Title: Bootstrap Methods for Various Network Estimation Routines
Description: Bootstrap methods to assess accuracy and stability of estimated network structures
and centrality indices <doi:10.3758/s13428-017-0862-1>. Allows for flexible
specification of any undirected network estimation procedure in R, and offers
default sets for various estimation routines.
Author: Sacha Epskamp [aut, cre],
Eiko I. Fried [ctb],
Kai J. Nehler [ctb],
Adela Maria Isvoranu [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between bootnet versions 1.8 dated 2026-03-19 and 1.9.1 dated 2026-07-17
DESCRIPTION | 21 ++- MD5 | 60 ++++++---- NAMESPACE | 3 NEWS | 31 +++++ R/Smetric.R | 2 R/bootTable.R | 28 ++++ R/bootnet.R | 164 +++++++++++++++++++++++----- R/centralityCompare.R | 12 +- R/checkInput.R | 1 R/defaultFunctions.R | 274 +++++++++++++++++++++++++++++++++++++++-------- R/estimateNetwork.R | 20 ++- R/globals.R | 5 R/netSimulator.R | 4 R/parSim.R | 9 - R/plotMethod.R | 31 +---- R/replicationSimulator.R | 4 R/summaryMethod.R | 8 - R/zzz.R | 39 ------ man/bootInclude.Rd | 4 man/bootThreshold.Rd | 2 man/bootnet.Rd | 13 +- man/differenceTest.Rd | 2 man/estimateNetwork.Rd | 24 ++-- man/netSimulator.Rd | 16 +- tests |only 25 files changed, 555 insertions(+), 222 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-16 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-13 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-02 1.2.6
2026-03-26 1.2.5
2024-06-27 1.2.4
2023-06-06 1.2.1
2023-05-31 1.2.0
2021-10-22 1.1.0
2021-02-22 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-16 1.0.0
Title: Build Potentiometric Surfaces and Hydraulic-Gradient Arrows
Description: Prepares groundwater-level observations from measured hydraulic
head or from depth-to-water and land-surface elevation, interpolates
potentiometric surfaces using thin-plate splines, inverse-distance
weighting, ordinary Kriging, universal Kriging, or user-supplied methods,
and creates raster, contour, diagnostic, support, and hydraulic-gradient
products for review and export. Functions retain method conditions and fit
diagnostics, validate explicit prediction tasks, inspect model-conditional
uncertainty and monitoring-network sensitivity, identify limited prediction
support, and check whether scaled hydraulic-gradient arrows remain within
finite raster support and end at lower modeled head. Raster processing uses methods from
'terra' (Hijmans 2025) <doi:10.32614/CRAN.package.terra>, thin-plate
splines use methods from 'fields' (Nychka et al. 2021)
<doi:10.5065/D6W957CT>, and geostatistical interpolation uses methods from
'gstat' (Pebesma 2004) <doi:10.1016/j.cageo.2004.0 [...truncated...]
Author: Elvin Cordero [aut, cre]
Maintainer: Elvin Cordero <elvin.cordero@seamountgeo.com>
Diff between potentiomap versions 0.1.0 dated 2026-05-29 and 0.2.0 dated 2026-07-17
potentiomap-0.1.0/potentiomap/inst/logo.png |only potentiomap-0.1.0/potentiomap/man/figures/arrow_density.png |only potentiomap-0.1.0/potentiomap/man/figures/arrow_scale.png |only potentiomap-0.1.0/potentiomap/man/figures/contour_intervals.png |only potentiomap-0.1.0/potentiomap/man/figures/grid_resolution.png |only potentiomap-0.1.0/potentiomap/man/figures/interpolation_methods.png |only potentiomap-0.1.0/potentiomap/man/figures/raster_smoothing.png |only potentiomap-0.1.0/potentiomap/man/figures/tps_smoothing.png |only potentiomap-0.2.0/potentiomap/DESCRIPTION | 51 potentiomap-0.2.0/potentiomap/MD5 | 245 ++ potentiomap-0.2.0/potentiomap/NAMESPACE | 75 potentiomap-0.2.0/potentiomap/NEWS.md |only potentiomap-0.2.0/potentiomap/R/change-network-sensitivity.R |only potentiomap-0.2.0/potentiomap/R/conditions.R |only potentiomap-0.2.0/potentiomap/R/contour-support.R |only potentiomap-0.2.0/potentiomap/R/data-expansion.R |only potentiomap-0.2.0/potentiomap/R/data.R | 23 potentiomap-0.2.0/potentiomap/R/expansion-utils.R |only potentiomap-0.2.0/potentiomap/R/exports-reports.R |only potentiomap-0.2.0/potentiomap/R/flow.R | 457 +++- potentiomap-0.2.0/potentiomap/R/grouped.R |only potentiomap-0.2.0/potentiomap/R/interpolate.R | 940 ++++++++-- potentiomap-0.2.0/potentiomap/R/metadata.R |only potentiomap-0.2.0/potentiomap/R/observations-expansion.R |only potentiomap-0.2.0/potentiomap/R/outputs.R | 447 +++- potentiomap-0.2.0/potentiomap/R/points.R | 301 ++- potentiomap-0.2.0/potentiomap/R/potentiomap-package.R |only potentiomap-0.2.0/potentiomap/R/regions-profiles.R |only potentiomap-0.2.0/potentiomap/R/result.R |only potentiomap-0.2.0/potentiomap/R/smooth.R | 30 potentiomap-0.2.0/potentiomap/R/support.R |only potentiomap-0.2.0/potentiomap/R/surface-analysis.R |only potentiomap-0.2.0/potentiomap/R/tuning-uncertainty.R |only potentiomap-0.2.0/potentiomap/R/validation-expansion.R |only potentiomap-0.2.0/potentiomap/R/variograms-expansion.R |only potentiomap-0.2.0/potentiomap/README.md | 450 +--- potentiomap-0.2.0/potentiomap/build |only potentiomap-0.2.0/potentiomap/data/synthetic_anisotropic_points.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_candidate_sites.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_covariates.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_events.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_nested_wells.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_regions.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_transect.rda |only potentiomap-0.2.0/potentiomap/data/synthetic_validation_points.rda |only potentiomap-0.2.0/potentiomap/inst/WORDLIST |only potentiomap-0.2.0/potentiomap/inst/doc |only potentiomap-0.2.0/potentiomap/inst/rmarkdown |only potentiomap-0.2.0/potentiomap/man/figures/home-overview.png |only potentiomap-0.2.0/potentiomap/man/plot.potentiomap_contour_support.Rd |only potentiomap-0.2.0/potentiomap/man/potentiomap-package.Rd |only potentiomap-0.2.0/potentiomap/man/potentiomap_conditions.Rd |only potentiomap-0.2.0/potentiomap/man/potentiomap_result.Rd |only potentiomap-0.2.0/potentiomap/man/ps_anisotropy.Rd |only potentiomap-0.2.0/potentiomap/man/ps_arrow_vertices.Rd | 26 potentiomap-0.2.0/potentiomap/man/ps_candidate_network.Rd |only potentiomap-0.2.0/potentiomap/man/ps_check_observations.Rd |only potentiomap-0.2.0/potentiomap/man/ps_compare_methods.Rd |only potentiomap-0.2.0/potentiomap/man/ps_compare_surfaces.Rd |only potentiomap-0.2.0/potentiomap/man/ps_contour_support.Rd |only potentiomap-0.2.0/potentiomap/man/ps_contour_uncertainty.Rd |only potentiomap-0.2.0/potentiomap/man/ps_contours.Rd | 35 potentiomap-0.2.0/potentiomap/man/ps_cross_section.Rd |only potentiomap-0.2.0/potentiomap/man/ps_depth_to_water_surface.Rd |only potentiomap-0.2.0/potentiomap/man/ps_diagnostics.Rd |only potentiomap-0.2.0/potentiomap/man/ps_export_contour_support.Rd |only potentiomap-0.2.0/potentiomap/man/ps_export_style.Rd |only potentiomap-0.2.0/potentiomap/man/ps_export_surfaces.Rd | 50 potentiomap-0.2.0/potentiomap/man/ps_flow_arrows.Rd | 63 potentiomap-0.2.0/potentiomap/man/ps_head_change.Rd |only potentiomap-0.2.0/potentiomap/man/ps_interpolate.Rd | 131 + potentiomap-0.2.0/potentiomap/man/ps_interpolate_grouped.Rd |only potentiomap-0.2.0/potentiomap/man/ps_interpolate_regions.Rd |only potentiomap-0.2.0/potentiomap/man/ps_make_points.Rd | 55 potentiomap-0.2.0/potentiomap/man/ps_metadata.Rd |only potentiomap-0.2.0/potentiomap/man/ps_method_disagreement.Rd |only potentiomap-0.2.0/potentiomap/man/ps_network_thinning.Rd |only potentiomap-0.2.0/potentiomap/man/ps_potentiometric_points.Rd | 67 potentiomap-0.2.0/potentiomap/man/ps_prediction_support.Rd |only potentiomap-0.2.0/potentiomap/man/ps_quicklook.Rd | 27 potentiomap-0.2.0/potentiomap/man/ps_report.Rd |only potentiomap-0.2.0/potentiomap/man/ps_sample_aoi.Rd | 3 potentiomap-0.2.0/potentiomap/man/ps_screen_groups.Rd |only potentiomap-0.2.0/potentiomap/man/ps_select_event.Rd |only potentiomap-0.2.0/potentiomap/man/ps_split_domain.Rd |only potentiomap-0.2.0/potentiomap/man/ps_surface_ensemble.Rd |only potentiomap-0.2.0/potentiomap/man/ps_surface_profile.Rd |only potentiomap-0.2.0/potentiomap/man/ps_surface_sensitivity.Rd |only potentiomap-0.2.0/potentiomap/man/ps_surface_uncertainty.Rd |only potentiomap-0.2.0/potentiomap/man/ps_surfaces.Rd |only potentiomap-0.2.0/potentiomap/man/ps_tune_interpolation.Rd |only potentiomap-0.2.0/potentiomap/man/ps_validate.Rd |only potentiomap-0.2.0/potentiomap/man/ps_validate_arrows.Rd |only potentiomap-0.2.0/potentiomap/man/ps_validation_plot.Rd |only potentiomap-0.2.0/potentiomap/man/ps_variogram.Rd |only potentiomap-0.2.0/potentiomap/man/ps_variogram_compare.Rd |only potentiomap-0.2.0/potentiomap/man/ps_vertical_gradient.Rd |only potentiomap-0.2.0/potentiomap/man/ps_well_influence.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_anisotropic_points.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_candidate_sites.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_covariates.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_events.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_nested_wells.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_regions.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_surface_points.Rd | 4 potentiomap-0.2.0/potentiomap/man/synthetic_transect.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_validation_points.Rd |only potentiomap-0.2.0/potentiomap/man/synthetic_wells.Rd | 16 potentiomap-0.2.0/potentiomap/tests/testthat/helper-expansion.R |only potentiomap-0.2.0/potentiomap/tests/testthat/helper-synthetic.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-arrow-endpoints.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-conditions-and-compatibility.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-contour-manifest.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-contour-support-contracts.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-contour-support.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-change-network-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-change-network.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-data-frame-contracts.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-export-report-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-observation-event-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-profiles-qa-exports.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-region-profile-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-surface-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-surfaces-uncertainty.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-tuning-uncertainty-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-utility-contracts.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-validation-designs.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-validation-tuning.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-variogram-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-variogram-control-contracts.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-expansion-variograms-regions.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-fit-diagnostics.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-grouped-and-metadata-branches.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-grouped.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-interpolation-results.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-output-contracts.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-outputs-and-smoothing.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-points-metadata.R |only potentiomap-0.2.0/potentiomap/tests/testthat/test-potentiomap.R | 12 potentiomap-0.2.0/potentiomap/tests/testthat/test-support.R |only potentiomap-0.2.0/potentiomap/vignettes |only 141 files changed, 2582 insertions(+), 926 deletions(-)
Title: Model BIC Posterior Probability
Description: Fits the neighboring models of a fitted
structural equation model and assesses the model
uncertainty of the fitted model based on BIC posterior
probabilities (BPP), using the method presented in
Wu, Cheung, and Leung (2020)
<doi:10.1080/00273171.2019.1574546>. See
Pesigan, Cheung, Wu, Chang, and Leung (2026)
<doi:10.3758/s13428-025-02921-x> for an introduction to
the package.
Author: Shu Fai Cheung [aut, cre] ,
Huiping Wu [aut],
Shing On Leung [aut] ,
Ivan Jacob Agaloos Pesigan [ctb]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between modelbpp versions 0.3.0 dated 2026-05-12 and 0.4.0 dated 2026-07-17
DESCRIPTION | 8 +- MD5 | 27 +++++----- NEWS.md | 42 +++++++++++++++ R/fit_many.R | 15 ++++- R/get_add.R | 115 ++++++++++++++++++++++++++++++++++++------- R/get_drop.R | 45 +++++++++++----- R/helpers1.R | 80 +++++++++++++++++++++++++++++ R/helpers3_for_model_graph.R | 2 R/helpers4_for_model_graph.R | 1 R/helpers_fix_update.R |only R/model_set.R | 2 R/print.model_set.R | 1 README.md | 2 build/partial.rdb |binary build/vignette.rds |binary 15 files changed, 285 insertions(+), 55 deletions(-)
Title: Preparer of Main Scientific References for Automatic Insertion
in Academic Papers
Description: Generates a file, containing the main scientific references, prepared to be automatically inserted into an academic paper.
The articles present in the list are chosen from the main references generated, by function principal_lister(), of the package 'bibliorefer'.
The generated file contains the list of metadata of the principal references in 'BibTex' format.
Massimo Aria, Corrado Cuccurullo. (2017) <doi:10.1016/j.joi.2017.08.007>.
Caibo Zhou, Wenyan Song. (2021) <doi:10.1016/j.jclepro.2021.126943>.
Hamid Derviş. (2019) <doi:10.5530/jscires.8.3.32>.
Author: Marcio Eustaquio [cre],
Marcio Eustaquio [aut]
Maintainer: Marcio Eustaquio <marcioeustaquio@id.uff.br>
Diff between gerefer versions 0.1.3 dated 2025-10-27 and 0.1.4 dated 2026-07-17
DESCRIPTION | 8 MD5 | 8 NAMESPACE | 2 R/article_bib.R | 1423 ++++++++++++++++++----------------- inst/extdata/example_databaseart.csv | 953 +++++++++++------------ 5 files changed, 1234 insertions(+), 1160 deletions(-)
Title: Columnar Query Engine for Larger-than-RAM Data
Description: A minimal columnar query engine with lazy execution on datasets
larger than RAM. Provides 'dplyr'-like verbs (filter(), select(), mutate(),
group_by(), summarise(), joins, window functions) and common aggregations
(n(), sum(), mean(), min(), max(), sd(), first(), last()) backed by a
pure C11 pull-based execution engine and a custom on-disk format ('.vtr').
Reads and writes 'GeoTIFF' (including tiled and 'BigTIFF' layouts) and a
tiled raster format ('.vec') with overview pyramids and time cubes for
larger-than-RAM raster data. Streams vector operations (spatial transforms,
point-in-polygon and nearest-feature joins including a two-sided
grid-partitioned join, select-by-location, clip, erase, dissolve,
'rasterization', 'polygonization', and contouring) through 'sf', and runs
raster operations (zonal statistics, focal windows, terrain derivatives,
resample or 'reproject' warp, polygon masking, map algebra, and 'mosaicking')
in native C or over the tiled '.vec' format, one batch or tile at [...truncated...]
Author: Gilles Colling [aut, cre, cph]
Maintainer: Gilles Colling <gilles.colling051@gmail.com>
Diff between vectra versions 0.11.1 dated 2026-07-10 and 0.11.3 dated 2026-07-17
DESCRIPTION | 6 MD5 | 67 +++-- NEWS.md | 57 +++++ R/chunk.R | 5 R/schema.R | 45 ++-- inst/doc/coverage-topology.html | 4 inst/doc/engine.html | 4 inst/doc/formats.html | 8 inst/doc/geometry-expressions.html | 4 inst/doc/indexing.html | 10 inst/doc/joins.html | 4 inst/doc/large-data.html | 4 inst/doc/networks.html | 4 inst/doc/offload.html | 4 inst/doc/quickstart.html | 4 inst/doc/schema.html | 4 inst/doc/sdm.html | 4 inst/doc/spatial.html | 4 inst/doc/streaming-spatial.html | 4 inst/doc/string-ops.html | 4 src/bed_scan.c | 3 src/builder.c | 1 src/byte_reader.c | 360 ++++++++++++++++++++------------ src/byte_reader.h | 25 +- src/csv_scan.c | 3 src/expr_datetime.c | 26 ++ src/fasta_scan.c | 4 src/init.c | 1 src/r_bridge.c | 14 + src/r_bridge.h | 1 src/rec_spill.c | 156 ++++++++++++- tests/testthat/test-collect-chunked.R | 15 + tests/testthat/test-fasta-scan.R | 42 +++ tests/testthat/test-rec-spill-fanin.R |only tests/testthat/test-resolve-propagate.R | 46 ++++ 35 files changed, 702 insertions(+), 245 deletions(-)
Title: Spectral Preprocessing and Chemometric Calibration of NIR
Sensors
Description: Provides tools to build quantitative chemometric models and
applications for near-infrared (NIR) sensors. Chemometric regression
models are based on partial least squares regression as described by
Wold (1975) <doi:10.1016/B978-0-12-103950-9.50017-4> and modified
partial least squares regression as described by Shenk and Westerhaus
(1991) <doi:10.2135/cropsci1991.0011183X003100020049x>, with further
discussion by Westerhaus (2014) <doi:10.1255/nirn.1492>.
