rasch_split_age.Rd | 88 +++-- man/rasch_testlet.Rd | 83 +++-- man/table_basicstats.Rd | 6 man/table_unweightedpctn.Rd | 6 man/table_weightedpct.Rd | 6 man/whomds-package.Rd | 5 tests/testthat/helper-deprecation.R |only tests/testthat/test-dimensions.R | 1 tests/testthat/test-fig_LID.R |only tests/testthat/test-figures.R |only tests/testthat/test-helper_disability_cat.R |only tests/testthat/test-helper_mapvalues.R |only tests/testthat/test-helpers.R |only tests/testthat/test-rasch_children.R |only tests/testthat/test-rasch_mds_checks.R |only tests/testthat/test-rasch_model.R |only tests/testthat/test-rasch_prep.R |only tests/testthat/test-tables.R |only vignettes/c2_getting_started_EN.Rmd | 2 vignettes/c2_getting_started_ES.Rmd | 2 vignettes/c6_after_rasch_EN.Rmd | 21 + vignettes/c6_after_rasch_ES.Rmd | 21 + 104 files changed, 2644 insertions(+), 1471 deletions(-)
Title: Estimation of the Structural Topic Model
Description: The Structural Topic Model (STM) allows researchers
to estimate topic models with document-level covariates.
The package also includes tools for model selection, visualization,
and estimation of topic-covariate regressions. Methods developed in
Roberts et. al. (2014) <doi:10.1111/ajps.12103> and
Roberts et. al. (2016) <doi:10.1080/01621459.2016.1141684>. Vignette
is Roberts et. al. (2019) <doi:10.18637/jss.v091.i02>.
Author: Margaret Roberts [aut],
Brandon Stewart [aut, cre],
Dustin Tingley [aut],
Kenneth Benoit [ctb]
Maintainer: Brandon Stewart <bms4@princeton.edu>
Diff between stm versions 1.3.8 dated 2025-09-03 and 1.3.10 dated 2026-11-12
stm-1.3.10/stm/DESCRIPTION | 13 +++---- stm-1.3.10/stm/MD5 | 17 ++++----- stm-1.3.10/stm/build/vignette.rds |binary stm-1.3.10/stm/inst/NEWS.Rd | 7 +++ stm-1.3.10/stm/inst/WORDLIST | 47 +++++++++++++++++++------- stm-1.3.10/stm/inst/doc/stmVignette.pdf |binary stm-1.3.10/stm/inst/doc/stmVignette.pdf.asis |only stm-1.3.10/stm/vignettes/extracted.bib | 10 ++--- stm-1.3.10/stm/vignettes/stmVignette.pdf.asis |only stm-1.3.8/stm/inst/doc/stmVignette.R |only stm-1.3.8/stm/inst/doc/stmVignette.Rnw |only stm-1.3.8/stm/vignettes/stmVignette.Rnw |only 12 files changed, 62 insertions(+), 32 deletions(-)
Title: Simulation and Data Analysis for Plant Breeders
Description: Provides tools for simulation of plant breeding programs
as described, for example, by Melchinger and Frisch
(2023) <doi:10.1007/s00122-023-04446-3>, prediction of
segregation variance (Osthushenrich, Frisch and Herzog
(2017) <doi:10.1371/journal.pone.0188839>), genomic
prediction (Hofheinz and Frisch (2014)
<doi:10.1534/g3.113.010025>), linkage disequilibrium
based haplotype construction, and planning of marker
assisted back crossing programs. Functions to fit
linear mixed models and for phasing and imputation of
DNA marker data are also included.
