Title: 'VigiBase' Pharmacovigilance Database Toolbox
Description: Perform the analysis of the World Health Organization
(WHO) Pharmacovigilance database 'VigiBase' (Extract Case Level version),
<https://who-umc.org/>
e.g., load data, perform data management,
disproportionality analysis, and descriptive statistics. Intended for
pharmacovigilance routine use or studies.
This package is NOT supported nor reflect the opinion of the WHO, or the
Uppsala Monitoring Centre.
Disproportionality methods are described by Norén et
al (2013) <doi:10.1177/0962280211403604>.
Author: Charles Dolladille [aut, cre] ,
Basile Chretien [aut] ,
Universite de Caen Normandie [cph] ,
Unite de pharmaco-epidemiologie [cph]
Maintainer: Charles Dolladille <cdolladille@hotmail.com>
Diff between vigicaen versions 2.0.0 dated 2026-06-24 and 2.1.0 dated 2026-09-14
DESCRIPTION | 6 MD5 | 87 +-- NAMESPACE | 4 NEWS.md | 915 ++++++++++++++++---------------- R/add_outcomes.R |only R/check_data_type.R | 48 + R/get_atc_code.R | 125 +++- R/get_drecno.R | 12 R/get_llt_smq.R | 47 + R/get_llt_soc.R | 22 R/screen_adr.R | 22 R/screen_drug.R | 4 R/tb_meddra.R | 2 R/tb_vigibase.R | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/basic_workflow.R | 30 - inst/doc/basic_workflow.Rmd | 33 - inst/doc/basic_workflow.html | 205 +++---- inst/doc/descriptive.R | 28 inst/doc/descriptive.Rmd | 28 inst/doc/descriptive.html | 75 +- inst/doc/routine_pharmacovigilance.html | 30 - inst/doc/template_main.R | 28 inst/doc/template_main.Rmd | 28 inst/doc/template_main.html | 168 ++--- man/add_outcomes.Rd |only man/get_atc_code.Rd | 4 man/get_llt_smq.Rd | 3 man/screen_adr.Rd | 19 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/add_dose.md | 208 +++---- tests/testthat/_snaps/add_outcomes.md |only tests/testthat/_snaps/check_id_list.md | 432 +++++++-------- tests/testthat/_snaps/get_atc_code.md |only tests/testthat/_snaps/get_drecno.md | 90 +-- tests/testthat/_snaps/get_llt_smq.md | 59 +- tests/testthat/_snaps/get_llt_soc.md | 32 - tests/testthat/_snaps/tb_meddra.md | 4 tests/testthat/_snaps/tb_vigibase.md | 44 + tests/testthat/test-add_outcomes.R |only tests/testthat/test-get_atc_code.R | 167 +++-- tests/testthat/test-get_llt_smq.R | 790 ++++++++++++++------------- tests/testthat/test-get_llt_soc.R | 11 vignettes/basic_workflow.Rmd | 33 - vignettes/descriptive.Rmd | 28 vignettes/template_main.Rmd | 28 47 files changed, 2080 insertions(+), 1827 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 2.0-41 dated 2026-08-21 and 2.0-42 dated 2026-09-14
SuperLearner-2.0-41/SuperLearner/build |only SuperLearner-2.0-41/SuperLearner/inst/doc |only SuperLearner-2.0-41/SuperLearner/vignettes |only SuperLearner-2.0-42/SuperLearner/DESCRIPTION | 11 ++-- SuperLearner-2.0-42/SuperLearner/MD5 | 47 ++++++++----------- SuperLearner-2.0-42/SuperLearner/R/SL.biglasso.R | 21 -------- SuperLearner-2.0-42/SuperLearner/R/SL.glm.R | 21 -------- SuperLearner-2.0-42/SuperLearner/R/SL.glmnet.R | 20 -------- SuperLearner-2.0-42/SuperLearner/R/SL.kernelKnn.R | 22 -------- SuperLearner-2.0-42/SuperLearner/R/SL.ksvm.R | 18 ------- SuperLearner-2.0-42/SuperLearner/R/SL.lda.R | 24 --------- SuperLearner-2.0-42/SuperLearner/R/SL.lm.R | 19 ------- SuperLearner-2.0-42/SuperLearner/R/SL.qda.R | 23 --------- SuperLearner-2.0-42/SuperLearner/R/SL.ranger.R | 20 -------- SuperLearner-2.0-42/SuperLearner/inst/NEWS | 7 ++ SuperLearner-2.0-42/SuperLearner/man/SL.biglasso.Rd | 22 -------- SuperLearner-2.0-42/SuperLearner/man/SL.glm.Rd | 21 -------- SuperLearner-2.0-42/SuperLearner/man/SL.glmnet.Rd | 22 -------- SuperLearner-2.0-42/SuperLearner/man/SL.kernelKnn.Rd | 22 -------- SuperLearner-2.0-42/SuperLearner/man/SL.ksvm.Rd | 19 ------- SuperLearner-2.0-42/SuperLearner/man/SL.lda.Rd | 24 --------- SuperLearner-2.0-42/SuperLearner/man/SL.lm.Rd | 19 ------- SuperLearner-2.0-42/SuperLearner/man/SL.qda.Rd | 23 --------- SuperLearner-2.0-42/SuperLearner/man/SL.ranger.Rd | 20 -------- 24 files changed, 42 insertions(+), 403 deletions(-)
Title: Generates and Samples Realistic Terrestrial Atmospheres
Description: Generates physically based sky environment maps and radiance
samples using the spectral Hosek-Wilkie and Prague atmosphere models.
Functions write high-dynamic-range 'OpenEXR' domes in latitude-longitude
projections, compute per-direction RGB or 55-channel values, and optionally
composite time-accurate star fields and moon phases. Features include
automatic sun and moon positioning from date, time and location, support for
sea-level and high-altitude observers, wide-spectrum coefficients, and
multithreaded C++ acceleration for fast, high-resolution output. For model
details, see Hosek and Wilkie (2012)
<doi:10.1145/2185520.2185591>, Hosek and Wilkie (2013)
<doi:10.1109/MCG.2013.18>, Wilkie et al. (2021)
<doi:10.1145/3450626.3459758>, and Vevoda et al. (2022)
<doi:10.1111/cgf.14677>.
Author: Tyler Morgan-Wall [aut, cre, cph],
Petr Vevoda [ctb],
Charles University [cph],
Eric Bruneton [ctb, cph],
Lukas Hosek [ctb, cph],
Alexander Wilkie [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between skymodelr versions 0.3.2 dated 2026-06-27 and 0.6.4 dated 2026-09-14
DESCRIPTION | 13 - MD5 | 81 +++++-- NAMESPACE | 3 NEWS.md | 31 ++ R/RcppExports.R | 4 R/celestial_disk.R |only R/exr_metadata.R |only R/generate_moon_image_latlong.R | 24 +- R/generate_sky.R | 180 +++++++++++++++-- R/get_prague_sky_metadata.R |only R/moon.R | 139 ++++--------- R/planets.R | 2 R/prague_rgb_correction.R |only R/radiometry.R | 152 +++++++------- R/stars.R | 2 R/stars_radiometry.R | 185 +++++++++-------- R/utils_precision.R | 4 inst/doc |only inst/include |only man/apply_prague_rgb_gain.Rd |only man/as_sky_image.Rd |only man/calculate_sky_values.Rd | 17 + man/filter_supported_exr_metadata.Rd |only man/generate_moon_latlong.Rd | 13 + man/generate_sky.Rd | 51 ++++ man/generate_sky_latlong.Rd | 26 ++ man/generate_sun_disk.Rd |only man/get_prague_sky_metadata.Rd |only man/get_skymodelr_adopted_white.Rd |only man/normalize_prague_rgb_correction.Rd |only man/prepare_prague_rgb_gain.Rd |only man/sky_exr_metadata.Rd |only man/tag_generated_sky_exr_metadata.Rd |only man/tag_skymodelr_exr_metadata.Rd |only man/validate_prague_rgb_gain.Rd |only man/write_sky_image.Rd |only man/xy_to_xyz_y1.Rd |only src/Makevars.in | 4 src/Makevars.win.in | 2 src/PragueSkyModel/PragueSkyModel.cpp | 280 ++++++++++++++++++++++++--- src/PragueSkyModel/PragueSkyModel.h | 39 +++ src/RcppExports.cpp | 11 - src/makesky.cpp | 5 src/prague_api.cpp |only tests/testthat/prague-api-client.cpp |only tests/testthat/test-calculate-sky-radiance.R | 51 ++-- tests/testthat/test-celestial-disk.R |only tests/testthat/test-exr-metadata.R |only tests/testthat/test-moon-horizon.R |only tests/testthat/test-prague-metadata.R |only tests/testthat/test-prague-native-api.R |only tests/testthat/test-prague-rgb-correction.R |only tests/testthat/test-stars-radiometric.R | 98 ++++----- tools/config.R | 277 ++++++++++++++------------ tools/config/configure.R | 143 ++++++++++--- 55 files changed, 1241 insertions(+), 596 deletions(-)
Title: Moment Condition Based Estimation of Linear Dynamic Panel Data
Models
Description: Linear dynamic panel data modeling based on linear and
nonlinear moment conditions as proposed by
Holtz-Eakin, Newey, and Rosen (1988) <doi:10.2307/1913103>,
Ahn and Schmidt (1995) <doi:10.1016/0304-4076(94)01641-C>,
and Arellano and Bover (1995) <doi:10.1016/0304-4076(94)01642-D>.
Estimation of the model parameters relies on the Generalized
Method of Moments (GMM) and instrumental variables (IV) estimation,
numerical optimization (when nonlinear moment conditions are
employed) and the computation of closed form solutions (when
estimation is based on linear moment conditions). One-step,
two-step and iterated estimation is available. For inference
and specification
testing, Windmeijer (2005) <doi:10.1016/j.jeconom.2004.02.005>
and doubly corrected standard errors
(Hwang, Kang, Lee, 2021 <doi:10.1016/j.jeconom.2020.09.010>)
are available. Additionally, serial correlation tests, tests for
overidentification, and Wald tests are provided. Functions for
visualiz [...truncated...]
Author: Markus Fritsch [aut, cre],
Joachim Schnurbus [aut],
Andrew Adrian Yu Pua [aut]
Maintainer: Markus Fritsch <Markus.Fritsch@uni-Passau.de>
Diff between pdynmc versions 0.9.12 dated 2025-02-20 and 0.9.13 dated 2026-09-14
pdynmc-0.9.12/pdynmc/inst/doc/pdynmc-introLong.pdf |only pdynmc-0.9.12/pdynmc/inst/doc/pdynmc-introLong.pdf.asis |only pdynmc-0.9.12/pdynmc/man/NLIV.alt.Rd |only pdynmc-0.9.12/pdynmc/vignettes/pdynmc-introLong.pdf.asis |only pdynmc-0.9.13/pdynmc/DESCRIPTION | 12 pdynmc-0.9.13/pdynmc/MD5 | 42 - pdynmc-0.9.13/pdynmc/NAMESPACE | 166 +++--- pdynmc-0.9.13/pdynmc/NEWS.md | 27 pdynmc-0.9.13/pdynmc/R/pdynmc_NLIV.R | 330 +++++++++--- pdynmc-0.9.13/pdynmc/R/pdynmc_estFct.R | 10 pdynmc-0.9.13/pdynmc/R/pdynmc_fitMethods.R | 2 pdynmc-0.9.13/pdynmc/R/pdynmc_furtherHelperFcts.R | 147 +++++ pdynmc-0.9.13/pdynmc/README.md | 2 pdynmc-0.9.13/pdynmc/build/partial.rdb |binary pdynmc-0.9.13/pdynmc/build/vignette.rds |binary pdynmc-0.9.13/pdynmc/inst/CITATION | 8 pdynmc-0.9.13/pdynmc/inst/REFERENCES.bib | 21 pdynmc-0.9.13/pdynmc/inst/doc/pdynmc-intro.pdf |binary pdynmc-0.9.13/pdynmc/inst/doc/pdynmc-pres-in-a-nutshell.pdf |binary pdynmc-0.9.13/pdynmc/man/AH81.Rd |only pdynmc-0.9.13/pdynmc/man/NLIV.Rd | 13 pdynmc-0.9.13/pdynmc/man/NLIV_t.Rd |only pdynmc-0.9.13/pdynmc/man/pdynmc.Rd | 8 pdynmc-0.9.13/pdynmc/man/vcov.pdynmc.Rd | 2 pdynmc-0.9.13/pdynmc/vignettes/REFERENCES.bib | 6 25 files changed, 599 insertions(+), 197 deletions(-)
Title: Bindings to 'OpenCV' Computer Vision Library
Description: Exposes some of the available 'OpenCV' <https://opencv.org/> algorithms,
such as a QR code scanner, and edge, body or face detection. These can either be
applied to analyze static images, or to filter live video footage from a camera device.
Author: Jeroen Ooms [aut, cre] ,
Jan Wijffels [aut]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between opencv versions 0.5.2 dated 2026-02-21 and 0.6.0 dated 2026-09-14
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NEWS | 4 ++++ R/init.R | 2 +- R/xmldata.R | 2 +- configure | 20 ++++---------------- src/areas.cpp | 5 ----- src/effects.cpp | 8 -------- src/face.cpp | 8 -------- src/features.cpp | 7 +------ src/opencv_types.h | 16 +++++++--------- src/qrdetect.cpp | 4 ---- 12 files changed, 33 insertions(+), 73 deletions(-)
Title: Estimate Location-Scale Joint Models
Description: Estimation of mixed models including a subject-specific variance
that can be time- and covariate-dependent or defined for within- and
between-visit variability. In the joint modeling framework, the package
handles left truncation, interval censoring, and multistate models, and
allows a flexible dependence structure between competing events and the
longitudinal marker. Estimation is performed in a frequentist framework
using the Marquardt-Levenberg algorithm. Methods are described in
Courcoul et al. (2025) <doi:10.1002/sim.70244> and in Courcoul et al. (2026)
<doi:10.1002/bimj.70123>.
Author: Leonie Courcoul [aut, cre],
Antoine Barbieri [aut],
Helene Jacqmin-Gadda [aut]
Maintainer: Leonie Courcoul <courcoul.leonie498@gmail.com>
Diff between LSJM versions 0.1.0 dated 2026-08-04 and 0.1.1 dated 2026-09-14
DESCRIPTION | 6 ++-- MD5 | 46 ++++++++++++++++++------------------ NEWS.md | 7 ++++- R/dynpred.R | 4 ++- R/lsjm.R | 4 +-- R/plot.R | 2 - R/predict.R | 4 +-- R/ranef.R | 4 +-- R/surv_marg.R | 30 ++++++++++++++--------- R/surv_marg.lsjm_classicCR.R | 14 ++++++---- R/surv_marg.lsjm_classicIDM.R | 13 +++++----- R/surv_marg.lsjm_classicSingle.R | 8 +++--- R/surv_marg.lsjm_covDepCR.R | 14 ++++++---- R/surv_marg.lsjm_covDepIDM.R | 14 ++++++---- R/surv_marg.lsjm_covDepSingle.R | 9 +++---- R/surv_marg.lsjm_interintraCR.R | 14 ++++++---- R/surv_marg.lsjm_interintraIDM.R | 15 ++++++----- R/surv_marg.lsjm_interintraSingle.R | 7 +++-- man/dynpred.Rd | 4 ++- man/lsjm.Rd | 4 +-- man/plot.lsjm.Rd | 2 - man/predict.lsjm.Rd | 4 +-- man/ranef.Rd | 4 +-- man/survmarg.Rd | 30 ++++++++++++++--------- 24 files changed, 148 insertions(+), 115 deletions(-)
Title: Maps, Data and Methods Related to Guerry (1833) "Moral
Statistics of France"
Description: Contains maps of France in 1830 and multivariate datasets from A.-M. Guerry and others. Statistical and
graphic methods related to Guerry's "Moral Statistics of France" are used to understand Guerry's data and
illustrate methods. The goal is to facilitate the exploration and
development of statistical and graphic methods for multivariate data in a geospatial context of historical interest.
Author: Michael Friendly [aut, cre] ,
Stephane Dray [aut] ,
Roger Bivand [ctb],
Kathryn DuBois [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between Guerry versions 1.8.3 dated 2023-10-24 and 1.8.5 dated 2026-09-14
DESCRIPTION | 35 +- MD5 | 72 +++-- NAMESPACE | 6 NEWS.md | 36 ++ R |only build/partial.rdb |binary build/vignette.rds |binary data/Guerry.RData |binary data/Guerry_ranks.RData |only data/gfrance.RData |binary data/gfrance85.RData |binary inst/WORDLIST | 25 ++ inst/doc/MultiSpat.R | 60 +++- inst/doc/MultiSpat.Rmd | 68 ++++- inst/doc/MultiSpat.html | 227 ++++++++++-------- inst/doc/guerry-multivariate.R | 48 ++- inst/doc/guerry-multivariate.Rmd | 39 ++- inst/doc/guerry-multivariate.html | 365 ++++++++++++++++-------------- inst/doc/guerry-sf-maps.R |only inst/doc/guerry-sf-maps.Rmd |only inst/doc/guerry-sf-maps.html |only man/Angeville.Rd | 211 ++++++++--------- man/Guerry-package.Rd | 194 ++++++++------- man/Guerry.Rd | 304 +++++++++++++----------- man/Guerry_ranks.Rd |only man/figures/Guerry-logo.png |binary man/figures/Guerry1833-instruction.jpg |only man/figures/README-ex-bivar1-1.png |binary man/figures/README-ex-bivar2-1.png |binary man/figures/README-gfrance85-labels-1.png |binary man/figures/corrgram-renderings.png |only man/figures/logo.png |only man/gfrance.Rd | 165 ++++++------- man/gfrance85.Rd | 136 +++++------ man/propensity.Rd | 79 +++--- vignettes/MultiSpat.Rmd | 68 ++++- vignettes/guerry-multivariate.Rmd | 39 ++- vignettes/guerry-sf-maps.Rmd |only vignettes/refs.bib | 23 + 39 files changed, 1292 insertions(+), 908 deletions(-)
Title: Tests for Same-Source of Toolmarks
Description: Implements two tests for same-source of toolmarks. The chumbley_non_random() test follows the paper "An Improved Version of a Tool Mark Comparison Algorithm" by Hadler and Morris (2017) <doi:10.1111/1556-4029.13640>. This is an extension of the Chumbley score as previously described in "Validation of Tool Mark Comparisons Obtained Using a Quantitative, Comparative, Statistical Algorithm" by Chumbley et al (2010) <doi:10.1111/j.1556-4029.2010.01424.x>. fixed_width_no_modeling() is based on correlation measures in a diamond shaped area of the toolmark as described in Hadler (2017).
Author: Jeremy Hadler [aut, cre],
Max Morris [ths],
Heike Hofmann [ctb]
Maintainer: Jeremy Hadler <hadler13@yahoo.com>
Diff between toolmaRk versions 0.0.1 dated 2018-01-16 and 0.0.2 dated 2026-09-14
DESCRIPTION | 12 - MD5 | 12 - R/chumbley-non-random.R | 316 ++++++++++++++-------------- R/data.R | 64 ++--- R/distance-threshold.R | 456 ++++++++++++++++++++--------------------- man/chumbley_non_random.Rd | 10 man/fixed_width_no_modeling.Rd | 30 +- 7 files changed, 451 insertions(+), 449 deletions(-)
Title: Truncated Harmonic Mean Estimator of the Marginal Likelihood for
Mixtures
Description: Implements the truncated harmonic mean estimator (THAMES)
of the reciprocal marginal likelihood for uni- and multivariate mixture
models using posterior samples and unnormalized log posterior values via
reciprocal importance sampling.
Metodiev, Irons, Perrot-Dockès, Latouche & Raftery (2025)
<doi:10.48550/arXiv.2504.21812>.
Author: Martin Metodiev [aut, cre, cph] ,
Nicholas J. Irons [aut] ,
Marie Perrot-Dockes [aut]
Maintainer: Martin Metodiev <m.metodiev@tutanota.com>
Diff between thamesmix versions 0.1.3 dated 2025-07-14 and 0.1.4 dated 2026-09-14
thamesmix-0.1.3/thamesmix/R/unformly_functions.R |only thamesmix-0.1.4/thamesmix/DESCRIPTION | 8 - thamesmix-0.1.4/thamesmix/MD5 | 28 ++-- thamesmix-0.1.4/thamesmix/NAMESPACE | 37 +++--- thamesmix-0.1.4/thamesmix/NEWS.md | 10 - thamesmix-0.1.4/thamesmix/R/compute_W_c_volB.R | 3 thamesmix-0.1.4/thamesmix/R/thames_mixtures.R | 59 ++++++---- thamesmix-0.1.4/thamesmix/R/uniformly_functions.R |only thamesmix-0.1.4/thamesmix/README.md | 2 thamesmix-0.1.4/thamesmix/build/vignette.rds |binary thamesmix-0.1.4/thamesmix/inst/doc/thames_mixtures_vignette.R | 4 thamesmix-0.1.4/thamesmix/inst/doc/thames_mixtures_vignette.Rmd | 8 - thamesmix-0.1.4/thamesmix/inst/doc/thames_mixtures_vignette.html | 31 ++--- thamesmix-0.1.4/thamesmix/man/runif_ellipsoid.Rd | 2 thamesmix-0.1.4/thamesmix/man/runif_sphere.Rd | 2 thamesmix-0.1.4/thamesmix/vignettes/thames_mixtures_vignette.Rmd | 8 - 16 files changed, 113 insertions(+), 89 deletions(-)
Title: Produces Publication-Ready Summary Tables
Description: Produces tables with descriptive statistics for continuous, categorical and dichotomous variables. It is largely based on the package 'gtsummary'; Sjoberg DD et al. (2021) <doi:10.32614/RJ-2021-053>.