Author: Leonardo Ramirez-Lopez [aut, cre] ,
Claudio Orellano [aut] ,
Nicolae Cudlenco [aut] ,
Mai Said [aut] ,
Mohamed Abushosha [aut],
Marcal Plans [aut]
Maintainer: Leonardo Ramirez-Lopez <ramirez-lopez.l@buchi.com>
Diff between proximetricsR versions 0.6.4 dated 2026-06-30 and 0.6.5 dated 2026-07-17
DESCRIPTION | 12 MD5 | 205 ++-- NEWS | 7 R/AAA.R | 2 R/add_metadata.R | 119 +- R/cal_helpers.R | 2 R/calibrate.R | 80 - R/calibrate_models.R | 49 - R/calibration_control.R | 65 - R/estimate_model.R | 5 R/extract_property_names.R | 19 R/fit_constructors.R | 32 R/get_model_summary.R | 4 R/plot.spectral_model.R | 117 +- R/prep_derivative.R | 2 R/prep_detrend.R | 13 R/prep_resample.R | 57 - R/preprocess_recipe.R | 56 - R/print.nax.R | 43 R/print.processing.R | 7 R/print.spectral_model.R | 8 R/print.spectral_prediction.R | 12 R/proximate_add2nax.R | 31 R/proximate_data.R | 20 R/proximate_merge.R | 25 R/proximate_read_cal.R | 8 R/proximate_read_data.R | 11 R/proximate_read_nax.R | 47 - R/proximate_recalibrate_nax.R | 82 - R/proximate_write_data.R | 15 R/proximate_write_helpers.R | 4 R/proximate_write_nax.R | 12 R/proximetricsR.R | 22 R/proxiscout_read_data.R | 26 R/proxiscout_wavenumbers.R | 10 R/proxiscout_write_data.R | 18 R/proxiscout_write_model.R | 29 R/read_spc.R | 55 - R/sample_stratified.R | 3 R/spectra.R | 258 ++--- R/validate_prediction.R | 5 R/write_cal.R | 2 R/write_prj.R | 21 R/write_rtf.R | 18 README.md | 10 build/stage23.rdb |binary build/vignette.rds |binary inst/doc/aa-intro.html | 4 inst/doc/ab-pre-processing-recipes.R | 2 inst/doc/ab-pre-processing-recipes.html | 4 inst/doc/ab-pre-processing-recipes.qmd | 2 inst/doc/ac-mathematical-overview-of-regression-algorithms.html | 4 inst/doc/ad-proximate-building-applications.R | 2 inst/doc/ad-proximate-building-applications.html | 4 inst/doc/ad-proximate-building-applications.qmd | 2 inst/doc/ae-proxiscout-building-applications.R | 2 inst/doc/ae-proxiscout-building-applications.html | 4 inst/doc/ae-proxiscout-building-applications.qmd | 2 inst/doc/af-proximate-structure-of-the-applications.html | 4 inst/doc/ag-proxiscout-structure-of-the-applications.html | 4 inst/doc/ah-read-and-recalibrate-applications.R | 2 inst/doc/ah-read-and-recalibrate-applications.html | 4 inst/doc/ah-read-and-recalibrate-applications.qmd | 2 inst/model_plot_template.qmd | 19 man/add_application_metadata.Rd | 27 man/add_model_metadata.Rd | 16 man/calibrate.Rd | 3 man/calibrate_models.Rd | 26 man/calibration_control.Rd | 27 man/extract_property_names.Rd | 3 man/plot.spectral_model.Rd | 9 man/prep_detrend.Rd | 3 man/proximate_recalibrate_nax.Rd | 12 man/proximate_write_data.Rd | 13 man/proximate_write_nax.Rd | 8 man/proximetricsR-package.Rd | 2 man/read_spc.Rd | 2 tests/testthat/_snaps/proxiscout_write_model.md |only tests/testthat/test-add_model_metadata.R | 1 tests/testthat/test-calibrate.R | 1 tests/testthat/test-calibrate_cv.R | 1 tests/testthat/test-calibration_control.R | 1 tests/testthat/test-fit_constructors.R | 1 tests/testthat/test-prep_derivatives.R | 2 tests/testthat/test-prep_resample.R | 2 tests/testthat/test-prep_smooth.R | 2 tests/testthat/test-prep_wav_trim.R | 13 tests/testthat/test-process.R | 10 tests/testthat/test-proximate_data.R | 3 tests/testthat/test-proximate_merge.R | 13 tests/testthat/test-proximate_read_cal.R | 12 tests/testthat/test-proximate_read_nax.R | 2 tests/testthat/test-proximate_recalibrate_nax.R | 3 tests/testthat/test-proxiscout_write_model.R | 436 +++++++++- tests/testthat/test-read_spc.R | 37 tests/testthat/test-validate_prediction.R | 1 tests/testthat/test-write_cal.R | 4 tests/testthat/test-write_nax.R | 1 tests/testthat/test-write_rtf.R | 10 tests/testthat/testdata/ProxiScout_SoyaCake_Train.xlsx |only tests/testthat/testdata/SoyaCake_Test.xlsx |only vignettes/ab-pre-processing-recipes.qmd | 2 vignettes/ad-proximate-building-applications.qmd | 2 vignettes/ae-proxiscout-building-applications.qmd | 2 vignettes/ah-read-and-recalibrate-applications.qmd | 2 105 files changed, 1449 insertions(+), 981 deletions(-)
Title: An R Autograding Extension for Otter-Grader
Description: An R autograding extension for Otter-Grader (<https://otter-grader.readthedocs.io>). It supports
grading R scripts, R Markdown documents, and R Jupyter Notebooks.
Author: Christopher Pyles [aut, cre] ,
UC Berkeley Data Science Education Program [cph]
Maintainer: Christopher Pyles <cpyles@berkeley.edu>
Diff between ottr versions 1.5.3 dated 2025-10-11 and 1.6.0 dated 2026-07-17
DESCRIPTION | 13 +-- MD5 | 28 +++---- R/export.R | 43 +++++++++- R/save_notebook.R | 4 + R/utils.R | 3 README.md | 2 man/CheckCollector.Rd | 106 ++++++++++++++------------ man/GradingResults.Rd | 116 +++++++++++++++-------------- man/TestCase.Rd | 149 +++++++++++++++++++------------------ man/TestCaseResult.Rd | 172 ++++++++++++++++++++++--------------------- man/TestFileResult.Rd | 172 ++++++++++++++++++++++--------------------- man/collector_env.Rd | 5 - man/collector_varname.Rd | 5 - man/export.Rd | 6 - tests/testthat/test_export.R | 62 +++++++++++++++ 15 files changed, 507 insertions(+), 379 deletions(-)
Title: Non-Local Prior Based Iterative Variable Selection Tool for
Genome-Wide Association Studies
Description: Performs variable selection with data from Genome-wide association studies (GWAS), or other high-dimensional data with continuous, binary or survival outcomes, combining in an iterative framework the computational efficiency of the structured screen-and-select variable selection strategy based on some association learning and the parsimonious uncertainty quantification provided by the use of non-local priors (see Sanyal et al., 2019 <DOI:10.1093/bioinformatics/bty472>).
Author: Nilotpal Sanyal [aut, cre]
Maintainer: Nilotpal Sanyal <nilotpal.sanyal@gmail.com>
Diff between GWASinlps versions 2.4 dated 2025-10-29 and 2.5 dated 2026-07-17
DESCRIPTION | 10 +- MD5 | 20 ++-- NAMESPACE | 2 NEWS | 4 NEWS.md | 4 R/GWASinlps.R | 24 ++--- README.md | 196 +++++++++++++++++++++++++++++++++++++++++++---- man/GWASinlps-package.Rd | 4 man/GWASinlps.Rd | 12 +- man/nlps.Rd | 10 +- src/RcppExports.cpp | 2 11 files changed, 233 insertions(+), 55 deletions(-)
Title: Batch Correction of Single Cell Transcriptome Data
Description: Non-linear/linear hybrid method for batch-effect correction
that uses Mutual Nearest Neighbors (MNNs) to identify similar cells between
datasets. Reference: Loza M. et al. (NAR Genomics and Bioinformatics, 2020) <doi:10.1093/nargab/lqac022>.
Author: Martin Loza [aut, cre] ,
Diego Diez [aut]
Maintainer: Martin Loza <martin.loza.lopez@gmail.com>
Diff between Canek versions 0.2.5 dated 2023-12-08 and 0.3.1 dated 2026-07-17
DESCRIPTION | 15 - MD5 | 50 ++-- NEWS.md | 70 ++++++ R/BatchCorrection.R | 262 ++++++++++++++++++------ R/Fuzzy.R | 14 - R/MNN.R | 55 ++++- R/RunCanek.R | 120 ++++++++-- README.md | 47 +++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/toy_example.R | 2 inst/doc/toy_example.html | 72 +++--- man/Canek-package.Rd | 1 man/CorrectBatch.Rd | 21 + man/CorrectBatches.Rd | 36 +++ man/RunCanek.Rd | 24 ++ tests/testthat/test-CorrectBatches.R | 27 ++ tests/testthat/test-GetMnnPairs.R | 36 +++ tests/testthat/test_RunCanek.R | 198 +++++++++++++++++- vignettes/articles/Best_practices_thymus.Rmd | 13 + vignettes/articles/Parallel-processing.Rmd |only vignettes/articles/Parallel-processing.Rmd.orig |only vignettes/articles/SCTransform.Rmd |only vignettes/articles/SCTransform.Rmd.orig |only vignettes/articles/figure |only vignettes/articles/legacy.Rmd |only vignettes/articles/seurat.Rmd | 82 +++++-- vignettes/articles/seurat_gene_expression.Rmd |only 28 files changed, 936 insertions(+), 209 deletions(-)
Title: Windowed Cross Correlation
Description: Calculates Windowed Cross Correlation for pairs of time series.
Provides support for surrogate analysis for nonparametric test of significance.
Calculates aggregate statistics over a range of parameter values.
Plots the results as Windowed Cross Correlation plots and heat maps.
The software is described in Boker, S. M., Rotondo, J. L., Xu, M., & King, K. (2002). Windowed cross-correlation and peak picking for the analysis of variability in the association between behavioral time series. Psychological Methods, 7(3), 338.
Author: Steven Boker [aut, cre],
Minquan Xu [aut],
Sareena Chadha [aut],
Christopher Welker [aut],
Jingyun Wu [aut],
Pascal Deboeck [aut],
Aaron Peikert [aut],
Claude [aut]
Maintainer: Steven Boker <smb3u@virginia.edu>
Diff between wcc versions 0.4.0 dated 2026-07-14 and 0.4.1 dated 2026-07-17
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/windcrosscum.c | 5 +++-- 3 files changed, 9 insertions(+), 8 deletions(-)
Title: Client for Statistics Canada's Open Economic Data
Description: Provides an R client for Statistics Canada's Web Data Service.
Users can describe the data they need in natural language, search the
official table catalogue, and download complete data tables in English or
French as data frames. Tables formerly known as CANSIM tables are
identified by Product IDs. Warin (2024)
<doi:10.5070/T5.1868>.
Author: Thierry Warin [aut, cre]
Maintainer: Thierry Warin <thierry.warin@hec.ca>
This is a re-admission after prior archival of version 0.2.6 dated 2023-08-17
Diff between statcanR versions 0.2.6 dated 2023-08-17 and 0.3.0 dated 2026-07-17
statcanR-0.2.6/statcanR/inst/README.Rmd |only statcanR-0.2.6/statcanR/inst/README.md |only statcanR-0.2.6/statcanR/inst/doc/statCanR.R |only statcanR-0.2.6/statcanR/inst/doc/statCanR.Rmd |only statcanR-0.2.6/statcanR/inst/doc/statCanR.html |only statcanR-0.2.6/statcanR/inst/doc/vignettes.R |only statcanR-0.2.6/statcanR/inst/doc/vignettes.Rmd |only statcanR-0.2.6/statcanR/inst/doc/vignettes.html |only statcanR-0.2.6/statcanR/man/figures |only statcanR-0.2.6/statcanR/vignettes/statCanR.Rmd |only statcanR-0.2.6/statcanR/vignettes/statcanR_example1.R |only statcanR-0.2.6/statcanR/vignettes/statcanR_example1.html |only statcanR-0.2.6/statcanR/vignettes/statcanR_example2.R |only statcanR-0.2.6/statcanR/vignettes/statcanR_example2.html |only statcanR-0.2.6/statcanR/vignettes/vignettes.Rmd |only statcanR-0.3.0/statcanR/DESCRIPTION | 35 statcanR-0.3.0/statcanR/MD5 | 48 - statcanR-0.3.0/statcanR/NAMESPACE | 12 statcanR-0.3.0/statcanR/NEWS.md | 68 + statcanR-0.3.0/statcanR/R/statCanR.R | 691 ++++++++------- statcanR-0.3.0/statcanR/R/statcan_find.R |only statcanR-0.3.0/statcanR/R/statcan_search.R | 338 +++++-- statcanR-0.3.0/statcanR/README.md | 289 ++++-- statcanR-0.3.0/statcanR/build/vignette.rds |binary statcanR-0.3.0/statcanR/inst/CITATION |only statcanR-0.3.0/statcanR/inst/doc/getting-started.R |only statcanR-0.3.0/statcanR/inst/doc/getting-started.Rmd |only statcanR-0.3.0/statcanR/inst/doc/getting-started.html |only statcanR-0.3.0/statcanR/man/statcan_data.Rd | 36 statcanR-0.3.0/statcanR/man/statcan_download_data.Rd | 27 statcanR-0.3.0/statcanR/man/statcan_find.Rd |only statcanR-0.3.0/statcanR/man/statcan_search.Rd | 31 statcanR-0.3.0/statcanR/tests |only statcanR-0.3.0/statcanR/vignettes/getting-started.Rmd |only 34 files changed, 993 insertions(+), 582 deletions(-)
Title: Deterministic, Zero-Copy Parallel Execution for R
Description: Provides a parallel execution runtime for R that emphasizes
deterministic memory behavior and efficient handling of large shared inputs.
'shard' enables zero-copy parallel reads via shared/memory-mapped segments,
encourages explicit output buffers to avoid large result aggregation, and
supervises worker processes to mitigate memory drift via controlled recycling.
Diagnostics report peak memory usage, end-of-run memory return, and hidden
copy/materialization events to support reproducible performance benchmarking.
Author: Bradley Buchsbaum [aut, cre, cph]
Maintainer: Bradley Buchsbaum <brad.buchsbaum@gmail.com>
Diff between shard versions 0.1.1 dated 2026-04-05 and 0.2.0 dated 2026-07-17
DESCRIPTION | 6 MD5 | 137 ++-- NEWS.md |only R/affinity.R | 7 R/altrep.R | 18 R/buffer.R | 494 +++++++++++++---- R/dispatch.R | 390 +++++++------ R/dispatch_shm_queue.R | 48 + R/kernels.R | 6 R/pool.R | 99 +++ R/queue.R | 132 +++- R/scratch.R | 35 + R/segment.R | 15 R/shard_map.R | 424 ++++++++++++-- R/shard_reduce.R | 303 +++++++--- R/shards.R | 92 ++- R/share.R | 152 +++-- R/shm_queue.R | 9 R/table_stream.R | 22 R/tables.R | 39 + R/utils.R | 55 + R/views.R | 13 R/worker.R | 53 + README.md | 5 inst/bench/attach-registry.R |only inst/bench/current_vs_cran.R |only inst/bench/dispatch-overhead.R |only inst/bench/taskq-claims.R |only inst/doc/shard.html | 14 man/as_shared.Rd | 7 man/buffer_diagnostics.Rd | 11 man/dispatch_chunks.Rd | 16 man/pool_create.Rd | 6 man/shard_map.Rd | 26 man/shard_reduce.Rd | 47 + man/share.Rd | 8 man/shared_diagnostics.Rd | 3 src/Makevars | 5 src/Makevars.win | 2 src/init.c | 5 src/shard_altrep.c | 311 ++++++++-- src/shard_r.h | 10 src/shard_shm.c | 566 ++++++++++++++++++-- src/shard_shm.h | 52 + src/shard_taskq.c | 189 ++++++ src/shard_taskq.h | 1 tests/testthat/test-affinity-pin.R |only tests/testthat/test-buffer-coerce-edge.R |only tests/testthat/test-buffer.R | 221 +++++++ tests/testthat/test-coverage-supplement.R |only tests/testthat/test-cow-mutation-allow.R |only tests/testthat/test-deep-share.R | 15 tests/testthat/test-diagnostics-reports.R |only tests/testthat/test-efficiency-020.R |only tests/testthat/test-ergonomics-pure.R |only tests/testthat/test-kernel-registry-direct.R |only tests/testthat/test-kernel_registry.R | 46 + tests/testthat/test-misc-coverage.R |only tests/testthat/test-phase1-c-layer.R |only tests/testthat/test-phase1-dispatch-seed.R |only tests/testthat/test-phase1-r-misc.R |only tests/testthat/test-phase2-dispatch-serialization.R |only tests/testthat/test-phase2-reduce.R |only tests/testthat/test-phase3-altrep-perf.R |only tests/testthat/test-phase3-taskq.R |only tests/testthat/test-queue-internal.R |only tests/testthat/test-regressions-020.R |only tests/testthat/test-rss-monitor.R |only tests/testthat/test-scratch-internal.R |only tests/testthat/test-scratch_pool.R | 35 + tests/testthat/test-shard_map.R | 20 tests/testthat/test-shards-edge.R |only tests/testthat/test-shards.R | 29 + tests/testthat/test-share.R | 16 tests/testthat/test-shm_queue-dispatch.R | 44 + tests/testthat/test-table-stream-local.R |only tests/testthat/test-table_stream.R | 80 ++ tests/testthat/test-tables-local.R |only tests/testthat/test-tables.R | 28 tests/testthat/test-utils-internal.R |only tests/testthat/test-utils.R | 26 tests/testthat/test-view-gather-kernel-shard_map.R | 29 + tests/testthat/test-view-materialize-hotspots.R | 28 tests/testthat/test-views-edge.R |only tests/testthat/test-views-pure.R |only 85 files changed, 3583 insertions(+), 867 deletions(-)
Title: Neural Network Weights Transformation into Polynomial
Coefficients
Description: Implements a method that builds the coefficients of a polynomial
model that performs almost equivalently as a given neural network
(densely connected). This is achieved using Taylor expansion at the
activation functions. The obtained polynomial coefficients can be used
to explain features (and their interactions) importance in the neural network,
therefore working as a tool for interpretability or eXplainable Artificial
Intelligence (XAI). See Morala et al. 2021 <doi:10.1016/j.neunet.2021.04.036>,
and 2023 <doi:10.1109/TNNLS.2023.3330328>.
Author: Pablo Morala [aut, cre] ,
Inaki Ucar [aut] ,
Jose Ignacio Diez [ctr]
Maintainer: Pablo Morala <moralapablo@gmail.com>
Diff between nn2poly versions 1.0.0 dated 2026-07-17 and 1.0.1 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ src/linalg_arma.h | 6 +++--- src/linalg_eigen.h | 12 +++++------- src/linalg_torch.h | 11 +++++------ src/nn2poly_types.h | 4 +++- src/wrap.cpp | 6 +++--- 8 files changed, 33 insertions(+), 30 deletions(-)
Title: Providing Fast and Flexible Functions for Distance Correlation
Analysis
Description: Provides methods for distance covariance and distance correlation (Szekely, et al. (2007) <doi:10.1214/009053607000000505>), generalized version thereof (Sejdinovic, et al. (2013) <doi:10.1214/13-AOS1140>) and corresponding tests (Berschneider, Bottcher (2018) <doi:10.48550/arXiv.1808.07280>. Distance standard deviation methods (Edelmann, et al. (2020) <doi:10.1214/19-AOS1935>) and distance correlation methods for survival endpoints (Edelmann, et al. (2021) <doi:10.1111/biom.13470>) are also included.
Author: Dominic Edelmann [aut, cre],
Jochen Fiedler [aut]
Maintainer: Dominic Edelmann <dominic.edelmann@dkfz-heidelberg.de>
Diff between dcortools versions 0.2.1 dated 2026-07-16 and 0.2.2 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 12 ++++++++++++ R/distcov_test2.R | 8 ++++---- build/partial.rdb |binary 5 files changed, 23 insertions(+), 11 deletions(-)
Title: Bayesian Dynamic Borrowing with Flexible Baseline Hazard
Function
Description: Allows Bayesian borrowing from a historical dataset for time-to-
event data. A flexible baseline hazard function is achieved via a piecewise
exponential likelihood with time varying split points and smoothing prior on the
historic baseline hazards. The method is described in Scott and Lewin (2026)
<doi:10.1093/biostatistics/kxag006>, and a paper focused on the software is
in Scott, Axillus, Lewin and Izmirlian (2026) <doi:10.48550/arXiv.2408.04327>.
