Title: Time-Varying Garch Models Through a State-Space Representation
Description: Estimates the time-varying (tv) parameters of the GARCH(1,1) model, enabling the modeling of non-stationary volatilities by allowing the model parameters to change gradually over time. The estimation and prediction processes are facilitated through the application of the Kalman filter and state-space equations. This package supports the estimation of tv parameters for various deterministic functions, which can be identified through exploratory analysis of different time periods or segments of return data. The methodology is grounded in the framework presented by Ferreira et al. (2017) <doi:10.1080/00949655.2017.1334778>.
Author: Guillermo Ferreira [aut],
Tomas Arancibia [aut, cre]
Maintainer: Tomas Arancibia <tarancibia2016@udec.cl>
Diff between tvGarchKF versions 0.0.1 dated 2025-05-30 and 1.0.0 dated 2026-08-21
DESCRIPTION | 25 ++++-- MD5 | 65 +++++++++++---- NAMESPACE | 77 +++++++++++++++--- R/NonParam-BS.R |only R/NonParam-LP.R |only R/NonParam-SS.R |only R/Parametric-function.R | 143 +++++++++++++++++++++++++++++++++- R/auto.tvGarchKF.R |only R/class-tvGarchKF.R |only R/class-tvGarchKFNonParam.R |only R/class-tvGarchKFNonParam_Fit.R |only R/helpers.R |only R/helpers_gamSS.R |only R/methods-fitted.R |only R/methods-nobs.R |only R/methods-plot.R |only R/methods-predict.R |only R/methods-residuals.R |only R/methods-summary.R |only R/methods-vcov.R |only R/tvCoef.R |only R/tvGarchKalman.R |only R/tvGarchKalmanFit.R | 154 +++++++++++++++++++++++++------------ R/tvGarchKalmanLoglike.R | 92 +++++----------------- R/tvGarchKalmanPrint.R | 99 ++++++++--------------- R/tvGarchNonParamFit.R |only R/tvGarchNonParamKF.R |only R/tvGarch_Sim.R | 43 ++++++---- R/tvParameter.R | 138 ++++++++++++++++++++++----------- inst/CITATION | 2 man/auto.tvGarchKF.Rd |only man/fitted-methods.Rd |only man/nobs-tvGarchKF-method.Rd |only man/plot-methods.Rd |only man/predict-methods.Rd |only man/residuals-tvGarchKF-method.Rd |only man/summary-methods.Rd |only man/tvGarchKF-class.Rd |only man/tvGarchKFNonParam-class.Rd |only man/tvGarchKFNonParam_Fit-class.Rd |only man/tvGarchKalmanFit.Rd | 68 +++++++++------- man/tvGarchKalmanLoglike.Rd | 32 +++---- man/tvGarchKalmanPrint.Rd | 30 +++---- man/tvGarchNonParamFit.Rd |only man/tvGarchNonParamKF.Rd |only man/tvGarch_Sim.Rd | 31 ++++--- man/tvParameter.Rd | 49 +++++++++-- man/vcov-tvGarchKF-method.Rd |only src/tvGarchKF.c | 15 +-- tests/testthat/test-indipsa.R | 12 +- 50 files changed, 695 insertions(+), 380 deletions(-)
Title: Reproducible Pipeline Infrastructure for Neuroscience
Description: Defines the underlying pipeline structure for reproducible
neuroscience, adopted by 'RAVE' (reproducible analysis and visualization
of intracranial electroencephalography); provides high-level class
definition to build, compile, set, execute, and share analysis pipelines.
Both R and 'Python' are supported, with 'Markdown' and 'shiny' dashboard
templates for extending and building customized pipelines. See the full
documentations at <https://rave.wiki>; to cite us,
check out our paper by Magnotti, Wang, and Beauchamp (2020,
<doi:10.1016/j.neuroimage.2020.117341>), or run
citation("ravepipeline") for details.
Author: Zhengjia Wang [aut, cre, cph],
John Magnotti [ctb, res],
Xiang Zhang [ctb, res],
Michael Beauchamp [ctb, res],
Trustees of University of Pennsylvania [cph]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between ravepipeline versions 0.1.0 dated 2026-05-30 and 0.2.0 dated 2026-08-21
DESCRIPTION | 13 - MD5 | 36 ++- NAMESPACE | 9 NEWS.md | 51 +++++ R/aaa-colormap.R |only R/aaa.R | 8 R/class-PipelineTools.R | 189 ++++++++++++++++++++ R/filearray.R | 14 + R/pipeline-knitr.R | 16 + R/pipeline-preferences.R |only R/pipeline-report.R | 5 R/pipeline-run.R | 2 R/pipeline-tools.R | 203 --------------------- R/preference-basic.R |only R/preference-colormap.R |only R/rmarkdown.R |only man/PipelineTools.Rd | 270 +++++++++++++++++++++++++++++ man/define_preference_basic.Rd |only man/define_preference_colormap.Rd |only man/package-reports.Rd |only man/rave-colormaps.Rd |only man/rave-pipeline-preferences.Rd | 13 + man/ravepipeline-constants.Rd | 3 tests/testthat/test-pipeline-preferences.R |only 24 files changed, 604 insertions(+), 228 deletions(-)
Title: Functions for Declared Missing Values
Description: A zero dependency package containing functions to declare labels
and missing values, coupled with associated functions to create (weighted)
tables of frequencies and various other summary measures.
Some of the base functions have been rewritten to make use of the specific
information about the missing values, most importantly to distinguish
between empty and declared NA values.
Some functions have similar functionality with the corresponding ones from
packages "haven" and "labelled". The aim is to ensure as much compatibility
as possible with these packages, while offering an alternative in the
objects of class "declared".
Author: Adrian Dusa [aut, cre, cph]
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between declared versions 0.26 dated 2026-04-02 and 0.27 dated 2026-08-21
DESCRIPTION | 16 +- MD5 | 103 ++++++++------- NAMESPACE | 15 ++ R/as.declared.R | 69 ++++++++++ R/class_methods.R | 175 ++++++++++++++++++++++++- R/declared.R | 38 +++++ R/declared_package.R | 33 ++++ R/drop_undeclare.R | 28 ++++ R/haven.R | 27 +++ R/internals.R | 228 ++++++++++++++++++++++++++++++--- R/is.declared.R | 27 +++ R/is.empty.R | 30 ++++ R/labelled.R | 35 ++++- R/labels.R | 26 +++ R/measurement.R | 26 +++ R/missing_range.R | 31 ++++ R/missing_values.R | 31 ++++ R/onLoad.R | 220 ++++++++++---------------------- R/pillar.R | 40 +++++ R/print.R | 120 +++++++++++++++++ R/valid_na_index.R |only R/validate_declared.R | 26 +++ R/vctrs.R | 27 +++ R/vroom.R | 26 +++ R/wIQR.R | 27 +++ R/wfivenum.R | 28 ++++ R/wmean.R | 30 ++++ R/wmeasures.R |only R/wmedian.R | 28 ++++ R/wmode.R | 33 ++++ R/wquantile.R | 37 +++++ R/wsd.R | 27 +++ R/wstandardize.R | 28 ++++ R/wsummary.R | 35 ++++- R/wtable.R | 82 ++++++++--- R/wvar.R | 33 ++++ build |only inst/ChangeLog | 302 +++++++++++++++++++++++--------------------- inst/WORDLIST | 2 inst/doc |only man/declared-package.Rd |only man/declared.Rd | 4 man/declared_internal.Rd | 1 man/declared_package.Rd | 7 - man/drop_undeclare.Rd | 6 man/labels.Rd | 4 man/measurement.Rd | 4 man/valid_na_index.Rd |only man/weighted.Rd | 122 ++++++++++------- src/declared.c | 103 ++++++++++++++- src/registerDynamicSymbol.c | 28 ++++ vignettes |only 52 files changed, 1897 insertions(+), 471 deletions(-)
Title: DDI with R
Description: Useful functions for various DDI (Data Documentation Initiative)
related inputs and outputs. Converts data files to and from DDI, SPSS,
Stata, SAS, R and Excel, including user declared missing values.
Author: Adrian Dusa [aut, cre, cph]
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between DDIwR versions 0.19 dated 2024-12-10 and 0.20 dated 2026-08-21
DESCRIPTION | 18 MD5 | 169 ++ NAMESPACE | 28 R/DDI_Codebook_2.6.R | 3094 ++++++++++++++++++++++++------------------------- R/DDIwR_package.R | 52 R/children.R | 649 +++++++++- R/convert.R | 336 +++-- R/exportCodebook.R | 162 ++ R/getCodebook.R | 295 ++++ R/internals.R | 1377 +++++++++++++++++---- R/makeCategories.R | 26 R/makeDataNotes.R | 26 R/makeElement.R | 26 R/onAttach.R | 28 R/readstat_internal.R |only R/recodeCharcat.R | 87 - R/recodeMissings.R | 568 +++----- R/searchFor.R | 26 R/setupfile.R | 45 R/showDetails.R | 26 R/testValid.R | 26 R/updateCodebook.R | 28 R/updateSchema.R |only cleanup |only configure |only inst/ChangeLog | 297 ++-- man/DDI-children.Rd | 42 man/DDIwR_internal.Rd | 50 man/DDIwR_package.Rd | 12 man/buildDictionary.Rd |only man/convert.Rd | 45 man/exportCodebook.Rd | 2 man/getCodebook.Rd | 23 man/recodeCharcat.Rd | 5 man/recodeMissings.Rd | 76 - man/updateSchema.Rd |only src |only 37 files changed, 4976 insertions(+), 2668 deletions(-)
Title: Assessment Tools for Regression Models with Discrete and
Semicontinuous Outcomes
Description: Provides assessment tools for regression models with discrete and
semicontinuous outcomes. The implemented methods are described in
Yang (2021) <doi:10.1080/10618600.2021.1910042>,
Yang (2024) <doi:10.1080/10618600.2024.2303336>,
Yang (2024) <doi:10.1093/biomtc/ujae007>, and
Yang (2026) <doi:10.1002/cjs.70046>. It calculates double probability integral transform (DPIT) residuals and constructs QQ plots, ordered curves, quasi-empirical residual distribution functions, and formal goodness-of-fit tests.
Author: Lu Yang [aut],
Jeonghwan Lee [cre, aut]
Maintainer: Jeonghwan Lee <lee03938@umn.edu>
Diff between assessor versions 1.3.1 dated 2026-04-20 and 1.3.2 dated 2026-08-21
DESCRIPTION | 13 - MD5 | 75 +++---- NAMESPACE | 6 R/LGPIF.R | 85 ++++---- R/bballHR.R | 2 R/dpit_2pm.R | 179 +++++++++--------- R/dpit_binomial.R | 33 +-- R/dpit_glm.R | 102 +--------- R/dpit_helper.R | 191 ++++++++++++++++++- R/dpit_main.R | 77 ++++--- R/dpit_nb.R | 29 +- R/dpit_ordinal.R | 66 ++++-- R/dpit_pois.R | 24 -- R/dpit_tobit.R | 92 +++++---- R/dpit_tweedie.R | 24 -- R/dpit_zeroinfl.R | 21 -- R/dpit_znb.R | 28 +- R/dpit_zpois.R | 33 +-- R/gof_calc.R | 513 ++++++++++++++-------------------------------------- R/gof_main.R | 74 ++++--- R/ord_curve.R | 61 ++++-- R/quasi.R | 32 --- R/quasi_func.R | 9 man/LGPIF.Rd | 84 ++++---- man/bballHR.Rd | 2 man/dpit-methods.Rd |only man/dpit.Rd | 75 +++---- man/dpit_2pm.Rd | 39 +-- man/dpit_bin.Rd | 30 --- man/dpit_nb.Rd | 28 -- man/dpit_ordi.Rd | 31 +-- man/dpit_pois.Rd | 24 -- man/dpit_tobit.Rd | 36 +-- man/dpit_tweedie.Rd | 24 -- man/dpit_znb.Rd | 28 -- man/dpit_zpois.Rd | 32 +-- man/gof_disc.Rd | 19 + man/ord_curve.Rd | 15 - man/quasi_plot.Rd | 14 - 39 files changed, 1025 insertions(+), 1225 deletions(-)
Title: Adrian Dusa's Miscellaneous
Description: Contains functions used across packages 'DDIwR', 'QCA' and 'venn'.
Interprets and translates, factorizes and negates SOP - Sum of Products
expressions, for both binary and multi-value crisp sets, and extracts
information (set names, set values) from those expressions. Other functions
perform various other checks if possibly numeric (even if all numbers reside
in a character vector) and coerce to numeric, or check if the numbers are
whole. It also offers, among many others, a highly versatile recoding
routine and some more flexible alternatives to the base functions 'with()'
and 'within()'.
SOP simplification functions in this package use related minimization from
package 'QCA', which is recommended to be installed despite not being listed
in the Imports field, due to circular dependency issues.
Author: Adrian Dusa [aut, cre, cph]
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between admisc versions 0.40 dated 2026-03-27 and 0.41 dated 2026-08-21
admisc-0.40/admisc/src/Makevars |only admisc-0.41/admisc/DESCRIPTION | 9 admisc-0.41/admisc/MD5 | 150 ++++++++-------- admisc-0.41/admisc/NAMESPACE | 1 admisc-0.41/admisc/R/admisc_internal.R | 1 admisc-0.41/admisc/R/admisc_package.R | 8 admisc-0.41/admisc/R/asNumeric.R | 15 + admisc-0.41/admisc/R/asSOP.R | 4 admisc-0.41/admisc/R/brackets.R | 58 +++++- admisc-0.41/admisc/R/change.R | 28 ++- admisc-0.41/admisc/R/checkMV.R | 26 ++ admisc-0.41/admisc/R/checkValid.R | 13 + admisc-0.41/admisc/R/classify.R | 1 admisc-0.41/admisc/R/coerceMode.R | 7 admisc-0.41/admisc/R/combnk.R | 10 + admisc-0.41/admisc/R/compute.R | 61 ++++++ admisc-0.41/admisc/R/dimnames.R | 2 admisc-0.41/admisc/R/equality.R | 16 + admisc-0.41/admisc/R/expand.R | 60 ++++++ admisc-0.41/admisc/R/export.R | 22 ++ admisc-0.41/admisc/R/factorize.R | 117 ++++++++++++ admisc-0.41/admisc/R/frelevel.R | 4 admisc-0.41/admisc/R/frev.R | 2 admisc-0.41/admisc/R/getInfo.R | 28 +++ admisc-0.41/admisc/R/getLevels.R | 13 + admisc-0.41/admisc/R/getMatrix.R | 9 admisc-0.41/admisc/R/getName.R | 41 ++++ admisc-0.41/admisc/R/inside.R | 65 ++++++- admisc-0.41/admisc/R/intersection.R | 63 ++++++ admisc-0.41/admisc/R/invert.R | 66 ++++++- admisc-0.41/admisc/R/mvSOP.R | 22 ++ admisc-0.41/admisc/R/numdec.R | 46 ++++ admisc-0.41/admisc/R/onLoad.R | 1 admisc-0.41/admisc/R/overwrite.R | 1 admisc-0.41/admisc/R/pad.R | 5 admisc-0.41/admisc/R/permutations.R | 2 admisc-0.41/admisc/R/possibleNumeric.R | 20 +- admisc-0.41/admisc/R/prettyString.R | 15 + admisc-0.41/admisc/R/prettyTable.R | 11 - admisc-0.41/admisc/R/print.R | 74 ++++++++ admisc-0.41/admisc/R/recode.R | 102 ++++++++++- admisc-0.41/admisc/R/recreate.R | 62 ++++++ admisc-0.41/admisc/R/reload.R | 3 admisc-0.41/admisc/R/replaceText.R | 46 ++++ admisc-0.41/admisc/R/scan.clipboard.R | 9 admisc-0.41/admisc/R/simplify.R | 34 +++ admisc-0.41/admisc/R/sopos.R | 54 +++++ admisc-0.41/admisc/R/sortExpressions.R | 4 admisc-0.41/admisc/R/stopError.R | 17 + admisc-0.41/admisc/R/string.R | 127 +++++++++++++ admisc-0.41/admisc/R/tagged.R | 11 + admisc-0.41/admisc/R/tilde.R | 6 admisc-0.41/admisc/R/translate.R | 169 +++++++++++++++++- admisc-0.41/admisc/R/tryCatchWEM.R | 67 +++++-- admisc-0.41/admisc/R/unicode.R | 7 admisc-0.41/admisc/R/unload.R | 4 admisc-0.41/admisc/R/update.R | 5 admisc-0.41/admisc/R/using.R | 155 ++++++++++++++++ admisc-0.41/admisc/R/validateNames.R | 9 admisc-0.41/admisc/R/verify.R | 12 + admisc-0.41/admisc/R/wholeNumeric.R | 12 + admisc-0.41/admisc/R/write.clipboard.R | 1 admisc-0.41/admisc/R/writePIs.R | 16 + admisc-0.41/admisc/build/partial.rdb |binary admisc-0.41/admisc/inst/ChangeLog | 6 admisc-0.41/admisc/man/admisc-package.Rd |only admisc-0.41/admisc/man/admisc_internal.Rd | 1 admisc-0.41/admisc/man/admisc_package.Rd | 7 admisc-0.41/admisc/man/brackets.Rd | 16 - admisc-0.41/admisc/man/factorize.Rd | 3 admisc-0.41/admisc/man/inside.Rd | 2 admisc-0.41/admisc/src/Makevars.win | 4 admisc-0.41/admisc/src/admisc.c | 44 +++- admisc-0.41/admisc/src/admisc.h | 28 +++ admisc-0.41/admisc/src/registerDynamicSymbol.c | 28 +++ admisc-0.41/admisc/src/utils.c | 231 ++++++++++++++++++++----- admisc-0.41/admisc/src/utils.h | 28 +++ 77 files changed, 2169 insertions(+), 258 deletions(-)
Title: Connectivity Corridor Optimization for Raster and Vector Data
Description: Standalone R implementation of habitat connectivity corridor
optimization for raster and vector workflows. Supports scenario-based
planning with budget-constrained optimization, optional impassable
areas, packaged parity fixtures, and comparative before-and-after
connectivity metrics. The package exposes structural,
movement-oriented, and species-oriented strategies in a reproducible
workflow aligned with a companion GIS plugin while avoiding a
desktop GIS dependency.
Author: Benjamin Bishop [aut, cre],
SORUS Consulting LLC [fnd, cph]
Maintainer: Benjamin Bishop <benjamin.bishop@sorusconsultingllc.com>
Diff between terralink versions 1.8.0 dated 2026-05-12 and 1.8.2 dated 2026-08-21
DESCRIPTION | 6 - MD5 | 40 ++++++----- NEWS.md | 13 +++ R/connectivity_metrics.R | 77 +++++++++++++++------ R/optimization.R | 16 ++-- R/raster_analysis.R | 16 +++- R/raster_utils.R | 9 +- R/terralink.R | 8 +- R/vector_analysis.R | 120 +++++++++++++++++++++++++++++++-- README.md | 6 - inst/doc/terralink-intro.Rmd | 4 - inst/doc/terralink-intro.html | 8 +- inst/extdata/impassable.gpkg |binary inst/extdata/patches.gpkg |binary inst/extdata/synthetic_impassable.gpkg |binary inst/extdata/synthetic_patches.gpkg |binary inst/scripts |only man/terralink_raster.Rd | 4 - man/terralink_vector.Rd | 4 - vignettes/terralink-intro.Rmd | 4 - 20 files changed, 260 insertions(+), 75 deletions(-)
Title: Tests of Multispecies Coalescent Gene Tree Simulator Output
Description: Statistical tests for validating multispecies coalescent gene tree simulators, using pairwise distances and rooted triple counts. See Allman ES, Baños HD, Rhodes JA 2023. Testing multispecies coalescent simulators using summary statistics, IEEE/ACM Trans Comput Biol Bioinformat, 20(2):1613–1618. <doi:10.1109/TCBB.2022.3177956>.
Author: Elizabeth Allman [aut, cre, cph],
Hector Banos [aut, cph],
John Rhodes [aut, cph]
Maintainer: Elizabeth Allman <e.allman@alaska.edu>
Diff between MSCsimtester versions 1.1 dated 2025-06-02 and 1.2 dated 2026-08-21
MSCsimtester-1.1/MSCsimtester/man/MSCsimtester.Rd |only MSCsimtester-1.2/MSCsimtester/DESCRIPTION | 8 ++++---- MSCsimtester-1.2/MSCsimtester/MD5 | 12 +++++++----- MSCsimtester-1.2/MSCsimtester/NAMESPACE | 8 +++++--- MSCsimtester-1.2/MSCsimtester/NEWS.md |only MSCsimtester-1.2/MSCsimtester/R/MSCsimtester.R | 9 +++------ MSCsimtester-1.2/MSCsimtester/build/partial.rdb |binary MSCsimtester-1.2/MSCsimtester/inst/extdata |only MSCsimtester-1.2/MSCsimtester/man/MSCsimtester-package.Rd |only 9 files changed, 19 insertions(+), 18 deletions(-)
Title: Functional Programming with Parallelism and Progress Tracking
Description: Provides functional tools such as fmap(), fwalk(), and fapply()
to iterate over vectors, data frames, or grouped data with optional parallelism
and real-time progress tracking. Progress updates now reflect completed tasks
across sequential, multicore, and cluster-backed execution. Designed for
readable and reproducible workflows, including support for Monte Carlo
simulations and benchmarking.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between functionals versions 0.5.0 dated 2025-07-18 and 0.5.1 dated 2026-08-21
DESCRIPTION | 21 +-- MD5 | 40 +++--- NAMESPACE | 1 NEWS.md |only R/fapply.R | 84 ++++++++----- R/floop.R | 3 R/fmap.R | 8 - R/fmapc.R | 4 R/fmapg.R | 3 R/fmapn.R | 12 - R/frepeat.R | 13 +- R/helpers.R | 208 ++++++++++++++++++++++++++++++---- README.md | 49 +++++++- man/fapply.Rd | 9 + man/floop.Rd | 3 man/fmap.Rd | 6 man/fmapc.Rd | 4 man/fmapg.Rd | 3 man/fmapn.Rd | 12 - man/frepeat.Rd | 13 +- man/functionals-package.Rd | 1 tests/testthat/test-progress-system.R |only 22 files changed, 380 insertions(+), 117 deletions(-)
Title: A Workflow for Statistical Testing and Interpretation
Description: Provides a unified workflow for choosing, running, and
interpreting 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,
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 0.9.0 dated 2026-07-17 and 1.0.0 dated 2026-08-21
testflow-0.9.0/testflow/inst/doc/effect-size-formulas.R |only testflow-0.9.0/testflow/inst/doc/effect-size-formulas.Rmd |only testflow-0.9.0/testflow/inst/doc/effect-size-formulas.pdf |only testflow-0.9.0/testflow/inst/doc/statistical-test-workflows.R |only testflow-0.9.0/testflow/inst/doc/statistical-test-workflows.Rmd |only testflow-0.9.0/testflow/inst/doc/statistical-test-workflows.pdf |only testflow-0.9.0/testflow/vignettes/effect-size-formulas.Rmd |only testflow-0.9.0/testflow/vignettes/statistical-test-workflows.Rmd |only testflow-1.0.0/testflow/DESCRIPTION | 28 testflow-1.0.0/testflow/MD5 | 64 - testflow-1.0.0/testflow/NAMESPACE | 32 testflow-1.0.0/testflow/NEWS.md | 93 + testflow-1.0.0/testflow/R/sample_size.R | 586 +++++++++- testflow-1.0.0/testflow/R/sumtab.R | 21 testflow-1.0.0/testflow/R/test_agreement.R | 39 testflow-1.0.0/testflow/R/testflow-package.R |only testflow-1.0.0/testflow/build/vignette.rds |binary testflow-1.0.0/testflow/inst/doc/getting-started.pdf |binary testflow-1.0.0/testflow/inst/doc/sample-size-api-reference.R | 23 testflow-1.0.0/testflow/inst/doc/sample-size-api-reference.Rmd | 69 - testflow-1.0.0/testflow/inst/doc/sample-size-api-reference.pdf |binary testflow-1.0.0/testflow/inst/doc/sample-size-planning.R | 32 testflow-1.0.0/testflow/inst/doc/sample-size-planning.Rmd | 103 + testflow-1.0.0/testflow/inst/doc/sample-size-planning.pdf |binary testflow-1.0.0/testflow/inst/doc/scientific-validation.R |only testflow-1.0.0/testflow/inst/doc/scientific-validation.Rmd |only testflow-1.0.0/testflow/inst/doc/scientific-validation.pdf |only testflow-1.0.0/testflow/inst/doc/testflow-complete-reference.R |only testflow-1.0.0/testflow/inst/doc/testflow-complete-reference.Rmd |only testflow-1.0.0/testflow/inst/doc/testflow-complete-reference.pdf |only testflow-1.0.0/testflow/inst/validation |only testflow-1.0.0/testflow/man/print.summary.sample_size.Rd |only testflow-1.0.0/testflow/man/print.testflow_sumtab.Rd |only testflow-1.0.0/testflow/man/sample_size_bioequivalence.Rd | 38 testflow-1.0.0/testflow/man/sample_size_precision.Rd | 117 + testflow-1.0.0/testflow/man/test_agreement.Rd | 27 testflow-1.0.0/testflow/man/testflow-package.Rd |only testflow-1.0.0/testflow/tests/testthat/test-sample-size-precision.R |only testflow-1.0.0/testflow/tests/testthat/test-sample-size.R | 89 + testflow-1.0.0/testflow/tests/testthat/test-test-agreement.R | 32 testflow-1.0.0/testflow/vignettes/sample-size-api-reference.Rmd | 69 - testflow-1.0.0/testflow/vignettes/sample-size-planning.Rmd | 103 + testflow-1.0.0/testflow/vignettes/scientific-validation.Rmd |only testflow-1.0.0/testflow/vignettes/testflow-complete-reference.Rmd |only 44 files changed, 1365 insertions(+), 200 deletions(-)
Title: Fast Masked K-Nearest Neighbor Imputation
Description: Fast masked KNN imputation for tabular data with support for single and multiple imputation.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between missknn versions 1.0.0 dated 2026-07-24 and 1.1.2 dated 2026-08-21
DESCRIPTION | 7 + MD5 | 39 ++++++--- R/RcppExports.R | 16 ++-- R/internal.R | 80 ++++++++++++++++++-- R/missknn.R | 16 +++- README.md | 27 ++++++ inst/benchmark/benchmark_bio.R |only inst/benchmark/benchmark_real.R | 6 - inst/benchmark/data |only inst/benchmark/load_bio_datasets.R |only inst/benchmark/output/bio_data_benchmark_report.md |only inst/benchmark/output/bio_data_nrmse_plot.png |only inst/benchmark/output/bio_data_results.csv |only inst/benchmark/output/bio_data_speed_plot.png |only inst/benchmark/output/real_data_benchmark_report.md | 42 +++++----- inst/benchmark/output/real_data_bign_results.csv | 4 - inst/benchmark/output/real_data_nrmse_plot.png |binary inst/benchmark/output/real_data_results.csv | 30 +++---- inst/benchmark/output/real_data_speed_plot.png |binary man/missknn-package.Rd | 8 ++ man/missknn.Rd | 10 ++ src/RcppExports.cpp | 40 ++++++---- src/missknn.cpp | 73 ++++++++++++++++-- 23 files changed, 296 insertions(+), 102 deletions(-)
Title: Compact Multiple Imputation, Assessment, and Reporting
Description: Provides compact tools for missing-data analysis, including
artificial amputation, chained single and multiple imputation, statistical
and machine-learning-based imputation methods, diagnostic evaluation, and
post-imputation pooling.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between mimar versions 0.8.0 dated 2026-06-09 and 1.0.0 dated 2026-08-21
DESCRIPTION | 21 - MD5 | 55 +-- NAMESPACE | 10 NEWS.md | 38 ++ R/ampute.R | 7 R/classes.R | 4 R/complete.R | 8 R/describe.R | 4 R/evaluate.R | 13 R/generics.R | 3 R/impute.R | 19 - R/impute_chained.R | 42 ++ R/imputer.R | 63 ++- R/plot.R | 11 R/pool.R | 154 +++++++- R/pool_models.R |only R/utils.R | 24 - README.md | 401 +++++++++++++++++---- inst/doc/mimar.R | 19 + inst/doc/mimar.Rmd | 69 +++ inst/doc/mimar.html | 821 +++++++++++++++++++++++++++++++-------------- man/impute.Rd | 7 man/imputer_registry.Rd | 4 man/pool.Rd | 3 man/pool_clogit.Rd |only man/pool_coxph.Rd |only man/pool_glm.Rd |only man/pool_lm.Rd |only man/pool_survmat.Rd |only man/pool_survreg.Rd |only tests/testthat/test-core.R | 218 ++++++++++- vignettes/mimar.Rmd | 69 +++ 32 files changed, 1623 insertions(+), 464 deletions(-)
Title: Monte Carlo Statistical Simulation Tools Using a Functional
Approach
Description: A lightweight package designed to facilitate statistical
simulations through functional programming. It centralizes the simulation process into a single
higher-order function, enhancing manageability and usability. The package includes ready-to-use
functions for common simulation targets.
Author: Imad El Badisy [aut, cre, cph]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between mcstatsim versions 0.5.0 dated 2024-07-29 and 0.5.1 dated 2026-08-21
DESCRIPTION | 27 ++++++++++++++------------- MD5 | 12 ++++++------ NAMESPACE | 2 -- NEWS.md | 11 +++++++++++ R/mcpmap.R | 13 +++---------- README.md | 13 +++++++++---- man/mcpmap.Rd | 4 ++-- 7 files changed, 45 insertions(+), 37 deletions(-)
Title: Dense Neural Networks for Tabular Classification and Regression
Description: Provides dense feed-forward neural network models for
tabular regression and classification using 'torch'. The package supports
modern extensions around dense neural network blocks, including dropout,
batch normalization, residual connections, gated blocks, and optional
input projection.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between densemlp versions 0.5.0 dated 2026-08-08 and 0.6.0 dated 2026-08-21
DESCRIPTION | 14 ++-- MD5 | 18 +++--- NAMESPACE | 2 NEWS.md |only R/cv.R |only README.md | 28 +++++++++ inst/doc/getting-started.Rmd | 123 ++++++++++++++++++++++++++++++++++++++++++ inst/doc/getting-started.pdf |binary man/cv_densemlp.Rd |only man/densemlp-package.Rd | 4 - tests/testthat/test-cv.R |only vignettes/getting-started.Rmd | 123 ++++++++++++++++++++++++++++++++++++++++++ 12 files changed, 296 insertions(+), 16 deletions(-)
Title: Bayesian Additive Regression Trees with Stan-Sampled Parametric
Extensions
Description: Fits semiparametric linear and multilevel models with non-parametric additive Bayesian additive regression tree (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) components and Stan (Stan Development Team (2021) <https://mc-stan.org/>) sampled parametric ones. Multilevel models can be expressed using 'lme4' syntax (Bates, Maechler, Bolker, and Walker (2015) <doi:10.18637/jss.v067.i01>).
Author: Vincent Dorie [aut, cre] ,
Ben Goodrich [ctb] ,
Jonah Gabry [ctb] ,
Imad Ali [ctb] ,
Sam Brilleman [ctb] ,
Paul-Christian Burkner [ctb] ,
Joshua Pritikin [ctb] ,
Andrew Gelman [ctb] ,
Bob Carpenter [ctb] ,
Matt Hoffman [ctb] ,
Daniel Lee [ctb] ,
Mich [...truncated...]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between stan4bart versions 0.0-12 dated 2026-03-19 and 0.0-13 dated 2026-08-21
stan4bart-0.0-12/stan4bart/src/stan_files/continuous_new.hpp |only stan4bart-0.0-13/stan4bart/DESCRIPTION | 10 ++-- stan4bart-0.0-13/stan4bart/MD5 | 7 +-- stan4bart-0.0-13/stan4bart/R/generics.R | 2 stan4bart-0.0-13/stan4bart/src/init.cpp | 25 ++++++----- 5 files changed, 24 insertions(+), 20 deletions(-)
Title: Spatial Logistic Gaussian Process for Field Density Estimation
Description: Provides tools for conditional and spatially dependent
density estimation using Spatial Logistic Gaussian Processes (SLGPs).
The approach represents probability densities through finite-rank
Gaussian process priors transformed via a spatial logistic density
transformation, enabling flexible non-parametric modeling of
heterogeneous data. Functionality includes density prediction,
quantile and moment estimation, sampling methods, and preprocessing
routines for basis functions. Applications arise in spatial statistics,
machine learning, and uncertainty quantification.
The methodology builds on the framework of Leonard (1978)
<doi:10.1111/j.2517-6161.1978.tb01655.x>, Lenk (1988) <doi:10.1080/01621459.1988.10478625>,
Tokdar (2007) <doi:10.1198/106186007X210206>, Tokdar (2010) <doi:10.1214/10-BA605>,
and is further aligned with recent developments
in Bayesian non-parametric modelling: see Gautier (2023) <https://boristheses.unibe.ch/4377/>,
and Gautier (2025) &l [...truncated...]
Author: Athenais Gautier [aut, cre]
Maintainer: Athenais Gautier <athenais.gautier@onera.fr>
Diff between SLGP versions 1.0.2 dated 2026-02-17 and 1.1.0 dated 2026-08-21
SLGP-1.0.2/SLGP/inst/extdata |only SLGP-1.1.0/SLGP/DESCRIPTION | 6 SLGP-1.1.0/SLGP/MD5 | 68 +- SLGP-1.1.0/SLGP/NAMESPACE | 13 SLGP-1.1.0/SLGP/R/PredictAndSimulate.R | 381 +++++------ SLGP-1.1.0/SLGP/R/SLGP-package.R | 89 ++ SLGP-1.1.0/SLGP/R/SLGPclass.R | 2 SLGP-1.1.0/SLGP/R/datamanagement.R | 16 SLGP-1.1.0/SLGP/R/methods.R |only SLGP-1.1.0/SLGP/R/slgp.R | 209 +++--- SLGP-1.1.0/SLGP/inst/doc/IntroductionSLGP.R | 337 ++++++---- SLGP-1.1.0/SLGP/inst/doc/IntroductionSLGP.Rmd | 382 +++++++---- SLGP-1.1.0/SLGP/inst/doc/IntroductionSLGP.html | 780 ++++++++++++++---------- SLGP-1.1.0/SLGP/inst/doc/SLGPdiscrete.R | 243 +++---- SLGP-1.1.0/SLGP/inst/doc/SLGPdiscrete.Rmd | 282 ++++---- SLGP-1.1.0/SLGP/inst/doc/SLGPdiscrete.html | 375 ++++++----- SLGP-1.1.0/SLGP/man/SLGP-class.Rd | 2 SLGP-1.1.0/SLGP/man/SLGP-package.Rd | 79 ++ SLGP-1.1.0/SLGP/man/coef-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/formula-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/nobs-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/plot-SLGP-missing-method.Rd |only SLGP-1.1.0/SLGP/man/pre_comput_NN.Rd | 8 SLGP-1.1.0/SLGP/man/pre_comput_WNN.Rd | 6 SLGP-1.1.0/SLGP/man/pre_comput_nothing.Rd | 2 SLGP-1.1.0/SLGP/man/predict-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/predictSLGP_cdf.Rd | 54 - SLGP-1.1.0/SLGP/man/predictSLGP_moments.Rd | 54 - SLGP-1.1.0/SLGP/man/predictSLGP_newNode.Rd | 54 - SLGP-1.1.0/SLGP/man/predictSLGP_quantiles.Rd | 58 - SLGP-1.1.0/SLGP/man/print-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/print.summary.SLGP.Rd |only SLGP-1.1.0/SLGP/man/retrainSLGP.Rd | 181 ++--- SLGP-1.1.0/SLGP/man/sampleSLGP.Rd | 48 - SLGP-1.1.0/SLGP/man/simulate-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/slgp.Rd | 87 +- SLGP-1.1.0/SLGP/man/summary-SLGP-method.Rd |only SLGP-1.1.0/SLGP/man/update-SLGP-method.Rd |only SLGP-1.1.0/SLGP/vignettes/IntroductionSLGP.Rmd | 382 +++++++---- SLGP-1.1.0/SLGP/vignettes/SLGPdiscrete.Rmd | 282 ++++---- SLGP-1.1.0/SLGP/vignettes/references.bib |only 41 files changed, 2420 insertions(+), 2060 deletions(-)
Title: General Network (HTTP/FTP/...) Client Interface for R
Description: A wrapper for 'libcurl' <https://curl.se/libcurl/>
Provides functions to allow one to compose general HTTP requests
and provides convenient functions to fetch URIs, get & post
forms, etc. and process the results returned by the Web server.
This provides a great deal of control over the HTTP/FTP/...
connection and the form of the request while providing a
higher-level interface than is available just using R socket
connections. Additionally, the underlying implementation is
robust and extensive, supporting FTP/FTPS/TFTP (uploads and
downloads), SSL/HTTPS, telnet, dict, ldap, and also supports
cookies, redirects, authentication, etc.
Author: CRAN Team [ctb] ,
Duncan Temple Lang [aut] ,
Ivan Krylov [cre]
Maintainer: Ivan Krylov <ikrylov@disroot.org>
Diff between RCurl versions 1.98-1.19 dated 2026-06-03 and 1.98-1.20 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 15 ++++++++------- R/curlAuthConstants.R | 2 +- inst/NEWS.Rd |only inst/doc/philosophy.html | 8 ++++---- inst/doc/withCookies.html | 12 ++++++------ man/base64.Rd | 2 ++ man/curlError.Rd | 2 +- man/getURIAsynchronous.Rd | 4 ++++ 9 files changed, 29 insertions(+), 22 deletions(-)
Title: Quality Report Generation for MaxQuant and mzTab Results
Description: Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the
MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool).
Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format.
Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015)
<doi:10.1021/acs.jproteome.5b00780>.
Author: Chris Bielow [aut, cre],
Juliane Schmachtenberg [ctb],
Swenja Wagner [ctb],
Patricia Scheil [ctb],
Tom Waschischek [ctb],
Guido Mastrobuoni [dtc, rev]
Maintainer: Chris Bielow <chris.bielow@bsc.fu-berlin.de>
Diff between PTXQC versions 1.1.5 dated 2026-04-23 and 1.1.6 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 44 +++++----- NEWS | 3 R/MQDataReader.R | 94 +++++++++++---------- R/fcn_MQ.R | 13 +- R/fcn_qualities.R | 114 +++++++++++++------------- R/qcMetric.R | 18 ++-- R/qcMetric_EVD.R | 4 R/qcMetric_MSMS.R | 4 R/qcMetric_MSMSScans.R | 2 README.md | 2 inst/doc/PTXQC-Basic_Guide_for_R_users.html | 6 - inst/doc/PTXQC-CustomizeReport.html | 6 - inst/doc/PTXQC-DragNDrop.html | 6 - inst/doc/PTXQC-FAQ.html | 6 - inst/doc/PTXQC-Input_And_Output_Data.html | 6 - inst/doc/PTXQC-ListOfMetrics.html | 31 +++---- man/MQDataReader-class.Rd | 122 +++++++++++++++------------- man/qcMetric-class.Rd | 26 +++-- man/qualCentered.Rd | 2 man/qualGaussDev.Rd | 2 man/qualHighest.Rd | 4 man/qualUniform.Rd | 12 +- 23 files changed, 287 insertions(+), 248 deletions(-)
Title: Download and Manage Optional Package Data
Description: Manage optional data for your package. The data can be hosted anywhere, and you have to give a Uniform Resource Locator (URL) for each file. File integrity checks are supported. This is useful for package authors who need to ship more than the 5 Megabyte of data currently allowed by the the Comprehensive R Archive Network (CRAN). Download functions are supposed to be called by users in interactive sessions only.
Author: Tim Schaefer [aut, cre]
Maintainer: Tim Schaefer <ts+code@rcmd.org>
Diff between pkgfilecache versions 0.1.5 dated 2024-02-02 and 0.2.0 dated 2026-08-21
DESCRIPTION | 16 LICENSE | 4 MD5 | 64 - NAMESPACE | 22 R/filecache.R | 985 ++++++++-------- build/vignette.rds |binary inst/doc/pkgfilecache.R | 178 +- inst/doc/pkgfilecache.Rmd | 418 +++--- inst/doc/pkgfilecache.html | 1197 ++++++++++---------- inst/extdata/file1.txt | 2 inst/extdata/file2.txt | 2 man/are_files_available.Rd | 52 man/download_files_with_md5_mismatch.Rd | 52 man/ensure_files_available.Rd | 98 - man/erase_file_cache.Rd | 34 man/files_exist_md5.Rd | 40 man/flatten_filepath.Rd | 36 man/get_abs_filenames.Rd | 40 man/get_absolute_path_for_files.Rd | 50 man/get_cache_dir.Rd | 54 man/get_filepath.Rd | 52 man/get_pkg_info.Rd | 54 man/get_relative_file_subdir.Rd | 40 man/list_available.Rd | 44 man/make_pgk_cache_subdir_for_all_relative_files.Rd | 34 man/make_pgk_cache_subdir_for_relative_file.Rd | 34 man/pick_cache_dir.Rd |only man/pkg_cache_dir_with_version.Rd |only man/remove_cached_files.Rd | 48 tests/testthat.R | 8 tests/testthat/setup.R |only tests/testthat/teardown-cran.R | 14 tests/testthat/test-download-rcmd-org.R |only tests/testthat/test-filecache.R | 778 +++++++----- vignettes/pkgfilecache.Rmd | 418 +++--- 35 files changed, 2519 insertions(+), 2349 deletions(-)
Title: Bayesian Estimation and Forecasting of Age-Specific Rates
Description: Fast Bayesian estimation and forecasting of age-specific
rates, probabilities, and means, based on 'Template Model Builder'.
Author: John Bryant [aut, cre],
Junni Zhang [aut],
Bayesian Demography Limited [cph]
Maintainer: John Bryant <john@bayesiandemography.com>
Diff between bage versions 0.10.9 dated 2026-05-20 and 0.10.10 dated 2026-08-21
DESCRIPTION | 8 +- MD5 | 32 +++++------ NAMESPACE | 14 ++-- NEWS.md | 11 +++ R/bage_mod-methods.R | 24 ++------ R/forecast.R | 36 ++++++++++++ R/util.R | 25 -------- README.md | 39 +++---------- build/vignette.rds |binary inst/Matrix-version | 2 inst/TMB-version | 2 inst/doc/vig01_intro.html | 6 +- man/augment.bage_mod.Rd | 19 +----- man/replicate_data.Rd | 2 tests/testthat/test-bage_mod-methods.R | 91 +++++++++++++++++++++++++++++++- tests/testthat/test-forecast.R | 93 ++++++++++++++++++++++++++++++++- tests/testthat/test-util.R | 25 -------- 17 files changed, 285 insertions(+), 144 deletions(-)
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents, both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb],
Ivan Krylov [cre]
Maintainer: Ivan Krylov <ikrylov@disroot.org>
Diff between XML versions 3.99-0.23 dated 2026-03-20 and 3.99-0.24 dated 2026-08-21
XML-3.99-0.23/XML/R/DTD.R |only XML-3.99-0.23/XML/R/parseDTD.R |only XML-3.99-0.23/XML/man/dtdElement.Rd |only XML-3.99-0.23/XML/man/dtdElementValidEntry.Rd |only XML-3.99-0.23/XML/man/dtdIsAttribute.Rd |only XML-3.99-0.23/XML/man/dtdValidElement.Rd |only XML-3.99-0.23/XML/man/xmlContainsEntity.Rd |only XML-3.99-0.24/XML/ChangeLog | 5 + XML-3.99-0.24/XML/DESCRIPTION | 28 ++++---- XML-3.99-0.24/XML/MD5 | 90 ++++++++++++-------------- XML-3.99-0.24/XML/NAMESPACE | 26 +++---- XML-3.99-0.24/XML/R/XMLRErrorInfo.R | 4 - XML-3.99-0.24/XML/R/defunct.R |only XML-3.99-0.24/XML/R/parser.R | 2 XML-3.99-0.24/XML/R/xmlErrorEnums.R | 6 - XML-3.99-0.24/XML/man/AssignXMLNode.Rd | 3 XML-3.99-0.24/XML/man/XML-defunct.Rd | 19 ++++- XML-3.99-0.24/XML/man/XMLCodeFile-class.Rd | 10 ++ XML-3.99-0.24/XML/man/addChildren.Rd | 6 - XML-3.99-0.24/XML/man/append.XMLNode.Rd | 3 XML-3.99-0.24/XML/man/asXMLNode.Rd | 3 XML-3.99-0.24/XML/man/genericSAXHandlers.Rd | 3 XML-3.99-0.24/XML/man/getHTMLLinks.Rd | 2 XML-3.99-0.24/XML/man/getLineNumber.Rd | 3 XML-3.99-0.24/XML/man/getNodeSet.Rd | 3 XML-3.99-0.24/XML/man/length.XMLNode.Rd | 3 XML-3.99-0.24/XML/man/libxmlVersion.Rd | 3 XML-3.99-0.24/XML/man/names.XMLNode.Rd | 3 XML-3.99-0.24/XML/man/newXMLDoc.Rd | 5 - XML-3.99-0.24/XML/man/parseURI.Rd | 2 XML-3.99-0.24/XML/man/print.Rd | 2 XML-3.99-0.24/XML/man/readHTMLList.Rd | 2 XML-3.99-0.24/XML/man/saveXML.Rd | 2 XML-3.99-0.24/XML/man/supportsExpat.Rd | 3 XML-3.99-0.24/XML/man/xmlApply.Rd | 3 XML-3.99-0.24/XML/man/xmlAttributeType.Rd | 2 XML-3.99-0.24/XML/man/xmlDOMApply.Rd | 3 XML-3.99-0.24/XML/man/xmlElementsByTagName.Rd | 3 XML-3.99-0.24/XML/man/xmlEventHandler.Rd | 3 XML-3.99-0.24/XML/man/xmlGetAttr.Rd | 3 XML-3.99-0.24/XML/man/xmlName.Rd | 7 +- XML-3.99-0.24/XML/man/xmlNamespace.Rd | 3 XML-3.99-0.24/XML/man/xmlNode.Rd | 3 XML-3.99-0.24/XML/man/xmlOutput.Rd | 3 XML-3.99-0.24/XML/man/xmlRoot.Rd | 3 XML-3.99-0.24/XML/man/xmlSize.Rd | 4 - XML-3.99-0.24/XML/man/xmlSubset.Rd | 2 XML-3.99-0.24/XML/man/xmlTree.Rd | 5 - XML-3.99-0.24/XML/man/xmlTreeParse.Rd | 9 ++ XML-3.99-0.24/XML/man/xmlValue.Rd | 3 50 files changed, 155 insertions(+), 145 deletions(-)
Title: 'vcd' Extensions and Additions
Description: Provides additional data sets, methods and documentation to complement the 'vcd' package for Visualizing Categorical Data
and the 'gnm' package for Generalized Nonlinear Models.
In particular, 'vcdExtra' extends mosaic, assoc and sieve plots from 'vcd' to handle 'glm()' and 'gnm()' models and
adds a 3D version in 'mosaic3d'. Additionally, methods are provided for comparing and visualizing lists of
'glm' and 'loglm' objects. This package is now a support package for the book Friendly, M. and Meyer, D.
(2016, ISBN:978-1-4987-2583-5) 'Discrete Data Analysis with R: Visualization and Modeling Techniques for
Categorical and Count Data'. Recent work adds colorized tables of frequencies to highlight patterns of association,
association graphs to visualize conditional independence and a variety of new or improved statistical tests for
categorical data analysis.
Author: Michael Friendly [aut, cre] ,
David Meyer [ctb],
Achim Zeileis [ctb] ,
Duncan Murdoch [ctb],
Heather Turner [ctb] ,
David Firth [ctb],
Daniel Sabanes Bove [ctb] ,
Matt Kumar [ctb],
Shuguang Sun [ctb],
Gavin Klorfine [aut]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between vcdExtra versions 0.9.7 dated 2026-08-03 and 0.9.8 dated 2026-08-21
vcdExtra-0.9.7/vcdExtra/man/figures/logo-new.jpg |only vcdExtra-0.9.7/vcdExtra/man/figures/logo-old.png |only vcdExtra-0.9.8/vcdExtra/DESCRIPTION | 33 +- vcdExtra-0.9.8/vcdExtra/MD5 | 57 ++-- vcdExtra-0.9.8/vcdExtra/NAMESPACE | 168 +++++++------ vcdExtra-0.9.8/vcdExtra/NEWS.md | 41 +++ vcdExtra-0.9.8/vcdExtra/R/CMHtest.R | 7 vcdExtra-0.9.8/vcdExtra/R/Summarise.R | 14 - vcdExtra-0.9.8/vcdExtra/R/data.R | 22 + vcdExtra-0.9.8/vcdExtra/R/drop1.loglm.R |only vcdExtra-0.9.8/vcdExtra/R/logist_plot.R |only vcdExtra-0.9.8/vcdExtra/R/logseries.R | 2 vcdExtra-0.9.8/vcdExtra/R/vcdExtra-deprecated.R |only vcdExtra-0.9.8/vcdExtra/inst/doc/a1-creating.html | 8 vcdExtra-0.9.8/vcdExtra/inst/doc/a1a-convert-collapse.html | 2 vcdExtra-0.9.8/vcdExtra/inst/doc/a2-tests.html | 12 vcdExtra-0.9.8/vcdExtra/inst/doc/a3-loglinear.html | 4 vcdExtra-0.9.8/vcdExtra/inst/doc/a4-mosaics.html | 18 - vcdExtra-0.9.8/vcdExtra/inst/doc/a5-demo-housing.html | 10 vcdExtra-0.9.8/vcdExtra/inst/doc/a6-mobility.html | 18 - vcdExtra-0.9.8/vcdExtra/inst/doc/a7-continuous.html | 12 vcdExtra-0.9.8/vcdExtra/inst/doc/datasets.html | 4 vcdExtra-0.9.8/vcdExtra/inst/doc/tidyCats.html | 4 vcdExtra-0.9.8/vcdExtra/man/Donner.Rd | 12 vcdExtra-0.9.8/vcdExtra/man/Draft1970.Rd | 3 vcdExtra-0.9.8/vcdExtra/man/ICU.Rd | 7 vcdExtra-0.9.8/vcdExtra/man/Reinis.Rd | 152 +++++------ vcdExtra-0.9.8/vcdExtra/man/Summarise.Rd | 16 + vcdExtra-0.9.8/vcdExtra/man/drop1.loglm.Rd |only vcdExtra-0.9.8/vcdExtra/man/logist_plot.Rd |only vcdExtra-0.9.8/vcdExtra/man/logseries.Rd | 2 vcdExtra-0.9.8/vcdExtra/man/vcdExtra-deprecated.Rd |only vcdExtra-0.9.8/vcdExtra/tests/testthat/test-CMHtest.R | 14 + vcdExtra-0.9.8/vcdExtra/tests/testthat/test-logist_plot.R |only 34 files changed, 386 insertions(+), 256 deletions(-)
Title: Super Learner Prediction
Description: Implements the super learner prediction method and contains a
library of prediction algorithms to be used in the super learner.
Author: Eric Polley [aut, cre],
Erin LeDell [aut],
Chris Kennedy [aut],
Sam Lendle [ctb],
Mark van der Laan [aut, ths]
Maintainer: Eric Polley <epolley@uchicago.edu>
Diff between SuperLearner versions 2.0-40 dated 2025-12-21 and 2.0-41 dated 2026-08-21
SuperLearner-2.0-40/SuperLearner/man/predict.superlearner.Rd |only SuperLearner-2.0-41/SuperLearner/DESCRIPTION | 18 SuperLearner-2.0-41/SuperLearner/MD5 | 80 SuperLearner-2.0-41/SuperLearner/NAMESPACE | 2 SuperLearner-2.0-41/SuperLearner/R/SL.bartMachine.R | 2 SuperLearner-2.0-41/SuperLearner/R/SL.cforest.R | 2 SuperLearner-2.0-41/SuperLearner/R/SL.glmnet.R | 4 SuperLearner-2.0-41/SuperLearner/R/SL.kernelKnn.R | 4 SuperLearner-2.0-41/SuperLearner/R/SL.ksvm.R | 2 SuperLearner-2.0-41/SuperLearner/R/SL.xgboost.R | 4 SuperLearner-2.0-41/SuperLearner/R/plot.CV.SuperLearner.R | 2 SuperLearner-2.0-41/SuperLearner/build/vignette.rds |binary SuperLearner-2.0-41/SuperLearner/inst/NEWS | 7 SuperLearner-2.0-41/SuperLearner/inst/doc/Guide-to-SuperLearner.R | 204 -- SuperLearner-2.0-41/SuperLearner/inst/doc/Guide-to-SuperLearner.Rmd | 251 --- SuperLearner-2.0-41/SuperLearner/inst/doc/Guide-to-SuperLearner.html | 826 +++------- SuperLearner-2.0-41/SuperLearner/man/CV.SuperLearner.Rd | 2 SuperLearner-2.0-41/SuperLearner/man/SL.bartMachine.Rd | 21 SuperLearner-2.0-41/SuperLearner/man/SL.biglasso.Rd | 19 SuperLearner-2.0-41/SuperLearner/man/SL.cforest.Rd | 25 SuperLearner-2.0-41/SuperLearner/man/SL.glmnet.Rd | 20 SuperLearner-2.0-41/SuperLearner/man/SL.kernelKnn.Rd | 18 SuperLearner-2.0-41/SuperLearner/man/SL.ksvm.Rd | 26 SuperLearner-2.0-41/SuperLearner/man/SL.lda.Rd | 18 SuperLearner-2.0-41/SuperLearner/man/SL.qda.Rd | 18 SuperLearner-2.0-41/SuperLearner/man/SL.ranger.Rd | 21 SuperLearner-2.0-41/SuperLearner/man/SL.xgboost.Rd | 24 SuperLearner-2.0-41/SuperLearner/man/create.Learner.Rd | 12 SuperLearner-2.0-41/SuperLearner/man/create.SL.xgboost.Rd | 10 SuperLearner-2.0-41/SuperLearner/man/predict.SL.bartMachine.Rd | 3 SuperLearner-2.0-41/SuperLearner/man/predict.SL.glmnet.Rd | 3 SuperLearner-2.0-41/SuperLearner/man/predict.SL.lda.Rd | 10 SuperLearner-2.0-41/SuperLearner/man/predict.SL.qda.Rd | 10 SuperLearner-2.0-41/SuperLearner/man/predict.SL.ranger.Rd | 10 SuperLearner-2.0-41/SuperLearner/man/predict.SuperLearner.Rd |only SuperLearner-2.0-41/SuperLearner/tests/cran |only SuperLearner-2.0-41/SuperLearner/tests/testthat/test-SampleSplitSuperLearner.R |only SuperLearner-2.0-41/SuperLearner/tests/testthat/test-SuperLearner.R | 4 SuperLearner-2.0-41/SuperLearner/tests/testthat/test-createLearner.R |only SuperLearner-2.0-41/SuperLearner/tests/testthat/test-glmnet.R | 4 SuperLearner-2.0-41/SuperLearner/tests/testthat/test-kernelKnn.R | 4 SuperLearner-2.0-41/SuperLearner/tests/testthat/test-knn.R | 4 SuperLearner-2.0-41/SuperLearner/tests/testthat/test-randomForest.R |only SuperLearner-2.0-41/SuperLearner/vignettes/Guide-to-SuperLearner.Rmd | 251 --- 44 files changed, 782 insertions(+), 1163 deletions(-)
Title: Algorithms and Tools for Tabular Statistics and Hierarchical
Computations
Description: Includes general data manipulation functions, algorithms for statistical disclosure control (Langsrud, 2024) <doi:10.1007/978-3-031-69651-0_6> and functions for hierarchical computations by sparse model matrices (Langsrud, 2023) <doi:10.32614/RJ-2023-088>.
Author: Oeyvind Langsrud [aut, cre] ,
Daniel Lupp [aut] ,
Bjoern-Helge Mevik [ctb],
Vidar Norstein Klungre [rev] ,
Statistics Norway [cph]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 1.8.7 dated 2026-05-12 and 1.8.8 dated 2026-08-21
DESCRIPTION | 10 ++--- MD5 | 16 ++++----- NAMESPACE | 82 +++++++++++++++++++++++++---------------------- NEWS.md | 12 ++++++ R/convert_integer64.R | 4 +- R/dummy_aggregate.R | 10 +++++ R/model_aggregate.R | 1 man/convert_integer64.Rd | 4 +- man/dummy_aggregate.Rd | 6 +++ 9 files changed, 91 insertions(+), 54 deletions(-)
Title: General-Purpose Optimisation with the Self-Organising Migrating
Algorithm
Description: An R implementation of the Self-Organising Migrating Algorithm, a
general-purpose, stochastic optimisation algorithm. The approach is similar to
that of genetic algorithms, although it is based on the idea of a series of
"migrations" by a fixed set of individuals, rather than the development of
successive generations. It can be applied to any cost-minimisation problem
with a bounded parameter space, and is robust to local minima.
Author: Jon Clayden [cre, aut]
Maintainer: Jon Clayden <code@clayden.org>
Diff between soma versions 1.2.0 dated 2022-05-02 and 1.2.1 dated 2026-08-21
DESCRIPTION | 21 ++++++++++++++------- MD5 | 12 ++++++------ NEWS | 13 +++++++++++++ R/soma.R | 13 +++++++++++-- README.md | 14 +++++++------- inst/tinytest/test_soma.R | 27 +++++++++++++++++++++++++++ tools/figures/unnamed-chunk-5-1.png |binary 7 files changed, 78 insertions(+), 22 deletions(-)
Title: Safetensors File Format
Description: A file format for storing tensors that is secure (doesn't allow for
code execution), fast and simple to implement. 'safetensors' also enables cross
language and cross frameworks compatibility making it an ideal format for
storing machine learning model weights.
Author: Tomasz Kalinowski [ctb, cre],
Daniel Falbel [aut],
Sebastian Fischer [ctb],
Posit [cph]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between safetensors versions 0.2.1 dated 2026-04-27 and 0.3.0 dated 2026-08-21
DESCRIPTION | 6 +-- MD5 | 16 +++++----- NEWS.md | 14 ++++++++ R/safetensors.R | 25 ++++++++++++--- R/torch.R | 6 +++ R/write.R | 58 ++++++++++++++++++++++++++++-------- README.md | 2 - tests/testthat/test-safetensors.R | 60 ++++++++++++++++++++++++++++++++++++++ tests/testthat/test-write.R | 19 ++++++++++++ 9 files changed, 175 insertions(+), 31 deletions(-)
Title: 'S7' Framework for Schema-Validated YAML Configuration
Description: Provides a generic framework for working with YAML (YAML
Ain't Markup Language) configuration files. Uses 'ajv' (Another JSON
Schema Validator) via 'V8' to validate configurations against JSON
Schema definitions. Configuration objects inherit from 'S7' classes
and base lists, supporting downstream extension through custom classes
and methods.
Author: Aksel Thomsen [aut, cre],
Matthew Phelps [aut],
Novo Nordisk A/S [cph],
Evgeny Poberezkin [cph] ,
Python Software Foundation [cph] ),
Vladimir Zapparov [cph] ,
Vincent Le Goff [cph] ,
Vsevolod Strukchinsky [cph]
Maintainer: Aksel Thomsen <oath@novonordisk.com>
Diff between S7schema versions 0.1.1 dated 2026-05-09 and 0.1.2 dated 2026-08-21
DESCRIPTION | 8 MD5 | 44 NEWS.md | 6 R/validator.R | 25 R/y_S7schema.R | 108 R/z_write.R | 9 build/vignette.rds |binary inst/WORDLIST | 1 inst/bundle.js | 4241 ++++++++++++++++---------------- inst/doc/S7schema.html | 18 inst/doc/use-in-package.html | 9 inst/examples/config.yml | 3 inst/examples/definitions.json | 4 man/S7schema.Rd | 13 man/reexports.Rd | 2 man/validate_config.Rd | 2 man/validator.Rd | 4 tests/testthat/input/simple.yml | 1 tests/testthat/input/simple_error.yml | 1 tests/testthat/schemas/definitions.json | 5 tests/testthat/test-validate-config.R | 44 tests/testthat/test-y_schema.R | 20 tests/testthat/test-z_write.R | 27 23 files changed, 2482 insertions(+), 2113 deletions(-)
Title: R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Description: Protocol Buffers are a way of encoding structured data in an
efficient yet extensible format. Google uses Protocol Buffers for almost all
of its internal 'RPC' protocols and file formats. Additional documentation
is available in two included vignettes one of which corresponds to our 'JSS'
paper (2016, <doi:10.18637/jss.v071.i02>. A sufficiently recent version of
'Protocol Buffers' library is required; currently version 3.3.0 from 2017
is the tested minimum.
Author: Romain Francois [aut] ,
Dirk Eddelbuettel [aut, cre] ,
Murray Stokely [aut] ,
Jeroen Ooms [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RProtoBuf versions 0.4.27 dated 2026-04-26 and 0.4.28 dated 2026-08-21
ChangeLog | 49 +++++++++++++++++++++++++++++++++ DESCRIPTION | 8 ++--- MD5 | 35 ++++++++++++----------- R/00classes.R | 2 - R/rexp_obj.R | 4 ++ R/serialize_pb.R | 4 +- R/wrapper_ServiceDescriptor.R | 8 +++-- build/vignette.rds |binary configure | 18 ++++++------ configure.ac | 2 - inst/NEWS.Rd | 9 ++++++ inst/doc/RProtoBuf-paper.pdf |binary inst/tinytest/test_servicedescriptor.R |only man/serialize_pb.Rd | 5 ++- man/type.Rd | 5 ++- src/RcppMacros.h | 9 +++++- src/init.c | 10 +++++- src/rprotobuf.h | 8 ++--- src/wrapper_ServiceDescriptor.cpp | 19 ++++++++++-- 19 files changed, 144 insertions(+), 51 deletions(-)
Title: Interface for the 'QuickJS-NG' Lightweight 'JavaScript' Engine
Description: An 'R' interface to the 'QuickJS' portable 'JavaScript'
engine. The engine and all 'R' to 'JavaScript' interoperability is bundled
within the package, requiring no dependencies beyond a 'C' compiler.
Author: Andrew R. Johnson [aut, cre] ,
QuickJS Authors [cph] ,
QuickJS-NG Authors [cph]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>
Diff between QuickJSR versions 1.10.0 dated 2026-05-17 and 1.11.0 dated 2026-08-21
DESCRIPTION | 8 MD5 | 120 NAMESPACE | 2 NEWS.md | 5 R/JSContext.R | 27 R/flags.R |only R/qjs.R | 16 R/zzz.R | 4 README.md | 4 build/vignette.rds |binary cleanup |only cleanup.win |only inst/doc/working_with_js_types.html | 2 inst/tinytest/test_JSContext.R | 60 inst/tinytest/test_assign.R |only inst/tinytest/test_conversion.R |only inst/tinytest/test_data_conversion.R | 85 inst/tinytest/test_environment.R |only inst/tinytest/test_interop.R |only inst/tinytest/test_io_wrappers.R |only inst/tinytest/test_os_exec_fork_safety.R |only inst/tinytest/test_qjs_eval.R | 20 inst/tinytest/test_r_callbacks.R |only inst/tinytest/test_stdio_file_safety.R |only inst/tinytest/test_to_json_asis.R | 16 inst/tinytest/test_to_json_dataframe.R | 28 inst/tinytest/test_to_json_date.R | 24 inst/tinytest/test_to_json_factor.R | 9 inst/tinytest/test_to_json_matrix.R | 5 man/JSContext-method-assign.Rd | 5 man/JSContext-method-call.Rd | 5 man/JSContext-method-get.Rd | 5 man/JSContext-method-source.Rd | 5 man/JSContext-method-validate.Rd | 5 man/JSContext.Rd | 5 man/QuickJSR-package.Rd | 5 man/quickjs_flags.Rd |only src/Makevars | 12 src/include/quickjs_helpers.hpp | 35 src/include/quickjsr/JSValue_to_SEXP.hpp | 70 src/include/quickjsr/JS_PropertyRecursive.hpp | 6 src/include/quickjsr/JS_SEXP.hpp | 55 src/include/quickjsr/SEXP_to_JSValue.hpp | 169 src/libquickjs.c | 251 + src/quickjs/api-test.c | 1144 ++++- src/quickjs/builtin-array-fromasync.h | 169 src/quickjs/builtin-iterator-zip-keyed.h | 466 +- src/quickjs/builtin-iterator-zip.h | 472 +- src/quickjs/cutils.h | 1 src/quickjs/libregexp-opcode.h | 37 src/quickjs/libregexp.c | 2396 +++++++--- src/quickjs/libregexp.h | 7 src/quickjs/libunicode-table.h | 453 + src/quickjs/libunicode.c | 339 + src/quickjs/libunicode.h | 50 src/quickjs/lre-test.c | 68 src/quickjs/qjs.c | 64 src/quickjs/quickjs-atom.h | 12 src/quickjs/quickjs-libc.c | 83 src/quickjs/quickjs-opcode.h | 10 src/quickjs/quickjs.c | 5890 +++++++++++++++++++++----- src/quickjs/quickjs.h | 102 src/quickjs/run-test262.c | 28 src/quickjs/unicode_gen.c | 517 ++ src/quickjs/unicode_gen_def.h | 16 src/quickjsr.cpp | 109 tests/tinytest.R | 1 67 files changed, 10796 insertions(+), 2706 deletions(-)
Title: Identify Characteristics of Patients in the OMOP Common Data
Model
Description: Identify the characteristics of patients in data mapped to the
Observational Medical Outcomes Partnership (OMOP) common data model.
Author: Marti Catala [aut, cre] ,
Yuchen Guo [aut] ,
Mike Du [aut] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Nuria Mercade-Besora [aut] ,
Xintong Li [ctb] ,
Xihang Chen [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between PatientProfiles versions 1.6.0 dated 2026-07-25 and 1.6.1 dated 2026-08-21
DESCRIPTION | 6 MD5 | 16 +- NEWS.md | 4 R/addIntersect.R | 6 R/checks.R | 13 + inst/doc/cohort-intersect.html | 94 +++++++------- inst/doc/demographics.html | 246 ++++++++++++++++++------------------- inst/doc/event.html | 18 +- tests/testthat/test-addIntersect.R | 20 ++- 9 files changed, 225 insertions(+), 198 deletions(-)
More information about PatientProfiles at CRAN
Permanent link
Title: A Laboratory for Recursive Partytioning
Description: A computational toolbox for recursive partitioning.
The core of the package is ctree(), an implementation of
conditional inference trees which embed tree-structured
regression models into a well defined theory of conditional
inference procedures. This non-parametric class of regression
trees is applicable to all kinds of regression problems, including
nominal, ordinal, numeric, censored as well as multivariate response
variables and arbitrary measurement scales of the covariates.
Based on conditional inference trees, cforest() provides an
implementation of Breiman's random forests. The function mob()
implements an algorithm for recursive partitioning based on
parametric models (e.g. linear models, GLMs or survival
regression) employing parameter instability tests for split
selection. Extensible functionality for visualizing tree-structured
regression models is available. The methods are described in
Hothorn et al. (2006) <doi:10.1198/106186006X133933>,
Zeileis et al. (2008) <d [...truncated...]
Author: Torsten Hothorn [aut, cre] ,
Kurt Hornik [aut] ,
Carolin Strobl [aut] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between party versions 1.3-21 dated 2026-07-12 and 1.3-22 dated 2026-08-21
DESCRIPTION | 11 +- MD5 | 44 +++++----- build/partial.rdb |binary inst/NEWS.Rd | 11 ++ inst/doc/MOB.R | 29 +++--- inst/doc/MOB.Rnw | 43 +++++----- inst/doc/MOB.pdf |binary inst/doc/party.pdf |binary man/mob.Rd | 17 +--- man/plot.mob.Rd | 19 +--- tests/Distributions.Rout.save | 4 tests/Examples/party-Ex.Rout.save | 44 ++++------ tests/LinearStatistic-regtest.Rout.save | 4 tests/Predict-regtest.Rout.save | 4 tests/RandomForest-regtest.Rout.save | 10 +- tests/TestStatistic-regtest.Rout.save | 4 tests/TreeGrow-regtest.Rout.save | 4 tests/Utils-regtest.Rout.save | 4 tests/bugfixes.Rout.save | 10 +- tests/mob.R | 13 +-- tests/mob.Rout.save | 136 ++++++++------------------------ vignettes/MOB.Rnw | 43 +++++----- vignettes/MOB.Rout.save | 29 +++--- 23 files changed, 215 insertions(+), 268 deletions(-)
Title: Dynamic, Probabilistic, and Higher-Order Network Analysis
Description: Estimate, compare, and analyze dynamic and psychological networks
using a unified interface. Provides transition network analysis
estimation (transition, frequency, co-occurrence, attention-weighted)
Saqr et al. (2025) <doi:10.1145/3706468.3706513>, psychological
network methods (correlation, partial correlation, 'graphical lasso',
'Ising') Saqr, Beck, and Lopez-Pernas (2024)
<doi:10.1007/978-3-031-54464-4_19>,
and higher-order network methods including higher-order networks,
higher-order network embedding, hyper-path anomaly, and multi-order
generative model. Supports bootstrap inference, permutation testing,
split-half reliability, centrality stability analysis, mixed Markov
models, multi-cluster multi-layer networks and clustering.
Author: Mohammed Saqr [aut, cre, cph],
Sonsoles Lopez-Pernas [aut],
Kamila Misiejuk [aut]
Maintainer: Mohammed Saqr <saqr@saqr.me>
Diff between Nestimate versions 0.8.0 dated 2026-07-10 and 0.8.5 dated 2026-08-21
DESCRIPTION | 8 MD5 | 99 +- NAMESPACE | 11 NEWS.md | 143 +++ R/bayes_compare.R | 2 R/build_network.R | 6 R/cluster_data.R | 17 R/cluster_diagnostics.R | 10 R/data_conversion.R | 78 - R/group-id.R |only R/htna-partition.R |only R/mcml.R | 55 + R/mmm.R | 102 +- R/prepare_data.R | 51 - R/sequence_compare.R | 2 R/sequence_plot.R | 2 R/transition_entropy.R | 959 ++++++++++++++++++++- build/vignette.rds |binary inst/doc/clustering.R | 5 inst/doc/clustering.Rmd | 33 inst/doc/clustering.html | 55 - inst/doc/sequence-comparison.html | 4 inst/doc/transition-entropy.R |only inst/doc/transition-entropy.Rmd |only inst/doc/transition-entropy.html |only inst/doc/transition-networks.html | 8 man/Nestimate-package.Rd | 2 man/as_htna.Rd | 26 man/build_clusters.Rd | 2 man/build_network.Rd | 6 man/cluster_diagnostics.Rd | 8 man/cluster_mmm.Rd | 49 - man/entropy_bayes.Rd |only man/entropy_network.Rd |only man/entropy_trajectory.Rd |only man/plot.net_entropy_bayes.Rd |only man/plot.net_entropy_trajectory.Rd |only man/plot.net_mmm_clustering.Rd | 10 man/prepare.Rd | 14 man/print.net_entropy_bayes.Rd |only man/print.net_entropy_bayes_group.Rd |only man/print.net_entropy_trajectory.Rd |only man/print.net_mmm_clustering.Rd | 8 man/summary.net_entropy_bayes.Rd |only man/summary.net_entropy_trajectory.Rd |only man/transition_entropy.Rd | 24 tests/testthat/test-as_htna.R | 53 + tests/testthat/test-cluster-diagnostics.R | 12 tests/testthat/test-contract-htna.R | 105 ++ tests/testthat/test-htna-clustering-equivalence.R |only tests/testthat/test-mcml_pc.R | 18 tests/testthat/test-mmm.R | 25 tests/testthat/test-plot_state_frequencies.R | 5 tests/testthat/test-prepare-grouping-equivalence.R |only tests/testthat/test-prepare.R | 139 +++ tests/testthat/test-prepare_onehot-grouping.R |only tests/testthat/test-print-cluster.R | 38 tests/testthat/test-transition_entropy.R | 342 +++++++ vignettes/clustering.Rmd | 33 vignettes/transition-entropy.Rmd |only 60 files changed, 2231 insertions(+), 338 deletions(-)
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
The package includes demos reproducing analyzes presented
in the book "Multiple Comparisons Using R" (Bretz, Hothorn,
Westfall, 2010, CRC Press).
Author: Torsten Hothorn [aut, cre] ,
Frank Bretz [aut],
Peter Westfall [aut],
Richard M. Heiberger [ctb],
Andre Schuetzenmeister [ctb],
Susan Scheibe [ctb],
Christian Ritz [ctb],
Christian B. Pipper [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between multcomp versions 1.4-31 dated 2026-07-12 and 1.4-32 dated 2026-08-21
DESCRIPTION | 6 +-- MD5 | 46 ++++++++++++++--------------- R/methods.R | 6 +-- R/pqfunctions.R | 2 + build/partial.rdb |binary build/vignette.rds |binary data/cholesterol.rda |binary data/litter.rda |binary inst/NEWS.Rd | 8 +++++ inst/doc/chfls1.pdf |binary inst/doc/generalsiminf.pdf |binary inst/doc/multcomp-examples.pdf |binary man/cld.Rd | 1 man/glht.Rd | 1 tests/Examples/multcomp-Ex.Rout.save | 6 +-- tests/bugfix.R | 2 + tests/bugfix.Rout.save | 9 ++--- tests/regtest-Tukey.Rout.save | 4 +- tests/regtest-anova.Rout.save | 4 +- tests/regtest-interface-extended.Rout.save | 4 +- tests/regtest-interface.Rout.save | 4 +- tests/regtest-lme.Rout.save | 4 +- tests/regtest-mmm.Rout.save | 4 +- tests/regtest-survival.Rout.save | 4 +- 24 files changed, 64 insertions(+), 51 deletions(-)
Title: Cluster Extension for 'mlr3'
Description: Extends the 'mlr3' package with cluster analysis.
Author: Maximilian Muecke [aut, cre] ,
Damir Pulatov [aut],
Michel Lang [aut] ,
Marc Becker [ctb]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between mlr3cluster versions 0.4.1 dated 2026-07-10 and 0.5.0 dated 2026-08-21
DESCRIPTION | 50 +-- MD5 | 259 ++++++++--------- NAMESPACE | 15 NEWS.md | 46 +++ R/LearnerClustAffinityPropagation.R | 9 R/LearnerClustAgnes.R | 8 R/LearnerClustBICO.R | 4 R/LearnerClustBIRCH.R | 2 R/LearnerClustCLARA.R | 14 R/LearnerClustCMeans.R | 8 R/LearnerClustCobweb.R | 33 +- R/LearnerClustDBSCAN.R | 2 R/LearnerClustDBSCANfpc.R | 7 R/LearnerClustDiana.R | 8 R/LearnerClustEM.R | 30 + R/LearnerClustFanny.R | 4 R/LearnerClustFarthestFirst.R | 32 +- R/LearnerClustFeatureless.R | 2 R/LearnerClustFlexmix.R | 4 R/LearnerClustGMeans.R |only R/LearnerClustGenie.R | 8 R/LearnerClustHDBSCAN.R | 4 R/LearnerClustHclust.R | 10 R/LearnerClustKCCA.R | 16 - R/LearnerClustKKMeans.R | 4 R/LearnerClustKMeans.R | 9 R/LearnerClustKMeansRcpp.R |only R/LearnerClustKModes.R |only R/LearnerClustKProto.R | 2 R/LearnerClustMclust.R | 4 R/LearnerClustMeanShift.R | 25 + R/LearnerClustMiniBatchKMeans.R | 2 R/LearnerClustMovMF.R | 9 R/LearnerClustOPTICS.R | 11 R/LearnerClustPAM.R | 14 R/LearnerClustProtoclust.R | 42 +- R/LearnerClustSKMeans.R | 4 R/LearnerClustSOM.R | 6 R/LearnerClustSTDBSCAN.R | 3 R/LearnerClustSimpleKMeans.R | 32 +- R/LearnerClustSpectral.R | 6 R/LearnerClustTclust.R | 6 R/LearnerClustXMeans.R | 6 R/MeasureClustSimple.R | 53 ++- R/PredictionClust.R | 25 + R/PredictionDataClust.R | 40 ++ R/TaskClust_usarrest.R | 2 R/as_prediction_clust.R | 6 R/bibentries.R | 26 + R/cluster_stats.R | 5 R/helper.R | 23 + R/helper_weka.R |only R/zzz.R | 4 man/PredictionClust.Rd | 4 man/mlr_learners_clust.MBatchKMeans.Rd | 3 man/mlr_learners_clust.SimpleKMeans.Rd | 55 +++ man/mlr_learners_clust.agnes.Rd | 3 man/mlr_learners_clust.ap.Rd | 3 man/mlr_learners_clust.bico.Rd | 5 man/mlr_learners_clust.birch.Rd | 3 man/mlr_learners_clust.clara.Rd | 3 man/mlr_learners_clust.cmeans.Rd | 3 man/mlr_learners_clust.cobweb.Rd | 64 +++- man/mlr_learners_clust.dbscan.Rd | 3 man/mlr_learners_clust.dbscan_fpc.Rd | 3 man/mlr_learners_clust.diana.Rd | 3 man/mlr_learners_clust.em.Rd | 53 +++ man/mlr_learners_clust.fanny.Rd | 3 man/mlr_learners_clust.featureless.Rd | 3 man/mlr_learners_clust.ff.Rd | 55 +++ man/mlr_learners_clust.flexmix.Rd | 3 man/mlr_learners_clust.genie.Rd | 3 man/mlr_learners_clust.gmeans.Rd |only man/mlr_learners_clust.hclust.Rd | 5 man/mlr_learners_clust.hdbscan.Rd | 5 man/mlr_learners_clust.kcca.Rd | 12 man/mlr_learners_clust.kkmeans.Rd | 3 man/mlr_learners_clust.kmeans.Rd | 3 man/mlr_learners_clust.kmeans_rcpp.Rd |only man/mlr_learners_clust.kmodes.Rd |only man/mlr_learners_clust.kproto.Rd | 3 man/mlr_learners_clust.mclust.Rd | 3 man/mlr_learners_clust.meanshift.Rd | 6 man/mlr_learners_clust.movMF.Rd | 7 man/mlr_learners_clust.optics.Rd | 3 man/mlr_learners_clust.pam.Rd | 3 man/mlr_learners_clust.protoclust.Rd | 18 - man/mlr_learners_clust.skmeans.Rd | 5 man/mlr_learners_clust.som.Rd | 3 man/mlr_learners_clust.specc.Rd | 5 man/mlr_learners_clust.stdbscan.Rd | 4 man/mlr_learners_clust.tclust.Rd | 3 man/mlr_learners_clust.xmeans.Rd | 5 man/mlr_measures_clust.avg_between.Rd | 3 man/mlr_measures_clust.avg_within.Rd | 3 man/mlr_measures_clust.ch.Rd | 1 man/mlr_measures_clust.davies_bouldin.Rd | 1 man/mlr_measures_clust.dunn.Rd | 3 man/mlr_measures_clust.dunn2.Rd | 3 man/mlr_measures_clust.entropy.Rd | 1 man/mlr_measures_clust.pearsongamma.Rd | 3 man/mlr_measures_clust.silhouette.Rd | 3 man/mlr_measures_clust.sse_ratio.Rd |only man/mlr_measures_clust.wb_ratio.Rd | 3 man/mlr_measures_clust.wss.Rd | 1 man/mlr_tasks_usarrests.Rd | 2 tests/testthat/_snaps/MeasureClust.md | 23 + tests/testthat/_snaps/PredictionClust.md | 34 ++ tests/testthat/_snaps/mlr_learners_clust_clara.md | 11 tests/testthat/_snaps/mlr_learners_clust_dbscan_fpc.md | 11 tests/testthat/_snaps/mlr_learners_clust_kmodes.md |only tests/testthat/_snaps/mlr_learners_clust_pam.md |only tests/testthat/test_LearnerClust.R | 19 + tests/testthat/test_MeasureClust.R | 11 tests/testthat/test_PredictionClust.R | 79 +++++ tests/testthat/test_cluster_stats.R | 10 tests/testthat/test_mlr_learners_clust_agnes.R | 10 tests/testthat/test_mlr_learners_clust_clara.R | 4 tests/testthat/test_mlr_learners_clust_cobweb.R | 4 tests/testthat/test_mlr_learners_clust_dbscan_fpc.R | 4 tests/testthat/test_mlr_learners_clust_diana.R | 10 tests/testthat/test_mlr_learners_clust_fanny.R | 8 tests/testthat/test_mlr_learners_clust_ff.R | 3 tests/testthat/test_mlr_learners_clust_genie.R | 10 tests/testthat/test_mlr_learners_clust_gmeans.R |only tests/testthat/test_mlr_learners_clust_hclust.R | 10 tests/testthat/test_mlr_learners_clust_kcca.R | 3 tests/testthat/test_mlr_learners_clust_kmeans_rcpp.R |only tests/testthat/test_mlr_learners_clust_kmodes.R |only tests/testthat/test_mlr_learners_clust_meanshift.R | 47 ++- tests/testthat/test_mlr_learners_clust_movMF.R | 3 tests/testthat/test_mlr_learners_clust_pam.R | 7 tests/testthat/test_mlr_learners_clust_protoclust.R | 46 ++- tests/testthat/test_mlr_learners_clust_simplekmeans.R | 2 tests/testthat/test_mlr_learners_clust_skmeans.R | 5 tests/testthat/test_mlr_learners_clust_spectral.R | 8 tests/testthat/test_mlr_learners_clust_tclust.R | 8 137 files changed, 1387 insertions(+), 345 deletions(-)
Title: 'JavaScript' Utilities for 'R'
Description: A collection of popular/useful JavaScript utilities, including the
terser minifier, sass compiler, typescript transpiler, and more.