Author: Saemi Schaer [aut],
Charlotte Micheloud [cre, aut]
Maintainer: Charlotte Micheloud <Charlotte.Micheloud@swisscancerinstitute.ch>
Diff between summarySCI versions 0.1.1 dated 2025-10-15 and 0.1.2 dated 2026-09-14
DESCRIPTION | 12 MD5 | 35 - NEWS.md | 7 R/define_globalvariables.R | 44 - R/helpers.R | 209 +++--- R/summaryByVisit.R | 54 - R/summaryLevels.R | 559 ++++++++-------- R/summaryTable.r | 1432 +++++++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/summaryByVisit.html | 15 inst/doc/summaryLevels.html | 17 inst/doc/summaryTable.Rmd | 600 +++++++++--------- inst/doc/summaryTable.html | 49 + man/geom_mean.Rd | 36 - man/get_labels.Rd | 40 - man/se.Rd | 36 - tests |only vignettes/summaryTable.Rmd | 600 +++++++++--------- 18 files changed, 1974 insertions(+), 1771 deletions(-)
Title: Learning Causal or Non-Causal Graphical Models Using Information
Theory
Description: Multivariate Information-based Inductive Causation, better known
by its acronym MIIC, is a causal discovery method, based on information
theory principles, which learns a large class of causal or non-causal
graphical models from purely observational data, while including the effects
of unobserved latent variables. Starting from a complete graph, the method
iteratively removes dispensable edges, by uncovering significant information
contributions from indirect paths, and assesses edge-specific confidences
from randomization of available data. The remaining edges are then oriented
based on the signature of causality in observational data. The recent more
interpretable MIIC extension (iMIIC) further distinguishes genuine causes
from putative and latent causal effects, while scaling to very large
datasets (hundreds of thousands of samples). Since the version 2.0, MIIC
also includes a temporal mode (tMIIC) to learn temporal causal graphs from
stationary time series data. MIIC has been appli [...truncated...]
Author: Franck Simon [aut, cre],
Ali Chemkhi [aut],
Tiziana Tocci [aut],
Nikita Lagrange [aut],
Orianne Debeaupuis [aut],
Louise Dupuis [aut],
Vincent Cabeli [aut],
Honghao Li [aut],
Marcel Ribeiro Dantas [aut],
Nadir Sella [aut],
Louis Verny [aut],
Severine [...truncated...]
Maintainer: Franck Simon <franck.simon@curie.fr>
Diff between miic versions 2.0.3 dated 2024-09-17 and 2.0.4 dated 2026-09-14
DESCRIPTION | 13 +++++-- MD5 | 17 +++++---- R/data.R | 6 +-- build |only man/cosmicCancer.Rd | 2 - man/cosmicCancer_stateOrder.Rd | 2 - man/hematoData.Rd | 2 - src/biconnected_component.cpp | 7 ++- src/biconnected_component.h | 1 src/computation_cache.h | 72 +++++++++++++++++++++++++++++++++++++---- 10 files changed, 95 insertions(+), 27 deletions(-)
Title: Vectorised Computation of P-Values and Their Supports for
Several Discrete Statistical Tests
Description: Provides vectorised functions for computing p-values of various
common discrete statistical tests, as described e.g. in Agresti (2002)
<doi:10.1002/0471249688>, including their distributions. Exact and
approximate computation methods are provided. For exact ones, several
procedures of determining two-sided p-values are included, which are
outlined in more detail in Hirji (2006) <doi:10.1201/9781420036190>.
Author: Florian Junge [cre, aut] ,
Christina Kihn [aut],
Sebastian Doehler [ctb] ,
Guillermo Durand [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteTests versions 0.5.1 dated 2026-09-02 and 0.5.2 dated 2026-09-14
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/permutation.r | 6 +++--- R/wilcoxon.R | 7 ++++--- man/perm_test_pv.Rd | 6 +++--- 6 files changed, 26 insertions(+), 18 deletions(-)
Title: Scalable Statistical Computing with HDF5-Backed Matrices
Description: A framework for 'scalable' statistical computing on large on-disk
matrices stored in 'HDF5' files. It provides efficient block-wise
implementations of core linear-algebra operations (matrix multiplication,
SVD, PCA, and QR decomposition) written in C++ and R, along with building
blocks from which higher-level multivariate methods such as canonical
correlation analysis can be constructed. These building blocks are designed
not only for direct use, but also as foundational components for developing
new statistical methods that must operate on datasets too large to fit in
memory. The package supports data provided either as 'HDF5' files or
standard R objects, and is intended for high-dimensional applications such
as 'omics' and precision-medicine research.
Author: Dolors Pelegri-Siso [aut, cre] ,
Juan R. Gonzalez [aut]
Maintainer: Dolors Pelegri-Siso <dolors.pelegri@isglobal.org>
Diff between BigDataStatMeth versions 2.0.4 dated 2026-07-19 and 2.0.5 dated 2026-09-14
DESCRIPTION | 8 MD5 | 131 ++++++------- NAMESPACE | 2 NEWS.md | 42 ++++ R/HDF5Matrix_core.R | 42 ++++ R/HDF5Matrix_create.R | 8 R/HDF5Matrix_multiply.R | 2 R/HDF5Matrix_op_decompositions.R | 165 ++++++++++++++++ R/HDF5Matrix_op_omics.R | 197 +++++++++++++++++--- R/RcppExports.R | 50 +++++ R/S3_bind.R | 4 R/S3_correlation.R | 2 R/S3_decompositions.R | 149 ++++++++++++++- R/S3_factorizations.R | 6 R/S3_normalize.R | 2 R/S3_omics.R | 82 +++++--- R/S3_standalone.R | 76 +++++++ inst/doc/BigDataStatMeth.R | 12 + inst/doc/BigDataStatMeth.Rmd | 72 ++++++- inst/doc/BigDataStatMeth.html | 150 ++++++++++++--- inst/include/BigDataStatMeth.hpp | 28 ++ inst/include/Utilities/SystemInfo.hpp | 15 + inst/include/Utilities/performance |only inst/include/Utilities/system-utils.hpp | 107 +++++++++- inst/include/hdf5Algebra/crossprod.hpp | 9 inst/include/hdf5Algebra/matrixCorrelation.hpp | 38 ++- inst/include/hdf5Algebra/matrixNormalization.hpp | 17 + inst/include/hdf5Algebra/matrixPCA.hpp | 7 inst/include/hdf5Algebra/matrixSdMean.hpp | 134 +++++++++++++ inst/include/hdf5Algebra/matrixSubstract.hpp | 106 +++++----- inst/include/hdf5Algebra/matrixSum.hpp | 106 +++++----- inst/include/hdf5Algebra/matrixSvd.hpp | 77 +++++++ inst/include/hdf5Algebra/matrixSvdBlock.hpp | 11 + inst/include/hdf5Algebra/tcrossprod.hpp | 13 + inst/include/hdf5Omics/hdf5RemoveMAF.hpp | 50 ++++- inst/include/hdf5Utilities/hdf5Datasets.hpp | 108 ++++++++-- inst/include/hdf5Utilities/hdf5DatasetsInternal.hpp | 22 +- inst/include/hdf5Utilities/hdf5Diagonal.hpp | 4 inst/include/hdf5Utilities/hdf5Dims.hpp | 54 ++++- inst/include/hdf5Utilities/hdf5Files.hpp | 19 + inst/include/hdf5Utilities/hdf5ImputeData.hpp | 14 - inst/include/hdf5Utilities/hdf5RemoveLowData.hpp | 59 ++++- man/cbind.HDF5Matrix.Rd | 2 man/chol.HDF5Matrix.Rd | 2 man/cor.HDF5Matrix.Rd | 2 man/filter_low_coverage.Rd | 34 ++- man/filter_maf.Rd | 21 +- man/hdf5_remove.Rd |only man/impute_snps.Rd | 16 + man/prcomp.HDF5Matrix.Rd | 33 +++ man/qr.HDF5Matrix.Rd | 2 man/rbind.HDF5Matrix.Rd | 2 man/rcpp_hdf5_remove_dataset.Rd |only man/scale.Rd | 2 man/solve.HDF5Matrix.Rd | 2 man/svd.HDF5Matrix.Rd | 101 ++++++++++ man/svd_auto_threshold.Rd |only src/RcppExports.cpp | 82 ++++++++ src/hdf5_applyFunction.cpp | 18 + src/hdf5_r6_minimal.cpp | 59 +++++ src/hdf5_r6_multiply.cpp | 49 +++- src/hdf5_r6_normalize.cpp | 4 src/hdf5_r6_omics.cpp | 77 +++++-- src/hdf5_r6_pca.cpp | 13 + src/hdf5_r6_svd.cpp | 41 +++- src/hdf5_r6_write.cpp | 2 src/hdf5_systemInfo.cpp | 74 +++++++ vignettes/BigDataStatMeth.Rmd | 72 ++++++- 68 files changed, 2435 insertions(+), 475 deletions(-)
More information about BigDataStatMeth at CRAN
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Title: Genome-Wide Nucleic Acid Melting Temperature Profiling and
Multi-Omics Integration
Description: Accurate calculation of nucleic acid melting temperature (Tm) is fundamental to many molecular biology applications, and this software scales Tm analysis from individual sequences to genome‑wide thermodynamic profiling. This package extends Tm analysis from simple sequence level computation to comprehensive genome-wide thermodynamic profiling. It takes multiple input formats including sequence strings, FASTA files, genomic coordinates. The implementation provides three Tm calculation methods: the Wallace rule (Thein & Wallace, 1986), empirical GC‑content formulas (Marmur, 1962; Schildkraut, 2010; Wetmur, 1991; Untergasser, 2012; von Ahsen, 2001), and nearest‑neighbor thermodynamics (Breslauer, 1986; Sugimoto, 1996; Allawi, 1998; SantaLucia, 2004; Freier, 1986; Xia, 1998; Chen, 2012; Bommarito, 2000; Turner, 2010; Sugimoto, 1995; Allawi, 1997; SantaLucia, 2005; Zuber, 2022; Ghosh, 2020, 2023). Nearest-neighbor parameter sets are provided for DNA, RNA and RNA/DNA hybrid duplexes. The [...truncated...]
Author: Junhui Li [cre, aut] ,
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <ljh.biostat@gmail.com>
Diff between TmCalculator versions 1.0.9 dated 2026-08-28 and 1.1.0 dated 2026-09-14
TmCalculator-1.0.9/TmCalculator/man/c2s.Rd |only TmCalculator-1.0.9/TmCalculator/man/gc.Rd |only TmCalculator-1.1.0/TmCalculator/DESCRIPTION | 23 TmCalculator-1.1.0/TmCalculator/MD5 | 128 + TmCalculator-1.1.0/TmCalculator/NAMESPACE | 10 TmCalculator-1.1.0/TmCalculator/NEWS.md | 244 ++- TmCalculator-1.1.0/TmCalculator/R/GC.R | 153 +- TmCalculator-1.1.0/TmCalculator/R/RcppExports.R |only TmCalculator-1.1.0/TmCalculator/R/TmCalculator-package.R | 2 TmCalculator-1.1.0/TmCalculator/R/chem_correct.R | 41 TmCalculator-1.1.0/TmCalculator/R/coor_to_genomic_ranges.R | 54 TmCalculator-1.1.0/TmCalculator/R/generate_complement.R | 52 TmCalculator-1.1.0/TmCalculator/R/integrate_granges.R | 225 +++ TmCalculator-1.1.0/TmCalculator/R/make_genomiccoord.R | 91 - TmCalculator-1.1.0/TmCalculator/R/plot_genome_track.R | 48 TmCalculator-1.1.0/TmCalculator/R/print.TmCalculator.R | 23 TmCalculator-1.1.0/TmCalculator/R/salt_correction.R | 70 - TmCalculator-1.1.0/TmCalculator/R/sysdata.rda |binary TmCalculator-1.1.0/TmCalculator/R/tm_calculate.R | 64 TmCalculator-1.1.0/TmCalculator/R/tm_gc.R | 152 +- TmCalculator-1.1.0/TmCalculator/R/tm_nn.R | 684 +++++++-- TmCalculator-1.1.0/TmCalculator/R/tm_wallace.R | 96 + TmCalculator-1.1.0/TmCalculator/R/to_genomic_ranges.R | 173 +- TmCalculator-1.1.0/TmCalculator/R/utils.R | 22 TmCalculator-1.1.0/TmCalculator/R/zzz.R | 187 ++ TmCalculator-1.1.0/TmCalculator/README.md | 2 TmCalculator-1.1.0/TmCalculator/build/vignette.rds |binary TmCalculator-1.1.0/TmCalculator/inst/doc/genome_wide_tm_ecoli.R | 208 ++- TmCalculator-1.1.0/TmCalculator/inst/doc/genome_wide_tm_ecoli.Rmd | 298 +++- TmCalculator-1.1.0/TmCalculator/inst/doc/genome_wide_tm_ecoli.html | 685 ++++++---- TmCalculator-1.1.0/TmCalculator/inst/doc/hg38_performance_parallel.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/hg38_performance_parallel.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/hg38_performance_parallel.html |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/tool_comparison.html |only TmCalculator-1.1.0/TmCalculator/inst/doc/window_size_sensitivity.R |only TmCalculator-1.1.0/TmCalculator/inst/doc/window_size_sensitivity.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/doc/window_size_sensitivity.html |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_cluster.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_strategy.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/bench_parallel_strategy_tasks.csv.gz |only TmCalculator-1.1.0/TmCalculator/inst/extdata/crosstool_bench.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/crosstool_consistency.csv |only TmCalculator-1.1.0/TmCalculator/inst/extdata/nn_params_provenance_v1.1.0.md |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_crosstool.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_methods.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_cluster.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_cluster.lsf |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_parallel_strategy.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_worker.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/bench_worker.py |only TmCalculator-1.1.0/TmCalculator/inst/scripts/benchmark_hg38.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/benchmark_tools.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/find_isoGC_pairs.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure2.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure3.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure4.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure5.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_figure5_two_env.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/make_table6.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/plot_crosstool.R |only TmCalculator-1.1.0/TmCalculator/inst/scripts/setup_cluster_env.sh |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/genome_wide_tm_ecoli.Rmd | 438 +++++- TmCalculator-1.1.0/TmCalculator/inst/vignette-source/hg38_performance_parallel.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/inst/vignette-source/window_size_sensitivity.Rmd |only TmCalculator-1.1.0/TmCalculator/man/TmCalculator-package.Rd | 2 TmCalculator-1.1.0/TmCalculator/man/cash-.TmCalculator.Rd |only TmCalculator-1.1.0/TmCalculator/man/coor_to_genomic_ranges.Rd | 13 TmCalculator-1.1.0/TmCalculator/man/dot-chem_correct_vec.Rd |only TmCalculator-1.1.0/TmCalculator/man/dot-gc_vec.Rd |only TmCalculator-1.1.0/TmCalculator/man/dot-salt_correct_vec.Rd |only TmCalculator-1.1.0/TmCalculator/man/gc_content.Rd |only TmCalculator-1.1.0/TmCalculator/man/integrate_granges.Rd | 123 + TmCalculator-1.1.0/TmCalculator/man/make_genomiccoord.Rd | 8 TmCalculator-1.1.0/TmCalculator/man/plot_genome_track.Rd | 22 TmCalculator-1.1.0/TmCalculator/man/tm_calculate.Rd | 68 TmCalculator-1.1.0/TmCalculator/man/tm_nn.Rd | 156 +- TmCalculator-1.1.0/TmCalculator/man/tm_wallace.Rd | 17 TmCalculator-1.1.0/TmCalculator/src |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_gc_vec.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_integrate_weight.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_nn_rc_completion.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_tm_nn_rcpp.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_user_nn_table.R |only TmCalculator-1.1.0/TmCalculator/tests/testthat/test_wallace_length.R |only TmCalculator-1.1.0/TmCalculator/vignettes/genome_wide_tm_ecoli.Rmd | 298 +++- TmCalculator-1.1.0/TmCalculator/vignettes/hg38_performance_parallel.Rmd |only TmCalculator-1.1.0/TmCalculator/vignettes/tool_comparison.Rmd |only TmCalculator-1.1.0/TmCalculator/vignettes/window_size_sensitivity.Rmd |only 91 files changed, 3760 insertions(+), 1120 deletions(-)
More information about SensoryDataSets at CRAN
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Title: Translates an R Function to a C++ Function
Description: Enable translation of a tiny subset of R to C++. The user has to define a R function which gets translated. For a full list of possible functions check the documentation. After translation an R function is returned which is a shallow wrapper around the C++ code. Alternatively an external pointer to the C++ function is returned to the user. The intention of the package is to generate fast functions which can be used as ode-system or during optimization.
Author: Kraemer Konrad [aut, cre]
Maintainer: Kraemer Konrad <konrad_kraemer@yahoo.de>
This is a re-admission after prior archival of version 0.3.2 dated 2023-12-09
Diff between ast2ast versions 0.3.2 dated 2023-12-09 and 1.0 dated 2026-09-14
ast2ast-0.3.2/ast2ast/R/codelinesclass.R |only ast2ast-0.3.2/ast2ast/R/compiling.R |only ast2ast-0.3.2/ast2ast/R/jacobian.R |only ast2ast-0.3.2/ast2ast/R/masterclass.R |only ast2ast-0.3.2/ast2ast/R/node_classes.R |only ast2ast-0.3.2/ast2ast/R/translate.R |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/add.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/allocation.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/checks_na_inf.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/colon.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/comparison.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/concatenate.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/conversion.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/distri.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/divide.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/exponent.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/header.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/interpolation.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/mul.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/pointer_storage.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/print.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/subset.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/subsetassign.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/subtract.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/trigo.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/util.hpp |only ast2ast-0.3.2/ast2ast/inst/include/etr_bits/vec.hpp |only ast2ast-0.3.2/ast2ast/inst/include/type_ast2ast.hpp |only ast2ast-0.3.2/ast2ast/inst/tinytest/test_all.R |only ast2ast-0.3.2/ast2ast/man/J.rd |only ast2ast-1.0/ast2ast/DESCRIPTION | 29 ast2ast-1.0/ast2ast/MD5 | 185 + ast2ast-1.0/ast2ast/NAMESPACE | 16 ast2ast-1.0/ast2ast/NEWS | 20 ast2ast-1.0/ast2ast/R/CreateNodeAST.R |only ast2ast-1.0/ast2ast/R/FunctionRegistry.R |only ast2ast-1.0/ast2ast/R/HandleLiterals.R |only ast2ast-1.0/ast2ast/R/Nodes.R |only ast2ast-1.0/ast2ast/R/RcppExports.R |only ast2ast-1.0/ast2ast/R/Translate.R |only ast2ast-1.0/ast2ast/R/TraverseNodeAST.R |only ast2ast-1.0/ast2ast/R/TypeInference.R |only ast2ast-1.0/ast2ast/R/TypeInferenceReturn.R |only ast2ast-1.0/ast2ast/R/TypeParser.R |only ast2ast-1.0/ast2ast/R/Utils.R |only ast2ast-1.0/ast2ast/build/vignette.rds |binary ast2ast-1.0/ast2ast/inst/doc/DetailedDocumentation.R | 520 +--- ast2ast-1.0/ast2ast/inst/doc/DetailedDocumentation.Rmd | 879 +++----- ast2ast-1.0/ast2ast/inst/doc/DetailedDocumentation.html | 1071 ++++------ ast2ast-1.0/ast2ast/inst/doc/InformationForPackageAuthors.R | 61 ast2ast-1.0/ast2ast/inst/doc/InformationForPackageAuthors.Rmd | 441 ---- ast2ast-1.0/ast2ast/inst/doc/InformationForPackageAuthors.html | 609 +---- ast2ast-1.0/ast2ast/inst/doc/InnerFunctionsAndTypes.R |only ast2ast-1.0/ast2ast/inst/doc/InnerFunctionsAndTypes.Rmd |only ast2ast-1.0/ast2ast/inst/doc/InnerFunctionsAndTypes.html |only ast2ast-1.0/ast2ast/inst/include/ast2ast_types.h |only ast2ast-1.0/ast2ast/inst/include/etr.hpp | 49 ast2ast-1.0/ast2ast/inst/include/etr_bits/Allocation.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Calculations |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Calculations.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Collection.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Core |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Core.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Derivatives.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Functionals.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Interpolation.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Optimization |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Optimization.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Subsetting |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Subsetting.hpp |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Utilities |only ast2ast-1.0/ast2ast/inst/include/etr_bits/Utilities.hpp |only ast2ast-1.0/ast2ast/inst/tinytest/test_argtypes.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_borrow.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_check_errors.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_cpp_code.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_create_node_ast.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_current_line.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_derivative.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_det_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_empty_vectors.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_function_registry_check_fcts.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_functionals.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_handle_literals.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_if_else_if_chain.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_implicit_return.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_infer_errors.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_infer_return.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_infer_types.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_inner_functions.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_iterators.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_jacobian_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_lbfgsb_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_map.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_new_math_fns.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_new_type.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_numeric_methods.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_pso_dsl.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_reduce_filter.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_sort_args.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_subsetting.R |only ast2ast-1.0/ast2ast/inst/tinytest/test_translate.R |only ast2ast-1.0/ast2ast/inst/tools |only ast2ast-1.0/ast2ast/man/translate.Rd | 586 +++-- ast2ast-1.0/ast2ast/src |only ast2ast-1.0/ast2ast/tests/tinytest.R | 4 ast2ast-1.0/ast2ast/vignettes/CppCode.png |only ast2ast-1.0/ast2ast/vignettes/DetailedDocumentation.Rmd | 879 +++----- ast2ast-1.0/ast2ast/vignettes/InformationForPackageAuthors.Rmd | 441 ---- ast2ast-1.0/ast2ast/vignettes/InnerFunctionsAndTypes.Rmd |only 110 files changed, 2447 insertions(+), 3343 deletions(-)
Title: Longitudinal Sports Analytics Asset and Workload Feature
Processing
Description: A synthetic, longitudinal athletic dataset generated through a
transparent, rule-based simulation engine. Captures individual activity
sessions across multiple athletes, environmental conditions, and physiological
responses. Specifically designed as an alternative to legacy teaching
datasets by introducing realistic hierarchical repeated measures, complex
two-way covariate interactions, and a deliberate Missing Not At Random
(MNAR) tracking mechanism suitable for advanced imputation workflows. Methodologies
implemented are based on van Buuren (2018) <doi:10.1201/9780429492259>
and Bates et al. (2015) <doi:10.18637/jss.v067.i01>.
Author: Mohammad Abbas [aut, cre]
Maintainer: Mohammad Abbas <ma.abbas3107@gmail.com>
Diff between sportsfeatures versions 0.1.0 dated 2026-06-30 and 0.2.0 dated 2026-09-14
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/data.R | 23 ++++++++++++++++++++--- build/partial.rdb |binary data/sports_features.rda |binary data/sports_features_missing.rda |binary man/sports_features.Rd | 19 ++++++++++++++++++- man/sports_features_missing.Rd | 2 +- 8 files changed, 49 insertions(+), 15 deletions(-)
More information about sportsfeatures at CRAN
Permanent link
Title: Drawing Chinese National and Historical Flags with 'ggplot2'
Description: Provides programmatic implementations for drawing
Chinese national and historical flags using analytic geometry and
'ggplot2'-based vector graphics. Flag designs are constructed
entirely from geometric primitives such as polygons and rectangles,
without relying on external image files. The package is intended
for educational demonstration, reproducible visualization, and
procedural graphics in R.
