Title: Useful Wrappers Around Commonly Used Functions
Description: The main functionalities of 'wrappedtools' are:
adding backticks to variable names; rounding to desired precision
with special case for p-values;
selecting columns based on pattern and/or class and storing their position, name,
and backticked name; computing and formatting of descriptive statistics
(e.g. mean±SD), comparing groups and creating publication-ready tables with
descriptive statistics and p-values; creating specialized plots for
correlation matrices. Functions were mainly written for my own daily work or
teaching, but may be of use to others as well.
Author: Andreas Busjahn [cre, aut] ,
Franziska Eidloth [aut],
Bilal Asser [aut]
Maintainer: Andreas Busjahn <andreas@busjahn.net>
Diff between wrappedtools versions 0.9.9 dated 2025-09-04 and 0.10.0 dated 2026-10-10
DESCRIPTION | 16 MD5 | 120 - NAMESPACE | 80 NEWS.md | 144 - R/basefunctions.R | 128 - R/biotech.R | 240 +- R/clin_estimates.R | 300 +-- R/constants.R | 14 R/data.R | 6 R/descriptives.R | 49 R/pkgstart.R | 114 - R/plots.R | 100 - R/tests.R | 2728 ++++++++++++++--------------- README.md | 17 build/vignette.rds |binary inst/doc/wrappedtools.R | 16 inst/doc/wrappedtools.Rmd | 20 inst/doc/wrappedtools.html | 33 man/WINratio.Rd | 8 man/bt.Rd | 2 man/compare_n_numvars.Rd | 11 man/eGFR.Rd | 2 man/faketrial.Rd | 2 man/formatP.Rd | 12 man/glmCI.Rd | 2 man/logrange_1.Rd | 17 man/markSign.Rd | 2 man/pairwise_fisher_test.Rd | 4 man/pairwise_ordcat_test.Rd | 8 man/pairwise_t_test.Rd | 2 man/pairwise_wilcox_test.Rd | 6 man/plot_LB.Rd | 16 man/plot_MM.Rd | 16 man/se_median.Rd | 6 man/tab.search.Rd | 6 man/wrappedtools-package.Rd | 3 tests/testthat/test-FindVars.R | 17 tests/testthat/test-SEM.R | 6 tests/testthat/test-cat_desc_stats.R | 5 tests/testthat/test-compare2qualvars.R | 19 tests/testthat/test-compare_n_numvars.R | 34 tests/testthat/test-compare_n_qualvars.R | 6 tests/testthat/test-cortestR.R | 9 tests/testthat/test-formatP.R | 7 tests/testthat/test-glm_CI.R | 7 tests/testthat/test-ksnormal.R | 11 tests/testthat/test-logrange.R | 13 tests/testthat/test-markSign.R | 20 tests/testthat/test-meansd.R | 9 tests/testthat/test-meanse.R | 7 tests/testthat/test-median_cl_boot.R | 24 tests/testthat/test-median_quart.R | 10 tests/testthat/test-medianse.R | 7 tests/testthat/test-pairwise_fisher-test.R | 21 tests/testthat/test-pairwise_ordcat_test.R | 9 tests/testthat/test-pairwise_t_test.R | 9 tests/testthat/test-pairwise_wilcox_test.R | 11 tests/testthat/test-roundR.R | 5 tests/testthat/test-t_var_test.R | 7 tests/testthat/test-var_coeff.R | 6 vignettes/wrappedtools.Rmd | 20 61 files changed, 2242 insertions(+), 2307 deletions(-)
Title: Scorecard Development and Internal Ratings-Based Risk Parameters
Description: Builds points scorecards for binary targets (credit risk, fraud,
propensity) on the optimal binning and weight of evidence engine of
'OptimalBinningWoE', and takes them to the risk parameters of the internal
ratings-based (IRB) approach. Variables are selected through optimal
binning, eight admission rules, hold-out revalidation with frozen bins and
a consensus of 'glmnet', 'xgboost', 'lightgbm' and 'ranger' models weighted
by out-of-sample performance; the audit funnel never drops a candidate
from the report. The scorecard is fitted with an explicit, auditable scale
alignment (a log-odds regression on the raw score composed with the
points-to-double-the-odds map); cut-offs are swept with frozen cuts;
reject inference is reported as a sensitivity band; the population and
characteristic stability indices (PSI and CSI) are monitored with both the
fixed and the sample-size-adjusted threshold; and production SQL is
generated in fourteen dialects, with the agreement between R and SQL
verifi [...truncated...]
Author: Jose Evandeilton Lopes [aut, cre, cph]
Maintainer: Jose Evandeilton Lopes <evandeilton@gmail.com>
Diff between scorecraft versions 0.3.0 dated 2026-10-06 and 0.3.2 dated 2026-10-10
DESCRIPTION | 13 MD5 | 271 ++++++++++------- NAMESPACE | 60 +++ NEWS.md | 121 +++++++ R/RcppExports.R | 21 + R/apply.R | 8 R/bands.R |only R/bin.R | 6 R/capital.R | 24 - R/claims.R |only R/classing.R | 4 R/config.R | 52 ++- R/cpp.R | 26 + R/cutoff.R | 249 +++++++++++++--- R/data.R | 20 - R/db.R | 2 R/default.R | 2 R/detection.R |only R/ead.R | 82 ++--- R/ecl.R | 4 R/export.R | 48 ++- R/funnel.R | 4 R/irb-binning.R | 4 R/irb-params.R | 10 R/lgd.R | 67 ++-- R/maturity.R |only R/metrics.R | 85 ++++- R/mix-shift.R |only R/model.R | 4 R/monitor.R | 16 - R/operating.R |only R/overlap.R |only R/pd.R | 47 +-- R/rag.R |only R/score-cross.R |only R/scorecard.R | 106 +++++- R/scorecraft-package.R | 29 + R/segments.R |only R/select.R | 2 R/split.R | 6 R/sql.R | 7 R/study.R |only R/tiers.R |only R/triage.R | 6 R/uplift.R |only R/utils.R | 12 README.md | 7 build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST | 73 ++++ inst/cheatsheet/scorecraft-cheatsheet.html | 274 ++++++++++++++++- inst/cheatsheet/scorecraft-cheatsheet.pdf |binary inst/doc/alignment-and-portfolio.Rmd | 11 inst/doc/alignment-and-portfolio.html | 11 inst/doc/coarse-classing.Rmd | 8 inst/doc/coarse-classing.html | 22 - inst/doc/score-studies.R |only inst/doc/score-studies.Rmd |only inst/doc/score-studies.html |only inst/doc/scorecraft.R | 5 inst/doc/scorecraft.Rmd | 24 + inst/doc/scorecraft.html | 447 +++++++++++++++-------------- man/scorecraft-package.Rd | 28 + man/scr_apply.Rd | 34 ++ man/scr_bands.Rd |only man/scr_capital.Rd | 4 man/scr_claims.Rd |only man/scr_coarse_classing.Rd | 2 man/scr_config.Rd | 2 man/scr_config_keys.Rd | 3 man/scr_core.Rd | 2 man/scr_demo_ead.Rd | 10 man/scr_demo_panel.Rd | 4 man/scr_demo_portfolio.Rd | 2 man/scr_demo_rates.Rd | 4 man/scr_detection.Rd |only man/scr_ead.Rd | 6 man/scr_ead_data.Rd | 14 man/scr_ead_downturn.Rd | 2 man/scr_ead_validate.Rd | 12 man/scr_ecl.Rd | 2 man/scr_elbe.Rd | 2 man/scr_export.Rd | 65 +++- man/scr_fetch.Rd | 2 man/scr_grades.Rd | 4 man/scr_irb_params.Rd | 4 man/scr_irb_rw.Rd | 2 man/scr_lgd.Rd | 8 man/scr_lgd_downturn.Rd | 2 man/scr_lgd_floor.Rd | 2 man/scr_lgd_pools.Rd | 4 man/scr_lgd_validate.Rd | 18 - man/scr_maturity.Rd |only man/scr_metrics.Rd | 20 + man/scr_migration.Rd | 2 man/scr_mix_shift.Rd |only man/scr_operating.Rd |only man/scr_overlap.Rd |only man/scr_pd_validate.Rd | 10 man/scr_rag.Rd |only man/scr_rag_plan.Rd |only man/scr_reasons.Rd | 2 man/scr_reject.Rd | 2 man/scr_sa_rw.Rd | 4 man/scr_score_cross.Rd |only man/scr_score_gains.Rd | 29 + man/scr_scorecard.Rd | 5 man/scr_segments.Rd |only man/scr_split.Rd | 4 man/scr_sql.Rd | 43 ++ man/scr_strategy.Rd | 121 ++++++- man/scr_tiers.Rd |only man/scr_triage.Rd | 2 man/scr_uplift.Rd |only man/scr_workout.Rd | 6 src/RcppExports.cpp | 20 + src/concordance.cpp | 2 src/correlation.cpp | 10 src/ecl.cpp | 2 src/tiers.cpp |only tests/testthat/helper-ead.R | 2 tests/testthat/helper-pd.R | 2 tests/testthat/helper-scorecraft.R | 30 + tests/testthat/test-audit-fixes.R | 2 tests/testthat/test-capital.R | 12 tests/testthat/test-claims.R |only tests/testthat/test-count-engine.R |only tests/testthat/test-cpp.R | 2 tests/testthat/test-cutoff.R | 281 ++++++++++++++++++ tests/testthat/test-detection.R |only tests/testthat/test-ead.R | 35 +- tests/testthat/test-export.R | 25 + tests/testthat/test-irb-core.R | 1 tests/testthat/test-lgd.R | 23 + tests/testthat/test-maturity.R |only tests/testthat/test-mix-shift.R |only tests/testthat/test-monitor.R | 38 ++ tests/testthat/test-operating.R |only tests/testthat/test-overlap.R |only tests/testthat/test-pd.R | 27 + tests/testthat/test-rag.R |only tests/testthat/test-runset.R | 2 tests/testthat/test-score-cross.R |only tests/testthat/test-scorecard.R | 77 ++++ tests/testthat/test-segments.R |only tests/testthat/test-split.R | 2 tests/testthat/test-study.R |only tests/testthat/test-tiers.R |only tests/testthat/test-triage-capital.R | 6 tests/testthat/test-triage-core.R | 4 tests/testthat/test-triage-lgd-ead.R | 6 tests/testthat/test-triage-pd.R | 4 tests/testthat/test-triage-production.R | 2 tests/testthat/test-uplift.R |only tests/testthat/test-utils.R | 9 vignettes/alignment-and-portfolio.Rmd | 11 vignettes/coarse-classing.Rmd | 8 vignettes/score-studies.Rmd |only vignettes/scorecraft.Rmd | 24 + 159 files changed, 2655 insertions(+), 808 deletions(-)
Title: Frequentist Dynamic Borrowing for Hybrid-Control Survival Trials
Description: Implements a class of likelihood-informed frequentist dynamic
borrowing methods for hybrid-control survival trials based on penalized
Cox partial likelihood estimation. Implements four
likelihood-informed penalty structures (precision-weighted L1,
smoothed integrated-gate, information-adaptive minimax concave penalty
(MCP), and likelihood-ratio-weighted L1), together with the adaptive
lasso borrowing approach of Li et al. (2023, <doi:10.1002/bimj.202100406>).
Provides conditional model-based standard errors and local plug-in
sandwich variance approximations, with smoothed penalties. Tools for design-stage lambda calibration
via simulation, including a two-stage coarse-fine grid search, drift-level
early stopping, and per-method tuning under both inference types, are also
provided. A simulation harness for evaluating type I error and statistical
power across population drift scenarios is included.