Author: Darren Scott [aut],
Sophia Axillus [aut],
Grant Izmirlian [aut, cre]
Maintainer: Grant Izmirlian <grant.izmirlian@astrazeneca.com>
Diff between BayesFBHborrow versions 2.0.12 dated 2026-07-17 and 2.0.14 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- inst/doc/Using-BayesFBHborrow.R | 20 ++++++++++++++++---- inst/doc/Using-BayesFBHborrow.Rnw | 32 +++++++++++++++++++------------- inst/doc/Using-BayesFBHborrow.pdf |binary vignettes/Using-BayesFBHborrow.Rnw | 32 +++++++++++++++++++------------- vignettes/bfbhb-gbcs-exmpls.rda |binary vignettes/bfbhb-gbcs-nb-exmpl.rda |binary vignettes/bfbhb-sim-exmpls.rda |binary 9 files changed, 65 insertions(+), 41 deletions(-)
More information about BayesFBHborrow at CRAN
Permanent link
Title: Convert Data among QTL Mapping Packages
Description: Functions to convert data structures among the 'qtl2', 'qtl', and 'DOQTL' packages for mapping quantitative trait loci (QTL).
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl2convert versions 0.34 dated 2026-06-09 and 0.36 dated 2026-07-17
DESCRIPTION | 8 +-- MD5 | 16 +++---- NEWS.md | 11 ++++ R/cluster_util.R | 6 +- README.md | 4 - tests/testthat/test-cross2_do_to_genail8.R | 2 tests/testthat/test-map_df_to_list.R | 31 ++++++------- tests/testthat/test-map_list_to_df.R | 66 +++++++++++++---------------- tests/testthat/test-probs_doqtl_to_qtl2.R | 2 9 files changed, 76 insertions(+), 70 deletions(-)
Title: Diffs for R Objects
Description: Generate a colorized diff of two R objects for an intuitive
visualization of their differences.
Author: Brodie Gaslam [aut, cre],
Michael B. Allen [ctb, cph]
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>
Diff between diffobj versions 0.3.6 dated 2025-04-21 and 0.3.8 dated 2026-07-17
DESCRIPTION | 10 - MD5 | 44 ++--- NEWS.md | 7 R/misc.R | 18 -- R/pager.R | 2 R/styles.R | 309 +++++++++++++++++++++++++---------------- build/vignette.rds |binary inst/doc/embed.Rmd | 2 inst/doc/embed.html | 2 man/Style.Rd | 173 +++++++++++++--------- man/StyleFuns.Rd | 106 +++++++------- man/StyleText.Rd | 50 ++++-- man/diffobj-package.Rd | 5 man/view_or_browse.Rd | 2 tests/test-core.R | 4 tests/test-core.Rout.save | 4 tests/test-diffChr.R | 2 tests/test-diffChr.Rout.save | 2 tests/test-diffPrint.R | 4 tests/test-diffPrint.Rout.save | 4 tests/test-misc.R | 4 tests/test-misc.Rout.save | 16 -- vignettes/embed.Rmd | 2 23 files changed, 442 insertions(+), 330 deletions(-)
Title: Nonparametric ANCOVA Methods
Description: Nonparametric methods for analysis of covariance (ANCOVA) are
distribution-free and provide a flexible statistical framework for
situations where the assumptions of parametric ANCOVA are violated
or when the response variable is ordinal. This package implements
several well-known nonparametric ANCOVA procedures, including Quade,
Puri and Sen, McSweeney and Porter, Burnett and Barr, Hettmansperger
and McKean, Shirley, and Puri-Sen-Harwell-Serlin. The package provides
user-friendly functions to apply these methods in practice.
These methods are described in Olejnik et al. (1985)
<doi:10.1177/0193841X8500900104> and Harwell et al. (1988)
<doi:10.1037/0033-2909.104.2.268>.
Author: Mina Jahangiri [aut, cre] ,
Ali Taghavi Rad [aut] ,
Anoshirvan Kazemnejad [aut] ,
Keith Goldfeld [ctb] ,
Shayan Mostafaei [ctb]
Maintainer: Mina Jahangiri <minajahangiri984@gmail.com>
Diff between npANCOVA versions 0.1.1 dated 2025-12-20 and 0.2.0 dated 2026-07-17
npANCOVA-0.1.1/npANCOVA/R/McSweeny_Porter.r |only npANCOVA-0.1.1/npANCOVA/R/Puri_Sen_MB.r |only npANCOVA-0.1.1/npANCOVA/R/Puri_Sen_MU.R |only npANCOVA-0.1.1/npANCOVA/R/Puri_Sen_OB.R |only npANCOVA-0.1.1/npANCOVA/R/Puri_Sen_OU.r |only npANCOVA-0.1.1/npANCOVA/man/McSweeny_Porter.Rd |only npANCOVA-0.1.1/npANCOVA/man/Puri_Sen_MB.Rd |only npANCOVA-0.1.1/npANCOVA/man/Puri_Sen_MU.Rd |only npANCOVA-0.1.1/npANCOVA/man/Puri_Sen_OB.Rd |only npANCOVA-0.1.1/npANCOVA/man/Puri_Sen_OU.Rd |only npANCOVA-0.1.1/npANCOVA/man/npANCOVA.Rd |only npANCOVA-0.2.0/npANCOVA/DESCRIPTION | 8 +- npANCOVA-0.2.0/npANCOVA/MD5 | 52 +++++++++--------- npANCOVA-0.2.0/npANCOVA/NAMESPACE | 54 ++++++++++--------- npANCOVA-0.2.0/npANCOVA/NEWS.md | 31 +++++++++- npANCOVA-0.2.0/npANCOVA/R/Burnett_Barr.r | 16 +++-- npANCOVA-0.2.0/npANCOVA/R/Harwell_Serlin.r | 24 +++++--- npANCOVA-0.2.0/npANCOVA/R/Hettmansperger_McKean.r | 48 +++++++++++----- npANCOVA-0.2.0/npANCOVA/R/McSweeney_Porter.r |only npANCOVA-0.2.0/npANCOVA/R/Puri_Sen_BVCM.r |only npANCOVA-0.2.0/npANCOVA/R/Puri_Sen_UVCM.R |only npANCOVA-0.2.0/npANCOVA/R/Quade.r | 22 ++++--- npANCOVA-0.2.0/npANCOVA/R/Shirley.r | 32 ++++++----- npANCOVA-0.2.0/npANCOVA/R/npANCOVA-package.r | 42 ++++++++------ npANCOVA-0.2.0/npANCOVA/R/pairwise_npANCOVA.r |only npANCOVA-0.2.0/npANCOVA/R/summary_npANCOVA.r |only npANCOVA-0.2.0/npANCOVA/inst/WORDLIST | 2 npANCOVA-0.2.0/npANCOVA/man/Burnett_Barr.Rd | 20 +++---- npANCOVA-0.2.0/npANCOVA/man/Harwell_Serlin.Rd | 20 ++++--- npANCOVA-0.2.0/npANCOVA/man/Hettmansperger_McKean.Rd | 25 +++++--- npANCOVA-0.2.0/npANCOVA/man/McSweeney_Porter.Rd |only npANCOVA-0.2.0/npANCOVA/man/Puri_Sen_BVCM.Rd |only npANCOVA-0.2.0/npANCOVA/man/Puri_Sen_UVCM.Rd |only npANCOVA-0.2.0/npANCOVA/man/Quade.Rd | 22 ++++--- npANCOVA-0.2.0/npANCOVA/man/Shirley.Rd | 26 ++++----- npANCOVA-0.2.0/npANCOVA/man/npANCOVA-package.Rd |only npANCOVA-0.2.0/npANCOVA/man/pairwise_npANCOVA.Rd |only npANCOVA-0.2.0/npANCOVA/man/summary_npANCOVA.Rd |only 38 files changed, 267 insertions(+), 177 deletions(-)
Title: Seawater Carbonate Chemistry
Description: Calculates parameters of the seawater carbonate system and assists in design of ocean acidification perturbation experiments.
Author: James Orr [aut, cre, cph],
Jean-Pierre Gattuso [aut],
Jean-Marie Epitalon [aut],
Heloise Lavigne [aut],
Bernard Gentili [ctb],
Mathilde Hagens [ctb],
Andreas Hofmann [ctb],
Jens-Daniel Mueller [ctb],
Aurelien Proye [ctb],
James Rae [ctb],
Karline Soe [...truncated...]
Maintainer: James Orr <james.orr@lsce.ipsl.fr>
Diff between seacarb versions 3.3.4 dated 2026-04-17 and 3.4.0 dated 2026-07-17
ChangeLog | 30 ++++++++ DESCRIPTION | 16 ++-- MD5 | 84 +++++++++++++----------- NAMESPACE | 2 R/Khs.R | 162 +++++++++++++++++++++++++++-------------------- R/Kn.R | 156 +++++++++++++++++++++++++-------------------- R/buffderiv.R |only R/buffer.R | 109 ++++++++++++++++++++++++++++--- R/buffesm.R | 103 ++++++++++++++++++++++++----- R/buffsun.R |only R/buffzwg.R |only R/dlnK.R |only README.md | 8 +- build |only man/K2si.Rd | 2 man/Khs.Rd | 6 + man/Kn.Rd | 5 - man/Ksi.Rd | 2 man/Om.Rd | 2 man/SIR.Rd | 10 +- man/SIR_b.Rd | 10 +- man/SIR_full.Rd | 12 ++- man/bor.Rd | 2 man/buffderiv.Rd |only man/buffer.Rd | 98 +++++++++++++++++++++++----- man/buffergen.Rd | 6 - man/buffesm.Rd | 42 ++++++++---- man/buffsun.Rd |only man/buffzwg.Rd |only man/carb.Rd | 18 ++--- man/carbb.Rd | 4 - man/carbfull.Rd | 14 ++-- man/oa.Rd | 12 ++- man/p2xCO2.Rd | 9 -- man/pCa.Rd | 2 man/pHspec.Rd | 2 man/pTA.Rd | 4 - man/pgas.Rd | 2 man/pmix.Rd | 2 man/ppH.Rd | 2 man/psi.Rd | 2 man/seacarb_test_P0.Rd | 2 man/seacarb_test_P300.Rd | 2 man/tris.Rd | 4 - man/x2pCO2.Rd | 8 -- tests |only 46 files changed, 644 insertions(+), 312 deletions(-)
Title: Graphical VAR for Experience Sampling Data
Description: Estimates within and between time point interactions in experience sampling data, using the Graphical vector autoregression model in combination with regularization. See also Epskamp, Waldorp, Mottus & Borsboom (2018) <doi:10.1080/00273171.2018.1454823>.
Author: Sacha Epskamp [aut, cre],
Eren Asena [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between graphicalVAR versions 0.3.4 dated 2024-02-20 and 0.4.1 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 3 +++ R/Rothmana.R | 2 +- R/dataPrep.R | 4 ++-- man/graphicalVAR.Rd | 2 +- 6 files changed, 15 insertions(+), 12 deletions(-)
Title: Path Diagrams and Visual Analysis of Various SEM Packages'
Output
Description: Path diagrams and visual analysis of various SEM packages' output.
Author: Sacha Epskamp [aut, cre],
Simon Stuber [ctb],
Jason Nak [ctb],
Myrthe Veenman [ctb],
Terrence D. Jorgensen [ctb] ,
Adela Maria Isvoranu [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between semPlot versions 1.1.8 dated 2026-02-11 and 1.2.0 dated 2026-07-17
DESCRIPTION | 23 +++-- MD5 | 48 ++++++----- NAMESPACE | 17 ++-- NEWS | 107 +++++++++++++++++++++++++ R/00classes.R | 171 +++++++++++++++++++++++++++++++++-------- R/OpenMx.R | 8 + R/PLS.R |only R/amos.R | 6 + R/defExo.R | 6 - R/glm.R | 48 ++++++++--- R/lavaan.R | 129 ++++++++++++++++++++++++------ R/lavaan_mi.R |only R/metaSEM.R |only R/onyx.R | 28 +++--- R/operators.R | 8 + R/piecewiseSEM.R |only R/psych.R |only R/psychonetrics.R |only R/regsemplot.R | 2 R/sem.R | 10 ++ R/semCors.R | 9 +- R/semPaths.R | 46 +++++------ R/semSyntax.R | 38 ++++++++- R/semstandmsem.R | 2 man/registerSemPlotImporter.Rd |only man/regsemplot.Rd | 4 man/semPaths.Rd | 15 +-- man/semPlotModel.Rd | 51 ++++++++++++ tests |only 29 files changed, 612 insertions(+), 164 deletions(-)
Title: Log-Likelihood Functions for 'rxode2'
Description: Provides the log-likelihoods with gradients from 'stan'
(Carpenter et al (2015), <doi:10.48550/arXiv.1509.07164>) needed
for generalized log-likelihood estimation in 'nlmixr2'
(Fidler et al (2019) <doi:10.1002/psp4.12445>). This is
split of to reduce computational burden of recompiling 'rxode2'
(Wang, Hallow and James (2016) <doi:10.1002/psp4.12052>) which runs
the 'nlmixr2' models during estimation.
Author: Matthew L. Fidler [aut, cre]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2ll versions 2.0.14 dated 2026-02-24 and 2.0.15 dated 2026-07-17
DESCRIPTION | 6 - MD5 | 38 +++--- NEWS.md | 24 ++++ inst/tools/workaround.R | 3 src/llikBeta.cpp | 7 - src/llikBinom.cpp | 19 ++- src/llikCauchy.cpp | 8 - src/llikChisq.cpp | 6 - src/llikExp.cpp | 6 - src/llikF.cpp | 4 src/llikGamma.cpp | 6 - src/llikGeom.cpp | 12 +- src/llikNbinom.cpp | 14 ++ src/llikNbinom2.cpp | 14 ++ src/llikNorm.cpp | 8 - src/llikPois.cpp | 16 ++ src/llikT.cpp | 6 - src/llikUnif.cpp | 6 - src/llikWeibull.cpp | 9 - tests/testthat/test-llik.R | 259 ++++++++++++++++++++++++++++++++++++++++++++- 20 files changed, 398 insertions(+), 73 deletions(-)
Title: NeuroAnatomy Toolbox ('nat') Extension for Handling Template
Brains
Description: Extends package 'nat' (NeuroAnatomy Toolbox) by
providing objects and functions for handling template brains.
Author: Gregory Jefferis [aut, cre] ,
James Manton [aut]
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Diff between nat.templatebrains versions 1.2.1 dated 2025-08-18 and 1.2.3 dated 2026-07-17
DESCRIPTION | 6 +- MD5 | 12 ++--- NEWS.md | 14 ++++++ R/reg_repos.R | 75 +++++++++++++++++++++++++++-------- R/transformation.R | 27 +++++++++++- data/FCWB.demo.R | 4 - tests/testthat/test-transformation.r | 13 +++++- 7 files changed, 120 insertions(+), 31 deletions(-)
More information about nat.templatebrains at CRAN
Permanent link
Title: Download, Process and Visualize IMD Gridded Meteorological Data
Description: Interface to India Meteorological Department (IMD) gridded
daily rainfall (0.25 degree, 1901-present) and temperature
(1.0 degree, 1951-present) binary data. Provides functions to
download, read, extract by point or boundary, compute climate
indices, perform trend analysis, and produce publication-quality
maps with Survey of India approved boundaries.
Author: Subhradip Bhattacharjee [aut, cre],
Amitava Panja [aut],
Ankita Chakraborty [aut],
Basavareddy [aut]
Maintainer: Subhradip Bhattacharjee <subhradip25@gmail.com>
Diff between imdR versions 0.1.1 dated 2026-06-23 and 0.4.0 dated 2026-07-17
DESCRIPTION | 9 MD5 | 40 ++-- NAMESPACE | 4 NEWS.md | 46 +++- R/district_series.R |only R/download.R | 143 ++++++++------ R/point.R | 165 +++++++++++++++++ R/realtime.R |only build/vignette.rds |binary inst/benchmarks |only inst/doc/imdR-introduction.R | 47 ++++ inst/doc/imdR-introduction.Rmd | 95 ++++++++- inst/doc/imdR-introduction.html | 388 +++++++++++++++++++++++----------------- man/get_data.Rd | 26 ++ man/get_district_series.Rd |only man/get_points.Rd |only man/get_points_all.Rd |only man/get_realtime.Rd |only tests |only vignettes/imdR-introduction.Rmd | 95 ++++++++- 20 files changed, 780 insertions(+), 278 deletions(-)
Title: Optimization Frameworks for Tie-Oriented and Actor-Oriented
Relational Event Models
Description: Tools for fitting, diagnosing, and analyzing tie-oriented and
actor-oriented relational event models, under both frequentist and Bayesian
approaches. The package supports tie-oriented modeling (Butts, 2008,
<doi:10.1111/j.1467-9531.2008.00203.x>) and an actor-oriented modeling
framework (Stadtfeld et al., 2017, <doi:10.15195/v4.a14>),
with additional model diagnostics and goodness-of-fit tools.
Interfaces to estimation backends provide a range of extensions: random-effects (frailty)
relational event models capturing sender, receiver, and dyadic heterogeneity
(Juozaitiene & Wit 2024, <doi:10.1007/s11336-024-09952-x>;
Mulder & Hoff, 2024, <doi:10.1214/24-AOAS1885>), finite mixture
and dyadic latent class models for unobserved dyadic heterogeneity
(Lakdawala et al., 2026, <doi:10.1016/j.socnet.2026.06.006>), penalized estimation via the lasso,
ridge, and elastic net (Tibshirani, R., 1996,
<doi:10.1111/j.2517-6161.1996.tb02080.x>; Karimova et al. [...truncated...]