Author: Andrew R. Johnson [aut, cre]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>
Diff between jsutils versions 0.3.0 dated 2026-05-17 and 0.4.0 dated 2026-08-21
jsutils-0.3.0/jsutils/inst/bundle/package-lock.json |only jsutils-0.3.0/jsutils/inst/js/sass.1.99.0.js |only jsutils-0.3.0/jsutils/inst/js/terser.5.47.1.js |only jsutils-0.4.0/jsutils/DESCRIPTION | 8 jsutils-0.4.0/jsutils/MD5 | 51 jsutils-0.4.0/jsutils/NEWS.md | 4 jsutils-0.4.0/jsutils/R/esprima.R | 6 jsutils-0.4.0/jsutils/R/sass.R | 4 jsutils-0.4.0/jsutils/R/terser.R | 4 jsutils-0.4.0/jsutils/R/typescript.R | 4 jsutils-0.4.0/jsutils/R/versions.R | 4 jsutils-0.4.0/jsutils/README.md | 4 jsutils-0.4.0/jsutils/inst/bundle/build.js |only jsutils-0.4.0/jsutils/inst/bundle/bun.lock |only jsutils-0.4.0/jsutils/inst/bundle/esprima.js | 4 jsutils-0.4.0/jsutils/inst/bundle/package.json | 8 jsutils-0.4.0/jsutils/inst/bundle/sass.js | 4 jsutils-0.4.0/jsutils/inst/bundle/terser.js | 4 jsutils-0.4.0/jsutils/inst/bundle/typescript.js | 4 jsutils-0.4.0/jsutils/inst/js/esprima.4.0.1.js |12849 jsutils-0.4.0/jsutils/inst/js/esprima.4.0.1.min.js |only jsutils-0.4.0/jsutils/inst/js/sass.1.103.1.js |only jsutils-0.4.0/jsutils/inst/js/sass.1.103.1.min.js |only jsutils-0.4.0/jsutils/inst/js/terser.5.50.0.js |only jsutils-0.4.0/jsutils/inst/js/terser.5.50.0.min.js |only jsutils-0.4.0/jsutils/inst/js/typescript.6.0.3.js |385980 ++++++++---------- jsutils-0.4.0/jsutils/inst/js/typescript.6.0.3.min.js |only jsutils-0.4.0/jsutils/man/esprima.Rd | 2 jsutils-0.4.0/jsutils/man/jsutils-package.Rd | 7 jsutils-0.4.0/jsutils/man/sass.Rd | 2 jsutils-0.4.0/jsutils/man/terser.Rd | 2 jsutils-0.4.0/jsutils/man/typescript.Rd | 2 32 files changed, 193913 insertions(+), 205044 deletions(-)
Title: Bayesian MI-LASSO for Variable Selection on Multiply-Imputed
Datasets
Description: Provides a suite of Bayesian MI-LASSO for variable selection methods for multiply-imputed datasets. The package includes four Bayesian MI-LASSO models using shrinkage (Multi-Laplace, Horseshoe, ARD) and Spike-and-Slab (Spike-and-Laplace) priors, along with tools for model fitting via MCMC, four-step projection predictive variable selection, and hyperparameter calibration. Methods are suitable for both continuous and binary covariates under missing-at-random or missing-completely-at-random assumptions. See Zou, J., Wang, S. and Chen, Q. (2025), Bayesian MI-LASSO for Variable Selection on Multiply-Imputed Data. ArXiv, 2211.00114. <doi:10.48550/arXiv.2211.00114> for more details. We also provide the frequentist MI-LASSO function.
Author: Jungang Zou [aut, cre],
Sijian Wang [aut],
Qixuan Chen [aut]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Diff between BMIselect versions 1.0.4 dated 2026-07-09 and 1.0.9 dated 2026-08-21
DESCRIPTION | 8 MD5 | 50 +- NAMESPACE | 6 R/ARD.R | 8 R/Horseshoe.R | 8 R/Multi_Laplace.R | 8 R/Spike_Laplace.R | 8 R/bmiselect.R | 611 +++++++++++++++++++++++++++++------- R/projection.R | 222 ++++++++----- R/select_criteria.R |only R/sim.R | 74 ++-- R/utils.R | 18 - inst/doc/Introduction.Rmd | 18 - inst/doc/Introduction.html | 385 ++++++++++++---------- man/ARD_mcmc.Rd | 8 man/BMI_LASSO.Rd | 57 ++- man/calibrate_posterior.Rd |only man/horseshoe_mcmc.Rd | 8 man/multi_laplace_mcmc.Rd | 8 man/projection_mean.Rd | 19 - man/projection_posterior.Rd | 15 man/spike_laplace_partially_mcmc.Rd | 8 src/ard.cpp | 97 +++++ src/horseshoe.cpp | 113 +++++- src/spike_laplace.cpp | 9 tests |only vignettes/Introduction.Rmd | 18 - 27 files changed, 1226 insertions(+), 558 deletions(-)
Title: Access to Global Sub-National Income Data
Description: Provides access to granular sub-national income data from the
MCC-PIK Database Of Sub-national Economic Output (DOSE). The package
downloads and processes the data from its open repository on 'Zenodo'
(<https://zenodo.org/records/20035157>). Functions are provided to
fetch data at multiple geographic levels, match coordinates to
administrative regions, and access associated geometries.
Author: Pablo Garcia Guzman [aut, cre, cph]
Maintainer: Pablo Garcia Guzman <garciagp@ebrd.com>
Diff between subincomeR versions 0.5.0 dated 2026-05-08 and 0.6.0 dated 2026-08-21
subincomeR-0.5.0/subincomeR/inst/doc/regional-convergence.R |only subincomeR-0.6.0/subincomeR/DESCRIPTION | 12 subincomeR-0.6.0/subincomeR/MD5 | 44 +- subincomeR-0.6.0/subincomeR/NAMESPACE | 2 subincomeR-0.6.0/subincomeR/NEWS.md | 35 ++ subincomeR-0.6.0/subincomeR/R/cache.R |only subincomeR-0.6.0/subincomeR/R/getDOSE.R | 106 ++---- subincomeR-0.6.0/subincomeR/R/getDOSE_geom.r | 166 +++++----- subincomeR-0.6.0/subincomeR/R/matchDOSE.R | 98 +++-- subincomeR-0.6.0/subincomeR/R/utils.R |only subincomeR-0.6.0/subincomeR/build/vignette.rds |binary subincomeR-0.6.0/subincomeR/inst/WORDLIST | 1 subincomeR-0.6.0/subincomeR/inst/doc/regional-convergence.Rmd | 62 ++- subincomeR-0.6.0/subincomeR/inst/doc/regional-convergence.html | 27 + subincomeR-0.6.0/subincomeR/man/figures/map.png |binary subincomeR-0.6.0/subincomeR/man/getDOSE.Rd | 23 + subincomeR-0.6.0/subincomeR/man/getDOSE_geom.Rd | 21 + subincomeR-0.6.0/subincomeR/man/matchDOSE.Rd | 30 + subincomeR-0.6.0/subincomeR/man/subincomeR_cache_clear.Rd |only subincomeR-0.6.0/subincomeR/man/subincomeR_cache_dir.Rd |only subincomeR-0.6.0/subincomeR/tests/testthat.R |only subincomeR-0.6.0/subincomeR/tests/testthat/test-cache.R |only subincomeR-0.6.0/subincomeR/tests/testthat/test-coverage.R |only subincomeR-0.6.0/subincomeR/tests/testthat/test-getDOSE_geom.R | 6 subincomeR-0.6.0/subincomeR/tests/testthat/test-matchDOSE.R | 4 subincomeR-0.6.0/subincomeR/tests/testthat/test-offline.R |only subincomeR-0.6.0/subincomeR/vignettes/img |only subincomeR-0.6.0/subincomeR/vignettes/regional-convergence.Rmd | 62 ++- 28 files changed, 447 insertions(+), 252 deletions(-)
Title: A Reproducible Workflow Layer for 'Scopus' Bibliographic
Searches
Description: A coherent, quota-aware workflow layer over the Elsevier
'Scopus' Search 'API' <https://dev.elsevier.com/sc_apis.html>. It builds
reproducible search plans, retrieves records with rate-limit handling,
retry with back-off and optional resumable caching, normalises results to a
stable tidy schema, extracts and tracks changes in Digital Object
Identifiers (DOIs), sizes sets of concepts and their intersections,
compares publication trends across topics, writes the search up as a
reproducible record for a methods section following the 'PRISMA-S'
reporting standard (Rethlefsen and others, 2021)
<doi:10.1186/s13643-020-01542-z> and exports to formats
compatible with downstream bibliometric tools. Network and 'API'
errors are surfaced as typed conditions so that callers can respond to them
programmatically. 'Scopus' is a trademark of Elsevier. This package is an
independent client and is not affiliated with or endorsed by Elsevier.
Author: Pablo Bernabeu [aut, cre]
Maintainer: Pablo Bernabeu <pcbernabeu@gmail.com>
Diff between scopusflow versions 0.1.0 dated 2026-06-20 and 0.4.0 dated 2026-08-21
DESCRIPTION | 24 - MD5 | 218 +++++---- NAMESPACE | 22 NEWS.md | 349 ++++++++++++++- R/abstract.R |only R/analyse.R |only R/app-helpers.R |only R/bibliometrix.R | 11 R/combine.R | 30 + R/compare.R | 58 +- R/conditions.R | 7 R/corpus.R |only R/count.R | 28 + R/data.R | 60 +- R/dois.R | 34 - R/export-refman.R |only R/fetch.R | 157 ++++++ R/fetch_plan.R | 296 ++++++++++++ R/intersections.R |only R/io.R | 52 +- R/key.R | 2 R/plan.R | 10 R/plot-analyse.R |only R/plot-intersections.R |only R/plot.R | 212 ++++++++- R/print.R |only R/records.R | 110 +++- R/report.R |only R/request.R | 45 + R/run-app.R |only R/scopusflow-package.R | 10 R/summary.R | 14 README.md | 399 +++++++++-------- build/partial.rdb |only build/vignette.rds |binary data/example_records.rda |binary inst/CITATION | 11 inst/WORDLIST | 68 ++ inst/doc/about.R |only inst/doc/about.Rmd |only inst/doc/about.html |only inst/doc/analysing-a-literature.R |only inst/doc/analysing-a-literature.Rmd |only inst/doc/analysing-a-literature.html |only inst/doc/building-a-reference-set.R | 43 + inst/doc/building-a-reference-set.Rmd | 82 +++ inst/doc/building-a-reference-set.html | 354 +++++++++++++-- inst/doc/comparing-topics.R | 83 +++ inst/doc/comparing-topics.Rmd | 142 +++++- inst/doc/comparing-topics.html | 231 +++++++-- inst/doc/designing-queries.R | 27 + inst/doc/designing-queries.Rmd | 43 + inst/doc/designing-queries.html | 270 ++++++++--- inst/doc/keywords-and-references.R |only inst/doc/keywords-and-references.Rmd |only inst/doc/keywords-and-references.html |only inst/doc/plans-and-quota.R | 73 +++ inst/doc/plans-and-quota.Rmd | 442 +++++++++++++------ inst/doc/plans-and-quota.html | 692 +++++++++++++++++++++++++---- inst/doc/scopusflow.R | 109 +++- inst/doc/scopusflow.Rmd | 419 +++++++++++------- inst/doc/scopusflow.html | 718 ++++++++++++++++++++++++------- inst/doc/tracking-literature-change.R | 52 +- inst/doc/tracking-literature-change.Rmd | 102 ++-- inst/doc/tracking-literature-change.html | 176 ++++--- inst/doc/using-the-app.R |only inst/doc/using-the-app.Rmd |only inst/doc/using-the-app.html |only inst/extdata/README.md |only inst/extdata/scopus_page.json | 16 man/as_bibliometrix.Rd | 11 man/as_bibtex.Rd |only man/example_records.Rd | 61 +- man/figures/README-readme-hero-1.png |binary man/figures/logo.png |binary man/makeContent.sf_endlabels.Rd |only man/plot_scopus_comparison.Rd | 11 man/plot_scopus_intersections.Rd |only man/plot_scopus_top.Rd |only man/plot_scopus_trend.Rd |only man/run_app.Rd |only man/scopus_abstract.Rd |only man/scopus_combine.Rd | 19 man/scopus_compare_topics.Rd | 33 + man/scopus_corpus.Rd |only man/scopus_count.Rd | 27 + man/scopus_diff_dois.Rd | 9 man/scopus_extract_dois.Rd | 21 man/scopus_fetch.Rd | 44 + man/scopus_fetch_plan.Rd | 51 +- man/scopus_has_key.Rd | 2 man/scopus_intersections.Rd |only man/scopus_plan.Rd | 8 man/scopus_records.Rd | 75 ++- man/scopus_search_report.Rd |only man/scopus_top.Rd |only man/scopus_trend.Rd |only man/scopusflow-package.Rd | 12 man/summary.scopus_records.Rd | 2 man/write_scopus_records.Rd | 24 - tests/spelling.R |only tests/testthat/golden-search-record.txt |only tests/testthat/helper-mock.R | 85 +++ tests/testthat/test-abstract.R |only tests/testthat/test-analyse.R |only tests/testthat/test-app.R |only tests/testthat/test-cache.R | 331 ++++++++++++++ tests/testthat/test-combine.R | 83 +++ tests/testthat/test-compare.R | 37 + tests/testthat/test-corpus.R |only tests/testthat/test-data.R | 19 tests/testthat/test-dois.R | 8 tests/testthat/test-export-refman.R |only tests/testthat/test-fetch.R | 134 +++++ tests/testthat/test-intersections.R |only tests/testthat/test-io.R | 29 + tests/testthat/test-key.R | 15 tests/testthat/test-live.R | 90 +++ tests/testthat/test-plot.R | 169 +++++++ tests/testthat/test-print.R |only tests/testthat/test-records.R | 43 + tests/testthat/test-report.R |only tests/testthat/test-request.R |only tests/testthat/test-summary.R | 18 vignettes/about.Rmd |only vignettes/analysing-a-literature.Rmd |only vignettes/building-a-reference-set.Rmd | 82 +++ vignettes/comparing-topics.Rmd | 142 +++++- vignettes/designing-queries.Rmd | 43 + vignettes/figures |only vignettes/keywords-and-references.Rmd |only vignettes/plans-and-quota.Rmd | 442 +++++++++++++------ vignettes/scopusflow.Rmd | 419 +++++++++++------- vignettes/tracking-literature-change.Rmd | 102 ++-- vignettes/using-the-app.Rmd |only 135 files changed, 7128 insertions(+), 1874 deletions(-)
Title: Randomization Tests
Description: A collection of randomization tests, data sets and examples. The current version focuses on five testing problems and their implementation in empirical work. First, it facilitates the empirical researcher to test for particular hypotheses, such as comparisons of means, medians, and variances from k populations using robust permutation tests, which asymptotic validity holds under very weak assumptions, while retaining the exact rejection probability in finite samples when the underlying distributions are identical. Second, the description and implementation of a permutation test for testing the continuity assumption of the baseline covariates in the sharp regression discontinuity design (RDD) as in Canay and Kamat (2018) <https://goo.gl/UZFqt7>. More specifically, it allows the user to select a set of covariates and test the aforementioned hypothesis using a permutation test based on the Cramer-von Misses test statistic. Graphical inspection of the empirical CDF and histograms for [...truncated...]
Author: Mauricio Olivares [aut, cre],
Ignacio Sarmiento-Barbieri [aut]
Maintainer: Mauricio Olivares <mau.olivarego@gmail.com>
Diff between RATest versions 0.1.10 dated 2022-09-29 and 0.1.11 dated 2026-08-21
DESCRIPTION | 10 +++++----- LICENSE |only MD5 | 13 +++++++------ README.md | 10 ++++++---- build/vignette.rds |binary inst/doc/RDperm.Rnw | 21 ++++----------------- inst/doc/RDperm.pdf |binary vignettes/RDperm.Rnw | 21 ++++----------------- 8 files changed, 26 insertions(+), 49 deletions(-)
Title: Learning Hybrid Bayesian Networks using Mixtures of Truncated
Basis Functions
Description: Learning, manipulation and evaluation of mixtures of truncated basis functions
(MoTBFs), which include mixtures of polynomials (MOPs) and mixtures of truncated
exponentials (MTEs). MoTBFs are a flexible framework for modelling hybrid Bayesian
networks (I. Pérez-Bernabé, A. Salmerón, H. Langseth (2015) <doi:10.1007/978-3-319-20807-7_36>; H. Langseth, T.D. Nielsen, I. Pérez-Bernabé, A. Salmerón (2014) <doi:10.1016/j.ijar.2013.09.012>; I. Pérez-Bernabé, A. Fernández, R. Rumí, A. Salmerón (2016) <doi:10.1007/s10618-015-0429-7>). The package provides functionality for learning univariate, multivariate and conditional densities, with the possibility of incorporating prior knowledge. Structural learning of hybrid Bayesian networks is also provided. A set of useful tools is provided, including plotting, printing and likelihood evaluation. This package makes use of S3 objects, with two new classes called 'motbf' and 'jointmotbf'.
Author: Inmaculada Perez-Bernabe [aut],
Antonio Salmeron [aut],
Thomas D. Nielsen [aut],
Angel T. Saez-Ruiz [aut],
Ana D. Maldonado [aut, cre]
Maintainer: Ana D. Maldonado <ana.d.maldonado@ual.es>
Diff between MoTBFs versions 1.4.2 dated 2025-07-22 and 2.0 dated 2026-08-21
MoTBFs-1.4.2/MoTBFs/man/Class-JointMoTBF.Rd |only MoTBFs-1.4.2/MoTBFs/man/Class-MoTBF.Rd |only MoTBFs-1.4.2/MoTBFs/man/MoTBFs_Learning.Rd |only MoTBFs-1.4.2/MoTBFs/man/Subclass-MoTBF.Rd |only MoTBFs-1.4.2/MoTBFs/man/as.function.jointmotbf.Rd |only MoTBFs-1.4.2/MoTBFs/man/as.function.motbf.Rd |only MoTBFs-1.4.2/MoTBFs/man/coefExpJointCDF.Rd |only MoTBFs-1.4.2/MoTBFs/man/forward_sampling.Rd |only MoTBFs-1.4.2/MoTBFs/man/goodnessDiscreteVariables.Rd |only MoTBFs-1.4.2/MoTBFs/man/jointCDF.Rd |only MoTBFs-1.4.2/MoTBFs/man/parentValues.Rd |only MoTBFs-1.4.2/MoTBFs/man/plot.jointmotbf.Rd |only MoTBFs-1.4.2/MoTBFs/man/printBN.Rd |only MoTBFs-1.4.2/MoTBFs/man/printDiscreteBN.Rd |only MoTBFs-1.4.2/MoTBFs/man/sample_MoTBFs.Rd |only MoTBFs-1.4.2/MoTBFs/man/summary.jointmotbf.Rd |only MoTBFs-2.0/MoTBFs/DESCRIPTION | 62 MoTBFs-2.0/MoTBFs/MD5 | 177 +- MoTBFs-2.0/MoTBFs/NAMESPACE | 102 + MoTBFs-2.0/MoTBFs/R/Deprecated.R |only MoTBFs-2.0/MoTBFs/R/DiscreteLearning.R | 119 + MoTBFs-2.0/MoTBFs/R/Inference.R | 671 +++++----- MoTBFs-2.0/MoTBFs/R/Integrate.R |only MoTBFs-2.0/MoTBFs/R/LearningBN.R | 524 ++++---- MoTBFs-2.0/MoTBFs/R/MI_MoP_TAN.R |only MoTBFs-2.0/MoTBFs/R/MoTBFClass.R | 437 +++--- MoTBFs-2.0/MoTBFs/R/VariableEliminationFunctionsClean.R |only MoTBFs-2.0/MoTBFs/R/conditional.R | 237 +-- MoTBFs-2.0/MoTBFs/R/crossValidation.R |only MoTBFs-2.0/MoTBFs/R/elimination_ordering.R |only MoTBFs-2.0/MoTBFs/R/format_motbfFit.R |only MoTBFs-2.0/MoTBFs/R/functions.R | 203 ++- MoTBFs-2.0/MoTBFs/R/joint.R | 1034 +++++----------- MoTBFs-2.0/MoTBFs/R/mop.R | 349 +++-- MoTBFs-2.0/MoTBFs/R/motbf.R | 263 ---- MoTBFs-2.0/MoTBFs/R/mte.R | 157 +- MoTBFs-2.0/MoTBFs/R/plots.R |only MoTBFs-2.0/MoTBFs/R/predict.R |only MoTBFs-2.0/MoTBFs/R/print.R |only MoTBFs-2.0/MoTBFs/R/priorKnowledge.R | 188 ++ MoTBFs-2.0/MoTBFs/R/rMoTBF.R | 24 MoTBFs-2.0/MoTBFs/R/rescalatedFunctions.R | 246 +++ MoTBFs-2.0/MoTBFs/R/selectiveModel2.R |only MoTBFs-2.0/MoTBFs/R/structuralLearning.R | 79 + MoTBFs-2.0/MoTBFs/README.md |only MoTBFs-2.0/MoTBFs/build |only MoTBFs-2.0/MoTBFs/inst |only MoTBFs-2.0/MoTBFs/man/BICMoTBF.Rd | 4 MoTBFs-2.0/MoTBFs/man/LearningHC.Rd | 4 MoTBFs-2.0/MoTBFs/man/MOPTAN.Rd |only MoTBFs-2.0/MoTBFs/man/MoTBF-Distribution.Rd | 17 MoTBFs-2.0/MoTBFs/man/UpperBoundLogLikelihood.Rd | 2 MoTBFs-2.0/MoTBFs/man/coef.jointmotbf.Rd | 23 MoTBFs-2.0/MoTBFs/man/coercion-motbf.Rd |only MoTBFs-2.0/MoTBFs/man/conditionalmotbf.learning.Rd | 40 MoTBFs-2.0/MoTBFs/man/confusionMatrix.Rd |only MoTBFs-2.0/MoTBFs/man/dataMining.Rd | 11 MoTBFs-2.0/MoTBFs/man/derivMOP.Rd | 2 MoTBFs-2.0/MoTBFs/man/derivMTE.Rd | 2 MoTBFs-2.0/MoTBFs/man/derivMoTBF.Rd | 2 MoTBFs-2.0/MoTBFs/man/dimensionFunction.Rd | 26 MoTBFs-2.0/MoTBFs/man/discreteStatesFromBN.Rd | 13 MoTBFs-2.0/MoTBFs/man/ecoli.Rd | 22 MoTBFs-2.0/MoTBFs/man/eval.motbf.Rd |only MoTBFs-2.0/MoTBFs/man/evalJointFunction.Rd | 48 MoTBFs-2.0/MoTBFs/man/expectedValueMOP.Rd |only MoTBFs-2.0/MoTBFs/man/expectedValueMTE.Rd |only MoTBFs-2.0/MoTBFs/man/findConditional.Rd | 4 MoTBFs-2.0/MoTBFs/man/generateNormalPriorData.Rd | 6 MoTBFs-2.0/MoTBFs/man/getChildParentsFromGraph.Rd | 4 MoTBFs-2.0/MoTBFs/man/getCoefficients.Rd | 4 MoTBFs-2.0/MoTBFs/man/getDAG.Rd |only MoTBFs-2.0/MoTBFs/man/getMotbfDim.Rd |only MoTBFs-2.0/MoTBFs/man/getMotbfVar.Rd |only MoTBFs-2.0/MoTBFs/man/getStructure.Rd |only MoTBFs-2.0/MoTBFs/man/get_approx_posterior.Rd |only MoTBFs-2.0/MoTBFs/man/goodnessMoTBFBN.Rd | 10 MoTBFs-2.0/MoTBFs/man/integralJointMoTBF.Rd | 38 MoTBFs-2.0/MoTBFs/man/integralMOP.Rd | 29 MoTBFs-2.0/MoTBFs/man/integralMTE.Rd | 30 MoTBFs-2.0/MoTBFs/man/integralMoTBF.Rd | 41 MoTBFs-2.0/MoTBFs/man/integrate.motbf.Rd |only MoTBFs-2.0/MoTBFs/man/is.discrete.Rd | 2 MoTBFs-2.0/MoTBFs/man/is.motbf.Rd |only MoTBFs-2.0/MoTBFs/man/is.root.Rd | 4 MoTBFs-2.0/MoTBFs/man/jointmotbf.fit.Rd |only MoTBFs-2.0/MoTBFs/man/jointmotbf.learning.Rd | 66 - MoTBFs-2.0/MoTBFs/man/learnMoTBFpriorInformation.Rd | 24 MoTBFs-2.0/MoTBFs/man/marginal.jointmotbf.Rd |only MoTBFs-2.0/MoTBFs/man/marginalJointMoTBF.Rd | 37 MoTBFs-2.0/MoTBFs/man/mop.learning.Rd | 16 MoTBFs-2.0/MoTBFs/man/motbf.cv.Rd |only MoTBFs-2.0/MoTBFs/man/motbf.fit.Rd |only MoTBFs-2.0/MoTBFs/man/motbf2bnlearn.Rd |only MoTBFs-2.0/MoTBFs/man/motbf2grain.Rd |only MoTBFs-2.0/MoTBFs/man/mte.learning.Rd | 16 MoTBFs-2.0/MoTBFs/man/nVariables.Rd | 34 MoTBFs-2.0/MoTBFs/man/plot.motbf.Rd | 83 - MoTBFs-2.0/MoTBFs/man/plotConditional.Rd | 6 MoTBFs-2.0/MoTBFs/man/predict.motbf_fit.Rd |only MoTBFs-2.0/MoTBFs/man/preprocessedData.Rd | 4 MoTBFs-2.0/MoTBFs/man/print.motbf.Rd |only MoTBFs-2.0/MoTBFs/man/probDiscreteVariable.Rd | 40 MoTBFs-2.0/MoTBFs/man/query.Rd |only MoTBFs-2.0/MoTBFs/man/r.data.frame.Rd | 10 MoTBFs-2.0/MoTBFs/man/rescale_data.Rd |only MoTBFs-2.0/MoTBFs/man/rescaledFunctions.Rd | 25 MoTBFs-2.0/MoTBFs/man/rnormMultiv.Rd | 2 MoTBFs-2.0/MoTBFs/man/sample_motbfs.Rd |only MoTBFs-2.0/MoTBFs/man/subsetData.Rd | 24 MoTBFs-2.0/MoTBFs/man/summary.motbf.Rd | 26 MoTBFs-2.0/MoTBFs/man/thyroid.Rd | 48 MoTBFs-2.0/MoTBFs/man/univMoTBF.Rd | 21 MoTBFs-2.0/MoTBFs/man/variableElimination.Rd |only MoTBFs-2.0/MoTBFs/man/variableSelection.Rd |only MoTBFs-2.0/MoTBFs/vignettes |only 116 files changed, 2963 insertions(+), 2779 deletions(-)
Title: Markov Chain Gaussian Fields Simulation and Parameter Estimation
Description: Simulating and estimating (regime-switching) Markov chain Gaussian
fields with spatio-temporal covariance functions of the Gneiting class
(Gneiting 2002) <doi:10.1198/016214502760047113>, including the
regime-switching framework of Jia and Sezer (2025)
<doi:10.1063/5.0285012>. It supports parameter estimation by weighted
least squares and approximate conditional maximum likelihood methods,
and produces Kriging forecasts and intervals for existing and new
locations.
Author: Tianxia Jia [aut, cre, cph]
Maintainer: Tianxia Jia <tylarjia@outlook.com>
Diff between mcgf versions 1.1.1 dated 2024-06-29 and 1.2.0 dated 2026-08-21
DESCRIPTION | 28 MD5 | 216 ++--- NEWS.md | 29 R/add_base.R | 4 R/add_lagr.R | 6 R/add_nugget.R | 6 R/ccfs.R | 2 R/check.R | 18 R/cor2cov.R | 2 R/cor_cauchy.R | 4 R/cor_exp.R | 6 R/cor_fs.R | 4 R/cor_lagr_askey.R | 8 R/cor_lagr_exp.R | 8 R/cor_lagr_tri.R | 8 R/cor_stat.R | 10 R/cor_stat_rs.R | 10 R/cov_joint.R | 2 R/estimate.R | 6 R/find_dists.R | 4 R/find_dists_new.R | 8 R/fit_base.R | 6 R/fit_lagr.R | 17 R/krige.R | 8 R/krige_new.R | 14 R/mcgf.R | 6 R/mcgf_rs.R | 14 R/mcgf_rs_sim.R | 3 R/mcgf_sim.R | 10 R/sds.R | 2 README.md | 8 build/vignette.rds |binary inst/doc/correlation-models.R |only inst/doc/correlation-models.Rmd |only inst/doc/correlation-models.html |only inst/doc/forecasting-new-locations.R |only inst/doc/forecasting-new-locations.Rmd |only inst/doc/forecasting-new-locations.html |only inst/doc/mcgf.Rmd | 10 inst/doc/mcgf.html | 1114 +++++++++++++-------------- inst/doc/mcgf_rs.Rmd | 14 inst/doc/mcgf_rs.html | 923 +++++++++++----------- inst/doc/simulation.R |only inst/doc/simulation.Rmd |only inst/doc/simulation.html |only man/add_base.mcgf.Rd | 12 man/add_base.mcgf_rs.Rd | 16 man/add_lagr.mcgf.Rd | 12 man/add_lagr.mcgf_rs.Rd | 16 man/add_nugget.Rd | 2 man/ccfs.mcgf.Rd | 2 man/check_dists.Rd | 2 man/check_length.Rd | 8 man/check_length_ls.Rd | 6 man/cor2cov.Rd | 2 man/cor_cauchy.Rd | 22 man/cor_exp.Rd | 22 man/cor_fs.Rd | 18 man/cor_lagr_askey.Rd | 18 man/cor_lagr_exp.Rd | 18 man/cor_lagr_tri.Rd | 18 man/cor_sep.Rd | 18 man/cor_stat.Rd | 23 man/cor_stat_rs.Rd | 24 man/cov_joint.Rd | 2 man/dot-.cor_stat.Rd | 3 man/dot-cor_cauchy.Rd | 4 man/dot-cor_exp.Rd | 4 man/dot-cor_stat.Rd | 3 man/dot-find_dists.Rd | 2 man/dot-find_dists_new.Rd | 2 man/dot-mcgf_rs_sim.Rd | 3 man/dot-mcgf_sim.Rd | 3 man/find_dists.Rd | 2 man/find_dists_new.Rd | 6 man/fit_base.mcgf.Rd | 12 man/fit_base.mcgf_rs.Rd | 12 man/fit_lagr.mcgf.Rd | 12 man/fit_lagr.mcgf_rs.Rd | 12 man/is.mcgf_rs.Rd | 8 man/krige.mcgf.Rd | 14 man/krige.mcgf_rs.Rd | 12 man/krige_new.mcgf.Rd | 16 man/krige_new.mcgf_rs.Rd | 16 man/mcgf.Rd | 4 man/mcgf_rs.Rd | 8 man/mcgf_rs_sim.Rd | 7 man/mcgf_sim.Rd | 9 man/new_mcgf.Rd | 4 man/new_mcgf_rs.Rd | 4 man/obj_mle.Rd | 8 man/sd_rs.Rd | 2 man/sim1.Rd | 2 man/sim2.Rd | 2 man/sim3.Rd | 2 man/validate_mcgf.Rd | 2 man/wind.Rd | 2 tests/testthat/helper-fixtures.R |only tests/testthat/test-acfs-ccfs-sds.R |only tests/testthat/test-ccov-krige.R |only tests/testthat/test-check.R | 12 tests/testthat/test-cor_cauchy.R | 38 tests/testthat/test-cor_exp.R | 23 tests/testthat/test-cor_fs.R | 48 - tests/testthat/test-cor_sep.R | 85 +- tests/testthat/test-correlation-composite.R |only tests/testthat/test-correlation-lagrangian.R |only tests/testthat/test-covariance-utils.R |only tests/testthat/test-distances.R |only tests/testthat/test-fit-base.R |only tests/testthat/test-fit-lagr.R |only tests/testthat/test-krige-new.R |only tests/testthat/test-mcgf-object.R |only tests/testthat/test-mcgf-rs-object.R |only tests/testthat/test-model-storage.R |only tests/testthat/test-simulation.R |only vignettes/correlation-models.Rmd |only vignettes/forecasting-new-locations.Rmd |only vignettes/mcgf.Rmd | 10 vignettes/mcgf.bib | 12 vignettes/mcgf_rs.Rmd | 14 vignettes/simulation.Rmd |only 122 files changed, 1742 insertions(+), 1501 deletions(-)
Title: Map Quantiles for Physical Activity from 'NHANES'
Description: Maps physical activity from the National Health and Nutrition
Examination Survey ('NHANES') study into population-based quantiles.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between mapnhanespa versions 0.1.0 dated 2026-06-02 and 0.2.0 dated 2026-08-21
mapnhanespa-0.1.0/mapnhanespa/R/imports.R |only mapnhanespa-0.1.0/mapnhanespa/man/pipe.Rd |only mapnhanespa-0.2.0/mapnhanespa/DESCRIPTION | 10 +++++----- mapnhanespa-0.2.0/mapnhanespa/MD5 | 12 +++++------- mapnhanespa-0.2.0/mapnhanespa/NAMESPACE | 2 -- mapnhanespa-0.2.0/mapnhanespa/R/map-quantiles.R | 4 ++++ mapnhanespa-0.2.0/mapnhanespa/R/run_cdf.R | 2 +- mapnhanespa-0.2.0/mapnhanespa/README.md | 2 ++ 8 files changed, 17 insertions(+), 15 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 6.8 dated 2025-10-27 and 7.0 dated 2026-08-21
DESCRIPTION | 10 +++---- MD5 | 30 +++++++++++------------ R/IsoplotR.R | 6 ++-- inst/www/home/news.html | 39 +++++++++++++++--------------- inst/www/index.html | 2 - inst/www/js/IsoplotR.js | 32 ++++++++++++++++-------- inst/www/locales/en/contextual_help.json | 5 ++- inst/www/locales/en/dictionary_class.json | 2 - inst/www/locales/en/dictionary_id.json | 16 ++++++------ inst/www/locales/en/home_id.json | 2 - inst/www/options/KDE.html | 3 ++ inst/www/options/Th-U.html | 20 ++++++--------- inst/www/options/evolution.html | 2 + inst/www/options/fissiontracks.html | 2 + inst/www/options/isochron.html | 9 +++++- inst/www/version.txt | 2 - 16 files changed, 104 insertions(+), 78 deletions(-)
Title: The Free Group
Description: The free group in R; juxtaposition is represented by a
plus. Includes inversion, multiplication by a scalar,
group-theoretic power operation, and Tietze forms. To cite the
package in publications please use Hankin (2022)
<doi:10.48550/ARXIV.2212.05883>.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between freegroup versions 1.2-1 dated 2026-07-15 and 1.2-1-1 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- build/partial.rdb |binary inst/doc/freegroup.pdf |binary man/outer.Rd | 2 +- tests/testthat/test_aab.R | 8 +++++++- 6 files changed, 16 insertions(+), 10 deletions(-)
Title: Download Flight and Airport Data from Brazil
Description: Download flight and airport data from Brazil’s Civil Aviation Agency
(ANAC) <https://www.gov.br/anac/pt-br>. The data covers detailed
information on aircraft, airports, and airport operations registered
with ANAC. It also includes data on airfares, all international
flights to and from Brazil, and domestic flights within the country.
Author: Rafael H. M. Pereira [aut, cre] ,
Arthur Bazolli [ctb],
Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between flightsbr versions 1.1.1 dated 2025-07-24 and 1.2.0 dated 2026-08-21
flightsbr-1.1.1/flightsbr/R/utils_flightst.R |only flightsbr-1.1.1/flightsbr/man/get_flights_url.Rd |only flightsbr-1.2.0/flightsbr/DESCRIPTION | 37 - flightsbr-1.2.0/flightsbr/MD5 | 101 +- flightsbr-1.2.0/flightsbr/NAMESPACE | 14 flightsbr-1.2.0/flightsbr/NEWS.md | 62 + flightsbr-1.2.0/flightsbr/R/flightsbr.R | 13 flightsbr-1.2.0/flightsbr/R/latest_flights_date.R | 3 flightsbr-1.2.0/flightsbr/R/read_aircraft.R | 4 flightsbr-1.2.0/flightsbr/R/read_aircrafts.R | 13 flightsbr-1.2.0/flightsbr/R/read_airfares.R | 59 + flightsbr-1.2.0/flightsbr/R/read_airports.R | 43 + flightsbr-1.2.0/flightsbr/R/read_flights.R | 88 +- flightsbr-1.2.0/flightsbr/R/utils.R | 91 +- flightsbr-1.2.0/flightsbr/R/utils_aircraft.R | 18 flightsbr-1.2.0/flightsbr/R/utils_airfares.R | 341 ++++++++-- flightsbr-1.2.0/flightsbr/R/utils_flights.R |only flightsbr-1.2.0/flightsbr/README.md | 10 flightsbr-1.2.0/flightsbr/build/vignette.rds |binary flightsbr-1.2.0/flightsbr/inst/doc/airports.R | 2 flightsbr-1.2.0/flightsbr/inst/doc/airports.Rmd | 2 flightsbr-1.2.0/flightsbr/inst/doc/airports.html | 2 flightsbr-1.2.0/flightsbr/inst/doc/flights.R | 2 flightsbr-1.2.0/flightsbr/inst/doc/flights.Rmd | 2 flightsbr-1.2.0/flightsbr/inst/doc/flights.html | 2 flightsbr-1.2.0/flightsbr/man/check_input_date_format.Rd | 58 - flightsbr-1.2.0/flightsbr/man/download_aircraft_data.Rd | 70 +- flightsbr-1.2.0/flightsbr/man/download_airfares_data.Rd | 2 flightsbr-1.2.0/flightsbr/man/download_flights_data.Rd | 19 flightsbr-1.2.0/flightsbr/man/download_flightsbr_file.Rd | 8 flightsbr-1.2.0/flightsbr/man/flightsbr.Rd | 13 flightsbr-1.2.0/flightsbr/man/get_aircraft_dates_available.Rd | 42 - flightsbr-1.2.0/flightsbr/man/get_aircraft_url.Rd | 52 - flightsbr-1.2.0/flightsbr/man/get_airfares_dates_available.Rd | 6 flightsbr-1.2.0/flightsbr/man/get_flight_dates_available.Rd | 13 flightsbr-1.2.0/flightsbr/man/get_flights_files_available.Rd |only flightsbr-1.2.0/flightsbr/man/latest_airfares_date.Rd | 62 - flightsbr-1.2.0/flightsbr/man/latest_flights_date.Rd | 4 flightsbr-1.2.0/flightsbr/man/read_aircraft.Rd | 9 flightsbr-1.2.0/flightsbr/man/read_aircrafts.Rd | 6 flightsbr-1.2.0/flightsbr/man/read_airfares.Rd | 3 flightsbr-1.2.0/flightsbr/man/read_flights.Rd | 13 flightsbr-1.2.0/flightsbr/tests/tests_rafa/test_rafa.R | 34 flightsbr-1.2.0/flightsbr/tests/testthat/test_check_date.R | 2 flightsbr-1.2.0/flightsbr/tests/testthat/test_get_flight_dates_available.R | 2 flightsbr-1.2.0/flightsbr/tests/testthat/test_latest_flights_date.R | 2 flightsbr-1.2.0/flightsbr/tests/testthat/test_read_aircraft.R | 31 flightsbr-1.2.0/flightsbr/tests/testthat/test_read_aircrafts.R |only flightsbr-1.2.0/flightsbr/tests/testthat/test_read_airfares.R | 23 flightsbr-1.2.0/flightsbr/tests/testthat/test_read_airport_movements.R | 15 flightsbr-1.2.0/flightsbr/tests/testthat/test_read_airports.R | 15 flightsbr-1.2.0/flightsbr/tests/testthat/test_read_flights.R | 15 flightsbr-1.2.0/flightsbr/vignettes/airports.Rmd | 2 flightsbr-1.2.0/flightsbr/vignettes/flights.Rmd | 2 54 files changed, 952 insertions(+), 480 deletions(-)
Title: Flexible Graphs for Analysis of Financial Data and Time Series
Description: Flexible wrappers around R graphics modules 'dygraphs' <https://dygraphs.com/> and 'ggplot2' <https://ggplot2.tidyverse.org/> to visualize data commonly found in Financial Studies, with an emphasis on time series.
Interactive time series plots include multiple options for incorporating external data such as forecasts and events. Other static plots useful for time
series data include an intuitive and generic scatter plotter, a boxplot generator suitable for multiple time series, and event study plotters for time series analysis
around sets of dates.
Author: Derek Holmes [aut, cre, cph]
Maintainer: Derek Holmes <derek@derekholmes.com>
Diff between FinanceGraphs versions 0.9.0 dated 2026-06-22 and 0.9.2 dated 2026-08-21
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Title: End-to-End Automated Machine Learning and Model Evaluation
Description: Single unified interface for end-to-end modelling of regression,
categorical and time-to-event (survival) outcomes. Models created using
familiar are self-containing, and their use does not require additional
information such as baseline survival, feature clustering, or feature
transformation and normalisation parameters. Model performance,
calibration, risk group stratification, (permutation) variable importance,
individual conditional expectation, partial dependence, and more, are
assessed automatically as part of the evaluation process and exported in
tabular format and plotted, and may also be computed manually using export
and plot functions. Where possible, metrics and values obtained during the
evaluation process come with confidence intervals.
Author: Alex Zwanenburg [aut, cre] ,
Steffen Loeck [aut],
German Cancer Research Center [cph],
Technische Universitaet Dresden [cph]
Maintainer: Alex Zwanenburg <alex.zwanenburg@outlook.com>
Diff between familiar versions 2.0.2 dated 2026-06-01 and 2.0.3 dated 2026-08-21
familiar-2.0.2/familiar/tests/testthat/test-vimp_corelearn_S4.R |only familiar-2.0.3/familiar/DESCRIPTION | 26 familiar-2.0.3/familiar/MD5 | 105 +-- familiar-2.0.3/familiar/NAMESPACE | 46 - familiar-2.0.3/familiar/NEWS.md | 41 + familiar-2.0.3/familiar/R/DataObject.R | 4 familiar-2.0.3/familiar/R/ErrorMessages.R | 16 familiar-2.0.3/familiar/R/FamiliarDataComputationCalibrationData.R | 5 familiar-2.0.3/familiar/R/FamiliarDataComputationUtilities.R | 4 familiar-2.0.3/familiar/R/FamiliarModel.R | 23 familiar-2.0.3/familiar/R/FamiliarSharedS4Methods.R | 1 familiar-2.0.3/familiar/R/HyperparameterOptimisation.R | 7 familiar-2.0.3/familiar/R/HyperparameterOptimisationUtilities.R | 5 familiar-2.0.3/familiar/R/LearnerMain.R | 3 familiar-2.0.3/familiar/R/LearnerS4Naive.R | 81 ++ familiar-2.0.3/familiar/R/LearnerS4Ranger.R | 133 +--- familiar-2.0.3/familiar/R/ParseSettings.R | 34 + familiar-2.0.3/familiar/R/PlotKaplanMeier.R | 2 familiar-2.0.3/familiar/R/PlotShapForce.R | 30 - familiar-2.0.3/familiar/R/PlotShapWaterfall.R | 11 familiar-2.0.3/familiar/R/PlotUtilities.R | 2 familiar-2.0.3/familiar/R/PredictS4Methods.R | 4 familiar-2.0.3/familiar/R/TaskLearnerHyperparameters.R | 1 familiar-2.0.3/familiar/R/TaskVimpHyperparameters.R | 1 familiar-2.0.3/familiar/R/TestFunctions.R | 54 + familiar-2.0.3/familiar/R/Utilities.R | 23 familiar-2.0.3/familiar/R/VimpS4CoreLearn.R | 115 ---- familiar-2.0.3/familiar/inst/config.xml | 2 familiar-2.0.3/familiar/inst/doc/evaluation_and_explanation_precompiled.Rmd | 60 +- familiar-2.0.3/familiar/inst/doc/evaluation_and_explanation_precompiled.html | 284 +++++----- familiar-2.0.3/familiar/inst/doc/introduction_precompiled.Rmd | 2 familiar-2.0.3/familiar/inst/doc/introduction_precompiled.html | 4 familiar-2.0.3/familiar/inst/doc/learners_precompiled.Rmd | 4 familiar-2.0.3/familiar/inst/doc/learners_precompiled.html | 16 familiar-2.0.3/familiar/inst/doc/performance_metrics_precompiled.Rmd | 2 familiar-2.0.3/familiar/inst/doc/performance_metrics_precompiled.html | 4 familiar-2.0.3/familiar/inst/doc/variable_importance_precompiled.Rmd | 15 familiar-2.0.3/familiar/inst/doc/variable_importance_precompiled.html | 144 +---- familiar-2.0.3/familiar/man/dot-parse_general_settings.Rd | 9 familiar-2.0.3/familiar/man/dot-parse_hyperparameter_optimisation_settings.Rd | 11 familiar-2.0.3/familiar/man/familiar.Rd | 4 familiar-2.0.3/familiar/man/summon_familiar.Rd | 9 familiar-2.0.3/familiar/man/train_familiar.Rd | 9 familiar-2.0.3/familiar/tests/testthat/test-0_plot_calibration.R | 15 familiar-2.0.3/familiar/tests/testthat/test-evaluation_settings.R |only familiar-2.0.3/familiar/tests/testthat/test-export_prediction_data.R | 28 familiar-2.0.3/familiar/tests/testthat/test-learner_naive.R |only familiar-2.0.3/familiar/tests/testthat/test-naive_model.R | 30 + familiar-2.0.3/familiar/vignettes/eval_and_explain/decision-curve-bci-1.png |binary familiar-2.0.3/familiar/vignettes/eval_and_explain/model-variable-importance-1.png |binary familiar-2.0.3/familiar/vignettes/evaluation_and_explanation_precompiled.Rmd | 60 +- familiar-2.0.3/familiar/vignettes/introduction_precompiled.Rmd | 2 familiar-2.0.3/familiar/vignettes/learners_precompiled.Rmd | 4 familiar-2.0.3/familiar/vignettes/performance_metrics_precompiled.Rmd | 2 familiar-2.0.3/familiar/vignettes/variable_importance_precompiled.Rmd | 15 55 files changed, 840 insertions(+), 672 deletions(-)
Title: Area-Proportional Euler and Venn Diagrams
Description: Generate area-proportional Euler diagrams using numerical
optimization. A Euler diagram is a generalization of a Venn diagram,
relaxing the criterion that all interactions need to be represented.
Diagrams may be fit with circles, ellipses, squares, and rectangles via a
wide range of inputs and can be visualized in numerous ways.
Author: Johan Larsson [aut, cre, cph] ,
A. Jonathan R. Godfrey [ctb],
Peter Gustafsson [ctb],
David H. Eberly [ctb] ,
Emanuel Huber [ctb] ,
Florian Prive [ctb]
Maintainer: Johan Larsson <johan@jolars.co>
Diff between eulerr versions 8.1.0 dated 2026-06-30 and 8.3.0 dated 2026-08-21
eulerr-8.1.0/eulerr/man/n_sets.Rd |only eulerr-8.1.0/eulerr/man/rescale.Rd |only eulerr-8.3.0/eulerr/DESCRIPTION | 64 +- eulerr-8.3.0/eulerr/MD5 | 185 ++++---- eulerr-8.3.0/eulerr/NAMESPACE | 2 eulerr-8.3.0/eulerr/NEWS.md | 23 + eulerr-8.3.0/eulerr/R/compose.R | 114 ++--- eulerr-8.3.0/eulerr/R/euler.R | 2 eulerr-8.3.0/eulerr/R/eulerr_options.R | 29 + eulerr-8.3.0/eulerr/R/extendr-wrappers.R | 30 - eulerr-8.3.0/eulerr/R/fit_diagram.R | 14 eulerr-8.3.0/eulerr/R/geometry.R | 4 eulerr-8.3.0/eulerr/R/glyph-grobs.R |only eulerr-8.3.0/eulerr/R/label_placement.R | 64 ++ eulerr-8.3.0/eulerr/R/parse_input.R | 2 eulerr-8.3.0/eulerr/R/plot.euler.R | 164 ++++++- eulerr-8.3.0/eulerr/R/setup_geometry.R | 4 eulerr-8.3.0/eulerr/R/setup_grobs.R | 57 ++ eulerr-8.3.0/eulerr/R/tag-grobs.R | 209 +++++++-- eulerr-8.3.0/eulerr/R/utils.R | 71 +-- eulerr-8.3.0/eulerr/R/venn.R | 2 eulerr-8.3.0/eulerr/build/partial.rdb |binary eulerr-8.3.0/eulerr/build/vignette.rds |binary eulerr-8.3.0/eulerr/inst/WORDLIST | 4 eulerr-8.3.0/eulerr/inst/doc/comparison.Rmd | 29 - eulerr-8.3.0/eulerr/inst/doc/comparison.html | 40 - eulerr-8.3.0/eulerr/inst/doc/gallery.html | 24 - eulerr-8.3.0/eulerr/inst/doc/introduction.Rmd | 34 - eulerr-8.3.0/eulerr/inst/doc/introduction.html | 27 - eulerr-8.3.0/eulerr/inst/doc/loss-functions.Rmd | 32 - eulerr-8.3.0/eulerr/inst/doc/loss-functions.html | 6 eulerr-8.3.0/eulerr/inst/doc/under-the-hood.Rmd | 158 +++--- eulerr-8.3.0/eulerr/inst/doc/under-the-hood.html | 140 +++--- eulerr-8.3.0/eulerr/inst/doc/venn-diagrams.html | 12 eulerr-8.3.0/eulerr/inst/doc/visualization.R | 18 eulerr-8.3.0/eulerr/inst/doc/visualization.Rmd | 49 +- eulerr-8.3.0/eulerr/inst/doc/visualization.html | 82 ++- eulerr-8.3.0/eulerr/man/EULER_PANEL_PAD_PT.Rd | 8 eulerr-8.3.0/eulerr/man/apply_label_placement.Rd | 23 + eulerr-8.3.0/eulerr/man/build_leader_grob.Rd | 41 + eulerr-8.3.0/eulerr/man/build_tag_grobs.Rd | 32 + eulerr-8.3.0/eulerr/man/default_n_threads.Rd | 8 eulerr-8.3.0/eulerr/man/default_placement_opts.Rd | 3 eulerr-8.3.0/eulerr/man/detect_available_cores.Rd | 6 eulerr-8.3.0/eulerr/man/dummy_code.Rd | 8 eulerr-8.3.0/eulerr/man/ellipse_bounding_box.Rd | 7 eulerr-8.3.0/eulerr/man/ellipse_frame_to_shapes.Rd | 5 eulerr-8.3.0/eulerr/man/eulergram-compose.Rd | 11 eulerr-8.3.0/eulerr/man/eulerr_options.Rd | 4 eulerr-8.3.0/eulerr/man/expand_limits_with_canvas.Rd | 8 eulerr-8.3.0/eulerr/man/find_eulertags.Rd | 3 eulerr-8.3.0/eulerr/man/is_integer.Rd | 2 eulerr-8.3.0/eulerr/man/is_real.Rd | 2 eulerr-8.3.0/eulerr/man/makeContent.EulerGlyphs.Rd |only eulerr-8.3.0/eulerr/man/makeContent.EulerSetLabels.Rd |only eulerr-8.3.0/eulerr/man/makeContent.EulerTags.Rd | 22 eulerr-8.3.0/eulerr/man/makeContext.EulerPanel.Rd | 26 - eulerr-8.3.0/eulerr/man/measure_all_tags.Rd | 24 - eulerr-8.3.0/eulerr/man/measure_tag.Rd | 14 eulerr-8.3.0/eulerr/man/measure_tag_native.Rd | 6 eulerr-8.3.0/eulerr/man/measure_tag_sizes.Rd | 17 eulerr-8.3.0/eulerr/man/new_shape_frame.Rd | 7 eulerr-8.3.0/eulerr/man/open_measurement_viewport.Rd | 3 eulerr-8.3.0/eulerr/man/pad_axis_native.Rd | 24 - eulerr-8.3.0/eulerr/man/place_euler_glyph_boxes.Rd |only eulerr-8.3.0/eulerr/man/place_euler_glyphs.Rd |only eulerr-8.3.0/eulerr/man/place_euler_labels.Rd | 4 eulerr-8.3.0/eulerr/man/place_euler_set_labels.Rd |only eulerr-8.3.0/eulerr/man/plot.euler.Rd | 38 + eulerr-8.3.0/eulerr/man/replace_list.Rd | 4 eulerr-8.3.0/eulerr/man/resolve_gap_native.Rd | 7 eulerr-8.3.0/eulerr/man/resolve_placement_opts.Rd | 3 eulerr-8.3.0/eulerr/man/run_placement_pass.Rd | 24 + eulerr-8.3.0/eulerr/man/setup_complement_tag.Rd | 18 eulerr-8.3.0/eulerr/man/setup_euler_glyphs.Rd |only eulerr-8.3.0/eulerr/man/setup_euler_set_labels.Rd |only eulerr-8.3.0/eulerr/man/setup_geometry.Rd | 7 eulerr-8.3.0/eulerr/man/setup_grobs.Rd | 21 eulerr-8.3.0/eulerr/man/setup_tag.Rd | 14 eulerr-8.3.0/eulerr/man/shape_bounding_box.Rd | 3 eulerr-8.3.0/eulerr/man/shapes_to_ellipse_frame.Rd | 3 eulerr-8.3.0/eulerr/man/split_waypoints.Rd | 3 eulerr-8.3.0/eulerr/man/tally_combinations.Rd | 4 eulerr-8.3.0/eulerr/man/validate_glyph_options.Rd |only eulerr-8.3.0/eulerr/man/venn.Rd | 2 eulerr-8.3.0/eulerr/src/rust/Cargo.lock | 154 +++--- eulerr-8.3.0/eulerr/src/rust/Cargo.toml | 2 eulerr-8.3.0/eulerr/src/rust/src/lib.rs | 407 +++++++++++++++++- eulerr-8.3.0/eulerr/src/rust/vendor.tar.xz |binary eulerr-8.3.0/eulerr/tests/testthat/test-assertions.R | 4 eulerr-8.3.0/eulerr/tests/testthat/test-glyphs.R |only eulerr-8.3.0/eulerr/tests/testthat/test-plotting.R | 66 ++ eulerr-8.3.0/eulerr/tools/config.R | 12 eulerr-8.3.0/eulerr/tools/msrv.R | 2 eulerr-8.3.0/eulerr/tools/vendor-agent-override.md |only eulerr-8.3.0/eulerr/vignettes/comparison.Rmd | 29 - eulerr-8.3.0/eulerr/vignettes/introduction.Rmd | 34 - eulerr-8.3.0/eulerr/vignettes/loss-functions.Rmd | 32 - eulerr-8.3.0/eulerr/vignettes/under-the-hood.Rmd | 158 +++--- eulerr-8.3.0/eulerr/vignettes/visualization.Rmd | 49 +- 100 files changed, 2253 insertions(+), 860 deletions(-)
Title: Access Tidy Education Finance Data
Description: Provides easy access to tidy education finance data using Bellwether's methodology
to combine NCES F-33 Survey, Census Bureau Small Area Income Poverty Estimates (SAIPE),
community data from the ACS 5-Year Estimates, the Comparable Wage Index for
Teachers (CWIFT) from NCES EDGE, and school district land area from U.S. Census Bureau
Gazetteer Files. The package simplifies
downloading, caching, and filtering education finance data by year and state,
enabling researchers and analysts to explore K-12 education funding patterns,
revenue sources, expenditure categories, and demographic factors across
U.S. school districts.
Author: Alex Spurrier [aut, cre],
Krista Kaput [aut],
Michael Chrzan [ctb],
Bellwether [cph]
Maintainer: Alex Spurrier <alex.spurrier@bellwether.org>
Diff between edfinr versions 0.1.1 dated 2025-08-26 and 0.2.0 dated 2026-08-21
edfinr-0.1.1/edfinr/inst/doc/basic-usage.R |only edfinr-0.1.1/edfinr/inst/doc/basic-usage.Rmd |only edfinr-0.1.1/edfinr/inst/doc/basic-usage.html |only edfinr-0.1.1/edfinr/vignettes/basic-usage.Rmd |only edfinr-0.2.0/edfinr/DESCRIPTION | 21 edfinr-0.2.0/edfinr/MD5 | 48 - edfinr-0.2.0/edfinr/NEWS.md | 21 edfinr-0.2.0/edfinr/R/cache.R | 92 + edfinr-0.2.0/edfinr/R/get_finance_data.R | 244 ++--- edfinr-0.2.0/edfinr/R/utils.R | 374 +++---- edfinr-0.2.0/edfinr/README.md | 53 - edfinr-0.2.0/edfinr/build/vignette.rds |binary edfinr-0.2.0/edfinr/inst/doc/cpi-adjustments.R | 261 +++-- edfinr-0.2.0/edfinr/inst/doc/cpi-adjustments.Rmd | 165 ++- edfinr-0.2.0/edfinr/inst/doc/cpi-adjustments.html | 374 +++---- edfinr-0.2.0/edfinr/inst/doc/data-sources-methods.R |only edfinr-0.2.0/edfinr/inst/doc/data-sources-methods.Rmd | 113 +- edfinr-0.2.0/edfinr/inst/doc/data-sources-methods.html | 809 ++++++++++++++++- edfinr-0.2.0/edfinr/inst/doc/edfinr.R |only edfinr-0.2.0/edfinr/inst/doc/edfinr.Rmd |only edfinr-0.2.0/edfinr/inst/doc/edfinr.html |only edfinr-0.2.0/edfinr/man/fetch_parquet.Rd |only edfinr-0.2.0/edfinr/man/figures |only edfinr-0.2.0/edfinr/man/get_finance_data.Rd | 56 - edfinr-0.2.0/edfinr/man/list_variables.Rd | 14 edfinr-0.2.0/edfinr/tests |only edfinr-0.2.0/edfinr/vignettes/cpi-adjustments.Rmd | 165 ++- edfinr-0.2.0/edfinr/vignettes/data-sources-methods.Rmd | 113 +- edfinr-0.2.0/edfinr/vignettes/edfinr.Rmd |only 29 files changed, 2031 insertions(+), 892 deletions(-)
Title: Summarise Patient-Level Drug Utilisation in Data Mapped to the
OMOP Common Data Model
Description: Summarise patient-level drug utilisation cohorts using data mapped
to the Observational Medical Outcomes Partnership (OMOP) common data model.
New users and prevalent users cohorts can be generated and their
characteristics, indication and drug use summarised.
Author: Marti Catala [aut, cre] ,
Mike Du [ctb] ,
Yuchen Guo [aut] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Xintong Li [ctb] ,
Marta Alcalde-Herraiz [ctb] ,
Nuria Mercade-Besora [aut] ,
Xihang Chen [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between DrugUtilisation versions 1.3.0 dated 2026-07-24 and 1.3.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 35 NEWS.md | 5 R/addIntersect.R | 19 R/benchmarkDrugUtilisation.R | 29 R/cohortUtilities.R | 7 R/documentationHelpers.R | 10 R/summariseIntersect.R | 19 inst/doc/create_cohorts.html | 311 ++-- inst/doc/drug_utilisation.html | 2200 +++++++++++++++---------------- man/DrugUtilisation-package.Rd | 1 man/addIndication.Rd | 7 man/addTreatment.Rd | 7 man/benchmarkDrugUtilisation.Rd | 6 man/reexports.Rd | 2 man/restrictIncidentCohortDoc.Rd |only man/summariseIndication.Rd | 7 man/summariseTreatment.Rd | 7 tests/testthat/test-summariseTreatment.R | 107 + 19 files changed, 1504 insertions(+), 1283 deletions(-)
More information about DrugUtilisation at CRAN
Permanent link
Title: Convenient Access to Chicago Open Data API Endpoints
Description: Provides simple, reproducible access to datasets from the
Chicago Open Data portal <https://data.cityofchicago.org/>. Functions return
results as tidy tibbles and support optional filtering, sorting,
and row limits via the Socrata API.
Author: Christian Martinez [aut, cre]
Maintainer: Christian Martinez <c.martinez0@outlook.com>
Diff between chiOpenData versions 0.1.0 dated 2026-04-16 and 0.1.1 dated 2026-08-21
DESCRIPTION | 8 +-- MD5 | 14 ++--- R/utils_request.R | 2 README.md | 2 inst/doc/getting-started.R | 108 +++++++++++++++++++++-------------------- inst/doc/getting-started.Rmd | 18 ++++-- inst/doc/getting-started.html | 109 ++++++------------------------------------ vignettes/getting-started.Rmd | 18 ++++-- 8 files changed, 108 insertions(+), 171 deletions(-)
Title: Testing for Population Trends Using Low-Cost Ecological Count
Data
Description: A Bayesian tool to test for population trends and changes in trends under arbitrary designs, including before-after (BA), control-intervention (CI) and before-after-control-intervention (BACI) designs commonly used to assess conservation impact. It infers changes in trends jointly from data obtained with multiple survey methods, as well as from limited and noisy data not necessarily collected in standardized ecological surveys. Observed counts can be modeled as following either a Poisson or a negative binomial model, and both deterministic and stochastic trend models are available. For more details on the model see Singer et al. (2025) <doi:10.1101/2025.01.08.631844>, and the file 'AUTHORS' for a list of copyright holders and contributors.
Author: Madleina Caduff [aut],
Andreas Fueglistaler [aut, cre],
Daniel Wegmann [aut],
Liam Singer [aut],
Raphael Eckel [ctb]
Maintainer: Andreas Fueglistaler <andreas.fueglistaler@unifr.ch>
This is a re-admission after prior archival of version 0.0.5 dated 2025-07-12
Diff between birp versions 0.0.5 dated 2025-07-12 and 0.0.6 dated 2026-08-21
birp-0.0.5/birp/inst/extdata/birp_BACI_configuration.txt |only birp-0.0.5/birp/man/dot-addTextSingleGamma.birp.Rd |only birp-0.0.5/birp/src/Makevars |only birp-0.0.5/birp/src/Makevars.win |only birp-0.0.5/birp/src/libs |only birp-0.0.6/birp/DESCRIPTION | 32 birp-0.0.6/birp/MD5 | 420 birp-0.0.6/birp/NEWS.md | 6 birp-0.0.6/birp/R/birp.R | 836 birp-0.0.6/birp/R/birp_data.R | 85 birp-0.0.6/birp/build/partial.rdb |binary birp-0.0.6/birp/build/vignette.rds |binary birp-0.0.6/birp/cleanup |only birp-0.0.6/birp/cleanup.win |only birp-0.0.6/birp/configure | 101 birp-0.0.6/birp/configure.win | 101 birp-0.0.6/birp/inst/doc/birp-introduction.R | 136 birp-0.0.6/birp/inst/doc/birp-introduction.Rmd | 275 birp-0.0.6/birp/inst/doc/birp-introduction.html | 724 birp-0.0.6/birp/inst/extdata/birp_BACI_gamma_configuration.txt |only birp-0.0.6/birp/inst/extdata/birp_DeltaSummaries.txt |only birp-0.0.6/birp/inst/extdata/birp_Method_1_simulated_counts.txt | 12 birp-0.0.6/birp/inst/extdata/birp_birp_Method_1_simulated_counts_filtered_counts.txt | 12 birp-0.0.6/birp/inst/extdata/birp_config.txt | 1 birp-0.0.6/birp/inst/extdata/birp_gammaSummaries.txt | 2 birp-0.0.6/birp/inst/extdata/birp_meanVar.txt | 2 birp-0.0.6/birp/inst/extdata/birp_state.txt | 3 birp-0.0.6/birp/inst/extdata/birp_timesOfChange.txt |only birp-0.0.6/birp/inst/extdata/birp_trace.txt |19982 +++++----- birp-0.0.6/birp/man/birp.Rd | 17 birp-0.0.6/birp/man/birp_data_from_data_frame.Rd | 2 birp-0.0.6/birp/man/dot-addLegendMultiGamma.birp.Rd | 4 birp-0.0.6/birp/man/dot-addTextSingleGammaDelta.birp.Rd |only birp-0.0.6/birp/man/dot-calculatePsi.birp.Rd |only birp-0.0.6/birp/man/dot-createObjBirp.birp.Rd | 17 birp-0.0.6/birp/man/dot-parsePosteriorGammaDelta.birp.Rd |only birp-0.0.6/birp/man/dot-printPostSummary.birp.Rd |only birp-0.0.6/birp/man/plot.birp.Rd | 57 birp-0.0.6/birp/man/plot_epoch_pair.Rd | 10 birp-0.0.6/birp/man/plot_mcmc.Rd | 2 birp-0.0.6/birp/man/plot_trend.Rd | 2 birp-0.0.6/birp/man/prob_step.Rd |only birp-0.0.6/birp/man/prob_trend.Rd |only birp-0.0.6/birp/man/prob_trend_diff.Rd |only birp-0.0.6/birp/man/simulate_birp.Rd | 33 birp-0.0.6/birp/man/simulate_birp_from_results.Rd | 3 birp-0.0.6/birp/src/Makevars.in |only birp-0.0.6/birp/src/RcppExports.cpp | 1 birp-0.0.6/birp/src/git_commit |only birp-0.0.6/birp/src/main.cpp | 3 birp-0.0.6/birp/vignettes/birp-introduction.Rmd | 275 51 files changed, 11763 insertions(+), 11393 deletions(-)
Title: Pedigree Validation Genetic Composition of Diploids & Polyploids
Description: Tools for pedigree quality control and genomic breed/line
composition estimation in diploid and polyploid breeding populations.
'BIGpopA' provides functions to check and correct common pedigree
errors, assign parentage from SNP genotype data using Mendelian error
rates, validate parent-offspring trios, and estimate genome-wide
breed or line composition using quadratic programming. Pedigree
validation and parentage assignment support any ploidy, using a
polysomic Mendelian test for even ploidy and a homozygosity-based
check for odd ploidy. For more details about the included 'breedTools'
functions, see Funkhouser et al. (2017) <doi:10.2527/tas2016.0003>.
Author: Josue Chinchilla-Vargas [cre, aut],
Alexander Sandercock [aut],
University of Florida [cph]
Maintainer: Josue Chinchilla-Vargas <josue.chinchilla@ufl.edu>
Diff between BIGpopA versions 1.0.6 dated 2026-07-16 and 2.0.0 dated 2026-08-21
DESCRIPTION | 12 +++-- MD5 | 22 +++++----- NEWS.md | 6 ++ R/find_parentage.R | 32 ++++++++------- R/utils.R | 90 +++++++++++++++++++++++++++++++++++++++++++ R/validate_pedigree.R | 30 ++++++++------ README.md | 4 - inst/CITATION | 2 inst/doc/BIGpopA.html | 12 ++--- man/figures |only man/find_parentage.Rd | 11 ++++- man/validate_pedigree.Rd | 11 ++++- tests/testthat/test-ploidy.R |only 13 files changed, 179 insertions(+), 53 deletions(-)
Title: Extending Lasso Model Fitting to Big Data
Description: Extend lasso and elastic-net model fitting for large data sets that
cannot be loaded into memory. Designed to be more memory- and
computation-efficient than existing lasso-fitting packages like 'glmnet' and
'ncvreg', thus allowing the user to analyze big data with limited RAM
<doi:10.32614/RJ-2021-001>.
Author: Yaohui Zeng [aut],
Chuyi Wang [aut],
Tabitha Peter [aut],
Patrick Breheny [aut, cre]
Maintainer: Patrick Breheny <patrick-breheny@uiowa.edu>
Diff between biglasso versions 1.6.1 dated 2025-03-05 and 1.7.0 dated 2026-08-21
biglasso-1.6.1/biglasso/inst/tinytest/test_biglasso_fit.r |only biglasso-1.6.1/biglasso/inst/tinytest/test_biglasso_linear.r |only biglasso-1.6.1/biglasso/inst/tinytest/test_biglasso_logistic.r |only biglasso-1.6.1/biglasso/inst/tinytest/test_biglasso_path.r |only biglasso-1.6.1/biglasso/man/biglasso-package.Rd |only biglasso-1.6.1/biglasso/vignettes/2020-12-18_vary_n_pkgs.png |only biglasso-1.6.1/biglasso/vignettes/2020-12-18_vary_p_pkgs.png |only biglasso-1.7.0/biglasso/DESCRIPTION | 19 biglasso-1.7.0/biglasso/MD5 | 111 biglasso-1.7.0/biglasso/NEWS.md | 179 biglasso-1.7.0/biglasso/R/biglasso-dispatch.R |only biglasso-1.7.0/biglasso/R/biglasso-package.R | 163 biglasso-1.7.0/biglasso/R/biglasso.R | 943 ++-- biglasso-1.7.0/biglasso/R/biglasso_fit.R | 272 - biglasso-1.7.0/biglasso/R/biglasso_fit_common.R |only biglasso-1.7.0/biglasso/R/biglasso_path.R | 287 - biglasso-1.7.0/biglasso/R/cv-biglasso.R | 315 - biglasso-1.7.0/biglasso/R/data.R | 66 biglasso-1.7.0/biglasso/R/loss.R | 197 biglasso-1.7.0/biglasso/R/plot-biglasso.R | 66 biglasso-1.7.0/biglasso/R/plot-common.R |only biglasso-1.7.0/biglasso/R/plot-cv-biglasso.R | 92 biglasso-1.7.0/biglasso/R/plot-mbiglasso.R | 98 biglasso-1.7.0/biglasso/R/predict-cv.R | 168 biglasso-1.7.0/biglasso/R/predict.R | 301 - biglasso-1.7.0/biglasso/R/setupX.R | 152 biglasso-1.7.0/biglasso/R/summary-cv-biglasso.R | 187 biglasso-1.7.0/biglasso/README.md | 136 biglasso-1.7.0/biglasso/build/partial.rdb |binary biglasso-1.7.0/biglasso/build/vignette.rds |binary biglasso-1.7.0/biglasso/inst/CITATION | 26 biglasso-1.7.0/biglasso/inst/doc/biglasso.R | 79 biglasso-1.7.0/biglasso/inst/doc/biglasso.Rmd | 99 biglasso-1.7.0/biglasso/inst/doc/biglasso.html | 129 biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_cox.R |only biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_fit.R |only biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_linear.R |only biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_logistic.R |only biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_mgaussian.R |only biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_misc.R |only biglasso-1.7.0/biglasso/inst/tinytest/test_biglasso_path.R |only biglasso-1.7.0/biglasso/man/biglasso.Rd | 364 - biglasso-1.7.0/biglasso/man/biglasso_fit.Rd | 110 biglasso-1.7.0/biglasso/man/biglasso_path.Rd | 122 biglasso-1.7.0/biglasso/man/colon.Rd | 30 biglasso-1.7.0/biglasso/man/cv.biglasso.Rd | 106 biglasso-1.7.0/biglasso/man/loss.biglasso.Rd | 25 biglasso-1.7.0/biglasso/man/plot.biglasso.Rd | 17 biglasso-1.7.0/biglasso/man/plot.cv.biglasso.Rd | 44 biglasso-1.7.0/biglasso/man/plot.mbiglasso.Rd | 20 biglasso-1.7.0/biglasso/man/predict.biglasso.Rd | 71 biglasso-1.7.0/biglasso/man/predict.cv.biglasso.Rd | 46 biglasso-1.7.0/biglasso/man/setupX.Rd | 70 biglasso-1.7.0/biglasso/man/summary.cv.biglasso.Rd | 31 biglasso-1.7.0/biglasso/src/Makevars | 14 biglasso-1.7.0/biglasso/src/biglasso_omp.h | 9 biglasso-1.7.0/biglasso/src/binomial.cpp | 1367 +++--- biglasso-1.7.0/biglasso/src/cox.cpp | 2030 +++++----- biglasso-1.7.0/biglasso/src/gaussian.cpp | 825 ++-- biglasso-1.7.0/biglasso/src/gaussian_simple.cpp | 443 -- biglasso-1.7.0/biglasso/src/init.c | 248 - biglasso-1.7.0/biglasso/src/mgaussian.cpp | 993 ++-- biglasso-1.7.0/biglasso/src/utilities.cpp | 593 +- biglasso-1.7.0/biglasso/src/utilities.h | 147 biglasso-1.7.0/biglasso/vignettes/biglasso.Rmd | 99 65 files changed, 5838 insertions(+), 6071 deletions(-)
Title: Statistical Methods for Anthropometric Data
Description: Statistical methodologies especially developed to analyze anthropometric data. These methods are aimed at providing effective solutions to some commons problems related to Ergonomics and Anthropometry. They are based on clustering, the statistical concept of data depth, statistical shape analysis and archetypal analysis. Please see Vinue (2017) <doi:10.18637/jss.v077.i06>.
Author: Guillermo Vinue [aut, cre],
Irene Epifanio [aut],
Amelia Simo [aut],
M. Victoria Ibanez [aut],
Juan Domingo [aut],
Guillermo Ayala [aut]
Maintainer: Guillermo Vinue <guillermo.vinue@uv.es>
Diff between Anthropometry versions 1.21 dated 2025-12-04 and 1.22 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 18 +- NEWS | 4 R/trimmedoid.R | 279 +++++++++++++++++++++++-------------------- inst/doc/Anthropometry.Rnw | 11 - inst/doc/Anthropometry.pdf |binary man/Anthropometry-package.Rd | 4 man/trimmedoid.Rd | 4 vignettes/Anthropometry.Rnw | 11 - vignettes/Anthropometry.bib | 9 - 10 files changed, 188 insertions(+), 160 deletions(-)
Title: The Equiplot Graph and Complex Inequality Measures
Description: Generates the equiplot, an iconic dot-plot graph for visualizing inequalities, as well as three complex inequality measures: the slope index of inequality, the concentration index and the mean absolute difference to the mean. For more details see World Health Organization (2013) <https://www.who.int/docs/default-source/gho-documents/health-equity/handbook-on-health-inequality-monitoring/handbook-on-health-inequality-monitoring.pdf>.
Author: Leonardo Ferreira [aut, cre],
Luisa Arroyave [aut]
Maintainer: Leonardo Ferreira <lferreira@equidade.org>
Diff between ICEHmeasures versions 2.0.0 dated 2026-08-03 and 2.1.0 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/mad.R | 15 ++++++++++----- man/mad.Rd | 14 ++++++++++++-- 5 files changed, 33 insertions(+), 14 deletions(-)
Title: Bayesian State-Space Aggregation of Brazilian Presidential Polls
Description: A set of dynamic measurement models to estimate latent vote shares
from noisy polling sources. The models build on Jackman (2009, ISBN: 9780470011546)
and feature specialized methods for bias adjustment based on past performance
and correction for asymmetric errors based on candidate political alignment.
Author: Rafael N. Magalhaes [aut, cre]
Maintainer: Rafael N. Magalhaes <rnunesmagalhaes@gmail.com>
Diff between agregR versions 1.0.3 dated 2026-03-06 and 1.0.4 dated 2026-08-21
DESCRIPTION | 14 MD5 | 72 NAMESPACE | 231 - NEWS.md | 15 R/ajustar_modelo.R | 54 R/calcular_prioris_empiricas.R | 3 R/configurar_agregador.R | 218 - R/configurar_grafico.R | 9 R/configurar_prioris.R | 133 R/grafico_agregador.R | 61 R/grafico_priori_posteriori.R | 4 R/grafico_vies.R | 14 R/rodar_agregador.R | 26 R/tratar_bd_atual.R | 10 R/utils.R | 526 +-- README.md | 252 - inst/extdata/pesquisas_2026.csv | 4167 ++++++++++++++++++++++-- inst/extdata/resultado_eleicao_atual.csv | 7 man/configurar_agregador.Rd | 2 man/configurar_prioris.Rd | 90 man/figures/README-agregador-plot.png |binary man/figures/README-prior-posterior-plot.png |binary man/figures/README-vies-plot.png |binary man/rodar_agregador.Rd | 6 src/stan/naive.stan | 7 src/stan/retrospectivo.stan | 37 src/stan/vies_empirico.stan | 35 src/stan/vies_relativo_com_pesos.stan | 35 src/stan/vies_relativo_sem_pesos.stan | 35 tests/testthat/helper-data.R | 4 tests/testthat/test-ajustar-modelo.R | 2 tests/testthat/test-config.R | 14 tests/testthat/test-data-processing.R | 2 tests/testthat/test-grafico-priori-posteriori.R | 8 tests/testthat/test-models.R | 16 tests/testthat/test-plots.R | 10 tests/testthat/test-utils.R | 16 37 files changed, 4923 insertions(+), 1212 deletions(-)
Title: Baseline Package for Reading Actigraphy and Activity Data
Description: Provides baseline functions for reading actigraphy and activity
data, relying on baseline functions from 'actibase'. Reads data from
'Axivity' 'CWA' <https://axivity.com/> ,
ActiGraph 'GT3X' <https://ametris.com/actigraph-wgt3x-bt>,
'SensorLog' <https://sensorlog.berndthomas.net/>, and
'SensorLogger' <https://www.tszheichoi.com/sensorlogger> zipped CSV files.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between actiread versions 0.3.0 dated 2026-07-15 and 0.5.0 dated 2026-08-21
DESCRIPTION | 12 - MD5 | 28 ++- NAMESPACE | 7 NEWS.md | 13 + R/aaa_utils.R | 2 R/acti_decompress_file.R |only R/acti_example_data.R | 9 + R/acti_read_cwa.R | 262 +++++++++++++++++++++++++++++------- R/acti_read_cwa_python.R |only R/acti_read_geneactiv.R |only inst/extdata/GENEActiv_testfile.bin |only man/acti_decompress_file.Rd |only man/acti_example_data.Rd | 3 man/acti_py_read_cwa.Rd |only man/acti_read_cwa.Rd | 3 man/acti_read_geneactiv.Rd |only man/acti_require_actipy.Rd |only tests/testthat/test-geneactiv.R |only tests/testthat/test-python-cwa.R |only tests/testthat/test-reading.R | 23 +++ 20 files changed, 295 insertions(+), 67 deletions(-)
Title: Retrieve Global River Gauge Data
Description: Provides access to global river gauge data from a variety of national-level river agencies. The package interfaces with the national-level agency websites to provide access to river gauge locations, river discharge, and river stage. Currently, the package is available for the following countries: Argentina, Australia, Brazil, Canada, Chile, France, Germany, Japan, South Africa, the United Kingdom, and the United States.
Author: Ryan Riggs [aut, cre] ,
Simon Moulds [aut] ,
Michel Wortmann [aut] ,
Louise Slater [aut] ,
George Allen [aut]
Maintainer: Ryan Riggs <ryanriggs7@gmail.com>
Diff between RivRetrieve versions 0.1.9 dated 2026-03-10 and 0.2.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++++---------- NAMESPACE | 2 ++ NEWS.md | 6 ++++++ R/argentina.R |only R/chile.R | 35 +++++++++++++++++++++++++++++------ R/germany.R |only R/sysdata.rda |binary README.md | 2 +- inst/doc/my-vignette.Rmd | 2 +- inst/doc/my-vignette.html | 12 ++++++------ man/RivRetrieve-package.Rd | 2 +- man/argentina.Rd |only man/germany.Rd |only vignettes/my-vignette.Rmd | 2 +- 15 files changed, 65 insertions(+), 30 deletions(-)
Title: Bayesian Model Calibration
Description: Package provides tools for modular Bayesian model calibration. these tools allow for
posterior exploration with sampling methods including tempering and adaptive Markov Chain Monte Carlo (MCMC).
Allows for pooled calibration or hierarchal calibration of parameters.
For more information see Francom et al., 2025 <DOI:10.1137/24M1644092>.
Author: J. Derek Tucker [aut, cre] ,
Sandia National Laboratories [cph, fnd]
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between impala versions 0.1.3 dated 2026-07-30 and 0.1.4 dated 2026-08-21
DESCRIPTION | 8 +-- MD5 | 10 ++-- NEWS.md | 3 + R/calibPool.R | 42 ++++++++++++------ README.md | 2 inst/doc/example.html | 116 +++++++++++++++++++++++++------------------------- 6 files changed, 99 insertions(+), 82 deletions(-)
Title: Flexible Non-Linear Least Square Model Fitting
Description: Provides tools for flexible non-linear least squares model fitting using general-purpose optimization techniques. The package supports a variety of optimization algorithms, including those provided by the 'optimx' package, making it suitable for handling complex non-linear models. Features include parallel processing support via the 'future' and 'foreach' packages, comprehensive model diagnostics, and visualization capabilities. Implements methods described in Nash and Varadhan (2011, <doi:10.18637/jss.v043.i09>).
Author: Johan Aparicio [cre, aut],
Jeffrey Endelman [aut],
University of Wisconsin Madison [cph]
Maintainer: Johan Aparicio <aparicioarce@wisc.edu>
Diff between flexFitR versions 1.2.3 dated 2026-06-11 and 1.2.4 dated 2026-08-21
DESCRIPTION | 6 +-- MD5 | 38 ++++++++++++---------- NEWS.md | 14 ++++++++ R/00_dt_potato.R | 53 +++++++++++++++++++++++++++++++ R/02_modeler.R | 2 + R/10_combining.R | 2 + R/utils_S3_plots.R | 10 +++-- R/utils_S3_print.R | 19 +++++++++++ README.md | 24 +++++++------- build/vignette.rds |binary data/dt_soybean_22.rda |only inst/doc/canopy-model.html | 2 - inst/doc/how_to_start.html | 20 ++++------- inst/doc/maturity-model.html | 30 ++++++++--------- inst/doc/modeling_soybean.R |only inst/doc/modeling_soybean.Rmd |only inst/doc/modeling_soybean.html |only inst/doc/predicted_values.html | 2 - man/dt_soybean_22.Rd |only man/figures/README_unnamed-chunk-2-1.png |binary man/figures/README_unnamed-chunk-6-1.png |binary man/modeler.Rd | 1 vignettes/modeling_soybean.Rmd |only 23 files changed, 160 insertions(+), 63 deletions(-)
Title: Cell Type Deconvolution from Gene Expressions
Description: Deconvolving cell types from high-throughput gene profiling data. For more information on dtangle see Hunt et al. (2019) <doi:10.1093/bioinformatics/bty926>.