Author: Zhaoshuo Liu [aut, cre]
Maintainer: Zhaoshuo Liu <liuzhaoshuo1997@outlook.com>
Diff between ggChinaFlag versions 0.3.0 dated 2026-07-14 and 0.4.0 dated 2026-09-14
DESCRIPTION | 6 - MD5 | 25 ++++-- NAMESPACE | 2 NEWS.md | 14 +++ R/flag_interface.R | 155 +++++++++++++++++++++++++++++-------------- R/package_logo.R |only R/plot_military.R |only R/plot_organization.R |only man/FlagStorage.Rd | 15 ++-- man/plotCNFlag.Rd | 17 +++- man/plot_CYLC.Rd |only man/plot_Han18Star.Rd | 37 +++++++++- man/plot_P.R.CHINA_flag.Rd | 30 ++++++++ man/plot_PLA.Rd |only man/plot_ROC_Beiyang_flag.Rd | 30 ++++++++ man/plot_ROC_KMT_flag.Rd | 31 ++++++++ 16 files changed, 284 insertions(+), 78 deletions(-)
Title: Read and Process 'FPOD' and 'CPOD' Data
Description: Read 'FPOD' and 'CPOD' data into 'R' directly from the
'FPOD' data files (i.e. .CP1, .CP3, .FP1 and .FP3 files). The 'FPOD' data
files contain binary data, so they can't trivially be read into 'R' using the
usual approach, e.g. fread() or read.csv(). This package decodes the binary
data and imports all the data in one go (i.e. header/metadata, clicks,
'KERNO' classifications, environmental data and pseudo-WAV data). It is then
trivial to aggregate data as you please, e.g. detection-positive-minutes per
time block. The advantage of handling data processing in 'R' is a long topic,
but suffice it to say that it 1) simplifies things (many fewer steps, as
different vars have to be exported in multiple goes in the official 'FPOD'
app), and more importantly, 2) makes data processing transparent and
reproducible.
References: Pirotta et al. 2014 <doi:10.1111/1365-2435.12146>.
Author: Andre Moan [aut, cre, cph]
Maintainer: Andre Moan <andre.moan@hi.no>
Diff between fpod versions 1.0.1 dated 2026-05-12 and 1.0.2 dated 2026-09-14
DESCRIPTION | 8 ++-- MD5 | 10 ++--- NEWS.md | 6 ++- R/fp_read.R | 4 +- inst/doc/advanced-usage.html | 77 +++++++++++++++++++++---------------------- inst/doc/fpod.html | 8 ++-- 6 files changed, 59 insertions(+), 54 deletions(-)
Title: Extended RC Models for Contingency Tables
Description: Maximum likelihood estimation of an extended class of row-column (RC) association models for two-dimensional contingency tables, which are formulated by a condition of reduced rank on a matrix of extended association parameters; see Forcina (2019) <doi:10.48550/arXiv.1910.13848>. These parameters are defined by choosing the logit type for the row and column variables among four different options and a transformation derived from suitable divergence measures.
Author: Francesco Bartolucci [aut, cre],
Antonio Forcina [aut]
Maintainer: Francesco Bartolucci <francesco.bartolucci@unipg.it>
Diff between extRC versions 1.2 dated 2020-10-10 and 1.3 dated 2026-09-14
DESCRIPTION | 22 +++++++++++++++------- MD5 | 10 +++++----- man/MatIn.Rd | 2 +- man/plot.Rd | 2 +- man/print.Rd | 2 +- man/summary.Rd | 2 +- 6 files changed, 24 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-27 2019.08.26
Title: Analyzing Revisions in Real-Time Time Series Vintages
Description: Analyzes revisions in real-time time series vintages. The
package converts between wide revision triangles and tidy long
vintages, extracts selected releases, computes revision series,
visualizes vintage paths, and summarizes revision properties such as
bias, dispersion, autocorrelation, and news-noise diagnostics. It
also identifies efficient releases and estimates state-space models
for revision nowcasting. Methods are based on Howrey (1978)
<doi:10.2307/1924972>, Jacobs and Van Norden (2011)
<doi:10.1016/j.jeconom.2010.04.010>, and Kishor and Koenig (2012)
<doi:10.1198/jbes.2010.08169>.
Author: Marc Burri [aut, cre, cph] ,
Philipp Wegmueller [aut, cph]
Maintainer: Marc Burri <marc.burri91@gmail.com>
Diff between reviser versions 0.3.0 dated 2026-09-02 and 0.3.1 dated 2026-09-14
DESCRIPTION | 10 +-- MD5 | 12 ++-- NAMESPACE | 4 - NEWS.md | 14 +++++ R/kk.R | 131 +++++++++++++++++++++++++++++++++++++++++++++-- R/reviser-package.R | 1 tests/testthat/test-kk.R | 107 ++++++++++++++++++++++++++++++++++++++ 7 files changed, 258 insertions(+), 21 deletions(-)
Title: Arc-Length Statistics: Goodness of Fit, Distributions and a
Bayesian Test
Description: Inference from the arc length of statistical functions. Three tools share one pure-C
back-end: a goodness-of-fit test based on the arc length of the probability plot, with an analytic
saddlepoint null and sensitivity to local density structure that the empirical-distribution tests
miss; two constructions that build a distribution from the arc length of its defining curve, the
arc-length generator and the quantile arc-length family estimated by L-moments; and a Bayesian
nonparametric arc-length goodness-of-fit test on the Dirichlet-process posterior. The same C sources
back the 'Python' package 'arcstat'.
Author: M. Theodor Loots [aut, cre]
Maintainer: M. Theodor Loots <theo.loots@gmail.com>
Diff between arcstat versions 0.2.0 dated 2026-09-11 and 0.3.0 dated 2026-09-14
DESCRIPTION | 6 +- MD5 | 19 ++++--- NAMESPACE | 2 NEWS.md | 27 ++++++++++ R/arcstat.R | 41 +++++++++++++++ man/al_band_model_star.Rd |only man/al_scale.Rd | 7 ++ man/al_scale_raw.Rd |only src/arcdistc.c | 115 ++++++++++++++++++++++++++++++++++++++++++- src/arcdistc.h | 3 + src/init.c | 2 tests/testthat/test-arclen.R |only 12 files changed, 210 insertions(+), 12 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The vendored 'SUNDIALS'
'CVODE' sources and headers are released under the BSD-3-Clause license.
The information is available in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut, cre] ,
Wenping Wang [aut],
Aaron Collier [ctb] ,
Alan Hindmarsh [ctb],
Arun Srinivasan [ctb],
Ashley Crawford [ctb] ,
Awad H. Al-Mohy [ctb],
Bill Denney [ctb] ,
Cleve Moler [ctb],
Cody J. Balos [ctb] ,
Dan Shumaker [ctb] ,
Dan [...truncated...]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2 versions 5.1.6 dated 2026-08-04 and 5.1.7 dated 2026-09-14
DESCRIPTION | 20 MD5 | 723 - NAMESPACE | 152 NEWS.md | 2485 +++ R/RcppExports.R | 130 R/adjoint.R | 32 R/adjointDiscrete.R | 21 R/assert.R | 308 R/build.R | 41 R/confint.R | 296 R/confintSummary.R |only R/d.R | 174 R/dde.R | 171 R/dsl.R | 24 R/err-foceiBase.R | 2 R/err-sim.R | 26 R/err.R | 193 R/etNew.R | 25 R/eventSens.R | 328 R/evidPush.R | 11 R/forder.R | 18 R/indLin.R | 500 R/intern.R | 53 R/linMod.R | 4 R/lotriCompat.R |only R/mix.R | 2 R/mu-cov-downgrade.R | 7 R/mu.R | 51 R/odeToLin.R | 307 R/parseFuns.R | 45 R/piping-ini.R | 199 R/piping-model.R | 143 R/piping.R | 79 R/plot.R | 19 R/prior-sim.R |only R/priorDensity.R |only R/rudf.R | 52 R/rxCbindStudyIndividual.R | 2 R/rxIndLin.R | 156 R/rxJacobian.R | 59 R/rxLinCmt.R | 48 R/rxMemoryEstimate.R | 204 R/rxOom.R | 457 R/rxOptExpr.R | 414 R/rxPrune.R | 28 R/rxSymInv.R | 146 R/rxUiBlessed.R | 4 R/rxUiGet.R | 29 R/rxode-options.R | 44 R/rxode2.R | 596 R/rxode2_md5.R | 2 R/rxsolve.R | 1229 + R/symengine.R | 1024 + R/tran.R | 1 R/ui-assign-parts.R | 2 R/ui-modelName.R |only R/ui-rename.R | 49 R/ui.R | 67 R/utils.R | 45 data/rxSyntaxFunctions.rda |binary inst/doc/rxode2-syntax.html | 474 inst/include/rxMemoryCalc.h | 83 inst/include/rxode2.h | 31 inst/include/rxode2EventTranslate.h | 459 inst/include/rxode2_RcppExports.h | 71 inst/include/rxode2_control.h | 13 inst/include/rxode2_model_shared.c | 2 inst/include/rxode2_model_shared.h | 31 inst/include/rxode2dataErr.h | 3 inst/include/rxode2parseGetTime.h | 14 inst/include/rxode2parseHandleEvid.h | 354 inst/include/rxode2parseStruct.h | 161 inst/include/rxode2parseVer.h | 4 inst/include/rxode2parse_control.h | 14 inst/include/rxode2prior.h |only inst/include/rxode2ptr.h | 45 inst/rxCse.g |only inst/rxToSE.g |only inst/seFromSE.g |only inst/tools/dparserReentrancy.c |only inst/tools/fflags.R |only inst/tools/genOptExprFixture.R |only inst/tools/genSymengineFixture.R |only inst/tools/optExprFixtureCorpus.R |only inst/tools/symengineFixtureCapture.R |only inst/tools/symengineFixtureCorpus.R |only inst/tools/workaround.R | 39 inst/tran.g | 13 man/assertCompartmentExists.Rd | 4 man/assertCompartmentName.Rd | 4 man/assertCompartmentNew.Rd | 4 man/assertRxUi.Rd | 44 man/assertVariableExists.Rd | 4 man/assertVariableNew.Rd | 4 man/confint.rxSolve.Rd |only man/dot-udfEnvSet.Rd | 4 man/evid_.Rd | 11 man/getRxThreads.Rd | 9 man/linCmtCarryFastStats.Rd |only man/linCmtCarrySentinelMax.Rd |only man/linCmtCarrySetFast.Rd |only man/linCmtDeltaMemo.Rd |only man/linCmtSeqStats.Rd |only man/mix.Rd | 2 man/odeMethodToInt.Rd | 7 man/odeToLin.Rd | 8 man/rmdhunks/rxode2-syntax-hunk.Rmd | 383 man/rxCbindStudyIndividual.Rd | 2 man/rxCombineErrorLines.Rd | 4 man/rxD.Rd | 2 man/rxExpandIfElse.Rd | 2 man/rxForcedPars.Rd |only man/rxIndLinExpStats.Rd |only man/rxIndLinState.Rd | 6 man/rxIndLinStrategy.Rd | 7 man/rxInjectedPars.Rd |only man/rxLastCompile.Rd | 7 man/rxMemoryEstimate.Rd | 37 man/rxModelName.Rd |only man/rxModelNameFromExpr.Rd |only man/rxModelNameLhs.Rd |only man/rxOptExpr.Rd | 72 man/rxParLoader.Rd |only man/rxPriorBuildSpec.Rd |only man/rxPriorLogDensity.Rd |only man/rxPriorOmegaToCholOmegaInvGrad.Rd |only man/rxRegisterUiAssembled.Rd |only man/rxRegisterUiPrep.Rd |only man/rxSensMatExp.Rd | 9 man/rxSetActiveParLoader.Rd |only man/rxSimThetaOmega.Rd | 13 man/rxSolve.Rd | 328 man/rxSymInvChol.Rd | 2 man/rxSymInvCholCreate.Rd | 9 man/rxUiGet.Rd | 8 man/rxUiPriors.Rd |only man/rxode2-set.Rd | 2 man/rxode2.Rd | 402 man/testIniDf.Rd | 4 man/testRxUnbounded.Rd | 4 src/Makevars.in | 7 src/RcppExports.cpp | 240 src/ab.cpp | 11 src/ab_adjoint.cpp | 8 src/abm.cpp | 11 src/bs.cpp | 11 src/ck54.cpp | 11 src/codegen.c | 83 src/codegen2.h | 4 src/cvPost.cpp | 11 src/cvode.cpp | 11 src/cvode_dense.cpp | 11 src/cvodes_adjoint.cpp | 13 src/dop5.cpp | 11 src/dop54.cpp | 11 src/dop853.c | 139 src/dop853.h | 30 src/dop87.cpp | 11 src/dverk65.cpp | 11 src/dverk78.cpp | 11 src/em.cpp | 11 src/etTran.cpp | 773 - src/euler.cpp | 11 src/expandGrid.cpp | 13 src/expm.cpp | 2643 ++++ src/genModelVars.c | 12 src/genModelVars.h | 192 src/grk4a.cpp | 11 src/handle_evid.cpp | 123 src/heun.cpp | 11 src/iem.cpp | 28 src/implicit_solvers.cpp | 9 src/init.c | 131 src/linCmt.cpp | 2933 ++++ src/linCmt.h | 396 src/linCmtDualN.h |only src/linCmtSensType.h | 56 src/lsoda_adjoint.cpp | 8 src/matexp.f | 9 src/matexp_HM98.c | 196 src/midpoint.cpp | 11 src/mm.cpp | 11 src/nearPD.h | 5 src/ode_implicit_bridge.h | 13 src/par_solve.cpp | 1346 +- src/par_solve.h | 74 src/parseCmtProperties.h | 37 src/parseFuns.h | 197 src/parseFunsLinCmt.h | 49 src/parseIdentifier.h | 75 src/parseLinCmtApplyCmts.h | 31 src/parseLogical.h | 17 src/parseParamMerge.h |only src/parseStatements.h | 8 src/parseSyntaxErrors.h | 80 src/parseVars.h | 17 src/print_node.c | 3 src/print_node.h | 23 src/priorDensity.cpp |only src/rk3.cpp | 11 src/rk4.cpp | 11 src/rk43.cpp | 11 src/rk4s.cpp | 28 src/rk5.cpp | 11 src/rk7.cpp | 11 src/rk8_10.cpp | 11 src/rk8_12.cpp | 11 src/rkb109.cpp | 11 src/rkb6.cpp | 11 src/rkbs32.cpp | 11 src/rkbs54.cpp | 11 src/rkc108.cpp | 11 src/rkc5.cpp | 11 src/rkc65.cpp | 11 src/rkcv8.cpp | 11 src/rkdp65.cpp | 11 src/rkdp85.cpp | 11 src/rkev87.cpp | 11 src/rkf108.cpp | 11 src/rkf1210.cpp | 11 src/rkf1412.cpp | 11 src/rkf32.cpp | 11 src/rkf45.cpp | 11 src/rkf78.cpp | 11 src/rkf89.cpp | 11 src/rkh10.cpp | 11 src/rkk87.cpp | 11 src/rkl5.cpp | 11 src/rklk5a.cpp | 11 src/rklk5b.cpp | 11 src/rkls44.cpp | 11 src/rkls54.cpp | 11 src/rko10.cpp | 11 src/rko129.cpp | 11 src/rkpp54.cpp | 11 src/rkpp54b.cpp | 11 src/rkr4.cpp | 11 src/rks10.cpp | 11 src/rks1110a.cpp | 11 src/rks4.cpp | 11 src/rks5.cpp | 11 src/rks54.cpp | 11 src/rks98.cpp | 11 src/rkss54.cpp | 11 src/rkss76.cpp | 11 src/rkssp22.cpp | 11 src/rkssp43.cpp | 11 src/rkssp53.cpp | 11 src/rkssp54.cpp | 11 src/rkt54.cpp | 11 src/rkt98a.cpp | 11 src/rktf65.cpp | 11 src/rktmy7.cpp | 11 src/rktmy7s.cpp | 11 src/rktp64.cpp | 11 src/rktp75.cpp | 11 src/rktp86.cpp | 11 src/rkv65.cpp | 11 src/rkv65r.cpp | 11 src/rkv76r.cpp | 11 src/rkv78.cpp | 11 src/rkv87e.cpp | 11 src/rkv87r.cpp | 11 src/rkv89.cpp | 11 src/rkv98r.cpp | 11 src/rkz10.cpp | 11 src/ros4.cpp | 11 src/rx2api.c | 112 src/rx2api.h | 24 src/rxCse.cpp |only src/rxCse.g.d_parser.h |only src/rxCseA.h |only src/rxCseB.h |only src/rxCseCtx.h |only src/rxCseIndex.h |only src/rxCseLhs.h |only src/rxCseNode.h |only src/rxCseNum.h |only src/rxCseRun.h |only src/rxCseSel.h |only src/rxCseStmt.h |only src/rxData.cpp | 1090 + src/rxGlobals.h | 8 src/rxInv.cpp | 2 src/rxMemoryComponents.cpp | 224 src/rxSerialize.cpp | 155 src/rxToSE.cpp |only src/rxToSE.g.d_parser.h |only src/rxToSEemit.h |only src/rxToSEnode.h |only src/rxode2_df.cpp | 31 src/rxode2_sundials_stan_compat.h | 16 src/rxomp.h | 16 src/sb3a.cpp | 11 src/sb3am4.cpp | 11 src/seBatch.h |only src/seFromSE.cpp |only src/seFromSE.g.d_parser.h |only src/seFromSEarena.h |only src/seFromSEcalls.h |only src/seFromSEemit.h |only src/seFromSEfold.h |only src/seFromSEnames.h |only src/seFromSEnode.h |only src/seParse.h |only src/seParseNode.h |only src/sem.cpp | 11 src/solveWarn.cpp | 21 src/ssp3.cpp | 11 src/tran.c | 153 src/tran.g.d_parser.h |12304 +++++++++---------- src/tran.h | 64 src/trapz.cpp | 11 src/vern65.cpp | 11 src/vern76.cpp | 11 src/vern98.cpp | 11 src/vv.cpp | 11 tests/testthat/Rplots.pdf |binary tests/testthat/helper-etTrans-golden.R |only tests/testthat/helper-lincmt-origin.R |only tests/testthat/helper-lotri.R |only tests/testthat/helper-methods.R | 34 tests/testthat/opt-expr-fixture.rds |only tests/testthat/symengine-translate-fixture.rds |only tests/testthat/test-000-modelVars.R | 4 tests/testthat/test-abi-subject-stride.R |only tests/testthat/test-adaptive-dosing-arg-vars.R |only tests/testthat/test-ar.R | 32 tests/testthat/test-assert-priors.R |only tests/testthat/test-autoswitch-jacobian.R | 55 tests/testthat/test-autoswitch-switching.R |only tests/testthat/test-block-same.R |only tests/testthat/test-build-lock.R |only tests/testthat/test-ceiling.R |only tests/testthat/test-compile-env.R |only tests/testthat/test-compile-error.R |only tests/testthat/test-compile-olevel.R |only tests/testthat/test-confint.R |only tests/testthat/test-cov.R | 184 tests/testthat/test-cvpost-separation-bound.R |only tests/testthat/test-dde-past.R | 110 tests/testthat/test-dde.R | 10 tests/testthat/test-dfdy.R | 21 tests/testthat/test-dsl.R | 67 tests/testthat/test-etTrans-golden.R |only tests/testthat/test-etTrans-translator.R |only tests/testthat/test-etTrans.R | 85 tests/testthat/test-event-sensitivities.R | 349 tests/testthat/test-evid-push-infusion.R |only tests/testthat/test-evid-push.R | 323 tests/testthat/test-forced-pars.R |only tests/testthat/test-getdur-1322.R |only tests/testthat/test-iCov.R | 25 tests/testthat/test-ifelse.R | 6 tests/testthat/test-ind-lin-1298-expand.R |only tests/testthat/test-ind-lin-1298.R |only tests/testthat/test-ind-lin-block.R |only tests/testthat/test-ind-lin.R | 1807 ++ tests/testthat/test-ind-solve-subject-id.R |only tests/testthat/test-infusion-duration-1322.R |only tests/testthat/test-ini-prior-column.R |only tests/testthat/test-ini-prior-piping.R |only tests/testthat/test-lincmt-carry-live.R |only tests/testthat/test-lincmt-carry-sentinel-guards.R |only tests/testthat/test-lincmt-delta-memo.R |only tests/testthat/test-lincmt-dose-time-sens-guard.R |only tests/testthat/test-lincmt-dose-time-sens.R |only tests/testthat/test-lincmt-dual.R |only tests/testthat/test-lincmt-modeldouble-senstype.R |only tests/testthat/test-lincmt-modelvars.R |only tests/testthat/test-lincmt-neg-depot-1275.R |only tests/testthat/test-lincmt-origin-limits.R |only tests/testthat/test-lincmt-origin-sens.R |only tests/testthat/test-lincmt-parse-3cmt-oral-dka.R |only tests/testthat/test-lincmt-partial-mask-ss.R |only tests/testthat/test-lincmt-phi-analytic.R |only tests/testthat/test-lincmt-phi-engage.R |only tests/testthat/test-lincmt-sens-adr-threads.R |only tests/testthat/test-lincmt-sens-auto.R |only tests/testthat/test-lincmt-sensH-1276.R |only tests/testthat/test-lincmt-seq-tail.R |only tests/testthat/test-lincmt-state-read.R |only tests/testthat/test-lincmt-value-memo.R |only tests/testthat/test-locally-constant-se.R |only tests/testthat/test-memory-growth.R |only tests/testthat/test-mexp-nonmem.R | 629 tests/testthat/test-mix.R | 90 tests/testthat/test-mu.R | 325 tests/testthat/test-nested-sim-iov-cor.R |only tests/testthat/test-nsim-ind-alloc-412.R |only tests/testthat/test-occ.R | 5 tests/testthat/test-odeToLin.R | 394 tests/testthat/test-oom.R | 650 + tests/testthat/test-opt-expr.R | 414 tests/testthat/test-optexpr-cse-c.R |only tests/testthat/test-optexpr-fixture.R |only tests/testthat/test-par-loader.R |only tests/testthat/test-param-order.R | 133 tests/testthat/test-parse-empty-statement.R |only tests/testthat/test-parsefuns-compile.R |only tests/testthat/test-piping-ini.R | 499 tests/testthat/test-piping-reserved-vars.R |only tests/testthat/test-pkg-exported-funs.R | 38 tests/testthat/test-prior-density.R |only tests/testthat/test-prior-sim-nested.R |only tests/testthat/test-prior-sim-nwpri.R |only tests/testthat/test-prior-sim-spec.R |only tests/testthat/test-prior-sim-tnpri-general.R |only tests/testthat/test-prior-sim-tnpri.R |only tests/testthat/test-recompile-model.R |only tests/testthat/test-rx2api-parallel-error.R |only tests/testthat/test-rxMemoryEstimate.R | 395 tests/testthat/test-rxode-issue-1211.R |only tests/testthat/test-rxode-issue-1229.R |only tests/testthat/test-rxs-function-cache.R |only tests/testthat/test-rxsolve-ui-dispatch.R |only tests/testthat/test-safeZero.R | 32 tests/testthat/test-serialize.R | 79 tests/testthat/test-sigma-hom-et-1341.R |only tests/testthat/test-sim-zeros.R | 104 tests/testthat/test-solve-warn-id.R |only tests/testthat/test-sortids-throttle.R |only tests/testthat/test-ss-extra-dose-duration.R |only tests/testthat/test-symengine-arity-guards.R |only tests/testthat/test-symengine-constants-downstream.R |only tests/testthat/test-symengine-constants.R |only tests/testthat/test-symengine-rxq-string.R |only tests/testthat/test-symengine-simplify.R |only tests/testthat/test-symengine-translate-fixture.R |only tests/testthat/test-tad-infusion-after-bolus.R |only tests/testthat/test-tied-modeled-rate-dur.R |only tests/testthat/test-tolFactor.R | 16 tests/testthat/test-ui-assembled.R |only tests/testthat/test-ui-modelName.R | 252 tests/testthat/test-ui-multiple-endpoint.R | 418 tests/testthat/test-ui-piping.R | 29 tests/testthat/test-ui-simulation.R | 174 tests/testthat/test-ui.R | 208 438 files changed, 37680 insertions(+), 10085 deletions(-)
Title: Public Suffix List Engine
Description: A focused implementation of the Public Suffix List (PSL). Bundles a
reproducible, pinned PSL snapshot and implements the official prevailing-rule
algorithm to answer public-suffix (eTLD) and registrable-domain (eTLD+1)
queries. Distinguishes ICANN and PRIVATE rule sections, accepts Unicode and
ASCII hostnames via 'punycoder' canonicalization, and supports an explicit,
validated offline refresh path. The matcher is compiled with 'cpp11' and
requires no external system library. Used as the PSL engine by the 'rurl'
package.