Author: Giuseppe Arena [aut, cre] ,
Joris Mulder [aut],
Rumana Lakdawala [aut],
Fabio Generoso Vieira [aut],
Marlyne Meijerink-Bosman [ctb],
Diana Karimova [ctb],
Mahdi Shafiee Kamalabad [ctb],
Roger Leenders [ctb]
Maintainer: Giuseppe Arena <g.arena@uva.nl>
Diff between remstimate versions 3.0.0 dated 2026-05-13 and 3.1.0 dated 2026-07-17
remstimate-3.0.0/remstimate/inst/tinytest/test-remstimate-warnings.R |only remstimate-3.1.0/remstimate/DESCRIPTION | 47 remstimate-3.1.0/remstimate/MD5 | 60 remstimate-3.1.0/remstimate/NAMESPACE | 54 remstimate-3.1.0/remstimate/R/aaa_strata.R |only remstimate-3.1.0/remstimate/R/diagnostics.R | 510 ++ remstimate-3.1.0/remstimate/R/plot.R | 234 + remstimate-3.1.0/remstimate/R/remstimate2.R | 1709 +++++----- remstimate-3.1.0/remstimate/R/remstimate_durem.R |only remstimate-3.1.0/remstimate/R/remstimate_glmm.R |only remstimate-3.1.0/remstimate/R/remstimate_glmnet.R |only remstimate-3.1.0/remstimate/R/remstimate_mixrem.R |only remstimate-3.1.0/remstimate/R/remstimate_shrinkem.R |only remstimate-3.1.0/remstimate/R/remstimate_stack_utils.R |only remstimate-3.1.0/remstimate/R/remtribute.R |only remstimate-3.1.0/remstimate/R/wrappers_remstimate.R |only remstimate-3.1.0/remstimate/inst/doc/remstimate.Rmd | 6 remstimate-3.1.0/remstimate/inst/doc/remstimate.html | 32 remstimate-3.1.0/remstimate/inst/tinytest/test-plot-diagnostics.R | 32 remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate-actor-oriented-ordinal-pt.R | 83 remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate-actor-oriented-pt.R | 80 remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate-actor-riskset.R | 34 remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate-durem-extended.R |only remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate-durem.R |only remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate-tie-oriented-pt.R | 80 remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate2-glm-validation.R | 96 remstimate-3.1.0/remstimate/inst/tinytest/test-remstimate2-sampled.R | 26 remstimate-3.1.0/remstimate/inst/tinytest/test_durem_pipeline.R |only remstimate-3.1.0/remstimate/inst/tinytest/test_penalized_unpenalized.R |only remstimate-3.1.0/remstimate/inst/tinytest/test_remstimate2.R | 2 remstimate-3.1.0/remstimate/inst/tinytest/test_remstimate_pipelines.R |only remstimate-3.1.0/remstimate/man/bic_table.Rd |only remstimate-3.1.0/remstimate/man/diagnostics.Rd | 64 remstimate-3.1.0/remstimate/man/dlcrem.Rd |only remstimate-3.1.0/remstimate/man/remfrailty.Rd |only remstimate-3.1.0/remstimate/man/remixture.Rd |only remstimate-3.1.0/remstimate/man/rempenalty.Rd |only remstimate-3.1.0/remstimate/man/remstimate-package.Rd | 4 remstimate-3.1.0/remstimate/man/remstimate.Rd | 281 + remstimate-3.1.0/remstimate/man/remtribute.Rd |only remstimate-3.1.0/remstimate/man/remwindow.Rd |only remstimate-3.1.0/remstimate/vignettes/remstimate.Rmd | 6 42 files changed, 2235 insertions(+), 1205 deletions(-)
Title: Bayesian Network Structure Learning, Parameter Learning and
Inference
Description: Bayesian network structure learning, parameter learning and inference.
This package implements constraint-based (PC, GS, IAMB, Inter-IAMB, MMPC,
Hiton-PC, HPC), pairwise (ARACNE and Chow-Liu), score-based (Hill-Climbing,
Tabu Search, DirectLiNGAM) and hybrid (MMHC, RSMAX2, H2PC) structure learning
algorithms for discrete, Gaussian, conditional Gaussian and zero-inflated
networks, along with many score functions and conditional independence tests.
The Naive Bayes and the Tree-Augmented Naive Bayes (TAN) classifiers are also
implemented. Some utility functions (model comparison and manipulation,
random data generation, arc orientation testing, simple and advanced plots)
are included, as well as support for parameter estimation (maximum likelihood
and Bayesian) and inference, conditional probability queries, interventions,
counterfactuals, cross-validation, bootstrap and model averaging. Development
snapshots with the latest bugfixes are available from
<https://www.bnlearn.com/>.
Author: Marco Scutari [aut, cre],
Tomi Silander [ctb]
Maintainer: Marco Scutari <scutari@bnlearn.com>
Diff between bnlearn versions 5.2 dated 2026-07-13 and 5.2.1 dated 2026-07-17
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/math/hypergeometric.c | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: A Workflow for Statistical Testing, Interpretation, and
'ggplot2'-Based Visualization
Description: Provides a unified workflow for choosing, running, interpreting,
and visualizing common statistical tests, from group comparisons and
analysis of variance to regression, survival analysis, and diagnostic and
agreement statistics. The package combines assumption checks, test
selection, effect sizes, formatted results, plain-language interpretation,
'ggplot2'-based statistical visualizations, and a sample-size planning
module covering continuous, binary, survival, ordinal, bioequivalence, and
precision-based designs. Implemented methods follow standard references
including Casella and Berger (2002, ISBN:9780534243128), Hollander et al.
(2013, ISBN:9781118553299), Agresti (2013, ISBN:9780470463635), Cohen
(1988, ISBN:9780805802832), Hosmer, Lemeshow and Sturdivant (2013,
ISBN:9780470582473), and Julious (2010, ISBN:9781584887393).
Author: Imad EL BADISY [aut, cre]
Maintainer: Imad EL BADISY <elbadisyimad@gmail.com>
Diff between testflow versions 0.8.2 dated 2026-07-02 and 0.9.0 dated 2026-07-17
DESCRIPTION | 30 + MD5 | 106 ++++-- NAMESPACE | 25 + NEWS.md | 359 +++++++++++++++++++++- R/assumptions.R | 118 +++++-- R/effect_sizes.R | 26 + R/posthoc.R | 4 R/print.R | 76 +++- R/reexports.R |only R/repeated-methods.R | 5 R/report.R | 4 R/sample_size.R |only R/test_agreement.R |only R/test_correlation.R | 25 + R/test_diagnostic.R |only R/test_factorial.R | 33 +- R/test_multinomial.R | 4 R/test_one_sample.R | 2 R/test_paired.R | 7 R/test_regression.R |only R/test_repeated.R | 6 R/test_survival.R |only R/utils-format.R | 39 ++ R/utils-validate.R | 17 - R/workflow-display.R |only README.md | 131 ++++++-- build/vignette.rds |binary inst/doc/effect-size-formulas.Rmd | 108 ++++++ inst/doc/effect-size-formulas.pdf |binary inst/doc/getting-started.pdf |binary inst/doc/sample-size-api-reference.R |only inst/doc/sample-size-api-reference.Rmd |only inst/doc/sample-size-api-reference.pdf |only inst/doc/sample-size-planning.R |only inst/doc/sample-size-planning.Rmd |only inst/doc/sample-size-planning.pdf |only inst/doc/statistical-test-workflows.R | 50 +++ inst/doc/statistical-test-workflows.Rmd | 127 +++++++ inst/doc/statistical-test-workflows.pdf |binary man/reexports.Rd |only man/sample_size.Rd |only man/sample_size_bioequivalence.Rd |only man/sample_size_cluster_adjust.Rd |only man/sample_size_precision.Rd |only man/test_agreement.Rd |only man/test_cox.Rd |only man/test_diagnostic.Rd |only man/test_factorial.Rd | 7 man/test_icc.Rd |only man/test_linear_regression.Rd |only man/test_logistic_regression.Rd |only man/test_multinomial.Rd | 2 man/test_roc.Rd |only man/test_survival.Rd |only tests/testthat/test-assumptions-categorical.R | 15 tests/testthat/test-assumptions-verified-checks.R |only tests/testthat/test-print.R | 80 ++++ tests/testthat/test-sample-size.R |only tests/testthat/test-test-agreement.R |only tests/testthat/test-test-categorical.R | 8 tests/testthat/test-test-correlation.R | 17 + tests/testthat/test-test-diagnostic.R |only tests/testthat/test-test-factorial.R | 32 + tests/testthat/test-test-groups.R | 4 tests/testthat/test-test-regression.R |only tests/testthat/test-test-repeated.R | 18 + tests/testthat/test-test-survival.R |only vignettes/effect-size-formulas.Rmd | 108 ++++++ vignettes/sample-size-api-reference.Rmd |only vignettes/sample-size-planning.Rmd |only vignettes/statistical-test-workflows.Rmd | 127 +++++++ 71 files changed, 1559 insertions(+), 161 deletions(-)
Title: Optimal Density Estimation via Shimazaki-Shinomoto Method
Description: Implements the Shimazaki-Shinomoto method for optimizing the
bin width of histograms and the bandwidth of kernel density estimators.
The framework minimizes the expected Mean Integrated Squared Error (MISE)
and supports both 1D and 2D distributions, fixed and locally adaptive
estimators, bootstrap confidence intervals, and 'OpenMP'-accelerated 'C++' 'backends'. Ideally suited for time-dependent rate estimation and
identifying intrinsic data structures. For more details see Shimazaki and
Shinomoto (2007) <doi:10.1162/neco.2007.19.6.1503> and Shimazaki and
Shinomoto (2010) <doi:10.1007/s10827-009-0180-4>.
Author: Daniil Popov [aut, cre]
Maintainer: Daniil Popov <popov.daniil@gmail.com>
Diff between sshist versions 0.2.3 dated 2026-07-15 and 0.2.4 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/sshist.R | 1 + inst/doc/introduction.html | 10 +++++----- 5 files changed, 19 insertions(+), 12 deletions(-)
Title: Prepare for Production of Seasonal Adjustment with 'JDemetra+'
Description: A comprehensive tool for setting up seasonal data pipelines
using 'JDemetra+' (version 3) and 'rjdverse'. This includes setting up
a new working environment, creating and selecting calendar regressors,
managing specifications (trading-days regressors and outliers) at the
workspace level, making a workspace usable by the 'cruncher', removing
insignificant outliers, and comparing workspaces.
Author: Tanguy Barthelemy [aut, cre, art]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3production versions 1.1.0 dated 2026-04-21 and 1.1.1 dated 2026-07-17
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More information about rjd3production at CRAN
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Title: A Toolkit for Recursive Partytioning
Description: A toolkit with infrastructure for representing, summarizing, and
visualizing tree-structured regression and classification models. This
unified infrastructure can be used for reading/coercing tree models from
different sources ('rpart', 'RWeka', 'PMML') yielding objects that share
functionality for print()/plot()/predict() methods. Furthermore, new and improved
reimplementations of conditional inference trees (ctree()) and model-based
recursive partitioning (mob()) from the 'party' package are provided based
on the new infrastructure. A description of this package was published
by Hothorn and Zeileis (2015) <https://jmlr.org/papers/v16/hothorn15a.html>.
Author: Torsten Hothorn [aut, cre] ,
Heidi Seibold [ctb] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between partykit versions 1.2-28 dated 2026-07-12 and 1.2-29 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 19 ++++++++++--------- R/mob-pvalue.R | 2 +- build/partial.rdb |binary inst/NEWS.Rd | 9 +++++++++ inst/REFERENCES.bib | 2 +- inst/REFERENCES.bib.sav |only inst/doc/constparty.pdf |binary inst/doc/ctree.pdf |binary inst/doc/mob.pdf |binary inst/doc/partykit.pdf |binary 11 files changed, 24 insertions(+), 14 deletions(-)
Title: Torch Seq2Seq Encoder-Decoder Model for Time-Feature Analysis
Description: Proposes Seq2seq Time-Feature Analysis using a torch Encoder-Decoder to project into latent space and a Forward Network to predict the next sequence, with dependency-light local support functions, tidy outputs and baseline backtesting helpers.
Author: Giancarlo Vercellino [aut, cre, cph]
Maintainer: Giancarlo Vercellino <giancarlo.vercellino@gmail.com>
Diff between codez versions 1.0.0 dated 2022-09-23 and 2.0.0 dated 2026-07-17
DESCRIPTION | 22 - MD5 | 20 - NAMESPACE | 37 - NEWS.md | 20 - R/aaa-support.R |only R/main.R | 834 ++++++++++++++++++++++++++------------------- R/v2-api.R |only README.md |only man/autoplot.Rd |only man/codez.Rd | 16 man/codez_control.Rd |only man/codez_forecast_tidy.Rd |only man/codez_model_methods.Rd |only man/fit_codez.Rd |only tests/testthat/test-main.R | 166 ++++++-- 15 files changed, 680 insertions(+), 435 deletions(-)
Title: Bayesian Dynamic Borrowing with Flexible Baseline Hazard
Function
Description: Allows Bayesian borrowing from a historical dataset for time-to-
event data. A flexible baseline hazard function is achieved via a piecewise
exponential likelihood with time varying split points and smoothing prior on the
historic baseline hazards. The method is described in Scott and Lewin (2026)
<doi:10.1093/biostatistics/kxag006>, and a paper focused on the software is
in Scott, Axillus, Lewin and Izmirlian (2026) <doi:10.48550/arXiv.2408.04327>.
Author: Darren Scott [aut],
Sophia Axillus [aut],
Grant Izmirlian [aut, cre]
Maintainer: Grant Izmirlian <grant.izmirlian@astrazeneca.com>
Diff between BayesFBHborrow versions 2.0.10 dated 2026-06-25 and 2.0.12 dated 2026-07-17
DESCRIPTION | 6 +-- MD5 | 15 +++++++-- R/BayesFBHborrow.R | 88 ++++++++++++----------------------------------------- build |only inst/doc |only vignettes |only 6 files changed, 37 insertions(+), 72 deletions(-)
More information about BayesFBHborrow at CRAN
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Title: An Accessible Interface for Stock-and-Flow Modelling
Description: Stock-and-flow models are a computational method from the
field of system dynamics. They represent how systems change over time
and are mathematically equivalent to ordinary differential equations.
'sdbuildR' (system dynamics builder) provides an intuitive interface
for constructing stock-and-flow models without requiring extensive
domain knowledge. Models can quickly be simulated and revised,
supporting iterative development. 'sdbuildR' simulates models in 'R'
and 'Julia', and supports computationally intensive ensemble
simulations. Additionally, 'sdbuildR' can import models created in
'Insight Maker' (<https://insightmaker.com/>).
Author: Kyra Caitlin Evers [aut, cre, cph] ,
STIX Fonts Project Authors [ctb, cph] , SIL Open Font License 1.1)
Maintainer: Kyra Caitlin Evers <kyra.c.evers@gmail.com>
Diff between sdbuildR versions 2.0.0 dated 2026-06-16 and 2.2.2 dated 2026-07-17
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Title: Out-of-Sample R² with Standard Error Estimation
Description: Estimates out-of-sample R² through bootstrap or cross-validation as a measure of predictive performance. In addition, a standard error for this point estimate is provided, and confidence intervals are constructed.
Author: Stijn Hawinkel [cre, aut]
Maintainer: Stijn Hawinkel <stijn.hawinkel@psb.ugent.be>
Diff between oosse versions 1.0.11 dated 2024-02-07 and 1.0.12 dated 2026-07-17
oosse-1.0.11/oosse/inst/NEWS.Rmd |only oosse-1.0.12/oosse/DESCRIPTION | 13 ++-- oosse-1.0.12/oosse/MD5 | 19 +++--- oosse-1.0.12/oosse/R/data.R | 4 - oosse-1.0.12/oosse/build/partial.rdb |binary oosse-1.0.12/oosse/build/vignette.rds |binary oosse-1.0.12/oosse/inst/NEWS.md | 5 + oosse-1.0.12/oosse/inst/REFERENCES.bib | 20 +++---- oosse-1.0.12/oosse/inst/doc/oosseVignette.R | 2 oosse-1.0.12/oosse/inst/doc/oosseVignette.html | 69 ++++++++++++------------- oosse-1.0.12/oosse/man/Brassica.Rd | 4 - 11 files changed, 72 insertions(+), 64 deletions(-)
Title: Analyse Eye Data
Description: Enables the automation of actions across the pipeline, including
initial steps of transforming binocular data and gap repair to event-based
processing such as fixations, saccades, and entry/duration in Areas of
Interest (AOIs). It also offers visualisation of eye movement and AOI
entries. These tools take relatively raw (trial, time, x, and y form) data
and can be used to return fixations, saccades, and AOI entries and time spent
in AOIs. As the tools rely on this basic data format, the functions can work
with data from any eye tracking device. Implements fixation and saccade
detection using methods proposed by Salvucci and Goldberg (2000)
<doi:10.1145/355017.355028>.
Author: Tom Beesley [aut, cre],
Matthew Ivory [aut]
Maintainer: Tom Beesley <t.beesley@lancaster.ac.uk>
Diff between eyetools versions 0.9.2 dated 2025-06-18 and 0.10.0 dated 2026-07-17
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Title: Standard TLGs for Clinical Trials Reporting
Description: Provide standard tables, listings, and graphs (TLGs)
libraries used in clinical trials. This package implements a structure
to reformat the data with 'dunlin', create reporting tables using
'rtables' and 'tern' with standardized input arguments to enable quick
generation of standard outputs. In addition, it also provides
comprehensive data checks and script generation functionality.
Author: Liming Li [aut] ,
Benoit Falquet [aut] ,
Xiaoli Duan [aut],
Adrian Waddell [ctb],
Chenkai Lv [ctb],
Pawel Rucki [ctb],
Tim Barnett [ctb],
Tian Fang [ctb],
Joe Zhu [cre] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
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More information about riemannianStats at CRAN
Permanent link
Title: Make Symmetric and Asymmetric ARDL Estimations
Description: Implements estimation procedures for Autoregressive Distributed Lag (ARDL)
and Nonlinear ARDL (NARDL) models, which allow researchers to investigate both
short- and long-run relationships in time series data under mixed orders of integration.
The package supports simultaneous modeling of symmetric and asymmetric regressors,
flexible treatment of short-run and long-run asymmetries, and automated equation handling.
It includes several cointegration testing approaches such as the Pesaran-Shin-Smith F
and t bounds tests, and narayan test.
Methodological foundations are provided in Pesaran, Shin, and Smith (2001)
<doi:10.1016/S0304-4076(01)00049-5> and Shin, Yu, and Greenwood-Nimmo (2014, ISBN:9780123855079).
Author: Huseyin karamelikli [aut, cre] ,
Huseyin Utku Demir [aut]
Maintainer: Huseyin karamelikli <hakperest@gmail.com>
Diff between kardl versions 2.0.2 dated 2026-06-24 and 2.0.4 dated 2026-07-17
kardl-2.0.2/kardl/R/data.R |only kardl-2.0.2/kardl/data |only kardl-2.0.2/kardl/man/imf_example_data.Rd |only kardl-2.0.4/kardl/DESCRIPTION | 12 kardl-2.0.4/kardl/MD5 | 95 - kardl-2.0.4/kardl/NEWS.md | 3 kardl-2.0.4/kardl/R/critvals.R | 2 kardl-2.0.4/kardl/R/extract.R | 76 - kardl-2.0.4/kardl/R/kardl.R | 145 +- kardl-2.0.4/kardl/R/longrun.R | 20 kardl-2.0.4/kardl/R/multipliers.R | 80 - kardl-2.0.4/kardl/R/prepare.R | 35 kardl-2.0.4/kardl/R/print.R | 476 ++++---- kardl-2.0.4/kardl/R/srr-stats-standards.R | 46 kardl-2.0.4/kardl/R/tests.R | 154 +- kardl-2.0.4/kardl/R/zzz.R | 6 kardl-2.0.4/kardl/README.md | 81 - kardl-2.0.4/kardl/build/partial.rdb |binary kardl-2.0.4/kardl/build/vignette.rds |binary kardl-2.0.4/kardl/inst/doc/intro.R | 39 kardl-2.0.4/kardl/inst/doc/intro.Rmd | 51 kardl-2.0.4/kardl/inst/doc/intro.html | 559 +++++----- kardl-2.0.4/kardl/man/bootstrap.Rd | 18 kardl-2.0.4/kardl/man/ecm.Rd | 33 kardl-2.0.4/kardl/man/kardl.Rd | 41 kardl-2.0.4/kardl/man/kardl_extract.Rd | 37 kardl-2.0.4/kardl/man/kardl_longrun.Rd | 11 kardl-2.0.4/kardl/man/kardl_set.Rd | 3 kardl-2.0.4/kardl/man/model_criterion.Rd | 18 kardl-2.0.4/kardl/man/mplier.Rd | 12 kardl-2.0.4/kardl/man/narayan.Rd | 17 kardl-2.0.4/kardl/man/pssf.Rd | 29 kardl-2.0.4/kardl/man/psst.Rd | 56 - kardl-2.0.4/kardl/man/symmetrytest.Rd | 17 kardl-2.0.4/kardl/tests/testthat/Rplots.pdf |binary kardl-2.0.4/kardl/tests/testthat/test-bounds-tests.R | 64 - kardl-2.0.4/kardl/tests/testthat/test-comprehensive-coverage.R | 86 + kardl-2.0.4/kardl/tests/testthat/test-decision-advanced.R | 84 + kardl-2.0.4/kardl/tests/testthat/test-error-conditions.R | 107 + kardl-2.0.4/kardl/tests/testthat/test-extract-advanced.R | 97 + kardl-2.0.4/kardl/tests/testthat/test-extract.R | 74 - kardl-2.0.4/kardl/tests/testthat/test-kardl.R | 56 - kardl-2.0.4/kardl/tests/testthat/test-miscellaneous-advanced.R | 23 kardl-2.0.4/kardl/tests/testthat/test-multipliers.R | 36 kardl-2.0.4/kardl/tests/testthat/test-print-advanced.R | 84 + kardl-2.0.4/kardl/tests/testthat/test-print-summary.R | 19 kardl-2.0.4/kardl/tests/testthat/test-print.R | 54 kardl-2.0.4/kardl/tests/testthat/test-tests.R | 111 + kardl-2.0.4/kardl/tests/testthat/test-utils.R | 16 kardl-2.0.4/kardl/vignettes/intro.Rmd | 51 50 files changed, 1910 insertions(+), 1224 deletions(-)
Title: Tools for Scoring and Evaluating Hubverse Model Outputs
Description: Provides tools for scoring and evaluating 'hubverse' model outputs
against observed data, wrapping scoring workflows from the
'scoringutils' package and bridging hubverse model output formats
to 'scoringutils' forecast classes.