Author: Gregory Hunt [aut, cre],
Johann Gagnon-Bartsch [aut]
Maintainer: Gregory Hunt <ghunt@wm.edu>
Diff between dtangle versions 2.0.9 dated 2019-12-01 and 2.0.10 dated 2026-08-21
dtangle-2.0.10/dtangle/DESCRIPTION | 13 dtangle-2.0.10/dtangle/MD5 | 139 -- dtangle-2.0.10/dtangle/R/baseline_fn.R | 36 dtangle-2.0.10/dtangle/R/combine_Y_refs.R | 42 dtangle-2.0.10/dtangle/R/data.R | 6 dtangle-2.0.10/dtangle/R/dtangle.R | 87 - dtangle-2.0.10/dtangle/R/dtangle2.R | 420 ++++--- dtangle-2.0.10/dtangle/R/dtangle2_constr_fns.R | 110 + dtangle-2.0.10/dtangle/R/find_markers_fn.R | 227 +-- dtangle-2.0.10/dtangle/R/get_gamma.R | 24 dtangle-2.0.10/dtangle/R/marker_list.R | 9 dtangle-2.0.10/dtangle/R/phats_fn.R | 61 - dtangle-2.0.10/dtangle/R/process_markers.R | 71 - dtangle-2.0.10/dtangle/R/simplex_sample.R | 6 dtangle-2.0.10/dtangle/build/vignette.rds |binary dtangle-2.0.10/dtangle/inst/doc/basic-deconvolution.R | 110 - dtangle-2.0.10/dtangle/inst/doc/basic-deconvolution.Rmd | 72 - dtangle-2.0.10/dtangle/inst/doc/basic-deconvolution.html | 605 ++++++++-- dtangle-2.0.10/dtangle/inst/doc/basic-deconvolution2.R | 118 +- dtangle-2.0.10/dtangle/inst/doc/basic-deconvolution2.Rmd | 138 +- dtangle-2.0.10/dtangle/inst/doc/basic-deconvolution2.html | 699 ++++++++---- dtangle-2.0.10/dtangle/man/baseline_exprs.Rd | 16 dtangle-2.0.10/dtangle/man/dtangle.Rd | 42 dtangle-2.0.10/dtangle/man/dtangle2.Rd | 58 dtangle-2.0.10/dtangle/man/est_phats.Rd | 30 dtangle-2.0.10/dtangle/man/find_markers.Rd | 24 dtangle-2.0.10/dtangle/man/get_gamma.Rd | 2 dtangle-2.0.10/dtangle/man/process_markers.Rd | 15 dtangle-2.0.10/dtangle/man/shen_orr_ex.Rd | 8 dtangle-2.0.10/dtangle/tests/testthat/test_baseline_exprs.R | 30 dtangle-2.0.10/dtangle/tests/testthat/test_dtangle.R | 15 dtangle-2.0.10/dtangle/tests/testthat/test_dtangle1.R | 186 +-- dtangle-2.0.10/dtangle/tests/testthat/test_dtangle2.R | 205 +-- dtangle-2.0.10/dtangle/tests/testthat/test_find_markers.R | 137 +- dtangle-2.0.10/dtangle/tests/testthat/test_phats.R | 37 dtangle-2.0.10/dtangle/vignettes/basic-deconvolution.Rmd | 72 - dtangle-2.0.10/dtangle/vignettes/basic-deconvolution2.Rmd | 138 +- dtangle-2.0.9/dtangle/vignettes/c |only 38 files changed, 2401 insertions(+), 1607 deletions(-)
Title: Modular Crop Growth Simulations
Description: A cross-platform representation of models as sets of equations
that facilitates modularity in model building and allows users to harness
modern techniques for numerical integration and data visualization.
Documentation is provided by several vignettes included in this package;
also see Lochocki et al. (2022) <doi:10.1093/insilicoplants/diac003>.
Author: Justin M. McGrath [cre, aut] ,
Edward B. Lochocki [aut] ,
Yufeng He [aut] ,
Scott W. Oswald [aut] ,
Scott Rohde [aut] ,
Deepak Jaiswal [aut] ,
Megan L. Matthews [aut] ,
Fernando E. Miguez [aut] ,
Stephen P. Long [aut] ,
Dan Wang [ctb],
David LeBauer [...truncated...]
Maintainer: Justin M. McGrath <jmcgrath@illinois.edu>
Diff between BioCro versions 3.3.1 dated 2026-02-06 and 3.4.0 dated 2026-08-21
BioCro-3.3.1/BioCro/src/module_library/broyden_test.h |only BioCro-3.3.1/BioCro/src/module_library/lightME.cpp |only BioCro-3.3.1/BioCro/src/module_library/lightME.h |only BioCro-3.3.1/BioCro/src/module_library/root_onedim_test.h |only BioCro-3.3.1/BioCro/src/module_library/sunML.cpp |only BioCro-3.3.1/BioCro/src/module_library/sunML.h |only BioCro-3.3.1/BioCro/tests/module_test_cases/BioCro_broyden_test.csv |only BioCro-3.4.0/BioCro/DESCRIPTION | 8 BioCro-3.4.0/BioCro/LICENSE | 2 BioCro-3.4.0/BioCro/MD5 | 254 ++-- BioCro-3.4.0/BioCro/NEWS.md | 114 ++ BioCro-3.4.0/BioCro/README.md | 35 BioCro-3.4.0/BioCro/data/catm_data.rda |binary BioCro-3.4.0/BioCro/data/cmi_weather_data.rdata |binary BioCro-3.4.0/BioCro/data/miscanthus_x_giganteus.rda |binary BioCro-3.4.0/BioCro/data/soybean.rda |binary BioCro-3.4.0/BioCro/data/soybean_sw.rda |only BioCro-3.4.0/BioCro/data/willow.rda |binary BioCro-3.4.0/BioCro/inst/doc/BioCro.html | 2 BioCro-3.4.0/BioCro/inst/extdata/data |only BioCro-3.4.0/BioCro/inst/extdata/optimize_StomataWS_linear.R |only BioCro-3.4.0/BioCro/inst/extdata/parameterize_soybean.R | 553 +++++++--- BioCro-3.4.0/BioCro/inst/extdata/rounding_weather_values.R | 1 BioCro-3.4.0/BioCro/man/catm_data.Rd | 4 BioCro-3.4.0/BioCro/man/cmi_weather_data.Rd | 15 BioCro-3.4.0/BioCro/man/crop_model_definitions.Rd | 22 BioCro-3.4.0/BioCro/man/partial_application.Rd | 11 BioCro-3.4.0/BioCro/man/soybean.Rd | 30 BioCro-3.4.0/BioCro/man/soybean_sw.Rd |only BioCro-3.4.0/BioCro/src/math/linalg |only BioCro-3.4.0/BioCro/src/math/quadrature |only BioCro-3.4.0/BioCro/src/math/roots/multidim/broyden.h | 175 +-- BioCro-3.4.0/BioCro/src/math/roots/multidim/newton.h |only BioCro-3.4.0/BioCro/src/math/roots/multidim/zeros.h | 330 +++-- BioCro-3.4.0/BioCro/src/math/roots/onedim/anderson_bjorck.h | 17 BioCro-3.4.0/BioCro/src/math/roots/onedim/bisection.h | 16 BioCro-3.4.0/BioCro/src/math/roots/onedim/dekker.h | 52 BioCro-3.4.0/BioCro/src/math/roots/onedim/dekker_newton.h | 53 BioCro-3.4.0/BioCro/src/math/roots/onedim/fixed_point.h | 7 BioCro-3.4.0/BioCro/src/math/roots/onedim/illinois.h | 17 BioCro-3.4.0/BioCro/src/math/roots/onedim/pegasus.h | 17 BioCro-3.4.0/BioCro/src/math/roots/onedim/regula_falsi.h | 17 BioCro-3.4.0/BioCro/src/math/roots/onedim/ridder.h | 17 BioCro-3.4.0/BioCro/src/math/roots/onedim/roots.h | 60 + BioCro-3.4.0/BioCro/src/math/roots/onedim/secant.h | 17 BioCro-3.4.0/BioCro/src/module_library/AuxBioCro.cpp | 144 -- BioCro-3.4.0/BioCro/src/module_library/AuxBioCro.h | 118 +- BioCro-3.4.0/BioCro/src/module_library/BioCro.h | 80 + BioCro-3.4.0/BioCro/src/module_library/CanAC.cpp | 271 ++-- BioCro-3.4.0/BioCro/src/module_library/CanAC.h | 2 BioCro-3.4.0/BioCro/src/module_library/FvCB.h | 10 BioCro-3.4.0/BioCro/src/module_library/FvCB_assim.cpp | 38 BioCro-3.4.0/BioCro/src/module_library/FvCB_assim.h | 2 BioCro-3.4.0/BioCro/src/module_library/atmosphere_light_scattering.cpp |only BioCro-3.4.0/BioCro/src/module_library/atmosphere_light_scattering.h |only BioCro-3.4.0/BioCro/src/module_library/atmospheric_pressure_from_elevation.h |only BioCro-3.4.0/BioCro/src/module_library/boundary_layer_conductance.cpp | 4 BioCro-3.4.0/BioCro/src/module_library/c3CanAC.cpp | 373 +++--- BioCro-3.4.0/BioCro/src/module_library/c3CanAC.h | 88 - BioCro-3.4.0/BioCro/src/module_library/c3_assimilation.h | 80 - BioCro-3.4.0/BioCro/src/module_library/c3_canopy.cpp | 32 BioCro-3.4.0/BioCro/src/module_library/c3_canopy.h | 28 BioCro-3.4.0/BioCro/src/module_library/c3_leaf_photosynthesis.cpp | 131 +- BioCro-3.4.0/BioCro/src/module_library/c3_leaf_photosynthesis.h | 36 BioCro-3.4.0/BioCro/src/module_library/c3_parameters.h | 80 - BioCro-3.4.0/BioCro/src/module_library/c3_temperature_response.cpp | 41 BioCro-3.4.0/BioCro/src/module_library/c3_temperature_response.h | 17 BioCro-3.4.0/BioCro/src/module_library/c3photo.cpp | 453 ++++++-- BioCro-3.4.0/BioCro/src/module_library/c3photo.h | 132 +- BioCro-3.4.0/BioCro/src/module_library/c4_assimilation.h | 20 BioCro-3.4.0/BioCro/src/module_library/c4_leaf_photosynthesis.cpp | 89 + BioCro-3.4.0/BioCro/src/module_library/c4_leaf_photosynthesis.h | 6 BioCro-3.4.0/BioCro/src/module_library/c4photo.cpp | 398 +++++-- BioCro-3.4.0/BioCro/src/module_library/c4photo.h | 119 +- BioCro-3.4.0/BioCro/src/module_library/canopy_light_distribution.h |only BioCro-3.4.0/BioCro/src/module_library/canopy_light_helpers.cpp |only BioCro-3.4.0/BioCro/src/module_library/canopy_light_helpers.h |only BioCro-3.4.0/BioCro/src/module_library/conductance_helpers.cpp |only BioCro-3.4.0/BioCro/src/module_library/conductance_helpers.h | 60 - BioCro-3.4.0/BioCro/src/module_library/conductance_limited_assim.h | 34 BioCro-3.4.0/BioCro/src/module_library/cumulative_carbon_dynamics.h | 4 BioCro-3.4.0/BioCro/src/module_library/cumulative_water_dynamics.h | 80 + BioCro-3.4.0/BioCro/src/module_library/leaf_energy_balance.cpp | 28 BioCro-3.4.0/BioCro/src/module_library/leaf_energy_balance.h | 34 BioCro-3.4.0/BioCro/src/module_library/leaf_evapotranspiration.h | 40 BioCro-3.4.0/BioCro/src/module_library/leaf_evapotranspiration_check.h | 15 BioCro-3.4.0/BioCro/src/module_library/module_library.cpp | 36 BioCro-3.4.0/BioCro/src/module_library/multi_layer_soil_profile.h |only BioCro-3.4.0/BioCro/src/module_library/multilayer_canopy_properties.cpp | 95 - BioCro-3.4.0/BioCro/src/module_library/multilayer_soil_profile_avg.h |only BioCro-3.4.0/BioCro/src/module_library/partitioning_coefficient_logistic.h | 5 BioCro-3.4.0/BioCro/src/module_library/partitioning_growth_calculator.h | 51 BioCro-3.4.0/BioCro/src/module_library/photosynthesis.h |only BioCro-3.4.0/BioCro/src/module_library/photosynthesis_outputs.h | 7 BioCro-3.4.0/BioCro/src/module_library/shortwave_atmospheric_scattering.h | 4 BioCro-3.4.0/BioCro/src/module_library/soil_evaporation_functions.h |only BioCro-3.4.0/BioCro/src/module_library/soil_evaporation_ritchie.h |only BioCro-3.4.0/BioCro/src/module_library/soil_surface_runoff.h |only BioCro-3.4.0/BioCro/src/module_library/soil_type_selector.h |only BioCro-3.4.0/BioCro/src/module_library/soil_water_downflow.h |only BioCro-3.4.0/BioCro/src/module_library/soil_water_dynamic_rooting.h |only BioCro-3.4.0/BioCro/src/module_library/soil_water_flow_functions.cpp |only BioCro-3.4.0/BioCro/src/module_library/soil_water_flow_functions.h |only BioCro-3.4.0/BioCro/src/module_library/soil_water_tiledrain.h |only BioCro-3.4.0/BioCro/src/module_library/soil_water_upflow.h |only BioCro-3.4.0/BioCro/src/module_library/soil_water_uptake.h |only BioCro-3.4.0/BioCro/src/module_library/solar_position_michalsky.h | 2 BioCro-3.4.0/BioCro/src/module_library/stomata_water_stress_bilinear.h |only BioCro-3.4.0/BioCro/src/module_library/stomata_water_stress_linear.h | 81 + BioCro-3.4.0/BioCro/src/module_library/temperature_response_functions.h | 300 ++++- BioCro-3.4.0/BioCro/src/module_library/test_modules |only BioCro-3.4.0/BioCro/src/module_library/total_soil_water.h |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_FvCB.csv | 6 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_atmospheric_pressure_from_elevation.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c3_assimilation.csv | 33 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c3_canopy.csv | 37 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c3_leaf_photosynthesis.csv | 33 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c3_parameters.csv | 8 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c4_assimilation.csv | 22 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c4_canopy.csv | 24 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_c4_leaf_photosynthesis.csv | 24 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_canopy_light_distribution.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_cumulative_water_dynamics.csv | 6 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_leaf_evapotranspiration.csv | 24 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_leaf_evapotranspiration_check.csv | 2 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_multi_layer_soil_profile.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_multilayer_soil_profile_avg.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_partitioning_growth_calculator.csv | 6 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_root_multidim_test.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_root_onedim_test.csv | 9 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_evaporation_ritchie.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_surface_runoff.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_type_selector.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_water_downflow.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_water_dynamic_rooting.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_water_tiledrain.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_water_upflow.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_soil_water_uptake.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_stomata_water_stress_bilinear.csv |only BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_stomata_water_stress_linear.csv | 7 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_ten_layer_c3_canopy.csv | 6 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_ten_layer_c4_canopy.csv | 6 BioCro-3.4.0/BioCro/tests/module_test_cases/BioCro_total_soil_water.csv |only BioCro-3.4.0/BioCro/tests/test_data/miscanthus_x_giganteus_simulation.csv | 358 +++--- BioCro-3.4.0/BioCro/tests/test_data/soybean_simulation.csv | 276 ++-- BioCro-3.4.0/BioCro/tests/test_data/soybean_sw_simulation.csv |only BioCro-3.4.0/BioCro/tests/test_data/willow_simulation.csv | 358 +++--- BioCro-3.4.0/BioCro/tests/testthat/test.CropModels.R | 5 BioCro-3.4.0/BioCro/tests/testthat/test.Modules.R | 18 BioCro-3.4.0/BioCro/tests/testthat/test.c3photo.R | 23 BioCro-3.4.0/BioCro/tests/testthat/test.canopy_modules.R | 114 +- BioCro-3.4.0/BioCro/tests/testthat/test.cumulative_modules.R | 279 +++-- BioCro-3.4.0/BioCro/tests/testthat/test.root_onedim.R |only 153 files changed, 4605 insertions(+), 2593 deletions(-)
Title: Download Contact Surveys for Use in Infectious Disease Modelling
Description: Download, cache, and manage social contact survey data from
the social contact data community on Zenodo
(<https://zenodo.org/communities/social_contact_data>) for use in
infectious disease modelling. Provides functions to list available
surveys, download survey files with automatic caching, and retrieve
citations. Contact survey data describe who contacts whom in a population
and are used to parameterise age-structured transmission models, for
example via the 'socialmixr' package. The surveys available include those
from the POLYMOD study (Mossong et al. (2008)
<doi:10.1371/journal.pmed.0050074>) and other social contact data shared
on Zenodo.
Author: Sebastian Funk [aut, cre, cph] ,
Nicholas Tierney [aut] ,
Hugo Gruson [ctb]
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Diff between contactsurveys versions 0.1.0 dated 2026-01-31 and 0.2.0 dated 2026-08-21
contactsurveys-0.1.0/contactsurveys/inst/dev |only contactsurveys-0.2.0/contactsurveys/DESCRIPTION | 10 contactsurveys-0.2.0/contactsurveys/MD5 | 50 contactsurveys-0.2.0/contactsurveys/NAMESPACE | 9 contactsurveys-0.2.0/contactsurveys/NEWS.md | 8 contactsurveys-0.2.0/contactsurveys/R/checkers.R | 17 contactsurveys-0.2.0/contactsurveys/R/download_survey.R | 71 contactsurveys-0.2.0/contactsurveys/R/globals.R | 3 contactsurveys-0.2.0/contactsurveys/R/lists.R | 12 contactsurveys-0.2.0/contactsurveys/README.md | 5 contactsurveys-0.2.0/contactsurveys/inst/doc/contactsurveys.Rmd | 63 contactsurveys-0.2.0/contactsurveys/inst/doc/contactsurveys.html | 545 contactsurveys-0.2.0/contactsurveys/man/contactsurveys-package.Rd | 1 contactsurveys-0.2.0/contactsurveys/man/contactsurveys_dir.Rd | 2 contactsurveys-0.2.0/contactsurveys/man/download_survey.Rd | 2 contactsurveys-0.2.0/contactsurveys/man/store_reference.Rd |only contactsurveys-0.2.0/contactsurveys/tests/testthat/_vcr/download-survey.yml | 1164 - contactsurveys-0.2.0/contactsurveys/tests/testthat/_vcr/get-citation.yml | 882 - contactsurveys-0.2.0/contactsurveys/tests/testthat/_vcr/list-survey.yml | 7043 ++++------ contactsurveys-0.2.0/contactsurveys/tests/testthat/_vcr/socialmixr-integration.yml | 1050 - contactsurveys-0.2.0/contactsurveys/tests/testthat/fixtures/oai-records-mixit.rds |only contactsurveys-0.2.0/contactsurveys/tests/testthat/setup.R | 48 contactsurveys-0.2.0/contactsurveys/tests/testthat/test-checkers.R | 8 contactsurveys-0.2.0/contactsurveys/tests/testthat/test-list-surveys.R | 43 contactsurveys-0.2.0/contactsurveys/tests/testthat/test-works-with-socialmixr.R | 22 contactsurveys-0.2.0/contactsurveys/vignettes/contactsurveys.Rmd | 63 contactsurveys-0.2.0/contactsurveys/vignettes/contactsurveys.Rmd.orig | 12 27 files changed, 5436 insertions(+), 5697 deletions(-)
More information about contactsurveys at CRAN
Permanent link
Title: Extensions for 'ggplot2' to Visualize as You Randomize
Description: Extensions for 'ggplot2' that implement the "visualize as you
randomize" principles of Coppock (2021)
<doi:10.1017/9781108777919.022>, which can be especially useful when
plotting experimental data. Provides position adjustments that arrange
over-plotted points so that a statistical model can be shown in
data-space, and a helper for graphing extreme value bounds when an
experiment encounters attrition.
Author: Alexander Coppock [aut, cre, cph] ,
Elias Hyde [ctb]
Maintainer: Alexander Coppock <acoppock@gmail.com>
Diff between vayr versions 1.0.0 dated 2025-04-15 and 1.1.0 dated 2026-08-21
vayr-1.0.0/vayr/man/figures/README-contents_0-1.png |only vayr-1.0.0/vayr/man/figures/README-contents_1-1.png |only vayr-1.0.0/vayr/man/figures/README-contents_2A-1.png |only vayr-1.0.0/vayr/man/figures/README-contents_2B-1.png |only vayr-1.0.0/vayr/man/figures/README-contents_2C-1.png |only vayr-1.0.0/vayr/man/figures/README-contents_3A-1.png |only vayr-1.0.0/vayr/man/figures/README-contents_3B-1.png |only vayr-1.0.0/vayr/man/figures/README-patriot_act_visualization-1.png |only vayr-1.1.0/vayr/DESCRIPTION | 30 vayr-1.1.0/vayr/MD5 | 99 + vayr-1.1.0/vayr/NAMESPACE | 12 vayr-1.1.0/vayr/NEWS.md | 86 + vayr-1.1.0/vayr/R/data.R | 179 +++ vayr-1.1.0/vayr/R/extreme-value-bounds.R |only vayr-1.1.0/vayr/R/position-bluenoise.R |only vayr-1.1.0/vayr/R/position-circlepack.R | 82 - vayr-1.1.0/vayr/R/position-honeycomb.R |only vayr-1.1.0/vayr/R/position-jitter-ellipse.R | 72 - vayr-1.1.0/vayr/R/position-sunflower.R | 127 +- vayr-1.1.0/vayr/R/utils.R | 33 vayr-1.1.0/vayr/R/vayr-package.R | 7 vayr-1.1.0/vayr/README.md | 439 ++------ vayr-1.1.0/vayr/build/partial.rdb |binary vayr-1.1.0/vayr/build/vignette.rds |binary vayr-1.1.0/vayr/data/attrition_experiment.rda |only vayr-1.1.0/vayr/data/blocked_experiment.rda |only vayr-1.1.0/vayr/data/clustered_experiment.rda |only vayr-1.1.0/vayr/data/continuous_interaction.rda |only vayr-1.1.0/vayr/data/covariate_adjustment.rda |only vayr-1.1.0/vayr/data/noncompliance_experiment.rda |only vayr-1.1.0/vayr/data/two_arm_trial.rda |only vayr-1.1.0/vayr/inst/CITATION |only vayr-1.1.0/vayr/inst/doc/design-based-graphs.R |only vayr-1.1.0/vayr/inst/doc/design-based-graphs.Rmd |only vayr-1.1.0/vayr/inst/doc/design-based-graphs.html |only vayr-1.1.0/vayr/inst/doc/vayr-vignette.R | 58 + vayr-1.1.0/vayr/inst/doc/vayr-vignette.Rmd | 243 +++- vayr-1.1.0/vayr/inst/doc/vayr-vignette.html | 519 ++++++---- vayr-1.1.0/vayr/man/attrition_experiment.Rd |only vayr-1.1.0/vayr/man/blocked_experiment.Rd |only vayr-1.1.0/vayr/man/clustered_experiment.Rd |only vayr-1.1.0/vayr/man/continuous_interaction.Rd |only vayr-1.1.0/vayr/man/covariate_adjustment.Rd |only vayr-1.1.0/vayr/man/figures/README-overview-1.png |only vayr-1.1.0/vayr/man/impute_extreme_values.Rd |only vayr-1.1.0/vayr/man/noncompliance_experiment.Rd |only vayr-1.1.0/vayr/man/patriot_act.Rd | 14 vayr-1.1.0/vayr/man/position_bluenoise.Rd |only vayr-1.1.0/vayr/man/position_bluenoisedodge.Rd |only vayr-1.1.0/vayr/man/position_circlepack.Rd | 28 vayr-1.1.0/vayr/man/position_circlepackdodge.Rd | 39 vayr-1.1.0/vayr/man/position_honeycomb.Rd |only vayr-1.1.0/vayr/man/position_honeycombdodge.Rd |only vayr-1.1.0/vayr/man/position_jitter_ellipse.Rd | 21 vayr-1.1.0/vayr/man/position_jitterdodge_ellipse.Rd | 28 vayr-1.1.0/vayr/man/position_sunflower.Rd | 30 vayr-1.1.0/vayr/man/position_sunflowerdodge.Rd | 39 vayr-1.1.0/vayr/man/sunflower.Rd | 64 - vayr-1.1.0/vayr/man/two_arm_trial.Rd |only vayr-1.1.0/vayr/man/vayr.Rd | 11 vayr-1.1.0/vayr/tests/testthat/helper-spacing.R |only vayr-1.1.0/vayr/tests/testthat/test-data.R |only vayr-1.1.0/vayr/tests/testthat/test-dodge-orientation.R |only vayr-1.1.0/vayr/tests/testthat/test-extreme-value-bounds.R |only vayr-1.1.0/vayr/tests/testthat/test-namespace.R |only vayr-1.1.0/vayr/tests/testthat/test-position-bluenoise.R |only vayr-1.1.0/vayr/tests/testthat/test-position-circlepack.R | 167 +++ vayr-1.1.0/vayr/tests/testthat/test-position-honeycomb.R |only vayr-1.1.0/vayr/tests/testthat/test-position-jitter-ellipse.R | 161 ++- vayr-1.1.0/vayr/tests/testthat/test-position-sunflower.R | 129 ++ vayr-1.1.0/vayr/vignettes/design-based-graphs.Rmd |only vayr-1.1.0/vayr/vignettes/vayr-vignette.Rmd | 243 +++- 72 files changed, 2000 insertions(+), 960 deletions(-)
Title: A Byte-Pair-Encoding (BPE) Tokenizer for OpenAI's Large Language
Models
Description: A thin wrapper around the tiktoken-rs crate, allowing to encode text into Byte-Pair-Encoding (BPE) tokens and decode tokens back to text. This is useful to understand how Large Language Models (LLMs) perceive text.
Author: David Zimmermann-Kollenda [aut, cre],
Roger Zurawicki [aut] ,
Authors of the dependent Rust crates [aut]
Maintainer: David Zimmermann-Kollenda <david_j_zimmermann@hotmail.com>
Diff between rtiktoken versions 0.0.7 dated 2025-04-14 and 0.11.0.2 dated 2026-08-21
rtiktoken-0.0.7/rtiktoken/src/rust/vendor-packages.sh |only rtiktoken-0.11.0.2/rtiktoken/DESCRIPTION | 10 rtiktoken-0.11.0.2/rtiktoken/LICENSE | 4 rtiktoken-0.11.0.2/rtiktoken/MD5 | 59 +-- rtiktoken-0.11.0.2/rtiktoken/NAMESPACE | 14 rtiktoken-0.11.0.2/rtiktoken/NEWS.md | 9 rtiktoken-0.11.0.2/rtiktoken/R/decode.R | 76 ++-- rtiktoken-0.11.0.2/rtiktoken/R/extendr-wrappers.R | 38 -- rtiktoken-0.11.0.2/rtiktoken/R/get_token_count.R | 48 +- rtiktoken-0.11.0.2/rtiktoken/R/get_tokens.R | 66 +-- rtiktoken-0.11.0.2/rtiktoken/R/model_to_tokenizer.R | 32 - rtiktoken-0.11.0.2/rtiktoken/R/utils.R |only rtiktoken-0.11.0.2/rtiktoken/README.md | 221 ++++++------ rtiktoken-0.11.0.2/rtiktoken/cleanup |only rtiktoken-0.11.0.2/rtiktoken/cleanup.win |only rtiktoken-0.11.0.2/rtiktoken/inst/AUTHORS | 76 +--- rtiktoken-0.11.0.2/rtiktoken/man/decode_tokens.Rd | 66 +-- rtiktoken-0.11.0.2/rtiktoken/man/get_token_count.Rd | 56 +-- rtiktoken-0.11.0.2/rtiktoken/man/get_tokens.Rd | 58 +-- rtiktoken-0.11.0.2/rtiktoken/man/model_to_tokenizer.Rd | 48 +- rtiktoken-0.11.0.2/rtiktoken/src/Makevars.in | 35 + rtiktoken-0.11.0.2/rtiktoken/src/Makevars.win.in | 31 + rtiktoken-0.11.0.2/rtiktoken/src/entrypoint.c | 2 rtiktoken-0.11.0.2/rtiktoken/src/rtiktoken-win.def | 4 rtiktoken-0.11.0.2/rtiktoken/src/rust/Cargo.lock | 252 +++----------- rtiktoken-0.11.0.2/rtiktoken/src/rust/Cargo.toml | 27 + rtiktoken-0.11.0.2/rtiktoken/src/rust/document.rs |only rtiktoken-0.11.0.2/rtiktoken/src/rust/src/lib.rs | 199 +++++------ rtiktoken-0.11.0.2/rtiktoken/src/rust/vendor-config.toml | 10 rtiktoken-0.11.0.2/rtiktoken/src/rust/vendor.tar.xz |binary rtiktoken-0.11.0.2/rtiktoken/tests/testthat.R | 24 - rtiktoken-0.11.0.2/rtiktoken/tests/testthat/test-tokens.R | 70 +-- rtiktoken-0.11.0.2/rtiktoken/tools/config.R | 45 ++ 33 files changed, 767 insertions(+), 813 deletions(-)
Title: Automated Construction of R Data Packages from REDCap Projects
Description: Export all data, including metadata, from a REDCap (Research
Electronic Data Capture) Project via the REDCap API
<https://projectredcap.org/wp-content/resources/REDCapTechnicalOverview.pdf>.
The exported (meta)data will be processed and formatted into a stand-alone R
data package which can be installed and shared between researchers. Several
default reports are generated as vignettes in the resulting package.
Author: Peter DeWitt [aut, cre]
Maintainer: Peter DeWitt <peter.dewitt@cuanschutz.edu>
Diff between REDCapExporter versions 0.3.5 dated 2026-06-17 and 0.3.6 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 12 ++++++++++++ R/write.R | 10 +++++++++- build/vignette.rds |binary inst/doc/redcap2package.html | 6 +++--- tests/test-build_r_pkg.R | 10 ++++++++-- 7 files changed, 42 insertions(+), 16 deletions(-)
More information about REDCapExporter at CRAN
Permanent link
Title: A Light Wrapper Around the 'BM25' 'Rust' Crate for Okapi BM25
Text Search
Description: BM25 is a ranking function used by search engines to rank matching documents according to their relevance to a user's search query.
This package provides a light wrapper around the 'BM25' 'rust' crate for Okapi BM25 text search.
For more information, see Robertson et al. (1994) <https://trec.nist.gov/pubs/trec3/t3_proceedings.html>.
Author: David Zimmermann-Kollenda [aut, cre],
Michael Barlow [aut] ,
Authors of the dependency Rust crates [aut]
Maintainer: David Zimmermann-Kollenda <david_j_zimmermann@hotmail.com>
Diff between rbm25 versions 0.0.4 dated 2025-04-14 and 2.3.2 dated 2026-08-21
DESCRIPTION | 10 +-- MD5 | 20 +++--- NEWS.md | 13 ++++ R/BM25-class.R | 75 +++++++++++++++++++++++- R/extendr-wrappers.R | 2 man/BM25.Rd | 66 +++++++++++++++++++++ src/rust/Cargo.lock | 139 ++++++++++++++++++++++++++++++--------------- src/rust/Cargo.toml | 6 + src/rust/src/lib.rs | 12 ++- src/rust/vendor.tar.xz |binary tests/testthat/test-BM25.R | 20 +++++- 11 files changed, 290 insertions(+), 73 deletions(-)
Title: Contrast and Separation Metrics for Phonological Categories
Description: Computes and compares multiple measures of separation and overlap
between phonological categories (for example vowels or consonants) in
arbitrary multi-dimensional acoustic spaces such as formant values,
mel-frequency cepstral coefficients (MFCCs), duration, or learned
embeddings. The main entry point, phontrast(), reports several contrast
metrics in one call -- Jensen-Shannon divergence and distance (Lin, 1991)
<doi:10.1109/18.61115>, the Pillai-Bartlett trace, Bhattacharyya distance
and affinity, Mahalanobis distance, and proportional overlap -- globally or
by group on a common separation-oriented scale, with bootstrap confidence
intervals. Also provides utilities for preparing estimates for downstream
modelling such as generalized additive models and mixed-effects models.
Formerly released as 'phonJSD'.
Author: Grant M. Berry [aut, cre]
Maintainer: Grant M. Berry <berry.grant@gmail.com>
Diff between phontrast versions 2.3.1 dated 2026-08-09 and 2.4.0 dated 2026-08-21
DESCRIPTION | 6 MD5 | 28 ++- NEWS.md | 44 ++++++ R/jsd_wrappers.R | 14 - R/pillai_bhatt.R | 213 +++++++++++++++++++++++++++++- README.md | 49 ++++++ build/vignette.rds |binary inst/CITATION | 25 ++- inst/doc/multidimensional-workflows.R | 16 +- inst/doc/multidimensional-workflows.html | 6 inst/doc/quick-start.R | 18 +- inst/doc/quick-start.html | 6 man/estimate_jsd.Rd | 14 - man/pillai_overlap.Rd | 68 +++++++++ tests/testthat/test-citation.R |only tests/testthat/test-pillai-standardized.R |only 16 files changed, 438 insertions(+), 69 deletions(-)
Title: Parametric Modal Regression with Right Censoring
Description: Implements parametric modal regression for continuous positive
distributions of the exponential family and beyond (e.g., Log-Logistic,
Birnbaum-Saunders) under right censoring. Provides functions to link the
conditional mode to a linear predictor using alternative parameterizations. Includes maximum
likelihood estimation via numerical optimization, asymptotic inference based on
the observed Fisher information matrix, and model diagnostics using randomized
quantile residuals. See Galarza and Lachos (2026) <doi:10.48550/arXiv.2603.07099>.
Author: Christian Galarza [aut, cre],
Victor Lachos [aut]
Maintainer: Christian Galarza <chedgala@espol.edu.ec>
Diff between ModalCens versions 0.1.0 dated 2026-03-11 and 0.2.0 dated 2026-08-21
DESCRIPTION | 19 ++++---- MD5 | 14 +++--- NAMESPACE | 3 + NEWS.md | 8 +++ R/methods.R | 2 R/modal_reg.R | 93 ++++++++++++++++++++++++++++++++++++++--- README.md | 121 ++++++++++++++++++++++++++---------------------------- man/modal_cens.Rd | 17 ++++++- 8 files changed, 188 insertions(+), 89 deletions(-)
Title: Fast and Functional Data Structures
Description: Provides fast, side-effect free data structures, including
catenable named lists, priority queues, double-ended queues, ordered
sequences, and interval indices. Implementation is based on the
finger-tree data structure of Hinze and Paterson (2006)
<doi:10.1017/S0956796805005769>.
Author: Shawn T. O'Neil [aut, cre]
Maintainer: Shawn T. O'Neil <shawn@tislab.org>
Diff between Immutables versions 1.0.1 dated 2026-04-28 and 1.1.0 dated 2026-08-21
DESCRIPTION | 14 MD5 | 116 +- NEWS.md | 25 R/00-core-ref-constructors.R | 118 +- R/00-core-ref-helpers.R | 10 R/00-core-ref-measured.R | 47 R/00-core-ref-monoid-resolution.R | 49 - R/20-api-generics.R | 14 R/20-backend-cpp.R | 55 + R/30-api-flexseq-split.R | 18 R/30-api-flexseq-tree-from.R | 47 R/40-priority_queue-boundaries.R | 2 R/40-priority_queue-queue-ops.R | 4 R/50-ordered_sequence-ops.R | 4 R/60-interval_index-internals.R | 29 R/60-interval_index-mutations.R | 6 R/60-interval_index-query-api.R | 177 ++- R/60-interval_index-query-engine.R | 274 +++++ R/60-interval_index-query-specs.R | 109 +- R/70-plotting.R | 4 README.md | 18 inst/CITATION | 2 inst/doc/benchmarks.R | 417 +++++--- inst/doc/benchmarks.Rmd | 493 +++++----- inst/doc/benchmarks.html | 653 +++++++------ inst/doc/developer-api.R | 2 inst/doc/developer-api.Rmd | 2 inst/doc/developer-api.html | 4 inst/doc/index.Rmd | 2 inst/doc/index.html | 4 inst/doc/interval-indices.Rmd | 2 inst/doc/interval-indices.html | 5 inst/extdata/benchmarks-ivx.rds |only inst/extdata/benchmarks-ordered.rds |only inst/extdata/benchmarks-pq.rds |only inst/extdata/benchmarks-sequence.rds |only inst/extdata/benchmarks.rds |binary man/Immutables-package.Rd | 6 man/insert.Rd | 6 man/peek_all_containing.Rd | 17 man/peek_all_overlaps.Rd | 17 man/peek_all_point.Rd | 18 man/peek_all_within.Rd | 17 man/pop_containing.Rd | 4 man/pop_overlaps.Rd | 4 man/pop_point.Rd | 4 man/pop_within.Rd | 4 man/split_at.Rd | 8 src/ft_cpp.cpp | 676 ++++++++++++++ src/init.c | 4 tests/testthat/helper-ivx.R |only tests/testthat/test-cpp-parity.R | 1 tests/testthat/test-interval-index-as-list.R |only tests/testthat/test-interval-index-end-measure-fastpath.R |only tests/testthat/test-interval-index-native-peek.R |only tests/testthat/test-interval-index-native-pop.R |only tests/testthat/test-interval-index-nonnumeric-native.R |only tests/testthat/test-plot.R | 3 tests/testthat/test-tree-from-ordered-bulk.R |only vignettes/benchmarks.Rmd | 493 +++++----- vignettes/developer-api.Rmd | 2 vignettes/index.Rmd | 2 vignettes/inst |only vignettes/interval-indices.Rmd | 2 64 files changed, 2776 insertions(+), 1238 deletions(-)
Title: Discrete Bayesian Additive Regression Trees Sampler
Description: Fits Bayesian additive regression trees (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) while allowing the updating of predictors or response so that BART can be incorporated as a conditional model in a Gibbs/Metropolis-Hastings sampler. Also serves as a drop-in replacement for package 'BayesTree'.
Author: Vincent Dorie [aut, cre] ,
Hugh Chipman [aut],
Robert McCulloch [aut],
Armon Dadgar [ctb] ,
R Core Team [ctb] ,
Guido U Draheim [ctb] ,
Maarten Bosmans [ctb] ,
Christophe Tournayre [ctb] ,
Michael Petch [ctb] ,
Rafael de Lucena Valle [ctb] ,
Steven G [...truncated...]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between dbarts versions 0.9-33 dated 2026-03-20 and 0.9-34 dated 2026-08-21
DESCRIPTION | 10 MD5 | 66 NAMESPACE | 1 R/A_class.R | 19 R/dbarts.R | 960 +- R/updatePredictorPerObservationJointly.R |only build/vignette.rds |binary configure.ac | 2 inst/NEWS.Rd | 57 inst/doc/gibbs_sampler_mixture_model.pdf |binary inst/doc/working_with_saved_trees.R | 5 inst/doc/working_with_saved_trees.Rmd | 12 inst/doc/working_with_saved_trees.pdf |binary inst/include/dbarts/R_C_interface.hpp | 408 - inst/include/dbarts/bartFit.hpp | 269 inst/tinytest/test-sampler-predictors.R | 36 inst/tinytest/test-sampler-setPredictorPerObservation.R |only inst/tinytest/test-sampler-trees.R | 139 inst/tinytest/test-sampler-updatePredictorPerObservationJointly.R |only man/bart.Rd | 4 man/dbartsSampler-class.Rd | 64 man/updatePredictorPerObservationJointly.Rd |only src/R_C_interface.cpp | 730 + src/R_interface.cpp | 772 + src/R_interface_common.cpp | 160 src/R_interface_crossvalidate.cpp | 24 src/R_interface_rbart.cpp | 6 src/R_interface_sampler.cpp | 2377 +++--- src/R_interface_sampler.hpp | 95 src/dbarts/bartFit.cpp | 3888 ++++++---- src/dbarts/binaryIO.cpp | 4 src/external/random.c | 271 src/external/randomBase.c | 46 src/include/external/random.h | 141 src/makeModelMatrixFromDataFrame.c | 8 vignettes/working_with_saved_trees.Rmd | 12 36 files changed, 6990 insertions(+), 3596 deletions(-)
Title: From Biological Sequences to Multidimensional Scaling
Description: Utilities dedicated to the analysis of
biological sequences by metric MultiDimensional Scaling with
projection of supplementary data. It contains functions for
reading multiple sequence alignment files, calculating distance
matrices, performing metric multidimensional scaling and
visualizing results.
Author: Julien Pele [aut],
Jean-Michel Becu [aut],
Rym Ben Boubaker [ctb],
Herve Abdi [ctb],
Marie Chabbert [cre]
Maintainer: Marie Chabbert <marie.chabbert@univ-angers.fr>
Diff between bios2mds versions 1.2.3 dated 2020-04-07 and 1.2.4 dated 2026-08-21
DESCRIPTION | 31 +++++++++++++++++++++++++------ MD5 | 20 ++++++++++---------- R/mmds.2D.multi.R | 4 ++-- man/bios2mds-package.Rd | 27 ++++++++++++++------------- man/export.fasta.Rd | 2 +- man/gpcr.Rd | 2 +- man/import.fasta.Rd | 2 +- man/mmds.2D.multi.Rd | 9 ++++++++- man/mmds.2D.plot.Rd | 2 +- man/sub.mat.Rd | 2 +- man/write.mmds.pdb.Rd | 2 +- 11 files changed, 65 insertions(+), 38 deletions(-)
Title: Query the USDA NWCC Air and Water Database REST API
Description: Query the four endpoints of the 'Air and Water Database (AWDB) REST
API' maintained by the National Water and Climate Center (NWCC) at the
United States Department of Agriculture (USDA). Endpoints include data,
forecast, reference-data, and metadata. The package is extremely light
weight, with 'Rust' via 'extendr' doing most of the heavy lifting to
deserialize and flatten deeply nested 'JSON' responses. The AWDB can be
found at <https://wcc.sc.egov.usda.gov/awdbRestApi/swagger-ui/index.html>.
Author: Kenneth Blake Vernon [aut, cre, cph]
Maintainer: Kenneth Blake Vernon <kenneth.b.vernon@gmail.com>
Diff between awdb versions 0.1.3 dated 2025-08-23 and 0.1.4 dated 2026-08-21
DESCRIPTION | 10 MD5 | 45 ++- NEWS.md | 7 R/extendr-wrappers.R | 6 R/get-stations.R | 9 R/set-options.R | 22 - R/utils.R | 45 +-- README.md | 34 +-- cleanup |only cleanup.win |only configure | 2 configure.win | 4 man/awdb.Rd | 5 man/figures/README-stations-1.svg | 84 +++---- src/Makevars.in | 29 +- src/Makevars.win.in | 37 ++- src/entrypoint.c | 2 src/rust/Cargo.lock | 429 ++++++++++++++++++++------------------ src/rust/Cargo.toml | 14 - src/rust/document.c |only src/rust/src/lib.rs | 5 src/rust/vendor-config.toml | 4 src/rust/vendor.tar.xz |binary tools/config.R | 22 + tools/msrv.R | 232 ++++++++++---------- 25 files changed, 556 insertions(+), 491 deletions(-)
Title: Simulate and Diagnose (Generalized) Linear Models
Description: Simulate samples from populations with known covariate
distributions, generate response variables according to common linear and
generalized linear model families, draw from sampling distributions of
regression estimates, and perform visual inference on diagnostics from model
fits.
Author: Alex Reinhart [aut, cre]
Maintainer: Alex Reinhart <areinhar@stat.cmu.edu>
Diff between regressinator versions 0.3.0 dated 2025-08-20 and 0.3.1 dated 2026-08-21
DESCRIPTION | 10 +- MD5 | 36 +++---- NEWS.md | 18 +++ R/population.R | 14 ++- R/residuals.R | 91 +++++++++++++++++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 5 - inst/doc/linear-regression-diagnostics.html | 65 +++++++------- inst/doc/logistic-regression-diagnostics.html | 21 ++-- inst/doc/other-glm-diagnostics.html | 42 ++++----- inst/doc/regressinator.html | 119 +++++++++++++------------- man/augment_longer.Rd | 10 +- man/augment_quantile.Rd | 2 man/binned_residuals.Rd | 15 +++ man/empirical_link.Rd | 21 ++++ man/partial_residuals.Rd | 9 + man/regressinator-package.Rd | 5 + tests/testthat/test-residuals.R | 84 +++++++++++++++++- 19 files changed, 400 insertions(+), 167 deletions(-)
Title: Estimate Step Counts from 'Accelerometry' Data
Description: Interfaces the 'stepcount' Python
module <https://github.com/OxWearables/stepcount> to estimate
step counts and other activities from 'accelerometry' data.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between stepcount versions 0.5.0 dated 2026-06-08 and 0.6.0 dated 2026-08-21
DESCRIPTION | 13 +++++++------ MD5 | 22 +++++++++++++--------- NAMESPACE | 2 ++ NEWS.md | 5 +++++ R/install_stepcount.R | 3 ++- R/py_require_stepcount.R |only R/py_stepcount.R |only R/sc_read.R | 3 ++- R/stepcount.R | 24 +++++++++++++----------- R/zzz.R | 2 +- man/py_require_stepcount.Rd |only man/py_stepcount.Rd |only man/stepcount.Rd | 16 ++++++++-------- tests/testthat/test-stepcount.R | 8 +++++--- 14 files changed, 58 insertions(+), 40 deletions(-)
Title: 'Schwab API' Interface
Description: Use R to interface with the 'Charles Schwab Trade API' <https://developer.schwab.com/>.
Functions include authentication, trading, price requests, account information, and option
chains. A user will need a Schwab brokerage account and Schwab Individual Developer app. See README
for authentication process and examples.
Author: Anthony Trevisan [aut, cre]
Maintainer: Anthony Trevisan <anthonytrevisan@gmail.com>
Diff between schwabr versions 0.1.4 dated 2025-11-03 and 0.1.5 dated 2026-08-21
DESCRIPTION | 10 ++++-- MD5 | 14 ++++----- NEWS.md | 6 +++- R/other.R | 2 - R/pricing.R | 69 ++++++++++++++++++++++++++++++++++------------- R/utils.R | 17 ++++++++++- README.md | 2 - man/schwab_priceQuote.Rd | 4 ++ 8 files changed, 89 insertions(+), 35 deletions(-)
Title: Computation of Risk-Based Portfolios
Description: Collection of functions designed to compute risk-based portfolios as described
in Ardia et al. (2017) <doi:10.1007/s10479-017-2474-7> and Ardia et al. (2017) <doi:10.21105/joss.00171>.
Author: David Ardia [aut, cre, cph, fnd] ,
Kris Boudt [aut],
Jean-Philippe Gagnon-Fleury [aut]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between RiskPortfolios versions 2.1.7 dated 2021-05-16 and 2.1.8 dated 2026-08-21
DESCRIPTION | 19 - MD5 | 34 +- NAMESPACE | 17 - NEWS | 116 +++++++ R/RiskPortfolios.R | 9 R/covEstimation.R | 272 +++++++--------- R/meanEstimation.R | 58 ++- R/optimalPortfolio.R | 654 ++++++++++++++++++++++++---------------- R/semidevEstimation.R | 44 +- R/utils.R |only build/partial.rdb |binary inst/CITATION | 71 ++-- man/RiskPortfolios.Rd | 13 man/covEstimation.Rd | 54 ++- man/meanEstimation.Rd | 14 man/optimalPortfolio.Rd | 143 ++++++-- man/semidevEstimation.Rd | 12 tests/testthat/test_portfolio.R | 2 tests/testthat/test_values.R |only 19 files changed, 959 insertions(+), 573 deletions(-)
More information about RiskPortfolios at CRAN
Permanent link
More information about grayleafspotdata at CRAN
Permanent link
Title: 'DataSHIELD' RO-Crate Governance Functions
Description: Tools for wrapping 'DataSHIELD' analyses into RO-Crate
(Research Object Crate) objects. Provides functions to create structured
metadata for federated data analysis projects, enabling governance
tracking of data access, project membership, analysis execution and
output validation across distributed data sources.
Author: Roberto Villegas-Diaz [aut, cre] ,
Becca Wilson [aut] ,
Olly Butters [aut] ,
Stuart Wheater [aut] ,
University of Liverpool [cph]
Maintainer: Roberto Villegas-Diaz <r.villegas-diaz@outlook.com>
Diff between dsROCrate versions 0.2.1 dated 2026-07-30 and 0.2.2 dated 2026-08-21
DESCRIPTION | 6 MD5 | 20 +- NEWS.md | 9 + R/audit.R | 15 +- R/audit_engine.R | 29 +++- R/backend-opal.R | 4 R/safe_output.R | 30 +--- R/safe_setting.R | 2 R/utils-safe_output.R | 50 +++++++ inst/doc/getting-started.html | 295 +++++++++++++++++------------------------- man/audit.Rd | 15 +- 11 files changed, 253 insertions(+), 222 deletions(-)
Title: Synthetic Data Doubles for Safer Prototyping
Description: Creates synthetic data doubles from real datasets for prototyping,
teaching, 'shiny' development, and AI-assisted programming. Provides data
profiling, role detection, configurable synthesis, utility comparison, and
disclosure-risk warnings. Synthetic outputs are intended to reduce direct
disclosure risk, not to guarantee privacy.
Author: Lennon Li [aut, cre, cph]
Maintainer: Lennon Li <yeli@biostats.ai>
Diff between dataganger versions 0.6.1 dated 2026-07-21 and 0.8.0 dated 2026-08-21
DESCRIPTION | 17 MD5 | 181 +- NEWS.md | 251 +++ R/cli.R | 42 R/code-readiness.R | 2 R/compare-synthetic.R | 15 R/detect-roles.R | 149 +- R/disclosure-helpers.R | 274 +++- R/disclosure-risk.R | 9 R/enforce-kanon.R | 56 R/ensure-levels.R |only R/export-diagnostic.R | 4 R/export-synthetic.R | 90 + R/flatten-character.R |only R/make-agent-bundle.R | 2 R/mod-column-filter.R |only R/mod-compare.R | 79 - R/mod-data-panel.R | 188 ++ R/mod-export.R | 227 ++- R/mod-generate.R | 165 +- R/mod-roles.R | 864 ++++++++++-- R/mod-state.R | 16 R/mod-synthesis-controls.R | 499 +++++-- R/mod-upload.R | 37 R/postal-formats.R |only R/privacy-check.R | 184 ++ R/read-input.R | 33 R/suggest-min-rows.R | 6 R/synth-helpers.R | 484 ++++++- R/synth-postal.R |only R/synth-spec.R | 44 R/synthesize-data.R | 57 R/synthesize-marginal.R | 106 + R/synthesize-synthpop.R | 106 + README.md | 52 build/vignette.rds |binary inst/WORDLIST | 16 inst/app/app.R | 282 ++-- inst/app/www/_alignment.css | 146 +- inst/app/www/colors_and_type.css | 2 inst/app/www/shiny-app.css | 10 inst/doc/privacy-and-ai-workflow.R | 241 +-- inst/doc/privacy-and-ai-workflow.Rmd | 56 inst/doc/privacy-and-ai-workflow.html | 1708 ++++++++++++------------- man/detect_roles.Rd | 5 man/enforce_kanon.Rd | 10 man/export_synthetic.Rd | 7 man/figures/hero.gif |binary man/figures/step-3-configure.png |binary man/figures/step-5-compare.png |binary man/read_input.Rd | 7 man/suggest_min_rows.Rd | 2 man/synth_spec.Rd | 10 man/synthesize_data.Rd | 3 tests/testthat/helper-cli.R | 22 tests/testthat/helper-column-filter.R |only tests/testthat/helper-synthpop.R | 2 tests/testthat/setup-synthpop.R | 2 tests/testthat/test-app-css.R | 57 tests/testthat/test-app-gate.R | 47 tests/testthat/test-cli-execution.R | 52 tests/testthat/test-cli-parser.R | 41 tests/testthat/test-cli-roles-roundtrip.R | 23 tests/testthat/test-cli.R |only tests/testthat/test-code-readiness.R | 4 tests/testthat/test-detect-roles.R | 203 ++ tests/testthat/test-diagnostic-view.R | 6 tests/testthat/test-disclosure-helpers.R | 48 tests/testthat/test-disclosure-risk.R | 52 tests/testthat/test-enforce-kanon.R | 99 + tests/testthat/test-ensure-levels.R |only tests/testthat/test-exact-match-flags.R |only tests/testthat/test-export-diagnostic.R | 4 tests/testthat/test-export-synthetic.R | 93 + tests/testthat/test-kanon-escape-routes.R | 4 tests/testthat/test-level-invariant.R |only tests/testthat/test-mod-column-filter.R |only tests/testthat/test-mod-compare.R | 82 + tests/testthat/test-mod-data-panel.R | 158 ++ tests/testthat/test-mod-export.R | 390 ++++- tests/testthat/test-mod-generate.R | 129 + tests/testthat/test-mod-profile.R | 2 tests/testthat/test-mod-roles.R | 709 ++++++++++ tests/testthat/test-mod-synthesis-controls.R | 549 ++++++++ tests/testthat/test-mod-upload.R | 22 tests/testthat/test-postal-formats.R |only tests/testthat/test-privacy-check.R | 52 tests/testthat/test-profile-data.R | 2 tests/testthat/test-read-input.R | 16 tests/testthat/test-relationship-interaction.R | 31 tests/testthat/test-role-override-disclosure.R |only tests/testthat/test-run-app.R | 2 tests/testthat/test-synth-categorical.R |only tests/testthat/test-synth-postal.R |only tests/testthat/test-synth-spec.R | 37 tests/testthat/test-synthesize-data.R | 324 ++++ tests/testthat/test-synthesize-synthpop.R | 73 + tests/testthat/test-synthpop-fidelity.R | 10 vignettes/privacy-and-ai-workflow.Rmd | 56 99 files changed, 8200 insertions(+), 1947 deletions(-)
Title: Bayesian Estimation of the GARCH(1,1) Model with Student-t
Innovations
Description: Provides the bayesGARCH() function which performs the
Bayesian estimation of the GARCH(1,1) model with Student's t innovations as described in Ardia (2008) <doi:10.1007/978-3-540-78657-3>.
Author: David Ardia [aut, cre, cph, fnd]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between bayesGARCH versions 2.1.10 dated 2021-05-16 and 2.2.0 dated 2026-08-21
DESCRIPTION | 22 +- MD5 | 27 +-- NAMESPACE | 1 NEWS | 167 ++++++++++++++++++ R/functions.R | 32 ++- R/sampler.R | 434 ++++++++++++++++++++++++++++++++++++++----------- build/partial.rdb |binary inst/CITATION | 12 - man/bayesGARCH.Rd | 97 +++++++++- man/formSmpl.Rd | 10 - src/fnGarchC.c | 41 ---- src/packagename_init.c | 4 tests |only 13 files changed, 657 insertions(+), 190 deletions(-)
Title: Adaptive Mixture of Student-t Distributions
Description: Provides functions to perform the fitting of an adaptive mixture
of Student-t distributions to a target density through its kernel function as described in
Ardia et al. (2009) <doi:10.18637/jss.v029.i03>. The
mixture approximation can then be used as the importance density in importance
sampling or as the candidate density in the Metropolis-Hastings algorithm to
obtain quantities of interest for the target density itself.
Author: David Ardia [aut, cre, cph, fnd] ,
Lennart Hoogerheide [ctb],
Herman van Dijk [ctb]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between AdMit versions 2.1.9 dated 2022-02-07 and 2.1.12 dated 2026-08-21
AdMit-2.1.12/AdMit/DESCRIPTION | 32 +++-- AdMit-2.1.12/AdMit/MD5 | 60 ++++++----- AdMit-2.1.12/AdMit/NAMESPACE | 4 AdMit-2.1.12/AdMit/NEWS | 136 +++++++++++++++++++++++++ AdMit-2.1.12/AdMit/R/AdMit.R | 39 +++++-- AdMit-2.1.12/AdMit/R/AdMitIS.R | 47 ++++++-- AdMit-2.1.12/AdMit/R/AdMitMH.R | 7 + AdMit-2.1.12/AdMit/R/dMit.R | 38 ++++-- AdMit-2.1.12/AdMit/R/fn.CV.R | 9 + AdMit-2.1.12/AdMit/R/fn.check.R |only AdMit-2.1.12/AdMit/R/fn.isSingular.R | 2 AdMit-2.1.12/AdMit/R/fn.lnfgrad.R |only AdMit-2.1.12/AdMit/R/fn.optimp.R | 74 +++---------- AdMit-2.1.12/AdMit/R/fn.w.R | 4 AdMit-2.1.12/AdMit/R/fn.wIS.R | 7 - AdMit-2.1.12/AdMit/R/rMit.R | 19 +-- AdMit-2.1.12/AdMit/build/partial.rdb |binary AdMit-2.1.12/AdMit/demo/AdMit.R | 8 - AdMit-2.1.12/AdMit/inst/CITATION | 64 ++++------- AdMit-2.1.12/AdMit/man/AdMit.Rd | 11 +- AdMit-2.1.12/AdMit/man/AdMitIS.Rd | 42 ++++++- AdMit-2.1.12/AdMit/man/AdMitMH.Rd | 13 +- AdMit-2.1.12/AdMit/man/Mit.Rd | 17 +-- AdMit-2.1.12/AdMit/src/AdMit_init.c |only AdMit-2.1.12/AdMit/src/fnKernelMixtureArch_C.c | 15 ++ AdMit-2.1.12/AdMit/src/fnMH_C.c | 5 AdMit-2.1.12/AdMit/src/fnlnf_C.c | 49 +++++---- AdMit-2.1.12/AdMit/tests |only AdMit-2.1.9/AdMit/R/fn.wRes.R |only AdMit-2.1.9/AdMit/src/packagename_init.c |only 30 files changed, 456 insertions(+), 246 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-08-21 0.1.2
2026-08-07 0.1.1
Title: Export Data Frames to Excel 'xlsx' Format
Description: Zero-dependency data frame to xlsx exporter based on 'libxlsxwriter'
<https://libxlsxwriter.github.io>. Fast and no Java or Excel required.
Author: Jeroen Ooms [aut] ,
Bill Denney [aut, cre] ,
John McNamara [cph] )
Maintainer: Bill Denney <wdenney@humanpredictions.com>
Diff between writexl versions 2.0.0 dated 2026-08-05 and 2.0.1 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 11 +++++++++++ src/libxlsxwriter/src/worksheet.c | 11 ++++------- 4 files changed, 22 insertions(+), 14 deletions(-)
Title: Transformation Discriminant Analysis
Description: Performs transformation discrimination analysis and non-transformation discrimination analysis. It also includes functions for Linear Discriminant Analysis, Quadratic Discriminant Analysis, and Mixture Discriminant Analysis. In the context of mixture discriminant analysis, it offers options for both common covariance matrix (common sigma) and individual covariance matrices (uncommon sigma) for the mixture components.
Author: Jing Li [aut, cre],
Yana Melnykov [aut]
Maintainer: Jing Li <jli178@crimson.ua.edu>
Diff between transDA versions 1.0.2 dated 2025-09-04 and 1.0.3 dated 2026-08-21
DESCRIPTION | 8 +- MD5 | 14 ++-- R/predict.tda.R | 10 +++ R/print.summary.tda.R | 34 ++++++++++- R/print.tda.R | 27 +++++++- R/summary.tda.R | 24 ++++++- R/tda.R | 154 +++++++++++++++++++++++++++++--------------------- man/tda.Rd | 32 ++++++---- 8 files changed, 207 insertions(+), 96 deletions(-)
Title: Survival Analysis
Description: Contains the core survival analysis routines, including
definition of Surv objects,
Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models,
and parametric accelerated failure time models.
Author: Terry M Therneau [aut, cre],
Thomas Lumley [ctb, trl] ,
Atkinson Elizabeth [ctb],
Crowson Cynthia [ctb]
Maintainer: Terry M Therneau <terry.therneau@proton.me>
Diff between survival versions 3.8-9 dated 2026-07-08 and 3.8-11 dated 2026-08-21
survival-3.8-11/survival/DESCRIPTION | 8 survival-3.8-11/survival/MD5 | 230 +-- survival-3.8-11/survival/NAMESPACE | 2 survival-3.8-11/survival/R/Surv2.R | 4 survival-3.8-11/survival/R/aggregate.survfit.R | 2 survival-3.8-11/survival/R/attrassign.R | 69 survival-3.8-11/survival/R/cox.zph.R | 36 survival-3.8-11/survival/R/coxph.R | 168 +- survival-3.8-11/survival/R/coxph.getdata.R | 37 survival-3.8-11/survival/R/model.matrix.coxph.R | 3 survival-3.8-11/survival/R/multimiss.R | 6 survival-3.8-11/survival/R/parsecovar.R | 16 survival-3.8-11/survival/R/plot.survfit.R | 13 survival-3.8-11/survival/R/predict.coxphms.R | 10 survival-3.8-11/survival/R/print.coxph.R | 26 survival-3.8-11/survival/R/residuals.coxph.R | 2 survival-3.8-11/survival/R/residuals.coxphms.R | 15 survival-3.8-11/survival/R/stacker.R | 140 - survival-3.8-11/survival/R/summary.survfit.R | 2 survival-3.8-11/survival/R/summary.survfitms.R | 1 survival-3.8-11/survival/R/survSplit.R | 1 survival-3.8-11/survival/R/survfit.coxphms.R | 702 ++++------ survival-3.8-11/survival/build/vignette.rds |binary survival-3.8-11/survival/data/nafld.rda |binary survival-3.8-11/survival/inst/NEWS.Rd | 27 survival-3.8-11/survival/inst/doc/adjcurve.pdf |binary survival-3.8-11/survival/inst/doc/approximate.pdf |binary survival-3.8-11/survival/inst/doc/compete.pdf |binary survival-3.8-11/survival/inst/doc/concordance.pdf |binary survival-3.8-11/survival/inst/doc/matrix.pdf |binary survival-3.8-11/survival/inst/doc/methods.R | 89 + survival-3.8-11/survival/inst/doc/methods.Rnw | 305 ++++ survival-3.8-11/survival/inst/doc/methods.pdf |binary survival-3.8-11/survival/inst/doc/modelframe.pdf |binary survival-3.8-11/survival/inst/doc/multi.pdf |binary survival-3.8-11/survival/inst/doc/other.pdf |binary survival-3.8-11/survival/inst/doc/population.Rnw | 8 survival-3.8-11/survival/inst/doc/population.pdf |binary survival-3.8-11/survival/inst/doc/redistribute.pdf |binary survival-3.8-11/survival/inst/doc/splines.pdf |binary survival-3.8-11/survival/inst/doc/survival.R | 117 - survival-3.8-11/survival/inst/doc/survival.Rnw | 155 -- survival-3.8-11/survival/inst/doc/survival.pdf |binary survival-3.8-11/survival/inst/doc/tiedtimes.pdf |binary survival-3.8-11/survival/inst/doc/timeline.R | 34 survival-3.8-11/survival/inst/doc/timeline.Rnw | 39 survival-3.8-11/survival/inst/doc/timeline.pdf |binary survival-3.8-11/survival/inst/doc/validate.pdf |binary survival-3.8-11/survival/man/Surv.Rd | 9 survival-3.8-11/survival/man/aml.Rd | 7 survival-3.8-11/survival/man/attrassign.Rd | 15 survival-3.8-11/survival/man/bladder.Rd | 7 survival-3.8-11/survival/man/cgd.Rd | 12 survival-3.8-11/survival/man/cgd0.Rd | 14 survival-3.8-11/survival/man/colon.Rd | 6 survival-3.8-11/survival/man/coxph.object.Rd | 53 survival-3.8-11/survival/man/coxphms.object.Rd | 14 survival-3.8-11/survival/man/diabetic.Rd | 9 survival-3.8-11/survival/man/flchain.Rd | 8 survival-3.8-11/survival/man/gbsg.Rd | 8 survival-3.8-11/survival/man/heart.Rd | 6 survival-3.8-11/survival/man/hoel.Rd | 7 survival-3.8-11/survival/man/kidney.Rd | 8 survival-3.8-11/survival/man/logan.Rd | 1 survival-3.8-11/survival/man/lung.Rd | 16 survival-3.8-11/survival/man/mgus.Rd | 7 survival-3.8-11/survival/man/mgus2.Rd | 7 survival-3.8-11/survival/man/myeloid.Rd | 9 survival-3.8-11/survival/man/myeloma.Rd | 8 survival-3.8-11/survival/man/nafld.Rd | 10 survival-3.8-11/survival/man/nwtco.Rd | 7 survival-3.8-11/survival/man/ovarian.Rd | 29 survival-3.8-11/survival/man/pbc.Rd | 7 survival-3.8-11/survival/man/pbcseq.Rd | 7 survival-3.8-11/survival/man/rats.Rd | 7 survival-3.8-11/survival/man/rats2.Rd | 7 survival-3.8-11/survival/man/reliability.Rd | 16 survival-3.8-11/survival/man/retinopathy.Rd | 1 survival-3.8-11/survival/man/rhDNase.Rd | 7 survival-3.8-11/survival/man/rotterdam.Rd | 7 survival-3.8-11/survival/man/solder.Rd | 7 survival-3.8-11/survival/man/stanford2.Rd | 7 survival-3.8-11/survival/man/survexp.object.Rd | 22 survival-3.8-11/survival/man/survexp.us.Rd | 12 survival-3.8-11/survival/man/survfit.object.Rd | 56 survival-3.8-11/survival/man/tobin.Rd | 7 survival-3.8-11/survival/man/transplant.Rd | 7 survival-3.8-11/survival/man/udca.Rd | 8 survival-3.8-11/survival/man/uspop2.Rd | 8 survival-3.8-11/survival/man/veteran.Rd | 7 survival-3.8-11/survival/noweb/Makefile | 6 survival-3.8-11/survival/noweb/code.nw | 18 survival-3.8-11/survival/noweb/parse.Rnw | 25 survival-3.8-11/survival/noweb/zph.Rnw | 18 survival-3.8-11/survival/src/coxsurv1.c | 7 survival-3.8-11/survival/src/coxsurv2.c | 18 survival-3.8-11/survival/tests/Examples/survival-Ex.Rout.save | 11 survival-3.8-11/survival/tests/checkSurv2.R | 3 survival-3.8-11/survival/tests/checkSurv2.Rout.save | 7 survival-3.8-11/survival/tests/coxsurv6.R | 36 survival-3.8-11/survival/tests/coxsurv6.Rout.save | 65 survival-3.8-11/survival/tests/mstrata.R | 9 survival-3.8-11/survival/tests/mstrata.Rout.save | 28 survival-3.8-11/survival/tests/multi2.R | 6 survival-3.8-11/survival/tests/multi2.Rout.save | 14 survival-3.8-11/survival/tests/zph.R | 4 survival-3.8-11/survival/tests/zph.Rout.save | 12 survival-3.8-11/survival/vignettes/methods.Rnw | 305 ++++ survival-3.8-11/survival/vignettes/population.Rnw | 8 survival-3.8-11/survival/vignettes/refer.bib | 27 survival-3.8-11/survival/vignettes/survival.Rnw | 155 -- survival-3.8-11/survival/vignettes/test |only survival-3.8-11/survival/vignettes/timeline.Rnw | 39 survival-3.8-9/survival/inst/doc/timedep.R |only survival-3.8-9/survival/inst/doc/timedep.Rnw |only survival-3.8-9/survival/inst/doc/timedep.pdf |only survival-3.8-9/survival/vignettes/timedep.Rnw |only 117 files changed, 2205 insertions(+), 1360 deletions(-)
Title: Tidy Dataframes and Expressions with Statistical Details
Description: Utilities for producing dataframes with rich details for the
most common types of statistical approaches and tests: parametric,
nonparametric, robust, and Bayesian t-test, one-way ANOVA, correlation
analyses, contingency table analyses, and meta-analyses. The functions
are pipe-friendly and provide a consistent syntax to work with tidy
data. These dataframes additionally contain expressions with
statistical details, and can be used in graphing packages. This
package also forms the statistical processing backend for
'ggstatsplot'. References: Patil (2021) <doi:10.21105/joss.03236>.
Author: Indrajeet Patil [cre, aut, cph]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between statsExpressions versions 2.0.0 dated 2026-04-23 and 2.1.0 dated 2026-08-21
DESCRIPTION | 22 ++++++------ MD5 | 40 ++++++++++++----------- NAMESPACE | 4 +- NEWS.md | 5 ++ R/centrality-description.R | 37 ++++++++++++--------- R/globals.R | 2 + R/helpers-easystats.R | 4 +- R/pairwise-comparisons.R | 29 ++++++++-------- R/pairwise-contingency-table.R | 5 +- R/statsExpressions-package.R | 3 - README.md | 14 ++------ build/vignette.rds |binary man/meta_analysis.Rd | 2 - man/statsExpressions-package.Rd | 5 ++ tests/testthat/_snaps/long-to-wide-converter.md | 6 +-- tests/testthat/_snaps/r-4.7 |only tests/testthat/helper-one-sample.R |only tests/testthat/test-centrality-description.R | 32 ++++++++++++++++++ tests/testthat/test-long-to-wide-converter.R | 8 +++- tests/testthat/test-one-sample.R | 39 ---------------------- tests/testthat/test-pairwise-contingency-table.R | 4 +- tests/testthat/test-two-sample-nonparametric.R | 5 +- 22 files changed, 140 insertions(+), 126 deletions(-)
More information about statsExpressions at CRAN
Permanent link
Title: Utilities and Data Sets for Data Visualization
Description: Supporting materials for a course and book on data visualization. It contains utility functions for graphs and several sample data sets. See Healy (2019) <ISBN 978-0691181622>.
Author: Kieran Healy [aut, cre, cph]
Maintainer: Kieran Healy <kjhealy@gmail.com>
Diff between socviz versions 1.2 dated 2020-06-10 and 2.0.0 dated 2026-08-21
socviz-1.2/socviz/data/bad_date.rda |only socviz-1.2/socviz/data/boomer.rda |only socviz-1.2/socviz/data/gss_sib.rda |only socviz-1.2/socviz/data/preg.rda |only socviz-1.2/socviz/data/preg2.rda |only socviz-1.2/socviz/inst/assets/dv-cover-pupress.jpg |only socviz-1.2/socviz/inst/resources |only socviz-1.2/socviz/inst/rmarkdown |only socviz-1.2/socviz/man/bad_date.Rd |only socviz-1.2/socviz/man/boomer.Rd |only socviz-1.2/socviz/man/freq_tab.Rd |only socviz-1.2/socviz/man/gss_sib.Rd |only socviz-1.2/socviz/man/lay_out.Rd |only socviz-1.2/socviz/man/preg.Rd |only socviz-1.2/socviz/man/preg2.Rd |only socviz-1.2/socviz/man/setup_course_notes.Rd |only socviz-2.0.0/socviz/DESCRIPTION | 24 socviz-2.0.0/socviz/LICENSE | 4 socviz-2.0.0/socviz/MD5 | 120 ++-- socviz-2.0.0/socviz/NAMESPACE | 6 socviz-2.0.0/socviz/NEWS.md |only socviz-2.0.0/socviz/R/data.r | 558 +++++++++++---------- socviz-2.0.0/socviz/R/theme_functions.R |only socviz-2.0.0/socviz/R/utility_functions.r | 278 +++------- socviz-2.0.0/socviz/README.md | 88 +-- socviz-2.0.0/socviz/data/acs_poverty.rda |only socviz-2.0.0/socviz/data/acs_poverty_lon.rda |only socviz-2.0.0/socviz/data/asasec.rda |binary socviz-2.0.0/socviz/data/color_table.rda |binary socviz-2.0.0/socviz/data/counties_sf.rda |only socviz-2.0.0/socviz/data/county_comp.rda |only socviz-2.0.0/socviz/data/county_data.rda |binary socviz-2.0.0/socviz/data/county_map.rda |binary socviz-2.0.0/socviz/data/datalist | 5 socviz-2.0.0/socviz/data/edu.rda |binary socviz-2.0.0/socviz/data/election.rda |binary socviz-2.0.0/socviz/data/election24.rda |only socviz-2.0.0/socviz/data/election24_county_df.rda |only socviz-2.0.0/socviz/data/elections_historic.rda |binary socviz-2.0.0/socviz/data/farsinvolved.rda |only socviz-2.0.0/socviz/data/fredts.rda |binary socviz-2.0.0/socviz/data/gss_lon.rda |binary socviz-2.0.0/socviz/data/gss_sm.rda |binary socviz-2.0.0/socviz/data/lawschools.rda |binary socviz-2.0.0/socviz/data/maunaloa.rda |binary socviz-2.0.0/socviz/data/oecd_le.rda |binary socviz-2.0.0/socviz/data/oecd_sum.rda |binary socviz-2.0.0/socviz/data/okboomer.rda |only socviz-2.0.0/socviz/data/opiates.rda |binary socviz-2.0.0/socviz/data/organdata.rda |binary socviz-2.0.0/socviz/data/states_sf.rda |only socviz-2.0.0/socviz/data/studebt.rda |binary socviz-2.0.0/socviz/data/titanic.rda |binary socviz-2.0.0/socviz/data/yahoo.rda |binary socviz-2.0.0/socviz/inst/CITATION | 24 socviz-2.0.0/socviz/inst/assets/dv-cover-2e.png |only socviz-2.0.0/socviz/man/acs_poverty.Rd |only socviz-2.0.0/socviz/man/acs_poverty_lon.Rd |only socviz-2.0.0/socviz/man/asasec.Rd | 26 socviz-2.0.0/socviz/man/counties_sf.Rd |only socviz-2.0.0/socviz/man/county_comp.Rd |only socviz-2.0.0/socviz/man/county_data.Rd | 47 - socviz-2.0.0/socviz/man/election.Rd | 12 socviz-2.0.0/socviz/man/election24.Rd |only socviz-2.0.0/socviz/man/election24_county_df.Rd |only socviz-2.0.0/socviz/man/elections_historic.Rd | 25 socviz-2.0.0/socviz/man/farsinvolved.Rd |only socviz-2.0.0/socviz/man/gss_lon.Rd | 52 - socviz-2.0.0/socviz/man/gss_sm.Rd | 2 socviz-2.0.0/socviz/man/int_to_year.Rd | 2 socviz-2.0.0/socviz/man/oecd_le.Rd | 4 socviz-2.0.0/socviz/man/oecd_sum.Rd | 4 socviz-2.0.0/socviz/man/okboomer.Rd |only socviz-2.0.0/socviz/man/opiates.Rd | 46 - socviz-2.0.0/socviz/man/organdata.Rd | 2 socviz-2.0.0/socviz/man/reexports.Rd | 2 socviz-2.0.0/socviz/man/states_sf.Rd |only socviz-2.0.0/socviz/man/studebt.Rd | 11 socviz-2.0.0/socviz/man/theme_socviz.Rd |only socviz-2.0.0/socviz/man/theme_socviz_map.Rd |only 80 files changed, 640 insertions(+), 702 deletions(-)
Title: Microsoft Fluent UI for Shiny Apps
Description: A rich set of UI components for building Shiny applications,
including inputs, containers, overlays, menus, and various utilities.
All components from Fluent UI (the underlying JavaScript library)
are available and have usage examples in R.
Author: Jakub Sobolewski [aut, cre],
Kamil Zyla [aut],
Marek Rogala [aut],
Appsilon Sp. z o.o. [cph]
Maintainer: Jakub Sobolewski <opensource+jakub.sobolewski@appsilon.com>
This is a re-admission after prior archival of version 0.4.0 dated 2024-05-21
Diff between shiny.fluent versions 0.4.0 dated 2024-05-21 and 0.4.1 dated 2026-08-21
shiny.fluent-0.4.0/shiny.fluent/inst/examples/dashboard/www/style.css |only shiny.fluent-0.4.0/shiny.fluent/inst/examples/demo/www/style.css |only shiny.fluent-0.4.1/shiny.fluent/DESCRIPTION | 14 - shiny.fluent-0.4.1/shiny.fluent/MD5 | 48 ++---- shiny.fluent-0.4.1/shiny.fluent/NEWS.md | 7 shiny.fluent-0.4.1/shiny.fluent/R/documentation.R | 36 ++-- shiny.fluent-0.4.1/shiny.fluent/README.md | 2 shiny.fluent-0.4.1/shiny.fluent/inst/examples/dashboard/app.R | 1 shiny.fluent-0.4.1/shiny.fluent/inst/examples/dashboard/header.R | 77 +++------- shiny.fluent-0.4.1/shiny.fluent/inst/examples/dashboard/manifest.json | 32 ---- shiny.fluent-0.4.1/shiny.fluent/inst/examples/dashboard/style.scss | 33 ++++ shiny.fluent-0.4.1/shiny.fluent/man/Announced.Rd | 8 - shiny.fluent-0.4.1/shiny.fluent/man/Button.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Checkbox.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/DetailsList.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Dialog.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Dropdown.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Icon.Rd | 4 shiny.fluent-0.4.1/shiny.fluent/man/Label.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Link.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/List.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Modal.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Panel.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/Rating.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/man/TextField.Rd | 2 shiny.fluent-0.4.1/shiny.fluent/tests/testthat/setup-disable-crashpad.R | 37 +++- 26 files changed, 164 insertions(+), 159 deletions(-)
Title: Tools for Joint Sentiment and Topic Analysis of Textual Data
Description: A framework that joins topic modeling and sentiment analysis of
textual data. The package implements a fast Gibbs sampling estimation of
Latent Dirichlet Allocation (Griffiths and Steyvers (2004)
<doi:10.1073/pnas.0307752101>) and Joint Sentiment/Topic Model (Lin, He,
Everson and Ruger (2012) <doi:10.1109/TKDE.2011.48>). It offers a variety of
helpers and visualizations to analyze the result of topic modeling. The
framework also allows enriching topic models with dates and externally
computed sentiment measures. A flexible aggregation scheme enables the
creation of time series of sentiment or topical proportions from the enriched
topic models. Moreover, a novel method jointly aggregates topic proportions
and sentiment measures to derive time series of topical sentiment.
