Title: Random Generation Functionality for the 'spatstat' Family
Description: Functionality for random generation of spatial data in the 'spatstat' family of packages.
Generates random spatial patterns of points according to many simple rules (complete spatial randomness,
Poisson, binomial, random grid, systematic, cell), randomised alteration of patterns
(thinning, random shift, jittering), simulated realisations of random point processes including
simple sequential inhibition, Matern inhibition models, Neyman-Scott cluster processes
(using direct, Brix-Kendall, or hybrid algorithms),
log-Gaussian Cox processes, product shot noise cluster processes
and Gibbs point processes (using Metropolis-Hastings birth-death-shift algorithm,
alternating Gibbs sampler, or coupling-from-the-past perfect simulation).
Also generates random spatial patterns of line segments,
random tessellations, and random images (random noise, random mosaics).
Excludes random generation on a linear network,
which is covered by the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb, cph],
David Bryant [ctb, cph],
Ya-Mei Chang [ctb, cph],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Dominic Sc [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.random versions 3.5-1 dated 2026-07-27 and 3.5-2 dated 2026-09-21
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ NEWS | 6 ++++++ R/random.R | 16 +++++++++------- inst/doc/packagesizes.txt | 2 +- inst/info/packagesizes.txt | 2 +- man/spatstat.random-internal.Rd | 2 +- 7 files changed, 29 insertions(+), 21 deletions(-)
More information about spatstat.random at CRAN
Permanent link
Title: Generative UI for 'shiny'
Description: Build interactive user interfaces for 'shiny' applications
through a conversation with a large language model (LLM).
Developers choose a set of reusable components, and the model arranges
and updates those components as the user describes what they need.
Each component's inputs are checked before it is shown, and the model
supplies data rather than executable code. Applications can also save and
replay the sequence of interface changes without contacting a model.
For background on generative user interfaces, see
Leviathan et al. (2026) <doi:10.48550/arXiv.2604.09577>.
Author: Nan Xiao [aut, cre, cph]
Maintainer: Nan Xiao <me@nanx.me>
Diff between shinygenui versions 0.1.0 dated 2026-09-09 and 0.2.0 dated 2026-09-21
DESCRIPTION | 10 +- MD5 | 30 ++++---- NEWS.md | 33 +++++++++ R/engine.R | 4 - R/server.R | 85 ++++++----------------- R/tools.R | 10 +- README.md | 47 ++++++++++++- inst/doc/shinygenui.R | 16 +++- inst/doc/shinygenui.Rmd | 28 +++++-- inst/doc/shinygenui.html | 82 +++++++++++++---------- inst/examples/01-mtcars-explorer/app.R | 117 +++++++++++++++++++++++++++++++-- inst/examples/02-layout/app.R | 38 +++++++++- man/figures |only man/genui_server.Rd | 18 ++--- man/shinygenui-package.Rd | 2 tests/testthat/test-chat.R |only vignettes/shinygenui.Rmd | 28 +++++-- 17 files changed, 390 insertions(+), 158 deletions(-)
Title: Publication-Quality Forest and Funnel Plots with 'ggplot2'
Description: A 'ggplot2' extension that creates publication-quality forest
and funnel plots from 'meta' package objects or tidy data frames. Provides
custom 'ggproto' geometries for study-level confidence intervals with
weight-proportional squares, summary effect diamonds, prediction
intervals, null-effect reference lines, and funnel-plot contours. Supports
subgroup analysis, back-transformation of summary measures, on-the-fly
effect pooling, effect and weight table columns, and journal-specific
layout presets (JAMA, BMJ, RevMan5).
Author: Hercules R. Freitas [aut, cre, cph]
Maintainer: Hercules R. Freitas <hercules.freitas@uerj.br>
Diff between ggmeta versions 0.1.0 dated 2026-07-22 and 0.1.1 dated 2026-09-21
DESCRIPTION | 8 +-- MD5 | 53 +++++++++++--------- NAMESPACE | 84 +++++++++++++++++---------------- NEWS.md | 69 +++++++++++++++++++++++++++ R/fortify.R | 2 R/geom-forest-ci.R | 23 +++++++-- R/ggforest.R | 75 +++++++++++++++++++++++++---- R/ggfunnel.R | 18 ++++++- R/imports.R | 2 R/tidy-meta.R | 69 ++++++++++++++++++++++++--- R/utils.R | 54 +++++++++++++++++++-- README.md | 14 ++++- build/vignette.rds |binary inst/WORDLIST | 4 + inst/doc/customising.html | 8 +-- inst/doc/from-meta-forest.html | 8 +-- inst/doc/getting-started.html | 14 ++--- man/figures/logo.png |only man/fortify.meta.Rd | 2 man/geom_forest_ci.Rd | 9 +++ man/ggforest.Rd | 11 +++- man/ggfunnel.Rd | 2 man/tidy_meta.Rd | 18 ++++++- tests/testthat/test-columns.R | 45 +++++++++++++++++ tests/testthat/test-edge-cases.R |only tests/testthat/test-geoms.R | 50 +++++++++++++++++++ tests/testthat/test-hetstats-caption.R |only tests/testthat/test-meta-types.R | 76 ++++++++++++++++++++++++++++- tests/testthat/test-pooling.R | 79 +++++++++++++++++++++++++++++++ 29 files changed, 677 insertions(+), 120 deletions(-)
Title: Visualise Function Dependencies
Description: Easily create graphs of the inter-relationships between
functions in an environment.
Author: Lewin Appleton-Fox [aut, cre]
Maintainer: Lewin Appleton-Fox <lewin.a.f@gmail.com>
Diff between foodwebr versions 1.0.0 dated 2025-09-30 and 1.1.0 dated 2026-09-21
DESCRIPTION | 9 - MD5 | 16 +- NEWS.md | 8 + R/function-matrix.R | 243 ++++++++++++++++++++++++++--------- README.md | 63 ++++++++- man/function_arg.Rd |only man/functions_called_by.Rd | 19 +- man/functions_passed_by.Rd |only tests/testthat/test-foodweb-matrix.R | 209 +++++++++++++++++++++++++++++- tests/testthat/test-foodweb.R | 15 ++ 10 files changed, 504 insertions(+), 78 deletions(-)
Title: Days Alive and Out of Hospital (DAOH) Calculation
Description: Calculates Days Alive and Out of Hospital (DAOH) from administrative
admission/discharge/mortality data using three algorithms (nights, days, exact)
and three death-handling approaches (midday, midnight, zero).
Includes tools for comparing methods (Bland-Altman, ICC, reclassification), and plotting.
Author: David Cumin [aut, cre]
Maintainer: David Cumin <d.cumin@auckland.ac.nz>
Diff between daoh versions 0.1.0 dated 2026-06-19 and 0.2.6 dated 2026-09-21
DESCRIPTION | 8 - MD5 | 43 +++---- NAMESPACE | 7 - NEWS.md |only R/algorithms.R | 25 +++- R/calc_daoh.R | 239 +++++++++++++++++++++++++++++---------- R/compare.R | 72 +++++++---- R/daoh-package.R | 18 ++ R/plots.R | 67 ++++++++-- inst/doc/getting_started.R | 3 inst/doc/getting_started.Rmd | 3 inst/doc/getting_started.html | 23 +-- man/bland_altman_daoh.Rd | 9 - man/calc_daoh.Rd | 18 ++ man/daoh-package.Rd |only man/daoh_icc.Rd | 7 - man/daoh_reclassify.Rd | 6 man/daoh_reclassify_centile.Rd | 6 man/daoh_summary.Rd | 8 - man/plot_daoh_ba.Rd | 7 - man/plot_daoh_dist.Rd | 22 ++- tests/testthat.R |only tests/testthat/test_algorithms.R | 31 ++++- vignettes/getting_started.Rmd | 3 24 files changed, 457 insertions(+), 168 deletions(-)
Title: Load and Process Passive Acoustic Data
Description: Tools for loading and processing passive acoustic data. Read in data
that has been processed in 'Pamguard' (<https://www.pamguard.org/>), apply a suite
processing functions, and export data for reports or external modeling tools. Parameter
calculations implement methods by Oswald et al (2007) <doi:10.1121/1.2743157>,
Griffiths et al (2020) <doi:10.1121/10.0001229> and Baumann-Pickering et al (2010)
<doi:10.1121/1.3479549>.
Author: Taiki Sakai [aut, cre],
Jay Barlow [ctb],
Emily Griffiths [ctb],
Michael Oswald [ctb],
Simone Baumann-Pickering [ctb],
Julie Oswald [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMpal versions 1.5.2 dated 2026-02-26 and 1.6.1 dated 2026-09-21
DESCRIPTION | 10 - MD5 | 28 +- NAMESPACE | 381 ++++++++++++++++++++++------------------ NEWS.md | 14 + R/addRecordings.R | 18 + R/calculateAverageSpectra.R | 33 ++- R/calculateEchoDepth.R | 14 + R/getClipData.R | 175 +++++++++++++++--- R/plotGram.R | 10 - R/wavUtils.R | 41 ++++ R/writeEventClips.R | 59 +++++- man/calculateAverageSpectra.Rd | 2 man/getClipData.Rd | 154 ++++++++-------- man/writeEventClips.Rd | 3 tests/testthat/test-workStudy.R | 10 - 15 files changed, 633 insertions(+), 319 deletions(-)
Title: Packages and Functions for 'CourseKata' Courses
Description: Easily install and load all packages and functions used in
'CourseKata' courses. Aid teaching with helper functions and augment
generic functions to provide cohesion between the network of packages.
Learn more about 'CourseKata' at <https://www.coursekata.org>.
Author: Adam Blake [cre, aut] ,
Ji Son [aut] ,
Jim Stigler [aut] ,
CourseKata [cph]
Maintainer: Adam Blake <adam@coursekata.org>
Diff between coursekata versions 0.20.1 dated 2026-08-22 and 0.21.0 dated 2026-09-21
coursekata-0.20.1/coursekata/R/compat-ggplot2.R |only coursekata-0.20.1/coursekata/tests/testthat/test-compat-ggplot2.R |only coursekata-0.21.0/coursekata/DESCRIPTION | 16 coursekata-0.21.0/coursekata/MD5 | 210 + coursekata-0.21.0/coursekata/NAMESPACE | 32 coursekata-0.21.0/coursekata/NEWS.md | 90 coursekata-0.21.0/coursekata/R/aaa-named-layer-factory.R |only coursekata-0.21.0/coursekata/R/b-arguments.R |only coursekata-0.21.0/coursekata/R/b-model.R |only coursekata-0.21.0/coursekata/R/b-plan.R |only coursekata-0.21.0/coursekata/R/b-source.R |only coursekata-0.21.0/coursekata/R/cutoff-callout.R |only coursekata-0.21.0/coursekata/R/cutoff-layout.R |only coursekata-0.21.0/coursekata/R/cutoff-plan.R | 7 coursekata-0.21.0/coursekata/R/geom-b-text.R |only coursekata-0.21.0/coursekata/R/geom-cutoff.R |only coursekata-0.21.0/coursekata/R/geom-model.R |only coursekata-0.21.0/coursekata/R/geom-resid.R | 686 ----- coursekata-0.21.0/coursekata/R/geom-squareplot.R | 160 + coursekata-0.21.0/coursekata/R/gf_b.R | 892 ------- coursekata-0.21.0/coursekata/R/gf_model.R | 165 - coursekata-0.21.0/coursekata/R/gf_reduce.R | 313 -- coursekata-0.21.0/coursekata/R/gf_resid_fun.R | 23 coursekata-0.21.0/coursekata/R/gf_resid_gf_squaresid.R | 223 - coursekata-0.21.0/coursekata/R/gf_sd_ruler.R | 192 - coursekata-0.21.0/coursekata/R/gf_square_resid_fun.R | 16 coursekata-0.21.0/coursekata/R/gf_squareplot.R | 338 +- coursekata-0.21.0/coursekata/R/guide-cutoff.R |only coursekata-0.21.0/coursekata/R/guide-dgp.R |only coursekata-0.21.0/coursekata/R/layer-b.R |only coursekata-0.21.0/coursekata/R/layer-diagnostics.R |only coursekata-0.21.0/coursekata/R/layer-model.R |only coursekata-0.21.0/coursekata/R/layer-resid.R |only coursekata-0.21.0/coursekata/R/layer-tag.R | 32 coursekata-0.21.0/coursekata/R/model-implied.R | 8 coursekata-0.21.0/coursekata/R/model-infer.R | 118 coursekata-0.21.0/coursekata/R/model-metadata.R |only coursekata-0.21.0/coursekata/R/model-plan.R | 453 ++- coursekata-0.21.0/coursekata/R/plot-pin.R | 200 + coursekata-0.21.0/coursekata/R/plot-spec.R | 246 + coursekata-0.21.0/coursekata/R/position-anchor.R |only coursekata-0.21.0/coursekata/R/position-guide.R |only coursekata-0.21.0/coursekata/R/resid-plan.R |only coursekata-0.21.0/coursekata/R/resid-source.R |only coursekata-0.21.0/coursekata/R/show_cutoffs.R | 376 +- coursekata-0.21.0/coursekata/R/show_overlays.R | 391 +-- coursekata-0.21.0/coursekata/R/stat-b-mark.R |only coursekata-0.21.0/coursekata/R/stat-cutoff.R | 128 - coursekata-0.21.0/coursekata/R/stat-dist-mean.R |only coursekata-0.21.0/coursekata/R/stat-model.R |only coursekata-0.21.0/coursekata/R/stat-panel.R |only coursekata-0.21.0/coursekata/R/theme.R | 246 - coursekata-0.21.0/coursekata/R/utils.R | 19 coursekata-0.21.0/coursekata/README.md | 17 coursekata-0.21.0/coursekata/man/GeomCutoff.Rd |only coursekata-0.21.0/coursekata/man/GeomModel.Rd |only coursekata-0.21.0/coursekata/man/GeomResid.Rd | 6 coursekata-0.21.0/coursekata/man/GeomSquareResid.Rd | 2 coursekata-0.21.0/coursekata/man/StatCutoff.Rd | 95 coursekata-0.21.0/coursekata/man/StatDistMean.Rd |only coursekata-0.21.0/coursekata/man/StatModel.Rd |only coursekata-0.21.0/coursekata/man/StatReduce.Rd |only coursekata-0.21.0/coursekata/man/StatResid.Rd | 9 coursekata-0.21.0/coursekata/man/StatSdRuler.Rd | 71 coursekata-0.21.0/coursekata/man/coursekata_load_theme.Rd | 4 coursekata-0.21.0/coursekata/man/coursekata_unload_theme.Rd | 7 coursekata-0.21.0/coursekata/man/geom_b.Rd |only coursekata-0.21.0/coursekata/man/geom_model.Rd |only coursekata-0.21.0/coursekata/man/geom_resid.Rd |only coursekata-0.21.0/coursekata/man/geom_squareplot.Rd |only coursekata-0.21.0/coursekata/man/gf_b.Rd | 38 coursekata-0.21.0/coursekata/man/gf_model.Rd | 29 coursekata-0.21.0/coursekata/man/gf_reduce.Rd | 24 coursekata-0.21.0/coursekata/man/gf_resid.Rd | 4 coursekata-0.21.0/coursekata/man/gf_resid_fun.Rd | 4 coursekata-0.21.0/coursekata/man/gf_sd_ruler.Rd | 13 coursekata-0.21.0/coursekata/man/gf_square_reduce.Rd | 42 coursekata-0.21.0/coursekata/man/gf_squareplot.Rd | 13 coursekata-0.21.0/coursekata/man/guide_cutoff.Rd |only coursekata-0.21.0/coursekata/man/guide_dgp.Rd |only coursekata-0.21.0/coursekata/man/show_cutoffs.Rd | 40 coursekata-0.21.0/coursekata/man/show_dgp.Rd | 36 coursekata-0.21.0/coursekata/man/show_mean.Rd | 13 coursekata-0.21.0/coursekata/tests/testthat/_snaps/gf_b-visual/gf-b-categorical-arrows.svg | 4 coursekata-0.21.0/coursekata/tests/testthat/_snaps/gf_b-visual/gf-b-continuous-triangle.svg | 350 +- coursekata-0.21.0/coursekata/tests/testthat/_snaps/gf_sd_ruler/gf-sd-ruler-basic.svg | 2 coursekata-0.21.0/coursekata/tests/testthat/_snaps/guide-cutoff |only coursekata-0.21.0/coursekata/tests/testthat/_snaps/show_cutoffs/show-cutoffs-middle-95.svg | 25 coursekata-0.21.0/coursekata/tests/testthat/_snaps/show_cutoffs/show-cutoffs-stacked-three-levels-flipped.svg |only coursekata-0.21.0/coursekata/tests/testthat/_snaps/show_cutoffs/show-cutoffs-stacked-three-levels.svg | 63 coursekata-0.21.0/coursekata/tests/testthat/_snaps/show_overlays/show-dgp-shuffled-b1.svg | 151 - coursekata-0.21.0/coursekata/tests/testthat/helper-coefficient-marks.R |only coursekata-0.21.0/coursekata/tests/testthat/helper-ggplot.R |only coursekata-0.21.0/coursekata/tests/testthat/helper-vdiffr.R | 11 coursekata-0.21.0/coursekata/tests/testthat/test-annotation-composition.R |only coursekata-0.21.0/coursekata/tests/testthat/test-b-layers.R |only coursekata-0.21.0/coursekata/tests/testthat/test-b-source.R |only coursekata-0.21.0/coursekata/tests/testthat/test-docs.R | 12 coursekata-0.21.0/coursekata/tests/testthat/test-geom-b-text.R |only coursekata-0.21.0/coursekata/tests/testthat/test-geom-cutoff.R |only coursekata-0.21.0/coursekata/tests/testthat/test-geom-resid.R | 24 coursekata-0.21.0/coursekata/tests/testthat/test-geom-squareplot.R | 5 coursekata-0.21.0/coursekata/tests/testthat/test-gf_b-visual.R | 352 ++ coursekata-0.21.0/coursekata/tests/testthat/test-gf_b.R | 151 - coursekata-0.21.0/coursekata/tests/testthat/test-gf_model-formula.R | 4 coursekata-0.21.0/coursekata/tests/testthat/test-gf_model-infer.R | 33 coursekata-0.21.0/coursekata/tests/testthat/test-gf_model-visual.R | 14 coursekata-0.21.0/coursekata/tests/testthat/test-gf_model.R | 56 coursekata-0.21.0/coursekata/tests/testthat/test-gf_reduce.R | 53 coursekata-0.21.0/coursekata/tests/testthat/test-gf_resid_fun.R | 16 coursekata-0.21.0/coursekata/tests/testthat/test-gf_resid_gf_squaresid.R | 30 coursekata-0.21.0/coursekata/tests/testthat/test-gf_sd_ruler.R | 19 coursekata-0.21.0/coursekata/tests/testthat/test-gf_square_resid_fun.R | 6 coursekata-0.21.0/coursekata/tests/testthat/test-gf_squareplot.R | 32 coursekata-0.21.0/coursekata/tests/testthat/test-guide-cutoff.R |only coursekata-0.21.0/coursekata/tests/testthat/test-guide-dgp.R |only coursekata-0.21.0/coursekata/tests/testthat/test-layer-factory.R |only coursekata-0.21.0/coursekata/tests/testthat/test-layer-tag.R | 20 coursekata-0.21.0/coursekata/tests/testthat/test-model-layers.R |only coursekata-0.21.0/coursekata/tests/testthat/test-model-plan.R | 63 coursekata-0.21.0/coursekata/tests/testthat/test-model-shared-plan.R |only coursekata-0.21.0/coursekata/tests/testthat/test-plot-modernization.R |only coursekata-0.21.0/coursekata/tests/testthat/test-plot-pin.R | 30 coursekata-0.21.0/coursekata/tests/testthat/test-plot-spec.R | 45 coursekata-0.21.0/coursekata/tests/testthat/test-plotting-integration.R |only coursekata-0.21.0/coursekata/tests/testthat/test-position-guide.R |only coursekata-0.21.0/coursekata/tests/testthat/test-resid-contracts.R |only coursekata-0.21.0/coursekata/tests/testthat/test-resid-layers.R |only coursekata-0.21.0/coursekata/tests/testthat/test-show_cutoffs.R | 1268 ++++++---- coursekata-0.21.0/coursekata/tests/testthat/test-show_overlays.R | 149 - coursekata-0.21.0/coursekata/tests/testthat/test-source-resolution.R |only coursekata-0.21.0/coursekata/tests/testthat/test-squareplot-constructors.R |only coursekata-0.21.0/coursekata/tests/testthat/test-squareplot-lifecycle.R |only coursekata-0.21.0/coursekata/tests/testthat/test-stat-cutoff.R |only coursekata-0.21.0/coursekata/tests/testthat/test-stat-dist-mean.R |only coursekata-0.21.0/coursekata/tests/testthat/test-stat-sd-ruler.R |only coursekata-0.21.0/coursekata/tests/testthat/test-theme.R |only coursekata-0.21.0/coursekata/tools |only 138 files changed, 4714 insertions(+), 4321 deletions(-)
Title: Genome-Wide Nucleic Acid Melting Temperature Profiling and
Multi-Omics Integration
Description: Accurate calculation of nucleic acid melting temperature (Tm) is fundamental to many molecular biology applications, and this software scales Tm analysis from individual sequences to genome‑wide thermodynamic profiling. This package extends Tm analysis from simple sequence level computation to comprehensive genome-wide thermodynamic profiling. It takes four input sources: sequence strings, a FASTA file, an installed 'BSgenome' package named by string, or a 'GRanges' carrying sequences. A 'regions' argument selects what to cover and 'window' and 'slide' set the resolution at which it is tiled. The implementation provides three Tm calculation methods: the Wallace rule (Thein & Wallace, 1986), empirical GC‑content formulas (Marmur, 1962; Schildkraut, 2010; Wetmur, 1991; Untergasser, 2012; von Ahsen, 2001), and nearest‑neighbor thermodynamics (Breslauer, 1986; Sugimoto, 1996; Allawi, 1998; SantaLucia, 2004; Freier, 1986; Xia, 1998; Chen, 2012; Bommarito, 2000; Turner, 2010; Sugimoto, 1 [...truncated...]
Author: Junhui Li [cre, aut] ,
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <ljh.biostat@gmail.com>
Diff between TmCalculator versions 1.1.0 dated 2026-09-14 and 1.1.1 dated 2026-09-21
TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.html |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_cluster.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_strategy.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_strategy_tasks.csv.gz |only TmCalculator-1.1.0/TmCalculator/inst/extdata/nn_params_provenance_v1.1.0.md |only TmCalculator-1.1.0/TmCalculator/inst/scripts/app.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_methods.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_cluster.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_cluster.lsf |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_strategy.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_worker.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_worker.py |only TmCalculator-1.1.0/TmCalculator/inst/scripts/benchmark_hg38.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/benchmark_tools.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure5_two_env.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_table6.R |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/vignettes/tool_comparison.Rmd |only TmCalculator-1.1.1/TmCalculator/DESCRIPTION | 19 TmCalculator-1.1.1/TmCalculator/MD5 | 107 TmCalculator-1.1.1/TmCalculator/NAMESPACE | 2 TmCalculator-1.1.1/TmCalculator/NEWS.md | 82 TmCalculator-1.1.1/TmCalculator/R/coor_to_genomic_ranges.R | 12 TmCalculator-1.1.1/TmCalculator/R/tm_calculate.R | 360 + TmCalculator-1.1.1/TmCalculator/R/tm_source.R |only TmCalculator-1.1.1/TmCalculator/R/to_genomic_ranges.R | 9 TmCalculator-1.1.1/TmCalculator/README.md | 2 TmCalculator-1.1.1/TmCalculator/build/vignette.rds |binary TmCalculator-1.1.1/TmCalculator/inst/doc/genome_wide_tm_ecoli.R | 188 TmCalculator-1.1.1/TmCalculator/inst/doc/genome_wide_tm_ecoli.Rmd | 417 -- TmCalculator-1.1.1/TmCalculator/inst/doc/genome_wide_tm_ecoli.html | 1080 ++--- TmCalculator-1.1.1/TmCalculator/inst/doc/hg38_performance_parallel.R | 439 -- TmCalculator-1.1.1/TmCalculator/inst/doc/hg38_performance_parallel.Rmd | 1158 +---- TmCalculator-1.1.1/TmCalculator/inst/doc/hg38_performance_parallel.html | 2060 +--------- TmCalculator-1.1.1/TmCalculator/inst/doc/window_size_sensitivity.Rmd | 16 TmCalculator-1.1.1/TmCalculator/inst/doc/window_size_sensitivity.html | 67 TmCalculator-1.1.1/TmCalculator/inst/extdata/bench_hg38_cluster.csv |only TmCalculator-1.1.1/TmCalculator/inst/extdata/bench_hg38_laptop.csv |only TmCalculator-1.1.1/TmCalculator/inst/extdata/nn_params_provenance_v1.1.1.md |only TmCalculator-1.1.1/TmCalculator/inst/scripts/bench_crosstool.R | 6 TmCalculator-1.1.1/TmCalculator/inst/scripts/bench_tm_calculate.R |only TmCalculator-1.1.1/TmCalculator/inst/scripts/bench_tm_calculate.lsf |only TmCalculator-1.1.1/TmCalculator/inst/scripts/bench_tm_calculate_local.sh |only TmCalculator-1.1.1/TmCalculator/inst/scripts/make_figure2.R | 604 -- TmCalculator-1.1.1/TmCalculator/inst/scripts/make_figure3.R | 531 ++ TmCalculator-1.1.1/TmCalculator/inst/scripts/make_figure4.R | 285 - TmCalculator-1.1.1/TmCalculator/inst/scripts/make_figure5.R | 344 - TmCalculator-1.1.1/TmCalculator/inst/scripts/plot_crosstool.R | 6 TmCalculator-1.1.1/TmCalculator/inst/scripts/quick_parallel_mac.R |only TmCalculator-1.1.1/TmCalculator/inst/scripts/setup_cluster_env.sh | 10 TmCalculator-1.1.1/TmCalculator/inst/scripts/test_tm_calculate_merged.R |only TmCalculator-1.1.1/TmCalculator/inst/vignette-source/genome_wide_tm_ecoli.Rmd | 417 -- TmCalculator-1.1.1/TmCalculator/inst/vignette-source/hg38_performance_parallel.Rmd | 1158 +---- TmCalculator-1.1.1/TmCalculator/inst/vignette-source/window_size_sensitivity.Rmd | 16 TmCalculator-1.1.1/TmCalculator/man/TmCalculator-package.Rd | 2 TmCalculator-1.1.1/TmCalculator/man/coor_to_genomic_ranges.Rd | 4 TmCalculator-1.1.1/TmCalculator/man/dot-fasta_lengths.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-spill_fasta.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_as_granges.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_complete_gr.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_finish.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_match.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_model.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_offsets.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_regions.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_run.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_source.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_task_bsgenome.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_task_fasta.Rd |only TmCalculator-1.1.1/TmCalculator/man/dot-tm_tasks.Rd |only TmCalculator-1.1.1/TmCalculator/man/tm_calculate.Rd | 124 TmCalculator-1.1.1/TmCalculator/vignettes/genome_wide_tm_ecoli.Rmd | 417 -- TmCalculator-1.1.1/TmCalculator/vignettes/hg38_performance_parallel.Rmd | 1158 +---- TmCalculator-1.1.1/TmCalculator/vignettes/window_size_sensitivity.Rmd | 16 76 files changed, 4103 insertions(+), 7013 deletions(-)
Title: Miscellaneous Functions for Passive Acoustic Analysis
Description: A collection of miscellaneous functions for passive acoustics.
