Title: Computer Vision for Medical Imaging
Description: Semantic segmentation and object detection for medical images, from a
folder of pictures to a trained model and a figure, in a handful of lines or one
configuration file. Architectures, losses and training run on 'PyTorch' through
'pyplatypus', a 'Python' package which is installed and isolated automatically;
nothing has to be set up by hand. R keeps the parts that make an analysis fast -
reading and combining masks, drawing boxes, plotting, comparing models.
Author: Michal Maj [aut, cre]
Maintainer: Michal Maj <michalmaj116@gmail.com>
Diff between rplatypus versions 0.2.1 dated 2026-11-04 and 0.3.1 dated 2026-11-13
rplatypus-0.2.1/rplatypus/vignettes/figures/bccd-bccd-compare-1.png |only rplatypus-0.2.1/rplatypus/vignettes/figures/bccd-bccd-published-plot-1.png |only rplatypus-0.2.1/rplatypus/vignettes/figures/published-plot-1.png |only rplatypus-0.2.1/rplatypus/vignettes/figures/retinal-vessels-worst-1.png |only rplatypus-0.3.1/rplatypus/DESCRIPTION | 12 rplatypus-0.3.1/rplatypus/MD5 | 261 rplatypus-0.3.1/rplatypus/NAMESPACE | 27 rplatypus-0.3.1/rplatypus/NEWS.md | 2765 +++++++++- rplatypus-0.3.1/rplatypus/R/bridge.R | 213 rplatypus-0.3.1/rplatypus/R/classification.R |only rplatypus-0.3.1/rplatypus/R/components.R | 572 +- rplatypus-0.3.1/rplatypus/R/detection.R | 13 rplatypus-0.3.1/rplatypus/R/errors.R | 4 rplatypus-0.3.1/rplatypus/R/facts.R |only rplatypus-0.3.1/rplatypus/R/fit.R | 601 ++ rplatypus-0.3.1/rplatypus/R/instances.R | 577 ++ rplatypus-0.3.1/rplatypus/R/masks.R | 235 rplatypus-0.3.1/rplatypus/R/models.R | 71 rplatypus-0.3.1/rplatypus/R/plot.R | 44 rplatypus-0.3.1/rplatypus/R/runs.R | 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rplatypus-0.3.1/rplatypus/inst/doc/retinal-vessels.Rmd | 314 + rplatypus-0.3.1/rplatypus/inst/doc/retinal-vessels.html | 368 + rplatypus-0.3.1/rplatypus/inst/doc/volumes.Rmd | 136 rplatypus-0.3.1/rplatypus/inst/doc/volumes.html | 116 rplatypus-0.3.1/rplatypus/inst/python/platypus_shim.py | 623 +- rplatypus-0.3.1/rplatypus/man/available_components.Rd | 41 rplatypus-0.3.1/rplatypus/man/callback_swa.Rd | 14 rplatypus-0.3.1/rplatypus/man/callbacks.Rd | 222 rplatypus-0.3.1/rplatypus/man/class_balance.Rd |only rplatypus-0.3.1/rplatypus/man/classification_data.Rd |only rplatypus-0.3.1/rplatypus/man/classification_metrics.Rd |only rplatypus-0.3.1/rplatypus/man/classifier.Rd |only rplatypus-0.3.1/rplatypus/man/detection_crops.Rd | 5 rplatypus-0.3.1/rplatypus/man/ellipse_measure.Rd |only rplatypus-0.3.1/rplatypus/man/evaluate.Rd | 57 rplatypus-0.3.1/rplatypus/man/evaluate_cases.Rd | 18 rplatypus-0.3.1/rplatypus/man/evaluate_classes.Rd | 3 rplatypus-0.3.1/rplatypus/man/evaluate_images.Rd | 12 rplatypus-0.3.1/rplatypus/man/export_weights.Rd | 61 rplatypus-0.3.1/rplatypus/man/figures/hexsticker_platypus.png |binary rplatypus-0.3.1/rplatypus/man/flow_to_colours.Rd |only rplatypus-0.3.1/rplatypus/man/inspect_masks.Rd | 17 rplatypus-0.3.1/rplatypus/man/instance_shapes.Rd |only rplatypus-0.3.1/rplatypus/man/instance_sizes.Rd |only rplatypus-0.3.1/rplatypus/man/loss_boundary.Rd | 9 rplatypus-0.3.1/rplatypus/man/losses.Rd | 55 rplatypus-0.3.1/rplatypus/man/mask_coverage.Rd | 17 rplatypus-0.3.1/rplatypus/man/metrics.Rd | 78 rplatypus-0.3.1/rplatypus/man/models.Rd | 44 rplatypus-0.3.1/rplatypus/man/optimizers.Rd | 10 rplatypus-0.3.1/rplatypus/man/overlay_instance_agreement.Rd |only rplatypus-0.3.1/rplatypus/man/overlay_instances.Rd |only rplatypus-0.3.1/rplatypus/man/platypus_conditions.Rd | 4 rplatypus-0.3.1/rplatypus/man/platypus_device.Rd | 12 rplatypus-0.3.1/rplatypus/man/platypus_fact.Rd |only rplatypus-0.3.1/rplatypus/man/platypus_fit.Rd | 7 rplatypus-0.3.1/rplatypus/man/platypus_spec.Rd | 20 rplatypus-0.3.1/rplatypus/man/platypus_status.Rd | 26 rplatypus-0.3.1/rplatypus/man/platypus_use_torch.Rd | 21 rplatypus-0.3.1/rplatypus/man/plot.platypus_fit.Rd | 3 rplatypus-0.3.1/rplatypus/man/predict.platypus_fit.Rd | 86 rplatypus-0.3.1/rplatypus/man/read_images.Rd | 28 rplatypus-0.3.1/rplatypus/man/read_record.Rd | 20 rplatypus-0.3.1/rplatypus/man/save_class_masks.Rd |only rplatypus-0.3.1/rplatypus/man/save_class_volumes.Rd |only rplatypus-0.3.1/rplatypus/man/save_masks.Rd | 7 rplatypus-0.3.1/rplatypus/man/segmentation_data.Rd | 47 rplatypus-0.3.1/rplatypus/man/training_history.Rd | 15 rplatypus-0.3.1/rplatypus/tests/testthat/fixtures/field-prose.yml | 169 rplatypus-0.3.1/rplatypus/tests/testthat/helper-engine.R | 198 rplatypus-0.3.1/rplatypus/tests/testthat/helper-rd.R | 33 rplatypus-0.3.1/rplatypus/tests/testthat/helper-vignettes.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-article-pairs.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-available.R | 78 rplatypus-0.3.1/rplatypus/tests/testthat/test-bridge.R | 212 rplatypus-0.3.1/rplatypus/tests/testthat/test-cases.R | 72 rplatypus-0.3.1/rplatypus/tests/testthat/test-classification.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-component-defaults.R | 155 rplatypus-0.3.1/rplatypus/tests/testthat/test-conditions.R | 5 rplatypus-0.3.1/rplatypus/tests/testthat/test-cran-gate.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-detection.R | 51 rplatypus-0.3.1/rplatypus/tests/testthat/test-device-param.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-documented-fields.R | 89 rplatypus-0.3.1/rplatypus/tests/testthat/test-dots-and-decode.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-encoders.R | 38 rplatypus-0.3.1/rplatypus/tests/testthat/test-facts.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-field-delivery.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-flow-colours.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-guide.R | 2 rplatypus-0.3.1/rplatypus/tests/testthat/test-instance-drawing.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-instance-sizes.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-instances.R | 255 rplatypus-0.3.1/rplatypus/tests/testthat/test-label-classes-pair.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-linter-pin.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-mask-check.R | 169 rplatypus-0.3.1/rplatypus/tests/testthat/test-masks.R | 260 rplatypus-0.3.1/rplatypus/tests/testthat/test-measure-pair.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-news-names.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-objectives.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-platform-note.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-plot.R | 27 rplatypus-0.3.1/rplatypus/tests/testthat/test-precomputed-vignettes.R |only rplatypus-0.3.1/rplatypus/tests/testthat/test-predict-names.R |only 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rplatypus-0.3.1/rplatypus/tests/testthat/test-workflow-timeouts.R |only rplatypus-0.3.1/rplatypus/vignettes/blood-cells.Rmd | 155 rplatypus-0.3.1/rplatypus/vignettes/classification.Rmd |only rplatypus-0.3.1/rplatypus/vignettes/configuration.Rmd | 336 + rplatypus-0.3.1/rplatypus/vignettes/data-science-bowl.Rmd | 64 rplatypus-0.3.1/rplatypus/vignettes/fetal-head.Rmd |only rplatypus-0.3.1/rplatypus/vignettes/figures/bccd-bccd-anchor-plot-1.png |binary rplatypus-0.3.1/rplatypus/vignettes/figures/bccd-bccd-anchor-plot-valid-1.png |binary rplatypus-0.3.1/rplatypus/vignettes/figures/bccd-bccd-compare-1.jpg |only rplatypus-0.3.1/rplatypus/vignettes/figures/bccd-bccd-published-plot-1.jpg |only rplatypus-0.3.1/rplatypus/vignettes/figures/cls-cls-history-1.png |only rplatypus-0.3.1/rplatypus/vignettes/figures/cls-cls-photograph-1.jpg |only rplatypus-0.3.1/rplatypus/vignettes/figures/cls-cls-the-fourth-row-1.jpg |only rplatypus-0.3.1/rplatypus/vignettes/figures/cls-cls-what-a-crop-is-1.jpg |only 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Title: Class Cover Catch Digraph Classification
Description: Fit Class Cover Catch Digraph Classification models that can be
used in machine learning. Pure and proper and random walk approaches are
available. Methods are explained in Priebe et al. (2001)
<doi:10.1016/S0167-7152(01)00129-8>, Priebe et al. (2003)
<doi:10.1007/s00357-003-0003-7>, and Manukyan and Ceyhan (2016)
<doi:10.48550/arXiv.1904.04564>.
Author: Fatih Saglam [aut, cre]
Maintainer: Fatih Saglam <saglamf89@gmail.com>
Diff between rcccd versions 0.3.2 dated 2023-04-24 and 0.4.0 dated 2026-11-13
DESCRIPTION | 19 MD5 | 36 - NAMESPACE | 10 NEWS.md |only R/RcppExports.R | 16 R/pcccd_classifier.R | 325 ++++++------ R/pcccd_ensemble_classifier.R |only R/predict.pcccd_classifier.R | 176 ++---- R/predict.pcccd_ensemble_classifier.R |only R/predict.rwcccd_classifier.R | 210 +++----- R/rwcccd_classifier.R | 790 +++++++++++++++---------------- R/utils.R |only README.md | 37 + man/pcccd_classifier.Rd | 6 man/pcccd_ensemble_classifier.Rd |only man/predict.pcccd_ensemble_classifier.Rd |only man/rwcccd_classifier.Rd | 4 src/RcppExports.cpp | 59 +- src/f_cover_pcccd.cpp | 77 +++ src/f_cover_rwcccd.cpp | 203 ++++--- src/predict_utils.cpp |only tests |only 22 files changed, 1035 insertions(+), 933 deletions(-)
Title: Null Models for Categorical and Continuous Community Matrices
Description: Provides null model algorithms for categorical and quantitative
community ecology data. Extends classic binary null models (e.g.,
'curveball', 'swap') to work with categorical data. Provides a stratified
randomization framework for continuous data.
Author: Matthew Kling [aut, cre, cph]
Maintainer: Matthew Kling <mattkling@berkeley.edu>
Diff between nullcat versions 0.2.0 dated 2026-04-06 and 0.3.0 dated 2026-11-13
DESCRIPTION | 8 - MD5 | 86 ++++++------ NAMESPACE | 2 NEWS.md | 18 ++ R/curvecat.R | 4 R/groups.R |only R/nullcat.R | 183 ++++++++++++--------------- R/nullcat_batch.R | 21 ++- R/nullcat_commsim.R | 24 ++- R/quantize.R | 114 ++++++++++++++-- R/quantize_batch.R | 14 +- R/suggest_n_iter.R | 7 - R/swapcat.R | 4 R/tile_groups.R |only R/trace_cat.R | 77 +++++++++-- R/tswapcat.R | 15 +- R/utils.R | 14 +- README.md | 28 +--- build/vignette.rds |binary inst/doc/nullcat.R | 90 ++++++------- inst/doc/nullcat.Rmd | 117 ++++++++--------- inst/doc/nullcat.html | 256 +++++++++++++++++++------------------- man/c0cat.Rd | 5 man/curvecat.Rd | 52 ++++--- man/group_sizes.Rd |only man/nullcat.Rd | 94 ++++++++----- man/nullcat_batch.Rd | 5 man/nullcat_commsim.Rd | 11 + man/nullcat_commsim_seq.Rd | 11 + man/quantize.Rd | 57 +++++--- man/quantize_batch.Rd | 5 man/quantize_commsim.Rd | 2 man/quantize_commsim_seq.Rd | 2 man/quantize_prep.Rd | 50 ++++--- man/r0cat.Rd | 5 man/suggest_n_iter.Rd | 7 - man/swapcat.Rd | 52 ++++--- man/tile_groups.Rd |only man/trace_cat.Rd | 15 ++ man/tswapcat.Rd | 64 +++++---- tests/testthat/Rplots.pdf |binary tests/testthat/test-groups.R |only tests/testthat/test-nullcat.R | 19 ++ tests/testthat/test-quantize.R | 13 + tests/testthat/test-tile_groups.R |only tests/testthat/test-wt.R | 188 +++++++-------------------- vignettes/nullcat.Rmd | 117 ++++++++--------- 47 files changed, 1048 insertions(+), 808 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: NNS (Nonlinear Nonparametric Statistics) leverages partial moments – the fundamental elements of variance that asymptotically approximate the area under f(x) – to provide a robust foundation for nonlinear analysis while maintaining linear equivalences. Designed for real-world data that violates symmetry, linearity, or distributional assumptions, NNS delivers a comprehensive suite of advanced statistical techniques, including: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization, Stochastic superiority / dominance and Advanced Monte Carlo sampling. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995, Second edition: <https://ovvo-financial.github.io/NNS/book/>).
Author: Fred Viole [aut, cre],
Roberto Spadim [ctb],
Rasheed Khoshnaw [ctb]
Maintainer: Fred Viole <ovvo.open.source@gmail.com>
Diff between NNS versions 13.3 dated 2026-10-30 and 14.0 dated 2026-11-13
NNS-13.3/NNS/src/nns_reg_points.cpp |only NNS-13.3/NNS/src/table_ops.cpp |only NNS-14.0/NNS/DESCRIPTION | 8 NNS-14.0/NNS/MD5 | 343 NNS-14.0/NNS/NAMESPACE | 1 NNS-14.0/NNS/R/ANOVA.R | 109 NNS-14.0/NNS/R/ARMA.R | 153 NNS-14.0/NNS/R/ARMA_optim.R | 256 NNS-14.0/NNS/R/Binary_ANOVA.R | 66 NNS-14.0/NNS/R/Boost.R | 25 NNS-14.0/NNS/R/Causal_matrix.R | 138 NNS-14.0/NNS/R/Causation.R | 98 NNS-14.0/NNS/R/Central_tendencies.R | 12 NNS-14.0/NNS/R/Classification.R |only NNS-14.0/NNS/R/Classification_Stack.R |only NNS-14.0/NNS/R/Copula.R | 57 NNS-14.0/NNS/R/Dependence.R | 213 NNS-14.0/NNS/R/FSD.R | 32 NNS-14.0/NNS/R/LPM_UPM_VaR.R | 87 NNS-14.0/NNS/R/Multivariate_Regression.R | 150 NNS-14.0/NNS/R/NNS_Distance_bulk.R | 41 NNS-14.0/NNS/R/NNS_MC.R | 34 NNS-14.0/NNS/R/NNS_VAR.R | 154 NNS-14.0/NNS/R/NNS_VAR_index.R |only NNS-14.0/NNS/R/NNS_meboot.R | 110 NNS-14.0/NNS/R/Normalization.R | 2 NNS-14.0/NNS/R/Numerical_Differentiation.R | 13 NNS-14.0/NNS/R/Partial_Moments.R | 132 NNS-14.0/NNS/R/Partition_Map.R | 62 NNS-14.0/NNS/R/RcppExports.R | 90 NNS-14.0/NNS/R/Regression.R | 356 NNS-14.0/NNS/R/SD_Cluster.R | 18 NNS-14.0/NNS/R/SD_Efficient_Set.R | 3 NNS-14.0/NNS/R/SSD.R | 14 NNS-14.0/NNS/R/Seasonality_Test.R | 185 NNS-14.0/NNS/R/Stack.R | 3795 ++++------ NNS-14.0/NNS/R/Stochastic_superiority.R | 10 NNS-14.0/NNS/R/TSD.R | 13 NNS-14.0/NNS/R/Uni_Causation.R | 378 NNS-14.0/NNS/R/Uni_SD_Routines.R | 13 NNS-14.0/NNS/R/dy_d_wrt.R | 425 - NNS-14.0/NNS/R/dy_dx.R | 33 NNS-14.0/NNS/R/print_methods.R | 12 NNS-14.0/NNS/README.md | 6 NNS-14.0/NNS/inst/doc/NNSvignette_01_Overview.R | 7 NNS-14.0/NNS/inst/doc/NNSvignette_01_Overview.Rmd | 13 NNS-14.0/NNS/inst/doc/NNSvignette_01_Overview.html | 386 - NNS-14.0/NNS/inst/doc/NNSvignette_02_Partial_Moments.R | 2 NNS-14.0/NNS/inst/doc/NNSvignette_02_Partial_Moments.Rmd | 2 NNS-14.0/NNS/inst/doc/NNSvignette_02_Partial_Moments.html | 6 NNS-14.0/NNS/inst/doc/NNSvignette_03_Correlation_and_Dependence.Rmd | 2 NNS-14.0/NNS/inst/doc/NNSvignette_03_Correlation_and_Dependence.html | 61 NNS-14.0/NNS/inst/doc/NNSvignette_04_Normalization_and_Rescaling.R | 38 NNS-14.0/NNS/inst/doc/NNSvignette_04_Normalization_and_Rescaling.Rmd | 52 NNS-14.0/NNS/inst/doc/NNSvignette_04_Normalization_and_Rescaling.html | 83 NNS-14.0/NNS/inst/doc/NNSvignette_05_Sampling.R | 50 NNS-14.0/NNS/inst/doc/NNSvignette_05_Sampling.Rmd | 104 NNS-14.0/NNS/inst/doc/NNSvignette_05_Sampling.html | 244 NNS-14.0/NNS/inst/doc/NNSvignette_06_Comparing_Distributions.Rmd | 6 NNS-14.0/NNS/inst/doc/NNSvignette_06_Comparing_Distributions.html | 95 NNS-14.0/NNS/inst/doc/NNSvignette_07_Clustering_and_Regression.R | 348 NNS-14.0/NNS/inst/doc/NNSvignette_07_Clustering_and_Regression.Rmd | 198 NNS-14.0/NNS/inst/doc/NNSvignette_07_Clustering_and_Regression.html | 628 - NNS-14.0/NNS/inst/doc/NNSvignette_08_Classification.R | 70 NNS-14.0/NNS/inst/doc/NNSvignette_08_Classification.Rmd | 91 NNS-14.0/NNS/inst/doc/NNSvignette_08_Classification.html | 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NNS-14.0/NNS/man/NNS.caus.Rd | 46 NNS-14.0/NNS/man/NNS.copula.Rd | 2 NNS-14.0/NNS/man/NNS.dep.Rd | 17 NNS-14.0/NNS/man/NNS.diff.Rd | 2 NNS-14.0/NNS/man/NNS.gravity.Rd | 7 NNS-14.0/NNS/man/NNS.meboot.Rd | 32 NNS-14.0/NNS/man/NNS.mode.Rd | 9 NNS-14.0/NNS/man/NNS.moments.Rd | 2 NNS-14.0/NNS/man/NNS.norm.Rd | 2 NNS-14.0/NNS/man/NNS.part.Rd | 29 NNS-14.0/NNS/man/NNS.reg.Rd | 381 - NNS-14.0/NNS/man/NNS.seas.Rd | 36 NNS-14.0/NNS/man/NNS.stack.Rd | 49 NNS-14.0/NNS/man/PM.matrix.Rd | 4 NNS-14.0/NNS/man/UPM.VaR.Rd | 4 NNS-14.0/NNS/man/UPM.ratio.Rd | 8 NNS-14.0/NNS/man/dot-nns_fd_weights.Rd |only NNS-14.0/NNS/man/dy.d_.Rd | 19 NNS-14.0/NNS/man/dy.dx.Rd | 5 NNS-14.0/NNS/src/Makevars | 1 NNS-14.0/NNS/src/Makevars.win | 1 NNS-14.0/NNS/src/NNS_VaR_integer.cpp |only NNS-14.0/NNS/src/NNS_class_predict.cpp |only NNS-14.0/NNS/src/NNS_copula.cpp |only NNS-14.0/NNS/src/NNS_dep.cpp | 954 +- NNS-14.0/NNS/src/NNS_distance.cpp | 120 NNS-14.0/NNS/src/NNS_meboot_rho.cpp |only 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Title: AI Agent Runtime
Description: An agent runtime that gives Large Language Models (LLMs)
from 'Anthropic' <https://www.anthropic.com/>, 'OpenAI'
<https://openai.com/>, 'Moonshot' <https://www.moonshot.ai/>, and
'Ollama' <https://ollama.com/> direct access to a live R session with
managed workspace state. Tools execute as R function calls with
provenance tracking, and a deterministic retrieval system keeps
relevant objects in context across turns. Three entry points: a
shell command-line interface (CLI), a console read-eval-print-loop
via chat(), and a Model Context Protocol (MCP) server via serve()
for external clients.
Author: Troy Hernandez [aut, cre] ,
Grant McDermott [ctb] ,
Jorge Krzyzaniak [ctb],
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between corteza versions 0.7.1 dated 2026-08-05 and 0.8.0 dated 2026-11-13
corteza-0.7.1/corteza/R/agent_context.R |only corteza-0.7.1/corteza/R/matrix.R |only corteza-0.7.1/corteza/R/matrix_crypto.R |only corteza-0.7.1/corteza/inst/tinytest/test_matrix.R |only corteza-0.7.1/corteza/inst/tinytest/test_matrix_commands.R |only corteza-0.7.1/corteza/inst/tinytest/test_matrix_reactions.R |only corteza-0.8.0/corteza/DESCRIPTION | 13 corteza-0.8.0/corteza/MD5 | 380 ++ corteza-0.8.0/corteza/NAMESPACE | 17 corteza-0.8.0/corteza/NEWS.md | 1368 ++++++++++ corteza-0.8.0/corteza/R/archival.R | 126 corteza-0.8.0/corteza/R/audit-auxiliary.R |only corteza-0.8.0/corteza/R/audit-delivery.R |only corteza-0.8.0/corteza/R/audit-payload.R |only corteza-0.8.0/corteza/R/audit-read.R |only corteza-0.8.0/corteza/R/audit-request.R |only corteza-0.8.0/corteza/R/audit-stream.R |only corteza-0.8.0/corteza/R/audit-tool-worker.R |only corteza-0.8.0/corteza/R/audit-turn.R |only corteza-0.8.0/corteza/R/auto-command.R |only corteza-0.8.0/corteza/R/auto-log.R |only corteza-0.8.0/corteza/R/auto.R |only corteza-0.8.0/corteza/R/chat-slash.R | 37 corteza-0.8.0/corteza/R/chat.R | 25 corteza-0.8.0/corteza/R/cli-helpers.R | 10 corteza-0.8.0/corteza/R/cli-ui.R | 43 corteza-0.8.0/corteza/R/compact-turn.R | 366 ++ corteza-0.8.0/corteza/R/config.R | 66 corteza-0.8.0/corteza/R/context-budget.R | 109 corteza-0.8.0/corteza/R/context-clm.R |only corteza-0.8.0/corteza/R/context-edit.R |only corteza-0.8.0/corteza/R/context-meter.R | 62 corteza-0.8.0/corteza/R/context-retention.R |only corteza-0.8.0/corteza/R/context-room.R |only corteza-0.8.0/corteza/R/context.R | 388 +- corteza-0.8.0/corteza/R/delegation-bot.R |only corteza-0.8.0/corteza/R/delegation-jobs.R |only corteza-0.8.0/corteza/R/delegation-wire.R |only corteza-0.8.0/corteza/R/deny.R | 14 corteza-0.8.0/corteza/R/deprecated.R |only corteza-0.8.0/corteza/R/diff-render.R | 7 corteza-0.8.0/corteza/R/exec-scan.R |only corteza-0.8.0/corteza/R/fallback.R |only corteza-0.8.0/corteza/R/handles.R | 270 + 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corteza-0.8.0/corteza/R/policy.R | 19 corteza-0.8.0/corteza/R/private-record.R |only corteza-0.8.0/corteza/R/progress.R |only corteza-0.8.0/corteza/R/r-code-scan.R |only corteza-0.8.0/corteza/R/rehydrate.R |only corteza-0.8.0/corteza/R/remote-attach.R |only corteza-0.8.0/corteza/R/remote-bot.R |only corteza-0.8.0/corteza/R/remote-control.R |only corteza-0.8.0/corteza/R/remote-repl.R |only corteza-0.8.0/corteza/R/remote-room-index.R |only corteza-0.8.0/corteza/R/remote-rooms.R |only corteza-0.8.0/corteza/R/repl-clear.R |only corteza-0.8.0/corteza/R/repl-jobs.R |only corteza-0.8.0/corteza/R/repl.R | 475 ++- corteza-0.8.0/corteza/R/room-consult-worker.R |only corteza-0.8.0/corteza/R/room-consult.R |only corteza-0.8.0/corteza/R/room-media.R |only corteza-0.8.0/corteza/R/room-sidebar.R |only corteza-0.8.0/corteza/R/rooms-activity-content.R |only corteza-0.8.0/corteza/R/rooms-activity.R |only corteza-0.8.0/corteza/R/rooms-jobs.R |only corteza-0.8.0/corteza/R/rooms.R |only corteza-0.8.0/corteza/R/run-r-worker.R |only corteza-0.8.0/corteza/R/schema.R | 31 corteza-0.8.0/corteza/R/secrets.R |only corteza-0.8.0/corteza/R/segment.R |only corteza-0.8.0/corteza/R/session-route.R |only corteza-0.8.0/corteza/R/session.R | 100 corteza-0.8.0/corteza/R/session_setup.R | 36 corteza-0.8.0/corteza/R/shell-parse.R |only corteza-0.8.0/corteza/R/shell-scan.R |only corteza-0.8.0/corteza/R/skill.R | 6 corteza-0.8.0/corteza/R/spend.R | 44 corteza-0.8.0/corteza/R/subagent.R | 589 +++- corteza-0.8.0/corteza/R/supervisor.R |only corteza-0.8.0/corteza/R/talker.R |only corteza-0.8.0/corteza/R/tasks.R | 45 corteza-0.8.0/corteza/R/termination.R |only corteza-0.8.0/corteza/R/tool-impl.R | 636 ++++ corteza-0.8.0/corteza/R/tool-output-cap.R | 185 + corteza-0.8.0/corteza/R/tools.R | 7 corteza-0.8.0/corteza/R/turn.R | 871 ++++++ corteza-0.8.0/corteza/R/voice-alloc.R |only corteza-0.8.0/corteza/R/voice-auth.R |only corteza-0.8.0/corteza/R/voice-turn.R |only 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Title: Imbalanced Resampling using SMOTE with Boosting (SMOTEWB)
Description: Provides the SMOTE with boosting (SMOTEWB) algorithm, where SMOTE
is the synthetic minority over-sampling technique. See
F. Sağlam, M. A. Cengiz (2022) <doi:10.1016/j.eswa.2022.117023>. It is a
SMOTE-based resampling technique which creates synthetic data on the links
between nearest neighbors. SMOTEWB uses boosting weights to determine where
to generate new samples and automatically decides the number of neighbors
for each sample. It is robust to noise and outperforms most of the
alternatives according to Matthew Correlation Coefficient metric.
Alternative resampling methods are also available in the package.
This package is superseded by the 'imbalanceKit' package, which contains
all of its methods and more.
Author: Fatih Saglam [aut, cre]
Maintainer: Fatih Saglam <saglamf89@gmail.com>
Diff between SMOTEWB versions 1.2.5 dated 2025-10-16 and 1.2.6 dated 2026-11-13
DESCRIPTION | 20 ++- MD5 | 12 +- NAMESPACE | 16 +- NEWS.md |only R/SMOTEWB-package.R |only R/SMOTEWB.R | 287 ++++++++++++++++++++++++------------------------- R/zzz.R |only man/SMOTEWB-package.Rd |only man/SMOTEWB.Rd | 169 ++++++++++++++-------------- 9 files changed, 261 insertions(+), 243 deletions(-)
Title: Matching Methods for Causal Inference with Time-Series
Cross-Sectional Data
Description: Implements a set of methodological tools
that enable researchers to apply matching methods to
time-series cross-sectional data. Imai, Kim, and Wang
(2023) <https://web.mit.edu/insong/www/pdf/tscs.pdf>
proposes a nonparametric generalization of the
difference-in-differences estimator, which does not rely
on the linearity assumption as often done in
practice. Researchers first select a method of matching
each treated observation for a given unit in a
particular time period with control observations from
other units in the same time period that have a similar
treatment and covariate history. These methods include
standard matching methods based on propensity score and
Mahalanobis distance, as well as weighting methods. Once
matching and refinement is done,
treatment effects can be estimated with
standard errors. The package also offers diagnostics for researchers to assess the quality
of their results.
Author: In Song Kim [aut, cre],
Adam Rauh [aut],
Erik Wang [aut],
Kosuke Imai [aut]
Maintainer: In Song Kim <insong@mit.edu>
Diff between PanelMatch versions 3.1.5 dated 2026-10-01 and 3.1.6 dated 2026-11-13
DESCRIPTION | 8 ++--- MD5 | 18 +++++++----- R/PanelEstimate.R | 15 ++++++++++ R/enforce_lead_restrictions.R | 19 +------------ R/matching_refinement.R | 16 ++++------- R/perform_refinement.R | 8 +++++ inst/doc/panelmatch-overview.pdf |binary tests/manual_tests/test-PanelMatch.R | 42 +++++++++++++++++++++++++++++ tests/manual_tests/test-placebo_test.R | 47 ++++++++++++++++++++++++++++++++- tests/manual_tests/test-ps_match.R |only tests/manual_tests/test-ps_weight.R |only 11 files changed, 134 insertions(+), 39 deletions(-)
Title: Spatial Statistical Modeling and Prediction
Description: Fit, summarize, and predict for a variety of spatial statistical models applied to point-referenced and areal (lattice) data. Parameters are estimated using various methods. Additional modeling features include anisotropy, non-spatial random effects, partition factors, big data approaches, and more. Model-fit statistics are used to summarize, visualize, and compare models. Predictions at unobserved locations are readily obtainable. For additional details, see Dumelle et al. (2023) <doi:10.1371/journal.pone.0282524>.