Author: Olivier Delmarcelle [aut, cre] ,
Samuel Borms [ctb] ,
Chenghua Lin [cph] ,
Yulan He [cph] ,
Jose Bernardo [cph] ,
David Robinson [cph] ),
Julia Silge [cph] , ORCID:
<https://orcid.org/0000-0002-3671-836X>)
Maintainer: Olivier Delmarcelle <delmarcelle.olivier@gmail.com>
Diff between sentopics versions 0.7.7 dated 2026-07-29 and 1.0.0 dated 2026-08-21
sentopics-0.7.7/sentopics/man/chainsDistances.Rd |only sentopics-0.7.7/sentopics/man/chainsScores.Rd |only sentopics-0.7.7/sentopics/man/fit.sentopicmodel.Rd |only sentopics-0.7.7/sentopics/man/melt.Rd |only sentopics-0.7.7/sentopics/man/melt.sentopicmodel.Rd |only sentopics-0.7.7/sentopics/man/mergeTopics.Rd |only sentopics-0.7.7/sentopics/man/plot.multiChains.Rd |only sentopics-0.7.7/sentopics/man/plot.sentopicmodel.Rd |only sentopics-0.7.7/sentopics/man/print.sentopicmodel.Rd |only sentopics-0.7.7/sentopics/man/sentopicmodel.Rd |only sentopics-0.7.7/sentopics/man/topWords.Rd |only sentopics-1.0.0/sentopics/DESCRIPTION | 14 sentopics-1.0.0/sentopics/MD5 | 154 - sentopics-1.0.0/sentopics/NAMESPACE | 74 sentopics-1.0.0/sentopics/NEWS.md | 44 sentopics-1.0.0/sentopics/R/coherence.R | 166 - sentopics-1.0.0/sentopics/R/conversions.R | 739 +++-- sentopics-1.0.0/sentopics/R/functions.R | 548 ++-- sentopics-1.0.0/sentopics/R/generators.R | 227 + sentopics-1.0.0/sentopics/R/merging.R | 109 sentopics-1.0.0/sentopics/R/methods.R | 729 +++-- sentopics-1.0.0/sentopics/R/models.R | 246 + sentopics-1.0.0/sentopics/R/others.R | 347 +- sentopics-1.0.0/sentopics/R/sentopics.R | 9 sentopics-1.0.0/sentopics/R/timeSeries.R | 1342 ++++++---- sentopics-1.0.0/sentopics/R/utils.R | 841 ++++-- sentopics-1.0.0/sentopics/R/zzz.R | 15 sentopics-1.0.0/sentopics/README.md | 21 sentopics-1.0.0/sentopics/data/ECB_press_conferences.rda |binary sentopics-1.0.0/sentopics/data/ECB_press_conferences_tokens.rda |binary sentopics-1.0.0/sentopics/data/PicaultRenault_data.rda |binary sentopics-1.0.0/sentopics/inst/doc/Basic_usage.R | 7 sentopics-1.0.0/sentopics/inst/doc/Basic_usage.Rmd | 12 sentopics-1.0.0/sentopics/inst/doc/Basic_usage.html | 44 sentopics-1.0.0/sentopics/inst/doc/Topical_time_series.R | 7 sentopics-1.0.0/sentopics/inst/doc/Topical_time_series.Rmd | 13 sentopics-1.0.0/sentopics/inst/doc/Topical_time_series.html | 220 - sentopics-1.0.0/sentopics/man/ECB_press_conferences.Rd | 7 sentopics-1.0.0/sentopics/man/ECB_press_conferences_tokens.Rd | 2 sentopics-1.0.0/sentopics/man/JST.Rd | 13 sentopics-1.0.0/sentopics/man/LDA.Rd | 10 sentopics-1.0.0/sentopics/man/LDAvis.Rd | 5 sentopics-1.0.0/sentopics/man/as.LDA.Rd | 4 sentopics-1.0.0/sentopics/man/chains_distances.Rd |only sentopics-1.0.0/sentopics/man/chains_scores.Rd |only sentopics-1.0.0/sentopics/man/coherence.Rd | 14 sentopics-1.0.0/sentopics/man/fit.sentopicsmodel.Rd |only sentopics-1.0.0/sentopics/man/melt.sentopicsmodel.Rd |only sentopics-1.0.0/sentopics/man/merge_topics.Rd |only sentopics-1.0.0/sentopics/man/plot.multi_chains.Rd |only sentopics-1.0.0/sentopics/man/plot.sentopicsmodel.Rd |only sentopics-1.0.0/sentopics/man/print.sentopicsmodel.Rd |only sentopics-1.0.0/sentopics/man/rJST.Rd | 17 sentopics-1.0.0/sentopics/man/reexports.Rd | 3 sentopics-1.0.0/sentopics/man/reset.Rd | 2 sentopics-1.0.0/sentopics/man/sentiment_breakdown.Rd | 4 sentopics-1.0.0/sentopics/man/sentiment_series.Rd | 12 sentopics-1.0.0/sentopics/man/sentiment_topics.Rd | 4 sentopics-1.0.0/sentopics/man/sentopics-conversions.Rd | 4 sentopics-1.0.0/sentopics/man/sentopics-package.Rd | 2 sentopics-1.0.0/sentopics/man/sentopics_date.Rd | 8 sentopics-1.0.0/sentopics/man/sentopics_labels.Rd | 8 sentopics-1.0.0/sentopics/man/sentopics_sentiment.Rd | 30 sentopics-1.0.0/sentopics/man/sentopicsmodel.Rd |only sentopics-1.0.0/sentopics/man/top_words.Rd |only sentopics-1.0.0/sentopics/src/Makevars | 2 sentopics-1.0.0/sentopics/src/Makevars.win | 2 sentopics-1.0.0/sentopics/src/model.cpp | 625 ++-- sentopics-1.0.0/sentopics/src/model.h | 30 sentopics-1.0.0/sentopics/src/polya_fit_simple.cpp | 2 sentopics-1.0.0/sentopics/tests/testthat.R | 3 sentopics-1.0.0/sentopics/tests/testthat/Rplots.pdf |binary sentopics-1.0.0/sentopics/tests/testthat/air.toml |only sentopics-1.0.0/sentopics/tests/testthat/test-JST.R | 72 sentopics-1.0.0/sentopics/tests/testthat/test-LDA.R | 34 sentopics-1.0.0/sentopics/tests/testthat/test-algorithm.R | 19 sentopics-1.0.0/sentopics/tests/testthat/test-basic.R | 114 sentopics-1.0.0/sentopics/tests/testthat/test-coherence.R | 39 sentopics-1.0.0/sentopics/tests/testthat/test-conversions.R | 135 - sentopics-1.0.0/sentopics/tests/testthat/test-generation.R | 81 sentopics-1.0.0/sentopics/tests/testthat/test-generics.R | 33 sentopics-1.0.0/sentopics/tests/testthat/test-grow.R | 50 sentopics-1.0.0/sentopics/tests/testthat/test-others.R | 11 sentopics-1.0.0/sentopics/tests/testthat/test-parallel_chains.R | 455 ++- sentopics-1.0.0/sentopics/tests/testthat/test-rJST.R | 66 sentopics-1.0.0/sentopics/tests/testthat/test-timeSeries.R | 255 + sentopics-1.0.0/sentopics/tests/testthat/test-utils.R | 160 - sentopics-1.0.0/sentopics/vignettes/Basic_usage.Rmd | 12 sentopics-1.0.0/sentopics/vignettes/Topical_time_series.Rmd | 13 89 files changed, 5631 insertions(+), 2659 deletions(-)
Title: Headless Publication-Quality 3D Mesh Rendering Engine
Description: A fast, GPU-free 3D software renderer written in modern C++17 with
native R bindings. Renders triangle meshes to publication-quality images
entirely on the CPU, requiring no display server or graphics hardware.
Features multi-light Blinn-Phong shading, screen-space ambient occlusion,
anti-aliasing, depth fog, transparency, wireframe rendering, texture
mapping, and procedural geometry generation. Supports standard mesh
file formats with PNG and PPM output. Works on high-performance
computing clusters, headless servers, containers, and continuous
integration pipelines, making it suitable for scientific visualization
across neuro-imaging, molecular structures, and general 3D graphics.
Author: Tim Schaefer [aut, cre],
Martin Horeňovsky [ctb] ),
Christophe Riccio [ctb] ),
Dimitri Diakopoulos [ctb] ),
Syoyo Fujita [ctb] ),
Tim Schaefer [ctb] ),
Sebastian Reiter [ctb] ),
Sean Barrett [ctb] )
Maintainer: Tim Schaefer <ts+code@rcmd.org>
This is a re-admission after prior archival of version 0.3.0 dated 2026-08-09
Diff between scimesh versions 0.3.0 dated 2026-08-09 and 0.3.4 dated 2026-08-21
scimesh-0.3.0/scimesh/src/third_party/tiny_obj_loader.h |only scimesh-0.3.4/scimesh/CHANGES | 56 scimesh-0.3.4/scimesh/DESCRIPTION | 9 scimesh-0.3.4/scimesh/MD5 | 68 scimesh-0.3.4/scimesh/NAMESPACE | 4 scimesh-0.3.4/scimesh/R/RcppExports.R | 8 scimesh-0.3.4/scimesh/R/image_export.R | 25 scimesh-0.3.4/scimesh/R/render.R | 46 scimesh-0.3.4/scimesh/R/scene.R |only scimesh-0.3.4/scimesh/R/write_gltf.R |only scimesh-0.3.4/scimesh/inst/doc/scimesh.Rmd | 3 scimesh-0.3.4/scimesh/inst/doc/scimesh.html | 1 scimesh-0.3.4/scimesh/man/render_options.Rd | 2 scimesh-0.3.4/scimesh/man/render_scene.Rd | 22 scimesh-0.3.4/scimesh/man/scene.Rd |only scimesh-0.3.4/scimesh/man/write_gltf.Rd |only scimesh-0.3.4/scimesh/man/write_tga.Rd |only scimesh-0.3.4/scimesh/src/Makevars | 5 scimesh-0.3.4/scimesh/src/Makevars.win | 5 scimesh-0.3.4/scimesh/src/RcppExports.cpp | 28 scimesh-0.3.4/scimesh/src/core/camera.cpp | 13 scimesh-0.3.4/scimesh/src/core/image.cpp | 204 scimesh-0.3.4/scimesh/src/core/obj_io.cpp | 83 scimesh-0.3.4/scimesh/src/core/renderer.cpp | 66 scimesh-0.3.4/scimesh/src/core/scimesh/gltf_io.h |only scimesh-0.3.4/scimesh/src/core/scimesh/image.h | 138 scimesh-0.3.4/scimesh/src/core/scimesh/obj_io.h | 10 scimesh-0.3.4/scimesh/src/core/scimesh/render_options.h | 6 scimesh-0.3.4/scimesh/src/core/scimesh/renderer.h | 5 scimesh-0.3.4/scimesh/src/core/scimesh/scene.h | 165 scimesh-0.3.4/scimesh/src/core/scimesh/types.h | 6 scimesh-0.3.4/scimesh/src/rcpp_bindings.cpp | 106 scimesh-0.3.4/scimesh/src/third_party/THIRD_PARTY_LICENSES.md | 7 scimesh-0.3.4/scimesh/src/third_party/libfs.h | 2382 +++++++++- scimesh-0.3.4/scimesh/tests/testthat/test-image-io.R | 105 scimesh-0.3.4/scimesh/tests/testthat/test-mesh-utils.R | 13 scimesh-0.3.4/scimesh/tests/testthat/test-render.R | 2 scimesh-0.3.4/scimesh/tests/testthat/test-scene.R |only scimesh-0.3.4/scimesh/vignettes/scimesh.Rmd | 3 39 files changed, 3271 insertions(+), 325 deletions(-)
Title: Real-Time Effective Reproduction Number Estimation and
Forecasting
Description: Filtered (real-time/causal) and smoothed (retrospective)
estimation of the time-varying effective reproduction number (Rt)
from case-count time series, using the EpiFilter algorithm of
Parag (2021) <doi:10.1371/journal.pcbi.1009347>, together with a
one-step-ahead in-sample prediction check, a genuine out-of-sample
one-step forecast with predictive intervals, elimination
probability P(Rt < 1), and forecast calibration metrics (mean
absolute error, mean squared error, root mean squared error,
empirical coverage, and the weighted interval score of Bracher
et al. (2021) <doi:10.1371/journal.pcbi.1008618>).
Disease-agnostic: works for any pathogen given a known generation
interval.
Author: Raj Subedi [aut, cre, cph] ; author of R/recursPredict.R's
configurable-grid maxI extension and R/recursPredictQuantiles.R),
Kris V. Parag [ctb, cph] ; files
R/epiFilter.R, R/epiSmoother.R and R/recursPredict.R are unmodified
or lightly modified port [...truncated...]
Maintainer: Raj Subedi <rajsubediresearch@gmail.com>
Diff between RtForecastR versions 0.1.0 dated 2026-08-20 and 0.1.1 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md |only R/rt_forecast.R | 21 +++++++++++++-------- tests/testthat/test-rt-forecast.R | 16 ++++++++++++++++ 5 files changed, 36 insertions(+), 14 deletions(-)
Title: Detect and Remove Chimeras from Amplicon Sequence Analysis Data
Description: Detect and remove chimeras from your amplicon sequence analysis
using reference-based or de novo approaches. The 'rchime' package
implements the 'VSEARCH' algorithms described in Rognes et al. (2016)
<doi:10.7717/peerj.2584>. 'VSEARCH' builds on the work of Edgar,R.C. et al.
(2011) <doi:10.1093/bioinformatics/btr381>.
Author: Sarah Westcott [aut] ,
Pat Schloss [cph, cre] ,
Torbjorn Rognes [cph],
Frederic Mahe [cph],
Tomas Flouri [cph],
Christopher Quince [cph],
Ben Nichols [cph]
Maintainer: Pat Schloss <pschloss@umich.edu>
Diff between rchime versions 0.1.1 dated 2026-07-28 and 0.1.2 dated 2026-08-21
rchime-0.1.1/rchime/R/utils_internal.R |only rchime-0.1.1/rchime/cleanup |only rchime-0.1.1/rchime/configure |only rchime-0.1.1/rchime/src/Makevars.in |only rchime-0.1.1/rchime/src/Makevars.win |only rchime-0.1.2/rchime/DESCRIPTION | 8 +- rchime-0.1.2/rchime/MD5 | 38 ++++------ rchime-0.1.2/rchime/NEWS.md | 7 + rchime-0.1.2/rchime/R/generate_strollur_objects.R |only rchime-0.1.2/rchime/R/silva_gold.R | 4 - rchime-0.1.2/rchime/inst/CITATION | 4 - rchime-0.1.2/rchime/inst/doc/chimera_report.html | 2 rchime-0.1.2/rchime/inst/doc/denovo_based_detection.html | 4 - rchime-0.1.2/rchime/inst/doc/reference_based_detection.html | 4 - rchime-0.1.2/rchime/inst/extdata/strollur_miseq_tiny.rds |binary rchime-0.1.2/rchime/inst/extdata/strollur_multi_sample_small.rds |binary rchime-0.1.2/rchime/inst/extdata/strollur_multi_sample_tiny.rds |only rchime-0.1.2/rchime/inst/extdata/strollur_reference.rds |binary rchime-0.1.2/rchime/inst/extdata/strollur_single_sample.rds |only rchime-0.1.2/rchime/man/silva_gold.Rd | 4 - rchime-0.1.2/rchime/src/align_simd.cc | 1 rchime-0.1.2/rchime/src/align_simd.h | 1 rchime-0.1.2/rchime/src/vsearch_main.cc | 2 rchime-0.1.2/rchime/tests/testthat/test-rchime_strollur.R | 8 +- 24 files changed, 48 insertions(+), 39 deletions(-)
Title: Signal and Image Processing Toolbox for Analyzing Intracranial
Electroencephalography Data
Description: Implemented fast and memory-efficient Notch-filter,
Welch-periodogram, discrete wavelet spectrogram for minutes of
high-resolution signals, fast 3D convolution, image registration,
3D mesh manipulation; providing fundamental toolbox for intracranial
Electroencephalography (iEEG) pipelines.
Documentation and examples about 'RAVE' project are provided at
<https://rave.wiki>, and the paper by John F. Magnotti,
Zhengjia Wang, Michael S. Beauchamp (2020)
<doi:10.1016/j.neuroimage.2020.117341>; see 'citation("ravetools")' for
details.
Author: Zhengjia Wang [aut, cre] ,
John Magnotti [aut],
Michael Beauchamp [aut],
Trustees of the University of Pennsylvania [cph] ,
Karim Rahim [cph, ctb] ,
Thomas Possidente [cph, ctb] ,
Michael Prerau [cph, ctb] ,
Marcus Geelnard [ctb, cph] ,
Stefan Schlag [...truncated...]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between ravetools versions 0.2.6 dated 2026-05-31 and 0.3.0 dated 2026-08-21
ravetools-0.2.6/ravetools/src/vcglib/vcg/complex/algorithms/create/readme.txt |only ravetools-0.3.0/ravetools/DESCRIPTION | 12 ravetools-0.3.0/ravetools/MD5 | 165 + ravetools-0.3.0/ravetools/NAMESPACE | 31 ravetools-0.3.0/ravetools/NEWS.md | 30 ravetools-0.3.0/ravetools/R/RcppExports.R | 88 + ravetools-0.3.0/ravetools/R/aaa.R | 112 + ravetools-0.3.0/ravetools/R/bpc.R |only ravetools-0.3.0/ravetools/R/carla.R | 397 ++-- ravetools-0.3.0/ravetools/R/crp.R | 510 ++++-- ravetools-0.3.0/ravetools/R/crp_cluster.R |only ravetools-0.3.0/ravetools/R/curve-catmull.R | 5 ravetools-0.3.0/ravetools/R/fftw.R | 29 ravetools-0.3.0/ravetools/R/filter-filtfilt.R | 14 ravetools-0.3.0/ravetools/R/filter-fir-design.R | 28 ravetools-0.3.0/ravetools/R/filter-fir.R | 2 ravetools-0.3.0/ravetools/R/filter.R | 30 ravetools-0.3.0/ravetools/R/geometry-plane.R | 2 ravetools-0.3.0/ravetools/R/image-resample3d.R | 19 ravetools-0.3.0/ravetools/R/imaging-ants-io.R |only ravetools-0.3.0/ravetools/R/imaging-fill-surface.R 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ravetools-0.3.0/ravetools/man/color_ramp_continuous.Rd |only ravetools-0.3.0/ravetools/man/crp.Rd | 100 + ravetools-0.3.0/ravetools/man/crp_cluster.Rd |only ravetools-0.3.0/ravetools/man/fftw-internal.Rd | 53 ravetools-0.3.0/ravetools/man/fill_surface.Rd | 33 ravetools-0.3.0/ravetools/man/mris_curvature.Rd |only ravetools-0.3.0/ravetools/man/mris_inflate.Rd |only ravetools-0.3.0/ravetools/man/mris_make_surfaces.Rd |only ravetools-0.3.0/ravetools/man/mris_remesh.Rd |only ravetools-0.3.0/ravetools/man/mris_smooth.Rd |only ravetools-0.3.0/ravetools/man/mris_sphere.Rd |only ravetools-0.3.0/ravetools/man/plot.ravetools_bpc.Rd |only ravetools-0.3.0/ravetools/man/plot.ravetools_crp.Rd | 10 ravetools-0.3.0/ravetools/man/plot.ravetools_crp_cluster.Rd |only ravetools-0.3.0/ravetools/man/plot_mesh_polygon.Rd | 7 ravetools-0.3.0/ravetools/man/register_volume3d.Rd |only ravetools-0.3.0/ravetools/man/resample_3d_volume.Rd | 14 ravetools-0.3.0/ravetools/man/save_registration.Rd |only ravetools-0.3.0/ravetools/man/vcg_average_edge_length.Rd |only ravetools-0.3.0/ravetools/man/vcg_count_edge_defects.Rd |only ravetools-0.3.0/ravetools/man/vcg_detect_collision.Rd |only ravetools-0.3.0/ravetools/man/vcg_fix_defects.Rd |only ravetools-0.3.0/ravetools/man/vcg_max_edge_length.Rd |only ravetools-0.3.0/ravetools/man/vcg_mesh_patch.Rd |only ravetools-0.3.0/ravetools/man/vcg_subdivide_max_edge_length.Rd |only ravetools-0.3.0/ravetools/man/write_ants_transform.Rd |only ravetools-0.3.0/ravetools/man/write_ants_warp.Rd |only ravetools-0.3.0/ravetools/src/RcppExports.cpp | 308 +++ ravetools-0.3.0/ravetools/src/carla.cpp |only ravetools-0.3.0/ravetools/src/fftw-wrapper.cpp | 20 ravetools-0.3.0/ravetools/src/glMatrix4.h | 6 ravetools-0.3.0/ravetools/src/mris.cpp |only ravetools-0.3.0/ravetools/src/mrisCommon.cpp |only ravetools-0.3.0/ravetools/src/mrisCommon.h |only ravetools-0.3.0/ravetools/src/reg_core.h |only ravetools-0.3.0/ravetools/src/reg_interp.h |only ravetools-0.3.0/ravetools/src/reg_linear.cpp |only ravetools-0.3.0/ravetools/src/reg_metric.h |only ravetools-0.3.0/ravetools/src/reg_metric_cc.cpp |only ravetools-0.3.0/ravetools/src/reg_metric_mattes.cpp |only ravetools-0.3.0/ravetools/src/reg_syn.cpp |only ravetools-0.3.0/ravetools/src/reg_transform.h |only ravetools-0.3.0/ravetools/src/resample3D.cpp | 81 ravetools-0.3.0/ravetools/src/utils.cpp | 7 ravetools-0.3.0/ravetools/src/vcgCollision.cpp |only ravetools-0.3.0/ravetools/src/vcgCommon.cpp | 465 +++++ ravetools-0.3.0/ravetools/src/vcgCommon.h | 6 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/create/mc_trivial_walker.h | 4 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/create/platonic.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/point_sampling.h | 8 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/polygonal_algorithms.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/refine_loop.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/smooth.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/update/color.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/complex/algorithms/update/quality.h | 4 ravetools-0.3.0/ravetools/src/vcglib/vcg/math/gen_normal.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/simplex/vertex/component_occ.h | 2 ravetools-0.3.0/ravetools/src/vcglib/vcg/space/colorspace.h | 8 ravetools-0.3.0/ravetools/tests/testthat/test-ants-io.R |only ravetools-0.3.0/ravetools/tests/testthat/test-baseline.R | 8 ravetools-0.3.0/ravetools/tests/testthat/test-carla.R |only ravetools-0.3.0/ravetools/tests/testthat/test-convolve.R | 8 ravetools-0.3.0/ravetools/tests/testthat/test-crp.R |only ravetools-0.3.0/ravetools/tests/testthat/test-fftw.R | 4 ravetools-0.3.0/ravetools/tests/testthat/test-filter.R | 43 ravetools-0.3.0/ravetools/tests/testthat/test-fir-design.R | 81 ravetools-0.3.0/ravetools/tests/testthat/test-firls-fast-path.R | 10 ravetools-0.3.0/ravetools/tests/testthat/test-rawToSEXP.R | 16 ravetools-0.3.0/ravetools/tests/testthat/test-registration-native.R |only ravetools-0.3.0/ravetools/tests/testthat/test-vcg-collision.R |only ravetools-0.3.0/ravetools/tests/testthat/test-vcg-new.R |only 111 files changed, 3645 insertions(+), 1145 deletions(-)
Title: An Umbrella Framework for Multi-Source and Multi-Omics
Clustering
Description: An umbrella framework ("MoSaIC:" Multi-Omics Similarity Aggregation and Integrative Clustering in R) that unifies a large collection
of multi-source / multi-omics clustering methodologies behind a single,
consistent list-of-matrices interface. It spans five integration
paradigms - direct, similarity-based, graph-based, voting-based consensus,
and hierarchy-based - and bundles a complete downstream workflow for
method comparison and evaluation. The package features the multi-source
the ability to compare many algorithms on the same footing, a data-nugget
based feature-weighting scheme as a robust, big-data-friendly alternative to
variance weighting, and a downstream suite for cluster characterisation,
visualisation and biological interpretation.
Author: Bernard Isekah Osang'ir [aut, cre] ,
Marijke Van Moerbeke [aut],
Ziv Shkedy [ctb],
Surya Gupta [ctb],
Juergen Claesen [ctb]
Maintainer: Bernard Isekah Osang'ir <bernard.osangir@sckcen.be>
Diff between MosaiClusteR versions 0.1.0 dated 2026-07-29 and 0.1.1 dated 2026-08-21
DESCRIPTION | 11 +++++------ MD5 | 11 ++++++----- NEWS.md | 8 ++++++++ README.md | 36 ++++++------------------------------ build/partial.rdb |binary inst/doc/MosaiClusteR.html | 2 +- man/figures |only 7 files changed, 26 insertions(+), 42 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291> and Hothorn (2020)
<DOI:10.18637/jss.v092.i01>. Shift-scale (Siegfried et al, 2023, <DOI:10.1080/00031305.2023.2203177>)
and multivariate (Klein et al, 2022, <DOI:10.1111/sjos.12501>) transformation models
are part of this package. A package vignette is available from <DOI:10.32614/CRAN.package.mlt.docreg> and
more convenient user interfaces to many models from <DOI:10.32614/CRAN.package.tram>.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 1.8-1 dated 2026-07-01 and 1.8-2 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- build/partial.rdb |binary inst/NEWS.Rd | 10 ++++++++++ man/mlt-methods.Rd | 1 + tests/2sample.Rout.save | 6 +++--- tests/Cox-Ex.Rout.save | 6 +++--- tests/bugfixes.R | 32 +++++++++++++++++++++----------- tests/bugfixes.Rout.save | 38 ++++++++++++++++++++++++-------------- tests/dpq-Ex.Rout.save | 6 +++--- tests/glm-Ex.Rout.save | 6 +++--- tests/lm-Ex.Rout.save | 6 +++--- tests/polr-Ex.Rout.save | 6 +++--- tests/predict-Ex.Rout.save | 6 +++--- tests/subset.Rout.save | 6 +++--- tests/surv-Ex.Rout.save | 6 +++--- 16 files changed, 101 insertions(+), 70 deletions(-)
Title: Machine Learning in R - Next Generation
Description: Efficient, object-oriented programming on the
building blocks of machine learning. Provides 'R6' objects for tasks,
learners, resamplings, and measures. The package is geared towards
scalability and larger datasets by supporting parallelization and
out-of-memory data-backends like databases. While 'mlr3' focuses on
the core computational operations, add-on packages provide additional
functionality.
Author: Michel Lang [aut] ,
Bernd Bischl [aut] ,
Jakob Richter [aut] ,
Patrick Schratz [aut] ,
Giuseppe Casalicchio [ctb] ,
Stefan Coors [ctb] ,
Quay Au [ctb] ,
Martin Binder [aut],
Florian Pfisterer [aut] ,
Raphael Sonabend [aut] ,
Lennart Schneider [ctb] , [...truncated...]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3 versions 1.7.1 dated 2026-06-11 and 1.8.0 dated 2026-08-21
mlr3-1.7.1/mlr3/R/TaskClassif_pima.R |only mlr3-1.7.1/mlr3/man/mlr_tasks_pima.Rd |only mlr3-1.8.0/mlr3/DESCRIPTION | 18 mlr3-1.8.0/mlr3/MD5 | 170 +++---- mlr3-1.8.0/mlr3/NAMESPACE | 61 +- mlr3-1.8.0/mlr3/NEWS.md | 8 mlr3-1.8.0/mlr3/R/CallbackResample.R | 4 mlr3-1.8.0/mlr3/R/HotstartStack.R | 4 mlr3-1.8.0/mlr3/R/Learner.R | 24 - mlr3-1.8.0/mlr3/R/LearnerClassifDebug.R | 23 mlr3-1.8.0/mlr3/R/MeasureBestValidScore.R |only mlr3-1.8.0/mlr3/R/MeasureInternalValidScore.R | 30 - mlr3-1.8.0/mlr3/R/MeasureValidScore.R |only mlr3-1.8.0/mlr3/R/Resampling.R | 2 mlr3-1.8.0/mlr3/R/TaskClassif.R | 21 mlr3-1.8.0/mlr3/R/TaskClassif_diabetes.R |only mlr3-1.8.0/mlr3/R/mlr_callbacks.R | 22 mlr3-1.8.0/mlr3/R/partition.R | 2 mlr3-1.8.0/mlr3/R/score_roc_measures.R | 4 mlr3-1.8.0/mlr3/R/worker.R | 17 mlr3-1.8.0/mlr3/man/HotstartStack.Rd | 4 mlr3-1.8.0/mlr3/man/Learner.Rd | 24 - mlr3-1.8.0/mlr3/man/Measure.Rd | 1 mlr3-1.8.0/mlr3/man/MeasureClassif.Rd | 1 mlr3-1.8.0/mlr3/man/MeasureRegr.Rd | 1 mlr3-1.8.0/mlr3/man/MeasureSimilarity.Rd | 1 mlr3-1.8.0/mlr3/man/Resampling.Rd | 2 mlr3-1.8.0/mlr3/man/Task.Rd | 2 mlr3-1.8.0/mlr3/man/TaskClassif.Rd | 2 mlr3-1.8.0/mlr3/man/TaskRegr.Rd | 2 mlr3-1.8.0/mlr3/man/TaskSupervised.Rd | 2 mlr3-1.8.0/mlr3/man/TaskUnsupervised.Rd | 2 mlr3-1.8.0/mlr3/man/california_housing.Rd | 2 mlr3-1.8.0/mlr3/man/callback_resample.Rd | 4 mlr3-1.8.0/mlr3/man/figures/logo.png |binary mlr3-1.8.0/mlr3/man/figures/logo.svg | 240 ++++++---- mlr3-1.8.0/mlr3/man/mlr3.holdout_task.Rd | 14 mlr3-1.8.0/mlr3/man/mlr3.model_extractor.Rd | 18 mlr3-1.8.0/mlr3/man/mlr_learners_classif.debug.Rd | 3 mlr3-1.8.0/mlr3/man/mlr_measures.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_aic.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_best_valid_score.Rd |only mlr3-1.8.0/mlr3/man/mlr_measures_bic.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_classif.costs.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_debug_classif.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_elapsed_time.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_internal_valid_score.Rd | 9 mlr3-1.8.0/mlr3/man/mlr_measures_oob_error.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_regr.pinball.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_regr.rqr.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_regr.rsq.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_measures_selected_features.Rd | 1 mlr3-1.8.0/mlr3/man/mlr_tasks.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_breast_cancer.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_diabetes.Rd |only mlr3-1.8.0/mlr3/man/mlr_tasks_german_credit.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_iris.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_mtcars.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_penguins.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_sonar.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_spam.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_wine.Rd | 2 mlr3-1.8.0/mlr3/man/mlr_tasks_zoo.Rd | 2 mlr3-1.8.0/mlr3/man/partition.Rd | 2 mlr3-1.8.0/mlr3/man/score_roc_measures.Rd | 4 mlr3-1.8.0/mlr3/tests/testthat/test_CallbackResample.R | 20 mlr3-1.8.0/mlr3/tests/testthat/test_ContextEvaluation.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_HotstartStack.R | 56 +- mlr3-1.8.0/mlr3/tests/testthat/test_Learner.R | 6 mlr3-1.8.0/mlr3/tests/testthat/test_LearnerClassif.R | 18 mlr3-1.8.0/mlr3/tests/testthat/test_Measure.R | 4 mlr3-1.8.0/mlr3/tests/testthat/test_MeasureBestValidScore.R |only mlr3-1.8.0/mlr3/tests/testthat/test_PredictionClassif.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_Task.R | 60 +- mlr3-1.8.0/mlr3/tests/testthat/test_TaskClassif.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_backward_compatibility.R | 4 mlr3-1.8.0/mlr3/tests/testthat/test_benchmark.R | 26 - mlr3-1.8.0/mlr3/tests/testthat/test_encapsulate.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_hotstart.R | 28 - mlr3-1.8.0/mlr3/tests/testthat/test_lgr.R | 20 mlr3-1.8.0/mlr3/tests/testthat/test_mlr_callbacks.R | 4 mlr3-1.8.0/mlr3/tests/testthat/test_mlr_learners_classif_debug.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_mlr_learners_classif_rpart.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_mlr_learners_regr_rpart.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_mlr_reflections.R | 10 mlr3-1.8.0/mlr3/tests/testthat/test_parallel_mirai.R | 12 mlr3-1.8.0/mlr3/tests/testthat/test_partition.R | 14 mlr3-1.8.0/mlr3/tests/testthat/test_resample.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_resultdata.R | 2 mlr3-1.8.0/mlr3/tests/testthat/test_score_roc_measures.R | 4 90 files changed, 671 insertions(+), 414 deletions(-)
Title: Isotonic Distributional Regression (IDR)
Description: Distributional regression under stochastic order restrictions for
numeric and binary response variables and partially ordered covariates,
including right-censored responses via Survival-IDR. See Henzi, Ziegel,
Gneiting (2021) <doi:10.1111/rssb.12450> and Bladt, Henzi, van den Heuvel,
Ziegel (2026) <doi:10.48550/arXiv.2608.02914>.
Author: Bram van den Heuvel [aut, cre],
Alexander Henzi [aut],
Martin Bladt [aut],
Johanna Ziegel [ths]
Maintainer: Bram van den Heuvel <bram.vandenheuvel@stat.math.ethz.ch>
Diff between isodistrreg versions 0.5.2 dated 2026-08-20 and 0.6.0 dated 2026-08-21
DESCRIPTION | 10 MD5 | 41 NAMESPACE | 22 R/modeling.R | 9 inst/doc/IDR_arXiv_preprint.pdf |binary man/idr.Rd | 9 man/isodistrreg-package.Rd | 1 src/rust/Cargo.lock | 617 ++++ src/rust/Cargo.toml | 5 src/rust/isodistrreg/Cargo.toml | 4 src/rust/isodistrreg/README.md | 8 src/rust/isodistrreg/src/lib.rs | 2 src/rust/isodistrreg/src/partial_order/algorithm/censored.rs | 6 src/rust/isodistrreg/src/partial_order/algorithm/uncensored/admm |only src/rust/isodistrreg/src/partial_order/algorithm/uncensored/hazard_rate_order.rs | 574 +--- src/rust/isodistrreg/src/partial_order/algorithm/uncensored/mod.rs | 1264 ++++++++-- src/rust/isodistrreg/src/partial_order/structures.rs | 108 src/rust/src/lib.rs | 13 src/rust/vendor.tar.xz |binary 19 files changed, 1960 insertions(+), 733 deletions(-)
Title: Client for the Ifo Institute Time Series
Description: Download ifo business survey data and more time series from
ifo institute <https://www.ifo.de/en/ifo-time-series>.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between ifo versions 0.2.4 dated 2026-06-29 and 0.2.5 dated 2026-08-21
DESCRIPTION | 10 ++--- MD5 | 20 +++++------ NAMESPACE | 8 ++-- NEWS.md | 8 ++++ R/ifo.R | 64 ++++++++++++++++++++++++++++++-------- README.md | 6 +-- man/figures/README-plotting-1.png |binary man/ifo_business.Rd | 18 ++++++++++ man/ifo_climate.Rd | 11 +++++- man/ifo_expectation.Rd | 7 +++- tests/testthat/test-ifo.R | 27 ++++++++++++++++ 11 files changed, 140 insertions(+), 39 deletions(-)
Title: The Machine Learning and AI Modeling Companion to 'healthyR'
Description: Hospital machine learning and ai data analysis workflow tools, modeling, and automations.
This library provides many useful tools to review common administrative
hospital data. Some of these include predicting length of stay, and readmits.
The aim is to provide a simple and consistent verb framework that takes the
guesswork out of everything.
Author: Steven Sanderson [aut, cre, cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between healthyR.ai versions 0.1.1 dated 2025-04-24 and 0.1.2 dated 2026-08-21
healthyR.ai-0.1.1/healthyR.ai/R/utils-pipe.R |only healthyR.ai-0.1.1/healthyR.ai/man/pipe.Rd |only healthyR.ai-0.1.2/healthyR.ai/DESCRIPTION | 24 healthyR.ai-0.1.2/healthyR.ai/MD5 | 220 ++-- healthyR.ai-0.1.2/healthyR.ai/NAMESPACE | 2 healthyR.ai-0.1.2/healthyR.ai/NEWS.md | 526 +++++----- healthyR.ai-0.1.2/healthyR.ai/R/00_global_variables.R | 24 healthyR.ai-0.1.2/healthyR.ai/R/augment-hai-polynomial.R | 10 healthyR.ai-0.1.2/healthyR.ai/R/auto-kmeans-predict.R | 24 healthyR.ai-0.1.2/healthyR.ai/R/auto-kmeans.R | 444 ++++---- healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-c50.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-cubist.R | 30 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-earth.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-glmnet.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-knn.R | 30 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-rangers.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-svm_poly.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-svm_rbf.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/boilerplate-xgboost.R | 28 healthyR.ai-0.1.2/healthyR.ai/R/control-chart.R | 6 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-c50.R | 2 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-cubist.R | 2 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-earth.R | 8 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-glmnet.R | 10 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-knn.R | 8 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-ranger.R | 2 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-svm_poly.R | 4 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-svm_rbf.R | 4 healthyR.ai-0.1.2/healthyR.ai/R/data-prep-xgboost.R | 8 healthyR.ai-0.1.2/healthyR.ai/R/get-juiced-data.R | 136 +- healthyR.ai-0.1.2/healthyR.ai/R/hai-data-impute-missing.R | 468 ++++---- healthyR.ai-0.1.2/healthyR.ai/R/hai-data-poly.R | 174 +-- healthyR.ai-0.1.2/healthyR.ai/R/hai-data-scale.R | 324 +++--- healthyR.ai-0.1.2/healthyR.ai/R/hai-data-transform.R | 406 +++---- healthyR.ai-0.1.2/healthyR.ai/R/hai-data-trig.R | 230 ++-- healthyR.ai-0.1.2/healthyR.ai/R/hai-skewed-features.R | 18 healthyR.ai-0.1.2/healthyR.ai/R/kmean-funcs.R | 130 +- healthyR.ai-0.1.2/healthyR.ai/R/pallette-color-blind.R | 4 healthyR.ai-0.1.2/healthyR.ai/R/pca-data.R | 492 ++++----- healthyR.ai-0.1.2/healthyR.ai/R/plot-hai-density-histogram.R | 6 healthyR.ai-0.1.2/healthyR.ai/R/plot-hai-density-qq.R | 6 healthyR.ai-0.1.2/healthyR.ai/R/plot-hai-density.R | 6 healthyR.ai-0.1.2/healthyR.ai/R/plot-hai-histogram-facet.R | 16 healthyR.ai-0.1.2/healthyR.ai/R/step-hai-fourier-discrete.R | 424 ++++---- healthyR.ai-0.1.2/healthyR.ai/R/step-hai-fourier.R | 424 ++++---- healthyR.ai-0.1.2/healthyR.ai/R/step-hai-hyperbolic.R | 394 +++---- healthyR.ai-0.1.2/healthyR.ai/R/step-hai-scale-zero-one.R | 354 +++--- healthyR.ai-0.1.2/healthyR.ai/R/step-hai-scale-zscore.R | 362 +++--- healthyR.ai-0.1.2/healthyR.ai/R/step-hai-winsorized-move.R | 384 +++---- healthyR.ai-0.1.2/healthyR.ai/R/step-hai-winsorized-truncate.R | 382 +++---- healthyR.ai-0.1.2/healthyR.ai/R/tbl-hai-distribution-comparison.R | 14 healthyR.ai-0.1.2/healthyR.ai/R/tbl-hai-get-density-data.R | 18 healthyR.ai-0.1.2/healthyR.ai/R/tbl-hai-get-dist-data.R | 10 healthyR.ai-0.1.2/healthyR.ai/R/umap-list.R | 228 ++-- healthyR.ai-0.1.2/healthyR.ai/R/umap-plot.R | 14 healthyR.ai-0.1.2/healthyR.ai/R/utils-mesh-generator.R | 320 +++--- healthyR.ai-0.1.2/healthyR.ai/R/utils-tidy-eval.R | 94 - 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Title: Native 'LaTeX' Math Rendering for Grid Graphics
Description: Renders 'LaTeX' math equations as native R grid graphics objects
(grobs) using the 'MicroTeX' 'C++' library as the layout engine. Produces
resolution-independent vector output that works on any R graphics device,
with no external 'LaTeX' installation required. Markdown labels and block
documents that mix prose formatting with math are also rendered, for use
with both 'grid' and 'ggplot2'.
Author: Alim Dayim [aut, cre] ,
Nano Michael [cph] ,
Bundled math font authors [cph]
Maintainer: Alim Dayim <ad938@cam.ac.uk>
Diff between gridmicrotex versions 0.0.5 dated 2026-07-21 and 0.1.0 dated 2026-08-21
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Title: Fast Redundancy Analysis (RDA) with High-Performance 'C++'
Backend
Description: Provides a high-performance implementation of redundancy
analysis (RDA) in 'C++' using 'Armadillo' and 'OpenMP'. Supports standard
and partial RDA, centering, scaling, overall and axis-wise
permutation tests, biplot visualization, score extraction, and
prediction. Designed for large ecological, genomic, and other
multivariate data sets where computational speed and memory
efficiency are required.
Author: Zeynel Cebeci [aut, cre]
Maintainer: Zeynel Cebeci <cebeciz@gmail.com>
Diff between fastrda versions 0.1.2 dated 2026-08-07 and 0.2.0 dated 2026-08-21
fastrda-0.1.2/fastrda/inst/WORDLIST |only fastrda-0.2.0/fastrda/DESCRIPTION | 13 - fastrda-0.2.0/fastrda/MD5 | 30 +-- fastrda-0.2.0/fastrda/NAMESPACE | 2 fastrda-0.2.0/fastrda/R/biplotrda.R | 250 +++++++++++++-------------- fastrda-0.2.0/fastrda/R/fastrda.R | 258 ++++++++++++++++------------ fastrda-0.2.0/fastrda/R/zzz.R | 13 - fastrda-0.2.0/fastrda/README.md | 15 - fastrda-0.2.0/fastrda/build/vignette.rds |binary fastrda-0.2.0/fastrda/inst/doc/fastrda.R | 76 ++++---- fastrda-0.2.0/fastrda/inst/doc/fastrda.Rmd | 113 +++++------- fastrda-0.2.0/fastrda/inst/doc/fastrda.html | 202 ++++++++++----------- fastrda-0.2.0/fastrda/man/biplotrda.Rd | 59 +++--- fastrda-0.2.0/fastrda/man/fastrda.Rd | 83 ++++----- fastrda-0.2.0/fastrda/man/figures |only fastrda-0.2.0/fastrda/src/fastrda_cpp.cpp | 137 ++++++++++---- fastrda-0.2.0/fastrda/vignettes/fastrda.Rmd | 113 +++++------- 17 files changed, 719 insertions(+), 645 deletions(-)
Title: Fast Computation of Pairwise Hamming Distances
Description: Pairwise Hamming distances are computed between the rows of a binary (0/1) matrix using highly optimized 'C' code. The input is an integer matrix where each row represents a binary feature vector and returns a symmetric integer matrix of pairwise distances. Internally, rows are bit-packed into 64-bit words for fast XOR-based comparisons, with hardware-accelerated popcount operations to count differences. 'OpenMP' parallelization ensures efficient performance for large matrices.
Author: Ravi Varadhan [aut, cre]
Maintainer: Ravi Varadhan <ravi.varadhan@jhu.edu>
Diff between FastHamming versions 1.2 dated 2025-04-26 and 1.3 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- src/FastHamming.c | 4 ++++ 3 files changed, 10 insertions(+), 6 deletions(-)
Title: Compute Expected Shortfall and Value at Risk for Continuous
Distributions
Description: Compute expected shortfall (ES) and Value at Risk (VaR) from a
quantile function, distribution function, random number generator,
probability density function, or data. ES is also known as Conditional
Value at Risk (CVaR). Virtually any continuous distribution can be
specified. The functions are vectorized over the arguments. The
computations are done directly from the definitions, see e.g. Acerbi and
Tasche (2002) <doi:10.1111/1468-0300.00091>. Some support for GARCH models
is provided, as well.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between cvar versions 0.6 dated 2025-12-17 and 0.6.1 dated 2026-08-21
cvar-0.6.1/cvar/DESCRIPTION | 8 ++-- cvar-0.6.1/cvar/MD5 | 18 +++++----- cvar-0.6.1/cvar/NEWS.md | 18 ++++++---- cvar-0.6.1/cvar/build/partial.rdb |binary cvar-0.6.1/cvar/build/vignette.rds |binary cvar-0.6.1/cvar/inst/doc/Guide_cvar.R | 2 - cvar-0.6.1/cvar/inst/doc/Guide_cvar.pdf |binary cvar-0.6.1/cvar/tests/testthat/a_before_svn_rev_90299.RDS |only cvar-0.6.1/cvar/tests/testthat/a_pred_before_svn_rev_90299.RDS |only cvar-0.6.1/cvar/tests/testthat/test-garch.R | 3 + cvar-0.6/cvar/tests/testthat/a.RDS |only cvar-0.6/cvar/tests/testthat/a_pred.RDS |only 12 files changed, 28 insertions(+), 21 deletions(-)
Title: Efficient Serialization of R Objects
Description: Streamlines and accelerates the process of saving and loading R objects, improving speed and compression compared to other methods. The package provides two compression formats: the 'qs2' format, which uses R serialization via the C API while optimizing compression and disk I/O, and the 'qdata' format, featuring custom serialization for slightly faster performance and better compression. Additionally, the 'qs2' format can be directly converted to the standard 'RDS' format, ensuring long-term compatibility with future versions of R.
Author: Travers Ching [aut, cre, cph],
Yann Collet [ctb, cph] ,
Facebook, Inc. [cph] ,
Reichardt Tino [ctb, cph] ,
Skibinski Przemyslaw [ctb, cph] ,
Mori Yuta [ctb, cph] ,
Francesc Alted [ctb, cph]
Maintainer: Travers Ching <traversc@gmail.com>
Diff between qs2 versions 0.2.2 dated 2026-06-03 and 0.3.1 dated 2026-08-21
qs2-0.2.2/qs2/inst/include/qdata-cpp/CHANGELOG.md |only qs2-0.2.2/qs2/inst/include/qdata-cpp/include/io/tbb_flow_compat.h |only qs2-0.3.1/qs2/ChangeLog | 12 qs2-0.3.1/qs2/DESCRIPTION | 16 qs2-0.3.1/qs2/MD5 | 92 +- qs2-0.3.1/qs2/R/RcppExports.R | 24 qs2-0.3.1/qs2/R/file_helpers.R |only qs2-0.3.1/qs2/R/qs_cache.R | 3 qs2-0.3.1/qs2/R/qs_savem.R | 4 qs2-0.3.1/qs2/R/qs_to_rds.R | 32 qs2-0.3.1/qs2/R/qx_functions.R | 5 qs2-0.3.1/qs2/R/zstd_file_functions.R | 30 qs2-0.3.1/qs2/R/zzz.R | 32 qs2-0.3.1/qs2/build/vignette.rds |binary qs2-0.3.1/qs2/data/starnames.rda |binary qs2-0.3.1/qs2/inst/doc/vignette.html | 5 qs2-0.3.1/qs2/inst/include/qdata-cpp/include/io/block_module.h | 42 - qs2-0.3.1/qs2/inst/include/qdata-cpp/include/io/io_common.h | 6 qs2-0.3.1/qs2/inst/include/qdata-cpp/include/io/multithreaded_block_module.h | 198 +++- qs2-0.3.1/qs2/inst/include/qdata-cpp/include/io/xxhash_module.h | 13 qs2-0.3.1/qs2/inst/include/qdata-cpp/include/io/zstd_module.h | 31 qs2-0.3.1/qs2/inst/include/qdata-cpp/include/qdata_format/core_types.h | 154 ++- qs2-0.3.1/qs2/inst/include/qdata-cpp/include/qdata_format/detail/qdata_deserializer.h | 55 - qs2-0.3.1/qs2/inst/include/qdata-cpp/include/qdata_format/detail/qdata_serializer.h | 4 qs2-0.3.1/qs2/inst/include/qdata-cpp/include/qdata_format/detail/read_common.h | 4 qs2-0.3.1/qs2/inst/include/qdata-cpp/include/qdata_format/write_traits.h | 39 qs2-0.3.1/qs2/inst/include/qs2_external.h | 80 + qs2-0.3.1/qs2/man/zstd_compress_bound.Rd | 5 qs2-0.3.1/qs2/man/zstd_file_functions.Rd | 4 qs2-0.3.1/qs2/src/BLOSC/shuffle_routines.h | 20 qs2-0.3.1/qs2/src/Makevars.in | 2 qs2-0.3.1/qs2/src/Makevars.win | 2 qs2-0.3.1/qs2/src/RcppExports.cpp | 121 +- qs2-0.3.1/qs2/src/ascii_encoding/base91.h | 12 qs2-0.3.1/qs2/src/qd_deserializer.h | 55 + qs2-0.3.1/qs2/src/qd_serializer.h | 197 ++-- qs2-0.3.1/qs2/src/qoptions.h | 27 qs2-0.3.1/qs2/src/qs_deserializer.h | 3 qs2-0.3.1/qs2/src/qs_serializer.h | 5 qs2-0.3.1/qs2/src/qx_functions.cpp | 411 ++++++---- qs2-0.3.1/qs2/src/qx_nthreads_guard.h | 31 qs2-0.3.1/qs2/src/qx_string_arg.h |only qs2-0.3.1/qs2/src/qx_unwind_protect.h | 108 +- qs2-0.3.1/qs2/src/zstd_file_functions.h | 157 ++- qs2-0.3.1/qs2/tests/00_smoke_testing.R | 2 qs2-0.3.1/qs2/tests/file_safety_testing.R |only qs2-0.3.1/qs2/tests/fork_tbb_testing.R | 2 qs2-0.3.1/qs2/tests/qs2_external_testing.R |only qs2-0.3.1/qs2/tests/utility_testing.R | 8 qs2-0.3.1/qs2/tests/zz_correctness_testing.R | 45 + 50 files changed, 1293 insertions(+), 805 deletions(-)
Title: Neutrosophic Analysis Crossover Designs
Description: Provides methods for Neutrosophic Analysis of Variance (NANOVA)
and Neutrosophic Analysis of Covariance (NANCOVA) for crossover designs,
as well as NANOVA for multi-session designs with direct and residual
effects using interval-valued observations. For crisp data, users can
enter identical lower and upper values for the response and covariate
variables to obtain results equivalent to classical Analysis of
Variance (ANOVA) and Analysis of Covariance (ANCOVA), respectively.
The basic concepts of neutrosophic statistics are based on Smarandache
(2014) <https://fs.unm.edu/NeutrosophicStatistics.pdf>, while the analysis
procedures implemented in this package are newly developed.
Author: Boyina Devi Priyanka [aut, ctb],
Neethu R.S [aut, ctb],
Cini Varghese [aut, ctb],
Mohd Harun [aut, ctb],
Anindita Datta [aut, ctb],
Vinaykumar L.N. [aut, cre]
Maintainer: Vinaykumar L.N. <vinaymandya123@gmail.com>
Diff between NeutroCODsAnalysis versions 0.1.0 dated 2026-06-10 and 0.2.0 dated 2026-08-21
DESCRIPTION | 27 - MD5 | 14 NAMESPACE | 3 R/CODnsANCOVA.R |only R/CODnsANOVA.R | 126 +--- R/MSDnsANOVA.R | 1395 +++++++++++++++++++++-------------------------------- man/CODnsANCOVA.Rd |only man/CODnsANOVA.Rd | 107 +--- man/MSDnsANOVA.Rd | 88 +-- 9 files changed, 718 insertions(+), 1042 deletions(-)
More information about NeutroCODsAnalysis at CRAN
Permanent link
Title: Creating, Exploring, and Manipulating GTFS Files
Description: Creating, exploring, analyzing, and manipulating General Transit
Feed Specification (GTFS) files, which represent public transportation
schedules and geographic data. The package allows users to filter data by
routes, trips, stops, service dates, and time, generate spatial
visualizations, and perform detailed analyses of transit networks,
including headway, dwell times, route frequencies, service span, scheduled
vehicle-hours, and trip duration. Methods follow common public transport
planning and operation concepts described in Ceder (2007,
ISBN:978-0-7506-6166-6), Vuchic (2005, ISBN:978-0-471-63265-8), Vuchic
(2007, ISBN:978-0-471-75823-5), Cascetta (2009)
<doi:10.1007/978-0-387-75857-2>, and Gentile and Noekel (2016)
<doi:10.1007/978-3-319-25082-3>.
Author: Nelson de Oliveira Quesado Filho [aut, cre],
Caio Gustavo Coelho Guimaraes [aut],
Francisco Moraes de Oliveira Neto [aut]
Maintainer: Nelson de Oliveira Quesado Filho <nquesado@gmail.com>
Diff between GTFSwizard versions 1.2.0 dated 2026-06-22 and 1.2.1 dated 2026-08-21
GTFSwizard-1.2.0/GTFSwizard/README.md |only GTFSwizard-1.2.1/GTFSwizard/DESCRIPTION | 26 GTFSwizard-1.2.1/GTFSwizard/MD5 | 121 - GTFSwizard-1.2.1/GTFSwizard/NAMESPACE | 27 GTFSwizard-1.2.1/GTFSwizard/NEWS.md | 40 GTFSwizard-1.2.1/GTFSwizard/R/GTFSwizard-package.R |only GTFSwizard-1.2.1/GTFSwizard/R/as_wizardgtfs.R | 5 GTFSwizard-1.2.1/GTFSwizard/R/data_documentation.R | 19 GTFSwizard-1.2.1/GTFSwizard/R/explore_gtfs.R | 1210 +++++++++- GTFSwizard-1.2.1/GTFSwizard/R/filter_.R | 32 GTFSwizard-1.2.1/GTFSwizard/R/get_corridor.R | 25 GTFSwizard-1.2.1/GTFSwizard/R/get_distances.R | 51 GTFSwizard-1.2.1/GTFSwizard/R/get_durations.R | 63 GTFSwizard-1.2.1/GTFSwizard/R/get_dwelltimes.R | 124 - GTFSwizard-1.2.1/GTFSwizard/R/get_fleet.R | 50 GTFSwizard-1.2.1/GTFSwizard/R/get_frequency.R | 47 GTFSwizard-1.2.1/GTFSwizard/R/get_headways.R | 37 GTFSwizard-1.2.1/GTFSwizard/R/get_servicepattern.R | 34 GTFSwizard-1.2.1/GTFSwizard/R/get_speeds.R | 74 GTFSwizard-1.2.1/GTFSwizard/R/merge_gtfs.R | 36 GTFSwizard-1.2.1/GTFSwizard/R/plot_.R | 65 GTFSwizard-1.2.1/GTFSwizard/R/plot_calendar.R | 117 GTFSwizard-1.2.1/GTFSwizard/R/plot_service_planning.R | 24 GTFSwizard-1.2.1/GTFSwizard/R/prints.R | 3 GTFSwizard-1.2.1/GTFSwizard/R/read_gtfs.R | 202 + GTFSwizard-1.2.1/GTFSwizard/R/selection.R | 11 GTFSwizard-1.2.1/GTFSwizard/R/split_trip.R | 77 GTFSwizard-1.2.1/GTFSwizard/R/tidy_raptor.R | 103 GTFSwizard-1.2.1/GTFSwizard/R/utils.R | 221 + GTFSwizard-1.2.1/GTFSwizard/build |only GTFSwizard-1.2.1/GTFSwizard/inst/CITATION | 4 GTFSwizard-1.2.1/GTFSwizard/inst/cheatsheet/GTFSwizard-cheatsheet.html | 598 ---- GTFSwizard-1.2.1/GTFSwizard/inst/cheatsheet/GTFSwizard-cheatsheet.md | 133 - GTFSwizard-1.2.1/GTFSwizard/inst/doc |only GTFSwizard-1.2.1/GTFSwizard/man/GTFSwizard-package.Rd |only GTFSwizard-1.2.1/GTFSwizard/man/explore_gtfs.Rd | 20 GTFSwizard-1.2.1/GTFSwizard/man/filter_functions.Rd | 4 GTFSwizard-1.2.1/GTFSwizard/man/get_corridor.Rd | 8 GTFSwizard-1.2.1/GTFSwizard/man/get_distances.Rd | 21 GTFSwizard-1.2.1/GTFSwizard/man/get_durations.Rd | 25 GTFSwizard-1.2.1/GTFSwizard/man/get_dwelltimes.Rd | 37 GTFSwizard-1.2.1/GTFSwizard/man/get_fleet.Rd | 21 GTFSwizard-1.2.1/GTFSwizard/man/get_frequency.Rd | 18 GTFSwizard-1.2.1/GTFSwizard/man/get_headways.Rd | 10 GTFSwizard-1.2.1/GTFSwizard/man/get_servicepattern.Rd | 15 GTFSwizard-1.2.1/GTFSwizard/man/get_speeds.Rd | 12 GTFSwizard-1.2.1/GTFSwizard/man/merge_gtfs.Rd | 6 GTFSwizard-1.2.1/GTFSwizard/man/plot_calendar.Rd | 17 GTFSwizard-1.2.1/GTFSwizard/man/plot_corridor.Rd | 10 GTFSwizard-1.2.1/GTFSwizard/man/plot_hubs.Rd | 4 GTFSwizard-1.2.1/GTFSwizard/man/read_gtfs.Rd | 7 GTFSwizard-1.2.1/GTFSwizard/man/selection.Rd | 7 GTFSwizard-1.2.1/GTFSwizard/man/split_trip.Rd | 30 GTFSwizard-1.2.1/GTFSwizard/man/tidy_raptor.Rd | 15 GTFSwizard-1.2.1/GTFSwizard/tests/testthat/test-gtfs-integrity.R | 245 ++ GTFSwizard-1.2.1/GTFSwizard/tests/testthat/test-plots-and-spatial.R | 210 + GTFSwizard-1.2.1/GTFSwizard/tools |only GTFSwizard-1.2.1/GTFSwizard/vignettes |only 58 files changed, 3120 insertions(+), 1201 deletions(-)
Title: Explore Catálogo Taxônomico da Fauna do Brasil Database
Description: A collection of functions designed to retrieve, filter and spatialize data from the Catálogo Taxônomico da Fauna do Brasil. For more information about the dataset, please visit <https://fauna.jbrj.gov.br/fauna/listaBrasil/>.
Author: Weverton Trindade [aut, cre]
Maintainer: Weverton Trindade <wevertonf1993@gmail.com>
Diff between faunabr versions 1.1.0 dated 2026-07-02 and 1.1.1 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 3 +++ R/fauna_discrepancies.R | 2 +- R/helpers.R | 8 ++++---- inst/doc/Spatialize_faunabr.html | 15 ++++++++------- inst/doc/espacializando_faunabr.html | 16 ++++++++-------- inst/doc/getting_pam.html | 2 +- inst/doc/obtendo_pam.html | 2 +- 9 files changed, 37 insertions(+), 33 deletions(-)
Title: Analysis Results Data
Description: Construct CDISC (Clinical Data Interchange Standards
Consortium) compliant Analysis Results Data objects. These objects are
used and re-used to construct summary tables, visualizations, and
written reports. The package also exports utilities for working with
these objects and creating new Analysis Results Data objects.
Author: Daniel D. Sjoberg [aut, cre] ,
Becca Krouse [aut],
Emily de la Rua [aut] ,
Davide Garolini [aut] ,
Malan Bosman [aut] ,
Alanah Jonas [aut],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline Research & Development Limited [cph]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cards versions 0.8.1 dated 2026-07-06 and 0.9.0 dated 2026-08-21
DESCRIPTION | 26 MD5 | 445 +-- NAMESPACE | 258 - NEWS.md | 44 R/add_calculated_row.R | 220 - R/apply_fmt_fun.R | 482 +-- R/ard_attributes.R | 220 - R/ard_formals.R | 100 R/ard_hierarchical.R | 514 +-- R/ard_identity.R | 80 R/ard_missing.R | 262 - R/ard_mvsummary.R | 298 +- R/ard_pairwise.R | 202 - R/ard_stack.R | 471 +-- R/ard_stack_hierarchical.R | 1126 ++++--- R/ard_strata.R | 248 - R/ard_summary.R | 914 +++--- R/ard_tabulate.R | 378 ++ R/ard_tabulate_rows.R | 70 R/ard_tabulate_value.R | 342 +- R/ard_total_n.R | 96 R/as_card.R | 107 R/as_card_fn.R | 166 - R/as_nested_list.R | 194 - R/bind_ard.R | 216 - R/cards-package.R | 30 R/check_ard_structure.R | 206 - R/compare_ard.R | 250 - R/compare_ard_helpers.R | 540 +-- R/data.R | 30 R/default_stat_labels.R | 64 R/deprecated.R | 8 R/diff_ard_hierarchical.R |only R/eval_capture_conditions.R | 282 +- R/filter_ard_hierarchical.R | 875 +++--- R/get_ard_statistics.R | 168 - R/import-standalone-check_pkg_installed.R | 400 +- R/import-standalone-checks.R | 1268 ++++---- R/import-standalone-cli_call_env.R | 108 R/import-standalone-forcats.R | 190 - R/import-standalone-purrr.R | 488 +-- R/import-standalone-stringr.R | 286 +- R/import-standalone-tibble.R | 98 R/maximum_variable_value.R | 63 R/mock.R | 538 +-- R/nest_for_ard.R | 418 +- R/options.R | 44 R/print.R | 392 +- R/print_ard_conditions.R | 390 +- R/process_selectors.R | 667 ++-- R/reexports.R | 100 R/rename_ard_columns.R | 304 +- R/rename_ard_groups.R | 224 - R/replace_null_statistic.R | 94 R/round5.R | 54 R/selectors.R | 166 - R/shuffle_ard.R | 852 +++--- R/sort_ard_hierarchical.R | 745 +++-- R/summary_functions.R | 136 R/syntax.R | 154 - R/tidy_ard_order.R | 208 - R/tidy_as_ard.R | 242 - R/unlist_ard_columns.R | 152 - R/update_ard.R | 282 +- R/utils.R | 256 - README.md | 191 - inst/WORDLIST | 118 man/adam.Rd | 64 man/add_calculated_row.Rd | 120 man/alias_as_fmt_fun.Rd | 72 man/apply_fmt_fun.Rd | 54 man/ard_attributes.Rd | 92 man/ard_formals.Rd | 82 man/ard_hierarchical.Rd | 240 - man/ard_identity.Rd | 66 man/ard_missing.Rd | 150 - man/ard_mvsummary.Rd | 214 - man/ard_pairwise.Rd | 90 man/ard_stack.Rd | 160 - man/ard_stack_hierarchical.Rd | 364 +- man/ard_strata.Rd | 152 - man/ard_summary.Rd | 180 - man/ard_tabulate.Rd | 246 - man/ard_tabulate_rows.Rd | 96 man/ard_tabulate_value.Rd | 258 - man/ard_total_n.Rd | 54 man/as_card.Rd | 78 man/as_cards_fn.Rd | 138 man/as_nested_list.Rd | 46 man/bind_ard.Rd | 110 man/card_list_shaft.Rd |only man/cards-package.Rd | 84 man/cards.options.Rd | 54 man/check_ard_structure.Rd | 76 man/compare_ard.Rd | 154 - man/default_stat_labels.Rd | 36 man/deprecated.Rd | 178 - man/diff_ard_hierarchical.Rd |only man/dot-calculate_stats_as_ard.Rd | 100 man/dot-calculate_tabulation_statistics.Rd | 124 man/dot-check_dichotomous_value.Rd | 50 man/dot-check_fmt_string.Rd | 62 man/dot-check_for_missing_combos_in_denom.Rd | 66 man/dot-check_no_ard_columns.Rd | 56 man/dot-check_var_nms.Rd | 56 man/dot-cli_condition_messaging.Rd | 62 man/dot-cli_groups_and_variable.Rd | 78 man/dot-create_list_for_attributes.Rd | 60 man/dot-default_fmt_fun.Rd | 50 man/dot-derive_overall_labels.Rd | 74 man/dot-detect_msgs.Rd | 76 man/dot-eval_ard_calls.Rd | 66 man/dot-fill_grps_from_variables.Rd | 64 man/dot-fill_overall_grp_values.Rd | 76 man/dot-is_named_list.Rd | 44 man/dot-lst_results_as_df.Rd | 72 man/dot-message_or_error.Rd | 102 man/dot-nesting_rename_ard_columns.Rd | 86 man/dot-one_row_ard_to_nested_list.Rd | 50 man/dot-process_denominator.Rd | 86 man/dot-process_nested_list_as_df.Rd | 68 man/dot-purrr_list_flatten.Rd | 48 man/dot-rename_last_group_as_variable.Rd | 50 man/dot-table_as_df.Rd | 90 man/dot-trim_ard.Rd | 60 man/dot-unique_and_sorted.Rd | 60 man/eval_capture_conditions.Rd | 208 - man/figures/lifecycle-archived.svg | 42 man/figures/lifecycle-defunct.svg | 42 man/figures/lifecycle-deprecated.svg | 42 man/figures/lifecycle-experimental.svg | 42 man/figures/lifecycle-maturing.svg | 42 man/figures/lifecycle-questioning.svg | 42 man/figures/lifecycle-soft-deprecated.svg | 42 man/figures/lifecycle-stable.svg | 58 man/figures/lifecycle-superseded.svg | 42 man/filter_ard_hierarchical.Rd | 338 +- man/get_ard_statistics.Rd | 84 man/label_round.Rd | 64 man/maximum_variable_value.Rd | 49 man/mock.Rd | 170 - man/nest_for_ard.Rd | 146 - man/print.card.Rd | 114 man/print_ard_conditions.Rd | 58 man/process_selectors.Rd | 320 +- man/reexports.Rd | 55 man/rename_ard_columns.Rd | 122 man/rename_ard_groups.Rd | 70 man/replace_null_statistic.Rd | 74 man/round5.Rd | 68 man/selectors.Rd | 92 man/sort_ard_hierarchical.Rd | 158 - man/summary_functions.Rd | 84 man/syntax.Rd | 142 - man/tidy_ard_order.Rd | 88 man/tidy_as_ard.Rd | 160 - man/unlist_ard_columns.Rd | 96 man/update_ard.Rd | 150 - tests/testthat.R | 24 tests/testthat/_snaps/add_calculated_row.md | 121 tests/testthat/_snaps/apply_fmt_fun.md | 138 tests/testthat/_snaps/ard_formals.md | 48 tests/testthat/_snaps/ard_hierarchical.md | 208 - tests/testthat/_snaps/ard_stack.md | 155 - tests/testthat/_snaps/ard_stack_hierarchical.md | 377 +- tests/testthat/_snaps/ard_strata.md | 179 - tests/testthat/_snaps/ard_summary.md | 326 +- tests/testthat/_snaps/ard_tabulate.md | 545 +++ tests/testthat/_snaps/ard_tabulate_rows.md | 27 tests/testthat/_snaps/as_card.md | 56 tests/testthat/_snaps/bind_ard.md | 187 - tests/testthat/_snaps/diff_ard_hierarchical.md |only tests/testthat/_snaps/filter_ard_hierarchical.md | 205 - tests/testthat/_snaps/mock.md | 313 +- tests/testthat/_snaps/print.md | 266 + tests/testthat/_snaps/rename_ard_groups.md | 71 tests/testthat/_snaps/sort_ard_hierarchical.md | 213 - tests/testthat/_snaps/tidy_ard_row_order.md | 46 tests/testthat/_snaps/update_ard.md | 186 - tests/testthat/test-add_calculated_row.R | 76 tests/testthat/test-apply_fmt_fun.R | 274 - 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Title: Bridging Data Frequencies for Timely Economic Forecasts
Description: Implements bridge and MIDAS-style mixed-frequency models for
nowcasting and forecasting macroeconomic variables by linking
higher-frequency indicator variables to a lower-frequency target series.
The package standardizes input data, infers regular frequencies,
forecasts missing indicator observations, and aggregates indicators to
the target frequency before fitting a regression with autoregressive
target dynamics. Frequency alignment can be customized through
user-supplied conversion rules. For more on bridge and MIDAS models, see
Baffigi, A., Golinelli, R., & Parigi, G. (2004)
<doi:10.1016/S0169-2070(03)00067-0>, Ghysels, Sinko, & Valkanov (2007)
<doi:10.1080/07474930600972467>, Andreou, Ghysels, & Kourtellos (2010)
<doi:10.1016/j.jeconom.2010.01.004>, Schumacher (2016)
<doi:10.1016/j.ijforecast.2015.07.004>, and Burri (2026)
<doi:10.1111/obes.70073>.
Author: Marc Burri [aut, cre, cph]
Maintainer: Marc Burri <marc.burri91@gmail.com>
Diff between bridgr versions 0.1.2 dated 2026-02-18 and 1.0.0 dated 2026-08-21
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Title: Bayesian Prevalence-Incidence Mixture Model
Description: Models time-to-event data from interval-censored
screening studies. It accounts for latent prevalence at baseline and
incorporates misclassification due to imperfect test sensitivity. For usage
details, see the package vignette "BayesPIM_intro". Further details can be
found in Klausch, Lissenberg-Witte and Coupé (2026)
<doi:10.1002/sim.70433>.
Author: Thomas Klausch [aut, cre]
Maintainer: Thomas Klausch <t.klausch@amsterdamumc.nl>
Diff between BayesPIM versions 1.0.1 dated 2026-05-08 and 2.0 dated 2026-08-21
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Title: Automatic Database Normalisation for Data Frames
Description: Automatic normalisation of a data frame to third normal form, with
the intention of easing the process of data cleaning. (Usage to design your
actual database for you is not advised.)
Originally inspired by the 'AutoNormalize' library for 'Python' by 'Alteryx'
(<https://github.com/alteryx/autonormalize>), with various changes and
improvements. Automatic discovery of functional or approximate dependencies,
normalisation based on those, and plotting of the resulting "database" via
'Graphviz', with options to exclude some attributes at discovery time, or
remove discovered dependencies at normalisation time.
Author: Mark Webster [aut, cre]
Maintainer: Mark Webster <markwebster204@yahoo.co.uk>
Diff between autodb versions 3.3.0 dated 2026-08-03 and 3.3.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 52 +- NEWS.md | 494 +++++++++++++-------------- R/database.r | 21 - R/join.r | 2 build/vignette.rds |binary inst/doc/autodb.html | 43 +- inst/doc/limits.html | 29 - inst/doc/nest.html | 17 inst/doc/nudge.html | 57 +-- inst/doc/null.html | 21 - inst/doc/plans.html | 37 -- man/add_lookup.Rd | 108 ++--- man/autodb-package.Rd | 5 man/autodb.Rd | 2 man/autokey.Rd | 118 +++--- man/discover.Rd | 2 man/discover_keys.Rd | 196 +++++----- man/records.Rd | 108 ++--- man/remove_extraneous.Rd | 82 ++-- tests/testthat/helper.r | 127 +++++- tests/testthat/setup.r | 9 tests/testthat/test-database.r | 150 ++++++-- tests/testthat/test-helper.r | 57 ++- tests/testthat/test-join.r | 84 +++- tests/testthat/test-rejoin.r | 33 + tests/testthat/test-shared_class_functions.r | 4 27 files changed, 1093 insertions(+), 773 deletions(-)
Title: Noncompartmental Analysis for Pharmacokinetic Data
Description: Conduct a noncompartmental analysis with industrial strength.
Some features are
1) Use of CDISC SDTM terms
2) Automatic or manual slope selection
3) Supporting both 'linear-up linear-down' and 'linear-up log-down' method
4) Interval(partial) AUCs with 'linear' or 'log' interpolation method
5) Installation/Operational Qualification (IQ/OQ) reports in pdf.
After installation, qualify the package in your own environment:
run IQNCA() for Installation Qualification and OQNCA() for Operational
Qualification. Run writeMD5NCA() once after installation so the IQ
file-integrity check passes. To approve a report, sign it digitally in
Adobe Acrobat Reader (generate with sigField=TRUE, or run
addSigFieldNCA(), to add click-to-sign fields), instead of printing and
scanning; or use signPDFNCA()/verifyPDFNCA() for a scriptable signature.
* Reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107).
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between NonCompart versions 0.8.2 dated 2026-07-20 and 0.8.3 dated 2026-08-21
DESCRIPTION | 9 - MD5 | 25 ++- R/BestSlope.R | 26 +++ R/OQNCA.R | 78 ++++++++++- R/PQNCA.R | 109 +++++++++++++--- R/Slope.R | 6 R/Unit.R | 14 +- R/sNCA.R | 27 ++- R/tblNCA.R | 21 ++- inst/NEWS.Rd | 18 ++ inst/OQ/Reference_Analytic_BLQ_Extravascular_Linear.csv |only man/OQNCA.Rd | 28 +++- tests/Test-BestSlope.R |only tests/Test-PQNCA.R |only tests/Test-TLAG.R |only tests/Test-UsePoints.R |only 16 files changed, 291 insertions(+), 70 deletions(-)
Title: Multivariate Ordinal Regression Models
Description: A flexible framework for fitting multivariate
ordinal regression models with composite likelihood methods. Methodological details are given in Hirk, Hornik, Vana (2020) <doi:10.18637/jss.v093.i04>.
Author: Rainer Hirk [aut],
Kurt Hornik [aut] ,
Laura Vana [aut, cre] ,
Alan Gentz [ctb]
Maintainer: Laura Vana <laura.vana@tuwien.ac.at>
Diff between mvord versions 1.2.6 dated 2025-06-02 and 1.2.7 dated 2026-08-21
DESCRIPTION | 10 ++--- MD5 | 20 +++++------ NAMESPACE | 74 +++++++++++++++++++++++------------------- NEWS | 5 ++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/vignette_mvord.R | 2 - inst/doc/vignette_mvord.pdf |binary inst/doc/vignette_mvord2.html | 38 ++++++++++----------- tests/check_toy_example.R | 3 - vignettes/mvord.bib | 8 ++-- 11 files changed, 84 insertions(+), 76 deletions(-)
Title: Hydrologic Geospatial Fabric Extraction Tool Chain
Description: Traverses and works with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'hydrogeofetch' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>. Previously published as 'nhdplusTools'.
Author: David Blodgett [aut, cre] ,
Mike Johnson [ctb] ,
Marc Weber [ctb] ,
Josh Erickson [ctb],
Lauren Koenig [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between hydrogeofetch versions 2.0.0 dated 2026-08-20 and 2.0.1 dated 2026-08-21
DESCRIPTION | 6 ++--- MD5 | 26 ++++++++++++------------- NEWS.md | 17 ++++++++++++++++ R/arcrest_tools.R | 14 ++++--------- R/discover_nhdplus.R | 5 +++- R/downloading_tools.R | 18 +++++++++++++++++ R/get_oaproc.R | 27 ++++++++++++++++++-------- R/oafeat_tools.R | 2 - README.md | 34 ++++++++++++++++++--------------- tests/testthat/fixtures.tar.gz |binary tests/testthat/helper.R | 13 +++++++++--- tests/testthat/test_01_get_nldi.R | 7 ++++++ tests/testthat/test_02_subset.R | 5 ---- tests/testthat/test_03_get_functions.R | 26 ++++++++++++++++++++++++- 14 files changed, 141 insertions(+), 59 deletions(-)
Title: A Test Environment for HTTP Requests
Description: Testing and documenting code that communicates with remote servers
can be painful. Dealing with authentication, server state,
and other complications can make testing seem too costly to
bother with. But it doesn't need to be that hard. This package enables one
to test all of the logic on the R sides of the API in your package without
requiring access to the remote service. Importantly, it provides three
contexts that mock the network connection in different ways, as well as
testing functions to assert that HTTP requests were---or were
not---made. It also allows one to safely record real API responses to use as
test fixtures. The ability to save responses and load them offline also
enables one to write vignettes and other dynamic documents that can be
distributed without access to a live server.
Author: Neal Richardson [aut, cre] ,
Jonathan Keane [ctb],
Maelle Salmon [ctb]
Maintainer: Neal Richardson <neal.p.richardson@gmail.com>
Diff between httptest versions 4.2.3 dated 2025-11-15 and 4.2.4 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 3 +++ R/content-type.R | 2 +- R/fake-http.R | 2 +- build/vignette.rds |binary tests/testthat/example.com/html.R | 8 ++++---- tests/testthat/httpbin.org/response-headers-b8a5cc.R | 12 ++++++------ tests/testthat/httpbin.org/status/204.R | 12 ++++++------ tests/testthat/test-expect-header.R | 11 ----------- 10 files changed, 33 insertions(+), 41 deletions(-)
Title: Quantifying and Monetizing Health Impacts Attributable to
Exposure
Description: This R package has been developed with a focus on air pollution and noise but can be applied to other exposures. The initial development has been funded by the European Union project BEST-COST. Disclaimer: It is work in progress and the developers are not liable for any calculation errors or inaccuracies resulting from the use of this package.
Selection of relevant references (in chronological order):
WHO (2003) <https://www.who.int/publications/i/item/9241546204>,
Murray et al. (2003) <doi:10.1186/1478-7954-1-1>,
Miller & Hurley (2003) <doi:10.1136/jech.57.3.200>,
Steenland & Armstrong (2006) <doi:10.1097/01.ede.0000229155.05644.43>,
WHO (2011) <https://iris.who.int/items/723ab97c-5c33-4e3b-8df1-744aa5bc1c27>,
GBD 2019 Risk Factors Collaborators (2020) <doi:10.1016/S0140-6736(20)30752-2>.
Author: Alberto Castro [cre, aut] ,
Axel Luyten [aut] ,
Arno Pauwels [ctb] ,
Liliana Vazquez Fernandez [ctb] ,
Gianni Ardielli [ctb] ,
Iracy Pimenta [ctb] ,
Susanne Breitner [ctb] ,
Carl Baravelli [ctb] ,
Vanessa Gorasso [ctb] ,
Maria Lepnurm [ctb] ,
Andreia [...truncated...]
Maintainer: Alberto Castro <alberto.castrofernandez@swisstph.ch>
Diff between healthiar versions 0.2.4 dated 2026-03-12 and 0.2.5 dated 2026-08-21
DESCRIPTION | 22 MD5 | 85 NEWS.md | 43 R/attribute_lifetable.R | 16 R/attribute_master.R | 8 R/get_impact.R | 4 R/get_impact_with_lifetable.R | 78 R/get_paf.R | 2 R/get_risk.R | 76 R/monetize.R | 4 R/prepare_exposure.R | 4 R/prepare_lifetable.R | 130 R/socialize.R | 9 R/validate_input_attribute.R | 66 R/zzz_global_variables.R | 175 - README.md | 47 build/partial.rdb |binary inst/CITATION | 36 inst/REFERENCES.bib | 9 inst/doc/intro_to_healthiar.R | 42 inst/doc/intro_to_healthiar.Rmd | 181 - inst/doc/intro_to_healthiar.html | 4225 +++------------------------- man/attribute_health.Rd | 2 man/attribute_lifetable.Rd | 22 man/attribute_master.Rd | 8 man/attribute_mod.Rd | 4 man/cba.Rd | 2 man/discount.Rd | 2 man/get_risk.Rd | 2 man/healthiar-package.Rd | 8 man/monetize.Rd | 4 man/prepare_lifetable.Rd | 15 tests/testthat/test-attribute_health.R | 229 - tests/testthat/test-attribute_lifetable.R | 202 + tests/testthat/test-discount.R | 2 tests/testthat/test-get_paf.R |only tests/testthat/test-get_risk.R | 16 tests/testthat/test-monetize.R | 4 tests/testthat/test-multiexpose.R | 16 tests/testthat/test-prepare_lifetable.R | 98 tests/testthat/test-socialize.R | 2 tests/testthat/test-standardize.R | 2 tests/testthat/test-summarize_uncertainty.R | 24 vignettes/intro_to_healthiar.Rmd | 181 - 44 files changed, 1777 insertions(+), 4330 deletions(-)
More information about gpciLindleyApprox at CRAN
Permanent link
More information about gpcihybridIImcmc at CRAN
Permanent link
More information about gpcihybridIILinApp at CRAN
Permanent link
More information about gpcihybridIIImpSam at CRAN
Permanent link
More information about gpcihybridIIEM at CRAN
Permanent link
Title: 'GGML' Tensor Operations for Machine Learning
Description: Provides 'R' bindings to the 'GGML' tensor library for machine
learning, optimized for 'Vulkan' GPU acceleration with a transparent CPU
fallback. The package features a 'Keras'-like sequential API and a
'PyTorch'-style 'autograd' engine for building, training, and deploying
neural networks. Key capabilities include high-performance 5D tensor
operations, 'f16' precision, and efficient quantization. It supports
native 'ONNX' model import (50+ operators) and 'GGUF' weight loading
from the 'llama.cpp' and 'Hugging Face' ecosystems. Designed for
zero-overhead inference via dedicated weight buffering, it integrates
seamlessly as a 'parsnip' engine for 'tidymodels' and provides
first-class learners for the 'mlr3' framework.
See <https://github.com/ggml-org/ggml> for more information about the
underlying library.