Author: Bart Turczynski [aut, cre]
Maintainer: Bart Turczynski <bartek@turczynski.pl>
Diff between pslr versions 1.1.1 dated 2026-07-19 and 1.2.1 dated 2026-09-14
pslr-1.1.1/pslr/man/psl_outdated.Rd |only pslr-1.2.1/pslr/DESCRIPTION | 18 pslr-1.2.1/pslr/MD5 | 106 + pslr-1.2.1/pslr/NAMESPACE | 15 pslr-1.2.1/pslr/NEWS.md | 98 + pslr-1.2.1/pslr/R/canonicalize.R | 59 + pslr-1.2.1/pslr/R/diff.R |only pslr-1.2.1/pslr/R/freshness-schema.R |only pslr-1.2.1/pslr/R/generation-store.R |only pslr-1.2.1/pslr/R/http-transport.R |only pslr-1.2.1/pslr/R/locking.R |only pslr-1.2.1/pslr/R/matcher.R | 13 pslr-1.2.1/pslr/R/metadata.R | 55 - pslr-1.2.1/pslr/R/migration.R |only pslr-1.2.1/pslr/R/parser.R | 37 pslr-1.2.1/pslr/R/prune.R |only pslr-1.2.1/pslr/R/pslr-package.R | 28 pslr-1.2.1/pslr/R/publication.R |only pslr-1.2.1/pslr/R/refresh-conditions.R |only pslr-1.2.1/pslr/R/refresh-machine.R |only pslr-1.2.1/pslr/R/refresh.R | 652 ++++++------ pslr-1.2.1/pslr/R/reminder.R |only pslr-1.2.1/pslr/R/snapshots.R |only pslr-1.2.1/pslr/R/status.R |only pslr-1.2.1/pslr/R/sysdata.rda |binary pslr-1.2.1/pslr/R/url-policy.R |only pslr-1.2.1/pslr/R/validator-policy.R |only pslr-1.2.1/pslr/README.md | 71 - pslr-1.2.1/pslr/inst/NOTICE | 6 pslr-1.2.1/pslr/inst/doc/introduction.R | 70 + pslr-1.2.1/pslr/inst/doc/introduction.Rmd | 280 ++++- pslr-1.2.1/pslr/inst/doc/introduction.html | 417 ++++++- pslr-1.2.1/pslr/inst/extdata/public_suffix_list.dat | 261 +++- pslr-1.2.1/pslr/man/psl_cache_prune.Rd | 86 + pslr-1.2.1/pslr/man/psl_diff.Rd |only pslr-1.2.1/pslr/man/psl_refresh.Rd | 74 - pslr-1.2.1/pslr/man/psl_reminder.Rd |only pslr-1.2.1/pslr/man/psl_rules.Rd | 2 pslr-1.2.1/pslr/man/psl_snapshots.Rd |only pslr-1.2.1/pslr/man/psl_status.Rd |only pslr-1.2.1/pslr/man/pslr-package.Rd | 20 pslr-1.2.1/pslr/tests/testthat/fixtures/oracle-baseline.rds |binary pslr-1.2.1/pslr/tests/testthat/freshness.feature |only pslr-1.2.1/pslr/tests/testthat/helper-active.R | 130 ++ pslr-1.2.1/pslr/tests/testthat/setup-steps.R | 99 + pslr-1.2.1/pslr/tests/testthat/test-acceptance.R |only pslr-1.2.1/pslr/tests/testthat/test-bundled-data.R | 17 pslr-1.2.1/pslr/tests/testthat/test-cache-prune.R | 360 +++++- pslr-1.2.1/pslr/tests/testthat/test-canonicalize.R | 67 + pslr-1.2.1/pslr/tests/testthat/test-dedup.R | 9 pslr-1.2.1/pslr/tests/testthat/test-diff.R |only pslr-1.2.1/pslr/tests/testthat/test-freshness-schema.R |only pslr-1.2.1/pslr/tests/testthat/test-generation-store.R |only pslr-1.2.1/pslr/tests/testthat/test-http-transport.R |only pslr-1.2.1/pslr/tests/testthat/test-locking.R |only pslr-1.2.1/pslr/tests/testthat/test-migration.R |only pslr-1.2.1/pslr/tests/testthat/test-parser.R | 23 pslr-1.2.1/pslr/tests/testthat/test-profile-rebuild.R | 18 pslr-1.2.1/pslr/tests/testthat/test-publication.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh-conditions.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh-integration.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh-machine.R |only pslr-1.2.1/pslr/tests/testthat/test-refresh.R | 465 ++------ pslr-1.2.1/pslr/tests/testthat/test-reminder.R |only pslr-1.2.1/pslr/tests/testthat/test-security.R | 59 - pslr-1.2.1/pslr/tests/testthat/test-snapshots.R |only pslr-1.2.1/pslr/tests/testthat/test-status.R |only pslr-1.2.1/pslr/tests/testthat/test-url-policy.R |only pslr-1.2.1/pslr/tests/testthat/test-use.R | 18 pslr-1.2.1/pslr/tests/testthat/test-validator-policy.R |only pslr-1.2.1/pslr/tests/testthat/test-version-rules.R | 49 pslr-1.2.1/pslr/tools |only pslr-1.2.1/pslr/vignettes/introduction.Rmd | 280 ++++- 73 files changed, 2795 insertions(+), 1167 deletions(-)
Title: Some Utilities for Developing Data Science Software
Description: A collection of general-purpose helper functions that I (and maybe
others) find useful when developing data science software. Includes tools
for simulation, data transformation, input validation, and more.
Author: Lennart Oelschlaeger [aut, cre]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between oeli versions 0.7.7 dated 2026-09-04 and 0.7.8 dated 2026-09-14
oeli-0.7.7/oeli/inst/include/oeli_RcppExports.h |only oeli-0.7.7/oeli/src/dirichlet.cpp |only oeli-0.7.7/oeli/src/mixnorm.cpp |only oeli-0.7.7/oeli/src/mvnorm.cpp |only oeli-0.7.7/oeli/src/tnorm.cpp |only oeli-0.7.7/oeli/src/wishart.cpp |only oeli-0.7.8/oeli/DESCRIPTION | 6 oeli-0.7.8/oeli/MD5 | 145 +-- oeli-0.7.8/oeli/NEWS.md | 11 oeli-0.7.8/oeli/R/RcppExports.R | 16 oeli-0.7.8/oeli/R/check_correlation_matrix.R | 2 oeli-0.7.8/oeli/R/check_covariance_matrix.R | 2 oeli-0.7.8/oeli/R/check_list_of_lists.R | 2 oeli-0.7.8/oeli/R/check_probability_vector.R | 2 oeli-0.7.8/oeli/R/check_transition_probability_matrix.R | 5 oeli-0.7.8/oeli/R/chunk_vector.R | 4 oeli-0.7.8/oeli/R/correlated_regressors.R | 32 oeli-0.7.8/oeli/R/dictionary.R | 26 oeli-0.7.8/oeli/R/dirichlet.R | 34 oeli-0.7.8/oeli/R/find_namespace_calls.R | 6 oeli-0.7.8/oeli/R/function_arguments.R | 8 oeli-0.7.8/oeli/R/function_body.R | 2 oeli-0.7.8/oeli/R/function_defaults.R | 5 oeli-0.7.8/oeli/R/gaussian_tv.R | 1 oeli-0.7.8/oeli/R/insert_vector_entry.R | 2 oeli-0.7.8/oeli/R/match_numerics.R | 35 oeli-0.7.8/oeli/R/mixnorm.R | 73 + oeli-0.7.8/oeli/R/mvnorm.R | 13 oeli-0.7.8/oeli/R/occurrence_info.R | 6 oeli-0.7.8/oeli/R/print_matrix.R | 3 oeli-0.7.8/oeli/R/sample_correlation_matrix.R | 2 oeli-0.7.8/oeli/R/sample_covariance_matrix.R | 2 oeli-0.7.8/oeli/R/simulate_markov_chain.R | 2 oeli-0.7.8/oeli/R/simulator.R | 3 oeli-0.7.8/oeli/R/split_vector_at.R | 2 oeli-0.7.8/oeli/R/storage.R | 16 oeli-0.7.8/oeli/R/subsets.R | 4 oeli-0.7.8/oeli/R/system_information.R | 2 oeli-0.7.8/oeli/R/tnorm.R | 95 +- oeli-0.7.8/oeli/R/unexpected_error.R | 2 oeli-0.7.8/oeli/R/wishart.R | 40 oeli-0.7.8/oeli/README.md | 30 oeli-0.7.8/oeli/inst/include/dirichlet.h | 28 oeli-0.7.8/oeli/inst/include/mixnorm.h | 79 + oeli-0.7.8/oeli/inst/include/mvnorm.h | 483 +++++++++- oeli-0.7.8/oeli/inst/include/oeli.h | 15 oeli-0.7.8/oeli/inst/include/tnorm.h | 89 + oeli-0.7.8/oeli/inst/include/wishart.h | 44 oeli-0.7.8/oeli/man/Storage.Rd | 10 oeli-0.7.8/oeli/man/check_probability_vector.Rd | 2 oeli-0.7.8/oeli/man/chunk_vector.Rd | 4 oeli-0.7.8/oeli/man/ddirichlet.Rd | 6 oeli-0.7.8/oeli/man/dmixnorm.Rd | 73 + oeli-0.7.8/oeli/man/dmvnorm.Rd | 11 oeli-0.7.8/oeli/man/dtnorm.Rd | 36 oeli-0.7.8/oeli/man/dwishart.Rd | 20 oeli-0.7.8/oeli/man/function_body.Rd | 2 oeli-0.7.8/oeli/man/match_numerics.Rd | 4 oeli-0.7.8/oeli/man/occurrence_info.Rd | 6 oeli-0.7.8/oeli/man/sample_correlation_matrix.Rd | 2 oeli-0.7.8/oeli/man/sample_covariance_matrix.Rd | 2 oeli-0.7.8/oeli/man/split_vector_at.Rd | 2 oeli-0.7.8/oeli/man/subsets.Rd | 4 oeli-0.7.8/oeli/man/system_information.Rd | 2 oeli-0.7.8/oeli/src/RcppExports.cpp | 614 ------------- oeli-0.7.8/oeli/src/internal.cpp | 52 - oeli-0.7.8/oeli/src/internal.h | 19 oeli-0.7.8/oeli/src/test-tnorm.cpp | 8 oeli-0.7.8/oeli/tests/testthat/test-cpp.R | 4 oeli-0.7.8/oeli/tests/testthat/test-dirichlet.R | 5 oeli-0.7.8/oeli/tests/testthat/test-find_namespace_calls.R |only oeli-0.7.8/oeli/tests/testthat/test-match_numerics.R | 9 oeli-0.7.8/oeli/tests/testthat/test-mixnorm.R | 12 oeli-0.7.8/oeli/tests/testthat/test-package_logo.R | 4 oeli-0.7.8/oeli/tests/testthat/test-simulator.R | 3 oeli-0.7.8/oeli/tests/testthat/test-tnorm.R | 33 oeli-0.7.8/oeli/tests/testthat/test-wishart.R | 7 77 files changed, 1298 insertions(+), 1037 deletions(-)
Title: Information Criterion and Scan Statistic Approach for Detecting
Multiple Disease Clusters
Description: Detecting multiple disease clusters using the
information criterion and scan statistic approach developed by
Takahashi and Shimadzu (2020) <doi:10.1186/s12942-020-00228-y>.
Author: Takahiro Otani [aut, cre] ,
Kunihiko Takahashi [aut]
Maintainer: Takahiro Otani <t.otani@aichi-cc.jp>
Diff between multiflexscan versions 0.1.0 dated 2026-07-24 and 0.2.0 dated 2026-09-14
DESCRIPTION | 12 ++-- MD5 | 25 +++++++--- NAMESPACE | 15 +++++- NEWS.md | 29 ++++++++++++ R/accessors.R |only R/multiflexscan.R | 89 +++++++++++++++++++++++-------------- man/AIC.multiflexscan.Rd |only man/as.data.frame.multiflexscan.Rd |only man/choropleth.Rd | 2 man/clusters.Rd |only man/coef.multiflexscan.Rd |only man/get_setting.Rd |only man/multiflexscan.Rd | 16 +++++- man/nclusters.Rd |only man/nobs.multiflexscan.Rd |only man/plot.multiflexscan.Rd | 2 man/pvalue.Rd |only tests |only 18 files changed, 139 insertions(+), 51 deletions(-)
Title: Multivariate Analysis for Neuroimaging Data
Description: Provides functions for multivariate analysis and visualization of neuroimaging data. The package contains the functions and example data used in the book 'Multivariate Analysis for Neuroimaging Data' by Kawaguchi (2021, ISBN:
978-0367255329). It includes utilities for image visualization, image data matrix construction, basis reconstruction, multicomponent visualization, predictive modeling, simulation, and multiblock analysis. Version
3.0 preserves the public interfaces used in the accompanying package vignettes.
Author: Atsushi Kawaguchi [aut, cre]
Maintainer: Atsushi Kawaguchi <kawa_a24@yahoo.co.jp>
Diff between mand versions 2.0 dated 2023-09-12 and 3.0 dated 2026-09-14
mand-2.0/mand/R/src.r |only mand-3.0/mand/DESCRIPTION | 24 mand-3.0/mand/MD5 | 94 - mand-3.0/mand/NAMESPACE | 79 - mand-3.0/mand/NEWS.md |only mand-3.0/mand/R/compat-color-helpers.R |only mand-3.0/mand/R/compat-public-api-helpers.R |only mand-3.0/mand/R/public-api-legacy.R |only mand-3.0/mand/README.md |only mand-3.0/mand/build/vignette.rds |binary mand-3.0/mand/inst/WORDLIST |only mand-3.0/mand/inst/config |only mand-3.0/mand/inst/doc/a_overview.R | 9 mand-3.0/mand/inst/doc/a_overview.Rmd | 1 mand-3.0/mand/inst/doc/a_overview.html | 642 +++++++++- mand-3.0/mand/inst/doc/b_Introduction.R | 68 - mand-3.0/mand/inst/doc/b_Introduction.html | 4 mand-3.0/mand/inst/doc/c_Brain_Imaging_Data.R | 284 ++-- mand-3.0/mand/inst/doc/c_Brain_Imaging_Data.html | 4 mand-3.0/mand/inst/doc/d_Common_Statistical_Approach.R | 400 +++--- mand-3.0/mand/inst/doc/d_Common_Statistical_Approach.html | 4 mand-3.0/mand/inst/doc/e_Multivariate_Approach_Matrix_Decomposition.R | 358 ++--- mand-3.0/mand/inst/doc/e_Multivariate_Approach_Matrix_Decomposition.html | 4 mand-3.0/mand/inst/doc/f_Multivariate_Approach_Prediction_Model.R | 348 ++--- mand-3.0/mand/inst/doc/f_Multivariate_Approach_Prediction_Model.html | 4 mand-3.0/mand/inst/doc/g_Multi-block_Approach.R | 146 +- mand-3.0/mand/inst/doc/g_Multi-block_Approach.html | 4 mand-3.0/mand/man/atlas.Rd | 33 mand-3.0/mand/man/atlasdatasets.Rd | 33 mand-3.0/mand/man/atlastable.Rd | 8 mand-3.0/mand/man/baseimg.Rd | 33 mand-3.0/mand/man/basisprod.Rd | 2 mand-3.0/mand/man/coat.Rd | 4 mand-3.0/mand/man/diffimg.Rd | 33 mand-3.0/mand/man/exbrain.Rd | 33 mand-3.0/mand/man/imgdatamat.Rd | 4 mand-3.0/mand/man/mand-package.Rd | 33 mand-3.0/mand/man/mask.Rd | 33 mand-3.0/mand/man/multicoat.Rd | 6 mand-3.0/mand/man/multicompplot.Rd | 8 mand-3.0/mand/man/multirec.Rd | 8 mand-3.0/mand/man/ptest.Rd | 6 mand-3.0/mand/man/rbfunc.Rd | 2 mand-3.0/mand/man/rec.Rd | 2 mand-3.0/mand/man/sdevimg.Rd | 33 mand-3.0/mand/man/simbrain.Rd | 2 mand-3.0/mand/man/sizechange.Rd | 2 mand-3.0/mand/man/template.Rd | 33 mand-3.0/mand/tests |only mand-3.0/mand/vignettes/a_overview.Rmd | 1 50 files changed, 1679 insertions(+), 1150 deletions(-)
Title: High-Dimensional Methods for Elliptically Symmetric
Distributions
Description: Fast, documented implementations of robust estimation, testing,
dimension reduction, classification, and clustering methods for
high-dimensional elliptically symmetric data. Computational kernels use
'Rcpp' and 'RcppArmadillo'. The package follows methods reviewed in Feng
(2026), "High-Dimensional Data Analysis for Elliptically Symmetric
Distributions" <https://github.com/flnankai/HDElliptical/releases>.