Author: Michael Dumelle [aut, cre] ,
Matthew Heaton [ctb] ,
Matt Higham [aut] ,
Ryan A. Hill [ctb] ,
Michael Mahon [ctb] ,
Jay M. Ver Hoef [aut]
Maintainer: Michael Dumelle <Dumelle.Michael@epa.gov>
Diff between spmodel versions 0.14.0 dated 2026-09-10 and 0.15.0 dated 2026-11-13
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Title: Generalized Latent Markov Models
Description: Latent Markov models for longitudinal continuous and categorical data. See Bartolucci, Pandolfi, Pennoni (2017)<doi:10.18637/jss.v081.i04>.
Author: Francesco Bartolucci [aut, cre],
Silvia Pandolfi [aut],
Fulvia Pennoni [aut],
Luca Brusa [ctb],
Alessio Farcomeni [ctb],
Alessio Serafini [ctb]
Maintainer: Francesco Bartolucci <francesco.bartolucci@unipg.it>
Diff between LMest versions 4.0.0 dated 2026-10-08 and 4.0.1 dated 2026-11-13
DESCRIPTION | 8 MD5 | 10 - R/est_LM_cat_multinom.R | 399 ++++++++++++++++++++++---------------------- R/lmbasic.R | 11 - R/lmestSearch.R | 2 inst/doc/vignetteLMest.html | 4 6 files changed, 219 insertions(+), 215 deletions(-)
Title: Fast and Memory-Efficient Base R Table Manipulation
Description: A tabular data manipulation, exploration and validation toolkit
with a base R-style interface (subset, transform, aggregate, merge, split)
and no external computation dependency. Grouping, joins, ordering,
filtering, reshaping and delimited-file reading run in a bundled 'C++'
engine that uses multiple threads for the heavier operations. Grouped
reducers accumulate in compiled code without materialising intermediate
columns, so grouped aggregation and counting allocate close to nothing.
Results are returned as an ordinary data frame with a light 'basetable'
class.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between basetable versions 1.4.2 dated 2026-09-18 and 1.4.6 dated 2026-11-13
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Title: Tools for Simulating Direct Behavioral Observation Recording
Procedures Based on Alternating Renewal Processes
Description: Tools for simulating data generated by direct observation
recording. Behavior streams are simulated based on an alternating renewal
process, given specified distributions of event durations and interim
times. Different procedures for recording data can then be applied to the
simulated behavior streams. Functions are provided for the following
recording methods: continuous duration recording, event counting, momentary
time sampling, partial interval recording, whole interval recording, and
augmented interval recording.
Author: James E. Pustejovsky [aut, cre],
Daniel M. Swan [ctb]
Maintainer: James E. Pustejovsky <jepusto@gmail.com>
Diff between ARPobservation versions 1.2.2 dated 2023-08-25 and 1.2.3 dated 2026-11-13
DESCRIPTION | 24 ++++++++++++++++-------- MD5 | 22 +++++++++++----------- NAMESPACE | 1 + NEWS | 5 +++++ R/ARPobservation-package.r | 3 ++- R/plot_methods.R | 18 ++++++++++-------- README.md | 2 +- build/vignette.rds |binary inst/WORDLIST | 1 + inst/doc/Observation-algorithms.html | 4 ++-- man/ARPobservation.Rd | 1 + man/plot.behavior_stream.Rd | 1 - 12 files changed, 50 insertions(+), 32 deletions(-)
More information about ARPobservation at CRAN
Permanent link
Title: Heuristics for the Quadratic Assignment Problem (QAP)
Description: Implements search heuristics for the Quadratic Assignment Problem (QAP). Originally formulated as a facility location problem in operations research, the QAP also has applications in data analysis. The problem is NP-hard.
Author: Michael Hahsler [aut, cre, cph] ,
Franz Rendl [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between qap versions 0.1-3 dated 2026-10-01 and 0.2-0 dated 2026-11-13
DESCRIPTION | 17 +++--- MD5 | 27 ++++++---- NEWS.md | 6 ++ R/qap.R | 120 +++++++++++++++++++++++++++++++++++++++------- R/qapRoTS.R |only R/qapSA.R | 18 +++++- README.md | 48 +++++++++++++----- build/partial.rdb |binary build/vignette.rds |only inst/doc |only man/qap.Rd | 117 ++++++++++++++++++++++++++++++++++++++------ src/init.c | 16 ++++-- src/qapsim.f | 11 +++- src/rots.c |only tests/testthat/test-qap.R | 65 ++++++++++++++++++++++++ vignettes |only 16 files changed, 370 insertions(+), 75 deletions(-)
Title: Bayesian Whole-Genome Regression
Description: Whole-genome regression methods on Bayesian framework fitted via EM
or Gibbs sampling, single step (<doi:10.1534/g3.119.400728>),
univariate and multivariate (<doi:10.1186/s12711-022-00730-w>, <doi:10.1093/genetics/iyae179>),
with optional kernel term and sampling techniques (<doi:10.1186/s12859-017-1582-3>).
Author: Alencar Xavier [aut, cre] ,
William Muir [aut],
David Habier [aut],
Kyle Kocak [aut],
Shizhong Xu [aut],
Katy Rainey [aut]
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between bWGR versions 2.2.18 dated 2026-07-25 and 2.2.19 dated 2026-11-13
DESCRIPTION | 8 - MD5 | 10 +- man/bWGR.Rd | 4 src/RcppEigen20230423.cpp | 6 - src/RcppEigenX20251203.cpp | 4 src/RcppExports.cpp | 210 ++++++++++++++++++++++----------------------- 6 files changed, 121 insertions(+), 121 deletions(-)
Title: Ising Model for Spatial Data
Description: Performs simulations of binary spatial raster data using
the Ising model (Ising (1925) <doi:10.1007/BF02980577>;
Onsager (1944) <doi:10.1103/PhysRev.65.117>). It allows to set a few
parameters that represent internal and external pressures, and the number
of simulations (Stepinski and Nowosad (2023) <doi:10.1098/rsos.231005>).
Author: Jakub Nowosad [aut, cre]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between spatialising versions 0.6.2 dated 2025-09-30 and 1.0.0 dated 2026-11-13
DESCRIPTION | 8 MD5 | 63 +++-- NEWS.md |only R/RcppExports.R | 8 R/data.R | 3 R/kinetic_ising.R | 256 ++++++++++------------- R/spatial_metrics.R | 13 - README.md | 10 build/partial.rdb |binary build/vignette.rds |binary data/r_end.rda |binary inst/doc/Optimizing_spatialising_parameters.R | 9 inst/doc/Optimizing_spatialising_parameters.Rmd | 23 +- inst/doc/Optimizing_spatialising_parameters.html | 73 +++--- inst/doc/external-field.R |only inst/doc/external-field.Rmd |only inst/doc/external-field.html |only inst/raster/maine_probability.tif |only man/composition_index.Rd | 2 man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/kinetic_ising.Rd | 25 ++ man/r_end.Rd | 3 man/spatialising-package.Rd | 5 man/texture_index.Rd | 5 src/RcppExports.cpp | 18 - src/code.cpp | 44 ++- tests/testthat/test-external-field.R |only tests/testthat/test-input_matrix.R | 38 +-- tests/testthat/test-metrics.R | 9 tests/testthat/test-versions.R | 8 vignettes/Optimizing_spatialising_parameters.Rmd | 23 +- vignettes/external-field.Rmd |only 36 files changed, 352 insertions(+), 294 deletions(-)
Title: Multivariable Fractional Polynomial Models with Extensions
Description: Fits multivariable fractional polynomial models with selection of
predictors and functional forms. The mfp2() function supports generalized
linear models, including Gamma and inverse-Gaussian regression;
negative-binomial, multinomial and ordinal regression; generalized
estimating equations for clustered data; Cox and parametric survival
models; and Fine-Gray competing-risks models. Extensions include
approximate cumulative distribution transformations for sigmoid-shaped
associations and spike-at-zero modelling for semi-continuous covariates.
The mfpi() function assesses interactions between a categorical grouping
variable and continuous, binary, or categorical predictors. Fractional
polynomial modelling is described by Royston and Altman (1994)
<doi:10.2307/2986270> and Royston and Sauerbrei (2008,
ISBN:978-0-470-02842-1). The approximate cumulative distribution
extension follows Royston (2014) <doi:10.1177/1536867X1401400206> and
Royston and Sauerbrei (2016) <doi:10.11 [...truncated...]
Author: Edwin Kipruto [aut, cre],
Michael Kammer [aut],
Patrick Royston [aut],
Willi Sauerbrei [aut]
Maintainer: Edwin Kipruto <kiprutoedwin2626@gmail.com>
Diff between mfp2 versions 1.1.0 dated 2026-11-02 and 1.1.1 dated 2026-11-13
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++++------- NEWS.md | 4 ++++ README.md | 3 +++ build/vignette.rds |binary inst/doc/acd-transformations.html | 6 +++--- inst/doc/mfp-methodology.html | 6 +++--- inst/doc/mfp2-user-guide.R |only inst/doc/mfp2-user-guide.Rmd |only inst/doc/mfp2-user-guide.html |only tests/testthat/test_gee_step_memo.R | 22 ++++++++++++++++------ vignettes/mfp2-user-guide.Rmd |only 12 files changed, 45 insertions(+), 24 deletions(-)
Title: Flow Matrix Selection with Statistics and Visualisation
Description: The analysis and representation of flows often presuppose a selection
to facilitate interpretation. Various methods have been proposed for selecting
flows, one of the most widely used being based on major flows: it selects only
the most important flows, absolute or relative, on a local or global scale.
These methods often highlight hierarchies between locations, but the loss of
information caused by selection is rarely taken into account. We
propose statistical indicators to assess the loss of information
and the characteristics of selected flows. We provide functions that select
flows (main, dominant or major flows), provide statistics on selections and
offer visualizations in the form of maps and graphs.
See Beauguitte et al. (2015) <doi:10.4000/netcom.2134> for more details.
Author: Timothee Giraud [cre, aut] ,
Laurent Beauguitte [aut] ,
Marianne Guerois [aut]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
This is a re-admission after prior archival of version 1.1.1 dated 2016-06-06
Diff between flows versions 1.1.1 dated 2016-06-06 and 2.0.0 dated 2026-11-13
flows-1.1.1/flows/R/flows.R |only flows-1.1.1/flows/data |only flows-1.1.1/flows/man/GE.Rd |only flows-1.1.1/flows/man/UA.Rd |only flows-1.1.1/flows/man/compmat.Rd |only flows-1.1.1/flows/man/domflows.Rd |only flows-1.1.1/flows/man/firstflows.Rd |only flows-1.1.1/flows/man/firstflowsg.Rd |only flows-1.1.1/flows/man/nav.Rd |only flows-1.1.1/flows/man/plotDomFlows.Rd |only flows-1.1.1/flows/man/plotMapDomFlows.Rd |only flows-1.1.1/flows/man/prepflows.Rd |only flows-1.1.1/flows/man/statmat.Rd |only flows-2.0.0/flows/DESCRIPTION | 55 - flows-2.0.0/flows/MD5 | 57 - flows-2.0.0/flows/NAMESPACE | 39 - flows-2.0.0/flows/NEWS | 6 flows-2.0.0/flows/R/compare_mat.R |only flows-2.0.0/flows/R/nodal_flows.R |only flows-2.0.0/flows/R/package.R |only flows-2.0.0/flows/R/prepare_mat.R |only flows-2.0.0/flows/R/select_flows.R |only flows-2.0.0/flows/R/stat_mat.R |only flows-2.0.0/flows/R/utils.R |only flows-2.0.0/flows/README.md | 94 ++ flows-2.0.0/flows/build/partial.rdb |only flows-2.0.0/flows/build/vignette.rds |binary flows-2.0.0/flows/inst/csv |only flows-2.0.0/flows/inst/doc/flows.R | 139 +--- flows-2.0.0/flows/inst/doc/flows.Rmd | 287 +++----- flows-2.0.0/flows/inst/doc/flows.html | 964 +++++++++++++++++----------- flows-2.0.0/flows/inst/gpkg |only flows-2.0.0/flows/man/commuters_datasets.Rd |only flows-2.0.0/flows/man/compare_mat.Rd |only flows-2.0.0/flows/man/figures |only flows-2.0.0/flows/man/flows.Rd | 36 - flows-2.0.0/flows/man/map_nodal_flows.Rd |only flows-2.0.0/flows/man/nodal_flows.Rd |only flows-2.0.0/flows/man/plot_nodal_flows.Rd |only flows-2.0.0/flows/man/prepare_mat.Rd |only flows-2.0.0/flows/man/select_flows.Rd |only flows-2.0.0/flows/man/stat_mat.Rd |only flows-2.0.0/flows/vignettes/figure1en.png |binary flows-2.0.0/flows/vignettes/figure2en.png |binary flows-2.0.0/flows/vignettes/flows.Rmd | 287 +++----- 45 files changed, 1138 insertions(+), 826 deletions(-)
Title: Generate Descriptive Statistics
Description: Generate descriptive statistics such as measures of location,
dispersion, frequency tables, cross tables, group summaries and multiple
one/two way tables.
Author: Aravind Hebbali [aut, cre]
Maintainer: Aravind Hebbali <aravindhebbali@rsquaredacademy.com>
Diff between descriptr versions 0.6.0 dated 2024-11-08 and 0.6.1 dated 2026-11-13
descriptr-0.6.0/descriptr/tests/testthat/Rplots.pdf |only descriptr-0.6.1/descriptr/DESCRIPTION | 15 descriptr-0.6.1/descriptr/MD5 | 147 - descriptr-0.6.1/descriptr/NAMESPACE | 28 descriptr-0.6.1/descriptr/NEWS.md | 147 + descriptr-0.6.1/descriptr/R/ds-auto-summary.R | 7 descriptr-0.6.1/descriptr/R/ds-cross-mult.R | 4 descriptr-0.6.1/descriptr/R/ds-cross-table.R | 61 descriptr-0.6.1/descriptr/R/ds-describe.R | 275 ++- descriptr-0.6.1/descriptr/R/ds-freq-factor.R | 12 descriptr-0.6.1/descriptr/R/ds-freq-mult.R | 13 descriptr-0.6.1/descriptr/R/ds-freq-numeric.R | 29 descriptr-0.6.1/descriptr/R/ds-freq-table.R | 28 descriptr-0.6.1/descriptr/R/ds-group-summary-interact.R | 86 - descriptr-0.6.1/descriptr/R/ds-group-summary.R | 123 + descriptr-0.6.1/descriptr/R/ds-mult-table.R | 28 descriptr-0.6.1/descriptr/R/ds-multistats.R | 27 descriptr-0.6.1/descriptr/R/ds-output.R | 49 descriptr-0.6.1/descriptr/R/ds-plots.R | 63 descriptr-0.6.1/descriptr/R/ds-screener.R | 1 descriptr-0.6.1/descriptr/R/ds-summary-stats.R | 78 descriptr-0.6.1/descriptr/R/ds-utils.R | 170 +- descriptr-0.6.1/descriptr/README.md | 32 descriptr-0.6.1/descriptr/build/vignette.rds |binary descriptr-0.6.1/descriptr/inst/doc/categorical-data.html | 182 +- descriptr-0.6.1/descriptr/inst/doc/continuous-data.Rmd | 2 descriptr-0.6.1/descriptr/inst/doc/continuous-data.html | 391 ++-- descriptr-0.6.1/descriptr/inst/doc/visualization.Rmd | 188 +- descriptr-0.6.1/descriptr/inst/doc/visualization.html | 25 descriptr-0.6.1/descriptr/man/descriptr.Rd | 8 descriptr-0.6.1/descriptr/man/ds_auto_freq_table.Rd | 2 descriptr-0.6.1/descriptr/man/ds_auto_summary_stats.Rd | 2 descriptr-0.6.1/descriptr/man/ds_cross_table.Rd | 17 descriptr-0.6.1/descriptr/man/ds_extreme_obs.Rd | 8 descriptr-0.6.1/descriptr/man/ds_freq_table.Rd | 17 descriptr-0.6.1/descriptr/man/ds_gmean.Rd | 6 descriptr-0.6.1/descriptr/man/ds_group_summary.Rd | 15 descriptr-0.6.1/descriptr/man/ds_group_summary_interact.Rd | 13 descriptr-0.6.1/descriptr/man/ds_hmean.Rd | 5 descriptr-0.6.1/descriptr/man/ds_kurtosis.Rd | 9 descriptr-0.6.1/descriptr/man/ds_measures_location.Rd | 5 descriptr-0.6.1/descriptr/man/ds_measures_symmetry.Rd | 6 descriptr-0.6.1/descriptr/man/ds_measures_variation.Rd | 8 descriptr-0.6.1/descriptr/man/ds_mode.Rd | 3 descriptr-0.6.1/descriptr/man/ds_percentiles.Rd | 6 descriptr-0.6.1/descriptr/man/ds_rindex.Rd | 11 descriptr-0.6.1/descriptr/man/ds_skewness.Rd | 9 descriptr-0.6.1/descriptr/man/ds_std_error.Rd | 5 descriptr-0.6.1/descriptr/man/ds_tidy_stats.Rd | 2 descriptr-0.6.1/descriptr/tests/figs/test-plots/ds-plot-density-1.svg | 106 - descriptr-0.6.1/descriptr/tests/figs/test-plots/ds-plot-density-2.svg | 98 - descriptr-0.6.1/descriptr/tests/figs/test-plots/ds-plot-density-3.svg | 94 - descriptr-0.6.1/descriptr/tests/figs/test-plots/ds-screener-1.svg | 2 descriptr-0.6.1/descriptr/tests/testthat.R | 24 descriptr-0.6.1/descriptr/tests/testthat/_snaps/auto-summary.md | 727 ++++---- descriptr-0.6.1/descriptr/tests/testthat/_snaps/cross-table.md | 78 descriptr-0.6.1/descriptr/tests/testthat/_snaps/output.md | 835 ++++------ descriptr-0.6.1/descriptr/tests/testthat/_snaps/plots/ds-plot-hist-1.svg | 16 descriptr-0.6.1/descriptr/tests/testthat/_snaps/plots/ds-plot-hist-2.svg | 66 descriptr-0.6.1/descriptr/tests/testthat/_snaps/plots/ds-plot-hist-3.svg | 58 descriptr-0.6.1/descriptr/tests/testthat/_snaps/plots/ds-plot-hist-4.svg | 16 descriptr-0.6.1/descriptr/tests/testthat/_snaps/plots/ds-plot-hist-5.svg | 66 descriptr-0.6.1/descriptr/tests/testthat/test-auto-summary.R | 58 descriptr-0.6.1/descriptr/tests/testthat/test-cross-table.R | 122 + descriptr-0.6.1/descriptr/tests/testthat/test-deprecated.R |only descriptr-0.6.1/descriptr/tests/testthat/test-describe.R | 375 ++++ descriptr-0.6.1/descriptr/tests/testthat/test-freq-table.R | 159 + descriptr-0.6.1/descriptr/tests/testthat/test-group-summary-interact.R | 179 ++ descriptr-0.6.1/descriptr/tests/testthat/test-group-summary.R | 234 ++ descriptr-0.6.1/descriptr/tests/testthat/test-grouped-input.R |only descriptr-0.6.1/descriptr/tests/testthat/test-multistats.R | 20 descriptr-0.6.1/descriptr/tests/testthat/test-output.R | 17 descriptr-0.6.1/descriptr/tests/testthat/test-plots.R | 58 descriptr-0.6.1/descriptr/tests/testthat/test-summary-stats.R | 97 + descriptr-0.6.1/descriptr/vignettes/continuous-data.Rmd | 2 descriptr-0.6.1/descriptr/vignettes/visualization.Rmd | 188 +- 76 files changed, 3977 insertions(+), 2086 deletions(-)
Title: 'parsnip' Engines for Survival Models
Description: Engines for survival models from the 'parsnip' package. These
include parametric models (e.g., Jackson (2016)
<doi:10.18637/jss.v070.i08>), semi-parametric (e.g., Simon et al
(2011) <doi:10.18637/jss.v039.i05>), and tree-based models (e.g.,
Buehlmann and Hothorn (2007) <doi:10.1214/07-STS242>).
Author: Emil Hvitfeldt [aut] ,
Hannah Frick [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hannah Frick <hannah@posit.co>
Diff between censored versions 0.3.5 dated 2026-09-08 and 0.4.0 dated 2026-11-13
DESCRIPTION | 20 MD5 | 114 +- NAMESPACE | 75 - NEWS.md | 49 R/aaa_survival_prob.R | 54 R/bag_tree-data.R | 32 R/bag_tree-rpart.R | 94 + R/boost_tree-data.R | 15 R/boost_tree-mboost.R | 226 +++- R/censored-package.R | 6 R/decision_tree-data.R | 32 R/decision_tree-rpart.R | 43 R/import-standalone-obj-type.R |only R/import-standalone-survival.R |only R/import-standalone-types-check.R |only R/null_model-data.R |only R/null_model-survival.R |only R/parsnip-utils.R | 131 -- R/partykit.R | 16 R/proportional_hazards-glmnet.R | 71 - R/proportional_hazards-survival.R | 50 R/proportional_hazards.R | 3 R/rand_forest-aorsf.R | 17 R/rand_forest-data.R | 216 +++ R/rand_forest-randomForestSRC.R |only R/rand_forest-ranger.R |only R/survival_reg-data.R | 9 R/survival_reg-survival.R | 86 - R/utils.R |only R/zzz.R | 4 README.md | 3 man/bagging_surv_train.Rd |only man/censored-package.Rd | 1 man/randomForestSRC_internal.Rd |only man/ranger_internal.Rd |only man/survfit_null.Rd |only man/survival_prob_coxph.Rd | 3 man/survival_prob_survfit_null.Rd |only man/survival_time_pecRpart.Rd |only man/survival_time_survfit_null.Rd |only tests/testthat/_snaps/add_censoring_weights.md |only tests/testthat/_snaps/bag_tree-rpart.md | 63 + tests/testthat/_snaps/boost_tree-mboost.md | 125 ++ tests/testthat/_snaps/decision_tree-rpart.md | 64 + tests/testthat/_snaps/partykit.md |only tests/testthat/_snaps/proportional_hazards-glmnet.md | 111 +- tests/testthat/_snaps/proportional_hazards-survival.md | 73 + tests/testthat/_snaps/rand_forest-aorsf.md | 49 tests/testthat/_snaps/rand_forest-randomForestSRC.md |only tests/testthat/_snaps/rand_forest-ranger.md |only tests/testthat/_snaps/survival_reg-flexsurvspline.md | 2 tests/testthat/_snaps/survival_reg-survival.md | 73 + tests/testthat/test-aaa_survival_prob.R | 16 tests/testthat/test-add_censoring_weights.R |only tests/testthat/test-bag_tree-rpart.R | 296 ++++- tests/testthat/test-boost_tree-mboost.R | 812 ++++++++++++++ tests/testthat/test-decision_tree-partykit.R | 102 + tests/testthat/test-decision_tree-rpart.R | 242 +++- tests/testthat/test-null_model-survival.R |only tests/testthat/test-partykit.R | 94 + tests/testthat/test-proportional_hazards-glmnet.R | 933 ++++++++++------- tests/testthat/test-proportional_hazards-survival.R | 499 +++++---- tests/testthat/test-rand_forest-aorsf.R | 174 ++- tests/testthat/test-rand_forest-partykit.R | 99 + tests/testthat/test-rand_forest-randomForestSRC.R |only tests/testthat/test-rand_forest-ranger.R |only tests/testthat/test-survival_reg-flexsurv.R | 180 ++- tests/testthat/test-survival_reg-flexsurvspline.R | 168 ++- tests/testthat/test-survival_reg-survival.R | 406 +++++++ tests/testthat/test-utils.R |only 70 files changed, 4699 insertions(+), 1252 deletions(-)
Title: Model-Independent Variable Selection via the Rule-Based Variable
Priority
Description: A new framework of variable selection, which instead of generating artificial covariates such as permutation importance and knockoffs, creates release rules to examine the affect on the response for each covariate where the conditional distribution of the response variable can be arbitrary and unknown.
Author: Min Lu [aut],
Aster K. Shear [aut],
Udaya B. Kogalur [aut, cre],
Hemant Ishwaran [aut]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between varPro versions 3.3.0 dated 2026-09-22 and 3.4.0 dated 2026-11-13
DESCRIPTION | 8 MD5 | 56 +-- NAMESPACE | 2 NEWS.md | 44 ++ R/outpro.R | 33 + R/partialpro.R | 104 +++++- R/plot.partialpro.R | 398 ++++++++++------------- R/utilities_hotencode.R | 63 ++- R/utilities_partialpro.R | 46 +- R/utilities_uvarpro.R | 43 +- R/utilities_varpro_strength.R | 700 +++++++++++++++++++++--------------------- R/uvarpro.R | 27 + build/partial.rdb |binary data/alzheimers.rda |binary data/glioma.rda |binary data/hrrecov.rda |binary man/cv.varpro.Rd | 286 +++++++++-------- man/importance.Rd | 219 ++++++++++--- man/ivarpro.Rd | 338 +++++++++++--------- man/outpro.Rd | 513 +++++++++++++++--------------- man/partialpro.Rd | 561 +++++++++++++++++---------------- man/plot.ivarpro.Rd | 174 ++++++---- man/plot.partialpro.Rd | 214 +++++++++--- man/uvarpro.Rd | 553 ++++++++++++++++----------------- man/varpro.Rd | 383 +++++++++++----------- src/entry.c | 4 src/shared/random.c | 14 src/shared/random.h | 1 src/varProMain.c | 20 - 29 files changed, 2676 insertions(+), 2128 deletions(-)
Title: Time Varying GARCH Modelling
Description: Simulation, estimation and inference for univariate and multivariate TV(s)-GARCH(p,q,r)-X models, where s indicates the number and shape of the transition functions, p is the ARCH order, q is the GARCH order, r is the asymmetry order, and 'X' indicates that covariates can be included; see Campos-Martins and Sucarrat (2024) <doi:10.18637/jss.v108.i09>. In the multivariate case, variances are estimated equation by equation and dynamic conditional correlations are allowed. The TV long-term component of the variance as in the multiplicative TV-GARCH model of Amado and Terasvirta (2013) <doi:10.1016/j.jeconom.2013.03.006> introduces non-stationarity whereas the GARCH-X short-term component describes conditional heteroscedasticity. Maximisation by parts leads to consistent and asymptotically normal estimates.
Author: Susana Campos-Martins [aut, cre],
Genaro Sucarrat [ctb]
Maintainer: Susana Campos-Martins <scmartins@ucp.pt>
Diff between tvgarch versions 2.4.3 dated 2025-09-01 and 2.5.0 dated 2026-11-13
DESCRIPTION | 10 MD5 | 14 NAMESPACE | 47 +- NEWS | 104 ++--- R/tvgarch-internal.R | 2 R/tvgarch.R | 998 +++++++++++++++++++++++++------------------------ man/tvgarch-package.Rd | 7 man/tvgarch.Rd | 30 + 8 files changed, 647 insertions(+), 565 deletions(-)
Title: Sparse Tropical Algebra
Description: Some of the basic tropical algebra functionality is provided for sparse matrices by applying sparse matrix storage techniques. Some of these are addition and multiplication of vectors and matrices, dot product of the vectors in tropical form and some general equations are also solved using tropical algebra.
Author: Hamza Farooq [aut],
Hafiz Zain Ul Haq [aut, cre],
Muhammad Kashif Hanif [aut],
Karl-Heinz Zimmermann [aut]
Maintainer: Hafiz Zain Ul Haq <zainalibajwa4u@yahoo.com>
This is a re-admission after prior archival of version 0.1.0 dated 2018-07-01
Diff between tropicalSparse versions 0.1.0 dated 2018-07-01 and 0.1.1 dated 2026-11-13
DESCRIPTION | 15 MD5 | 12 R/tropicalsparse.add.R | 2166 +++++++++++++++++++++++------------------------ R/tropicalsparse.mul.R | 1708 ++++++++++++++++++------------------- man/tropicalsparse.mm.Rd | 14 man/tropicalsparse.mv.Rd | 12 tests |only 7 files changed, 1972 insertions(+), 1955 deletions(-)
More information about tropicalSparse at CRAN
Permanent link
Title: Produces Publication-Ready Summary Tables and Plots
Description: Produces tables with descriptive statistics for continuous, categorical and dichotomous variables. It is largely based on the package 'gtsummary'; Sjoberg DD et al. (2021) <doi:10.32614/RJ-2021-053>. The tables can be accompanied by matching boxplots, line plots and stacked barplots, also over time.