Author: Yuri Baramykov [aut, cre] ,
Georgi Gerganov [ctb, cph] ,
Jeffrey Quesnelle [ctb, cph] ,
Bowen Peng [ctb, cph] ,
Mozilla Foundation [ctb, cph]
Maintainer: Yuri Baramykov <lbsbmsu@mail.ru>
Diff between ggmlR versions 0.8.2 dated 2026-07-22 and 0.8.4 dated 2026-08-21
DESCRIPTION | 8 MD5 | 591 ++-- NAMESPACE | 95 NEWS.md | 20 R/ag_layers.R | 145 + R/ag_save.R | 88 R/ag_training.R | 503 +++- R/backend.R | 77 R/backend_ops_test.R |only R/custom_ops.R |only R/graph.R | 257 ++ R/keras_api.R | 90 R/nn_functional.R | 1502 +++++++++++- R/nn_layers.R | 271 +- R/nn_model.R | 481 +++ R/onnx.R | 178 + R/operations.R | 677 +++++ R/optimizer.R | 642 +++++ R/piece_transformer.R |only R/pth.R |only R/quants.R | 26 R/vulkan.R | 24 README.md | 214 + configure.win | 37 inst/doc/autograd-engine.R | 37 inst/doc/autograd-engine.Rmd | 45 inst/doc/autograd-engine.html | 259 +- inst/doc/gpu-vulkan.R | 10 inst/doc/gpu-vulkan.Rmd | 16 inst/doc/gpu-vulkan.html | 128 - inst/doc/keras-like-api.R | 84 inst/doc/keras-like-api.Rmd | 145 + inst/doc/keras-like-api.html | 526 ++-- inst/examples/backward_gpu_demo.R |only inst/examples/batchnorm_running_stats.R |only inst/examples/functional_concatenate.R |only inst/examples/functional_custom_layer.R |only inst/examples/mamba_train_demo.R |only inst/examples/multi_gpu_example.R | 10 inst/examples/titanic_transformer_gpu.R |only man/GGML_N_TASKS_MAX.Rd |only man/ag_layer_norm.Rd |only man/ag_load_model.Rd | 16 man/check_grad_anomaly.Rd |only man/clip_grad_value.Rd |only man/compile.Rd | 7 man/dequantize_row_iq2_xxs.Rd | 2 man/dequantize_row_mxfp4.Rd | 2 man/dequantize_row_nvfp4.Rd | 2 man/dequantize_row_q1_0.Rd | 2 man/dequantize_row_q2_K.Rd | 2 man/dequantize_row_q4_0.Rd | 2 man/dequantize_row_tq1_0.Rd | 2 man/evaluate.Rd | 40 man/fit.Rd | 5 man/ggml_attention.Rd |only man/ggml_backend_buffer_clear.Rd | 6 man/ggml_backend_buffer_get_usage.Rd | 6 man/ggml_backend_buffer_is_host.Rd | 6 man/ggml_backend_buffer_is_multi_buffer.Rd | 6 man/ggml_backend_buffer_reset.Rd | 6 man/ggml_backend_buffer_set_usage.Rd | 6 man/ggml_backend_buffer_usage_any.Rd | 6 man/ggml_backend_buffer_usage_compute.Rd | 6 man/ggml_backend_buffer_usage_weights.Rd | 6 man/ggml_backend_buft_get_alignment.Rd |only man/ggml_backend_buft_get_max_size.Rd |only man/ggml_backend_buft_is_host.Rd |only man/ggml_backend_buft_name.Rd |only man/ggml_backend_dev_buffer_type.Rd |only man/ggml_backend_dev_by_name.Rd | 6 man/ggml_backend_dev_by_type.Rd | 6 man/ggml_backend_dev_count.Rd | 6 man/ggml_backend_dev_description.Rd | 6 man/ggml_backend_dev_get.Rd | 6 man/ggml_backend_dev_get_props.Rd | 6 man/ggml_backend_dev_host_buffer_type.Rd |only man/ggml_backend_dev_init.Rd | 6 man/ggml_backend_dev_memory.Rd | 6 man/ggml_backend_dev_name.Rd | 6 man/ggml_backend_dev_offload_op.Rd | 6 man/ggml_backend_dev_supports_buft.Rd | 6 man/ggml_backend_dev_supports_op.Rd | 6 man/ggml_backend_dev_type.Rd | 6 man/ggml_backend_device_register.Rd | 6 man/ggml_backend_device_type_accel.Rd | 6 man/ggml_backend_device_type_cpu.Rd | 6 man/ggml_backend_device_type_gpu.Rd | 6 man/ggml_backend_device_type_igpu.Rd | 6 man/ggml_backend_event_free.Rd | 6 man/ggml_backend_event_new.Rd | 6 man/ggml_backend_event_record.Rd | 6 man/ggml_backend_event_synchronize.Rd | 6 man/ggml_backend_event_wait.Rd | 6 man/ggml_backend_get_device.Rd | 6 man/ggml_backend_graph_compute_async.Rd | 6 man/ggml_backend_graph_plan_compute.Rd | 6 man/ggml_backend_graph_plan_create.Rd | 6 man/ggml_backend_graph_plan_free.Rd | 6 man/ggml_backend_init_best.Rd | 6 man/ggml_backend_init_by_name.Rd | 6 man/ggml_backend_init_by_type.Rd | 6 man/ggml_backend_load.Rd | 6 man/ggml_backend_load_all.Rd | 6 man/ggml_backend_meta_device.Rd | 6 man/ggml_backend_multi_buffer_alloc_buffer.Rd | 6 man/ggml_backend_multi_buffer_set_usage.Rd | 6 man/ggml_backend_reg_by_name.Rd | 6 man/ggml_backend_reg_count.Rd | 6 man/ggml_backend_reg_dev_count.Rd | 6 man/ggml_backend_reg_dev_get.Rd | 6 man/ggml_backend_reg_get.Rd | 6 man/ggml_backend_reg_name.Rd | 6 man/ggml_backend_register.Rd | 6 man/ggml_backend_sched_trace.Rd |only man/ggml_backend_synchronize.Rd | 6 man/ggml_backend_tensor_copy_async.Rd | 6 man/ggml_backend_tensor_get_async.Rd | 6 man/ggml_backend_tensor_set_async.Rd | 6 man/ggml_backend_unload.Rd | 6 man/ggml_build_backward_expand.Rd |only man/ggml_build_forward_expand_grads.Rd |only man/ggml_cast.Rd |only man/ggml_cast_numeric.Rd |only man/ggml_clamp.Rd | 17 man/ggml_compile.Rd | 32 man/ggml_conv_1d_layer.Rd |only man/ggml_conv_2d_layer.Rd |only man/ggml_cross_entropy_loss.Rd |only man/ggml_cross_entropy_loss_back.Rd |only man/ggml_cumsum.Rd |only man/ggml_custom.Rd |only man/ggml_custom_inplace.Rd |only man/ggml_custom_ops.Rd |only man/ggml_dense.Rd | 15 man/ggml_evaluate.Rd | 8 man/ggml_fit.Rd | 31 man/ggml_fit_opt.Rd | 24 man/ggml_fit_opt_multi.Rd |only man/ggml_flash_attn_ext_add_sinks.Rd |only man/ggml_flash_attn_ext_get_prec.Rd |only man/ggml_flash_attn_ext_set_prec.Rd |only man/ggml_gallocr_new_buft.Rd |only man/ggml_gated_linear_attn.Rd |only man/ggml_gated_linear_attn_back.Rd |only man/ggml_graph_add_node.Rd |only man/ggml_graph_clear.Rd |only man/ggml_graph_cpy.Rd |only man/ggml_graph_dup.Rd |only man/ggml_graph_expand.Rd |only man/ggml_graph_get_grad.Rd |only man/ggml_graph_reset.Rd | 17 man/ggml_layer_attention.Rd |only man/ggml_layer_conv_1d.Rd | 20 man/ggml_layer_conv_2d.Rd | 20 man/ggml_layer_custom.Rd |only man/ggml_layer_dense.Rd | 31 man/ggml_opt_alloc.Rd | 12 man/ggml_opt_context_optimizer_type.Rd | 12 man/ggml_opt_dataset_data.Rd | 12 man/ggml_opt_dataset_free.Rd | 12 man/ggml_opt_dataset_get_batch.Rd | 12 man/ggml_opt_dataset_get_batch_head.Rd |only man/ggml_opt_dataset_init.Rd | 12 man/ggml_opt_dataset_labels.Rd | 12 man/ggml_opt_dataset_ndata.Rd | 12 man/ggml_opt_dataset_shuffle.Rd | 12 man/ggml_opt_dataset_weights.Rd | 12 man/ggml_opt_default_params.Rd | 12 man/ggml_opt_epoch.Rd | 12 man/ggml_opt_eval.Rd | 12 man/ggml_opt_fit.Rd | 12 man/ggml_opt_fit_multi.Rd |only man/ggml_opt_free.Rd | 12 man/ggml_opt_get_lr.Rd | 12 man/ggml_opt_grad_acc.Rd | 12 man/ggml_opt_init.Rd | 12 man/ggml_opt_init_for_fit.Rd | 12 man/ggml_opt_init_for_fit_multi.Rd |only man/ggml_opt_inputs.Rd | 12 man/ggml_opt_labels.Rd | 12 man/ggml_opt_loss.Rd | 12 man/ggml_opt_loss_i.Rd |only man/ggml_opt_loss_type_binary_cross_entropy.Rd |only man/ggml_opt_loss_type_cross_entropy.Rd | 12 man/ggml_opt_loss_type_huber.Rd |only man/ggml_opt_loss_type_mae.Rd |only man/ggml_opt_loss_type_mean.Rd | 12 man/ggml_opt_loss_type_mse.Rd | 12 man/ggml_opt_loss_type_sum.Rd | 12 man/ggml_opt_loss_type_weighted_mse.Rd | 12 man/ggml_opt_n_loss.Rd |only man/ggml_opt_ncorrect.Rd | 12 man/ggml_opt_optimizer_name.Rd | 12 man/ggml_opt_optimizer_type_adamw.Rd | 12 man/ggml_opt_optimizer_type_sgd.Rd | 12 man/ggml_opt_outputs.Rd | 12 man/ggml_opt_outputs_i.Rd |only man/ggml_opt_pred.Rd | 12 man/ggml_opt_prepare_alloc.Rd | 12 man/ggml_opt_reset.Rd | 12 man/ggml_opt_result_accuracy.Rd | 12 man/ggml_opt_result_free.Rd | 12 man/ggml_opt_result_init.Rd | 12 man/ggml_opt_result_loss.Rd | 12 man/ggml_opt_result_loss_i.Rd |only man/ggml_opt_result_n_loss.Rd |only man/ggml_opt_result_ndata.Rd | 12 man/ggml_opt_result_pred.Rd | 12 man/ggml_opt_result_reset.Rd | 12 man/ggml_opt_set_lr.Rd | 12 man/ggml_opt_static_graphs.Rd | 12 man/ggml_quant_block_info.Rd | 2 man/ggml_rope_multi_back.Rd |only man/ggml_rwkv_output.Rd |only man/ggml_rwkv_wkv6.Rd |only man/ggml_rwkv_wkv6_back.Rd |only man/ggml_rwkv_wkv7.Rd |only man/ggml_rwkv_wkv7_back.Rd |only man/ggml_scale_bias.Rd |only man/ggml_set_loss.Rd |only man/ggml_set_param.Rd | 4 man/ggml_soft_max_add_sinks.Rd |only man/ggml_ssm_conv.Rd |only man/ggml_ssm_conv_back.Rd |only man/ggml_ssm_scan.Rd |only man/ggml_ssm_scan_back.Rd |only man/ggml_ssm_scan_output.Rd |only man/ggml_tensor_data_ptr.Rd |only man/ggml_test_adamw_steps.Rd |only man/ggml_test_backend_ops.Rd |only man/ggml_vulkan_status.Rd | 17 man/iq2xs_free_impl.Rd | 2 man/iq2xs_init_impl.Rd | 2 man/iq3xs_free_impl.Rd | 2 man/iq3xs_init_impl.Rd | 2 man/lr_scheduler_cosine.Rd | 25 man/lr_scheduler_cyclic.Rd |only man/lr_scheduler_onecycle.Rd |only man/lr_scheduler_warmup_cosine.Rd |only man/nn_bn_normalize_conv.Rd |only man/nn_build_batch_norm.Rd | 20 man/nn_build_conv_1d.Rd | 20 man/nn_build_functional_graph.Rd | 7 man/nn_build_graph.Rd | 2 man/nn_functional_graph_size.Rd |only man/nn_functional_weight_elements.Rd |only man/predict.ggml_sequential_model.Rd | 7 man/predict.onnx_model.Rd |only man/pt_cube4_layout.Rd |only man/pt_forward.Rd |only man/pt_transformer.Rd |only man/pt_transformer_load.Rd |only man/pth_catalogue.Rd |only man/pth_load.Rd |only man/quantize_iq2_xxs.Rd | 2 man/quantize_mxfp4.Rd | 2 man/quantize_nvfp4.Rd | 2 man/quantize_q1_0.Rd | 2 man/quantize_q2_K.Rd | 2 man/quantize_q4_0.Rd | 2 man/quantize_row_iq3_xxs_ref.Rd | 2 man/quantize_row_mxfp4_ref.Rd | 2 man/quantize_row_nvfp4_ref.Rd |only man/quantize_row_q1_0_ref.Rd |only man/quantize_row_q2_K_ref.Rd | 2 man/quantize_row_q4_0_ref.Rd | 2 man/quantize_row_tq1_0_ref.Rd | 2 man/quantize_tq1_0.Rd | 2 man/reexports.Rd | 3 src/Makevars.in | 7 src/Makevars.win.in | 18 src/ggml-core.c | 16 src/ggml-cpu/common.h | 2 src/ggml-cpu/ggml-cpu-backend.c | 25 src/ggml-cpu/ggml-cpu-impl.h | 4 src/ggml-cpu/ops-recurrent.cpp | 636 ++++- src/ggml-cpu/ops-ssm.cpp | 335 ++ src/ggml-cpu/ops.h | 5 src/ggml-cpu/simd-gemm.h | 6 src/ggml-cpu/vec.cpp | 1 src/ggml-graph.c | 297 ++ src/ggml-impl.h | 30 src/ggml-ops-builders.c | 261 ++ src/ggml-opt.cpp | 971 ++++++- src/ggml-opt.h | 103 src/ggml-quants-helpers.h | 12 src/ggml-vulkan/ggml-vulkan-attn.cpp | 30 src/ggml-vulkan/ggml-vulkan-device.cpp | 65 src/ggml-vulkan/ggml-vulkan-elemwise.cpp | 211 + src/ggml-vulkan/ggml-vulkan-graph.cpp | 138 + src/ggml-vulkan/ggml-vulkan-matmul.cpp | 16 src/ggml-vulkan/ggml-vulkan-shaders.cpp | 36 src/ggml-vulkan/vulkan-shaders/cross_entropy_loss_back.comp |only src/ggml-vulkan/vulkan-shaders/out_prod.comp |only src/ggml-vulkan/vulkan-shaders/ssm_conv_back.comp |only src/ggml-vulkan/vulkan-shaders/ssm_scan_back.comp |only src/ggml-vulkan/vulkan-shaders/vulkan-shaders-gen.cpp | 9 src/ggml.h | 66 src/gguf.cpp | 2 src/onnx/onnx_ops_tensor.c | 6 src/r_backend_ops_test.cpp |only src/r_custom_kernels.c |only src/r_interface.c | 118 src/r_interface_backend.c | 123 src/r_interface_custom.c |only src/r_interface_gguf.c | 11 src/r_interface_graph.c | 525 +++- src/r_interface_opt.c | 518 +++- src/r_interface_scheduler.c | 115 src/r_interface_vulkan.c | 3 src/r_ptr_check.h |only src/r_sched_threads.h |only src/r_umap_sgd.c | 1 tests/testthat.R | 25 tests/testthat/test-adamw-momenta-backend.R |only tests/testthat/test-ag-clip-sched.R |only tests/testthat/test-ag-layer-norm.R |only tests/testthat/test-ag-save.R | 90 tests/testthat/test-backend-ops-diff.R |only tests/testthat/test-batchnorm-conv.R |only tests/testthat/test-callbacks.R | 19 tests/testthat/test-ce-logits.R |only tests/testthat/test-chain-sequential-batchnorm.R | 176 + tests/testthat/test-compile-validation.R |only tests/testthat/test-conv-transpose-numeric.R | 4 tests/testthat/test-conv2d-cpu-gpu.R | 2 tests/testthat/test-conv2d-dw-numeric.R | 2 tests/testthat/test-conv2d-numeric.R | 2 tests/testthat/test-custom-ops.R |only tests/testthat/test-fit-opt.R |only tests/testthat/test-flash-attn-q4k.R | 4 tests/testthat/test-flash-attn-quants.R | 2 tests/testthat/test-functional-shared-layers.R | 66 tests/testthat/test-getrows-offload-vulkan.R | 7 tests/testthat/test-graph-autodiff.R |only tests/testthat/test-keras-api.R | 157 + tests/testthat/test-new-ops-numeric.R | 2 tests/testthat/test-nn-attention.R |only tests/testthat/test-nn-functional-batch1.R |only tests/testthat/test-nn-functional.R | 197 + tests/testthat/test-nn-losses.R |only tests/testthat/test-nn-multi-output.R |only tests/testthat/test-nn-sequential.R | 53 tests/testthat/test-nn-shape-boundaries.R |only tests/testthat/test-onnx-predict.R |only tests/testthat/test-onnx-reshape-zero-dim.R |only tests/testthat/test-out-prod-cpu-gpu.R |only tests/testthat/test-predict-multibatch-vulkan.R |only tests/testthat/test-q4k-matmul-vulkan.R | 2 tests/testthat/test-shuffle.R |only tests/testthat/test-ssm-conv-back-cpu-gpu.R |only tests/testthat/test-ssm-rwkv.R |only tests/testthat/test-ssm-scan-back-cpu-gpu.R |only tests/testthat/test-uncovered-exports.R |only tests/testthat/test-vulkan.R | 18 vignettes/autograd-engine.Rmd | 45 vignettes/gpu-vulkan.Rmd | 16 vignettes/keras-like-api.Rmd | 145 + 359 files changed, 12895 insertions(+), 1353 deletions(-)
Title: Fast and Flexible Implementations of Exploratory Factor Analysis
Tools
Description: Provides a complete workflow for exploratory factor analysis
(EFA). It covers data screening and factorability checks, a suite of
factor retention criteria for choosing the number of factors, and factor
extraction by principal axis factoring, maximum likelihood, unweighted
least squares, or diagonally weighted least squares from Pearson,
Spearman, Kendall, polychoric, tetrachoric, or two-stage
full-information maximum likelihood correlations. A built-in rotation
engine offers a range of orthogonal and oblique rotations, and standard
errors for loadings and related quantities can be obtained by analytic,
robust, or bootstrap methods. Further tools support model averaging
across analytic choices, multigroup EFA with factor congruence, EFA on
multiply imputed data, Schmid-Leiman transformation, reliability
coefficients (including McDonald's omegas), factor score estimation,
data simulation, and power analysis. Computationally intensive
procedures are implemented in 'C++' for speed.
Author: Markus Steiner [aut, cre] ,
Silvia Steiner [aut] ,
William Revelle [ctb],
Max Auerswald [ctb],
Morten Moshagen [ctb],
John Ruscio [ctb],
Brendan Roche [ctb],
Urbano Lorenzo-Seva [ctb],
David Navarro-Gonzalez [ctb],
Johan Braeken [ctb],
Andreas Soteri [...truncated...]
Maintainer: Markus Steiner <markus.d.steiner@gmail.com>
This is a re-admission after prior archival of version 1.0.0 dated 2026-07-23
Diff between EFAtools versions 1.0.0 dated 2026-07-23 and 1.1.0 dated 2026-08-21
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EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA.R | 1754 ++- EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA_POOLED-cfi-scale.R | 241 EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA_POOLED-mi2s.R | 59 EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA_POOLED-routing.R | 32 EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA_POOLED-rubin-rotated.R | 152 EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA_POOLED-rubin-unrot-procrustes.R | 771 - EFAtools-1.1.0/EFAtools/tests/testthat/test-EFA_POOLED-rubin-unrot.R | 763 - EFAtools-1.1.0/EFAtools/tests/testthat/test-ML.R | 17 EFAtools-1.1.0/EFAtools/tests/testthat/test-OMEGA.R | 22 EFAtools-1.1.0/EFAtools/tests/testthat/test-OMEGA_helper.R | 253 EFAtools-1.1.0/EFAtools/tests/testthat/test-PAF.R | 107 EFAtools-1.1.0/EFAtools/tests/testthat/test-ROTATE_OBLQ.R | 262 EFAtools-1.1.0/EFAtools/tests/testthat/test-ROTATE_ORTH.R | 112 EFAtools-1.1.0/EFAtools/tests/testthat/test-RcppExports.R | 47 EFAtools-1.1.0/EFAtools/tests/testthat/test-ULS.R | 58 EFAtools-1.1.0/EFAtools/tests/testthat/test-VARIMAX.R | 52 EFAtools-1.1.0/EFAtools/tests/testthat/test-array-reorder.R |only EFAtools-1.1.0/EFAtools/tests/testthat/test-average-values.R |only EFAtools-1.1.0/EFAtools/tests/testthat/test-control.R | 43 EFAtools-1.1.0/EFAtools/tests/testthat/test-cor-method-poly.R | 879 + EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_average-fiml.R | 183 EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_average-grid.R | 667 + EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_average.R | 1780 ++- EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_bartlett.R | 29 EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_cd.R | 144 EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_compare.R | 326 EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_ekc.R | 157 EFAtools-1.1.0/EFAtools/tests/testthat/test-efa_group.R | 471 - 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EFAtools-1.1.0/EFAtools/tests/testthat/test-fiml-moments.R | 448 EFAtools-1.1.0/EFAtools/tests/testthat/test-fit-indices.R |only EFAtools-1.1.0/EFAtools/tests/testthat/test-format-loadings.R | 278 EFAtools-1.1.0/EFAtools/tests/testthat/test-helper.R | 1059 -- EFAtools-1.1.0/EFAtools/tests/testthat/test-match-arg-ci.R | 243 EFAtools-1.1.0/EFAtools/tests/testthat/test-plot-retention.R | 54 EFAtools-1.1.0/EFAtools/tests/testthat/test-polychoric.R | 611 + EFAtools-1.1.0/EFAtools/tests/testthat/test-prepare_cor_input.R | 362 EFAtools-1.1.0/EFAtools/tests/testthat/test-presets.R | 24 EFAtools-1.1.0/EFAtools/tests/testthat/test-regression-estimators.R | 638 - EFAtools-1.1.0/EFAtools/tests/testthat/test-regression-rotations.R | 154 EFAtools-1.1.0/EFAtools/tests/testthat/test-regression-spss.R |only EFAtools-1.1.0/EFAtools/tests/testthat/test-reliability_adapters.R | 221 EFAtools-1.1.0/EFAtools/tests/testthat/test-reliability_core.R | 169 EFAtools-1.1.0/EFAtools/tests/testthat/test-reliability_result.R | 90 EFAtools-1.1.0/EFAtools/tests/testthat/test-retention-controls.R | 64 EFAtools-1.1.0/EFAtools/tests/testthat/test-se-information.R | 106 EFAtools-1.1.0/EFAtools/tests/testthat/test-se-sandwich.R | 162 EFAtools-1.1.0/EFAtools/tests/testthat/test-snapshots.R | 289 EFAtools-1.1.0/EFAtools/tests/testthat/test-superseded.R | 1855 ++-- EFAtools-1.1.0/EFAtools/vignettes/EFAtools.Rmd | 111 EFAtools-1.1.0/EFAtools/vignettes/Migrating_to_efa.Rmd | 424 EFAtools-1.1.0/EFAtools/vignettes/Ordinal_and_missing_data.Rmd | 174 303 files changed, 44437 insertions(+), 30772 deletions(-)
Title: Density Estimation with Semidefinite Programming
Description: The models of probability density functions are Gaussian or
exponential distributions with polynomial correction terms.
Using a maximum likelihood method, 'dsdp' computes parameters of Gaussian
or exponential distributions together with degrees of polynomials by
a grid search, and coefficient of polynomials by a variant of semidefinite
programming. It adopts Akaike Information Criterion for model selection.
See a vignette for a tutorial and more on our 'Github' repository
<https://github.com/tsuchiya-lab/dsdp/>.
Author: Satoshi Kakihara [aut, cre],
Takashi Tsuchiya [aut]
Maintainer: Satoshi Kakihara <skakihara@gmail.com>
This is a re-admission after prior archival of version 0.1.1-1 dated 2026-04-15
Diff between dsdp versions 0.1.1-1 dated 2026-04-15 and 0.1.2 dated 2026-08-21
DESCRIPTION | 6 MD5 |only NEWS.md | 5 R/auxiliaries.r | 410 +++++------ R/common.r | 248 +++---- R/dataset.r | 204 ++--- R/expmodel.r | 1710 ++++++++++++++++++++++++------------------------- README.md | 112 +-- build/vignette.rds |binary inst/doc/Tutorial.Rmd | 1120 ++++++++++++++++---------------- inst/doc/Tutorial.pdf |binary src/Makevars | 4 src/slatec/dgamit.f | 2 src/slatec/xermsg.f | 2 src/slatec/xerprn.f | 2 src/slatec/xersve.f | 2 vignettes/Tutorial.Rmd | 1120 ++++++++++++++++---------------- 17 files changed, 2478 insertions(+), 2469 deletions(-)
Title: Baseline Functions for Actigraphy and Activity Processing and
Analysis
Description: Provides baseline functions for actigraphy and activity data.
This package is intended to be extended by downstream overlays such as
'actiread', 'actimetrics', and 'stepcount'.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between actibase versions 0.3.0 dated 2026-07-15 and 0.5.0 dated 2026-08-21
DESCRIPTION | 9 +++++---- MD5 | 28 ++++++++++++++-------------- NAMESPACE | 2 ++ NEWS.md | 5 +++++ R/acti_fill_zeros.R | 31 +++++++++++++++++++++++++++++++ R/get_dynamic_range.R | 11 +++++++++-- R/get_sample_rate.R | 21 +++++++++++++++++++-- R/tidy_axes.R | 8 +++++++- man/acti_fill_zeros.Rd | 6 ++++++ man/acti_standardize_data.Rd | 4 ++++ man/get_dynamic_range.Rd | 5 ++++- man/get_sample_rate.Rd | 5 ++++- tests/testthat/test-baseline.R | 28 ++++++++++++++++++++++++++-- tests/testthat/test-flag-helpers.R | 5 +++-- tests/testthat/test-new-helpers.R | 1 + 15 files changed, 140 insertions(+), 29 deletions(-)
Title: Plot 'rpart' Models: An Enhanced Version of 'plot.rpart'
Description: Plot 'rpart' models. Extends plot.rpart() and text.rpart()
in the 'rpart' package.
Author: Stephen Milborrow [aut, cre]
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between rpart.plot versions 3.1.4 dated 2026-01-08 and 3.1.5 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ inst/doc/prp.pdf |binary inst/slowtests/test.rpart.plot.Rout.save | 10 +++++----- 5 files changed, 16 insertions(+), 12 deletions(-)
Title: Plot a Model's Residuals, Response, and Partial Dependence Plots
Description: Plot model surfaces for a wide variety of models
using partial dependence plots and other techniques.
Also plot model residuals and other information on the model.
Author: Stephen Milborrow [aut, cre]
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between plotmo versions 3.7.0 dated 2026-01-09 and 3.7.1 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ README.md | 2 +- inst/doc/modguide.pdf |binary inst/doc/plotmo-notes.pdf |binary inst/doc/plotres-notes.pdf |binary 7 files changed, 15 insertions(+), 11 deletions(-)
Title: Classes and Methods for Training and Using Binary Prediction
Models
Description: Defines classes and methods to learn models and use them
to predict binary outcomes. These are generic tools, but we also
include specific examples for many common classifiers.
Author: Kevin R. Coombes [aut, cre]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between Modeler versions 3.4.9 dated 2025-05-27 and 3.4.10 dated 2026-08-21
Modeler-3.4.10/Modeler/DESCRIPTION | 8 ++++---- Modeler-3.4.10/Modeler/MD5 | 10 +++++----- Modeler-3.4.10/Modeler/build/vignette.rds |binary Modeler-3.4.10/Modeler/inst/doc/Modeler.R | 2 -- Modeler-3.4.10/Modeler/inst/doc/Modeler.pdf |binary Modeler-3.4.10/Modeler/inst/moreModels/t00-pruner.Rout.save |only Modeler-3.4.9/Modeler/tests/t00-pruner.Rout.save |only 7 files changed, 9 insertions(+), 11 deletions(-)
Title: Data Sets Useful for Modeling Examples
Description: Data sets used for demonstrating or testing model-related
packages are contained in this package.
Author: Max Kuhn [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Max Kuhn <max@posit.co>
Diff between modeldata versions 1.5.1 dated 2025-08-22 and 1.6.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 19 +++++++++++-------- NEWS.md | 4 ++++ R/cls_data_2026.R |only build/partial.rdb |binary data/cls_data_2026.rda |only man/Chicago.Rd | 2 +- man/Sacramento.Rd | 2 +- man/cells.Rd | 2 +- man/cls_data_2026.Rd |only man/modeldata-package.Rd | 7 ++++++- man/sim_classification.Rd | 2 +- 12 files changed, 29 insertions(+), 17 deletions(-)
Title: Classifications for Statistics Norway
Description: Functions to search, retrieve, apply and update classification
standards and code lists using Statistics Norway's API
<https://www.ssb.no/klass> from the system 'KLASS'. Retrieves classifications
by date with options to choose language, hierarchical level and formatting.
Author: Susie Jentoft [aut],
Diana-Cristina Iancu [aut],
Lisa Li [aut],
Oeyvind I. Berntsen [aut, cre],
Statistics Norway [cph]
Maintainer: Oeyvind I. Berntsen <Oyvind.Berntsen@ssb.no>
Diff between klassR versions 1.0.6 dated 2026-06-16 and 1.0.7 dated 2026-08-21
DESCRIPTION | 6 MD5 | 23 +- R/Hent_data.R | 299 +++++++++++++++++++++++++++----------- R/data.R | 12 + data/api_endringer_1963.RData |only data/api_endringer_2019.RData |only data/klass_131_1964_graph.RData |binary data/klass_131_2020_graph.RData |binary data/klass_131_graph.RData |binary data/klassdata.RData |binary man/api_endringer_1963.Rd |only man/api_endringer_2019.Rd |only tests/testthat/_snaps |only tests/testthat/test-UpdateKlass.R | 52 +----- tests/testthat/test_GetKlass.R | 57 ++++--- 15 files changed, 289 insertions(+), 160 deletions(-)
Title: Inequality Constrained Inference in Linear Normal Situations
Description: Implements inequality constrained inference. This includes parameter estimation in normal (linear) models under linear equality and inequality constraints, as well as normal likelihood ratio tests involving inequality-constrained hypotheses. For inequality-constrained linear models, averaging over R-squared for different orderings of regressors is also included.
Author: Ulrike Groemping [aut, cre]
Maintainer: Ulrike Groemping <ulrike.groemping@bht-berlin.de>
Diff between ic.infer versions 1.1-7 dated 2023-10-04 and 1.1-8 dated 2026-08-21
DESCRIPTION | 16 ++++++++++------ MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/NEWS | 10 +++++++--- inst/doc/ic.infer.R | 5 ++--- inst/doc/ic.infer.pdf |binary inst/doc/ic.infer.rnw | 7 ++++--- vignettes/ic.infer.rnw | 7 ++++--- vignettes/quellen.bib | 24 ++++++++++++------------ 9 files changed, 47 insertions(+), 38 deletions(-)
Title: Generalized Linear Mixed Model Trees
Description: Recursive partitioning based on (generalized) linear mixed models
(GLMMs) combining lmer()/glmer() from 'lme4' and lmtree()/glmtree() from
'partykit'. The fitting algorithm is described in more detail in Fokkema,
Smits, Zeileis, Hothorn & Kelderman (2018; <DOI:10.3758/s13428-017-0971-x>).
For detecting and modeling subgroups in growth curves with GLMM trees see
Fokkema & Zeileis (2024; <DOI:10.3758/s13428-024-02389-1>).
Author: Marjolein Fokkema [aut, cre] ,
Achim Zeileis [aut]
Maintainer: Marjolein Fokkema <M.Fokkema@fsw.leidenuniv.nl>
Diff between glmertree versions 0.2-6 dated 2024-11-04 and 0.2-7 dated 2026-08-21
DESCRIPTION | 16 +- MD5 | 18 +- NEWS.md | 7 R/glmertree.R | 356 +++++++++++++++++++++++++++++------------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/glmertree.Rnw | 4 inst/doc/glmertree.pdf |binary man/betamertree.Rd | 2 vignettes/glmertree.Rnw | 4 10 files changed, 244 insertions(+), 163 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines" <doi:10.1214/aos/1176347963>.
(The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow [aut, cre],
Trevor Hastie [aut],
Rob Tibshirani [aut],
Alan Miller [ctb],
Thomas Lumley [ctb]
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 5.3.5 dated 2026-01-11 and 5.3.6 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 4 ++++ inst/doc/earth-notes.pdf |binary inst/doc/earth-varmod.pdf |binary inst/doc/index.html | 2 +- inst/slowtests/earth.times.txt | 2 +- inst/slowtests/test.earthc.gcc.out.save | 4 ++-- inst/slowtests/test.earthc.out.save | 4 ++-- inst/slowtests/test.full.Rout.save | 6 +++--- man/earth.Rd | 4 ++-- man/ozone1.Rd | 2 +- src/earth.c | 4 ++-- 13 files changed, 34 insertions(+), 30 deletions(-)
Title: Plotting Field Plans for Agricultural Experiments
Description: A function for plotting maps of agricultural field
experiments that are laid out in grids. See Ryder (1981)
<doi:10.1017/S0014479700011601>.
Author: Kevin Wright [aut, cre, cph] ,
Paul Schmidt [aut]
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between desplot versions 1.10 dated 2023-03-09 and 1.11 dated 2026-08-21
DESCRIPTION | 31 ++-- LICENSE |only MD5 | 30 ++-- NAMESPACE | 1 NEWS.md | 56 ++++++-- R/desplot.R | 229 ++++++++++++++++++---------------- R/ggdesplot.R | 201 ++++++++++++++++++++++------- build/vignette.rds |binary inst/doc/desplot_examples.R | 13 + inst/doc/desplot_examples.Rmd | 20 ++ inst/doc/desplot_examples.html | 64 +++++---- man/desplot.Rd | 46 +++++- man/figures/besag_met_missing.png |only man/geom_tileborder.Rd | 72 ++++++++-- tests/testthat/test_desplot.R | 59 +++++++- tests/testthat/test_ggdesplot_fixes.R |only tests/testthat/test_named_colors.R |only vignettes/desplot_examples.Rmd | 20 ++ 18 files changed, 588 insertions(+), 254 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-05 2.2.1
2023-05-01 2.2.0
2022-11-30 2.1.0
2021-10-16 2.0.2
2021-10-02 2.0.1
2021-09-23 2.0
2021-07-25 1.5
2020-09-26 1.4
2020-09-08 1.3
2020-08-31 1.2
2020-05-16 1.1
2020-05-07 1.0
2020-03-21 0.1.1
2020-01-15 0.1.0
Title: Read, Manipulate and Visualise Magnetic Resonance Images
Description: Functions for working with magnetic resonance images. Reading and
writing of popular file formats (DICOM, Analyze, NIfTI-1, NIfTI-2, MGH);
interactive and non-interactive visualisation; flexible image manipulation;
metadata and sparse image handling.
Author: Jon Clayden [cre, aut]
Maintainer: Jon Clayden <code@clayden.org>
Diff between tractor.base versions 3.5.0 dated 2025-10-29 and 3.5.2.1 dated 2026-08-21
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/20_scheme.R | 4 ++-- R/files.R | 3 +-- build/partial.rdb |binary inst/tinytest/test-05-nifti.R | 8 +++++--- man/readImageFile.Rd | 3 +-- 7 files changed, 20 insertions(+), 20 deletions(-)
Title: Reliable Utilities for Reusable Research Workflows
Description: Provides reusable building blocks for research packages across
matrix representation, numerical computation, neighborhood evaluation,
controlled execution, and runtime interoperability. Core tools preserve
declared sparse semantics, expose dense-memory and output boundaries,
standardize neighborhood and classification results, and align serial and
parallel result and error behavior. Additional helpers support structured
messages, optional dependency checks, and common statistical workflows.
Author: Meng Xu [aut, cre] ,
Haoliang Zhu [aut]
Maintainer: Meng Xu <mengxu98@qq.com>
Diff between thisutils versions 0.4.9 dated 2026-08-04 and 0.5.0 dated 2026-08-21
thisutils-0.4.9/thisutils/inst/python/__pycache__ |only thisutils-0.4.9/thisutils/man/run_dense_topk_by_column.Rd |only thisutils-0.5.0/thisutils/DESCRIPTION | 23 thisutils-0.5.0/thisutils/LICENSE | 2 thisutils-0.5.0/thisutils/MD5 | 85 + thisutils-0.5.0/thisutils/NAMESPACE | 5 thisutils-0.5.0/thisutils/NEWS.md | 51 + thisutils-0.5.0/thisutils/R/BiocNeighborsKNN.R | 7 thisutils-0.5.0/thisutils/R/MatrixTopK.R | 173 +++ thisutils-0.5.0/thisutils/R/RcppExports.R | 28 thisutils-0.5.0/thisutils/R/as_matrix.R | 13 thisutils-0.5.0/thisutils/R/lisi.R | 58 + thisutils-0.5.0/thisutils/R/package_management.R | 95 +- thisutils-0.5.0/thisutils/R/parallelize_fun.R | 57 + thisutils-0.5.0/thisutils/R/row_variance.R | 48 - thisutils-0.5.0/thisutils/R/sparse_cor.R | 438 ++++++++-- thisutils-0.5.0/thisutils/R/thisutils-package.R | 9 thisutils-0.5.0/thisutils/README.md | 43 thisutils-0.5.0/thisutils/build |only thisutils-0.5.0/thisutils/inst/doc |only thisutils-0.5.0/thisutils/man/check_r.Rd | 2 thisutils-0.5.0/thisutils/man/compute_lisi.Rd | 24 thisutils-0.5.0/thisutils/man/matrix_to_table.Rd | 12 thisutils-0.5.0/thisutils/man/parallelize_fun.Rd | 13 thisutils-0.5.0/thisutils/man/pearson_correlation.Rd | 18 thisutils-0.5.0/thisutils/man/run_dense_topk.Rd |only thisutils-0.5.0/thisutils/man/run_sparse_stored_topk_by_column.Rd |only thisutils-0.5.0/thisutils/man/run_sparse_topk.Rd |only thisutils-0.5.0/thisutils/man/run_sparse_topk_by_column.Rd | 26 thisutils-0.5.0/thisutils/man/run_sparse_topk_stored.Rd |only thisutils-0.5.0/thisutils/man/sparse_cor.Rd | 55 + thisutils-0.5.0/thisutils/man/thisutils-package.Rd | 9 thisutils-0.5.0/thisutils/src/MatrixTopK.cpp | 39 thisutils-0.5.0/thisutils/src/RcppExports.cpp | 49 - thisutils-0.5.0/thisutils/src/lisi.cpp | 65 - thisutils-0.5.0/thisutils/src/matrix_to_table.cpp | 23 thisutils-0.5.0/thisutils/src/sparse_cor.cpp |only thisutils-0.5.0/thisutils/tests/testthat/test-lisi.R | 109 ++ thisutils-0.5.0/thisutils/tests/testthat/test-matrix-topk.R | 120 ++ thisutils-0.5.0/thisutils/tests/testthat/test-matrix.R | 33 thisutils-0.5.0/thisutils/tests/testthat/test-package-management.R | 90 ++ thisutils-0.5.0/thisutils/tests/testthat/test-parallelize_fun.R | 432 +++++++++ thisutils-0.5.0/thisutils/tests/testthat/test-row-variance.R | 32 thisutils-0.5.0/thisutils/tests/testthat/test-sparse_cor.R | 87 + thisutils-0.5.0/thisutils/vignettes |only 45 files changed, 2077 insertions(+), 296 deletions(-)
Title: Calculates Robust Performance Metrics for Imbalanced
Classification Problems
Description: Calculates robust Matthews Correlation Coefficient (MCC), Cohen's Kappa, and robust F-Beta Scores, as introduced by Holzmann and Klar (2026) <doi:10.48550/arXiv.2404.07661>.
These performance metrics are designed for imbalanced classification problems.
Plots the receiver operating characteristic curve (ROC curve) together with the recall / 1-precision curve.
Author: Bernhard Klar [aut, cre],
Hajo Holzmann [aut]
Maintainer: Bernhard Klar <bernhard.klar@kit.edu>
Diff between RobustMetrics versions 0.1.1 dated 2025-09-02 and 1.0.0 dated 2026-08-21
DESCRIPTION | 14 ++++++++------ MD5 | 41 ++++++++++++++++++++++++----------------- NAMESPACE | 14 +++++++++----- R/FScore.R | 14 ++++++++------ R/Kappa.R |only R/MCC.R | 8 ++++---- R/ROC_curve.R | 20 ++++++++++++++++---- R/rf.data.R | 4 ++-- R/robFScore.R | 14 ++++++++------ R/robFScore2.R | 26 +++++++++++++++++--------- R/robKappa.R |only R/robMCC.R | 11 ++++++----- README.md | 10 +++++----- man/FScore.Rd | 2 +- man/Kappa.Rd |only man/MCC.Rd | 2 +- man/ROC_curve.Rd | 4 ++-- man/rf.data.Rd | 2 +- man/robFScore.Rd | 2 +- man/robFScore2.Rd | 6 ++++-- man/robKappa.Rd |only man/robMCC.Rd | 2 +- tests |only 23 files changed, 118 insertions(+), 78 deletions(-)
Title: Image Registration Using the 'NiftyReg' Library
Description: Provides an 'R' interface to the 'NiftyReg' image registration tools
<https://github.com/KCL-BMEIS/niftyreg>. Linear and nonlinear registration
are supported, in two and three dimensions.
Author: Jon Clayden [cre, aut] ,
Marc Modat [aut],
Benoit Presles [aut],
Thanasis Anthopoulos [aut],
Pankaj Daga [aut]
Maintainer: Jon Clayden <code@clayden.org>
Diff between RNiftyReg versions 2.8.5 dated 2026-02-24 and 2.8.6 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 11 +++++++++++ src/reg-lib/Platform.cpp | 28 +++++++++++++++++++++++----- src/reg-lib/cpu/_reg_maths.h | 2 +- 5 files changed, 43 insertions(+), 14 deletions(-)
Title: Relational Event and Durational Event Models
Description: Model relational and durational events in a
counting process framework, with functions for estimating and simulating
Relational Event Models (REM) and Durational Event Models (DEM). Includes
support for time-varying covariates, windowed statistics, and
high-dimensional node-level fixed effects. References include
Fritz et al. (2026) "Scalable Durational Event Models: Application to
Physical and Digital Interactions" <doi:10.48550/arXiv.2504.00049>.
Author: Cornelius Fritz [aut, cre]
Maintainer: Cornelius Fritz <corneliusfritz2010@gmail.com>
Diff between redeem versions 1.0.0 dated 2026-06-22 and 1.1.0 dated 2026-08-21
redeem-1.0.0/redeem/inst/WORDLIST |only redeem-1.0.0/redeem/tests/testthat/Rplots.pdf |only redeem-1.1.0/redeem/DESCRIPTION | 8 redeem-1.1.0/redeem/MD5 | 30 redeem-1.1.0/redeem/R/dem.R | 24 redeem-1.1.0/redeem/R/estimate_models.R | 140 ++- redeem-1.1.0/redeem/R/helper.R | 31 redeem-1.1.0/redeem/R/init_terms.R | 92 +- redeem-1.1.0/redeem/R/rem.R | 14 redeem-1.1.0/redeem/README.md | 8 redeem-1.1.0/redeem/build/vignette.rds |binary redeem-1.1.0/redeem/inst/doc/introduction_to_dem.html | 2 redeem-1.1.0/redeem/inst/doc/introduction_to_rem.html | 2 redeem-1.1.0/redeem/inst/doc/sufficient_statistics.Rmd | 458 ++++++----- redeem-1.1.0/redeem/inst/doc/sufficient_statistics.html | 629 +++++++++------- redeem-1.1.0/redeem/man/redeem_terms.Rd | 97 +- redeem-1.1.0/redeem/vignettes/sufficient_statistics.Rmd | 458 ++++++----- 17 files changed, 1146 insertions(+), 847 deletions(-)
Title: Extending 'mlr3' to Functional Data Analysis
Description: Extends the 'mlr3' ecosystem to functional analysis by adding
support for irregular and regular functional data as defined in the
'tf' package. The package provides 'PipeOps' for preprocessing
functional columns and for extracting scalar features, thereby
allowing standard machine learning algorithms to be applied
afterwards. Available operations include simple functional features
such as the mean or maximum, smoothing, interpolation, flattening, and
functional 'PCA'.
Author: Maximilian Muecke [aut, cre] ,
Sebastian Fischer [aut] ,
Fabian Scheipl [ctb] ,
Bernd Bischl [ctb]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between mlr3fda versions 0.7.1 dated 2026-07-15 and 0.7.2 dated 2026-08-21
DESCRIPTION | 8 ++-- MD5 | 54 +++++++++++++++---------------- NAMESPACE | 12 ++++-- NEWS.md | 7 ++++ R/PipeOpFDABsignal.R | 26 +++++++------- R/PipeOpFDACatch22.R | 4 +- R/PipeOpFDACor.R | 4 +- R/PipeOpFDADepth.R | 12 +++--- R/PipeOpFDADerive.R | 6 +-- R/PipeOpFDAExtract.R | 9 ++--- R/PipeOpFDAFlatten.R | 3 - R/PipeOpFDAIntegrate.R | 6 +-- R/PipeOpFDAInterpol.R | 25 ++++++++++---- R/PipeOpFDARegister.R | 12 +++--- R/PipeOpFDATsfeatures.R | 24 +++++++++---- R/PipeOpFDAWavelets.R | 10 ++--- R/PipeOpFDAZoom.R | 6 +-- R/PipeOpFPCA.R | 13 ++++--- R/zzz.R | 2 - man/mlr_pipeops_fda.extract.Rd | 7 +--- man/mlr_pipeops_fda.flatten.Rd | 3 - man/mlr_pipeops_fda.interpol.Rd | 11 +++--- tests/testthat/test_PipeOpFDADepth.R | 10 +++++ tests/testthat/test_PipeOpFDADerive.R | 9 +++++ tests/testthat/test_PipeOpFDAIntegrate.R | 9 +++++ tests/testthat/test_PipeOpFDAInterpol.R | 20 ++++++++++- tests/testthat/test_PipeOpFDAZoom.R | 9 +++++ tests/testthat/test_PipeOpFPCA.R | 5 +- 28 files changed, 204 insertions(+), 122 deletions(-)
Title: File-Backed Array for Out-of-Memory Computation
Description: Stores large arrays in files to avoid occupying large
memories. Implemented with super fast gigabyte-level multi-threaded
reading/writing via 'OpenMP'. Supports multiple non-character data
types (double, float, complex, integer, logical, and raw).
Author: Zhengjia Wang [aut, cre, cph]
Maintainer: Zhengjia Wang <dipterix.wang@gmail.com>
Diff between filearray versions 0.2.2 dated 2026-05-23 and 0.2.3 dated 2026-08-21
DESCRIPTION | 12 +++++++----- MD5 | 10 +++++----- NAMESPACE | 1 + NEWS.md | 4 ++++ R/class-filearray.R | 12 ++++++++++++ build/vignette.rds |binary 6 files changed, 29 insertions(+), 10 deletions(-)
Title: Semi-Parametric Joint Modeling of Longitudinal and Survival Data
Description: Implements scalable joint models for large-scale competing risks time-to-event data with one or multiple longitudinal biomarkers using the efficient algorithms developed by Li et al. (2022) <doi:10.1155/2022/1362913> and <doi:10.48550/arXiv.2506.12741>.
The time-to-event process is modeled using a cause-specific Cox proportional hazards model
with time-fixed covariates, while longitudinal biomarkers are modeled
using linear mixed-effects models. The association between the longitudinal
and survival processes is captured through shared random effects. The
package enables analysis of large-scale biomedical data to model biomarker
trajectories, estimate their effects on event risks, and perform dynamic
prediction of future events based on patients' longitudinal histories.
Functions for simulating survival and longitudinal data for multiple
biomarkers are included, along with built-in example datasets. The package
also supports modeling a single biomarker with heterogeneous wit [...truncated...]
Author: Shanpeng Li [aut, cre],
Ace Mejia-Sanchez [ctb],
Emily Ouyang [ctb],
Gang Li [ctb]
Maintainer: Shanpeng Li <lishanpeng0913@ucla.edu>
Diff between FastJM versions 1.7.0 dated 2026-07-21 and 1.7.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 56 ++--- NAMESPACE | 1 NEWS.md | 4 R/Concordance.JMMLSM.R | 4 R/FastJM.R | 2 R/GetE.R | 110 +++++++-- R/JMMLSM.R | 25 +- R/JMMLSM_control.R | 23 +- R/RcppExports.R | 4 R/jmcs.R | 1 R/mvjmcs.R | 4 R/plot.survfitJMMLSM.R | 8 R/plot.survfitjmcs.R | 8 R/plot.survfitmvjmcs.R | 4 R/print.JMMLSM.R | 213 ++++++++++++------- R/print.jmcs.R | 210 ++++++++---------- R/print.mvjmcs.R | 313 ++++++++++++++++++---------- README.md | 332 +++++++++++++++--------------- man/JMMLSM.Rd | 5 man/JMMLSM_control.Rd | 15 - man/figures/README-unnamed-chunk-14-1.png |binary man/jmcs.Rd | 1 src/Makevars | 11 src/Makevars.win | 11 src/RcppExports.cpp | 9 src/getECad.cpp | 124 ++++++----- src/getmvCov.cpp | 2 src/getmvCovSF.cpp | 2 29 files changed, 891 insertions(+), 619 deletions(-)
Title: Process ArcGIS Protocol Buffer FeatureCollections
Description: Fast processing of ArcGIS FeatureCollection protocol buffers in R.
It is designed to work seamlessly with 'httr2' and integrates with 'sf'.
Author: Josiah Parry [aut, cre] ,
Ryan Zomorrodi [ctb]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between arcpbf versions 0.2.0 dated 2025-10-22 and 0.3.0 dated 2026-08-21
DESCRIPTION | 18 ++-- MD5 | 33 ++++---- NEWS.md | 6 + R/post-process.R | 11 -- man/figures |only src/Makevars.win.in | 2 src/rust/Cargo.lock | 76 ++++++++++++------- src/rust/arcpbf/Cargo.toml | 3 src/rust/arcpbf/main.rs | 85 +++++++++------------ src/rust/arcpbf/src/geometry/mod.rs | 4 - src/rust/arcpbf/src/geometry/point.rs | 78 ++++++++++--------- src/rust/arcpbf/src/geometry/poly.rs | 42 ++++++---- src/rust/arcpbf/src/lib.rs | 135 +++++++++++++++++++++------------- src/rust/arcpbf/src/parse.rs | 106 ++++++++++++++------------ src/rust/arcpbf/src/process.rs | 67 +++++++++------- src/rust/arcpbf/src/table.rs | 16 ++-- src/rust/vendor.tar.xz |binary tools/config.R | 11 ++ 18 files changed, 389 insertions(+), 304 deletions(-)
Title: Tipping Point Analysis for Survival Endpoints
Description: Implements tipping point sensitivity analysis for time-to-event endpoints under different missing data scenarios, as described in Oodally et al. (2025) <doi:10.48550/arXiv.2506.19988>. Supports both model-based and model-free imputation, multiple imputation workflows, plausibility assessment and visualizations. Enables robust assessment for regulatory and exploratory analyses.
Author: Ajmal Oodally [cre, aut] ,
Craig Wang [aut] ,
Zheng Li [ctb]
Maintainer: Ajmal Oodally <ajmaloodally@hotmail.com>
Diff between tipse versions 2.0 dated 2026-05-12 and 2.1 dated 2026-08-21
DESCRIPTION | 13 +++++++------ MD5 | 38 +++++++++++++++++++------------------- NAMESPACE | 28 +++++++++++++++++----------- NEWS.md | 5 +++++ R/assess_plausibility.R | 4 ++-- R/plot_tipse.R | 2 +- R/pool_results.R | 2 +- R/summary_tipse.R | 2 +- R/tipping_point_model_based.R | 2 +- R/tipping_point_model_free.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/analysis_examples.html | 27 +++++++++++++++++---------- man/assess_plausibility.Rd | 2 +- man/plot.tipse.Rd | 2 +- man/pool_results.Rd | 2 +- man/summary.tipse.Rd | 2 +- man/tipping_point_model_based.Rd | 2 +- man/tipping_point_model_free.Rd | 2 +- man/tipse-package.Rd | 10 +++++++++- 20 files changed, 87 insertions(+), 60 deletions(-)
Title: Targeted Inference
Description: Various methods for targeted and semiparametric inference including
augmented inverse probability weighted (AIPW) estimators for missing data and
causal inference (Bang and Robins (2005) <doi:10.1111/j.1541-0420.2005.00377.x>),
one-step imputation (Nordland et al (2026)) <doi:10.48550/arXiv.2606.07174>),
variable importance and conditional average treatment effects (CATE)
(van der Laan (2006) <doi:10.2202/1557-4679.1008>),
estimators for risk differences and relative risks (Richardson et al. (2017)
<doi:10.1080/01621459.2016.1192546>), assumption lean inference for generalized
linear model parameters (Vansteelandt et al. (2022) <doi:10.1111/rssb.12504>).
Author: Klaus K. Holst [aut, cre],
Benedikt Sommer [aut],
Andreas Nordland [aut],
Christian B. Pipper [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between targeted versions 0.8 dated 2026-07-15 and 0.9.0 dated 2026-08-21
DESCRIPTION | 11 - MD5 | 36 +-- NAMESPACE | 142 +++++++----- NEWS.md | 9 R/aipw.R | 50 ++-- R/cate.R | 296 ++++++++++++++++++++++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/ate.html | 50 ++-- inst/doc/predictionclass.html | 29 +- inst/doc/riskregression.html | 62 +++-- inst/misc/Dockerfile |only inst/slowtest/test_cate.R | 216 +++++++++++++++++++ inst/tinytest/test_aipw.R |only inst/tinytest/test_cate_missing.R |only inst/tinytest/test_cate_missing_crosscheck.R |only inst/tinytest/test_moi.R | 14 - man/aipw.Rd | 27 -- man/cate.Rd | 57 ++++- man/moi.Rd | 3 man/targeted-package.Rd | 2 21 files changed, 758 insertions(+), 246 deletions(-)
Title: Bioacoustic Analysis and Publication Tools
Description: Provides tools for manipulating sound files for bioacoustic
analysis, and preparing analyses these for publication. The package validates
that values are physically possible wherever feasible.
Author: Ed Baker [aut, cre] ,
Quentin Geissman [ctb]
Maintainer: Ed Baker <ed@ebaker.me.uk>
This is a re-admission after prior archival of version 0.0.7 dated 2024-05-11
Diff between sonicscrewdriver versions 0.0.7 dated 2024-05-11 and 0.0.7.1 dated 2026-08-21
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sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/sheepFrequencyStats.R | 8 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/shimmer.R | 82 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/soundSpeed.R | 274 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/specStats.R | 166 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/ste.R | 72 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/time.R | 14 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/upsample.R | 104 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/utils-plot.R | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/wavelength.R | 20 sonicscrewdriver-0.0.7.1/sonicscrewdriver/R/zerocrossing.R | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/build/partial.rdb |binary sonicscrewdriver-0.0.7.1/sonicscrewdriver/build/vignette.rds |binary sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/CITATION | 14 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/REFERENCES.bib | 88 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/audioblast.R | 18 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/audioblast.Rmd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/audioblast.html | 761 ++++---- sonicscrewdriver-0.0.7.1/sonicscrewdriver/inst/doc/manage_audio.R | 100 - 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sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/audioblastDownload.Rd | 64 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/autoBandPass.Rd | 64 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/bandpass.Rd | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/beatComplexity.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/beatSpectrum.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/birdNetAnalyse.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/birdNetInstall.Rd | 42 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/circularise.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/concat-methods.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Celsius.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Fahrenheit.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Kelvin.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2Pascals.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2bytes.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2dyne_cm2.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/convert2seconds.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/corWaveMC.Rd | 52 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/cutws.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/data2Wave.Rd | 78 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dayPhase.Rd | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dayPhases.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/daysPhases.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/defaultCluster.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielFraction.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielHistogram.Rd | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielLabels.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielPlot.Rd | 74 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielPositions.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dielRings.Rd | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dolbear.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/dutyCycle.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/emptyDiel.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/emptyYearly.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/entropyStats.Rd | 48 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/frequencySound.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/frequencyStats.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/generateNoise.Rd | 76 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/generateTimeMask.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/gs_transcribe.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/humanBytes.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/jitter.Rd | 52 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/labelPadding.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/labelReduction.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/naturalFrequency.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/ntd.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/parseFilename.Rd | 130 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pd_dietrich2004.Rd | 74 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pd_simple.Rd | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/plus-PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/plus-numeric-PseudoWave-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pulseDetection.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/pulseIntervals.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/radarRange.Rd | 52 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/radialPolygon.Rd | 88 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/rainfallDetection.Rd | 56 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/readAudio.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/readBirdNet.Rd | 38 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/readRespeaker6.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/referenceIntensity.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/referencePressure.Rd | 36 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/resonantFrequency.Rd | 50 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/sDuration.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/sheepFrequencyStats.Rd | 32 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/shimmer.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/slash-PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/soundSpeed.Rd | 140 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/specStats.Rd | 50 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/ste.Rd | 62 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/subtractSpectra.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/sweptsine.Rd | 110 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/tSamples.Rd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/tagWave.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/times-PseudoWave-numeric-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/times-numeric-PseudoWave-method.Rd | 34 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/typicalVolume.Rd | 44 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/upsample.Rd | 54 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/validateIsWave.Rd | 28 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/windowing.Rd | 100 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/yearlyLabels.Rd | 22 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/yearlyPositions.Rd | 40 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/zeroSpectrum.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/man/zerocross.Rd | 46 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/spelling.R | 6 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-Wave-methods.R | 216 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-WaveFilter.R | 204 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-allChannels.R | 260 +- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-audioblastProcessors.R | 96 - sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-birdnetReticulate.R | 76 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-convertTime.R | 68 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-generateTimeMasked.R | 66 sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-parseFilename.R | 298 +-- sonicscrewdriver-0.0.7.1/sonicscrewdriver/tests/testthat/test-soundSpeed.R | 70 sonicscrewdriver-0.0.7.1/sonicscrewdriver/vignettes/audioblast.Rmd | 58 sonicscrewdriver-0.0.7.1/sonicscrewdriver/vignettes/manage_audio.Rmd | 206 +- sonicscrewdriver-0.0.7/sonicscrewdriver/tests/testthat/Rplots.pdf |only 172 files changed, 7682 insertions(+), 7627 deletions(-)
More information about sonicscrewdriver at CRAN
Permanent link
Title: Analysis and Visualisation of Benchmark Experiments
Description: Implements methods for post-hoc analysis and
visualisation of benchmark experiments, for 'mlr3' and beyond.
Author: Sonabend Raphael [aut] ,
Florian Pfisterer [aut] ,
Michel Lang [ctb] ,
Bernd Bischl [ctb] ,
Sebastian Fischer [cre, ctb]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Diff between mlr3benchmark versions 0.1.7 dated 2024-12-02 and 0.1.8 dated 2026-08-21
DESCRIPTION | 20 +- MD5 | 20 +- NEWS.md | 7 R/BenchmarkAggr.R | 6 R/autoplot.BenchmarkAggr.R | 14 - man/BenchmarkAggr.Rd | 310 ++++++++++++++++++------------------ man/as.BenchmarkAggr.Rd | 2 man/as_benchmark_aggr.Rd | 2 man/autoplot.BenchmarkAggr.Rd | 14 - man/mlr3benchmark-package.Rd | 2 tests/testthat/test_BenchmarkAggr.R | 2 11 files changed, 208 insertions(+), 191 deletions(-)
Title: Extended Agglomerative Hierarchical Clustering
Description: A comprehensive collection of linkage methods for agglomerative
hierarchical clustering on a matrix of proximity data (distances or
similarities), returning a multifurcated dendrogram or multidendrogram.
Multidendrograms can group more than two clusters when ties in proximity data
occur, and therefore they do not depend on the order of the input data.
Descriptive measures to analyze the resulting dendrogram are additionally
provided. <doi:10.18637/jss.v114.i02>.
Author: Alberto Fernandez [aut, cre] ,
Sergio Gomez [aut]
Maintainer: Alberto Fernandez <alberto.fernandez@urv.cat>
Diff between mdendro versions 2.2.3 dated 2025-09-04 and 2.3.0 dated 2026-08-21
DESCRIPTION | 12 MD5 | 39 - NAMESPACE | 6 R/RcppExports.R | 4 R/linkage.R | 12 R/mfnj.R |only build/vignette.rds |binary inst/CITATION | 119 ++- inst/doc/Introduction.R | 214 ++++-- inst/doc/Introduction.Rmd | 388 +++++++++--- inst/doc/Introduction.html | 1056 ++++++++++++++++++++++------------ man/linkage.Rd | 4 man/mfnj.Rd |only src/Matrix.h | 2 src/MergerNJ.cpp |only src/MergerNJ.h |only src/Phylogeny.cpp |only src/Phylogeny.h |only src/RcppExports.cpp | 14 src/RcppLinkage.cpp | 2 src/RcppMfnj.cpp |only vignettes/Introduction-bibstyle.csl | 376 ++++++------ vignettes/Introduction-references.bib | 217 ++++-- vignettes/Introduction.Rmd | 388 +++++++++--- 24 files changed, 1877 insertions(+), 976 deletions(-)
Title: 'SAS'-Style 'PROC FORMAT' for R
Description: Provides 'SAS' 'PROC FORMAT'-like functionality for creating and applying
value formats in R. Supports discrete and range-based mapping of values to labels,
reverse formatting (invalue), date/time/datetime formatting with built-in 'SAS' format
names, multi-label formats, expression labels evaluated at apply-time,
case-insensitive matching, import/export of format definitions, and proper handling
of missing values (NA, NULL, NaN).
Author: Vladimir Larchenko [aut, cre],
Igor Aleschenkov [aut]
Maintainer: Vladimir Larchenko <vladimir.larchenko@keystatsolutions.com>
Diff between ksformat versions 0.8.2 dated 2026-07-06 and 0.8.4 dated 2026-08-21
DESCRIPTION | 16 +-- MD5 | 46 +++++---- NAMESPACE | 8 - NEWS.md | 14 ++ R/format_apply.R | 144 ++++++++++++++++++++++++++++ R/format_create.R | 55 ++++++++++ R/format_invalue.R | 30 +++++ R/format_parse.R | 107 +++++++++++++++++++++ R/utilities.R | 10 + README.md | 7 - build/vignette.rds |binary inst/doc/ksformat-cheatsheet.pdf |binary inst/doc/nonstandard-applications.R |only inst/doc/nonstandard-applications.html |only inst/doc/nonstandard-applications.qmd |only inst/doc/usage_examples.R | 45 ++++++++ inst/doc/usage_examples.Rmd | 67 +++++++++++++ inst/doc/usage_examples.html | 106 +++++++++++++++++--- man/dot-apply_numeric_pattern.Rd |only man/dot-parse_num_pattern.Rd |only man/fnew.Rd | 23 ++++ man/fnew_bid.Rd | 21 +++- man/fparse.Rd | 12 ++ man/fput.Rd | 5 tests/testthat/test-formats.R | 167 +++++++++++++++++++++++++++++++++ vignettes/nonstandard-applications.qmd |only vignettes/usage_examples.Rmd | 67 +++++++++++++ 27 files changed, 894 insertions(+), 56 deletions(-)
Title: Divisive Latent Class Analysis
Description: Provides algorithms for estimating divisive and standard latent
class models. The divisive latent class method follows van der Palm,
van der Ark and Vermunt (2016) <doi:10.1007/s00357-016-9195-5>.
Both algorithms use expectation-maximization and Newton-Raphson
optimization and are implemented in 'C++' for speed through 'Rcpp'.
Author: Daniel W. van der Palm [aut, cre],
L. Andries van der Ark [ctb]
Maintainer: Daniel W. van der Palm <danielvdpalm@gmail.com>
Diff between DLCA versions 1.0 dated 2026-08-07 and 1.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 42 ++--- R/02-validation-control.R | 70 ++++---- R/03-fit-statistics.R | 40 ++-- R/05-prepare.R | 68 ++++---- R/06-dlca.R | 34 ++-- R/07-lca.R | 126 +++++++-------- R/08-slca.R | 76 ++++----- inst/WORDLIST | 4 man/DLC.Rd | 14 - man/DLCA-native.Rd | 162 +++++++++---------- man/LCA.Rd | 28 +-- man/checkDLCAInstall.Rd | 40 ++-- man/prepareData.Rd | 16 - man/runDLCA.Rd | 20 +- man/runLCA.Rd | 26 +-- man/runLCAPrepared.Rd | 86 +++++----- man/runSLCA.Rd | 114 ++++++------- man/simDataLCM.Rd | 124 +++++++------- src/dlcFunctions.h | 8 src/sourceCppDLC.cpp | 6 tests/regression.R | 382 +++++++++++++++++++++++----------------------- 22 files changed, 747 insertions(+), 747 deletions(-)
Title: R Bindings to the 'Anime.js' Animation Library
Description: Provides low-level R bindings to the 'Anime.js' library
(<https://animejs.com>), enabling the creation of browser-native SVG
and HTML animations via the 'htmlwidgets' framework.
Author: Long Nguyen [aut, cre]
Maintainer: Long Nguyen <nguyen@dezim-institut.de>
Diff between animejs versions 1.0.0 dated 2026-07-20 and 1.1.0 dated 2026-08-21
DESCRIPTION | 6 - MD5 | 24 ++-- NAMESPACE | 1 NEWS.md | 28 ++++ R/text.R |only R/utils.R | 2 build/vignette.rds |binary inst/doc/animejs.html | 252 +++++++++++++++++++++++++++++++++++++++--- inst/htmlwidgets/animejs.css | 121 +++++++++++++++++++- inst/htmlwidgets/animejs.js | 142 ++++++++++++++++++++++- inst/htmlwidgets/animejs.yaml | 8 + man/anime_text.Rd |only tests/manual/smoke_test.R | 11 + tests/testthat/_snaps/text.md |only tests/testthat/test-text.R |only 15 files changed, 552 insertions(+), 43 deletions(-)
Title: Client for the 'World Bank' APIs
Description: Download and search data from the 'World Bank' APIs,
including the 'Indicators' API, the 'Poverty and Inequality Platform
(PIP)' API, the 'Finances One' API, and the 'Projects' API. See
<https://datahelpdesk.worldbank.org/knowledgebase/articles/889386-developer-information-overview>
for further details.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between worldbank versions 0.9.1 dated 2026-06-29 and 0.10.0 dated 2026-08-21
DESCRIPTION | 10 ++--- MD5 | 51 +++++++++++++++------------ NAMESPACE | 42 +++++++++++----------- NEWS.md | 18 +++++++++ R/assertions.R | 19 +++++++++- R/fone.R | 16 +++++--- R/httr2.R | 2 - R/indicators.R | 64 +++++++++++++++++++++++++--------- R/pip.R | 58 +++++++++++++++---------------- R/projects.R | 56 +++++++++++++++++++----------- README.md | 8 ++-- man/figures/README-demo-1.png |binary man/pip_aux.Rd | 4 +- man/pip_citation.Rd | 4 +- man/pip_cp.Rd | 10 ++--- man/pip_data.Rd | 15 ++++---- man/pip_group.Rd | 15 ++++---- man/pip_valid_params.Rd | 4 +- man/wb_data.Rd | 18 ++++++++- man/wb_project.Rd | 32 ++++++++++------- tests/testthat/_snaps/pip.md |only tests/testthat/_snaps/projects.md |only tests/testthat/helper-indicators.R |only tests/testthat/test-assertions.R |only tests/testthat/test-fone.R | 27 +++++++++++++- tests/testthat/test-httr2.R |only tests/testthat/test-indicators.R | 68 +++++++++++++++++++++++++++++++++++-- tests/testthat/test-pip.R | 47 +++++++++++++++++++++++++ tests/testthat/test-projects.R | 68 ++++++++++++++++++++++++++++++++++++- 29 files changed, 484 insertions(+), 172 deletions(-)
Title: Curriculum Vitae for R Markdown
Description: Provides templates and functions to simplify the production and maintenance of curriculum vitae.
Author: Mitchell O'Hara-Wild [aut, cre] ,
Rob Hyndman [aut] ,
Yihui Xie [ctb] ,
Albert Krewinkel [cph] ,
JooYoung Seo [ctb] ,
Isabelle Greco [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between vitae versions 0.6.0 dated 2024-06-12 and 0.7.0 dated 2026-08-21
DESCRIPTION | 22 ++-- MD5 | 51 +++++----- NEWS.md | 26 +++++ R/awesomecv.R | 49 +++++++++ R/cv_document.R | 3 R/markdowncv.R | 8 + README.md | 14 ++ build/vignette.rds |binary inst/doc/data.html | 3 inst/doc/extending.R | 10 - inst/doc/extending.Rmd | 2 inst/doc/extending.html | 7 - inst/doc/vitae.html | 3 inst/multiple-bibliographies.lua | 1 inst/rmarkdown/templates/hyndman/resources/hyndmantemplate.tex | 11 +- inst/rmarkdown/templates/markdowncv/skeleton/media/davewhipp-print.css | 8 - inst/rmarkdown/templates/markdowncv/skeleton/media/davewhipp-screen.css | 9 - inst/rmarkdown/templates/markdowncv/skeleton/media/kjhealy-print.css | 8 - inst/rmarkdown/templates/markdowncv/skeleton/media/kjhealy-screen.css | 8 - inst/rmarkdown/templates/moderncv/skeleton/moderncv.cls | 11 ++ inst/rmarkdown/templates/twentyseconds/resources/twentysecondstemplate.tex | 2 man/awesomecv.Rd | 6 - man/bibliography_entries.Rd | 2 man/reexports.Rd | 2 man/vitae-package.Rd | 1 tests/testthat/test-font-scale.R |only vignettes/extending.Rmd | 2 27 files changed, 195 insertions(+), 74 deletions(-)
Title: Unsupervised Learning Based Definition of Microbial Rare
Biosphere
Description: A tool to define the rare biosphere. 'ulrb' solves the problem of the
definition of rarity by replacing arbitrary thresholds with an unsupervised machine
learning algorithm (partitioning around medoids, or k-medoids). This algorithm
works for any type of microbiome data, provided there is an abundance table.
This method also works for non-microbiome data.
Author: Francisco Pascoal [aut, cre] ,
Paula Branco [aut] ,
Luis Torgo [aut] ,
Rodrigo Costa [aut] ,
Catarina Magalhaes [aut]
Maintainer: Francisco Pascoal <fpascoal1996@gmail.com>
Diff between ulrb versions 0.1.8 dated 2025-07-07 and 0.1.9 dated 2026-08-21
DESCRIPTION | 10 MD5 | 16 R/define_rb.R | 29 README.md | 11 build/vignette.rds |binary inst/doc/Glossary.html | 107 --- inst/doc/eco-analysis.html | 813 +++++++++++------------ inst/doc/explore-classifications.html | 1177 +++++++++++++++------------------- inst/doc/ulrb-vignet.html | 722 ++++++++------------ 9 files changed, 1270 insertions(+), 1615 deletions(-)
Title: Snapshots for Unit Tests using the 'tinytest' Framework
Description: Snapshots for unit tests using the 'tinytest' framework for R. Includes expectations to test base R and 'ggplot2' plots as well as console output from print().
Author: Vincent Arel-Bundock [aut, cre]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between tinysnapshot versions 0.2.0 dated 2025-07-18 and 0.3.0 dated 2026-08-21
DESCRIPTION | 8 +-- MD5 | 23 ++++---- NEWS.md | 8 +++ R/expect_snapshot_plot.R | 45 ++++++++++++----- R/expect_snapshot_print.R | 18 +++--- R/utils.R | 6 ++ build/partial.rdb |binary inst/tinytest/_tinysnapshot/png-ggplot2_theme_dark.png |only inst/tinytest/helpers.R | 5 + inst/tinytest/test-png.R | 8 +++ inst/tinytest/test-svg.R | 4 - man/expect_snapshot_plot.Rd | 11 +++- man/expect_snapshot_print.Rd | 3 + 13 files changed, 100 insertions(+), 39 deletions(-)
Title: Functions to Help in your Coding Etiquette
Description: Adds some functions to help in your coding etiquette.
'tinycodet' primarily focuses on 4 aspects.
1) Safer decimal (in)equality testing,
standard-evaluated alternatives to with() and aes(),
and other functions for safer coding.
2) A new package import system,
that attempts to combine the benefits of using a package without attaching it,
with the benefits of attaching a package.
3) Extending the string manipulation capabilities of the 'stringi' R package.
4) Reducing repetitive code.
Besides linking to 'Rcpp', 'tinycodet' has only one other dependency, namely 'stringi'.
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tonywilkes.nl@gmail.com>
Diff between tinycodet versions 0.7.0 dated 2026-06-08 and 0.7.1 dated 2026-08-21
DESCRIPTION | 12 ++--- MD5 | 38 ++++++++-------- NEWS.md | 96 ++++++++++++++++++++++++++++++++++------- R/aaa0_tinycodet_help.R | 2 R/import_as.R | 10 ++-- R/pkgs.R | 17 ++----- R/pro.R | 17 ++----- build/partial.rdb |binary inst/tinytest/safer/test-pro.R | 45 +++++++++++++++++-- man/aaa0_tinycodet_help.Rd | 2 man/aaa2_tinycodet_import.Rd | 2 man/import_as.Rd | 12 ++--- man/pkgs.Rd | 19 ++------ man/pro.Rd | 7 +- man/pversion.Rd | 2 man/reexports.Rd | 2 man/safer_partialmatch.Rd | 2 src/C_do_stri_locate_ith0.c | 2 src/C_do_stri_locate_ith1.c | 3 - tests/tinytest.R | 3 + 20 files changed, 189 insertions(+), 104 deletions(-)
Title: Publication-Ready Summary Tables and Forest Plots
Description: A comprehensive framework for descriptive statistics and regression
analysis that produces publication-ready tables and forest plots. Provides a
unified interface from descriptive statistics through multivariable modeling,
with support for linear models, generalized linear models, Cox proportional
hazards, and mixed-effects models. Also includes univariable screening,
multivariate regression, model comparison, and export to multiple formats
including PDF, DOCX, PPTX, 'LaTeX', HTML, and RTF. Built on 'data.table'
for computational efficiency.
Author: Paul Hsin-ti McClelland [aut, cre, cph]
Maintainer: Paul Hsin-ti McClelland <PaulHMcClelland@protonmail.com>
Diff between summata versions 0.11.5 dated 2026-05-07 and 0.12.0 dated 2026-08-21
summata-0.11.5/summata/R/autotable.R |only summata-0.11.5/summata/man/autotable.Rd |only summata-0.11.5/summata/man/format_count_forest.Rd |only summata-0.11.5/summata/tests/testthat/test_compfit.R |only summata-0.11.5/summata/tests/testthat/test_desctable.R |only summata-0.11.5/summata/tests/testthat/test_fit.R |only summata-0.11.5/summata/tests/testthat/test_forest.R |only summata-0.11.5/summata/tests/testthat/test_fullfit.R |only summata-0.11.5/summata/tests/testthat/test_m2dt.R |only summata-0.11.5/summata/tests/testthat/test_multivariate.R |only summata-0.11.5/summata/tests/testthat/test_number_format.R |only summata-0.11.5/summata/tests/testthat/test_survtable.R |only summata-0.11.5/summata/tests/testthat/test_table2.R |only summata-0.12.0/summata/DESCRIPTION | 23 summata-0.12.0/summata/MD5 | 281 +- summata-0.12.0/summata/NAMESPACE | 7 summata-0.12.0/summata/NEWS.md | 25 summata-0.12.0/summata/R/autoforest.R | 14 summata-0.12.0/summata/R/comp_utils.R | 632 ++--- summata-0.12.0/summata/R/compfit.R | 93 summata-0.12.0/summata/R/coxforest.R | 129 - summata-0.12.0/summata/R/desc_utils.R | 21 summata-0.12.0/summata/R/desctable.R | 62 summata-0.12.0/summata/R/fit.R | 94 summata-0.12.0/summata/R/fit_utils.R | 103 summata-0.12.0/summata/R/forest_utils.R | 289 +- summata-0.12.0/summata/R/forestsave.R |only summata-0.12.0/summata/R/fullfit.R | 158 - summata-0.12.0/summata/R/glmforest.R | 149 - summata-0.12.0/summata/R/globals.R | 1 summata-0.12.0/summata/R/imports.R | 7 summata-0.12.0/summata/R/lmforest.R | 100 summata-0.12.0/summata/R/m2dt.R | 164 + summata-0.12.0/summata/R/m2dt_utils.R | 496 +++- summata-0.12.0/summata/R/multifit.R | 403 +-- summata-0.12.0/summata/R/multiforest.R | 62 summata-0.12.0/summata/R/number_utils.R | 306 +- summata-0.12.0/summata/R/recdims.R |only summata-0.12.0/summata/R/surv_utils.R | 320 +- summata-0.12.0/summata/R/survtable.R | 236 + summata-0.12.0/summata/R/table2_utils.R | 869 +++---- summata-0.12.0/summata/R/table2docx.R | 16 summata-0.12.0/summata/R/table2html.R | 31 summata-0.12.0/summata/R/table2pdf.R | 275 +- summata-0.12.0/summata/R/table2pptx.R | 16 summata-0.12.0/summata/R/table2rtf.R | 16 summata-0.12.0/summata/R/table2tex.R | 46 summata-0.12.0/summata/R/tablesave.R |only summata-0.12.0/summata/R/uniforest.R | 77 summata-0.12.0/summata/R/uniscreen.R | 69 summata-0.12.0/summata/README.md | 25 summata-0.12.0/summata/build/vignette.rds |binary summata-0.12.0/summata/inst/WORDLIST | 1 summata-0.12.0/summata/inst/doc/advanced_workflows.R | 64 summata-0.12.0/summata/inst/doc/advanced_workflows.Rmd | 72 summata-0.12.0/summata/inst/doc/advanced_workflows.html | 767 +++--- summata-0.12.0/summata/inst/doc/descriptive_tables.R | 8 summata-0.12.0/summata/inst/doc/descriptive_tables.Rmd | 12 summata-0.12.0/summata/inst/doc/descriptive_tables.html | 20 summata-0.12.0/summata/inst/doc/forest_plots.R | 174 - 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summata-0.12.0/summata/vignettes/installation_setup.Rmd | 32 summata-0.12.0/summata/vignettes/model_comparison.Rmd | 10 summata-0.12.0/summata/vignettes/multivariate_regression.Rmd | 115 summata-0.12.0/summata/vignettes/regression_modeling.Rmd | 31 summata-0.12.0/summata/vignettes/survival_tables.Rmd | 19 summata-0.12.0/summata/vignettes/table_export.Rmd | 131 - 169 files changed, 6994 insertions(+), 5046 deletions(-)
Title: Sequential Change-Point Detection via Nonparametric Inference
Description: Detects change points in long univariate time series using the SCAN
framework. The implementation uses a native Rust backend exposed to R via 'extendr'.
Author: Ashoka Prabashwara [aut, cre],
Patricia Menendez [aut],
Liam Hodgkinson [aut],
Stuart Lee [aut]
Maintainer: Ashoka Prabashwara <smashoka123@gmail.com>
Diff between scanr versions 0.1.0 dated 2026-08-20 and 0.1.1 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ README.md | 9 ++++++--- inst/doc/scanr-introduction.html | 2 +- src/Makevars | 14 ++++++-------- src/rust/Cargo.lock | 2 +- src/rust/Cargo.toml | 2 +- 7 files changed, 24 insertions(+), 23 deletions(-)
Title: Matched-Null Tests for Cluster-Count Claims
Description: Builds matched nulls for cluster-count claims: synthetic twins of a
dataset that preserve every marginal distribution and the full correlation
matrix while containing no cluster structure by construction. A reported
number of clusters or "types" can then be tested against what the data's own
margins and covariance already produce, using any clustering pipeline. A
t-copula option adds tail dependence to the null, so that an apparent excess
of clusters can be checked against a heavier-tailed alternative before it is
read as evidence of types. Implements the matched-null procedure of Meng
(2026) "Types Without Taxa" <doi:10.17605/OSF.IO/2EKCG>.
Author: Miura Meng [aut, cre]
Maintainer: Miura Meng <haomeng797@gmail.com>
Diff between matchednull versions 0.1.0 dated 2026-07-21 and 0.2.1 dated 2026-08-21
DESCRIPTION | 34 ++++++++-------- MD5 | 28 +++++++------ NEWS.md | 19 ++++++++ R/copula_null.R | 37 ++++++++++++++--- R/matched_null_test.R | 60 ++++++++++++++++++++++++---- README.md | 68 +++++++++++++++++++++++++------- inst/doc/matchednull.R | 4 + inst/doc/matchednull.Rmd | 40 ++++++++++++++++++ inst/doc/matchednull.html | 43 +++++++++++++++++++- man/copula_null.Rd | 34 +++++++++++++--- man/figures |only man/matched_null_test.Rd | 40 ++++++++++++++++-- tests/testthat/test-matched_null_test.R | 38 +++++++++++++++++ tests/testthat/test-t_copula.R |only vignettes/matchednull.Rmd | 40 ++++++++++++++++++ 15 files changed, 417 insertions(+), 68 deletions(-)
Title: Model-Averaged Renewal Process
Description: To implement a model-averaging approach with different renewal
models, with a primary focus on forecasting large earthquakes. Based on
six renewal models (i.e., Poisson, Gamma, Log-Logistics, Weibull,
Log-Normal and BPT), model-averaged point estimates are calculated using
AIC weights. Additionally, both percentile and studentized
bootstrapped model-averaged confidence intervals are constructed. In
comparison, point and interval estimation from the individual or "best"
model (determined via model selection) can be retrieved.
Author: Jie Kang [aut],
Chris Scott [aut],
Vanessa Huang [aut],
Veronica Tsou [aut, cre],
Albert Savary [ctb]
Maintainer: Veronica Tsou <wantungtsou@gmail.com>
This is a re-admission after prior archival of version 0.1.0 dated 2022-08-11
Diff between marp versions 0.1.0 dated 2022-08-11 and 0.1.1 dated 2026-08-21
marp-0.1.0/marp/inst/extdata/large.txt |only marp-0.1.0/marp/inst/extdata/medium.txt |only marp-0.1.0/marp/inst/extdata/small.txt |only marp-0.1.1/marp/DESCRIPTION | 30 - marp-0.1.1/marp/MD5 | 138 +++-- marp-0.1.1/marp/NAMESPACE | 16 marp-0.1.1/marp/NEWS.md | 17 marp-0.1.1/marp/R/bpt_bstrp.R | 57 +- marp-0.1.1/marp/R/bpt_logl.R | 8 marp-0.1.1/marp/R/bpt_rp.R | 99 ++- marp-0.1.1/marp/R/dllog.R | 10 marp-0.1.1/marp/R/gamma_bstrp.R | 39 - marp-0.1.1/marp/R/gamma_logl.R | 7 marp-0.1.1/marp/R/gamma_rp.R | 49 + marp-0.1.1/marp/R/loglogis_bstrp.R | 35 - marp-0.1.1/marp/R/loglogis_logl.R | 7 marp-0.1.1/marp/R/loglogis_rp.R | 47 + marp-0.1.1/marp/R/lognorm_bstrp.R | 34 - marp-0.1.1/marp/R/lognorm_rp.R | 42 - marp-0.1.1/marp/R/lowerT.R | 23 marp-0.1.1/marp/R/marp.R | 96 ++- marp-0.1.1/marp/R/marp_bstrp.R | 39 - marp-0.1.1/marp/R/marp_classes.R |only marp-0.1.1/marp/R/marp_confint.R | 142 +++-- marp-0.1.1/marp/R/marp_methods.R |only marp-0.1.1/marp/R/percent_confint.R | 63 +- marp-0.1.1/marp/R/pllog.R | 22 marp-0.1.1/marp/R/poisson_bstrp.R | 34 - marp-0.1.1/marp/R/poisson_rp.R | 44 - marp-0.1.1/marp/R/student_confint.R | 258 ++++++++-- marp-0.1.1/marp/R/upperT.R | 23 marp-0.1.1/marp/R/weibull_bstrp.R | 35 - marp-0.1.1/marp/R/weibull_logl.R | 7 marp-0.1.1/marp/R/weibull_rp.R | 49 + marp-0.1.1/marp/README.md | 87 +-- marp-0.1.1/marp/build |only marp-0.1.1/marp/inst/doc |only marp-0.1.1/marp/man/bpt_bstrp.Rd | 36 - marp-0.1.1/marp/man/bpt_logl.Rd | 8 marp-0.1.1/marp/man/bpt_rp.Rd | 46 - marp-0.1.1/marp/man/coef.marp_model_fit.Rd |only marp-0.1.1/marp/man/confint.marp_fit.Rd |only marp-0.1.1/marp/man/dllog.Rd | 10 marp-0.1.1/marp/man/gamma_bstrp.Rd | 39 - marp-0.1.1/marp/man/gamma_logl.Rd | 7 marp-0.1.1/marp/man/gamma_rp.Rd | 38 - marp-0.1.1/marp/man/logLik.marp_model_fit.Rd |only marp-0.1.1/marp/man/loglogis_bstrp.Rd | 35 - marp-0.1.1/marp/man/loglogis_logl.Rd | 7 marp-0.1.1/marp/man/loglogis_rp.Rd | 36 - marp-0.1.1/marp/man/lognorm_bstrp.Rd | 34 - marp-0.1.1/marp/man/lognorm_rp.Rd | 31 - marp-0.1.1/marp/man/lowerT.Rd | 23 marp-0.1.1/marp/man/marp.Rd | 56 +- marp-0.1.1/marp/man/marp_bstrp.Rd | 39 - marp-0.1.1/marp/man/marp_confint.Rd | 121 ++-- marp-0.1.1/marp/man/nobs.marp_fit.Rd |only marp-0.1.1/marp/man/nobs.marp_model_fit.Rd |only marp-0.1.1/marp/man/percent_confint.Rd | 51 + marp-0.1.1/marp/man/pllog.Rd | 22 marp-0.1.1/marp/man/poisson_bstrp.Rd | 34 - marp-0.1.1/marp/man/poisson_rp.Rd | 33 - marp-0.1.1/marp/man/print.marp_confint.Rd |only marp-0.1.1/marp/man/print.marp_fit.Rd |only marp-0.1.1/marp/man/print.marp_model_fit.Rd |only marp-0.1.1/marp/man/print.summary_marp_fit.Rd |only marp-0.1.1/marp/man/print.summary_marp_model_fit.Rd |only marp-0.1.1/marp/man/student_confint.Rd | 65 +- marp-0.1.1/marp/man/summary.marp_fit.Rd |only marp-0.1.1/marp/man/summary.marp_model_fit.Rd |only marp-0.1.1/marp/man/upperT.Rd | 23 marp-0.1.1/marp/man/weibull_bstrp.Rd | 35 - marp-0.1.1/marp/man/weibull_logl.Rd | 7 marp-0.1.1/marp/man/weibull_rp.Rd | 40 - marp-0.1.1/marp/tests/testthat/test-bootstrap-orchestration.R |only marp-0.1.1/marp/tests/testthat/test-bpt_bstrp.R | 6 marp-0.1.1/marp/tests/testthat/test-bpt_rp.R | 2 marp-0.1.1/marp/tests/testthat/test-percent_confint.R | 10 marp-0.1.1/marp/tests/testthat/test-s3-interface.R |only marp-0.1.1/marp/vignettes |only 80 files changed, 1462 insertions(+), 989 deletions(-)
Title: Visualize Spatiotemporal Tumor Evolution with Jellyfish Plots
Description: Generates interactive Jellyfish plots to visualize spatiotemporal tumor
evolution by integrating sample and phylogenetic trees into a unified plot.