Much of the content here is adapted to R from code written by other people.
If you have any ideas of functions to add, please contact Taiki Sakai.
Author: Taiki Sakai [aut, cre],
Jay Barlow [ctb],
Julie Oswald [ctb],
Val Schmidt [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMmisc versions 1.13.0 dated 2026-04-04 and 1.14.2 dated 2026-09-21
DESCRIPTION | 10 - MD5 | 32 +++--- NAMESPACE | 214 ++++++++++++++++++++++++------------------ NEWS.md | 15 ++ R/createSSP.R | 2 R/erddapToEdinfo.R | 66 ++++++++++++ R/getEdinfo.R | 3 R/matchEnvData.R | 91 +++++++++++++++++ R/ncToData.R | 127 +++++++++++++++++++----- R/ncUtils.R | 32 +++--- R/peakTrough.R | 8 - R/straightPath.R | 10 - data/hycomList.rda |binary man/erddapToEdinfo.Rd | 7 + man/matchEnvData.Rd | 3 man/ncToData.Rd | 6 - tests/testthat/test-envdata.R | 2 17 files changed, 464 insertions(+), 164 deletions(-)
Title: Reading Bibliometric Data from Lattes Platform
Description: A simple API for downloading and reading xml data directly from Lattes <http://lattes.cnpq.br/>.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between GetLattesData versions 1.5 dated 2024-05-04 and 1.5.2 dated 2026-09-21
DESCRIPTION | 16 +- MD5 | 34 ++++- NAMESPACE | 1 NEWS.md | 20 +++ R/get_acad_back.R |only R/get_accepted_papers.R |only R/get_awards.R |only R/get_books.R |only R/get_coauthors.R |only R/get_conferences.R |only R/get_cvitae.R |only R/get_employment.R |only R/get_projs.R |only R/get_published_papers.R |only R/get_superv.R |only R/gld_get_lattes_data.R | 201 ++-------------------------------- R/gld_get_lattes_data_from_zip.R | 99 +++++++--------- R/gld_read_lattes_zip.R | 59 +++++++++ R/gld_read_lattes_zip2.R |only R/gld_utils.R | 86 ++++++++++++++ R/globals.R |only build/vignette.rds |binary inst/doc/gld_vignette-ReadLattes.html | 17 +- man/gld_read_zip2.Rd |only tests/testthat/test_gld2.R |only tests/testthat/test_parsing_bugs.R |only 26 files changed, 267 insertions(+), 266 deletions(-)
More information about CausalLoopAnalytics at CRAN
Permanent link
Title: Tools for Designing, Simulating, and Analyzing Implementation
Rollout Trials
Description: Provides a unified framework for designing, simulating, and analyzing implementation rollout trials, including stepped wedge, sequential rollout, head-to-head, multi-condition, and rollout implementation optimization designs. The package enables users to flexibly specify rollout schedules, incorporate site-level and nested data structures, generate outcomes under rich hierarchical models, and evaluate analytic strategies through simulation-based power analysis. By separating data generation from model fitting, the tools support assessment of bias, Type I error, and robustness to model misspecification. The workflow integrates with standard mixed-effects modeling approaches and the tidyverse ecosystem, offering transparent and reproducible tools for implementation scientists and applied statisticians.
Author: Ian Cero [aut, cre] ,
C. Hendricks Brown [aut]
Maintainer: Ian Cero <ian_cero@urmc.rochester.edu>
Diff between rollout versions 0.1.0 dated 2026-01-13 and 0.2.0 dated 2026-09-21
DESCRIPTION | 12 LICENSE | 4 MD5 | 69 ++--- NAMESPACE | 3 NEWS.md | 9 R/data_generation.R | 322 ++++++++++++------------- R/effect_simulation.R | 94 ++++++- R/model_evaluation.R | 412 ++++++++++++++++++++++++++++++--- R/model_fitting.R | 195 +++++++-------- R/rollout-package.R | 6 man/add_binary_outcome.Rd | 78 +++--- man/add_binomial_outcome.Rd |only man/add_error.Rd | 46 +-- man/add_fixed_effect.Rd | 46 +-- man/add_linear_outcome.Rd | 46 +-- man/add_parameter.Rd | 46 +-- man/add_poisson_outcome.Rd | 64 ++--- man/add_random_effect.Rd | 50 ++-- man/eval_between.Rd | 113 ++++----- man/eval_bias.Rd | 155 +++++++----- man/eval_coverage.Rd |only man/eval_greater_than.Rd | 111 ++++---- man/eval_less_than.Rd | 111 ++++---- man/eval_quantile.Rd | 119 ++++----- man/evaluate_model_results.Rd | 181 +++++++------- man/extract_model_results.Rd | 104 ++++---- man/figures/lifecycle-deprecated.svg | 42 +-- man/figures/lifecycle-experimental.svg | 42 +-- man/figures/lifecycle-stable.svg | 58 ++-- man/figures/lifecycle-superseded.svg | 42 +-- man/fit_models.Rd | 179 +++++++------- man/initialize_replicates.Rd | 46 +-- man/join_info.Rd | 74 ++--- man/pivot_schedule_longer.Rd | 113 ++++----- man/rollout-package.Rd | 59 ++-- tests/testthat/test-data_generation.R | 271 +++++++++++++++++++++ tests/testthat/test-model_evaluation.R |only 37 files changed, 2031 insertions(+), 1291 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Extra
Support Functions
Description: Fit and compare nonlinear mixed-effects models in
differential equations with flexible dosing information commonly seen
in pharmacokinetics and pharmacodynamics (Almquist, Leander, and
Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation
solving is by compiled C code provided in the 'rxode2' package (Wang,
Hallow, and James 2015 <doi:10.1002/psp4.12052>). This package is for
support functions like preconditioned fits
<doi:10.1208/s12248-016-9866-5>, boostrap and stepwise covariate
selection.
Author: Matthew Fidler [aut, cre] ,
Vipul Mann [aut],
Vishal Sarsani [aut] ,
Christian Bartels [ctb],
Bill Denney [aut] ,
Omar Elashkar [ctb]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between nlmixr2extra versions 5.2.0 dated 2026-08-04 and 5.2.1 dated 2026-09-21
DESCRIPTION | 17 MD5 | 94 - NAMESPACE | 65 - NEWS.md | 101 + R/AICHelpers.R | 5 R/SCM.R | 393 +++++-- R/bayesiancovsel.R | 157 +- R/computingutil.R | 504 ++++----- R/iivSearch.R | 351 +++--- R/knit_printEquation.R | 91 + R/lassocov.R | 388 ++++--- R/linearizefocei.R | 1588 ++++++++++++++++-------------- R/multistart.R |only R/nlmixr2extra-package.R | 1 R/nlmixrFormula.R | 251 +++- R/parsingutil.R | 359 +++--- R/precondition.R | 268 +++-- R/profile.R | 124 +- R/resSearch.R | 58 - R/rxUiLinearize.R | 280 +++-- R/setCov.R | 209 ++- R/theoFitOde.R | 14 R/zzz.R | 1 README.md | 48 data/theoFitOde.rda |binary inst/iivSearch.R | 212 ++-- inst/tools/build.R | 5 man/horseshoeSummardf.Rd | 2 man/lassoSummardf.Rd | 2 man/linearize.Rd | 21 man/linearizePlot.Rd | 3 man/multistart.Rd |only man/multistartControl.Rd |only man/plot.nlmixr2Multistart.Rd |only tests/testthat/test-AICHelpers.R | 5 tests/testthat/test-SCM-backwardSearch.R | 4 tests/testthat/test-SCM-covarSearchAuto.R | 128 ++ tests/testthat/test-bootstrap.R | 56 - tests/testthat/test-computing.R | 34 tests/testthat/test-iivSearch.R | 45 tests/testthat/test-ini-prior-column.R |only tests/testthat/test-knit_printEquation.R | 64 - tests/testthat/test-lasso.R | 22 tests/testthat/test-linearizefocei.R | 858 ++++++++-------- tests/testthat/test-multistart.R |only tests/testthat/test-nlmixrFormula.R | 281 +++-- tests/testthat/test-parsing.R | 160 +-- tests/testthat/test-precondition.R | 101 + tests/testthat/test-profile.R | 66 - tests/testthat/test-resSearch.R | 37 tests/testthat/test-safety.R | 1 51 files changed, 4434 insertions(+), 3040 deletions(-)
Title: Deploy Docs, Apps, and APIs to 'Posit Connect', 'shinyapps.io',
and 'RPubs'
Description: Programmatic deployment interface for 'RPubs',
'shinyapps.io', and 'Posit Connect'. Supported content types include R
Markdown documents, Shiny applications, Plumber APIs, plots, and
static web content.
Author: Aron Atkins [aut, cre],
Toph Allen [aut],
Hadley Wickham [aut],
Jonathan McPherson [aut],
JJ Allaire [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Aron Atkins <aron@posit.co>
Diff between rsconnect versions 1.11.0 dated 2026-08-25 and 1.11.1 dated 2026-09-21
DESCRIPTION | 6 MD5 | 60 NEWS.md | 56 R/appMetadata.R | 12 R/applications.R | 79 R/auth.R | 461 ++++- R/client-connect.R | 17 R/client-connectCloud.R | 198 +- R/deployApp.R | 23 R/deploymentTarget.R | 54 R/options.R |only R/rpubs.R | 2 README.md | 2 man/addAuthorizedUser.Rd | 21 man/options.Rd | 101 - man/removeAuthorizedUser.Rd | 18 man/resendInvitation.Rd | 20 man/showInvited.Rd | 28 man/showUsers.Rd | 33 tests/manual/publishing-dialog.Rmd | 8 tests/testthat/helper.R | 42 tests/testthat/shinyapp-with-absolute-paths/ShinyDocument.Rmd | 7 tests/testthat/shinyapp-with-absolute-paths/ShinyPresentation.Rmd | 6 tests/testthat/shinyapp-with-absolute-paths/server.R | 2 tests/testthat/test-appMetadata.R | 32 tests/testthat/test-applications.R | 143 + tests/testthat/test-auth.R |only tests/testthat/test-bundle.R | 2 tests/testthat/test-client-connect.R | 58 tests/testthat/test-client-connectCloud.R | 832 +++++++++- tests/testthat/test-deployApp.R | 183 ++ tests/testthat/test-deploymentTarget.R | 73 32 files changed, 2272 insertions(+), 307 deletions(-)
Title: Robust Trimmed Clustering
Description: Provides functions for robust trimmed clustering. The methods are
described in Garcia-Escudero (2008) <doi:10.1214/07-AOS515>,
Fritz et al. (2012) <doi:10.18637/jss.v047.i12>,
Garcia-Escudero et al. (2011) <doi:10.1007/s11222-010-9194-z> and others.
Author: Valentin Todorov [aut, cre] ,
Luis Angel Garcia Escudero [aut],
Agustin Mayo Iscar [aut],
Javier Crespo Guerrero [aut],
Heinrich Fritz [aut]
Maintainer: Valentin Todorov <valentin@todorov.at>
Diff between tclust versions 2.2-0 dated 2026-04-26 and 2.2-3 dated 2026-09-21
tclust-2.2-0/tclust/R/myscale.r |only tclust-2.2-0/tclust/inst/tests |only tclust-2.2-3/tclust/ChangeLog | 10 + tclust-2.2-3/tclust/DESCRIPTION | 6 tclust-2.2-3/tclust/MD5 | 31 +--- tclust-2.2-3/tclust/R/DiscrFact.R | 4 tclust-2.2-3/tclust/R/RcppExports.R | 65 ++++---- tclust-2.2-3/tclust/R/ctlcurves.R | 4 tclust-2.2-3/tclust/R/myscale.R |only tclust-2.2-3/tclust/R/print.tclust.R | 13 - tclust-2.2-3/tclust/R/tclust-internal.R | 11 + tclust-2.2-3/tclust/R/tclust.R | 186 ++++++++++++++++++++++-- tclust-2.2-3/tclust/man/estepRR.Rd | 3 tclust-2.2-3/tclust/man/tclust.Rd | 55 ++++++- tclust-2.2-3/tclust/src/GPCM.cpp |only tclust-2.2-3/tclust/src/RcppExports.cpp | 33 +++- tclust-2.2-3/tclust/src/tclust.cpp | 244 ++++++++++++++++++++++++++------ tclust-2.2-3/tclust/src/tclust_types.h | 69 ++++++++- 18 files changed, 596 insertions(+), 138 deletions(-)
Title: Single Cell Oriented Reconstruction of PANDA Individually
Optimized Networks
Description: Constructs cell-type-specific gene regulatory networks from single-cell RNA-sequencing data. The method implements the SCORPION algorithm, which first aggregates individual cells into super-cells and then applies PANDA (Passing Attributes between Networks for Data Assimilation) to infer transcription factor-target regulatory relationships. It also provides statistical methods for differential edge analysis.
Author: Daniel Osorio [aut, cre] ,
Marieke L. Kuijjer [aut]
Maintainer: Daniel Osorio <daniecos@uio.no>
Diff between SCORPION versions 1.3.3 dated 2026-09-02 and 1.3.4 dated 2026-09-21
DESCRIPTION | 6 ++--- MD5 | 6 ++--- R/runSCORPION.R | 54 ++++++++++++++++++++++++++++++------------------ data/scorpionTest.RData |binary 4 files changed, 40 insertions(+), 26 deletions(-)
Title: Adversarial Random Forests
Description: Adversarial random forests (ARFs) recursively partition data
into fully factorized leaves, where features are jointly independent.
The procedure is iterative, with alternating rounds of generation and
discrimination. Data becomes increasingly realistic at each round,
until original and synthetic samples can no longer be reliably
distinguished. This is useful for several unsupervised learning
tasks, such as density estimation and data synthesis. Methods for both
are implemented in this package. ARFs naturally handle unstructured
data with mixed continuous and categorical covariates. They inherit
many of the benefits of random forests, including speed, flexibility,
and solid performance with default parameters. For details, see
Watson et al. (2023)
<https://proceedings.mlr.press/v206/watson23a.html>.
Author: Marvin N. Wright [aut, cre] ,
David S. Watson [aut] ,
Kristin Blesch [aut] ,
Jan Kapar [aut] ,
Lukas Burk [ctb] ,
Martin Jullum [ctb]
Maintainer: Marvin N. Wright <cran@wrig.de>
Diff between arf versions 0.2.4 dated 2025-02-24 and 0.2.5 dated 2026-09-21
arf-0.2.4/arf/tests/testthat/test_expct.R |only arf-0.2.4/arf/vignettes/vignette.R |only arf-0.2.4/arf/vignettes/vignette.html |only arf-0.2.5/arf/DESCRIPTION | 89 +++---- arf-0.2.5/arf/MD5 | 46 ++- arf-0.2.5/arf/NAMESPACE | 33 +- arf-0.2.5/arf/NEWS.md | 9 arf-0.2.5/arf/R/adversarial_rf.R | 45 +-- arf-0.2.5/arf/R/expct.R | 22 + arf-0.2.5/arf/R/forde.R | 14 - arf-0.2.5/arf/R/forge.R | 25 +- arf-0.2.5/arf/R/sample_from_leaves.R |only arf-0.2.5/arf/R/shortcut_functions.R | 10 arf-0.2.5/arf/R/utils.R | 54 +++- arf-0.2.5/arf/README.md | 5 arf-0.2.5/arf/build/vignette.rds |binary arf-0.2.5/arf/inst/doc/arf.R | 14 - arf-0.2.5/arf/inst/doc/arf.html | 197 ++++++++--------- arf-0.2.5/arf/man/adversarial_rf.Rd | 6 arf-0.2.5/arf/man/arf-package.Rd | 7 arf-0.2.5/arf/man/prep_cond.Rd | 2 arf-0.2.5/arf/man/sample_from_leaves.Rd |only arf-0.2.5/arf/tests/testthat/test-arguments.R | 12 - arf-0.2.5/arf/tests/testthat/test-conditions.R | 16 - arf-0.2.5/arf/tests/testthat/test-expct.R |only arf-0.2.5/arf/tests/testthat/test-nomatch.R |only arf-0.2.5/arf/tests/testthat/test-return_types.R | 10 arf-0.2.5/arf/tests/testthat/test-sample_from_leaves.R |only 28 files changed, 349 insertions(+), 267 deletions(-)
Title: Create Tests According to QTI 2.1 Standard
Description: Create tests and tasks compliant with the Question & Test Interoperability (QTI) information model version 2.1. Input sources are Rmd/md description files or S4-class objects. Output formats include standalone zip or xml files. Supports the generation of basic task types (single and multiple choice, order, pair association, matching tables, filling gaps and essay) and provides a comprehensive set of attributes for customizing tests.
Author: Andrey Shevandrin [aut, cre, cph] ,
Petr Bondarenko [ctb] ,
Ivonne Ojeda [ctb],
Johannes Titz [aut, cph] ,
Brian Mottershead [cph] ,
Stiftung fuer Innovation in der Hochschullehre [fnd]
Maintainer: Andrey Shevandrin <shevandrin@gmail.com>
Diff between rqti versions 1.2.1 dated 2026-05-14 and 1.3.0 dated 2026-09-21
rqti-1.2.1/rqti/inst/exercises |only rqti-1.3.0/rqti/DESCRIPTION | 12 rqti-1.3.0/rqti/MD5 | 228 +-- rqti-1.3.0/rqti/NAMESPACE | 11 rqti-1.3.0/rqti/NEWS.md | 42 rqti-1.3.0/rqti/R/AssessmentItem.R | 26 rqti-1.3.0/rqti/R/AssessmentSection.R | 3 rqti-1.3.0/rqti/R/AssessmentTest.R | 11 rqti-1.3.0/rqti/R/AssessmentTestOpal.R | 37 rqti-1.3.0/rqti/R/AssessmentTestOpenOlat.R | 4 rqti-1.3.0/rqti/R/CorrectFeedback.R | 4 rqti-1.3.0/rqti/R/DirectedPair.R | 4 rqti-1.3.0/rqti/R/Entry.R | 3 rqti-1.3.0/rqti/R/Essay.R | 4 rqti-1.3.0/rqti/R/InlineChoice.R | 4 rqti-1.3.0/rqti/R/LMS.R | 176 ++ rqti-1.3.0/rqti/R/ModalFeedback.R | 4 rqti-1.3.0/rqti/R/MultipleChoice.R | 4 rqti-1.3.0/rqti/R/MultipleChoiceTable.R | 4 rqti-1.3.0/rqti/R/NumericGap.R | 4 rqti-1.3.0/rqti/R/OneInColTable.R | 4 rqti-1.3.0/rqti/R/OneInRowTable.R | 4 rqti-1.3.0/rqti/R/Opal.R | 561 ++++++- rqti-1.3.0/rqti/R/Ordering.R | 4 rqti-1.3.0/rqti/R/SingleChoice.R | 4 rqti-1.3.0/rqti/R/TextGap.R | 5 rqti-1.3.0/rqti/R/TextGapOpal.R | 4 rqti-1.3.0/rqti/R/WrongFeedback.R | 4 rqti-1.3.0/rqti/R/character.R | 13 rqti-1.3.0/rqti/R/extract_results.R | 194 +- rqti-1.3.0/rqti/R/helpers.R | 204 ++ rqti-1.3.0/rqti/R/knit_functions.R | 16 rqti-1.3.0/rqti/R/object_builder.R | 14 rqti-1.3.0/rqti/R/qti_test.R | 26 rqti-1.3.0/rqti/R/response_processing.R | 2 rqti-1.3.0/rqti/R/rqti.R | 105 + rqti-1.3.0/rqti/R/section_builder.R | 26 rqti-1.3.0/rqti/R/verify_qti.R | 181 ++ rqti-1.3.0/rqti/README.md | 2 rqti-1.3.0/rqti/inst/QTIJS/index.xml |only rqti-1.3.0/rqti/inst/QTIJS/theme/core.css | 52 rqti-1.3.0/rqti/inst/QTIJS/themecc/style.css | 59 rqti-1.3.0/rqti/inst/extdata |only rqti-1.3.0/rqti/inst/qti_v2p1p2_extension.xsd | 59 rqti-1.3.0/rqti/inst/xsd/imsqti_v2p2.xsd |only rqti-1.3.0/rqti/man/AssessmentSection-class.Rd | 10 rqti-1.3.0/rqti/man/AssessmentTest-class.Rd | 14 rqti-1.3.0/rqti/man/AssessmentTestOpal-class.Rd | 20 rqti-1.3.0/rqti/man/AssessmentTestOpenOlat-class.Rd | 14 rqti-1.3.0/rqti/man/Gap-class.Rd | 4 rqti-1.3.0/rqti/man/InlineChoice-class.Rd | 4 rqti-1.3.0/rqti/man/NumericGap-class.Rd | 4 rqti-1.3.0/rqti/man/TextGap-class.Rd | 4 rqti-1.3.0/rqti/man/TextGapOpal-class.Rd | 4 rqti-1.3.0/rqti/man/addGroupUser-methods.Rd |only rqti-1.3.0/rqti/man/assessmentSection.Rd | 2 rqti-1.3.0/rqti/man/assessmentTest.Rd | 6 rqti-1.3.0/rqti/man/assessmentTestOpal.Rd | 24 rqti-1.3.0/rqti/man/assessmentTestOpenOlat.Rd | 4 rqti-1.3.0/rqti/man/buildAssessmentSection-methods.Rd | 2 rqti-1.3.0/rqti/man/createCourseGroup-methods.Rd |only rqti-1.3.0/rqti/man/createQtiTask-methods.Rd | 4 rqti-1.3.0/rqti/man/createQtiTest-methods.Rd | 6 rqti-1.3.0/rqti/man/createZip-methods.Rd | 4 rqti-1.3.0/rqti/man/create_qti_test.Rd | 8 rqti-1.3.0/rqti/man/dropdown.Rd | 6 rqti-1.3.0/rqti/man/extract_results.Rd | 8 rqti-1.3.0/rqti/man/gap_numeric.Rd | 24 rqti-1.3.0/rqti/man/gap_text.Rd | 2 rqti-1.3.0/rqti/man/getCourseAssessment-methods.Rd |only rqti-1.3.0/rqti/man/getCourseElements-methods.Rd | 4 rqti-1.3.0/rqti/man/getLMSResourceURL-methods.Rd | 2 rqti-1.3.0/rqti/man/getLMSResources-methods.Rd | 2 rqti-1.3.0/rqti/man/getLMSResourcesByName-methods.Rd | 4 rqti-1.3.0/rqti/man/inlineChoice.Rd | 4 rqti-1.3.0/rqti/man/numericGap_doc.Rd | 4 rqti-1.3.0/rqti/man/provide_audio.Rd |only rqti-1.3.0/rqti/man/removeGroupUser-methods.Rd |only rqti-1.3.0/rqti/man/render_opal.Rd | 7 rqti-1.3.0/rqti/man/render_qtijs.Rd | 7 rqti-1.3.0/rqti/man/render_xml.Rd | 2 rqti-1.3.0/rqti/man/section.Rd | 8 rqti-1.3.0/rqti/man/test.Rd | 6 rqti-1.3.0/rqti/man/test4opal.Rd | 12 rqti-1.3.0/rqti/man/textGapOpal_doc.Rd | 4 rqti-1.3.0/rqti/man/textGap_doc.Rd | 4 rqti-1.3.0/rqti/man/upload2LMS-methods.Rd | 10 rqti-1.3.0/rqti/man/upload2opal.Rd | 28 rqti-1.3.0/rqti/man/verify_qti.Rd | 19 rqti-1.3.0/rqti/man/verify_qti_impl.Rd | 12 rqti-1.3.0/rqti/tests/qtijs |only rqti-1.3.0/rqti/tests/testthat/file/rmd/resolution_image.Rmd | 23 rqti-1.3.0/rqti/tests/testthat/file/xml/assessmentResult_candidate_comment.xml |only rqti-1.3.0/rqti/tests/testthat/test-api_lms.R | 740 +++++++++- rqti-1.3.0/rqti/tests/testthat/test-assessment_test.R | 93 + rqti-1.3.0/rqti/tests/testthat/test-character.R | 155 ++ rqti-1.3.0/rqti/tests/testthat/test-correct_feedback.R | 7 rqti-1.3.0/rqti/tests/testthat/test-essay.R | 11 rqti-1.3.0/rqti/tests/testthat/test-extract_results.R | 107 + rqti-1.3.0/rqti/tests/testthat/test-helpers.R | 41 rqti-1.3.0/rqti/tests/testthat/test-helpers_provide_audio.R |only rqti-1.3.0/rqti/tests/testthat/test-helpers_provide_file.R | 26 rqti-1.3.0/rqti/tests/testthat/test-images.R |only rqti-1.3.0/rqti/tests/testthat/test-knit_functions.R | 182 -- rqti-1.3.0/rqti/tests/testthat/test-multiple_choice_table.R | 47 rqti-1.3.0/rqti/tests/testthat/test-object_builder.R | 2 rqti-1.3.0/rqti/tests/testthat/test-qti_exam.R | 13 rqti-1.3.0/rqti/tests/testthat/test-response_processing.R |only rqti-1.3.0/rqti/tests/testthat/test-rmd2qti.R | 20 rqti-1.3.0/rqti/tests/testthat/test-section.R | 11 rqti-1.3.0/rqti/tests/testthat/test-verify_qti.R | 196 ++ rqti-1.3.0/rqti/tests/testthat/test-wrong_feedback.R | 9 112 files changed, 3286 insertions(+), 842 deletions(-)
Title: Track Energy Consumption and Carbon Emissions of R Code
Description: Wraps the Python 'codecarbon' package via 'reticulate' to
measure the energy consumption and estimated carbon emissions of R
code. Provides a self-contained setup routine that installs
'codecarbon' into a dedicated conda environment, and an R-facing
tracker API for measuring a block of code or a longer-running
session.