Author: Yusuke Yamaguchi [aut, cre]
Maintainer: Yusuke Yamaguchi <yamagubed@gmail.com>
Diff between fdb versions 0.2.0 dated 2026-10-04 and 0.2.2 dated 2026-10-10
DESCRIPTION | 8 MD5 | 56 +- NAMESPACE | 4 NEWS.md | 118 +++-- R/calibration.R | 6 R/censoring.R |only R/fdb-package.R | 17 R/fit_methods.R | 660 ++++++++++++++--------------- R/method_labels.R |only R/optimize_delta.R | 257 ++++++----- R/penalties.R | 366 ++++++++-------- R/simulate_data.R | 310 ++++++------- R/simulation.R | 14 R/study_wrapper.R | 2 README.md | 34 + inst/doc/fdb-intro.Rmd | 226 ++++----- inst/doc/fdb-intro.html | 21 man/add_ess_to_simulation_result.Rd | 4 man/calibrate_censor_rate.Rd |only man/compute_ess_from_raw.Rd | 4 man/fdb-package.Rd | 10 man/fit_P3_info_MCP.Rd | 14 man/method_labels.Rd |only man/run_simulation.Rd | 2 man/simulate_hybrid_cox.Rd | 10 tests/testthat/test-fit-methods.R | 164 +++---- tests/testthat/test-fixed-censoring.R |only tests/testthat/test-manuscript-penalties.R | 256 +++++------ tests/testthat/test-release-controls.R | 154 +++--- tests/testthat/test-simulation.R | 82 +-- tests/testthat/test-standardized-mcp.R |only vignettes/fdb-intro.Rmd | 226 ++++----- 32 files changed, 1568 insertions(+), 1457 deletions(-)
Title: Fast Compact Multilayer Perceptrons
Description: A small multilayer perceptron implementation for
'R'. It supports regression and classification, multiple hidden layers,
mini-batch training, adaptive moment estimation, stochastic gradient descent,
momentum, Nesterov acceleration, resilient backpropagation and limited-memory
quasi-Newton optimization, dropout, squared-weight regularization, early
stopping, convergence thresholds, gradient clipping, sample and class weights,
callback hooks,
target scaling and robust Huber loss for regression, 'Rcpp' forward-pass
kernels, formula interfaces, model evaluation with balanced classification
metrics, cross-validation, compact tuning, permutation importance, model
persistence helpers, and standard prediction methods. Methods follow
Rumelhart, Hinton and Williams (1986) <doi:10.1038/323533a0>, with
optimizers including Riedmiller and Braun (1993)
<doi:10.1109/ICNN.1993.298623>, Nocedal (1980)
<doi:10.1090/S0025-5718-1980-0572855-7>, and Kingma and Ba (2014)
<doi:10.48550/a [...truncated...]
Author: Feng Ji [aut, cre]
Maintainer: Feng Ji <f.ji@utoronto.ca>
Diff between neuralnetwork versions 0.1.1 dated 2026-09-06 and 0.1.4 dated 2026-10-10
DESCRIPTION | 16 MD5 | 60 +- NEWS.md | 75 +++ R/engine.R | 188 ++++++-- R/neuralnetwork.R | 779 ++++++++++++++++++++++++++---------- README.md | 45 +- inst/WORDLIST | 9 inst/doc/neuralnetwork.R | 37 + inst/doc/neuralnetwork.Rmd | 123 +++++ inst/doc/neuralnetwork.html | 588 ++++++++++++++++----------- man/compat.Rd | 77 ++- man/neuralnetwork-callbacks.Rd | 6 man/neuralnetwork-metrics.Rd | 73 ++- man/neuralnetwork-objects.Rd | 35 + man/neuralnetwork-package.Rd | 7 man/nn_cv.Rd | 20 man/nn_evaluate.Rd | 30 + man/nn_fit.Rd | 59 ++ man/nn_permutation_importance.Rd | 12 man/nn_save.Rd | 9 man/nn_tune.Rd | 18 man/plot.neuralnetwork.Rd | 8 man/predict.neuralnetwork.Rd | 9 man/print.neuralnetwork.Rd | 8 man/summary.neuralnetwork.Rd | 4 src/neuralnetwork.cpp | 8 tests/test-basic.R | 20 tests/test-classification-metrics.R |only tests/test-gradient-optimizers.R |only tests/test-inference.R |only tests/test-regression-data.R |only tests/test-selection-training.R |only tests/test-weighted-minibatches.R |only vignettes/neuralnetwork.Rmd | 123 +++++ 34 files changed, 1842 insertions(+), 604 deletions(-)
Title: A Graphical Interface to Perform STOCSY Analyses on NMR Data
Description: Launches a 'shiny' based application for Nuclear Magnetic Resonance (NMR) data importation and Statistical TOtal Correlation SpectroscopY (STOCSY) analyses in a full interactive approach. The theoretical background and applications of the STOCSY method are described by Cloarec, O., Dumas, M. E., Craig, A., Barton, R. H., Trygg, J., Hudson, J., Blancher, C., Gauguier, D., Lindon, J. C., Holmes, E. & Nicholson, J. (2005) <doi:10.1021/ac048630x>. Spectral alignment follows the interval correlation optimized shifting method of Savorani, F., Tomasi, G. & Engelsen, S. B. (2010) <doi:10.1016/j.jmr.2009.11.012>.
Author: Luiz Henrique Keng Queiroz Junior [aut, cre],
Vitor Mendes de Oliveira [aut],
Renan Ziemann Wilhelms [aut]
Maintainer: Luiz Henrique Keng Queiroz Junior <keng@ufg.br>
Diff between iSTATS versions 1.7 dated 2023-12-05 and 1.8 dated 2026-10-10
iSTATS-1.7/iSTATS/inst/app/global.R |only iSTATS-1.8/iSTATS/DESCRIPTION | 30 iSTATS-1.8/iSTATS/MD5 | 151 +- iSTATS-1.8/iSTATS/NAMESPACE | 7 iSTATS-1.8/iSTATS/NEWS |only iSTATS-1.8/iSTATS/R/alignment_regions.R |only iSTATS-1.8/iSTATS/R/icoshift.R |only iSTATS-1.8/iSTATS/R/icoshift_core.R |only iSTATS-1.8/iSTATS/R/icoshift_scal.R |only iSTATS-1.8/iSTATS/R/main.R | 103 + iSTATS-1.8/iSTATS/build |only iSTATS-1.8/iSTATS/inst/ICOSHIFT.md |only iSTATS-1.8/iSTATS/inst/app/Pretreatment_server.R | 686 +++++++--- iSTATS-1.8/iSTATS/inst/app/Pretreatment_ui.R | 5 iSTATS-1.8/iSTATS/inst/app/alignment_ui.R |only iSTATS-1.8/iSTATS/inst/app/example_data_server.R | 7 iSTATS-1.8/iSTATS/inst/app/functions.R | 1354 ++++++++++++++++++-- iSTATS-1.8/iSTATS/inst/app/plot_interativo_server.R | 373 ++--- iSTATS-1.8/iSTATS/inst/app/plot_interativo_ui.R | 176 +- iSTATS-1.8/iSTATS/inst/app/select_signals_server.R | 1098 +++++++--------- iSTATS-1.8/iSTATS/inst/app/select_signals_ui.R | 32 iSTATS-1.8/iSTATS/inst/app/server.R | 54 iSTATS-1.8/iSTATS/inst/app/session_state.R |only iSTATS-1.8/iSTATS/inst/app/stocsy_i_server.R | 607 +++----- iSTATS-1.8/iSTATS/inst/app/stocsy_i_ui.R | 4 iSTATS-1.8/iSTATS/inst/app/stocsy_is_server.R | 232 --- iSTATS-1.8/iSTATS/inst/app/stocsy_is_ui.R | 4 iSTATS-1.8/iSTATS/inst/app/stocsy_rt_server.R | 266 --- iSTATS-1.8/iSTATS/inst/app/stocsy_rt_ui.R | 4 iSTATS-1.8/iSTATS/inst/app/ui.R | 12 iSTATS-1.8/iSTATS/inst/app/uploader_server.R | 9 iSTATS-1.8/iSTATS/inst/app/uploader_server_CSV.R | 64 iSTATS-1.8/iSTATS/inst/app/uploader_server_Rdata.R | 3 iSTATS-1.8/iSTATS/inst/app/www/alignment_regions.js |only iSTATS-1.8/iSTATS/inst/app/www/istats1.gif |binary iSTATS-1.8/iSTATS/inst/app/www/suggest_regions.png |only iSTATS-1.8/iSTATS/man/iSTATS.Rd | 4 iSTATS-1.8/iSTATS/man/icoshift.Rd |only iSTATS-1.8/iSTATS/tests |only 39 files changed, 3256 insertions(+), 2029 deletions(-)
Title: Reproducible Cardiovascular Health Metric Scoring
Description: Provides a reproducible R implementation of the American Heart
Association Life's Essential 8 cardiovascular health scoring framework for
adult records from people aged 20 years or older. Calculates the eight
component scores and their unweighted composite score from available
component data using the 2022 adult definition described by Lloyd-Jones et
al. (2022)
<doi:10.1161/CIR.0000000000001078>.
Author: Carson Richardson [aut, cre, cph] ,
Amrik Khalsa [ctb] ,
Sara Conroy [ctb]
Maintainer: Carson Richardson <carson.richardson@outlook.com>
Diff between essential8 versions 0.1.0 dated 2026-09-03 and 0.2.0 dated 2026-10-10
DESCRIPTION | 35 + MD5 | 33 - NEWS.md | 19 R/diet-mepa.R | 47 +- R/essential8-package.R | 9 R/score-le8.R | 390 ++++++++++++---- README.md | 73 ++- inst/doc/essential8-get-started.R | 17 inst/doc/essential8-get-started.Rmd | 58 +- inst/doc/essential8-get-started.html | 70 ++- man/essential8-package.Rd | 9 man/score_le8.Rd | 48 +- tests/testthat/helper-adult-fixtures.R | 362 ++++++++------- tests/testthat/test-diet-mepa.R | 668 ++++++++++++++--------------- tests/testthat/test-score-le8-missing.R |only tests/testthat/test-score-le8-validation.R | 576 +++++++++++++------------ tests/testthat/test-score-le8.R | 4 vignettes/essential8-get-started.Rmd | 58 +- 18 files changed, 1475 insertions(+), 1001 deletions(-)
Title: R Interface to 'DuckDB' Database with Spatial Extension
Description: Fast and memory-efficient functions to analyze and manipulate large
spatial datasets. It leverages the fast analytical
capabilities of ‘DuckDB’ and its spatial extension (see
<https://duckdb.org/docs/stable/core_extensions/spatial/overview>)
while maintaining compatibility with R’s spatial data ecosystem to
work with spatial vector data.