Author: Matthias Frisch [aut, cre],
Hans Peter Maurer [ctb],
Philipp Heilmann [ctb]
Maintainer: Matthias Frisch <matthias.frisch@uni-giessen.de>
Diff between SelectionTools versions 26.5 dated 2026-10-09 and 26.5.2 dated 2026-11-12
SelectionTools-26.5.2/SelectionTools/DESCRIPTION | 16 SelectionTools-26.5.2/SelectionTools/MD5 | 750 SelectionTools-26.5.2/SelectionTools/NAMESPACE | 118 SelectionTools-26.5.2/SelectionTools/R/SelectionTools01.R | 4804 - SelectionTools-26.5.2/SelectionTools/R/SelectionTools02.R | 1761 SelectionTools-26.5.2/SelectionTools/R/SelectionTools03.R | 98 SelectionTools-26.5.2/SelectionTools/R/SelectionTools04.R | 1297 SelectionTools-26.5.2/SelectionTools/R/SelectionTools10.R |only SelectionTools-26.5.2/SelectionTools/R/SelectionTools11.R |only SelectionTools-26.5.2/SelectionTools/build/vignette.rds |binary SelectionTools-26.5.2/SelectionTools/data/datalist |only SelectionTools-26.5.2/SelectionTools/data/v-dentmaize-vcf.rda |only SelectionTools-26.5.2/SelectionTools/data/v-dentmaize2-vcf.rda |only SelectionTools-26.5.2/SelectionTools/data/v-flintmaize-vcf.rda |only SelectionTools-26.5.2/SelectionTools/data/v-flintmaize2-vcf.rda |only SelectionTools-26.5.2/SelectionTools/data/v-hybmaize-phe.rda |only SelectionTools-26.5.2/SelectionTools/data/v-hybmaize2-phe.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-alfalfa.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-barley-lattice.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-barley-met.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-barley-seven-traits.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-chickens.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-climate.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-corn.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-cotton.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-fertilizer-regression.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-fertilizer-replicated.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-fertilizer.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-halfdiallel.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-iris-two.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-iris.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-machines.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-maize-counties.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-maize-met.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-material-groups.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-met-missing.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-met-seven-traits.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-met-unbalanced.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-mtcars.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-oats.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-peas.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-rapeseed-blocks.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-rapeseed.rda |only SelectionTools-26.5.2/SelectionTools/data/v-lmm-rats.rda |only 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SelectionTools-26.5.2/SelectionTools/man/define.effects.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/define.effects.df.Rd | 11 SelectionTools-26.5.2/SelectionTools/man/define.genome.Rd | 24 SelectionTools-26.5.2/SelectionTools/man/define.map.Rd | 33 SelectionTools-26.5.2/SelectionTools/man/dh.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/effect.weight.set.all.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/effmap.remove.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/effmap.remove.all.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/evaluate.all.loci.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.allele.Rd | 20 SelectionTools-26.5.2/SelectionTools/man/evaluate.allele.freq.Rd | 34 SelectionTools-26.5.2/SelectionTools/man/evaluate.allele.freq2.Rd | 34 SelectionTools-26.5.2/SelectionTools/man/evaluate.allele2.Rd | 19 SelectionTools-26.5.2/SelectionTools/man/evaluate.genome.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/evaluate.genotype.Rd | 59 SelectionTools-26.5.2/SelectionTools/man/evaluate.hap.calc.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.hap.calc.d.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.hap.free.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/evaluate.hap.init.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/evaluate.hap.return.genotype.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.hap.return.table.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.haplotype.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.ld.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.locus.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.mdp.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/evaluate.population.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gd.allow.zero.frequencies.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gd.distance.similarity.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gd.mk.matr.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gd.status.zero.frequencies.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/generate.effect.file.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/generate.population.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/genome.contribution.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/genome.parameter.get.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/genome.parameter.set.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/genome.segments.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/genotype.population.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/get.mdp.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/get.population.info.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.build.V.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.build.esvs.Rd | 12 SelectionTools-26.5.2/SelectionTools/man/gs.build.tsps.Rd | 12 SelectionTools-26.5.2/SelectionTools/man/gs.build.z.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.check.pvals.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.es.Rd | 26 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.gd.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.gd.fct.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.ma.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.mi.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.mu.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.cross.eval.va.Rd | 33 SelectionTools-26.5.2/SelectionTools/man/gs.cross.info.Rd | 40 SelectionTools-26.5.2/SelectionTools/man/gs.cross.info.gd.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.cross.validation.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.esteff.lsq.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.esteff.rmla.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.esteff.rmlc.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.esteff.rmlr.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.esteff.rmlv.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.esteff.rr.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.estimate.gv.