Author: Beatrice Bock [aut, cre, cph] ,
Rachel Peterson [aut] ,
Dylan Van Bramer [aut]
Maintainer: Beatrice Bock <beabockm@gmail.com>
Diff between CodeCarbonR versions 0.1.0 dated 2026-09-05 and 0.1.1 dated 2026-09-21
DESCRIPTION | 15 ++++++++------- MD5 | 8 ++++---- NEWS.md | 9 +++++++++ README.md | 11 +++++++++++ inst/CITATION | 39 ++++++++++++++++++++++++++++----------- 5 files changed, 60 insertions(+), 22 deletions(-)
Title: Templated Unified Library for Posterior Approximation in
Bayesian Hierarchical Models
Description: A general-purpose engine for fitting Bayesian hierarchical models
with spatial fields, temporal effects, spatially varying coefficients, and
multiple inference backends. Scalable spatial structure includes Hilbert
space approximate Gaussian processes (HSGP; Riutort-Mayol et al. 2023
<doi:10.1007/s11222-022-10167-2>), nearest-neighbor Gaussian processes
(NNGP; Datta et al. 2016 <doi:10.1080/01621459.2015.1044091>), intrinsic
conditional autoregressive models (ICAR; Besag, York, and Mollie 1991
<doi:10.1007/BF00116466>), the reparameterized Besag-York-Mollie model
(BYM2; Riebler et al. 2016 <doi:10.1177/0962280216660421>), and stochastic
partial differential equation fields (SPDE; Lindgren, Rue, and Lindstrom
2011 <doi:10.1111/j.1467-9868.2011.00777.x>). Temporal structure covers
random walks, autoregressive processes, and Gaussian processes. Inference
is tiered by correctness guarantee: exact Hamiltonian Monte Carlo with the
No-U-Turn sampler, Laplace and n [...truncated...]
Author: Gilles Colling [aut, cre, cph] ,
Frances Y. Kuo [ctb, cph] ,
Stephen Joe [ctb, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between tulpa versions 0.2.0 dated 2026-09-09 and 0.5.0 dated 2026-09-21
tulpa-0.2.0/tulpa/inst/include/tulpa/joint_nested_laplace_api.h |only tulpa-0.2.0/tulpa/man/gp_cov_type_for_laplace.Rd |only tulpa-0.2.0/tulpa/man/laplace_diagnostics.Rd |only tulpa-0.2.0/tulpa/man/mcmc_diagnostics.Rd |only tulpa-0.2.0/tulpa/tests/testthat/Rplots.pdf |only tulpa-0.5.0/tulpa/DESCRIPTION | 14 tulpa-0.5.0/tulpa/MD5 | 1076 +-- tulpa-0.5.0/tulpa/NAMESPACE | 175 tulpa-0.5.0/tulpa/NEWS.md | 3391 +++++++++- tulpa-0.5.0/tulpa/R/RcppExports.R | 168 tulpa-0.5.0/tulpa/R/agq.R | 30 tulpa-0.5.0/tulpa/R/bayes_r2.R | 22 tulpa-0.5.0/tulpa/R/brasil.R | 12 tulpa-0.5.0/tulpa/R/categorical_accessors.R |only tulpa-0.5.0/tulpa/R/cila.R | 27 tulpa-0.5.0/tulpa/R/control_check.R | 112 tulpa-0.5.0/tulpa/R/convergence.R | 86 tulpa-0.5.0/tulpa/R/criteria.R | 284 tulpa-0.5.0/tulpa/R/diagnostics.R | 253 tulpa-0.5.0/tulpa/R/diagnostics_generic.R | 229 tulpa-0.5.0/tulpa/R/diagnostics_sim.R | 33 tulpa-0.5.0/tulpa/R/eb.R | 30 tulpa-0.5.0/tulpa/R/em_laplace.R | 2 tulpa-0.5.0/tulpa/R/ep.R | 141 tulpa-0.5.0/tulpa/R/family_loglik.R | 143 tulpa-0.5.0/tulpa/R/family_zi.R | 47 tulpa-0.5.0/tulpa/R/fit_beta_nuts.R | 14 tulpa-0.5.0/tulpa/R/fit_gibbs.R | 341 - tulpa-0.5.0/tulpa/R/fit_laplace.R | 100 tulpa-0.5.0/tulpa/R/fit_spde.R | 110 tulpa-0.5.0/tulpa/R/fit_spde_nested.R | 165 tulpa-0.5.0/tulpa/R/fit_spde_nuts.R | 15 tulpa-0.5.0/tulpa/R/fit_st_nested.R | 399 + tulpa-0.5.0/tulpa/R/fit_st_nested_auto_grid.R | 33 tulpa-0.5.0/tulpa/R/formula.R | 147 tulpa-0.5.0/tulpa/R/glmm_logpost.R | 2 tulpa-0.5.0/tulpa/R/hyper_axis_spec.R | 104 tulpa-0.5.0/tulpa/R/hyper_grid.R | 108 tulpa-0.5.0/tulpa/R/hyper_grid_refine.R | 205 tulpa-0.5.0/tulpa/R/hyper_quadrature.R |only tulpa-0.5.0/tulpa/R/hyperprior_default.R |only tulpa-0.5.0/tulpa/R/imh_laplace.R | 8 tulpa-0.5.0/tulpa/R/inference_modes.R | 485 + tulpa-0.5.0/tulpa/R/kfold.R | 53 tulpa-0.5.0/tulpa/R/laplace_diagnostics.R | 594 - tulpa-0.5.0/tulpa/R/mala.R | 8 tulpa-0.5.0/tulpa/R/marginal_se_spatial.R | 73 tulpa-0.5.0/tulpa/R/methods_generic.R | 625 + tulpa-0.5.0/tulpa/R/methods_interop.R | 3 tulpa-0.5.0/tulpa/R/mode_find.R | 13 tulpa-0.5.0/tulpa/R/multinomial.R | 36 tulpa-0.5.0/tulpa/R/nested_laplace.R | 672 + tulpa-0.5.0/tulpa/R/nested_laplace_auto_grid.R | 814 ++ tulpa-0.5.0/tulpa/R/nested_laplace_joint.R | 1005 ++ tulpa-0.5.0/tulpa/R/nested_laplace_joint_adaptive.R | 7 tulpa-0.5.0/tulpa/R/nested_laplace_joint_backends.R | 58 tulpa-0.5.0/tulpa/R/nested_laplace_joint_batch.R | 451 + tulpa-0.5.0/tulpa/R/nested_laplace_joint_ccd.R | 640 + tulpa-0.5.0/tulpa/R/nested_laplace_joint_ccd_local.R | 47 tulpa-0.5.0/tulpa/R/nested_laplace_joint_helpers.R | 714 +- tulpa-0.5.0/tulpa/R/nested_laplace_joint_hyperpriors.R | 36 tulpa-0.5.0/tulpa/R/nested_laplace_joint_multi.R | 655 + tulpa-0.5.0/tulpa/R/nested_laplace_joint_pareto_k.R | 600 - tulpa-0.5.0/tulpa/R/nested_laplace_moments.R | 596 + tulpa-0.5.0/tulpa/R/nested_laplace_pilot.R |only tulpa-0.5.0/tulpa/R/nested_laplace_re_cov.R | 164 tulpa-0.5.0/tulpa/R/ordinal.R | 64 tulpa-0.5.0/tulpa/R/outer_pareto_candidates.R |only tulpa-0.5.0/tulpa/R/outer_threads.R |only tulpa-0.5.0/tulpa/R/pathfinder.R | 9 tulpa-0.5.0/tulpa/R/plot_diagnostics.R | 162 tulpa-0.5.0/tulpa/R/plot_map.R | 17 tulpa-0.5.0/tulpa/R/posterior_draws.R | 32 tulpa-0.5.0/tulpa/R/posterior_draws_hyper.R |only tulpa-0.5.0/tulpa/R/posterior_draws_joint.R | 20 tulpa-0.5.0/tulpa/R/posterior_predict.R | 483 + tulpa-0.5.0/tulpa/R/priorsense.R | 86 tulpa-0.5.0/tulpa/R/progress_iter.R | 50 tulpa-0.5.0/tulpa/R/prune_screen.R |only tulpa-0.5.0/tulpa/R/psis.R | 182 tulpa-0.5.0/tulpa/R/rational_spde.R | 71 tulpa-0.5.0/tulpa/R/re_cov_gibbs.R | 12 tulpa-0.5.0/tulpa/R/sample_glmm.R | 106 tulpa-0.5.0/tulpa/R/sbc.R | 44 tulpa-0.5.0/tulpa/R/settings.R | 556 + tulpa-0.5.0/tulpa/R/simulate.R | 2 tulpa-0.5.0/tulpa/R/spatial_car.R | 14 tulpa-0.5.0/tulpa/R/spatial_field.R | 100 tulpa-0.5.0/tulpa/R/spatial_gp.R | 63 tulpa-0.5.0/tulpa/R/spatial_rsr_spde.R | 144 tulpa-0.5.0/tulpa/R/spatiotemporal.R | 38 tulpa-0.5.0/tulpa/R/temporal_ar2.R | 12 tulpa-0.5.0/tulpa/R/temporal_field.R | 32 tulpa-0.5.0/tulpa/R/temporal_gp.R | 97 tulpa-0.5.0/tulpa/R/temporal_rtr_posteriors.R | 85 tulpa-0.5.0/tulpa/R/temporal_tvc.R | 105 tulpa-0.5.0/tulpa/R/tgmrf_imh.R | 4 tulpa-0.5.0/tulpa/R/tgmrf_nuts.R | 7 tulpa-0.5.0/tulpa/R/tgmrf_nuts_joint.R | 35 tulpa-0.5.0/tulpa/R/tgmrf_vi.R | 4 tulpa-0.5.0/tulpa/R/tulpa-package.R | 1 tulpa-0.5.0/tulpa/R/tulpa.R | 822 +- tulpa-0.5.0/tulpa/R/validate.R | 35 tulpa-0.5.0/tulpa/R/validate_helpers.R | 7 tulpa-0.5.0/tulpa/R/varcorr.R | 24 tulpa-0.5.0/tulpa/R/warm_start.R | 1 tulpa-0.5.0/tulpa/build/partial.rdb |binary tulpa-0.5.0/tulpa/build/vignette.rds |binary tulpa-0.5.0/tulpa/inst/CITATION | 4 tulpa-0.5.0/tulpa/inst/doc/inference-modes.R | 9 tulpa-0.5.0/tulpa/inst/doc/inference-modes.Rmd | 1115 +-- tulpa-0.5.0/tulpa/inst/doc/inference-modes.html | 38 tulpa-0.5.0/tulpa/inst/doc/model-comparison.R | 16 tulpa-0.5.0/tulpa/inst/doc/model-comparison.Rmd | 18 tulpa-0.5.0/tulpa/inst/doc/model-comparison.html | 20 tulpa-0.5.0/tulpa/inst/doc/priors.Rmd | 1318 +-- tulpa-0.5.0/tulpa/inst/doc/priors.html | 61 tulpa-0.5.0/tulpa/inst/doc/quickstart.R | 10 tulpa-0.5.0/tulpa/inst/doc/quickstart.Rmd | 1607 ++-- tulpa-0.5.0/tulpa/inst/doc/quickstart.html | 46 tulpa-0.5.0/tulpa/inst/doc/reliability-pareto-k.R | 4 tulpa-0.5.0/tulpa/inst/doc/reliability-pareto-k.Rmd | 17 tulpa-0.5.0/tulpa/inst/doc/reliability-pareto-k.html | 30 tulpa-0.5.0/tulpa/inst/doc/sbc.R | 7 tulpa-0.5.0/tulpa/inst/doc/sbc.Rmd | 11 tulpa-0.5.0/tulpa/inst/doc/sbc.html | 12 tulpa-0.5.0/tulpa/inst/doc/spatial-models.R | 9 tulpa-0.5.0/tulpa/inst/doc/spatial-models.Rmd | 32 tulpa-0.5.0/tulpa/inst/doc/spatial-models.html | 37 tulpa-0.5.0/tulpa/inst/doc/temporal-models.R | 11 tulpa-0.5.0/tulpa/inst/doc/temporal-models.Rmd | 43 tulpa-0.5.0/tulpa/inst/doc/temporal-models.html | 50 tulpa-0.5.0/tulpa/inst/doc/tgmrf.Rmd | 15 tulpa-0.5.0/tulpa/inst/doc/tgmrf.html | 40 tulpa-0.5.0/tulpa/inst/include/tulpa/aghq_oracle.h | 14 tulpa-0.5.0/tulpa/inst/include/tulpa/cov_kernel.h |only tulpa-0.5.0/tulpa/inst/include/tulpa/model_data.h | 28 tulpa-0.5.0/tulpa/inst/include/tulpa/param_layout.h | 8 tulpa-0.5.0/tulpa/inst/include/tulpa/tvc_data.h | 12 tulpa-0.5.0/tulpa/inst/include/tulpa/types.h | 10 tulpa-0.5.0/tulpa/man/AIC.tulpa_fit.Rd |only tulpa-0.5.0/tulpa/man/BACKEND_REGISTRY.Rd | 3 tulpa-0.5.0/tulpa/man/agq_fit.Rd | 4 tulpa-0.5.0/tulpa/man/auto_grid.Rd | 37 tulpa-0.5.0/tulpa/man/auto_grid_place.Rd |only tulpa-0.5.0/tulpa/man/auto_select_mode.Rd | 3 tulpa-0.5.0/tulpa/man/build_glmm_logpost.Rd | 12 tulpa-0.5.0/tulpa/man/categorical_accessors.Rd |only tulpa-0.5.0/tulpa/man/compare_models.Rd | 5 tulpa-0.5.0/tulpa/man/confint.tulpa_fit.Rd | 4 tulpa-0.5.0/tulpa/man/criteria_doors.Rd | 79 tulpa-0.5.0/tulpa/man/diagnostics.Rd | 244 tulpa-0.5.0/tulpa/man/dispatch_gibbs_spatial.Rd | 3 tulpa-0.5.0/tulpa/man/dispatch_gibbs_temporal.Rd | 3 tulpa-0.5.0/tulpa/man/dot-assert_finite_model_inputs.Rd | 24 tulpa-0.5.0/tulpa/man/dot-canonical_family.Rd | 11 tulpa-0.5.0/tulpa/man/dot-family_obs_weight.Rd | 19 tulpa-0.5.0/tulpa/man/dot-finalize_fit.Rd | 17 tulpa-0.5.0/tulpa/man/dot-marginal_H_beta_bym2.Rd | 3 tulpa-0.5.0/tulpa/man/dot-spde_mean_marginal_var.Rd | 16 tulpa-0.5.0/tulpa/man/dot-spde_nested_logmarginal_at.Rd | 4 tulpa-0.5.0/tulpa/man/dot-validate_glm_design.Rd | 10 tulpa-0.5.0/tulpa/man/family_names.Rd | 8 tulpa-0.5.0/tulpa/man/fit_spde.Rd | 36 tulpa-0.5.0/tulpa/man/fit_st_nested.Rd | 121 tulpa-0.5.0/tulpa/man/fitted.tulpa_fit.Rd | 5 tulpa-0.5.0/tulpa/man/glmm_weights.Rd | 20 tulpa-0.5.0/tulpa/man/gp_cov_type.Rd |only tulpa-0.5.0/tulpa/man/hyper_axis_spec.Rd | 56 tulpa-0.5.0/tulpa/man/imh_laplace.Rd | 5 tulpa-0.5.0/tulpa/man/is_auto_grid.Rd | 7 tulpa-0.5.0/tulpa/man/laplace_gp_at.Rd | 12 tulpa-0.5.0/tulpa/man/laplace_spde_at.Rd | 12 tulpa-0.5.0/tulpa/man/logLik.tulpa_fit.Rd | 64 tulpa-0.5.0/tulpa/man/mala.Rd | 5 tulpa-0.5.0/tulpa/man/n_divergent.Rd | 8 tulpa-0.5.0/tulpa/man/pathfinder.Rd | 5 tulpa-0.5.0/tulpa/man/posterior_predict.Rd | 44 tulpa-0.5.0/tulpa/man/predict.tulpa_fit.Rd | 23 tulpa-0.5.0/tulpa/man/re_cov_pc_lkj_prior.Rd | 28 tulpa-0.5.0/tulpa/man/residuals.tulpa_fit.Rd | 3 tulpa-0.5.0/tulpa/man/select_backend_for_mode.Rd | 4 tulpa-0.5.0/tulpa/man/select_inference_mode.Rd | 5 tulpa-0.5.0/tulpa/man/simulate.tulpa_fit.Rd | 8 tulpa-0.5.0/tulpa/man/spatial_rsr.Rd | 77 tulpa-0.5.0/tulpa/man/spatial_spde.Rd | 17 tulpa-0.5.0/tulpa/man/spatial_spde_custom.Rd | 15 tulpa-0.5.0/tulpa/man/spatiotemporal_effects.Rd | 5 tulpa-0.5.0/tulpa/man/spatiotemporal_gp.Rd | 7 tulpa-0.5.0/tulpa/man/summary.tulpa_fit.Rd | 8 tulpa-0.5.0/tulpa/man/temporal_ar2.Rd | 4 tulpa-0.5.0/tulpa/man/temporal_tvc.Rd | 44 tulpa-0.5.0/tulpa/man/tulpa-package.Rd | 2 tulpa-0.5.0/tulpa/man/tulpa.Rd | 96 tulpa-0.5.0/tulpa/man/tulpa_batched_pareto_k.Rd |only tulpa-0.5.0/tulpa/man/tulpa_eb.Rd | 25 tulpa-0.5.0/tulpa/man/tulpa_ep.Rd | 29 tulpa-0.5.0/tulpa/man/tulpa_gibbs.Rd | 36 tulpa-0.5.0/tulpa/man/tulpa_grid_axis.Rd |only tulpa-0.5.0/tulpa/man/tulpa_grid_log_quad.Rd |only tulpa-0.5.0/tulpa/man/tulpa_hyper_check_copy_slab.Rd |only tulpa-0.5.0/tulpa/man/tulpa_hyper_copy_slab_density.Rd |only tulpa-0.5.0/tulpa/man/tulpa_hyper_draws.Rd |only tulpa-0.5.0/tulpa/man/tulpa_hyper_grid.Rd | 28 tulpa-0.5.0/tulpa/man/tulpa_hyper_grid_supports.Rd |only tulpa-0.5.0/tulpa/man/tulpa_hyper_slice_home.Rd |only tulpa-0.5.0/tulpa/man/tulpa_iter_progress.Rd |only tulpa-0.5.0/tulpa/man/tulpa_joint_axis_specs_from_grid.Rd |only tulpa-0.5.0/tulpa/man/tulpa_joint_grid_batch.Rd |only tulpa-0.5.0/tulpa/man/tulpa_joint_inner_vcov_blocks.Rd |only tulpa-0.5.0/tulpa/man/tulpa_laplace.Rd | 15 tulpa-0.5.0/tulpa/man/tulpa_multinomial.Rd | 8 tulpa-0.5.0/tulpa/man/tulpa_nested_laplace.Rd | 126 tulpa-0.5.0/tulpa/man/tulpa_nested_laplace_joint.Rd | 404 + tulpa-0.5.0/tulpa/man/tulpa_normalise_weights_safe.Rd |only tulpa-0.5.0/tulpa/man/tulpa_nuts_beta.Rd | 4 tulpa-0.5.0/tulpa/man/tulpa_ordinal.Rd | 7 tulpa-0.5.0/tulpa/man/tulpa_pit.Rd | 32 tulpa-0.5.0/tulpa/man/tulpa_posterior_draws.Rd | 10 tulpa-0.5.0/tulpa/man/tulpa_posterior_draws.tulpa_nested_laplace_joint.Rd | 5 tulpa-0.5.0/tulpa/man/tulpa_powerscale_sensitivity.Rd | 8 tulpa-0.5.0/tulpa/man/tulpa_re_cov_nested.Rd | 56 tulpa-0.5.0/tulpa/man/tulpa_rpg.Rd |only tulpa-0.5.0/tulpa/man/tulpa_sample_glmm.Rd | 40 tulpa-0.5.0/tulpa/man/tulpa_spde_log_hyperprior.Rd |only tulpa-0.5.0/tulpa/man/tulpa_spde_precision_Q.Rd |only tulpa-0.5.0/tulpa/man/tulpa_theta_matrix.Rd |only tulpa-0.5.0/tulpa/man/validate_gp.Rd | 19 tulpa-0.5.0/tulpa/man/validate_temporal_multiscale.Rd | 19 tulpa-0.5.0/tulpa/man/vcov.tulpa_fit.Rd | 3 tulpa-0.5.0/tulpa/src/Makevars.win | 20 tulpa-0.5.0/tulpa/src/RcppExports.cpp | 617 + tulpa-0.5.0/tulpa/src/areal_input_check.h | 63 tulpa-0.5.0/tulpa/src/brasil.h |only tulpa-0.5.0/tulpa/src/brasil_export.cpp |only tulpa-0.5.0/tulpa/src/checkpoint_io.h | 2 tulpa-0.5.0/tulpa/src/cov_kernel_export.cpp |only tulpa-0.5.0/tulpa/src/family_terms_export.cpp | 28 tulpa-0.5.0/tulpa/src/glmm_family_elt.h |only tulpa-0.5.0/tulpa/src/glmm_oracle.h | 60 tulpa-0.5.0/tulpa/src/gpu_nngp_laplace.h | 9 tulpa-0.5.0/tulpa/src/hmc_chain_checkpoint.h | 4 tulpa-0.5.0/tulpa/src/hmc_chain_stack.h | 11 tulpa-0.5.0/tulpa/src/hmc_gp_gradients.h | 2 tulpa-0.5.0/tulpa/src/hmc_gp_nc.h | 2 tulpa-0.5.0/tulpa/src/hmc_gradient_fallback.cpp | 38 tulpa-0.5.0/tulpa/src/hmc_mass_lowrank.h | 5 tulpa-0.5.0/tulpa/src/hmc_mass_st_gmrf.cpp | 26 tulpa-0.5.0/tulpa/src/hmc_nuts_chain.cpp | 33 tulpa-0.5.0/tulpa/src/hmc_nuts_chain_iter_hmc.h | 1 tulpa-0.5.0/tulpa/src/hmc_nuts_chain_iter_nuts.h | 34 tulpa-0.5.0/tulpa/src/hmc_nuts_chain_iter_store.h | 11 tulpa-0.5.0/tulpa/src/hmc_nuts_chain_setup.h | 30 tulpa-0.5.0/tulpa/src/hmc_nuts_mass_init.cpp | 4 tulpa-0.5.0/tulpa/src/hmc_nuts_parallel.cpp | 113 tulpa-0.5.0/tulpa/src/hmc_param_layout.cpp | 111 tulpa-0.5.0/tulpa/src/hmc_sampler_chain_state.h | 12 tulpa-0.5.0/tulpa/src/hmc_sampler_decls.h | 50 tulpa-0.5.0/tulpa/src/hmc_svc.h | 81 tulpa-0.5.0/tulpa/src/hmc_svc_autodiff.h | 11 tulpa-0.5.0/tulpa/src/hmc_temporal.h | 33 tulpa-0.5.0/tulpa/src/hmc_tvc.h | 157 tulpa-0.5.0/tulpa/src/hyperprior_density_export.cpp |only tulpa-0.5.0/tulpa/src/inv_block_extract.h | 41 tulpa-0.5.0/tulpa/src/joint_inner_vcov.cpp | 54 tulpa-0.5.0/tulpa/src/joint_inner_vcov.h | 30 tulpa-0.5.0/tulpa/src/laplace_core.cpp | 76 tulpa-0.5.0/tulpa/src/laplace_core.h | 23 tulpa-0.5.0/tulpa/src/laplace_family_link.h | 22 tulpa-0.5.0/tulpa/src/laplace_family_zi_phi.h | 2 tulpa-0.5.0/tulpa/src/laplace_newton_joint.h | 329 tulpa-0.5.0/tulpa/src/laplace_newton_joint_sparse.h | 400 - tulpa-0.5.0/tulpa/src/laplace_newton_loop.h | 40 tulpa-0.5.0/tulpa/src/laplace_re_priors.h | 64 tulpa-0.5.0/tulpa/src/laplace_spec.cpp | 4 tulpa-0.5.0/tulpa/src/laplace_spec_fit.h | 2 tulpa-0.5.0/tulpa/src/laplace_spec_solve.h | 2 tulpa-0.5.0/tulpa/src/linalg_fast.h | 26 tulpa-0.5.0/tulpa/src/log_post_generic_impl.h | 18 tulpa-0.5.0/tulpa/src/nested_laplace.cpp | 130 tulpa-0.5.0/tulpa/src/nested_laplace_checkpoint.h | 2 tulpa-0.5.0/tulpa/src/nested_laplace_entries.h |only tulpa-0.5.0/tulpa/src/nested_laplace_grid.h | 733 +- tulpa-0.5.0/tulpa/src/nested_laplace_joint_batch.cpp | 600 - tulpa-0.5.0/tulpa/src/nested_laplace_joint_batch.h | 36 tulpa-0.5.0/tulpa/src/nested_laplace_joint_core.h | 123 tulpa-0.5.0/tulpa/src/nested_laplace_joint_multi.cpp | 264 tulpa-0.5.0/tulpa/src/nested_laplace_joint_multi.h | 276 tulpa-0.5.0/tulpa/src/nested_laplace_multi.cpp | 30 tulpa-0.5.0/tulpa/src/nested_laplace_multi.h | 177 tulpa-0.5.0/tulpa/src/nl_entry_inputs.h | 100 tulpa-0.5.0/tulpa/src/nngp_twin_export.cpp | 3 tulpa-0.5.0/tulpa/src/omp_threads.h | 14 tulpa-0.5.0/tulpa/src/pc_prior.h | 48 tulpa-0.5.0/tulpa/src/pg_binomial.cpp | 20 tulpa-0.5.0/tulpa/src/pg_binomial_bym2.cpp | 16 tulpa-0.5.0/tulpa/src/pg_binomial_gp.cpp | 25 tulpa-0.5.0/tulpa/src/pg_binomial_gp_rsr.cpp |only tulpa-0.5.0/tulpa/src/pg_binomial_multiscale_gp.cpp | 41 tulpa-0.5.0/tulpa/src/pg_binomial_rsr.cpp | 52 tulpa-0.5.0/tulpa/src/pg_binomial_temporal.cpp | 75 tulpa-0.5.0/tulpa/src/pg_negbin.cpp | 113 tulpa-0.5.0/tulpa/src/pg_shared.h | 395 + tulpa-0.5.0/tulpa/src/pg_spatial.cpp | 54 tulpa-0.5.0/tulpa/src/pg_spatial.h | 25 tulpa-0.5.0/tulpa/src/re_cov_gibbs.cpp | 23 tulpa-0.5.0/tulpa/src/re_cov_gibbs_sweep.h | 76 tulpa-0.5.0/tulpa/src/row_classes.h |only tulpa-0.5.0/tulpa/src/sampler_log_prob.h |only tulpa-0.5.0/tulpa/src/sampler_model_data.h | 310 tulpa-0.5.0/tulpa/src/sparse_cholesky.cpp | 59 tulpa-0.5.0/tulpa/src/sparse_cholesky.h | 43 tulpa-0.5.0/tulpa/src/spde_laplace.cpp | 61 tulpa-0.5.0/tulpa/src/spde_qbuilder.h | 24 tulpa-0.5.0/tulpa/src/st_null_space.h | 44 tulpa-0.5.0/tulpa/src/st_type_iv_precision.h | 40 tulpa-0.5.0/tulpa/src/temporal_gp_kernel.h | 69 tulpa-0.5.0/tulpa/src/test_ccallable_registry.cpp |only tulpa-0.5.0/tulpa/src/test_helpers.cpp | 118 tulpa-0.5.0/tulpa/src/test_laplace_sample_fixture.cpp |only tulpa-0.5.0/tulpa/src/test_nan_gradient_nuts.cpp | 76 tulpa-0.5.0/tulpa/src/test_pg_nngp_conditional.cpp | 16 tulpa-0.5.0/tulpa/src/test_st_fixture_parse.h |only tulpa-0.5.0/tulpa/src/test_st_hsgp_prior.cpp |only tulpa-0.5.0/tulpa/src/test_st_iv_fixture.cpp | 72 tulpa-0.5.0/tulpa/src/tgmrf_nuts.cpp | 3 tulpa-0.5.0/tulpa/src/tulpa_beta_sampler.cpp | 1 tulpa-0.5.0/tulpa/src/tulpa_generic_sampler.cpp | 6 tulpa-0.5.0/tulpa/src/tulpa_glmm_eta_draws.cpp |only tulpa-0.5.0/tulpa/src/tulpa_glmm_layout_probe.cpp | 4 tulpa-0.5.0/tulpa/src/tulpa_priors_st.h | 227 tulpa-0.5.0/tulpa/src/tulpa_priors_temporal.h | 65 tulpa-0.5.0/tulpa/src/tulpa_priors_tvc.h | 105 tulpa-0.5.0/tulpa/src/tulpa_sample_glmm.cpp | 64 tulpa-0.5.0/tulpa/src/tulpa_shims.cpp | 276 tulpa-0.5.0/tulpa/src/tulpa_shims_nested_laplace.h | 147 tulpa-0.5.0/tulpa/src/tulpa_spde_sampler.cpp | 1 tulpa-0.5.0/tulpa/src/vi_convergence_probe.cpp |only tulpa-0.5.0/tulpa/src/vi_optimizer.h | 79 tulpa-0.5.0/tulpa/src/vi_types.h | 5 tulpa-0.5.0/tulpa/tests/testthat/helper-count-support.R |only tulpa-0.5.0/tulpa/tests/testthat/helper-draws-block.R |only tulpa-0.5.0/tulpa/tests/testthat/helper-joint-icar-fixture.R |only tulpa-0.5.0/tulpa/tests/testthat/helper-laplace-fit-single.R |only tulpa-0.5.0/tulpa/tests/testthat/helper-outer-grid-dump.R | 102 tulpa-0.5.0/tulpa/tests/testthat/helper-phi-placement.R |only tulpa-0.5.0/tulpa/tests/testthat/helper-sbc.R | 81 tulpa-0.5.0/tulpa/tests/testthat/helper-spatial-grid.R |only tulpa-0.5.0/tulpa/tests/testthat/helper-tiers.R | 25 tulpa-0.5.0/tulpa/tests/testthat/test-adjacency.