Author: Adrian Cidre Gonzalez [aut, cre] ,
Egor Kotov [aut] ,
Rafael H. M. Pereira [aut]
Maintainer: Adrian Cidre Gonzalez <adrian.cidre@gmail.com>
Diff between duckspatial versions 1.2.1 dated 2026-07-04 and 1.3.0 dated 2026-10-10
DESCRIPTION | 14 MD5 | 133 +- NAMESPACE | 59 - NEWS.md | 40 R/crs_persistence.R | 7 R/db_extension.R | 49 R/db_utils.R | 6 R/ddbs_affine.R | 80 - R/ddbs_as_spatial.R | 2 R/ddbs_crs.R | 16 R/ddbs_dimensions_ops.R | 16 R/ddbs_extent_funs.R | 89 + R/ddbs_filter.R | 30 R/ddbs_interpolate_aw.R | 32 R/ddbs_join.R | 11 R/ddbs_measure.R | 88 - R/ddbs_mvt.R | 4 R/ddbs_ops_binary.R | 50 R/ddbs_ops_unary.R | 22 R/ddbs_ops_unary_line.R | 14 R/ddbs_predicates.R | 58 - R/ddbs_quadkey.R | 34 R/ddbs_templates.R | 65 - R/ddbs_union.R | 30 R/duckspatial-package.R | 1 R/duckspatial_df.R | 7 R/duckspatial_df_sf_methods.R | 7 R/io_read.R | 20 R/io_register.R | 40 R/io_write.R | 60 - R/io_write_dataset.R | 2 R/nanoarrow_methods.R | 74 + R/utils_not_exported.R | 204 ++- R/zzz.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/aw_interpolation.html | 40 inst/doc/benchmark.R | 711 ++++++------ inst/doc/benchmark.html | 329 +++-- inst/doc/benchmark.qmd | 1180 ++++++++++----------- inst/doc/duckspatial.html | 85 - inst/doc/spatial_joins.html | 11 man/as_nanoarrow_array_stream.duckspatial_df.Rd | 10 man/ddbs_default_conn.Rd | 21 man/ddbs_expand.Rd |only man/ddbs_filter.Rd | 5 man/ddbs_intersection_agg.Rd | 2 man/ddbs_join.Rd | 5 man/ddbs_measure_funs.Rd | 28 man/ddbs_predicate.Rd | 5 tests/testthat/test-crs-persistence.R | 41 tests/testthat/test-db_read.R | 13 tests/testthat/test-db_register.R | 49 tests/testthat/test-db_write.R | 146 ++ tests/testthat/test-ddbs_filter.R | 88 + tests/testthat/test-ddbs_join.R | 15 tests/testthat/test-ddbs_macros.R | 28 tests/testthat/test-ddbs_measure.R | 93 + tests/testthat/test-ddbs_ops_unary.R | 16 tests/testthat/test-ddbs_predicates.R | 170 +++ tests/testthat/test-ddbs_quadkey.R | 41 tests/testthat/test-duckspatial_df_dplyr_methods.R | 70 + tests/testthat/test-duckspatial_df_sf_methods.R | 8 tests/testthat/test-get_query_list.R | 106 + tests/testthat/test-import_view_to_connection.R | 3 tests/testthat/test-nanoarrow_methods.R | 116 +- tests/testthat/test-utils_not_exported.R |only vignettes/benchmark.qmd | 1180 ++++++++++----------- vignettes/data |only 69 files changed, 3787 insertions(+), 2194 deletions(-)
Title: Density Equality Testing
Description: Methods for testing the equality between groups of estimated
density functions. The package implements FDET (Fourier-based Density Equality
Testing) and MDET (Moment-based Density Equality Testing), two new approaches
introduced by the author. Both methods extend an earlier testing approach
by Delicado (2007), "Functional k-sample problem when data are density functions"
<doi:10.1007/s00180-007-0047-y>, which is referred to as DET (Density Equality
Testing) in this package for clarity. FDET compares groups of densities
based on their global shape using Fourier transforms, while MDET tests for
differences in distributional moments. All methods are described in Anarat,
Krutmann and Schwender (2026), "Testing for Differences in Extrinsic Skin Aging
Based on Density Functions" (Under revision).
Author: Akin Anarat [aut, cre]
Maintainer: Akin Anarat <akin.anarat@hhu.de>
Diff between denstest versions 1.0.1 dated 2026-06-25 and 1.0.2 dated 2026-10-10
DESCRIPTION | 10 ++-- MD5 | 21 ++++----- NAMESPACE | 1 NEWS.md | 6 ++ R/calculate_global_distances.R | 32 ++++++++++++++ R/compute_B.R | 36 +++++++++++++--- R/compute_D_residual.R | 8 ++- R/denscomp.R | 91 +++++++++++++++++++++++++++-------------- R/permutation_test.R | 51 +++++++++++++++++++++- R/split_into_groups.R |only man/compute_B.Rd | 4 - man/denscomp.Rd | 4 - 12 files changed, 203 insertions(+), 61 deletions(-)
Title: Bayesian Prior Elicitation, Diagnostics, and Regulatory
Reporting
Description: A toolkit for constructing, validating, and justifying Bayesian priors
in clinical trial settings. Implements expert elicitation via quantile
matching, the roulette method, and moment matching across six distribution
families, linear and logarithmic expert pooling, meta-analytic-predictive
(MAP) priors derived from historical trials, prior-data conflict
diagnostics including the Box p-value (with an exact prior predictive
option for selected prior and data combinations), an exploratory
surprisal (S-value) companion to it, surprise index, information
divergence, and Mahalanobis distance, sensitivity analyses with tornado
and influence heatmap plots, sceptical, robust, and power priors, and
automated prior justification reports. Includes a fully modular 'Shiny'
application for interactive use.
Methods based on O'Hagan et al. (2006, ISBN:9780470029886),
Box (1980) <doi:10.2307/2982063>,
Greenland (2023) <doi:10.1111/sjos.12625>,
Oakley and O'Hagan (2010) <https://tonyohagan [...truncated...]
Author: Ndoh Penn [aut, cre]
Maintainer: Ndoh Penn <ndohpenn9@gmail.com>
Diff between bayprior versions 0.3.2 dated 2026-08-19 and 0.4.0 dated 2026-10-10
bayprior-0.3.2/bayprior/vignettes/bayprior-introduction_files |only bayprior-0.3.2/bayprior/vignettes/robust-priors_files |only bayprior-0.3.2/bayprior/vignettes/sensitivity-analysis_files |only bayprior-0.4.0/bayprior/DESCRIPTION | 29 bayprior-0.4.0/bayprior/MD5 | 134 +- bayprior-0.4.0/bayprior/NAMESPACE | 7 bayprior-0.4.0/bayprior/NEWS.md | 96 + bayprior-0.4.0/bayprior/R/app_server.R | 65 - bayprior-0.4.0/bayprior/R/app_ui.R | 82 + bayprior-0.4.0/bayprior/R/bayprior-package.R | 28 bayprior-0.4.0/bayprior/R/conflict_sensitivity.R | 206 +++ bayprior-0.4.0/bayprior/R/elicitation.R | 11 bayprior-0.4.0/bayprior/R/globals.R | 4 bayprior-0.4.0/bayprior/R/map_prior.R |only bayprior-0.4.0/bayprior/R/mod_conflict.R | 76 + bayprior-0.4.0/bayprior/R/mod_elicitation.R | 45 bayprior-0.4.0/bayprior/R/mod_map_prior.R |only bayprior-0.4.0/bayprior/R/mod_report.R | 28 bayprior-0.4.0/bayprior/R/mod_roulette.R | 24 bayprior-0.4.0/bayprior/R/mod_welcome.R | 346 +++--- bayprior-0.4.0/bayprior/R/plotting.R | 17 bayprior-0.4.0/bayprior/R/prior_report.R | 54 - bayprior-0.4.0/bayprior/R/zzz_patches.R | 24 bayprior-0.4.0/bayprior/README.md | 64 + bayprior-0.4.0/bayprior/build/vignette.rds |binary bayprior-0.4.0/bayprior/inst/WORDLIST | 25 bayprior-0.4.0/bayprior/inst/app/www/custom.css | 370 +++++- bayprior-0.4.0/bayprior/inst/doc/bayprior-introduction.R | 13 bayprior-0.4.0/bayprior/inst/doc/bayprior-introduction.Rmd | 53 bayprior-0.4.0/bayprior/inst/doc/bayprior-introduction.html | 477 +++++--- bayprior-0.4.0/bayprior/inst/doc/conflict-diagnostics.R | 16 bayprior-0.4.0/bayprior/inst/doc/conflict-diagnostics.Rmd | 73 + bayprior-0.4.0/bayprior/inst/doc/conflict-diagnostics.html | 306 +++-- bayprior-0.4.0/bayprior/inst/doc/prior-elicitation.html | 28 bayprior-0.4.0/bayprior/inst/doc/regulatory-reporting.Rmd | 28 bayprior-0.4.0/bayprior/inst/doc/regulatory-reporting.html | 33 bayprior-0.4.0/bayprior/inst/doc/robust-priors.R | 52 bayprior-0.4.0/bayprior/inst/doc/robust-priors.Rmd | 144 ++ bayprior-0.4.0/bayprior/inst/doc/robust-priors.html | 536 ++++++---- bayprior-0.4.0/bayprior/inst/doc/sensitivity-analysis.html | 22 bayprior-0.4.0/bayprior/inst/doc/using-with-rstanarm-brms.R |only bayprior-0.4.0/bayprior/inst/doc/using-with-rstanarm-brms.Rmd |only bayprior-0.4.0/bayprior/inst/doc/using-with-rstanarm-brms.html |only bayprior-0.4.0/bayprior/inst/quarto/templates/prior_report/prior_report.qmd | 124 ++ bayprior-0.4.0/bayprior/man/bayprior.Rd | 28 bayprior-0.4.0/bayprior/man/historical_effect_sizes.Rd |only bayprior-0.4.0/bayprior/man/map_prior.Rd |only bayprior-0.4.0/bayprior/man/plot_tau_posterior.Rd |only bayprior-0.4.0/bayprior/man/prior_conflict.Rd | 47 bayprior-0.4.0/bayprior/man/prior_report.Rd | 7 bayprior-0.4.0/bayprior/man/resolve_tau_prior.Rd |only bayprior-0.4.0/bayprior/tests/testthat/_snaps/plots-snapshots/plot-tornado.svg | 31 bayprior-0.4.0/bayprior/tests/testthat/test-conflict.R | 92 + bayprior-0.4.0/bayprior/tests/testthat/test-map-prior.R |only bayprior-0.4.0/bayprior/tests/testthat/test-s-value.R |only bayprior-0.4.0/bayprior/tests/testthat/test-sensitivity.R | 290 +++++ bayprior-0.4.0/bayprior/vignettes/bayprior-introduction.Rmd | 53 bayprior-0.4.0/bayprior/vignettes/conflict-diagnostics.Rmd | 73 + bayprior-0.4.0/bayprior/vignettes/regulatory-reporting.Rmd | 28 bayprior-0.4.0/bayprior/vignettes/robust-priors.Rmd | 144 ++ bayprior-0.4.0/bayprior/vignettes/using-with-rstanarm-brms.Rmd |only 61 files changed, 3404 insertions(+), 1029 deletions(-)
Title: GC/LC-MS Data Analysis for Environmental Science
Description: Gas/Liquid Chromatography-Mass Spectrometer(GC/LC-MS) Data Analysis for Environmental Science. This package covered topics such molecular isotope ratio, matrix effects and Short-Chain Chlorinated Paraffins analysis etc. in environmental analysis.