This approach provides an intuitive way to analyze tumor heterogeneity and
evolution over time and across anatomical locations. The Jellyfish plot
visualization design was first introduced by Lahtinen, Lavikka, et al.
(2023, <doi:10.1016/j.ccell.2023.04.017>).
This package also supports visualizing ClonEvol results, a tool developed
by Dang, et al. (2017, <doi:10.1093/annonc/mdx517>), for analyzing clonal
evolution from multi-sample sequencing data. The 'clonevol' package is not
available on CRAN but can be installed from its GitHub
repository (<https://github.com/hdng/clonevol>).
Author: Kari Lavikka [cph, aut, cre]
Maintainer: Kari Lavikka <kari@karilavikka.fi>
Diff between jellyfisher versions 1.1.1 dated 2025-11-26 and 1.1.2 dated 2026-08-21
DESCRIPTION | 10 +++---- MD5 | 7 ++--- NEWS.md | 4 ++ inst/CITATION |only inst/doc/jellyfisher.html | 64 +++++++++++++++++++++++----------------------- 5 files changed, 45 insertions(+), 40 deletions(-)
Title: A GUI for Dual and Bulk RNA-Sequencing Analysis
Description: A 'shiny' app that supports both dual and bulk RNA-seq, with the dual
RNA-seq functionality offering the flexibility to perform either a
sequential approach (where reads are mapped separately to each genome)
or a combined approach (where reads are aligned to a single merged
genome). The user-friendly interface automates the analysis process,
providing step-by-step guidance, making it easy for users to navigate
between different analysis steps, and download intermediate results
and publication-ready plots.
Author: Carmine Fruggiero [aut, cre],
Gaetano Aufiero [aut]
Maintainer: Carmine Fruggiero <fruggierocarmine3@gmail.com>
Diff between inDAGO versions 1.0.3 dated 2025-10-21 and 1.0.4 dated 2026-08-21
DESCRIPTION | 27 +++++++++++----------- MD5 | 14 +++++------ NAMESPACE | 1 R/Saturation.R | 36 +++++++++++++++++++----------- R/app.R | 1 R/globals.R | 1 man/Saturation.Rd | 4 --- tests/testthat/test-inDAGO_shiny.R | 44 ++++++++++++++++++------------------- 8 files changed, 67 insertions(+), 61 deletions(-)
Title: Compute Scores for Different Implicit Measures
Description: A tool for computing the scores for the Implicit Association Test
(IAT; Greenwald, McGhee & Schwartz (1998) <doi:10.1037/0022-3514.74.6.1464>)
and the Single Category-IAT (SC-IAT: Karpinski & Steinman
(2006) <doi:10.1037/0022-3514.91.1.16>). Functions for preparing the data
(both for the IAT and the SC-IAT), plotting the results, and obtaining a
table with the scores of implicit measures descriptive statistics are
provided.
Author: Ottavia M. Epifania [aut, cre],
Pasquale Anselmi [ctb],
Egidio Robusto [ctb]
Maintainer: Ottavia M. Epifania <otta.epifania@gmail.com>
This is a re-admission after prior archival of version 0.3.1 dated 2025-08-22
Diff between implicitMeasures versions 0.3.1 dated 2025-08-22 and 1.0.0 dated 2026-08-21
implicitMeasures-0.3.1/implicitMeasures/R/d_density.R |only implicitMeasures-0.3.1/implicitMeasures/R/d_point.R |only implicitMeasures-0.3.1/implicitMeasures/R/descript_d.R |only implicitMeasures-0.3.1/implicitMeasures/R/multi_dsciat.R |only implicitMeasures-0.3.1/implicitMeasures/R/multi_dscore.R |only implicitMeasures-0.3.1/implicitMeasures/man/d_density.Rd |only implicitMeasures-0.3.1/implicitMeasures/man/d_point.Rd |only implicitMeasures-0.3.1/implicitMeasures/man/descript_d.Rd |only implicitMeasures-0.3.1/implicitMeasures/man/multi_dsciat.Rd |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-IAT_rel_descript_d.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-compute_iat-replicate.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-compute_sciat-replicate.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-d_density_d_plot.R |only implicitMeasures-0.3.1/implicitMeasures/tests/testthat/test-multi_dscore_multi_dsciat.R |only implicitMeasures-1.0.0/implicitMeasures/DESCRIPTION | 10 implicitMeasures-1.0.0/implicitMeasures/MD5 | 86 - implicitMeasures-1.0.0/implicitMeasures/NAMESPACE | 14 implicitMeasures-1.0.0/implicitMeasures/NEWS.md | 12 implicitMeasures-1.0.0/implicitMeasures/R/IAT_rel.R | 118 +- implicitMeasures-1.0.0/implicitMeasures/R/clean_iat.R | 7 implicitMeasures-1.0.0/implicitMeasures/R/clean_sciat.R | 23 implicitMeasures-1.0.0/implicitMeasures/R/compute_iat.R | 40 implicitMeasures-1.0.0/implicitMeasures/R/compute_sciat.R | 38 implicitMeasures-1.0.0/implicitMeasures/R/multi-dscore-clean-iat.R |only implicitMeasures-1.0.0/implicitMeasures/R/multi-dscore-clean-sciat.R |only implicitMeasures-1.0.0/implicitMeasures/R/multi-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-dsciat.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-helpers.R |only implicitMeasures-1.0.0/implicitMeasures/R/plot-multi-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/summary-dsciat.R |only implicitMeasures-1.0.0/implicitMeasures/R/summary-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/R/summary-multi-dscore.R |only implicitMeasures-1.0.0/implicitMeasures/build/vignette.rds |binary implicitMeasures-1.0.0/implicitMeasures/inst/doc/IAT-example.R | 32 implicitMeasures-1.0.0/implicitMeasures/inst/doc/IAT-example.Rmd | 72 - implicitMeasures-1.0.0/implicitMeasures/inst/doc/IAT-example.html | 236 +---- implicitMeasures-1.0.0/implicitMeasures/inst/doc/SC-IAT-example.R | 39 implicitMeasures-1.0.0/implicitMeasures/inst/doc/SC-IAT-example.Rmd | 77 - implicitMeasures-1.0.0/implicitMeasures/inst/doc/SC-IAT-example.html | 169 --- implicitMeasures-1.0.0/implicitMeasures/inst/doc/implicitMeasures.Rmd | 3 implicitMeasures-1.0.0/implicitMeasures/inst/doc/implicitMeasures.html | 19 implicitMeasures-1.0.0/implicitMeasures/man/IAT_rel.Rd | 69 - implicitMeasures-1.0.0/implicitMeasures/man/compute_iat.Rd | 2 implicitMeasures-1.0.0/implicitMeasures/man/multi_dscore.Rd | 189 +++- implicitMeasures-1.0.0/implicitMeasures/man/plot.multi_dscore.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/plotScores.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/summary.dsciat.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/summary.dscore.Rd |only implicitMeasures-1.0.0/implicitMeasures/man/summary.multi_dscore.Rd |only implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-IAT_rel.R |only implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-clean_iat.R | 424 +++++---- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-clean_sciat.R | 458 +++++----- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-compute_iat.R | 159 +-- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-compute_sciat.R | 143 +-- implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-multi-dscore-iat.R |only implicitMeasures-1.0.0/implicitMeasures/tests/testthat/test-multi-dscore-sciat.R |only implicitMeasures-1.0.0/implicitMeasures/vignettes/IAT-example.Rmd | 72 - implicitMeasures-1.0.0/implicitMeasures/vignettes/SC-IAT-example.Rmd | 77 - implicitMeasures-1.0.0/implicitMeasures/vignettes/implicitMeasures.Rmd | 3 60 files changed, 1273 insertions(+), 1318 deletions(-)
More information about implicitMeasures at CRAN
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Title: Visually Exploring Random Forests
Description: Graphic elements for exploring Random Forests using the
'randomForest' or 'randomForestSRC' package for survival, regression
and classification forests and 'ggplot2' package plotting. Implements
visualizations of the methods described in Breiman (2001)
<doi:10.1023/A:1010933404324> and Ishwaran, Kogalur, Blackstone, and
Lauer (2008) <doi:10.1214/08-AOAS169>.
Author: John Ehrlinger [aut, cre]
Maintainer: John Ehrlinger <john.ehrlinger@gmail.com>
Diff between ggRandomForests versions 3.5.0 dated 2026-08-04 and 3.5.2 dated 2026-08-21
ggRandomForests-3.5.0/ggRandomForests/tests/testthat/test_lint.R |only ggRandomForests-3.5.2/ggRandomForests/DESCRIPTION | 10 ggRandomForests-3.5.2/ggRandomForests/MD5 | 150 +++++----- ggRandomForests-3.5.2/ggRandomForests/NAMESPACE | 128 ++++---- ggRandomForests-3.5.2/ggRandomForests/NEWS.md | 107 +++++++ ggRandomForests-3.5.2/ggRandomForests/R/calc_roc.R | 32 +- ggRandomForests-3.5.2/ggRandomForests/R/gg_brier.R | 4 ggRandomForests-3.5.2/ggRandomForests/R/gg_error.R | 54 --- ggRandomForests-3.5.2/ggRandomForests/R/gg_isopro.R | 2 ggRandomForests-3.5.2/ggRandomForests/R/gg_partial_rfsrc.R | 11 ggRandomForests-3.5.2/ggRandomForests/R/gg_partial_varpro.R | 68 ++++ ggRandomForests-3.5.2/ggRandomForests/R/gg_roc.R | 20 + ggRandomForests-3.5.2/ggRandomForests/R/gg_vimp.R | 47 --- ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_brier.R | 2 ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_error.R | 47 --- ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_isopro.R | 2 ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_rfsrc.R | 41 -- ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_roc.R | 19 + ggRandomForests-3.5.2/ggRandomForests/R/plot.gg_vimp.R | 4 ggRandomForests-3.5.2/ggRandomForests/R/quantile_pts.R | 2 ggRandomForests-3.5.2/ggRandomForests/README.md | 64 ++++ ggRandomForests-3.5.2/ggRandomForests/build/partial.rdb |binary ggRandomForests-3.5.2/ggRandomForests/build/vignette.rds |binary ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-classification.R | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-classification.html | 58 +-- ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-classification.qmd | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-regression.R | 8 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-regression.html | 60 ++-- ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-regression.qmd | 14 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-survival.R | 6 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-survival.html | 62 ++-- ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests-survival.qmd | 12 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests.R | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests.html | 20 - ggRandomForests-3.5.2/ggRandomForests/inst/doc/ggRandomForests.qmd | 4 ggRandomForests-3.5.2/ggRandomForests/inst/doc/uvarpro.html | 10 ggRandomForests-3.5.2/ggRandomForests/inst/doc/varpro.html | 30 +- ggRandomForests-3.5.2/ggRandomForests/inst/examples |only ggRandomForests-3.5.2/ggRandomForests/man/calc_auc.Rd | 4 ggRandomForests-3.5.2/ggRandomForests/man/calc_roc.rfsrc.Rd | 8 ggRandomForests-3.5.2/ggRandomForests/man/gg_brier.Rd | 4 ggRandomForests-3.5.2/ggRandomForests/man/gg_error.Rd | 65 ++-- ggRandomForests-3.5.2/ggRandomForests/man/gg_isopro.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/gg_partial_rfsrc.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/gg_partial_varpro.Rd | 68 ++++ ggRandomForests-3.5.2/ggRandomForests/man/gg_roc.rfsrc.Rd | 22 + ggRandomForests-3.5.2/ggRandomForests/man/gg_vimp.Rd | 20 - ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_brier.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_error.Rd | 58 ++- ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_isopro.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_rfsrc.Rd | 14 ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_roc.Rd | 19 + ggRandomForests-3.5.2/ggRandomForests/man/plot.gg_vimp.Rd | 4 ggRandomForests-3.5.2/ggRandomForests/man/quantile_pts.Rd | 2 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/helper-varpro-fixtures.R | 21 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_autoplot_equivalence.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_cran_comments.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_determinism.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_extractor_contracts.R |only ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_brier.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_error.R | 9 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_isopro.R | 16 - ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_partial_rfsrc.R | 14 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_partial_varpro.R | 19 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_rfsrc.R | 4 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_roc.R | 26 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_shap.R | 18 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_udependent.R | 24 + ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_variable.R | 41 ++ ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_varpro.R | 33 ++ ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_varpro_empty_importance.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_gg_vimp.R | 61 +--- ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_namespace_hygiene.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_quantile_pts.R | 1 ggRandomForests-3.5.2/ggRandomForests/tests/testthat/test_randomForest_helpers.R | 4 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests-classification.qmd | 4 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests-regression.qmd | 14 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests-survival.qmd | 12 ggRandomForests-3.5.2/ggRandomForests/vignettes/ggRandomForests.qmd | 4 79 files changed, 1094 insertions(+), 640 deletions(-)
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Title: Bayesian Reconciliation in the 'fable' Framework
Description: Implements the 'bayesRecon' probabilistic reconciliation methods
within the 'fable' framework for hierarchical time series forecasting.
Bayesian reconciliation (bayesRecon) methods are accessed via the 'reconcile' verb, following
'fable' conventions. For methodological background, see Corani et al. (2021)
<doi:10.1007/978-3-030-67664-3_13>, Zambon et al. (2024a)
<doi:10.1007/s11222-023-10343-y>, Zambon et al. (2024b)
<https://proceedings.mlr.press/v244/zambon24a.html>, and Carrara et al.
(2026) <doi:10.1016/j.ijforecast.2026.07.003>.
Author: Dario Azzimonti [aut, cre, cph] ,
Stefano Damato [aut] ,
Lorenzo Zambon [aut] ,
Chiara Carrara [aut] ,
Giorgio Corani [aut]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between fable.bayesRecon versions 0.1.0 dated 2026-05-28 and 0.2.0 dated 2026-08-21
DESCRIPTION | 16 - MD5 | 39 +- NAMESPACE | 90 +++--- NEWS.md | 10 R/bayesRecon_BUIS.R | 2 R/bayesRecon_MixCond.R | 84 ++++-- R/bayesRecon_TDcond.R | 13 R/bayesRecon_t.R | 7 README.md | 405 ++++++++++++++++++++++++++++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/fable.bayesRecon.Rmd | 4 inst/doc/fable.bayesRecon.html | 11 man/bayesRecon_MixCond.Rd | 90 ++++-- man/bayesRecon_t.Rd | 7 man/figures/README-unnamed-chunk-15-1.png |only man/figures/README-unnamed-chunk-18-1.png |only man/figures/README-unnamed-chunk-25-1.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/README-unnamed-chunk-7-1.png |only man/figures/hier_large_README.png |only man/figures/hier_small_README.png |only vignettes/fable.bayesRecon.Rmd | 4 vignettes/references.bib | 12 24 files changed, 632 insertions(+), 162 deletions(-)
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Title: Pattern Estimation and Identification for Dyadic Sequences Using
Transition Matrices in R
Description: Provides methods for analyzing categorical dyadic sequences using transition matrices within the Longitudinal Actor-Partner Interdependence Model and Markov-chain framework. The package supports empirical transition counts, maximum likelihood estimation of transition probabilities, and identification of univariate and bivariate patterns of interaction in dyadic sequences.
Author: Mattia Boellenruecher [aut, cre, cph] ,
Megane Bollenruecher [aut] ,
Jean-Philippe Antonietti [aut]
Maintainer: Mattia Boellenruecher <mboellenruec@student.ethz.ch>
Diff between dyadicMarkov versions 0.1.1 dated 2026-06-21 and 0.1.2 dated 2026-08-21
DESCRIPTION | 14 MD5 | 59 NEWS.md | 57 R/apim-bivariate.R | 955 +++++++------- R/apim-univariate.R | 19 R/dyadicMarkov-package.R | 189 +- R/helpers-core.R | 1571 ++++++++++++------------ R/srr-stats-standards.R | 154 +- R/utils-validation.R | 347 ++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/bivariate-workflow.R | 2 inst/doc/bivariate-workflow.Rmd | 302 ++-- inst/doc/bivariate-workflow.html | 149 +- inst/doc/dyadicMarkov-introduction.Rmd | 129 + inst/doc/dyadicMarkov-introduction.html | 141 +- inst/doc/univariate-workflow.Rmd | 242 +-- inst/doc/univariate-workflow.html | 64 man/bivariateCase.Rd | 18 man/completePattern.Rd | 8 man/countEmpBivariate.Rd | 6 man/dyadicMarkov-package.Rd | 31 man/partialPattern.Rd | 8 man/univariatePattern.Rd | 11 tests/testthat/test-bivariate-alpha-boundary.R |only tests/testthat/test-example-data.R | 2 tests/testthat/test-statistic-identity.R |only tests/testthat/test-univariate-alpha-boundary.R |only tests/testthat/test-validation-errors.R | 630 ++++++--- vignettes/bivariate-workflow.Rmd | 302 ++-- vignettes/dyadicMarkov-introduction.Rmd | 129 + vignettes/univariate-workflow.Rmd | 242 +-- 32 files changed, 3186 insertions(+), 2595 deletions(-)
Title: Interactive Clustered Graph for French Scientific Preparatory
Classes
Description: To help French students from scientific preparatory classes for the Grandes Ecoles (CPGE) in their choice of field of study and career options, this package provides an interactive tool and data visualization of a graph clustered by different competitive exams and sectors of activity for French selective engineering schools and selective higher education institutions like Ecoles Normales Superieures (ENS) or specialized university programs (magisteres). Besides, there are two drop-down menus to select on the graph many fields or more than 200 engineering schools or ENS or magisteres. It gives the opportunity to expand, collapse clusters of selective exams interactively too. For more information, see the demonstration video: <https://valerierobert-maths.re/index.php/maths-en-cpge/>. The data was collected via the official French website: <https://www.scei-concours.fr/statistiques.html>.
Author: Valerie Robert [aut, cre]
Maintainer: Valerie Robert <valerie.robert.math@gmail.com>
Diff between cpge versions 1.0.1 dated 2026-08-08 and 1.0.2 dated 2026-08-21
DESCRIPTION | 12 ++-- MD5 | 18 +++--- NEWS.md | 6 +- R/data_graph.R | 104 ++++++++++++++++++++++----------------- R/run_graph.R | 30 ++--------- inst/quarto/cpge_fr.html | 19 +++---- inst/quarto/cpge_fr.qmd | 16 ++---- man/data_graph.Rd | 25 +++++++-- man/run_graph.Rd | 22 +------- tests/testthat/test-data_graph.R | 8 +-- 10 files changed, 130 insertions(+), 130 deletions(-)
Title: Bayesian SVARs with Sign, Zero, and Narrative Restrictions
Description: Implements state-of-the-art algorithms for the Bayesian analysis of Structural Vector Autoregressions (SVARs) identified by sign, zero, and narrative restrictions. The core model is based on a flexible Vector Autoregression with estimated hyper-parameters of the Minnesota prior and the dummy observation priors as in Giannone, Lenza, Primiceri (2015) <doi:10.1162/REST_a_00483> extended by the COVID-specific heteroskedasticity proposed by Lenza, Primiceri (2022) <doi:10.1002/jae.2895>. The sign restrictions are implemented employing the methods proposed by Rubio-Ramírez, Waggoner & Zha (2010) <doi:10.1111/j.1467-937X.2009.00578.x>, while identification through sign and zero restrictions follows the approach developed by Arias, Rubio-Ramírez, & Waggoner (2018) <doi:10.3982/ECTA14468>. Furthermore, our toolset provides algorithms for identification via sign and narrative restrictions, in line with the methods introduced by Antolín-Díaz and Rubio-Ramírez (201 [...truncated...]
Author: Xiaolei Wang [aut, cre] ,
Tomasz Wozniak [aut] ,
Fei Shang [ctb]
Maintainer: Xiaolei Wang <adamwang15@gmail.com>
Diff between bsvarSIGNs versions 2.0 dated 2025-01-29 and 3.0 dated 2026-08-21
bsvarSIGNs-2.0/bsvarSIGNs/src/utils.cpp |only bsvarSIGNs-2.0/bsvarSIGNs/src/utils.h |only bsvarSIGNs-3.0/bsvarSIGNs/DESCRIPTION | 29 bsvarSIGNs-3.0/bsvarSIGNs/MD5 | 76 - bsvarSIGNs-3.0/bsvarSIGNs/NAMESPACE | 8 bsvarSIGNs-3.0/bsvarSIGNs/NEWS.md | 10 bsvarSIGNs-3.0/bsvarSIGNs/R/RcppExports.R | 52 bsvarSIGNs-3.0/bsvarSIGNs/R/bsvarSIGNs-package.R | 52 bsvarSIGNs-3.0/bsvarSIGNs/R/compute.R | 5 bsvarSIGNs-3.0/bsvarSIGNs/R/estimate.R | 175 ++ bsvarSIGNs-3.0/bsvarSIGNs/R/forecast.R | 161 +- bsvarSIGNs-3.0/bsvarSIGNs/R/specify.R | 281 ++- bsvarSIGNs-3.0/bsvarSIGNs/R/utils.R | 16 bsvarSIGNs-3.0/bsvarSIGNs/README.md | 107 + bsvarSIGNs-3.0/bsvarSIGNs/inst/doc/bsvarSIGNs_vignette.pdf |binary bsvarSIGNs-3.0/bsvarSIGNs/inst/include/bsvarSIGNs_RcppExports.h | 411 +++++ bsvarSIGNs-3.0/bsvarSIGNs/inst/tinytest/test_specify.R | 8 bsvarSIGNs-3.0/bsvarSIGNs/man/bsvarSIGNs-package.Rd | 46 bsvarSIGNs-3.0/bsvarSIGNs/man/forecast.PosteriorBSVARSIGN.Rd | 17 bsvarSIGNs-3.0/bsvarSIGNs/man/reexports.Rd |only bsvarSIGNs-3.0/bsvarSIGNs/man/specify_bsvarSIGN.Rd | 119 + bsvarSIGNs-3.0/bsvarSIGNs/man/specify_forecasts.Rd |only bsvarSIGNs-3.0/bsvarSIGNs/man/specify_prior_bsvarSIGN.Rd | 79 - bsvarSIGNs-3.0/bsvarSIGNs/src/Makevars | 4 bsvarSIGNs-3.0/bsvarSIGNs/src/Makevars.win | 4 bsvarSIGNs-3.0/bsvarSIGNs/src/RcppExports.cpp | 710 ++++++++-- bsvarSIGNs-3.0/bsvarSIGNs/src/bsvars_sign.cpp | 299 ++-- bsvarSIGNs-3.0/bsvarSIGNs/src/bsvars_sign.h | 39 bsvarSIGNs-3.0/bsvarSIGNs/src/forecast_bsvarSIGNs.cpp | 54 bsvarSIGNs-3.0/bsvarSIGNs/src/forecast_bsvarSIGNs.h | 3 bsvarSIGNs-3.0/bsvarSIGNs/src/mcmc.cpp | 20 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_narrative.cpp | 6 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_narrative.h | 2 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_zero.cpp | 6 bsvarSIGNs-3.0/bsvarSIGNs/src/restrictions_zero.h | 2 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_NIW.cpp | 8 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_Q.cpp | 26 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_Q.h | 1 bsvarSIGNs-3.0/bsvarSIGNs/src/sample_SOE.cpp |only bsvarSIGNs-3.0/bsvarSIGNs/src/sample_SOE.h |only bsvarSIGNs-3.0/bsvarSIGNs/src/sample_hyper.cpp | 98 + bsvarSIGNs-3.0/bsvarSIGNs/src/utils_bsvarsigns.cpp |only bsvarSIGNs-3.0/bsvarSIGNs/src/utils_bsvarsigns.h |only 43 files changed, 2252 insertions(+), 682 deletions(-)
Title: Broadcasted Array Operations Like 'NumPy'
Description: Implements efficient 'NumPy'-like broadcasted operations for atomic and recursive arrays.
In the context of operations involving 2 (or more) arrays,
“broadcasting” (AKA singleton expansion) refers to efficiently recycling array dimensions,
without making copies.
Besides linking to 'Rcpp',
'broadcast' does not use any external libraries in any way;
'broadcast' was essentially made from scratch and can be installed out-of-the-box.
The implementations available in 'broadcast' include, but are not limited to, the following.
1) Broadcasted element-wise operations on any 2 arrays;
they support a large set of
relational, arithmetic, Boolean, string, and bit-wise operations.
2) A faster, more memory efficient, and broadcasted abind-like function,
for binding arrays along an arbitrary dimension.
3) Broadcasted ifelse-like and apply-like functions.
4) Casting functions,
that cast subset-groups of an array to a new dimension, cast nested lists to dimensional lists, and vice-versa.
5) A few linear [...truncated...]
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tonywilkes.nl@gmail.com>
Diff between broadcast versions 0.1.9.5 dated 2026-08-20 and 0.1.9.6 dated 2026-08-21
DESCRIPTION | 6 MD5 | 14 - NEWS.md | 6 inst/tinytest/aaa_binary_prep_part1/test-part1-outlen.R | 2 inst/tinytest/aaa_binary_prep_part2/test-drop_dims-drop_ones.R | 120 ++++------ inst/tinytest/aaa_binary_prep_part2/test-mergedims.R | 6 inst/tinytest/aaa_binary_prep_part3/test-PBR.R | 4 inst/tinytest/aaa_binary_prep_part3/test-outdim_simp.R | 4 8 files changed, 81 insertions(+), 81 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-29 1.4
2020-02-17 1.3
2019-12-20 1.2
2019-02-08 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-21 0.1.8.8
2026-02-04 0.1.8.6
2024-06-06 0.1.8.4
2023-12-18 0.1.8.1
2023-09-07 0.1.7.9
2023-03-17 0.1.7.7
2023-01-11 0.1.7.6
2022-02-06 0.1.7.4
2021-09-05 0.1.7.3
2021-02-05 0.1.7.2
2020-07-20 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-07-23 1.0.0
2026-07-07 0.8.0
2026-05-08 0.7.1
2026-04-30 0.7.0
2025-07-30 0.6.1
2025-06-19 0.6.0
2025-05-23 0.5.0
2025-03-21 0.4.6
2024-12-22 0.4.5
2023-01-06 0.4.4
2022-10-02 0.4.3
2022-09-27 0.4.2
2022-04-24 0.4.1
2022-03-21 0.4.0
2021-03-27 0.3.1
2020-11-04 0.3.0
2020-09-17 0.2.0
2020-07-13 0.1.1
2020-07-07 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-31 11.0.5.2
2024-02-01 11.0.4.1
2023-01-26 11.0.4
2022-03-09 11.0.2
2022-02-21 11.0.0
2020-02-04 10-1.2
2020-01-10 10-1.1
2019-05-26 0.9-48.1
2018-06-03 0.9-48
2018-01-22 0.9-46
2016-05-22 0.9-44
2015-04-24 0.9-43
2014-08-26 0.9-41
2014-03-29 0.9-33
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-08-02 1.2
2026-05-03 1.1
2026-04-29 1.0
2025-12-15 0.5
2025-12-06 0.4
2025-05-23 0.3
2024-07-09 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-06-13 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-23 0.5.0
2020-06-08 0.4.0
Title: 'Stata' Markdown
Description: Settings and functions to extend the 'knitr' 'Stata' engine.
Author: Doug Hemken [aut] ),
Tom Palmer [aut, cre] ,
Philipp Lepert [ctb]
Maintainer: Tom Palmer <remlapmot@hotmail.com>
Diff between Statamarkdown versions 0.9.7 dated 2026-07-19 and 1.0.0 dated 2026-08-21
Statamarkdown-0.9.7/Statamarkdown/inst/doc/1_Basic_Use_of_Statamarkdown.html |only Statamarkdown-0.9.7/Statamarkdown/inst/doc/2_Linking_Stata_Code_Chunks.html |only Statamarkdown-0.9.7/Statamarkdown/inst/doc/3_Combining_Stata_and_R.html |only Statamarkdown-0.9.7/Statamarkdown/man/Statamarkdown-package.rd |only Statamarkdown-0.9.7/Statamarkdown/man/stata_engine.rd |only Statamarkdown-1.0.0/Statamarkdown/DESCRIPTION | 27 - Statamarkdown-1.0.0/Statamarkdown/MD5 | 53 ++- Statamarkdown-1.0.0/Statamarkdown/NAMESPACE | 8 Statamarkdown-1.0.0/Statamarkdown/NEWS.md | 84 ++++ Statamarkdown-1.0.0/Statamarkdown/R/Statamarkdown-package.R |only Statamarkdown-1.0.0/Statamarkdown/R/engine_output.R | 6 Statamarkdown-1.0.0/Statamarkdown/R/find_stata.r | 70 +++- Statamarkdown-1.0.0/Statamarkdown/R/misc.r | 5 Statamarkdown-1.0.0/Statamarkdown/R/purl_stata.R |only Statamarkdown-1.0.0/Statamarkdown/R/spinstata.R | 111 ++++-- Statamarkdown-1.0.0/Statamarkdown/R/stata_collectcode.r | 83 +++- Statamarkdown-1.0.0/Statamarkdown/R/stata_engine.r | 169 +++++++++- Statamarkdown-1.0.0/Statamarkdown/README.md | 7 Statamarkdown-1.0.0/Statamarkdown/build |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/basicuse.html |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/basicuse.qmd |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/linkblocks.html |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/linkblocks.qmd |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/randstata.html |only Statamarkdown-1.0.0/Statamarkdown/inst/doc/randstata.qmd |only Statamarkdown-1.0.0/Statamarkdown/man/Statamarkdown-package.Rd |only Statamarkdown-1.0.0/Statamarkdown/man/find_stata.Rd | 61 ++- Statamarkdown-1.0.0/Statamarkdown/man/purl_stata.Rd |only Statamarkdown-1.0.0/Statamarkdown/man/spinstata.Rd | 72 ++-- Statamarkdown-1.0.0/Statamarkdown/man/stata_engine.Rd |only Statamarkdown-1.0.0/Statamarkdown/tests |only Statamarkdown-1.0.0/Statamarkdown/vignettes |only 32 files changed, 594 insertions(+), 162 deletions(-)
Title: Single-Species, Multi-Species, and Integrated Spatial Occupancy
Models
Description: Fits single-species, multi-species, and integrated non-spatial and spatial occupancy models using Markov Chain Monte Carlo (MCMC). Models are fit using Polya-Gamma data augmentation detailed in Polson, Scott, and Windle (2013) <doi:10.1080/01621459.2013.829001>. Spatial models are fit using either Gaussian processes or Nearest Neighbor Gaussian Processes (NNGP) for large spatial datasets. Details on NNGP models are given in Datta, Banerjee, Finley, and Gelfand (2016) <doi:10.1080/01621459.2015.1044091> and Finley, Datta, and Banerjee (2022) <doi:10.18637/jss.v103.i05>. Provides functionality for data integration of multiple single-species occupancy data sets using a joint likelihood framework. Details on data integration are given in Miller, Pacifici, Sanderlin, and Reich (2019) <doi:10.1111/2041-210X.13110>. Details on single-species and multi-species models are found in MacKenzie, Nichols, Lachman, Droege, Royle, and Langtimm (2002) <doi:10.1890/0012-9658(2 [...truncated...]
Author: Jeffrey Doser [aut, cre],
Andrew Finley [aut],
Marc Kery [ctb]
Maintainer: Jeffrey Doser <jwdoser@ncsu.edu>
Diff between spOccupancy versions 0.8.0 dated 2024-12-14 and 0.8.1 dated 2026-08-21
DESCRIPTION | 12 MD5 | 174 +- NAMESPACE | 2 NEWS.md | 19 R/generics.R | 306 ++--- R/getSVCSamples.R | 6 R/intPGOcc.R | 2558 ++++++++++++++++++++++---------------------- R/postHocLM.R | 6 R/spIntPGOcc.R | 8 R/stIntPGOcc.R | 6 R/stMsPGOcc.R | 8 R/stPGOcc.R | 6 R/svcTIntPGOcc.R | 10 R/svcTMsPGOcc.R | 8 R/svcTPGBinom.R | 2 R/svcTPGOcc.R | 6 R/tIntPGOcc.R | 6 R/tMsPGOcc.R | 6 R/tPGOcc.R | 6 R/updateMCMC.R | 291 ++++- build/partial.rdb |binary man/PGOcc.Rd | 2 man/getSVCSamples.Rd | 2 man/intMsPGOcc.Rd | 2 man/intPGOcc.Rd | 2 man/lfJSDM.Rd | 2 man/lfMsPGOcc.Rd | 2 man/msPGOcc.Rd | 2 man/postHocLM.Rd | 2 man/ppcOcc.Rd | 2 man/predict.PGOcc.Rd | 2 man/predict.intMsPGOcc.Rd | 2 man/predict.intPGOcc.Rd | 2 man/predict.lfJSDM.Rd | 2 man/predict.lfMsPGOcc.Rd | 2 man/predict.msPGOcc.Rd | 2 man/predict.sfJSDM.Rd | 2 man/predict.sfMsPGOcc.Rd | 2 man/predict.spIntPGOcc.Rd | 2 man/predict.spMsPGOcc.Rd | 2 man/predict.spPGOcc.Rd | 2 man/predict.stIntPGOcc.Rd | 2 man/predict.stMsPGOcc.Rd | 2 man/predict.stPGOcc.Rd | 2 man/predict.svcMsPGOcc.Rd | 2 man/predict.svcPGBinom.Rd | 2 man/predict.svcPGOcc.Rd | 2 man/predict.svcTIntPGOcc.Rd | 2 man/predict.svcTMsPGOcc.Rd | 2 man/predict.svcTPGBinom.Rd | 2 man/predict.svcTPGOcc.Rd | 2 man/predict.tIntPGOcc.Rd | 2 man/predict.tMsPGOcc.Rd | 2 man/predict.tPGOcc.Rd | 2 man/residuals.PGOcc.Rd | 2 man/residuals.spPGOcc.Rd | 2 man/residuals.svcPGOcc.Rd | 2 man/sfJSDM.Rd | 2 man/sfMsPGOcc.Rd | 2 man/simBinom.Rd | 2 man/simIntMsOcc.Rd | 2 man/simIntOcc.Rd | 2 man/simMsOcc.Rd | 2 man/simOcc.Rd | 2 man/simTBinom.Rd | 2 man/simTIntOcc.Rd | 4 man/simTMsOcc.Rd | 2 man/simTOcc.Rd | 6 man/spIntPGOcc.Rd | 2 man/spMsPGOcc.Rd | 2 man/spPGOcc.Rd | 5 man/stIntPGOcc.Rd | 2 man/stMsPGOcc.Rd | 2 man/stPGOcc.Rd | 2 man/svcMsPGOcc.Rd | 2 man/svcPGBinom.Rd | 2 man/svcPGOcc.Rd | 2 man/svcTIntPGOcc.Rd | 2 man/svcTMsPGOcc.Rd | 2 man/svcTPGBinom.Rd | 2 man/svcTPGOcc.Rd | 2 man/tIntPGOcc.Rd | 2 man/tMsPGOcc.Rd | 2 man/tPGOcc.Rd | 2 man/updateMCMC.Rd | 4 man/waicOcc.Rd | 2 src/svcPGOccNNGP.cpp | 91 - src/svcTIntPGOccNNGP.cpp | 6 88 files changed, 1982 insertions(+), 1702 deletions(-)
Title: Calculate vs-SOVs and SOVs for Assemblies with D-Dimensional
Voting
Description: Calculates vote-specific and traditional Shapley-Owen power indices (vs-SOVs and SOVs) for spatial voting games in one to four dimensions. Evaluates voter influence through an a posteriori analysis of relative preferences. Supports weighted voting and various voting thresholds. Compatible with ideal point estimates from NOMINATE, Optimal Classification, and 'MCMCpack'. The method builds on Bibina and Dougherty (2025) <doi:10.2139/ssrn.6324519>.
Author: Keith Dougherty [aut],
Emma Bibina [aut, cre]
Maintainer: Emma Bibina <emma.bibina@uga.edu>
Diff between sov versions 1.0.3 dated 2026-04-04 and 2.0.0 dated 2026-08-21
DESCRIPTION | 6 LICENSE | 2 MD5 | 26 ++- NAMESPACE | 1 NEWS.md | 4 R/plot_sov_geometry.R | 185 ++++++++++++++++++++++++++-- R/utils.R | 8 - R/vs_sov.R | 2 README.md | 21 +-- man/plot_sov_geometry.Rd |only tests/testthat/test_2d_cases.R | 24 +-- tests/testthat/test_estimate_constructors.R | 4 tests/testthat/test_plot_sov_geometry.R |only tests/testthat/test_validation.R | 8 - tests/testthat/test_vs_sov_user.R | 6 15 files changed, 239 insertions(+), 58 deletions(-)
Title: Stochastic Multi-Criteria Acceptability Analysis
Description: Implementation of the Stochastic Multi-Criteria Acceptability Analysis (SMAA) family of Multiple Criteria Decision Analysis (MCDA) methods. Tervonen, T. and Figueira, J. R. (2008) <doi:10.1002/mcda.407>.
Author: Gert van Valkenhoef [aut, cre, cph]
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between smaa versions 0.3-3 dated 2024-09-06 and 0.3-4 dated 2026-08-21
smaa-0.3-3/smaa/inst/extdata/thrombo-meas.txt.gz |only smaa-0.3-3/smaa/inst/extdata/thrombo-ranks-nopref.txt.gz |only smaa-0.3-3/smaa/inst/extdata/thrombo-values-nopref.txt.gz |only smaa-0.3-3/smaa/inst/extdata/thrombo-weights-nopref.txt.gz |only smaa-0.3-4/smaa/DESCRIPTION | 10 +- smaa-0.3-4/smaa/MD5 | 32 ++++---- smaa-0.3-4/smaa/build/partial.rdb |binary smaa-0.3-4/smaa/inst/extdata/thrombo-meas.rds |only smaa-0.3-4/smaa/inst/extdata/thrombo-ranks-nopref.rds |only smaa-0.3-4/smaa/inst/extdata/thrombo-values-nopref.rds |only smaa-0.3-4/smaa/inst/extdata/thrombo-weights-nopref.rds |only smaa-0.3-4/smaa/man/smaa-package.Rd | 4 - smaa-0.3-4/smaa/man/smaa.Rd | 4 - smaa-0.3-4/smaa/man/smaa.cf.Rd | 4 - smaa-0.3-4/smaa/man/smaa.cw.Rd | 4 - smaa-0.3-4/smaa/man/smaa.entropy.Rd | 4 - smaa-0.3-4/smaa/man/smaa.pwi.Rd | 4 - smaa-0.3-4/smaa/man/smaa.ra.Rd | 4 - smaa-0.3-4/smaa/man/smaa.ranks.Rd | 6 - smaa-0.3-4/smaa/man/smaa.values.Rd | 6 - smaa-0.3-4/smaa/tests/Examples/smaa-Ex.Rout.save | 48 ++++++------- 21 files changed, 66 insertions(+), 64 deletions(-)
Title: Simplex Regression Models with Parametric or Fixed Mean Link
Functions
Description: Fits and analyzes simplex regression models with either
fixed or parametric mean link functions. Implements the simplex
probability density function, cumulative distribution function,
quantile function, random number generation, and variance evaluation.
Offers several fixed and parametric link functions for the mean
submodel, tools for residual analysis and diagnostic plotting,
hypothesis testing procedures, and influence measures such as Cook's
distance and leverage (hat values). Includes the Scout Score (SS)
criterion for model selection, enabling comprehensive inference and
diagnostic analysis within the simplex regression framework.
For more details see Barndorff-Nielsen and Jorgensen (1991)
<doi:10.1016/0047-259X(91)90008-P> and Justino and Cribari-Neto (2026)
<doi:10.1016/j.apm.2025.116713>.
Author: Maria Eduarda da Cruz Justino [aut, cre] ,
Francisco Cribari-Neto [ctb, ths]
Maintainer: Maria Eduarda da Cruz Justino <eueduardacruz@gmail.com>
Diff between SimplexRegression versions 0.1.5 dated 2026-07-19 and 0.1.6 dated 2026-08-21
SimplexRegression-0.1.5/SimplexRegression/man/penalized.ic.Rd |only SimplexRegression-0.1.5/SimplexRegression/man/penalized.ss.Rd |only SimplexRegression-0.1.6/SimplexRegression/DESCRIPTION | 6 SimplexRegression-0.1.6/SimplexRegression/MD5 | 41 +- SimplexRegression-0.1.6/SimplexRegression/NAMESPACE | 21 - SimplexRegression-0.1.6/SimplexRegression/NEWS.md | 18 + SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_fit.R | 2 SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_ic.R |only SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_methods.R | 141 ---------- SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_penalized_ic.R | 26 - SimplexRegression-0.1.6/SimplexRegression/R/simplexreg_sscriteria.R | 10 SimplexRegression-0.1.6/SimplexRegression/inst/WORDLIST | 10 SimplexRegression-0.1.6/SimplexRegression/inst/doc/relative-humidity.R | 11 SimplexRegression-0.1.6/SimplexRegression/inst/doc/relative-humidity.Rmd | 26 - SimplexRegression-0.1.6/SimplexRegression/inst/doc/relative-humidity.html | 72 ++--- SimplexRegression-0.1.6/SimplexRegression/man/ic.Rd |only SimplexRegression-0.1.6/SimplexRegression/man/ic.penalized.Rd |only SimplexRegression-0.1.6/SimplexRegression/man/simplexreg.fit.Rd | 2 SimplexRegression-0.1.6/SimplexRegression/man/simplexreg.methods.Rd | 47 --- SimplexRegression-0.1.6/SimplexRegression/man/ss.penalized.Rd |only SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_ic.R |only SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_methods.R | 100 ------- SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_penalized_ic.R | 54 +-- SimplexRegression-0.1.6/SimplexRegression/tests/testthat/test-simplexreg_sscriteria.R | 50 +-- SimplexRegression-0.1.6/SimplexRegression/vignettes/relative-humidity.Rmd | 26 - 25 files changed, 202 insertions(+), 461 deletions(-)
More information about SimplexRegression at CRAN
Permanent link
Title: Liquid Glass Design Themes for 'shiny' Applications
Description: Provides drop-in Liquid Glass themes for 'shiny'. Call
glass_theme() and pass the result as theme = to fluidPage(),
navbarPage(), or any 'bslib'-aware page function to get
translucent surfaces, backdrop blur, and system typography on
'Bootstrap' components. Includes light and dark presets with
runtime switching and an OS-following 'auto' mode, an iOS-style
intensity control from Ultra Clear to Tinted
(glass_intensity_slider()), and options for accent color, blur,
corner radius, and motion or tint behavior.
Author: Eric Anderson [aut, cre, cph]
Maintainer: Eric Anderson <eric.ray.anderson@gmail.com>
Diff between shinyglass versions 0.1.1 dated 2026-08-02 and 0.2.0 dated 2026-08-21
shinyglass-0.1.1/shinyglass/man/figures |only shinyglass-0.2.0/shinyglass/DESCRIPTION | 34 shinyglass-0.2.0/shinyglass/MD5 | 54 shinyglass-0.2.0/shinyglass/NAMESPACE | 8 shinyglass-0.2.0/shinyglass/NEWS.md | 138 shinyglass-0.2.0/shinyglass/R/glass-intensity.R |only shinyglass-0.2.0/shinyglass/R/glass-theme.R | 584 ++ shinyglass-0.2.0/shinyglass/R/shinyglass-package.R | 25 shinyglass-0.2.0/shinyglass/README.md | 116 shinyglass-0.2.0/shinyglass/build |only shinyglass-0.2.0/shinyglass/inst/WORDLIST | 66 shinyglass-0.2.0/shinyglass/inst/doc |only shinyglass-0.2.0/shinyglass/inst/examples/apple-glass-reference.R | 26 shinyglass-0.2.0/shinyglass/inst/examples/bslib-dashboard.R | 115 shinyglass-0.2.0/shinyglass/inst/examples/chrome-kitchen-sink.R |only shinyglass-0.2.0/shinyglass/inst/examples/demo-app.R | 46 shinyglass-0.2.0/shinyglass/inst/examples/inputs-gallery.R | 199 shinyglass-0.2.0/shinyglass/inst/examples/intensity-slider-demo.R |only shinyglass-0.2.0/shinyglass/inst/examples/plotly-gt-demo.R |only shinyglass-0.2.0/shinyglass/inst/js/shiny-glass.js | 1063 ++++ shinyglass-0.2.0/shinyglass/inst/scss/glass.scss | 2399 +++++++++- shinyglass-0.2.0/shinyglass/man/glass_intensity_slider.Rd |only shinyglass-0.2.0/shinyglass/man/glass_preset_input.Rd |only shinyglass-0.2.0/shinyglass/man/glass_resolved_preset.Rd |only shinyglass-0.2.0/shinyglass/man/glass_theme.Rd | 56 shinyglass-0.2.0/shinyglass/man/glass_theme_toggle.Rd |only shinyglass-0.2.0/shinyglass/man/observe_glass_intensity.Rd |only shinyglass-0.2.0/shinyglass/man/observe_glass_preset_input.Rd |only shinyglass-0.2.0/shinyglass/man/observe_glass_theme_toggle.Rd |only shinyglass-0.2.0/shinyglass/man/shinyglass-package.Rd | 29 shinyglass-0.2.0/shinyglass/man/update_glass_theme.Rd |only shinyglass-0.2.0/shinyglass/tests/testthat/test-glass-theme.R | 408 + shinyglass-0.2.0/shinyglass/vignettes |only 33 files changed, 4923 insertions(+), 443 deletions(-)
Title: qPCR Data Analysis
Description: Tools for qPCR data analysis using Delta Ct and Delta Delta Ct methods, including t-test, Wilcoxon-test, ANOVA models, and publication-ready visualizations. The package supports multiple target, and multiple reference genes, and uses a calculation framework adopted from Ganger et al. (2017) <doi:10.1186/s12859-017-1949-5> and Taylor et al. (2019) <doi:10.1016/j.tibtech.2018.12.002>, covering both the Livak and Pfaffl methods.
Author: Ghader Mirzaghaderi [aut, cre, cph]
Maintainer: Ghader Mirzaghaderi <mirzaghaderi@gmail.com>
Diff between rtpcr versions 2.1.8 dated 2026-05-21 and 2.1.9 dated 2026-08-21
rtpcr-2.1.8/rtpcr/man/figures/shiny_rtpcr.png |only rtpcr-2.1.8/rtpcr/vignettes/--find-assets.html |only rtpcr-2.1.9/rtpcr/DESCRIPTION | 9 rtpcr-2.1.9/rtpcr/MD5 | 31 rtpcr-2.1.9/rtpcr/NEWS.md | 5 rtpcr-2.1.9/rtpcr/R/ANOVA_DCt.R | 12 rtpcr-2.1.9/rtpcr/R/ANOVA_DDCt.R | 52 rtpcr-2.1.9/rtpcr/R/globalVariables.R | 3 rtpcr-2.1.9/rtpcr/inst/doc/Method.Rmd | 8 rtpcr-2.1.9/rtpcr/inst/doc/Method.html | 5 rtpcr-2.1.9/rtpcr/inst/doc/manual.R | 16 rtpcr-2.1.9/rtpcr/inst/doc/manual.Rmd | 70 - rtpcr-2.1.9/rtpcr/inst/doc/manual.html | 667 +++++----- rtpcr-2.1.9/rtpcr/inst/shinyapp/app.R | 285 +++- rtpcr-2.1.9/rtpcr/inst/shinyapp/rsconnect/shinyapps.io/mirzaghaderi/rtpcr.dcf | 4 rtpcr-2.1.9/rtpcr/inst/shinyapp/www/qPCR_Plot.jpg |only rtpcr-2.1.9/rtpcr/vignettes/Method.Rmd | 8 rtpcr-2.1.9/rtpcr/vignettes/manual.Rmd | 70 - 18 files changed, 698 insertions(+), 547 deletions(-)
Title: Distributions Compatible with Automatic Differentiation by
'RTMB'
Description: Extends the functionality of the 'RTMB' <https://kaskr.r-universe.dev/RTMB> package by providing a collection of non-standard probability distributions compatible with automatic differentiation (AD). While 'RTMB' enables flexible and efficient modelling, including random effects, its built-in support is limited to standard distributions. The package adds additional AD-compatible distributions, broadening the range of models that can be implemented and estimated using 'RTMB'. Automatic differentiation and Laplace approximation are described in Kristensen et al. (2016) <doi:10.18637/jss.v070.i05>.
Author: Jan-Ole Fischer [aut, cre]
Maintainer: Jan-Ole Fischer <jan-ole.fischer@mailbox.org>
Diff between RTMBdist versions 1.0.5 dated 2026-07-22 and 1.0.6 dated 2026-08-21
DESCRIPTION | 8 +++--- MD5 | 31 +++++++++++++---------- NAMESPACE | 7 +++++ NEWS.md | 2 + R/aaa_utils.R | 36 +++++++++++++-------------- R/combinom.R |only R/exgauss.R | 2 - R/laplace_check.R |only README.md | 5 +++ inst/doc/Examples.R | 21 +++------------ inst/doc/Examples.Rmd | 24 ++++-------------- inst/doc/Examples.html | 54 ++++++++++++++++------------------------- inst/doc/distlist.Rmd | 4 +++ inst/doc/distlist.html | 7 +++++ man/combinom.Rd |only man/laplace_check.Rd |only tests/testthat/test-combinom.R |only vignettes/Examples.Rmd | 24 ++++-------------- vignettes/distlist.Rmd | 4 +++ 19 files changed, 109 insertions(+), 120 deletions(-)
Title: A Comprehensive Interface for Accessing the Protein Data Bank
Description: Provides an R interface to the 'RCSB' Protein Data Bank ('PDB') Search
and Data APIs (<https://www.rcsb.org/>). Supports full-text, attribute,
sequence, motif, structure, and chemical searches; retrieval of entry-,
assembly-, polymer-entity-, and chemical-component-level metadata; and
conversion of API responses into analysis-ready tables and typed R objects for
reproducible structural bioinformatics workflows.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between rPDBapi versions 3.0.1 dated 2026-03-07 and 3.0.2 dated 2026-08-21
DESCRIPTION | 6 MD5 | 46 NEWS.md | 13 R/data_fetcher.R | 3 R/find_papers.R | 2 R/find_results.R | 3 R/get_fasta_from_rcsb_entry.R | 3 R/get_info.R | 2 R/get_pdb_file.R | 2 R/perform_search.R | 3 R/query_search.R | 2 build/vignette.rds |binary inst/doc/rPDBapi-structural-bioinformatics.R | 1251 +++---- inst/doc/rPDBapi-structural-bioinformatics.Rmd | 125 inst/doc/rPDBapi-structural-bioinformatics.html | 3952 ------------------------ man/data_fetcher.Rd | 2 man/find_papers.Rd | 2 man/find_results.Rd | 2 man/get_fasta_from_rcsb_entry.Rd | 2 man/get_info.Rd | 2 man/get_pdb_file.Rd | 2 man/perform_search.Rd | 2 man/query_search.Rd | 2 vignettes/rPDBapi-structural-bioinformatics.Rmd | 125 24 files changed, 927 insertions(+), 4627 deletions(-)
Title: Robust Effect Size Index (RESI) Estimation
Description: Summarize model output using a robust effect size index. The index is introduced in Vandekar, Tao, & Blume (2020, <doi:10.1007/s11336-020-09698-2>). Software paper available at <doi:10.18637/jss.v112.i03>.
Author: Megan Jones [aut],
Kaidi Kang [aut],
Simon Vandekar [aut, cre],
Gina Yu [ctb],
Xinyu Zhang [ctb]
Maintainer: Simon Vandekar <simon.vandekar@vumc.org>
Diff between RESI versions 1.4.2 dated 2026-07-24 and 1.5.1 dated 2026-08-21
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 13 + R/resi_asymptotic.R | 255 ++++++++++++++++++++++++++++++---- R/simulations.R | 55 ++++--- tests/testthat/test-resi.R | 10 - tests/testthat/test-resi_asymptotic.R | 174 +++++++++++++++++++++++ 7 files changed, 462 insertions(+), 63 deletions(-)
Title: Adds Subtotals to Data Reports
Description: Adds subtotal rows / sections (a la the 'SAS' 'Proc Tabulate' All option) to a Group By output by running a series of Group By functions with partial sets of the same variables and combining the results with the original. Can be used to add comprehensive information to a data report or to quickly aggregate Group By outputs used to gain a greater understanding of data.
Author: Yoni Aboody [aut, cre, cph]
Maintainer: Yoni Aboody <yoniaboody@gmail.com>
Diff between ReportSubtotal versions 0.1.2 dated 2024-12-02 and 0.2.1 dated 2026-08-21
DESCRIPTION | 12 +-- MD5 | 34 +++++--- NAMESPACE | 40 ++++++---- NEWS.md | 9 ++ R/ReportSubtotal-package.R | 54 +++++++------ R/subtotal_dupe_removal.R | 55 +++++++------- R/subtotal_row.R | 164 +++++++++++++----------------------------- R/subtotal_section.R | 140 +++++++++++++---------------------- R/utils.R |only README.md |only man/ReportSubtotal-package.Rd | 5 + man/subtotal_dupe_removal.Rd | 26 +++--- man/subtotal_row.Rd | 35 ++++---- man/subtotal_section.Rd | 38 +++++---- tests |only 15 files changed, 287 insertions(+), 325 deletions(-)
More information about ReportSubtotal at CRAN
Permanent link
Title: Relational Data Modeler
Description: The aim of this package is to manipulate relational
data models in R.
It provides functions to create, modify and export data models
in json format.
It also allows importing models created
with 'MySQL Workbench' (<https://www.mysql.com/products/workbench/>).
These functions are accessible through a graphical user
interface made with 'shiny'.
Constraints such as types, keys, uniqueness and mandatory fields are
automatically checked and corrected when editing a model.
Finally, real data can be confronted to a model to check their compatibility.
Author: Patrice Godard [aut, cre, cph],
Kai Lin [ctb]
Maintainer: Patrice Godard <patrice.godard@gmail.com>
Diff between ReDaMoR versions 1.0.0 dated 2026-05-19 and 1.0.1 dated 2026-08-21
DESCRIPTION | 8 ++--- MD5 | 22 ++++++++-------- NAMESPACE | 62 +++++++++++++++++++++++++++------------------- R/RelDataModel.R | 2 - R/RelTableModel.R | 2 - R/model_relational_data.R | 14 +++++----- build/vignette.rds |binary inst/doc/ReDaMoR.R | 41 +++++++++++++++++------------- inst/doc/ReDaMoR.Rmd | 41 +++++++++++++++++------------- inst/doc/ReDaMoR.html | 53 ++++++++++++++++++++------------------- inst/pkgdown.yml | 6 ++-- vignettes/ReDaMoR.Rmd | 41 +++++++++++++++++------------- 12 files changed, 161 insertions(+), 131 deletions(-)
Title: Access your Coletum's Data from API
Description: Get your data (forms, structures, answers) from Coletum
<https://coletum.com> to handle and analyse.
Author: Andre Smaniotto [aut, cre],
Marcelo Magnani [aut],
Rodrigo Sant'Ana [aut],
GeoSapiens [cph, fnd]
Maintainer: Andre Smaniotto <smaniotto@geosapiens.com.br>
Diff between RColetum versions 1.0.0 dated 2026-04-16 and 1.1.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- NEWS.md | 8 ++++++++ R/GetAnswers.R | 5 ++++- R/GetForm.R | 3 ++- R/GetForms.R | 4 ++-- R/utils.R | 2 +- man/GetAnswers.Rd | 2 +- man/GetForm.Rd | 3 ++- man/GetForms.Rd | 4 ++-- man/RColetum-package.Rd | 1 + tests/testthat/test-FlattenAnswers.R | 5 +++++ tests/testthat/test-GetAnswers.R | 6 ++++++ tests/testthat/test-GetAnswersComplexForm.R | 2 ++ tests/testthat/test-GetForms.R | 2 ++ 15 files changed, 56 insertions(+), 27 deletions(-)
Title: Bayesian Geostatistical Modeling with RAMPS
Description: Bayesian geostatistical modeling of Gaussian processes using a
reparameterized and marginalized posterior sampling (RAMPS) algorithm
designed to lower autocorrelation in MCMC samples. Package performance is
tuned for large spatial datasets.
Author: Brian J Smith [aut, cre],
Jun Yan [aut],
Mary Kathryn Cowles [aut]
Maintainer: Brian J Smith <brian-j-smith@uiowa.edu>
Diff between ramps versions 0.6.18 dated 2023-03-13 and 0.6.19 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/DIC.R | 2 +- R/engine.R | 2 +- R/georamps.R | 4 ++-- R/predict.R | 4 ++-- R/utils.R | 2 +- data/NURE.R | 4 ++-- data/simJSS.R | 6 +++--- 9 files changed, 24 insertions(+), 24 deletions(-)
Title: Powerful 'SAS' Inspired Concepts for more Efficient Bigger
Outputs
Description: The main goal is to make descriptive evaluations easier to create bigger and more complex outputs in less time with less code. Introducing format containers with multilabels <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/p06ciqes4eaqo6n0zyqtz9p21nfb.htm>, a more powerful summarise which is capable to output every possible combination of the provided grouping variables in one go <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/p0jvbbqkt0gs2cn1lo4zndbqs1pe.htm>, tabulation functions which can create any table in different styles <https://documentation.sas.com/doc/en/pgmsascdc/v_067/proc/n1ql5xnu0k3kdtn11gwa5hc7u435.htm> and other more readable functions. The code is optimized to work fast even with datasets of over a million observations.
Author: Tim Siebenmorgen [aut, cre, cph]
Maintainer: Tim Siebenmorgen <qol_package@proton.me>
Diff between qol versions 1.3.3 dated 2026-07-16 and 1.3.4 dated 2026-08-21
qol-1.3.3/qol/man/get_integer_length.Rd |only qol-1.3.4/qol/DESCRIPTION | 12 qol-1.3.4/qol/MD5 | 117 qol-1.3.4/qol/NAMESPACE | 7 qol-1.3.4/qol/NEWS.md | 92 qol-1.3.4/qol/R/any_table.R | 655 +++- qol-1.3.4/qol/R/apply_format.R | 23 qol-1.3.4/qol/R/build_master.R | 904 ++++- qol-1.3.4/qol/R/compute.R | 6 qol-1.3.4/qol/R/conversion.R | 6 qol-1.3.4/qol/R/crosstabs.R | 219 + qol-1.3.4/qol/R/dummy_data.R | 3 qol-1.3.4/qol/R/excel_helpers.R | 1291 +++++--- qol-1.3.4/qol/R/export_with_style.R | 62 qol-1.3.4/qol/R/frequencies.R | 314 + qol-1.3.4/qol/R/globals.R | 192 - qol-1.3.4/qol/R/html_helpers.R |only qol-1.3.4/qol/R/if_else.R | 3478 +++++++++++----------- qol-1.3.4/qol/R/import_export.R | 66 qol-1.3.4/qol/R/loading.R | 309 + qol-1.3.4/qol/R/multi_join.R | 46 qol-1.3.4/qol/R/options.R | 37 qol-1.3.4/qol/R/qol.R | 5 qol-1.3.4/qol/R/recode.R | 253 - qol-1.3.4/qol/R/renaming.R | 32 qol-1.3.4/qol/R/retain.R | 32 qol-1.3.4/qol/R/small_helpers.R | 90 qol-1.3.4/qol/R/split_by.R | 2 qol-1.3.4/qol/R/strings.R | 2 qol-1.3.4/qol/R/summarise_plus.R | 53 qol-1.3.4/qol/R/transpose_plus.R | 4 qol-1.3.4/qol/README.md | 4 qol-1.3.4/qol/inst/extdata/qol_table.min.css.txt |only qol-1.3.4/qol/inst/extdata/qol_table.min.js.txt |only qol-1.3.4/qol/inst/tinytest/test-any_table.R | 707 ++++ qol-1.3.4/qol/inst/tinytest/test-crosstabs.R | 84 qol-1.3.4/qol/inst/tinytest/test-frequencies.R | 17 qol-1.3.4/qol/inst/tinytest/test-if_else.R | 1261 ++++--- qol-1.3.4/qol/inst/tinytest/test-import_export.R | 22 qol-1.3.4/qol/inst/tinytest/test-loading.R | 123 qol-1.3.4/qol/inst/tinytest/test-multi_join.R | 18 qol-1.3.4/qol/inst/tinytest/test-options.R | 9 qol-1.3.4/qol/inst/tinytest/test-recode.R | 48 qol-1.3.4/qol/inst/tinytest/test-renaming.R | 14 qol-1.3.4/qol/inst/tinytest/test-retain.R | 4 qol-1.3.4/qol/inst/tinytest/test-small_helpers.R | 32 qol-1.3.4/qol/inst/tinytest/test-summarise_plus.R | 55 qol-1.3.4/qol/inst/tinytest/test-transpose_plus.R | 18 qol-1.3.4/qol/man/any_table.Rd | 56 qol-1.3.4/qol/man/build_master.Rd | 47 qol-1.3.4/qol/man/check_required_package.Rd |only qol-1.3.4/qol/man/combine_into_workbook.Rd | 96 qol-1.3.4/qol/man/create_table_of_contents.Rd |only qol-1.3.4/qol/man/crosstabs.Rd | 40 qol-1.3.4/qol/man/excel_output_style.Rd | 54 qol-1.3.4/qol/man/export_with_style.Rd | 27 qol-1.3.4/qol/man/frequencies.Rd | 40 qol-1.3.4/qol/man/import_export.Rd | 10 qol-1.3.4/qol/man/qol-package.Rd | 6 qol-1.3.4/qol/man/qol_options.Rd | 2 qol-1.3.4/qol/man/recode.Rd | 24 qol-1.3.4/qol/man/run_scripts.Rd |only qol-1.3.4/qol/man/save_load.Rd | 44 63 files changed, 7410 insertions(+), 3764 deletions(-)
Title: PubMed Pairwise Co-Occurrence Matrix Construction and
Visualization
Description: Queries the 'NCBI' (National Center for Biotechnology Information)
Entrez 'E-utilities' API to count pairwise co-occurrences between two sets
of terms in 'PubMed' or 'PubMed Central'. It returns a matrix-like data
frame of publication counts and can export hyperlink-enabled results in
CSV or ODS format. The package also provides heatmap helpers for
exploratory visualization of overlap patterns. Based on the method described
in Becker et al. (2003) "PubMatrix: a tool for multiplex literature mining"
<doi:10.1186/1471-2105-4-61>.
Author: Tyler Laird [aut],
Enrique Toledo [aut, cre]
Maintainer: Enrique Toledo <enriquetoledo@gmail.com>
Diff between PubMatrixR versions 1.0.0 dated 2026-03-12 and 1.0.1 dated 2026-08-21
DESCRIPTION | 16 +-- MD5 | 41 ++++--- NAMESPACE | 24 ++-- NEWS.md | 26 ++++ R/PubMatrix.R | 139 +++++++++++++++++++++----- R/heatmap_functions.R | 143 ++++++++++++++++++--------- README.md | 41 ++++--- build/vignette.rds |binary inst/WORDLIST | 23 ++++ inst/doc/WntExample.R |only inst/doc/WntExample.Rmd |only inst/doc/WntExample.html |only inst/doc/vignette.R | 15 +- inst/doc/vignette.Rmd | 18 ++- inst/doc/vignette.html | 104 +++++++++---------- man/PubMatrix.Rd | 17 +++ man/PubMatrixR-package.Rd | 2 man/plot_pubmatrix_heatmap.Rd | 42 ++++++-- man/pubmatrix_heatmap.Rd | 9 + tests/testthat/setup.R |only tests/testthat/test-heatmap.R | 130 ++++++++++++++++++++++++ tests/testthat/test-pubmatrix.R | 209 +++++++++++++++++++++++++++++++++++++--- vignettes/WntExample.Rmd |only vignettes/vignette.Rmd | 18 ++- 24 files changed, 788 insertions(+), 229 deletions(-)
Title: PS-Integrated Methods for Incorporating Real-World Evidence in
Clinical Studies
Description: High-quality real-world data can be transformed into scientific
real-world evidence for regulatory and healthcare decision-making
using proven analytical methods and techniques. For example, propensity
score (PS) methodology can be applied to select a subset of real-world
data containing patients that are similar to those in the current clinical
study in terms of baseline covariates, and to stratify the selected
patients together with those in the current study into more homogeneous
strata. Then, statistical methods such as the power prior approach or
composite likelihood approach can be applied in each stratum to draw
inference for the parameters of interest. This package provides
functions that implement the PS-integrated real-world
evidence analysis methods such as
Wang et al. (2019) <doi:10.1080/10543406.2019.1657133>,
Wang et al. (2020) <doi:10.1080/10543406.2019.1684309>, and
Chen et al. (2020) <doi:10.1080/10543406.2020.1730877>.
Author: Chenguang Wang [aut],
Trustees of Columbia University [cph] ,
Wei-Chen Chen [aut, cre]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between psrwe versions 3.2-1 dated 2026-02-18 and 3.2-2 dated 2026-08-21
DESCRIPTION | 8 +- MD5 | 35 ++++++------ NAMESPACE | 114 ++++++++++++++++++++++------------------- NEWS.md | 7 ++ R/psrwe_powerprior.R | 18 +++++- R/psrwe_powerprior_watt.R | 26 ++++++--- R/stanmodels.R | 4 - build/partial.rdb |binary demo/00Index | 2 demo/sec_7_1_ex.r |only demo/sec_7_2_ex.r |only inst/stan/powerp.stan | 8 ++ inst/stan/powerps.stan | 7 ++ inst/stan/powerps_wattcon.stan | 7 ++ inst/stan/powerpsbinary.stan | 7 ++ man/psrwe-package.Rd | 1 man/psrwe_powerp.Rd | 4 + man/psrwe_powerp_watt.Rd | 4 + man/rwe_stan.Rd | 1 src/RcppExports.cpp |only 20 files changed, 163 insertions(+), 90 deletions(-)
Title: Quantifying Animal Movement and Space-Use Patterns with
Statistical Physics
Description: Provides tools to analyse animal movement and space-use patterns from
telemetry data using methods derived from statistical physics. Methods
span displacement-based approaches, distribution fitting, space-use
metrics (including the influence of correlations on space-use), network-based
community detection, and measures of entropy and predictability.
The package enables characterisation of these patterns across spatial
and temporal scales, including variation within and among individuals
(inter- and intraspecific analyses). Outputs include interpretable
metrics and visualisations to support ecological analysis and the
investigation of fundamental movement processes. For applications of
these methods in ecological studies see Rodríguez et al. (2017)
<doi:10.1038/s41598-017-00165-0> and Sequeira et al. (2018)
<doi:10.1073/pnas.1716137115>.
Author: Hannah J. Calich [aut, cre, cph] ,
Jorge Rodriguez [aut] ,
Victor Eguiluz [aut] ,
Ana M. M. Sequeira [aut]
Maintainer: Hannah J. Calich <hannah.calich@gmail.com>
Diff between PhysMove versions 1.2.4 dated 2026-08-04 and 1.2.5 dated 2026-08-21
DESCRIPTION | 8 ++-- MD5 | 50 +++++++++++++++--------------- NEWS.md | 11 +++++- R/infomapCommunities.R | 2 - R/plotDispPDF.R | 8 ++-- R/randomise.R | 8 ++-- R/turningAngles.R | 2 - README.md | 13 +++---- inst/WORDLIST | 4 +- inst/doc/pt1_introduction.R | 7 ++-- inst/doc/pt1_introduction.Rmd | 13 ++++--- inst/doc/pt1_introduction.html | 24 ++++++++------ inst/doc/pt2_movement_patterns.R | 4 +- inst/doc/pt2_movement_patterns.Rmd | 16 ++++----- inst/doc/pt2_movement_patterns.html | 22 ++++++------- inst/doc/pt3_space_use_patterns.Rmd | 2 - inst/doc/pt3_space_use_patterns.html | 4 +- inst/doc/pt4_intraspecific_movements.Rmd | 2 - inst/doc/pt4_intraspecific_movements.html | 4 +- man/plotDispPDF.Rd | 4 +- man/randomise.Rd | 6 +-- man/turningAngles.Rd | 2 - vignettes/pt1_introduction.Rmd | 13 ++++--- vignettes/pt2_movement_patterns.Rmd | 16 ++++----- vignettes/pt3_space_use_patterns.Rmd | 2 - vignettes/pt4_intraspecific_movements.Rmd | 2 - 26 files changed, 131 insertions(+), 118 deletions(-)
Title: Parallel Factor Analysis Modelling of Longitudinal Microbiome
Data
Description: Creation and selection of PARAllel FACtor Analysis (PARAFAC)
models of longitudinal microbiome data. You can import your own data with
our import functions or use one of the example datasets to create your own
PARAFAC models. Selection of the optimal number of components can be done
using assessModelQuality() and assessModelStability(). The selected model can
then be plotted using plotPARAFACmodel(). The Parallel Factor
Analysis method was originally described by Caroll and Chang (1970)
<doi:10.1007/BF02310791> and Harshman (1970)
<https://www.psychology.uwo.ca/faculty/harshman/wpppfac0.pdf>.
Author: Geert Roelof van der Ploeg [aut, cre] ,
Johan Westerhuis [ctb] ,
Anna Heintz-Buschart [ctb] ,
Age Smilde [ctb] ,
University of Amsterdam [cph, fnd]
Maintainer: Geert Roelof van der Ploeg <roel@simula.no>
Diff between parafac4microbiome versions 1.3.2 dated 2025-07-31 and 1.3.3 dated 2026-08-21
DESCRIPTION | 12 MD5 | 62 ++-- NEWS.md | 5 R/multiwayCLR.R | 46 +-- R/multiwayCenter.R | 42 +-- R/multiwayScale.R | 44 +-- R/parafac4microbiome-package.R | 14 - R/plotModelMetric.R | 104 ++++---- R/plotModelStability.R | 236 +++++++++---------- R/plotModelTCCs.R | 112 ++++----- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Fujita2023.html | 17 - inst/doc/Introduction.html | 7 inst/doc/Shao2019.html | 19 - inst/doc/vanderPloeg2024.html | 11 man/corcondia.Rd | 48 +-- man/figures/lifecycle-deprecated.svg | 42 +-- man/figures/lifecycle-experimental.svg | 42 +-- man/figures/lifecycle-stable.svg | 58 ++-- man/figures/lifecycle-superseded.svg | 42 +-- man/importTreeSummarizedExperiment.Rd | 104 ++++---- man/parafac_core_als.Rd | 66 ++--- man/plotModelStability.Rd | 108 ++++---- man/plotModelTCCs.Rd | 44 +-- tests/testthat/test-importTreeSummarizedExperiment.R | 208 ++++++++-------- tests/testthat/test-initializePARAFAC.R | 172 ++++++------- tests/testthat/test-multiwayCLR.R | 30 +- tests/testthat/test-multiwayScale.R | 48 +-- tests/testthat/test-plotModelMetric.R | 8 tests/testthat/test-plotModelStability.R | 10 tests/testthat/test-plotModelTCCs.R | 22 - 32 files changed, 896 insertions(+), 887 deletions(-)
More information about parafac4microbiome at CRAN
Permanent link
Title: Helper Functions for Org Files
Description: Helper functions for Org files (<https://orgmode.org/>):
a generic function 'toOrg' for transforming R objects into Org
markup (most useful for data frames; there are also methods for
Dates/POSIXt) and a function to read Org tables into data frames.
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between orgutils versions 0.5-3 dated 2025-12-22 and 0.5-4 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 21 +++++++++++---------- NEWS | 6 ++++++ R/toOrg.R | 4 ++-- build/vignette.rds |binary inst/doc/orgutils_examples.R | 18 +++++++++--------- inst/doc/orgutils_examples.Rnw | 11 +++++++---- inst/doc/orgutils_examples.pdf |binary inst/tinytest/orgtable4.org | 2 ++ inst/tinytest/orgtable4b.org |only inst/tinytest/test_readOrg.R | 30 ++++++++++++++++++++++++++++++ vignettes/orgutils_examples.Rnw | 11 +++++++---- 12 files changed, 78 insertions(+), 33 deletions(-)
Title: Automated Analysis of Phenotypic Data
Description: Provides functions to analyze and visualize meristic, mensural, and categorical
phenotypic data in a comparative framework. The package implements an
automated pipeline that summarizes traits, identifies diagnostic variables
among groups, performs multivariate and univariate statistical analyses, and
produces publication-ready graphics. Earlier implementation are
described in Torres (2025) <doi:10.64898/2025.12.18.695244> (v1.0.0)
and Torres (2026) <doi:10.1002/ece3.73111> (v2.0.0).
Author: Javier Torres [aut, cre]
Maintainer: Javier Torres <metalofis@gmail.com>
Diff between Orangutan versions 2.1.0 dated 2026-03-31 and 2.2.0 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 14 - NAMESPACE | 2 R/Orangutan.R | 360 ++++++++++++++++++++++++++++++++++++++++++++++++--- R/html_report.R | 105 ++++++++++++-- R/imports.R | 4 README.md | 53 +++++-- man/run_orangutan.Rd | 16 +- 8 files changed, 494 insertions(+), 68 deletions(-)
Title: N-Way Partial Least Squares Modelling of Multi-Way Data
Description: Creation and selection of N-way Partial Least Squares (NPLS) models. Selection of the optimal number of components can be done using ncrossreg(). NPLS was originally described by Rasmus Bro, see <doi:10.1002/%28SICI%291099-128X%28199601%2910%3A1%3C47%3A%3AAID-CEM400%3E3.0.CO%3B2-C>.
Author: Geert Roelof van der Ploeg [aut, cre] ,
Johan Westerhuis [ctb] ,
Anna Heintz-Buschart [ctb] ,
Age Smilde [ctb] ,
University of Amsterdam [cph, fnd]
Maintainer: Geert Roelof van der Ploeg <roel@simula.no>
Diff between NPLStoolbox versions 1.1.0 dated 2025-07-31 and 1.1.1 dated 2026-08-21
DESCRIPTION | 13 ++++---- MD5 | 10 +++--- NEWS.md | 5 +++ R/data.R | 66 ++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/Introduction.html | 5 ++- 6 files changed, 53 insertions(+), 46 deletions(-)
Title: Derivation of Regression-Based Normative Data
Description: Normative data are often used to estimate the relative position of a raw test score in the population. This package allows for deriving regression-based normative data. It includes functions that enable the fitting of regression models for the mean and residual (or variance) structures, test the model assumptions, derive the normative data in the form of normative tables or automatic scoring sheets, and estimate confidence intervals for the norms. This package accompanies the book Van der Elst, W. (2024). Regression-based normative data for psychological assessment. A hands-on approach using R. Springer Nature.
Author: Wim Van der Elst [aut, cre]
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between NormData versions 1.1 dated 2024-04-12 and 1.2 dated 2026-08-21
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- R/Bootstrap.Stage.2.NormScore.R | 2 +- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Tools for Creating Publication-Ready Regression Tables
Description: Simplifies regression modeling in R by integrating multiple modeling and summarization
tools into a cohesive, user-friendly interface. Designed to be accessible for researchers,
particularly those in Low- and Middle-Income Countries (LMIC). Built upon widely accepted
statistical methods, including logistic regression (Hosmer et al. 2013, ISBN:9781118548429),
log-binomial regression (Spiegelman and Hertzmark 2005 <doi:10.1093/aje/kwi188>),
Firth penalized logistic regression (Firth 1993 <doi:10.1093/biomet/80.1.27>),
Poisson and robust Poisson regression (Zou 2004 <doi:10.1093/aje/kwh090>),
negative binomial regression (Hilbe 2011, ISBN:9780521179515), Cox proportional
hazards regression, parametric survival regression, causal mediation analysis,
and linear regression
(Kutner et al. 2005, ISBN:9780071122214). Leverages multiple dependencies to ensure
high-quality output and generate reproducible, publication-ready tables in alignment with
best practices in epidemiology [...truncated...]
Author: Rubeshkumar Polani [aut, cre] ,
Salin K Eliyas [aut] ,
Manikandanesan Sakthivel [aut] ,
Mogan Kaviprawin [aut] ,
Yuvaraj Krishnamoorthy [aut] ,
Marie Gilbert Majella [aut]
Maintainer: Rubeshkumar Polani <rubesh@thinkdenominator.com>
Diff between gtregression versions 1.0.0 dated 2025-08-18 and 1.1.0 dated 2026-08-21
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Title: Alternative Meta-Analysis Methods
Description: Provides alternative statistical methods for meta-analysis, including:
- bivariate generalized linear mixed models for synthesizing odds ratios, relative risks,
and risk differences
(Chu et al., 2012 <doi:10.1177/0962280210393712>)
- tests and measures for between-study heterogeneity
(Lin et al., 2017 <doi:10.1111/biom.12543>;
Wang et al., 2022 <doi:10.1002/sim.9261>;
Yu et al., 2025 <doi:10.1186/s12874-025-02719-7>);
- measures, tests, and visualization tools for publication bias, small-study effects, or related bias
(Lin and Chu, 2018 <doi:10.1111/biom.12817>;
Lin, 2019 <doi:10.1002/jrsm.1340>;
Lin, 2020 <doi:10.1177/0962280220910172>;
Shi et al., 2020 <doi:10.1002/jrsm.1415>);
- meta-analysis of combining standardized mean differences and odds ratios
(Jing et al., 2023 <doi:10.1080/10543406.2022.2105345>);
- meta-analysis of diagnostic tests for synthesizing sensitivities, specificities, etc.
(Reitsma et al., 2005 <doi:10.1016 [...truncated...]
Author: Lifeng Lin [aut, cre] ,
Yaqi Jing [ctb],
Kristine J. Rosenberger [ctb],
Linyu Shi [ctb],
Yipeng Wang [ctb],
Xing Xing [ctb] ,
Zhiyuan Yu [ctb],
Haitao Chu [aut]
Maintainer: Lifeng Lin <lifenglin@arizona.edu>
Diff between altmeta versions 4.3.1 dated 2026-04-30 and 4.4 dated 2026-08-21
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++++------ NAMESPACE | 2 +- R/meta.or.smd.R | 2 +- R/pb.timelag.R |only data/dat.sherrington.rda |only man/dat.sherrington.Rd |only man/pb.bayesian.binary.Rd | 2 +- man/pb.hybrid.binary.Rd | 6 +++--- man/pb.hybrid.generic.Rd | 6 +++--- man/pb.timelag.Rd |only 11 files changed, 24 insertions(+), 20 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-11 1.1.9
2016-02-18 1.1.5
2015-10-22 1.1.4
2013-11-05 1.1.2
2013-04-01 1.1.1
2012-09-17 1.1.0
2010-07-24 1.0.13
2010-06-09 1.0.11
2010-05-10 1.0.10
2010-05-06 1.0.8
Title: Understanding Nonlinear Mixed Effects Modeling for Population
Pharmacokinetics
Description: This shows how 'NONMEM' (Beal SL, Sheiner LB, Boeckmann AJ,
Bauer RJ. NONMEM 7.5 Users Guides. Icon plc, 2020) software works.
'NONMEM' classical estimation methods such as 'First Order (FO)
approximation', 'First Order Conditional Estimation (FOCE)', and
'Laplacian approximation' are explained. Functions are also provided
for post-run processing of NONMEM output files, generating PDF
diagnostic reports including objective function value analysis,
parameter estimates, prediction and residual diagnostics, empirical
Bayes estimate (EBE) analysis, input data summary, and individual
pharmacokinetic parameter distributions. Helper utilities for
building NONMEM-ready datasets from SDTM-style source tables are
also included.