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-areal-input-check.R | 53 tulpa-0.5.0/tulpa/tests/testthat/test-auto-grid-provenance.R | 100 tulpa-0.5.0/tulpa/tests/testthat/test-auto-picks-a-backend-that-fits.R |only tulpa-0.5.0/tulpa/tests/testthat/test-axis-sd-estimator.R |only tulpa-0.5.0/tulpa/tests/testthat/test-beta-nuts.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-bound-family-joint-arm.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-brasil-cpp-oracle.R |only tulpa-0.5.0/tulpa/tests/testthat/test-car-icar-gibbs-alias.R |only tulpa-0.5.0/tulpa/tests/testthat/test-categorical-accessors.R |only tulpa-0.5.0/tulpa/tests/testthat/test-ccallable-registry.R |only tulpa-0.5.0/tulpa/tests/testthat/test-ccd-modefind-budget.R |only tulpa-0.5.0/tulpa/tests/testthat/test-checkpoint-universal.R | 156 tulpa-0.5.0/tulpa/tests/testthat/test-cila.R | 17 tulpa-0.5.0/tulpa/tests/testthat/test-control-check.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-control-surface-contracts.R |only tulpa-0.5.0/tulpa/tests/testthat/test-convergence.R | 17 tulpa-0.5.0/tulpa/tests/testthat/test-copy-alpha-resolution.R |only tulpa-0.5.0/tulpa/tests/testthat/test-cov-kernel.R | 20 tulpa-0.5.0/tulpa/tests/testthat/test-cpp-kernels.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-criteria-tulpa-fit.R |only tulpa-0.5.0/tulpa/tests/testthat/test-criteria.R | 28 tulpa-0.5.0/tulpa/tests/testthat/test-declared-surface-refusals.R |only tulpa-0.5.0/tulpa/tests/testthat/test-diagnostics-cross-tier.R | 64 tulpa-0.5.0/tulpa/tests/testthat/test-diagnostics-known-answer.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-diagnostics-report-honesty.R |only tulpa-0.5.0/tulpa/tests/testthat/test-diagnostics-sim.R | 20 tulpa-0.5.0/tulpa/tests/testthat/test-diagnostics.R | 95 tulpa-0.5.0/tulpa/tests/testthat/test-eb-dispersion.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-eb-marginal.R | 25 tulpa-0.5.0/tulpa/tests/testthat/test-eb.R | 28 tulpa-0.5.0/tulpa/tests/testthat/test-em-laplace-mstep-extra.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-entry-conventions.R |only tulpa-0.5.0/tulpa/tests/testthat/test-ep.R | 21 tulpa-0.5.0/tulpa/tests/testthat/test-export-doors-tulpaobs.R |only tulpa-0.5.0/tulpa/tests/testthat/test-family-count-compiled.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-family-count-extensions.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-family-cross-path.R | 10 tulpa-0.5.0/tulpa/tests/testthat/test-family-gate-nan.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-family-loglik.R | 10 tulpa-0.5.0/tulpa/tests/testthat/test-family-registry-compiled.R |only tulpa-0.5.0/tulpa/tests/testthat/test-family-validation.R | 41 tulpa-0.5.0/tulpa/tests/testthat/test-family-zi.R | 18 tulpa-0.5.0/tulpa/tests/testthat/test-finalize-fit.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-finite-input-guard-arms.R |only tulpa-0.5.0/tulpa/tests/testthat/test-fit-methods.R | 27 tulpa-0.5.0/tulpa/tests/testthat/test-fit-reads-contract.R |only tulpa-0.5.0/tulpa/tests/testthat/test-fit-st-nested-auto-grid.R | 75 tulpa-0.5.0/tulpa/tests/testthat/test-formula.R | 63 tulpa-0.5.0/tulpa/tests/testthat/test-front-door-argument-contracts.R |only tulpa-0.5.0/tulpa/tests/testthat/test-frontdoor-validation.R | 123 tulpa-0.5.0/tulpa/tests/testthat/test-generic-sampler.R | 10 tulpa-0.5.0/tulpa/tests/testthat/test-gibbs-chain.R |only tulpa-0.5.0/tulpa/tests/testthat/test-gibbs-spatial.R | 66 tulpa-0.5.0/tulpa/tests/testthat/test-gibbs-temporal.R | 14 tulpa-0.5.0/tulpa/tests/testthat/test-gpu-nngp.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-hyper-axis-domain.R |only tulpa-0.5.0/tulpa/tests/testthat/test-hyper-copy-slab.R |only tulpa-0.5.0/tulpa/tests/testthat/test-hyper-draws.R |only tulpa-0.5.0/tulpa/tests/testthat/test-hyper-prior-coordinate.R |only tulpa-0.5.0/tulpa/tests/testthat/test-hyper-quadrature-refinement.R |only tulpa-0.5.0/tulpa/tests/testthat/test-hyperparameter-coverage.R | 8 tulpa-0.5.0/tulpa/tests/testthat/test-hyperprior-default.R |only tulpa-0.5.0/tulpa/tests/testthat/test-hyperprior-frontdoor.R |only tulpa-0.5.0/tulpa/tests/testthat/test-implicit-diff.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-inference-dispatch.R | 29 tulpa-0.5.0/tulpa/tests/testthat/test-inference-modes.R | 49 tulpa-0.5.0/tulpa/tests/testthat/test-inner-pareto-k.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-inner-skew-correction.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-inner-skew.R | 14 tulpa-0.5.0/tulpa/tests/testthat/test-interval-gaussian.R | 11 tulpa-0.5.0/tulpa/tests/testthat/test-joint-axis-refinable.R |only tulpa-0.5.0/tulpa/tests/testthat/test-joint-fitted-eta-var.R |only tulpa-0.5.0/tulpa/tests/testthat/test-joint-logpost-grad-kinds.R | 18 tulpa-0.5.0/tulpa/tests/testthat/test-joint-multi-hyperprior-blocks.R |only tulpa-0.5.0/tulpa/tests/testthat/test-joint-pareto-k-proposal.R | 18 tulpa-0.5.0/tulpa/tests/testthat/test-kdiag-capture.R | 65 tulpa-0.5.0/tulpa/tests/testthat/test-kfold.R | 31 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-arg-lengths.R | 37 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-exact-gradient.R | 5 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-gp-dispatch.R | 22 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-link-domain.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-mode-stationarity.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-sample-clone.R | 8 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-spatial-gp-spde-equiv.R | 18 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-spec-builtin-family.R | 45 tulpa-0.5.0/tulpa/tests/testthat/test-laplace-spec.R | 8 tulpa-0.5.0/tulpa/tests/testthat/test-laplace_diagnostics.R | 20 tulpa-0.5.0/tulpa/tests/testthat/test-linpred-evidence.R |only tulpa-0.5.0/tulpa/tests/testthat/test-loglik-quantity-offset.R |only tulpa-0.5.0/tulpa/tests/testthat/test-loglik-sampler-logprob.R |only tulpa-0.5.0/tulpa/tests/testthat/test-marginal-se-gp.R | 29 tulpa-0.5.0/tulpa/tests/testthat/test-methods-interop.R | 43 tulpa-0.5.0/tulpa/tests/testthat/test-miid-recovery.R | 11 tulpa-0.5.0/tulpa/tests/testthat/test-mode-override.R | 9 tulpa-0.5.0/tulpa/tests/testthat/test-nc-field-eta-draws.R |only tulpa-0.5.0/tulpa/tests/testthat/test-nested-fixed-mixture-interval.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-grid-pareto-k-jacobian.R | 10 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-axis-rail.R | 16 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-bym2.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-car-proper.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-cpp.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-grid-hessians.R | 29 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-adaptive-grid.R | 11 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-barycentre.R | 173 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-batch-equivalence.R | 341 - tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-batch-response.R | 28 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-box-mass.R | 60 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-bym2.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-car-proper.R | 31 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-ccd-local.R | 74 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-ccd.R | 141 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-checkpoint.R | 43 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-descriptor-plane.R | 312 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-fixed-moments.R | 17 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-grid-adaptive.R | 5 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-grid-fixed-parallel.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-hsgp-mo.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-hsgp-svc.R | 9 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-icar.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-inner-refresh.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-multi-copy.R | 9 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-multi.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-parallel.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-pareto-k.R | 113 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-phi-grid.R | 69 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-phi-prior.R | 42 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-prune-misrank.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-prune.R | 42 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-sigma-pos-prior.R | 85 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-sparse-equivalence.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-joint-sparse-parallel.R | 7 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-multi-block.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-recovery.R | 125 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace-spatial-recovery.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nested-laplace.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-nested-posterior-draws.R | 7 tulpa-0.5.0/tulpa/tests/testthat/test-nl-axis-consumption.R | 84 tulpa-0.5.0/tulpa/tests/testthat/test-nl-entry-forwarding.R | 77 tulpa-0.5.0/tulpa/tests/testthat/test-nl-fitted-var-dedup.R |only tulpa-0.5.0/tulpa/tests/testthat/test-nl-grid-axis-contract.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nl-grid-cap.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nl-internal-batch-warning.R |only tulpa-0.5.0/tulpa/tests/testthat/test-nl-interval-support.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-nl-registry-axis-scope.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-nl-required-fields.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-nl-single-block-prune.R |only tulpa-0.5.0/tulpa/tests/testthat/test-nl-weight-guard.R | 17 tulpa-0.5.0/tulpa/tests/testthat/test-nngp-coords-arity.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-nuts-nan-gradient.R | 30 tulpa-0.5.0/tulpa/tests/testthat/test-nuts-progress-scope.R |only tulpa-0.5.0/tulpa/tests/testthat/test-ordinal-fit.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-outer-grid-dump.R | 70 tulpa-0.5.0/tulpa/tests/testthat/test-outer-grid-edge-mass.R |only tulpa-0.5.0/tulpa/tests/testthat/test-outer-k-budget.R |only tulpa-0.5.0/tulpa/tests/testthat/test-outer-k-tail-one-resolution.R |only tulpa-0.5.0/tulpa/tests/testthat/test-outer-proposal-lever.R |only tulpa-0.5.0/tulpa/tests/testthat/test-outer-skew-rescue.R | 53 tulpa-0.5.0/tulpa/tests/testthat/test-outer-thread-clamp-report.R |only tulpa-0.5.0/tulpa/tests/testthat/test-parallel-equivalence.R | 119 tulpa-0.5.0/tulpa/tests/testthat/test-pc-prior.R | 24 tulpa-0.5.0/tulpa/tests/testthat/test-pg-beta-draw-cov.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-pg-gibbs-thin.R | 15 tulpa-0.5.0/tulpa/tests/testthat/test-pg-icar-conditional.R | 25 tulpa-0.5.0/tulpa/tests/testthat/test-pg-nngp-conditional.R | 24 tulpa-0.5.0/tulpa/tests/testthat/test-pg-spatial-recovery.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-phi-conditioned-announced.R |only tulpa-0.5.0/tulpa/tests/testthat/test-phi-grid-placement.R |only tulpa-0.5.0/tulpa/tests/testthat/test-phi2-dispersion.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-plot-diagnostics.R |only tulpa-0.5.0/tulpa/tests/testthat/test-plot-map.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-posterior-draws-joint.R | 67 tulpa-0.5.0/tulpa/tests/testthat/test-posterior-predict-phi-axis.R |only tulpa-0.5.0/tulpa/tests/testthat/test-posterior-predict.R | 39 tulpa-0.5.0/tulpa/tests/testthat/test-predict-zi.R |only tulpa-0.5.0/tulpa/tests/testthat/test-priorsense.R | 85 tulpa-0.5.0/tulpa/tests/testthat/test-progress-control-keys.R |only tulpa-0.5.0/tulpa/tests/testthat/test-progress-eta.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-progress-threads.R | 55 tulpa-0.5.0/tulpa/tests/testthat/test-prune-steep-grid.R |only tulpa-0.5.0/tulpa/tests/testthat/test-psis-cpp.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-psis.R | 74 tulpa-0.5.0/tulpa/tests/testthat/test-ranef-subspace-debias.R | 63 tulpa-0.5.0/tulpa/tests/testthat/test-rational-spde.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-re-aghq-multiarm.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-re-cov-gibbs.R | 17 tulpa-0.5.0/tulpa/tests/testthat/test-re-cov-nested.R | 17 tulpa-0.5.0/tulpa/tests/testthat/test-re-cov-prior.R | 34 tulpa-0.5.0/tulpa/tests/testthat/test-recenter-pilot.R |only tulpa-0.5.0/tulpa/tests/testthat/test-recenter-sd-clamp.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-rsr-continuous.R |only tulpa-0.5.0/tulpa/tests/testthat/test-sample-glmm-structure.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-sample-glmm.R | 8 tulpa-0.5.0/tulpa/tests/testthat/test-sampler-mass-matrix.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-sbc-crps.R | 7 tulpa-0.5.0/tulpa/tests/testthat/test-sbc-frontdoor.R | 30 tulpa-0.5.0/tulpa/tests/testthat/test-screen-depth.R |only tulpa-0.5.0/tulpa/tests/testthat/test-selected-inversion.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-settings.R | 161 tulpa-0.5.0/tulpa/tests/testthat/test-sobol.R | 9 tulpa-0.5.0/tulpa/tests/testthat/test-sparse-cholesky.R | 78 tulpa-0.5.0/tulpa/tests/testthat/test-spatial-field.R | 24 tulpa-0.5.0/tulpa/tests/testthat/test-spatial-mcar.R | 22 tulpa-0.5.0/tulpa/tests/testthat/test-spatial-spde-api.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-spde-ccd.R | 64 tulpa-0.5.0/tulpa/tests/testthat/test-spde-fractional-var-norm.R |only tulpa-0.5.0/tulpa/tests/testthat/test-spde-kriging.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-spde-nu-general.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-spde-re-integrated.R |only tulpa-0.5.0/tulpa/tests/testthat/test-spde-re.R | 22 tulpa-0.5.0/tulpa/tests/testthat/test-st-ar1-gp-density.R |only tulpa-0.5.0/tulpa/tests/testthat/test-st-hsgp-prior.R |only tulpa-0.5.0/tulpa/tests/testthat/test-st-nested.R | 72 tulpa-0.5.0/tulpa/tests/testthat/test-subspace-debias.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-svc-noncentered-amplitude.R | 124 tulpa-0.5.0/tulpa/tests/testthat/test-svc-nuts-frontdoor.R | 72 tulpa-0.5.0/tulpa/tests/testthat/test-svc-parameterization-equivalence.R |only tulpa-0.5.0/tulpa/tests/testthat/test-temporal-ar1-rho-prior.R | 52 tulpa-0.5.0/tulpa/tests/testthat/test-temporal-ar2.R | 28 tulpa-0.5.0/tulpa/tests/testthat/test-temporal-field.R | 18 tulpa-0.5.0/tulpa/tests/testthat/test-temporal-frontdoor.R | 6 tulpa-0.5.0/tulpa/tests/testthat/test-temporal-gp-parameterization.R | 43 tulpa-0.5.0/tulpa/tests/testthat/test-temporal-gp-period-units.R |only tulpa-0.5.0/tulpa/tests/testthat/test-temporal-grad-equiv.R | 1 tulpa-0.5.0/tulpa/tests/testthat/test-truncated-gaussian.R | 5 tulpa-0.5.0/tulpa/tests/testthat/test-tulpa-entry-nested.R | 15 tulpa-0.5.0/tulpa/tests/testthat/test-tulpa-entry.R | 12 tulpa-0.5.0/tulpa/tests/testthat/test-tulpa-re-cov-frontdoor.R | 2 tulpa-0.5.0/tulpa/tests/testthat/test-tulpa-rpg.R |only tulpa-0.5.0/tulpa/tests/testthat/test-tulpa-spatial-frontdoor.R | 22 tulpa-0.5.0/tulpa/tests/testthat/test-tulpa-spatial-gp-frontdoor.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-tvc-gp.R |only tulpa-0.5.0/tulpa/tests/testthat/test-tvc-level-identification.R |only tulpa-0.5.0/tulpa/tests/testthat/test-tweedie.R | 53 tulpa-0.5.0/tulpa/tests/testthat/test-varying-coef-accessors.R | 65 tulpa-0.5.0/tulpa/tests/testthat/test-vi-stopping-rule.R |only tulpa-0.5.0/tulpa/tests/testthat/test-warm-start.R | 4 tulpa-0.5.0/tulpa/tests/testthat/test-within-cell-box-uniform.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-zi-fit.R | 3 tulpa-0.5.0/tulpa/tests/testthat/test-zi-random-effects.R | 5 tulpa-0.5.0/tulpa/vignettes/inference-modes.Rmd | 1115 +-- tulpa-0.5.0/tulpa/vignettes/model-comparison.Rmd | 18 tulpa-0.5.0/tulpa/vignettes/priors.Rmd | 1318 +-- tulpa-0.5.0/tulpa/vignettes/quickstart.Rmd | 1607 ++-- tulpa-0.5.0/tulpa/vignettes/reliability-pareto-k.Rmd | 17 tulpa-0.5.0/tulpa/vignettes/sbc.Rmd | 11 tulpa-0.5.0/tulpa/vignettes/spatial-models.Rmd | 32 tulpa-0.5.0/tulpa/vignettes/temporal-models.Rmd | 43 tulpa-0.5.0/tulpa/vignettes/tgmrf.Rmd | 15 598 files changed, 32227 insertions(+), 12490 deletions(-)
Title: Develop Clinical Prediction Models Using the Common Data Model
Description: A user friendly way to create patient level prediction models using
the Observational Medical Outcomes Partnership Common Data Model. Given a cohort
of interest and an outcome of interest, the package can use data in the Common
Data Model to build a large set of features. These features can then be used to
fit a predictive model with a number of machine learning algorithms. This is
further described in Reps (2017) <doi:10.1093/jamia/ocy032>.