Author: Saemi Schaer [aut],
Charlotte Micheloud [cre, aut],
Tudor Jumuga [aut]
Maintainer: Charlotte Micheloud <Charlotte.Micheloud@swisscancerinstitute.ch>
Diff between summarySCI versions 0.1.2 dated 2026-09-14 and 1.0.0 dated 2026-11-13
DESCRIPTION | 26 MD5 | 120 ++- NAMESPACE | 32 NEWS.md | 51 + R/boxplotSCI.R |only R/checks_initial.R |only R/helpers.R | 481 +++++++++++++ R/hemoglobin_data.R |only R/lineplotSCI.R |only R/plotByVisit.R |only R/sciPlot.R |only R/stackedbarplotSCI.R |only R/summarizeByVisit.R |only R/summarizeSCI.R |only R/summaryByVisit.R | 619 +++++++---------- R/summaryByVisitCategorical.R |only R/summaryByVisitContinuous.R |only R/summaryLevels.R | 236 +++++- R/summaryTable.r | 1007 +++++++++++++---------------- README.md | 16 build/vignette.rds |binary data |only inst/doc/boxplotSCI.R |only inst/doc/boxplotSCI.Rmd |only inst/doc/boxplotSCI.html |only inst/doc/summarizeByVisitSCI.R |only inst/doc/summarizeByVisitSCI.Rmd |only inst/doc/summarizeByVisitSCI.html |only inst/doc/summarizeSCI.R |only inst/doc/summarizeSCI.Rmd |only inst/doc/summarizeSCI.html |only inst/doc/summaryByVisit.R | 28 inst/doc/summaryByVisit.Rmd | 274 ++++--- inst/doc/summaryByVisit.html | 72 +- inst/doc/summaryLevels.R | 1 inst/doc/summaryLevels.Rmd | 5 inst/doc/summaryLevels.html | 18 inst/doc/summaryTable.R | 4 inst/doc/summaryTable.Rmd | 8 inst/doc/summaryTable.html | 51 - man/as_natural_factor.Rd |only man/boxplotSCI.Rd |only man/cat_digits.Rd |only man/col_names.Rd |only man/cont_digits.Rd |only man/fisher_test_safe.Rd |only man/geom_mean.Rd | 7 man/geom_sd.Rd |only man/hemoglobin_data.Rd |only man/lineplotSCI.Rd |only man/lineplot_draw.Rd |only man/natural_levels.Rd |only man/plotByVisit.Rd |only man/risk_row.Rd |only man/save_plot.Rd |only man/save_plots.Rd |only man/save_word.Rd |only man/sci_layout.Rd |only man/sci_palette.Rd |only man/sci_plot.Rd |only man/stackedbar_draw.Rd |only man/stackedbarplotSCI.Rd |only man/summarizeByVisitSCI.Rd |only man/summarizeSCI.Rd |only man/summaryByVisit.Rd | 71 +- man/summaryByVisitCategorical.Rd |only man/summaryByVisitContinuous.Rd |only man/summaryLevels.Rd | 51 + man/summaryTable.Rd | 56 + man/tidySummaryByVisit.Rd |only man/to_flextable.Rd |only tests/testthat.R | 1 tests/testthat/helper-boxplotSCI.R |only tests/testthat/helper-plot.R |only tests/testthat/test-boxplotSCI.R |only tests/testthat/test-helpers.R |only tests/testthat/test-lineplotSCI.R |only tests/testthat/test-natural_levels.R |only tests/testthat/test-plotByVisit.R |only tests/testthat/test-stackedbarplotSCI.R |only tests/testthat/test-summarizeByVisitSCI.R |only tests/testthat/test-summarizeSCI.R |only tests/testthat/test-summaryByVisit-extra.R |only tests/testthat/test-summaryByVisit.R | 628 +++++++++++++++--- tests/testthat/test-summaryLevels.R |only tests/testthat/test-summaryTable-extra.R |only tests/testthat/test-summaryTable.R | 667 +++++++++++++++++++ vignettes/boxplotSCI.Rmd |only vignettes/summarizeByVisitSCI.Rmd |only vignettes/summarizeSCI.Rmd |only vignettes/summaryByVisit.Rmd | 274 ++++--- vignettes/summaryLevels.Rmd | 5 vignettes/summaryTable.Rmd | 8 93 files changed, 3361 insertions(+), 1456 deletions(-)
Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to
load live data from a 'LabKey' Server, <https://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a 'LabKey' Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey [aut],
Cory Nathe [cre]
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 3.5.0 dated 2026-07-01 and 3.5.1 dated 2026-11-13
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 4 ++++ R/labkey.defaults.R | 18 ++++++++++++------ R/labkey.rstudio.R | 4 ++-- R/labkey.webdav.R | 21 ++++++--------------- man/Rlabkey-package.Rd | 4 ++-- man/labkey.setCurlOptions.Rd | 16 +++++++++++----- 8 files changed, 48 insertions(+), 41 deletions(-)
Title: R Interface to the 'OpenFHE' Fully Homomorphic Encryption
Library
Description: Provides an R interface to 'OpenFHE', the open-source C++
library for fully homomorphic encryption (Al Badawi and others, 2022)
<https://eprint.iacr.org/2022/915>, which allows computation directly
on encrypted data without access to the secret key. Supports the
Brakerski-Fan-Vercauteren (BFV, 2012) <https://eprint.iacr.org/2012/144>,
Brakerski-Gentry-Vaikuntanathan (BGV, 2014) <doi:10.1145/2633600>, and
Cheon-Kim-Kim-Song (CKKS, 2017) <https://eprint.iacr.org/2016/421>
schemes for arithmetic on encrypted numbers, together with the
Ducas-Micciancio (FHEW, 2015) <https://eprint.iacr.org/2014/816> and
Chillotti-Gama-Georgieva-Izabachene (TFHE, 2020)
<https://eprint.iacr.org/2018/421> schemes for evaluating arbitrary
functions on encrypted bits.
Author: Balasubramanian Narasimhan [aut, cre, cph] ,
New Jersey Institute of Technology [cph] ,
Duality Technologies, Inc. [ctb, cph] ,
Samuel Neves [ctb, cph] ,
Jean-Philippe Aumasson [ctb, cph] ,
Randolph Voorhies [ctb, cph] ,
Shane Grant [ctb, cph] ,
Juan [...truncated...]
Maintainer: Balasubramanian Narasimhan <naras@stanford.edu>
Diff between openfhe.R versions 1.5.1.2 dated 2026-09-25 and 1.6.1 dated 2026-11-13
openfhe.R-1.5.1.2/openfhe.R/inst/openfhe/src/core/include/utils/blockAllocator |only openfhe.R-1.5.1.2/openfhe.R/inst/openfhe/src/core/include/utils/openfhe_log.h |only openfhe.R-1.5.1.2/openfhe.R/inst/openfhe/src/core/lib/utils/blockAllocator |only openfhe.R-1.6.1/openfhe.R/DESCRIPTION | 26 openfhe.R-1.6.1/openfhe.R/MD5 | 1063 +- openfhe.R-1.6.1/openfhe.R/NAMESPACE | 229 openfhe.R-1.6.1/openfhe.R/NEWS.md | 247 openfhe.R-1.6.1/openfhe.R/R/binfhe-keys.R |only openfhe.R-1.6.1/openfhe.R/R/binfhe.R | 151 openfhe.R-1.6.1/openfhe.R/R/ciphertext-accessors.R | 7 openfhe.R-1.6.1/openfhe.R/R/context.R | 42 openfhe.R-1.6.1/openfhe.R/R/cpp11.R | 788 + openfhe.R-1.6.1/openfhe.R/R/cryptocontext-getters.R | 15 openfhe.R-1.6.1/openfhe.R/R/enums.R | 193 openfhe.R-1.6.1/openfhe.R/R/eval-key-map.R | 100 openfhe.R-1.6.1/openfhe.R/R/fast-new.R |only openfhe.R-1.6.1/openfhe.R/R/functional-bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/R/interactive-bootstrap.R | 61 openfhe.R-1.6.1/openfhe.R/R/key-switching.R |only openfhe.R-1.6.1/openfhe.R/R/keys.R | 10 openfhe.R-1.6.1/openfhe.R/R/methods-ckks.R | 124 openfhe.R-1.6.1/openfhe.R/R/methods-encrypt.R | 25 openfhe.R-1.6.1/openfhe.R/R/methods-eval-backlog.R |only openfhe.R-1.6.1/openfhe.R/R/methods-eval-extra.R | 267 openfhe.R-1.6.1/openfhe.R/R/methods-eval.R | 213 openfhe.R-1.6.1/openfhe.R/R/multiparty.R | 105 openfhe.R-1.6.1/openfhe.R/R/object-accessors.R |only openfhe.R-1.6.1/openfhe.R/R/params-getters.R | 11 openfhe.R-1.6.1/openfhe.R/R/params-setters.R |only openfhe.R-1.6.1/openfhe.R/R/params.R | 19 openfhe.R-1.6.1/openfhe.R/R/plaintext-accessors.R | 12 openfhe.R-1.6.1/openfhe.R/R/plaintext.R | 19 openfhe.R-1.6.1/openfhe.R/R/scheme-switching-serializer.R |only openfhe.R-1.6.1/openfhe.R/R/scheme-switching.R |only openfhe.R-1.6.1/openfhe.R/R/schemelet.R |only openfhe.R-1.6.1/openfhe.R/R/secret-sharing.R | 27 openfhe.R-1.6.1/openfhe.R/R/serialization.R | 318 openfhe.R-1.6.1/openfhe.R/R/series-powers.R |only openfhe.R-1.6.1/openfhe.R/R/utils.R | 37 openfhe.R-1.6.1/openfhe.R/README.md | 13 openfhe.R-1.6.1/openfhe.R/build/partial.rdb |binary openfhe.R-1.6.1/openfhe.R/build/vignette.rds |binary openfhe.R-1.6.1/openfhe.R/configure | 21 openfhe.R-1.6.1/openfhe.R/configure.win | 15 openfhe.R-1.6.1/openfhe.R/inst/CITATION | 18 openfhe.R-1.6.1/openfhe.R/inst/COPYRIGHTS | 17 openfhe.R-1.6.1/openfhe.R/inst/build_openfhe.sh | 24 openfhe.R-1.6.1/openfhe.R/inst/doc/binfhe-boolean-circuits.R | 33 openfhe.R-1.6.1/openfhe.R/inst/doc/binfhe-boolean-circuits.Rmd | 30 openfhe.R-1.6.1/openfhe.R/inst/doc/binfhe-boolean-circuits.html | 48 openfhe.R-1.6.1/openfhe.R/inst/doc/ckks-bootstrapping.R | 9 openfhe.R-1.6.1/openfhe.R/inst/doc/ckks-bootstrapping.Rmd | 17 openfhe.R-1.6.1/openfhe.R/inst/doc/ckks-bootstrapping.html | 24 openfhe.R-1.6.1/openfhe.R/inst/doc/introduction.html | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/CMakeLists.txt | 248 openfhe.R-1.6.1/openfhe.R/inst/openfhe/OpenFHEConfig.cmake.in | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/configure/config_core.in | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/CMakeLists.txt | 17 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/binfhe-base-params.h | 66 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/binfhe-base-scheme.h | 353 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/binfhe-constants.h | 218 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/binfhecontext-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/binfhecontext.h | 622 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-ciphertext-fwd.h | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-ciphertext.h | 79 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-cryptoparameters.h | 97 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-keypair-fwd.h | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-keypair.h | 40 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-keyswitchkey-fwd.h | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-keyswitchkey.h | 59 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-keyswitchkey32.h |only openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-pke.h | 281 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-privatekey-fwd.h | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-privatekey.h | 51 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-publickey-fwd.h | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/lwe-publickey.h | 49 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acc-cggi.h | 111 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acc-common.h |only openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acc-dm.h | 114 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acc-lmkcdey.h | 141 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acc.h | 128 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acckey.h | 87 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-acckey32.h |only openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-cryptoparameters.h | 356 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rgsw-evalkey.h | 77 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/include/rlwe-ciphertext.h | 61 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/lib/binfhe-base-scheme.cpp | 235 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/lib/binfhe-constants-impl.cpp | 234 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/lib/binfhecontext.cpp | 274 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/lib/lwe-pke.cpp | 379 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/lib/rgsw-acc-cggi.cpp | 302 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/binfhe/lib/rgsw-acc-dm.cpp | 140 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openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintdyn/transformdyn.h | 762 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintdyn/ubintdyn.h | 681 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintfxd/backendfxd.h | 16 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintfxd/mubintvecfxd.h | 625 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintfxd/transformfxd-impl.h | 475 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintfxd/transformfxd.h | 763 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintfxd/ubintfxd.h | 1175 +- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintntl/backendntl.h | 16 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintntl/mubintvecntl.h | 419 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintntl/transformntl-impl.h | 476 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintntl/transformntl.h | 763 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/bigintntl/ubintntl.h | 976 +- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/integer.h | 623 + openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/intnat/mubintvecnat.h | 886 +- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/intnat/transformnat-impl.h | 1277 +-- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/intnat/transformnat.h | 942 +- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/intnat/ubintnat.h | 2050 ++--- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/nativeintbackend.h | 25 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/transform.h | 351 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hal/vector.h | 530 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/hermite.h | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/math-hal.h | 72 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/matrix-impl.h | 37 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/matrix-utils.h |only openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/matrix.h | 620 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/matrixstrassen-impl.h | 255 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/matrixstrassen.h | 483 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/nbtheory-impl.h | 185 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/nbtheory.h | 262 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/ternaryuniformgenerator-impl.h | 49 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/math/ternaryuniformgenerator.h | 60 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/openfhecore.h | 5 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/testdefs.h | 64 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/README.md | 2 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/caller_info.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/debug.h | 197 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/demangle.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/diagnostic_output.h |only openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/exception.h | 74 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/get-call-stack.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/hashutil.h | 34 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/inttypes.h | 12 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/memory.h | 34 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/openfhebase64.h | 25 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/parallel.h | 85 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/prng/blake2engine.h | 57 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/prng/prng.h | 30 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/serial.h | 26 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/serializable.h | 21 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/sertype.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/type_name.h | 12 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/utilities-int.h | 20 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/utils/utilities.h | 79 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/include/version.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/lattice/constants-lattice-impl.cpp | 7 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/lattice/lattice.cpp | 17 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/lattice/stdlatticeparms.cpp | 293 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/lattice/trapdoor-dcrtpoly.cpp | 28 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/lattice/trapdoor-poly.cpp | 60 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/chebyshev.cpp | 17 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/dftransform.cpp | 164 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/discretegaussiangeneratorgeneric.cpp | 67 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/distributiongenerator.cpp | 19 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintdyn/be4-math-impl.cpp | 23 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintdyn/mubintvecdyn.cpp | 52 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintdyn/ubintdyn.cpp | 217 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintfxd/be2-math-impl.cpp | 23 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintfxd/mubintvecfxd.cpp | 177 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintfxd/ubintfxd.cpp | 669 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintntl/be6-math-impl.cpp | 23 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintntl/mubintvecntl.cpp | 104 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/bigintntl/ubintntl.cpp | 74 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/intnat/benative-math-impl.cpp | 39 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hal/intnat/mubintvecnat.cpp | 556 + openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/hermite.cpp | 7 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/matrix.cpp | 35 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/math/nbtheory2.cpp | 96 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/debug.cpp | 12 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/demangle.cpp | 7 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/diagnostic_output.cpp |only openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/get-call-stack.cpp | 16 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/hashutil.cpp | 100 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/inttypes.cpp | 1 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/memory.cpp | 138 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/prng/blake2b-ref.c | 1 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/prng/blake2engine.cpp | 28 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/prng/blake2xb-ref.c | 1 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/core/lib/utils/utilities.cpp | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/CMakeLists.txt | 19 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/README.md | 1 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/README.md | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/ciphertext-fwd.h | 70 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/ciphertext-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/ciphertext.h | 407 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/constants-defs.h | 24 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/constants.h | 215 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/cryptocontext-fwd.h | 9 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/cryptocontext-ser.h | 87 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/cryptocontext.h | 4052 +++++----- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/cryptocontextfactory.h | 80 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/cryptoobject.h | 69 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/README.md | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/ckkspackedencoding.h | 277 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/coefpackedencoding.h | 103 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/encodingparams.h | 221 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/encodings.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/packedencoding.h | 177 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/plaintext-fwd.h | 11 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/plaintext.h | 406 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/plaintextfactory.h | 74 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/encoding/stringencoding.h | 89 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/gen-cryptocontext.h | 96 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/globals.h | 29 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/evalkey-fwd.h | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/evalkey.h | 121 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/evalkeyrelin-fwd.h | 11 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/evalkeyrelin.h | 150 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/key-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/key.h | 35 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/keypair.h | 36 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/privatekey-fwd.h | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/privatekey.h | 100 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/publickey-fwd.h | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/key/publickey.h | 96 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/keyswitch/README.md | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/keyswitch/keyswitch-base.h | 186 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/keyswitch/keyswitch-bv.h | 139 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/keyswitch/keyswitch-hybrid.h | 197 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/keyswitch/keyswitch-rns.h | 36 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/metadata-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/metadata.h | 108 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/openfhe.h | 48 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-advancedshe.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-cryptoparameters.h | 103 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-fhe.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-leveledshe.h | 243 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-multiparty.h | 55 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-parametergeneration.h | 36 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-pke.h | 98 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-pre.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-scheme.h | 40 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/bfvrns-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/gen-cryptocontext-bfvrns-internal.h | 31 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/gen-cryptocontext-bfvrns-params.h | 91 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bfvrns/gen-cryptocontext-bfvrns.h | 46 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-advancedshe.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-cryptoparameters.h | 99 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-fhe.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-leveledshe.h | 77 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-multiparty.h | 33 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-parametergeneration.h | 161 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-pke.h | 58 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-pre.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-scheme.h | 32 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/bgvrns-ser.h | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/gen-cryptocontext-bgvrns-internal.h | 30 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/gen-cryptocontext-bgvrns-params.h | 76 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/bgvrns/gen-cryptocontext-bgvrns.h | 46 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-advancedshe.h | 280 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-cryptoparameters.h | 423 + openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-fhe.h | 1415 ++- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-leveledshe.h | 214 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-multiparty.h | 32 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-parametergeneration.h | 64 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-pke.h | 52 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-pre.h | 15 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-scheme.h | 37 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-schemeswitching.h | 113 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/ckksrns-utils.h | 174 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/gen-cryptocontext-ckksrns-internal.h | 47 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/gen-cryptocontext-ckksrns-params.h | 68 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/ckksrns/gen-cryptocontext-ckksrns.h | 27 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/gen-cryptocontext-params-defaults.h | 207 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/gen-cryptocontext-params-validation.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/gen-cryptocontext-params.h | 63 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/scheme-id.h | 54 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/scheme-swch-params.h | 214 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/scheme/scheme-utils.h | 8 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-advancedshe.h | 781 + openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-cryptoparameters.h | 146 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-fhe.h | 772 + openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-leveledshe.h | 1171 +- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-multiparty.h | 491 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-parametergeneration.h | 110 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-pke.h | 131 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-pre.h | 60 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-scheme.h | 619 + openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/base-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/decrypt-result.h | 48 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemebase/rlwe-cryptoparameters.h | 445 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemelet/rlwe-mp.h | 111 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-advancedshe.h | 14 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-cryptoparameters.h | 1335 +-- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-fhe.h | 14 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-leveledshe.h | 437 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-modulus-limits.h | 14 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-multiparty.h | 76 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-parametergeneration.h | 17 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-pke.h | 113 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-pre.h | 22 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-scheme.h | 36 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/include/schemerns/rns-ser.h | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/ciphertext-impl.cpp | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/constants-impl.cpp | 7 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/cryptocontext.cpp | 205 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/cryptocontextfactory.cpp | 10 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/cryptoobject-impl.cpp | 3 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/encoding/ckkspackedencoding.cpp | 159 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/encoding/coefpackedencoding.cpp | 26 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/encoding/packedencoding.cpp | 150 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/encoding/stringencoding.cpp | 11 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/keyswitch/keyswitch-base.cpp | 6 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/keyswitch/keyswitch-bv.cpp | 162 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/keyswitch/keyswitch-hybrid.cpp | 230 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bfvrns/bfvrns-cryptoparameters.cpp | 295 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bfvrns/bfvrns-leveledshe.cpp | 483 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bfvrns/bfvrns-multiparty.cpp | 58 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bfvrns/bfvrns-parametergeneration.cpp | 121 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bfvrns/bfvrns-pke.cpp | 77 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bfvrns/bfvrns-scheme.cpp | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bgvrns/bgvrns-cryptoparameters.cpp | 44 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bgvrns/bgvrns-leveledshe.cpp | 90 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bgvrns/bgvrns-multiparty.cpp | 12 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bgvrns/bgvrns-parametergeneration.cpp | 206 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bgvrns/bgvrns-pke.cpp | 17 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/bgvrns/bgvrns-scheme.cpp | 9 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-advancedshe.cpp | 347 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-cryptoparameters.cpp | 301 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-fhe.cpp | 3233 +++++-- openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-leveledshe.cpp | 401 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-multiparty.cpp | 100 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-parametergeneration.cpp | 187 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-pke.cpp | 16 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-scheme.cpp | 4 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-schemeswitching.cpp | 616 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/ckksrns/ckksrns-utils.cpp | 214 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/gen-cryptocontext-params-impl.cpp | 42 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/gen-cryptocontext-params-validation.cpp | 52 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/scheme/scheme-id-impl.cpp | 5 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemebase/base-advancedshe.cpp | 518 - openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemebase/base-leveledshe.cpp | 210 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemebase/base-multiparty.cpp | 216 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemebase/base-pke.cpp | 66 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemebase/base-pre.cpp | 9 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemebase/base-scheme.cpp | 42 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemelet/rlwe-mp.cpp | 79 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemerns/rns-cryptoparameters.cpp | 156 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemerns/rns-leveledshe.cpp | 165 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemerns/rns-multiparty.cpp | 247 openfhe.R-1.6.1/openfhe.R/inst/openfhe/src/pke/lib/schemerns/rns-pke.cpp | 80 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_bfv_arithmetic.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_bgv_full.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe.R | 7 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_arg_completion.R | 36 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_eval_bin_gate_vec.R | 8 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_eval_function.R | 5 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_eval_sign.R | 5 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_keys.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_methods.R | 10 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_binfhe_truth_tables.R | 10 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_ckks.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_ckks_advanced.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_ckks_complex.R | 16 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_ckks_function_evaluation.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_ckks_serial.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_enums_compiled.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_eval.R | 5 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_eval_arith_overloads.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_eval_backlog.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_eval_series_types.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_advanced_ckks_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_ap.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_lmkcdey.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_multi_input.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_serial_binary.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_serial_binary_dynamic_large_precision.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_serial_json.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_boolean_serial_json_dynamic_large_precision.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_eval_decomp.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_eval_flooring.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_boolean_ap_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_boolean_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_boolean_serial_binary_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_boolean_serial_json_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_boolean_truth_tables_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_eval_flooring_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_binfhe_pke_eval_function_pke.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_ckks_bootstrap_keys_serial.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_ckks_noise_flooding.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_ckks_release_memory.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_depth_bfvrns.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_depth_bfvrns_behz.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_depth_bgvrns.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_fe_functional_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_function_evaluation.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_functional_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_inner_product.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_interactive_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_iterative_ckks_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_iterative_ckks_bootstrapping_composite_scaling.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_linearwsum_evaluation.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_polynomial_evaluation_high_precision_composite_scaling.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_pre_buffer.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_pre_hra_secure.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_rotation.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_scheme_switching.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_scheme_switching_serial.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_ckks_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_ckks_bootstrapping_composite_scaling.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_complex_numbers.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_composite_scaling_manual.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_integers.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_integers_bgvrns.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_integers_serial.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_real_numbers.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_real_numbers_composite_scaling.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_simple_real_numbers_serial.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_tckks_interactive_mp_bootstrapping.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_tckks_interactive_mp_bootstrapping_Chebyshev.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_threshold_fhe.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_example_threshold_fhe_5p.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_fast_new.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_fbt.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_interactive_bootstrap.R | 15 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_key_switching.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_object_accessors.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_params_set.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_pointer_tags.R | 37 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_scheme_switching.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_schemelet.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_serialization.R | 2 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_serialization_memory.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_series_powers.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_signature_completion.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_spike_operators.R | 29 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_sum_key_serialize.R | 11 openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_thread_cap.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_upstream_api_coverage.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_upstream_binfhe_api_coverage.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_upstream_tests.R |only openfhe.R-1.6.1/openfhe.R/inst/tinytest/test_wide_integers.R |only openfhe.R-1.6.1/openfhe.R/man/BinFHEParamSet.Rd | 24 openfhe.R-1.6.1/openfhe.R/man/DCRTPoly.Rd |only openfhe.R-1.6.1/openfhe.R/man/Format.Rd |only openfhe.R-1.6.1/openfhe.R/man/LWEKeyPair.Rd |only openfhe.R-1.6.1/openfhe.R/man/LWEPublicKey.Rd |only openfhe.R-1.6.1/openfhe.R/man/LWESwitchingKey.Rd |only openfhe.R-1.6.1/openfhe.R/man/PolyVector.Rd |only openfhe.R-1.6.1/openfhe.R/man/RingGSWBTKey.Rd |only openfhe.R-1.6.1/openfhe.R/man/SchSwchParams.Rd |only openfhe.R-1.6.1/openfhe.R/man/SchemeBase.Rd |only openfhe.R-1.6.1/openfhe.R/man/SchemeSwitchingDataSerializer.Rd |only openfhe.R-1.6.1/openfhe.R/man/SeriesPowers.Rd |only openfhe.R-1.6.1/openfhe.R/man/bin_bootstrap.Rd |only openfhe.R-1.6.1/openfhe.R/man/bin_bt_key_gen.Rd | 32 openfhe.R-1.6.1/openfhe.R/man/bin_encrypt.Rd | 23 openfhe.R-1.6.1/openfhe.R/man/bin_fhe_context.Rd | 24 openfhe.R-1.6.1/openfhe.R/man/bin_key_gen_pair.Rd |only openfhe.R-1.6.1/openfhe.R/man/ccparams_getters.Rd | 11 openfhe.R-1.6.1/openfhe.R/man/ccparams_setters.Rd |only openfhe.R-1.6.1/openfhe.R/man/clear_all_ckks_caches.Rd |only openfhe.R-1.6.1/openfhe.R/man/clear_eval_sum_keys.Rd |only openfhe.R-1.6.1/openfhe.R/man/clone.Rd |only openfhe.R-1.6.1/openfhe.R/man/composed_eval_mult.Rd |only openfhe.R-1.6.1/openfhe.R/man/compress.Rd | 4 openfhe.R-1.6.1/openfhe.R/man/deserialize_eval_keys_string.Rd |only openfhe.R-1.6.1/openfhe.R/man/enable_precompute_crt_tables_after_deserializaton.Rd |only openfhe.R-1.6.1/openfhe.R/man/encode.Rd |only openfhe.R-1.6.1/openfhe.R/man/eval_add_in_place.Rd | 18 openfhe.R-1.6.1/openfhe.R/man/eval_add_in_place_no_check.Rd |only openfhe.R-1.6.1/openfhe.R/man/eval_add_many.Rd |only openfhe.R-1.6.1/openfhe.R/man/eval_add_mutable.Rd | 8 openfhe.R-1.6.1/openfhe.R/man/eval_add_mutable_in_place.Rd |only openfhe.R-1.6.1/openfhe.R/man/eval_at_index.Rd |only openfhe.R-1.6.1/openfhe.R/man/eval_bin_gate.Rd | 6 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openfhe.R-1.6.1/openfhe.R/man/get_public_key.Rd |only openfhe.R-1.6.1/openfhe.R/man/key_switch_ext.Rd |only openfhe.R-1.6.1/openfhe.R/man/key_switch_gen.Rd |only openfhe.R-1.6.1/openfhe.R/man/level_reduce.Rd | 9 openfhe.R-1.6.1/openfhe.R/man/level_reduce_in_place.Rd | 4 openfhe.R-1.6.1/openfhe.R/man/make_string_plaintext.Rd |only openfhe.R-1.6.1/openfhe.R/man/multi_mult_eval_key.Rd |only openfhe.R-1.6.1/openfhe.R/man/multiparty_key_gen.Rd | 12 openfhe.R-1.6.1/openfhe.R/man/number_ciphertext_elements.Rd |only openfhe.R-1.6.1/openfhe.R/man/plaintext_accessors.Rd | 10 openfhe.R-1.6.1/openfhe.R/man/re_key_gen.Rd |only openfhe.R-1.6.1/openfhe.R/man/schemelet_convert_rlwe_to_ckks.Rd |only openfhe.R-1.6.1/openfhe.R/man/schemelet_get_element_params.Rd |only openfhe.R-1.6.1/openfhe.R/man/serialize_eval_bootstrap_key.Rd |only openfhe.R-1.6.1/openfhe.R/man/serialize_eval_keys.Rd | 28 openfhe.R-1.6.1/openfhe.R/man/serialized_object_name.Rd |only openfhe.R-1.6.1/openfhe.R/man/set_params_from_ckks_cryptocontext.Rd |only openfhe.R-1.6.1/openfhe.R/man/set_scheme_id.Rd |only openfhe.R-1.6.1/openfhe.R/man/share_keys.Rd | 2 openfhe.R-1.6.1/openfhe.R/man/sparse_key_gen.Rd |only openfhe.R-1.6.1/openfhe.R/man/switch_ct_to_qn.Rd |only openfhe.R-1.6.1/openfhe.R/src/binfhe_bindings.cpp | 46 openfhe.R-1.6.1/openfhe.R/src/binfhe_keys.cpp |only openfhe.R-1.6.1/openfhe.R/src/cpp11.cpp | 2418 ++++- openfhe.R-1.6.1/openfhe.R/src/enum_values.cpp |only openfhe.R-1.6.1/openfhe.R/src/openfhe_cpp11.h | 17 openfhe.R-1.6.1/openfhe.R/src/pke_bindings.cpp | 55 openfhe.R-1.6.1/openfhe.R/src/pke_ccparams_getters.cpp | 19 openfhe.R-1.6.1/openfhe.R/src/pke_ccparams_set.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_ciphertext_accessors.cpp | 16 openfhe.R-1.6.1/openfhe.R/src/pke_ckks_complex.cpp | 11 openfhe.R-1.6.1/openfhe.R/src/pke_ckks_eval_poly.cpp | 222 openfhe.R-1.6.1/openfhe.R/src/pke_cryptocontext_getters.cpp | 7 openfhe.R-1.6.1/openfhe.R/src/pke_eval.cpp | 56 openfhe.R-1.6.1/openfhe.R/src/pke_eval_arith.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_eval_backlog.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_fbt.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_keyswitch.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_multiparty.cpp | 24 openfhe.R-1.6.1/openfhe.R/src/pke_object_accessors.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_plaintext_accessors.cpp | 16 openfhe.R-1.6.1/openfhe.R/src/pke_scheme_switching.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_schemelet.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_schswch_serializer.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_secret_sharing.cpp | 7 openfhe.R-1.6.1/openfhe.R/src/pke_serialization.cpp | 4 openfhe.R-1.6.1/openfhe.R/src/pke_serialization_memory.cpp |only openfhe.R-1.6.1/openfhe.R/src/pke_sum_key_serial.cpp | 2 openfhe.R-1.6.1/openfhe.R/src/r_streams.cpp | 116 openfhe.R-1.6.1/openfhe.R/src/schemeswitching-data-serializer.cpp |only openfhe.R-1.6.1/openfhe.R/src/schemeswitching-data-serializer.h |only openfhe.R-1.6.1/openfhe.R/src/wide_integers.h |only openfhe.R-1.6.1/openfhe.R/tests/tinytest.R | 28 openfhe.R-1.6.1/openfhe.R/vignettes/binfhe-boolean-circuits.Rmd | 30 openfhe.R-1.6.1/openfhe.R/vignettes/ckks-bootstrapping.Rmd | 17 619 files changed, 44483 insertions(+), 27437 deletions(-)
Title: Statistical Models for Notification Delay Correction of
Epidemiological Data
Description: Statistical models for correcting notification delays of epidemiological data. The package wraps statistical models to estimate not yet reported data using empirical delay distribution either from individual-level data or from the differences of aggregated time series of cases. For more details see Bastos et al. (2019) <doi:10.1002/sim.8303>.