Author: Long Feng [aut, cre, cph] ,
Dan Zhuang [ctb]
Maintainer: Long Feng <flnankai@nankai.edu.cn>
Diff between HDElliptical versions 0.1.2 dated 2026-09-09 and 0.1.3 dated 2026-09-14
DESCRIPTION | 6 LICENSE | 4 MD5 | 692 +- NAMESPACE | 368 - NEWS.md | 8 R/HDElliptical-package.R | 26 R/chapter1-foundations.R | 1274 +-- R/chapter2-adaptive-rank.R | 1138 +-- R/chapter2-aspu.R | 1628 ++-- R/chapter2-classical-rank.R | 632 - R/chapter2-clx-test.R | 828 +- R/chapter2-composite-bf.R | 554 - R/chapter2-erht.R | 1492 ++-- R/chapter2-feng-sun.R | 460 - R/chapter2-fzw-sign.R | 868 +- R/chapter2-fzwz-bf.R | 400 - R/chapter2-generic-weighted.R | 1124 +-- R/chapter2-hd-spatial-rank.R | 846 +- R/chapter2-hotelling.R | 608 - R/chapter2-inst.R | 648 - R/chapter2-leaveout-tests.R | 482 - R/chapter2-lwz-sign.R | 762 +- R/chapter2-normal-reference-one-sample.R | 1262 +-- R/chapter2-normal-reference-scale.R | 794 +- R/chapter2-pdq-sign.R | 1056 +-- R/chapter2-quadratic-tests.R | 486 - R/chapter2-skk-test.R | 354 - R/chapter2-spatial-sign-maxsum.R | 1330 ++-- R/chapter2-strongcorr-sign.R | 880 +- R/chapter2-tinst.R | 566 - R/chapter2-wang-xu-randomization.R | 778 +- R/chapter2-weighted-maxsum.R | 1632 ++-- R/chapter2-wpl-sign.R | 300 R/chapter3-elliptical-factor.R | 1472 ++-- R/chapter3-elliptical-sphericity.R | 1578 ++-- R/chapter3-gaussian-classical.R | 1088 +-- R/chapter3-gaussian-estimators.R | 994 +-- R/chapter3-gaussian-highdim.R | 1012 +-- R/chapter3-gaussian-precision.R | 1162 +-- R/chapter3-hdhr.R | 1048 +-- R/chapter3-ollila-shrinkage.R | 2790 ++++---- R/chapter3-tensor-elliptical-graph.R | 1226 +-- R/chapter4-alpha-fdr-conditional.R | 3318 +++++----- R/chapter4-alpha.R | 2214 +++--- R/chapter4-change-point.R | 4256 ++++++------- R/chapter4-completion.R | 1522 ++-- R/chapter4-independence.R | 1614 ++-- R/chapter4-radial-directional.R | 1202 +-- R/chapter4-white-noise.R | 1268 +-- R/chapter5-classical.R | 3570 +++++----- R/chapter5-gqda.R | 1772 ++--- R/chapter5-linear.R | 2004 +++--- R/chapter5-sparse-qda.R | 2234 +++--- R/chapter6-classical-factor.R | 2248 +++--- R/chapter6-robust-spectral.R | 1530 ++-- R/chapter6-sparse-pca-cca.R | 2138 +++--- R/chapter6-sscca.R | 1360 ++-- R/chapter7-chime-ifpca.R | 1588 ++-- R/chapter7-classical-sparse.R | 1762 ++--- R/chapter7-spatial-clustering.R | 2506 +++---- R/utils.R | 344 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 58 inst/benchmarks/README.md | 38 inst/benchmarks/run-benchmarks.R | 400 - inst/doc/chapter-1-foundations.Rmd | 190 inst/doc/chapter-2-location-tests.Rmd | 374 - man/acg_loglik.Rd | 64 man/bai_saranadasa_two_sample_test.Rd | 106 man/basic_shape.Rd | 144 man/basics_shape.Rd | 128 man/bickel_levina_covariance_threshold.Rd | 104 man/book_gaussian_alpha_cauchy_test.Rd | 94 man/cai_liu_adaptive_covariance_threshold.Rd | 118 man/cai_liu_xia_two_sample_test.Rd | 198 man/cca_bartlett_test.Rd | 78 man/ch4_cp_cusum_cpp.Rd | 40 man/ch4_cp_dms_moments_cpp.Rd | 40 man/ch4_cp_erht_moments_cpp.Rd | 42 man/ch4_cp_ordered_pair_square_sum_cpp.Rd | 36 man/ch4_cp_scaled_hr_cpp.Rd | 54 man/ch4_cp_spatial_median_cpp.Rd | 50 man/chen_qin_two_sample_test.Rd | 106 man/chen_song_feng_rank_white_noise_test.Rd | 86 man/chen_zhang_zhong_covariance_test.Rd | 76 man/cheng_sscm_equality_test.Rd | 164 man/chime_clustering.Rd | 176 man/classical_cca.Rd | 110 man/classical_cusum_test.Rd | 132 man/classical_lda_classifier.Rd | 72 man/classical_pca.Rd | 110 man/classical_qda_classifier.Rd | 76 man/classical_spatial_tests.Rd | 178 man/clime_precision.Rd | 134 man/composite_t2_two_sample_test.Rd | 212 man/conditional_alpha_sieve_design.Rd | 114 man/conditional_alpha_sieve_fit.Rd | 80 man/conditional_factor_wald_test.Rd | 66 man/cpp_aspu_power_moments.Rd | 44 man/cpp_aspu_standardize.Rd | 70 man/cpp_bai_saranadasa_two_sample.Rd | 36 man/cpp_ch2_generic_weighted_geometry.Rd | 48 man/cpp_ch2_generic_weighted_initial.Rd | 36 man/cpp_ch2_generic_weighted_quadratic.Rd | 40 man/cpp_ch2_generic_weighted_step.Rd | 52 man/cpp_ch4_afc_css_components.Rd | 46 man/cpp_ch4_afc_light_components.Rd | 68 man/cpp_ch4_afc_project.Rd | 42 man/cpp_ch4_afc_spatial_kendall.Rd | 36 man/cpp_ch4_alpha_ols.Rd | 40 man/cpp_ch4_completion_standardized_radii.Rd | 40 man/cpp_ch4_completion_vector_u_core.Rd | 76 man/cpp_ch4_completion_weighted_alpha_q.Rd | 44 man/cpp_ch4_lfm_spatial_sign_core.Rd | 70 man/cpp_ch7sc_assign_euclidean.Rd | 48 man/cpp_ch7sc_assign_metric.Rd | 48 man/cpp_ch7sc_feature_scores.Rd | 36 man/cpp_ch7sc_geometry.Rd | 52 man/cpp_ch7sc_sscm_metric.Rd | 56 man/cpp_chen_qin_two_sample.Rd | 36 man/cpp_clx_adaptive_precision.Rd | 50 man/cpp_clx_two_sample.Rd | 44 man/cpp_composite_t2_two_sample.Rd | 44 man/cpp_feng_sun_one_sample.Rd | 48 man/cpp_feng_wang_pdq_two_sample.Rd | 86 man/cpp_feng_zou_wang_two_sample_sign.Rd | 48 man/cpp_fzwz_bf_two_sample.Rd | 36 man/cpp_inst_one_sample.Rd | 54 man/cpp_li_wang_zou_two_sample_sign.Rd | 52 man/cpp_park_ayyala_one_sample.Rd | 40 man/cpp_scaled_spatial_median.Rd | 58 man/cpp_skk_two_sample.Rd | 36 man/cpp_srivastava_du_one_sample.Rd | 40 man/cpp_tinst_two_sample.Rd | 48 man/cpp_wang_peng_li_one_sample.Rd | 40 man/cpp_wang_xu_approx_randomization.Rd | 74 man/cpp_weighted_scaled_spatial_median.Rd | 54 man/cpp_yzf_weighted_max.Rd | 56 man/cpp_yzf_weighted_maxsum.Rd | 58 man/cpp_zhang_feng_one_sample_scores.Rd | 40 man/cpp_zhang_feng_parzen_tau.Rd | 40 man/cpp_zhang_feng_two_sample_scores.Rd | 40 man/cpp_zhang_zhou_guo_one_sample.Rd | 42 man/dsda_classifier.Rd | 132 man/ec2_covariance.Rd | 156 man/elliptical_factor_number.Rd | 108 man/elliptical_factor_precision.Rd | 110 man/elliptical_oracle_classifier.Rd | 124 man/elliptical_regularized_hotelling_cauchy_test.Rd | 158 man/elliptical_regularized_hotelling_test.Rd | 182 man/erht_change_point_test.Rd | 210 man/erht_wbs.Rd | 204 man/fair_classifier.Rd | 138 man/fantope_pca.Rd | 134 man/feng_jiang_liu_xiong_panel_independence_test.Rd | 108 man/feng_lan_liu_ma_alpha_max_test.Rd | 68 man/feng_liu_ma_white_noise_test.Rd | 96 man/feng_liu_rank_sphericity_test.Rd | 114 man/feng_spatial_rank_proportionality_test.Rd | 132 man/feng_sun_one_sample_test.Rd | 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man/kendall_factor_number.Rd | 114 man/kendall_pca.Rd | 118 man/li_chen_covariance_test.Rd | 78 man/li_shao_sparse_qda.Rd | 128 man/li_wang_zou_two_sample_sign_test.Rd | 254 man/linear_pool_covariance.Rd | 186 man/liu_feng_ma_spatial_sign_alpha_test.Rd | 192 man/lloyd_kmeans.Rd | 158 man/lpd_classifier.Rd | 142 man/ma_feng_wang_bao_conditional_alpha_test.Rd | 116 man/ma_lan_su_tsai_conditional_alpha_sum_test.Rd | 114 man/mauchly_sphericity_test.Rd | 70 man/nagao_identity_test.Rd | 66 man/normalize_shape.Rd | 56 man/ollila_raninen_shrinkage_covariance.Rd | 158 man/oracle_weighted_sign_sum_test.Rd | 158 man/park_ayyala_one_sample_test.Rd | 104 man/pesaran_cd_test.Rd | 68 man/pesaran_yamagata_alpha_test.Rd | 96 man/pmd_sparse_cca.Rd | 148 man/pmd_sparse_pca.Rd | 128 man/poet_covariance.Rd | 122 man/poet_tme.Rd | 146 man/predict.hd_classifier_fit.Rd | 50 man/predict.semc_fit.Rd | 46 man/regularized_spatial_sign_covariance.Rd | 112 man/relliptical.Rd | 72 man/robust_factor_subspace.Rd | 132 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man/spatial_sign_precision_lda.Rd | 146 man/spatial_sign_sphericity_test.Rd | 84 man/srivastava_du_one_sample_test.Rd | 102 man/srivastava_katayama_kano_two_sample_test.Rd | 152 man/sscca.Rd | 188 man/sscm.Rd | 70 man/sslda.Rd | 150 man/ssqda.Rd | 152 man/tensor_spatial_sign_precision.Rd | 224 man/threshold_spatial_sign_precision.Rd | 74 man/threshold_tensor_spatial_sign_precision.Rd | 78 man/tinst_two_sample_test.Rd | 180 man/truncated_power_pca.Rd | 122 man/tyler_shape.Rd | 106 man/wang_feng_dms_test.Rd | 138 man/wang_liu_feng_ma_serial_panel_test.Rd | 136 man/wang_liu_feng_vector_independence_test.Rd | 144 man/wang_liu_feng_vector_u_independence_test.Rd | 160 man/wang_peng_li_one_sample_test.Rd | 142 man/wang_xu_approx_randomization_test.Rd | 222 man/wang_yao_corrected_john_test.Rd | 68 man/wang_yao_corrected_lrt.Rd | 88 man/wang_zhao_feng_wang_mutual_fund_fdr.Rd | 220 man/weighted_scaled_spatial_median.Rd | 130 man/weighted_spatial_sign_alpha_oracle_test.Rd | 124 man/white_noise_portmanteau_test.Rd | 86 man/xu_lin_wei_pan_aspu_test.Rd | 246 man/yan_zhao_feng_weighted_max_test.Rd | 132 man/yan_zhao_feng_weighted_maxsum_test.Rd | 162 man/zhang_feng_radial_directional_test.Rd | 280 man/zhang_feng_rank_tests.Rd | 286 man/zhang_zhou_guo_tests.Rd | 276 man/zhang_zhu_zhang_two_sample_test.Rd | 244 man/zhao_chen_wang_spatial_sign_white_noise_test.Rd | 90 man/zhao_chen_zi_inst_alpha_test.Rd | 126 man/zhao_conditional_spatial_sign_sum_test.Rd | 124 man/zhao_feng_strongcorr_sign_test.Rd | 224 man/zhao_feng_wang_wang_robust_alpha_test.Rd | 184 man/zhao_wang_conditional_spatial_sign_test.Rd | 140 man/zhao_yang_zhang_feng_wang_adaptive_sphericity_test.Rd | 126 man/zhao_yang_zhang_feng_wang_sign_max_test.Rd | 116 man/zou_peng_feng_wang_sphericity_test.Rd | 132 tests/testthat.R | 8 tests/testthat/test-chapter1-foundations.R | 768 +- tests/testthat/test-chapter2-adaptive-rank.R | 954 +- tests/testthat/test-chapter2-aspu.R | 1248 +-- 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tests/testthat/test-chapter4-change-point.R | 1564 ++-- tests/testthat/test-chapter4-completion.R | 992 +-- tests/testthat/test-chapter4-independence.R | 1674 ++--- tests/testthat/test-chapter4-radial-directional.R | 738 +- tests/testthat/test-chapter4-white-noise.R | 952 +- tests/testthat/test-chapter5-classical.R | 1112 +-- tests/testthat/test-chapter5-gqda.R | 526 - tests/testthat/test-chapter5-linear.R | 1284 +-- tests/testthat/test-chapter5-sparse-qda.R | 1050 +-- tests/testthat/test-chapter6-classical-factor.R | 1336 ++-- tests/testthat/test-chapter6-robust-spectral.R | 1230 +-- tests/testthat/test-chapter6-sparse-pca-cca.R | 914 +- tests/testthat/test-chapter6-sscca.R | 620 - tests/testthat/test-chapter7-chime-ifpca.R | 1460 ++-- tests/testthat/test-chapter7-classical-sparse.R | 1196 +-- tests/testthat/test-chapter7-spatial-clustering.R | 1240 +-- vignettes/chapter-1-foundations.Rmd | 190 vignettes/chapter-2-location-tests.Rmd | 374 - 347 files changed, 78347 insertions(+), 78337 deletions(-)
Title: Managing and Visualizing Brain Surface Data
Description: Provides high-level access to neuroimaging data from standard software packages like 'FreeSurfer' <https://freesurfer.net/> on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and statistical results directly in 'R'.
Author: Tim Schaefer [aut, cre] ,
The General Hospital Corporation [cph] ,
Van Essen Lab [cph] ,
Alexander Schaefer [cph] ,
Ru Kong [cph] ,
Lingzhong Fan [cph] ,
Edmund T. Rolls [cph] ,
Matthew F. Glasser [cph] ,
Kathryn Mills [cph]
Maintainer: Tim Schaefer <ts+code@rcmd.org>
Diff between fsbrain versions 0.7.0 dated 2026-08-23 and 0.8.0 dated 2026-09-14
DESCRIPTION | 48 +++- MD5 | 136 +++++++----- NAMESPACE | 6 R/cbar.R | 7 R/coloredmesh.R | 34 +++ R/helpers.R | 11 - R/morph_atlas_agg.R | 63 +++++ R/optdata.R | 60 +++++ R/scimesh_bridge.R | 26 ++ R/spherical.R | 22 +- R/view_framing.R |only R/vis_meshes.R | 65 ++++++ R/vis_multiview.R | 161 ++++++++------- R/vis_volume.R | 101 ++++++++- inst/COPYRIGHTS |only inst/doc/fsbrain_with_scimesh.R | 4 inst/doc/fsbrain_with_scimesh.Rmd | 10 inst/doc/fsbrain_with_scimesh.html | 10 inst/extdata/attribution |only inst/extdata/pkgfilecache_manifest_fs_LR_32_atlases.csv |only inst/extdata/pkgfilecache_manifest_fs_LR_32_meshes.csv |only inst/extdata/pkgfilecache_manifest_fsaverage_atlases.csv |only man/Triangles3D.to.coloredmesh.Rd |only man/agg.res.long.to.wide.Rd |only man/bounding_sphere.Rd |only man/coloredmesh.from.annot.Rd | 1 man/coloredmesh.from.label.Rd | 1 man/coloredmesh.from.mask.Rd | 1 man/coloredmesh.from.morph.native.Rd | 1 man/coloredmesh.from.morph.standard.Rd | 1 man/coloredmesh.from.morphdata.Rd | 1 man/coloredmeshes.from.color.Rd | 1 man/compute.surface.contour.slices.Rd | 3 man/download_fs_LR_32_atlases.Rd |only man/download_fs_LR_32_meshes.Rd |only man/download_fsaverage_atlases.Rd |only man/draw.segments.on.image.Rd | 5 man/handle.rglactions.highlight.points.Rd | 16 - man/sph2fs.Rd | 12 - man/view_label3d.Rd |only man/vis.view.Rd |only man/volvis.lb.with.surface.Rd | 7 man/volvis.lightbox.Rd | 5 man/volvis.slices.with.surface.Rd | 8 tests/testthat/fsbrain_issue50_export.png |binary tests/testthat/helper-functions.R | 77 +++++++ tests/testthat/test-brainview_magic.R | 1 tests/testthat/test-camera_unification.R |only tests/testthat/test-curvature.R | 2 tests/testthat/test-fsdir_abstraction_subject.R | 1 tests/testthat/test-geodesic.R | 4 tests/testthat/test-highlight.R | 5 tests/testthat/test-issue50.R | 2 tests/testthat/test-mesh_helpers.R | 121 +++++++++++ tests/testthat/test-morph_atlas_agg.R | 53 ++++ tests/testthat/test-r_vis_volume.R | 3 tests/testthat/test-r_vis_volume_scale.R |only tests/testthat/test-rglactions.R | 2 tests/testthat/test-scimesh_bridge.R | 29 ++ tests/testthat/test-spherical.R | 47 ++++ tests/testthat/test-u_vis_volume_3d.R | 9 tests/testthat/test-vis-volume-on-surface.R | 5 tests/testthat/test-vis.R | 12 + tests/testthat/test-volume.R | 1 tests/testthat/test-w_vis_group.R | 2 tests/testthat/test-x_vis_meshes.R | 2 tests/testthat/test-y_vis_multiview.R | 11 + tests/testthat/test-z_vis_surface_background.R | 3 vignettes/fsbrain_with_scimesh.Rmd | 10 69 files changed, 1024 insertions(+), 205 deletions(-)
Title: Exploratory Factor Analysis Functions for Assessing
Dimensionality
Description: Functions for an assortment of factor analysis-related
procedures, including eleven procedures for determining the number of
factors; for factor analysis with multiple options for methods of extraction
and rotation; for bi-factor analysis; for extension factor analysis;
options for running the analyses using either raw data
or correlation matrices as input and with options
for conducting the analyses using Pearson correlations,
Kendall correlations, Spearman correlations, gamma correlations, or polychoric
correlations; wrapper 'lavaan'-based functions for factorial invariance
and exploratory structural equation modeling;
functions for the factor-ability of a correlation matrix,
for the congruence between factors from different datasets, for the
assessment of local independence, for the assessment of factor solution
complexity, for internal consistency, and for correcting Pearson correlation
coefficients for attenuation due to unreliability.
Auerswald & Moshagen (2019, <doi:10.10 [...truncated...]
Author: Brian P. O'Connor [aut, cre]
Maintainer: Brian P. O'Connor <brian.oconnor@ubc.ca>
This is a re-admission after prior archival of version 0.1.8.8 dated 2026-07-21
Diff between EFA.dimensions versions 0.1.8.8 dated 2026-07-21 and 0.1.9.1 dated 2026-09-14
DESCRIPTION | 19 MD5 | 94 +-- NAMESPACE | 24 R/BIFACTOR.R | 320 +++++++----- R/DIMTESTS.R | 8 R/EFA.R | 125 +--- R/EFA_SCORES.R | 3 R/EMPKC.R | 3 R/ESEM.R | 475 +++++++++++------ R/EXTENSION_FA.R | 3 R/FACTORABILITY.R | 3 R/Factorial_Invariance.R | 306 ++++++++++- R/INTERNAL.CONSISTENCY.R | 19 R/LOCALDEP.R | 3 R/MAP.R | 3 R/NEVALSGT1.R | 3 R/OMEGA.R | 229 ++++---- R/PARALLEL.R | 3 R/PCA.R | 158 ++--- R/PLOT_Invariance.R |only R/RAWPAR.R | 3 R/ROOTFIT.R | 3 R/SALIENT.R | 3 R/SCREE_PLOT.R | 3 R/SESCREE.R | 3 R/SMT.R | 3 R/utilities_bifactor.R | 578 +++++++++++++++------ R/utilities_boc.R | 613 +++++++++++++++++++++++ build/vignette.rds |binary data/data_HS_1939.rda |only data/data_SDT.rda |only inst/doc/Coefficient_descriptions_vignettes.Rmd | 24 inst/doc/Coefficient_descriptions_vignettes.html | 31 - inst/doc/EFA_BIFACTOR_vignettes.Rmd | 4 inst/doc/EFA_BIFACTOR_vignettes.html | 47 - inst/doc/EXAMPLES_vignettes.R |only inst/doc/EXAMPLES_vignettes.Rmd |only inst/doc/EXAMPLES_vignettes.html |only inst/doc/Number_of_factors_tests_vignettes.html | 4 man/BIFACTOR.Rd | 229 ++++++-- man/EFA.Rd | 66 +- man/EFA.dimensions-package.Rd | 8 man/ESEM.Rd | 96 ++- man/Factorial_Invariance.Rd | 165 +++++- man/INTERNAL_CONSISTENCY.Rd | 9 man/OMEGA.Rd | 227 ++++++-- man/PCA.Rd | 62 +- man/PLOT_Invariance.Rd |only man/data_HS_1939.Rd |only man/data_SDT.Rd |only vignettes/Coefficient_descriptions_vignettes.Rmd | 24 vignettes/EFA_BIFACTOR_vignettes.Rmd | 4 vignettes/EXAMPLES_vignettes.Rmd |only 53 files changed, 2928 insertions(+), 1082 deletions(-)
More information about EFA.dimensions at CRAN
Permanent link
Title: Create and Evaluate Probability Distributions
Description: Create and evaluate probability distribution objects from a
variety of families or define custom distributions. Automatically compute
distributional properties, even when they have not been specified.
This package supports statistical modeling and simulations, and forms
the core of the probaverse suite of R packages.
Author: Vincenzo Coia [aut, cre, cph],
Amogh Joshi [ctb],
Shuyi Tan [ctb],
Zhipeng Zhu [ctb],
olivroy [ctb]
Maintainer: Vincenzo Coia <vincenzo.coia@gmail.com>
Diff between distionary versions 0.1.1 dated 2026-04-27 and 0.2.0 dated 2026-09-14
distionary-0.1.1/distionary/R/eval_from_network-range.R |only distionary-0.2.0/distionary/DESCRIPTION | 11 distionary-0.2.0/distionary/MD5 | 183 ++- distionary-0.2.0/distionary/NAMESPACE | 43 distionary-0.2.0/distionary/NEWS.md | 80 + distionary-0.2.0/distionary/R/distionary-package.R | 2 distionary-0.2.0/distionary/R/distribution.R | 114 +- distionary-0.2.0/distionary/R/dst_beta.R | 3 distionary-0.2.0/distionary/R/dst_binom.R | 3 distionary-0.2.0/distionary/R/dst_cauchy.R | 3 distionary-0.2.0/distionary/R/dst_chisq.R | 3 distionary-0.2.0/distionary/R/dst_degenerate.R | 2 distionary-0.2.0/distionary/R/dst_exp.R | 3 distionary-0.2.0/distionary/R/dst_f.R | 3 distionary-0.2.0/distionary/R/dst_finite.R | 3 distionary-0.2.0/distionary/R/dst_geom.R | 3 distionary-0.2.0/distionary/R/dst_gev.R | 6 distionary-0.2.0/distionary/R/dst_gp.R | 3 distionary-0.2.0/distionary/R/dst_gumbel.R |only distionary-0.2.0/distionary/R/dst_hyper.R | 3 distionary-0.2.0/distionary/R/dst_lnorm.R | 3 distionary-0.2.0/distionary/R/dst_lp3.R | 42 distionary-0.2.0/distionary/R/dst_nbinom.R | 3 distionary-0.2.0/distionary/R/dst_norm.R | 3 distionary-0.2.0/distionary/R/dst_null.R | 90 + distionary-0.2.0/distionary/R/dst_pearson3.R | 42 distionary-0.2.0/distionary/R/dst_pois.R | 3 distionary-0.2.0/distionary/R/dst_t.R | 3 distionary-0.2.0/distionary/R/dst_unif.R | 3 distionary-0.2.0/distionary/R/dst_weibull.R | 3 distionary-0.2.0/distionary/R/eval_from_network-kurtosis.R | 17 distionary-0.2.0/distionary/R/eval_from_network-mean.R | 11 distionary-0.2.0/distionary/R/eval_from_network-quantile.R | 499 ++++++---- distionary-0.2.0/distionary/R/eval_from_network-skewness.R | 15 distionary-0.2.0/distionary/R/eval_from_network-variance.R | 11 distionary-0.2.0/distionary/R/eval_property.R | 2 distionary-0.2.0/distionary/R/eval_quantile.R | 53 - 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Title: Combinatorics Utilities
Description: Provides routines for combinatorial enumeration including generation of all combinations, permutations,
and lattice points on hypercuboids and simplex lattices. Includes utilities for
multinomial distributions: the multinomial probability mass function, random sampling with varying parameters,
and encoding conversions between simplex representations. Also supplies exact and
log-scale factorial computation and the generalized binomial coefficient for real-valued n. Package
functions include procedures described in Reingold, Nievergelt and Deo (1977) Combinatorial Algorithms:
Theory and Practice (dl.acm.org/citation.cfm?id=1096489), Feller volume 1, and
Nijenhuis and Wilf (1978) Combinatorial Algorithms for Computers and Calculators (ISBN 0125192606 / 9780125192606).