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.get.V.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.get.Z.Rd | 28 SelectionTools-26.5.2/SelectionTools/man/gs.get.im.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.get.info.level.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.get.y.Rd | 13 SelectionTools-26.5.2/SelectionTools/man/gs.info.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.aov.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.const.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.emstep.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.hsq.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.reg.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.rmla.02.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.rmla.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.rmlc.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.rmlr.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.rmlv.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.lambda.rrblup.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.make.A.Rd |only SelectionTools-26.5.2/SelectionTools/man/gs.mme.coeff.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.mme.invcoeff.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.mme.restcoeff.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.mme.restrhs.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.mme.rhs.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.mme.solve.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.mmet.coeff.3.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.mmet.coeff.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.mmet.rhs.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.mmet.solve.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.neg.effall.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.plot.model.fit.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.pos.effall.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.predict.genotypes.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.reset.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.return.effects.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/gs.return.pvals.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.set.all.info.levels.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.set.allele.codes.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/gs.set.effects.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.set.info.level.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.set.lambda.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.set.num.threads.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.set.performance.data.Rd | 15 SelectionTools-26.5.2/SelectionTools/man/gs.single.marker.aov.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.single.marker.reg.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.test.mp.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/gs.testeff.lsq.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.testeff.rmlc.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.testeff.rmlv.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.vc.rrblup.Rd | 14 SelectionTools-26.5.2/SelectionTools/man/gs.w.aov.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/gs.write.pseff.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/homozygote.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/il.eval.library.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/il.eval.lines.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/il.ideal.library.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/il.overlapping.library.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/influence.st.lmm.Rd |only SelectionTools-26.5.2/SelectionTools/man/info.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/info.cat.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/init.population.Rd | 42 SelectionTools-26.5.2/SelectionTools/man/internal-st-legacy-path.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lmm-by.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lmm-influence.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lmm-method.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lmm-plain.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lmm-profile.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lmm-result.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-lsm-method.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-mxd-mv-block.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-mxd-mv-linear.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-mxd-mv.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-predict-method.Rd |only SelectionTools-26.5.2/SelectionTools/man/internal-st-valid-identifier.Rd |only SelectionTools-26.5.2/SelectionTools/man/linkage.drag.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/linkage.map.get.Rd | 34 SelectionTools-26.5.2/SelectionTools/man/linkage.map.load.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/linkage.map.save.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/list.effects.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/list.populations.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/load.effmap.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/load.internal.effmap.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/mab.compare.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/mab.load.data.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/mab.simulate.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/ph.linkage.map.create.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/phenotype.population.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/plabsim.R.date.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/plabsim.R.version.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/plabsim.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/plabsim.init.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/plabsim.version.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/plant.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/population.append.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/population.concat.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.copy.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.divide.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.exist.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.info.get.Rd | 21 SelectionTools-26.5.2/SelectionTools/man/population.info.set.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.list.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.name.swap.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/population.optimize.Rd | 16 SelectionTools-26.5.2/SelectionTools/man/population.plabsim.load.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.plabsim.save.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.remove.Rd | 16 SelectionTools-26.5.2/SelectionTools/man/population.remove.all.Rd | 10 SelectionTools-26.5.2/SelectionTools/man/population.rename.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/population.resize.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.sample.