Author: Egill Fridgeirsson [aut, cre],
Jenna Reps [aut],
Martijn Schuemie [aut],
Marc Suchard [aut],
Patrick Ryan [aut],
Peter Rijnbeek [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Egill Fridgeirsson <e.fridgeirsson@erasmusmc.nl>
Diff between PatientLevelPrediction versions 6.6.0 dated 2026-03-09 and 6.7.0 dated 2026-09-21
PatientLevelPrediction-6.6.0/PatientLevelPrediction/vignettes/maintainers |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/DESCRIPTION | 31 PatientLevelPrediction-6.7.0/PatientLevelPrediction/MD5 | 170 + PatientLevelPrediction-6.7.0/PatientLevelPrediction/NAMESPACE | 3 PatientLevelPrediction-6.7.0/PatientLevelPrediction/NEWS.md | 34 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/AndromedaHelperFunctions.R | 72 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/CovariateSummary.R | 19 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/CyclopsModels.R | 390 ++++ PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/CyclopsSettings.R | 178 +- PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/DataSplitting.R | 332 +++ PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/DiagnosePlp.R | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/EvaluatePlp.R | 3 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/ExtractData.R | 13 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/FeatureEngineering.R | 54 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/HelperFunctions.R | 43 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/HyperparameterSettings.R | 33 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/Imputation.R | 35 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/LearningCurve.R | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/ParamChecks.R | 21 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/Predict.R | 21 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/RunPlp.R | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/SaveLoadPlp.R | 15 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/Simulation.R | 839 +++++++++ PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/SklearnToJson.R | 56 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/uploadToDatabase.R | 65 PatientLevelPrediction-6.7.0/PatientLevelPrediction/R/uploadToDatabaseModelDesign.R | 86 PatientLevelPrediction-6.7.0/PatientLevelPrediction/README.md | 11 PatientLevelPrediction-6.7.0/PatientLevelPrediction/build/partial.rdb |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/build/vignette.rds |binary PatientLevelPrediction-6.7.0/PatientLevelPrediction/data/simulationProfile.rda |binary PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomFeatureEngineering.html | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomModels.Rmd | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomModels.html | 13 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomSamples.Rmd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomSamples.html | 9 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomSplitting.Rmd | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/AddingCustomSplitting.html | 20 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BenchmarkTasks.html | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BestPractices.html | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BuildingMultiplePredictiveModels.Rmd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BuildingMultiplePredictiveModels.html | 22 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BuildingPredictiveModels.R | 10 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BuildingPredictiveModels.Rmd | 22 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/BuildingPredictiveModels.html | 123 - PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/ClinicalModels.html | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/ConstrainedPredictors.html | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/CreatingLearningCurves.html | 15 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/CreatingNetworkStudies.Rmd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/CreatingNetworkStudies.html | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/GISExample.html | 11 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/InstallationGuide.R | 12 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/InstallationGuide.Rmd | 40 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/doc/InstallationGuide.html | 55 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/settings/resultsDataModelSpecification.csv | 1 PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/sql/postgresql/migrations/Migration_3-add_model_name.sql |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/sql/sql_server/migrations/Migration_3-add_model_name.sql |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/inst/sql/sqlite/migrations/Migration_3-add_model_name.sql |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/configurePython.Rd | 14 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/createHyperparameterSettings.Rd | 8 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/createLearningCurve.Rd | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/createNormalizer.Rd | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/createOutcomeLimitedSplitSettings.Rd |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/diagnosePlp.Rd | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/iterativeImpute.Rd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/runPlp.Rd | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/setBrokenAdaptiveRidge.Rd |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/setPythonEnvironment.Rd | 14 PatientLevelPrediction-6.7.0/PatientLevelPrediction/man/simulatePlpBenchmarkData.Rd |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/setup.R | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-LightGBM.R | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-UploadToDatabase.R | 170 + PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-UploadToDatabaseModelDesign.R | 125 + PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-andromedahelperfunctions.R | 7 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-barFitState.R |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-cyclopsModels.R | 437 ++++ PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-dataSplitting.R | 169 + PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-evaluation.R | 19 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-helperfunctions.R | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-hyperparameterSettings.R | 47 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-normalizers.R | 13 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-paramchecks.R | 23 PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-resultsDataModelSpecification.R |only PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-simulation.R | 888 +++++++++- PatientLevelPrediction-6.7.0/PatientLevelPrediction/tests/testthat/test-sklearnJson.R | 87 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/AddingCustomModels.Rmd | 4 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/AddingCustomSamples.Rmd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/AddingCustomSplitting.Rmd | 6 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/BuildingMultiplePredictiveModels.Rmd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/BuildingPredictiveModels.Rmd | 22 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/CreatingNetworkStudies.Rmd | 2 PatientLevelPrediction-6.7.0/PatientLevelPrediction/vignettes/InstallationGuide.Rmd | 40 91 files changed, 4291 insertions(+), 795 deletions(-)
More information about PatientLevelPrediction at CRAN
Permanent link
Title: Multilevel Descriptive Statistics and Data Preparation
Description: Provides tools for multilevel descriptive statistics and data preparation.
Computes within-group and between-group correlations (via variance decomposition or
two-level structural equation modeling), intraclass correlation coefficients (ICCs),
and descriptive statistics for nested data (e.g., repeated measurements per person),
supporting both frequentist (via 'lme4' or 'lavaan') and Bayesian (via 'brms')
estimation. Results are formatted according to APA standards and can be exported as
tables using 'gt' or 'tinytable'. Also includes functions for decomposing variables
into within-group and between-group components for use in Random Effects
Within-Between (REWB) models.
Author: Felix Dietrich [aut, cre, cph]
Maintainer: Felix Dietrich <mail@felix-dietrich.de>
Diff between mlstats versions 0.1.1 dated 2026-07-15 and 0.1.2 dated 2026-09-21
DESCRIPTION | 6 MD5 | 59 - NEWS.md | 13 R/media_diary.R | 19 R/mldesc.R | 3 R/mlstats_desc_tibble.R | 13 R/mlstats_wb_tibble.R | 9 R/utils.R | 44 R/within_between_correlations.R | 1 README.md | 16 data/media_diary.rda |binary inst/doc/correlation-methods.Rmd | 9 inst/doc/correlation-methods.html | 20 inst/doc/mlstats.Rmd | 9 inst/doc/mlstats.html | 329 +++--- inst/doc/multilevel-descriptives.Rmd | 5 inst/doc/multilevel-descriptives.html | 60 - inst/doc/rewb-models.Rmd | 24 inst/doc/rewb-models.html | 164 +-- inst/doc/tables.R | 7 inst/doc/tables.Rmd | 14 inst/doc/tables.html | 1079 +++++++++++----------- man/media_diary.Rd | 19 tests/testthat/test-media_diary.R |only tests/testthat/test-mldesc.R | 67 + tests/testthat/test-within_between_correlations.R | 61 + vignettes/correlation-methods.Rmd | 9 vignettes/mlstats.Rmd | 9 vignettes/multilevel-descriptives.Rmd | 5 vignettes/rewb-models.Rmd | 24 vignettes/tables.Rmd | 14 31 files changed, 1216 insertions(+), 895 deletions(-)
Title: Tidy Pipelines for the 'Sensor Tower' API
Description: Retrieves mobile app intelligence from the 'Sensor Tower' API
<https://app.sensortower.com/api/docs/app_analysis>. Composes discovery,
metadata, rankings, sales, audience and specialist estimates through
ordinary data frames with explicit identifiers, units and error handling.
Author: Phillip Black [aut, cre]
Maintainer: Phillip Black <pblack@gameeconomistconsulting.com>
Diff between sensortowerR versions 1.0.1 dated 2026-05-14 and 2.0.0 dated 2026-09-21
sensortowerR-1.0.1/sensortowerR/R/app_id_validation.R |only sensortowerR-1.0.1/sensortowerR/R/column_helpers.R |only sensortowerR-1.0.1/sensortowerR/R/constants.R |only sensortowerR-1.0.1/sensortowerR/R/custom_filter_utils.R |only sensortowerR-1.0.1/sensortowerR/R/data_validation.R |only sensortowerR-1.0.1/sensortowerR/R/defunct.R |only sensortowerR-1.0.1/sensortowerR/R/example_data.R |only sensortowerR-1.0.1/sensortowerR/R/formatting_helpers.R |only sensortowerR-1.0.1/sensortowerR/R/globals.R |only sensortowerR-1.0.1/sensortowerR/R/revenue_standardization.R |only sensortowerR-1.0.1/sensortowerR/R/st_active_users.R |only sensortowerR-1.0.1/sensortowerR/R/st_api_diagnostics.R |only sensortowerR-1.0.1/sensortowerR/R/st_app.R |only sensortowerR-1.0.1/sensortowerR/R/st_app_details.R |only sensortowerR-1.0.1/sensortowerR/R/st_app_enriched.R |only sensortowerR-1.0.1/sensortowerR/R/st_app_info.R |only sensortowerR-1.0.1/sensortowerR/R/st_app_lookup.R |only sensortowerR-1.0.1/sensortowerR/R/st_app_tag.R |only sensortowerR-1.0.1/sensortowerR/R/st_batch_app_lookup.R |only sensortowerR-1.0.1/sensortowerR/R/st_batch_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/st_categories.R |only sensortowerR-1.0.1/sensortowerR/R/st_category_rankings.R |only sensortowerR-1.0.1/sensortowerR/R/st_custom_fields.R |only sensortowerR-1.0.1/sensortowerR/R/st_custom_fields_utils.R |only sensortowerR-1.0.1/sensortowerR/R/st_custom_fields_workflow.R |only sensortowerR-1.0.1/sensortowerR/R/st_demographics.R |only sensortowerR-1.0.1/sensortowerR/R/st_facets_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/st_filter.R |only sensortowerR-1.0.1/sensortowerR/R/st_filter_helpers.R |only sensortowerR-1.0.1/sensortowerR/R/st_game_summary.R |only sensortowerR-1.0.1/sensortowerR/R/st_get_unified_mapping.R |only sensortowerR-1.0.1/sensortowerR/R/st_gt_dashboard.R |only sensortowerR-1.0.1/sensortowerR/R/st_id_cache.R |only sensortowerR-1.0.1/sensortowerR/R/st_market_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/st_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/st_publisher_apps.R |only sensortowerR-1.0.1/sensortowerR/R/st_publisher_portfolio.R |only sensortowerR-1.0.1/sensortowerR/R/st_rankings.R |only sensortowerR-1.0.1/sensortowerR/R/st_ratings_review_facets.R |only sensortowerR-1.0.1/sensortowerR/R/st_resolve_ids.R |only sensortowerR-1.0.1/sensortowerR/R/st_retention.R |only sensortowerR-1.0.1/sensortowerR/R/st_retention_facets.R |only sensortowerR-1.0.1/sensortowerR/R/st_sales_report.R |only sensortowerR-1.0.1/sensortowerR/R/st_session_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/st_smart_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/st_top_charts.R |only sensortowerR-1.0.1/sensortowerR/R/st_top_publishers.R |only sensortowerR-1.0.1/sensortowerR/R/st_unified_sales_report.R |only sensortowerR-1.0.1/sensortowerR/R/st_url_parser.R |only sensortowerR-1.0.1/sensortowerR/R/st_yoy_metrics.R |only sensortowerR-1.0.1/sensortowerR/R/utils.R |only sensortowerR-1.0.1/sensortowerR/R/zzz.R |only sensortowerR-1.0.1/sensortowerR/inst/cache |only sensortowerR-1.0.1/sensortowerR/inst/doc/custom-fields.Rmd |only sensortowerR-1.0.1/sensortowerR/inst/doc/custom-fields.html |only sensortowerR-1.0.1/sensortowerR/inst/doc/migrating-to-1.0.Rmd |only sensortowerR-1.0.1/sensortowerR/inst/doc/migrating-to-1.0.html |only sensortowerR-1.0.1/sensortowerR/inst/doc/tidy-active-users.Rmd |only sensortowerR-1.0.1/sensortowerR/inst/doc/tidy-active-users.html |only sensortowerR-1.0.1/sensortowerR/inst/docs |only sensortowerR-1.0.1/sensortowerR/inst/examples |only sensortowerR-1.0.1/sensortowerR/inst/scripts |only sensortowerR-1.0.1/sensortowerR/man/METRIC_MAPPING.Rd |only sensortowerR-1.0.1/sensortowerR/man/NUMERIC_METRIC_PATTERNS.Rd |only sensortowerR-1.0.1/sensortowerR/man/add_custom_filter_params.Rd |only sensortowerR-1.0.1/sensortowerR/man/calculate_yoy_growth.Rd |only sensortowerR-1.0.1/sensortowerR/man/create_custom_filter_example.Rd |only sensortowerR-1.0.1/sensortowerR/man/custom_filter_utils.Rd |only sensortowerR-1.0.1/sensortowerR/man/example_sensortower_data.Rd |only sensortowerR-1.0.1/sensortowerR/man/extract_custom_filter_params.Rd |only sensortowerR-1.0.1/sensortowerR/man/fetch_data_core.Rd |only sensortowerR-1.0.1/sensortowerR/man/fetch_unified_data.Rd |only sensortowerR-1.0.1/sensortowerR/man/filter_helpers.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_arpu.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_currency.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_downloads.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_large_number.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_market_share.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_percent.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_retention.Rd |only sensortowerR-1.0.1/sensortowerR/man/format_users.Rd |only sensortowerR-1.0.1/sensortowerR/man/formatting_helpers.Rd |only sensortowerR-1.0.1/sensortowerR/man/get_custom_filter_docs.Rd |only sensortowerR-1.0.1/sensortowerR/man/id_cache.Rd |only sensortowerR-1.0.1/sensortowerR/man/lookup_category_names.Rd |only sensortowerR-1.0.1/sensortowerR/man/map_game_summary_fields.Rd |only sensortowerR-1.0.1/sensortowerR/man/process_app_details_response.Rd |only sensortowerR-1.0.1/sensortowerR/man/process_game_summary_response.Rd |only sensortowerR-1.0.1/sensortowerR/man/process_ranking_response.Rd |only sensortowerR-1.0.1/sensortowerR/man/sensortowerR-defunct.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_active_users.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_analyze_filter.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_api_diagnostics.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_app_enriched.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_app_tag.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_batch_app_lookup.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_build_filter_url.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_build_web_url.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_clear_app_cache.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_clear_id_cache.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_custom_fields.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_custom_fields_utils.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_custom_fields_values.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_custom_fields_workflow.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_discover_fields.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_extract_filter_id.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_extract_url_params.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_facets_metrics.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_game_summary.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_get_app_names.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_get_filter_collection.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_get_filtered_apps.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_get_unified_mapping.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_gt_dashboard.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_is_valid_filter_id.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_parse_web_url.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_publisher_portfolio.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_ratings_facets.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_retention_facets.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_reviews_by_rating_facets.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_session_metrics.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_test_filter.Rd |only sensortowerR-1.0.1/sensortowerR/man/st_yoy_metrics.Rd |only sensortowerR-1.0.1/sensortowerR/man/standardize_revenue_units.Rd |only sensortowerR-1.0.1/sensortowerR/man/validate_custom_filter_params.Rd |only sensortowerR-1.0.1/sensortowerR/tests/testthat/helper-api-mocks.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/helper-auth.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-active-users-wrapper.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-api-helpers.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-cross-platform.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-custom-tags-processing.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-defunct.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-enrichment.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-id-cache.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-live-smoke.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-os-parameter.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-rhub-cran-checks.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-sensortowerR.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_batch_metrics_ids.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_filter.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_game_summary.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_market_metrics.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_metrics.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_rankings.R |only sensortowerR-1.0.1/sensortowerR/tests/testthat/test-st_yoy_metrics.R |only sensortowerR-1.0.1/sensortowerR/vignettes/custom-fields.Rmd |only sensortowerR-1.0.1/sensortowerR/vignettes/migrating-to-1.0.Rmd |only sensortowerR-1.0.1/sensortowerR/vignettes/tidy-active-users.Rmd |only sensortowerR-2.0.0/sensortowerR/DESCRIPTION | 42 - sensortowerR-2.0.0/sensortowerR/MD5 | 226 +------- sensortowerR-2.0.0/sensortowerR/NAMESPACE | 154 ----- sensortowerR-2.0.0/sensortowerR/NEWS.md |only sensortowerR-2.0.0/sensortowerR/R/core.R |only sensortowerR-2.0.0/sensortowerR/R/discovery.R |only sensortowerR-2.0.0/sensortowerR/R/filters.R |only sensortowerR-2.0.0/sensortowerR/R/metrics.R |only sensortowerR-2.0.0/sensortowerR/R/rankings.R |only sensortowerR-2.0.0/sensortowerR/R/request.R |only sensortowerR-2.0.0/sensortowerR/R/specialists.R |only sensortowerR-2.0.0/sensortowerR/R/utilities.R |only sensortowerR-2.0.0/sensortowerR/README.md | 281 ++-------- sensortowerR-2.0.0/sensortowerR/build/vignette.rds |binary sensortowerR-2.0.0/sensortowerR/inst/doc/pipelines.R |only sensortowerR-2.0.0/sensortowerR/inst/doc/pipelines.Rmd |only sensortowerR-2.0.0/sensortowerR/inst/doc/pipelines.html |only sensortowerR-2.0.0/sensortowerR/inst/doc/recipes.R |only sensortowerR-2.0.0/sensortowerR/inst/doc/recipes.Rmd |only sensortowerR-2.0.0/sensortowerR/inst/doc/recipes.html |only sensortowerR-2.0.0/sensortowerR/inst/recipes |only sensortowerR-2.0.0/sensortowerR/man/st_app.Rd | 48 - sensortowerR-2.0.0/sensortowerR/man/st_app_tags.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_apps.Rd | 37 - sensortowerR-2.0.0/sensortowerR/man/st_cache_info.Rd | 12 sensortowerR-2.0.0/sensortowerR/man/st_categories.Rd | 33 - sensortowerR-2.0.0/sensortowerR/man/st_charts.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_demographics.Rd | 103 --- sensortowerR-2.0.0/sensortowerR/man/st_diagnostics.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_facets.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_fields.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_filter.Rd | 86 --- sensortowerR-2.0.0/sensortowerR/man/st_filter_read.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_market_metrics.Rd | 66 -- sensortowerR-2.0.0/sensortowerR/man/st_metrics.Rd | 106 +-- sensortowerR-2.0.0/sensortowerR/man/st_parse_url.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_publisher_apps.Rd | 88 --- sensortowerR-2.0.0/sensortowerR/man/st_rankings.Rd | 70 +- sensortowerR-2.0.0/sensortowerR/man/st_ratings.Rd |only sensortowerR-2.0.0/sensortowerR/man/st_retention.Rd | 111 --- sensortowerR-2.0.0/sensortowerR/man/st_sessions.Rd |only sensortowerR-2.0.0/sensortowerR/tests/testthat.R | 7 sensortowerR-2.0.0/sensortowerR/tests/testthat/helper-fixtures.R |only sensortowerR-2.0.0/sensortowerR/tests/testthat/test-metrics.R |only sensortowerR-2.0.0/sensortowerR/tests/testthat/test-pipelines.R |only sensortowerR-2.0.0/sensortowerR/tests/testthat/test-recipes.R |only sensortowerR-2.0.0/sensortowerR/tests/testthat/test-requests-filters.R |only sensortowerR-2.0.0/sensortowerR/tests/testthat/test-specialists.R |only sensortowerR-2.0.0/sensortowerR/vignettes/pipelines.Rmd |only sensortowerR-2.0.0/sensortowerR/vignettes/recipes.Rmd |only 198 files changed, 390 insertions(+), 1080 deletions(-)
Title: Reproducible Data Capsules with Provenance and Fallback
Description: Tools for building brick-proof, reproducible, self-contained data
capsules. Resolves open-data sources through the Comprehensive Knowledge
Archive Network ('CKAN', <https://ckan.org/>) package_show and
package_search endpoints, records and verifies provenance with Secure
Hash Algorithm 256 ('SHA-256') digests and Internet Archive 'Wayback
Machine' (<https://web.archive.org/>) snapshots, validates downloaded
data against a pinned schema, and falls back to schema-driven synthetic
data when the real source is unreachable. Run records are captured in a
manifest plus a plain-language summary so any result can be traced back
to its inputs. Distributional drift between a pinned capsule and a fresh
fetch is tested with Kolmogorov-Smirnov, chi-square, population
stability index, Jensen-Shannon divergence and 'Benford' first-digit
screens, because a re-released extract can be statistically identical
yet differ byte-for-byte, and a column can keep its name and type while
having been s [...truncated...]
Author: Vansh Singh Ruhela [aut, cre]
Maintainer: Vansh Singh Ruhela <vsruhela@proton.me>
Diff between rmoriebricklayer versions 0.5.0 dated 2026-09-16 and 0.5.1 dated 2026-09-21
DESCRIPTION | 83 ++++++------- MD5 | 156 ++++++++++++++++-------- NAMESPACE | 28 ++++ NEWS.md | 204 ++++++++++++++++++++++++++++++++ R/aaa_input_guards.R |only R/aaa_local_seed.R |only R/analyse_table.R |only R/areal.R | 21 ++- R/bands.R | 3 R/capsule_template.R |only R/categorical_guard.R |only R/concentration.R | 9 + R/core.R | 16 +- R/core_stats.R | 70 +++++++--- R/crypto_extra.R | 9 + R/custody.R | 8 + R/digest_extra.R | 14 +- R/drift.R | 10 - R/eda.R | 1 R/falsify.R | 2 R/json_gzip.R | 8 + R/json_native.R | 38 +++++ R/lib_capsule.R | 5 R/lib_data_loader.R | 19 ++ R/lib_helpers.R | 24 +++ R/lib_manifest.R | 15 ++ R/lib_synthetic.R | 29 +++- R/power.R | 2 R/print_methods.R | 46 ++++++- R/published_bounds.R |only R/rate.R | 2 R/repro.R | 4 R/revocation.R | 1 R/rule_lib.R | 7 + R/scan_adjust.R |only R/sign.R | 1 R/sketch.R | 19 ++ R/trend.R | 18 +- R/yoy_labels.R | 6 README.md | 31 ++++ build/vignette.rds |binary inst/doc/capsules.html | 2 inst/doc/categorical-integrity.R |only inst/doc/categorical-integrity.Rmd |only inst/doc/categorical-integrity.html |only inst/doc/getting-started.R |only inst/doc/getting-started.Rmd |only inst/doc/getting-started.html |only inst/doc/provenance.html | 10 - inst/doc/tables.html | 18 +- inst/doc/yoy.html | 37 +++-- inst/extdata/otis_a01_individuals.csv |only inst/include/rmoriebricklayer.h | 8 + inst/scripts/setup_and_run.R | 58 ++++++++- man/analyse_table.Rd |only man/audit_categories.Rd |only man/bricklayer_json_to_json.Rd | 4 man/change_envelope.Rd |only man/core_bootstrap_mean.Rd | 3 man/decode_codes.Rd |only man/decode_labelled.Rd |only man/drift_calibrate.Rd |only man/guard_binary.Rd |only man/guard_levels.Rd |only man/guard_recode.Rd |only man/odds_ratio_check.Rd |only man/published_bounds.Rd |only man/recode_manifest.Rd |only man/relabel.Rd |only man/relabel_forensics.Rd |only man/report_analysis.Rd |only man/scan_adjust.Rd |only man/sir.Rd | 3 man/transfer_verify.Rd |only man/use_capsule_template.Rd |only man/verify_marginals.Rd |only man/verify_recode.Rd |only man/write_recode_manifest.Rd |only man/yoy_bounds.Rd |only man/yoy_pvalues.Rd |only src/Makevars | 18 ++ src/Makevars.win | 18 ++ src/init.c | 6 src/morie_core.h | 65 ++++++++-- src/rmbl_core.cpp | 11 + src/rmbl_digest.cpp | 4 src/rmbl_mlkem_core.h | 7 - src/rmbl_series.cpp | 24 +++ src/rmbl_sketch.cpp | 5 src/rmbl_stats.cpp | 51 ++++---- tests/testthat/test-analyse-table.R |only tests/testthat/test-areal.R | 4 tests/testthat/test-bundle-fallbacks.R |only tests/testthat/test-capsule-template.R |only tests/testthat/test-categorical-guard.R |only tests/testthat/test-core-overflow.R |only tests/testthat/test-helper-paths.R | 2 tests/testthat/test-input-contracts.R |only tests/testthat/test-local-seed.R |only tests/testthat/test-trend-scale.R |only tests/testthat/test-ubsan-paths.R |only vignettes/categorical-integrity.Rmd |only vignettes/getting-started.Rmd |only 103 files changed, 1014 insertions(+), 253 deletions(-)
More information about rmoriebricklayer at CRAN
Permanent link
Title: Linkage Map Construction using the MSTmap Algorithm
Description: Functions for Accurate and Speedy linkage map construction, manipulation and diagnosis of Doubled Haploid, Backcross and Recombinant Inbred 'R/qtl' objects. This includes extremely fast linkage map clustering and optimal marker ordering using 'MSTmap' (see Wu et al.,2008).
Author: Julian Taylor [aut, cre],
David Butler. [aut]
Maintainer: Julian Taylor <julian.taylor@adelaide.edu.au>
This is a re-admission after prior archival of version 1.0-8 dated 2024-11-01
Diff between ASMap versions 1.0-8 dated 2024-11-01 and 1.1-0 dated 2026-09-21
ASMap-1.0-8/ASMap/vignettes/asmapvignette-concordance.tex |only ASMap-1.1-0/ASMap/DESCRIPTION | 6 - ASMap-1.1-0/ASMap/MD5 | 15 +- ASMap-1.1-0/ASMap/build/vignette.rds |binary ASMap-1.1-0/ASMap/inst/NEWS.Rd | 20 +++ ASMap-1.1-0/ASMap/inst/doc/asmapvignette.R | 78 +++++++------- ASMap-1.1-0/ASMap/inst/doc/asmapvignette.Rnw | 6 - ASMap-1.1-0/ASMap/inst/doc/asmapvignette.pdf |binary ASMap-1.1-0/ASMap/vignettes/asmapvignette.Rnw | 6 - 9 files changed, 75 insertions(+), 56 deletions(-)
Title: Power Calculation for Stepped Wedge Designs
Description: Tools for power and sample size
calculation as well as design diagnostics for
longitudinal mixed model settings, with a focus on stepped wedge designs.
All calculations are oracle estimates i.e. assume random effect variances
to be known (or guessed) in advance.
The method is introduced in Hussey and Hughes (2007) <doi:10.1016/j.cct.2006.05.007>,
extensions are discussed in Li et al. (2020) <doi:10.1177/0962280220932962>.