Author: Rafael Lopes [aut] ,
Tatiana Portella [aut] ,
Theo Economou [aut] ,
Marcelo Gomes [aut] ,
Leo Bastos [aut, cre]
Maintainer: Leo Bastos <leonardo.bastos@fiocruz.br>
Diff between nowcaster versions 1.0.0 dated 2026-09-17 and 1.0.1 dated 2026-11-13
DESCRIPTION | 14 ++++++++++---- MD5 | 12 ++++++------ NAMESPACE | 12 +++++++++++- R/data_w.R | 4 ++-- R/data_w_no_age.R | 2 +- R/nowcasting_inla.R | 22 ++++++++++++++-------- R/nowcasting_mgcv.R | 22 ++++++++++++++-------- 7 files changed, 58 insertions(+), 30 deletions(-)
Title: Time Series Forecasting with Neural Networks
Description: Automatic time series modelling with neural networks.
Allows fully automatic, semi-manual or fully manual specification of networks. For details of the
specification methodology see: (i) Crone and Kourentzes (2010) <doi:10.1016/j.neucom.2010.01.017>;
and (ii) Kourentzes et al. (2014) <doi:10.1016/j.eswa.2013.12.011>.
Author: Nikolaos Kourentzes [aut, cre]
Maintainer: Nikolaos Kourentzes <nikolaos@kourentzes.com>
Diff between nnfor versions 0.9.9 dated 2023-11-14 and 0.10.0 dated 2026-11-13
nnfor-0.10.0/nnfor/DESCRIPTION | 15 nnfor-0.10.0/nnfor/MD5 | 85 +- nnfor-0.10.0/nnfor/NAMESPACE | 131 +-- nnfor-0.10.0/nnfor/NEWS.md | 74 + nnfor-0.10.0/nnfor/R/backend-torch.R |only nnfor-0.10.0/nnfor/R/backend.R |only nnfor-0.10.0/nnfor/R/combine.R |only nnfor-0.10.0/nnfor/R/compare.R |only nnfor-0.10.0/nnfor/R/compcheck.R | 162 ++-- nnfor-0.10.0/nnfor/R/elm.R | 577 ++++++-------- nnfor-0.10.0/nnfor/R/elm.fast.R | 391 +++------ nnfor-0.10.0/nnfor/R/fit-common.R |only nnfor-0.10.0/nnfor/R/forecast.net.R | 326 ++------ nnfor-0.10.0/nnfor/R/inputs.R |only nnfor-0.10.0/nnfor/R/linscale.R | 125 --- nnfor-0.10.0/nnfor/R/map.R |only nnfor-0.10.0/nnfor/R/mlp.R | 1115 +++++++++------------------- nnfor-0.10.0/nnfor/R/net.thief.R | 98 -- nnfor-0.10.0/nnfor/R/nnfor-package.R | 102 ++ nnfor-0.10.0/nnfor/R/parallel.R |only nnfor-0.10.0/nnfor/R/plot.R |only nnfor-0.10.0/nnfor/R/preprocess.R |only nnfor-0.10.0/nnfor/R/print.R |only nnfor-0.10.0/nnfor/R/transform.R |only nnfor-0.10.0/nnfor/R/utils.R |only nnfor-0.10.0/nnfor/README.md | 40 - nnfor-0.10.0/nnfor/man/compare_backends.Rd |only nnfor-0.10.0/nnfor/man/elm.Rd | 351 +++++--- nnfor-0.10.0/nnfor/man/elm.fast.Rd | 212 ++--- nnfor-0.10.0/nnfor/man/elm.thief.Rd | 114 +- nnfor-0.10.0/nnfor/man/forecast.elm.Rd | 127 +-- nnfor-0.10.0/nnfor/man/forecast.mlp.Rd | 127 +-- nnfor-0.10.0/nnfor/man/linscale.Rd | 76 - nnfor-0.10.0/nnfor/man/mlp.Rd | 482 ++++++++---- nnfor-0.10.0/nnfor/man/mlp.thief.Rd | 114 +- nnfor-0.10.0/nnfor/man/nnfor-package.Rd | 103 ++ nnfor-0.10.0/nnfor/man/nnfor_map.Rd |only nnfor-0.10.0/nnfor/man/plot.elm.Rd | 95 +- nnfor-0.10.0/nnfor/man/plot.elm.fast.Rd |only nnfor-0.10.0/nnfor/man/plot.forecast.net.Rd |only nnfor-0.10.0/nnfor/man/plot.mlp.Rd | 100 +- nnfor-0.10.0/nnfor/man/plot.nnfor_map.Rd |only nnfor-0.10.0/nnfor/man/plot_fit.Rd |only nnfor-0.10.0/nnfor/man/plot_network.Rd |only nnfor-0.10.0/nnfor/man/predict.elm.fast.Rd | 110 +- nnfor-0.10.0/nnfor/tests |only nnfor-0.9.9/nnfor/R/kdemode.R |only nnfor-0.9.9/nnfor/R/plot.forecast.net.R |only nnfor-0.9.9/nnfor/R/plot.net.R |only nnfor-0.9.9/nnfor/R/print.net.R |only nnfor-0.9.9/nnfor/build |only nnfor-0.9.9/nnfor/man/nnfor.Rd |only 52 files changed, 2570 insertions(+), 2682 deletions(-)
Title: Monte Carlo Maximum Likelihood and Analysis of Generalised
Linear Mixed Models
Description: Specification, analysis, simulation, and fitting of generalised linear mixed models.
Monte Carlo Maximum likelihood model fitting for a range of models,
non-linear fixed effect specifications, a wide range of flexible covariance functions including
Gaussian Process approximations. Methods described in Watson, Wang, and Giorgi (2026) <doi:10.48550/arXiv.2601.16022>.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
Diff between glmmrBase versions 1.4.1 dated 2026-05-28 and 1.4.3 dated 2026-11-13
DESCRIPTION | 8 MD5 | 24 +- R/R6Model.R | 2 build/partial.rdb |binary inst/include/glmmr/hsgpcovariance.hpp | 61 ++++-- inst/include/glmmr/modelmatrix.hpp | 320 +++++++++++++++------------------- inst/include/glmmr/modeloptim.hpp | 5 inst/include/glmmr/spdecovariance.hpp | 72 +++++-- man/Covariance.Rd | 28 -- man/MeanFunction.Rd | 3 man/mcml_lmer.Rd | 126 ++++++------- man/mesh_helper.Rd | 70 +++---- src/model_module.cpp | 10 - 13 files changed, 372 insertions(+), 357 deletions(-)
Title: Access to the Global Inventory of Floras and Traits (GIFT)
Description: Retrieving regional plant checklists, species traits and
distributions, and environmental data from the Global Inventory of Floras and
Traits (GIFT). More information about the GIFT database can be found at
<https://gift.uni-goettingen.de/about> and the map of available floras can be
visualized at <https://gift.uni-goettingen.de/map>. The API and associated
queries can be accessed according the following scheme:
<https://gift.uni-goettingen.de/api/extended/index2.0.php?query=env_raster>.
Author: Pierre Denelle [aut, cre] ,
Patrick Weigelt [aut]
Maintainer: Pierre Denelle <pierre.denelle@posteo.com>
Diff between GIFT versions 1.3.4 dated 2026-08-24 and 1.3.5 dated 2026-11-13
DESCRIPTION | 6 ++-- MD5 | 13 +++++---- NEWS.md | 4 ++- inst/doc/GIFT.R | 41 ++++++++++++++++--------------- inst/doc/GIFT.Rmd | 6 +++- inst/doc/GIFT.html | 6 ++-- man/figures/plot_world_mediterranean.png |only vignettes/GIFT.Rmd | 6 +++- 8 files changed, 48 insertions(+), 34 deletions(-)
Title: Poisson Lognormal with Dimension Reduction for Count Matrices
with Missing Data
Description: Impute missing data in count tables using a Poisson lognormal
model with dimension reduction, with and without zero inflation, as
described in Bricout et al. (2026) <doi:10.48550/arXiv.2602.10673>.
Parameters are estimated with a variational expectation-maximization
algorithm. The package also provides the asymptotic variance of the
estimators, prediction intervals for the imputed counts, and model
selection criteria (Bayesian information criterion, BIC, and
integrated completed likelihood, ICL) to choose the dimension
of the latent space.
Author: Barbara Bricout [aut, cre]
Maintainer: Barbara Bricout <barbara.bricout@gmail.com>
Diff between colvR versions 0.2.1 dated 2026-11-12 and 0.2.2 dated 2026-11-13
colvR-0.2.1/colvR/src/packing.cpp |only colvR-0.2.2/colvR/DESCRIPTION | 6 +++--- colvR-0.2.2/colvR/MD5 | 9 ++++----- colvR-0.2.2/colvR/NEWS.md | 15 +++++++++++---- colvR-0.2.2/colvR/R/RcppExports.R | 6 ------ colvR-0.2.2/colvR/src/RcppExports.cpp | 11 ----------- 6 files changed, 18 insertions(+), 29 deletions(-)
Title: AI Screening Tools in R for Systematic Reviewing
Description: Provides functions to conduct title and abstract screening in systematic reviews using large language models, such as the Generative Pre-trained Transformer (GPT) models from 'OpenAI' <https://developers.openai.com/>. These functions can enhance the quality of title and abstract screenings while reducing the total screening time significantly. In addition, the package includes tools for quality assessment of title and abstract screenings, as described in Vembye, Christensen, Mølgaard, and Schytt (2025) <DOI:10.1037/met0000769>.
Author: Mikkel H. Vembye [aut, cre] ,
Thomas Olsen [aut]
Maintainer: Mikkel H. Vembye <mikkel.vembye@gmail.com>
Diff between AIscreenR versions 0.5.0 dated 2026-10-14 and 0.5.1 dated 2026-11-13
DESCRIPTION | 6 MD5 | 114 ++-- NEWS.md | 16 R/api_key_functions.R | 2 R/approximate_price.R | 33 - R/claude_engine.r | 15 R/data.R | 2 R/function-calling.R | 452 +++++++++++++++++- R/gemini_engine.r | 15 R/groq_engine.r | 41 + R/misc.func.hidden.price.R | 183 +++---- R/misc.func.hidden.tabscreen.R | 87 ++- R/misc.helpers.R | 6 R/misc.hidden.func.analyzer.R | 2 R/ollama_engine.r | 31 + R/rate_limits.R | 6 R/report_errors.r | 15 R/screen_analyzer.R | 11 R/screen_errors.R | 2 R/screen_errors.gpt.R | 12 R/solve_or_guess.R | 4 R/tabscreen_claude.R | 20 R/tabscreen_gemini.R | 34 - R/tabscreen_gpt.R | 112 +--- R/tabscreen_gpt.original.R | 4 R/tabscreen_gpt.tools.R | 98 +-- R/tabscreen_groq.r | 22 R/tabscreen_mistral.R | 20 R/tabscreen_ollama.r | 20 build/partial.rdb |binary build/vignette.rds |binary data/claude_model_prizes.rda |binary data/gemini_model_prizes.rda |binary data/model_prizes.rda |binary inst/doc/Using-GPT-API-Models-For-Screening.html | 8 man/approximate_price_gpt.Rd | 26 - man/gemini_model_prizes.Rd | 2 man/get_api_key_gemini.Rd | 2 man/rate_limits_per_minute.Rd | 6 man/report.Rd | 5 man/screen_analyzer.Rd | 2 man/screen_errors.Rd | 2 man/screen_errors.gpt.Rd | 2 man/solve_or_guess.Rd | 4 man/tabscreen_claude.Rd | 11 man/tabscreen_gemini.Rd | 25 man/tabscreen_gpt.original.Rd | 4 man/tabscreen_gpt.tools.Rd | 34 - man/tabscreen_gpt.tools_responses.Rd | 42 - man/tabscreen_groq.Rd | 11 man/tabscreen_mistral.Rd | 11 man/tabscreen_ollama.Rd | 11 tests/testthat/test-approximate_price_gpt.R | 55 +- tests/testthat/test-misc.func.hidden.solve_or_guess.R | 6 tests/testthat/test-rate_limits.R | 7 tests/testthat/test-report_errors.r | 33 + tests/testthat/test-solve_or_guess.R | 6 tests/testthat/test-tabscreen_gpt.R | 277 ++++------- 58 files changed, 1261 insertions(+), 716 deletions(-)
Title: Parallel Nonparametric Kernel Smoothing Methods for Mixed Data
Types Using 'MPI'
Description: Nonparametric (and semiparametric) kernel methods that seamlessly
handle a mix of continuous, unordered, and ordered factor data types. This
package is a parallel implementation of the 'np' package based on the 'MPI'
specification that incorporates the 'Rmpi' package (Hao Yu
<hyu@stats.uwo.ca>) with minor modifications and we are extremely grateful
to Hao Yu for his contributions to the 'R' community. We would like to
gratefully acknowledge support from the Natural Sciences and Engineering
Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca/>), the
Social Sciences and Humanities Research Council of Canada (SSHRC,
<https://sshrc-crsh.canada.ca/en.aspx>), and the Shared Hierarchical Academic
Research Computing Network (SHARCNET, <https://sharcnet.ca/>). We would
also like to acknowledge the contributions of the 'GNU GSL' authors. In
particular, we adapt the 'GNU GSL' B-spline routine 'gsl_bspline.c' adding
automated support for quantile knots (in add [...truncated...]
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut],
Hao Yu [ctb, cph],
The GSL Team [cph],
Numerical Recipes Software [cph]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between npRmpi versions 0.70-5 dated 2026-07-14 and 0.80-2 dated 2026-11-13
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npRmpi-0.80-2/npRmpi/tests/testthat/test-lsq-predict-tau-selection.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-lsq-progress-call-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-lsq-retained-template-compatibility.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-lsq-row-ownership-followup.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-lsq-vector-formula-prediction.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-mads-raw-certification-retains-objective.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-manual-rng-refusal-context.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-misc.R | 16 npRmpi-0.80-2/npRmpi/tests/testthat/test-mixed-data-gradient-first-difference-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-mpi-dimension-capacity.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-mpi-empty-typed-collection-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-mpi-examples.R | 4 npRmpi-0.80-2/npRmpi/tests/testthat/test-mpi-finalization-lifecycle-contract.R 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npRmpi-0.80-2/npRmpi/tests/testthat/test-native-error-path-hardening-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-frame-arguments.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-newdata-iv-consumer-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-newdata-name-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-callback-source-contract.R | 74 npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-categorical-decode-replay-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-error-lifetime.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-observer-error.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-observer-routing-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-option-cleanup-contract.R | 49 npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-pooled-observer.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-native-nomad-status-contract.R |only 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npRmpi-0.80-2/npRmpi/tests/testthat/test-nn-convolution-tree-support-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nn-failure-context.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nn-kernelsum-training-map.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nn-literal-zero-radius-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nn-search-recovery-helper-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-no-duplicate-top-level-functions.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nomad-crs-version-contract.R | 12 npRmpi-0.80-2/npRmpi/tests/testthat/test-nomad-degree-search-family-progress-contract.R | 1 npRmpi-0.80-2/npRmpi/tests/testthat/test-nomad-mixed-fixed-degree-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nomad-raw-admission-recovery.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-nomad-terminal-callback-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-normal-replay-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-normalized-row-integrity.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npc-adaptive-nn-lp-baseline-contract.R | 31 npRmpi-0.80-2/npRmpi/tests/testthat/test-npc-conditional-first-se-request.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npc-conditional-higher-order-gradients.R | 39 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-audit-repair-contract.R | 19 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-bootstrap-exact-northstar-contract.R | 12 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-categorical-profile-cvls-memory-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-adaptive-row-reuse-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-fixed-phase1-contract.R | 7 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-fixed-row-reuse-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-generalized-nn-phase1-contract.R | 29 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-public-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-xrow-weighted-blas-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-yconv-dead-output-reuse-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvls-yconv-supertile-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvml-mpi-ownership-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-cvml-y-side-workspace-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-degree-search-y-side-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-largelambda-global-x-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-native-derivative-workspace-contract.R | 2 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-plot-bootstrap-center-contract.R | 25 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-proper-contract.R | 12 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdens-proper-fitted-subprocess-contract.R | 70 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-cvls-quadrature-controls-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-cvml-lp-penalty-contract.R | 88 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-degree-search-cell-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-degree-search-nomad-payload-contract.R | 5 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-degree-search-nomad-progress-contract.R | 4 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-degree-search-nomad-routing-contract.R | 5 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdensbw-degree-search-nomad-smoke-contract.R | 38 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdenshat.R | 39 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdist-alllarge-resident-accumulator-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdist-categorical-profile-cvls-memory-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdist-cvls-generalized-nn-phase1-contract.R | 66 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdist-cvls-yint-grouped-supertile-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdist-proper-contract.R | 12 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdist-proper-fitted-subprocess-contract.R | 70 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdistbw-degree-search-contract.R | 147 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdistbw-degree-search-nomad-accounting-contract.R | 16 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcdisthat.R | 31 npRmpi-0.80-2/npRmpi/tests/testthat/test-npconmode-audit-contracts.R | 16 npRmpi-0.80-2/npRmpi/tests/testthat/test-npconmode-empty-external-consumer.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npconmode-level-batch-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npconmode-proper-probability-contract.R | 169 npRmpi-0.80-2/npRmpi/tests/testthat/test-npconmode-row-policy-autodispatch.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-active-marginal-kernels.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-audit-contracts.R | 54 npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-bounded-inverse-grid.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-bounded-physical-bandwidth.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-coordinate-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-density-influence.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-endpoint-roundoff.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-marginal-bound-identity.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-missing-endpoint.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-nn-ratio-se.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-physical-bandwidth.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-render-coordinate-map.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-se-request.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula-zero-marginal-external-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npcopula.R | 28 npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeneq-common-support-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeneq-dual-power-kernelsum-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeneq-input-ownership-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeneq-large-normalization-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeneq-observed-stage-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeneq-pooled-bandwidth-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeptest-vector-integration-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npdeptest.R | 4 npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-binary-response.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-bootstrap-index-reuse.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-centered-ks-covariance.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-covariance-request.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-factor-design.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-gnn-covariance-shape.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-ichimura-lc-gradient-contract.R | 22 npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-ichimura-outer-penalty-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-internal-matrix-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-kernel-moments.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-kleinspady-outer-penalty-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-lc-moment-apply.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-master-contrasts.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindex-nomad-boundary.R |only 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npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexbw-prepared-leaf-descriptor-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexbw-raw-certification-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexbw-restart-scale.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexbw-restoration-public.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexhat-lc-owner-contract.R | 4 npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexhat-lp-gradient-owner-contract.R | 2 npRmpi-0.80-2/npRmpi/tests/testthat/test-npindexhat-lp-mean-owner-contract.R | 2 npRmpi-0.80-2/npRmpi/tests/testthat/test-npksum-closed-values-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npksum-epan-tree-pkw.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npksum-formula-prepared-transport.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npksum-master-only-argument.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npksum-pkw-ownership-contract.R |only 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npRmpi-0.80-2/npRmpi/tests/testthat/test-npplreg-se-dispatch.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npplreg-se-request.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npplreg.R | 14 npRmpi-0.80-2/npRmpi/tests/testthat/test-npplregbw-degree-search-contract.R | 191 npRmpi-0.80-2/npRmpi/tests/testthat/test-npplregbw-prepared-child-owner-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npplreghat-rank-ownership.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqcmstest-iid-collective-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-audit-contracts.R | 24 npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-empty-external-consumer.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-formula-na-policy-consumption.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-native-prediction-ownership.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-origin-free-stopping.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-plot-solver-controls.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg-retained-solver-controls.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npqreg.R | 33 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-adaptive-fullrow-blas-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-adaptive-plot-session-contract.R | 45 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-alllarge-fit-projection-blas-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-alllarge-projection-blas-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-arg-contract.R | 32 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-audit-contracts.R | 38 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-beta-cv-mpi-ownership-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-beta-scalar-fit-mpi-owner-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-cvaic-lp-reference-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-cvls-glp-fixed-contract.R | 177 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-empty-external-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-fastpath-composition-contract.R | 15 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-fit-directional-variance-solve-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-fit-mpi-owner-admission-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-fit-vcov-factor-reuse-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-formula-response-name-subprocess-contract.R | 64 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-glp-higher-order.R | 25 npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-local-interpolation-information.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-named-formula-auto.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-native-inference-capture.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npreg-post-quit-plot-subprocess-contract.R | 7 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npRmpi-0.80-2/npRmpi/tests/testthat/test-npudens-cvls-mpi-ownership-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npudens-cvml-mpi-ownership-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npudenshat.R | 25 npRmpi-0.80-2/npRmpi/tests/testthat/test-npudist-categorical-profile-bw-contract.R | 61 npRmpi-0.80-2/npRmpi/tests/testthat/test-npudist-categorical-profile-fit-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-npudist-cvls-mpi-ownership-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-npudisthat.R | 25 npRmpi-0.80-2/npRmpi/tests/testthat/test-npuniden.R | 7 npRmpi-0.80-2/npRmpi/tests/testthat/test-numeric-response-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-objective-cache-bounds-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-objective-gaussian-support-elision-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-objective-resident-microkernel-contract.R |only 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npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-block-rng-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-arg-contract.R | 17 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-call-progress.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-conditional-frozen-ratio-contract.R | 71 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-inid-fastpath-nn-helper-contract.R | 5 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-inid-fastpath-nn-routing-contract.R | 5 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-inid-fastpath-nn-smoke-contract.R | 7 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-locality-contract.R | 2 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-lp-canonical-solve-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-npindex-frozen-contract.R | 6 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-npreg-frozen-contract.R | 7 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-bootstrap-npscoef-frozen-contract.R | 15 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-cdf-panel-center.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-cdf-retained-names.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-coef-option-contract.R | 12 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-completion-heartbeat-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-adaptive-exact-fanout-contract.R | 13 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-categorical-gradient-bootstrap.R | 38 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-exact-state-eradication.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-gradient-fanout-contract.R | 102 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-gradients-bootstrap-contract.R | 4 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-localpoly-fanout-contract.R | 14 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-mixed-kernel-bootstrap.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-pilot.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-conditional-stage-executor-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-copula-constant-ratio.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-corrected-progress.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-data-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-data-schema.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-densdist-fixed-lllp-exact.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-density-gaussian.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-density-gradient-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-density-higher-order-variability.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-direct-operator-order.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-dotted-arguments.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-followup-contracts.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-gradient-axis-label-contract.R | 2 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-grid-coordinate-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-guardrails-contract.R | 4 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-helper-semantics-contract.R | 9 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-interval-gap-geometry.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-kernel-descriptor-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-lc-wild-operator-reuse.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-manual-collective-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-mpi-only-bootstrap-contract.R | 84 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-na-row-alignment.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-nn-active-support-exact.R | 86 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-nonfinite-geometry-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-normal-stream.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-partial-gradient-availability-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-plbandwidth-bias-center-contract.R | 11 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-plreg-bootstrap-compose-contract.R | 19 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-plreg-local-influence.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-plreg-unavailable.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-progress-labels.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-quantile-categorical-gradient-bootstrap.R | 10 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-ragged-panel-ranges.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rbandwidth-asymptotic-se-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rbandwidth-categorical-gradient-bootstrap.R | 52 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rbandwidth-limits.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rbandwidth-ylab-contract.R | 6 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-regression-error-propagation.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-regression-fixed-gradient-helper.R | 66 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-regression-wild-pilot-geometry.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-return-contract.R | 218 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rgl-prefixed-public-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rng-absent-state.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rng-replay-refusal.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rotation-progress.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-rug-coordinates-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-runtime-purity-contract.R | 10 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-scbandwidth-bias-center-contract.R | 10 npRmpi-0.80-2/npRmpi/tests/testthat/test-plot-scoef-term.R 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npRmpi-0.80-2/npRmpi/tests/testthat/test-retained-uniform-conditional-plot-builders.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-retained-uniform-hat-conditions.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-retained-uniform-index-metadata.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-retained-uniform-scoef-metadata.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-rgl-hidpi-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-rgl-module-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-rgl-resource-ownership.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-rly-profile-canonical-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-rmpi-handle-guards-contract.R | 19 npRmpi-0.80-2/npRmpi/tests/testthat/test-rmpi-wrapper-contracts.R | 82 npRmpi-0.80-2/npRmpi/tests/testthat/test-rng-state-contract.R | 27 npRmpi-0.80-2/npRmpi/tests/testthat/test-rpar-simplify-scalar-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-s3-bandwidth-predict-forwarders.R | 64 npRmpi-0.80-2/npRmpi/tests/testthat/test-s3-extractor-contracts.R | 15 npRmpi-0.80-2/npRmpi/tests/testthat/test-scalar-ann-tree-support.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scalar-loo-zero-normalizer-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-cg-error-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-child-rng-admission.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-collective-preparation-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-evaluation-rows.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-explicit-start-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-external-residual-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-fit-control-replay.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-fold-recovery-domain.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-formula-frame-transaction.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-formula-prepared-values.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-gradient-wild-reuse.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-local-nomad-error-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-nn-coordinate-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-nn-degree-recovery.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-nn-evaluator-status.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-nn-raw-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-plot-coefficient-index.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-scoef-positional-ownership.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-sdeptest-missing-time-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-se-single-row-availability.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-seed-helper-contract.R | 98 npRmpi-0.80-2/npRmpi/tests/testthat/test-selected-dispatch-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-semihat.R | 56 npRmpi-0.80-2/npRmpi/tests/testthat/test-semiparam-formula-response-name-subprocess-contract.R | 70 npRmpi-0.80-2/npRmpi/tests/testthat/test-semiparam-s3-newdata-hardening.R | 10 npRmpi-0.80-2/npRmpi/tests/testthat/test-service-shutdown-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-session-reinitialization.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-session-routing-subprocess-contract.R | 162 npRmpi-0.80-2/npRmpi/tests/testthat/test-shared-owned-promises.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-signed-density-public-critical.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-singleindex-binary-omission.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-singleindex-grid-controls.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-singleindex-r32-contracts.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-singleindex-retained-response-reentry.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-source-tail-extractor-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-sparse-powered-weight-domain.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-spmd-error-identity.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-spmd-sequence-options-rollback.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-spmd-step-contract.R | 146 npRmpi-0.80-2/npRmpi/tests/testthat/test-st8f2-ridge-intercept-correction-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-statistical-test-bootstrap-batch-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-statmods-observation-count-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-statmods-radius-engine-contract.R | 15 npRmpi-0.80-2/npRmpi/tests/testthat/test-statmods-sort-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-statmods-support-bound-contract.R | 30 npRmpi-0.80-2/npRmpi/tests/testthat/test-stored-fit-subset-refusal.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-surface-finite-range.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-surface-renderer-uniformity-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-time-series-expression-grouping.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-time-series-family-evaluation.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-time-series-family-preparation.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-time-series-formula-alignment.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-training-location-response-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-transform-bounds-start-contract.R | 74 npRmpi-0.80-2/npRmpi/tests/testthat/test-tree-capability-mpi-owner-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-tree-categorical-split-contract.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-ud-pmzsd.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-beta-band-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-beta-normal-q2.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-bias-control.R 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npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-fgd-band-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-positive-gram-admission.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-q1-operator.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-q1-quadrature.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-reference-public.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-resolution.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udens-smoothed-calibration.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-asymmetric.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-gnn-joint.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-gnn-zero-limit.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-joint-extensions.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-low-draw.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-marginal-score.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-ordered-labels.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-private-public.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-process-cache.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-signed-replay.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-udist-smoothed-private-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uncertainty-api-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-unconditional-ann-influence-se.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-unconditional-distribution-training-grid-normalization-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-unconditional-formula-frame-transaction.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-unconditional-gnn-geometry-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-unconditional-se-request.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-undefined-external-fit-rows.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniden-gaussian2-moments-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniden-sample-shape-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniform-ann-boundary-se.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniform-convolution-normalization.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniform-kernel-order-warning-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniform-nn-boundary-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-uniform-replay-owner.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-unleased-public-labels.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-utils.R | 8 npRmpi-0.80-2/npRmpi/tests/testthat/test-worker-eval-helper-contract.R | 20 npRmpi-0.80-2/npRmpi/tests/testthat/test-worker-identity-fresh-spawn.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-worker-identity-public-admission.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-worker-identity-standalone-lane.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-worker-identity.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-worker-loop-contract.R | 10 npRmpi-0.80-2/npRmpi/tests/testthat/test-workhorse-nn-mpi-occurrence-contract.R |only npRmpi-0.80-2/npRmpi/tests/testthat/test-wvr-cdf-kernel-contract.R |only npRmpi-0.80-2/npRmpi/tests/validation/DELEGATED_NUMERICAL_CONTRACTS.md |only npRmpi-0.80-2/npRmpi/tests/validation/adaptive_regression_fullrow_blas_installed.R |only npRmpi-0.80-2/npRmpi/tests/validation/delegated_numerical |only npRmpi-0.80-2/npRmpi/tests/validation/full_mpi_test_plan.R |only npRmpi-0.80-2/npRmpi/tests/validation/full_mpi_test_status.R |only npRmpi-0.80-2/npRmpi/tests/validation/glp_complete_basis_installed.R |only npRmpi-0.80-2/npRmpi/tests/validation/glp_complete_basis_mpi_session.R |only npRmpi-0.80-2/npRmpi/tests/validation/mpi_test_launch.R |only npRmpi-0.80-2/npRmpi/tests/validation/npudist-bc-private |only npRmpi-0.80-2/npRmpi/tests/validation/profile_plot_adoption.R |only npRmpi-0.80-2/npRmpi/tests/validation/r27_manual_rng_refusal.R |only npRmpi-0.80-2/npRmpi/tests/validation/run_delegated_numerical_contract.R |only npRmpi-0.80-2/npRmpi/tests/validation/run_full_mpi_test_shard.R |only npRmpi-0.80-2/npRmpi/tools |only npRmpi-0.80-2/npRmpi/vignettes/npRmpi_getting_started.Rmd | 70 1628 files changed, 100785 insertions(+), 38974 deletions(-)
Title: Machine Learning Based Adaptive EWMA Control Charts for Process
Dispersion
Description: Monitors the variance of a process with adaptive exponentially
weighted moving average (AEWMA) control charts whose smoothing weight is
predicted by a regression model fitted to the transformed subgroup
variance. The subgroup variance is transformed as in Castagliola (2005)
<doi:10.1002/qre.686>; the smoothing weight is predicted by one of nine
pre-fitted models from four families (neural networks, support vector
machines, regression trees and boosting, and a quantile regression with
lagged inputs), following the parameter-free approach of Noor-ul-Amin et
al. (2024) <doi:10.1038/s41598-024-82699-8>, related work on support
vector regression based adaptive EWMA charts by Kazmi and Noor-ul-Amin
(2024) <doi:10.1002/qre.3603>, and the adaptive EWMA idea of Capizzi and
Masarotto (2003) <doi:10.1198/004017003000000023>. The comparison of
the models is described in Atar, Purutçuoğlu and Bursalı (2026), accepted
at the 3rd International Congress on Data Science and Info [...truncated...]