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.size.get.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/population.transfer.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/propsd.Rd |only SelectionTools-26.5.2/SelectionTools/man/read.vcf.Rd | 42 SelectionTools-26.5.2/SelectionTools/man/remove.all.populations.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/remove.evaluate.population.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/remove.genotype.population.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/remove.map.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/rename.population.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/reset.all.Rd | 5 SelectionTools-26.5.2/SelectionTools/man/reset.mdp.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/resources.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/rng.choose.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/rng.info.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/rng.init.Rd | 14 SelectionTools-26.5.2/SelectionTools/man/rng.list.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/sample.population.Rd | 24 SelectionTools-26.5.2/SelectionTools/man/save.linkage.map.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/sdev.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/sel.target.define.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/select.all.best.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/select.all.best.intern.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/select.genotypes.Rd | 42 SelectionTools-26.5.2/SelectionTools/man/select.n.best.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/select.n.best.segments.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/set.NoLociInit.Rd | 19 SelectionTools-26.5.2/SelectionTools/man/set.co.freq.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/set.eff.weigth.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/set.info.level.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/set.mdp.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/set.population.gvalue.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/set.population.info.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/show.phase.Rd | 3 SelectionTools-26.5.2/SelectionTools/man/single.cross.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/ssd.mating.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.LDheatmap.Rd | 40 SelectionTools-26.5.2/SelectionTools/man/st.STvcf.to.dataframe.Rd | 13 SelectionTools-26.5.2/SelectionTools/man/st.calc.ld.2.Rd | 10 SelectionTools-26.5.2/SelectionTools/man/st.calc.ld.Rd | 64 SelectionTools-26.5.2/SelectionTools/man/st.calc.q.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.calc.rf.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.chrom.stats.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/st.compact.data.set.Rd | 30 SelectionTools-26.5.2/SelectionTools/man/st.copy.marker.data.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.cross.allocate.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.cross.plan.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.cross.plan.execute.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.data.combine.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.data.set.list.Rd | 40 SelectionTools-26.5.2/SelectionTools/man/st.data.set.remove.Rd | 10 SelectionTools-26.5.2/SelectionTools/man/st.data.set.remove.all.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.datadir.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.dataframe.to.STvcf.Rd | 19 SelectionTools-26.5.2/SelectionTools/man/st.dd.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.def.hblocks.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.destroy.phase.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/st.detect.core.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.diallel.cross.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.enrichment.Rd | 10 SelectionTools-26.5.2/SelectionTools/man/st.genetic.distances.02.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.genetic.distances.Rd | 67 SelectionTools-26.5.2/SelectionTools/man/st.genetic.distances.fct.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.get.A.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.get.info.level.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.get.map.Rd | 13 SelectionTools-26.5.2/SelectionTools/man/st.get.num.threads.Rd | 63 SelectionTools-26.5.2/SelectionTools/man/st.get.simpop.Rd | 21 SelectionTools-26.5.2/SelectionTools/man/st.get.simpop.perfdata.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.get.simpop2.Rd | 14 SelectionTools-26.5.2/SelectionTools/man/st.gwas.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.hybrid.data.set.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.id.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.indir.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.info.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.keep.intersection.markers.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.kernel.structure.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.allfit.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.bootstrap.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.by.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.compare.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.components.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.diagnostics.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.model.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.profile.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.refit.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.simulate.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.lmm.test.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.load.performance.data.Rd | 61 SelectionTools-26.5.2/SelectionTools/man/st.load.vcf.data.Rd | 111 SelectionTools-26.5.2/SelectionTools/man/st.lsm.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.marker.data.statistics.Rd | 44 SelectionTools-26.5.2/SelectionTools/man/st.markerdata.to.STvcf.Rd | 39 SelectionTools-26.5.2/SelectionTools/man/st.ocs.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.od.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.oma.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.outdir.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.phase.Rd | 68 SelectionTools-26.5.2/SelectionTools/man/st.plot.corr.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.plot.corr.l.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.plot.ggt.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.plot.ggt.src.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.predict.Rd |only SelectionTools-26.5.2/SelectionTools/man/st.read.map.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.read.map.df.Rd | 19 SelectionTools-26.5.2/SelectionTools/man/st.read.marker.data.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.read.marker.data.df.Rd | 27 SelectionTools-26.5.2/SelectionTools/man/st.read.performance.data.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/st.recode.hil.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/st.recode.ref.