Author: Scott Chasalow [aut],
Vince Carey [cre]
Maintainer: Vince Carey <stvjc@channing.harvard.edu>
Diff between combinat versions 0.0-8 dated 2010-08-05 and 0.0-9 dated 2026-09-14
combinat-0.0-8/combinat/INDEX |only combinat-0.0-9/combinat/DESCRIPTION | 30 +++++++++++++++++++++++------- combinat-0.0-9/combinat/MD5 |only combinat-0.0-9/combinat/NAMESPACE |only combinat-0.0-9/combinat/man/xsimplex.Rd | 2 +- 5 files changed, 24 insertions(+), 8 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') Driver Manager
Description: Provides a developer-facing interface to 'Arrow' Database
Connectivity ('ADBC') for the purposes of driver development, driver
testing, and building high-level database interfaces for users. 'ADBC'
<https://arrow.apache.org/adbc/> is an API standard for database access
libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
This is a re-admission after prior archival of version 0.24.0-2 dated 2026-08-23
Diff between adbcdrivermanager versions 0.24.0-2 dated 2026-08-23 and 0.24.0-3 dated 2026-09-14
DESCRIPTION | 6 - MD5 | 8 +- src/c/driver_manager/adbc_driver_manager.cc | 3 src/c/driver_manager/adbc_driver_manager_internal.h | 6 + src/c/driver_manager/adbc_driver_manager_profiles.cc | 58 ++++++++++++------- 5 files changed, 49 insertions(+), 32 deletions(-)
More information about adbcdrivermanager at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-01 0.1.1
2023-11-21 0.1.0
Title: Genetic Algorithm for Wind Farm Layout Optimization
Description: The genetic algorithm is designed to optimize wind farms of any shape. Each layout is encoded as n unique grid-cell identifiers. It requires a predefined amount of turbines, a unified rotor radius and an average wind speed value for each incoming wind direction. A terrain effect model can be included that downloads an 'SRTM' elevation model and loads a Corine Land Cover raster to approximate surface roughness.
Author: Sebastian Gatscha [aut, cre, cph]
Maintainer: Sebastian Gatscha <sebastian_gatscha@gmx.at>
This is a re-admission after prior archival of version 4.0.0 dated 2025-01-18
Diff between windfarmGA versions 4.0.0 dated 2025-01-18 and 5.0.0 dated 2026-09-14
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Title: Exact Sequential Analysis for Poisson and Binomial Data
Description: Functions to calculate exact critical values, statistical power, expected time to signal, and required sample sizes for performing exact sequential analysis. All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled. For regression versions of the methods, Monte Carlo and asymptotic methods are used.
Author: Ivair Ramos Silva [aut, cre],
Martin Kulldorff [aut]
Maintainer: Ivair Ramos Silva <ivair@ufop.edu.br>
Diff between Sequential versions 4.6.2 dated 2026-09-08 and 4.6.3 dated 2026-09-14
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 1 - R/Analyze.Multinomial.R | 8 +++++++- man/Sequential-package.Rd | 7 +++++-- 5 files changed, 21 insertions(+), 13 deletions(-)
Title: Robustified t-Test
Description: Performs one-sample t-test based on robustified statistics using median/MAD (TA) and Hodges-Lehmann/Shamos (TB). For more details, see Park, Wang and Hwang (2022) <doi:10.7232/iems.2022.21.3.432>. This work was partially supported by the National Research Foundation of Korea (NRF) grant funded by the Korea government (No. 2022R1A2C1091319).
Author: Chanseok Park [aut, cre] ,
Min Wang [ctb]
Maintainer: Chanseok Park <statpnu@gmail.com>
Diff between rt.test versions 1.18.7.9 dated 2018-07-10 and 1.26.9 dated 2026-09-14
DESCRIPTION | 33 +++++++++++++++++++++------------ MD5 | 23 +++++++++++++++-------- R/rt-test-Rprogram.R | 7 ++++--- build |only inst/CITATION | 37 ++++++++++++++++++++++++++----------- inst/NEWS.Rd |only inst/doc |only man/HL.estimate.Rd | 7 +++---- man/Quantiles.TA.Rd | 9 ++++----- man/Quantiles.TB.Rd | 13 +++++-------- man/q.robustified.t.Rd | 12 +++++++++--- man/rt.test.Rd | 20 +++++++++++--------- vignettes |only 13 files changed, 98 insertions(+), 63 deletions(-)
Title: Decision-Oriented Analysis Core for APSIM Next Generation
Outputs
Description: Provides a low-level interface for analysing Agricultural Production Systems sIMulator ('APSIM') Next Generation simulation outputs to support structured decision-making workflows.
Author: Bangyou Zheng [aut, cre]
Maintainer: Bangyou Zheng <zheng.bangyou@gmail.com>
Diff between rapsimng.decide.core versions 0.1.0 dated 2026-08-09 and 0.1.1 dated 2026-09-14
DESCRIPTION | 16 ++++++++-------- MD5 | 4 ++-- README.md | 7 +++++++ 3 files changed, 17 insertions(+), 10 deletions(-)
More information about rapsimng.decide.core at CRAN
Permanent link
Title: Model Selection and Tuning Utilities
Description: Provides a lightweight framework for model selection
and hyperparameter tuning in R. The package offers intuitive tools for
grid search, cross-validation, and combined grid search with cross-validation
that work seamlessly with virtually any modeling package. Designed for
flexibility and ease of use, it standardizes tuning workflows while
remaining fully compatible with a wide range of model interfaces and
estimation functions.
Author: Daniel Molitor [aut, cre]
Maintainer: Daniel Molitor <molitdj97@gmail.com>
This is a re-admission after prior archival of version 0.1.3 dated 2025-12-06
Diff between modeltuning versions 0.1.3 dated 2025-12-06 and 0.1.4 dated 2026-09-14
DESCRIPTION | 12 +- MD5 | 34 +++---- NAMESPACE | 24 ++--- NEWS.md | 4 build/vignette.rds |binary inst/doc/basic-usage.html | 16 +-- inst/doc/data-masking.html | 39 ++++---- inst/doc/scaling-with-aws.R | 2 inst/doc/scaling-with-aws.Rmd | 2 inst/doc/scaling-with-aws.html | 22 ++-- man/CV.Rd | 188 ++++++++++++++++++--------------------- man/FittedCV.Rd | 104 ++++++++++----------- man/FittedGridSearch.Rd | 108 +++++++++++----------- man/FittedGridSearchCV.Rd | 115 ++++++++++++------------ man/GridSearch.Rd | 185 ++++++++++++++++++--------------------- man/GridSearchCV.Rd | 194 +++++++++++++++++++---------------------- man/modeltuning-package.Rd | 5 + vignettes/scaling-with-aws.Rmd | 2 18 files changed, 517 insertions(+), 539 deletions(-)
Title: Sparse Partial Correlation Estimation for Matrix-Variate Data
Description: Fits sparse partial correlation networks for matrix-variate
data by extending the SPACE joint partial correlation estimation
framework to a Kronecker-product covariance structure. All partial
correlations are estimated simultaneously via an L1-penalized
(lasso) shooting algorithm within a single optimization framework,
which preserves symmetry of the estimated network and avoids the
tuning-parameter selection difficulties of separate node-wise
regressions. Optional features include column reweighting, residual
variance re-estimation across outer iterations, and automatic
generation of a lasso penalty sequence for tuning.
Author: Hyewon Kim [aut, cre],
Seongoh Park [aut]
Maintainer: Hyewon Kim <kimhw4126@gmail.com>
Diff between matSPACE versions 0.1.0 dated 2026-09-12 and 0.2.1 dated 2026-09-14
DESCRIPTION | 8 +- MD5 | 14 ++-- R/RcppExports.R | 16 ++-- R/matSPACE.R | 178 ++++++++++++++++++++++++------------------------------- README.md |only man/figures |only man/matSPACE.Rd | 47 ++++++-------- man/space.Rd | 6 - src/matSPACE.cpp | 142 +++++-------------------------------------- 9 files changed, 141 insertions(+), 270 deletions(-)
Title: Publication-Ready Forest Plots with 'ggplot2'
Description: Transform model coefficients into flexible forest
plots using 'ggplot2'. Provides helpers to standardize
coefficient data from a range of modelling workflows and render
publication-ready forest plots with a consistent interface.
Author: Carson Richardson [aut, cre, cph]
Maintainer: Carson Richardson <carson.richardson@outlook.com>
Diff between ggforestplotR versions 0.3.1 dated 2026-08-04 and 0.5.0 dated 2026-09-14
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Title: Force-Directed Euclidean Embedding of Dissimilarity Data
Description: A robust implementation of Topolow algorithm. It embeds objects into a low-dimensional Euclidean space from a matrix of pairwise dissimilarities, even when the data do not satisfy metric or Euclidean axioms. The package is particularly well-suited for sparse, incomplete, and censored (thresholded) datasets such as antigenic relationships. The core is a physics-inspired, gradient-free optimization framework that models objects as particles in a physical system, where observed dissimilarities define spring rest lengths and unobserved pairs exert repulsive forces. The package also provides functions specific to antigenic mapping to transform cross-reactivity and binding affinity measurements into accurate spatial representations in a phenotype space.
Key features include:
* Robust Embedding from Sparse Data: Effectively creates complete and consistent maps (in optimal dimensions) even with high proportions of missing data (e.g., >95%).
* Physics-Inspired Optimization: Models objects (e [...truncated...]
Author: Omid Arhami [aut, cre, cph]
Maintainer: Omid Arhami <omid.arhami@uga.edu>
Diff between topolow versions 2.0.1 dated 2025-08-30 and 2.1.0 dated 2026-09-14
topolow-2.0.1/topolow/build/topolow-manual.pdf |only topolow-2.1.0/topolow/DESCRIPTION | 23 topolow-2.1.0/topolow/LICENSE | 4 topolow-2.1.0/topolow/MD5 | 198 topolow-2.1.0/topolow/NAMESPACE | 300 topolow-2.1.0/topolow/NEWS.md | 188 topolow-2.1.0/topolow/R/RcppExports.R |only topolow-2.1.0/topolow/R/adaptive_sampling.R | 2237 +++++-- topolow-2.1.0/topolow/R/core.R | 747 +- topolow-2.1.0/topolow/R/data_preprocessing.R | 385 + topolow-2.1.0/topolow/R/diagnostics.R | 626 ++ topolow-2.1.0/topolow/R/euclidify_diagnostics.R |only topolow-2.1.0/topolow/R/globals.R | 5 topolow-2.1.0/topolow/R/topolow-package.R | 240 topolow-2.1.0/topolow/R/utils.R | 475 + topolow-2.1.0/topolow/R/visualization.R | 1762 ++--- topolow-2.1.0/topolow/README.md | 75 topolow-2.1.0/topolow/build/partial.rdb |binary topolow-2.1.0/topolow/build/vignette.rds |binary topolow-2.1.0/topolow/inst/CITATION |only topolow-2.1.0/topolow/inst/doc/Comprehensive_Evaluation.R | 2144 +++---- topolow-2.1.0/topolow/inst/doc/Comprehensive_Evaluation.Rmd | 2 topolow-2.1.0/topolow/inst/doc/Comprehensive_Evaluation.html | 3051 +++++----- topolow-2.1.0/topolow/inst/extdata/diag_chain1.csv | 2 topolow-2.1.0/topolow/inst/extdata/diag_chain2.csv | 2 topolow-2.1.0/topolow/inst/extdata/diag_chain3.csv | 2 topolow-2.1.0/topolow/man/Euclidify.Rd | 156 topolow-2.1.0/topolow/man/adaptive_MC_sampling.Rd | 131 topolow-2.1.0/topolow/man/analyze_network_structure.Rd | 66 topolow-2.1.0/topolow/man/calculate_diagnostics.Rd | 102 topolow-2.1.0/topolow/man/calculate_prediction_interval.Rd | 52 topolow-2.1.0/topolow/man/calculate_weighted_marginals.Rd | 65 topolow-2.1.0/topolow/man/check_gaussian_convergence.Rd | 79 topolow-2.1.0/topolow/man/check_matrix_connectivity.Rd |only topolow-2.1.0/topolow/man/clean_data.Rd | 62 topolow-2.1.0/topolow/man/color_palettes.Rd | 29 topolow-2.1.0/topolow/man/compute_kernel_velocity.Rd |only topolow-2.1.0/topolow/man/coordinates_to_matrix.Rd | 36 topolow-2.1.0/topolow/man/create_base_theme.Rd | 40 topolow-2.1.0/topolow/man/create_cv_folds.Rd | 96 topolow-2.1.0/topolow/man/create_diagnostic_plots.Rd | 50 topolow-2.1.0/topolow/man/create_diagnostic_report.Rd |only topolow-2.1.0/topolow/man/create_topolow_map.Rd | 244 topolow-2.1.0/topolow/man/denv_data.Rd | 58 topolow-2.1.0/topolow/man/detect_outliers_mad.Rd | 68 topolow-2.1.0/topolow/man/error_calculator_comparison.Rd | 132 topolow-2.1.0/topolow/man/euclidean_embedding.Rd | 62 topolow-2.1.0/topolow/man/example_positions.Rd | 70 topolow-2.1.0/topolow/man/generate_kde_samples.Rd | 50 topolow-2.1.0/topolow/man/get_grid.Rd | 56 topolow-2.1.0/topolow/man/ggsave_white_bg.Rd | 42 topolow-2.1.0/topolow/man/h3n2_data.Rd | 58 topolow-2.1.0/topolow/man/hiv_titers.Rd | 48 topolow-2.1.0/topolow/man/hiv_viruses.Rd | 50 topolow-2.1.0/topolow/man/initial_parameter_optimization.Rd | 318 - topolow-2.1.0/topolow/man/likelihood_function.Rd | 111 topolow-2.1.0/topolow/man/log_transform_parameters.Rd | 118 topolow-2.1.0/topolow/man/make_interactive.Rd | 110 topolow-2.1.0/topolow/man/new_aesthetic_config.Rd | 154 topolow-2.1.0/topolow/man/new_annotation_config.Rd | 117 topolow-2.1.0/topolow/man/new_dim_reduction_config.Rd | 92 topolow-2.1.0/topolow/man/new_layout_config.Rd | 179 topolow-2.1.0/topolow/man/parameter_sensitivity_analysis.Rd | 106 topolow-2.1.0/topolow/man/plot.parameter_sensitivity.Rd | 82 topolow-2.1.0/topolow/man/plot.profile_likelihood.Rd | 122 topolow-2.1.0/topolow/man/plot.topolow_convergence.Rd | 108 topolow-2.1.0/topolow/man/plot_3d_mapping.Rd | 232 topolow-2.1.0/topolow/man/plot_cluster_mapping.Rd | 300 topolow-2.1.0/topolow/man/plot_cv_errors.Rd |only topolow-2.1.0/topolow/man/plot_embedding_quality.Rd |only topolow-2.1.0/topolow/man/plot_euclidify_diagnostics.Rd |only topolow-2.1.0/topolow/man/plot_ll_improvement.Rd |only topolow-2.1.0/topolow/man/plot_mcmc_diagnostics.Rd |only topolow-2.1.0/topolow/man/plot_network_structure.Rd | 88 topolow-2.1.0/topolow/man/plot_parameter_search.Rd |only topolow-2.1.0/topolow/man/plot_performance_trace.Rd |only topolow-2.1.0/topolow/man/plot_temporal_mapping.Rd | 274 topolow-2.1.0/topolow/man/prepare_clade_membership.Rd |only topolow-2.1.0/topolow/man/print.parameter_sensitivity.Rd | 44 topolow-2.1.0/topolow/man/print.profile_likelihood.Rd | 40 topolow-2.1.0/topolow/man/print.topolow.Rd | 58 topolow-2.1.0/topolow/man/print.topolow_convergence.Rd | 38 topolow-2.1.0/topolow/man/process_antigenic_data.Rd | 222 topolow-2.1.0/topolow/man/profile_likelihood.Rd | 146 topolow-2.1.0/topolow/man/profile_likelihood_result.Rd | 64 topolow-2.1.0/topolow/man/prune_sparse_matrix.Rd |only topolow-2.1.0/topolow/man/reduce_dimensions.Rd | 40 topolow-2.1.0/topolow/man/run_adaptive_sampling.Rd | 223 topolow-2.1.0/topolow/man/sanity_check_subsample.Rd |only topolow-2.1.0/topolow/man/save_plot.Rd | 146 topolow-2.1.0/topolow/man/scale_to_original_distances.Rd | 40 topolow-2.1.0/topolow/man/scatterplot_fitted_vs_true.Rd | 110 topolow-2.1.0/topolow/man/subsample_dissimilarity_matrix.Rd |only topolow-2.1.0/topolow/man/summary.topolow.Rd | 60 topolow-2.1.0/topolow/man/topolow-package.Rd | 228 topolow-2.1.0/topolow/man/validate_topolow_df.Rd | 60 topolow-2.1.0/topolow/man/vectorized_process_distance_matrix.Rd | 91 topolow-2.1.0/topolow/man/weighted_kde.Rd | 50 topolow-2.1.0/topolow/src |only topolow-2.1.0/topolow/tests/testthat.R | 24 topolow-2.1.0/topolow/tests/testthat/model_parameters/test_amc_model_parameters.csv | 14 topolow-2.1.0/topolow/tests/testthat/test-adaptive-sampling.R | 62 topolow-2.1.0/topolow/tests/testthat/test-core.R | 180 topolow-2.1.0/topolow/tests/testthat/test-deprecated.R | 74 topolow-2.1.0/topolow/tests/testthat/test-euclidify-diagnostics.R |only topolow-2.1.0/topolow/tests/testthat/test-integration.R | 6 topolow-2.1.0/topolow/tests/testthat/test-subsample.r |only topolow-2.1.0/topolow/tests/testthat/test-utils.R | 1 topolow-2.1.0/topolow/tests/testthat/test-visualization.R | 4 topolow-2.1.0/topolow/vignettes/Comprehensive_Evaluation.Rmd | 2 110 files changed, 11230 insertions(+), 7678 deletions(-)
Title: Ordinal Outcomes: Generalized Linear Models with the Log Link
Description: An implementation of the Log Cumulative Probability Model (LCPM)
and Proportional Probability Model (PPM) for which the Maximum Likelihood Estimates are determined using constrained optimization.
This implementation accounts for the implicit constraints on the parameter space. Other
features such as standard errors, z tests and p-values use standard methods adapted from the results based on constrained optimization.
Author: Gurbakhshash Singh [aut, cre],
Gordon Hilton Fick [aut]
Maintainer: Gurbakhshash Singh <gsingh@ccsu.edu>
Diff between lcpm versions 0.1.1 dated 2020-01-09 and 0.1.2 dated 2026-09-14
DESCRIPTION | 23 ++++++++++++++++------- MD5 | 13 +++++++------ NAMESPACE | 2 +- R/lcpm.R | 4 ++-- R/ppm.R | 10 +++++++--- build |only man/lcpm.Rd | 2 +- man/ppm.Rd | 8 ++++++-- 8 files changed, 40 insertions(+), 22 deletions(-)
Title: Extend 'ggplot2' with Layers and Scales for Spatial Uncertainty
Visualization
Description: Provide specialized 'ggplot2' layers and scales for spatial
uncertainty visualization, including bivariate choropleth maps, pixel maps,
glyph maps, and exceedance probability maps.
Author: Xueqi Ma [aut, cre, cph],
Emi Tanaka [aut, ths] ,
Weihao Li [ths] ,
Quan Vu [ths],
Francis Hui [ths]
Maintainer: Xueqi Ma <maggiexma07@gmail.com>
Diff between ggincerta versions 0.2.0 dated 2026-05-25 and 0.2.1 dated 2026-09-14
DESCRIPTION | 12 MD5 | 90 NEWS.md | 6 R/bivar-palette.R | 25 R/data.R | 22 R/geom-sf-chernoff.R | 17 R/geom-sf-pixel.R | 2 R/guide-bivariate.R | 603 +++- R/guide-vsup.R | 144 - R/scale-bivariate-manual.R | 28 R/scale-bivariate.R | 408 ++- R/scale-vsup.R | 39 R/vsup-quantize.R | 50 README.md | 282 +- build/partial.rdb |binary data/nc_sim.rda |only man/bivar_fade_palette.Rd | 9 man/bivar_palette.Rd | 9 man/bivariate_scale.Rd | 91 man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-11-1.png |only man/figures/README-unnamed-chunk-12-1.png |only man/figures/README-unnamed-chunk-13-1.png |only man/figures/README-unnamed-chunk-14-1.png |only man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/geom_sf_dualmap.Rd | 4 man/geom_sf_glyph.Rd | 2 man/geom_sf_pixel.Rd | 7 man/ggincerta-package.Rd | 1 man/guide_bivariate.Rd | 5 man/guide_glyph.Rd | 5 man/guide_vsup.Rd | 5 man/manual_bivariate_scale.Rd | 55 man/nc_sim.Rd |only man/vsup_palette.Rd | 11 man/vsup_quantize.Rd | 79 man/vsup_scale.Rd | 68 tests/testthat/_snaps/geom-sf-glyph/glyph-map-chernoff.svg | 1218 ++++------ tests/testthat/_snaps/geom-sf-glyph/glyph-map-regular.svg | 374 +-- tests/testthat/_snaps/scale-bivariate/bivariate-map-with-left-guide.svg | 410 +-- tests/testthat/_snaps/scale-bivariate/bivariate-map.svg | 390 +-- tests/testthat/_snaps/scale-vsup/vsup-map.svg | 248 +- tests/testthat/test-scale-bivariate.R | 459 +++ 49 files changed, 3131 insertions(+), 2047 deletions(-)
Title: Run 'lavaan' Models from Keys Lists
Description: Specifying 'lavaan' models manually can be time consuming when
multiple similar models are required. The 'semFromKeys' package streamlines
the process of running 'lavaan' models by generating model code from simple
keys lists and running entire collections of models at once.
The package was inspired by the process used in the code for
Bainbridge, T. F., Ludeke, S. G., & Smillie, L. D. (2022)
<doi:10.1037/pspp0000395>.
The package also optionally checks that identical models have not been run
on the same data, which saves time when code needs to be run again.
Author: Timothy F. Bainbridge [aut, cre, cph]
Maintainer: Timothy F. Bainbridge <tfbainbridge@gmail.com>
Diff between semFromKeys versions 0.5.3 dated 2026-09-01 and 0.5.5 dated 2026-09-13
DESCRIPTION | 8 MD5 | 16 NEWS.md | 12 R/bifactor.from.keys.R | 2 R/sem.cor.R | 1178 +++++++++++-------------------- README.md | 62 + man/sem.cor.Rd | 126 +-- tests/testthat/test-bifactor.from.keys.R | 16 tests/testthat/test-sem.cor.R | 313 ++++++-- 9 files changed, 883 insertions(+), 850 deletions(-)
Title: High Dimensional Analysis in Linked Spaces
Description: A 'shiny' GUI that performs high dimensional cluster analysis.