Author: Gizem Atar [aut, cre],
Vilda Purutcuoglu [aut],
Ahmet Bursali [aut]
Maintainer: Gizem Atar <gizem.atar@ostimteknik.edu.tr>
Diff between mlAEWMA versions 0.1.0 dated 2026-11-08 and 0.1.1 dated 2026-11-13
DESCRIPTION | 18 +++++++++--------- MD5 | 4 ++-- man/mlAEWMA-package.Rd | 2 +- 3 files changed, 12 insertions(+), 12 deletions(-)
Title: Font Metrics and Font Management Utilities for R Graphics
Description: Compute text metrics (width, ascent, descent), with or
without kerning, from font files with 'FreeType', independently of the
active graphic device. Font lookup is delegated to 'systemfonts'.
Additional utilities let users register 'Google Fonts', the bundled
'Liberation' fonts or the bundled math font 'STIX Two Math', check font
availability, and assemble 'htmlDependency' objects so that fonts are
correctly embedded in 'Shiny' applications, 'R Markdown' documents,
and 'htmlwidgets' outputs such as 'ggiraph'.
Author: David Gohel [aut, cre],
Hadley Wickham [aut],
Lionel Henry [aut],
Jeroen Ooms [aut] ,
Yixuan Qiu [ctb],
ArData [cph],
RStudio [cph],
The STIX Fonts Project Authors [cph]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between gdtools versions 0.5.3 dated 2026-11-05 and 0.6.0 dated 2026-11-13
DESCRIPTION | 24 +++--- MD5 | 78 +++++++++++++------- NAMESPACE | 3 NEWS.md | 22 +++++ R/RcppExports.R | 8 +- R/glyph-metrics.R | 21 ++++- R/stix.R |only R/text-metrics.R | 132 +++++++++++++++++++++++++++++++++-- README.md | 42 ++++++++++- inst/COPYRIGHTS |only inst/fonts |only man/addGFontHtmlDependency.Rd | 2 man/font_line_metrics.Rd |only man/fonts_cache_dir.Rd | 2 man/gfontHtmlDependency.Rd | 2 man/install_gfont_script.Rd | 2 man/installed_gfonts.Rd | 2 man/liberationmonoHtmlDependency.Rd | 2 man/liberationsansHtmlDependency.Rd | 2 man/liberationserifHtmlDependency.Rd | 2 man/m_str_extents.Rd | 1 man/register_gfont.Rd | 2 man/register_liberationmono.Rd | 2 man/register_liberationsans.Rd | 2 man/register_liberationserif.Rd | 2 man/register_stixmath.Rd |only man/stixmath_file.Rd |only man/str_metrics.Rd | 1 man/strings_sizes.Rd | 35 ++++++++- man/sys_fonts_reset.Rd | 4 - src/RcppExports.cpp | 22 ++++- src/glyph_metrics.cpp | 64 +++++++++++++++- src/kerning.cpp |only src/kerning.h |only src/line_metrics.cpp |only tests/testthat/fixtures/kerning |only tests/testthat/test-kerning.R |only tests/testthat/test-stix.R |only tests/testthat/test-text-metrics.R | 20 +++++ 39 files changed, 440 insertions(+), 61 deletions(-)
Title: Fast, Simple API Tools for Retrieving Data from 'DeltaBreed'
Description: Simplified data retrieval from the 'DeltaBreed' breeding
data management platform (<https://sandbox.breedinginsight.net/>) via the
'BrAPI' open-source breeding data API (<https://brapi.org/specification>).
Each of the four main data types stored in 'DeltaBreed' (germplasm, trait variables,
experiments/environments, and observations) are handled by a get_datatype()
function that constructs and executes the request, handles paginated responses,
and parses the retrieved data. Responses are reformatted into a consistent,
R-friendly data frame format that resembles how the data appears on the
'DeltaBreed' web interface as closely as possible.
Author: Tyr Wiesner-Hanks [aut, cre]
Maintainer: Tyr Wiesner-Hanks <twiesnerhanks@ufl.edu>
Diff between deltabreedquery versions 1.0.4 dated 2026-09-30 and 1.0.5 dated 2026-11-13
DESCRIPTION | 6 - MD5 | 26 +++--- R/authentication.R | 11 ++ R/experiments.R | 40 ++++------ R/germplasm.R | 10 -- R/observations.R | 139 ++++++++++++++++++------------------ R/utils.R | 97 ++++++++++++++----------- R/variables.R | 19 +--- README.md | 12 +-- man/filter_observations.Rd | 14 +-- man/get_experiments.Rd | 2 man/get_observations.Rd | 9 +- tests/testthat/helper.R | 2 tests/testthat/test-get_functions.R | 2 14 files changed, 199 insertions(+), 190 deletions(-)
More information about deltabreedquery at CRAN
Permanent link
Title: A Basic Set of Functions for Compositional Data Analysis
Description: A minimum set of functions to perform compositional data analysis
using the log-ratio approach introduced by John Aitchison (1982)
<doi:10.1111/j.2517-6161.1982.tb01195.x>. Main functions
have been implemented in C++ for better performance.
Author: Marc Comas-Cufi [aut, cre]
Maintainer: Marc Comas-Cufi <mcomas@imae.udg.edu>
Diff between coda.base versions 1.0.6 dated 2026-05-08 and 1.0.8 dated 2026-11-13
coda.base-1.0.6/coda.base/NEWS |only coda.base-1.0.6/coda.base/inst/doc/coordinates.R |only coda.base-1.0.6/coda.base/inst/doc/coordinates.Rmd |only coda.base-1.0.6/coda.base/inst/doc/coordinates.html |only coda.base-1.0.6/coda.base/vignettes/coordinates.Rmd |only coda.base-1.0.8/coda.base/DESCRIPTION | 12 coda.base-1.0.8/coda.base/MD5 | 65 + coda.base-1.0.8/coda.base/NEWS.md |only coda.base-1.0.8/coda.base/R/basis.R | 411 ++++++++---- coda.base-1.0.8/coda.base/R/coda.base.R | 4 coda.base-1.0.8/coda.base/R/data.R | 11 coda.base-1.0.8/coda.base/R/onLoad.R | 4 coda.base-1.0.8/coda.base/R/tabu_search.R | 8 coda.base-1.0.8/coda.base/R/utils.R | 110 +-- coda.base-1.0.8/coda.base/R/zero_replacement_imputation.R | 7 coda.base-1.0.8/coda.base/README.md | 127 ++- coda.base-1.0.8/coda.base/build/partial.rdb |binary coda.base-1.0.8/coda.base/build/vignette.rds |binary coda.base-1.0.8/coda.base/data/mammals_milk.RData |binary coda.base-1.0.8/coda.base/inst/doc/coda-base.R |only coda.base-1.0.8/coda.base/inst/doc/coda-base.Rmd |only coda.base-1.0.8/coda.base/inst/doc/coda-base.html |only coda.base-1.0.8/coda.base/inst/doc/features.html | 4 coda.base-1.0.8/coda.base/inst/doc/principal_balances.html | 12 coda.base-1.0.8/coda.base/man/coda.base.Rd | 4 coda.base-1.0.8/coda.base/man/coda_replacement.Rd | 7 coda.base-1.0.8/coda.base/man/dist.Rd | 2 coda.base-1.0.8/coda.base/man/dist_coda.Rd | 9 coda.base-1.0.8/coda.base/man/figures |only coda.base-1.0.8/coda.base/man/mammals_milk.Rd | 14 coda.base-1.0.8/coda.base/man/partial_pb_tabu_search.Rd | 4 coda.base-1.0.8/coda.base/man/sbp_basis.Rd | 90 ++ coda.base-1.0.8/coda.base/src/tabu_search_neighbouhood.cpp | 69 +- coda.base-1.0.8/coda.base/tests/testthat/test-basis.R | 30 coda.base-1.0.8/coda.base/tests/testthat/test-dist-coda.R | 20 coda.base-1.0.8/coda.base/tests/testthat/test-options.R |only coda.base-1.0.8/coda.base/tests/testthat/test-sbp-basis.R |only coda.base-1.0.8/coda.base/tests/testthat/test-tabu-search.R | 49 + coda.base-1.0.8/coda.base/vignettes/coda-base.Rmd |only coda.base-1.0.8/coda.base/vignettes/coordinates.R |only 40 files changed, 783 insertions(+), 290 deletions(-)
Title: Robust Estimators for Multi-Group and Spatial Data
Description: Estimation of robust estimators for multi-group and spatial data including the casewise robust Spatially Smoothed Minimum Regularized Determinant (ssMRCD) estimator and its usage for local outlier detection as described in Puchhammer and Filzmoser (2023) <doi:10.1080/10618600.2023.2277875> as well as for sparse robust PCA for multi-source data described in Puchhammer, Wilms and Filzmoser (2026) <doi:10.1007/s11222-025-10771-y>. Moreover, a cellwise robust multi-group Gaussian mixture model (MG-GMM) is implemented as described in Puchhammer, Wilms and Filzmoser (2025) <doi:10.48550/arXiv.2504.02547>. Included are also complementary visualization and parameter tuning tools.
Author: Patricia Puchhammer [aut, cre, cph],
Peter Filzmoser [aut],
Ines Wilms [aut]
Maintainer: Patricia Puchhammer <patricia.puchhammer@tuwien.ac.at>
Diff between ssMRCD versions 2.0.1 dated 2025-09-16 and 2.0.3 dated 2026-11-13
ssMRCD-2.0.1/ssMRCD/man/RCOV.Rd |only ssMRCD-2.0.1/ssMRCD/man/cstep.Rd |only ssMRCD-2.0.1/ssMRCD/man/dist_cstep.Rd |only ssMRCD-2.0.1/ssMRCD/man/objective_init.Rd |only ssMRCD-2.0.1/ssMRCD/man/objective_matrix.Rd |only ssMRCD-2.0.3/ssMRCD/DESCRIPTION | 20 ssMRCD-2.0.3/ssMRCD/MD5 | 79 ssMRCD-2.0.3/ssMRCD/NAMESPACE | 3 ssMRCD-2.0.3/ssMRCD/NEWS.md |only ssMRCD-2.0.3/ssMRCD/R/RcppExports.R | 11 ssMRCD-2.0.3/ssMRCD/R/SRPCAMS.R | 1278 +++++++-------- ssMRCD-2.0.3/ssMRCD/R/SRPCAMS_helpers.R | 460 ++--- ssMRCD-2.0.3/ssMRCD/R/SRPCAMS_internal.R | 2090 +++++++++++++------------- ssMRCD-2.0.3/ssMRCD/R/SRPCAMS_methods.R | 1001 ++++++------ ssMRCD-2.0.3/ssMRCD/R/cellMGGMM.R | 1741 +++++++++++---------- ssMRCD-2.0.3/ssMRCD/R/locOuts.R | 671 ++++---- ssMRCD-2.0.3/ssMRCD/R/rcpp_compatibility.R | 9 ssMRCD-2.0.3/ssMRCD/R/ssMRCD.R | 1981 ++++++++++++------------ ssMRCD-2.0.3/ssMRCD/R/ssMRCD_helpers.R | 288 +-- ssMRCD-2.0.3/ssMRCD/R/ssMRCD_methods.R | 775 ++++----- ssMRCD-2.0.3/ssMRCD/inst/doc/SRPCAMS.R | 15 ssMRCD-2.0.3/ssMRCD/inst/doc/SRPCAMS.Rmd | 671 ++++---- ssMRCD-2.0.3/ssMRCD/inst/doc/SRPCAMS.html | 403 ++--- ssMRCD-2.0.3/ssMRCD/inst/doc/cellMGGMM.html | 3 ssMRCD-2.0.3/ssMRCD/inst/doc/ssMRCD.R | 23 ssMRCD-2.0.3/ssMRCD/inst/doc/ssMRCD.Rmd | 527 +++--- ssMRCD-2.0.3/ssMRCD/inst/doc/ssMRCD.html | 39 ssMRCD-2.0.3/ssMRCD/man/cellMGGMM.Rd | 25 ssMRCD-2.0.3/ssMRCD/man/geo_weights.Rd | 4 ssMRCD-2.0.3/ssMRCD/man/locOuts.Rd | 6 ssMRCD-2.0.3/ssMRCD/man/msPCA.Rd | 7 ssMRCD-2.0.3/ssMRCD/man/plot.locOuts.Rd | 2 ssMRCD-2.0.3/ssMRCD/man/plot.msPCA.Rd | 24 ssMRCD-2.0.3/ssMRCD/man/plot.ssMRCD.Rd | 10 ssMRCD-2.0.3/ssMRCD/man/residuals.ssMRCD.Rd | 2 ssMRCD-2.0.3/ssMRCD/man/scale.ssMRCD.Rd | 58 ssMRCD-2.0.3/ssMRCD/man/ssMRCD.Rd | 133 + ssMRCD-2.0.3/ssMRCD/src/Makevars | 17 ssMRCD-2.0.3/ssMRCD/src/Makevars.win | 17 ssMRCD-2.0.3/ssMRCD/src/cellMGGMM.cpp | 43 ssMRCD-2.0.3/ssMRCD/src/ssMRCD.cpp | 11 ssMRCD-2.0.3/ssMRCD/vignettes/SRPCAMS.Rmd | 671 ++++---- ssMRCD-2.0.3/ssMRCD/vignettes/SRPCAMS_pca.rds |only ssMRCD-2.0.3/ssMRCD/vignettes/ssMRCD.Rmd | 527 +++--- 44 files changed, 6821 insertions(+), 6824 deletions(-)
Title: Undo and Redo for 'shiny' Applications
Description: Adds a user-facing undo and redo history to 'shiny'
applications. Application state, comprising registered inputs and
optionally server-side reactive values, is captured as the user
interacts with the application. Users may then step backwards and
forwards through that history with the keyboard, with buttons, or by
scrubbing a visual history rail. Rapid successive changes, such as
dragging a slider, are coalesced into a single history entry, and
related changes may be grouped explicitly into semantic steps.
Author: Tanmay Chanda [aut, cre, cph]
Maintainer: Tanmay Chanda <tanmaychanda96@gmail.com>
Diff between rewind versions 0.3.0 dated 2026-09-25 and 0.4.0 dated 2026-11-13
DESCRIPTION | 10 LICENSE | 4 MD5 | 70 ++-- NAMESPACE | 4 NEWS.md | 82 +++++ R/api.R | 399 +++++++++++++++++++++----- R/controller.R | 493 ++++++++++++++++++++++++++------- R/diff.R | 110 +++++-- R/example.R |only R/history.R | 200 ++++++++++--- R/status.R |only R/ui.R | 52 ++- R/utils.R | 167 ++++++++++- README.md | 9 inst/WORDLIST | 4 inst/examples/demo/app.R | 36 +- inst/www/rewind.js | 92 ++++++ man/rewind-package.Rd | 6 man/rewind_diff.Rd | 5 man/rewind_enable.Rd | 57 +++ man/rewind_example.Rd |only man/rewind_exclude.Rd |only man/rewind_pause.Rd | 24 + man/rewind_status.Rd |only man/rewind_track.Rd | 25 + man/rewind_unrecorded.Rd |only tests/testthat.R | 8 tests/testthat/helper-shiny-smoke.R | 31 +- tests/testthat/test-api.R | 70 ++++ tests/testthat/test-app-smoke.R | 44 +- tests/testthat/test-args.R |only tests/testthat/test-capture.R |only tests/testthat/test-controller.R | 13 tests/testthat/test-diff.R | 17 + tests/testthat/test-example.R |only tests/testthat/test-history.R | 364 ++++++++++++++---------- tests/testthat/test-labels.R |only tests/testthat/test-reference-values.R |only tests/testthat/test-restorable.R |only tests/testthat/test-secrets.R |only tests/testthat/test-state.R | 36 +- tests/testthat/test-status.R |only tests/testthat/test-text-inputs.R |only tests/testthat/test-unrecorded.R |only 44 files changed, 1907 insertions(+), 525 deletions(-)
Title: Nonparametric Kernel Smoothing Methods for Mixed Data Types
Description: Nonparametric (and semiparametric) kernel methods that seamlessly handle a mix of continuous, unordered, and ordered factor data types. We would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca/>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://sshrc-crsh.canada.ca/en.aspx>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://sharcnet.ca/>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between np versions 0.80-1 dated 2026-10-26 and 0.80-2 dated 2026-11-13
DESCRIPTION | 11 MD5 | 713 +++++--- NAMESPACE | 11 NEWS.md | 884 +++++++++- R/a.bw.dispatch.R | 86 R/lsqregression.R | 9 R/np.band.rank.R |only R/np.band.resolution.R |only R/np.band.scale.R |only R/np.band.tail.R |only R/np.bandwidth.procedure.R |only R/np.bias.adaptation.R |only R/np.bias.capture.R |only R/np.bias.categorical.R |only R/np.bias.control.R |only R/np.bias.derivative.R |only R/np.bias.local.R |only R/np.bias.mixed.R |only R/np.bias.operators.R |only R/np.bias.process.R |only R/np.bias.profile.R |only R/np.bias.refinement.R |only R/np.bias.regression.R |only R/np.bias.score.student.R |only R/np.bias.student.R |only R/np.bias.transition.R |only R/np.cdhat.helpers.R | 1 R/np.cmstest.R | 13 R/np.condensity.R | 6 R/np.condensity.bw.R | 9 R/np.condistribution.R | 6 R/np.condistribution.bw.R | 5 R/np.conditional.inference.R |only R/np.conditional.inference.core.R |only R/np.conditional.mp1.R |only R/np.conditional.schema.R |only R/np.conmode.R | 6 R/np.copula.R | 117 - R/np.copula.nn.se.R |only R/np.data.contract.R | 11 R/np.deneqtest.R | 7 R/np.density.R | 9 R/np.density.bw.R | 11 R/np.deptest.R | 7 R/np.distribution.R | 9 R/np.distribution.bw.R | 11 R/np.eval.args.R | 19 R/np.evaluation.diagnostics.R | 8 R/np.formula.subset.R | 23 R/np.kernel.R | 5 R/np.lp.degree.search.R | 10 R/np.lsqregression.R | 20 R/np.pairs.R | 7 R/np.plot.arguments.R |only R/np.plot.asymptotic.R | 159 + R/np.plot.bias.normal.R |only R/np.plot.data.R |only R/np.plot.data.adapters.R |only R/np.plot.data.render.R |only R/np.plot.density.asymptotic.R | 110 + R/np.plot.engine.bandwidth.R | 186 +- R/np.plot.engine.conbandwidth.R | 121 + R/np.plot.engine.condbandwidth.R | 138 + R/np.plot.engine.dbandwidth.R | 75 R/np.plot.engine.plbandwidth.R | 48 R/np.plot.engine.rbandwidth.R | 191 +- R/np.plot.engine.scbandwidth.R | 71 R/np.plot.engine.sibandwidth.R | 32 R/np.plot.four.asymptotic.R | 31 R/np.plot.helpers.R | 335 ++- R/np.plot.interval.geometry.R | 6 R/np.plot.methods.R | 365 +++- R/np.plot.normal.stream.R |only R/np.plot.random.kinds.R |only R/np.plot.rgl.R | 7 R/np.plot.rng.replay.R |only R/np.plregression.R | 11 R/np.plregression.bw.R | 15 R/np.qcmstest.R | 13 R/np.qregression.R | 6 R/np.reg.percentile.R |only R/np.reg.percentile.plot.R |only R/np.reghat.R | 66 R/np.regression.R | 44 R/np.regression.bw.R | 193 +- R/np.response.R |only R/np.rng.scope.R |only R/np.sdeptest.R | 7 R/np.sigtest.R | 23 R/np.singleindex.R | 20 R/np.singleindex.bw.R | 19 R/np.smoothcoef.R | 9 R/np.smoothcoef.bw.R | 12 R/np.symtest.R | 7 R/np.udens.b2.bootstrap.R |only R/np.udens.b2.budget.R |only R/np.udens.b2.categorical.covariance.R |only R/np.udens.b2.covariance.R |only R/np.udens.b2.fixed.R |only R/np.udens.b3.inid.R |only R/np.udens.b4.inference.R |only R/np.udens.beta.block.native.R |only R/np.udens.beta.bootstrap.R |only R/np.udens.beta.calibration.R |only R/np.udens.beta.covariance.R |only R/np.udens.beta.dispatch.R |only R/np.udens.beta.joint.R |only R/np.udens.beta.moments.R |only R/np.udens.beta.normal.q2.R |only R/np.udens.beta.numerics.R |only R/np.udens.beta.provider.R |only R/np.udens.beta.public.R |only R/np.udens.beta.refits.native.R |only R/np.udens.beta.region.R |only R/np.udens.beta.series.R |only R/np.udens.beta.storage.R |only R/np.udens.beta.stream.R |only R/np.udens.beta.workspace.R |only R/np.udens.bias.categorical.R |only R/np.udens.bias.contribution.R |only R/np.udens.bias.gaussian.R |only R/np.udens.bias.inference.R |only R/np.udens.bias.inid.R |only R/np.udens.bias.prepare.R |only R/np.udens.block.process.R |only R/np.udens.bounded.companions.R |only R/np.udens.bounded.normal.R |only R/np.udens.calibrated.R |only R/np.udens.calibrated.plot.R |only R/np.udens.compact.bootstrap.R |only R/np.udens.compact.normal.R |only R/np.udens.compact.normal.q2.R |only R/np.udens.compact.numerics.R |only R/np.udens.compact.provider.R |only R/np.udens.compact.public.R |only R/np.udens.compact.q2.prepare.R |only R/np.udens.compact.q2.public.R |only R/np.udens.compact.q2.sd.R |only R/np.udens.d8.R |only R/np.udens.d8.pilot.moments.R |only R/np.udens.d8.pilot.process.R |only R/np.udens.d8.pilot.store.R |only R/np.udens.d8.public.R |only R/np.udens.fgd.operator.R |only R/np.udens.fgd.prepare.R |only R/np.udens.fgd.provider.R |only R/np.udens.fgd.public.R |only R/np.udens.fgd.workspace.R |only R/np.udens.plot.R |only R/np.udens.q1.operator.R |only R/np.udens.q1.quadrature.R |only R/np.udens.reference.R |only R/np.udens.resolution.R |only R/np.udens.scale.envelope.R |only R/np.udens.smoothed.R |only R/np.udenshat.R | 1 R/np.udist.asymmetric.R |only R/np.udist.bc.blocks.R |only R/np.udist.bc.context.R |only R/np.udist.bc.gnn.R |only R/np.udist.bc.nn.bootstrap.R |only R/np.udist.bc.process.R |only R/np.udist.bc.rows.R |only R/np.udist.gnn.center.R |only R/np.udist.gnn.process.R |only R/np.udist.joint.R |only R/np.udist.marginal.R |only R/np.udist.plot.R |only R/np.udist.process.cache.R |only R/np.udist.smoothed.R |only R/np.udist.smoothed.plot.R |only R/np.udisthat.R | 1 R/np.unitest.R | 7 R/npregiv.R | 26 R/npregivderiv.R | 23 build/partial.rdb |binary build/vignette.rds |binary data/cps71.rda |binary inst/README.plot-normal-stream.md |only inst/doc/np_entropy_tests.html | 2 inst/doc/np_getting_started.Rmd | 10 inst/doc/np_getting_started.html | 32 man/np-package.Rd | 3 man/np.cmstest.Rd | 2 man/np.condensity.Rd | 18 man/np.condensity.bw.Rd | 2 man/np.condistribution.Rd | 18 man/np.condistribution.bw.Rd | 2 man/np.conmode.Rd | 16 man/np.copula.Rd | 72 man/np.deneqtest.Rd | 2 man/np.density.Rd | 18 man/np.density.bw.Rd | 2 man/np.deptest.Rd | 2 man/np.distribution.Rd | 18 man/np.distribution.bw.Rd | 2 man/np.options.Rd | 4 man/np.pairs.Rd | 6 man/np.plot.Rd | 673 +++++-- man/np.plot.controls.Rd | 247 ++ man/np.plregression.Rd | 28 man/np.plregression.bw.Rd | 6 man/np.qcmstest.Rd | 2 man/np.qregression.Rd | 12 man/np.regression.Rd | 30 man/np.regression.bw.Rd | 4 man/np.regressioniv.Rd | 14 man/np.regressionivderiv.Rd | 14 man/np.rng.scope.Rd |only man/np.sdeptest.Rd | 2 man/np.sigtest.Rd | 2 man/np.singleindex.Rd | 40 man/np.singleindex.bw.Rd | 13 man/np.smoothcoef.Rd | 28 man/np.smoothcoef.bw.Rd | 8 man/np.symtest.Rd | 2 man/np.unitest.Rd | 2 man/np_bias_control.Rd |only man/np_conditional_bias_control.Rd |only man/np_plot_data.Rd |only man/np_udens_bias_control.Rd |only man/np_udist_bias_control.Rd |only man/nplsqreg.Rd | 10 src/Makevars.in | 4 src/Makevars.win | 4 src/README.md | 6 src/conditional_literal/entry_C_np_regression.inc | 68 src/conditional_literal/entry_np_regression_fitted_execute.inc | 8 src/conditional_literal/jksum_kernel_estimate_regression_categorical_tree_np.inc | 26 src/conditional_literal/jksum_np_plot_gate_prepare.inc | 17 src/conditional_literal/jksum_np_regression_general_lp_fit_body.inc | 59 src/conditional_literal/jksum_np_regression_scalar_fit_execute.inc | 7 src/headers.h | 8 src/jksum.c | 113 + src/np_init.c | 33 src/np_plot_projection.c | 60 src/np_plot_regression_gradient_projection.h | 7 src/plot_udens_beta.c |only src/plot_udens_d8.c |only src/plot_udens_fgd.c |only src/reghat_fast.c | 36 src/regression_precision.c |only src/regression_precision.h |only src/rng_scope.c |only tests/testthat/fixtures/region-certificate-retained.rds |only tests/testthat/fixtures/required-training-specs.rds |only tests/testthat/fixtures/sphere-convergence-retained.rds |only tests/testthat/helper-plot-provider.R |only tests/testthat/test-asymmetric-family-root-ranks.R |only tests/testthat/test-band-calibration.R |only tests/testthat/test-bandwidth-procedure.R |only tests/testthat/test-beta-region-roundoff-scale.R |only tests/testthat/test-beta-unconditional-plot-interval-contract.R | 17 tests/testthat/test-bias-additional-laws.R |only tests/testthat/test-bias-capture-provenance.R |only tests/testthat/test-bias-categorical-only.R |only tests/testthat/test-bias-continuous-transition.R |only tests/testthat/test-bias-control.R |only tests/testthat/test-bias-gaussian-replay.R |only tests/testthat/test-bias-local-capture.R |only tests/testthat/test-bias-mixed-adaptation.R |only tests/testthat/test-bias-multivariate-capture.R |only tests/testthat/test-bias-observed-grid.R |only tests/testthat/test-bias-pilot-precision.R |only tests/testthat/test-bias-pooled-nn.R |only tests/testthat/test-bias-profile-capacity.R |only tests/testthat/test-bootstrap-na-factor-label.R | 4 tests/testthat/test-bounded-normal-annotation.R |only tests/testthat/test-bounded-normal-cross-guide-weights.R |only tests/testthat/test-bw-package-selector-owner.R |only tests/testthat/test-bws-argument-identity.R |only tests/testthat/test-categorical-profile-tile-contract.R | 25 tests/testthat/test-conditional-mp1-contract.R |only tests/testthat/test-conditional-pilot-inference.R |only tests/testthat/test-conditional-plot-training-schema.R |only tests/testthat/test-conditional-response-stability.R | 4 tests/testthat/test-conmode-plot-na-rows.R |only tests/testthat/test-conmode-projected-plot-effects-contract.R | 3 tests/testthat/test-custom-rng-scope-representation.R |only tests/testthat/test-density-full-fixed-block.R |only tests/testthat/test-density-hat-numeric-rhs.R |only tests/testthat/test-density-legacy-full-block.R |only tests/testthat/test-density-plot-empty-information.R |only tests/testthat/test-density-surface-center-range.R |only tests/testthat/test-density-uniform-ignored-order.R |only tests/testthat/test-external-row-plot-publication.R | 22 tests/testthat/test-fitted-response-reconstruction.R |only tests/testthat/test-formula-bandwidth-promise.R |only tests/testthat/test-formula-data-once-handoff.R |only tests/testthat/test-formula-saved-data-readers.R | 7 tests/testthat/test-formula-syntax-validation.R | 2 tests/testthat/test-four-family-simultaneous.R | 12 tests/testthat/test-gaussian-alpha-producer.R |only tests/testthat/test-gnn-mixed-radius-gate.R |only tests/testthat/test-gradient-order-public-owner-contract.R | 4 tests/testthat/test-gradient-spelling-contract.R | 23 tests/testthat/test-guide-region-all-legend.R |only tests/testthat/test-guide-region-annotation.R |only tests/testthat/test-guide-region-certificate.R |only tests/testthat/test-guide-region-rng-diagnostic.R |only tests/testthat/test-guide-sphere-convergence.R |only tests/testthat/test-hat-factor-response-contract.R | 47 tests/testthat/test-index-formula-na-handoff.R |only tests/testthat/test-legacy-calibration.R |only tests/testthat/test-lsq-caller-na-policy.R |only tests/testthat/test-lsq-formula-scale-field.R |only tests/testthat/test-lsq-numeric-response-ingress.R |only tests/testthat/test-mixed-data-gradient-first-difference-contract.R | 8 tests/testthat/test-native-data-first-ownership.R | 18 tests/testthat/test-native-frame-arguments.R |only tests/testthat/test-native-stored-frame-refusal.R |only tests/testthat/test-native-unconditional-vector-identity.R |only tests/testthat/test-nested-bandwidth-training-owner.R | 10 tests/testthat/test-normal-replay-owner.R |only tests/testthat/test-npc-conditional-higher-order-gradients.R | 18 tests/testthat/test-npcdens-plot-bootstrap-center-contract.R | 29 tests/testthat/test-npcdens-proper-plot-contract.R | 56 tests/testthat/test-npcdist-proper-plot-contract.R | 68 tests/testthat/test-npconmode-proper-probability-contract.R | 139 - tests/testthat/test-npcopula-active-marginal-kernels.R | 3 tests/testthat/test-npcopula-audit-contracts.R | 8 tests/testthat/test-npcopula-bounded-inverse-grid.R | 5 tests/testthat/test-npcopula-coordinate-contract.R | 41 tests/testthat/test-npcopula-endpoint-roundoff.R |only tests/testthat/test-npcopula-missing-endpoint.R |only tests/testthat/test-npcopula-nn-ratio-se.R |only tests/testthat/test-npcopula-render-coordinate-map.R | 16 tests/testthat/test-npcopula.R | 24 tests/testthat/test-nplsqreg-option-contract.R | 39 tests/testthat/test-npplreg-audit-contracts.R | 7 tests/testthat/test-npplreg-generalized-nn-bootstrap-contract.R | 2 tests/testthat/test-npplreg.R | 8 tests/testthat/test-npplregbw-degree-search-contract.R | 42 tests/testthat/test-npqreg-plot-solver-controls.R | 16 tests/testthat/test-npqreg-retained-solver-controls.R | 2 tests/testthat/test-npqreg.R | 8 tests/testthat/test-npreg-adaptive-plot-bootstrap-contract.R | 4 tests/testthat/test-npreg-arg-contract.R | 24 tests/testthat/test-npreg-audit-contracts.R | 13 tests/testthat/test-npreg-glp-higher-order.R | 2 tests/testthat/test-npreg-native-inference-capture.R |only tests/testthat/test-npreghat-lc-empty-external-contract.R | 2 tests/testthat/test-npregiv-forensic-contract.R | 4 tests/testthat/test-npregiv-plot-interface.R | 32 tests/testthat/test-npregiv-state-contract.R | 6 tests/testthat/test-npscoef-omitted-z-plot.R | 15 tests/testthat/test-npsigtest-categorical-studentization-contract.R | 12 tests/testthat/test-npsigtest-default-argument-ownership-contract.R | 26 tests/testthat/test-npsigtest-selected-coordinate-contract.R | 31 tests/testthat/test-numeric-response-contract.R |only tests/testthat/test-opaque-rng-replay.R |only tests/testthat/test-pairs-response-ingress.R |only tests/testthat/test-percentile-nominal-alpha.R |only tests/testthat/test-percentile-used-ranks.R |only tests/testthat/test-physical-bandwidth-helper-contract.R | 8 tests/testthat/test-plot-asymptotic-failfast-contract.R | 26 tests/testthat/test-plot-asymptotic-gaussian.R | 125 - tests/testthat/test-plot-audit-regressions.R | 22 tests/testthat/test-plot-beta-density-variability.R |only tests/testthat/test-plot-bootstrap-arg-contract.R | 17 tests/testthat/test-plot-bootstrap-frozen-payload-contract.R | 31 tests/testthat/test-plot-bootstrap-inid-nn-smoke-contract.R | 2 tests/testthat/test-plot-bootstrap-npindex-frozen-contract.R | 10 tests/testthat/test-plot-bootstrap-npplreg-frozen-contract.R | 8 tests/testthat/test-plot-bootstrap-npreg-frozen-contract.R | 4 tests/testthat/test-plot-bootstrap-npscoef-frozen-contract.R | 2 tests/testthat/test-plot-cdf-panel-center.R |only tests/testthat/test-plot-cdf-retained-names.R |only tests/testthat/test-plot-conditional-categorical-gradient-bootstrap.R | 8 tests/testthat/test-plot-conditional-gradients-bootstrap.R | 10 tests/testthat/test-plot-contract.R | 113 - tests/testthat/test-plot-copula-constant-ratio.R | 2 tests/testthat/test-plot-corrected-progress.R |only tests/testthat/test-plot-data-schema.R |only tests/testthat/test-plot-densdist-fixed-reuse.R | 2 tests/testthat/test-plot-density-gaussian.R | 40 tests/testthat/test-plot-density-higher-order-variability.R |only tests/testthat/test-plot-dotted-arguments.R | 41 tests/testthat/test-plot-fixed-bwtype-family-coverage.R | 2 tests/testthat/test-plot-followup-contracts.R | 15 tests/testthat/test-plot-gradient-axis-label-contract.R | 22 tests/testthat/test-plot-grid-coordinate-contract.R | 8 tests/testthat/test-plot-helper-semantics-contract.R | 9 tests/testthat/test-plot-nonfinite-geometry-contract.R | 20 tests/testthat/test-plot-normal-stream.R |only tests/testthat/test-plot-partial-gradient-availability-contract.R | 90 - tests/testthat/test-plot-plbandwidth-bias-center-contract.R | 10 tests/testthat/test-plot-plreg-unavailable.R | 14 tests/testthat/test-plot-progress-labels.R |only tests/testthat/test-plot-quantile-categorical-gradient-bootstrap.R | 8 tests/testthat/test-plot-ragged-panel-ranges.R | 2 tests/testthat/test-plot-rbandwidth-categorical-gradient-bootstrap.R | 38 tests/testthat/test-plot-rbandwidth-limits.R |only tests/testthat/test-plot-rbandwidth-ylab-contract.R | 20 tests/testthat/test-plot-regression-fixed-gradient-helper.R | 20 tests/testthat/test-plot-regression-wild-pilot-geometry.R | 14 tests/testthat/test-plot-rng-absent-state.R |only tests/testthat/test-plot-rng-replay-refusal.R |only tests/testthat/test-plot-rotation-progress.R |only tests/testthat/test-plot-rug-coordinates-contract.R |only tests/testthat/test-plot-scbandwidth-bias-center-contract.R | 14 tests/testthat/test-plot-scoef-term.R |only tests/testthat/test-plot-sibandwidth-fixed-gradient-bootstrap.R | 10 tests/testthat/test-plot-sibandwidth-helper-contract.R | 22 tests/testthat/test-plot-singleindex-wild-bounded-contract.R | 16 tests/testthat/test-plot-standalone-corrected-progress.R |only tests/testthat/test-plot-stream-rng-kinds.R |only tests/testthat/test-plot-trim-range.R |only tests/testthat/test-plot-unconditional-engine-certification-contract.R | 15 tests/testthat/test-plot-uniform-density-variability.R |only tests/testthat/test-plot-uniform-partial-bounds.R |only tests/testthat/test-plot-variability-annotation-contract.R | 42 tests/testthat/test-plot-warning-interface-contract.R | 24 tests/testthat/test-plreg-surface-object-contract.R | 55 tests/testthat/test-post-r15-plot-display.R | 4 tests/testthat/test-post-release-gradient-contracts.R | 12 tests/testthat/test-r17-unused-plot-levels.R | 14 tests/testthat/test-r33-reporting.R | 5 tests/testthat/test-r34-repaired-contracts.R | 51 tests/testthat/test-r35-contracts.R | 39 tests/testthat/test-r36-contracts.R | 17 tests/testthat/test-r7-plot-and-index-metadata.R | 8 tests/testthat/test-reg-percentile-contract.R |only tests/testthat/test-reg-percentile-forecast.R |only tests/testthat/test-reg-percentile-rng-state.R |only tests/testthat/test-reghat-implicit-factor-response.R | 15 tests/testthat/test-regression-accepted-precision.R |only tests/testthat/test-regression-categorical-profile-compression-contract.R | 70 tests/testthat/test-regression-hc0-cumulative-integration-contract.R | 12 tests/testthat/test-regression-numeric-boundary.R |only tests/testthat/test-regression-response-representation-extent.R | 22 tests/testthat/test-regression-response-support.R | 13 tests/testthat/test-remaining-simultaneous-copula-duplicates.R | 46 tests/testthat/test-remaining-simultaneous-quantile-surface.R | 36 tests/testthat/test-required-training-null.R |only tests/testthat/test-rly-profile-canonical-owner.R | 10 tests/testthat/test-scoef-gradient-wild-reuse.R | 2 tests/testthat/test-scoef-plot-coefficient-index.R |only tests/testthat/test-sdeptest-missing-time-contract.R | 2 tests/testthat/test-seed-helper-contract.R | 98 - tests/testthat/test-semihat.R | 12 tests/testthat/test-semiparam-formula-response-name-contract.R | 3 tests/testthat/test-signed-density-public-critical.R |only tests/testthat/test-singleindex-grid-controls.R |only tests/testthat/test-singleindex-r32-contracts.R | 9 tests/testthat/test-stored-fit-subset-refusal.R |only tests/testthat/test-surface-finite-range.R |only tests/testthat/test-ud-pmzsd.R |only tests/testthat/test-udens-beta-band-contract.R |only tests/testthat/test-udens-beta-normal-q2.R |only tests/testthat/test-udens-bias-control.R |only tests/testthat/test-udens-bounded-companions.R |only tests/testthat/test-udens-bounded-normal.R |only tests/testthat/test-udens-bounded-sd-companions.R |only tests/testthat/test-udens-compact-band-contract.R |only tests/testthat/test-udens-compact-normal-q2.R |only tests/testthat/test-udens-compact-normal.R |only tests/testthat/test-udens-compact-public-seed.R |only tests/testthat/test-udens-compact-q2-calibrated.R |only tests/testthat/test-udens-compact-sd.R |only tests/testthat/test-udens-d8-pilot-contract.R |only tests/testthat/test-udens-d8-plot-contract.R |only tests/testthat/test-udens-d8-public-contract.R |only tests/testthat/test-udens-fgd-band-contract.R |only tests/testthat/test-udens-positive-gram-admission.R |only tests/testthat/test-udens-q1-operator.R |only tests/testthat/test-udens-q1-quadrature.R |only tests/testthat/test-udens-reference-public.R |only tests/testthat/test-udens-resolution.R |only tests/testthat/test-udens-smoothed-calibration.R |only tests/testthat/test-udist-asymmetric.R |only tests/testthat/test-udist-gnn-joint.R |only tests/testthat/test-udist-gnn-zero-limit.R |only tests/testthat/test-udist-joint-extensions.R |only tests/testthat/test-udist-low-draw.R |only tests/testthat/test-udist-marginal-score.R |only tests/testthat/test-udist-ordered-labels.R |only tests/testthat/test-udist-private-public.R |only tests/testthat/test-udist-process-cache.R |only tests/testthat/test-udist-signed-replay.R |only tests/testthat/test-udist-smoothed-private-contract.R |only tests/testthat/test-uniform-replay-owner.R |only tests/validation/adaptive_regression_fullrow_blas_installed.R | 16 tests/validation/npudist-bc-private |only vignettes/np_getting_started.Rmd | 10 485 files changed, 6464 insertions(+), 2167 deletions(-)
Title: Regularized Parametric Modal Regression: Lasso, Elastic Net and
Ridge
Description: Variable selection and estimation for parametric modal regression
with continuous positive responses (Gamma, Weibull and Lognormal families)
under Lasso, elastic-net, ridge and adaptive-Lasso penalties. The conditional
mode is linked to a linear predictor through a logarithmic link using the
mode reparameterization of Galarza and Lachos (2026) <doi:10.48550/arXiv.2603.07099>.
The penalized log-likelihood is maximized with a proximal Newton algorithm
(iteratively reweighted penalized least squares): at each iteration the
modal log-likelihood is replaced by a local quadratic surrogate in the
linear predictor, which yields a pseudo-response and a working weight in
closed form, and the resulting weighted penalized least-squares subproblem
is solved by the coordinate-descent solver of 'glmnet' (Friedman, Hastie and
Tibshirani, 2010, <doi:10.18637/jss.v033.i01>). The regularization parameter
is chosen along a warm-started path by the extended Bayesian information
criterion of Che [...truncated...]
Author: Christian E. Galarza [aut, cre, cph] ,
Victor H. Lachos [aut] ,
Dashun Liu [aut]
Maintainer: Christian E. Galarza <chedgala@espol.edu.ec>
Diff between ModalNet versions 0.3.0 dated 2026-11-04 and 0.3.1 dated 2026-11-13
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 17 +++++++++++++++++ R/modal_net.R | 50 ++++++++++++++++++++++++++++++++++++++++++++++++-- man/modal_net.Rd | 8 ++++++-- tests/test-modalnet.R | 15 +++++++++++++++ 6 files changed, 94 insertions(+), 12 deletions(-)
Title: Toolkit and Datasets for Data Science
Description: Provides a collection of helper functions and illustrative datasets to support learning and teaching of data science with R. The package is designed as a companion to the book <https://book-data-science-r.netlify.app>, making key data science techniques accessible to individuals with minimal coding experience. Functions include tools for data partitioning, performance evaluation, and data transformations (e.g., z-score and min-max scaling). The included datasets are curated to highlight practical applications in data exploration, modeling, and multivariate analysis. An early inspiration for the package came from an ancient Persian idiom about "eating the liver", symbolizing deep and immersive engagement with knowledge.
Author: Reza Mohammadi [aut, cre] ,
Jeroen van Raak [ctb] ,
Kevin Burke [ctb]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between liver versions 1.30 dated 2026-09-10 and 1.31 dated 2026-11-13
DESCRIPTION | 18 ++-- MD5 | 74 +++++++++--------- NEWS.md | 5 + R/accuracy.R | 2 R/conf.mat.R | 2 R/conf.mat.plot.R | 2 R/find.na.R | 2 R/kNN.R | 2 R/kNN.plot.R | 205 +++++++++++++++++++++++++++++---------------------- R/mae.R | 2 R/minmax.R | 2 R/mse.R | 2 R/one.hot.R | 131 +++++++++++++++++++++++--------- R/partition.R | 2 R/prop.conf.R | 2 R/scaler.R | 2 R/skewness.R | 2 R/skim.R | 2 R/t_conf.R | 2 R/z.conf.R | 2 R/zscore.R | 2 man/accuracy.Rd | 2 man/caravan.Rd | 2 man/cereal.Rd | 5 - man/conf.mat.Rd | 2 man/conf.mat.plot.Rd | 2 man/find.na.Rd | 2 man/kNN.Rd | 2 man/kNN.plot.Rd | 10 +- man/liver-package.Rd | 13 --- man/mae.Rd | 2 man/minmax.Rd | 2 man/mse.Rd | 2 man/one.hot.Rd | 64 +++++++++++---- man/scaler.Rd | 2 man/skewness.Rd | 2 man/skim.Rd | 2 man/zscore.Rd | 2 38 files changed, 346 insertions(+), 237 deletions(-)
Title: Content-Shaped Loading Placeholders for 'shiny' Outputs
Description: Shows a grey placeholder in the shape of the content while a
'shiny' output loads, in place of a spinner. The user can thus see what
is coming, and not only that something happens. The shape comes from
the type of the output. The placeholder keeps the space of the content,
so the page does not move when the content arrives. When an output
calculates again, the old content stays on the screen, dimmed, and a
placeholder does not replace it.
Author: Tanmay Chanda [aut, cre, cph]
Maintainer: Tanmay Chanda <tanmaychanda96@gmail.com>
Diff between bones versions 0.1.1 dated 2026-10-16 and 0.2.0 dated 2026-11-13
DESCRIPTION | 6 MD5 | 85 ++- NAMESPACE | 3 NEWS.md | 65 ++ R/auto.R | 18 R/block.R | 3 R/error.R |only R/shapes.R |only R/skeleton.R | 145 ++++- R/utils.R | 127 +++++ R/with-bones.R | 225 +++++++-- README.md | 56 ++ inst/www/bones.css | 307 +++++++++--- inst/www/bones.js | 654 ++++++++++++++++++++++++++- man/bones_animations.Rd |only man/bones_auto.Rd | 3 man/bones_defaults.Rd | 20 man/bones_error.Rd |only man/bones_shapes.Rd |only man/bones_skeleton.Rd | 20 man/withBones.Rd | 79 ++- tests/testthat/apps/content-delay |only tests/testthat/apps/csp |only tests/testthat/apps/custom-learn |only tests/testthat/apps/errors |only tests/testthat/apps/external-state |only tests/testthat/apps/learn |only tests/testthat/apps/learn-cards |only tests/testthat/apps/learn-edge |only tests/testthat/apps/settle/app.R | 6 tests/testthat/apps/theme-plain |only tests/testthat/helper-shiny-smoke.R | 24 tests/testthat/test-app-csp.R |only tests/testthat/test-app-custom-learn.R |only tests/testthat/test-app-learn.R |only tests/testthat/test-app-smoke.R | 169 ++++++ tests/testthat/test-app-theme-plain.R |only tests/testthat/test-auto.R | 28 + tests/testthat/test-chart-types.R | 4 tests/testthat/test-choices.R |only tests/testthat/test-content-delay.R |only tests/testthat/test-csp.R |only tests/testthat/test-custom-learn.R |only tests/testthat/test-custom.R | 20 tests/testthat/test-defaults.R | 66 ++ tests/testthat/test-error-payload.R |only tests/testthat/test-error.R |only tests/testthat/test-external-state-browser.R |only tests/testthat/test-external-state.R |only tests/testthat/test-learn.R |only tests/testthat/test-look.R |only tests/testthat/test-shape-arguments.R |only tests/testthat/test-shapes.R |only tests/testthat/test-skeleton.R | 44 + tests/testthat/test-with-bones.R | 5 55 files changed, 1913 insertions(+), 269 deletions(-)
Title: Bayesian Heteroskedastic Gaussian Processes
Description: Performs Bayesian posterior inference for heteroskedastic Gaussian processes.
Models are trained through MCMC including elliptical slice sampling (ESS) of
latent noise processes and Metropolis-Hastings sampling of
kernel hyperparameters. Replicates are handled efficientyly through a
Woodbury formulation of the joint likelihood for the mean and noise process
(Binois, M., Gramacy, R., Ludkovski, M. (2018) <doi:10.1080/10618600.2018.1458625>)
For large data, Vecchia-approximation for faster
computation is leveraged (Sauer, A., Cooper, A., and Gramacy, R.,
(2023), <doi:10.1080/10618600.2022.2129662>). Incorporates 'OpenMP' and
SNOW parallelization and utilizes 'C'/'C++' under the hood.
Author: Parul V. Patil [aut, cre]
Maintainer: Parul V. Patil <parulvijay@vt.edu>
Diff between bhetGP versions 1.0.2 dated 2026-02-08 and 1.0.3 dated 2026-11-13
DESCRIPTION | 8 +- MD5 | 44 ++++++----- NAMESPACE | 99 +++++++++++++++----------- R/SV.R | 54 +++++++------- R/checks.R | 54 ++++++++------ R/fit.R | 193 ++++++++++++++++++++++++++-------------------------- R/functions.R | 7 + R/general.R | 5 + R/gibbs.R | 69 +++++++++++++----- R/gibbs_vdims_N.R | 39 ++++++++-- R/gibbs_vecchia.R | 149 +++++++++++++++++++++++++++------------- R/inits.R | 10 ++ R/mcmc.R | 2 R/plots.R | 82 +++++++++++----------- R/predict.R | 131 ++++++++++++++++++++++++++--------- R/predict_lite.R |only R/predict_sample.R |only R/predict_vecchia.R | 46 +++++++----- R/trim.R | 6 - R/vecchia.R | 14 +++ man/bhetGP.Rd | 14 +-- man/bhetGP_vdims.Rd | 12 +-- man/bhomGP.Rd | 14 +-- man/predict.Rd | 16 ++++ 24 files changed, 666 insertions(+), 402 deletions(-)
Title: Bayesian Federated Inference
Description: The Bayesian Federated Inference ('BFI') method combines inference results obtained from local data sets in the separate centers. In this version of the package, the 'BFI' methodology is programmed for linear, logistic and survival regression models. For GLMs, see Jonker, Pazira and Coolen (2024) <doi:10.1002/sim.10072>; for survival models, see Pazira, Massa, Weijers, Coolen and Jonker (2026) <doi:10.1080/02664763.2025.2511932>; and for heterogeneous populations, see Jonker, Pazira and Coolen (2025) <doi:10.1017/rsm.2025.6>.
Author: Hassan Pazira [aut, cre] ,
Emanuele Massa [aut] ,
Marianne A. Jonker [aut]
Maintainer: Hassan Pazira <h.pazira@arq.org>
Diff between BFI versions 3.3.0 dated 2026-10-28 and 3.4.0 dated 2026-11-13
DESCRIPTION | 8 MD5 | 52 +++--- NEWS.md | 31 +++ R/MAP.estimation.R | 12 + R/bfi-formula-inputs.R | 57 +++++- R/confint.bfi.R | 9 + R/inv.prior.cov.R | 10 - README.md | 10 - build/partial.rdb |binary inst/doc/BFI.R | 116 +++++++------- inst/doc/BFI.Rmd | 151 +++++++++++------- inst/doc/BFI.html | 264 +++++++++++++++++--------------- inst/doc/Python.R | 25 +-- inst/doc/Python.Rmd | 209 ++++++++++++------------- inst/doc/Python.html | 244 ++++++++++++++--------------- man/BFI-package.Rd | 6 man/BFI.Rd | 4 man/MAP.estimation.Rd | 38 +++- man/b.diag.Rd | 2 man/confint.bfi.Rd | 10 + man/hazards.fun.Rd | 10 - man/inv.prior.cov.Rd | 14 + man/summary.bfi.Rd | 2 man/surv.simulate.Rd | 4 tests/testthat/test-formula-interface.R | 190 ++++++++++++++++++++--- vignettes/BFI.Rmd | 151 +++++++++++------- vignettes/Python.Rmd | 209 ++++++++++++------------- 27 files changed, 1106 insertions(+), 732 deletions(-)
Title: Auxiliary Data Package for Our Main Package 'dartR'
Description: Data package for 'dartR'. Provides data sets to run examples in 'dartR'.
This was necessary due to the size limit imposed by 'CRAN'. The data in 'dartR.data'
is needed to run the examples provided in the 'dartR' functions.
All available data sets are either based on actual data (but reduced in size)
and/or simulated data sets to allow the fast execution of examples and demonstration
of the functions.
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Carlo Pacioni [aut],
Oliver Berry [ctb]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR.data versions 1.2.2 dated 2026-03-17 and 1.2.7 dated 2026-11-13
DESCRIPTION | 10 ++++----- MD5 | 26 ++++++++++++++---------- R/datasets.r | 43 +++++++++++++++++++++++++++++++++++++++++ data/EYR.rda |binary data/LBP.rda |binary data/YTH.rda |binary data/bandicoot.gl.rda |binary data/platypus.gl.rda |binary data/possums.gl.rda |binary data/testset.gl.rda |binary data/testset.gs.rda |binary data/testset2.gl.rda |only data/testset2.gs.rda |only inst/extdata/sim_variables.csv | 10 ++++----- man/testset2.gl.Rd |only man/testset2.gs.Rd |only 16 files changed, 68 insertions(+), 21 deletions(-)
Title: A Tidy Tool for Phylogenetic Tree Data Manipulation
Description: Phylogenetic trees contain components such as nodes, edges,
branches, and associated data. As the core data manipulation tool in the
'ggtree' ecosystem, 'tidytree' provides tools for converting tree objects
to tidy data frames and tidy interfaces for manipulating, analyzing, and
visualizing tree data.
Author: Guangchuang Yu [aut, cre, cph] ,
Bradley Jones [ctb],
Zebulun Arendsee [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between tidytree versions 0.4.8 dated 2026-07-02 and 0.4.9 dated 2026-11-13
DESCRIPTION | 10 MD5 | 168 ++++---- NAMESPACE | 415 +++++++++++---------- NEWS | 96 ++--- NEWS.md | 329 ++++++++--------- R/AllClasses.R | 138 +++---- R/AllGenerics.R | 502 +++++++++++++------------- R/ancestor.R | 496 ++++++++++++------------- R/ape.R | 134 +++--- R/as-tibble.R | 276 +++++++------- R/converter.R | 128 +++--- R/filter.R | 64 +-- R/full-join.R | 112 ++--- R/get-data.R | 46 +- R/get-fields.R | 74 +-- R/groupClade.R | 88 ++-- R/groupOTU.R | 210 +++++----- R/inner-join.R | 106 ++--- R/isTip.R | 38 - R/left-join.R | 172 ++++---- R/method-MRCA.R | 24 - R/method-accessor.R | 396 ++++++++++---------- R/method-as-ultrametric.R | 56 +- R/method-drop-tip.R | 226 +++++------ R/method-get-treetext.R | 18 R/method-groupClade.R | 54 +- R/method-groupOTU.R | 190 ++++----- R/method-merge.R | 20 - R/method-reroot.R | 556 ++++++++++++++--------------- R/methods-tidyr.R | 34 - R/mutate.R | 64 +-- R/nodeid.R | 74 +-- R/offspring-bulk.R |only R/offspring.R | 461 ++++++++++++++---------- R/pull.R | 24 - R/reexports.R | 144 +++---- R/rename.R | 144 +++---- R/select.R | 60 +-- R/show.R | 332 ++++++++--------- R/sibling.R | 48 +- R/tidy-package.R | 6 R/tidy_utilities.R | 222 +++++------ R/tree-subset.R | 290 +++++++-------- R/zzz.R | 10 inst/CITATION | 36 - man/MRCA.Rd | 44 +- man/Nnode.treedata.Rd | 54 +- man/ancestor.Rd | 66 +-- man/as.treedata.Rd | 62 +-- man/as.ultrametric.Rd | 38 - man/child.Rd | 66 +-- man/drop.tip-methods.Rd | 118 +++--- man/get.data-methods.Rd | 50 +- man/get.fields-methods.Rd | 48 +- man/get.treetext-methods.Rd | 46 +- man/getNodeNum.Rd | 46 +- man/get_tree_data.Rd | 40 +- man/groupClade.Rd | 58 +-- man/groupOTU.Rd | 52 +- man/isTip.Rd | 66 +-- man/node.label.Rd | 46 +- man/nodeid.Rd | 44 +- man/nodelab.Rd | 44 +- man/offspring.Rd | 76 +-- man/offspring_bulk.Rd |only man/parent.Rd | 66 +-- man/reexports.Rd | 98 ++--- man/root-method.Rd | 54 +- man/rootnode.Rd | 44 +- man/show-methods.Rd | 42 +- man/sibling.Rd | 44 +- man/td-label-assign.Rd | 76 +-- man/tidytree-package.Rd | 68 +-- man/tip.label.Rd | 32 - man/tree_subset.Rd | 136 +++---- man/treedata-class.Rd | 84 ++-- man/treedata.Rd | 40 +- tests/testthat.R | 8 tests/testthat/test-access-related-nodes.R | 494 ++++++++++++------------- tests/testthat/test-assign.R | 54 +- tests/testthat/test-dplyr-methods.R | 266 ++++++------- tests/testthat/test-drop.tip.R | 28 - tests/testthat/test-fulljoin.R | 24 - tests/testthat/test-grouping.R | 62 +-- tests/testthat/test-innerjoin.R | 20 - tests/testthat/test-offspring-bulk.R |only tests/testthat/test-offspring.R |only 87 files changed, 5014 insertions(+), 4881 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291> and Hothorn (2020)
<DOI:10.18637/jss.v092.i01>. Shift-scale (Siegfried et al, 2023, <DOI:10.1080/00031305.2023.2203177>)
and multivariate (Klein et al, 2022, <DOI:10.1111/sjos.12501>) transformation models
are part of this package. A package vignette is available from <DOI:10.32614/CRAN.package.mlt.docreg> and
more convenient user interfaces to many models from <DOI:10.32614/CRAN.package.tram>.
Author: Torsten Hothorn [aut, cre] ,
Michael Thimo Brunner [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 1.8-4 dated 2026-10-13 and 1.9-0 dated 2026-11-13
DESCRIPTION | 25 +++-- MD5 | 42 ++++----- NAMESPACE | 6 - R/activeset.R |only R/activeset_ctrl.R |only R/dpq_etc.R | 4 R/mlt.R | 53 +++++++++-- R/mltoptim.R | 199 ++++++++++++++++++++++++++++++++++++++------- R/mmlt.R | 3 build/partial.rdb |binary inst/NEWS.Rd | 23 ++--- man/mltoptim.Rd | 73 ++++++++++++---- tests/2sample.Rout.save | 4 tests/Cox-Ex.Rout.save | 4 tests/bugfixes.R | 8 - tests/bugfixes.Rout.save | 14 --- tests/dpq-Ex.Rout.save | 4 tests/glm-Ex.Rout.save | 4 tests/lm-Ex.Rout.save | 4 tests/polr-Ex.Rout.save | 4 tests/predict-Ex.Rout.save | 4 tests/subset.Rout.save | 4 tests/surv-Ex.Rout.save | 4 23 files changed, 348 insertions(+), 138 deletions(-)
Title: Grouped Date Classes
Description: Provides a coherent interface and implementation for creating
grouped date classes.
Author: Tim Taylor [aut, cre]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between grates versions 1.8.1 dated 2026-11-11 and 1.8.2 dated 2026-11-13
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 5 +++++ src/grates.c | 2 +- 4 files changed, 12 insertions(+), 7 deletions(-)
Title: Credential Chain for OAuth 2.0 Authentication to 'Azure'
Description: Implements a credential chain for 'Azure' OAuth 2.0
authentication, built on the OAuth framework of the 'httr2' package.
Tries authentication methods in turn until one succeeds, so the same
code runs on a laptop, in continuous integration and on an 'Azure'
host. Supports client secret, workload identity, managed identity and
'Azure CLI' credentials, plus interactive device code and authorization
code flows during development.