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.reset.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.restrict.marker.Rd | 18 SelectionTools-26.5.2/SelectionTools/man/st.return.performance.data.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/st.select.phen.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.set.hblocks.Rd | 8 SelectionTools-26.5.2/SelectionTools/man/st.set.info.level.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.set.matrix.ops.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.set.num.threads.Rd | 58 SelectionTools-26.5.2/SelectionTools/man/st.set.openblas.threads.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.set.sim.ef.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.set.sim.gp.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.set.sim.mp.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.set.sim.pp.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.set.simpop.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/st.start.timer.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/st.switch.error.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/st.write.map.Rd | 6 SelectionTools-26.5.2/SelectionTools/man/summarize.gvalue.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/talk.to.me.Rd | 4 SelectionTools-26.5.2/SelectionTools/man/v-dentmaize-vcf.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-dentmaize2-vcf.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-flintmaize-vcf.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-flintmaize2-vcf.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-hybmaize-phe.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-hybmaize2-phe.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-climate.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-corn.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-data.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-fertilizer-regression.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-fertilizer-replicated.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-halfdiallel.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-iris-two.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-iris.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-machines.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-mtcars.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-rats.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-tomato.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-tropmaize-lattice.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-lmm-tropmaize.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-rapeseed.Rd |only SelectionTools-26.5.2/SelectionTools/man/v-tropmaize-pop.Rd | 2 SelectionTools-26.5.2/SelectionTools/man/v-tropmaize-vcf.Rd | 11 SelectionTools-26.5.2/SelectionTools/man/write.vcf.Rd | 17 SelectionTools-26.5.2/SelectionTools/man/write.version.2.Rd | 6 SelectionTools-26.5.2/SelectionTools/src/Makevars | 2 SelectionTools-26.5.2/SelectionTools/src/MathLib11.h | 983 SelectionTools-26.5.2/SelectionTools/src/MathLib12.c | 1221 SelectionTools-26.5.2/SelectionTools/src/MathLib12.h | 21 SelectionTools-26.5.2/SelectionTools/src/SelectionTools01.c |42776 +++++----- SelectionTools-26.5.2/SelectionTools/src/SelectionTools01a.h | 1500 SelectionTools-26.5.2/SelectionTools/src/SelectionTools02.c |23125 +++-- SelectionTools-26.5.2/SelectionTools/src/SelectionTools02a.h | 506 SelectionTools-26.5.2/SelectionTools/src/SelectionTools03.c |20637 +--- SelectionTools-26.5.2/SelectionTools/src/SelectionTools04.c |only SelectionTools-26.5.2/SelectionTools/src/SelectionToolsAllele.h | 485 SelectionTools-26.5.2/SelectionTools/src/init.c | 4916 + SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-clusters-initial.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-clusters.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-core-90.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-core-original.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-core.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-cumulative-A.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-cumulative-B.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-gain.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-ggt-A.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/enrichment-ggt-B.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/gwas-rapeseed-k-manhattan.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/gwas-rapeseed-pk-manhattan.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/gwas-rapeseed-pk-qq.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/gwas-rapeseed-region.png |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/lmm-barley-covariance.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/lmm-chicken-diagnostics.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/lmm-chicken-influence.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/lmm-chicken-prediction.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/lmm-oats-profile.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/mtcars-subsets.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/v-mxd-hybrid-ST.GCA.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/v-mxd-hybrid-ST.SCA.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/v-mxd-hybrid-sommer.GCA.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/v-mxd-hybrid-sommer.SCA.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/v-mxd-maize-selectiontools.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/figures/v-mxd-maize-sommer.pdf |only SelectionTools-26.5.2/SelectionTools/vignettes/v-cross.Rnw | 1608 SelectionTools-26.5.2/SelectionTools/vignettes/v-enrich.Rnw |only SelectionTools-26.5.2/SelectionTools/vignettes/v-hapld.Rnw | 8 SelectionTools-26.5.2/SelectionTools/vignettes/v-lmm.Rnw |only SelectionTools-26.5.2/SelectionTools/vignettes/v-phase.Rnw | 11 SelectionTools-26.5.2/SelectionTools/vignettes/v-simbp.Rnw | 2 SelectionTools-26.5/SelectionTools/R/SelectionTools05.R |only SelectionTools-26.5/SelectionTools/data/DT_technow.rda |only SelectionTools-26.5/SelectionTools/data/Md_technow.rda |only SelectionTools-26.5/SelectionTools/data/Mf_technow.rda |only SelectionTools-26.5/SelectionTools/man/DT_technow.Rd |only SelectionTools-26.5/SelectionTools/man/Md_technow.Rd |only SelectionTools-26.5/SelectionTools/man/Mf_technow.Rd |only SelectionTools-26.5/SelectionTools/man/st.mxd.Rd |only SelectionTools-26.5/SelectionTools/man/st.phase.v1.Rd |only SelectionTools-26.5/SelectionTools/man/st_mixed.Rd |only SelectionTools-26.5/SelectionTools/src/SelectionToolsDataSet.h |only 453 files changed, 56433 insertions(+), 54874 deletions(-)
More information about SelectionTools at CRAN
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Title: Import and Export 'Familias' Files
Description: Tools for exchanging pedigree data between the 'pedsuite'
packages and the 'Familias' software for forensic kinship computations
(Egeland et al. (2000) <doi:10.1016/s0379-0738(00)00147-x>). These
functions were split out from the 'forrel' package to streamline
maintenance and provide a lightweight alternative for packages otherwise
independent of 'forrel'.