Author: Philipp Mildenberger [aut, cre] ,
Federico Marini [ctb]
Maintainer: Philipp Mildenberger <pmildenb@uni-mainz.de>
Diff between SteppedPower versions 0.3.5 dated 2024-04-29 and 0.4.0 dated 2026-09-21
SteppedPower-0.3.5/SteppedPower/tests/testthat/test_CovMat.R |only SteppedPower-0.3.5/SteppedPower/tests/testthat/test_DesMat.R |only SteppedPower-0.4.0/SteppedPower/DESCRIPTION | 17 SteppedPower-0.4.0/SteppedPower/LICENSE | 4 SteppedPower-0.4.0/SteppedPower/MD5 | 104 SteppedPower-0.4.0/SteppedPower/NAMESPACE | 100 SteppedPower-0.4.0/SteppedPower/NEWS.md | 137 SteppedPower-0.4.0/SteppedPower/R/InformationContent.R | 66 SteppedPower-0.4.0/SteppedPower/R/SteppedPower_PACKAGE.R | 40 SteppedPower-0.4.0/SteppedPower/R/closed_formulae.R | 250 SteppedPower-0.4.0/SteppedPower/R/construct_CovMat.R | 588 SteppedPower-0.4.0/SteppedPower/R/construct_DesMat.R | 804 - SteppedPower-0.4.0/SteppedPower/R/helper_functions.R | 643 - SteppedPower-0.4.0/SteppedPower/R/wlsPower.R | 1989 +-- SteppedPower-0.4.0/SteppedPower/README.md | 105 SteppedPower-0.4.0/SteppedPower/build/vignette.rds |binary SteppedPower-0.4.0/SteppedPower/inst/doc/Binomial_and_Count_Outcomes.R |only SteppedPower-0.4.0/SteppedPower/inst/doc/Binomial_and_Count_Outcomes.Rmd |only SteppedPower-0.4.0/SteppedPower/inst/doc/Binomial_and_Count_Outcomes.html |only SteppedPower-0.4.0/SteppedPower/inst/doc/Getting_Started.R | 359 SteppedPower-0.4.0/SteppedPower/inst/doc/Getting_Started.Rmd | 1200 - SteppedPower-0.4.0/SteppedPower/inst/doc/Getting_Started.html | 6375 ++++------ SteppedPower-0.4.0/SteppedPower/inst/doc/Incomplete_Designs.R | 95 SteppedPower-0.4.0/SteppedPower/inst/doc/Incomplete_Designs.Rmd | 100 SteppedPower-0.4.0/SteppedPower/inst/doc/Incomplete_Designs.html | 3177 +++- SteppedPower-0.4.0/SteppedPower/inst/vignettes |only SteppedPower-0.4.0/SteppedPower/man/RandEff_to_alpha012.Rd | 78 SteppedPower-0.4.0/SteppedPower/man/RandEff_to_icc.Rd |only SteppedPower-0.4.0/SteppedPower/man/SteppedPower-pkg.Rd | 32 SteppedPower-0.4.0/SteppedPower/man/VarClosed_Kasza.Rd | 114 SteppedPower-0.4.0/SteppedPower/man/VarClosed_Li.Rd | 72 SteppedPower-0.4.0/SteppedPower/man/alpha012_to_RandEff.Rd | 87 SteppedPower-0.4.0/SteppedPower/man/compute_InfoContent.Rd | 60 SteppedPower-0.4.0/SteppedPower/man/compute_glsPower.Rd | 176 SteppedPower-0.4.0/SteppedPower/man/construct_CovBlk.Rd | 90 SteppedPower-0.4.0/SteppedPower/man/construct_CovMat.Rd | 18 SteppedPower-0.4.0/SteppedPower/man/construct_CovSubMat.Rd | 130 SteppedPower-0.4.0/SteppedPower/man/construct_DesMat.Rd | 178 SteppedPower-0.4.0/SteppedPower/man/construct_incompMat.Rd | 66 SteppedPower-0.4.0/SteppedPower/man/construct_timeAdjust.Rd | 78 SteppedPower-0.4.0/SteppedPower/man/construct_trtMat.Rd | 74 SteppedPower-0.4.0/SteppedPower/man/glsPower.Rd | 549 SteppedPower-0.4.0/SteppedPower/man/icc_to_RandEff.Rd |only SteppedPower-0.4.0/SteppedPower/man/plot.DesMat.Rd | 56 SteppedPower-0.4.0/SteppedPower/man/plot.glsPower.Rd | 84 SteppedPower-0.4.0/SteppedPower/man/plot_CellWeights.Rd | 62 SteppedPower-0.4.0/SteppedPower/man/plot_CovMat.Rd | 38 SteppedPower-0.4.0/SteppedPower/man/plot_InfoContent.Rd | 62 SteppedPower-0.4.0/SteppedPower/man/print.DesMat.Rd | 38 SteppedPower-0.4.0/SteppedPower/man/print.glsPower.Rd | 40 SteppedPower-0.4.0/SteppedPower/man/tTestPwr.Rd | 58 SteppedPower-0.4.0/SteppedPower/tests/testthat.R | 8 SteppedPower-0.4.0/SteppedPower/tests/testthat/test_compute_glsPower.R |only SteppedPower-0.4.0/SteppedPower/tests/testthat/test_construct_CovMat.R |only SteppedPower-0.4.0/SteppedPower/tests/testthat/test_construct_DesMat.R |only SteppedPower-0.4.0/SteppedPower/vignettes/Binomial_and_Count_Outcomes.Rmd |only SteppedPower-0.4.0/SteppedPower/vignettes/Getting_Started.Rmd | 1200 - SteppedPower-0.4.0/SteppedPower/vignettes/Incomplete_Designs.Rmd | 100 SteppedPower-0.4.0/SteppedPower/vignettes/references.bib | 590 59 files changed, 11199 insertions(+), 9092 deletions(-)
Title: Simulation and Data Analysis for Plant Breeders
Description: Provides tools for simulation of plant breeding programs
as described, for example, by Melchinger and Frisch
(2023) <doi:10.1007/s00122-023-04446-3>, prediction of
segregation variance (Osthushenrich, Frisch and Herzog
(2017) <doi:10.1371/journal.pone.0188839>), genomic
prediction (Hofheinz and Frisch (2014)
<doi:10.1534/g3.113.010025>), linkage disequilibrium
based haplotype construction, and planning of marker
assisted back crossing programs. It provides an integrated
framework for simulation and analysis of plant breeding
programs.
Author: Matthias Frisch [aut, cre],
Hans Peter Maurer [ctb],
Philipp Heilmann [ctb]
Maintainer: Matthias Frisch <matthias.frisch@uni-giessen.de>
Diff between SelectionTools versions 26.3 dated 2026-09-15 and 26.4 dated 2026-09-21
SelectionTools-26.3/SelectionTools/man/st.simple.ggt.plot.Rd |only SelectionTools-26.4/SelectionTools/DESCRIPTION | 12 SelectionTools-26.4/SelectionTools/MD5 | 150 SelectionTools-26.4/SelectionTools/NAMESPACE | 3 SelectionTools-26.4/SelectionTools/R/SelectionTools01.R | 415 +- SelectionTools-26.4/SelectionTools/R/SelectionTools02.R | 17 SelectionTools-26.4/SelectionTools/R/SelectionTools03.R | 499 --- SelectionTools-26.4/SelectionTools/R/SelectionTools04.R | 1603 ++------- SelectionTools-26.4/SelectionTools/R/SelectionTools05.R |only SelectionTools-26.4/SelectionTools/build/partial.rdb |only SelectionTools-26.4/SelectionTools/build/vignette.rds |binary SelectionTools-26.4/SelectionTools/inst/doc/v-cross.R |only SelectionTools-26.4/SelectionTools/inst/doc/v-cross.Rnw |only SelectionTools-26.4/SelectionTools/inst/doc/v-cross.pdf |only SelectionTools-26.4/SelectionTools/inst/doc/v-hapld.R |only SelectionTools-26.4/SelectionTools/inst/doc/v-hapld.Rnw |only SelectionTools-26.4/SelectionTools/inst/doc/v-hapld.pdf |only SelectionTools-26.4/SelectionTools/inst/doc/v-phase.R |only SelectionTools-26.4/SelectionTools/inst/doc/v-phase.Rnw |only SelectionTools-26.4/SelectionTools/inst/doc/v-phase.pdf |only SelectionTools-26.4/SelectionTools/inst/doc/v-simbp.R | 8 SelectionTools-26.4/SelectionTools/inst/doc/v-simbp.Rnw | 512 --- SelectionTools-26.4/SelectionTools/inst/doc/v-simbp.pdf |binary SelectionTools-26.4/SelectionTools/inst/doc/v-simmd.Rmd | 2 SelectionTools-26.4/SelectionTools/inst/doc/v-simmd.pdf |binary SelectionTools-26.4/SelectionTools/man/cross.Rd | 12 SelectionTools-26.4/SelectionTools/man/define.effects.Rd | 16 SelectionTools-26.4/SelectionTools/man/define.map.Rd | 38 SelectionTools-26.4/SelectionTools/man/dh.Rd | 2 SelectionTools-26.4/SelectionTools/man/get.population.size.Rd | 17 SelectionTools-26.4/SelectionTools/man/gs.cross.eval.es.Rd | 87 SelectionTools-26.4/SelectionTools/man/gs.cross.eval.gd.Rd | 38 SelectionTools-26.4/SelectionTools/man/gs.cross.eval.ma.Rd | 39 SelectionTools-26.4/SelectionTools/man/gs.cross.eval.mi.Rd | 39 SelectionTools-26.4/SelectionTools/man/gs.cross.eval.mu.Rd | 39 SelectionTools-26.4/SelectionTools/man/gs.cross.eval.va.Rd | 54 SelectionTools-26.4/SelectionTools/man/gs.cross.info.Rd | 11 SelectionTools-26.4/SelectionTools/man/gs.esteff.rr.Rd | 65 SelectionTools-26.4/SelectionTools/man/gs.plot.model.fit.Rd | 35 SelectionTools-26.4/SelectionTools/man/load.linkage.map.Rd | 16 SelectionTools-26.4/SelectionTools/man/mab.load.data.Rd | 25 SelectionTools-26.4/SelectionTools/man/mab.simulate.Rd | 41 SelectionTools-26.4/SelectionTools/man/population.concat.Rd | 16 SelectionTools-26.4/SelectionTools/man/read.vcf.Rd |only SelectionTools-26.4/SelectionTools/man/show.phase.Rd |only SelectionTools-26.4/SelectionTools/man/st.calc.ld.Rd | 108 SelectionTools-26.4/SelectionTools/man/st.dataframe.to.STvcf.Rd | 27 SelectionTools-26.4/SelectionTools/man/st.def.hblocks.Rd | 88 SelectionTools-26.4/SelectionTools/man/st.destroy.phase.Rd |only SelectionTools-26.4/SelectionTools/man/st.marker.data.statistics.Rd | 28 SelectionTools-26.4/SelectionTools/man/st.phase.Rd |only SelectionTools-26.4/SelectionTools/man/st.plot.gene.diversity.Rd | 10 SelectionTools-26.4/SelectionTools/man/st.plot.ggt.Rd | 148 SelectionTools-26.4/SelectionTools/man/st.plot.ggt.src.Rd | 66 SelectionTools-26.4/SelectionTools/man/st.recode.hil.Rd | 53 SelectionTools-26.4/SelectionTools/man/st.recode.ref.Rd | 55 SelectionTools-26.4/SelectionTools/man/st.return.performance.data.Rd | 7 SelectionTools-26.4/SelectionTools/man/st.select.phen.Rd | 33 SelectionTools-26.4/SelectionTools/man/st.set.simpop.Rd | 46 SelectionTools-26.4/SelectionTools/man/st.switch.error.Rd |only SelectionTools-26.4/SelectionTools/man/st.write.marker.data.Rd | 21 SelectionTools-26.4/SelectionTools/man/st_mixed.Rd | 22 SelectionTools-26.4/SelectionTools/man/write.vcf.Rd |only SelectionTools-26.4/SelectionTools/src/SelectionTools01.c | 1627 +++++++++- SelectionTools-26.4/SelectionTools/src/SelectionTools02.c | 19 SelectionTools-26.4/SelectionTools/src/SelectionTools03.c |only SelectionTools-26.4/SelectionTools/src/init.c |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-01.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-02.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-03.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-04a.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-04b.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-05a.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-05b.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-06.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-101.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-102.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-103.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-104.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-105.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-106.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-107.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-108.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-109.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-crs-07-110.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig01.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig03.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig05.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig06.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig07.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig08.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig09.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-hapLD-fig10.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/ex-vis1a-01.pdf |only SelectionTools-26.4/SelectionTools/vignettes/figures/f2-after-phasing.png |only SelectionTools-26.4/SelectionTools/vignettes/figures/f2-before-phasing.png |only SelectionTools-26.4/SelectionTools/vignettes/figures/f2-phased-haplotype-blocks.png |only SelectionTools-26.4/SelectionTools/vignettes/figures/f2-true-phase.png |only SelectionTools-26.4/SelectionTools/vignettes/v-cross.Rnw |only SelectionTools-26.4/SelectionTools/vignettes/v-hapld.Rnw |only SelectionTools-26.4/SelectionTools/vignettes/v-phase.Rnw |only SelectionTools-26.4/SelectionTools/vignettes/v-simbp.Rnw | 512 --- SelectionTools-26.4/SelectionTools/vignettes/v-simmd.Rmd | 2 103 files changed, 3751 insertions(+), 2932 deletions(-)
More information about SelectionTools at CRAN
Permanent link
Title: Construction of Screening Designs for Mixed Level Continuous and
Categorical Factors
Description: Constructs screening designs for experiments involving
continuous and categorical factors with multiple levels. The package
implements methods for constructing mixed-level screening designs,
involving factors with more than two levels. It also evaluates the
statistical performance of screening designs throughdev power to identify
active effects and Type I error rates.
The package implements three methods proposed by Jones, B.,
Lekivetz, R., Majumdar, D. and Nachtsheim, C. (2025)
<doi:10.1080/00401706.2024.2362149> for generating efficient
screening designs involving three-level continuous and two-level
categorical factors for even run sizes.
It also includes Paley Type I and Type II constructions for conference matrices
and pseudo conference matrices obtained using the coordinate exchange algorithm by Jones, B. and Nachtsheim, C. J. (2011)
<doi:10.1080/00224065.2011.11917841> which are used
in the development of these screening designs.
Author: Vyshna I C [aut, cre],
Cini Varghese [aut, ctb],
Safeela Nasrin [aut],
Boyina Devi Priyanka [aut, ctb],
Mohd Harun [aut, ctb],
Anindita Datta [aut, ctb]
Maintainer: Vyshna I C <vyshnaic@gmail.com>
Diff between SCCDdesign versions 0.1.0 dated 2026-09-03 and 0.2.0 dated 2026-09-21
DESCRIPTION | 26 +++++++++++++++----------- MD5 | 14 ++++++++++++-- NAMESPACE | 6 ++++++ R/even_even_design.R |only R/even_odd_design.R |only R/mixed_level_design.R |only R/odd_odd_design.R |only R/simulation.R |only man/even_even_design.Rd |only man/mixed_level_design.Rd |only man/odd_even_design.Rd |only man/odd_odd_design.Rd |only man/simulation.Rd |only 13 files changed, 33 insertions(+), 13 deletions(-)
Title: Download and Read Brazilian Meteorological Data from INMET
Description: Automates the download and processing of historical weather
data from the Brazilian National Institute of Meteorology (INMET).
It provides a cached catalogue of automatic stations, resumable and
validated downloads, and parsers for formatting inconsistencies in raw
CSV files across different years. It removes structural artifacts,
standardizes column names, parses timestamps, and returns data frames ready
for analysis. Data are retrieved from
<https://portal.inmet.gov.br/dadoshistoricos> and
<https://apitempo.inmet.gov.br/estacoes/T>.
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between rmet versions 0.1.0 dated 2026-04-21 and 0.2.0 dated 2026-09-21
DESCRIPTION | 22 - MD5 | 51 +-- NAMESPACE | 17 - NEWS.md | 45 ++ R/download.R | 216 +++++++------ R/get.R |only R/read.R | 634 ++++++++++++++++++++++------------------- R/stations.R | 291 +++++++++++++++--- R/utils.R | 191 ++++++++---- README.md | 121 +++++-- inst/CITATION |only inst/WORDLIST | 4 inst/doc/rmet-intro.R | 12 inst/doc/rmet-intro.Rmd | 42 +- inst/doc/rmet-intro.html | 75 +++- man/inmet_cache_clear.Rd | 16 - man/inmet_cache_status.Rd | 17 - man/inmet_download.Rd | 44 -- man/inmet_extract.Rd | 18 - man/inmet_get.Rd |only man/inmet_read.Rd | 55 +-- man/inmet_stations.Rd | 82 ++--- man/rmet-package.Rd | 24 - tests/testthat/test-download.R | 184 +++++++++++ tests/testthat/test-read.R | 209 ++++++++++++- tests/testthat/test-stations.R | 218 +++++++++++++- tests/testthat/test-utils.R | 106 ++++++ vignettes/rmet-intro.Rmd | 42 +- 28 files changed, 1922 insertions(+), 814 deletions(-)
Title: Utility Functions Around 'JDemetra+ 3.0'
Description: R Interface to 'JDemetra+ 3.x'
(<https://github.com/jdemetra>) time series analysis software. It
provides functions allowing to model time series (create outlier
regressors, user-defined calendar regressors, Unobserved Components
AutoRegressive Integrated Moving Average (UCARIMA) models...), to test
the presence of trading days or seasonal effects and also to set
specifications in pre-adjustment and benchmarking when using 'rjd3x13'
or 'rjd3tramoseats'.
Author: Jean Palate [aut],
Alain Quartier-la-Tente [aut] ,
Tanguy Barthelemy [aut, cre, art, cph],
Anna Smyk [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3toolkit versions 3.8.0 dated 2026-07-08 and 3.9.0 dated 2026-09-21
rjd3toolkit-3.8.0/rjd3toolkit/R/modellingcontext.R |only rjd3toolkit-3.8.0/rjd3toolkit/R/protos.R |only rjd3toolkit-3.8.0/rjd3toolkit/inst/java/jdplus-sa-base-protobuf-3.8.0.jar |only rjd3toolkit-3.8.0/rjd3toolkit/inst/java/jdplus-sa-base-r-3.8.0.jar |only rjd3toolkit-3.8.0/rjd3toolkit/inst/java/jdplus-toolkit-base-protobuf-3.8.0.jar |only rjd3toolkit-3.8.0/rjd3toolkit/inst/java/jdplus-toolkit-base-r-3.8.0.jar |only rjd3toolkit-3.8.0/rjd3toolkit/man/sa_preprocessing.Rd |only rjd3toolkit-3.9.0/rjd3toolkit/DESCRIPTION | 22 rjd3toolkit-3.9.0/rjd3toolkit/MD5 | 323 rjd3toolkit-3.9.0/rjd3toolkit/NAMESPACE | 736 - rjd3toolkit-3.9.0/rjd3toolkit/NEWS.md | 295 rjd3toolkit-3.9.0/rjd3toolkit/R/arima.R | 1380 +-- rjd3toolkit-3.9.0/rjd3toolkit/R/calendars.R | 2271 +++-- rjd3toolkit-3.9.0/rjd3toolkit/R/calendarts.R | 76 rjd3toolkit-3.9.0/rjd3toolkit/R/data.R | 195 rjd3toolkit-3.9.0/rjd3toolkit/R/decomposition.R | 316 rjd3toolkit-3.9.0/rjd3toolkit/R/deprecated.R | 37 rjd3toolkit-3.9.0/rjd3toolkit/R/dictionary.R | 156 rjd3toolkit-3.9.0/rjd3toolkit/R/differencing.R | 481 - rjd3toolkit-3.9.0/rjd3toolkit/R/display.R | 1146 +- rjd3toolkit-3.9.0/rjd3toolkit/R/distributions.R | 574 - rjd3toolkit-3.9.0/rjd3toolkit/R/generics.R | 154 rjd3toolkit-3.9.0/rjd3toolkit/R/jd2r.R | 492 - rjd3toolkit-3.9.0/rjd3toolkit/R/jd3rslts.R | 506 - rjd3toolkit-3.9.0/rjd3toolkit/R/modelling_context.R |only rjd3toolkit-3.9.0/rjd3toolkit/R/options.R |only rjd3toolkit-3.9.0/rjd3toolkit/R/procresults.R | 233 rjd3toolkit-3.9.0/rjd3toolkit/R/protobuf.R | 1423 +-- rjd3toolkit-3.9.0/rjd3toolkit/R/regarima_generic.R | 207 rjd3toolkit-3.9.0/rjd3toolkit/R/regarima_rslts.R | 95 rjd3toolkit-3.9.0/rjd3toolkit/R/rjd3toolkit-package.R | 12 rjd3toolkit-3.9.0/rjd3toolkit/R/spec_benchmarking.R | 202 rjd3toolkit-3.9.0/rjd3toolkit/R/spec_regarima.R | 4082 +++++----- rjd3toolkit-3.9.0/rjd3toolkit/R/splines.R | 295 rjd3toolkit-3.9.0/rjd3toolkit/R/tests_regular.R | 614 - rjd3toolkit-3.9.0/rjd3toolkit/R/tests_seasonality.R | 658 - rjd3toolkit-3.9.0/rjd3toolkit/R/tests_td.R | 267 rjd3toolkit-3.9.0/rjd3toolkit/R/timeseries.R | 1038 +- rjd3toolkit-3.9.0/rjd3toolkit/R/utils.R | 201 rjd3toolkit-3.9.0/rjd3toolkit/R/variables.R | 1215 +- rjd3toolkit-3.9.0/rjd3toolkit/R/zzz.R | 158 rjd3toolkit-3.9.0/rjd3toolkit/README.md | 142 rjd3toolkit-3.9.0/rjd3toolkit/inst/WORDLIST | 200 rjd3toolkit-3.9.0/rjd3toolkit/inst/java/jdplus-sa-base-protobuf-3.9.0.jar |only rjd3toolkit-3.9.0/rjd3toolkit/inst/java/jdplus-sa-base-r-3.9.0.jar |only rjd3toolkit-3.9.0/rjd3toolkit/inst/java/jdplus-toolkit-base-protobuf-3.9.0.jar |only rjd3toolkit-3.9.0/rjd3toolkit/inst/java/jdplus-toolkit-base-r-3.9.0.jar |only rjd3toolkit-3.9.0/rjd3toolkit/inst/proto/modelling.proto | 370 rjd3toolkit-3.9.0/rjd3toolkit/inst/proto/outliers.proto | 62 rjd3toolkit-3.9.0/rjd3toolkit/inst/proto/regarima.proto | 92 rjd3toolkit-3.9.0/rjd3toolkit/inst/proto/sa.proto | 216 rjd3toolkit-3.9.0/rjd3toolkit/inst/proto/toolkit.proto | 846 +- rjd3toolkit-3.9.0/rjd3toolkit/java/README | 12 rjd3toolkit-3.9.0/rjd3toolkit/man/ABS.Rd | 44 rjd3toolkit-3.9.0/rjd3toolkit/man/Births.Rd | 78 rjd3toolkit-3.9.0/rjd3toolkit/man/Electricity.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/Exports.Rd | 44 rjd3toolkit-3.9.0/rjd3toolkit/man/Imports.Rd | 44 rjd3toolkit-3.9.0/rjd3toolkit/man/Retail.Rd | 44 rjd3toolkit-3.9.0/rjd3toolkit/man/add_outlier.Rd | 146 rjd3toolkit-3.9.0/rjd3toolkit/man/add_usrdefvar.Rd | 233 rjd3toolkit-3.9.0/rjd3toolkit/man/aggregate.Rd | 82 rjd3toolkit-3.9.0/rjd3toolkit/man/arima_difference.Rd | 62 rjd3toolkit-3.9.0/rjd3toolkit/man/arima_model.Rd | 60 rjd3toolkit-3.9.0/rjd3toolkit/man/arima_properties.Rd | 60 rjd3toolkit-3.9.0/rjd3toolkit/man/arima_sum.Rd | 66 rjd3toolkit-3.9.0/rjd3toolkit/man/autocorrelations.Rd | 86 rjd3toolkit-3.9.0/rjd3toolkit/man/bsplines.Rd | 56 rjd3toolkit-3.9.0/rjd3toolkit/man/calendar_td.Rd | 181 rjd3toolkit-3.9.0/rjd3toolkit/man/chained_calendar.Rd | 76 rjd3toolkit-3.9.0/rjd3toolkit/man/chi2distribution.Rd | 90 rjd3toolkit-3.9.0/rjd3toolkit/man/clean_extremities.Rd | 48 rjd3toolkit-3.9.0/rjd3toolkit/man/compare_annual_totals.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/complete_modelling_context.Rd |only rjd3toolkit-3.9.0/rjd3toolkit/man/data_to_ts.Rd | 50 rjd3toolkit-3.9.0/rjd3toolkit/man/daysOf.Rd | 49 rjd3toolkit-3.9.0/rjd3toolkit/man/deprecated-rjd3toolkit.Rd | 43 rjd3toolkit-3.9.0/rjd3toolkit/man/diagnostics.Rd | 46 rjd3toolkit-3.9.0/rjd3toolkit/man/dictionary.Rd | 62 rjd3toolkit-3.9.0/rjd3toolkit/man/differences.Rd | 52 rjd3toolkit-3.9.0/rjd3toolkit/man/differencing_fast.Rd | 82 rjd3toolkit-3.9.0/rjd3toolkit/man/do_stationary.Rd | 71 rjd3toolkit-3.9.0/rjd3toolkit/man/dot-add_ud_var.Rd | 50 rjd3toolkit-3.9.0/rjd3toolkit/man/dot-likelihood.Rd | 112 rjd3toolkit-3.9.0/rjd3toolkit/man/dot-tsmoniker.Rd | 58 rjd3toolkit-3.9.0/rjd3toolkit/man/easter_dates.Rd | 68 rjd3toolkit-3.9.0/rjd3toolkit/man/easter_day.Rd | 86 rjd3toolkit-3.9.0/rjd3toolkit/man/easter_variable.Rd | 114 rjd3toolkit-3.9.0/rjd3toolkit/man/figures/logo.svg | 1448 +-- rjd3toolkit-3.9.0/rjd3toolkit/man/fixed_day.Rd | 82 rjd3toolkit-3.9.0/rjd3toolkit/man/fixed_week_day.Rd | 82 rjd3toolkit-3.9.0/rjd3toolkit/man/gammadistribution.Rd | 90 rjd3toolkit-3.9.0/rjd3toolkit/man/get_toolkit_option.Rd | 42 rjd3toolkit-3.9.0/rjd3toolkit/man/holidays.Rd | 158 rjd3toolkit-3.9.0/rjd3toolkit/man/intervention_variable.Rd | 192 rjd3toolkit-3.9.0/rjd3toolkit/man/invgammadistribution.Rd | 90 rjd3toolkit-3.9.0/rjd3toolkit/man/invgaussiandistribution.Rd | 76 rjd3toolkit-3.9.0/rjd3toolkit/man/jd3_print.Rd | 100 rjd3toolkit-3.9.0/rjd3toolkit/man/jd3_utilities.Rd | 725 - rjd3toolkit-3.9.0/rjd3toolkit/man/ljungbox.Rd | 72 rjd3toolkit-3.9.0/rjd3toolkit/man/long_term_mean.Rd | 128 rjd3toolkit-3.9.0/rjd3toolkit/man/lp_variable.Rd | 96 rjd3toolkit-3.9.0/rjd3toolkit/man/mad.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/modelling_context.Rd | 100 rjd3toolkit-3.9.0/rjd3toolkit/man/monotonic_cspline.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/national_calendar.Rd | 106 rjd3toolkit-3.9.0/rjd3toolkit/man/natural_cspline.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/normality_tests.Rd | 128 rjd3toolkit-3.9.0/rjd3toolkit/man/outliers_variables.Rd | 148 rjd3toolkit-3.9.0/rjd3toolkit/man/periodic_bsplines.Rd | 60 rjd3toolkit-3.9.0/rjd3toolkit/man/periodic_cspline.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/periodic_csplines.Rd | 50 rjd3toolkit-3.9.0/rjd3toolkit/man/periodic_dummies.Rd | 84 rjd3toolkit-3.9.0/rjd3toolkit/man/print_calendars.Rd | 82 rjd3toolkit-3.9.0/rjd3toolkit/man/r2jd_calendarts.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/ramp_variable.Rd | 94 rjd3toolkit-3.9.0/rjd3toolkit/man/rangemean_tstat.Rd | 138 rjd3toolkit-3.9.0/rjd3toolkit/man/rjd3toolkit-package.Rd | 68 rjd3toolkit-3.9.0/rjd3toolkit/man/runstests.Rd | 96 rjd3toolkit-3.9.0/rjd3toolkit/man/sa_decomposition.Rd | 128 rjd3toolkit-3.9.0/rjd3toolkit/man/sarima_decompose.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/sarima_estimate.Rd | 112 rjd3toolkit-3.9.0/rjd3toolkit/man/sarima_hannan_rissanen.Rd | 90 rjd3toolkit-3.9.0/rjd3toolkit/man/sarima_model.Rd | 98 rjd3toolkit-3.9.0/rjd3toolkit/man/sarima_properties.Rd | 54 rjd3toolkit-3.9.0/rjd3toolkit/man/sarima_random.Rd | 72 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_canovahansen.Rd | 88 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_canovahansen_trigs.Rd | 84 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_combined.Rd | 80 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_f.Rd | 68 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_friedman.Rd | 66 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_kruskalwallis.Rd | 66 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_modified_qs.Rd | 70 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_periodogram.Rd | 66 rjd3toolkit-3.9.0/rjd3toolkit/man/seasonality_qs.Rd | 66 rjd3toolkit-3.9.0/rjd3toolkit/man/set_arima.Rd | 178 rjd3toolkit-3.9.0/rjd3toolkit/man/set_automodel.Rd | 290 rjd3toolkit-3.9.0/rjd3toolkit/man/set_basic.Rd | 216 rjd3toolkit-3.9.0/rjd3toolkit/man/set_benchmarking.Rd | 156 rjd3toolkit-3.9.0/rjd3toolkit/man/set_easter.Rd | 188 rjd3toolkit-3.9.0/rjd3toolkit/man/set_estimate.Rd | 174 rjd3toolkit-3.9.0/rjd3toolkit/man/set_outlier.Rd | 234 rjd3toolkit-3.9.0/rjd3toolkit/man/set_tradingdays.Rd | 436 - rjd3toolkit-3.9.0/rjd3toolkit/man/set_transform.Rd | 124 rjd3toolkit-3.9.0/rjd3toolkit/man/single_day.Rd | 62 rjd3toolkit-3.9.0/rjd3toolkit/man/special_day.Rd | 140 rjd3toolkit-3.9.0/rjd3toolkit/man/statisticaltest.Rd | 82 rjd3toolkit-3.9.0/rjd3toolkit/man/stock_td.Rd | 86 rjd3toolkit-3.9.0/rjd3toolkit/man/studentdistribution.Rd | 86 rjd3toolkit-3.9.0/rjd3toolkit/man/td.Rd | 140 rjd3toolkit-3.9.0/rjd3toolkit/man/td_canovahansen.Rd | 70 rjd3toolkit-3.9.0/rjd3toolkit/man/td_f.Rd | 138 rjd3toolkit-3.9.0/rjd3toolkit/man/td_timevarying.Rd | 58 rjd3toolkit-3.9.0/rjd3toolkit/man/to_ts.Rd | 70 rjd3toolkit-3.9.0/rjd3toolkit/man/to_tscollection.Rd | 77 rjd3toolkit-3.9.0/rjd3toolkit/man/toolkit_option.Rd | 41 rjd3toolkit-3.9.0/rjd3toolkit/man/tramoseats_spec_default.Rd | 51 rjd3toolkit-3.9.0/rjd3toolkit/man/trigonometric_variables.Rd | 146 rjd3toolkit-3.9.0/rjd3toolkit/man/ts_adjust.Rd | 60 rjd3toolkit-3.9.0/rjd3toolkit/man/ts_interpolate.Rd | 56 rjd3toolkit-3.9.0/rjd3toolkit/man/tsdata_of.Rd | 62 rjd3toolkit-3.9.0/rjd3toolkit/man/ucarima_canonical.Rd | 62 rjd3toolkit-3.9.0/rjd3toolkit/man/ucarima_estimate.Rd | 68 rjd3toolkit-3.9.0/rjd3toolkit/man/ucarima_model.Rd | 70 rjd3toolkit-3.9.0/rjd3toolkit/man/ucarima_wk.Rd | 72 rjd3toolkit-3.9.0/rjd3toolkit/man/weighted_calendar.Rd | 90 rjd3toolkit-3.9.0/rjd3toolkit/man/x13_spec_default.Rd | 50 rjd3toolkit-3.9.0/rjd3toolkit/tests |only 168 files changed, 18126 insertions(+), 16125 deletions(-)
Title: Noncompartmental Analysis for Pharmacokinetic Data
Description: Conduct a noncompartmental analysis with industrial strength.