Author: Anna Krystalli [aut, cre] ,
Nicholas Reich [aut] ,
Evan Ray [aut],
Nikos Bosse [aut] ,
Kimberlyn Roosa [aut],
Zhian Kamvar [ctb] ,
Li Shandross [ctb] ,
Becky Sweger [ctb],
Lucie Contamin [ctb],
Consortium of Infectious Disease Modeling Hubs [cph]
Maintainer: Anna Krystalli <annakrystalli@googlemail.com>
Diff between hubEvals versions 0.3.0 dated 2026-06-29 and 0.3.1 dated 2026-07-17
DESCRIPTION | 6 MD5 | 11 NEWS.md | 4 R/score_model_out.R | 310 +++++++++++++++++++--- man/score_model_out.Rd | 15 - tests/testthat/helper-suppress_wilcox_ties.R |only tests/testthat/test-score_model_out_rel_metrics.R | 258 ++++++++++++++++++ 7 files changed, 554 insertions(+), 50 deletions(-)
Title: Sensitivities of Prices of Financial Options and Implied
Volatilities
Description: Methods to calculate sensitivities of financial option prices for
European, geometric and arithmetic Asian, and American options, with various
payoff functions in the Black Scholes model, and in more general jump diffusion
models. A shiny app to interactively plot the results is included. Furthermore,
methods to compute implied volatilities are provided for a wide range of option
types and custom payoff functions. Classical formulas are implemented for
European options in the Black Scholes Model, as is presented in Hull, J. C.
(2017), Options, Futures, and Other Derivatives.
In the case of Asian options, Malliavin Monte Carlo Greeks are implemented, see
Hudde, A. & Rüschendorf, L. (2023). European and Asian Greeks for exponential
Lévy processes. <doi:10.1007/s11009-023-10014-5>. For American
options, the Binomial Tree Method is implemented, as is presented in Hull,
J. C. (2017).
Author: Anselm Hudde [aut, cre]
Maintainer: Anselm Hudde <anselmhudde@gmx.de>
Diff between greeks versions 1.5.3 dated 2026-05-07 and 1.5.6 dated 2026-07-17
DESCRIPTION | 6 MD5 | 46 ++++--- NEWS.md | 6 R/BS_Implied_Volatility.R | 202 ++++++++++--------------------- R/BS_Malliavin_Asian_Greeks.R | 4 R/Implied_Volatility.R | 8 - R/Malliavin_Asian_Greeks.R | 12 - R/Malliavin_Geometric_Asian_Greeks.R | 4 R/RcppExports.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/american-options.R |only inst/doc/american-options.Rmd |only inst/doc/american-options.html |only inst/doc/asian-options.R |only inst/doc/asian-options.Rmd |only inst/doc/asian-options.html |only inst/doc/european-options.R |only inst/doc/european-options.Rmd |only inst/doc/european-options.html |only inst/doc/implied-volatility.R |only inst/doc/implied-volatility.Rmd |only inst/doc/implied-volatility.html |only man/BS_Implied_Volatility.Rd | 7 - src/BS_Geometric_Asian_Greeks.cpp | 12 - src/BS_Implied_Volatility.cpp |only src/RcppExports.cpp | 21 +++ tests/testthat/test-Asian-discounting.R |only tests/testthat/test-Implied_Volatility.R | 76 +++++++++++ vignettes/american-options.Rmd |only vignettes/asian-options.Rmd |only vignettes/european-options.Rmd |only vignettes/implied-volatility.Rmd |only 33 files changed, 239 insertions(+), 169 deletions(-)
Title: Online Principal Component Regression for Online Datasets
Description: The online principal component regression method can process the online data set. 'OPCreg' implements the online principal component regression method, which is specifically designed to process online datasets efficiently. This method is particularly useful for handling large-scale, streaming data where traditional batch processing methods may be computationally infeasible.The philosophy of the package is described in 'Guo' (2025) <doi:10.1016/j.physa.2024.130308>.
Author: Guangbao Guo [aut, cre] ,
Chunjie Wei [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between OPCreg versions 3.0.0 dated 2025-06-04 and 4.0.2 dated 2026-07-17
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++++----- NAMESPACE | 3 +++ R/IPCR.R | 15 ++++++++++----- R/LRLS.R |only R/PPCR.R | 14 +++++++++----- R/SPCR.R | 29 ++++++++++++++++++----------- R/TRLS.R |only man/LRLS.Rd |only man/TRLS.Rd |only 10 files changed, 54 insertions(+), 31 deletions(-)
Title: Analysis of Regionalization Patterns in Serially Homologous
Structures
Description: Computes the optimal number of regions (or subdivisions) and
their position in serial structures without a priori assumptions and to visualize
the results. After reducing data dimensionality with the built-in function for
data ordination, regions are fitted as segmented linear regressions
along the serial structure. Every region boundary
position and increasing number of regions are iteratively fitted and
the best model (number of regions and boundary positions) is selected
with an information criterion. This package expands on the previous
'regions' package (Jones et al. (2018) <doi:10.1126/science.aar3126>) with improved
computation and more fitting and plotting options.
Author: Amandine Gillet [cre, aut] ,
Katrina Jones [aut] ,
Noah Greifer [aut] ,
Stephanie Pierce [aut]
Maintainer: Amandine Gillet <gillet.aman@gmail.com>
Diff between MorphoRegions versions 0.1.0 dated 2024-08-21 and 0.2.0 dated 2026-07-17
MorphoRegions-0.1.0/MorphoRegions/R/process_measurements.R |only MorphoRegions-0.2.0/MorphoRegions/DESCRIPTION | 26 MorphoRegions-0.2.0/MorphoRegions/MD5 | 141 MorphoRegions-0.2.0/MorphoRegions/NAMESPACE | 92 MorphoRegions-0.2.0/MorphoRegions/NEWS.md |only MorphoRegions-0.2.0/MorphoRegions/R/AICcalc.R | 58 MorphoRegions-0.2.0/MorphoRegions/R/MorphoRegions-package.R | 16 MorphoRegions-0.2.0/MorphoRegions/R/PCOload.R | 184 MorphoRegions-0.2.0/MorphoRegions/R/PCOselect.R | 644 +-- MorphoRegions-0.2.0/MorphoRegions/R/aux_functions.R | 469 +- MorphoRegions-0.2.0/MorphoRegions/R/calcBPvar.R | 210 - MorphoRegions-0.2.0/MorphoRegions/R/calcmodel.R | 235 - MorphoRegions-0.2.0/MorphoRegions/R/calcregions.R | 2055 +++++----- MorphoRegions-0.2.0/MorphoRegions/R/data.R | 28 MorphoRegions-0.2.0/MorphoRegions/R/modelperf.R | 433 +- MorphoRegions-0.2.0/MorphoRegions/R/modelselect.R | 139 MorphoRegions-0.2.0/MorphoRegions/R/modelsupport.R | 197 MorphoRegions-0.2.0/MorphoRegions/R/plot.regions_pco.R | 157 MorphoRegions-0.2.0/MorphoRegions/R/plotsegreg.R | 490 +- MorphoRegions-0.2.0/MorphoRegions/R/plotvertmap.R | 1252 +++--- MorphoRegions-0.2.0/MorphoRegions/R/process_input.R |only MorphoRegions-0.2.0/MorphoRegions/R/simregions.R | 464 +- MorphoRegions-0.2.0/MorphoRegions/R/subsample.R | 102 MorphoRegions-0.2.0/MorphoRegions/R/svdPCO.R | 212 - MorphoRegions-0.2.0/MorphoRegions/README.md | 515 +- MorphoRegions-0.2.0/MorphoRegions/build/partial.rdb |only MorphoRegions-0.2.0/MorphoRegions/build/vignette.rds |binary MorphoRegions-0.2.0/MorphoRegions/data/seal_gmm.rda |only MorphoRegions-0.2.0/MorphoRegions/data/wolves_gmm.rda |only MorphoRegions-0.2.0/MorphoRegions/inst/CITATION | 6 MorphoRegions-0.2.0/MorphoRegions/inst/doc/MorphoRegions.Rmd | 1705 ++++---- MorphoRegions-0.2.0/MorphoRegions/inst/doc/MorphoRegions.html | 1560 ++++--- MorphoRegions-0.2.0/MorphoRegions/man/MorphoRegions-package.Rd | 63 MorphoRegions-0.2.0/MorphoRegions/man/PCOload.Rd | 92 MorphoRegions-0.2.0/MorphoRegions/man/PCOselect.Rd | 224 - MorphoRegions-0.2.0/MorphoRegions/man/alligator.Rd | 34 MorphoRegions-0.2.0/MorphoRegions/man/calcBPvar.Rd | 110 MorphoRegions-0.2.0/MorphoRegions/man/calcmodel.Rd | 100 MorphoRegions-0.2.0/MorphoRegions/man/calcregions.Rd | 305 - MorphoRegions-0.2.0/MorphoRegions/man/dolphin.Rd | 34 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-PCOload.R | 28 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-PCOselect.R | 68 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-calcBPvar.R | 46 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-calcmodel.R | 44 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-calcregions.R | 115 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-modelperf.R | 98 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-modelselect.R | 62 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-plotvertmap.R | 128 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-process_PC.R |only MorphoRegions-0.2.0/MorphoRegions/man/examples/example-process_gmPC.R |only MorphoRegions-0.2.0/MorphoRegions/man/examples/example-process_measurements.R | 26 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-simregions.R | 106 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-subsample.R | 42 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-subset.R | 54 MorphoRegions-0.2.0/MorphoRegions/man/examples/example-svdPCO.R | 32 MorphoRegions-0.2.0/MorphoRegions/man/figures/README-scatterplot-1.png |binary MorphoRegions-0.2.0/MorphoRegions/man/figures/README-vertebralmap-1.png |binary MorphoRegions-0.2.0/MorphoRegions/man/figures/README-vertebralmap-2.png |binary MorphoRegions-0.2.0/MorphoRegions/man/figures/README-vertebralmapBPvar-1.png |binary MorphoRegions-0.2.0/MorphoRegions/man/modelperf.Rd | 230 - MorphoRegions-0.2.0/MorphoRegions/man/modelselect.Rd | 110 MorphoRegions-0.2.0/MorphoRegions/man/modelsupport.Rd | 106 MorphoRegions-0.2.0/MorphoRegions/man/musm.Rd | 34 MorphoRegions-0.2.0/MorphoRegions/man/plot.regions_pco.Rd | 90 MorphoRegions-0.2.0/MorphoRegions/man/plotsegreg.Rd | 234 - MorphoRegions-0.2.0/MorphoRegions/man/plotvertmap.Rd | 290 - MorphoRegions-0.2.0/MorphoRegions/man/porpoise.Rd | 44 MorphoRegions-0.2.0/MorphoRegions/man/process_PC.Rd |only MorphoRegions-0.2.0/MorphoRegions/man/process_gmPC.Rd |only MorphoRegions-0.2.0/MorphoRegions/man/process_measurements.Rd | 92 MorphoRegions-0.2.0/MorphoRegions/man/seal_gmm.Rd |only MorphoRegions-0.2.0/MorphoRegions/man/simregions.Rd | 230 - MorphoRegions-0.2.0/MorphoRegions/man/subsample.Rd | 94 MorphoRegions-0.2.0/MorphoRegions/man/svdPCO.Rd | 94 MorphoRegions-0.2.0/MorphoRegions/man/wolves_gmm.Rd |only MorphoRegions-0.2.0/MorphoRegions/vignettes/MorphoRegions.Rmd | 1705 ++++---- MorphoRegions-0.2.0/MorphoRegions/vignettes/images/Pipeline_v.2_HD.png |only MorphoRegions-0.2.0/MorphoRegions/vignettes/references.bib | 118 78 files changed, 8784 insertions(+), 7888 deletions(-)
Title: Mouse Map Converter
Description: Convert mouse genome positions between the build 39 physical map and the genetic map of Cox et al. (2009) <doi:10.1534/genetics.109.105486>.
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between mmconvert versions 0.12 dated 2025-05-13 and 0.14 dated 2026-07-17
DESCRIPTION | 10 ++--- MD5 | 22 +++++------ NEWS.md | 5 ++ R/mmconvert-package.R | 3 - README.md | 41 ++++++++++++++------- build/partial.rdb |binary data/MUGAmaps.RData |binary data/coxmap.RData |binary data/grcm39_chrlen.RData |binary man/mmconvert-package.Rd | 17 +++++++++ tests/testthat/test-map_df_to_list.R | 31 +++++++--------- tests/testthat/test-map_list_to_df.R | 66 ++++++++++++++++------------------- 12 files changed, 111 insertions(+), 84 deletions(-)
Title: Graph Visualisation Engine Widget for R and 'shiny' Apps
Description: Create stunning network experiences powered by the 'G6' graph visualisation engine
'JavaScript' library <https://g6.antv.antgroup.com/en>. In 'shiny' mode, modify your
graph directly from the server function to dynamically interact with nodes and edges.
Select your favorite layout among 20 choices. 15 behaviors are available such as
interactive edge creation, collapse-expand and brush select.
17 plugins designed to improve the user experience such as a mini-map,
toolbars and grid lines. Customise the look and feel of your graph with comprehensive
options for nodes, edges and more.
Author: David Granjon [aut, cre],
David Schoch [aut],
cynkra GmbH [fnd],
Bristol Myers Squibb [fnd]
Maintainer: David Granjon <dgranjon@ymail.com>
Diff between g6R versions 0.6.0 dated 2026-04-27 and 0.6.5 dated 2026-07-17
g6R-0.6.0/g6R/inst/htmlwidgets/185.js |only g6R-0.6.0/g6R/inst/htmlwidgets/185.js.LICENSE.txt |only g6R-0.6.5/g6R/DESCRIPTION | 6 +- g6R-0.6.5/g6R/MD5 | 34 +++++------- g6R-0.6.5/g6R/NEWS.md | 30 ++++++++++ g6R-0.6.5/g6R/R/plugins.R | 4 - g6R-0.6.5/g6R/R/ports.R | 14 +++- g6R-0.6.5/g6R/README.md | 9 +-- g6R-0.6.5/g6R/inst/doc/g6R.html | 2 g6R-0.6.5/g6R/inst/examples/demo/app.R | 2 g6R-0.6.5/g6R/inst/examples/dynamic/app.R | 2 g6R-0.6.5/g6R/inst/examples/ports/app.R | 62 ++++++++++++++++++++++ g6R-0.6.5/g6R/inst/examples/update-plugin/app.R | 3 - g6R-0.6.5/g6R/inst/htmlwidgets/g6.js | 2 g6R-0.6.5/g6R/inst/htmlwidgets/g6.js.LICENSE.txt | 60 ++++++++++++--------- g6R-0.6.5/g6R/man/g6_plugins.Rd | 2 g6R-0.6.5/g6R/man/g6_port.Rd | 12 +++- g6R-0.6.5/g6R/man/toolbar.Rd | 2 g6R-0.6.5/g6R/tests/testthat/test-ports.R | 4 - 19 files changed, 184 insertions(+), 66 deletions(-)
More information about ggadjustedforest at CRAN
Permanent link
Title: Remedy the Violation of the Proportional Hazards Assumption of
Cox Regression
Description: Remedying proportional hazards
assumption violations of a Cox proportional hazards model using
stepwise changepoint and time-varying coefficient methods based on
Cox (1972) <doi:10.1111/j.2517-6161.1972.tb00899.x> and Grambsch
and Therneau (1994) <doi:10.1093/biomet/81.3.515>.
Author: Hamin Kim [aut, cre]
Maintainer: Hamin Kim <siru9170@naver.com>
Diff between cox.rvph versions 0.1.2 dated 2026-07-08 and 0.1.3 dated 2026-07-17
DESCRIPTION | 6 +-- MD5 | 6 +-- R/cox.rvph.R | 92 ++++++++++++++++++++++++++++++++++++++------------------ man/cox.rvph.Rd | 86 +++++++++++++++++++++++++++++++++++----------------- 4 files changed, 128 insertions(+), 62 deletions(-)
Title: Black-Box Optimization Toolkit
Description: Features highly configurable search spaces via the 'paradox'
package and optimizes every user-defined objective function. The
package includes several optimization algorithms e.g. Random Search,
Iterated Racing, Bayesian Optimization (in 'mlr3mbo') and Hyperband
(in 'mlr3hyperband'). bbotk is the base package of 'mlr3tuning',
'mlr3fselect' and 'miesmuschel'.
Author: Marc Becker [cre, aut] ,
Jakob Richter [aut] ,
Michel Lang [aut] ,
Bernd Bischl [aut] ,
Martin Binder [aut],
Olaf Mersmann [ctb]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between bbotk versions 1.11.0 dated 2026-06-26 and 1.12.0 dated 2026-07-17
DESCRIPTION | 8 +++--- MD5 | 19 +++++++------- NEWS.md | 8 ++++-- R/ArchiveAsync.R | 38 +++++------------------------ R/ArchiveAsyncFrozen.R | 30 ++++------------------- R/OptimInstanceAsync.R | 2 - README.md | 37 +++++++++++++++++++++-------- inst |only man/ArchiveAsync.Rd | 36 ++++------------------------ man/ArchiveAsyncFrozen.Rd | 42 ++++----------------------------- tests/testthat/test_ArchiveAsync.R | 47 +++---------------------------------- 11 files changed, 77 insertions(+), 190 deletions(-)
Title: Genetic Population Level Functions
Description: This collection of gene representation-independent functions
implements the population layer of extended evolutionary and genetic
algorithms and its support
for the R-package 'xega' <https://CRAN.R-project.org/package=xega>.