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedFamilias versions 0.2.6 dated 2026-09-11 and 0.3.0 dated 2026-11-12
DESCRIPTION | 10 +-- MD5 | 16 ++-- NEWS.md | 11 +++ R/familias2ped.R | 51 ++++++--------- R/readFam.R | 45 +++++++++++-- R/writeDVI.R |only R/writeFam.R | 145 +++++++++++++++++++++++++++++--------------- inst/extdata/planecrash.fam |only man/Familias2ped.Rd | 3 man/writeFam.Rd | 127 +++++++++++++++++++++++++------------- 10 files changed, 270 insertions(+), 138 deletions(-)
Title: Data for Mathematical Modeling and Applied Calculus
Description: Contains the data sets for the first and second editions of the textbook
"Mathematical Modeling and Applied Calculus" by Joel Kilty and Alex M. McAllister.
The first edition of the book was published by Oxford University Press in 2018 with
ISBN-13: 978-019882472. The second edition is expected to be published in January
2027.
Author: Joel Kilty [aut, cre],
McAllister Alex [aut]
Maintainer: Joel Kilty <joel.kilty@centre.edu>
Diff between MMAC versions 1.0 dated 2025-08-19 and 1.1.0 dated 2026-11-12
DESCRIPTION | 6 +- MD5 | 26 ++++++--- NEWS.md | 4 + R/datasetsDoc.R | 116 +++++++++++++++++++++++++++++++++++++++++++- README.md | 3 - data/DJIA2.rda |only data/GaltonFemale.rda |only data/MammalEnergy.rda |binary data/StJohnsTides.rda |binary data/ToyotaMonthly.rda |binary data/UKInflationRate.rda |only data/USCO2Emissions2.rda |only data/USMilitarySpending.rda |binary man/AverageCO2Levels.Rd | 4 - man/DJIA2.Rd |only man/GaltonFemale.Rd |only man/UKInflationRate.Rd |only man/USCO2Emissions2.Rd |only 18 files changed, 141 insertions(+), 18 deletions(-)
More information about mighty.component at CRAN
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Title: Kernel Estimator and Bandwidth Selection for Density and Its
Derivatives
Description: Kernel estimation of a univariate probability density and of its
derivatives of any order r, with data-driven bandwidth selection. Provides the
kernel estimator of the derivative of order r, the kernels, their derivatives and
convolutions, and eight bandwidth selectors: the asymptotic MISE rule (AMISE),
and unbiased (UCV), biased (BCV1, BCV2), complete (CCV), modified (MCV),
trimmed (TCV), smoothed (SCV) and maximum-likelihood (MLCV) cross-validation.
Supports ten named kernels (Gaussian, Epanechnikov, uniform, triangular,
biweight, triweight, tricube, cosine, Silverman, logistic) and the power
family Pow(s,t), c(1-|x|^s)^t on [-1,1]. Results are S4 objects with 'ggplot2'
graphics; the O(n^2) criteria are computed in C++ ('Rcpp') with 'OpenMP'
parallelism. Includes five example samples from Marron and Wand (1992)
normal mixtures, a vignette and demos. Companion to Guidoum (2020)
<doi:10.48550/arXiv.2012.06102>.