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between nmw versions 0.3.1 dated 2026-06-09 and 0.5.1 dated 2026-08-21
nmw-0.3.1/nmw/man/AddPage.Rd |only nmw-0.3.1/nmw/man/ClosePDF.Rd |only nmw-0.3.1/nmw/man/PrepPDF.Rd |only nmw-0.3.1/nmw/man/PrinMTxt.Rd |only nmw-0.3.1/nmw/man/PrinTxt.Rd |only nmw-0.5.1/nmw/DESCRIPTION | 14 nmw-0.5.1/nmw/MD5 | 90 +-- nmw-0.5.1/nmw/NAMESPACE | 16 nmw-0.5.1/nmw/R/AddCox.R | 4 nmw-0.5.1/nmw/R/CombDmExPc.R | 6 nmw-0.5.1/nmw/R/CovStep.R | 1 nmw-0.5.1/nmw/R/InitStep.R | 14 nmw-0.5.1/nmw/R/TabStep.R | 2 nmw-0.5.1/nmw/R/ctl2nmw.R |only nmw-0.5.1/nmw/R/nm_parse.R | 36 - nmw-0.5.1/nmw/R/nm_read.R | 9 nmw-0.5.1/nmw/R/nm_stats.R | 4 nmw-0.5.1/nmw/R/nm_summary.R | 71 -- nmw-0.5.1/nmw/R/pdf_report.R | 221 +------ nmw-0.5.1/nmw/R/plot_pairs.R | 2 nmw-0.5.1/nmw/R/report_ebe.R | 908 +++++++++++++++----------------- nmw-0.5.1/nmw/R/report_indipk.R | 109 ++- nmw-0.5.1/nmw/R/report_input.R | 183 ++++-- nmw-0.5.1/nmw/R/report_ofv.R | 396 +++++++------ nmw-0.5.1/nmw/R/report_output.R | 61 +- nmw-0.5.1/nmw/R/report_param.R | 267 +++------ nmw-0.5.1/nmw/R/report_pred.R | 438 ++++++++------- nmw-0.5.1/nmw/R/report_resid.R | 710 ++++++++++++++++--------- nmw-0.5.1/nmw/R/utils_data.R | 18 nmw-0.5.1/nmw/R/utils_report.R | 58 +- nmw-0.5.1/nmw/inst/NEWS.Rd | 119 ++++ nmw-0.5.1/nmw/man/ClassifyCovariates.Rd |only nmw-0.5.1/nmw/man/GetNRecFromXML.Rd |only nmw-0.5.1/nmw/man/OFV_SCREEN_LAYOUT.Rd | 4 nmw-0.5.1/nmw/man/ReadLastTable.Rd |only nmw-0.5.1/nmw/man/SumOut.Rd | 14 nmw-0.5.1/nmw/man/TrimOut.Rd | 5 nmw-0.5.1/nmw/man/ctl2nmw.Rd |only nmw-0.5.1/nmw/man/e.Rd | 27 nmw-0.5.1/nmw/man/nmw_report_ebe.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_indipk.Rd | 11 nmw-0.5.1/nmw/man/nmw_report_input.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_ofv.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_output.Rd | 11 nmw-0.5.1/nmw/man/nmw_report_param.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_pred.Rd | 10 nmw-0.5.1/nmw/man/nmw_report_resid.Rd | 10 nmw-0.5.1/nmw/tests |only 48 files changed, 2174 insertions(+), 1715 deletions(-)
Title: Latent Interaction (and Moderation) Analysis in Structural
Equation Models (SEM)
Description: Estimation of interaction (i.e., moderation) effects between latent variables
in structural equation models (SEM).
The supported methods are:
The constrained approach (Algina & Moulder, 2001).
The unconstrained approach (Marsh et al., 2004).
The residual centering approach (Little et al., 2006).
The double centering approach (Lin et al., 2010).
The latent moderated structural equations (LMS) approach (Klein & Moosbrugger, 2000).
The quasi-maximum likelihood (QML) approach (Klein & Muthén, 2007)
The constrained- unconstrained, residual- and double centering- approaches
are estimated via 'lavaan' (Rosseel, 2012), whilst the LMS- and QML- approaches
are estimated via 'modsem' it self. Alternatively model can be
estimated via 'Mplus' (Muthén & Muthén, 1998-2017).
References:
Algina, J., & Moulder, B. C. (2001).
<doi:10.1207/S15328007SEM0801_3>.
"A note on estimating the Jöreskog-Yang model for latent variable interaction using 'LISREL' 8.3."
Klein, A., & Moosb [...truncated...]
Author: Kjell Solem Slupphaug [aut, cre] ,
Mehmet Mehmetoglu [ctb] ,
Matthias Mittner [ctb]
Maintainer: Kjell Solem Slupphaug <slupphaugkjell@gmail.com>
Diff between modsem versions 1.0.21 dated 2026-07-02 and 1.0.22 dated 2026-08-21
modsem-1.0.21/modsem/tests/testthat/mplusResults_a38cc9c25f40845079c9955f90f260f0.dat |only modsem-1.0.21/modsem/tests/testthat/mplusResults_f3bccb91f6126be98dccff864043cccd.dat |only modsem-1.0.21/modsem/vignettes/set_eval_false.bash |only modsem-1.0.21/modsem/vignettes/set_eval_true.bash |only modsem-1.0.22/modsem/DESCRIPTION | 9 modsem-1.0.22/modsem/MD5 | 123 - modsem-1.0.22/modsem/NAMESPACE | 10 modsem-1.0.22/modsem/R/RcppExports.R | 4 modsem-1.0.22/modsem/R/bootstrap.R | 32 modsem-1.0.22/modsem/R/calc_se_da.R | 4 modsem-1.0.22/modsem/R/construct_matrices_da.R | 17 modsem-1.0.22/modsem/R/cov_model.R | 134 - modsem-1.0.22/modsem/R/equations_lms.R | 250 ++ modsem-1.0.22/modsem/R/est_lms.R | 697 +++++-- modsem-1.0.22/modsem/R/generics_modsem_da.R | 1 modsem-1.0.22/modsem/R/inspect_da.R | 8 modsem-1.0.22/modsem/R/lavaan_labels.R | 12 modsem-1.0.22/modsem/R/model_da.R | 35 modsem-1.0.22/modsem/R/model_parameters_da.R | 94 modsem-1.0.22/modsem/R/optimize_da.R | 20 modsem-1.0.22/modsem/R/plot_interaction.R | 21 modsem-1.0.22/modsem/R/quadrature.R | 120 - modsem-1.0.22/modsem/R/reliablity_single_item.R | 29 modsem-1.0.22/modsem/R/simulate_partable.R | 184 - modsem-1.0.22/modsem/R/utils_da.R | 20 modsem-1.0.22/modsem/build/partial.rdb |binary modsem-1.0.22/modsem/build/vignette.rds |binary modsem-1.0.22/modsem/inst/doc/composites.html | 357 ++- modsem-1.0.22/modsem/inst/doc/customize_plot_interactions.html | 476 +++- modsem-1.0.22/modsem/inst/doc/customizing.html | 434 +++- modsem-1.0.22/modsem/inst/doc/estimation_lms.html | 423 +++- modsem-1.0.22/modsem/inst/doc/fit_measures_da.html | 382 +++ modsem-1.0.22/modsem/inst/doc/higher_order_interactions.html | 519 +++-- modsem-1.0.22/modsem/inst/doc/interaction_two_etas.html | 433 +++- modsem-1.0.22/modsem/inst/doc/lavaan.html | 345 ++- modsem-1.0.22/modsem/inst/doc/lms_qml.html | 430 +++- modsem-1.0.22/modsem/inst/doc/mc-lms-ord.html | 379 ++- modsem-1.0.22/modsem/inst/doc/meanstructure_lms_qml.html | 382 +++ modsem-1.0.22/modsem/inst/doc/methods.html | 377 ++- modsem-1.0.22/modsem/inst/doc/missing_lms_qml.html | 379 +++ modsem-1.0.22/modsem/inst/doc/modsem.html | 515 +++-- modsem-1.0.22/modsem/inst/doc/observed_lms_qml.html | 955 ++++++--- modsem-1.0.22/modsem/inst/doc/plot_interactions.html | 686 ++++--- modsem-1.0.22/modsem/inst/doc/quadratic.html | 399 +++- modsem-1.0.22/modsem/inst/doc/relcorr_items.html | 394 +++- modsem-1.0.22/modsem/inst/doc/simple_slopes.html | 430 +++- modsem-1.0.22/modsem/man/bootstrap_modsem.Rd | 10 modsem-1.0.22/modsem/man/modsem-package.Rd | 5 modsem-1.0.22/modsem/man/modsem_inspect.Rd | 1 modsem-1.0.22/modsem/man/relcorr_single_item.Rd | 3 modsem-1.0.22/modsem/src/RcppExports.cpp | 22 modsem-1.0.22/modsem/src/equations_lms.cpp | 365 +++ modsem-1.0.22/modsem/tests/testthat/mplusResults.inp | 49 modsem-1.0.22/modsem/tests/testthat/mplusResults.out | 974 ---------- modsem-1.0.22/modsem/tests/testthat/mplusResults_034950db9f6a046dcbf4348715ec98cb.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_1902fe5a594fdff027c6f333f1b42374.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_1d99a51710dbe72680bd2167846dfc39.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_3d0f8823f6af05dbc789d0ed60a54090.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_6507283a847451aff127c84c87ebd81b.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_6bb11f99c9f63d831155403fa8debc11.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_ad18af3b9c89a45fac7dc52df3607909.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_c0d691516a85482200cebd668c136807.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_cef7da5bcf84a819ec0f66c18d6ea355.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_d4fd46d7e74eb5a0b73e2cb1369c4b51.dat |only modsem-1.0.22/modsem/tests/testthat/mplusResults_e8725a6185cbe0286c28c26f935f24e2.dat |only modsem-1.0.22/modsem/tests/testthat/test_grad_lms.R | 12 modsem-1.0.22/modsem/tests/testthat/test_labels_h0_pi.R | 2 modsem-1.0.22/modsem/tests/testthat/test_lms.R | 3 modsem-1.0.22/modsem/tests/testthat/test_ordered_da.R | 6 modsem-1.0.22/modsem/tests/testthat/test_rescov_eta_xi_lms.R | 46 70 files changed, 8049 insertions(+), 3968 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions used in
'mlr3' and its companion packages. Comes with helper functions for
functional programming, for printing, to work with 'data.table', as
well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Marc Becker [cre, aut] ,
Michel Lang [aut] ,
Patrick Schratz [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3misc versions 0.22.0 dated 2026-06-10 and 0.23.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 23 ++++++++++++----------- NAMESPACE | 34 ++++++++++++++++++++++------------ NEWS.md | 5 +++++ R/calculate_hash.R | 24 ++++++++++++++++++++---- R/leanify.R | 2 +- R/zzz.R | 2 +- man/calculate_hash.Rd | 2 +- man/figures/logo.png |binary man/hash_input.Rd | 11 +++++++++-- man/leanify_r6.Rd | 2 +- tests/testthat/test_calculate_hash.R |only tests/testthat/test_map.R | 2 +- 13 files changed, 77 insertions(+), 38 deletions(-)
Title: Inference on the Generalization Error
Description: Confidence interval and resampling methods for inference on
the generalization error.
Author: Sebastian Fischer [cre, aut] ,
Hannah Schulz-Kuempel [aut]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Diff between mlr3inferr versions 0.2.1 dated 2025-11-26 and 0.2.2 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 26 ++--- NEWS.md | 4 man/mlr3inferr-package.Rd | 3 man/mlr_measures_abstract_ci.Rd | 152 ++++++++++++++---------------- man/mlr_measures_ci.Rd | 119 ++++++++++++----------- man/mlr_measures_ci.con_z.Rd | 85 ++++++++-------- man/mlr_measures_ci.cor_t.Rd | 87 ++++++++--------- man/mlr_measures_ci.holdout.Rd | 85 ++++++++-------- man/mlr_measures_ci.ncv.Rd | 85 ++++++++-------- man/mlr_measures_ci.wald_cv.Rd | 85 ++++++++-------- man/mlr_resamplings_ncv.Rd | 114 +++++++++++----------- man/mlr_resamplings_paired_subsampling.Rd | 116 +++++++++++----------- tests/testthat/test_MeasureCiWaldCV.R | 9 + 14 files changed, 506 insertions(+), 472 deletions(-)
Title: Estimation and Diagnostics for Many-Facet Measurement Models
Description: Native R implementation of many-facet ordered-response
measurement models with arbitrary facet counts, rating-scale and
partial-credit parameterizations, a bounded generalized partial-credit
extension, and both marginal and joint maximum likelihood estimation.
The package provides a fit / diagnose / report pipeline covering
anchoring, linking, bias and differential-functioning screening, and
publication-oriented reporting summaries, with reproducibility manifests
for replay. See 'Andrich'
(1978) <doi:10.1007/BF02293814>, 'Masters' (1982)
<doi:10.1007/BF02296272>, and 'Muraki' (1992)
<doi:10.1177/014662169201600206> for the underlying ordered-response
models.
Author: Ryuya Komuro [aut, cre, cph]
Maintainer: Ryuya Komuro <ryuya.komuro.c4@tohoku.ac.jp>
Diff between mfrmr versions 0.2.2 dated 2026-07-27 and 0.2.3 dated 2026-08-21
mfrmr-0.2.2/mfrmr/R/utils-file-integrity.R |only mfrmr-0.2.3/mfrmr/DESCRIPTION | 18 mfrmr-0.2.3/mfrmr/MD5 | 395 +-- mfrmr-0.2.3/mfrmr/NAMESPACE | 171 - mfrmr-0.2.3/mfrmr/NEWS.md | 110 mfrmr-0.2.3/mfrmr/R/api-advanced.R | 568 ++++ mfrmr-0.2.3/mfrmr/R/api-as-ggplot.R | 76 mfrmr-0.2.3/mfrmr/R/api-bias-collection.R | 63 mfrmr-0.2.3/mfrmr/R/api-estimation.R | 1219 ++++++++- mfrmr-0.2.3/mfrmr/R/api-export-bundles.R | 489 +++ mfrmr-0.2.3/mfrmr/R/api-import.R | 176 + mfrmr-0.2.3/mfrmr/R/api-methods.R | 1181 ++++++++- mfrmr-0.2.3/mfrmr/R/api-plotting-extras.R | 13 mfrmr-0.2.3/mfrmr/R/api-plotting-fit-family.R | 672 ++++- mfrmr-0.2.3/mfrmr/R/api-plotting-wright-facets.R | 11 mfrmr-0.2.3/mfrmr/R/api-plotting.R | 123 mfrmr-0.2.3/mfrmr/R/api-prediction.R | 16 mfrmr-0.2.3/mfrmr/R/api-q3.R | 2 mfrmr-0.2.3/mfrmr/R/api-quadrature-sensitivity.R |only mfrmr-0.2.3/mfrmr/R/api-reporting-checklist.R | 69 mfrmr-0.2.3/mfrmr/R/api-reports.R | 409 +++ mfrmr-0.2.3/mfrmr/R/api-results.R | 269 +- mfrmr-0.2.3/mfrmr/R/api-simulation.R | 89 mfrmr-0.2.3/mfrmr/R/api-tables.R | 145 + mfrmr-0.2.3/mfrmr/R/core-category-probabilities.R | 5 mfrmr-0.2.3/mfrmr/R/core-category-support.R |only mfrmr-0.2.3/mfrmr/R/core-estimability.R |only mfrmr-0.2.3/mfrmr/R/core-jml-boundary.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-asymptotically-affine-transport.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-binary-closure-envelope.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-boundary-classification.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-boundary-compactification.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-exponential-balance.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-global-existence.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-higher-order-face-lifts.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-joint-boundary.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-lexicographic-limit.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-parameter-path-reachability.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-parameter-sequence-flag.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-rate-hierarchy.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-response-image-face-chart.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-response-quotient-closure.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-saturated-response-envelope.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-sequence-remainder-diagnostic.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-slope-boundary.R |only mfrmr-0.2.3/mfrmr/R/core-jml-gpcm-terminal-gradient.R |only mfrmr-0.2.3/mfrmr/R/core-jml-recession.R |only mfrmr-0.2.3/mfrmr/R/core-likelihood.R | 8 mfrmr-0.2.3/mfrmr/R/core-mml-gpcm-slope-boundary.R |only mfrmr-0.2.3/mfrmr/R/core-optimizer.R | 50 mfrmr-0.2.3/mfrmr/R/core-readiness.R |only mfrmr-0.2.3/mfrmr/R/facets_mode_methods.R | 8 mfrmr-0.2.3/mfrmr/R/help_facets_coverage.R | 139 + mfrmr-0.2.3/mfrmr/R/help_gpcm_scope.R | 22 mfrmr-0.2.3/mfrmr/R/help_linking_and_dff.R | 2 mfrmr-0.2.3/mfrmr/R/help_reporting_and_apa.R | 30 mfrmr-0.2.3/mfrmr/R/help_reports_and_tables.R | 9 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mfrmr-0.2.3/mfrmr/inst/doc/mfrmr-visual-diagnostics.Rmd | 5 mfrmr-0.2.3/mfrmr/inst/doc/mfrmr-visual-diagnostics.html | 4 mfrmr-0.2.3/mfrmr/inst/doc/mfrmr-workflow.R | 6 mfrmr-0.2.3/mfrmr/inst/doc/mfrmr-workflow.Rmd | 37 mfrmr-0.2.3/mfrmr/inst/doc/mfrmr-workflow.html | 207 + mfrmr-0.2.3/mfrmr/inst/extdata/vignette-artifacts/README.md | 7 mfrmr-0.2.3/mfrmr/inst/extdata/vignette-artifacts/manifest.csv | 21 mfrmr-0.2.3/mfrmr/inst/extdata/vignette-artifacts/workflow_diagnostic_overview.csv | 4 mfrmr-0.2.3/mfrmr/inst/extdata/vignette-artifacts/workflow_export_files.csv | 8 mfrmr-0.2.3/mfrmr/inst/extdata/vignette-artifacts/workflow_fit_decision.csv |only mfrmr-0.2.3/mfrmr/inst/extdata/vignette-artifacts/workflow_fit_overview.csv | 4 mfrmr-0.2.3/mfrmr/man/analyze_dff.Rd | 18 mfrmr-0.2.3/mfrmr/man/analyze_residual_pca.Rd | 4 mfrmr-0.2.3/mfrmr/man/anchor_to_baseline.Rd | 5 mfrmr-0.2.3/mfrmr/man/apa_table.Rd | 12 mfrmr-0.2.3/mfrmr/man/as_ggplot.Rd | 5 mfrmr-0.2.3/mfrmr/man/build_apa_outputs.Rd | 20 mfrmr-0.2.3/mfrmr/man/build_conquest_overlap_bundle.Rd | 12 mfrmr-0.2.3/mfrmr/man/build_linking_review.Rd | 5 mfrmr-0.2.3/mfrmr/man/build_mfrm_manifest.Rd | 23 mfrmr-0.2.3/mfrmr/man/build_mfrm_replay_script.Rd | 6 mfrmr-0.2.3/mfrmr/man/build_misfit_casebook.Rd | 2 mfrmr-0.2.3/mfrmr/man/build_model_choice_review.Rd | 25 mfrmr-0.2.3/mfrmr/man/build_summary_table_bundle.Rd | 7 mfrmr-0.2.3/mfrmr/man/build_visual_summaries.Rd | 2 mfrmr-0.2.3/mfrmr/man/build_weighting_review.Rd | 20 mfrmr-0.2.3/mfrmr/man/category_curves_report.Rd | 7 mfrmr-0.2.3/mfrmr/man/compare_mfrm.Rd | 138 - mfrmr-0.2.3/mfrmr/man/detect_anchor_drift.Rd | 5 mfrmr-0.2.3/mfrmr/man/diagnose_mfrm.Rd | 17 mfrmr-0.2.3/mfrmr/man/estimate_all_bias.Rd | 12 mfrmr-0.2.3/mfrmr/man/estimate_bias.Rd | 12 mfrmr-0.2.3/mfrmr/man/evaluate_mfrm_design.Rd | 7 mfrmr-0.2.3/mfrmr/man/evaluate_mfrm_signal_detection.Rd | 2 mfrmr-0.2.3/mfrmr/man/export_mfrm_bundle.Rd | 12 mfrmr-0.2.3/mfrmr/man/facets_feature_coverage.Rd | 18 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mfrmr-0.2.3/mfrmr/man/q3_statistic.Rd | 2 mfrmr-0.2.3/mfrmr/man/read_facets_fit_table.Rd | 9 mfrmr-0.2.3/mfrmr/man/recommend_mfrm_design.Rd | 2 mfrmr-0.2.3/mfrmr/man/reporting_checklist.Rd | 5 mfrmr-0.2.3/mfrmr/man/review_conquest_overlap.Rd | 8 mfrmr-0.2.3/mfrmr/man/summary.mfrm_apa_outputs.Rd | 2 mfrmr-0.2.3/mfrmr/man/summary.mfrm_design_evaluation.Rd | 2 mfrmr-0.2.3/mfrmr/man/summary.mfrm_diagnostics.Rd | 7 mfrmr-0.2.3/mfrmr/man/summary.mfrm_facets_run.Rd | 3 mfrmr-0.2.3/mfrmr/man/summary.mfrm_fit.Rd | 67 mfrmr-0.2.3/mfrmr/man/summary.mfrm_weighting_review.Rd | 3 mfrmr-0.2.3/mfrmr/src/cpp11.cpp | 6 mfrmr-0.2.3/mfrmr/tests/testthat/fixtures |only mfrmr-0.2.3/mfrmr/tests/testthat/helper-fixtures.R | 15 mfrmr-0.2.3/mfrmr/tests/testthat/test-as-ggplot.R | 9 mfrmr-0.2.3/mfrmr/tests/testthat/test-bias-collection.R | 144 + mfrmr-0.2.3/mfrmr/tests/testthat/test-category-step-support-audit.R |only mfrmr-0.2.3/mfrmr/tests/testthat/test-compatibility-aliases.R | 29 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Title: A Set of Tools for Sound Localization
Description: A set of functions and tools to conduct acoustic source localization, as well as organize and check localization data and results. The localization functions implement the modified steered response power algorithm described by Cobos et al. (2011) <doi:10.1109/LSP.2010.2091502>.
Author: Richard Hedley [cre, aut] ,
Marcus Becker [aut],
Tim Huang [aut]
Maintainer: Richard Hedley <rwhedley@gmail.com>
Diff between locaR versions 0.2.0 dated 2026-02-23 and 0.3.0 dated 2026-08-21
DESCRIPTION | 13 ++-- MD5 | 22 +++---- NAMESPACE | 1 NEWS.md | 34 ++++++---- R/spatialEntropy.R |only README.md | 21 ++++++ inst/doc/V2_Detecting_sound_sources.html | 2 inst/doc/V3_Intro_to_localize.R | 9 ++ inst/doc/V3_Intro_to_localize.Rmd | 13 ++++ inst/doc/V3_Intro_to_localize.html | 96 ++++++++++++++++++------------- man/locaR-package.Rd | 4 - man/spatialEntropy.Rd |only vignettes/V3_Intro_to_localize.Rmd | 13 ++++ 13 files changed, 154 insertions(+), 74 deletions(-)
Title: Estimation of Marginal Treatment Effects using Local
Instrumental Variables
Description: In the generalized Roy model, the marginal treatment effect (MTE) can be used as
a building block for constructing conventional causal parameters such as the average treatment
effect (ATE) and the average treatment effect on the treated (ATT). Given a treatment selection
equation and an outcome equation, the function mte() estimates the MTE via the semiparametric
local instrumental variables method or the normal selection model. The function mte_at() evaluates
MTE at different values of the latent resistance u with a given X = x, and the function mte_tilde_at()
evaluates MTE projected onto the estimated propensity score. The function ace() estimates
population-level average causal effects such as ATE, ATT, or the marginal policy relevant
treatment effect.
Author: Xiang Zhou [aut, cre]
Maintainer: Xiang Zhou <xiang_zhou@fas.harvard.edu>
Diff between localIV versions 0.3.1 dated 2020-06-26 and 0.3.2 dated 2026-08-21
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 2 +- NEWS.md | 6 ++++++ R/mte_tilde_at.R | 17 ++++++++--------- man/figures/README-mte_tilde_at-1.png |binary man/mte_tilde_at.Rd | 17 ++++++++--------- man/toydata.Rd | 32 +++++++++++++++++--------------- 8 files changed, 52 insertions(+), 46 deletions(-)
Title: L-Infinity Normalization and Dominant Community State Types
Description: Implements L-infinity normalization for compositional matrices,
assigns samples to dominant features, constructs truncated and
hierarchically refined dominant community state types, and computes
representative landmark profiles. The methods are described in the
accompanying publication <doi:10.48550/arXiv.2503.21543>. Bundled vaginal
and gut microbiome data support reproducible demonstrations of the package
interface; phenotype fields in the stratified gut subset are illustrative
and are not suitable for population-level inference.
Author: Pawel Gajer [aut, cre]
Maintainer: Pawel Gajer <pgajer@gmail.com>
Diff between linf versions 0.1.0 dated 2026-08-05 and 0.2.0 dated 2026-08-21
linf-0.1.0/linf/man/collapse.rare.Rd |only linf-0.1.0/linf/man/expand.rare.Rd |only linf-0.1.0/linf/man/linf.cells.Rd |only linf-0.2.0/linf/DESCRIPTION | 6 linf-0.2.0/linf/MD5 | 71 - linf-0.2.0/linf/NAMESPACE | 5 linf-0.2.0/linf/NEWS.md |only linf-0.2.0/linf/R/backend_helpers.R | 16 linf-0.2.0/linf/R/dcst_landmark_pipeline.R | 16 linf-0.2.0/linf/R/landmarks.R | 100 - linf-0.2.0/linf/R/linf.R | 619 ++++------- linf-0.2.0/linf/R/transfer_dcsts.R | 10 linf-0.2.0/linf/README.md | 109 - linf-0.2.0/linf/build/partial.rdb |binary linf-0.2.0/linf/build/vignette.rds |binary linf-0.2.0/linf/inst/doc/linf-intro.R | 14 linf-0.2.0/linf/inst/doc/linf-intro.Rmd | 14 linf-0.2.0/linf/inst/doc/linf-intro.html | 16 linf-0.2.0/linf/inst/doc/linf-vaginal.R | 24 linf-0.2.0/linf/inst/doc/linf-vaginal.Rmd | 26 linf-0.2.0/linf/inst/doc/linf-vaginal.html | 28 linf-0.2.0/linf/man/dcst.view.Rd |only linf-0.2.0/linf/man/figures/readme-dcst-barplot.png |binary linf-0.2.0/linf/man/latex.linf.csts.Rd | 8 linf-0.2.0/linf/man/linf.csts.Rd | 22 linf-0.2.0/linf/man/linf.dcst.landmark.pipeline.Rd | 11 linf-0.2.0/linf/man/linf.dominant.features.Rd |only linf-0.2.0/linf/man/linf.landmarks.Rd | 10 linf-0.2.0/linf/man/refine.linf.csts.Rd | 9 linf-0.2.0/linf/man/refine.linf.csts.iter.Rd | 12 linf-0.2.0/linf/man/transfer.dcsts.Rd | 6 linf-0.2.0/linf/tests/testthat/test-dcst-landmark-pipeline.R | 24 linf-0.2.0/linf/tests/testthat/test-filter.asv.R | 32 linf-0.2.0/linf/tests/testthat/test-label-formatting.R | 18 linf-0.2.0/linf/tests/testthat/test-landmarks.R | 35 linf-0.2.0/linf/tests/testthat/test-public-terminology.R |only linf-0.2.0/linf/tests/testthat/test-sparse-backend.R | 18 linf-0.2.0/linf/tests/testthat/test-transfer-dcsts.R | 6 linf-0.2.0/linf/vignettes/linf-intro.Rmd | 14 linf-0.2.0/linf/vignettes/linf-vaginal.Rmd | 26 40 files changed, 621 insertions(+), 704 deletions(-)
Title: Post-Estimation Utilities for 'lavaan' Fitted Models
Description: Companion toolbox for structural equation models fitted with 'lavaan'. Provides post-estimation diagnostics and graphics that operate directly on a fitted object using its estimates and covariance, and refits auxiliary models when needed. The package relies on 'lavaan' (Rosseel, 2012) <doi:10.18637/jss.v048.i02>.
Author: Giuseppe Corbelli [aut, cre]
Maintainer: Giuseppe Corbelli <giuseppe.corbelli@uninettunouniversity.net>
Diff between lavinteract versions 0.5.1 dated 2026-04-28 and 0.5.3 dated 2026-08-21
DESCRIPTION | 6 - MD5 | 10 +- NEWS.md | 13 +++ R/lav_cv.R | 221 +++++++++++++++++++++++++++++++++++++--------------------- inst/WORDLIST | 2 man/lav_cv.Rd | 54 +++++++++++--- 6 files changed, 209 insertions(+), 97 deletions(-)
Title: List Things to Do
Description: Manage a 'GitHub' problem using R: wrangle issues, labels and
milestones. It includes functions for storing, prioritizing (sorting),
displaying, adding, deleting, and selecting (filtering) issues based
on qualitative and quantitative information. Issues (labels and
milestones) are written in lists and categorized into the S3 class to
be easily manipulated as datasets in R.
Author: Tanguy Barthelemy [aut, cre, art, cph]
Maintainer: Tanguy Barthelemy <tanguy.barthelemy@insee.fr>
Diff between IssueTrackeR versions 1.4.1 dated 2026-07-31 and 1.5.0 dated 2026-08-21
IssueTrackeR-1.4.1/IssueTrackeR/man/format_issues.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/format_labels.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/format_milestones.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/generate_age_mat.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/github_errors.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/plot.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/print.Rd |only IssueTrackeR-1.4.1/IssueTrackeR/man/rbind.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/DESCRIPTION | 13 IssueTrackeR-1.5.0/IssueTrackeR/MD5 | 105 - IssueTrackeR-1.5.0/IssueTrackeR/NAMESPACE | 98 - IssueTrackeR-1.5.0/IssueTrackeR/NEWS.md | 29 IssueTrackeR-1.5.0/IssueTrackeR/R/check.R | 34 IssueTrackeR-1.5.0/IssueTrackeR/R/contributor.R |only IssueTrackeR-1.5.0/IssueTrackeR/R/finding-objects.R | 95 + IssueTrackeR-1.5.0/IssueTrackeR/R/format.R | 107 + IssueTrackeR-1.5.0/IssueTrackeR/R/options.R | 21 IssueTrackeR-1.5.0/IssueTrackeR/R/plot.R | 411 ++++ IssueTrackeR-1.5.0/IssueTrackeR/R/print.R | 24 IssueTrackeR-1.5.0/IssueTrackeR/R/summary.R | 8 IssueTrackeR-1.5.0/IssueTrackeR/R/update_database.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/R/utils.R | 9 IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_dataset_issues.R | 152 - IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_dataset_labels.R | 27 IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_dataset_milestones.R | 65 IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_issues.R | 145 + IssueTrackeR-1.5.0/IssueTrackeR/R/wrangling_repo.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/R/write.R | 14 IssueTrackeR-1.5.0/IssueTrackeR/R/zzz.R | 2 IssueTrackeR-1.5.0/IssueTrackeR/inst/WORDLIST | 1 IssueTrackeR-1.5.0/IssueTrackeR/inst/data_issues/closed_issues.yaml | 846 ++++++---- IssueTrackeR-1.5.0/IssueTrackeR/inst/data_issues/list_milestones.yaml | 14 IssueTrackeR-1.5.0/IssueTrackeR/inst/data_issues/open_issues.yaml | 634 +++++-- IssueTrackeR-1.5.0/IssueTrackeR/man/author_last_comment.Rd | 11 IssueTrackeR-1.5.0/IssueTrackeR/man/count_issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/extract_nth.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/get.Rd | 27 IssueTrackeR-1.5.0/IssueTrackeR/man/get_all_repos.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/new_issue.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/new_issues.Rd | 12 IssueTrackeR-1.5.0/IssueTrackeR/man/plot-issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/print-issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/rbind-issues.Rd |only IssueTrackeR-1.5.0/IssueTrackeR/man/reset_options.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/summary.Rd | 2 IssueTrackeR-1.5.0/IssueTrackeR/man/update_database.Rd | 8 IssueTrackeR-1.5.0/IssueTrackeR/man/with_comments.Rd | 6 IssueTrackeR-1.5.0/IssueTrackeR/man/with_labels.Rd | 2 IssueTrackeR-1.5.0/IssueTrackeR/man/with_text.Rd | 2 IssueTrackeR-1.5.0/IssueTrackeR/man/write.Rd | 13 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/data/closed_issues.yaml | 31 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/helper.R | 58 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-add_n_years.R | 4 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-bin_count.R | 34 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-count_issues.R |only IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-extract.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-finding.R | 37 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-get.R | 21 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-isDark.R | 4 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-plot.R | 10 IssueTrackeR-1.5.0/IssueTrackeR/tests/testthat/test-summary.R | 24 61 files changed, 2203 insertions(+), 1011 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington', 'Ludwig' and Omnivariant Generalised Least-Squares ('OGLS') approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isoch [...truncated...]
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 6.8 dated 2025-10-27 and 7.0 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 77 +++++++-------- R/LRisochron.R |only R/ThU.R | 14 ++ R/UPb.R | 15 +- R/age.R | 2 R/agespectrum.R | 51 +++++---- R/bayes.R | 20 +-- R/cad.R | 46 ++++++-- R/central.R | 13 ++ R/ci.R | 1 R/concordia.R | 266 ++++++++++++++++++++++++++++++++++++++++------------ R/discordia.R | 134 ++++++++++++++------------ R/diseq.R | 21 ++-- R/errorellipse.R | 14 +- R/evolution.R | 36 ++++--- R/flipper.R | 41 ++++++-- R/helioplot.R | 13 +- R/io.R | 8 - R/isochron.R | 236 +++++++++++++++++++++------------------------- R/ludwig.R | 4 R/mds.R | 7 - R/peakfit.R | 7 - R/radialplot.R | 135 ++++++++++++++++---------- R/regression.R | 7 + R/toolbox.R | 15 +- R/weightedmean.R | 99 ++++++++++++------- R/york.R | 54 ++++------ R/york2ludwig.R | 64 ++++++++---- man/agespectrum.Rd | 12 ++ man/cad.Rd | 32 ++++-- man/concordia.Rd | 28 +++++ man/data2york.Rd | 30 ++--- man/diss.Rd | 3 man/evolution.Rd | 6 - man/helioplot.Rd | 7 + man/isochron.Rd | 14 +- man/radialplot.Rd | 17 +++ man/scatterplot.Rd | 10 + man/weightedmean.Rd | 17 +++ 40 files changed, 1014 insertions(+), 570 deletions(-)
Title: ISO 3166-1 Country Codes
Description: ISO 3166-1 country codes and ISO 4217 currency codes provided
by the International Organization for Standardization.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between isocountry versions 0.6.1 dated 2026-06-29 and 0.7.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/data.R | 11 ++++++++--- data/isocurrency.rda |binary man/isocountry.Rd | 7 +++++-- man/isocurrency.Rd | 5 ++++- 7 files changed, 31 insertions(+), 16 deletions(-)
Title: Interpretable Contextual-Accountable and Responsible Machine
Learning
Description: A general-purpose framework for Interpretable Contextual-Accountable
and Responsible Machine Learning (ICARM) that works with any clean tabular
data across any application domain including healthcare, finance, social
science, business, and education. Automatically detects whether a prediction
task is binary classification, multi-class classification, or regression
from the target variable type. Provides a unified entry point icarm_fit()
supporting both interpretable learners (Classification and Regression Trees
(CART), logistic regression, linear regression, Generalized Additive Models
(GAM)) and extended learners (random forest, 'XGBoost', Support Vector
Machines (SVM)) with consistent interfaces for global and local model
explanation including approximate SHapley Additive exPlanations (SHAP)
values and Partial Dependence Profiles (PDPs), learning curve diagnostics,
group-level fairness auditing across protected attributes, probability
calibration, threshold analysis, multi-model comp [...truncated...]
Author: Olushina Olawale Awe [aut, cre],
Ludwigsburg University of Education [fnd]
Maintainer: Olushina Olawale Awe <olawaleawe@gmail.com>
Diff between icarm versions 0.2.0 dated 2026-07-09 and 0.3.0 dated 2026-08-21
DESCRIPTION | 13 +- MD5 | 26 ++-- NAMESPACE | 9 + R/data.R | 2 R/icarm_ale.R |only R/icarm_core.R | 4 R/icarm_cv.R |only R/icarm_drift.R |only R/icarm_fit.R | 300 ++++++++++++++++++++++++++++++++++++++++++------ R/icarm_shap.R | 2 R/plots.R | 164 ++++++++++++++++++++++++-- R/utils_internal.R | 266 +++++++++++++++++++++--------------------- build |only man/icarm_ale.Rd |only man/icarm_cv.Rd |only man/icarm_drift.Rd |only man/icarm_plot_ale.Rd |only man/icarm_plot_cv.Rd |only man/icarm_plot_drift.Rd |only 19 files changed, 592 insertions(+), 194 deletions(-)
Title: Reproducible and Flexible Label Design
Description: An open-source R package to deploys reproducible and flexible labels using layers.
The 'huito' package is part of the 'inkaverse' project for developing different procedures and
tools used in plant science and experimental designs.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
Victor-Hugo Baldera-Chaponan [aut] ,
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flozanoisla@gmail.com>
Diff between huito versions 0.2.6 dated 2025-10-18 and 0.2.7 dated 2026-08-21
huito-0.2.6/huito/inst/doc/germinar.R |only huito-0.2.6/huito/inst/doc/germinar.Rmd |only huito-0.2.6/huito/inst/doc/germinar.html |only huito-0.2.6/huito/inst/doc/huito.Rmd |only huito-0.2.6/huito/inst/doc/labels.R |only huito-0.2.6/huito/inst/doc/labels.html |only huito-0.2.6/huito/inst/doc/labels.qmd |only huito-0.2.6/huito/inst/doc/stickers.R |only huito-0.2.6/huito/inst/doc/stickers.Rmd |only huito-0.2.6/huito/inst/doc/stickers.html |only huito-0.2.6/huito/vignettes/germinar.Rmd |only huito-0.2.6/huito/vignettes/huito |only huito-0.2.6/huito/vignettes/huito.Rmd |only huito-0.2.6/huito/vignettes/huito.zip |only huito-0.2.6/huito/vignettes/labels.qmd |only huito-0.2.6/huito/vignettes/stickers.Rmd |only huito-0.2.7/huito/DESCRIPTION | 14 - huito-0.2.7/huito/MD5 | 69 +++--- huito-0.2.7/huito/NEWS.md | 7 huito-0.2.7/huito/R/image_import.R | 43 ++-- huito-0.2.7/huito/R/include_image.R | 64 +++--- huito-0.2.7/huito/R/label_print.R | 192 +++++++++++------- huito-0.2.7/huito/README.md | 41 ++- huito-0.2.7/huito/build/vignette.rds |binary huito-0.2.7/huito/inst/doc/GerminaR.R |only huito-0.2.7/huito/inst/doc/GerminaR.html |only huito-0.2.7/huito/inst/doc/GerminaR.qmd |only huito-0.2.7/huito/inst/doc/horizontal.R |only huito-0.2.7/huito/inst/doc/horizontal.html |only huito-0.2.7/huito/inst/doc/horizontal.qmd |only huito-0.2.7/huito/inst/doc/huito.R | 97 +++++++-- huito-0.2.7/huito/inst/doc/huito.html | 260 +++++++++++++++---------- huito-0.2.7/huito/inst/doc/huito.qmd |only huito-0.2.7/huito/inst/doc/inkaverse.R |only huito-0.2.7/huito/inst/doc/inkaverse.html |only huito-0.2.7/huito/inst/doc/inkaverse.qmd |only huito-0.2.7/huito/inst/doc/package.R |only huito-0.2.7/huito/inst/doc/package.html |only huito-0.2.7/huito/inst/doc/package.qmd |only huito-0.2.7/huito/inst/doc/vertical.R |only huito-0.2.7/huito/inst/doc/vertical.html |only huito-0.2.7/huito/inst/doc/vertical.qmd |only huito-0.2.7/huito/man/image_import.Rd | 4 huito-0.2.7/huito/man/include_image.Rd | 14 + huito-0.2.7/huito/man/label_print.Rd | 11 - huito-0.2.7/huito/man/reexports.Rd | 2 huito-0.2.7/huito/vignettes/GerminaR.qmd |only huito-0.2.7/huito/vignettes/horizontal.qmd |only huito-0.2.7/huito/vignettes/huito-package.md |only huito-0.2.7/huito/vignettes/huito.qmd |only huito-0.2.7/huito/vignettes/inkaverse.qmd |only huito-0.2.7/huito/vignettes/logo_inkaverse.jpg |only huito-0.2.7/huito/vignettes/package.qmd |only huito-0.2.7/huito/vignettes/vertical.qmd |only 54 files changed, 520 insertions(+), 298 deletions(-)
Title: Fit the Meta-D' Model of Confidence Ratings Using 'brms'
Description: Implementation of Bayesian regressions over the meta-d' model of
psychological data from two alternative forced choice tasks with
ordinal confidence ratings. For more information, see
Maniscalco & Lau (2012) <doi:10.1016/j.concog.2011.09.021>.
The package is a front-end to the 'brms' package, which facilitates a wide
range of regression designs, as well as tools for efficiently extracting
posterior estimates, plotting, and significance testing.
Author: Kevin O'Neill [aut, cre, cph] ,
Stephen Fleming [aut, cph]
Maintainer: Kevin O'Neill <kevin.o'neill@ucl.ac.uk>
Diff between hmetad versions 0.1.2 dated 2026-05-15 and 0.2.0 dated 2026-08-21
hmetad-0.1.2/hmetad/R/roc_draws.R |only hmetad-0.1.2/hmetad/man/response_probabilities.Rd |only hmetad-0.2.0/hmetad/DESCRIPTION | 8 hmetad-0.2.0/hmetad/MD5 | 108 +-- hmetad-0.2.0/hmetad/NAMESPACE | 60 + hmetad-0.2.0/hmetad/NEWS.md | 14 hmetad-0.2.0/hmetad/R/auroc1_draws.R |only hmetad-0.2.0/hmetad/R/auroc2_draws.R |only hmetad-0.2.0/hmetad/R/epred_draws_metad.R | 142 +++- hmetad-0.2.0/hmetad/R/hmetad-package.R | 1 hmetad-0.2.0/hmetad/R/hmetad.R | 288 ++++---- hmetad-0.2.0/hmetad/R/linpred_draws_metad.R | 1 hmetad-0.2.0/hmetad/R/mean_confidence_draws.R | 114 ++- hmetad-0.2.0/hmetad/R/metacognitive_bias_draws.R | 23 hmetad-0.2.0/hmetad/R/metad_family.R | 26 hmetad-0.2.0/hmetad/R/predicted_draws_metad.R | 91 +- hmetad-0.2.0/hmetad/R/roc1_draws.R |only hmetad-0.2.0/hmetad/R/roc2_draws.R |only hmetad-0.2.0/hmetad/R/simulate.R | 205 +++--- hmetad-0.2.0/hmetad/R/type1_draws.R |only hmetad-0.2.0/hmetad/R/type2_draws.R |only hmetad-0.2.0/hmetad/README.md | 288 ++++---- hmetad-0.2.0/hmetad/inst/doc/alternative_distributions.R | 8 hmetad-0.2.0/hmetad/inst/doc/alternative_distributions.Rmd | 8 hmetad-0.2.0/hmetad/inst/doc/alternative_distributions.html | 46 - hmetad-0.2.0/hmetad/inst/doc/categorical.Rmd | 244 +++---- hmetad-0.2.0/hmetad/inst/doc/categorical.html | 248 +++---- hmetad-0.2.0/hmetad/inst/doc/hmetad.R | 45 - hmetad-0.2.0/hmetad/inst/doc/hmetad.Rmd | 49 - hmetad-0.2.0/hmetad/inst/doc/hmetad.html | 385 ++++++------ hmetad-0.2.0/hmetad/inst/doc/parameterization.Rmd | 9 hmetad-0.2.0/hmetad/inst/doc/parameterization.html | 20 hmetad-0.2.0/hmetad/man/aggregate_metad.Rd | 8 hmetad-0.2.0/hmetad/man/auroc1.Rd |only hmetad-0.2.0/hmetad/man/auroc1_draws.Rd |only hmetad-0.2.0/hmetad/man/auroc2.Rd |only hmetad-0.2.0/hmetad/man/auroc2_draws.Rd |only hmetad-0.2.0/hmetad/man/bias_draws.Rd | 20 hmetad-0.2.0/hmetad/man/epred_draws_metad.Rd | 33 - hmetad-0.2.0/hmetad/man/fit_metad.Rd | 7 hmetad-0.2.0/hmetad/man/hmetad-package.Rd | 2 hmetad-0.2.0/hmetad/man/joint_probabilities.Rd |only hmetad-0.2.0/hmetad/man/mean_conf_draws.Rd | 14 hmetad-0.2.0/hmetad/man/mean_confidence.Rd |only hmetad-0.2.0/hmetad/man/metad.Rd | 12 hmetad-0.2.0/hmetad/man/predicted_draws_metad.Rd | 30 hmetad-0.2.0/hmetad/man/roc1.Rd |only hmetad-0.2.0/hmetad/man/roc1_draws.Rd | 36 - hmetad-0.2.0/hmetad/man/roc2.Rd |only hmetad-0.2.0/hmetad/man/roc2_draws.Rd | 56 + hmetad-0.2.0/hmetad/man/sim_metad.Rd | 24 hmetad-0.2.0/hmetad/man/sim_metad_condition.Rd | 20 hmetad-0.2.0/hmetad/man/sim_metad_participant.Rd | 51 - hmetad-0.2.0/hmetad/man/sim_metad_participant_condition.Rd | 48 - hmetad-0.2.0/hmetad/man/type1_draws.Rd |only hmetad-0.2.0/hmetad/man/type1_probabilities.Rd |only hmetad-0.2.0/hmetad/man/type2_draws.Rd |only hmetad-0.2.0/hmetad/man/type2_probabilities.Rd |only hmetad-0.2.0/hmetad/tests/testthat/test-draws.R | 272 +++++++- hmetad-0.2.0/hmetad/tests/testthat/test-hmetad.R | 9 hmetad-0.2.0/hmetad/vignettes/alternative_distributions.Rmd | 8 hmetad-0.2.0/hmetad/vignettes/categorical.Rmd | 244 +++---- hmetad-0.2.0/hmetad/vignettes/hmetad.Rmd | 49 - hmetad-0.2.0/hmetad/vignettes/parameterization.Rmd | 9 hmetad-0.2.0/hmetad/vignettes/src/_categorical.Rmd | 4 65 files changed, 2023 insertions(+), 1364 deletions(-)
Title: Convert Addresses to Standard Inputs
Description: Efficient tools for parsing and standardizing Australian
addresses from textual data. It utilizes optimized algorithms to accurately identify and
extract components of addresses, such as street names, types, and postcodes, especially
for large batched data in contexts where sending addresses to internet services may be
slow or inappropriate. The core functionality is built on fast string processing techniques
to handle variations in address formats and abbreviations commonly found in Australian
address data. Designed for data scientists, urban planners, and logistics analysts, the
package facilitates the cleaning and normalization of address information, supporting
better data integration and analysis in urban studies, geography, and related fields.
Author: Hugh Parsonage [aut, cre]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between healthyAddress versions 0.5.1 dated 2025-11-11 and 0.5.2 dated 2026-08-21
healthyAddress-0.5.1/healthyAddress/inst/extdata/street-names.txt |only healthyAddress-0.5.2/healthyAddress/DESCRIPTION | 8 healthyAddress-0.5.2/healthyAddress/MD5 | 135 - healthyAddress-0.5.2/healthyAddress/NAMESPACE | 84 healthyAddress-0.5.2/healthyAddress/NEWS.md | 7 healthyAddress-0.5.2/healthyAddress/R/HashStreetName.R | 94 - healthyAddress-0.5.2/healthyAddress/R/NumberSuffix2raw.R | 44 healthyAddress-0.5.2/healthyAddress/R/anyComma.R | 20 healthyAddress-0.5.2/healthyAddress/R/check_address_input.R | 6 healthyAddress-0.5.2/healthyAddress/R/concat_upper.R | 28 healthyAddress-0.5.2/healthyAddress/R/download_latlon_data.R | 2 healthyAddress-0.5.2/healthyAddress/R/encode_address.R | 106 - healthyAddress-0.5.2/healthyAddress/R/extract_flatNumberFirstLast.R | 64 healthyAddress-0.5.2/healthyAddress/R/extract_postcode.R | 50 healthyAddress-0.5.2/healthyAddress/R/extract_standard_address.R | 76 healthyAddress-0.5.2/healthyAddress/R/followed_by_STE_POSTCODE.R | 8 healthyAddress-0.5.2/healthyAddress/R/get_StreetType.R | 52 healthyAddress-0.5.2/healthyAddress/R/has_SaintName.R | 12 healthyAddress-0.5.2/healthyAddress/R/healthyAddress-package.R | 54 healthyAddress-0.5.2/healthyAddress/R/isPostcode.R | 14 healthyAddress-0.5.2/healthyAddress/R/latlon.R | 116 - healthyAddress-0.5.2/healthyAddress/R/match_StreetType.R | 76 healthyAddress-0.5.2/healthyAddress/R/match_word.R | 38 healthyAddress-0.5.2/healthyAddress/R/max_nchar.R | 12 healthyAddress-0.5.2/healthyAddress/R/multistate_postcodes.R | 6 healthyAddress-0.5.2/healthyAddress/R/mutate_latlon.R | 80 healthyAddress-0.5.2/healthyAddress/R/n_words.R | 8 healthyAddress-0.5.2/healthyAddress/R/nany_lowercase.R | 62 healthyAddress-0.5.2/healthyAddress/R/postcode2ste.R | 106 - healthyAddress-0.5.2/healthyAddress/R/read_locality_by_postcode.R | 10 healthyAddress-0.5.2/healthyAddress/R/standardize_address.R | 384 ++-- healthyAddress-0.5.2/healthyAddress/R/street-types.R | 908 +++++----- healthyAddress-0.5.2/healthyAddress/R/the_XXX.R | 78 healthyAddress-0.5.2/healthyAddress/R/toupper_basic.R | 24 healthyAddress-0.5.2/healthyAddress/R/unique_Postcodes.R | 64 healthyAddress-0.5.2/healthyAddress/README.md | 78 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_000_valgrind_esplanade.R | 12 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_HashStreetName.R | 16 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_NumberSuffix2Raw.R | 18 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_THE.R | 34 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_WordData.R | 22 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_anyComma.R | 14 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_check_address_input.R | 12 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_compress_latlon.R | 40 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_concat_upper.R | 24 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_extract_flatNumberFirstLast.R | 56 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_extract_postcode.R | 12 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_followed_by_STE_POSTCODE.R | 20 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_healthyAddress.R | 880 ++++----- healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_is_postcode.R | 8 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_match_word.R | 16 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_max_nchar.R | 8 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_multistate_postcodes.R | 2 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_n_words.R | 10 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_toupper_basic.R | 8 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_unique_Postcodes.R | 32 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_which_first_strstr.R | 6 healthyAddress-0.5.2/healthyAddress/inst/tinytest/test_xnumber.R | 20 healthyAddress-0.5.2/healthyAddress/man/HashStreetName.Rd | 58 healthyAddress-0.5.2/healthyAddress/man/compress_latlon.Rd | 96 - healthyAddress-0.5.2/healthyAddress/man/download_latlon_data.Rd | 64 healthyAddress-0.5.2/healthyAddress/man/healthyAddress-package.Rd | 51 healthyAddress-0.5.2/healthyAddress/man/match_StreetType.Rd | 56 healthyAddress-0.5.2/healthyAddress/man/mutate_latlon.Rd | 42 healthyAddress-0.5.2/healthyAddress/man/nany_lowercase.Rd | 56 healthyAddress-0.5.2/healthyAddress/man/standardize_address.Rd | 206 +- healthyAddress-0.5.2/healthyAddress/man/toupper_basic.Rd | 36 healthyAddress-0.5.2/healthyAddress/man/unique_Postcodes.Rd | 54 healthyAddress-0.5.2/healthyAddress/src/StandardAddress.c | 11 69 files changed, 2462 insertions(+), 2452 deletions(-)
More information about healthyAddress at CRAN
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Title: Explore and Import 'Metopio' Health Atlas Data and Spatial
Layers
Description: Allows for painless use of the 'Metopio' health atlas APIs
<https://metopio.com/health-atlas> to explore and import data.
'Metopio' health atlases store open public health data. See what topics
(or indicators) are available among specific populations, periods, and
geographic layers. Download relevant data along with geographic
boundaries or point datasets. Spatial datasets are returned as 'sf'
objects.
Author: Ryan Zomorrodi [aut, cre, cph]
Maintainer: Ryan Zomorrodi <rzomor2@uic.edu>
Diff between healthatlas versions 0.2.2 dated 2025-07-22 and 0.2.3 dated 2026-08-21
healthatlas-0.2.2/healthatlas/tests/testthat/_snaps |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_coverage |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_data |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_layer |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_point |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_subcategories |only healthatlas-0.2.2/healthatlas/tests/testthat/ha_topics |only healthatlas-0.2.2/healthatlas/tests/testthat/helpers.R |only healthatlas-0.2.2/healthatlas/tests/testthat/setup.R |only healthatlas-0.2.2/healthatlas/tests/testthat/test-ha_subcategories.R |only healthatlas-0.2.2/healthatlas/vignettes/healthatlas |only healthatlas-0.2.3/healthatlas/DESCRIPTION | 11 healthatlas-0.2.3/healthatlas/MD5 | 72 -- healthatlas-0.2.3/healthatlas/NEWS.md | 4 healthatlas-0.2.3/healthatlas/R/ha_layer.R | 30 healthatlas-0.2.3/healthatlas/R/helpers.R | 8 healthatlas-0.2.3/healthatlas/README.md | 71 +- healthatlas-0.2.3/healthatlas/build/vignette.rds |binary healthatlas-0.2.3/healthatlas/inst/doc/healthatlas.R | 182 ++--- healthatlas-0.2.3/healthatlas/inst/doc/healthatlas.Rmd | 32 healthatlas-0.2.3/healthatlas/inst/doc/healthatlas.html | 346 ---------- healthatlas-0.2.3/healthatlas/man/figures/README-unnamed-chunk-9-1.png |binary healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_coverage.R | 79 -- healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_data.R | 101 +- healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_layer.R | 44 - healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_point_layer.R | 38 - healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_subcategory.R |only healthatlas-0.2.3/healthatlas/tests/testthat/test-ha_topics.R | 54 - healthatlas-0.2.3/healthatlas/vignettes/healthatlas.Rmd | 32 29 files changed, 334 insertions(+), 770 deletions(-)
Title: Graph Drawing with Intelligent Placement (GRIP)
Description: Implements GRIP multiscale graph layout with a unified choice
between hop-count and geometry-aware edge-length graph metrics in 2D and
3D. Provides layout scoring, candidate
comparison, multiscale trace diagnostics, synthetic graph families,
and advanced experimental geodesic-KK utilities for weighted-layout
evaluation and polish. Based on Gajer and Kobourov (2002)
<doi:10.7155/jgaa.00052> and Gajer, Goodrich and Kobourov (2004)
<doi:10.1016/j.comgeo.2004.03.014>.
Author: Pawel Gajer [aut, cre]
Maintainer: Pawel Gajer <pgajer@gmail.com>
Diff between grip versions 0.1.2 dated 2026-08-05 and 0.1.3 dated 2026-08-21
grip-0.1.2/grip/man/trace.weighted.grip.Rd |only grip-0.1.2/grip/man/weighted.grip.Rd |only grip-0.1.3/grip/DESCRIPTION | 12 grip-0.1.3/grip/MD5 | 92 +-- grip-0.1.3/grip/NAMESPACE | 2 grip-0.1.3/grip/NEWS.md | 11 grip-0.1.3/grip/R/deprecated_api.R | 8 grip-0.1.3/grip/R/gmds_layout_interface.R | 19 grip-0.1.3/grip/R/grip-package.R | 10 grip-0.1.3/grip/R/grip_geodesic_misf_kk.R | 22 grip-0.1.3/grip/R/grip_layout.R | 240 +++++++++- grip-0.1.3/grip/R/grip_layout_weighted.R | 106 +--- grip-0.1.3/grip/R/grip_quality.R | 3 grip-0.1.3/grip/README.md | 51 +- grip-0.1.3/grip/inst/doc/grip-examples.Rmd | 14 grip-0.1.3/grip/inst/doc/grip-examples.html | 25 - grip-0.1.3/grip/inst/doc/grip-real-data.R | 4 grip-0.1.3/grip/inst/doc/grip-real-data.Rmd | 14 grip-0.1.3/grip/inst/doc/grip-real-data.html | 33 - grip-0.1.3/grip/inst/doc/grip-trace-and-diagnostics.R | 2 grip-0.1.3/grip/inst/doc/grip-trace-and-diagnostics.Rmd | 14 grip-0.1.3/grip/inst/doc/grip-trace-and-diagnostics.html | 20 grip-0.1.3/grip/inst/doc/weighted-grip-intro.R | 10 grip-0.1.3/grip/inst/doc/weighted-grip-intro.Rmd | 40 - grip-0.1.3/grip/inst/doc/weighted-grip-intro.html | 58 +- grip-0.1.3/grip/man/edge.kk.Rd | 7 grip-0.1.3/grip/man/globalrep.grip.Rd | 18 grip-0.1.3/grip/man/globalrep.weighted.grip.Rd | 19 grip-0.1.3/grip/man/grip-package.Rd | 10 grip-0.1.3/grip/man/grip.Rd | 90 +++ grip-0.1.3/grip/man/misf.geodesic.kk.Rd | 14 grip-0.1.3/grip/man/prepare.edge.kk.Rd | 3 grip-0.1.3/grip/man/score.misf.geodesic.kk.Rd | 8 grip-0.1.3/grip/man/trace.grip.Rd | 98 ++-- grip-0.1.3/grip/src/DrawGraph.h | 3 grip-0.1.3/grip/src/MishEngine.cpp | 2 grip-0.1.3/grip/src/MishSupport.cpp | 10 grip-0.1.3/grip/src/MishWeighted.cpp | 6 grip-0.1.3/grip/src/Point.h | 3 grip-0.1.3/grip/src/Rounding.h |only grip-0.1.3/grip/tests/testthat/helper-weighted-nd-trace-parity.R | 3 grip-0.1.3/grip/tests/testthat/test-edge-isometric-gkk.R | 7 grip-0.1.3/grip/tests/testthat/test-layout-metric-dispatch.R |only grip-0.1.3/grip/tests/testthat/test-layout-weighted-globalrep.R | 42 - grip-0.1.3/grip/tests/testthat/test-layout-weighted-trace.R | 40 - grip-0.1.3/grip/vignettes/grip-examples.Rmd | 14 grip-0.1.3/grip/vignettes/grip-real-data.Rmd | 14 grip-0.1.3/grip/vignettes/grip-trace-and-diagnostics.Rmd | 14 grip-0.1.3/grip/vignettes/weighted-grip-intro.Rmd | 40 - 49 files changed, 779 insertions(+), 496 deletions(-)
Title: Import, Inspect, Analyse, and Report Gazepoint GP3 Exports
Description: Tools for importing, inspecting, cleaning, summarising,
modelling, and reporting Gazepoint GP3 and Gazepoint Analysis CSV
exports. The package supports offline workflows for all-gaze,
fixation, pupil, area-of-interest, transition, time-course, quality-audit, and
manuscript-reporting analyses.
The package methodology is described in the peer-reviewed
software paper <doi:10.3390/jemr19040076>.
Author: Stefanos Balaskas [aut, cre]
Maintainer: Stefanos Balaskas <s.balaskas@ac.upatras.gr>
Diff between gp3tools versions 2.0.1 dated 2026-07-14 and 2.3.0 dated 2026-08-21
DESCRIPTION | 10 - MD5 | 100 ++++++++++ NAMESPACE | 59 ++++++ NEWS.md | 169 ++++++++++++++++++ R/advanced_aoi_assignment.R |only R/binocular_pupil_reconstruction.R |only R/binocular_pupil_validation.R |only R/event_detection_extensions.R |only R/event_detector_benchmarking.R |only R/event_detector_comparison.R |only R/gpbiometrics_bridge.R |only R/high_priority_signal_helpers.R |only R/naming_compatibility_aliases.R |only R/naming_policy.R |only R/performance_benchmarking.R |only R/plot_gazepoint_binocular_diagnostics.R |only R/pupil_signal_extensions.R |only R/scanpath_cluster_stability.R |only R/scanpath_clustering.R |only R/scanpath_clustering_workflow.R |only R/signal_preprocessing_workflow.R |only R/window_aoi_extensions.R |only README.md | 83 ++++++++ build/partial.rdb |only inst/CITATION | 2 inst/benchmarks |only man/add_gazepoint_aoi.Rd |only man/add_gazepoint_dynamic_aoi.Rd |only man/add_gazepoint_polygon_aoi.Rd |only man/analyse_gazepoint_binocular_sensitivity.Rd |only man/analyze_gazepoint_window.Rd |only man/audit_gazepoint_binocular_reconstruction.Rd |only man/audit_gazepoint_dynamic_aoi_coverage.Rd |only man/audit_gazepoint_naming_consistency.Rd |only man/benchmark_gazepoint_event_detectors.Rd |only man/benchmark_gazepoint_export_performance.Rd |only man/bootstrap_gazepoint_scanpath_clusters.Rd |only man/check_gazepoint_performance_regression.Rd |only man/cluster_gazepoint_scanpaths.Rd |only man/compare_gazepoint_event_detectors.Rd |only man/construct_gazepoint_combined_pupil.Rd |only man/create_gazepoint_cross_package_report.Rd |only man/create_gazepoint_event_review_template.Rd |only man/detect_gazepoint_blinks.Rd |only man/detect_gazepoint_fixations_velocity.Rd |only man/diagnose_gazepoint_binocular_pupil.Rd |only man/downsample_gazepoint_pupil.Rd |only man/extract_gazepoint_representative_scanpaths.Rd |only man/fit_gazepoint_binocular_calibration.Rd |only man/gp3tools_naming_policy.Rd |only man/gp3tools_performance_limits.Rd |only man/interpolate_gazepoint_blinks.Rd |only man/mean_gazepoint_pupil.Rd |only man/plot_gazepoint_binocular_diagnostics.Rd |only man/plot_gazepoint_event_detector_agreement.Rd |only man/plot_gazepoint_event_detector_benchmark.Rd |only man/plot_gazepoint_scanpath_cluster_stability.Rd |only man/plot_gazepoint_scanpath_clusters.Rd |only man/prepare_gazepoint_gpbiometrics_bridge.Rd |only man/preprocess_gazepoint_signals.Rd |only man/reconstruct_gazepoint_binocular_pupil.Rd |only man/regress_gazepoint_pupils.Rd |only man/run_gazepoint_gpbiometrics_workflow.Rd |only man/select_gazepoint_scanpath_clusters.Rd |only man/simulate_gazepoint_fixations.Rd |only man/smooth_gazepoint_coordinate.Rd |only man/stress_test_gazepoint_binocular_reconstruction.Rd |only man/summarise_gazepoint_binocular_reporting.Rd |only man/summarise_gazepoint_coordinate_coverage.Rd |only man/summarise_gazepoint_event_detector_agreement.Rd |only man/summarise_gazepoint_event_detector_benchmark.Rd |only man/summarise_gazepoint_face_reactivity.Rd |only man/summarise_gazepoint_face_windows.Rd |only man/summarise_gazepoint_pupil_response_features.Rd |only man/summarise_gazepoint_scanpath_cluster_stability.Rd |only man/summarise_gazepoint_time_clusters.Rd |only man/validate_gazepoint_binocular_reconstruction.Rd |only man/write_gazepoint_naming_audit.Rd |only man/write_gazepoint_performance_benchmark.Rd |only tests/testthat/helper-binocular.R |only tests/testthat/test-advanced-aoi-assignment.R |only tests/testthat/test-binocular-pupil-plots.R |only tests/testthat/test-binocular-pupil-reconstruction.R |only tests/testthat/test-binocular-pupil-validation.R |only tests/testthat/test-event-detector-benchmarking.R |only tests/testthat/test-event-detector-comparison.R |only tests/testthat/test-gpbiometrics-bridge.R |only tests/testthat/test-high-priority-signal-extensions.R |only tests/testthat/test-naming-compatibility-aliases.R |only tests/testthat/test-naming-policy.R |only tests/testthat/test-performance-benchmarking.R |only tests/testthat/test-scanpath-cluster-stability.R |only tests/testthat/test-scanpath-clustering-workflow.R |only tests/testthat/test-scanpath-clustering.R |only tests/testthat/test-signal-preprocessing-workflow.R |only 95 files changed, 405 insertions(+), 18 deletions(-)
Title: Generalized Least Squares with Measurement Error
Description: Performs linear regression with correlated predictors, responses and correlated measurement errors in predictors and responses, correcting for biased caused by these.
Author: Krzysztof Bartoszek [cre, aut, ths]
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Diff between GLSME versions 1.0.5 dated 2019-09-15 and 1.0.6 dated 2026-08-21
DESCRIPTION | 11 ++++++----- MD5 | 12 ++++++------ NAMESPACE | 6 +++++- inst/CITATION | 37 +++++++++++++------------------------ man/GLSME-package.Rd | 4 ++-- man/GLSME.Rd | 19 ++++++++++--------- man/GLSME.predict.Rd | 8 ++++---- 7 files changed, 46 insertions(+), 51 deletions(-)
Title: Network Meta-Analysis Using Bayesian Methods
Description: Network meta-analyses (mixed treatment comparisons) in the Bayesian
framework using JAGS. Includes methods to assess heterogeneity and
inconsistency, and a number of standard visualizations.
van Valkenhoef et al. (2012) <doi:10.1002/jrsm.1054>;
van Valkenhoef et al. (2015) <doi:10.1002/jrsm.1167>.
Author: Gert van Valkenhoef [aut, cre],
Joel Kuiper [aut]
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between gemtc versions 1.1-1 dated 2026-03-26 and 1.1-2 dated 2026-08-21
DESCRIPTION | 32 ++++++++++++++--------------- MD5 | 8 ++++--- R/inits.R | 10 ++++----- R/rtruncnorm.R |only tests/testthat/test-rturncnorm.R |only tests/testthat/test-unit-relative.effect.R | 11 +++------ 6 files changed, 30 insertions(+), 31 deletions(-)
Title: Create, Optimize, and Refine Data Nuggets
Description: Creating, optimizing and refining data nuggets.
Data nuggets reduce a large dataset into a small collection of nuggets of
data, each containing a center (location), weight (importance), and scale
(variability) parameter. Data nugget centers are selected based on a
space-filling maximum-entropy scheme. Data nugget weights are created by
counting the number observations closest to a given data nugget center.
We then say the data nugget 'contains' these observations and the data
nugget center is recalculated as the mean of these observations. Data nugget
scales are created by calculating the trace of the covariance matrix of the
observations contained within a data nugget divided by the dimension of the
dataset. The optimal number of data nuggets is determined data-driven based
on the relative second-order differences of propensity score indices. Data
nuggets are refined by 'splitting' data nuggets which have high scales or
elongated shapes (defined as the ratio of the two largest eigenva [...truncated...]
Author: Rituparna Dey [aut, cre],
Yajie Duan [aut],
Traymon Beavers [aut],
Javier Cabrera [aut],
Ge Cheng [aut],
Kunting Qi [aut],
Mariusz Lubomirski [aut]
Maintainer: Rituparna Dey <rituparnadey525@gmail.com>
Diff between datanugget versions 1.4.0 dated 2025-12-04 and 1.5.0 dated 2026-08-21
datanugget-1.4.0/datanugget/R/createDN.R |only datanugget-1.4.0/datanugget/R/create_refine.DN.R |only datanugget-1.4.0/datanugget/R/refineDN.R |only datanugget-1.4.0/datanugget/man/create_refine.DN.Rd |only datanugget-1.5.0/datanugget/DESCRIPTION | 44 +++-- datanugget-1.5.0/datanugget/MD5 | 26 +-- datanugget-1.5.0/datanugget/NAMESPACE | 6 datanugget-1.5.0/datanugget/R/create.DN.R |only datanugget-1.5.0/datanugget/R/create.DNcenters.R | 144 ++++++++++++------ datanugget-1.5.0/datanugget/R/getDN.means.R | 10 - datanugget-1.5.0/datanugget/R/optimal.DN.R |only datanugget-1.5.0/datanugget/R/refine.DN.R |only datanugget-1.5.0/datanugget/man/create.DN.Rd | 18 +- datanugget-1.5.0/datanugget/man/create.DNcenters.Rd | 2 datanugget-1.5.0/datanugget/man/datanugget-package.Rd | 4 datanugget-1.5.0/datanugget/man/getDN.means.Rd | 2 datanugget-1.5.0/datanugget/man/optimal.DN.Rd |only datanugget-1.5.0/datanugget/man/refine.DN.Rd | 71 ++++---- 18 files changed, 194 insertions(+), 133 deletions(-)
Title: Analysis of Semi-Competing Risks Data Using Copula-Based Models
Description: Simulate and analyze Semi-competing Risks Data using
copula-based models. The Semi-competing Risks Data consist of a
terminal event time and single or multiple intermediate event times.
The marginal survival functions of these event times are estimated
without parametric assumptions. The association parameters measuring dependency
among these event times involving the copula model are yielded from
solving a concordance estimating equations or maximizing a
pseudo-likelihood function. Details can be found in the article by
Tonghui Yu and Liming Xiang (2026) <doi:10.1093/biomtc/ujag087>.
Author: Tonghui Yu [aut, cre],
Binhui Zhang [aut]
Maintainer: Tonghui Yu <tonghui_yu@126.com>
Diff between CopulaSCR versions 1.0.1 dated 2026-06-12 and 1.0.2 dated 2026-08-21
DESCRIPTION | 14 +- MD5 | 86 ++++++++++------- NAMESPACE | 22 ++++ R/CalCopula.R | 2 R/CopulaSCR-package.R | 2 R/accessors.R |only R/data-doc.R | 32 +++++- R/mscr.R | 16 ++- R/plot.R | 210 +++++++++++++++++++++++++++++++++++++++++- R/plotBS.R | 29 +++-- R/predict.R | 75 +++++++++++---- R/predictscr.R | 122 ++++++++++++++++-------- R/print.R | 6 - R/scrasso.R | 20 ++-- R/scrsurv.R | 41 +++++--- R/simSCRnp.R | 4 R/simmulSCR.R | 3 R/summary.R | 191 +++++++++++++++++++++++++++++++++++++- build |only data/mimiv_demo.rda |only man/CopulaSCR-package.Rd | 2 man/SCRdata.Rd | 2 man/SCRdata_by_tr.Rd | 2 man/association_estimates.Rd |only man/brier_scores.Rd |only man/dyBS.Rd | 18 ++- man/integrated_brier_score.Rd |only man/logLik.mscr.Rd |only man/mSCRdata.Rd | 2 man/marginal_fit.Rd |only man/mimiv_demo.Rd |only man/mscr.Rd | 14 +- man/plot.mscr.Rd | 4 man/plot.scrassonp.Rd |only man/plot.scrsurv.Rd | 4 man/predict.mscr.Rd | 17 +-- man/predict.scrsurv.Rd | 12 +- man/predicted_values.Rd |only man/predictscr.Rd | 31 +++--- man/print.mscr.Rd | 2 man/print.scrassonp.Rd | 2 man/print.scrsurv.Rd | 2 man/scrassonp.Rd | 16 +-- man/scrsurv.Rd | 18 +-- man/simSCR.Rd | 2 man/simSCRmul.Rd | 2 man/simSCRtr.Rd | 2 man/summary.mscr.Rd |only man/summary.scrassonp.Rd | 2 man/summary.scrsurv.Rd |only man/terminal_survival.Rd |only 51 files changed, 799 insertions(+), 232 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. We further include functions for percentages (or proportions).
The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include:
a) Tsagris M.T., Preston S. and Wood A.T.A. (2011). "A data--based power transformation for compositional data". Fourth International International Workshop on Compositional Data Analysis. <doi:10.48550/arXiv.1106.1451>.
b) Tsagris M. (2014). "The k--NN algorithm for compositional data: a revised approach with and without zero values present". Journal of Data Science, 12(3): 519--534. <doi:10.6339/JDS.201407_12(3).0008>.
c) Tsagris M. (2015). "A novel, divergence based, regression for compositional data". Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444. <doi:10.48550/arXiv. [...truncated...]
Author: Michail Tsagris [aut, cre],
Giorgos Athineou [aut],
Abdulaziz Alenazi [ctb],
Christos Adam [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between Compositional versions 8.2 dated 2026-05-23 and 8.3 dated 2026-08-21
DESCRIPTION | 12 ++++++------ MD5 | 38 ++++++++++++++++++++++---------------- NAMESPACE | 2 +- R/bic.mixcompnorm.R | 4 +++- R/bic.mixdiri.R |only R/diri.reg.R | 2 +- R/diri.reg.irls.R |only R/fd.contour.R | 5 ----- R/mix.diri.R |only R/ternary.R | 4 ++-- R/zadr.R | 13 +++++++++---- R/zadr.irls.R |only man/Compositional-package.Rd | 4 ++-- man/bic.alfamixnorm.Rd | 2 +- man/bic.mixcompnorm.Rd | 9 ++++++--- man/bic.mixdiri.Rd |only man/diri.reg.Rd | 18 +++++++++++++++--- man/mix.diri.Rd |only man/probout.Rd | 13 ++++++------- man/tflr.Rd | 4 ++-- man/tflr.betest.Rd | 4 ++-- man/tflr.indeptest.Rd | 4 ++-- man/zadr.Rd | 12 ++++++++++++ 23 files changed, 92 insertions(+), 58 deletions(-)
Title: Oncology Extension Package for ADaM in 'R' Asset Library
Description: Programming oncology specific Clinical Data Interchange
Standards Consortium (CDISC) compliant Analysis Data Model (ADaM)
datasets in 'R'. ADaM datasets are a mandatory part of any New Drug or
Biologics License Application submitted to the United States Food and
Drug Administration (FDA). Analysis derivations are implemented in
accordance with the "Analysis Data Model Implementation Guide" (CDISC
Analysis Data Model Team (2021),
<https://www.cdisc.org/standards/foundational/adam>). The package is
an extension package of the 'admiral' package.
Author: Stefan Bundfuss [aut, cre],
Amit Jain [aut],
Vinh Nguyen [aut],
Olga Starostecka [aut],
Kiran Peddamudium [aut],
Tomoyuki Namai [aut],
Ross Farrugia [aut],
Yirong Cao [ctb],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline LLC [cph, fnd],
Bristol [...truncated...]
Maintainer: Stefan Bundfuss <stefan.bundfuss@external.roche.com>
Diff between admiralonco versions 1.4.1 dated 2026-05-21 and 1.5.0 dated 2026-08-21
DESCRIPTION | 16 - MD5 | 64 ++-- NAMESPACE | 140 ++++---- NEWS.md | 14 R/admiralonco-package.R | 25 - R/tte_sources.R | 2 README.md | 12 build/vignette.rds |binary inst/WORDLIST | 6 inst/doc/admiralonco.html | 8 inst/doc/adrs_basic.html | 34 +- inst/doc/adrs_gcig.Rmd | 2 inst/doc/adrs_gcig.html | 114 +++---- inst/doc/adrs_imwg.R | 2 inst/doc/adrs_imwg.Rmd | 2 inst/doc/adrs_imwg.html | 20 - inst/doc/adrs_lymphoma.R |only inst/doc/adrs_lymphoma.Rmd |only inst/doc/adrs_lymphoma.html |only inst/doc/adrs_pcwg3.Rmd | 2 inst/doc/adrs_pcwg3.html | 112 +++---- inst/doc/adtr.R | 4 inst/doc/adtr.Rmd | 6 inst/doc/adtr.html | 12 inst/doc/adtte.R | 127 +++++--- inst/doc/adtte.Rmd | 158 ++++++--- inst/doc/adtte.html | 696 ++++++++++++++++++++++++++++---------------- inst/templates/ad_adtr.R | 4 man/admiralonco-package.Rd | 2 vignettes/adrs_gcig.Rmd | 2 vignettes/adrs_imwg.Rmd | 2 vignettes/adrs_lymphoma.Rmd |only vignettes/adrs_pcwg3.Rmd | 2 vignettes/adtr.Rmd | 6 vignettes/adtte.Rmd | 158 ++++++--- 35 files changed, 1058 insertions(+), 696 deletions(-)
Title: Tidy, 'ggplot2'-Native Visualization for Genomic Variants
Description: A simple, opinionated toolkit for visualizing genomic variant
data using a 'ggplot2'-native grammar. Accepts VCF files or plain data
frames and produces lollipop plots, consequence summaries, mutational
spectrum charts, and cohort-level comparisons as standard 'ggplot2'
objects. Designed for both wet-lab biologists and experienced
bioinformaticians.
Author: Joash Joshua Ayo [aut, cre]
Maintainer: Joash Joshua Ayo <joashjoshua789@gmail.com>
Diff between ggvariant versions 0.1.0 dated 2026-02-27 and 0.2.0 dated 2026-08-21
ggvariant-0.1.0/ggvariant/inst/doc/introduction-to-ggvariant.R |only ggvariant-0.1.0/ggvariant/inst/doc/introduction-to-ggvariant.Rmd |only ggvariant-0.1.0/ggvariant/inst/doc/introduction-to-ggvariant.html |only ggvariant-0.1.0/ggvariant/vignettes/introduction-to-ggvariant.Rmd |only ggvariant-0.2.0/ggvariant/DESCRIPTION | 23 ggvariant-0.2.0/ggvariant/MD5 | 74 - ggvariant-0.2.0/ggvariant/NAMESPACE | 11 ggvariant-0.2.0/ggvariant/NEWS.md |only ggvariant-0.2.0/ggvariant/R/ggvariant-package.R | 19 ggvariant-0.2.0/ggvariant/R/gvf-methods.R |only ggvariant-0.2.0/ggvariant/R/plot_functions.R | 545 ++++---- ggvariant-0.2.0/ggvariant/R/plot_lollipop.R | 395 +++--- ggvariant-0.2.0/ggvariant/R/plot_oncoprint.R |only ggvariant-0.2.0/ggvariant/R/plot_tmb.R |only ggvariant-0.2.0/ggvariant/R/read_vcf.R | 653 +++++----- ggvariant-0.2.0/ggvariant/R/utils.R | 34 ggvariant-0.2.0/ggvariant/README.md | 232 +-- ggvariant-0.2.0/ggvariant/build/partial.rdb |only ggvariant-0.2.0/ggvariant/build/vignette.rds |binary ggvariant-0.2.0/ggvariant/inst/CITATION |only ggvariant-0.2.0/ggvariant/inst/REFERENCES.bib |only ggvariant-0.2.0/ggvariant/inst/doc/ggvariant.R |only ggvariant-0.2.0/ggvariant/inst/doc/ggvariant.Rmd |only ggvariant-0.2.0/ggvariant/inst/doc/ggvariant.html |only ggvariant-0.2.0/ggvariant/man/coerce_variants.Rd | 139 +- ggvariant-0.2.0/ggvariant/man/figures |only ggvariant-0.2.0/ggvariant/man/ggvariant-package.Rd | 56 ggvariant-0.2.0/ggvariant/man/gv_palette.Rd | 54 ggvariant-0.2.0/ggvariant/man/gvf-methods.Rd |only ggvariant-0.2.0/ggvariant/man/plot_consequence_summary.Rd | 134 +- ggvariant-0.2.0/ggvariant/man/plot_lollipop.Rd | 172 +- ggvariant-0.2.0/ggvariant/man/plot_oncoprint.Rd |only ggvariant-0.2.0/ggvariant/man/plot_tmb.Rd |only ggvariant-0.2.0/ggvariant/man/plot_variant_spectrum.Rd | 148 +- ggvariant-0.2.0/ggvariant/man/read_vcf.Rd | 118 + ggvariant-0.2.0/ggvariant/tests/testthat/_snaps |only ggvariant-0.2.0/ggvariant/tests/testthat/test-coerce-variants.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-core.R | 29 ggvariant-0.2.0/ggvariant/tests/testthat/test-gvf-methods.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-parse-ann-csq.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-pivot-samples-genotype.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-consequence-summary.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-lollipop.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-oncoprint.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-tmb.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-plot-variant-spectrum.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-read-vcf-malformed.R |only ggvariant-0.2.0/ggvariant/tests/testthat/test-utils.R |only ggvariant-0.2.0/ggvariant/vignettes/ggvariant.Rmd |only 49 files changed, 1570 insertions(+), 1266 deletions(-)
Title: Visualization of 'exametrika' Output Using 'ggplot2'
Description: Provides 'ggplot2'-based visualization functions for output objects
from the 'exametrika' package, which implements test data engineering methods
described in Shojima (2022, ISBN:978-981-16-9547-1). Supports a wide range of
psychometric models including Item Response Theory, Latent Class Analysis,
Latent Rank Analysis, Biclustering (binary, ordinal, and nominal),
Bayesian Network Models, and related network models. All plot functions
return 'ggplot2' objects that can be further customized by the user.