The population layer consists of functions
for initializing, logging, observing, evaluating a population of genes,
as well as of computing the next population. For parallel evaluation of a
population of genes 4 execution models - named Sequential, MultiCore,
FutureApply, and Cluster - are provided. They are implemented by
configuring the lapply() function. The execution model FutureApply can be
externally configured as recommended by Bengtsson (2021)
<doi:10.32614/RJ-2021-048>. Configurable acceptance rules and cooling
schedules (see Kirkpatrick, S., Gelatt, C. D. J, and Vecchi, M. P. (1983)
<doi:10.1126/science.220.4598.671>, and Aarts, E., and Korst, J.
(1989, ISBN:0-471-92146-7) offer simulated annealing or greedy randomized
approximate search [...truncated...]
Author: Andreas Geyer-Schulz [aut, cre]
Maintainer: Andreas Geyer-Schulz <Andreas.Geyer-Schulz@kit.edu>
Diff between xegaPopulation versions 1.0.0.12 dated 2026-02-17 and 1.0.0.16 dated 2026-07-17
DESCRIPTION | 6 ++--- MD5 | 37 +++++++++++++++++------------------ NAMESPACE | 1 NEWS | 21 +++++++++++++++++++ R/parModel.R | 28 +++++++++++++++++++++++++- R/xegaEvalPopulation.R | 1 R/xegaNextPopulation.R | 1 R/xegaPopulation.R | 23 +++++++++++++++------ man/ApplyFactory.Rd | 6 ++++- man/MClapply.Rd | 3 +- man/MClapplyHet.Rd | 3 +- man/PparLapply.Rd | 3 +- man/PparLapplyHet.Rd | 3 +- man/futureLapply.Rd | 3 +- man/futureLapplyHet.Rd | 3 +- man/rmpiLapply.Rd |only man/xegaEvalPopulation.Rd | 1 man/xegaObservePopulation.Rd | 8 ++++--- man/xegaSummaryPopulation.Rd | 1 tests/testthat/test-xegaPopulation.R | 7 +++++- 20 files changed, 119 insertions(+), 40 deletions(-)
More information about xegaPopulation at CRAN
Permanent link
Title: Neural Network Weights Transformation into Polynomial
Coefficients
Description: Implements a method that builds the coefficients of a polynomial
model that performs almost equivalently as a given neural network
(densely connected). This is achieved using Taylor expansion at the
activation functions. The obtained polynomial coefficients can be used
to explain features (and their interactions) importance in the neural network,
therefore working as a tool for interpretability or eXplainable Artificial
Intelligence (XAI). See Morala et al. 2021 <doi:10.1016/j.neunet.2021.04.036>,
and 2023 <doi:10.1109/TNNLS.2023.3330328>.
Author: Pablo Morala [aut, cre] ,
Inaki Ucar [aut] ,
Jose Ignacio Diez [ctr]
Maintainer: Pablo Morala <moralapablo@gmail.com>
Diff between nn2poly versions 0.1.3 dated 2025-12-12 and 1.0.0 dated 2026-07-17
nn2poly-0.1.3/nn2poly/R/nn2poly_algorithm.R |only nn2poly-0.1.3/nn2poly/src/algorithms.cpp |only nn2poly-0.1.3/nn2poly/src/combinatorics.cpp |only nn2poly-0.1.3/nn2poly/src/utils.h |only nn2poly-0.1.3/nn2poly/tests/testthat/_snaps/combinatorics.md |only nn2poly-0.1.3/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-null.svg |only nn2poly-0.1.3/nn2poly/tests/testthat/test-combinatorics.R |only nn2poly-1.0.0/nn2poly/DESCRIPTION | 10 nn2poly-1.0.0/nn2poly/LICENSE | 4 nn2poly-1.0.0/nn2poly/MD5 | 227 - nn2poly-1.0.0/nn2poly/NAMESPACE | 40 nn2poly-1.0.0/nn2poly/NEWS.md | 46 nn2poly-1.0.0/nn2poly/R/RcppExports.R | 46 nn2poly-1.0.0/nn2poly/R/callback.R | 94 nn2poly-1.0.0/nn2poly/R/constraints.R | 170 nn2poly-1.0.0/nn2poly/R/constraints_torch.R | 74 nn2poly-1.0.0/nn2poly/R/eval_poly.R | 570 +-- nn2poly-1.0.0/nn2poly/R/helpers.R | 134 nn2poly-1.0.0/nn2poly/R/nn2poly.R | 318 - nn2poly-1.0.0/nn2poly/R/nn2poly_methods.R | 733 ++-- nn2poly-1.0.0/nn2poly/R/parameters.R | 159 nn2poly-1.0.0/nn2poly/R/plot_diagonal.R | 82 nn2poly-1.0.0/nn2poly/R/plot_taylor_and_activation_potentials.R | 380 +- nn2poly-1.0.0/nn2poly/R/utils.R | 54 nn2poly-1.0.0/nn2poly/README.md | 96 nn2poly-1.0.0/nn2poly/build/vignette.rds |binary nn2poly-1.0.0/nn2poly/inst/CITATION | 52 nn2poly-1.0.0/nn2poly/inst/doc/nn2poly-01-introduction.Rmd | 934 ++--- nn2poly-1.0.0/nn2poly/inst/doc/nn2poly-01-introduction.html | 1759 ++++------ nn2poly-1.0.0/nn2poly/inst/doc/nn2poly-02-supported-DL-frameworks.Rmd | 961 ++--- nn2poly-1.0.0/nn2poly/inst/doc/nn2poly-02-supported-DL-frameworks.html | 1621 ++++----- nn2poly-1.0.0/nn2poly/inst/doc/nn2poly-03-classification-example.Rmd | 891 ++--- nn2poly-1.0.0/nn2poly/inst/doc/nn2poly-03-classification-example.html | 1620 ++++----- nn2poly-1.0.0/nn2poly/inst/python/KerasCallback.py | 20 nn2poly-1.0.0/nn2poly/inst/python/KerasConstraint.py | 66 nn2poly-1.0.0/nn2poly/man/add_constraints.Rd | 154 nn2poly-1.0.0/nn2poly/man/eval_poly.Rd | 124 nn2poly-1.0.0/nn2poly/man/luz_model_sequential.Rd | 104 nn2poly-1.0.0/nn2poly/man/nn2poly.Rd | 252 - nn2poly-1.0.0/nn2poly/man/plot.nn2poly.Rd | 160 nn2poly-1.0.0/nn2poly/man/plot_diagonal.Rd | 74 nn2poly-1.0.0/nn2poly/man/plot_taylor_and_activation_potentials.Rd | 144 nn2poly-1.0.0/nn2poly/man/predict.nn2poly.Rd | 268 - nn2poly-1.0.0/nn2poly/man/reexports.Rd | 32 nn2poly-1.0.0/nn2poly/src/Makevars |only nn2poly-1.0.0/nn2poly/src/Makevars.win |only nn2poly-1.0.0/nn2poly/src/RcppExports.cpp | 84 nn2poly-1.0.0/nn2poly/src/debug.h |only nn2poly-1.0.0/nn2poly/src/linalg.h |only nn2poly-1.0.0/nn2poly/src/linalg_arma.h |only nn2poly-1.0.0/nn2poly/src/linalg_eigen.h |only nn2poly-1.0.0/nn2poly/src/linalg_torch.h |only nn2poly-1.0.0/nn2poly/src/multiset.h | 22 nn2poly-1.0.0/nn2poly/src/nn2poly.cpp |only nn2poly-1.0.0/nn2poly/src/nn2poly_types.h |only nn2poly-1.0.0/nn2poly/src/partitions.cpp |only nn2poly-1.0.0/nn2poly/src/partitions.h |only nn2poly-1.0.0/nn2poly/src/taylor.h |only nn2poly-1.0.0/nn2poly/src/wrap.cpp |only nn2poly-1.0.0/nn2poly/tests/testthat.R | 8 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-5-false.svg | 124 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-5-mixed.svg | 128 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-5-neg.svg | 124 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-5-true.svg | 124 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-5.svg | 124 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-null-false.svg | 130 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/nn2poly_methods_plot/top-null-true.svg | 130 nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/partitions.md |only nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/plot_diagonal/diagonal-plot-for-a-and-b-without-line.svg | 180 - nn2poly-1.0.0/nn2poly/tests/testthat/_snaps/plot_diagonal/diagonal-plot-for-a-and-b.svg | 182 - nn2poly-1.0.0/nn2poly/tests/testthat/helper-check_constraints.R | 100 nn2poly-1.0.0/nn2poly/tests/testthat/helper-keras.R | 20 nn2poly-1.0.0/nn2poly/tests/testthat/helper-luz.R | 92 nn2poly-1.0.0/nn2poly/tests/testthat/helper-testing_data.R | 70 nn2poly-1.0.0/nn2poly/tests/testthat/setup.R | 36 nn2poly-1.0.0/nn2poly/tests/testthat/test-constraints.R | 104 nn2poly-1.0.0/nn2poly/tests/testthat/test-constraints_luz.R | 114 nn2poly-1.0.0/nn2poly/tests/testthat/test-eval_poly.R | 508 +- nn2poly-1.0.0/nn2poly/tests/testthat/test-nn2poly.R | 240 - nn2poly-1.0.0/nn2poly/tests/testthat/test-nn2poly_algorithm.R | 224 - nn2poly-1.0.0/nn2poly/tests/testthat/test-nn2poly_methods_plot.R | 320 - nn2poly-1.0.0/nn2poly/tests/testthat/test-nn2poly_methods_predict.R | 500 +- nn2poly-1.0.0/nn2poly/tests/testthat/test-parameters.R | 128 nn2poly-1.0.0/nn2poly/tests/testthat/test-partitions.R |only nn2poly-1.0.0/nn2poly/tests/testthat/test-plot_diagonal.R | 50 nn2poly-1.0.0/nn2poly/tests/testthat/test-plot_taylor_and_activation_potentials.R | 82 nn2poly-1.0.0/nn2poly/tests/testthat/test-smoke.R |only nn2poly-1.0.0/nn2poly/tests/testthat/test-utils.R | 144 nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-comparison-polynomial-nn-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-comparison-y-nn-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-history-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-n-important-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-potentials-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-potentials-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-01-reg-potentials-3.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-comparison-y-nn_con-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-comparison-y-nn_uncon-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-n-important-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-n-important-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-nn_con-train-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-nn_uncon-train-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-polynomial-prediction-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-keras-polynomial-prediction-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-reg-n-important-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-reg-n-important-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-reg-polynomial-prediction-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-reg-polynomial-prediction-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-torch-comparison-y-nn_con-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-torch-comparison-y-nn_uncon-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-torch-nn_con-train-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-02-torch-nn_uncon-train-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-diagonal-plot-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-diagonal-plot-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-diagonal-plot-3.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-n-important-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-nn-compile-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-potentials-1.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-potentials-2.png |binary nn2poly-1.0.0/nn2poly/vignettes/includes/nn2poly-03-class-potentials-3.png |binary nn2poly-1.0.0/nn2poly/vignettes/nn2poly-01-introduction.Rmd | 934 ++--- nn2poly-1.0.0/nn2poly/vignettes/nn2poly-02-supported-DL-frameworks.Rmd | 961 ++--- nn2poly-1.0.0/nn2poly/vignettes/nn2poly-03-classification-example.Rmd | 891 ++--- nn2poly-1.0.0/nn2poly/vignettes/precompile.R | 20 nn2poly-1.0.0/nn2poly/vignettes/source/_nn2poly-01-introduction.Rmd | 636 +-- nn2poly-1.0.0/nn2poly/vignettes/source/_nn2poly-02-supported-DL-frameworks.Rmd | 832 ++-- nn2poly-1.0.0/nn2poly/vignettes/source/_nn2poly-03-classification-example.Rmd | 508 +- 126 files changed, 10400 insertions(+), 10947 deletions(-)
Title: Fast Extrapolation of Time Features using K-Nearest Neighbors
Description: Fast extrapolation of univariate and multivariate time features using K-Nearest Neighbors. Version 2.0 adds approximate nearest-neighbor search, optional GPU acceleration, probabilistic forecast distributions, conformal prediction intervals, and multi-scale sequence representations. The compact set of hyper-parameters is tuned via grid or random search.
Author: Giancarlo Vercellino [aut, cre]
Maintainer: Giancarlo Vercellino <giancarlo.vercellino@gmail.com>
Diff between jenga versions 1.3.0 dated 2022-08-18 and 2.0.0 dated 2026-07-17
DESCRIPTION | 26 MD5 | 16 NAMESPACE | 42 - NEWS.md | 23 R/jenga.R | 8 R/main.R | 1327 ++++++++++++++++++++++++++++++++++++------------ man/jenga.Rd | 36 + man/plot.jenga_plot.Rd |only man/print.jenga_plot.Rd |only tests |only 10 files changed, 1090 insertions(+), 388 deletions(-)
Title: 'shiny' Application to Use the Stochastic Block Model
Description: A 'shiny' interface for a simpler use of the 'sbm' R package.
It also contains useful functions to easily explore the 'sbm' package
results. With this package you should be able to use the stochastic
block model without any knowledge in R, get automatic reports and nice
visuals, as well as learning the basic functions of 'sbm'.
Author: Theodore Vanrenterghem [aut],
Julie Aubert [aut, cre] ,
Saint-Clair Chabert-Liddell [aut] ,
grossBM team [ctb],
INRAE [cph]
Maintainer: Julie Aubert <julie.aubert@inrae.fr>
Diff between shinySbm versions 0.2.0 dated 2026-01-09 and 0.2.1 dated 2026-07-17
DESCRIPTION | 12 ++-- MD5 | 37 +++++++++----- NAMESPACE | 18 ++++++ R/fct_adjacency_to_edges.R | 3 + R/fct_as_datatable.R | 7 ++ R/fct_helpers.R |only R/fct_is_bipartite.R | 2 R/fct_sbmMatrixClass.R | 6 ++ R/mod_name_of_module1.R |only R/mod_name_of_module2.R |only R/utils_helpers.R |only build/vignette.rds |binary data/FungusTreeNetwork.rda |binary inst/WORDLIST | 39 ++++++-------- inst/app/www/custom.css |only inst/app/www/custom.sass |only inst/app/www/handlers.js |only inst/app/www/script.js |only inst/doc/ShinySbmApp.html | 79 ++++++++++++++---------------- inst/golem-config.yml | 5 + man/shinySbm-package.Rd | 1 tests/testthat/test-app.R |only tests/testthat/test-fct_helpers.R |only tests/testthat/test-mod_name_of_module1.R |only tests/testthat/test-mod_name_of_module2.R |only tests/testthat/test-utils_helpers.R |only 26 files changed, 128 insertions(+), 81 deletions(-)
Title: Minimax Approximation of Functions by Polynomials and Rational
Functions
Description: Implements minimax approximation of functions via the Remez
(1962) algorithm for polynomials and the Cody-Fraser-Hart (1968)
<doi:10.1007/BF02162506> algorithm for rational functions, as well as
their barycentric formulations: the Pachón-Trefethen (2009)
<doi:10.1007/s10543-009-0240-1> algorithm for polynomials and the
Filip-Nakatsukasa-Trefethen-Beckermann (2018) <doi:10.1137/17M1132409>
algorithm for rational functions, which provide improved numerical
stability at higher degrees and on wider intervals.
Author: Avraham Adler [aut, cre, cph]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between minimaxApprox versions 0.5.0 dated 2026-01-08 and 0.6.0 dated 2026-07-17
DESCRIPTION | 30 + MD5 | 57 ++- R/BarycentricPolynomial.R |only R/BarycentricRational.R |only R/Chebyshev.R | 57 +++ R/MMA_Convenience.R |only R/MiniMaxApprox.R | 388 +++++++++++++++++++----- R/RemezPolynomial.R | 164 +++++++++- R/RemezRational.R | 55 ++- R/methods.R | 8 R/shared.R | 463 +++++++++++++++++++++++------ README.md | 32 +- build/partial.rdb |binary build/vignette.rds |only inst/CITATION | 4 inst/NEWS.Rd | 208 ++++++++++++- inst/doc |only inst/tinytest/test_Chebyshev.R | 131 +++++++- inst/tinytest/test_MMA_Helpers.R |only inst/tinytest/test_MiniMaxApprox.R | 422 +++++++++++++++++--------- inst/tinytest/test_barycentricpolynomial.R |only inst/tinytest/test_barycentricrational.R |only inst/tinytest/test_monomial.R | 14 inst/tinytest/test_polynomial.R | 10 inst/tinytest/test_rational.R | 8 inst/tinytest/test_shared.R | 354 ++++++++++++++++++---- man/MiniMaxApprox.Rd | 278 +++++++++++++++-- man/coef.minimaxApprox.Rd | 12 man/minimaxApprox-internal.Rd | 31 + man/minimaxEval.Rd | 11 src/Chebyshev.c | 71 +++- src/compHorner.c | 20 - vignettes |only 33 files changed, 2299 insertions(+), 529 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ctb],
Paola Sebastiani [ctb],
Peter Soly [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.94 dated 2026-06-26 and 2.0.95 dated 2026-07-17
DESCRIPTION | 8 ++++---- MD5 | 26 ++++++++++++++------------ NAMESPACE | 1 + NEWS | 15 ++++++++++++++- R/epi.indirectadj.R | 20 ++++++++++++++++---- R/epi.mbf.r |only R/epi.ssdetect.R | 22 +++++++++------------- inst/doc/epiR_descriptive_epi.html | 18 +++++++++--------- inst/doc/epiR_diagnostic_tests.html | 21 ++++++++++----------- inst/doc/epiR_measures_of_assoc.html | 12 ++++++------ inst/doc/epiR_sample_size.html | 4 ++-- inst/doc/epiR_surveillance.html | 14 +++++++------- man/epi.about.Rd | 1 + man/epi.indirectadj.Rd | 10 ++++++---- man/epi.mbf.Rd |only 15 files changed, 99 insertions(+), 73 deletions(-)
Title: The Two Parameter Exponential Distribution
Description: Density, distribution function, quantile function,
and random generation function, maximum likelihood estimation (MLE),
penalized maximum likelihood estimation (PMLE), the quartiles method estimation (QM),
and median rank estimation (MEDRANK) for the two-parameter exponential distribution.
MLE and PMLE are based on Mengjie Zheng (2013)<https://scse.d.umn.edu/sites/scse.d.umn.edu/files/mengjie-thesis_masters-1.pdf>.
QM is based on Entisar Elgmati and Nadia Gregni (2016)<doi:10.5539/ijsp.v5n5p12>.
MEDRANK is based on Matthew Reid (2022)<doi:10.5281/ZENODO.3938000>.
In addition, the functions for computing the Kolmogorov-Smirnov (D) statistic,
the Cramér-von Mises statistic, and the Anderson–Darling statistic are provided.