This tool performs data preparation, clustering and visualisation within a dynamic GUI.
With interactive methods allowing the user to change settings all without having to to leave the GUI.
An earlier version of this package was described in Laa and Valencia (2022) <doi:10.1140/epjp/s13360-021-02310-1>.
Author: Gabriel McCoy [aut, cre] ,
Ursula Laa [aut] ,
German Valencia [aut]
Maintainer: Gabriel McCoy <gabe.mccoy02@gmail.com>
Diff between pandemonium versions 1.0.0 dated 2026-05-21 and 1.0.2 dated 2026-09-13
DESCRIPTION | 10 +- MD5 | 41 +++++----- NAMESPACE | 2 R/coordinates.R | 43 ++++++++++ R/dimensionReduction.R | 20 ++++ R/helper.R | 8 + R/plotting.R | 75 +++++++++++++++--- R/server.R | 141 ++++++++++++++++++++++------------- R/tourMaker.R | 13 +-- R/ui.R | 8 - build/vignette.rds |binary inst/doc/datainput.html | 2 inst/doc/make-plots.Rmd | 1 inst/doc/make-plots.html | 15 ++- man/makePlots.Rd | 2 man/pandemonium.Rd | 4 man/pca.Rd |only man/plotHist.Rd |only man/plotWC.Rd | 8 - man/pullCoordsSqrt.Rd |only tests/testthat/test-plotting.R | 5 + vignettes/Images/data_Input_page.png |binary vignettes/make-plots.Rmd | 1 23 files changed, 288 insertions(+), 111 deletions(-)
Title: Influence Diagnostics in Statistical Models
Description: Set of routines for influence diagnostics by using case-deletion in ordinary least
squares, nonlinear regression [Ross (1987). <doi:10.2307/3315198>], ridge estimation [Walker and Birch (1988). <doi:10.1080/00401706.1988.10488370>]
and least absolute deviations (LAD) regression [Sun and Wei (2004). <doi:10.1016/j.spl.2003.08.018>].
Author: Felipe Osorio [aut, cre]
Maintainer: Felipe Osorio <faosorios.stat@gmail.com>
Diff between india versions 0.1-4 dated 2026-04-05 and 0.1-5 dated 2026-09-13
ChangeLog | 10 +++++- DESCRIPTION | 9 +++-- MD5 | 33 +++++++++++--------- NAMESPACE | 1 R/cooks.R | 27 ++++++++++++---- R/envelope.R | 4 +- R/hatvalues.R | 8 ++++ R/leverages.R | 28 ++++++++++++++++- inst/CITATION | 4 +- man/cooks.distance.Rd | 31 ++++++++++++++++--- man/envelope.Rd | 3 + man/leverages.Rd | 73 +++++++++++++++++++++++++++++++++++++++------ man/logLik.displacement.Rd | 3 - man/rquantile.Rd | 3 + src/R_init_india.c | 10 ++++-- src/base.h | 7 +++- src/interface.c |only src/interface.h |only src/leverage_lad.c |only 19 files changed, 200 insertions(+), 54 deletions(-)
Title: Bayesian Networks Interactive Visualization and Explainable
Artificial Intelligence
Description: Bayesian networks provide an intuitive framework for probabilistic reasoning
and its graphical nature can be interpreted quite clearly. Graph based methods
of machine learning are becoming more popular because they offer a richer model
of knowledge that can be understood by a human in a graphical format. The 'bnviewer'
is an R Package that allows the interactive visualization of Bayesian Networks.
The aim of this package is to improve the Bayesian Networks visualization over
the basic and static views offered by existing packages.
Author: Robson Fernandes [aut, cre, cph]
Maintainer: Robson Fernandes <robson.fernandes@usp.br>
Diff between bnviewer versions 0.1.6 dated 2020-09-14 and 0.1.7 dated 2026-09-13
DESCRIPTION | 13 +- MD5 | 18 +-- R/bn.to.igraph.R | 52 +++++---- R/bnviewer.R | 9 - R/model.to.structure.R | 260 +++++++++++++++++++++++----------------------- R/strength.viewer.R | 6 - man/bn.to.igraph.Rd | 12 +- man/model.to.structure.Rd | 2 man/strength.viewer.Rd | 4 man/viewer.Rd | 2 10 files changed, 197 insertions(+), 181 deletions(-)
Title: Multivariate GARCH Models
Description: Feasible multivariate GARCH models including DCC, GO-GARCH and Copula-GARCH.
Author: Alexios Galanos [aut, cre, cph]
Maintainer: Alexios Galanos <alexios@4dscape.com>
Diff between rmgarch versions 1.4-2 dated 2025-08-31 and 1.4-3 dated 2026-09-13
ChangeLog | 14 DESCRIPTION | 8 MD5 | 24 build/vignette.rds |binary inst/doc/The_rmgarch_models.Rnw | 3 inst/doc/The_rmgarch_models.pdf |binary src/Makevars | 2 src/Makevars.win | 2 src/rmdist.cpp | 1 src/rmdist.h | 2 vignettes/The_rmgarch_models.Rnw | 3 vignettes/rmgarch1.tex | 10 vignettes/rmgarchbib.bib |12728 +++++++++++++++++++-------------------- 13 files changed, 6402 insertions(+), 6395 deletions(-)
Title: Utilities to Weave Hydrologic Fabrics
Description: A collection of utilities that support creation of network attributes for hydrologic networks. Methods and algorithms implemented are documented in Moore et al. (2019) <doi:10.3133/ofr20191096>, Cormen and Leiserson (2022) <ISBN:9780262046305> and Verdin and Verdin (1999) <doi:10.1016/S0022-1694(99)00011-6>.
Author: David Blodgett [aut, cre] ,
Andrew Psoras [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between hydroloom versions 1.2.1 dated 2026-08-03 and 1.2.2 dated 2026-09-13
DESCRIPTION | 8 MD5 | 222 +-- NEWS.md | 11 R/00_hydroloom.R | 462 +++---- R/accumulate_downstream.R | 656 +++++----- R/add_divergence.R | 986 +++++++-------- R/add_levelpaths.R | 664 +++++----- R/add_measures.R | 238 +-- R/add_pathlength.R | 154 +- R/add_pfafstetter.R | 8 R/add_streamorder-level.R | 610 ++++----- R/add_toids.R | 310 ++-- R/align_names.R | 278 ++-- R/check_hy_graph.R | 618 ++++++--- R/check_valid.R | 518 +++---- R/disambiguate.R | 4 R/dissolve_polygons.R | 712 +++++----- R/get_bridges.R | 444 +++--- R/get_hydro_location.R | 4 R/hy.R | 366 ++--- R/hy_classes.R | 1614 ++++++++++++------------ R/index_points_to_lines.R | 8 R/make_attribute_topology.R | 208 +-- R/make_index_ids.R | 974 +++++++------- R/make_node_topology.R | 538 ++++---- R/navigate_connected_paths.R | 404 +++--- R/navigate_network_dfs.R | 530 ++++---- R/navigation_network.R | 788 ++++++------ R/sort_network.R | 660 +++++----- R/subset_network.R | 254 +-- R/to_flownetwork.R | 270 ++-- R/utils.R | 682 +++++----- README.md | 13 build/vignette.rds |binary inst/CITATION | 24 inst/WORDLIST | 1 inst/doc/hydroloom.R | 352 ++--- inst/doc/hydroloom.Rmd | 696 +++++----- inst/doc/hydroloom.html | 1625 +++++++++++++------------ man/accumulate_downstream.Rd | 236 +-- man/add_divergence.Rd | 262 ++-- man/add_levelpaths.Rd | 234 +-- man/add_measures.Rd | 100 - man/add_pathlength.Rd | 84 - man/add_pfafstetter.Rd | 200 +-- man/add_return_divergence.Rd | 142 +- man/add_streamlevel.Rd | 136 +- man/add_streamorder.Rd | 114 - man/add_toids.Rd | 110 - man/add_topo_sort.Rd | 78 - man/check_hy_graph.Rd | 137 +- man/check_valid.Rd | 82 - man/disambiguate_indexes.Rd | 130 +- man/dissolve_polygons.Rd | 288 ++-- man/format_index_ids.Rd | 46 man/get_bridge_flowlines.Rd | 114 - man/get_hydro_location.Rd | 68 - man/get_node.Rd | 72 - man/get_partial_length.Rd | 78 - man/hy.Rd | 84 - man/hy_capabilities.Rd | 62 man/hy_flownetwork.Rd | 188 +- man/hy_network_type.Rd | 62 man/index_points_to_lines.Rd | 260 ++-- man/index_points_to_waterbodies.Rd | 112 - man/is_dendritic.Rd | 60 man/make_attribute_topology.Rd | 100 - man/make_fromids.Rd | 52 man/make_index_ids.Rd | 156 +- man/make_node_topology.Rd | 132 +- man/navigate_connected_paths.Rd | 86 - man/navigate_hydro_network.Rd | 176 +- man/navigate_network_dfs.Rd | 130 +- man/rename_geometry.Rd | 52 man/rescale_measures.Rd | 70 - man/sort_network.Rd | 156 +- man/subset_network.Rd | 128 - man/to_flownetwork.Rd | 122 - tests/testthat.R | 24 tests/testthat/data/diversions.csv | 120 - tests/testthat/data/diversions.geojson | 132 +- tests/testthat/data/simple_diversions.geojson | 78 - tests/testthat/test_accumulate.R | 526 ++++---- tests/testthat/test_add_divergence.R | 580 ++++---- tests/testthat/test_add_levelpaths.R | 358 ++--- tests/testthat/test_add_measures.R | 4 tests/testthat/test_add_pathlength.R | 22 tests/testthat/test_add_pfafstetter.R | 6 tests/testthat/test_add_toids.R | 92 - tests/testthat/test_check_hy_graph.R | 370 +++-- tests/testthat/test_check_valid.R | 340 ++--- tests/testthat/test_dissolve_polygons.R | 490 +++---- tests/testthat/test_get_bridges.R | 594 ++++----- tests/testthat/test_get_hydro_location.R | 4 tests/testthat/test_get_partial_length.R | 90 - tests/testthat/test_hy_classes.R | 752 +++++------ tests/testthat/test_hydroloom.R | 114 - tests/testthat/test_index.R | 22 tests/testthat/test_is_outlet.R | 78 - tests/testthat/test_make_attribute_topology.R | 76 - tests/testthat/test_make_index_ids.R | 408 +++--- tests/testthat/test_make_node_topology.R | 280 ++-- tests/testthat/test_navigate_connected_paths.R | 144 +- tests/testthat/test_navigate_hydro_network.R | 2 tests/testthat/test_navigate_network_dfs.R | 314 ++-- tests/testthat/test_outlet_conventions.R | 306 ++-- tests/testthat/test_sort_network.R | 520 ++++---- tests/testthat/test_streamorder-level.R | 204 +-- tests/testthat/test_subset_network.R | 170 +- tests/testthat/test_to_flownetwork.R | 108 - tests/testthat/test_utils.R | 258 +-- vignettes/hydroloom.Rmd | 696 +++++----- 112 files changed, 15339 insertions(+), 14756 deletions(-)
Title: Psychometric Analysis with Rasch Measurement Theory
Description: Streamlines reproducible Rasch measurement theory analyses
for ordinal item-response data, combining estimation routines from
'eRm', 'psychotools', 'mirt', 'iarm', and 'lavaan' with consistent
diagnostic, plotting, and reporting layers. Covers the four basic
psychometric criteria summarised by Christensen et al. (2021)
<doi:10.1111/sms.13908> -- unidimensionality, local independence,
ordered response category thresholds, and invariance across
subgroups -- together with item fit, targeting, reliability,
category functioning, and descriptive item-response plots. A
distinguishing feature is the use of simulation-based critical
values to replace rule-of-thumb cutoffs for conditional infit mean-square,
Yen's Q3 local-dependence statistic, the largest residual-PCA eigenvalue,
ordinal CFA fit indices, and partial-gamma DIF and local-dependence
coefficients, optionally augmented with multiplicity-corrected bootstrap
p-values. Outputs are knitr::kable() tables and
'ggplot2' figures suitab [...truncated...]
Author: Magnus Johansson [aut, cre] ,
Nicklas Korsell [ctb] ,
Mirka Henninger [ctb] ,
Jan Radek [ctb]
Maintainer: Magnus Johansson <pgmj@pm.me>
Diff between easyRasch2 versions 1.3.0 dated 2026-09-12 and 1.3.1 dated 2026-09-13
DESCRIPTION | 6 - MD5 | 26 +++---- NEWS.md | 18 +++++ R/reliability.R | 72 +++++++++++++++++---- R/reliability_curve.R | 42 ++++++++---- R/utils-theta.R | 107 ++++++++++++++++++++++++++------ inst/doc/easyRasch2.Rmd | 2 inst/doc/easyRasch2.html | 4 - man/RMreliability.Rd | 59 +++++++++++++++-- man/RMreliabilityCurve.Rd | 12 ++- tests/testthat/test-reliability.R | 7 +- tests/testthat/test-reliability_curve.R | 81 ++++++++++++++++++++---- vignettes/easyRasch2.Rmd | 2 vignettes/figures/rasch-relcurve-1.png |binary 14 files changed, 351 insertions(+), 87 deletions(-)
Title: Fast and Memory-Efficient Base R Table Manipulation
Description: A tabular data manipulation, exploration and validation toolkit
with a base R-style interface (subset, transform, aggregate, merge, split)
and no external computation dependency. Grouping, joins, ordering,
filtering, reshaping and delimited-file reading run in a bundled 'C++'
engine that uses multiple threads for the heavier operations. Grouped
reducers accumulate in compiled code without materialising intermediate
columns, so grouped aggregation and counting allocate close to nothing.
Results are returned as an ordinary data frame with a light 'basetable'
class.
Author: Imad El Badisy [aut, cre]
Maintainer: Imad El Badisy <elbadisyimad@gmail.com>
Diff between basetable versions 1.3.2 dated 2026-09-12 and 1.4.1 dated 2026-09-13
DESCRIPTION | 6 - MD5 | 32 +++++----- NAMESPACE | 6 + NEWS.md | 34 +++++++++++ R/aggregate.R | 25 +++++++- R/basetable-class.R | 51 ++++++++++++++++ R/map.R | 22 +++++++ inst/doc/benchmarking.R | 30 +++++++-- inst/doc/benchmarking.Rmd | 31 +++++++--- inst/doc/benchmarking.html | 103 ++++++++++++++++++---------------- inst/doc/functions-reference.pdf |binary man/as_basetable.Rd |only man/compact.Rd |only man/count.Rd | 7 +- man/is_basetable.Rd |only tests/testthat/test-basetable-class.R | 30 +++++++++ tests/testthat/test-compact.R |only tests/testthat/test-count.R | 19 ++++++ vignettes/benchmarking.Rmd | 31 +++++++--- 19 files changed, 340 insertions(+), 87 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>
This is a re-admission after prior archival of version 0.1.4 dated 2026-08-21
Diff between awdb versions 0.1.4 dated 2026-08-21 and 0.1.5 dated 2026-09-13
awdb-0.1.4/awdb/src/Makevars.ucrt |only awdb-0.1.5/awdb/DESCRIPTION | 6 awdb-0.1.5/awdb/MD5 | 13 awdb-0.1.5/awdb/NEWS.md | 62 ++- awdb-0.1.5/awdb/src/Makevars.in | 22 - awdb-0.1.5/awdb/src/Makevars.win.in | 28 + awdb-0.1.5/awdb/src/rust/Cargo.lock | 458 ++++++++++++++-------------- awdb-0.1.5/awdb/src/rust/vendor-config.toml | 18 - 8 files changed, 314 insertions(+), 293 deletions(-)
Title: Filter and Query Data Frames in 'shiny' Using an LLM Chat
Interface
Description: Adds an LLM-powered chatbot to your 'shiny' app, that can
turn your users' natural language questions into 'SQL' queries that
run against your data, and return the result as a reactive data frame.
Use it to drive reactive calculations, visualizations, downloads, and
more.
Author: Garrick Aden-Buie [aut, cre] ,
Joe Cheng [aut, ccp],
Carson Sievert [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Garrick Aden-Buie <garrick@posit.co>
Diff between querychat versions 0.3.0 dated 2026-06-01 and 0.4.0 dated 2026-09-13
querychat-0.3.0/querychat/R/utils-shiny.R |only querychat-0.4.0/querychat/DESCRIPTION | 21 querychat-0.4.0/querychat/MD5 | 230 + querychat-0.4.0/querychat/NAMESPACE | 2 querychat-0.4.0/querychat/NEWS.md | 65 querychat-0.4.0/querychat/R/DBISource.R | 328 +- querychat-0.4.0/querychat/R/DataDict.R |only querychat-0.4.0/querychat/R/DataFrameSource.R | 100 querychat-0.4.0/querychat/R/DataSource.R | 28 querychat-0.4.0/querychat/R/PinSource.R |only querychat-0.4.0/querychat/R/QueryChat.R | 1486 +++++++--- querychat-0.4.0/querychat/R/QueryChatGreeter.R |only querychat-0.4.0/querychat/R/QueryChatSystemPrompt.R | 213 + querychat-0.4.0/querychat/R/QueryExecutor.R |only querychat-0.4.0/querychat/R/TableAccessor.R |only querychat-0.4.0/querychat/R/TableSet.R |only querychat-0.4.0/querychat/R/TblSqlSource.R | 41 querychat-0.4.0/querychat/R/handoff_chat.R |only querychat-0.4.0/querychat/R/handoff_data.R |only querychat-0.4.0/querychat/R/handoff_download.R |only querychat-0.4.0/querychat/R/handoff_ellmer_compat.R |only querychat-0.4.0/querychat/R/handoff_gallery.R |only querychat-0.4.0/querychat/R/handoff_orchestrator.R |only querychat-0.4.0/querychat/R/handoff_prompt.R |only querychat-0.4.0/querychat/R/handoff_protocol.R |only querychat-0.4.0/querychat/R/handoff_server.R |only querychat-0.4.0/querychat/R/handoff_store.R |only querychat-0.4.0/querychat/R/handoff_types.R |only querychat-0.4.0/querychat/R/handoff_ui.R |only querychat-0.4.0/querychat/R/handoff_validation.R |only querychat-0.4.0/querychat/R/handoff_view.R |only querychat-0.4.0/querychat/R/querychat-package.R | 50 querychat-0.4.0/querychat/R/querychat_module.R | 398 +- querychat-0.4.0/querychat/R/querychat_tools.R | 255 + querychat-0.4.0/querychat/R/querychat_viz.R | 100 querychat-0.4.0/querychat/R/utils-check.R | 37 querychat-0.4.0/querychat/R/utils-duckdb.R |only querychat-0.4.0/querychat/R/utils-ellmer.R | 13 querychat-0.4.0/querychat/R/utils-html.R |only querychat-0.4.0/querychat/README.md | 7 querychat-0.4.0/querychat/inst/doc/build.R | 86 querychat-0.4.0/querychat/inst/doc/build.Rmd | 150 - querychat-0.4.0/querychat/inst/doc/build.html | 761 ++--- querychat-0.4.0/querychat/inst/doc/context.R | 23 querychat-0.4.0/querychat/inst/doc/context.Rmd | 142 querychat-0.4.0/querychat/inst/doc/context.html | 241 + querychat-0.4.0/querychat/inst/doc/data-sources.R | 31 querychat-0.4.0/querychat/inst/doc/data-sources.Rmd | 55 querychat-0.4.0/querychat/inst/doc/data-sources.html | 55 querychat-0.4.0/querychat/inst/doc/greet.R | 15 querychat-0.4.0/querychat/inst/doc/greet.Rmd | 34 querychat-0.4.0/querychat/inst/doc/greet.html | 25 querychat-0.4.0/querychat/inst/doc/models.R | 4 querychat-0.4.0/querychat/inst/doc/models.Rmd | 8 querychat-0.4.0/querychat/inst/doc/models.html | 11 querychat-0.4.0/querychat/inst/doc/tools.Rmd | 20 querychat-0.4.0/querychat/inst/doc/tools.html | 23 querychat-0.4.0/querychat/inst/examples-shiny/10-viz-app/app.R | 25 querychat-0.4.0/querychat/inst/examples-shiny/11-multi-table-nutrition |only querychat-0.4.0/querychat/inst/handoff-formats.yml |only querychat-0.4.0/querychat/inst/htmldep/handoff.css |only querychat-0.4.0/querychat/inst/htmldep/handoff.js |only querychat-0.4.0/querychat/inst/htmldep/img |only querychat-0.4.0/querychat/inst/htmldep/querychat.js | 4 querychat-0.4.0/querychat/inst/htmldep/styles.css | 14 querychat-0.4.0/querychat/inst/htmldep/viz.css | 64 querychat-0.4.0/querychat/inst/prompts/greeting.md |only querychat-0.4.0/querychat/inst/prompts/handoff-recommend.md |only querychat-0.4.0/querychat/inst/prompts/handoff-system.md |only querychat-0.4.0/querychat/inst/prompts/prompt.md | 44 querychat-0.4.0/querychat/inst/prompts/tool-get-schema.md |only querychat-0.4.0/querychat/inst/prompts/tool-query.md | 21 querychat-0.4.0/querychat/inst/prompts/tool-reset-dashboard.md | 4 querychat-0.4.0/querychat/inst/prompts/tool-update-dashboard.md | 10 querychat-0.4.0/querychat/inst/prompts/tool-visualize.md | 14 querychat-0.4.0/querychat/man/DBISource.Rd | 35 querychat-0.4.0/querychat/man/DataFrameSource.Rd | 47 querychat-0.4.0/querychat/man/DataSource.Rd | 38 querychat-0.4.0/querychat/man/PinSource.Rd |only querychat-0.4.0/querychat/man/QueryChat.Rd | 396 +- querychat-0.4.0/querychat/man/TableAccessor.Rd |only querychat-0.4.0/querychat/man/TblSqlSource.Rd | 22 querychat-0.4.0/querychat/man/execute_ggsql.Rd | 8 querychat-0.4.0/querychat/man/figures/airbnb.png |binary querychat-0.4.0/querychat/man/figures/logo.png |binary querychat-0.4.0/querychat/man/figures/quickstart-filter.png |binary querychat-0.4.0/querychat/man/figures/quickstart-summary.png |binary querychat-0.4.0/querychat/man/figures/quickstart.png |binary querychat-0.4.0/querychat/man/figures/viz-bar-chart.png |binary querychat-0.4.0/querychat/man/figures/viz-fullscreen.png |binary querychat-0.4.0/querychat/man/figures/viz-scatter.png |binary querychat-0.4.0/querychat/man/figures/viz-show-query.png |binary querychat-0.4.0/querychat/man/querychat-convenience.Rd | 95 querychat-0.4.0/querychat/man/read_data_dict.Rd |only querychat-0.4.0/querychat/tests/testthat/_snaps/QueryChat.md | 15 querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_chat.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_data.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_orchestrator.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_prompt.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_protocol.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_server.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_store.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_types.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_ui.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/handoff_validation.md |only querychat-0.4.0/querychat/tests/testthat/_snaps/querychat_tools.md | 35 querychat-0.4.0/querychat/tests/testthat/apps/basic/app.R | 7 querychat-0.4.0/querychat/tests/testthat/helper-fixtures.R | 480 +++ querychat-0.4.0/querychat/tests/testthat/test-DBISource.R | 18 querychat-0.4.0/querychat/tests/testthat/test-DataDict.R |only querychat-0.4.0/querychat/tests/testthat/test-DataSource.R | 2 querychat-0.4.0/querychat/tests/testthat/test-PinSource.R |only querychat-0.4.0/querychat/tests/testthat/test-QueryChat.R | 1294 ++++++++ querychat-0.4.0/querychat/tests/testthat/test-QueryChatSystemPrompt.R | 170 - querychat-0.4.0/querychat/tests/testthat/test-QueryExecutor.R |only querychat-0.4.0/querychat/tests/testthat/test-TableSet.R |only querychat-0.4.0/querychat/tests/testthat/test-TblSqlSource.R | 9 querychat-0.4.0/querychat/tests/testthat/test-handoff_chat.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_data.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_download.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_formats_sync.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_gallery.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_orchestrator.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_prompt.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_protocol.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_server.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_store.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_types.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_ui.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_validation.R |only querychat-0.4.0/querychat/tests/testthat/test-handoff_view.R |only querychat-0.4.0/querychat/tests/testthat/test-querychat_module.R | 835 +++++ querychat-0.4.0/querychat/tests/testthat/test-querychat_tools.R | 302 +- querychat-0.4.0/querychat/tests/testthat/test-server_data_source.R |only querychat-0.4.0/querychat/tests/testthat/test-viz-tool.R | 79 querychat-0.4.0/querychat/vignettes/build.Rmd | 150 - querychat-0.4.0/querychat/vignettes/context.Rmd | 142 querychat-0.4.0/querychat/vignettes/data-sources.Rmd | 55 querychat-0.4.0/querychat/vignettes/greet.Rmd | 34 querychat-0.4.0/querychat/vignettes/images/multiple-datasets.png |binary querychat-0.4.0/querychat/vignettes/images/plotly-data-view.png |binary querychat-0.4.0/querychat/vignettes/images/rich-data-views.png |binary querychat-0.4.0/querychat/vignettes/models.Rmd | 8 querychat-0.4.0/querychat/vignettes/tools.Rmd | 20 144 files changed, 7553 insertions(+), 2001 deletions(-)
Title: Actuarial Functions for Non-Life Insurance Modelling
Description: Assists actuaries and other insurance modellers in pricing,
reserving and capital modelling for non-life insurance and
reinsurance modelling. Provides functions that help model
excess levels, capping and pure Incurred but not reported
claims (pure IBNR).