Author: Miao YU [aut, cre] ,
Thanh Wang [ctb]
Maintainer: Miao YU <yufreecas@gmail.com>
Diff between enviGCMS versions 0.9.0 dated 2026-10-07 and 0.9.1 dated 2026-10-10
DESCRIPTION | 13 +-- MD5 | 62 ++++++++++------ NAMESPACE | 4 + NEWS.md | 20 +++++ R/RcppExports.R |only R/cleanmgf.R | 8 +- R/formula_engine.R |only R/general.R | 74 +++++++++---------- R/getmzrt.R | 8 +- R/hrmf.R | 24 +++--- R/io.R | 124 +++++++++++++++++++++++---------- R/mda.R | 16 ++-- README.md | 4 - inst/doc/GCMSDA.html | 4 - inst/doc/PooledQC.html | 24 +++--- man/HRMF.Rd | 8 +- man/checkGoldenRules.Rd |only man/cleanMGF.Rd | 2 man/findlipid.Rd | 2 man/findohc.Rd | 4 - man/findpfc.Rd | 2 man/getcsv.Rd | 6 - man/getformula.Rd | 23 +++++- man/getisotopologues.Rd | 6 + man/getpower.Rd | 4 - man/getrangecsv.Rd | 4 - man/plotcc.Rd | 4 - man/plothist.Rd | 4 - man/rcpp_check_golden_rules.Rd |only man/rcpp_decompose_mass.Rd |only man/rcpp_decompose_masses.Rd |only man/rcpp_get_molecule.Rd |only man/rcpp_score_isotopes.Rd |only man/scoreIsotopes.Rd |only src |only tests/testthat/test-formula-advanced.R |only 36 files changed, 281 insertions(+), 173 deletions(-)
Title: Bayesian Global Vector Autoregressions
Description: Estimation of Bayesian Global Vector Autoregressions (BGVAR) with different prior setups and the possibility to introduce stochastic volatility. Built-in priors include the Minnesota, the stochastic search variable selection and Normal-Gamma (NG) prior. For a reference see also Crespo Cuaresma, J., Feldkircher, M. and F. Huber (2016) "Forecasting with Global Vector Autoregressive Models: a Bayesian Approach", Journal of Applied Econometrics, Vol. 31(7), pp. 1371-1391 <doi:10.1002/jae.2504>. Post-processing functions allow for doing predictions, structurally identify the model with short-run or sign-restrictions and compute impulse response functions, historical decompositions and forecast error variance decompositions. Plotting functions are also available. The package has a companion paper: Boeck, M., Feldkircher, M. and F. Huber (2022) "BGVAR: Bayesian Global Vector Autoregressions with Shrinkage Priors in R", Journal of Statistical Software, Vol. 104(9), pp. 1-28 <doi:10.18 [...truncated...]
Author: Maximilian Boeck [aut, cre] ,
Martin Feldkircher [aut] ,
Florian Huber [aut] ,
Darjus Hosszejni [ctb]
Maintainer: Maximilian Boeck <maximilian.boeck@wu.ac.at>
Diff between BGVAR versions 2.5.9 dated 2025-09-22 and 2.7.0 dated 2026-10-10
DESCRIPTION | 14 MD5 | 59 + NEWS | 27 R/BGVAR.R | 120 ++- R/fevd.R | 25 R/hd.R | 27 R/helpers.R | 18 R/irf.R | 28 R/plot.R | 24 R/predict.R | 19 R/utils.R | 383 ++++++---- inst/doc/examples.html | 889 ++++++++++++------------ man/bgvar.Rd | 13 man/fevd.Rd | 3 src/BVAR_linear.cpp | 230 +++--- src/RcppExports.cpp | 2 src/gvar_stacking.cpp | 2 src/helper.cpp | 24 src/helper.h | 2 tests/testthat.R | 4 tests/testthat/helper-postprocessing.R |only tests/testthat/helper-prior-samplers.R |only tests/testthat/test-BGVAR.R | 193 +++++ tests/testthat/test-Rcpp-BVAR-linear.R |only tests/testthat/test-audit-fixes.R |only tests/testthat/test-fevd.R |only tests/testthat/test-forecast-evaluation.R |only tests/testthat/test-hd.R |only tests/testthat/test-higher-lags-trends.R |only tests/testthat/test-horseshoe.R |only tests/testthat/test-input-boundaries.R |only tests/testthat/test-irf.R |only tests/testthat/test-minnesota.R |only tests/testthat/test-normal-gamma-conditionals.R |only tests/testthat/test-normal-gamma.R |only tests/testthat/test-performance-equivalence.R |only tests/testthat/test-predict.R |only tests/testthat/test-prior-corrections.R |only tests/testthat/test-ssvs.R |only tests/testthat/test-stability.R |only 40 files changed, 1269 insertions(+), 837 deletions(-)
Title: Policy Learning
Description: Package for learning and evaluating (subgroup) policies via doubly robust loss functions. Policy learning methods include doubly robust blip/conditional average treatment effect learning and sequential policy tree learning. Methods for (subgroup) policy evaluation include doubly robust cross-fitting and online estimation/sequential validation. See Nordland and Holst (2026) <doi:10.18637/jss.v116.i04> for documentation and references.
Author: Andreas Nordland [aut, cre],
Klaus Holst [aut]
Maintainer: Andreas Nordland <andreasnordland@gmail.com>
Diff between polle versions 1.6.5 dated 2026-09-30 and 1.6.6 dated 2026-10-10
DESCRIPTION | 6 MD5 | 78 +++++----- NEWS.md | 16 ++ R/Q_function.R | 6 R/blip.R | 4 R/c_function.R | 47 +++++- R/estimate_target.R | 199 +++++++--------------------- R/fit_functions.R | 7 R/g_function.R | 8 - R/g_models.R | 25 +-- R/policy_data_functions.R | 48 +++++- R/policy_eval.R | 59 +++----- R/policy_eval_functions.R | 22 --- R/policy_eval_online.R | 4 R/q_models.R | 16 +- inst/doc/optimal_subgroup.html | 6 inst/doc/policy_data.html | 47 +++--- inst/doc/policy_eval.Rmd | 10 - inst/doc/policy_eval.html | 55 +++---- inst/doc/policy_learn.html | 43 ++---- inst/doc/right_censoring.html | 25 +-- man/g_model.Rd | 25 +-- man/get_g_functions.Rd | 8 - man/get_history.Rd | 16 +- man/get_q_functions.Rd | 6 man/policy_eval.Rd | 37 +---- man/policy_eval_online.Rd | 4 man/q_model.Rd | 16 +- tests/testthat/test-c_cox.R | 19 ++ tests/testthat/test-fit_c_functions.R | 197 +++++++++++++++++++++++++++ tests/testthat/test-fit_functions.R | 1 tests/testthat/test-g_models.R | 28 +-- tests/testthat/test-policy_data-functions.R | 43 ++---- tests/testthat/test-policy_eval-censoring.R | 98 +++++++++++++ tests/testthat/test-policy_eval-subgroup.R | 65 +++++++++ tests/testthat/test-policy_eval.R | 79 +++++------ tests/testthat/test-policy_learn-blip.R | 191 +++++++++++++------------- tests/testthat/test-q_glmnet.R | 8 - tests/testthat/test-q_models.R | 4 vignettes/policy_eval.Rmd | 10 - 40 files changed, 937 insertions(+), 649 deletions(-)
More information about ResistantProcrustes at CRAN
Permanent link
Title: Accessing the 'Wordbank' Database
Description: Connecting to 'Wordbank' <https://wordbank.stanford.edu>, an open
repository for developmental vocabulary data from the MacArthur-Bates
Communicative Development Inventories (Frank et al. 2017
<doi:10.1017/S0305000916000209>). Data are read from a versioned dataset
hosted on 'Redivis', so analyses can be pinned to a specific release.
Author: Mika Braginsky [aut, cre, cph],
Daniel Yurovsky [ctb],
Michael Frank [ctb],
Danielle Kellier [ctb],
Alvin Tan [ctb]
Maintainer: Mika Braginsky <mika.br@gmail.com>
This is a re-admission after prior archival of version 1.0.3 dated 2024-03-01
Diff between wordbankr versions 1.0.3 dated 2024-03-01 and 2.0.0 dated 2026-10-10
wordbankr-1.0.3/wordbankr/man/connect_to_wordbank.Rd |only wordbankr-1.0.3/wordbankr/man/get_common_table.Rd |only wordbankr-1.0.3/wordbankr/man/get_instrument_table.Rd |only wordbankr-1.0.3/wordbankr/man/get_wordbank_args.Rd |only wordbankr-2.0.0/wordbankr/DESCRIPTION | 37 wordbankr-2.0.0/wordbankr/MD5 | 80 - wordbankr-2.0.0/wordbankr/NAMESPACE | 3 wordbankr-2.0.0/wordbankr/NEWS.md | 79 - wordbankr-2.0.0/wordbankr/R/crossling.R | 59 - wordbankr-2.0.0/wordbankr/R/derived.R |only wordbankr-2.0.0/wordbankr/R/quantiles.R | 2 wordbankr-2.0.0/wordbankr/R/wordbankr.R | 830 ++++++--------- wordbankr-2.0.0/wordbankr/README.md | 104 + wordbankr-2.0.0/wordbankr/build/partial.rdb |only wordbankr-2.0.0/wordbankr/build/vignette.rds |binary wordbankr-2.0.0/wordbankr/inst/doc/wordbankr.R | 99 - wordbankr-2.0.0/wordbankr/inst/doc/wordbankr.Rmd | 58 - wordbankr-2.0.0/wordbankr/inst/doc/wordbankr.html | 301 +---- wordbankr-2.0.0/wordbankr/man/check_db_args.Rd |only wordbankr-2.0.0/wordbankr/man/get_administration_data.Rd | 41 wordbankr-2.0.0/wordbankr/man/get_aoa.Rd |only wordbankr-2.0.0/wordbankr/man/get_crossling_data.Rd | 12 wordbankr-2.0.0/wordbankr/man/get_crossling_items.Rd | 10 wordbankr-2.0.0/wordbankr/man/get_datasets.Rd | 32 wordbankr-2.0.0/wordbankr/man/get_embeddings.Rd |only wordbankr-2.0.0/wordbankr/man/get_instrument_data.Rd | 39 wordbankr-2.0.0/wordbankr/man/get_instruments.Rd | 14 wordbankr-2.0.0/wordbankr/man/get_item_data.Rd | 18 wordbankr-2.0.0/wordbankr/man/summarise_items.Rd | 10 wordbankr-2.0.0/wordbankr/man/wb_dataset.Rd |only wordbankr-2.0.0/wordbankr/man/wordbankr-package.Rd | 6 wordbankr-2.0.0/wordbankr/tests |only wordbankr-2.0.0/wordbankr/vignettes/wordbankr.Rmd | 58 - 33 files changed, 918 insertions(+), 974 deletions(-)
Title: Generate RNA-Seq Data from Gene-Gene Association Networks
Description: Methods to generate random gene-gene association networks and simulate RNA-seq data from them, as described in Grimes and Datta (2021) <doi:10.18637/jss.v098.i12>. Includes functions to generate random networks of any size and perturb them to obtain differential networks. Network objects are built from individual, overlapping modules that represent pathways. The resulting network has various topological properties that are characteristic of gene regulatory networks. RNA-seq data can be generated such that the association among gene expression profiles reflect the underlying network. A reference RNA-seq dataset can be provided to model realistic marginal distributions. Plotting functions are available to visualize a network, compare two networks, and compare the expression of two genes across multiple networks.
Author: Tyler Grimes [aut, cre],
Somnath Datta [aut]
Maintainer: Tyler Grimes <tyler.grimes@unf.edu>
This is a re-admission after prior archival of version 1.1.3 dated 2021-07-09
Diff between SeqNet versions 1.1.3 dated 2021-07-09 and 1.1.4 dated 2026-10-10
DESCRIPTION | 7 ++++--- MD5 | 29 +++++++++++++++++------------ NAMESPACE | 1 + R/data.R | 23 ++++++++++++----------- R/imports.R | 1 + R/plotting.R | 12 ++++++------ build/partial.rdb |binary build/vignette.rds |only data/reference.rda |binary inst/doc |only man/plot_gene_pair.Rd | 6 +++--- man/plot_modules.Rd | 2 +- man/plot_network.Rd | 2 +- man/plot_network_diff.Rd | 2 +- man/reference.Rd | 13 +++++++------ vignettes |only 16 files changed, 54 insertions(+), 44 deletions(-)
Title: Easy Handling Discrete Time Markov Chains
Description: Description: Functions and S4 classes to create, manage and analyse discrete
time Markov chains. Includes probabilistic analysis of chain structure
(state classification, hitting times, stationary distributions, spectral
and mixing diagnostics), statistical inference (maximum likelihood and
Bayesian estimation, tests of the Markov property, homogeneity, stationarity
and order, simulation), higher-order and multivariate chains, state
aggregation, and import/export to JSON, YAML and CSV. Basic support for
continuous time Markov chains is also provided; some of these functions
depend on the suggested 'ctmcd' package.