Author: Arsalane Chouaib Guidoum [aut, cre] ,
Amel Henider [aut],
Iago Gine-Vazquez [ctb]
Maintainer: Arsalane Chouaib Guidoum <acguidoum@univ-tam.dz>
Diff between kedd versions 2.0.0 dated 2026-11-02 and 2.0.1 dated 2026-11-12
DESCRIPTION | 8 ++++---- MD5 | 42 +++++++++++++++++++++--------------------- NEWS | 2 ++ README.md | 24 ++++++++++++------------ inst/CITATION | 9 +++++---- inst/doc/kedd.Rmd | 6 +++--- inst/doc/kedd.html | 20 ++++++++++---------- man/bandwidth-class.Rd | 4 +++- man/dkde.Rd | 4 +++- man/h.amise.Rd | 4 +++- man/h.bcv.Rd | 4 +++- man/h.ccv.Rd | 4 +++- man/h.mcv.Rd | 4 +++- man/h.mlcv.Rd | 6 ++++-- man/h.scv.Rd | 4 +++- man/h.tcv.Rd | 4 +++- man/h.ucv.Rd | 6 ++++-- man/kedd-classes.Rd | 4 +++- man/kernel.fun.Rd | 4 +++- man/kernel.pow.Rd | 4 +++- tests/testthat/test-compat.R | 4 +++- vignettes/kedd.Rmd | 6 +++--- 22 files changed, 104 insertions(+), 73 deletions(-)
Title: Estimation and Diagnostic Tools for Instrumental Variables
Designs
Description: Estimation and diagnostic tools for instrumental variables designs
with one endogenous treatment, implementing the guidelines in Lal, Lockhart, Xu,
and Zu (2024) <doi:10.1017/pan.2024.2>. The package reports ordinary least
squares and two-stage least squares estimates with analytic and bootstrapped
confidence intervals, several first-stage F statistics including the effective F
statistic, the Anderson-Rubin test and its confidence set, the tF procedure of
Lee, McCrary, Moreira, and Porter (2022) <doi:10.1257/aer.20211063>, and
local-to-zero sensitivity tests. It also supports fuzzy regression discontinuity
designs.
Author: Apoorva Lal [aut] ,
Yiqing Xu [aut, cre]
Maintainer: Yiqing Xu <yiqingxu@stanford.edu>
Diff between ivDiag versions 1.0.8 dated 2026-11-02 and 1.0.9 dated 2026-11-12
DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- R/ivDiag.R | 5 +++-- R/utils.R | 12 ++++++++++++ tests/testthat/test-cluster-boot.R |only 5 files changed, 23 insertions(+), 9 deletions(-)
Title: Fast Histogram Gradient Boosting for Regression, Classification,
and Survival Analysis
Description: A fast gradient boosting machine covering four task types with
one interface: regression (squared error), binary and multiclass
classification (logistic and one-vs-rest), and right-censored survival
analysis via Cox (Breslow ties), accelerated failure time (normal
location-scale), or piecewise-exponential objectives, and competing
risks via Fine-Gray subdistribution hazards, cause-specific hazards, or
coupled cause-specific hazards, following 'CoxBoost' (Binder et al.
2009) <doi:10.1093/bioinformatics/btp088>. Provides
native missing-value routing, baseline-hazard estimation and
survival-probability prediction for the survival objectives, and
deterministic multi-threaded training via 'RcppParallel'. Methods are
described in Friedman (2001) <doi:10.1214/aos/1013203451>.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between fastgbm versions 0.7.0 dated 2026-11-03 and 0.7.1 dated 2026-11-12
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 13 +++++++++++++ R/pexp.R | 7 +++++-- inst/doc/survival.html | 12 ++++++------ tests/testthat.R | 4 ++++ tests/testthat/test-early-stopping.R | 8 ++++---- tests/testthat/test-parallel.R | 8 ++++---- tests/testthat/test-pexp.R | 22 +++++++++++++++++++--- tests/testthat/test-tree-building.R | 2 +- 10 files changed, 68 insertions(+), 32 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Ian Kopacka [ctb],
Klemens Fuchs [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 3.0.0 dated 2026-10-12 and 3.0.1 dated 2026-11-12
DESCRIPTION | 8 +++---- MD5 | 34 +++++++++++++++---------------- NEWS | 7 ++++++ R/epi.ssclus1estb.R | 22 ++++++++++++++------ R/epi.ssclus2estb.R | 22 ++++++++++++++------ inst/doc/epiR_descriptive_epi-html.html | 30 +++++++++++++-------------- inst/doc/epiR_descriptive_epi-pdf.pdf |binary inst/doc/epiR_diagnostic_tests-html.html | 15 +++++++------ inst/doc/epiR_diagnostic_tests-pdf.pdf |binary inst/doc/epiR_sample_size-html.R | 18 +++++++++++----- inst/doc/epiR_sample_size-html.html | 22 +++++++++++++------- inst/doc/epiR_sample_size-pdf.R | 18 +++++++++++----- inst/doc/epiR_sample_size-pdf.pdf |binary inst/doc/epiR_surveillance-html.html | 6 ++--- inst/doc/epiR_surveillance-pdf.pdf |binary man/epi.ssclus1estb.Rd | 13 ++++++++--- man/epi.ssclus2estb.Rd | 12 +++++++--- vignettes/content/epiR_sample_size.Rmd | 18 +++++++++++----- 18 files changed, 157 insertions(+), 88 deletions(-)
Title: Design of Experiments and Factorial Plans Utilities
Description: A number of functions to create and analyze factorial plans according to the Design of Experiments (DoE) approach, with the addition of some utility function to perform some statistical analyses. DoE approach follows the approach in "Design and Analysis of Experiments" by Douglas C. Montgomery (2019, ISBN:978-1-119-49244-3). The package also provides utilities used in the course "Analysis of Data and Statistics" at the University of Trento, Italy.