Author: Koji Kosugi [aut, cre] ,
Daichi Kamimura [aut]
Maintainer: Koji Kosugi <kosugitti@gmail.com>
Diff between ggExametrika versions 1.1.1 dated 2026-06-15 and 1.1.2 dated 2026-08-21
ggExametrika-1.1.1/ggExametrika/tests/testthat/Rplots.pdf |only ggExametrika-1.1.1/ggExametrika/tools |only ggExametrika-1.1.2/ggExametrika/DESCRIPTION | 8 ggExametrika-1.1.2/ggExametrika/MD5 | 75 - ggExametrika-1.1.2/ggExametrika/NAMESPACE | 3 ggExametrika-1.1.2/ggExametrika/NEWS.md | 170 ++ ggExametrika-1.1.2/ggExametrika/R/Biclustering.R | 352 +---- ggExametrika-1.1.2/ggExametrika/R/GRM.R | 67 ggExametrika-1.1.2/ggExametrika/R/ICCtoTIC.R | 167 -- ggExametrika-1.1.2/ggExametrika/R/IRPtoCMPRMP.R | 693 ++-------- ggExametrika-1.1.2/ggExametrika/R/LRAordinal.R | 369 +---- ggExametrika-1.1.2/ggExametrika/R/PolyBiclustering.R | 52 ggExametrika-1.1.2/ggExametrika/R/ScoreField.R | 21 ggExametrika-1.1.2/ggExametrika/R/ScoreRank.R | 27 ggExametrika-1.1.2/ggExametrika/R/arraytoLDPSR.R | 65 ggExametrika-1.1.2/ggExametrika/R/option.R | 14 ggExametrika-1.1.2/ggExametrika/R/plotDistractor_gg.R | 21 ggExametrika-1.1.2/ggExametrika/R/plotFCBR_gg.R | 18 ggExametrika-1.1.2/ggExametrika/R/plotGraph_gg.R | 11 ggExametrika-1.1.2/ggExametrika/R/plotLDPSR_gg.R | 10 ggExametrika-1.1.2/ggExametrika/R/utils-internal.R |only ggExametrika-1.1.2/ggExametrika/R/zzz.R | 8 ggExametrika-1.1.2/ggExametrika/README.md | 158 +- ggExametrika-1.1.2/ggExametrika/man/ItemInformationFunc_GRM.Rd | 15 ggExametrika-1.1.2/ggExametrika/man/dot-apply_legend.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-axis_scaler.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_item_category.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_membership_profile.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_reference_vector.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-plot_student_distribution.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-resolve_colors.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-resolve_title.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-validate_exametrika.Rd |only ggExametrika-1.1.2/ggExametrika/man/dot-variable_scaler.Rd |only ggExametrika-1.1.2/ggExametrika/man/plotArray_gg.Rd | 6 ggExametrika-1.1.2/ggExametrika/man/plotCRV_gg.Rd | 7 ggExametrika-1.1.2/ggExametrika/man/plotICBR_gg.Rd | 8 ggExametrika-1.1.2/ggExametrika/man/plotICRF_gg.Rd | 2 ggExametrika-1.1.2/ggExametrika/man/plotICRP_gg.Rd | 6 ggExametrika-1.1.2/ggExametrika/man/plotRRV_gg.Rd | 7 ggExametrika-1.1.2/ggExametrika/man/plotScoreFreq_gg.Rd | 2 ggExametrika-1.1.2/ggExametrika/man/plotScoreRank_gg.Rd | 2 ggExametrika-1.1.2/ggExametrika/tests/testthat/helper-setup.R | 29 ggExametrika-1.1.2/ggExametrika/tests/testthat/test-DAG-plots.R | 6 ggExametrika-1.1.2/ggExametrika/tests/testthat/test-fixtures.R |only ggExametrika-1.1.2/ggExametrika/tests/testthat/test-utility-functions.R |only 46 files changed, 957 insertions(+), 1442 deletions(-)
Title: G-Functions
Description: Modified versions of the lag() and summary() functions: glag() and gsummary(). The prefix 'g' is a reminder of who to blame if things do not work as they should.
Author: Genaro Sucarrat [aut, cre]
Maintainer: Genaro Sucarrat <gsucarrat@gmail.com>
Diff between gfunctions versions 1.1 dated 2025-07-23 and 1.2 dated 2026-08-21
DESCRIPTION | 8 - MD5 | 10 +- NEWS | 16 +++ R/gfunctions-source-code.R | 189 +++++++++++++++++++-------------------------- man/gfunctions-package.Rd | 4 man/gsummary.Rd | 8 + 6 files changed, 114 insertions(+), 121 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre, cph],
Victor Morales-Onate [ctb],
Francisco Cuevas-Pacheco [ctb],
Christian Caamano-Carrillo [ctb]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 2.2.7 dated 2026-07-29 and 2.2.8 dated 2026-08-21
DESCRIPTION | 17 MD5 | 241 - NAMESPACE | 15 R/BivariateUtils.R |only R/BuildInfo.R |only R/CVUtils.R |only R/CoordinateValidation.R |only R/Geo3DUtils.R |only R/GeoAniso.R | 125 R/GeoCV.R | 967 +++--- R/GeoCompositeLik.r | 37 R/GeoCompositeLik2.R | 333 +- R/GeoCorrFct.r | 526 +-- R/GeoCorrFct_Cop.R | 388 -- R/GeoCovDisplay.R | 493 +++ R/GeoCovariogram.r | 933 ++++-- R/GeoCovmatrix.r | 387 +- R/GeoDistances.R | 216 + R/GeoDoScores.R | 144 R/GeoFit.R | 591 +++ R/GeoFit2.R | 101 R/GeoIndCompositeLik2.R | 28 R/GeoKrig.r | 2243 ++++++++------ R/GeoKrigWeights.R | 147 R/GeoKrigloc.R | 609 ++- R/GeoKriglocWeights.R | 996 ++++-- R/GeoLik.r | 103 R/GeoNA.R | 18 R/GeoNeighIndex.R | 241 + R/GeoNeighbSelect.R | 578 ++- R/GeoNeighborhood.R | 1157 +++++-- R/GeoPit.R | 523 +-- R/GeoQQ.R | 212 - R/GeoResiduals.r | 189 - R/GeoScatterplot.R | 2444 +++++++++++++++ R/GeoScores.R | 373 +- R/GeoSim.r | 896 +---- R/GeoSimCopula.R | 421 +- R/GeoSimapprox.r | 966 +++--- R/GeoSimcond.R | 2384 ++++----------- R/GeoSpoutlier.R | 209 - R/GeoTest.r | 501 ++- R/GeoTestIndependence.R | 231 - R/GeoTestIsotropy.R | 779 ++--- R/GeoTestsupp_space.R | 247 - R/GeoVarest.R | 1166 +++++-- R/GeoVarestbootstrap.R | 942 +++--- R/GeoVariogram.r | 1565 ++++++---- R/GeoVariogramDir.R | 23 R/GeoWls.r | 663 ++-- R/KrigUtils.R |only R/MarginalUtils.R |only R/MeanUtils.R |only R/Optimize1D.R |only R/ParallelUtils.R |only R/SimCE.R | 543 ++- R/SimcondUtils.R |only R/SimulationUtils.R |only R/TB.R | 107 R/TestUtils.R |only R/Utility.r | 611 +++ R/Utility_cov.R | 2124 +++++++++++++ R/VarestUtils.R |only R/sp2Geo.R | 4 man/CkInput.Rd | 6 man/CkType.Rd | 6 man/CompIndLik2.Rd | 4 man/CompLik.Rd | 3 man/CompLik2.Rd | 4 man/GeoCV.Rd | 77 man/GeoCorrFct.Rd | 9 man/GeoCorrFct_Cop.Rd | 136 man/GeoCovariogram.Rd | 127 man/GeoCovmatrix.Rd | 69 man/GeoDosocores.Rd | 19 man/GeoFit.Rd | 124 man/GeoFit2.Rd | 74 man/GeoKrig.Rd | 239 + man/GeoKrigWeights.Rd | 93 man/GeoKrigloc.Rd | 183 - man/GeoKriglocWeights.Rd | 114 man/GeoModels-3D.Rd |only man/GeoModels-spacetime-ordering.Rd |only man/GeoNA.Rd | 20 man/GeoNeighIndex.Rd | 252 - man/GeoNeighbSelect.Rd | 146 man/GeoNeighborhood.Rd | 21 man/GeoOutlier.Rd | 37 man/GeoPit.Rd | 132 man/GeoQQ.Rd | 12 man/GeoResiduals.Rd | 42 man/GeoScatterplot.Rd | 489 ++- man/GeoScores.Rd | 215 - man/GeoSim.Rd | 130 man/GeoSimCopula.Rd | 102 man/GeoSimapprox.Rd | 153 man/GeoSimcond.Rd | 256 + man/GeoTestIndependence.Rd | 11 man/GeoTestIsotropy.Rd | 233 - man/GeoTestsupp_space.Rd | 11 man/GeoVarest.Rd | 39 man/GeoVarestbootstrap.Rd | 54 man/GeoVariogram.Rd | 158 - man/GeoWls.Rd | 50 man/GeovariogramDir.Rd | 7 man/Lik.Rd | 4 man/SimCE.Rd | 54 man/StartParam.Rd | 6 man/WlsStart.Rd | 6 man/plot.GeoVariogram.Rd | 12 man/sp2Geo.Rd | 11 src/2gammainc.c | 17 src/2kummer.c | 156 - src/CompositeLikelihood2.c | 899 +---- src/CompositeLikelihood2_ani.c | 382 +- src/CompositeLikelihoodCond2.c | 439 +- src/CompositeLikelihoodCond2_ani.c | 197 - src/CorrelationFunction.c | 1432 ++++++--- src/Distributions.c | 5578 +++++++++++++++++++++++------------- src/DuplicateCoordinates.c |only src/GeoBivDensity.c |only src/GeoModels_init.c | 200 + src/KrigSolve.c |only src/PairCache.c |only src/TB.c | 162 - src/Utility.c | 503 --- src/clayton_gibbs.c |only src/count_conditional_gibbs.c |only src/covariance_series.c |only src/gamma_gibbs.c | 34 src/header.h | 166 - src/skewgaussian_gibbs.c | 28 src/weightedleastsquare.c | 546 ++- 133 files changed, 28381 insertions(+), 16065 deletions(-)
Title: Exact Tree
Description: Grows optimally global trees based on the algorithm defined in the thesis by van Os, B.J. (2001, ISBN:9789090144795). It is possible to obtain both classification and regression trees depending on the measurement level of the outcome variable. The algorithm is based on the dynamic programming principle and guarantees that the resulting tree is optimal with respect to the chosen impurity measure. The package also includes a function to visualize the resulting trees, a function that summarizes the tree with its splitting information and leaf information, and a predict function that provides estimates for a new dataset given a model fit.
Author: Juan Claramunt Gonzalez [aut, cre, cph],
Bart Jan van Os [aut],
Elise Dusseldorp [aut]
Maintainer: Juan Claramunt Gonzalez <j.claramunt.gonzalez@fsw.leidenuniv.nl>
Diff between ExactTree versions 0.1.1 dated 2026-08-07 and 0.1.2 dated 2026-08-21
ExactTree-0.1.1/ExactTree/src/Timer.f95 |only ExactTree-0.1.2/ExactTree/DESCRIPTION | 10 +++++----- ExactTree-0.1.2/ExactTree/MD5 | 17 ++++++++--------- ExactTree-0.1.2/ExactTree/R/ETree.R | 1 + ExactTree-0.1.2/ExactTree/R/SelectVar.R | 4 ++++ ExactTree-0.1.2/ExactTree/R/plot.ETree.R | 6 ++---- ExactTree-0.1.2/ExactTree/src/Makevars | 7 +++---- ExactTree-0.1.2/ExactTree/src/Makevars.win | 7 +++---- ExactTree-0.1.2/ExactTree/src/OptimalTrees.f95 | 10 +++++----- ExactTree-0.1.2/ExactTree/src/init.c | 4 ++-- 10 files changed, 33 insertions(+), 33 deletions(-)
Title: Download and Process Environmental Variables
Description: Provides a unified interface to download, harmonise and extract a
wide range of environmental and socio-economic variables from established
open data web services (such as 'WorldClim' <https://www.worldclim.org/>,
'CHELSA' <https://chelsa-climate.org/> and 'Bio-ORACLE'
<https://www.bio-oracle.org/>, among others) for use in macroecology and
biogeography. The package handles
spatial subsetting to a study area, reprojection to a common coordinate
reference system, and extraction of values at sampling points, so that
predictors from heterogeneous sources can be assembled within a single
reproducible workflow. Helper functions for collinearity checking and
variable exploration are also included.
Author: Andrea Simoncini [aut, cre] ,
Michele Bertoncini [aut] ,
Andrea Cerofolini [aut] ,
Andrea Dalpasso [aut] ,
Mattia Falaschi [aut] ,
Gentile Francesco Ficetola [aut] ,
Elia Lo Parrino [aut]
Maintainer: Andrea Simoncini <simonciniandre@gmail.com>
Diff between envar versions 0.1.0 dated 2026-07-31 and 0.1.1 dated 2026-08-21
DESCRIPTION | 6 MD5 | 320 - NAMESPACE | 72 NEWS.md | 50 R/accessibility.R | 820 +-- R/aridity.R | 926 +-- R/biooracle.R | 638 +- R/cache_utils.R | 196 R/chelsa.R | 1496 +++--- R/cleanup_temp.R | 16 R/climatezones.R | 880 +-- R/cloudcover.R | 818 +-- R/corr_check.R | 693 +- R/create_target_grid.R | 80 R/data.R | 82 R/download_file.R | 178 R/download_file_figshare.R | 215 R/earthenvlandcover.R | 768 +-- R/envar-package.R | 23 R/extr_check.R | 1022 ++-- R/extract_layer_name.R | 38 R/freshwater.R | 972 ++-- R/gcamlandcover.R | 796 +-- R/gdppast.R | 908 +-- R/geososlandcover.R | 810 +-- R/get_par.R | 454 - R/habitat.R | 1118 ++-- R/heterogeneity.R | 832 +-- R/hybridlandcover.R | 772 +-- R/melc.R | 840 +-- R/metadata.R |only R/par_set.R | 983 ++-- R/pftlandcover.R | 946 ++-- R/population.R | 812 +-- R/process_extent.R | 2560 +++++----- R/process_points.R | 92 R/process_raster_layer.R | 560 +- R/protection.R | 768 +-- R/provenance.R |only R/roads.R |only R/soil.R | 806 +-- R/soilclimate.R | 914 +-- R/spectre.R | 822 +-- R/ssp_rcp.R | 122 R/topography.R | 828 +-- R/utils-pipe.R | 32 R/validate_helpers.R | 150 R/worldclim.R | 1042 ++-- R/zzz.R | 12 README.md | 314 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 38 inst/doc/intro.Rmd | 406 - inst/doc/intro.html | 1381 ++--- inst/doc/package_overview.Rmd | 2136 ++++----- inst/doc/package_overview.html | 3097 ++++++------- inst/doc/sdm.Rmd | 646 +- inst/doc/sdm.html | 1615 +++--- inst/doc/variables.Rmd | 2490 +++++----- inst/doc/variables.html | 4016 ++++++++--------- man/Alps.Rd | 50 man/Apollo.Rd | 50 man/Europe.Rd | 46 man/accessibility.Rd | 132 man/aridity.Rd | 114 man/biooracle.Rd | 196 man/chelsa.Rd | 438 - man/clear_cache.Rd | 43 man/climatezones.Rd | 154 man/cloudcover.Rd | 146 man/corr_check.Rd | 197 man/earthenvlandcover.Rd | 120 man/envar-package.Rd | 72 man/extr_check.Rd | 208 man/figures/Fig1.png |binary man/figures/logo.png |binary man/freshwater.Rd | 220 man/gcamlandcover.Rd | 150 man/gdppast.Rd | 124 man/geososlandcover.Rd | 124 man/habitat.Rd | 160 man/heterogeneity.Rd | 130 man/hybridlandcover.Rd | 94 man/melc.Rd | 132 man/metadata.Rd |only man/par_set.Rd | 587 +- man/pftlandcover.Rd | 104 man/pipe.Rd | 44 man/population.Rd | 100 man/protection.Rd | 112 man/roads.Rd |only man/soil.Rd | 90 man/soilclimate.Rd | 150 man/spectre.Rd | 162 man/topography.Rd | 138 man/worldclim.Rd | 186 vignettes/figs/intro-unnamed-chunk-11-1.png |binary vignettes/figs/intro-unnamed-chunk-6-1.png |binary vignettes/figs/package_overview-unnamed-chunk-12-1.png |binary vignettes/figs/package_overview-unnamed-chunk-14-1.png |binary vignettes/figs/package_overview-unnamed-chunk-16-1.png |binary vignettes/figs/package_overview-unnamed-chunk-18-1.png |binary vignettes/figs/package_overview-unnamed-chunk-20-1.png |binary vignettes/figs/package_overview-unnamed-chunk-22-1.png |binary vignettes/figs/package_overview-unnamed-chunk-24-1.png |binary vignettes/figs/package_overview-unnamed-chunk-26-1.png |binary vignettes/figs/package_overview-unnamed-chunk-28-1.png |binary vignettes/figs/package_overview-unnamed-chunk-30-1.png |binary vignettes/figs/package_overview-unnamed-chunk-32-1.png |binary vignettes/figs/package_overview-unnamed-chunk-34-1.png |binary vignettes/figs/package_overview-unnamed-chunk-36-1.png |binary vignettes/figs/package_overview-unnamed-chunk-38-1.png |binary vignettes/figs/package_overview-unnamed-chunk-40-1.png |binary vignettes/figs/package_overview-unnamed-chunk-42-1.png |binary vignettes/figs/package_overview-unnamed-chunk-46-1.png |binary vignettes/figs/package_overview-unnamed-chunk-5-1.png |binary vignettes/figs/package_overview-unnamed-chunk-51-1.png |binary vignettes/figs/package_overview-unnamed-chunk-53-1.png |binary vignettes/figs/package_overview-unnamed-chunk-56-1.png |binary vignettes/figs/package_overview-unnamed-chunk-58-1.png |binary vignettes/figs/package_overview-unnamed-chunk-60-1.png |binary vignettes/figs/package_overview-unnamed-chunk-62-1.png |binary vignettes/figs/package_overview-unnamed-chunk-64-1.png |binary vignettes/figs/package_overview-unnamed-chunk-66-1.png |binary vignettes/figs/package_overview-unnamed-chunk-7-1.png |binary vignettes/figs/package_overview-unnamed-chunk-76-1.png |binary vignettes/figs/package_overview-unnamed-chunk-80-1.png |binary vignettes/figs/package_overview-unnamed-chunk-82-1.png |binary vignettes/figs/package_overview-unnamed-chunk-9-1.png |binary vignettes/figs/sdm-unnamed-chunk-16-1.png |binary vignettes/figs/sdm-unnamed-chunk-7-1.png |binary vignettes/figs/variables-roads-plot-1.png |only vignettes/figs/variables-unnamed-chunk-10-1.png |binary vignettes/figs/variables-unnamed-chunk-12-1.png |binary vignettes/figs/variables-unnamed-chunk-14-1.png |binary vignettes/figs/variables-unnamed-chunk-16-1.png |binary vignettes/figs/variables-unnamed-chunk-18-1.png |binary vignettes/figs/variables-unnamed-chunk-20-1.png |binary vignettes/figs/variables-unnamed-chunk-22-1.png |binary vignettes/figs/variables-unnamed-chunk-24-1.png |binary vignettes/figs/variables-unnamed-chunk-26-1.png |binary vignettes/figs/variables-unnamed-chunk-28-1.png |binary vignettes/figs/variables-unnamed-chunk-30-1.png |binary vignettes/figs/variables-unnamed-chunk-32-1.png |binary vignettes/figs/variables-unnamed-chunk-34-1.png |binary vignettes/figs/variables-unnamed-chunk-36-1.png |binary vignettes/figs/variables-unnamed-chunk-38-1.png |binary vignettes/figs/variables-unnamed-chunk-40-1.png |binary vignettes/figs/variables-unnamed-chunk-42-1.png |binary vignettes/figs/variables-unnamed-chunk-44-1.png |binary vignettes/figs/variables-unnamed-chunk-48-1.png |binary vignettes/figs/variables-unnamed-chunk-5-1.png |binary vignettes/figs/variables-unnamed-chunk-50-1.png |binary vignettes/figs/variables-unnamed-chunk-8-1.png |binary vignettes/images/Corr_plot_apollo.png |binary vignettes/images/Corr_plot_example.png |binary vignettes/images/Prediction.png |binary vignettes/intro.Rmd | 406 - vignettes/package_overview.Rmd | 2136 ++++----- vignettes/reference-style.csl | 402 - vignettes/references.bib | 870 +-- vignettes/sdm.Rmd | 646 +- vignettes/variables.Rmd | 2490 +++++----- 164 files changed, 28365 insertions(+), 27785 deletions(-)
Title: Objects for Predicting Energy Expenditure
Description: This is a data-only package containing model objects that predict
human energy expenditure from wearable sensor data. Supported methods include
the neural networks of Montoye et al. (2017) <doi:10.1080/1091367X.2017.1337638>
and the models of Staudenmayer et al. (2015) <doi:10.1152/japplphysiol.00026.2015>,
one a linear model and the other a random forest. The package is intended as
a spoke for the hub-package 'accelEE', which brings together the above methods
and others from packages such as 'Sojourn' and 'TwoRegression.'
Author: Paul R. Hibbing [aut, cre],
Alexander H.K. Montoye [ctb],
John Staudenmayer [ctb],
Children's Mercy Kansas City [cph]
Maintainer: Paul R. Hibbing <paulhibbing@gmail.com>
Diff between EE.Data versions 0.1.1 dated 2026-04-01 and 0.2.0 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 7 +++++++ R/data_doc.R | 2 +- data/montoye_lw.rda |binary data/montoye_rw.rda |binary man/montoye.Rd | 4 ++-- 7 files changed, 20 insertions(+), 13 deletions(-)
Title: Tools for Dyadic Multilevel Models
Description: Provides tools for dyadic multilevel modeling with linear and
generalized linear mixed-effects models. It validates and prepares
long-format cross-sectional and intensive longitudinal data, including
ecological momentary assessment designs, for distinguishable and
exchangeable dyads. It also supports datasets containing multiple observed
dyad compositions. It constructs composition-aware,
model-ready variables for Actor-Partner Interdependence Models (APIMs),
Dyadic Score Models (DSMs), and Dyad-Individual Models (DIMs). Prepared data
can be used with model engines such as 'glmmTMB' and 'brms' for Gaussian and
non-Gaussian outcomes, including counts, proportions, and skewed continuous
responses. Post-estimation tools compare compatible fitted models and
back-transform exchangeable sum-and-difference random-effect covariance
structures into member-level quantities. The APIM and DSM specifications
and their relationships follow Iida et al. (2018)
<doi:10.1177/0265407517725407>; the [...truncated...]
Author: Pascal Kueng [aut, cre, cph]
Maintainer: Pascal Kueng <kueng.pascal@gmail.com>
Diff between dyadMLM versions 0.1.0 dated 2026-07-30 and 0.2.0 dated 2026-08-21
dyadMLM-0.1.0/dyadMLM/R/compare_dyad_models.R |only dyadMLM-0.1.0/dyadMLM/man/compare_nested_glmmTMB_models.Rd |only dyadMLM-0.1.0/dyadMLM/man/print.exchangeable_rescov.Rd |only dyadMLM-0.1.0/dyadMLM/tests/testthat/test-compare_dyad_models.R |only dyadMLM-0.2.0/dyadMLM/DESCRIPTION | 7 dyadMLM-0.2.0/dyadMLM/MD5 | 151 dyadMLM-0.2.0/dyadMLM/NAMESPACE | 5 dyadMLM-0.2.0/dyadMLM/NEWS.md | 64 dyadMLM-0.2.0/dyadMLM/R/add_actor_partner_columns.R | 15 dyadMLM-0.2.0/dyadMLM/R/add_dyad_individual_columns.R | 30 dyadMLM-0.2.0/dyadMLM/R/add_dyadic_score_columns.R | 25 dyadMLM-0.2.0/dyadMLM/R/add_temporal_lag_columns.R | 26 dyadMLM-0.2.0/dyadMLM/R/backtransform_residual_covariance.R | 167 - dyadMLM-0.2.0/dyadMLM/R/center_predictors.R | 66 dyadMLM-0.2.0/dyadMLM/R/compare_nested_models.R |only dyadMLM-0.2.0/dyadMLM/R/data.R | 22 dyadMLM-0.2.0/dyadMLM/R/dyad-generated-columns.R | 331 -- dyadMLM-0.2.0/dyadMLM/R/dyadMLM-package.R |only dyadMLM-0.2.0/dyadMLM/R/infer_dyad_compositions.R | 240 + dyadMLM-0.2.0/dyadMLM/R/prepare_dyad_data.R | 145 dyadMLM-0.2.0/dyadMLM/R/print_dyadMLM_data.R | 84 dyadMLM-0.2.0/dyadMLM/R/summary_dyadMLM_data.R |only dyadMLM-0.2.0/dyadMLM/R/temporary_dyad_occasion_completion.R |only dyadMLM-0.2.0/dyadMLM/R/utils-compositions.R | 49 dyadMLM-0.2.0/dyadMLM/R/validate_dyad_data.R | 39 dyadMLM-0.2.0/dyadMLM/README.md | 172 - dyadMLM-0.2.0/dyadMLM/data/dyads_cross.rda |binary dyadMLM-0.2.0/dyadMLM/data/dyads_ild.rda |binary dyadMLM-0.2.0/dyadMLM/data/dyads_nbinom_cross.rda |binary dyadMLM-0.2.0/dyadMLM/data/dyads_nbinom_ild.rda |binary dyadMLM-0.2.0/dyadMLM/inst/CITATION | 10 dyadMLM-0.2.0/dyadMLM/inst/WORDLIST | 9 dyadMLM-0.2.0/dyadMLM/inst/doc/apim.R | 337 +- dyadMLM-0.2.0/dyadMLM/inst/doc/apim.Rmd | 508 +-- dyadMLM-0.2.0/dyadMLM/inst/doc/apim.html | 1516 +++++----- dyadMLM-0.2.0/dyadMLM/inst/doc/dim.R | 71 dyadMLM-0.2.0/dyadMLM/inst/doc/dim.Rmd | 160 - dyadMLM-0.2.0/dyadMLM/inst/doc/dim.html | 634 ++-- dyadMLM-0.2.0/dyadMLM/inst/doc/dsm.R | 119 dyadMLM-0.2.0/dyadMLM/inst/doc/dsm.Rmd | 195 - dyadMLM-0.2.0/dyadMLM/inst/doc/dsm.html | 542 +-- dyadMLM-0.2.0/dyadMLM/inst/doc/getting-started.R | 41 dyadMLM-0.2.0/dyadMLM/inst/doc/getting-started.Rmd | 235 - dyadMLM-0.2.0/dyadMLM/inst/doc/getting-started.html | 1422 ++++----- dyadMLM-0.2.0/dyadMLM/man/add_actor_partner_columns.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/add_temporal_lag_columns.Rd | 7 dyadMLM-0.2.0/dyadMLM/man/center_predictors.Rd | 5 dyadMLM-0.2.0/dyadMLM/man/compare_nested_models.Rd |only dyadMLM-0.2.0/dyadMLM/man/dyadMLM-package.Rd |only dyadMLM-0.2.0/dyadMLM/man/dyad_generated_columns.Rd | 12 dyadMLM-0.2.0/dyadMLM/man/dyads_cross.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/dyads_ild.Rd | 10 dyadMLM-0.2.0/dyadMLM/man/dyads_nbinom_cross.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/dyads_nbinom_ild.Rd | 4 dyadMLM-0.2.0/dyadMLM/man/infer_dyad_compositions.Rd | 23 dyadMLM-0.2.0/dyadMLM/man/prepare_dyad_data.Rd | 66 dyadMLM-0.2.0/dyadMLM/man/print.exchangeable_covariance.Rd |only dyadMLM-0.2.0/dyadMLM/man/recover_exchangeable_covariance.Rd | 33 dyadMLM-0.2.0/dyadMLM/man/restore_observed_dyad_rows.Rd |only dyadMLM-0.2.0/dyadMLM/man/summary.dyadMLM_data.Rd |only dyadMLM-0.2.0/dyadMLM/man/temporarily_complete_dyad_occasions.Rd |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_actor_partner_columns.R | 70 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_dyad_individual_columns.R | 67 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_dyadic_score_columns.R | 123 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-add_temporal_lag_columns.R | 108 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-apim-gmc-predictors.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-assign_arbitrary_member_roles.R | 26 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-backtransform-residual-covariance.R | 259 + dyadMLM-0.2.0/dyadMLM/tests/testthat/test-center_predictors.R | 28 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-compare_nested_models.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-dsm-model-equivalence.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-dyad_generated_columns.R | 205 + dyadMLM-0.2.0/dyadMLM/tests/testthat/test-example-data.R | 21 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-infer_dyad_compositions.R | 205 - dyadMLM-0.2.0/dyadMLM/tests/testthat/test-prepare_dyad_data.R | 315 +- dyadMLM-0.2.0/dyadMLM/tests/testthat/test-print-dyadMLM_data.R | 257 + dyadMLM-0.2.0/dyadMLM/tests/testthat/test-public-api-cleanup.R | 132 dyadMLM-0.2.0/dyadMLM/tests/testthat/test-summary-dyadMLM_data.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-temporary_dyad_occasion_completion.R |only dyadMLM-0.2.0/dyadMLM/tests/testthat/test-validate_dyad_data.R | 73 dyadMLM-0.2.0/dyadMLM/vignettes/apim.Rmd | 508 +-- dyadMLM-0.2.0/dyadMLM/vignettes/diagram-helpers.Rinc | 144 dyadMLM-0.2.0/dyadMLM/vignettes/dim.Rmd | 160 - dyadMLM-0.2.0/dyadMLM/vignettes/dsm.Rmd | 195 - dyadMLM-0.2.0/dyadMLM/vignettes/getting-started.Rmd | 235 - dyadMLM-0.2.0/dyadMLM/vignettes/references.bib | 440 ++ 86 files changed, 6833 insertions(+), 4347 deletions(-)
Title: Dynamic and Interactive EEG Graphics
Description: Allows to visualize high-density electroencephalography (HD-EEG) data through interactive plots and animations, enabling exploratory and communicative analysis of temporal-spatial brain signals. Funder: Masaryk University (Grant No. MUNI/A/1457/2023).
Author: Zdeňka Gerslova [aut, cre] ,
Stanislav Katina [rev] ,
Martin Lamos [ctb]
Maintainer: Zdeňka Gerslova <gerslovaz@math.muni.cz>
Diff between diegr versions 0.2.0 dated 2026-01-24 and 0.3.1 dated 2026-08-21
diegr-0.2.0/diegr/tests/testthat/test-boxplots.R |only diegr-0.3.1/diegr/DESCRIPTION | 17 diegr-0.3.1/diegr/MD5 | 111 +- diegr-0.3.1/diegr/NAMESPACE | 19 diegr-0.3.1/diegr/NEWS.md | 24 diegr-0.3.1/diegr/R/animations.R | 335 ++++++-- diegr-0.3.1/diegr/R/baseline_correction.R | 62 + diegr-0.3.1/diegr/R/boxplots.R | 337 ++++++-- diegr-0.3.1/diegr/R/compute_mean.R | 114 ++ diegr-0.3.1/diegr/R/create_scale.R | 44 - diegr-0.3.1/diegr/R/data-HCGSN256.R | 4 diegr-0.3.1/diegr/R/data-biosemi128.R |only diegr-0.3.1/diegr/R/data-biosemi256.R |only diegr-0.3.1/diegr/R/data-system1005.R |only diegr-0.3.1/diegr/R/helper_functions.R | 117 ++ diegr-0.3.1/diegr/R/outliers_epoch.R | 58 + diegr-0.3.1/diegr/R/pick_functions.R | 42 - diegr-0.3.1/diegr/R/point_mesh.R | 186 +++- diegr-0.3.1/diegr/R/scalp_plot.R | 125 ++- diegr-0.3.1/diegr/R/summary_stats.R | 118 ++ diegr-0.3.1/diegr/R/surfaceplots.R |only diegr-0.3.1/diegr/R/timeplots.R | 73 + diegr-0.3.1/diegr/R/topoplots.R | 285 +++++-- diegr-0.3.1/diegr/README.md | 130 +-- diegr-0.3.1/diegr/build/partial.rdb |only diegr-0.3.1/diegr/data/biosemi128.rda |only diegr-0.3.1/diegr/data/biosemi256.rda |only diegr-0.3.1/diegr/data/system1005.rda |only diegr-0.3.1/diegr/inst/doc/diegr.R | 54 - diegr-0.3.1/diegr/inst/doc/diegr.Rmd | 195 +++- diegr-0.3.1/diegr/inst/doc/diegr.html | 569 +++++++------- diegr-0.3.1/diegr/man/HCGSN256.Rd | 4 diegr-0.3.1/diegr/man/animate_scalp.Rd | 21 diegr-0.3.1/diegr/man/animate_topo.Rd | 18 diegr-0.3.1/diegr/man/animate_topo_mean.Rd | 17 diegr-0.3.1/diegr/man/baseline_correction.Rd | 16 diegr-0.3.1/diegr/man/biosemi128.Rd |only diegr-0.3.1/diegr/man/biosemi256.Rd |only diegr-0.3.1/diegr/man/boxplot_epoch.Rd | 25 diegr-0.3.1/diegr/man/boxplot_rt.Rd | 17 diegr-0.3.1/diegr/man/boxplot_subject.Rd | 25 diegr-0.3.1/diegr/man/check_structure.Rd |only diegr-0.3.1/diegr/man/compute_mean.Rd | 10 diegr-0.3.1/diegr/man/create_scale.Rd | 23 diegr-0.3.1/diegr/man/figures/README-timemean-1.png |binary diegr-0.3.1/diegr/man/figures/README-topoplot-1.png |binary diegr-0.3.1/diegr/man/figures/logo.png |only diegr-0.3.1/diegr/man/interactive_surfaceplot.Rd |only diegr-0.3.1/diegr/man/interactive_surfaceplot_curves.Rd |only diegr-0.3.1/diegr/man/interactive_waveforms.Rd | 2 diegr-0.3.1/diegr/man/make_triangulation.Rd | 2 diegr-0.3.1/diegr/man/outliers_epoch.Rd | 10 diegr-0.3.1/diegr/man/pick_region.Rd | 8 diegr-0.3.1/diegr/man/plot_point_mesh.Rd | 34 diegr-0.3.1/diegr/man/plot_time_mean.Rd | 6 diegr-0.3.1/diegr/man/plot_topo_mean.Rd | 13 diegr-0.3.1/diegr/man/point_mesh.Rd | 26 diegr-0.3.1/diegr/man/scalp_plot.Rd | 19 diegr-0.3.1/diegr/man/system1005.Rd |only diegr-0.3.1/diegr/man/topo_plot.Rd | 14 diegr-0.3.1/diegr/tests/testthat/test-compute_mean.R | 71 + diegr-0.3.1/diegr/tests/testthat/test-interactive-plots.R |only diegr-0.3.1/diegr/tests/testthat/test-point_mesh.R | 19 diegr-0.3.1/diegr/tests/testthat/test-scalp_plot.R | 16 diegr-0.3.1/diegr/vignettes/diegr.Rmd | 195 +++- 65 files changed, 2657 insertions(+), 973 deletions(-)
Title: Toolkit for Analyzing Curricular Complexity
Description: Enables educational researchers and practitioners to calculate the curricular complexity of a plan of study, visualize its prerequisite structure at scale, and conduct customizable analyses. The original tool can be found at <https://curricularanalytics.org>. Additional functions to explore curriculum complexity from the literature are also included.
Author: David Reeping [aut, cre]
Maintainer: David Reeping <reepindp@ucmail.uc.edu>
Diff between CurricularComplexity versions 1.0.3 dated 2026-07-08 and 1.1.0 dated 2026-08-21
DESCRIPTION | 6 MD5 | 18 + NEWS.md | 31 +++ R/generate_curricular_complexity_scorecard.R |only R/topic_cruciality.R |only build/vignette.rds |binary inst/doc/CurricularComplexity-demo.R | 45 ++++ inst/doc/CurricularComplexity-demo.Rmd | 87 +++++++++ inst/doc/CurricularComplexity-demo.html | 229 ++++++++++++++++++------ man/generate_curricular_complexity_scorecard.Rd |only man/topic_cruciality.Rd |only vignettes/CurricularComplexity-demo.Rmd | 87 +++++++++ 12 files changed, 435 insertions(+), 68 deletions(-)
More information about CurricularComplexity at CRAN
Permanent link
Title: R Interface for the RAPIDS cuML Suite of Libraries
Description: R interface for RAPIDS cuML (<https://github.com/NVIDIA/cuml>),
a suite of GPU-accelerated machine learning libraries powered by CUDA
(<https://en.wikipedia.org/wiki/CUDA>).
Author: Yitao Li [aut, cph] ,
Tomasz Kalinowski [aut, cre, cph],
Daniel Falbel [aut, cph],
RStudio [cph, fnd]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between cuda.ml versions 0.3.3 dated 2026-04-29 and 0.4.0 dated 2026-08-21
cuda.ml-0.3.3/cuda.ml/R/cuML_log_levels.R |only cuda.ml-0.3.3/cuda.ml/R/cuml_utils.R |only cuda.ml-0.3.3/cuda.ml/R/fil.R |only cuda.ml-0.3.3/cuda.ml/R/rand_proj.R |only cuda.ml-0.3.3/cuda.ml/cleanup |only cuda.ml-0.3.3/cuda.ml/configure |only cuda.ml-0.3.3/cuda.ml/man/cuML_major_version.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuML_minor_version.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_can_predict_class_probabilities.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_fil_enabled.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_fil_load_model.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_inverse_transform.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_is_classifier.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_knn_algo_ivfflat.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_knn_algo_ivfpq.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_knn_algo_ivfsq.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_rand_proj.Rd |only cuda.ml-0.3.3/cuda.ml/man/cuda_ml_unserialize.Rd |only cuda.ml-0.3.3/cuda.ml/man/has_cuML.Rd |only cuda.ml-0.3.3/cuda.ml/man/predict.cuda_ml_fil.Rd |only cuda.ml-0.3.3/cuda.ml/man/predict.cuda_ml_rand_forest.Rd |only cuda.ml-0.3.3/cuda.ml/src |only cuda.ml-0.3.3/cuda.ml/tests/testthat/test-rand-proj-serde.R |only cuda.ml-0.3.3/cuda.ml/tests/testthat/test-tsne-serde.R |only cuda.ml-0.3.3/cuda.ml/tools/config/libcuml_versions.R |only cuda.ml-0.3.3/cuda.ml/tools/config/utils/cmake.R |only cuda.ml-0.3.3/cuda.ml/tools/config/utils/cuml.R |only cuda.ml-0.3.3/cuda.ml/tools/config/utils/logging.R |only cuda.ml-0.3.3/cuda.ml/tools/config/utils/nvcc.R |only cuda.ml-0.3.3/cuda.ml/tools/config/utils/platform.R |only cuda.ml-0.3.3/cuda.ml/tools/launch-rstudio |only cuda.ml-0.4.0/cuda.ml/DESCRIPTION | 33 cuda.ml-0.4.0/cuda.ml/MD5 | 454 +++-- cuda.ml-0.4.0/cuda.ml/NAMESPACE | 49 cuda.ml-0.4.0/cuda.ml/R/RcppExports.R | 216 +- cuda.ml-0.4.0/cuda.ml/R/agglomerative.R | 64 cuda.ml-0.4.0/cuda.ml/R/dbscan.R | 38 cuda.ml-0.4.0/cuda.ml/R/decision_tree.R | 23 cuda.ml-0.4.0/cuda.ml/R/elastic_net.R | 196 +- cuda.ml-0.4.0/cuda.ml/R/kmeans.R | 43 cuda.ml-0.4.0/cuda.ml/R/knn.R | 521 ++++-- cuda.ml-0.4.0/cuda.ml/R/lasso.R | 170 +- cuda.ml-0.4.0/cuda.ml/R/lm.R | 178 ++ cuda.ml-0.4.0/cuda.ml/R/logistic_reg.R | 651 +++++--- cuda.ml-0.4.0/cuda.ml/R/model.R | 515 ++++-- cuda.ml-0.4.0/cuda.ml/R/nvforest-native.R |only cuda.ml-0.4.0/cuda.ml/R/nvforest.R |only cuda.ml-0.4.0/cuda.ml/R/ols.R | 113 - cuda.ml-0.4.0/cuda.ml/R/package.R | 94 - cuda.ml-0.4.0/cuda.ml/R/pca.R | 52 cuda.ml-0.4.0/cuda.ml/R/rand_forest.R | 773 ++++------ cuda.ml-0.4.0/cuda.ml/R/ridge.R | 136 - cuda.ml-0.4.0/cuda.ml/R/runtime.R |only cuda.ml-0.4.0/cuda.ml/R/sgd.R | 220 +- cuda.ml-0.4.0/cuda.ml/R/source-bootstrap.R |only cuda.ml-0.4.0/cuda.ml/R/source.R |only cuda.ml-0.4.0/cuda.ml/R/svm.R | 404 +++-- cuda.ml-0.4.0/cuda.ml/R/tsne.R | 71 cuda.ml-0.4.0/cuda.ml/R/tsvd.R | 47 cuda.ml-0.4.0/cuda.ml/R/umap.R | 87 - cuda.ml-0.4.0/cuda.ml/build |only cuda.ml-0.4.0/cuda.ml/inst |only cuda.ml-0.4.0/cuda.ml/man/bundle.cuda_ml_model.Rd |only cuda.ml-0.4.0/cuda.ml/man/cuda.ml-package.Rd | 58 cuda.ml-0.4.0/cuda.ml/man/cuda_ml_agglomerative_clustering.Rd | 71 cuda.ml-0.4.0/cuda.ml/man/cuda_ml_backend_info.Rd |only cuda.ml-0.4.0/cuda.ml/man/cuda_ml_cache_clean.Rd |only cuda.ml-0.4.0/cuda.ml/man/cuda_ml_dbscan.Rd | 45 cuda.ml-0.4.0/cuda.ml/man/cuda_ml_elastic_net.Rd | 100 - cuda.ml-0.4.0/cuda.ml/man/cuda_ml_install.Rd |only cuda.ml-0.4.0/cuda.ml/man/cuda_ml_kmeans.Rd | 32 cuda.ml-0.4.0/cuda.ml/man/cuda_ml_knn.Rd | 163 +- cuda.ml-0.4.0/cuda.ml/man/cuda_ml_knn_algo.Rd |only cuda.ml-0.4.0/cuda.ml/man/cuda_ml_lasso.Rd | 88 - 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cuda.ml-0.4.0/cuda.ml/tests/testthat/test-forward-api.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-kmeans.R | 49 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-knn.R | 161 +- cuda.ml-0.4.0/cuda.ml/tests/testthat/test-lasso.R | 95 - cuda.ml-0.4.0/cuda.ml/tests/testthat/test-logistic-reg.R | 163 +- cuda.ml-0.4.0/cuda.ml/tests/testthat/test-model-state.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-nvforest-runtime.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-nvforest-state.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-nvforest.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-ols.R | 62 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-parsnip-linear.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-parsnip-registration.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-pca-serde.R | 34 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-pca.R | 97 + cuda.ml-0.4.0/cuda.ml/tests/testthat/test-rand-forest-serde.R | 83 - cuda.ml-0.4.0/cuda.ml/tests/testthat/test-rand-forest.R | 101 + cuda.ml-0.4.0/cuda.ml/tests/testthat/test-ridge.R | 86 - cuda.ml-0.4.0/cuda.ml/tests/testthat/test-runtime-functional.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-runtime-loader.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-sgd.R | 37 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-source-install.R |only cuda.ml-0.4.0/cuda.ml/tests/testthat/test-svm-serde.R | 38 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-svm.R | 113 - cuda.ml-0.4.0/cuda.ml/tests/testthat/test-tsne.R | 23 cuda.ml-0.4.0/cuda.ml/tests/testthat/test-tsvd.R | 110 + cuda.ml-0.4.0/cuda.ml/tests/testthat/test-umap.R | 14 cuda.ml-0.4.0/cuda.ml/tools/audit-backend.R |only cuda.ml-0.4.0/cuda.ml/tools/audit-nvforest-cpu-backend.R |only cuda.ml-0.4.0/cuda.ml/tools/config.R | 6 cuda.ml-0.4.0/cuda.ml/tools/config/Makefile.cmake.in |only cuda.ml-0.4.0/cuda.ml/tools/config/cleanup.R | 20 cuda.ml-0.4.0/cuda.ml/tools/config/configure.R | 302 ++- cuda.ml-0.4.0/cuda.ml/tools/config/utils/native-symbols.R |only cuda.ml-0.4.0/cuda.ml/tools/diff-api.R |only cuda.ml-0.4.0/cuda.ml/tools/merge-backend-lock.R |only cuda.ml-0.4.0/cuda.ml/tools/nvrtc-probe.c |only cuda.ml-0.4.0/cuda.ml/tools/package-backend.R |only cuda.ml-0.4.0/cuda.ml/tools/package-nvforest-cpu-backend.R |only cuda.ml-0.4.0/cuda.ml/vignettes |only 143 files changed, 5229 insertions(+), 3509 deletions(-)
Title: Statistical Tools for Ranks
Description: Account for uncertainty when working with ranks. Estimate
standard errors consistently in linear regression with ranked
variables. Construct confidence sets of various kinds for positions
of populations in a ranking based on values of a certain feature and
their estimation errors. Theory based on Mogstad, Romano, Shaikh, and
Wilhelm (2023)<doi:10.1093/restud/rdad006> and Chetverikov and Wilhelm
(2023) <doi:10.48550/arXiv.2310.15512>.
Author: Daniel Wilhelm [aut, cre],
Pawel Morgen [aut]
Maintainer: Daniel Wilhelm <d.wilhelm@lmu.de>
Diff between csranks versions 1.2.3 dated 2024-09-12 and 1.3.0 dated 2026-08-21
csranks-1.2.3/csranks/tests/testthat/testdata/generate_testdata.R |only csranks-1.3.0/csranks/DESCRIPTION | 36 csranks-1.3.0/csranks/MD5 | 144 ++- csranks-1.3.0/csranks/NAMESPACE | 16 csranks-1.3.0/csranks/NEWS.md | 7 csranks-1.3.0/csranks/R/argument_checks.R | 311 ++++-- csranks-1.3.0/csranks/R/data.R | 12 csranks-1.3.0/csranks/R/diffmeans.R | 91 +- csranks-1.3.0/csranks/R/formula_checks.R |only csranks-1.3.0/csranks/R/formula_parsing.R |only csranks-1.3.0/csranks/R/formula_processing.R |only csranks-1.3.0/csranks/R/ivregranks.R |only csranks-1.3.0/csranks/R/ivregranks_model_usage.R |only csranks-1.3.0/csranks/R/ivregranks_summary.R |only csranks-1.3.0/csranks/R/ivregranks_vcov.R |only csranks-1.3.0/csranks/R/lmranks.R | 383 +++----- csranks-1.3.0/csranks/R/lmranks_env.R |only csranks-1.3.0/csranks/R/lmranks_model_selection.R | 23 csranks-1.3.0/csranks/R/lmranks_model_usage.R | 20 csranks-1.3.0/csranks/R/lmranks_obs_influence.R | 32 csranks-1.3.0/csranks/R/lmranks_summary.R | 454 ++-------- csranks-1.3.0/csranks/R/plotranking.R | 41 csranks-1.3.0/csranks/R/rank_utils.R | 203 ++-- csranks-1.3.0/csranks/R/ranks.R | 113 +- csranks-1.3.0/csranks/R/ranks_multinom.R | 90 + csranks-1.3.0/csranks/R/utilityfunctions.R | 2 csranks-1.3.0/csranks/R/vcov_utils.R |only csranks-1.3.0/csranks/README.md | 1 csranks-1.3.0/csranks/build/partial.rdb |binary csranks-1.3.0/csranks/build/vignette.rds |binary csranks-1.3.0/csranks/inst/WORDLIST | 3 csranks-1.3.0/csranks/inst/doc/Inference-for-Ranks.R | 38 csranks-1.3.0/csranks/inst/doc/Inference-for-Ranks.html | 58 - csranks-1.3.0/csranks/inst/doc/Inference-for-Ranks.rmd | 40 csranks-1.3.0/csranks/inst/doc/Rank-Rank-Reg.R | 127 +- csranks-1.3.0/csranks/inst/doc/Rank-Rank-Reg.html | 347 +++---- csranks-1.3.0/csranks/inst/doc/Rank-Rank-Reg.rmd | 131 +- csranks-1.3.0/csranks/inst/vcov_edit.R |only csranks-1.3.0/csranks/man/csranks.Rd | 6 csranks-1.3.0/csranks/man/cstaubest.Rd | 10 csranks-1.3.0/csranks/man/irank.Rd | 35 csranks-1.3.0/csranks/man/irank_against.Rd | 24 csranks-1.3.0/csranks/man/ivregranks.Rd |only csranks-1.3.0/csranks/man/lmranks.Rd | 13 csranks-1.3.0/csranks/man/plotranking.Rd | 2 csranks-1.3.0/csranks/tests/setup.R | 4 csranks-1.3.0/csranks/tests/spelling.R | 9 csranks-1.3.0/csranks/tests/testthat/_problems |only csranks-1.3.0/csranks/tests/testthat/test_argument_checks.R | 260 +++-- csranks-1.3.0/csranks/tests/testthat/test_csranks_compare.R | 74 + csranks-1.3.0/csranks/tests/testthat/test_csranks_marg.R | 4 csranks-1.3.0/csranks/tests/testthat/test_csranks_multinom.R | 4 csranks-1.3.0/csranks/tests/testthat/test_diffmeans.R | 175 ++- csranks-1.3.0/csranks/tests/testthat/test_env.R |only csranks-1.3.0/csranks/tests/testthat/test_formula_processing.R |only csranks-1.3.0/csranks/tests/testthat/test_grouped_lmranks.R | 91 +- csranks-1.3.0/csranks/tests/testthat/test_grouped_lmranks_vcov.R | 322 +++---- csranks-1.3.0/csranks/tests/testthat/test_ivregranks.R |only csranks-1.3.0/csranks/tests/testthat/test_ivregranks_vcov.R |only csranks-1.3.0/csranks/tests/testthat/test_lmranks.R | 322 ++----- csranks-1.3.0/csranks/tests/testthat/test_lmranks_predict.R | 105 +- csranks-1.3.0/csranks/tests/testthat/test_lmranks_vcov.R | 392 +++----- csranks-1.3.0/csranks/tests/testthat/test_multinom_lowlevel.R | 254 +++-- csranks-1.3.0/csranks/tests/testthat/test_plotranking.R | 2 csranks-1.3.0/csranks/tests/testthat/test_rank_utils.R | 208 ++-- csranks-1.3.0/csranks/tests/testthat/test_utility_functions.R | 100 +- csranks-1.3.0/csranks/tests/testthat/test_vcov_utils.R |only csranks-1.3.0/csranks/tests/testthat/testdata/Markdown_vcov_sims.Rmd |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_ivregranks.R |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_ivregranks_empirical.R |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_lmranks.R |only csranks-1.3.0/csranks/tests/testthat/testdata/generate_testdata_weights.R |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_covariates_FALSE.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_covariates_TRUE.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_increasing_FALSE.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_n_10.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_n_100.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_n_50.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_cov_sigmahat_regressor_1.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/ivregranks_vcov_sims.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/lmranks_cov_sigmahat_weighted.rda |only csranks-1.3.0/csranks/tests/testthat/testdata/vcov_sims_code_extracted.R |only csranks-1.3.0/csranks/tests/testthat/testthat-problems.rds |binary csranks-1.3.0/csranks/vignettes/Inference-for-Ranks.rmd | 40 csranks-1.3.0/csranks/vignettes/Rank-Rank-Reg.rmd | 131 +- 85 files changed, 2746 insertions(+), 2564 deletions(-)
Title: Flexible Modeling of Count Data
Description: For Bayesian and classical inference and prediction with count-valued data,
Simultaneous Transformation and Rounding (STAR) Models provide a flexible, interpretable,
and easy-to-use approach. STAR models the observed count data using a rounded
continuous data model and incorporates a transformation for greater flexibility.
Implicitly, STAR formalizes the commonly-applied yet incoherent procedure of
(i) transforming count-valued data and subsequently
(ii) modeling the transformed data using Gaussian models.
STAR is well-defined for count-valued data, which is reflected in predictive accuracy,
and is designed to account for zero-inflation, bounded or censored data, and over- or underdispersion.
Importantly, STAR is easy to combine with existing MCMC or point estimation
methods for continuous data, which allows seamless adaptation of continuous data
models (such as linear regressions, additive models, BART, random forests,
and gradient boosting machines) for count-valued data. The package [...truncated...]
Author: Brian King [aut, cre],
Dan Kowal [aut]
Maintainer: Brian King <brianking387@gmail.com>
Diff between countSTAR versions 1.2.0 dated 2026-04-03 and 1.2.1 dated 2026-08-21
DESCRIPTION | 8 MD5 | 178 NAMESPACE | 104 NEWS.md | 44 R/RcppExports.R | 466 +- R/STAR_Bayesian.R | 3054 +++++++-------- R/STAR_frequentist.R | 3488 ++++++++--------- R/data.R | 30 R/helper_functions.R | 1617 ++++---- R/internal_functions.R | 8420 +++++++++++++++++++++---------------------- R/warpDLM.R | 486 +- README.md | 144 build/partial.rdb |binary build/vignette.rds |binary inst/doc/countSTAR.R | 256 - inst/doc/countSTAR.Rmd | 676 +-- inst/doc/countSTAR.html | 1813 ++++----- man/BrentMethod.Rd | 62 man/HPDregion.Rd | 58 man/a_j.Rd | 64 man/bam_star.Rd | 282 - man/bart_star.Rd | 384 - man/bart_star_ispline.Rd | 216 - man/blm_star.Rd | 290 - man/blm_star_exact.Rd | 164 man/blm_star_exact_bnp.Rd | 184 man/blm_star_gibbs_bnp.Rd | 204 - man/computeTimeRemaining.Rd | 48 man/confint.lmstar.Rd | 86 man/credBands.Rd | 48 man/ergMean.Rd | 56 man/expectation2_gRcpp.Rd | 60 man/expectation_gRcpp.Rd | 60 man/expectation_identity.Rd | 60 man/expectation_log.Rd | 60 man/expectation_sqrt.Rd | 60 man/g_bc.Rd | 70 man/g_cdf.Rd | 96 man/g_inv.Rd | 64 man/g_inv_approx.Rd | 76 man/g_inv_bc.Rd | 64 man/gbm_star.Rd | 278 - man/genEM_star.Rd | 281 - man/genMCMC_star.Rd | 306 - man/genMCMC_star_ispline.Rd | 222 - man/getEffSize.Rd | 58 man/init_bam_orthog.Rd | 84 man/init_bam_thin.Rd | 84 man/init_lm_gprior.Rd | 94 man/init_lm_hs.Rd | 86 man/init_lm_ridge.Rd | 78 man/init_params_mean.Rd | 56 man/interval_gRcpp.Rd | 64 man/invlogit.Rd | 36 man/lm_star.Rd | 214 - man/logLikePointRcpp.Rd | 58 man/logLikeRcpp.Rd | 58 man/logit.Rd | 36 man/plot_coef.Rd | 62 man/plot_fitted.Rd | 54 man/plot_pmf.Rd | 54 man/pmaxRcpp.Rd | 46 man/pminRcpp.Rd | 46 man/predict.lmstar.Rd | 134 man/pvals.Rd | 72 man/randomForest_star.Rd | 277 - man/rdir.Rd | 54 man/roaches.Rd | 58 man/round_floor.Rd | 62 man/rtruncnormRcpp.Rd | 64 man/sampleFastGaussian.Rd | 52 man/sample_bam_orthog.Rd | 128 man/sample_bam_thin.Rd | 128 man/sample_lm_gprior.Rd | 110 man/sample_lm_hs.Rd | 94 man/sample_lm_ridge.Rd | 90 man/sample_params_mean.Rd | 62 man/simBaS.Rd | 58 man/simulate_nb_friedman.Rd | 116 man/simulate_nb_lm.Rd | 128 man/splineBasis.Rd | 62 man/spline_star.Rd | 260 - man/spline_star_exact.Rd | 166 man/spline_star_gibbs_bnp.Rd | 196 - man/truncnorm_mom.Rd | 54 man/uni.slice.Rd | 72 man/update_struct.Rd | 52 man/warpDLM.Rd | 128 vignettes/countSTAR.Rmd | 676 +-- vignettes/refs.bib | 144 90 files changed, 14748 insertions(+), 14704 deletions(-)
Title: Inference of Gene Regulatory Networks
Description: We present 'corto' (Correlation Tool), a simple package to infer
gene regulatory networks and visualize master regulators from gene expression
data using DPI (Data Processing Inequality) and bootstrapping to recover edges.
An initial step is performed to calculate all significant
edges between a list of source nodes (centroids) and target genes.
Then all triplets containing two centroids and one target are tested
in a DPI step which removes edges. A bootstrapping process then calculates
the robustness of the network, eventually re-adding edges previously removed by DPI.
The algorithm has been optimized to run outside a computing cluster, using a fast correlation
implementation. The package finally provides functions to calculate network enrichment
analysis from RNA-Seq and ATAC-Seq signatures as described in the article by
Giorgi lab (2020) <doi:10.1093/bioinformatics/btaa223>.
Author: Federico M. Giorgi [aut, cre],
Daniele Mercatelli [ctb],
Gonzalo Lopez-Garcia [ctb],
Hugo Tovar [ctb],
Hualin Wang [ctb]
Maintainer: Federico M. Giorgi <federico.giorgi@gmail.com>
Diff between corto versions 1.2.4 dated 2023-12-06 and 1.3.1 dated 2026-08-21
DESCRIPTION | 21 +++-- MD5 | 35 ++++---- NAMESPACE | 25 +++--- NEWS.md |only R/corto.R | 175 ++++++++++++++++--------------------------- R/functions.R | 145 +++++++++++++++++++++++++++++++---- R/gsea.R | 30 +++---- R/mra.R | 100 +++++++++++++++++++----- build/vignette.rds |binary inst/doc/corto_vignette.R | 16 +-- inst/doc/corto_vignette.Rmd | 14 +-- inst/doc/corto_vignette.html | 18 ++-- man/filter_regulon.Rd |only man/getregulon.Rd |only man/mra.Rd | 5 - man/plot_gsea2.Rd | 3 man/scatter.Rd | 2 man/textrepel.Rd | 4 man/val2col.Rd | 2 vignettes/corto_vignette.Rmd | 14 +-- 20 files changed, 376 insertions(+), 233 deletions(-)
Title: Contrast Analyses for Factorial Designs
Description: Contrast analysis for factorial designs provides an
alternative to the traditional ANOVA approach, offering the distinct
advantage of testing targeted hypotheses. The foundation of this
package is primarily rooted in the works of Rosenthal, Rosnow, and
Rubin (2000, ISBN: 978-0521659802) as well as Sedlmeier and Renkewitz
(2018, ISBN: 978-3868943214).
Author: Johannes Titz [aut, cre],
Markus Burkhardt [aut],
Mirka Henninger [ctb],
Simone Malejka [ctb]
Maintainer: Johannes Titz <johannes.titz@gmail.com>
Diff between cofad versions 0.3.3 dated 2025-05-15 and 0.4.0 dated 2026-08-21
DESCRIPTION | 17 MD5 | 100 +- NAMESPACE | 7 NEWS.md | 66 + R/calc_contrast.R | 184 ++-- R/calc_contrast_aggregated.R | 26 R/cofad-package.R | 1 R/data.R | 48 + R/design_detection.R |only R/examples.R |only R/helper.R | 1135 +++++++++++++++++++++++++-- R/print_methods.R | 75 + R/run_app.R | 7 R/server.R | 994 +++++++++++++++++++---- R/summary_methods.R | 5 R/ui.R | 277 +++++- R/utils-pipe.R | 4 README.md | 985 +++++++++++++++-------- build/partial.rdb |binary data/rosenthal_tbl54.rda |only data/rosenthal_tbl68_mixed.rda |only inst/CITATION |only inst/extdata/citation.txt | 14 inst/extdata/cofad-copy.js |only inst/extdata/intro.html | 11 inst/shinylive |only man/calc_contrast.Rd | 18 man/calc_contrast_aggregated.Rd | 18 man/cofad-package.Rd | 2 man/detect_design.Rd |only man/figures |only man/lambda_diff.Rd | 31 man/pipe.Rd | 11 man/print.cofad_mx.Rd | 2 man/print.cofad_wi.Rd | 2 man/rosenthal_tbl54.Rd |only man/rosenthal_tbl68.Rd | 2 man/rosenthal_tbl68_mixed.Rd |only man/run_app.Rd | 4 man/sedlmeier_p525.Rd | 5 man/summary.cofad_wi.Rd | 2 man/testing_effect.Rd | 4 tests/testthat/test-citation-formats.R |only tests/testthat/test-competing-ui.R |only tests/testthat/test-copy-button-layout.R |only tests/testthat/test-copyable-output.R |only tests/testthat/test-coverage-additions.R |only tests/testthat/test-design-detection.R |only tests/testthat/test-example-datasets.R |only tests/testthat/test-example-presets.R |only tests/testthat/test-export-controls.R |only tests/testthat/test-gui.R | 11 tests/testthat/test-mixed-choice-tooltips.R |only tests/testthat/test-partial-eta.R |only tests/testthat/test-r-code-panel.R |only tests/testthat/test-server-in-process.R |only tests/testthat/test-server-manual-fallback.R |only tests/testthat/test-variance-display.R |only tests/testthat/test-within-r-scores.R |only tools |only 60 files changed, 3243 insertions(+), 825 deletions(-)
Title: Diagnostic Tools for Logistic and Conditional Logistic
Regression
Description: Provides tools for fitting, assessing, and comparing logistic
and conditional logistic regression models. Includes residual diagnostics
and goodness of fit measures for model development and evaluation in
matched case control studies.
Author: Brenda Contla Hernandez [aut, cre],
Matthieu Vignes [ctb] ,
Chris Compton [ctb]
Maintainer: Brenda Contla Hernandez <B.Hernandez@massey.ac.nz>
Diff between CLRtools versions 0.1.1 dated 2026-03-16 and 0.1.2 dated 2026-08-21
DESCRIPTION | 8 MD5 | 135 +-- NAMESPACE | 178 ++- NEWS.md | 17 R/CLRtools-package.R | 68 - R/DRtest.R | 196 ++-- R/check_coef_change.R | 222 ++-- R/check_coef_significant.R | 202 ++-- R/check_interactions.R | 240 ++--- R/coeff.OR.R | 220 ++-- R/compare_models_loo.R | 136 +-- R/confidence.interval.R | 134 +-- R/cov.patterns.R | 138 +-- R/cutpoints.R | 238 ++--- R/delta.coefficient.R | 122 +- R/diagnostic_bayes.R | 94 +- R/diagnosticplots_class.R | 190 ++-- R/discordant.pairs.R | 176 +-- R/glow11m.R | 50 - R/glow500.R | 48 - R/helpers_functions.R | 176 +-- R/osius_rojek.R | 202 ++-- R/r_measures.R | 224 ++--- R/rcv_measures.R | 214 ++-- R/residuals_clog.R | 370 ++++---- R/residuals_logistic.R | 362 ++++---- R/stukels_test.R | 156 +-- R/summarize_results.R | 190 ++-- R/univariable.clogmodels.R | 234 ++--- R/univariable.models.R | 200 ++-- README.md |only build/vignette.rds |binary inst/doc/Bayesian_Logistic_regression.R | 8 inst/doc/Bayesian_Logistic_regression.Rmd | 1159 ++++++++++++-------------- inst/doc/Bayesian_Logistic_regression.html | 106 +- inst/doc/Conditional_Logistic_Regression.Rmd | 342 +++---- inst/doc/Logistic_Regression.Rmd | 478 +++++----- inst/doc/Logistic_Regression.html | 2 man/CLRtools-package.Rd | 63 - man/DRtest.Rd | 122 +- man/check_coef_change.Rd | 112 +- man/check_coef_significant.Rd | 96 +- man/check_interactions.Rd | 106 +- man/coeff.OR.Rd | 124 +- man/compare_bayesm.Rd | 84 - man/compare_bayesm_by_predictor.Rd | 110 +- man/compare_models_loo.Rd | 62 - man/confidence.interval.Rd | 96 +- man/cov.patterns.Rd | 110 +- man/cutpoints.Rd | 126 +- man/delta.coefficient.Rd | 82 - man/diagnostic_bayes.Rd | 62 - man/diagnosticplots_class.Rd | 120 +- man/discordant.pairs.Rd | 72 - man/glow11m.Rd | 74 - man/glow500.Rd | 72 - man/logit_prob_plot.Rd | 92 +- man/osius_rojek.Rd | 124 +- man/r_measures.Rd | 108 +- man/rcv_measures.Rd | 114 +- man/residuals_clog.Rd | 150 +-- man/residuals_logistic.Rd | 158 +-- man/stukels_test.Rd | 100 +- man/summarize_results.Rd | 108 +- man/univariable.clogmodels.Rd | 138 +-- man/univariable.models.Rd | 102 +- vignettes/Bayesian_Logistic_regression.Rmd | 1159 ++++++++++++-------------- vignettes/Conditional_Logistic_Regression.Rmd | 342 +++---- vignettes/Logistic_Regression.Rmd | 478 +++++----- 69 files changed, 6062 insertions(+), 6039 deletions(-)
Title: Interpretable Civic-Accountable and Responsible Machine Learning
Description: A general-purpose framework for Interpretable Civic-Accountable
and Responsible Machine Learning (ICARM). Works with any clean tabular
data and automatically detects whether a task is binary classification,
multi-class classification, or regression from the target variable type.
Provides a single unified entry point civic_fit() alongside tidy interfaces
for global and local model explanations, group-level fairness auditing,
probability calibration, multi-model comparison, threshold analysis, and
reproducible audit trails. Designed to support the DataCitizen-Pro research
agenda at Ludwigsburg University of Education: developing data literacy,
statistical reasoning, and democratic judgment formation in civic and
political teacher education.
References: Biecek (2018) <doi:10.18637/jss.v085.i04>,
Kuhn (2008) <doi:10.18637/jss.v028.i05>,
Awe (2025) <https://github.com/Olawaleawe/civic.icarm>.
Author: Olushina Olawale Awe [aut, cre],
Ludwigsburg University of Education [fnd]
Maintainer: Olushina Olawale Awe <olawaleawe@gmail.com>
Diff between civic.icarm versions 0.3.0 dated 2026-06-22 and 0.4.0 dated 2026-08-21
DESCRIPTION | 9 MD5 | 42 - NAMESPACE | 63 - R/civic.icarm-package.R | 42 - R/civic_data_utils.R | 480 ++++++------- R/civic_explain.R | 388 +++++------ R/civic_fairness.R | 538 +++++++-------- R/civic_fit.R | 825 +++++++++++++---------- R/civic_scorecard.R | 800 +++++++++++----------- R/data.R | 176 ++--- R/plots.R | 1568 ++++++++++++++++++++++----------------------- R/predict.R | 142 ++-- R/utils_internal.R | 148 ++-- README.md | 262 +++---- build |only inst/WORDLIST | 18 man/civic_dashboard.Rd | 70 +- man/civic_explain_local.Rd | 50 - man/civic_fit.Rd | 2 man/civic_plots.Rd | 28 man/plot.civic_model.Rd |only man/predict.civic_model.Rd | 64 - tests/testthat/test-all.R | 438 ++++++------ 23 files changed, 3125 insertions(+), 3028 deletions(-)
Title: Access and Harmonize Childfree Demographic Data
Description: Reads demographic data from a variety of public data sources, extracting and harmonizing variables useful for the study of childfree individuals. The identification of childfree individuals and those with other family statuses uses Neal & Neal's (2024) "A Framework for Studying Adults who Neither have Nor Want Children" <doi:10.1177/10664807231198869>; A pre-print is available at <doi:10.31234/osf.io/fa89m>.
Author: Zachary Neal [aut, cre] ,
Jennifer Watling Neal [aut]
Maintainer: Zachary Neal <zpneal@msu.edu>
Diff between childfree versions 0.0.5 dated 2026-02-26 and 0.0.6 dated 2026-08-21
DESCRIPTION | 6 +- MD5 | 18 +++---- NEWS.md | 4 + R/nsfg.R | 118 +++++++++++++++++++++++++++++++++++++----------- R/soss.R | 55 +++++++++++++--------- inst/doc/childfree.R | 5 ++ inst/doc/childfree.Rmd | 6 ++ inst/doc/childfree.html | 26 ++++++++-- man/soss.Rd | 12 ++-- vignettes/childfree.Rmd | 6 ++ 10 files changed, 185 insertions(+), 71 deletions(-)
Title: Advanced Continuous Glucose Monitoring Analysis with
High-Performance C++ Backend
Description: Tools for advanced analysis of continuous glucose monitoring (CGM)
time-series, implementing GRID (Glucose Rate Increase Detector) and GRID-based
algorithms for postprandial peak detection, and detection of hypoglycemic and
hyperglycemic episodes (Levels 1/2/Extended) aligned with international consensus
CGM metrics. Core algorithms are implemented in optimized C++ using 'Rcpp' to
provide accurate and fast analysis on large datasets.
Author: Sang Ho Park [aut, cre],
Rosa Oh [aut, ctb],
Sang-Man Jin [aut, ctb]
Maintainer: Sang Ho Park <shstat1729@gmail.com>
Diff between cgmguru versions 1.2.0 dated 2026-07-08 and 1.3.0 dated 2026-08-21
cgmguru-1.2.0/cgmguru/LICENSE |only cgmguru-1.3.0/cgmguru/DESCRIPTION | 8 cgmguru-1.3.0/cgmguru/LICENSE.note |only cgmguru-1.3.0/cgmguru/MD5 | 66 +-- cgmguru-1.3.0/cgmguru/NAMESPACE | 1 cgmguru-1.3.0/cgmguru/NEWS.md | 29 + cgmguru-1.3.0/cgmguru/R/RcppExports.R | 4 cgmguru-1.3.0/cgmguru/R/cgmguru-functions-docs.R | 16 cgmguru-1.3.0/cgmguru/R/cgmguru-package.R | 12 cgmguru-1.3.0/cgmguru/R/interval_down.R |only cgmguru-1.3.0/cgmguru/inst/doc/detect_all_events.Rmd | 10 cgmguru-1.3.0/cgmguru/inst/doc/detect_all_events.html | 35 - cgmguru-1.3.0/cgmguru/inst/doc/examples.R | 7 cgmguru-1.3.0/cgmguru/inst/doc/examples.Rmd | 12 cgmguru-1.3.0/cgmguru/inst/doc/examples.html | 10 cgmguru-1.3.0/cgmguru/inst/doc/grid.html | 4 cgmguru-1.3.0/cgmguru/inst/doc/intro.Rmd | 4 cgmguru-1.3.0/cgmguru/inst/doc/intro.html | 4 cgmguru-1.3.0/cgmguru/man/cgmguru-package.Rd | 12 cgmguru-1.3.0/cgmguru/man/detect_all_events.Rd | 8 cgmguru-1.3.0/cgmguru/man/detect_hyperglycemic_events.Rd | 4 cgmguru-1.3.0/cgmguru/man/detect_hypoglycemic_events.Rd | 4 cgmguru-1.3.0/cgmguru/man/interval_down.Rd |only cgmguru-1.3.0/cgmguru/src/RcppExports.cpp | 13 cgmguru-1.3.0/cgmguru/src/detect_all_events.cpp | 109 +---- cgmguru-1.3.0/cgmguru/src/detect_hyperglycemic_events.cpp | 194 +--------- cgmguru-1.3.0/cgmguru/src/detect_hypoglycemic_events.cpp | 151 ++----- cgmguru-1.3.0/cgmguru/src/event_preprocessing.h | 123 ++++++ cgmguru-1.3.0/cgmguru/src/interpolate_cgm.cpp | 6 cgmguru-1.3.0/cgmguru/src/interval_down.cpp |only cgmguru-1.3.0/cgmguru/src/rebound_events.cpp | 7 cgmguru-1.3.0/cgmguru/src/variability_metrics.cpp | 6 cgmguru-1.3.0/cgmguru/tests/testthat/test-iglu-episode-parity.R | 61 +++ cgmguru-1.3.0/cgmguru/tests/testthat/test-interval_down.R |only cgmguru-1.3.0/cgmguru/vignettes/detect_all_events.Rmd | 10 cgmguru-1.3.0/cgmguru/vignettes/examples.Rmd | 12 cgmguru-1.3.0/cgmguru/vignettes/intro.Rmd | 4 37 files changed, 483 insertions(+), 463 deletions(-)
Title: Visualization Package for CanvasXpress in R
Description: Enables creation of visualizations using the CanvasXpress framework
in R. CanvasXpress is a standalone JavaScript library for reproducible research
with complete tracking of data and end-user modifications stored in a single
PNG image that can be played back. See <https://www.canvasxpress.org> for more
information.
Author: Isaac Neuhaus [aut],
Connie Brett [aut, cre]
Maintainer: Connie Brett <connie@aggregate-genius.com>
Diff between canvasXpress versions 1.59.5 dated 2026-01-14 and 1.65.2 dated 2026-08-21
DESCRIPTION | 8 MD5 | 50 NEWS.md | 5 R/ggplot_as_list.R | 1404 ++++- R/html_functionality.R | 211 README.md | 2 inst/README-known_issues.md | 2 inst/doc/additional_examples.html | 4 inst/doc/getting_started.Rmd | 2 inst/doc/getting_started.html | 10 inst/htmlwidgets/canvasXpress.yaml | 2 inst/htmlwidgets/lib/canvasXpress/canvasXpress.css | 4422 ++++++++++-------- inst/htmlwidgets/lib/canvasXpress/canvasXpress.min.js | 285 - inst/shiny-examples/example2/ui.R | 10 inst/shiny-examples/example3/ui.R | 7 inst/shiny-examples/example4/server.R | 11 inst/shiny-examples/example4/ui.R | 59 inst/ui-examples/cX-function.R.gz |binary tests/testthat/test-other-cxHtmlPage.R | 216 tests/testthat/test-other-ggplot_as_list.R | 981 +++ tests/testthat/test-ui-bar.R | 14 tests/testthat/test-ui-bullet.R | 4 tests/testthat/test-ui-meter.R | 44 tests/testthat/test-ui-pie.R | 4 tests/testthat/test-ui-scatter3D.R | 12 vignettes/getting_started.Rmd | 2 26 files changed, 5268 insertions(+), 2503 deletions(-)
Title: Fit Bounded Continuous Item Response Theory Models to Data
Description: Bounded continuous data are encountered in many areas of test application.
Examples include visual analogue scales used in the measurement of personality, mood,
depression, and quality of life; item response times from tests with item deadlines;
confidence ratings; and pain intensity ratings. Using this package, item response theory (IRT)
models suitable for bounded continuous item scores can be fitted to data within a Bayesian framework.
The package draws on posterior sampling facilities provided by R-package 'rstan' (Stan Development Team, 2025)<https://mc-stan.org/>.
Available models include the Beta IRT model by Noel and Dauvier (2007)<doi:10.1177/0146621605287691>, the continuous response
model by Samejima (1973)<doi:10.1007/BF03372160>, the unbounded normal model by Mellenbergh (1994)<doi:10.1207/s15327906mbr2903_2>,
and the Simplex IRT model by Flores et al. (2020)<doi:10.1007/978-3-030-43469-4_8>. All models can be
fitted with or without zero-one i [...truncated...]
Author: Dylan Molenaar [aut, cre]
Maintainer: Dylan Molenaar <d.molenaar@uva.nl>
Diff between BoundIRT versions 0.5.0 dated 2026-05-05 and 0.6.0 dated 2026-08-21
BoundIRT-0.5.0/BoundIRT/data/female.rda |only BoundIRT-0.5.0/BoundIRT/man/Abasement.Rd |only BoundIRT-0.5.0/BoundIRT/man/out_beta.Rd |only BoundIRT-0.6.0/BoundIRT/DESCRIPTION | 6 BoundIRT-0.6.0/BoundIRT/MD5 | 11 - BoundIRT-0.6.0/BoundIRT/R/latregBIRT.R | 293 +++++++++++++++++++++++------- BoundIRT-0.6.0/BoundIRT/data/ACL.rda |only BoundIRT-0.6.0/BoundIRT/man/ACL.Rd |only BoundIRT-0.6.0/BoundIRT/man/latregBIRT.Rd | 197 ++++++++++++-------- 9 files changed, 353 insertions(+), 154 deletions(-)
Title: Binscatter Estimation and Inference
Description: Provides tools for statistical analysis using the binscatter methods developed by Cattaneo, Crump, Farrell and Feng (2024) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2024_AER.pdf>, Cattaneo, Crump, Farrell and Feng (2025) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2025_Stata.pdf> and Cattaneo, Crump, Farrell and Feng (2026) <https://nppackages.github.io/references/Cattaneo-Crump-Farrell-Feng_2026_RESTAT.pdf>. Binscatter provides a flexible way of describing the relationship between two variables based on partitioning/binning of the independent variable of interest. binsreg(), binsqreg() and binsglm() implement binscatter least squares regression, quantile regression and generalized linear regression respectively, with particular focus on constructing binned scatter plots. They also implement robust (pointwise and uniform) inference of regression functions and derivatives thereof. binstest() implements hypothesis test [...truncated...]
Author: Matias D. Cattaneo [aut, cre],
Richard K. Crump [aut],
Max H. Farrell [aut],
Yingjie Feng [aut]
Maintainer: Matias D. Cattaneo <matias.d.cattaneo@gmail.com>
Diff between binsreg versions 2.1 dated 2026-05-22 and 2.2 dated 2026-08-21
DESCRIPTION | 8 ++++---- MD5 | 6 ++++-- R/binstest.R | 12 +++++++++++- tests/testthat |only tests/testthat.R |only 5 files changed, 19 insertions(+), 7 deletions(-)
Title: Bayesian Quantile Regression Models for Complex Survey Data
Analysis
Description: Provides Bayesian quantile regression models for complex survey data
under informative sampling using survey-weighted estimators. Both single- and
multiple-output models are supported. To accelerate computation, all algorithms
are implemented in 'C++' using 'Rcpp', 'RcppArmadillo', and 'RcppEigen', and
are called from 'R'. See Nascimento and Gonçalves (2024) <doi:10.1093/jssam/smae015>
and Nascimento and Gonçalves (2026) <doi:10.1093/jssam/smaf040>.
Author: Tomas Rodriguez Taborda [aut, cre],
Johnatan Cardona Jimenez [aut],
Marcus L. Nascimento [aut],
Kelly Cristina Mota Goncalves [aut]
Maintainer: Tomas Rodriguez Taborda <torodriguezt@unal.edu.co>
Diff between bayesQRsurvey versions 0.3.0 dated 2026-07-07 and 0.3.1 dated 2026-08-21
DESCRIPTION | 9 - MD5 | 27 ++- NAMESPACE | 1 R/bqr.svy.R | 20 +- R/mo.bqr.svy.R | 2 R/plot_quantile.R | 312 +++++++++++++++++++++++++++------------------- R/plot_quantile_region.R | 184 +++++++++++---------------- R/summary_bqr_svy.R | 81 ++++++++++- build/vignette.rds |only data/Anthro.rda |binary inst/doc |only man/figures |only man/plot.bqr.svy.Rd | 35 +++-- man/plotQuantileRegion.Rd | 26 ++- vignettes |only 15 files changed, 417 insertions(+), 280 deletions(-)
Title: Automated Functions for Basic Statistical Tests
Description: Provides simple and intuitive functions for basic statistical analyses.
Methods include the t-test (Student 1908 <doi:10.1093/biomet/6.1.1>),
the Mann-Whitney U test (Mann and Whitney 1947 <doi:10.1214/aoms/1177730491>),
Pearson's correlation (Pearson 1895 <doi:10.1098/rspl.1895.0041>),
and analysis of variance (Fisher 1925, <doi:10.1007/978-1-4612-4380-9_5>).
Functions are compatible with 'ggplot2' and 'dplyr'.
Author: Luiz Garcia [aut, cre]
Maintainer: Luiz Garcia <luiz.cardoso@ufpr.br>
Diff between autotestR versions 1.2.15 dated 2026-04-28 and 1.2.16 dated 2026-08-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/utils_stats.R | 2 +- R/zzz.R | 14 ++++++++++++-- README.md | 8 +++++--- 5 files changed, 25 insertions(+), 13 deletions(-)
Title: Estimate Sleep from 'Accelerometry' Data
Description: Interfaces the 'asleep' python
module <https://github.com/OxWearables/asleep> from
Yuan (2024) <doi:10.1038/s41746-024-01148-y> to estimate
sleep from 'accelerometry' data.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between asleep versions 0.1.0 dated 2026-08-04 and 0.3.0 dated 2026-08-21
asleep-0.1.0/asleep/R/utils-pipe.R |only asleep-0.1.0/asleep/man/pipe.Rd |only asleep-0.3.0/asleep/DESCRIPTION | 13 asleep-0.3.0/asleep/MD5 | 25 - asleep-0.3.0/asleep/NAMESPACE | 4 asleep-0.3.0/asleep/NEWS.md | 10 asleep-0.3.0/asleep/R/asleep.R | 116 +++--- asleep-0.3.0/asleep/R/py_asleep.R |only asleep-0.3.0/asleep/R/py_require_asleep.R |only asleep-0.3.0/asleep/R/sl_load_model.R | 21 - asleep-0.3.0/asleep/R/zzz.R | 10 asleep-0.3.0/asleep/man/asleep.Rd | 101 +++-- asleep-0.3.0/asleep/man/py_require_asleep.Rd |only asleep-0.3.0/asleep/tests/testthat/test-asleep.R | 192 +++++++++- asleep-0.3.0/asleep/tests/testthat/test-model-and-read.R | 29 + asleep-0.3.0/asleep/tests/testthat/test-reticulate-wrappers.R | 25 + 16 files changed, 426 insertions(+), 120 deletions(-)