Author: Atchanut Rattanalertnusorn [aut, cre]
Maintainer: Atchanut Rattanalertnusorn <atchanut_r@rmutt.ac.th>
Diff between twopexp versions 0.1.0 dated 2023-06-13 and 1.0.0 dated 2026-07-17
DESCRIPTION | 10 ++++++---- MD5 | 21 +++++++++++++++------ NAMESPACE | 3 +++ R/ADstat.R |only R/CMstat.R |only R/Dstat.R |only R/tpexp.R | 3 +-- build/partial.rdb |binary man/ADstat.Rd |only man/CMstat.Rd |only man/Dstat.Rd |only man/tpexp.Rd | 2 +- tests/testthat/Rplots.pdf |binary tests/testthat/test-ADstat.R |only tests/testthat/test-CMstat.R |only tests/testthat/test-Dstat.R |only 16 files changed, 26 insertions(+), 13 deletions(-)
Title: Computation of Variance-Based Sensitivity Indices
Description: It allows to rapidly compute, bootstrap and plot up to fourth-order Sobol'-based sensitivity indices using several state-of-the-art first and total-order estimators. Sobol' indices can be computed either for models that yield a scalar as a model output or for systems of differential equations. The package also provides a suit of benchmark tests functions and several options to obtain publication-ready figures of the model output uncertainty and sensitivity-related analysis. An overview of the package can be found in Puy et al. (2022) <doi:10.18637/jss.v102.i05>.
Author: Arnald Puy [aut, cre] ,
Bertrand Ioos [ctb] ,
Gilles Pujol [ctb] ,
RStudio [cph]
Maintainer: Arnald Puy <arnald.puy@pm.me>
Diff between sensobol versions 1.1.9 dated 2026-04-30 and 1.2.0 dated 2026-07-17
DESCRIPTION | 6 - MD5 | 41 ++++--- NEWS.md | 114 +++++++++++++++++++++ R/RcppExports.R | 4 R/discrepancy_ersatz.R | 4 R/plot_sobol.R | 33 ++++-- R/sobol_convergence.R | 2 R/sobol_indices.R | 114 +++++++++++++++------ R/sobol_matrices.R | 144 ++++++++++++++++++++++++++ R/vars_matrices.R | 6 - R/vars_to.R | 4 README.md | 189 +++++++++++++++++++++++++++++++++-- build/partial.rdb |binary inst/REFERENCES.bib | 55 ++++++++++ inst/doc/sensobol.pdf |binary man/sobol_indices.Rd | 20 +++ man/sobol_matrices.Rd | 46 ++++++++ src/RcppExports.cpp | 15 ++ src/sobol_direction_numbers.h |only src/sobol_owen.cpp |only tests/testthat/test-bug-fixes.R |only tests/testthat/test-sobol_boot.R | 159 +++++++++++++++++++++++++++++ tests/testthat/test-sobol_matrices.R | 156 ++++++++++++++++++++++++++++ 23 files changed, 1042 insertions(+), 70 deletions(-)
Title: NWS Hydrology Models: SAC-SMA, SNOW17, UH, CONSUSE, CHANLOSS
Description: Interface to the National Weather Service operational
hydrology models, Sacramento Soil Moisture Accounting (SAC-SMA),
Snow Accumulation and Ablation (SNOW17). Also provides an
interface to the unit hydrograph routing model (UH), consumptive use (CONSUSE)
and channel loss/gain modules (CHANLOSS). The Fortran code used in this package
is considered "legacy" and is not supported officially by NWS,
but it should not have any significant differences from current
operational models.
Author: Cameron Bracken [aut, cre] ,
Geoffrey Walters [aut] ,
Eric Anderson [ctb] ),
George F. Smith [ctb] ),
Janice M. Lewis [ctb] ),
John E. Pask [ctb] ; see
inst/COPYRIGHTS),
Ondrej Certik [ctb] ,
John Burkhardt [ctb] ,
National Oceanic and Atmospheric Ad [...truncated...]
Maintainer: Cameron Bracken <cameron.bracken@pnnl.gov>
Diff between nwsrfsr versions 1.0.0 dated 2026-07-16 and 1.0.2 dated 2026-07-17
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ src/Makevars | 15 +++++++++------ src/Makevars.win | 15 +++++++++------ 5 files changed, 31 insertions(+), 19 deletions(-)
Title: Case-Wise and Cluster-Wise Derivatives for Mixed Effects Models
Description: Compute case-wise and cluster-wise derivative for mixed effects models with respect to fixed effects parameter, random effect (co)variances, and residual variance. This material is partially based on work supported by the National Science Foundation under Grant Number 1460719.
Author: Ting Wang [aut, cre],
Edgar Merkle [aut] ,
Yves Rosseel [ctb]
Maintainer: Ting Wang <szpku.grady@gmail.com>
Diff between merDeriv versions 0.2-5 dated 2025-06-12 and 0.2-6 dated 2026-07-17
DESCRIPTION | 9 +++++---- MD5 | 15 +++++++++------ NEWS.md |only R/estfun.lmerMod.R | 7 ++++++- R/vcov.lmerMod.R | 17 +++++++++++------ build/partial.rdb |binary inst/tinytest/test-github-issues.R |only inst/tinytest/test-glmerbread.R |only inst/tinytest/test_merDeriv.R | 26 +++++++++++++++++--------- man/bread.glmerMod.Rd | 10 ++++++---- 10 files changed, 54 insertions(+), 30 deletions(-)
Title: Create Common TLGs Used in Clinical Trials
Description: Table, Listings, and Graphs (TLG) library for common outputs
used in clinical trials.
Author: Joe Zhu [aut, cre] ,
Daniel Sabanes Bove [aut],
Jana Stoilova [aut],
Davide Garolini [aut] ,
Emily de la Rua [aut] ,
Abinaya Yogasekaram [aut] ,
Heng Wang [aut],
Francois Collin [aut],
Adrian Waddell [aut],
Pawel Rucki [aut],
Chendi Liao [aut],
Jenni [...truncated...]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between tern versions 0.9.10 dated 2025-12-18 and 0.9.11 dated 2026-07-17
DESCRIPTION | 50 MD5 | 619 ++-- NAMESPACE | 704 ++-- NEWS.md | 1836 ++++++------ R/abnormal.R | 22 R/abnormal_by_baseline.R | 18 R/abnormal_by_marked.R | 48 R/abnormal_by_worst_grade.R | 38 R/abnormal_lab_worsen_by_baseline.R | 38 R/analyze_variables.R | 1712 +++++------ R/analyze_vars_in_cols.R | 32 R/argument_convention.R | 178 - R/bland_altman.R | 2 R/compare_variables.R | 486 +-- R/control_survival.R | 9 R/count_cumulative.R | 18 R/count_missed_doses.R | 20 R/count_occurrences.R | 36 R/count_occurrences_by_grade.R | 48 R/count_patients_events_in_cols.R | 4 R/count_patients_with_event.R | 16 R/count_patients_with_flags.R | 28 R/count_values.R | 8 R/cox_regression_inter.R | 716 ++-- R/coxph.R | 24 R/d_pkparam.R | 2 R/decorate_grob.R | 17 R/desctools_binom_diff.R | 22 R/df_explicit_na.R | 63 R/estimate_multinomial_rsp.R | 12 R/estimate_proportion.R | 16 R/fit_rsp_step.R | 4 R/fit_survival_step.R | 4 R/formatting_functions.R | 55 R/g_forest.R | 20 R/g_ipp.R | 14 R/g_km.R | 10 R/g_lineplot.R | 1254 ++++---- R/g_waterfall.R | 6 R/h_adsl_adlb_merge_using_worst_flag.R | 30 R/h_biomarkers_subgroups.R | 8 R/h_incidence_rate.R | 6 R/h_km.R | 102 R/h_logistic_regression.R | 6 R/h_map_for_count_abnormal.R | 2 R/h_pkparam_sort.R | 2 R/h_response_biomarkers_subgroups.R | 4 R/h_response_subgroups.R | 8 R/h_stack_by_baskets.R | 2 R/h_step.R | 6 R/h_survival_biomarkers_subgroups.R | 4 R/h_survival_duration_subgroups.R | 4 R/incidence_rate.R | 18 R/logistic_regression.R | 26 R/missing_data.R | 216 - R/odds_ratio.R | 10 R/package.R | 1 R/prop_diff.R | 2100 ++++++++------ R/prop_diff_test.R | 891 +++-- R/prune_occurrences.R | 12 R/response_biomarkers_subgroups.R | 8 R/response_subgroups.R | 1024 +++--- R/riskdiff.R | 6 R/rtables_access.R | 12 R/score_occurrences.R | 20 R/split_cols_by_groups.R | 70 R/stat.R | 6 R/summarize_ancova.R | 48 R/summarize_change.R | 20 R/summarize_colvars.R | 30 R/summarize_coxreg.R | 42 R/summarize_glm_count.R | 20 R/summarize_num_patients.R | 22 R/summarize_patients_exposure_in_cols.R | 32 R/survival_biomarkers_subgroups.R | 4 R/survival_coxph_pairwise.R | 92 R/survival_duration_subgroups.R | 1036 +++--- R/survival_time.R | 32 R/survival_timepoint.R | 38 R/utils.R | 6 R/utils_checkmate.R | 6 R/utils_default_stats_formats_labels.R | 1566 +++++----- R/utils_ggplot.R | 6 R/utils_grid.R | 8 R/utils_rtables.R | 40 R/utils_split_funs.R | 38 README.md | 180 - build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 289 + inst/WORDLIST | 119 inst/doc/missing_values.R | 32 inst/doc/missing_values.Rmd | 32 inst/doc/missing_values.html | 32 inst/doc/tables.R | 166 - inst/doc/tables.Rmd | 172 - inst/doc/tables.html | 172 - inst/doc/tern.R | 12 inst/doc/tern.Rmd | 12 inst/doc/tern.html | 12 inst/doc/tern_formats.R | 38 inst/doc/tern_formats.Rmd | 38 inst/doc/tern_formats.html | 38 inst/doc/tern_functions_guide.R | 46 inst/doc/tern_functions_guide.Rmd | 46 inst/doc/tern_functions_guide.html | 46 inst/doc/uncond_exact_prop_diff_ci.R |only inst/doc/uncond_exact_prop_diff_ci.Rmd |only inst/doc/uncond_exact_prop_diff_ci.html |only man/abnormal.Rd | 14 man/abnormal_by_baseline.Rd | 10 man/abnormal_by_marked.Rd | 40 man/abnormal_by_worst_grade.Rd | 20 man/abnormal_lab_worsen_by_baseline.Rd | 20 man/add_riskdiff.Rd | 6 man/add_rowcounts.Rd | 12 man/afun_riskdiff.Rd | 2 man/analyze_variables.Rd | 864 ++--- man/analyze_vars_in_cols.Rd | 30 man/append_varlabels.Rd | 20 man/argument_convention.Rd | 4 man/clogit_with_tryCatch.Rd | 4 man/combine_counts.Rd | 16 man/combine_groups.Rd | 8 man/compare_variables.Rd | 472 +-- man/control_annot.Rd | 13 man/control_coxph.Rd | 7 man/control_riskdiff.Rd | 2 man/count_cumulative.Rd | 10 man/count_missed_doses.Rd | 14 man/count_occurrences.Rd | 24 man/count_occurrences_by_grade.Rd | 38 man/count_patients_events_in_cols.Rd | 4 man/count_patients_with_event.Rd | 14 man/count_patients_with_flags.Rd | 18 man/count_values.Rd | 6 man/cox_regression.Rd | 22 man/d_test_proportion_diff.Rd | 2 man/default_stats_formats_labels.Rd | 546 +-- man/df_explicit_na.Rd | 40 man/draw_grob.Rd | 6 man/estimate_coef.Rd | 4 man/estimate_multinomial_rsp.Rd | 8 man/estimate_proportion.Rd | 10 man/extract_rsp_biomarkers.Rd | 4 man/extract_survival_subgroups.Rd | 3 man/extreme_format.Rd | 25 man/fit_logistic.Rd | 6 man/fit_rsp_step.Rd | 4 man/fit_survival_step.Rd | 4 man/format_auto.Rd | 23 man/format_count_fraction.Rd | 23 man/format_count_fraction_fixed_dp.Rd | 23 man/format_count_fraction_lt10.Rd | 23 man/format_extreme_values.Rd | 23 man/format_extreme_values_ci.Rd | 23 man/format_fraction.Rd | 23 man/format_fraction_fixed_dp.Rd | 23 man/format_fraction_threshold.Rd | 23 man/format_range_cens.Rd |only man/format_sigfig.Rd | 23 man/format_xx.Rd | 23 man/formatting_functions.Rd | 27 man/g_forest.Rd | 20 man/g_ipp.Rd | 4 man/g_km.Rd | 4 man/g_lineplot.Rd | 4 man/g_waterfall.Rd | 6 man/groups_list_to_df.Rd | 2 man/h_adlb_abnormal_by_worst_grade.Rd | 4 man/h_adlb_worsen.Rd | 4 man/h_biomarkers_subgroups.Rd | 10 man/h_cox_regression.Rd | 4 man/h_data_plot.Rd | 14 man/h_decompose_gg.Rd | 6 man/h_find_ci_bound_uniroot.Rd |only man/h_g_ipp.Rd | 4 man/h_ggkm.Rd | 6 man/h_grob_coxph.Rd | 6 man/h_grob_median_surv.Rd | 10 man/h_grob_tbl_at_risk.Rd | 6 man/h_grob_y_annot.Rd | 6 man/h_incidence_rate.Rd | 4 man/h_km_layout.Rd | 6 man/h_logistic_regression.Rd | 6 man/h_miettinen_nurminen_var_est.Rd | 72 man/h_pkparam_sort.Rd | 2 man/h_prop_diff.Rd | 374 +- man/h_prop_diff_test.Rd | 166 - man/h_response_biomarkers_subgroups.Rd | 4 man/h_response_subgroups.Rd | 8 man/h_stack_by_baskets.Rd | 2 man/h_survival_biomarkers_subgroups.Rd | 4 man/h_survival_duration_subgroups.Rd | 7 man/h_tbl_coxph_pairwise.Rd | 4 man/h_tbl_median_surv.Rd | 8 man/h_worsen_counter.Rd | 6 man/h_worst_case_tail_probability.Rd |only man/h_xticks.Rd | 6 man/incidence_rate.Rd | 16 man/labels_use_control.Rd | 2 man/odds_ratio.Rd | 6 man/prop_diff.Rd | 461 +-- man/prop_diff_test.Rd | 368 +- man/prune_occurrences.Rd | 12 man/response_biomarkers_subgroups.Rd | 6 man/response_subgroups.Rd | 16 man/rtable2gg.Rd | 6 man/rtables_access.Rd | 10 man/score_occurrences.Rd | 22 man/split_cols_by_groups.Rd | 46 man/summarize_ancova.Rd | 20 man/summarize_change.Rd | 18 man/summarize_colvars.Rd | 32 man/summarize_glm_count.Rd | 16 man/summarize_logistic.Rd | 14 man/summarize_num_patients.Rd | 18 man/summarize_patients_exposure_in_cols.Rd | 24 man/survival_biomarkers_subgroups.Rd | 6 man/survival_coxph_pairwise.Rd | 31 man/survival_duration_subgroups.Rd | 10 man/survival_time.Rd | 20 man/survival_timepoint.Rd | 34 man/tern-package.Rd | 88 man/tidy.glm.Rd | 8 man/tidy_coxreg.Rd | 2 man/to_string_matrix.Rd | 8 man/utils_split_funs.Rd | 38 tests/testthat/_snaps/analyze_vars_in_cols.md | 8 tests/testthat/_snaps/control_survival.md | 3 tests/testthat/_snaps/h_km.md | 13 tests/testthat/_snaps/prop_diff.md | 724 ++-- tests/testthat/_snaps/response_subgroups.md | 586 +-- tests/testthat/_snaps/summarize_ancova.md | 30 tests/testthat/_snaps/survival_coxph_pairwise.md | 92 tests/testthat/_snaps/survival_duration_subgroups.md | 560 +-- tests/testthat/_snaps/survival_time.md | 67 tests/testthat/_snaps/test_proportion_diff.md | 539 +-- tests/testthat/setup.R | 96 tests/testthat/test-abnormal.R | 28 tests/testthat/test-abnormal_by_baseline.R | 8 tests/testthat/test-abnormal_by_marked.R | 80 tests/testthat/test-abnormal_by_worst_grade.R | 44 tests/testthat/test-abnormal_lab_worsen_by_baseline.R | 46 tests/testthat/test-analyze_variables.R | 1628 +++++----- tests/testthat/test-analyze_vars_in_cols.R | 844 ++--- tests/testthat/test-compare_variables.R | 14 tests/testthat/test-count_cumulative.R | 40 tests/testthat/test-count_missed_doses.R | 14 tests/testthat/test-count_occurrences.R | 76 tests/testthat/test-count_occurrences_by_grade.R | 140 tests/testthat/test-count_patients_events_in_cols.R | 8 tests/testthat/test-count_patients_with_event.R | 28 tests/testthat/test-count_patients_with_flags.R | 80 tests/testthat/test-count_values.R | 40 tests/testthat/test-coxph.R | 10 tests/testthat/test-coxreg.R | 4 tests/testthat/test-df_explicit_na.R | 72 tests/testthat/test-estimate_multinomial_rsp.R | 4 tests/testthat/test-estimate_proportion.R | 60 tests/testthat/test-fit_rsp_step.R | 4 tests/testthat/test-fit_survival_step.R | 4 tests/testthat/test-formatting_functions.R | 45 tests/testthat/test-g_forest.R | 18 tests/testthat/test-g_km.R | 10 tests/testthat/test-g_lineplot.R | 6 tests/testthat/test-h_adsl_adlb_merge_using_worst_flag.R | 20 tests/testthat/test-h_km.R | 53 tests/testthat/test-h_logistic_regression.R | 10 tests/testthat/test-h_map_for_count_abnormal.R | 44 tests/testthat/test-h_pkparam_sort.R | 4 tests/testthat/test-h_response_biomarkers_subgroups.R | 8 tests/testthat/test-h_response_subgroups.R | 10 tests/testthat/test-h_stack_by_baskets.R | 4 tests/testthat/test-h_step.R | 4 tests/testthat/test-h_survival_biomarkers_subgroups.R | 6 tests/testthat/test-h_survival_duration_subgroups.R | 12 tests/testthat/test-incidence_rate.R | 32 tests/testthat/test-individual_patient_plot.R | 4 tests/testthat/test-logistic_regression.R | 51 tests/testthat/test-make_afun.R | 12 tests/testthat/test-odds_ratio.R | 20 tests/testthat/test-prop_diff.R | 1235 ++++---- tests/testthat/test-prune_occurrences.R | 18 tests/testthat/test-response_biomarkers_subgroups.R | 6 tests/testthat/test-response_subgroups.R | 698 ++-- tests/testthat/test-rtables_access.R | 22 tests/testthat/test-score_occurrences.R | 60 tests/testthat/test-split_cols_by_groups.R | 40 tests/testthat/test-summarize_ancova.R | 113 tests/testthat/test-summarize_change.R | 44 tests/testthat/test-summarize_colvars.R | 30 tests/testthat/test-summarize_coxreg.R | 70 tests/testthat/test-summarize_glm_count.R | 78 tests/testthat/test-summarize_num_patients.R | 128 tests/testthat/test-summarize_patients_exposure_in_cols.R | 40 tests/testthat/test-survival_biomarkers_subgroups.R | 6 tests/testthat/test-survival_coxph_pairwise.R | 179 - tests/testthat/test-survival_duration_subgroups.R | 608 ++-- tests/testthat/test-survival_time.R | 110 tests/testthat/test-survival_timepoint.R | 86 tests/testthat/test-test_proportion_diff.R | 851 +++-- tests/testthat/test-utils.R | 12 tests/testthat/test-utils_default_stats_formats_labels.R | 536 +-- tests/testthat/test-utils_ggplot.R | 30 tests/testthat/test-utils_grid.R | 2 tests/testthat/test-utils_rtables.R | 112 tests/testthat/test-utils_split_fun.R | 88 vignettes/missing_values.Rmd | 32 vignettes/tables.Rmd | 172 - vignettes/tern.Rmd | 12 vignettes/tern_formats.Rmd | 38 vignettes/tern_functions_guide.Rmd | 46 vignettes/uncond_exact_prop_diff_ci.Rmd |only 314 files changed, 17860 insertions(+), 16203 deletions(-)
Title: Wrangling 'JDemetra+ 3.x' Workspaces
Description: R Interface to 'JDemetra+ 3.x'(<https://github.com/jdemetra>).