Author: Pedro Baltazar [aut, cre, cph]
Maintainer: Pedro Baltazar <pedrobtz@gmail.com>
Diff between azr versions 0.3.6 dated 2026-09-22 and 0.3.7 dated 2026-11-13
DESCRIPTION | 25 +- LICENSE | 2 MD5 | 28 +- NEWS.md | 9 R/credential-azure-cli.R | 220 +++++++++++++++---- R/credential-managed-identity.R | 435 ++++++++++++++++++++++++++++++++++----- R/default-credential.R | 121 ++++++++++ R/options.R | 7 R/utils.R | 16 + man/AzureCLICredential.Rd | 18 + man/ManagedIdentityCredential.Rd | 77 +++++- man/az_cli_login.Rd | 33 ++ man/azr-package.Rd | 8 man/azr_options.Rd | 1 man/default_credential_chain.Rd | 29 ++ 15 files changed, 868 insertions(+), 161 deletions(-)
Title: Survey Sampling Algorithms
Description: Fast implementations of survey sampling algorithms for
single-stage probability sampling from finite populations,
written in C.
Provides equal probability methods (simple random sampling,
systematic, Bernoulli), unequal probability methods (conditional
Poisson / maximum entropy, Sampford, Brewer, systematic PPS, Pareto,
sequential Poisson, Poisson, Chromy's sequential and systematic PPS
with minimum replacement, multinomial), balanced sampling via the cube method, and
spatially balanced sampling via the local pivotal method and
spatially correlated Poisson sampling.
All sampling functions return design objects carrying sample
indices, inclusion probabilities, and design metadata. Generics
compute joint inclusion probabilities, pairwise expectations, and
sampling covariances for variance estimation. Mostly based on
algorithms from Tillé (2006, <doi:10.1007/0-387-34240-0>).
Author: Ahmadou Dicko [aut, cre] ,
Thomas Lumley [ctb],
Wilmer Prentius [ctb, cph] cube implementation from which src/cube.c was ported)
Maintainer: Ahmadou Dicko <mail@ahmadoudicko.com>
Diff between sondage versions 0.9.1 dated 2026-08-04 and 0.15.0 dated 2026-11-13
DESCRIPTION | 12 MD5 | 136 ++--- NAMESPACE | 6 NEWS.md |only R/balanced_wor.R | 294 +++++++++-- R/constructors.R | 14 R/equal_prob.R | 4 R/generics.R | 125 +++- R/jip_approx.R | 142 ++++- R/method_specs.R | 13 R/register.R | 123 +++- R/sondage-package.R | 22 R/unequal_prob.R | 136 +++-- R/utils.R | 149 ++++- README.md | 99 ++- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 84 +-- inst/doc/custom-methods.R | 12 inst/doc/custom-methods.Rmd | 57 +- inst/doc/custom-methods.html | 309 ++++++------ inst/doc/sondage.R | 31 - inst/doc/sondage.Rmd | 96 ++- inst/doc/sondage.html | 463 +++++++++++------- man/balanced_wor.Rd | 153 ++++-- man/equal_prob_wor.Rd | 4 man/hajek_jip.Rd | 38 - man/he_jip.Rd | 27 - man/inclusion_prob.Rd | 21 man/joint_expected_hits.Rd | 10 man/joint_inclusion_prob.Rd | 22 man/method_spec.Rd | 4 man/register_method.Rd | 44 + man/sampling_cov.Rd | 27 - man/sondage-package.Rd | 23 man/sondage_sample.Rd | 14 man/unequal_prob_wor.Rd | 36 - man/unequal_prob_wr.Rd | 30 + src/cps.c | 18 src/cps_core.h | 102 ++-- src/cube.c | 86 +-- src/inclusion_prob.c | 90 ++- src/init.c | 12 src/joint_probs.c | 728 +++++++++++++++++++---------- src/kdtree_core.h |only src/lpm.c | 116 +++- src/scps.c | 122 ++++ src/spatial_core.h | 11 src/systematic_core.h |only src/up_brewer.c | 6 src/up_order.c | 211 ++++++-- src/up_sampford.c | 2 tests/testthat/test-audit-regressions.R | 29 - tests/testthat/test-balanced_wor.R | 115 ++++ tests/testthat/test-dispatch.R | 2 tests/testthat/test-inclusion_prob.R | 143 +++++ tests/testthat/test-jip-approx.R | 80 +++ tests/testthat/test-joint-probs.R | 85 +++ tests/testthat/test-lpm2.R | 94 +++ tests/testthat/test-properties.R | 44 + tests/testthat/test-register.R | 367 ++++++++++++++ tests/testthat/test-sampford.R | 62 ++ tests/testthat/test-scps.R | 183 +++++++ tests/testthat/test-strict-dots.R | 36 + tests/testthat/test-systematic-mr.R |only tests/testthat/test-up_cps.R | 78 ++- tests/testthat/test-up_simple.R | 48 + tests/testthat/test-validation-coherence.R | 63 ++ vignettes/custom-methods.Rmd | 57 +- vignettes/references.bib | 31 + vignettes/sondage.Rmd | 96 ++- 71 files changed, 4404 insertions(+), 1493 deletions(-)
Title: Utilities and Design Aids for Up-and-Down Dose-Finding Studies
Description: Up-and-Down (UD) is the most popular design approach to dose-finding, but it has been severely under-served by the statistical and computing communities. This is the first package that comprehensively addresses UD's needs. Development version available on Github: assaforon/upndown. Recent applied UD tutorial: Oron et al., 2022 <doi:10.1097/ALN.0000000000004282>. Recent methodological overview: Oron and Flournoy, 2025 <doi:10.51387/24-NEJSDS74>.
Author: Assaf P. Oron [cre, aut]
Maintainer: Assaf P. Oron <assaf.oron@gmail.com>
Diff between upndown versions 0.3.0 dated 2025-06-16 and 1.0.0 dated 2026-11-13
DESCRIPTION | 12 - MD5 | 49 +++--- NAMESPACE | 1 R/cirWrappers.r | 80 +++++----- R/genutils.r | 1 R/matrixFunctions.r | 2 R/twoArms.r |only R/vectorFunctions.r | 2 build/vignette.rds |binary inst/doc/upndown_basics.R | 28 +-- inst/doc/upndown_basics.Rmd | 90 +++++------ inst/doc/upndown_basics.html | 323 ++++++++++++++++++----------------------- inst/examples/avgExamples.r | 32 ++-- inst/examples/matrixExamples.r | 6 inst/examples/twoarmExample.r |only inst/examples/wrapExamples.r | 13 - man/armDiffCI.Rd |only man/bcdmat.Rd | 252 +++++++++++++++---------------- man/dixonmood.Rd | 32 ++-- man/drplot.Rd | 20 +- man/dynamean.Rd | 32 ++-- man/k2targ.Rd | 3 man/pivec.Rd | 2 man/reversmean.Rd | 32 ++-- man/udest.Rd | 20 +- man/udplot.Rd | 34 ++-- vignettes/upndown_basics.Rmd | 90 +++++------ 27 files changed, 592 insertions(+), 564 deletions(-)
Title: The Structural Similarity Index Measure for Maps
Description: Computes the Structural Similarity Index Measure (SSIM) and its
components for raster images and irregular polygon maps. The raster method
follows Wang et al. (2004) <doi:10.1109/TIP.2003.819861>. The polygon method
uses geographically weighted summary statistics described by Brunsdon et al.
(2002) <doi:10.1016/S0198-9715(01)00009-6> with an adaptive nearest-neighbor
kernel. Provides bandwidth selection, value transformations, permutation-based
inference, Fire Weather Index rasters, and Toronto census-derived example data.
Author: Hui Jeong Ha [aut, cre] ,
Jed Long [aut]
Maintainer: Hui Jeong (Hailyee) Ha <hha24@uwo.ca>
Diff between SSIMmap versions 0.4.0 dated 2026-05-07 and 0.4.3 dated 2026-11-13
DESCRIPTION | 25 MD5 | 71 +- NEWS.md | 34 + R/data.R | 81 ++- R/ssim_bandwidth.R | 17 R/ssim_polygon.R | 81 ++- R/ssim_raster.R | 59 +- README.md | 426 +++++++++++++--- data/Toronto_SSIM.rda |binary data/fwi_0816_bc.rda |binary data/fwi_0818_bc.rda |binary data/fwi_1101_bc.rda |binary data/fwi_1111_bc.rda |only inst/doc/Introduction_to_SSIMmap.R | 304 ++---------- inst/doc/Introduction_to_SSIMmap.Rmd | 450 ++++------------- inst/doc/Introduction_to_SSIMmap.html | 807 ++++++++------------------------ inst/extdata |only inst/figures |only inst/reproduction |only man/Toronto_SSIM.Rd | 44 + man/figures/README-bandwidth-1.png |only man/figures/README-polygon-local-1.png |only man/figures/README-raster-data-1.png |only man/figures/README-toronto-data-1.png |only man/fwi_1101_bc.Rd | 4 man/fwi_1111_bc.Rd |only man/ssim_bandwidth.Rd | 15 man/ssim_polygon.Rd | 34 - man/ssim_raster.Rd | 20 tests/testthat/test-SSIMmap.R | 48 + tests/testthat/test-polygon-inference.R |only tests/testthat/test-raster-inference.R |only vignettes/Introduction_to_SSIMmap.Rmd | 450 ++++------------- 33 files changed, 1252 insertions(+), 1718 deletions(-)
Title: Interactive Networks, Timelines, Barplots, Galleries with
'D3.js'
Description: Creates interactive analytic graphs with 'R'. It joins the data analysis power of R and the visualization libraries of JavaScript in one package. The package provides interactive networks, timelines, barplots, image galleries and evolving networks. Graphs are represented as 'D3.js' graphs embedded in a web page ready for its interactive analysis and exploration.
Author: Modesto Escobar [aut, cph, cre] ,
Carlos Prieto [aut] ,
David Barrios [aut]
Maintainer: Modesto Escobar <modesto@usal.es>
Diff between rD3plot versions 1.1.45 dated 2026-01-10 and 1.1.71 dated 2026-11-13
DESCRIPTION | 8 MD5 | 69 NAMESPACE | 2 R/gallery.R | 151 +- R/layouts.R | 2 R/network.R | 119 + R/utils.R | 8 build/vignette.rds |binary inst/doc/rD3plot.html | 8 inst/www/ca.js | 9 inst/www/colorScales.js | 4 inst/www/en.js | 9 inst/www/es.js | 9 inst/www/functions.js | 3298 +++++++++++++++++++++++++++++++++++++++++++++- inst/www/gallery.js | 13 inst/www/gallery2.js | 51 inst/www/gallery3.js | 110 - inst/www/images.js | 4 inst/www/network.js | 463 +++++- inst/www/statistics.css |only inst/www/statistics_ca.js |only inst/www/statistics_en.js |only inst/www/statistics_es.js |only inst/www/stats-icons |only inst/www/stdlib.bundle.js |only inst/www/styles2.css | 15 inst/www/tutorial2.css | 13 inst/www/tutorial2.js | 10 man/add_tutorial_rd3.Rd | 3 man/gallery2_rd3.Rd | 9 man/gallery3_rd3.Rd | 10 man/gallery_rd3.Rd | 7 man/network_rd3.Rd | 23 33 files changed, 4143 insertions(+), 284 deletions(-)
Title: Standardization-Based Effect Estimation with Optional Prior
Covariance Adjustment
Description: The Prognostic Regression Offsets with Propagation of
ERrors (for Treatment Effect Estimation) package facilitates
direct adjustment for experiments and observational studies that
is compatible with a range of study designs and covariance
adjustment strategies. It uses explicit specification of clusters,
blocks and treatment allocations to furnish probability of
assignment-based weights targeting any of several average
treatment effect parameters, and for standard error calculations
reflecting these design parameters. For covariance adjustment of
its Hajek and (one-way) fixed effects estimates, it enables
offsetting the outcome against predictions from a dedicated
covariance model, with standard error calculations propagating
error as appropriate from the covariance model.
Author: Josh Errickson [aut],
Josh Wasserman [cre, aut],
Mark Fredrickson [ctb],
Tim Lycurgus [ctb],
Adam Sales [ctb],
Xinhe Wang [ctb],
Ben Hansen [aut]
Maintainer: Josh Wasserman <jwass@umich.edu>
Diff between propertee versions 1.0.6 dated 2026-07-20 and 1.0.7 dated 2026-11-13
DESCRIPTION | 9 ++++++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/as.lmitt.R | 10 ++++++++-- inst/doc/RDD.html | 4 ++-- inst/doc/intro-to-propertee.html | 4 ++-- inst/doc/non-binary-treatment.html | 4 ++-- 7 files changed, 30 insertions(+), 17 deletions(-)
Title: Tools for Analyzing Lactate Thresholds
Description: Set of tools for analyzing lactate thresholds from a step incremental test to exhaustion. Estimate
Log-log, Onset of Blood Lactate Accumulation (OBLA), Baseline plus (Bsln+), the Dmax family, Lactate Turn Points (LTP),
the Lactate / Intensity ratio (LTratio), and the Individual Anaerobic Thresholds of Dickhuth (IAT) and Stegmann in
cycling, running, swimming, or rowing, with bootstrap confidence intervals, data-quality checks, training zones, test comparisons, training
load, and the maximal lactate accumulation rate (VLamax).
Beaver WL, Wasserman K, Whipp BJ (1985) <doi:10.1152/jappl.1985.59.6.1936>.
Heck H, Mader A, Hess G, Mücke S, Müller R, Hollmann W (1985) <doi:10.1055/s-2008-1025824>.
Kindermann W, Simon G, Keul J (1979) <doi:10.1007/BF00421101>.
Skinner JS, Mclellan TH (1980) <doi:10.1080/02701367.1980.10609285>.
Berg A, Jakob E, Lehmann M, Dickhuth HH, Huber G, Keul J (1990) PMID 2408033.
Zoladz JA, Rademaker AC, Sargeant AJ (1995) <doi:10.1113/jphysi [...truncated...]
Author: Felipe Mattioni Maturana [aut, cre]
Maintainer: Felipe Mattioni Maturana <felipe.mattioni@med.uni-tuebingen.de>
Diff between lactater versions 0.2.0 dated 2023-11-16 and 1.0.0 dated 2026-11-13
lactater-0.2.0/lactater/R/data-input.R |only lactater-0.2.0/lactater/R/utils-pipe.R |only lactater-0.2.0/lactater/R/utils.R |only lactater-0.2.0/lactater/inst/extra |only lactater-0.2.0/lactater/man/add_external_resources.Rd |only lactater-0.2.0/lactater/man/adjust_x_axis_plot.Rd |only lactater-0.2.0/lactater/man/bsln_plus_helper.Rd |only lactater-0.2.0/lactater/man/helper_data_protocol.Rd |only lactater-0.2.0/lactater/man/helper_dmax_dmax.Rd |only lactater-0.2.0/lactater/man/helper_dmax_exp_dmax.Rd |only lactater-0.2.0/lactater/man/helper_dmax_log_exp_moddmax.Rd |only lactater-0.2.0/lactater/man/helper_dmax_log_poly_moddmax.Rd |only lactater-0.2.0/lactater/man/helper_dmax_moddmax.Rd |only lactater-0.2.0/lactater/man/helper_last_length_step.Rd |only lactater-0.2.0/lactater/man/helper_render_table.Rd |only lactater-0.2.0/lactater/man/interpolate_intensity.Rd |only lactater-0.2.0/lactater/man/is_installed.Rd |only lactater-0.2.0/lactater/man/obla_helper.Rd |only lactater-0.2.0/lactater/man/pipe.Rd |only lactater-0.2.0/lactater/man/plot_lactate.Rd |only lactater-0.2.0/lactater/man/prepare_fit.Rd |only lactater-0.2.0/lactater/man/prepare_fit_dmax_mods.Rd |only lactater-0.2.0/lactater/man/run_data_input.Rd |only lactater-1.0.0/lactater/DESCRIPTION | 39 lactater-1.0.0/lactater/MD5 | 259 ++- lactater-1.0.0/lactater/NAMESPACE | 79 lactater-1.0.0/lactater/NEWS.md | 119 + lactater-1.0.0/lactater/R/breakpoints.R |only lactater-1.0.0/lactater/R/checks.R |only lactater-1.0.0/lactater/R/compare.R |only lactater-1.0.0/lactater/R/compute.R |only lactater-1.0.0/lactater/R/convert.R | 71 lactater-1.0.0/lactater/R/curve.R | 106 - lactater-1.0.0/lactater/R/data.R | 79 lactater-1.0.0/lactater/R/diagnostics.R |only lactater-1.0.0/lactater/R/fit.R | 304 +-- lactater-1.0.0/lactater/R/globals.R | 51 lactater-1.0.0/lactater/R/lactate_threshold.R | 661 +++++-- lactater-1.0.0/lactater/R/lactater-package.R | 2 lactater-1.0.0/lactater/R/load.R |only lactater-1.0.0/lactater/R/method-bsln-plus.R | 135 - lactater-1.0.0/lactater/R/method-dmax.R | 609 +------ lactater-1.0.0/lactater/R/method-loglog.R | 117 - lactater-1.0.0/lactater/R/method-ltp.R | 103 - lactater-1.0.0/lactater/R/method-ltratio.R | 129 - lactater-1.0.0/lactater/R/method-obla.R | 147 - lactater-1.0.0/lactater/R/method-slope.R |only lactater-1.0.0/lactater/R/method-stegmann.R |only lactater-1.0.0/lactater/R/mlss.R |only lactater-1.0.0/lactater/R/performance.R |only lactater-1.0.0/lactater/R/plot.R | 844 ++++++++-- lactater-1.0.0/lactater/R/prepare-data.R | 104 - lactater-1.0.0/lactater/R/reexports.R |only lactater-1.0.0/lactater/R/reference.R |only lactater-1.0.0/lactater/R/report.R |only lactater-1.0.0/lactater/R/results.R |only lactater-1.0.0/lactater/R/retrieve-values.R | 133 - lactater-1.0.0/lactater/R/shape.R |only lactater-1.0.0/lactater/R/sheet.R |only lactater-1.0.0/lactater/R/sysdata.rda |only lactater-1.0.0/lactater/R/test-report.R |only lactater-1.0.0/lactater/R/vlamax.R |only lactater-1.0.0/lactater/R/zones.R |only lactater-1.0.0/lactater/README.md | 550 ++---- lactater-1.0.0/lactater/build/partial.rdb |binary lactater-1.0.0/lactater/build/vignette.rds |only lactater-1.0.0/lactater/data/demo_data.rda |binary lactater-1.0.0/lactater/data/lactate_tests.rda |only lactater-1.0.0/lactater/inst/COPYRIGHTS |only lactater-1.0.0/lactater/inst/WORDLIST | 385 ++++ lactater-1.0.0/lactater/inst/doc |only lactater-1.0.0/lactater/inst/report |only lactater-1.0.0/lactater/inst/sheets |only lactater-1.0.0/lactater/man/autoplot.lactate_thresholds.Rd |only lactater-1.0.0/lactater/man/bootstrap_intervals.Rd |only lactater-1.0.0/lactater/man/breakpoint_layers.Rd |only lactater-1.0.0/lactater/man/breakpoint_lines.Rd |only lactater-1.0.0/lactater/man/calibrate_performance.Rd |only lactater-1.0.0/lactater/man/chosen_pair.Rd |only lactater-1.0.0/lactater/man/column_name.Rd |only lactater-1.0.0/lactater/man/compare_tests.Rd |only lactater-1.0.0/lactater/man/comparison_notes.Rd |only lactater-1.0.0/lactater/man/compute_thresholds.Rd |only lactater-1.0.0/lactater/man/convert_to_pace.Rd | 17 lactater-1.0.0/lactater/man/curve_layers.Rd |only lactater-1.0.0/lactater/man/curve_points.Rd |only lactater-1.0.0/lactater/man/curve_shape.Rd |only lactater-1.0.0/lactater/man/curve_shift.Rd |only lactater-1.0.0/lactater/man/demo_data.Rd | 7 lactater-1.0.0/lactater/man/dmax_point.Rd |only lactater-1.0.0/lactater/man/domain_spans.Rd |only lactater-1.0.0/lactater/man/domain_splits.Rd |only lactater-1.0.0/lactater/man/fit_breakpoints.Rd |only lactater-1.0.0/lactater/man/fit_curve.Rd |only lactater-1.0.0/lactater/man/fit_two_lines.Rd |only lactater-1.0.0/lactater/man/format_intensity.Rd |only lactater-1.0.0/lactater/man/format_pace.Rd |only lactater-1.0.0/lactater/man/gt_lactater.Rd |only lactater-1.0.0/lactater/man/hr_point_label.Rd |only lactater-1.0.0/lactater/man/html_table.Rd |only lactater-1.0.0/lactater/man/intensity_digits.Rd |only lactater-1.0.0/lactater/man/intensity_distribution.Rd |only lactater-1.0.0/lactater/man/intensity_label.Rd |only lactater-1.0.0/lactater/man/intensity_text.Rd |only lactater-1.0.0/lactater/man/intensity_unit.Rd |only lactater-1.0.0/lactater/man/lactate_breaks.Rd |only lactater-1.0.0/lactater/man/lactate_checks.Rd |only lactater-1.0.0/lactater/man/lactate_curve.Rd | 26 lactater-1.0.0/lactater/man/lactate_diagnostics.Rd |only lactater-1.0.0/lactater/man/lactate_fit_quality.Rd |only lactater-1.0.0/lactater/man/lactate_mlss.Rd |only lactater-1.0.0/lactater/man/lactate_reliability.Rd |only lactater-1.0.0/lactater/man/lactate_report.Rd |only lactater-1.0.0/lactater/man/lactate_tests.Rd |only lactater-1.0.0/lactater/man/lactate_threshold.Rd | 408 +++- lactater-1.0.0/lactater/man/lactate_threshold_by.Rd |only lactater-1.0.0/lactater/man/lactate_trend.Rd |only lactater-1.0.0/lactater/man/lactate_zones.Rd |only lactater-1.0.0/lactater/man/lactater-package.Rd | 16 lactater-1.0.0/lactater/man/lactater_colours.Rd |only lactater-1.0.0/lactater/man/leave_one_out_panel.Rd |only lactater-1.0.0/lactater/man/list_to_thresholds.Rd |only lactater-1.0.0/lactater/man/loglog_breakpoint.Rd |only lactater-1.0.0/lactater/man/ltratio_minimum.Rd |only lactater-1.0.0/lactater/man/marker_layers.Rd |only lactater-1.0.0/lactater/man/method_bsln_plus.Rd | 23 lactater-1.0.0/lactater/man/method_dmax.Rd | 52 lactater-1.0.0/lactater/man/method_iat.Rd |only lactater-1.0.0/lactater/man/method_loglog.Rd | 28 lactater-1.0.0/lactater/man/method_ltp.Rd | 31 lactater-1.0.0/lactater/man/method_ltratio.Rd | 22 lactater-1.0.0/lactater/man/method_note.Rd |only lactater-1.0.0/lactater/man/method_obla.Rd | 23 lactater-1.0.0/lactater/man/method_plotmath.Rd |only lactater-1.0.0/lactater/man/method_result.Rd |only lactater-1.0.0/lactater/man/method_slope.Rd |only lactater-1.0.0/lactater/man/method_stegmann.Rd |only lactater-1.0.0/lactater/man/modeling_data.Rd |only lactater-1.0.0/lactater/man/new_lactate_thresholds.Rd |only lactater-1.0.0/lactater/man/other_point.Rd |only lactater-1.0.0/lactater/man/overview_table.Rd |only lactater-1.0.0/lactater/man/pair_change.Rd |only lactater-1.0.0/lactater/man/plot_methods.Rd | 2 lactater-1.0.0/lactater/man/plot_overview.Rd |only lactater-1.0.0/lactater/man/plot_series.Rd |only lactater-1.0.0/lactater/man/plot_threshold.Rd |only lactater-1.0.0/lactater/man/plot_zone_ruler.Rd |only lactater-1.0.0/lactater/man/pointer_layer.Rd |only lactater-1.0.0/lactater/man/polarization_index.Rd |only lactater-1.0.0/lactater/man/position_rest.Rd |only lactater-1.0.0/lactater/man/predict_performance.Rd |only lactater-1.0.0/lactater/man/prepare_data.Rd | 20 lactater-1.0.0/lactater/man/prepare_recovery.Rd |only lactater-1.0.0/lactater/man/read_recording.Rd |only lactater-1.0.0/lactater/man/recording_protocol.Rd |only lactater-1.0.0/lactater/man/recording_sheet.Rd |only lactater-1.0.0/lactater/man/reexports.Rd |only lactater-1.0.0/lactater/man/reference_percentile.Rd |only lactater-1.0.0/lactater/man/reference_percentiles.Rd |only lactater-1.0.0/lactater/man/refine_extremum.Rd |only lactater-1.0.0/lactater/man/relative_thresholds.Rd |only lactater-1.0.0/lactater/man/report_internals.Rd |only lactater-1.0.0/lactater/man/report_start.Rd |only lactater-1.0.0/lactater/man/retrieve_heart_rate.Rd | 11 lactater-1.0.0/lactater/man/retrieve_intensity.Rd | 17 lactater-1.0.0/lactater/man/retrieve_lactate.Rd | 9 lactater-1.0.0/lactater/man/retrieve_rpe.Rd |only lactater-1.0.0/lactater/man/stage_layers.Rd |only lactater-1.0.0/lactater/man/stage_points.Rd |only lactater-1.0.0/lactater/man/stegmann_layers.Rd |only lactater-1.0.0/lactater/man/stegmann_tangent.Rd |only lactater-1.0.0/lactater/man/target_label.Rd |only lactater-1.0.0/lactater/man/test_report.Rd |only lactater-1.0.0/lactater/man/theme_lactater.Rd |only lactater-1.0.0/lactater/man/threshold_text.Rd |only lactater-1.0.0/lactater/man/training_load.Rd |only lactater-1.0.0/lactater/man/user_fitting.Rd |only lactater-1.0.0/lactater/man/vlamax.Rd |only lactater-1.0.0/lactater/man/weight_last_stage.Rd |only lactater-1.0.0/lactater/man/zone_summary.Rd |only lactater-1.0.0/lactater/man/zone_value.Rd |only lactater-1.0.0/lactater/tests/spelling.R | 2 lactater-1.0.0/lactater/tests/testthat/_snaps |only lactater-1.0.0/lactater/tests/testthat/helper-fixtures.R |only lactater-1.0.0/lactater/tests/testthat/setup.R |only lactater-1.0.0/lactater/tests/testthat/test-analysis.R |only lactater-1.0.0/lactater/tests/testthat/test-breakpoints.R |only lactater-1.0.0/lactater/tests/testthat/test-compare.R |only lactater-1.0.0/lactater/tests/testthat/test-design.R |only lactater-1.0.0/lactater/tests/testthat/test-diagnostics.R |only lactater-1.0.0/lactater/tests/testthat/test-dmax.R | 60 lactater-1.0.0/lactater/tests/testthat/test-fixture-snapshots.R |only lactater-1.0.0/lactater/tests/testthat/test-flexible-methods.R |only lactater-1.0.0/lactater/tests/testthat/test-golden-outputs.R |only lactater-1.0.0/lactater/tests/testthat/test-lactate-tests.R |only lactater-1.0.0/lactater/tests/testthat/test-load.R |only lactater-1.0.0/lactater/tests/testthat/test-mlss.R |only lactater-1.0.0/lactater/tests/testthat/test-new-methods.R |only lactater-1.0.0/lactater/tests/testthat/test-performance.R |only lactater-1.0.0/lactater/tests/testthat/test-prepare-data.R |only lactater-1.0.0/lactater/tests/testthat/test-reference.R |only lactater-1.0.0/lactater/tests/testthat/test-reliability.R |only lactater-1.0.0/lactater/tests/testthat/test-report.R |only lactater-1.0.0/lactater/tests/testthat/test-results.R |only lactater-1.0.0/lactater/tests/testthat/test-retrieve-values.R |only lactater-1.0.0/lactater/tests/testthat/test-review-fixes.R |only lactater-1.0.0/lactater/tests/testthat/test-rpe.R |only lactater-1.0.0/lactater/tests/testthat/test-shape.R |only lactater-1.0.0/lactater/tests/testthat/test-sheet.R |only lactater-1.0.0/lactater/tests/testthat/test-slope.R |only lactater-1.0.0/lactater/tests/testthat/test-stegmann.R |only lactater-1.0.0/lactater/tests/testthat/test-validation-and-output.R |only lactater-1.0.0/lactater/tests/testthat/test-zones.R |only lactater-1.0.0/lactater/tests/testthat/testdata |only lactater-1.0.0/lactater/vignettes |only 215 files changed, 3347 insertions(+), 2453 deletions(-)
Title: Approximate Bayesian Latent Variable Analysis
Description: Implements approximate Bayesian inference for Structural
Equation Models (SEM) using a custom adaptation of the Integrated
Nested Laplace Approximation (Rue et al., 2009)
<doi:10.1111/j.1467-9868.2008.00700.x> as described in Jamil and Rue
(2026a) <doi:10.48550/arXiv.2603.25690>. Provides a computationally
efficient alternative to Markov Chain Monte Carlo (MCMC) for Bayesian
estimation, allowing users to fit latent variable models using the
'lavaan' syntax. See also the companion paper on implementation and
workflows, Jamil and Rue (2026b) <doi:10.48550/arXiv.2604.00671>.
Author: Haziq Jamil [aut, cre, cph] ,
Havard Rue [ctb] ,
Alvin Bong [ctb]
Maintainer: Haziq Jamil <haziq.jamil@gmail.com>
Diff between INLAvaan versions 0.3.3 dated 2026-10-26 and 0.3.4 dated 2026-11-13
DESCRIPTION | 8 MD5 | 44 NEWS.md | 20 R/compare.R | 50 R/inlavaan.R | 12 R/method-diagnostics.R | 135 + R/method-sampling.R | 4 R/posterior-sampling.R | 6 R/utils.R | 7 README.md | 28 inst/doc/INLAvaan.html | 26 inst/doc/mediation.R | 5 inst/doc/mediation.html | 3146 ---------------------------- inst/doc/mediation.qmd | 31 man/compare.Rd | 4 man/diagnostics.Rd | 15 man/figures/README-fig-compare-poldem-1.png |binary tests/testthat/test-cfa.R | 25 tests/testthat/test-compare.R | 40 tests/testthat/test-diagnostics.R | 95 tests/testthat/test-loo-fixedx.R | 2 tests/testthat/test-multilevel.R | 5 vignettes/mediation.qmd | 31 23 files changed, 513 insertions(+), 3226 deletions(-)
Title: Heuristic Capacitated Vehicle Routing Problem Solver
Description: Implements the Clarke-Wright algorithm to find a quasi-optimal solution to the Capacitated Vehicle Routing Problem. See Clarke, G. and Wright, J.R. (1964) <doi:10.1287/opre.12.4.568> for details. Sites can also have goods picked up and brought back to the depot ("backhaul"). The implementation is accompanied by helper functions to inspect its solution.