Some features are
1) Use of CDISC SDTM terms
2) Automatic or manual slope selection
3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method
4) Interval(partial) AUCs with 'linear' or 'log' interpolation method
5) Steady-state analysis over the dosing interval (AUCTAU, CAVG, CL and Vz from AUCTAU)
6) Installation/Operational Qualification (IQ/OQ) reports in pdf.
After installation, qualify the package in your own environment:
run IQNCA() for Installation Qualification and OQNCA() for Operational
Qualification. Run writeMD5NCA() once after installation so the IQ
file-integrity check passes. To approve a report, sign it digitally in
Adobe Acrobat Reader (generate with sigField=TRUE, or run
addSigFieldNCA(), to add click-to-sign fields), instead of printing and
scanning; or use signPDFNCA()/verifyPDFNCA() for a scriptable signature.
* Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data [...truncated...]
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between NonCompart versions 0.8.3 dated 2026-08-21 and 0.8.4 dated 2026-09-21
DESCRIPTION | 11 MD5 | 26 R/OQNCA.R | 37 + R/Unit.R | 269 ++++---- R/sNCA.R | 551 +++++++++-------- R/tblNCA.R | 162 ++-- inst/NEWS.Rd | 12 inst/OQ/Reference_Analytic_SS_Extravascular_Linear.csv |only inst/OQ/RptCfg.csv | 2 inst/extdoc/NCA-Formula.pdf |binary man/OQNCA.Rd | 13 man/sNCA.Rd | 35 - man/tblNCA.Rd | 40 - tests/RptCfg.csv | 100 +-- tests/Test-SS.R |only 15 files changed, 715 insertions(+), 543 deletions(-)
Title: Tool for Statistical and Environmental Analysis
Description: Provides a set of accessible and automated functions to apply
statistical models such as Simple Linear Regression (RLS, from the Spanish
'Regresión Lineal Simple'), Multiple Linear Regression (RLM, from the Spanish
'Regresión Lineal Múltiple'), Generalized Linear Models (GLM), and time
series analysis through Autoregressive Integrated Moving Average (ARIMA)
models. Designed to support teaching at the Universidad Autónoma Chapingo,
it facilitates results interpretation and assumption validation through
automatic graphical diagnostics. Developed as part of an undergraduate
thesis at the Universidad Autónoma Chapingo, under the supervision of
Dr. Julio César Buendía Espinoza (thesis advisor), with the participation
of the thesis committee: Diego Ernesto Lira González (secretary), Israel
Lerma Serna (member), Juan Uriel Avelar Roblero (alternate), and Elisa del
Carmen Martínez Ochoa (alternate). Methods for regression and time series
are based on Montgomery et al. (2021, ISBN:978-111957014 [...truncated...]
Author: Dayron Jared Bazan Guzman [aut, cre],
Julio Cesar Buendia Espinoza [aut, ths] ,
Diego Ernesto Lira Gonzalez [ctb] ,
Israel Lerma Serna [ctb] ,
Juan Uriel Avelar Roblero [ctb] ,
Elisa del Carmen Martinez Ochoa [ctb]
Maintainer: Dayron Jared Bazan Guzman <dbazanguzman@gmail.com>
Diff between GREENREG versions 0.1.0 dated 2026-05-29 and 0.1.1 dated 2026-09-21
GREENREG-0.1.0/GREENREG/R/Analisis_datos.R |only GREENREG-0.1.0/GREENREG/R/Regresion_lineal_multiple.R |only GREENREG-0.1.0/GREENREG/R/Regresion_lineal_simple.R |only GREENREG-0.1.0/GREENREG/R/Regresion_logistica.R |only GREENREG-0.1.0/GREENREG/R/Regresion_poisson.R |only GREENREG-0.1.1/GREENREG/DESCRIPTION | 52 +++++++++++-- GREENREG-0.1.1/GREENREG/MD5 | 38 +++++----- GREENREG-0.1.1/GREENREG/NAMESPACE | 1 GREENREG-0.1.1/GREENREG/R/analisis_datos.R |only GREENREG-0.1.1/GREENREG/R/globals.R | 2 GREENREG-0.1.1/GREENREG/R/modelo_ar.R |only GREENREG-0.1.1/GREENREG/R/modelo_arima.R |only GREENREG-0.1.1/GREENREG/R/modelo_arma.R |only GREENREG-0.1.1/GREENREG/R/modelo_ma.R |only GREENREG-0.1.1/GREENREG/R/regresion_lineal_multiple.R |only GREENREG-0.1.1/GREENREG/R/regresion_lineal_simple.R |only GREENREG-0.1.1/GREENREG/R/regresion_logistica.R |only GREENREG-0.1.1/GREENREG/R/regresion_poisson.R |only GREENREG-0.1.1/GREENREG/man/analisis_datos.Rd | 2 GREENREG-0.1.1/GREENREG/man/logistico.Rd | 2 GREENREG-0.1.1/GREENREG/man/modelo_ar.Rd | 63 ++++++++++++++++ GREENREG-0.1.1/GREENREG/man/modelo_arima.Rd | 68 +++++++++++++++++- GREENREG-0.1.1/GREENREG/man/modelo_arma.Rd | 63 ++++++++++++++++ GREENREG-0.1.1/GREENREG/man/modelo_ma.Rd | 62 +++++++++++++++- GREENREG-0.1.1/GREENREG/man/reg_poisson.Rd | 2 GREENREG-0.1.1/GREENREG/man/rlm.Rd | 2 GREENREG-0.1.1/GREENREG/man/rls.Rd | 2 27 files changed, 318 insertions(+), 41 deletions(-)
Title: Objective Bayesian Distribution Fitting
Description: Fits common univariate distributions using registered objective
Bayesian priors, including Jeffreys, reference, and maximal data information
priors, and supports user-defined distributions and priors through an
extensible model specification. Model-specific posterior propriety and
moment conditions are checked before computation when registered or supplied.
Exact simulation, marginalization, slice sampling, adaptive Metropolis, and
user-supplied posterior samplers share a common interface for summaries,
diagnostics, prediction, and pointwise log-likelihood evaluation.
A separate interface fits independently right-censored observations using
the registered complete-data priors, observed-data likelihood sampling or
data augmentation, with sufficient posterior-propriety checks. Optional
post-processing provides WAIC, PSIS-LOO, and DIC for observed-data likelihoods.
The reference-prior framework follows Bernardo (1979)
<doi:10.1111/j.2517-6161.1979.tb01066.x>.
Author: Pedro Luiz Ramos [aut, cre, cph]
Maintainer: Pedro Luiz Ramos <pedro.ramos@uc.cl>
Diff between fitdistrBayes versions 0.2.3 dated 2026-09-09 and 0.5.0 dated 2026-09-21
DESCRIPTION | 16 ++++--- MD5 | 30 ++++++++++--- NAMESPACE | 20 +++++++++ NEWS.md | 42 +++++++++++++++++++ R/criteria.R |only R/fitcensBayes-methods.R |only R/fitcensBayes.R |only R/fitdistrBayes.R | 71 +++++++++++++++++++++++++++++---- README.md | 73 +++++++++++++++++++++++++++++++++- inst/examples/tutorial_criteria.R |only inst/examples/tutorial_fitcensBayes.R |only man/criteria.Rd |only man/fitcensBayes-methods.Rd |only man/fitcensBayes.Rd |only man/fitcensBayes_models.Rd |only man/fitdistrBayes-methods.Rd | 4 + man/fitdistrBayes.Rd | 26 +++++++++--- man/fitdistrBayes_model.Rd | 17 +++++-- tests/censored-helpers.R |only tests/tests_audit_regressions.R |only tests/tests_censored_contracts.R |only tests/tests_censored_sampling.R |only tests/tests_criteria.R |only 23 files changed, 264 insertions(+), 35 deletions(-)
Title: Fast Functional Generalized Estimating Equations via a One-Step
Estimator
Description: Fits functional generalized estimating equations for longitudinal
functional outcomes and covariates using a one-step estimator that is fast
even for large cluster sizes or large numbers of clusters. The package
supports quasi-likelihoods derived from a range of distributions, with
substantial simulations run for quasi-likelihoods derived from Gaussian,
binomial, Poisson, negative binomial, Gamma and beta families. It supports
common link functions and several working correlation structures. An optimized engine
constructs cluster score and sensitivity statistics in one pass, provides
coefficient-space Gaussian cross-validation, analytic-gradient fast cluster
cross-validation, and an experimental sandwich-scaled working restricted
quasi-likelihood selector. Internal compiled routines provide symmetric
positive-definite Cholesky solves and exact tridiagonal precision operations
for irregularly sampled continuous-time AR(1) working correlations.
Uncertainty quantification is based on sand [...truncated...]
Author: Gabriel Loewinger [aut, cre]
Maintainer: Gabriel Loewinger <gloewinger@gmail.com>
Diff between fastFGEE versions 0.2.0 dated 2026-09-15 and 0.2.2 dated 2026-09-21
DESCRIPTION | 6 MD5 | 21 R/RcppExports.R | 4 R/corr_gram.R |only R/working_stats.R | 43 inst/doc/fastFGEE.R | 342 ++--- inst/doc/fastFGEE.Rmd | 923 +++++++-------- inst/doc/fastFGEE.html | 1291 ++++++++++------------ src/RcppExports.cpp | 15 src/corr_gram.cpp |only tests/testthat/test-corr-gram.R |only tests/testthat/test-dependency-and-registration.R | 12 vignettes/fastFGEE.Rmd | 923 +++++++-------- 13 files changed, 1702 insertions(+), 1878 deletions(-)
Title: Client for Delphi's 'Epidata' API
Description: The Delphi 'Epidata' API provides real-time access to
epidemiological surveillance data for influenza, 'COVID-19', and other
diseases for the USA at various geographical resolutions, both from
official government sources such as the Center for Disease Control
(CDC) and Google Trends and private partners such as Facebook and
Change 'Healthcare'. It is built and maintained by the Carnegie Mellon
University Delphi research group. To cite this API: David C. Farrow,
Logan C. Brooks, Aaron 'Rumack', Ryan J. 'Tibshirani', 'Roni'
'Rosenfeld' (2015). Delphi 'Epidata' API.
<https://github.com/cmu-delphi/delphi-epidata>.
Author: Logan Brooks [aut],
Dmitry Shemetov [aut],
Samuel Gratzl [aut],
David Weber [ctb, cre],
Nat DeFries [ctb],
Alex Reinhart [ctb],
Daniel J. McDonald [ctb],
Kean Ming Tan [ctb],
Will Townes [ctb],
George Haff [ctb],
Kathryn Mazaitis [ctb]
Maintainer: David Weber <davidweb@andrew.cmu.edu>
Diff between epidatr versions 1.3.0 dated 2026-08-28 and 1.4.0 dated 2026-09-21
epidatr-1.3.0/epidatr/inst/doc/v5-api-demo.Rmd |only epidatr-1.3.0/epidatr/inst/doc/v5-api-demo.html |only epidatr-1.3.0/epidatr/vignettes/img/epidatr-unnamed-chunk-9-1.png |only epidatr-1.3.0/epidatr/vignettes/v5-api-demo.Rmd |only epidatr-1.4.0/epidatr/DESCRIPTION | 8 epidatr-1.4.0/epidatr/MD5 | 107 epidatr-1.4.0/epidatr/NAMESPACE | 104 epidatr-1.4.0/epidatr/NEWS.md | 46 epidatr-1.4.0/epidatr/R/check.R | 127 epidatr-1.4.0/epidatr/R/endpoints.R | 146 - epidatr-1.4.0/epidatr/R/epidatacall.R | 30 epidatr-1.4.0/epidatr/R/model.R | 14 epidatr-1.4.0/epidatr/R/request.R | 69 epidatr-1.4.0/epidatr/R/utils.R | 9 epidatr-1.4.0/epidatr/README.md | 144 - epidatr-1.4.0/epidatr/build/vignette.rds |binary epidatr-1.4.0/epidatr/inst/doc/epidatr.Rmd | 579 ++-- epidatr-1.4.0/epidatr/inst/doc/epidatr.html | 1294 +++++----- epidatr-1.4.0/epidatr/inst/doc/migration-guide.Rmd | 306 +- epidatr-1.4.0/epidatr/inst/doc/migration-guide.html | 531 ++-- epidatr-1.4.0/epidatr/inst/doc/signal-discovery.Rmd | 912 +++---- epidatr-1.4.0/epidatr/inst/doc/signal-discovery.html | 1151 ++++---- epidatr-1.4.0/epidatr/inst/doc/versioned-data.Rmd | 269 +- epidatr-1.4.0/epidatr/inst/doc/versioned-data.html | 783 +----- epidatr-1.4.0/epidatr/man/assert_limit_param.Rd |only epidatr-1.4.0/epidatr/man/assert_report_time_param.Rd |only epidatr-1.4.0/epidatr/man/cast_api_queries.Rd | 23 epidatr-1.4.0/epidatr/man/covidcast_epidata.Rd | 6 epidatr-1.4.0/epidatr/man/epidata_aux.Rd | 25 epidatr-1.4.0/epidatr/man/epidata_meta.Rd | 6 epidatr-1.4.0/epidatr/man/fetch_args_list.Rd | 10 epidatr-1.4.0/epidatr/man/format_report_time_bound.Rd |only epidatr-1.4.0/epidatr/man/parse_api_datetimetz.Rd |only epidatr-1.4.0/epidatr/man/validate_version_query.Rd | 13 epidatr-1.4.0/epidatr/man/warn_limit_unsupported.Rd |only epidatr-1.4.0/epidatr/tests/testthat/_snaps/epidatacall.md | 10 epidatr-1.4.0/epidatr/tests/testthat/_snaps/fixtures.md | 59 epidatr-1.4.0/epidatr/tests/testthat/fixtures/aux-data.csv | 72 epidatr-1.4.0/epidatr/tests/testthat/fixtures/cast-archive.csv | 234 - epidatr-1.4.0/epidatr/tests/testthat/fixtures/cast-meta.json | 2 epidatr-1.4.0/epidatr/tests/testthat/fixtures/cast-snapshot.csv | 234 - epidatr-1.4.0/epidatr/tests/testthat/helper-endpoints.R | 1 epidatr-1.4.0/epidatr/tests/testthat/helper-fixtures.R | 4 epidatr-1.4.0/epidatr/tests/testthat/helper-live.R | 18 epidatr-1.4.0/epidatr/tests/testthat/helper-mocks.R | 12 epidatr-1.4.0/epidatr/tests/testthat/setup.R | 11 epidatr-1.4.0/epidatr/tests/testthat/test-check.R | 88 epidatr-1.4.0/epidatr/tests/testthat/test-endpoints.R | 194 - epidatr-1.4.0/epidatr/tests/testthat/test-epidatacall.R | 31 epidatr-1.4.0/epidatr/tests/testthat/test-live-cast.R |only epidatr-1.4.0/epidatr/tests/testthat/test-live.R | 125 epidatr-1.4.0/epidatr/tests/testthat/test-model.R | 21 epidatr-1.4.0/epidatr/vignettes/epidatr.Rmd | 579 ++-- epidatr-1.4.0/epidatr/vignettes/img/epidatr-archive-plot-1.png |only epidatr-1.4.0/epidatr/vignettes/img/epidatr-unnamed-chunk-11-1.png |only epidatr-1.4.0/epidatr/vignettes/img/epidatr-unnamed-chunk-12-1.png |only epidatr-1.4.0/epidatr/vignettes/img/epidatr-unnamed-chunk-13-1.png |only epidatr-1.4.0/epidatr/vignettes/img/epidatr-unnamed-chunk-7-1.png |only epidatr-1.4.0/epidatr/vignettes/img/epidatr-unnamed-chunk-8-1.png |binary epidatr-1.4.0/epidatr/vignettes/migration-guide.Rmd | 306 +- epidatr-1.4.0/epidatr/vignettes/signal-discovery.Rmd | 912 +++---- epidatr-1.4.0/epidatr/vignettes/versioned-data.Rmd | 269 +- 62 files changed, 5337 insertions(+), 4557 deletions(-)
Title: Extinction Date Estimation from Sighting Records
Description: Estimates the historic date of extinction of a species from a
time-ordered record of sighting events. Given a table of sighting counts
per year, computes extinction date estimators from the sighting-record
literature: optimal linear estimation and its Weibull extreme-value
persistence test (Roberts & Solow, 2003; Solow, 2005), constant-rate and
declining-rate persistence tests (Solow, 1993), a sighting-rate persistence
test comparable across records with different observation periods
(McInerny, Roberts, Davy & Cribb, 2006), a classical confidence interval
on the end of a temporal range (Strauss & Sadler, 1989), a
truncation-point extrapolation (Robson & Whitlock, 1964), and a
combinatorial persistence test based on inclusion-exclusion over
sighting-gap occupancy (Burgman, Grimson & Ferson, 1995). Also implements
a nonparametric endpoint test (Solow & Roberts, 2003), a sighting-interval
trend index (Jarić & Ebenhard, 2010), and reliability-adjusted inference
[...truncated...]
Author: Rodrigo Fonseca Villa [aut, cre]
Maintainer: Rodrigo Fonseca Villa <rodrigo03.villa@gmail.com>
Diff between EDE versions 0.1.0 dated 2026-08-07 and 0.2.0 dated 2026-09-21
DESCRIPTION | 22 - MD5 | 80 +++--- NAMESPACE | 29 +- NEWS.md |only R/burgman1995.R | 16 - R/ede-estimate.R | 23 + R/jaric-roberts2014.R |only R/jaric2010.R |only R/mcinerny2006.R | 168 ++++++------ R/ole.R | 39 ++ R/robson1964.R | 18 - R/sighting-data.R | 34 +- R/solow-roberts2003.R |only R/solow1993.R | 41 +-- R/solow1993b.R | 41 +-- R/solow2005.R | 82 ++---- R/strauss1989.R | 20 - README.md | 97 ++++--- inst/doc/EDE.R | 40 +-- inst/doc/EDE.Rmd | 283 ++++++++------------- inst/doc/EDE.html | 418 +++++++++++--------------------- man/burgman1995.Rd | 12 man/ede_estimate.Rd | 1 man/jaric2010.Rd |only man/jaric_roberts2014.Rd |only man/mcinerny2006.Rd | 4 man/ole.Rd | 8 man/robson1964.Rd | 11 man/sighting_data.Rd | 4 man/solow1993.Rd | 12 man/solow1993b.Rd | 9 man/solow2005.Rd | 21 - man/solow_roberts2003.Rd |only man/strauss1989.Rd | 13 tests/testthat/test-burgman1995.R | 27 +- tests/testthat/test-jaric-roberts2014.R |only tests/testthat/test-jaric2010.R |only tests/testthat/test-ole.R | 28 +- tests/testthat/test-print.R | 64 ++-- tests/testthat/test-robson1964.R | 63 ++-- tests/testthat/test-sighting-data.R | 17 - tests/testthat/test-solow-roberts2003.R |only tests/testthat/test-solow.R | 68 +++-- tests/testthat/test-solow1993b.R | 18 + tests/testthat/test-strauss1989.R | 80 +++--- vignettes/EDE.Rmd | 283 ++++++++------------- 46 files changed, 1061 insertions(+), 1133 deletions(-)
Title: ALTREP String Interoperability
Description: Provides infrastructure for interoperable ALTREP character vectors.
Producers of ALTREP string classes can register access methods,
allowing consumers to read supported character vectors through
a common interface without materializing them as ordinary R strings.
Also provides 'charvec', a reference ALTREP string implementation backed
by stable memory slices, with support for efficient and multithreaded
construction.
Author: Travers Ching [aut, cre, cph],
R Consortium [fnd]
Maintainer: Travers Ching <traversc@gmail.com>
Diff between charport versions 0.1.0 dated 2026-09-17 and 0.1.1 dated 2026-09-21
DESCRIPTION | 8 ++++---- MD5 | 11 ++++++----- NEWS.md |only inst/include/charport/charvec/builder.h | 3 ++- inst/include/charport/charvec/store.h | 3 ++- inst/include/charport/interop/reader.h | 11 ++++++----- tests/test_charvec_semantics.R | 12 ------------ 7 files changed, 20 insertions(+), 28 deletions(-)
Title: Download Data from Brazil's Population Census
Description: Easy access to data from Brazil's population censuses. The package
provides a simple and efficient way to download and read the data
sets and the documentation of all the population censuses taken in
and after 1960 in the country. The package is built on top of the
'Arrow' platform <https://arrow.apache.org/docs/r/>, which allows
users to work with larger-than-memory census data using 'dplyr'
familiar functions. <https://arrow.apache.org/docs/r/articles/arrow.html#analyzing-arrow-data-with-dplyr>.