It offers several functions to manipulate 'JDemetra+' workspaces, which
can be read by the software and can store several seasonal adjusted series
along with user-defined calendars or regression variables.
Author: Jean Palate [aut],
Alain Quartier-la-Tente [aut] ,
Tanguy Barthelemy [aut, cre, art],
Anna Smyk [aut]
Maintainer: Tanguy Barthelemy <timeserieswithjdemetraandr@gmail.com>
Diff between rjd3workspace versions 3.7.1 dated 2026-04-02 and 3.8.0 dated 2026-07-17
rjd3workspace-3.7.1/rjd3workspace/inst/java/java-io-base-0.0.35.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/java-io-xml-0.0.35.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/java-io-xml-bind-0.0.35.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-sa-base-information-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-sa-base-workspace-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-toolkit-base-information-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-toolkit-base-workspace-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-toolkit-base-xml-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-tramoseats-base-information-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-tramoseats-base-workspace-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-x13-base-information-3.7.1.jar |only rjd3workspace-3.7.1/rjd3workspace/inst/java/jdplus-x13-base-workspace-3.7.1.jar |only rjd3workspace-3.8.0/rjd3workspace/DESCRIPTION | 20 rjd3workspace-3.8.0/rjd3workspace/MD5 | 193 rjd3workspace-3.8.0/rjd3workspace/NAMESPACE | 268 - rjd3workspace-3.8.0/rjd3workspace/NEWS.md | 384 - rjd3workspace-3.8.0/rjd3workspace/R/deprecated.R | 643 +- rjd3workspace-3.8.0/rjd3workspace/R/rjd3workspace-package.R | 14 rjd3workspace-3.8.0/rjd3workspace/R/saitem.R | 509 - rjd3workspace-3.8.0/rjd3workspace/R/saprocessing.R | 1796 +++--- rjd3workspace-3.8.0/rjd3workspace/R/update_path.R | 396 - rjd3workspace-3.8.0/rjd3workspace/R/utils.R | 911 +-- rjd3workspace-3.8.0/rjd3workspace/R/workspace.R | 1350 ++--- rjd3workspace-3.8.0/rjd3workspace/R/zzz.R | 83 rjd3workspace-3.8.0/rjd3workspace/README.md | 315 - rjd3workspace-3.8.0/rjd3workspace/inst/extdata/IPI_nace4.csv | 830 +-- rjd3workspace-3.8.0/rjd3workspace/inst/java/java-io-base-0.0.38.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/java-io-xml-0.0.38.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/java-io-xml-bind-0.0.38.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-sa-base-information-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-sa-base-information-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-sa-base-workspace-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-sa-base-workspace-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-toolkit-base-information-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-toolkit-base-information-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-toolkit-base-workspace-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-toolkit-base-workspace-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-toolkit-base-xml-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-toolkit-base-xml-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-tramoseats-base-information-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-tramoseats-base-information-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-tramoseats-base-workspace-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-tramoseats-base-workspace-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-x13-base-information-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-x13-base-information-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-x13-base-workspace-3.8.0.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/java/jdplus-x13-base-workspace-3.8.1-SNAPSHOT.jar |only rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test.xml | 120 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/Calendars/Calendars.xml | 64 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/RegArimaSpec/RegArimaSpec-1.xml | 110 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/SAProcessing/SAProcessing-1.xml | 2600 +++++----- rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/SAProcessing/SAProcessing-2.xml | 1850 +++---- rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/TramoDoc/TramoDoc-1.xml | 192 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/TramoSeatsSpec/TramoSeatsSpec-1.xml | 120 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/TramoSpec/TramoSpec-1.xml | 118 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/Variables/Vars-1.xml | 54 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/Variables/Vars-2.xml | 54 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/Variables/Vars-3.xml | 438 - rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/Variables/Vars-4.xml | 438 - rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test/X13Spec/X13Spec-1.xml | 84 rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test_refresh |only rjd3workspace-3.8.0/rjd3workspace/inst/workspaces/workspace_test_refresh.xml |only rjd3workspace-3.8.0/rjd3workspace/java/README | 12 rjd3workspace-3.8.0/rjd3workspace/man/add_calendar.Rd | 100 rjd3workspace-3.8.0/rjd3workspace/man/add_sa_item.Rd | 140 rjd3workspace-3.8.0/rjd3workspace/man/add_variables.Rd | 112 rjd3workspace-3.8.0/rjd3workspace/man/deprecated-rjd3workspace.Rd | 289 - rjd3workspace-3.8.0/rjd3workspace/man/dot-jd2r_spec.Rd | 34 rjd3workspace-3.8.0/rjd3workspace/man/figures/logo.svg | 2468 ++++----- rjd3workspace-3.8.0/rjd3workspace/man/get-results.Rd | 60 rjd3workspace-3.8.0/rjd3workspace/man/get-specification.Rd | 109 rjd3workspace-3.8.0/rjd3workspace/man/get_context.Rd | 60 rjd3workspace-3.8.0/rjd3workspace/man/get_metadata.Rd | 92 rjd3workspace-3.8.0/rjd3workspace/man/jws_add.Rd | 34 rjd3workspace-3.8.0/rjd3workspace/man/jws_compute.Rd | 60 rjd3workspace-3.8.0/rjd3workspace/man/jws_new.Rd | 94 rjd3workspace-3.8.0/rjd3workspace/man/jws_open.Rd | 70 rjd3workspace-3.8.0/rjd3workspace/man/jws_sap.Rd | 84 rjd3workspace-3.8.0/rjd3workspace/man/make_copy.Rd | 93 rjd3workspace-3.8.0/rjd3workspace/man/read_calendars.Rd | 56 rjd3workspace-3.8.0/rjd3workspace/man/read_sai.Rd | 96 rjd3workspace-3.8.0/rjd3workspace/man/read_variables.Rd | 56 rjd3workspace-3.8.0/rjd3workspace/man/read_workspace.Rd | 104 rjd3workspace-3.8.0/rjd3workspace/man/refresh.Rd | 206 rjd3workspace-3.8.0/rjd3workspace/man/regarima_read_spec.Rd | 54 rjd3workspace-3.8.0/rjd3workspace/man/regarima_write_spec.Rd | 74 rjd3workspace-3.8.0/rjd3workspace/man/replace_sa_item.Rd | 58 rjd3workspace-3.8.0/rjd3workspace/man/rjd3workspace-package.Rd | 67 rjd3workspace-3.8.0/rjd3workspace/man/sap_name.Rd | 88 rjd3workspace-3.8.0/rjd3workspace/man/save_workspace.Rd | 70 rjd3workspace-3.8.0/rjd3workspace/man/set_comment.Rd | 90 rjd3workspace-3.8.0/rjd3workspace/man/set_context.Rd | 114 rjd3workspace-3.8.0/rjd3workspace/man/set_name.Rd | 92 rjd3workspace-3.8.0/rjd3workspace/man/set_priority.Rd | 94 rjd3workspace-3.8.0/rjd3workspace/man/set_raw_data.Rd | 98 rjd3workspace-3.8.0/rjd3workspace/man/set_specification.Rd | 100 rjd3workspace-3.8.0/rjd3workspace/man/set_ts.Rd | 122 rjd3workspace-3.8.0/rjd3workspace/man/set_ts_metadata.Rd | 114 rjd3workspace-3.8.0/rjd3workspace/man/spreadsheet_update_path.Rd | 100 rjd3workspace-3.8.0/rjd3workspace/man/tramo_read_spec.Rd | 54 rjd3workspace-3.8.0/rjd3workspace/man/tramo_write_spec.Rd | 74 rjd3workspace-3.8.0/rjd3workspace/man/tramoseats_read_spec.Rd | 54 rjd3workspace-3.8.0/rjd3workspace/man/tramoseats_write_spec.Rd | 74 rjd3workspace-3.8.0/rjd3workspace/man/transfer_sa_item.Rd | 62 rjd3workspace-3.8.0/rjd3workspace/man/txt_update_path.Rd | 94 rjd3workspace-3.8.0/rjd3workspace/man/write_calendars.Rd | 86 rjd3workspace-3.8.0/rjd3workspace/man/write_variables.Rd | 78 rjd3workspace-3.8.0/rjd3workspace/man/ws_sap_count.Rd | 76 rjd3workspace-3.8.0/rjd3workspace/man/x13_read_spec.Rd | 56 rjd3workspace-3.8.0/rjd3workspace/man/x13_write_spec.Rd | 74 rjd3workspace-3.8.0/rjd3workspace/tests/README.md | 148 rjd3workspace-3.8.0/rjd3workspace/tests/testthat.R | 24 rjd3workspace-3.8.0/rjd3workspace/tests/testthat/test-check_information.R | 33 rjd3workspace-3.8.0/rjd3workspace/tests/testthat/test-get_point_specification.R |only 114 files changed, 10433 insertions(+), 10272 deletions(-)
Title: Continuous and Dichotomized Index Predictors Based on
Distribution Quantiles
Description: The author has retired from academic research. Accordingly, this package should not be considered a validated tool for use in peer-reviewed publications or as the basis for grant applications. Backward compatibility with user-code published in <doi:10.1186/s12859-023-05408-8> and <doi:10.1016/j.labinv.2023.100158> is not maintained in versions >= 0.4.0 (June 2026) of this package. The authors of those publications are the appropriate contacts for reproducibility inquiries.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between Qindex versions 0.1.7 dated 2024-11-14 and 0.2.0 dated 2026-07-17
Qindex-0.1.7/Qindex/R/BBC_dichotom.R |only Qindex-0.1.7/Qindex/R/Qindex.R |only Qindex-0.1.7/Qindex/R/clusterQp.R |only Qindex-0.1.7/Qindex/R/defunct.R |only Qindex-0.1.7/Qindex/R/graphics.R |only Qindex-0.1.7/Qindex/R/integrandSurface.R |only Qindex-0.1.7/Qindex/R/optimSplit_dichotom.R |only Qindex-0.1.7/Qindex/R/predict.Qindex.R |only Qindex-0.1.7/Qindex/R/rSplit.R |only Qindex-0.1.7/Qindex/R/rpartD.R |only Qindex-0.1.7/Qindex/R/std_.R |only Qindex-0.1.7/Qindex/man/BBC_cutoff.Rd |only Qindex-0.1.7/Qindex/man/BBC_dichotom.Rd |only Qindex-0.1.7/Qindex/man/Qindex.Rd |only Qindex-0.1.7/Qindex/man/Qindex_graphics.Rd |only Qindex-0.1.7/Qindex/man/clusterQp.Rd |only Qindex-0.1.7/Qindex/man/defunct.Rd |only Qindex-0.1.7/Qindex/man/integrandSurface.Rd |only Qindex-0.1.7/Qindex/man/optimSplit_dichotom.Rd |only Qindex-0.1.7/Qindex/man/predict.Qindex.Rd |only Qindex-0.1.7/Qindex/man/predict.optimSplit_dichotom.Rd |only Qindex-0.1.7/Qindex/man/rSplit.Rd |only Qindex-0.1.7/Qindex/man/rpartD.Rd |only Qindex-0.1.7/Qindex/man/show-Qindex-method.Rd |only Qindex-0.1.7/Qindex/man/std_.Rd |only Qindex-0.2.0/Qindex/DESCRIPTION | 37 ++--- Qindex-0.2.0/Qindex/MD5 | 41 +----- Qindex-0.2.0/Qindex/NAMESPACE | 76 ----------- Qindex-0.2.0/Qindex/NEWS.md | 2 Qindex-0.2.0/Qindex/R/0PACKAGE.R | 79 +++++------- Qindex-0.2.0/Qindex/R/bootid.R | 6 Qindex-0.2.0/Qindex/build/partial.rdb |binary Qindex-0.2.0/Qindex/man/Qindex-package.Rd | 108 +---------------- Qindex-0.2.0/Qindex/man/bootid.Rd | 10 - 34 files changed, 85 insertions(+), 274 deletions(-)
Title: Model-Based Boosting
Description: Functional gradient descent algorithm
(boosting) for optimizing general risk functions utilizing
component-wise (penalised) least squares estimates or regression
trees as base-learners for fitting generalized linear, additive
and interaction models to potentially high-dimensional data.
Models and algorithms are described in <doi:10.1214/07-STS242>,
a hands-on tutorial is available from <doi:10.1007/s00180-012-0382-5>.
The package allows user-specified loss functions and base-learners.
Author: Torsten Hothorn [cre, aut] ,
Peter Buehlmann [aut] ,
Thomas Kneib [aut] ,
Matthias Schmid [aut] ,
Benjamin Hofner [aut] ,
Fabian Otto-Sobotka [ctb] ,
Fabian Scheipl [ctb] ,
Andreas Mayr [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mboost versions 2.9-12 dated 2026-07-15 and 2.9-13 dated 2026-07-17
DESCRIPTION | 6 MD5 | 48 +-- build/partial.rdb |binary inst/NEWS.Rd | 8 inst/doc/SurvivalEnsembles.pdf |binary inst/doc/mboost.pdf |binary inst/doc/mboost_illustrations.pdf |binary inst/doc/mboost_tutorial.pdf |binary tests/birds_Biometrics.Rout.save | 2 tests/bugfixes.R | 104 +++--- tests/bugfixes.Rout.save | 375 ++++++++++++++++++++---- tests/regtest-baselearner.R | 79 ++--- tests/regtest-baselearner.Rout.save | 133 ++++---- tests/regtest-blackboost.R | 22 - tests/regtest-blackboost.Rout.save | 35 +- tests/regtest-family.R | 12 tests/regtest-family.Rout.save | 20 - tests/regtest-gamboost.R | 134 ++++---- tests/regtest-gamboost.Rout.save | 484 ++++++++++++++++++++++++++----- tests/regtest-glmboost.R | 162 +++++----- tests/regtest-glmboost.Rout.save | 562 ++++++++++++++++++++++++++++++------ tests/regtest-hatmatrix.R | 8 tests/regtest-hatmatrix.Rout.save | 13 tests/regtest-varimp.R | 6 tests/regtest-varimp.Rout.save | 12 25 files changed, 1647 insertions(+), 578 deletions(-)
Title: Non-Parametric Tests of Independence Between Random Vectors
Description: Non-parametric tests of independence (mutual or serial) between some quantitative random vectors, as described in Bilodeau M. and Lafaye de Micheaux P. (2009) <doi:10.1016/j.jspi.2008.11.006>, in Beran R., Bilodeau M. and Lafaye de Micheaux P. (2007) <doi:10.1016/j.jmva.2007.01.009> and in Fan Y., Lafaye de Micheaux P., Penev S. and Salopek D. (2017) <doi:10.1016/j.jmva.2016.09.014>.
Author: Pierre Lafaye De Micheaux [aut, cre] ,
Martin Bilodeau [aut],
Yanan Fan [aut],
Spiridon Penev [aut],
Donna Salopek [aut],
Cleve Moler [cph] ,
Jack Dongarra [cph] ,
Richard Hanson [cph] ,
Sven Hammarling [cph] ,
Jeremy Du Croz [cph]
Maintainer: Pierre Lafaye De Micheaux <lafaye@unsw.edu.au>
Diff between IndependenceTests versions 0.7 dated 2026-07-14 and 0.8 dated 2026-07-17
DESCRIPTION | 8 +- MD5 | 48 ++++++------ inst/HISTORY | 30 +++++++ src/dependogram.cpp | 122 +++++++++++++++---------------- src/myzhpevx.cpp | 62 +++++++++------- src/others/Cnp.cpp | 6 - src/others/combn.cpp | 22 ++--- src/others/normeRnAwR.cpp | 174 ++++++++++++++++++++++----------------------- src/othersfortran/ilazlc.f | 4 - src/othersfortran/ilazlr.f | 4 - src/othersfortran/zhptrd.f | 8 +- src/othersfortran/zladiv.f | 12 +-- src/othersfortran/zlanhp.f | 2 src/othersfortran/zlarf.f | 6 - src/othersfortran/zlarfg.f | 18 ++-- src/othersfortran/zlaset.f | 4 - src/othersfortran/zlasr.f | 4 - src/othersfortran/zlassq.f | 6 - src/othersfortran/zstein.f | 9 +- src/othersfortran/zsteqr.f | 4 - src/othersfortran/zung2l.f | 4 - src/othersfortran/zung2r.f | 4 - src/othersfortran/zupgtr.f | 5 - src/othersfortran/zupmtr.f | 13 +-- src/zhpevx.f | 4 - 25 files changed, 313 insertions(+), 270 deletions(-)
More information about IndependenceTests at CRAN
Permanent link
Title: A Computational Tool for Astrochronology
Description: Routines for astrochronologic testing, astronomical time scale construction, and time series analysis <doi:10.1016/j.earscirev.2018.11.015>. Also included are a range of statistical analysis and modeling routines that are relevant to time scale development and paleoclimate analysis.
Author: Stephen Meyers [aut, cre],
Alberto Malinverno [ctb],
Linda Hinnov [ctb],
Christian Zeeden [ctb],
Huaran Liu [ctb],
Vincent Moron [ctb],
Michel Crucifix [ctb]
Maintainer: Stephen Meyers <smeyers@geology.wisc.edu>
Diff between astrochron versions 1.7 dated 2026-06-26 and 1.8 dated 2026-07-17
astrochron-1.7/astrochron/R/FUNCTION-etp_v7.R |only astrochron-1.7/astrochron/R/FUNCTION-getData_v11.R |only astrochron-1.7/astrochron/R/FUNCTION-timeOptBMCMCplot_v7.R |only astrochron-1.8/astrochron/DESCRIPTION | 8 ++-- astrochron-1.8/astrochron/MD5 | 25 +++++++----- astrochron-1.8/astrochron/NAMESPACE | 1 astrochron-1.8/astrochron/NEWS | 19 ++++++++- astrochron-1.8/astrochron/R/FUNCTION-alodfromk_v2.R |only astrochron-1.8/astrochron/R/FUNCTION-etp_v8.R |only astrochron-1.8/astrochron/R/FUNCTION-getData_v12.R |only astrochron-1.8/astrochron/R/FUNCTION-getLaskar_v6.R |only astrochron-1.8/astrochron/R/FUNCTION-timeOptBMCMCplot_v8.R |only astrochron-1.8/astrochron/R/startupMessage.R | 4 +- astrochron-1.8/astrochron/man/alodfromk.Rd |only astrochron-1.8/astrochron/man/astrochron-package.Rd | 4 +- astrochron-1.8/astrochron/man/integratePower.Rd | 2 + astrochron-1.8/astrochron/man/linterpLH13.Rd | 2 - astrochron-1.8/astrochron/man/synthStrat.Rd | 26 ++++++------- 18 files changed, 56 insertions(+), 35 deletions(-)