Author: Lukas Schneiderbauer [aut, cre, cph]
Maintainer: Lukas Schneiderbauer <lukas.schneiderbauer@gmail.com>
Diff between heumilkr versions 0.3.0 dated 2025-04-24 and 0.4.0 dated 2026-11-13
heumilkr-0.3.0/heumilkr/build/partial.rdb |only heumilkr-0.3.0/heumilkr/src/distmat.cpp |only heumilkr-0.3.0/heumilkr/src/distmat.h |only heumilkr-0.3.0/heumilkr/src/routing_state.cpp |only heumilkr-0.3.0/heumilkr/src/routing_state.h |only heumilkr-0.3.0/heumilkr/src/udg.cpp |only heumilkr-0.3.0/heumilkr/src/udg.h |only heumilkr-0.4.0/heumilkr/DESCRIPTION | 14 heumilkr-0.4.0/heumilkr/MD5 | 115 +- heumilkr-0.4.0/heumilkr/NAMESPACE | 30 heumilkr-0.4.0/heumilkr/NEWS.md | 43 heumilkr-0.4.0/heumilkr/R/autoplot.R | 34 heumilkr-0.4.0/heumilkr/R/clarke_wright.R | 162 +-- heumilkr-0.4.0/heumilkr/R/cpp11.R | 8 heumilkr-0.4.0/heumilkr/R/cvrplib.R | 300 ++++-- heumilkr-0.4.0/heumilkr/R/data.R | 30 heumilkr-0.4.0/heumilkr/R/heumilkr_solution.R | 59 - heumilkr-0.4.0/heumilkr/R/input_error.R |only heumilkr-0.4.0/heumilkr/README.md | 223 +++- heumilkr-0.4.0/heumilkr/build/vignette.rds |binary heumilkr-0.4.0/heumilkr/data/cvrplib_A.rda |binary heumilkr-0.4.0/heumilkr/data/cvrplib_B.rda |binary heumilkr-0.4.0/heumilkr/data/cvrplib_E.rda |binary heumilkr-0.4.0/heumilkr/data/cvrplib_F.rda |binary heumilkr-0.4.0/heumilkr/data/cvrplib_Tai.rda |binary heumilkr-0.4.0/heumilkr/inst/doc/clarke_wright_performance.R | 49 heumilkr-0.4.0/heumilkr/inst/doc/clarke_wright_performance.Rmd | 84 + heumilkr-0.4.0/heumilkr/inst/doc/clarke_wright_performance.html | 74 + heumilkr-0.4.0/heumilkr/man/autoplot.heumilkr_solution.Rd | 4 heumilkr-0.4.0/heumilkr/man/clarke_wright.Rd | 85 + heumilkr-0.4.0/heumilkr/man/clarke_wright_cvrplib.Rd | 6 heumilkr-0.4.0/heumilkr/man/cvrplib_A.Rd | 6 heumilkr-0.4.0/heumilkr/man/cvrplib_B.Rd | 6 heumilkr-0.4.0/heumilkr/man/cvrplib_E.Rd | 6 heumilkr-0.4.0/heumilkr/man/cvrplib_F.Rd | 6 heumilkr-0.4.0/heumilkr/man/cvrplib_Tai.Rd | 6 heumilkr-0.4.0/heumilkr/man/cvrplib_download.Rd | 33 heumilkr-0.4.0/heumilkr/man/cvrplib_ls.Rd | 19 heumilkr-0.4.0/heumilkr/man/figures/README-benchmark_runtime-1.png |binary heumilkr-0.4.0/heumilkr/man/figures/README-example_plot-1.png |binary heumilkr-0.4.0/heumilkr/man/figures/README-unnamed-chunk-2-.gif |only heumilkr-0.4.0/heumilkr/man/milkr_saving.Rd | 3 heumilkr-0.4.0/heumilkr/man/plot.heumilkr_solution.Rd | 4 heumilkr-0.4.0/heumilkr/src/clarke_wright.cpp | 135 +- heumilkr-0.4.0/heumilkr/src/clarke_wright.h |only heumilkr-0.4.0/heumilkr/src/cpp11.cpp | 20 heumilkr-0.4.0/heumilkr/src/fleet.cpp |only heumilkr-0.4.0/heumilkr/src/fleet.h |only heumilkr-0.4.0/heumilkr/src/input_error.cpp |only heumilkr-0.4.0/heumilkr/src/input_error.h |only heumilkr-0.4.0/heumilkr/src/r_clarke_wright.cpp |only heumilkr-0.4.0/heumilkr/src/router.cpp |only heumilkr-0.4.0/heumilkr/src/router.h |only heumilkr-0.4.0/heumilkr/src/run.cpp |only heumilkr-0.4.0/heumilkr/src/run.h |only heumilkr-0.4.0/heumilkr/src/site.h |only heumilkr-0.4.0/heumilkr/src/symmat.cpp |only heumilkr-0.4.0/heumilkr/src/symmat.h |only heumilkr-0.4.0/heumilkr/src/tsp_greedy.cpp | 48 heumilkr-0.4.0/heumilkr/src/tsp_greedy.h | 14 heumilkr-0.4.0/heumilkr/src/union_view.h |only heumilkr-0.4.0/heumilkr/tests/testthat/_snaps/clarke_wright.md | 78 + heumilkr-0.4.0/heumilkr/tests/testthat/_snaps/input_error.md |only heumilkr-0.4.0/heumilkr/tests/testthat/helper-hedgehog.R | 8 heumilkr-0.4.0/heumilkr/tests/testthat/test-autoplot.R | 22 heumilkr-0.4.0/heumilkr/tests/testthat/test-clarke_wright.R | 493 +++++++++- heumilkr-0.4.0/heumilkr/tests/testthat/test-cvrplib.R | 206 ++++ heumilkr-0.4.0/heumilkr/tests/testthat/test-input_error.R |only heumilkr-0.4.0/heumilkr/tests/testthat/test-milkr_cost.R | 30 heumilkr-0.4.0/heumilkr/vignettes/clarke_wright_performance.Rmd | 84 + heumilkr-0.4.0/heumilkr/vignettes/perf.rds |binary 71 files changed, 1922 insertions(+), 625 deletions(-)
Title: Fast Continuous Wavelet Transform
Description: Enables the usage of the fast continuous wavelet transform,
originally implemented in the 'C++' library 'fCWT' by Lukas Arts.
See Arts, P.A. and Van den Broek, E.L. (2022)
<doi:10.1038/s43588-021-00183-z> for details.
Author: Lukas Schneiderbauer [aut, cre, cph] ,
Lukas P. A. Arts [cph] ,
Egon L. van den Broek [cph]
Maintainer: Lukas Schneiderbauer <lukas.schneiderbauer@gmail.com>
This is a re-admission after prior archival of version 0.2.1 dated 2024-06-17
Diff between fCWTr versions 0.2.1 dated 2024-06-17 and 0.4.1 dated 2026-11-13
fCWTr-0.2.1/fCWTr/R/zzz.R |only fCWTr-0.4.1/fCWTr/DESCRIPTION | 27 fCWTr-0.4.1/fCWTr/MD5 | 97 fCWTr-0.4.1/fCWTr/NAMESPACE | 21 fCWTr-0.4.1/fCWTr/NEWS.md | 114 + fCWTr-0.4.1/fCWTr/R/cpp11.R | 12 fCWTr-0.4.1/fCWTr/R/data.R | 26 fCWTr-0.4.1/fCWTr/R/fCWTr-package.R | 3 fCWTr-0.4.1/fCWTr/R/fcwt.R | 223 +- fCWTr-0.4.1/fCWTr/R/fcwt_batch.R | 297 +- fCWTr-0.4.1/fCWTr/R/fcwtr_scalogram.R | 573 ++++- fCWTr-0.4.1/fCWTr/R/sigma.R |only fCWTr-0.4.1/fCWTr/R/sys_support.R |only fCWTr-0.4.1/fCWTr/R/units.R |only fCWTr-0.4.1/fCWTr/R/wnd.R |only fCWTr-0.4.1/fCWTr/README.md | 129 - fCWTr-0.4.1/fCWTr/build/partial.rdb |binary fCWTr-0.4.1/fCWTr/build/vignette.rds |only fCWTr-0.4.1/fCWTr/configure | 1152 ++++++----- fCWTr-0.4.1/fCWTr/configure.ac | 107 - fCWTr-0.4.1/fCWTr/data/ts_piano_sample.rda |only fCWTr-0.4.1/fCWTr/inst |only fCWTr-0.4.1/fCWTr/man/as.data.frame.fcwtr_scalogram.Rd | 33 fCWTr-0.4.1/fCWTr/man/as.matrix.fcwtr_scalogram.Rd |only fCWTr-0.4.1/fCWTr/man/as_tibble.fcwtr_scalogram.Rd |only fCWTr-0.4.1/fCWTr/man/autoplot.fcwtr_scalogram.Rd | 45 fCWTr-0.4.1/fCWTr/man/avx_enabled.Rd |only fCWTr-0.4.1/fCWTr/man/du.Rd |only fCWTr-0.4.1/fCWTr/man/fCWTr-package.Rd |only fCWTr-0.4.1/fCWTr/man/fcwt.Rd | 140 - fCWTr-0.4.1/fCWTr/man/fcwt_batch.Rd | 202 + fCWTr-0.4.1/fCWTr/man/figures/README-example_long_df-1.png |binary fCWTr-0.4.1/fCWTr/man/figures/README-example_plot-1.png |binary fCWTr-0.4.1/fCWTr/man/figures/Standard_deviation_diagram.svg |only fCWTr-0.4.1/fCWTr/man/figures/logo.svg |only fCWTr-0.4.1/fCWTr/man/openmp_enabled.Rd |only fCWTr-0.4.1/fCWTr/man/plot.fcwtr_scalogram.Rd | 30 fCWTr-0.4.1/fCWTr/man/print.fcwtr_scalogram.Rd |only fCWTr-0.4.1/fCWTr/man/rbind.fcwtr_scalogram.Rd |only fCWTr-0.4.1/fCWTr/man/sigma_freq_res_rel.Rd |only fCWTr-0.4.1/fCWTr/man/sigma_from_freq_res.Rd |only fCWTr-0.4.1/fCWTr/man/sigma_from_freq_res_rel.Rd |only fCWTr-0.4.1/fCWTr/man/sigma_from_time_res.Rd |only fCWTr-0.4.1/fCWTr/man/sigma_res.Rd |only fCWTr-0.4.1/fCWTr/man/sub-.fcwtr_scalogram.Rd |only fCWTr-0.4.1/fCWTr/man/ts_piano_sample.Rd |only fCWTr-0.4.1/fCWTr/man/ts_sin_440.Rd | 5 fCWTr-0.4.1/fCWTr/man/ts_sin_sin.Rd | 6 fCWTr-0.4.1/fCWTr/man/ts_sin_superpos.Rd | 7 fCWTr-0.4.1/fCWTr/man/u.Rd |only fCWTr-0.4.1/fCWTr/src/cpp11.cpp | 24 fCWTr-0.4.1/fCWTr/src/fcwt.cpp | 531 +---- fCWTr-0.4.1/fCWTr/src/fcwt.h | 167 - fCWTr-0.4.1/fCWTr/src/interface_fcwt.cpp | 143 - fCWTr-0.4.1/fCWTr/tests/testthat/test-fcwt.R | 85 fCWTr-0.4.1/fCWTr/tests/testthat/test-fcwt_batch.R | 104 fCWTr-0.4.1/fCWTr/tests/testthat/test-fcwtr_scalogram.R | 175 + fCWTr-0.4.1/fCWTr/tests/testthat/test-regressions.R |only fCWTr-0.4.1/fCWTr/tests/testthat/test-sigma.R |only fCWTr-0.4.1/fCWTr/tests/testthat/test-sys_support.R |only fCWTr-0.4.1/fCWTr/tests/testthat/test-units.R |only fCWTr-0.4.1/fCWTr/tests/testthat/test-wnd.R |only fCWTr-0.4.1/fCWTr/vignettes |only 63 files changed, 2835 insertions(+), 1643 deletions(-)
Title: The Beta-Danish Distribution for Lifetime Data Analysis
Description: Implements the four-parameter Beta-Danish distribution and its
three-parameter Exponentiated Danish submodel for survival, reliability
and lifetime data analysis, following Ahmad (2026), "Modeling Diverse
Survival Patterns: The Development and Characterization of a New
Four-Parameter Lifetime Distribution", PhD thesis, Allama Iqbal Open
University. Density, distribution, quantile, survival, hazard and random
generation functions are evaluated so as to retain accuracy in both
tails; the upper tail is heavy, with a regularly varying survival
function. Estimation covers maximum likelihood for complete and
right-censored samples by a two-stage multi-start search that guarantees
nesting of the submodel, with fits on the edge of the parameter space
reported as such, ridge-penalized fitting for weakly identified regimes,
a grouped likelihood for times recorded on a coarse grid, and Bayesian
sampling by adaptive multi-chain Metropolis with convergence checks.
Goodness of fit uses Kolmogorov-Sm [...truncated...]
Author: Bilal Ahmad [aut, cre],
Muhammad Yameen Danish [aut]
Maintainer: Bilal Ahmad <bilalahmad.imcbh9@gmail.com>
Diff between BetaDanish versions 0.3.0 dated 2026-07-31 and 1.0.0 dated 2026-11-13
DESCRIPTION | 42 - MD5 | 89 +- NAMESPACE | 1 NEWS.md | 837 +++++++++++++--------- R/BetaDanish-package.R | 75 -- R/advanced_methods.R | 325 ++++---- R/analyze_csv.R | 1019 ++++++++++++++-------------- R/bayes.R | 523 +++++++++++--- R/compare_models.R | 318 +++++--- R/competing_risks.R | 765 ++++++++++----------- R/cure_models.R | 382 ++++++---- R/dist_functions.R | 474 ++++++------- R/fit_models.R | 907 ++++++++++++++---------- R/inference.R | 800 ++++++++++++--------- R/kl_submodel.R |only R/plots_extra.R | 536 +++++++------- R/plotting_extras.R | 232 +++--- R/report_betadanish.R | 179 ++-- R/summary_methods.R | 266 +++---- R/utils-internal.R | 562 ++++++++++----- README.md | 701 +++++++++---------- inst/CITATION | 84 -- inst/WORDLIST | 206 +++-- inst/doc/BetaDanish_Introduction.html | 4 inst/doc/bd-bayesian.R | 31 inst/doc/bd-bayesian.Rmd | 204 +++-- inst/doc/bd-bayesian.html | 171 ++-- inst/doc/bd-competing-risks.html | 8 inst/doc/bd-csv-workflow.html | 52 - inst/doc/bd-cure-models.html | 10 inst/doc/betadanish-case-study.html | 45 - man/BetaDanish-package.Rd | 15 man/BetaDanish.Rd | 13 man/bayes_betadanish.Rd | 104 ++ man/bd_analyze_csv.Rd | 10 man/bd_kl_submodel.Rd |only man/bd_profile_ci.Rd | 57 + man/fit_bd_cure.Rd | 73 +- man/fit_betadanish.Rd | 75 +- man/gof_betadanish.Rd | 55 + man/plot.bd_bayes.Rd | 17 man/report_betadanish.Rd | 7 tests/testthat/test-analyze-csv.R | 299 ++++---- tests/testthat/test-degeneracy-transplant.R | 137 +-- tests/testthat/test-engine-1.0.0.R |only tests/testthat/test-estimation.R | 466 ++++++------ vignettes/bd-bayesian.Rmd | 204 +++-- 47 files changed, 6516 insertions(+), 4864 deletions(-)
Title: Create Sleep Measures of Actigraphy and Activity Analysis
Description: Estimates sleep from wrist accelerometry and epoch-level activity
data. Implements sleep-period-time guiders based on angle changes, posture,
least-active periods, sustained inactivity, low activity, and diary or
fixed time windows; combines guider windows with sustained-inactivity bouts
to produce sleep/wake labels and consensus estimates. Provides diary
helpers, and interfaces to the 'asleep', 'sleeper', and 'rester'
machine-learning estimators. The angle-based and
sustained-inactivity methods are described by van Hees et al. (2015)
<doi:10.1371/journal.pone.0142533> and van Hees et al. (2018)
<doi:10.1038/s41598-018-31266-z>; the model estimators are described by
Yuan et al. (2024) <doi:10.1038/s41746-024-01065-0>,
Sundararajan et al. (2021) <doi:10.1038/s41598-020-79217-x>, and
Lorenzen et al. (2026) <doi:10.64898/2026.01.28.26345056>.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between actisomni versions 0.4.0 dated 2026-10-26 and 0.5.0 dated 2026-11-13
DESCRIPTION | 22 +++++---- MD5 | 49 +++++++++++--------- NAMESPACE | 6 ++ NEWS.md | 25 ++++++++++ R/acti_sleep_guiders.R | 78 +++++++++++++++++++++------------ R/acti_sleep_models.R | 20 ++++++-- R/acti_sleep_rester.R |only R/imports.R | 1 README.md | 18 +++++-- build |only man/acti_asleep.Rd | 2 man/acti_rester.Rd |only man/acti_sleep_diary.Rd | 2 man/acti_sleep_ensemble.Rd | 20 +++++--- man/acti_sleep_fuse_labels.Rd | 4 - man/acti_sleep_guider_requirements.Rd | 2 man/acti_sleep_hdcza.Rd | 18 +++++-- man/acti_sleep_horangle.Rd | 18 +++++-- man/acti_sleep_labels.Rd | 4 - man/acti_sleep_sib.Rd | 20 +++++--- man/acti_sleeper.Rd | 5 +- man/py_acti_asleep.Rd | 17 ++++++- man/py_acti_rester.Rd |only man/py_acti_sleeper.Rd | 11 ++++ tests/testthat/test-helper-functions.R | 1 tests/testthat/test-sleep-guiders.R | 31 +++++++++++++ tests/testthat/test-sleep-models.R | 7 ++ tests/testthat/test-sleep-rester.R |only 28 files changed, 276 insertions(+), 105 deletions(-)
Title: Client for the 'Odds-API.io' Sports Betting Odds API
Description: Query live and upcoming sports betting odds from the
'Odds-API.io' REST API <https://docs.odds-api.io>. Covers sports,
markets, bookmakers, leagues, participants, events, per-event and
multi-event odds, odds deltas, odds movements, odds summaries, value
bets, arbitrage bets, dropping odds, historical events, odds and
closing lines, bet settlement and grading, outright (futures) odds and
results, and bookmaker id mappings across 450+ bookmakers, returned as
tidy data frames. An API key from a paid plan is required.
Author: Markus Bjermeland [aut, cre]
Maintainer: Markus Bjermeland <markus@odds-api.io>
Diff between oddsapiio versions 0.2.0 dated 2026-11-06 and 0.2.1 dated 2026-11-13
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 5 +++++ R/endpoints.R | 7 +++++-- R/odds.R | 11 +++++++---- README.md | 13 +++++++++++-- man/oa_bookmakers.Rd | 3 ++- man/oa_historical_odds.Rd | 4 ++-- man/oa_markets.Rd | 4 +++- man/oa_multi_odds.Rd | 4 ++-- man/oa_odds.Rd | 4 ++-- man/oa_value_bets.Rd | 7 +++++-- 12 files changed, 58 insertions(+), 32 deletions(-)
Title: Optimal Stratification of Univariate Populations
Description: Determines Optimum Strata Boundaries (OSB) and Optimum Sample
Sizes (OSS) for univariate stratified sampling designs under Neyman
allocation. The stratification variable is described by a best-fitting
parametric distribution, selected automatically by AIC from a set of
continuous families (normal, log-normal, gamma, Weibull, exponential,
Cauchy, uniform, Pareto, triangular and right-triangular), and the
optimum boundaries are obtained by minimising the Neyman objective.
Version 2.0 keeps the Dynamic Programming (DP) solver of Reddy and Khan
(2020), which is globally optimal for the fitted distribution, as the
default. It adds two fast derivative-free solvers, a multi-start
'COBYLA' solver and a two-phase global solver that couples 'DIRECT-L'
with 'BOBYQA' refinement, and an exact solver that runs dynamic
programming on the sorted data and returns the partition with the
smallest empirical Neyman cost. It also provides cost-constrained
allocation with unequal per-stratum costs, a desi [...truncated...]
Author: Karuna G. Reddy [aut, cre] ,
M. G. M. Khan [aut]
Maintainer: Karuna G. Reddy <karuna.reddy@auckland.ac.nz>
Diff between stratifyR versions 2.0-4 dated 2026-10-24 and 2.1-0 dated 2026-11-13
DESCRIPTION | 13 - MD5 | 116 ++++----- NAMESPACE | 32 ++ NEWS.md | 60 ++++ R/accessors.R |only R/app.R | 19 - R/checks.R |only R/cobyla.optim.R | 1 R/compare_designs.R | 74 +++-- R/create.mat.R | 9 R/data.R | 8 R/data.alloc.R | 10 R/data.optim.R | 8 R/data.root.R | 5 R/distr.alloc.R | 10 R/distr.optim.R | 8 R/distr.root.R | 8 R/erf.R | 7 R/get.dist.R | 7 R/minim.val.R | 7 R/mode.val.R | 7 R/plot.strata.R | 31 +- R/print.strata.R | 14 - R/realloc.R | 7 R/strata.data.R | 239 ++++++++++-------- R/strata.distr.R | 182 ++++++++------ R/summary.strata.R | 492 ++++++++++++++++++++------------------- R/zzz.R |only inst/app/app.R | 8 inst/app/www/favicon.png |binary inst/app/www/stratifyR_logo.png |binary inst/doc/stratifyR-vignette.R | 39 +-- inst/doc/stratifyR-vignette.Rmd | 69 ++--- inst/doc/stratifyR-vignette.html | 151 +++++------ man/accessors.Rd |only man/anaemia.Rd | 2 man/compare_designs.Rd | 24 + man/create.mat.Rd | 8 man/data.alloc.Rd | 9 man/data.optim.Rd | 9 man/data.root.Rd | 6 man/distr.alloc.Rd | 7 man/distr.optim.Rd | 9 man/distr.root.Rd | 9 man/erf.Rd | 8 man/figures/logo.png |binary man/get.dist.Rd | 7 man/hies.Rd | 2 man/math.Rd | 2 man/minim.val.Rd | 8 man/mode.val.Rd | 10 man/plot.strata.Rd | 16 - man/print.strata.Rd | 10 man/realloc.Rd | 8 man/strata.data.Rd | 111 +++++--- man/strata.distr.Rd | 69 +++-- man/stratifyRApp.Rd | 17 - man/sugarcane.Rd | 2 man/summary.strata.Rd | 71 ++++- tests/testthat/test-accessors.R |only tests/testthat/test-inputs.R |only vignettes/stratifyR-vignette.Rmd | 69 ++--- 62 files changed, 1241 insertions(+), 893 deletions(-)
Title: Parametric Distribution Fitting and Analysis
Description: Provides a unified, user-friendly interface for fitting parametric
probability distributions to continuous univariate data. 'FitVerse' supports
52 distribution families spanning symmetric, right-skewed, heavy-tailed,
bounded, and extreme-value shapes, and three estimation methods: Maximum
Likelihood Estimation (MLE), Method of Moments (MOM), and L-Moments (L-MOM).
Automatic best-fit selection is performed using AIC, BIC, and goodness-of-fit
tests (Kolmogorov-Smirnov, Anderson-Darling, Cramer-von Mises (CvM)). Every
fitted model produces a publication-quality diagnostic plot: a histogram
overlaid with the fitted density curve and the estimated PDF formula annotated
directly on the figure. An optional interactive version is produced via
'plotly'. Additional tools include bootstrap confidence intervals for parameter
estimates and return levels, batch fitting across multiple columns for
automated workflows and web-upload use cases, JSON serialisation for
integration with 'Shiny' web applic [...truncated...]
Author: Karuna G. Reddy [aut, cre] ,
M. G. M. Khan [aut]
Maintainer: Karuna G. Reddy <karuna.reddy@auckland.ac.nz>
Diff between FitVerse versions 1.0-2 dated 2026-09-06 and 1.0-3 dated 2026-11-13
DESCRIPTION | 10 MD5 | 158 ++++++++++++-- NAMESPACE | 398 ++++++++++++++++++++++++------------ R/FitVerse-package.R |only R/bootstrap_ci.R | 4 R/data_summary.R | 5 R/extreme_value.R | 53 ---- R/fit_grouped.R | 14 - R/fit_mle.R | 14 - R/fitverse_batch.R | 8 R/plot_fitverse.R | 3 R/probability_tools.R | 360 ++++++++++++++++++++------------ R/s3_methods.R | 150 +++++++------ inst/app/app.R | 2 inst/doc/fitverse-introduction.html | 70 +++--- inst/replication.R |only man/all_fits.Rd |only man/attach_gof.Rd |only man/base64enc_simple.Rd |only man/build_ranking_table.Rd |only man/check_data.Rd |only man/clean_data.Rd |only man/compute_aic.Rd |only man/compute_bic.Rd |only man/compute_data_summary.Rd | 16 - man/compute_gof.Rd |only man/dot-build_lmom_result.Rd |only man/dot-build_report_cdf_plot.Rd |only man/dot-build_report_pp_plot.Rd |only man/dot-combine_panels.Rd |only man/dot-expose_dist_fns.Rd |only man/dot-gof_na_frame.Rd |only man/dot-gof_row.Rd |only man/dot-grouped_mle.Rd |only man/dot-lmom_exponential.Rd |only man/dot-lmom_gamma.Rd |only man/dot-lmom_gev.Rd |only man/dot-lmom_glo.Rd |only man/dot-lmom_gpd.Rd |only man/dot-lmom_gumbel.Rd |only man/dot-lmom_invgaussian.Rd |only man/dot-lmom_kappa4.Rd |only man/dot-lmom_logistic.Rd |only man/dot-lmom_lognormal.Rd |only man/dot-lmom_lpearson3.Rd |only man/dot-lmom_normal.Rd |only man/dot-lmom_pearson3.Rd |only man/dot-lmom_wakeby.Rd |only man/dot-lmom_weibull.Rd |only man/dot-lmom_weibull3p.Rd |only man/dot-loglik_from_params.Rd |only man/dot-lookup_dpqr.Rd |only man/dot-make_formula_strip.Rd |only man/dot-mle_birnbaum_saunders.Rd |only man/dot-mle_burr.Rd |only man/dot-mle_custom_optim.Rd |only man/dot-mle_evd_gev.Rd |only man/dot-mle_evd_gumbel.Rd |only man/dot-mle_exponential.Rd |only man/dot-mle_fitdistrplus.Rd |only man/dot-mle_gamma3.Rd |only man/dot-mle_gengamma.Rd |only man/dot-mle_ghyp.Rd |only man/dot-mle_glo.Rd |only man/dot-mle_gompertz.Rd |only man/dot-mle_halfnormal.Rd |only man/dot-mle_invgaussian.Rd |only man/dot-mle_laplace.Rd |only man/dot-mle_lindley.Rd |only man/dot-mle_lnorm3.Rd |only man/dot-mle_lpearson3.Rd |only man/dot-mle_nakagami.Rd |only man/dot-mle_nig.Rd |only man/dot-mle_pearson3.Rd |only man/dot-mle_pert.Rd |only man/dot-mle_rayleigh.Rd |only man/dot-mle_rtriangle.Rd |only man/dot-mle_sn.Rd |only man/dot-mle_student_t.Rd |only man/dot-mle_triangular.Rd |only man/dot-mle_truncnorm.Rd |only man/dot-mle_weibull3p.Rd |only man/dot-mom_birnbaum_saunders.Rd |only man/dot-mom_expexp.Rd |only man/dot-mom_fitdistrplus.Rd |only man/dot-mom_gamma3.Rd |only man/dot-mom_gengamma.Rd |only man/dot-mom_gpd.Rd |only man/dot-mom_gumbel.Rd |only man/dot-mom_halfnormal.Rd |only man/dot-mom_invgamma.Rd |only man/dot-mom_invgaussian.Rd |only man/dot-mom_kumaraswamy.Rd |only man/dot-mom_laplace.Rd |only man/dot-mom_lindley.Rd |only man/dot-mom_loglogistic.Rd |only man/dot-mom_lomax.Rd |only man/dot-mom_lpearson3.Rd |only man/dot-mom_manual.Rd |only man/dot-mom_nakagami.Rd |only man/dot-mom_pareto.Rd |only man/dot-mom_pearson3.Rd |only man/dot-mom_rayleigh.Rd |only man/dot-mom_rtriangle.Rd |only man/dot-mom_student_t.Rd |only man/dot-mom_triangular.Rd |only man/dot-mom_uniform.Rd |only man/dot-mom_weibull.Rd |only man/dot-mom_weibull3p.Rd |only man/dot-plot_density_panel.Rd |only man/dot-plot_to_base64.Rd |only man/dot-resolve_dpqr.Rd |only man/dot-run_ad.Rd |only man/dot-run_chisq.Rd |only man/dot-run_cvm.Rd |only man/dot-run_ks.Rd |only man/dot-skewness.Rd |only man/dot-wakeby_cdf_fast.Rd |only man/dot-warn_unsupported_method.Rd |only man/filter_by_support.Rd |only man/fit_list_key.Rd |only man/fit_lmom.Rd |only man/fit_lmom_all.Rd |only man/fit_mle.Rd |only man/fit_mle_all.Rd |only man/fit_mom.Rd |only man/fit_mom_all.Rd |only man/fitverse_s3methods.Rd | 13 - man/fitverse_summary-class.Rd |only man/format_params.Rd |only man/fv_palette.Rd |only man/get_ad_pvalue.Rd |only man/get_chisq_pvalue.Rd |only man/get_dist_entry.Rd | 8 man/get_ks_pvalue.Rd |only man/has_pkg.Rd |only man/kurtosis_stat.Rd |only man/pad_right.Rd |only man/pval_stars.Rd |only man/ranking.Rd |only man/safe_fit.Rd |only man/select_best_fit.Rd |only man/skewness_stat.Rd |only 143 files changed, 768 insertions(+), 518 deletions(-)