See Spedicato (2017) <doi:10.32614/RJ-2017-036>.
Author: Giorgio Alfredo Spedicato [aut, cre] ,
Tae Seung Kang [aut],
Sai Bhargav Yalamanchi [aut],
Mildenberger Thoralf [ctb] ,
Deepak Yadav [aut],
Ignacio Cordon [aut] ,
Vandit Jain [ctb],
Toni Giorgino [ctb] ,
Richel J.C. Bilderbeek [ctb] ,
Daniel Ebbert [ [...truncated...]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between markovchain versions 1.1.1 dated 2026-09-18 and 1.2 dated 2026-10-10
DESCRIPTION | 25 MD5 | 184 +- NAMESPACE | 40 NEWS.md | 65 R/RcppExports.R | 54 R/aggregateStates.R |only R/autoplot.R | 237 ++ R/chainTransforms.R |only R/classesAndMethods.R | 42 R/closestReversible.R |only R/ctmcProbabilistic.R | 2 R/dynamics.R |only R/fitHigherOrder.R | 231 ++ R/fitMTD.R |only R/fittingFunctions.R | 165 + R/generators.R |only R/graphExport.R |only R/higherOrderPredict.R |only R/hommc.R | 70 R/independenceTest.R |only R/markovchainFitAbsorbing.R | 75 R/mixingDiagnostics.R |only R/probabilistic.R | 202 ++ R/random.R | 308 +++ R/selectOrder.R |only R/sensitivity.R |only R/serialization.R |only R/spectralDiagnostics.R |only R/statisticalTests.R | 20 R/zzz.R | 3 build/partial.rdb |only inst/doc/an_introduction_to_markovchain_package.R | 464 ++++- inst/doc/an_introduction_to_markovchain_package.Rmd | 1612 +++++++++++++++---- inst/doc/an_introduction_to_markovchain_package.pdf |binary inst/doc/gsoc_2017_additions.R | 6 inst/doc/gsoc_2017_additions.html | 256 +-- inst/doc/gsoc_2017_additions.qmd | 174 +- inst/doc/higher_order_markov_chains.R | 106 + inst/doc/higher_order_markov_chains.html | 349 +++- inst/doc/higher_order_markov_chains.qmd | 190 ++ inst/extdata/README_berchtold_raftery.md |only inst/extdata/epileptic_seizures.csv |only inst/extdata/koeberg_wind.csv |only man/aggregateStates.Rd |only man/assessIndependence.Rd |only man/autoplot.markovchain.Rd | 39 man/birthDeath.Rd |only man/closestReversible.Rd |only man/dirichletChain.Rd |only man/fitHigherOrder.Rd | 49 man/fitMTD.Rd |only man/gamblersRuin.Rd |only man/higherOrderLogLik.Rd |only man/higherOrderPredict.Rd |only man/hittingProbabilities.Rd | 62 man/identityChain.Rd |only man/impliedTimescales.Rd |only man/is.reversible.Rd |only man/lazyChain.Rd |only man/markovchain-class.Rd | 10 man/markovchainFit.Rd | 97 - man/mergeWith.Rd |only man/mixingTime.Rd |only man/noofVisitsDist.Rd | 28 man/normalizedEntropyRate.Rd |only man/populationGeneticsModel.Rd |only man/predictHommc.Rd | 11 man/randomMarkovChain.Rd |only man/redistribute.Rd |only man/relaxationTime.Rd |only man/rmarkovchain.Rd | 9 man/rouwenhorst.Rd |only man/selectOrder.Rd |only man/sensitivity.Rd |only man/slem.Rd |only man/spectralGap.Rd |only man/statisticalTests.Rd | 7 man/subchain.Rd |only man/tauchen.Rd |only man/timeCorrelations.Rd |only man/toBoundedChain.Rd |only man/toDictionary.Rd |only man/toDot.Rd |only man/toFile.Rd |only man/toNthOrder.Rd |only man/topologicalEntropy.Rd |only man/urnModel.Rd |only src/RcppExports.cpp | 38 src/ctmcClassesAndMethods.cpp | 3 src/ctmcFittingFunctions.cpp | 22 src/ctmcProbabilistic.cpp | 9 src/fitMTD.cpp |only src/fittingFunctions.cpp | 768 +++++---- src/mapFitFunctions.h | 24 src/multinomCI.cpp | 4 src/probabilistic.cpp | 301 +++ src/utils.cpp | 13 tests/testthat/test-aggregateStates.R |only tests/testthat/test-assessIndependence.R |only tests/testthat/test-berchtold-raftery-2002.R |only tests/testthat/test-chainTransforms.R |only tests/testthat/test-closestReversible.R |only tests/testthat/test-ctmc-expectedtime-small.R |only tests/testthat/test-dynamics.R |only tests/testthat/test-fit-byrow-orientation.R |only tests/testthat/test-fit-list-methods.R |only tests/testthat/test-fitHigherOrder.R | 121 + tests/testthat/test-fitMTD.R |only tests/testthat/test-generators.R |only tests/testthat/test-graphExport.R |only tests/testthat/test-higherOrderLogLik.R |only tests/testthat/test-higherOrderPredict.R |only tests/testthat/test-markovchainFit-progress.R |only tests/testthat/test-mergeWith.R |only tests/testthat/test-mixingDiagnostics.R |only tests/testthat/test-predictHommc.R |only tests/testthat/test-random-generators.R |only tests/testthat/test-selectOrder.R |only tests/testthat/test-sensitivity.R |only tests/testthat/test-serialization.R |only tests/testthat/test-spectralDiagnostics.R |only tests/testthat/test-statisticalTests-revised.R | 15 tests/testthat/test-timeCorrelations.R |only tests/testthat/test-xml-summary.R |only tests/testthat/testByrowFalseEquivalence.R |only tests/testthat/testHittingProbabilities.R | 73 tests/testthat/testHittingSolvers.R |only tests/testthat/testMemorySafety.R |only tests/testthat/testNoofVisitsDist.R |only tests/testthat/testParallelRNG.R |only tests/testthat/testPredictKnownState.R |only tests/testthat/testSanitizeAbsorbing.R |only vignettes/an_introduction_to_markovchain_package.Rmd | 1612 +++++++++++++++---- vignettes/gsoc_2017_additions.qmd | 174 +- vignettes/higher_order_markov_chains.qmd | 190 ++ vignettes/markovchainBiblio.bib | 302 +++ 136 files changed, 7110 insertions(+), 1751 deletions(-)
Title: Fourier ARDL Methods: Quantile, Nonlinear, Multi-Threshold &
Unit Root Tests
Description: Implementation of ARDL methods for cointegration analysis with
structural breaks and asymmetric effects. Includes: (1) Fourier Quantile
ARDL (FQARDL), quantile regression with Fourier approximation following
the quantile ARDL of Cho, Kim and Shin (2015)
<doi:10.1016/j.jeconom.2015.05.003>; (2) Fourier Nonlinear ARDL (FNARDL),
asymmetric cointegration with partial sum decomposition following Shin,
Yu and Greenwood-Nimmo (2014) <doi:10.1007/978-1-4899-8008-3_9>;
(3) a deprecated Multi-Threshold NARDL (MTNARDL) function; (4) Fourier
unit root tests, ADF and KPSS tests with Fourier terms following Enders
and Lee (2012) <doi:10.1016/j.econlet.2012.04.081> and Becker, Enders and
Lee (2006) <doi:10.1111/j.1467-9892.2006.00478.x>. Features automatic lag
and frequency selection, Wald bounds statistics with the tables of
Pesaran, Shin and Smith (2001) <doi:10.1002/jae.616> (no verdict with
Fourier terms, for which the tables are not valid), recursive bootstrap
bound [...truncated...]
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between fqardl versions 1.0.6 dated 2026-09-30 and 1.1.0 dated 2026-10-10
DESCRIPTION | 41 ++- MD5 | 60 +++-- NAMESPACE | 5 NEWS.md | 70 ++++++ R/ardl_boot_engine.R |only R/boot_fqardl.R |only R/bounds_test.R | 255 ++++++++++++++++------- R/fnardl.R | 354 +++++++++++++++++++++++++-------- R/fourier.R | 2 R/fqardl.R | 111 ++++++++-- R/funitroot.R | 19 - R/mtnardl.R | 182 ++++++++++++++-- README.md | 10 build |only man/bootstrap_bounds_test.Rd | 118 +++++++++-- man/bootstrap_nardl.Rd | 58 +++++ man/build_nardl_design.Rd |only man/decompose_multi_threshold.Rd | 10 man/fnardl.Rd | 116 ++++++++-- man/fourier_adf_test.Rd | 4 man/fourier_kpss_test.Rd | 4 man/fqardl-package.Rd | 13 - man/fqardl.Rd | 119 ++++++++--- man/generate_fourier_terms.Rd | 2 man/get_pss_critical_values.Rd | 18 + man/mtnardl.Rd | 107 ++++++++- man/perform_bounds_test.Rd | 75 +++++- man/perform_mtnardl_bounds.Rd | 21 + man/perform_nardl_bounds_test.Rd | 29 ++ man/plot.fqardl_mtnardl.Rd |only tests/testthat/test-bootstrap-1.1.0.R |only tests/testthat/test-mtnardl.R | 130 ++++++++++-- tests/testthat/test-regression-1.0.3.R | 2 tests/testthat/test-regression-1.0.6.R |only tests/testthat/test-size-mc.R |only 35 files changed, 1521 insertions(+), 414 deletions(-)
Title: Fourier Bootstrap ARDL Cointegration Test
Description: Implements the Fourier Bootstrap Autoregressive Distributed Lag
(FBARDL) bounds testing approach for cointegration analysis. Combines the
Pesaran, Shin and Smith (2001) <doi:10.1002/jae.616> ARDL bounds testing
framework with Fourier terms to capture smooth structural breaks, as in
Yilanci, Bozoklu and Gorus (2020) <doi:10.1016/j.scs.2020.102035>,
and recursive bootstrap critical values following McNown, Sam and Goh
(2018) <doi:10.1080/00036846.2017.1366643> and Bertelli, Vacca and Zoia
(2022) <doi:10.1016/j.econmod.2022.105987>, with the Fourier frequency
and the lags selected again in every bootstrap replication (a package
choice); finite-sample
bounds test critical values from Kripfganz and Schneider (2020)
<doi:10.1111/obes.12377> for models without Fourier terms. Features
include lag selection via AIC/BIC, Fourier frequency selection by minimum
SSR, long-run and short-run coefficient estimation and diagnostic tests.