Author: Paolo Bosetti [aut, cre]
Maintainer: Paolo Bosetti <paolo.bosetti@unitn.it>
Diff between adas.utils versions 1.4.1 dated 2026-09-13 and 1.5.0 dated 2026-11-12
DESCRIPTION | 6 MD5 | 26 ++- NAMESPACE | 3 NEWS.md | 6 R/geoms.R | 140 ++++++++++++++++++++ R/stats.R | 91 ++++++++----- README.md | 8 - inst/doc/adas.utils.R | 9 + inst/doc/adas.utils.Rmd | 16 +- inst/doc/adas.utils.html | 258 +++++++++++++++++++------------------- man/figures/README-cheatsheet.png |only man/geom_tukey.Rd |only man/ggTukey.data.frame.Rd | 26 +++ tests/testthat/test-stats.R | 43 ++++++ vignettes/adas.utils.Rmd | 16 +- 15 files changed, 465 insertions(+), 183 deletions(-)
Title: Acceptance Sampling Plans Design
Description: Provides tools for designing and analyzing Acceptance Sampling plans.
Supports both Attributes Sampling (Binomial and Poisson distributions) and
Variables Sampling (Normal and Beta distributions), enabling quality control
for fractional and compositional data. Uses nonlinear programming for sampling
plan optimization, minimizing sample size while controlling producer's and
consumer's risks. Operating Characteristic curves are available for plan visualization.
Author: Ha Truong [aut, cre, cph],
Victor Miranda [ths, rev],
Roger Kissling [ths, rev]
Maintainer: Ha Truong <truongvietha87@gmail.com>
Diff between AccSamplingDesign versions 0.1.0 dated 2026-10-01 and 0.1.3 dated 2026-11-12
DESCRIPTION | 6 - MD5 | 42 +++++++------ NAMESPACE | 3 NEWS.md | 48 +++++++++++++++ R/OCdata.R | 16 ++++- R/accProb.R | 15 ++++ R/betaSaddlepoint.R |only R/betaSaddlepointMom.R |only R/betaUnknownTheta.R | 24 ++++++- R/manualPlan.R | 10 ++- R/optPlan.R | 2 R/optVarPlan.R | 82 ++++++++++++++++++++------ README.md | 57 +++++++++++++++++- inst/doc/introduction.Rmd | 14 +++- inst/doc/introduction.html | 19 ++++-- man/accProb.Rd | 23 ++++++- man/manualPlan.Rd | 24 ++++++- man/optPlan.Rd | 28 ++++++++ man/optVarPlan.Rd | 43 ++++++++++++- tests/testthat/Rplots.pdf |binary tests/testthat/test-betaSaddlepoint.R |only tests/testthat/test-mlePlanSafety.R |only tests/testthat/test-saddlepointInterface.R |only tests/testthat/test-saddlepointMomInterface.R |only vignettes/introduction.Rmd | 14 +++- 25 files changed, 406 insertions(+), 64 deletions(-)
More information about AccSamplingDesign at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-12-01 1.1.2
2025-11-17 1.1.1
2025-05-08 1.1.0
2025-01-14 1.0.3
2024-03-28 1.0.2
2024-03-20 1.0.1
2024-03-18 1.0.0