Author: Rafael H. M. Pereira [aut, cre] ,
Rogerio J. Barbosa [aut] ,
Pedro Herculano Souza [ctb],
Diego Rabatone Oliveira [ctb],
Neal Richardson [ctb],
Haydee Svab [ctb],
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between censobr versions 0.6.0 dated 2026-07-29 and 1.0.0 dated 2026-09-21
censobr-0.6.0/censobr/tests/tests_rafa/aaaaaa.R |only censobr-1.0.0/censobr/DESCRIPTION | 25 censobr-1.0.0/censobr/MD5 | 172 censobr-1.0.0/censobr/NAMESPACE | 13 censobr-1.0.0/censobr/NEWS.md | 110 censobr-1.0.0/censobr/R/add_labels_emigration.R | 423 censobr-1.0.0/censobr/R/add_labels_families.R | 430 censobr-1.0.0/censobr/R/add_labels_households.R | 2183 +++ censobr-1.0.0/censobr/R/add_labels_mortality.R | 214 censobr-1.0.0/censobr/R/add_labels_population.R | 6077 +++++++++- censobr-1.0.0/censobr/R/availability.R |only censobr-1.0.0/censobr/R/cache.R | 203 censobr-1.0.0/censobr/R/censobr.R | 24 censobr-1.0.0/censobr/R/data_dictionary.R | 139 censobr-1.0.0/censobr/R/docs_interview_manual.R | 21 censobr-1.0.0/censobr/R/docs_questionnaire.R | 26 censobr-1.0.0/censobr/R/import_microdata22_controlado.R |only censobr-1.0.0/censobr/R/merge_household.R | 333 censobr-1.0.0/censobr/R/onLoad.R | 9 censobr-1.0.0/censobr/R/read_emigration.R | 42 censobr-1.0.0/censobr/R/read_families.R | 35 censobr-1.0.0/censobr/R/read_households.R | 35 censobr-1.0.0/censobr/R/read_mortality.R | 43 censobr-1.0.0/censobr/R/read_population.R | 153 censobr-1.0.0/censobr/R/read_tracts.R | 20 censobr-1.0.0/censobr/R/utils.R | 357 censobr-1.0.0/censobr/README.md | 21 censobr-1.0.0/censobr/build/vignette.rds |binary censobr-1.0.0/censobr/inst/doc/censobr.R | 221 censobr-1.0.0/censobr/inst/doc/censobr.Rmd | 79 censobr-1.0.0/censobr/inst/doc/censobr.html | 165 censobr-1.0.0/censobr/inst/doc/census_tracts_data.R | 296 censobr-1.0.0/censobr/inst/doc/census_tracts_data.Rmd | 9 censobr-1.0.0/censobr/inst/doc/census_tracts_data.html | 588 censobr-1.0.0/censobr/inst/doc/documentation.R | 2 censobr-1.0.0/censobr/inst/doc/documentation.Rmd | 16 censobr-1.0.0/censobr/inst/doc/documentation.html | 29 censobr-1.0.0/censobr/inst/doc/larger_than_memory.R | 92 censobr-1.0.0/censobr/inst/doc/larger_than_memory.html | 105 censobr-1.0.0/censobr/inst/doc/microdata_2022.R |only censobr-1.0.0/censobr/inst/doc/microdata_2022.Rmd |only censobr-1.0.0/censobr/inst/doc/microdata_2022.html |only censobr-1.0.0/censobr/inst/extdata |only censobr-1.0.0/censobr/man/censobr.Rd | 2 censobr-1.0.0/censobr/man/censobr_cache.Rd | 16 censobr-1.0.0/censobr/man/data_dictionary.Rd | 21 censobr-1.0.0/censobr/man/delete_old_cache_dirs.Rd |only censobr-1.0.0/censobr/man/download_is_incomplete.Rd |only censobr-1.0.0/censobr/man/error_arg_not_declared.Rd |only censobr-1.0.0/censobr/man/error_columns_absent.Rd |only censobr-1.0.0/censobr/man/error_merge_households_needs_columns.Rd |only censobr-1.0.0/censobr/man/error_merge_households_years.Rd |only censobr-1.0.0/censobr/man/error_missing_datasets.Rd | 36 censobr-1.0.0/censobr/man/error_missing_years.Rd | 36 censobr-1.0.0/censobr/man/error_year_not_declared.Rd |only censobr-1.0.0/censobr/man/figures/censobr_hexsticker.R | 2 censobr-1.0.0/censobr/man/get_censobr_cache_dir.Rd | 54 censobr-1.0.0/censobr/man/import_microdata22.Rd |only censobr-1.0.0/censobr/man/interview_manual.Rd | 11 censobr-1.0.0/censobr/man/merge_household_var.Rd | 83 censobr-1.0.0/censobr/man/open_censobr_data.Rd |only censobr-1.0.0/censobr/man/prune_old_cache_once.Rd |only censobr-1.0.0/censobr/man/questionnaire.Rd | 12 censobr-1.0.0/censobr/man/read_emigration.Rd | 4 censobr-1.0.0/censobr/man/read_families.Rd | 4 censobr-1.0.0/censobr/man/read_households.Rd | 4 censobr-1.0.0/censobr/man/read_mortality.Rd | 4 censobr-1.0.0/censobr/man/read_population.Rd | 23 censobr-1.0.0/censobr/man/roxygen/templates/columns.R | 4 censobr-1.0.0/censobr/man/schemas_microdata22.Rd |only censobr-1.0.0/censobr/man/warning_microdata22_not_imported.Rd |only censobr-1.0.0/censobr/tests/tests_rafa/make_fixture_microdata22.R |only censobr-1.0.0/censobr/tests/tests_rafa/s3_test.R | 4 censobr-1.0.0/censobr/tests/tests_rafa/test_merge.R | 2 censobr-1.0.0/censobr/tests/tests_rafa/test_rafa.R | 334 censobr-1.0.0/censobr/tests/testthat/test_availability.R |only censobr-1.0.0/censobr/tests/testthat/test_cache_prune.R |only censobr-1.0.0/censobr/tests/testthat/test_data_dictionary.R | 113 censobr-1.0.0/censobr/tests/testthat/test_docs_interview_manual.R | 8 censobr-1.0.0/censobr/tests/testthat/test_docs_questionnaire.R | 13 censobr-1.0.0/censobr/tests/testthat/test_import_microdata22_controlado.R |only censobr-1.0.0/censobr/tests/testthat/test_labels_emigration.R | 19 censobr-1.0.0/censobr/tests/testthat/test_labels_families.R | 47 censobr-1.0.0/censobr/tests/testthat/test_labels_households.R | 71 censobr-1.0.0/censobr/tests/testthat/test_labels_mortality.R | 36 censobr-1.0.0/censobr/tests/testthat/test_labels_population.R | 207 censobr-1.0.0/censobr/tests/testthat/test_labels_types.R |only censobr-1.0.0/censobr/tests/testthat/test_read_emigration.R | 20 censobr-1.0.0/censobr/tests/testthat/test_read_families.R | 15 censobr-1.0.0/censobr/tests/testthat/test_read_households.R | 55 censobr-1.0.0/censobr/tests/testthat/test_read_mortality.R | 46 censobr-1.0.0/censobr/tests/testthat/test_read_population.R | 191 censobr-1.0.0/censobr/tests/testthat/test_read_tracts.R | 14 censobr-1.0.0/censobr/tests/testthat/test_set_censobr_cache_dir.R | 2 censobr-1.0.0/censobr/tests/testthat/test_z_censobr_cache.R | 24 censobr-1.0.0/censobr/tests/testthat/test_zz_graceful_failure.R |only censobr-1.0.0/censobr/vignettes/censobr.Rmd | 79 censobr-1.0.0/censobr/vignettes/census_tracts_data.Rmd | 9 censobr-1.0.0/censobr/vignettes/documentation.Rmd | 16 censobr-1.0.0/censobr/vignettes/microdata_2022.Rmd |only 100 files changed, 11651 insertions(+), 2700 deletions(-)
Title: Genomic Prediction of Hybrid Performance
Description: Performs genomic prediction of hybrid performance using eight statistical methods including GBLUP, BayesB, RKHS, PLS, LASSO, EN, LightGBM and XGBoost along with additive and additive-dominance models. Users are able to incorporate parental phenotypic information in all methods based on their specific needs. (Xu S et al(2017) <doi:10.1534/g3.116.038059>; Xu Y et al (2021) <doi: 10.1111/pbi.13458>).
Author: Yang Xu [aut, cre],
Guangning Yu [aut],
Yanru Cui [aut],
Shizhong Xu [aut],
Chenwu Xu [aut]
Maintainer: Yang Xu <xuyang_89@126.com>
Diff between predhy versions 2.1.2 dated 2025-04-05 and 2.1.3 dated 2026-09-21
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NAMESPACE | 1 + R/convertgen.R | 2 ++ R/cv.R | 4 +++- R/import_packages.R | 2 +- R/predhy.predict.R | 18 +++++++++++++----- R/predhy.predict_NCII.R | 28 +++++++++++++++++++++------- 8 files changed, 51 insertions(+), 24 deletions(-)
Title: A Suite of Routines for Working with Jordan Algebras
Description: A Jordan algebra is an algebraic object originally
designed to study observables in quantum mechanics. Jordan
algebras are commutative but non-associative; they satisfy the
Jordan identity. The package follows the ideas and notation of
K. McCrimmon (2004, ISBN:0-387-95447-3) "A Taste of Jordan
Algebras". To cite the package in publications, please use
Hankin (2023) <doi:10.48550/arXiv.2303.06062>.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between jordan versions 1.0-6 dated 2024-07-04 and 1.0-6-1 dated 2026-09-21
DESCRIPTION | 9 +-- MD5 | 20 +++---- R/type_1.R | 129 ++++++++++++++++++++++++++------------------------- R/type_2.R | 91 ++++++++++++++++++++--------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/jordan.Rmd | 1 inst/doc/jordan.html | 62 ++++++++++++------------ man/coerce.Rd | 2 man/jordan.Rd | 18 ++++++- vignettes/jordan.Rmd | 1 11 files changed, 187 insertions(+), 146 deletions(-)
Title: Pretest Probability for Coronary Artery Disease
Description: An application to calculate a patient's pretest probability
(PTP) for obstructive Coronary Artery Disease (CAD) from a collection
of guidelines or studies. Guidelines usually comes from the American
Heart Association (AHA), American College of Cardiology (ACC) or
European Society of Cardiology (ESC). Examples of PTP scores that
comes from studies are the 2020 Winther et al. basic, Risk
Factor-weighted Clinical Likelihood (RF-CL) and Coronary Artery
Calcium Score-weighted Clinical Likelihood (CACS-CL) models
<doi:10.1016/j.jacc.2020.09.585>, 2019 Reeh et al. basic and clinical
models <doi:10.1093/eurheartj/ehy806> and 2017 Fordyce et al. PROMISE
Minimal-Risk Tool <doi:10.1001/jamacardio.2016.5501>. As diagnosis of
CAD involves a costly and invasive coronary angiography procedure for
patients, having a reliable PTP for CAD helps doctors to make better
decisions during patient management. This ensures high risk patients
can be diagnosed and treated early for CAD while [...truncated...]
Author: Jeremy Selva [aut, cre]
Maintainer: Jeremy Selva <jeremy1189.jjs@gmail.com>
Diff between pretestcad versions 1.1.0 dated 2025-09-03 and 1.2.0 dated 2026-09-21
DESCRIPTION | 9 LICENSE | 2 MD5 | 152 ++- NAMESPACE | 10 NEWS.md | 15 R/aha_2012_conference_ptp.R | 13 R/aha_2021_conference_ptp.R | 19 R/cad_consortium_ptp.R | 111 ++ R/chen_2018_ptp.R |only R/come_cct_2025_ptp.R |only R/confirm_ptp.R | 20 R/dcs_ptp.R | 183 +++- R/diamond_forrester_ptp.R | 4 R/esc_2013_conference_ptp.R | 4 R/esc_2019_conference_ptp.R | 34 R/esc_2024_conference_ptp.R | 251 +++--- R/harmonise.R | 25 R/lah_ptp.R | 71 + R/miller_ptp.R |only R/pmrs_ptp.R | 34 R/precise_ptp.R | 78 + R/rasmussen_ptp.R |only R/reeh_ptp.R | 53 + R/utilities.R | 16 R/winther_ptp.R | 114 ++ R/zuo_2025_ptp.R |only README.md | 16 inst/WORDLIST | 18 man/arg_match0_no_na_error_message.Rd | 102 +- man/calculate_aha_2012_tbl_9_ptp.Rd | 198 ++--- man/calculate_aha_2021_ptp.Rd | 237 +++--- man/calculate_cad1_2011_ptp.Rd | 167 ++-- man/calculate_cad2_2012_basic_ptp.Rd | 167 ++-- man/calculate_cad2_2012_clinical_ccs_ptp.Rd | 349 ++++---- man/calculate_cad2_2012_clinical_ptp.Rd | 338 ++++---- man/calculate_chen_2018_mfs_fig_3_ptp.Rd |only man/calculate_chen_2018_mfs_formula_ptp.Rd |only man/calculate_come_cct_2025_ptp.Rd |only man/calculate_come_cct_with_cta_2025_ptp.Rd |only man/calculate_come_cta_alone_2025_ptp.Rd |only man/calculate_confirm_2015_num_of_rf.Rd | 301 +++---- man/calculate_confirm_2015_ptp.Rd | 331 ++++---- man/calculate_dcs_1993_lm_cad_ptp.Rd | 318 ++++---- man/calculate_dcs_1993_pain_index.Rd | 381 ++++----- man/calculate_dcs_1993_risk_factor_index.Rd | 217 ++--- man/calculate_dcs_1993_severe_cad_ptp.Rd | 631 ++++++++-------- man/calculate_dcs_1993_sig_cad_ptp.Rd | 413 +++++----- man/calculate_dcs_1993_vascular_disease_index.Rd | 217 ++--- man/calculate_diamond_forrester_1979_ptp.Rd | 175 ++-- man/calculate_esc_2013_ptp.Rd | 142 +-- man/calculate_esc_2019_ptp.Rd | 256 +++--- man/calculate_esc_2024_fig_4_ptp.Rd | 446 +++++------ man/calculate_esc_2024_fig_4_ptp_simplfied.Rd | 178 ++-- man/calculate_esc_2024_num_of_rf.Rd | 307 +++---- man/calculate_esc_2024_symptom_score.Rd | 193 ++-- man/calculate_lah_2022_clinical_ptp.Rd | 334 ++++---- man/calculate_lah_2022_extended_ptp.Rd | 345 ++++---- man/calculate_miller_2023_lm_50_non_lm_70_cad_ptp.Rd |only man/calculate_miller_2023_vessel_50_cad_ptp.Rd |only man/calculate_precise_2021_clinical_ptp.Rd | 422 +++++----- man/calculate_precise_2021_simple_ptp.Rd | 348 ++++---- man/calculate_prms_2017_ptp.Rd | 461 ++++++----- man/calculate_rasmussen_2025_cacs_cl_ccta_ptp.Rd |only man/calculate_rasmussen_2025_rf_cl_ccta_ptp.Rd |only man/calculate_reeh_2019_basic_ptp.Rd | 185 ++-- man/calculate_reeh_2019_clinical_ptp.Rd | 305 ++++--- man/calculate_winther_2020_basic_ptp.Rd | 192 ++-- man/calculate_winther_2020_cacs_cl_ptp.Rd | 456 ++++++----- man/calculate_winther_2020_rf_cl_ptp.Rd | 440 ++++++----- man/calculate_zuo_2025_predict_ocad_ptp.Rd |only man/check_if_four_categories_are_mutually_exclusive.Rd | 176 ++-- man/check_if_integer.Rd | 94 +- man/check_if_non_negative.Rd | 94 +- man/check_if_numeric.Rd | 112 +- man/check_if_positive.Rd | 102 +- man/check_if_three_categories_are_mutually_exclusive.Rd | 150 +-- man/check_if_two_categories_are_mutually_exclusive.Rd | 132 +-- man/chr_quoted.Rd | 56 - man/harmonise_four_labels.Rd | 459 +++++------ man/harmonise_three_labels.Rd | 376 ++++----- man/harmonise_two_labels.Rd | 301 +++---- tests/testthat/test-chen_2018_ptp.R |only tests/testthat/test-come_cct_2025_ptp.R |only tests/testthat/test-rasmussen_ptp.R |only tests/testthat/test-winther_ptp.R | 1 tests/testthat/test-zuo_2025_ptp.R |only tests/testthat/test_miller_ptp.R |only 87 files changed, 6964 insertions(+), 5893 deletions(-)
Title: Estimation, Diagnostics and Visualization of Conditional
Marginal Effects
Description: Performs estimation, diagnostics, and visualization of conditional marginal effects and group average treatment effects of a treatment on an outcome across different values of a moderator. Optionally integrates with the 'mlr3extralearners' package for additional machine learning backends compatible with the double machine learning estimators. 'mlr3extralearners' is not on CRAN but can be obtained from <https://github.com/mlr-org/mlr3extralearners>.
Author: Yiqing Xu [aut, cre],
Jens Hainmueller [aut],
Jonathan Mummolo [aut],
Tianzhu Qin [aut],
Jiehan Liu [aut],
Ziyi Liu [aut]
Maintainer: Yiqing Xu <yiqingxu@stanford.edu>
Diff between interflex versions 1.4.0 dated 2026-04-10 and 1.4.1 dated 2026-09-21
interflex-1.4.0/interflex/tests/testthat/Rplots.pdf |only interflex-1.4.1/interflex/DESCRIPTION | 8 interflex-1.4.1/interflex/MD5 | 32 interflex-1.4.1/interflex/NAMESPACE | 2 interflex-1.4.1/interflex/NEWS.md | 16 interflex-1.4.1/interflex/R/estimate_cme_plr.R | 15 interflex-1.4.1/interflex/R/interflex.R | 27 interflex-1.4.1/interflex/R/kernel.R | 6319 +++++----- interflex-1.4.1/interflex/R/lasso.R | 8 interflex-1.4.1/interflex/R/plot_pool.R | 12 interflex-1.4.1/interflex/R/predict.R | 2 interflex-1.4.1/interflex/R/raw.R | 12 interflex-1.4.1/interflex/R/uniform.R | 11 interflex-1.4.1/interflex/inst |only interflex-1.4.1/interflex/man/inter_test.Rd | 8 interflex-1.4.1/interflex/man/interflex.Rd | 9 interflex-1.4.1/interflex/tests/testthat/test-bw-select.R |only interflex-1.4.1/interflex/tests/testthat/test-dml.R | 1 interflex-1.4.1/interflex/tests/testthat/test-kernel-adaptive-bw.R |only 19 files changed, 3569 insertions(+), 2913 deletions(-)
Title: Orthogonal Nonlinear Least-Squares Regression
Description: Fits n-dimensional data by means of orthogonal nonlinear least-squares using Levenberg-Marquardt minimization and provides functionality for fit diagnostics and plotting. Delivers the same results as the 'ODRPACK' Fortran implementation described in Boggs et al. (1989) <doi:10.1145/76909.76913>, but is implemented in pure R.
Author: Andrej-Nikolai Spiess [aut, cre]
Maintainer: Andrej-Nikolai Spiess <draspiess@gmail.com>
Diff between onls versions 0.1-4 dated 2025-09-01 and 0.2 dated 2026-09-21
onls-0.1-4/onls/inst/doc/onls.R |only onls-0.1-4/onls/inst/doc/onls.Rnw |only onls-0.1-4/onls/inst/doc/onls.pdf |only onls-0.1-4/onls/vignettes/onls.Rnw |only onls-0.2/onls/DESCRIPTION | 12 onls-0.2/onls/MD5 | 48 - onls-0.2/onls/NAMESPACE | 10 onls-0.2/onls/NEWS | 40 + onls-0.2/onls/R/NIST.R | 28 - onls-0.2/onls/R/S3_functions.R | 559 +++++++++++++++------- onls-0.2/onls/R/fit_functions.R | 188 +++++-- onls-0.2/onls/R/onls.R | 744 ++++++++++++++++++------------ onls-0.2/onls/build/partial.rdb |binary onls-0.2/onls/build/vignette.rds |binary onls-0.2/onls/inst/doc/onls-vignette.R |only onls-0.2/onls/inst/doc/onls-vignette.Rmd |only onls-0.2/onls/inst/doc/onls-vignette.html |only onls-0.2/onls/man/NIST.Rd | 2 onls-0.2/onls/man/check_o.Rd | 84 ++- onls-0.2/onls/man/confint.onls.Rd | 39 - onls-0.2/onls/man/deviance_o.Rd | 9 onls-0.2/onls/man/logLik_o.Rd | 36 + onls-0.2/onls/man/onls.Rd | 418 ++++++++++++---- onls-0.2/onls/man/plot.onls.Rd | 112 +++- onls-0.2/onls/man/print.onls.Rd | 2 onls-0.2/onls/man/residuals_o.Rd | 9 onls-0.2/onls/man/summary.onls.Rd | 27 - onls-0.2/onls/man/x0.Rd | 18 onls-0.2/onls/vignettes/onls-vignette.Rmd |only 29 files changed, 1635 insertions(+), 750 deletions(-)
Title: Goodness-of-Fit Test for Weibull Distribution (Weibullness)
Description: Conducts a goodness-of-fit test for the Weibull distribution (referred to as the weibullness test) and furnishes parameter estimations for both the two-parameter and three-parameter Weibull distributions.
Notably, the threshold parameter is derived through correlation from the Weibull plot. Additionally, this package conducts goodness-of-fit assessments for the exponential, Gumbel, and inverse Weibull distributions, accompanied by parameter estimations.
For more details, see Park (2017) <doi:10.23055/ijietap.2017.24.4.2848>,
Park (2018) <doi:10.1155/2018/6056975>, and Park (2023) <doi:10.3390/math11143156>.
This work was supported by the National Research Foundation of Korea (NRF) grants funded by the Korea government (No. 2022R1A2C1091319).
Author: Chanseok Park [aut, cre]
Maintainer: Chanseok Park <statpnu@gmail.com>
Diff between weibullness versions 1.24.1 dated 2024-01-09 and 2.26.9 dated 2026-09-21
weibullness-1.24.1/weibullness/man/Wdata.Rd |only weibullness-2.26.9/weibullness/DESCRIPTION | 26 +-- weibullness-2.26.9/weibullness/MD5 | 84 +++++----- weibullness-2.26.9/weibullness/NAMESPACE | 10 - weibullness-2.26.9/weibullness/R/Estimate.Gumbel.R | 28 +++ weibullness-2.26.9/weibullness/R/Estimate.RM.R |only weibullness-2.26.9/weibullness/R/Estimate.Weibull.R | 74 +++++++- weibullness-2.26.9/weibullness/R/Estimate.inverse.Weibull.R | 4 weibullness-2.26.9/weibullness/build/partial.rdb |binary weibullness-2.26.9/weibullness/data/Wdata-bunzip2.rda |binary weibullness-2.26.9/weibullness/inst/CITATION | 20 +- weibullness-2.26.9/weibullness/inst/NEWS.Rd | 29 ++- weibullness-2.26.9/weibullness/man/Exponential.ANOVA.Quantiles.Rd | 4 weibullness-2.26.9/weibullness/man/Gumbel.Plot.Quantiles.Rd | 4 weibullness-2.26.9/weibullness/man/IW.Plot.Quantiles.Rd | 10 - weibullness-2.26.9/weibullness/man/Weibull.Plot.Quantiles.Rd | 8 weibullness-2.26.9/weibullness/man/Weibulldata.Rd |only weibullness-2.26.9/weibullness/man/breakdown.pwrm.Rd |only weibullness-2.26.9/weibullness/man/ep.plot.Rd | 3 weibullness-2.26.9/weibullness/man/ep.test.Rd | 6 weibullness-2.26.9/weibullness/man/ep.test.critical.Rd | 7 weibullness-2.26.9/weibullness/man/ep.test.pvalue.Rd | 7 weibullness-2.26.9/weibullness/man/gp.plot.Rd | 3 weibullness-2.26.9/weibullness/man/gp.test.Rd | 7 weibullness-2.26.9/weibullness/man/gp.test.critical.Rd | 7 weibullness-2.26.9/weibullness/man/gp.test.pvalue.Rd | 7 weibullness-2.26.9/weibullness/man/gumbel.gp.Rd | 15 + weibullness-2.26.9/weibullness/man/gumbel.mle.Rd |only weibullness-2.26.9/weibullness/man/inverseWeibull.Rd | 1 weibullness-2.26.9/weibullness/man/invweibull.mle.Rd | 9 - weibullness-2.26.9/weibullness/man/iwp.plot.Rd | 1 weibullness-2.26.9/weibullness/man/iwp.test.Rd | 22 -- weibullness-2.26.9/weibullness/man/iwp.test.critical.Rd | 5 weibullness-2.26.9/weibullness/man/iwp.test.pvalue.Rd | 6 weibullness-2.26.9/weibullness/man/regr.pwrm.Rd |only weibullness-2.26.9/weibullness/man/regr.rm.Rd |only weibullness-2.26.9/weibullness/man/weibull.ic.Rd | 7 weibullness-2.26.9/weibullness/man/weibull.mle.Rd | 6 weibullness-2.26.9/weibullness/man/weibull.pwrm.Rd |only weibullness-2.26.9/weibullness/man/weibull.rm.Rd | 8 weibullness-2.26.9/weibullness/man/weibull.seki.Rd |only weibullness-2.26.9/weibullness/man/weibull.threshold.Rd | 12 - weibullness-2.26.9/weibullness/man/weibull.wp.Rd | 23 -- weibullness-2.26.9/weibullness/man/wmedian.Rd |only weibullness-2.26.9/weibullness/man/wp.plot.Rd | 8 weibullness-2.26.9/weibullness/man/wp.test.Rd | 15 - weibullness-2.26.9/weibullness/man/wp.test.critical.Rd | 5 weibullness-2.26.9/weibullness/man/wp.test.pvalue.Rd | 6 48 files changed, 289 insertions(+), 208 deletions(-)