Author: Muhammad Alkhalaf [aut, cre, cph]
Maintainer: Muhammad Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between fbardl versions 1.1.0 dated 2026-09-30 and 1.2.0 dated 2026-10-10
DESCRIPTION | 29 +- MD5 | 25 + NEWS.md | 45 +++ R/ardl_boot_engine.R |only R/fbardl-package.R | 34 +- R/fbardl.R | 503 ++++++++++++++++++++++------------------ R/helpers.R | 460 ++++++++++++++++++++---------------- README.md | 54 ++-- build/partial.rdb |binary inst/CITATION | 2 man/fbardl-package.Rd | 47 +-- man/fbardl.Rd | 255 +++++++++++++------- tests/testthat/test-bootstrap.R |only tests/testthat/test-fbardl.R | 80 +++++- tests/testthat/test-size.R |only 15 files changed, 932 insertions(+), 602 deletions(-)
Title: Fast Estimators for Design-Based Inference
Description: Fast procedures for a small set of commonly-used,
design-appropriate estimators with robust standard errors and confidence
intervals. Includes estimators for linear regression, instrumental
variables regression, difference-in-means, Horvitz-Thompson estimation,
and regression improving precision of experimental estimates by
interacting treatment with centered pre-treatment covariates introduced by
Lin (2013) <doi:10.1214/12-AOAS583>. Fixed effects are absorbed by
alternating projections rather than by dummy expansion, and
Horvitz-Thompson variance is computed from the randomization declaration.
Author: Alexander Coppock [aut, cre],
Graeme Blair [aut],
Jasper Cooper [aut],
Luke Sonnet [aut],
Macartan Humphreys [ctb],
Neal Fultz [ctb],
Lily Medina [ctb],
Russell Lenth [ctb],
Molly Offer-Westort [ctb]
Maintainer: Alexander Coppock <acoppock@gmail.com>
Diff between estimatr versions 2.0.0 dated 2026-09-16 and 2.0.1 dated 2026-10-10
DESCRIPTION | 6 MD5 | 90 +- NAMESPACE | 2 NEWS.md | 133 ++ R/RcppExports.R | 4 R/S3_emmeans.R | 13 R/S3_tidy.R | 13 R/difference_in_means.R | 17 R/helper_fit.R | 279 ++++-- R/helper_misc.R | 146 +++ R/horvitz_thompson.R | 15 R/iv_robust.R | 79 + R/lh_robust.R | 41 R/lm_lin.R | 34 R/lm_robust.R | 13 README.md | 2 inst/doc/estimatr2.0.R | 2 inst/doc/estimatr2.0.Rmd | 16 inst/doc/estimatr2.0.html | 38 inst/doc/getting-started.html | 11 inst/doc/mathematical-notes.Rmd | 6 inst/doc/mathematical-notes.html | 77 + man/difference_in_means.Rd | 2 man/lm_lin.Rd | 21 man/lm_robust.Rd | 13 src/RcppExports.cpp | 9 src/lm_robust_helper.cpp | 316 ++++--- tests/testthat/fixtures/external_reference.rds |binary tests/testthat/helper-external.R | 54 + tests/testthat/test_blocked_variance.R | 72 - tests/testthat/test_degenerate.R | 1114 +++++++++++++++++++++++-- tests/testthat/test_difference_in_means.R | 169 +++ tests/testthat/test_errors.R | 32 tests/testthat/test_fe_leverage.R | 120 ++ tests/testthat/test_fixed_effects.R | 70 + tests/testthat/test_horvitz_thompson.R | 112 ++ tests/testthat/test_invariance.R | 64 + tests/testthat/test_iv_robust.R | 40 tests/testthat/test_lh_robust.R | 63 + tests/testthat/test_lm_lin.R | 55 + tests/testthat/test_lm_robust.R | 64 + tests/testthat/test_methods.R | 326 +++++++ tests/testthat/test_vs_clubsandwich.R | 27 tests/testthat/test_vs_fixest_plm.R | 62 + vignettes/estimatr2.0.Rmd | 16 vignettes/mathematical-notes.Rmd | 6 46 files changed, 3362 insertions(+), 502 deletions(-)
Title: Comprehensive ARDL: Panel, Bootstrap and Fourier Methods
Description: A unified framework for Autoregressive Distributed Lag (ARDL) modeling
and cointegration analysis. Implements Panel ARDL with Pooled Mean Group (PMG),
Mean Group (MG), and Dynamic Fixed Effects (DFE) estimators following
Pesaran, Shin and Smith (1999) <doi:10.1080/01621459.1999.10474156>.
Provides the bounds test of Pesaran, Shin and Smith (2001)
<doi:10.1002/jae.616> with the critical values of Kripfganz and Schneider
(2020) <doi:10.1111/obes.12377> and with recursive bootstrap critical
values following Bertelli, Vacca and Zoia (2022)
<doi:10.1016/j.econmod.2022.105987> and McNown, Sam and Goh (2018)
<doi:10.1080/00036846.2017.1366643>. Includes Quantile Nonlinear ARDL
(QNARDL) combining distributional and asymmetric effects based on Shin, Yu
and Greenwood-Nimmo (2014) <doi:10.1007/978-1-4899-8008-3_9>, Fourier ARDL
for modeling smooth structural breaks following Enders and Lee (2012)
<doi:10.1016/j.econlet.2012.04.081>, and Fourier (bootstrap [...truncated...]
Author: Muhammad Abdullah Alkhalaf [aut, cre] ,
Yeleazar Levchenko [ctb] )
Maintainer: Muhammad Abdullah Alkhalaf <muhammedalkhalaf@gmail.com>
Diff between ardlverse versions 2.0.3 dated 2026-09-30 and 2.1.0 dated 2026-10-10
ardlverse-2.0.3/ardlverse/man/dot-aardl_bootstrap.Rd |only ardlverse-2.0.3/ardlverse/man/dot-bootstrap_bounds.Rd |only ardlverse-2.0.3/ardlverse/man/dot-bounds_conclusion.Rd |only ardlverse-2.0.3/ardlverse/man/dot-mtnardl_bootstrap.Rd |only ardlverse-2.1.0/ardlverse/DESCRIPTION | 23 ardlverse-2.1.0/ardlverse/MD5 | 89 - ardlverse-2.1.0/ardlverse/NAMESPACE | 59 ardlverse-2.1.0/ardlverse/NEWS.md | 53 ardlverse-2.1.0/ardlverse/R/ardl_boot_engine.R |only ardlverse-2.1.0/ardlverse/R/augmented_ardl.R | 616 +++---- ardlverse-2.1.0/ardlverse/R/bootstrap_ardl.R | 417 ++-- ardlverse-2.1.0/ardlverse/R/ecm_tools.R |only ardlverse-2.1.0/ardlverse/R/fbnardl.R |only ardlverse-2.1.0/ardlverse/R/fourier_ardl.R | 4 ardlverse-2.1.0/ardlverse/R/mtnardl.R | 880 +++++----- ardlverse-2.1.0/ardlverse/R/panel_ardl.R | 8 ardlverse-2.1.0/ardlverse/R/panel_nardl.R | 4 ardlverse-2.1.0/ardlverse/R/qnardl.R | 8 ardlverse-2.1.0/ardlverse/R/rolling_ardl.R | 2 ardlverse-2.1.0/ardlverse/R/utils_formula.R |only ardlverse-2.1.0/ardlverse/R/zzz.R | 5 ardlverse-2.1.0/ardlverse/README.md | 34 ardlverse-2.1.0/ardlverse/build/partial.rdb |binary ardlverse-2.1.0/ardlverse/inst/replication/replicate_jasa.R | 8 ardlverse-2.1.0/ardlverse/man/aardl.Rd | 201 +- ardlverse-2.1.0/ardlverse/man/ardlverse-package.Rd | 18 ardlverse-2.1.0/ardlverse/man/boot_ardl.Rd | 190 +- ardlverse-2.1.0/ardlverse/man/dot-aardl_conclusion.Rd | 7 ardlverse-2.1.0/ardlverse/man/dot-aardl_critical_values.Rd | 4 ardlverse-2.1.0/ardlverse/man/dot-aardl_design.Rd |only ardlverse-2.1.0/ardlverse/man/dot-aardl_stats.Rd |only ardlverse-2.1.0/ardlverse/man/dot-boot_ardl_stats.Rd |only ardlverse-2.1.0/ardlverse/man/dot-compute_mt_multipliers.Rd | 12 ardlverse-2.1.0/ardlverse/man/dot-mt_decompose.Rd | 5 ardlverse-2.1.0/ardlverse/man/dot-mtnardl_bounds_conclusion.Rd | 3 ardlverse-2.1.0/ardlverse/man/dot-select_optimal_thresholds.Rd | 7 ardlverse-2.1.0/ardlverse/man/dot-test_regime_asymmetry.Rd | 14 ardlverse-2.1.0/ardlverse/man/fbnardl.Rd |only ardlverse-2.1.0/ardlverse/man/fourier_ardl.Rd | 4 ardlverse-2.1.0/ardlverse/man/mtnardl.Rd | 234 +- ardlverse-2.1.0/ardlverse/man/panel_ardl.Rd | 8 ardlverse-2.1.0/ardlverse/man/plot.boot_ardl.Rd |only ardlverse-2.1.0/ardlverse/man/plot.fbnardl.Rd |only ardlverse-2.1.0/ardlverse/man/pnardl.Rd | 4 ardlverse-2.1.0/ardlverse/man/print.boot_ardl.Rd |only ardlverse-2.1.0/ardlverse/man/qnardl.Rd | 6 ardlverse-2.1.0/ardlverse/man/rardl.Rd | 2 ardlverse-2.1.0/ardlverse/man/summary.boot_ardl.Rd |only ardlverse-2.1.0/ardlverse/tests/testthat/test-aardl.R | 55 ardlverse-2.1.0/ardlverse/tests/testthat/test-boot-engine.R |only ardlverse-2.1.0/ardlverse/tests/testthat/test-boot_ardl.R | 30 ardlverse-2.1.0/ardlverse/tests/testthat/test-fbnardl.R |only ardlverse-2.1.0/ardlverse/tests/testthat/test-mtnardl.R | 120 + ardlverse-2.1.0/ardlverse/tests/testthat/test-pmg-stata-parity.R | 2 ardlverse-2.1.0/ardlverse/tests/testthat/test-size-mc.R |only 55 files changed, 1897 insertions(+), 1239 deletions(-)
Title: Kernelized Stein Discrepancy for Goodness-of-Fit Tests and Stein
Sampling
Description: Provides Stein-discrepancy goodness-of-fit tests and
Stein-method-based sampling tools. The tests include kernel Stein
discrepancy U- and V-statistics following Liu et al. (2016)
<doi:10.48550/arXiv.1602.03253> and Chwialkowski et al. (2016)
<doi:10.48550/arXiv.1602.02964>, plus the finite set Stein discrepancy
test of Jitkrittum et al. (2017) <doi:10.48550/arXiv.1705.07673>. The
sampling tools include Stein thinning, Stein Points, Stein Point Markov
chain Monte Carlo, and Stein variational gradient descent following
Riabiz et al. (2022) <doi:10.48550/arXiv.2005.03952>, Chen et al. (2018)
<doi:10.48550/arXiv.1803.10161>, Chen et al. (2019)
<doi:10.48550/arXiv.1905.03673>, and Liu and Wang (2016)
<doi:10.48550/arXiv.1608.04471>. Gaussian mixture utilities are included
for constructing example targets, simulation, density evaluation, and
score callbacks.
Author: Junhao Gao [aut, cre],
Ery Arias-Castro [aut]
Maintainer: Junhao Gao <jug049@ucsd.edu>
Diff between steinsampling versions 0.1.2 dated 2026-09-07 and 0.1.3 dated 2026-10-10
steinsampling-0.1.2/steinsampling/man/cross_kernel.Rd |only steinsampling-0.1.2/steinsampling/man/densitygmm.Rd |only steinsampling-0.1.2/steinsampling/man/eval_kernel.Rd |only steinsampling-0.1.2/steinsampling/man/find_median_distance.Rd |only steinsampling-0.1.2/steinsampling/man/fmin_grid.Rd |only steinsampling-0.1.2/steinsampling/man/fmin_mc.Rd |only steinsampling-0.1.2/steinsampling/man/fmin_nm.Rd |only steinsampling-0.1.2/steinsampling/man/fssd_null_pvalue.Rd |only steinsampling-0.1.2/steinsampling/man/fssd_statistic.Rd |only steinsampling-0.1.2/steinsampling/man/grad_theta_v_kernel.Rd |only steinsampling-0.1.2/steinsampling/man/grad_x_kernel.Rd |only steinsampling-0.1.2/steinsampling/man/kernel_scale2.Rd |only steinsampling-0.1.2/steinsampling/man/ksd_u_bootstrap.Rd |only steinsampling-0.1.2/steinsampling/man/ksd_u_statistic.Rd |only steinsampling-0.1.2/steinsampling/man/ksd_v_bootstrap.Rd |only steinsampling-0.1.2/steinsampling/man/ksd_v_statistic.Rd |only steinsampling-0.1.2/steinsampling/man/mala.Rd |only steinsampling-0.1.2/steinsampling/man/print.SteinKernel.Rd |only steinsampling-0.1.2/steinsampling/man/print.stein_points.Rd |only steinsampling-0.1.2/steinsampling/man/print.svgd.Rd |only steinsampling-0.1.2/steinsampling/man/rgmm.Rd |only steinsampling-0.1.2/steinsampling/man/rwm.Rd |only steinsampling-0.1.2/steinsampling/man/sp_mcmc_eval_candidates.Rd |only steinsampling-0.1.2/steinsampling/man/summary.gmm.Rd |only steinsampling-0.1.2/steinsampling/man/summary.sp_mcmc.Rd |only steinsampling-0.1.2/steinsampling/man/summary.stein_points.Rd |only steinsampling-0.1.2/steinsampling/man/summary.svgd.Rd |only steinsampling-0.1.2/steinsampling/man/trace_mixed_kernel.Rd |only steinsampling-0.1.3/steinsampling/DESCRIPTION | 8 steinsampling-0.1.3/steinsampling/MD5 | 121 - steinsampling-0.1.3/steinsampling/NAMESPACE | 6 steinsampling-0.1.3/steinsampling/R/bootstrap.R | 30 steinsampling-0.1.3/steinsampling/R/fssd_test.R | 668 ++++----- steinsampling-0.1.3/steinsampling/R/gmm_model.R | 185 +- steinsampling-0.1.3/steinsampling/R/kernel_classes.R | 427 +++--- steinsampling-0.1.3/steinsampling/R/ksd_u_test.R | 143 +- steinsampling-0.1.3/steinsampling/R/ksd_v_test.R | 116 - steinsampling-0.1.3/steinsampling/R/stein_helpers.R | 116 - steinsampling-0.1.3/steinsampling/R/stein_point_mcmc.R | 451 ++---- steinsampling-0.1.3/steinsampling/R/stein_points.R | 698 ++++------ steinsampling-0.1.3/steinsampling/R/stein_points_alternative_kernel.R | 91 - steinsampling-0.1.3/steinsampling/R/stein_thinning.R | 132 - steinsampling-0.1.3/steinsampling/R/steinsampling-package.R | 71 - steinsampling-0.1.3/steinsampling/R/svgd.R | 96 - steinsampling-0.1.3/steinsampling/build |only steinsampling-0.1.3/steinsampling/man/compute_tau.Rd | 13 steinsampling-0.1.3/steinsampling/man/custom_stein_kernel.Rd | 37 steinsampling-0.1.3/steinsampling/man/fssd_components.Rd |only steinsampling-0.1.3/steinsampling/man/fssd_grad_kernel.Rd |only steinsampling-0.1.3/steinsampling/man/fssd_opt_test.Rd | 67 steinsampling-0.1.3/steinsampling/man/fssd_rand_test.Rd | 34 steinsampling-0.1.3/steinsampling/man/fssd_test.Rd | 62 steinsampling-0.1.3/steinsampling/man/get_score_evaluator.Rd | 14 steinsampling-0.1.3/steinsampling/man/gmm.Rd | 78 - steinsampling-0.1.3/steinsampling/man/kernel_operations.Rd |only steinsampling-0.1.3/steinsampling/man/kernel_scales.Rd |only steinsampling-0.1.3/steinsampling/man/ksd_matrix.Rd | 43 steinsampling-0.1.3/steinsampling/man/ksd_u_components.Rd |only steinsampling-0.1.3/steinsampling/man/ksd_u_test.Rd | 36 steinsampling-0.1.3/steinsampling/man/ksd_v_components.Rd |only steinsampling-0.1.3/steinsampling/man/ksd_v_test.Rd | 46 steinsampling-0.1.3/steinsampling/man/mcmc_transitions.Rd |only steinsampling-0.1.3/steinsampling/man/sp_mcmc.Rd | 122 + steinsampling-0.1.3/steinsampling/man/stein_codescent.Rd | 51 steinsampling-0.1.3/steinsampling/man/stein_kernel.Rd | 20 steinsampling-0.1.3/steinsampling/man/stein_kernel_imq_score.Rd | 29 steinsampling-0.1.3/steinsampling/man/stein_kernel_inverse_log.Rd | 18 steinsampling-0.1.3/steinsampling/man/stein_kernel_matrix.Rd | 12 steinsampling-0.1.3/steinsampling/man/stein_point_optimizers.Rd |only steinsampling-0.1.3/steinsampling/man/stein_points.Rd | 79 - steinsampling-0.1.3/steinsampling/man/stein_thinning.Rd | 48 steinsampling-0.1.3/steinsampling/man/steinsampling-package.Rd | 64 steinsampling-0.1.3/steinsampling/man/svgd.Rd | 41 steinsampling-0.1.3/steinsampling/tests/testthat/helper-test-utils.R | 6 steinsampling-0.1.3/steinsampling/tests/testthat/test-fssd.R | 26 steinsampling-0.1.3/steinsampling/tests/testthat/test-gof-scale-contract.R | 14 steinsampling-0.1.3/steinsampling/tests/testthat/test-kernels.R | 12 steinsampling-0.1.3/steinsampling/tests/testthat/test-ksd.R | 35 steinsampling-0.1.3/steinsampling/tests/testthat/test-optimizers-and-sampling.R | 21 steinsampling-0.1.3/steinsampling/tests/testthat/test-svgd-spmcmc.R | 13 80 files changed, 2350 insertions(+), 2050 deletions(-)
Title: Scientific Computation Using R
Description: A collection of undergraduate level mathematical routines for
quantitative work, covering calculus, distribution functions, random
variate generation, linear algebra, differential equations and
optimization, sized for one semester. The package is best studied with
its source open: every routine is short and written to be read.
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between mathr versions 0.1.3 dated 2026-09-10 and 0.1.5 dated 2026-10-10
DESCRIPTION | 9 - MD5 | 341 +++++++++++++++++++++++++------------------------- R/Choose.R | 2 R/Dbeta.R | 2 R/Dbinom.R | 2 R/Dchisq.R | 2 R/Dec2Bin.R | 6 R/Df.R | 2 R/Dgamma.R | 2 R/Dlnorm.R | 2 R/Dnorm.R | 2 R/Dpois.R | 2 R/Dt.R | 2 R/EXP.R | 142 ++++++++++++-------- R/GAMMA.R | 2 R/Invbetai.R | 2 R/Invgammp.R | 2 R/LDLT.R | 2 R/LGAMMA.R | 2 R/LOG.R | 6 R/MachEps2.R | 2 R/MachEps3.R | 3 R/MachEps4.R | 3 R/NORM.R | 9 + R/NashSVD.R | 3 R/Optim0.R | 4 R/Pbeta.R | 2 R/Pbinom.R | 2 R/Pchisq.R | 2 R/Pf.R | 2 R/Pgamma.R | 2 R/Plnorm.R | 2 R/Pnorm.R | 2 R/PolyNom3.R | 4 R/Ppois.R | 2 R/Pt.R | 2 R/Qbeta.R | 2 R/Qbinom.R | 2 R/Qchisq.R | 2 R/Qf.R | 2 R/Qgamma.R | 2 R/Qlnorm.R | 2 R/Qnorm.R | 2 R/Qpois.R | 2 R/Qt.R | 2 R/Rbeta.R | 2 R/Rgamma.R | 8 - R/Rgamma0.R | 6 R/Rmvn.R | 2 R/Rnorm.R | 6 R/Run.test.R | 1 R/SQRT.R | 12 + R/Scalar1.R |only R/SymInv.R | 2 R/VMmin.R | 5 R/betacf.R | 2 R/betai.R | 2 R/betaiapprox.R | 12 - R/ellipse.R | 2 R/erf.R | 2 R/erfc.R | 2 R/erfccheb.R | 10 - R/evJacobi.R | 8 - R/gammln.R | 2 R/gammp.R | 2 R/gammpapprox.R | 12 - R/gammq.R | 2 R/gcf.R | 2 R/gser.R | 2 R/inverfc.R | 2 R/mlr.R | 4 R/romb.R | 4 R/run.p.R | 2 R/runifLC.R | 4 R/simps13.R | 2 R/simps38.R | 2 R/tableFactorial.R | 2 R/trapez0.R | 4 R/trapez1.R | 5 inst/NEWS.Rd | 203 +++++++++++++++++++++++++++++ man/Bin2Dec.Rd | 4 man/Chol.Rd | 8 - man/Choose.Rd | 6 man/DENORM.Rd | 4 man/Dbeta.Rd | 2 man/Dbinom.Rd | 4 man/Dchisq.Rd | 6 man/Dec2Bin.Rd | 6 man/Df.Rd | 6 man/Dgamma.Rd | 4 man/Dlnorm.Rd | 6 man/Dnorm.Rd | 5 man/Dpois.Rd | 4 man/Dt.Rd | 7 - man/EXP.Rd | 6 man/GAMMA.Rd | 7 - man/GQuad8.Rd | 2 man/GetP.Rd | 2 man/LDLT.Rd | 6 man/LGAMMA.Rd | 7 - man/LOG.Rd | 5 man/MachEps2.Rd | 2 man/MachEps3.Rd | 6 man/MachEps4.Rd | 6 man/NORM.Rd | 9 - man/NashSVD.Rd | 2 man/Optim0.Rd | 6 man/OuterProd.Rd | 6 man/Pbeta.Rd | 2 man/Pbinom.Rd | 6 man/Pchisq.Rd | 4 man/Pf.Rd | 6 man/Pgamma.Rd | 4 man/Plnorm.Rd | 8 - man/Pnorm.Rd | 8 - man/PolyNom3.Rd | 2 man/Ppois.Rd | 4 man/Pt.Rd | 8 - man/Qbeta.Rd | 4 man/Qbinom.Rd | 2 man/Qchisq.Rd | 6 man/Qf.Rd | 6 man/Qgamma.Rd | 4 man/Qlnorm.Rd | 10 - man/Qnorm.Rd | 12 + man/Qpois.Rd | 6 man/Qt.Rd | 10 - man/RK4.Rd | 4 man/Rbeta.Rd | 3 man/Rexp.Rd | 4 man/Rgamma.Rd | 3 man/Rgamma0.Rd | 3 man/Rmvn.Rd | 5 man/Rnorm.Rd | 3 man/Round.Rd | 2 man/Run.test.Rd | 7 - man/SQRT.Rd | 3 man/VMmin.Rd | 3 man/betacf.Rd | 4 man/betai.Rd | 6 man/betaiapprox.Rd | 6 man/conv.Rd | 6 man/conv0.Rd | 4 man/dc.Rd | 6 man/deconv.Rd | 6 man/deconv0.Rd | 4 man/ellipRange.Rd | 2 man/ellipse.Rd | 1 man/erf.Rd | 6 man/erfc.Rd | 6 man/erfccheb.Rd | 7 - man/evJacobi.Rd | 2 man/gammln.Rd | 4 man/gammp.Rd | 8 - man/gammpapprox.Rd | 8 - man/gammq.Rd | 8 - man/gcf.Rd | 6 man/gser.Rd | 6 man/invbetai.Rd | 12 + man/inverfc.Rd | 6 man/invgammp.Rd | 8 - man/mlr.Rd | 8 - man/romb.Rd | 8 - man/run.p.Rd | 8 - man/runifLC.Rd | 12 + man/sft.Rd | 2 man/simps13.Rd | 3 man/simps38.Rd | 3 man/tableFactorial.Rd | 4 man/trapez0.Rd | 4 man/trapez1.Rd | 5 tests/regression.R | 188 ++++++++++++++++++++++++++- 172 files changed, 1151 insertions(+), 460 deletions(-)
Title: Financial and Actuarial Mathematics for Life Contingencies
Description: Classes and methods that allow the user to manage life table,
actuarial tables (also multiple decrements tables). Moreover, functions to easily
perform demographic, financial and actuarial mathematics on life contingencies
insurances calculations are contained therein. See Spedicato (2013) <doi:10.18637/jss.v055.i10>.
Author: Giorgio Alfredo Spedicato [aut, cre] ,
Christophe Dutang [ctb] ,
Reinhold Kainhofer [ctb] ,
Kevin J Owens [ctb],
Ernesto Schirmacher [ctb],
Gian Paolo Clemente [ctb] ,
Ivan Williams [ctb]
Maintainer: Giorgio Alfredo Spedicato <spedicato_giorgio@yahoo.it>
Diff between lifecontingencies versions 1.6.0 dated 2026-08-23 and 1.6.3 dated 2026-10-10
DESCRIPTION | 12 MD5 | 124 ++- NAMESPACE | 23 NEWS.md | 44 + R/0_dependencies.R | 41 - R/0_lifetableAndActuarialtableClassesAndMethods.R | 52 + R/1_mdtClassesAndMethods.R | 138 +++ R/3_demographicFunctions.R | 462 ++++++++----- R/5_actuarialFunctions.R | 174 ++-- R/6_randomGenerationFunctions.R | 206 ++--- R/7_tomarkovchain.R | 49 - R/8_mdtFunctions.R | 414 ++++++++++- R/9_demographicExtras.R |only R/RcppExports.R | 40 + R/zzz.R | 18 README.md | 2 build/vignette.rds |binary inst/doc/PensionPlanVal.html | 2 inst/doc/an_introduction_to_lifecontingencies_package.R | 137 --- inst/doc/an_introduction_to_lifecontingencies_package.Rnw | 300 +------- inst/doc/an_introduction_to_lifecontingencies_package.pdf |binary inst/doc/compute-detail.html | 2 inst/doc/demographic_analysis.R |only inst/doc/demographic_analysis.html |only inst/doc/demographic_analysis.qmd |only inst/doc/mortality_projection.pdf |binary inst/doc/multiple_decrement_tables.R |only inst/doc/multiple_decrement_tables.Rmd |only inst/doc/multiple_decrement_tables.html |only inst/doc/pensionfunding.html | 86 +- man/buildMdtFromIndependentRates.Rd |only man/endowment_trio.Rd | 7 man/exn.Rd | 49 + man/independentRatesFromMdt.Rd |only man/lifetable-class.Rd | 3 man/mdt-class.Rd | 12 man/mdtToLong.Rd |only man/median.Rd |only man/modalAge.Rd |only man/multidecrins.Rd | 74 +- man/multiple-life-probabilities.Rd | 3 man/other-demographic-functions.Rd | 18 man/plot-mdt-missing-method.Rd |only man/pxt.Rd | 36 - man/quantile.Rd |only man/rLifeContingencies.Rd | 25 man/rLifes.Rd | 8 man/rmdt.Rd | 6 man/varxn.Rd |only src/Makevars | 2 src/Makevars.win | 2 src/RcppExports.cpp | 172 ++++ src/pxtRcpp.cpp | 99 ++ src/simKernels.cpp |only tests/test-pxt-corner-cases_2.R |only tests/testthat/test-demographic-extras.R |only tests/testthat/test-demographic-functions-optimization.R |only tests/testthat/test-dxt-lifetable-vectorised.R |only tests/testthat/test-exn-aexn-vectorization.R |only tests/testthat/test-exn-definitions.R |only tests/testthat/test-legacy-actuarial.R | 2 tests/testthat/test-mdt-asdt-functions.R |only tests/testthat/test-mdt-s4-actuarial-long.R |only tests/testthat/test-native-memory-safety.R |only tests/testthat/test-optional-markovchain.R |only tests/testthat/test-published-australia-1932.R |only tests/testthat/test-published-destatis-germany.R |only tests/testthat/test-published-finan-ilt.R |only tests/testthat/test-published-grm80-spain.R |only tests/testthat/test-published-ireland-ilt14.R |only tests/testthat/test-published-life-expectancy.R |only tests/testthat/test-published-nchs-us2019.R |only tests/testthat/test-published-sult-ilt.R |only tests/testthat/test-pxt-corner-cases.R |only tests/testthat/test-pxt-fractional-regression-clean.R |only tests/testthat/test-pxt-lifetable-native.R |only tests/testthat/test-sim-vector-kernels.R |only tests/testthat/testMultipleDecrements.R | 88 ++ tests/testthat/testSimulationFunctions.R | 20 vignettes/an_introduction_to_lifecontingencies_package.Rnw | 300 +------- vignettes/demographic_analysis.qmd |only vignettes/lifecontingenciesBiblio.bib | 39 - vignettes/multiple_decrement_tables.Rmd |only 83 files changed, 2032 insertions(+), 1259 deletions(-)
More information about lifecontingencies at CRAN
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Title: Classical Cultural Consensus Analysis
Description: Implements classical cultural consensus analysis with
formal, informal, and covariance agreement models, 'UCINET'-aligned
minimum-residual factor extraction, competence estimation, and
answer-key estimation. Based on the classical framework of Romney,
Weller, and Batchelder (1986)
<doi:10.1525/aa.1986.88.2.02a00020>, Romney, Batchelder, and
Weller (1987) <doi:10.1177/000276487031002003>, and Weller (2007)
<doi:10.1177/1525822X07303502>.
Author: Werner Hertzog [aut, cre]
Maintainer: Werner Hertzog <werner.hertzog@isek.uzh.ch>
Diff between Romney versions 0.1.0 dated 2026-05-20 and 0.1.1 dated 2026-10-10
DESCRIPTION | 19 +++- MD5 | 51 +++++++++--- NAMESPACE | 4 + NEWS.md |only R/agreement.R | 55 +++++++++++-- R/answer_key.R | 137 ++++++++++++++++++++++++++++------ R/consensus.R | 156 ++++++++++++++++++++++++++++++++------- R/simulate_data.R | 56 +++++++------- R/utils.R | 135 ++++++++++++++++++++++++++++----- README.md | 122 ++++++++++++++---------------- build |only inst/CITATION |only inst/doc |only inst/extdata/README.md |only inst/validation |only man/agreement_models.Rd | 41 +++++++++- man/answerkey_covariance.Rd |only man/answerkey_formal.Rd | 45 +++++++++-- man/answerkey_informal.Rd |only man/consensus.Rd | 83 ++++++++++++++++++-- man/simulate_consensus_data.Rd | 38 +++++++-- tests/testthat/helper-ucinet.R |only tests/testthat/test-agreement.R | 16 ++++ tests/testthat/test-answer-key.R | 91 ++++++++++++++++++++++ tests/testthat/test-consensus.R | 47 +++++++++++ tests/testthat/test-simulation.R |only tests/testthat/test-validation.R |only vignettes |only 28 files changed, 872 insertions(+), 224 deletions(-)
Title: Pattern Causality Analysis
Description: Infer causation from observational data through pattern causality analysis (PC), with original algorithm for time series data from Stavroglou et al. (2020) <doi:10.1073/pnas.1918269117>, as well as methodological extensions for spatial cross-sectional data introduced by Zhang & Wang (2025) <doi:10.1080/13658816.2025.2581207>, together with a systematic description proposed in Lyu et al. (2026) <doi:10.1016/j.compenvurbsys.2026.102435>.
Author: Wenbo Lyu [aut, cre, cph]
Maintainer: Wenbo Lyu <lyu.geosocial@gmail.com>
Diff between pc versions 0.2 dated 2026-04-10 and 0.3 dated 2026-10-10
DESCRIPTION | 13 - MD5 | 65 ++++-- NAMESPACE | 23 +- NEWS.md | 76 +++++--- R/Agenerics.R | 24 +- R/RcppExports.R | 20 +- R/dmi.R |only R/fnn.R | 6 R/formatoutput.R | 148 +++++++-------- R/internal_utility.R | 94 +++++----- R/ops.R | 138 +++++++------- R/pc-package.R | 8 R/pc.R | 214 +++++++++++----------- R/zzz.R | 7 README.md | 133 +++++++------- build |only inst/CITATION | 20 +- inst/case/abundance.csv |only inst/doc |only inst/include/pc.h | 2 inst/include/pc/distance.hpp | 117 ++++++++++-- inst/include/pc/dmi.hpp |only inst/include/pc/fnn.hpp | 16 + inst/include/pc/ksginfo.hpp |only inst/include/pc/neighbor.hpp | 31 +++ inst/include/pc/patcaus.hpp | 22 +- inst/include/pc/projection.hpp | 72 ++----- inst/include/pc/symdync.hpp | 10 - man/dmi.Rd |only man/fnn.Rd | 220 +++++++++++------------ man/ops.Rd | 258 +++++++++++++-------------- man/pc.Rd | 332 +++++++++++++++++------------------ src/DMI.cpp |only src/FNN.cpp | 67 +++---- src/PC.cpp | 385 +++++++++++++++++++++++++++++++++-------- src/RcppExports.cpp | 61 ++++-- vignettes |only 37 files changed, 1500 insertions(+), 1082 deletions(-)
Title: Exploratory Subgroup Identification in Survival and GLM Outcomes
Description: Implements statistical methods for exploratory subgroup
identification in clinical trials. Provides tools for identifying patient
subgroups with differential treatment effects using machine learning
approaches including Generalized Random Forests (GRF), LASSO
regularization, and exhaustive combinatorial search algorithms. Supports
survival endpoints (Cox proportional hazards), binary outcomes (log odds
ratio, log relative risk, risk difference), continuous outcomes (mean
difference), and count / rate outcomes (log incidence rate ratio via
Poisson, quasi-Poisson, or negative-binomial GLMs with optional
person-time offset). Features bootstrap bias correction using
infinitesimal jackknife methods to address selection bias in post-hoc
analyses. Designed for clinical researchers conducting exploratory
subgroup analyses in randomized controlled trials, particularly for
multi-regional clinical trials (MRCT) requiring regional consistency
evaluation. Methods are described in Leon et al. (2024) [...truncated...]
Author: Larry Leon [aut, cre]
Maintainer: Larry Leon <larry.leon.05@post.harvard.edu>
Diff between forestsearch versions 0.1.0 dated 2026-03-23 and 0.4.0 dated 2026-10-10
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