Includes capped mean, exposure curves and increased limit
factor curves (ILFs) for LogNormal, Gamma, Pareto, Sliced
LogNormal-Pareto and Sliced Gamma-Pareto distributions.
Includes mean, probability density function (pdf), cumulative
probability function (cdf) and inverse cumulative probability
function for Sliced LogNormal-Pareto and Sliced Gamma-Pareto
distributions.
Includes calculating pure IBNR exposure with LogNormal and
Gamma distribution for reporting delay.
Includes three 'shiny' tools, one to simulate insurance claims applying
reinsurance structures, fit generalised linear models and fit claims
frequency or severity distributions.
Methods used in the package refer to
Free for All by Yiannis Parizas (2023) <https://www.thea [...truncated...]
Author: Yiannis Parizas [aut, cre]
Maintainer: Yiannis Parizas <yiannis.parizas@gmail.com>
Diff between NetSimR versions 0.1.6 dated 2026-07-12 and 0.2.0 dated 2026-09-13
NetSimR-0.1.6/NetSimR/inst/rmd |only NetSimR-0.1.6/NetSimR/man/rpareto.Rd |only NetSimR-0.1.6/NetSimR/tests/testthat/test1.R |only NetSimR-0.2.0/NetSimR/DESCRIPTION | 25 NetSimR-0.2.0/NetSimR/MD5 | 109 NetSimR-0.2.0/NetSimR/NAMESPACE | 47 NetSimR-0.2.0/NetSimR/NEWS | 171 + NetSimR-0.2.0/NetSimR/R/GLMFittingToolGlobal.R | 154 + NetSimR-0.2.0/NetSimR/R/GLMFittingToolServer.R | 841 ++++-- NetSimR-0.2.0/NetSimR/R/GLMFittingToolUI.R | 1097 +++----- NetSimR-0.2.0/NetSimR/R/Gamma.R | 23 NetSimR-0.2.0/NetSimR/R/LogNormal.R | 10 NetSimR-0.2.0/NetSimR/R/NetSimR.R | 15 NetSimR-0.2.0/NetSimR/R/Pareto.R | 35 NetSimR-0.2.0/NetSimR/R/ShinySimulatorGlobal.R | 928 +++++- NetSimR-0.2.0/NetSimR/R/ShinySimulatorReport.R |only NetSimR-0.2.0/NetSimR/R/ShinySimulatorServer.R | 319 +- NetSimR-0.2.0/NetSimR/R/ShinySimulatorSettingsIO.R |only NetSimR-0.2.0/NetSimR/R/ShinySimulatorSummary.R |only NetSimR-0.2.0/NetSimR/R/ShinySimulatorTabs.R |only NetSimR-0.2.0/NetSimR/R/ShinySimulatorUI.R | 1351 +++++++++- NetSimR-0.2.0/NetSimR/R/SlicecdGammaPareto.R | 28 NetSimR-0.2.0/NetSimR/R/SlicecdLogNormalPareto.R | 29 NetSimR-0.2.0/NetSimR/R/distribution_fitting_tool_Server.R | 933 ++++-- NetSimR-0.2.0/NetSimR/R/distribution_fitting_tool_UI.R | 989 ++++++- NetSimR-0.2.0/NetSimR/R/distribution_fitting_tool_global.R | 363 ++ NetSimR-0.2.0/NetSimR/R/simulate_claims.R |only NetSimR-0.2.0/NetSimR/build/vignette.rds |binary NetSimR-0.2.0/NetSimR/inst/doc/CappedMean.html | 10 NetSimR-0.2.0/NetSimR/inst/doc/PureIBNR.html | 6 NetSimR-0.2.0/NetSimR/inst/doc/SlicedDistributions.html | 4 NetSimR-0.2.0/NetSimR/man/ExposureCurvePareto.Rd | 2 NetSimR-0.2.0/NetSimR/man/ExposureCurveSlicedGammaPareto.Rd | 2 NetSimR-0.2.0/NetSimR/man/ExposureCurveSlicedLNormPareto.Rd | 2 NetSimR-0.2.0/NetSimR/man/GLMFittingToolServer.Rd | 3 NetSimR-0.2.0/NetSimR/man/GLMFittingToolUI.Rd | 12 NetSimR-0.2.0/NetSimR/man/IGamma.Rd | 46 NetSimR-0.2.0/NetSimR/man/ILFGamma.Rd | 4 NetSimR-0.2.0/NetSimR/man/NetSimR-package.Rd | 163 - NetSimR-0.2.0/NetSimR/man/ParetoCappedMean.Rd | 3 NetSimR-0.2.0/NetSimR/man/ParetoCappedMeanCalc.Rd | 2 NetSimR-0.2.0/NetSimR/man/distributionClass-class.Rd | 31 NetSimR-0.2.0/NetSimR/man/distribution_fitting_tool_Server.Rd | 3 NetSimR-0.2.0/NetSimR/man/distribution_fitting_tool_UI.Rd | 8 NetSimR-0.2.0/NetSimR/man/max_number_of_pareto_slices.Rd | 2 NetSimR-0.2.0/NetSimR/man/run_shiny_distribution_fitting_tool.Rd | 13 NetSimR-0.2.0/NetSimR/man/run_shiny_glm_fitting_tool.Rd | 13 NetSimR-0.2.0/NetSimR/man/run_shiny_simulator.Rd | 5 NetSimR-0.2.0/NetSimR/man/sev_dist_options.Rd | 7 NetSimR-0.2.0/NetSimR/man/simulate_claims.Rd |only NetSimR-0.2.0/NetSimR/man/simulate_function.Rd | 92 NetSimR-0.2.0/NetSimR/tests/testthat.R |only NetSimR-0.2.0/NetSimR/tests/testthat/helper-settings.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-apply-deductible-limit.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-capped-mean.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-distribution-moments.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-pkg-capped-means.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-pkg-fitting-helpers.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-pkg-fitting-tools.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-pkg-pure-ibnr.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-pkg-sliced-distributions.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-report.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-settings-io.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-simulate-claims.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-simulate-engine.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-simulate-function.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-simulator-server.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-summarise-simulation.R |only NetSimR-0.2.0/NetSimR/tests/testthat/test-validation.R |only 69 files changed, 5889 insertions(+), 2011 deletions(-)
Title: Tempered Stable Subordinators and Related Distributions
Description: Contains methods for the simulation of tempered stable subordinators and related distributions. Including classical tempered stable (both finite and infinite variation), rapidly deceasing tempered stable, truncated stable, truncated tempered stable, generalized Dickman, truncated gamma, generalized gamma, and p-gamma. For details, see Dassios et al (2019) <doi:10.1017/jpr.2019.6>, Dassios et al (2020) <doi:10.1145/3368088>, Grabchak (2021) <doi:10.1016/j.spl.2020.109015>, Grabchak (2026) <doi:10.48550/arXiv.2604.17732>.
Author: Michael Grabchak [aut, cre],
Lijuan Cao [aut]
Maintainer: Michael Grabchak <mgrabcha@charlotte.edu>
Diff between SubTS versions 1.0 dated 2023-02-17 and 2.0 dated 2026-09-13
DESCRIPTION | 21 +- MD5 | 18 + NAMESPACE | 9 R/SubTS.R | 36 +++ build/partial.rdb |binary man/SubTS-package.Rd | 7 man/rCTSM.Rd |only man/rCTSP.Rd |only man/rSubCTS.Rd | 4 src/SubTS.c | 480 +++++++++++++++++++++++++++++++++++++-------------- src/init.c | 28 +- 11 files changed, 431 insertions(+), 172 deletions(-)
Title: Fast Multi-Page PDF Report Layout on the Graphics Device
Description: A lightweight, dependency-free engine to build multi-page PDF
reports quickly on top of R's built-in graphics device ('pdf'/'cairo_pdf').
Content is placed by a measured flow layout: every text block reports its
real width and height via 'strwidth'/'strheight', the vertical cursor
advances by measured height, and pages break automatically. This eliminates
the text-overlap of dead-reckoned coordinate reports (such as the 'nmw'
NONMEM diagnostic reports) and replaces slow '.Rmd'/'knitr'/'LaTeX'
pipelines for fixed report generation: no external toolchain is started and
the document is written in a single pass. Interactive AcroForm CRFs are out
of scope.
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between simPDF versions 0.1.1 dated 2026-07-30 and 0.1.2 dated 2026-09-13
DESCRIPTION | 13 ++++++----- MD5 | 18 ++++++++-------- NEWS.md | 18 ++++++++++++++++ R/block_table.R | 3 +- R/flow.R | 6 ++++- README.md | 51 +++++++++++++++++++++++++++++++++------------- inst/doc/simPDF.Rmd | 22 ++++++++++++++----- inst/doc/simPDF.html | 26 +++++++++++++++-------- inst/tinytest/test_flow.R | 24 +++++++++++++++++++++ vignettes/simPDF.Rmd | 22 ++++++++++++++----- 10 files changed, 151 insertions(+), 52 deletions(-)
Title: Helper Functions for Bayesian Kernel Machine Regression
Description: Provides a suite of helper functions to support Bayesian Kernel
Machine Regression (BKMR) analyses in environmental health research. It
enables the simulation of realistic multivariate exposure data using
Multivariate Skewed Gamma distributions, estimation of distributional
parameters by subgroup, and application of adaptive, data-driven thresholds
for feature selection via Posterior Inclusion Probabilities (PIPs). It is
especially suited for handling skewed exposure data and enhancing the
interpretability of BKMR results through principled variable selection. The
methodology is described in Hasan et al. (2025) <doi:10.1080/00949655.2025.2608780>
and <doi:10.1101/2025.04.14.25325822>.
Author: Kazi Tanvir Hasan [aut, cre] ,
Ibrahimou Boubakari [aut] ,
Guerini Cristian [aut] ,
Bursac Zoran [aut] ,
Roberto Lucchini [aut] ,
Gabriel Odom [aut]
Maintainer: Kazi Tanvir Hasan <khasa006@fiu.edu>
Diff between simBKMRdata versions 0.2.1 dated 2025-05-14 and 0.2.2 dated 2026-09-13
simBKMRdata-0.2.1/simBKMRdata/inst/tests |only simBKMRdata-0.2.2/simBKMRdata/DESCRIPTION | 11 simBKMRdata-0.2.2/simBKMRdata/MD5 | 41 simBKMRdata-0.2.2/simBKMRdata/NEWS.md | 38 simBKMRdata-0.2.2/simBKMRdata/R/CalculatePipThreshold.R | 2 simBKMRdata-0.2.2/simBKMRdata/R/SimulateGroupData.R | 5 simBKMRdata-0.2.2/simBKMRdata/R/SimulateGroupGaussian.R | 6 simBKMRdata-0.2.2/simBKMRdata/inst/doc/bkmr_threshold.html | 78 simBKMRdata-0.2.2/simBKMRdata/inst/doc/estimation_and_simulation.html | 60 simBKMRdata-0.2.2/simBKMRdata/inst/doc/packageOverview.html | 878 +++++----- simBKMRdata-0.2.2/simBKMRdata/inst/doc/packageOverview.qmd | 39 simBKMRdata-0.2.2/simBKMRdata/man/calculate_pip_threshold.Rd | 2 simBKMRdata-0.2.2/simBKMRdata/man/simulate_group_data.Rd | 5 simBKMRdata-0.2.2/simBKMRdata/man/simulate_group_gaussian.Rd | 6 simBKMRdata-0.2.2/simBKMRdata/tests |only simBKMRdata-0.2.2/simBKMRdata/vignettes/packageOverview.qmd | 39 simBKMRdata-0.2.2/simBKMRdata/vignettes/references.bib | 15 17 files changed, 618 insertions(+), 607 deletions(-)
Title: Render 'LimeSurvey' '.lss' Questionnaires as Word and PDF
Documents
Description: Render 'LimeSurvey' '.lss' survey exports as
questionnaire documents in Word ('.docx') or PDF, displaying one to
four languages side by side with localized chrome in English, French,
German, Spanish and Italian. Includes a rule-based automated audit
that flags missing translations, forward filter references, duplicate
codes, array-scale inconsistencies and orphan structural references.
Designed for anyone working with a 'LimeSurvey' survey: researchers,
methodologists, ethics committees, translators and reviewers.
Processing is fully
local: the source file is the only input and no questionnaire content
is uploaded to a third-party service.
Author: Amal Tawfik [aut, cre, cph]
Maintainer: Amal Tawfik <amal.tawfik@hesav.ch>
Diff between lssdoc versions 0.1.1 dated 2026-06-18 and 0.2.0 dated 2026-09-13
DESCRIPTION | 18 +++--- MD5 | 67 +++++++++++++++----------- NAMESPACE | 22 +++++--- NEWS.md | 24 +++++++++ R/chrome_strings.R | 2 R/lss_defaults.R |only R/lss_pdf.R | 7 ++ R/lss_spec.R |only R/lssdoc-package.R | 1 R/read_lss.R | 20 +++++-- R/render_item.R | 2 R/render_layout.R | 4 - R/render_lss_audit_docx.R | 4 - R/render_lss_docx.R | 12 ++-- R/render_meta_table.R | 2 R/render_questionnaire.R | 4 - R/render_table_template.R | 67 +++++++++++++++----------- R/render_utils.R | 2 R/write_lss.R |only README.md | 33 ++++++------ build/vignette.rds |binary inst/CITATION | 2 inst/WORDLIST | 14 +++-- inst/doc/lssdoc.R | 2 inst/doc/lssdoc.Rmd | 4 - inst/doc/lssdoc.html | 12 ++-- man/figures/lifecycle-deprecated.svg |only man/figures/lifecycle-experimental.svg |only man/figures/lifecycle-stable.svg |only man/figures/lifecycle-superseded.svg |only man/figures/template_table.png |binary man/lss_spec.Rd |only man/lssdoc-package.Rd | 4 - man/render_questionnaire.Rd | 4 - man/write_lss.Rd |only tests/testthat/test-coverage-full.R |only tests/testthat/test-coverage-full2.R |only tests/testthat/test-coverage-full3.R |only tests/testthat/test-coverage-full4.R |only tests/testthat/test-coverage-table-template.R |only tests/testthat/test-write_lss.R |only vignettes/lssdoc.Rmd | 4 - 42 files changed, 206 insertions(+), 131 deletions(-)
Title: Simple, Multiple and Joint Correspondence Analysis
Description: Computation and visualization of simple, multiple and joint correspondence analysis.
Author: Michael Greenacre [aut],
Oleg Nenadic [aut, cre],
Michael Friendly [ctb]
Maintainer: Oleg Nenadic <oleg.nenadic@nord.no>
Diff between ca versions 0.71.1 dated 2020-01-24 and 0.72 dated 2026-09-13
DESCRIPTION | 12 ++++++------ MD5 | 26 +++++++++++++------------- NAMESPACE | 2 ++ NEWS | 4 +++- R/print.ca.r | 4 ++-- R/print.mjca.r | 2 +- data/author.rda |binary data/smoke.rda |binary data/wg93.rda |binary inst/CITATION | 8 ++++---- man/ca.rd | 2 +- man/mjca.rd | 2 +- man/plot.ca.rd | 8 ++++---- man/plot.mjca.rd | 8 ++++---- 14 files changed, 41 insertions(+), 37 deletions(-)
Title: Anomaly Scoring for Multivariate Time Series
Description: Compute an anomaly score for multivariate time series based on the k-nearest neighbors algorithm. Different computations of distances between time series are provided.
Author: Guillermo Granados [aut, cre]
Maintainer: Guillermo Granados <guillermo.granadosgarcia@outlook.com>
This is a re-admission after prior archival of version 0.1 dated 2024-11-21
Diff between AnomalyScore versions 0.1 dated 2024-11-21 and 0.1.3 dated 2026-09-13
DESCRIPTION | 15 +++++--- MD5 | 8 ++-- R/PDCmatrix.R | 95 +++++++++++++++++++++++++++++++++++++++++++++++++++--- README.md | 12 +++++- build/partial.rdb |binary 5 files changed, 113 insertions(+), 17 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 8.3.0 dated 2026-08-21 and 8.3.1 dated 2026-09-13
DESCRIPTION | 6 ++-- MD5 | 22 ++++++++-------- NEWS.md | 6 ++++ R/plot.euler.R | 28 +++++++++++--------- inst/doc/comparison.html | 4 +- inst/doc/gallery.html | 14 +++++----- inst/doc/introduction.html | 4 +- inst/doc/loss-functions.html | 2 - inst/doc/under-the-hood.html | 4 +- inst/doc/venn-diagrams.html | 4 +- inst/doc/visualization.html | 4 +- tests/testthat/test-plotting.R | 55 ++++++++++++++++++++++++++++++++++++----- 12 files changed, 103 insertions(+), 50 deletions(-)
Title: Agent-Based Model for Taenia_solium Transmission and Control
Description: The cystiSim package provides an agent-based model for Taenia solium transmission and control. cystiSim was developed within the framework of CYSTINET, the European Network on taeniosis/cysticercosis, COST ACTION TD1302.
Author: Brecht Devleesschauwer [aut, cre],
Uffe Christian Braae [aut]
Maintainer: Brecht Devleesschauwer <brechtdv@gmail.com>
Diff between cystiSim versions 0.1.0 dated 2016-05-15 and 0.2.1 dated 2026-09-13
cystiSim-0.1.0/cystiSim/README.md |only cystiSim-0.2.1/cystiSim/DESCRIPTION | 13 ++++---- cystiSim-0.2.1/cystiSim/MD5 | 17 +++++----- cystiSim-0.2.1/cystiSim/NEWS | 22 +++++++++++++ cystiSim-0.2.1/cystiSim/R/baseline.R | 38 +++++++++++++----------- cystiSim-0.2.1/cystiSim/R/fit.R | 5 ++- cystiSim-0.2.1/cystiSim/R/model.R | 25 +++++++++------ cystiSim-0.2.1/cystiSim/man/baseline.Rd | 4 +- cystiSim-0.2.1/cystiSim/man/cystiSim-package.Rd | 8 ++--- cystiSim-0.2.1/cystiSim/man/fit.Rd | 2 - 10 files changed, 85 insertions(+), 49 deletions(-)
Title: Composite Index Builder & Analytics 'shiny' App
Description: Provides an interactive 'shiny' application for constructing,
analysing, comparing, and visualising composite indices from tabular
multidimensional data. Supports multi-sheet 'Excel' workbooks with
active-sheet selection, refresh controls, per-sheet and workbook-wide
exports, automatic reshaping of wide indicator-year columns such as
'IN1-2019' into panel form, configurable missing-value code handling,
indicator direction and normalisation controls, equal and custom weighting,
entity-level ranking, time-series
analysis and forecasting, entity comparisons, pillar-based sub-indices
with equal, custom, correlation-based, or principal-component weights, and
diagnostic tools including internal-consistency reliability assessment,
coefficient of variation, principal component analysis, sensitivity analysis,
correlation heatmaps, and weighted flow visualizations.
Author: Hossein Hassani [aut],
Steve Macfeely [aut],
Petra Kynclova [aut],
Nour Barnat [aut],
Leila Marvian Mashhad [aut, cre],
Fernando CANTU BAZALDUA [aut]
Maintainer: Leila Marvian Mashhad <leila.marveian@gmail.com>
Diff between compIndexBuilder versions 2.0.0 dated 2026-08-19 and 2.1.0 dated 2026-09-13
DESCRIPTION | 12 + MD5 | 16 +- NEWS.md | 25 +++ R/compIndexBuilder.R | 5 README.md | 53 +++++++- inst/shiny-app/app.R | 235 ++++++++++++++++++++++++------------- inst/shiny-app/data_prep_helpers.R |only man/compIndexBuilder-package.Rd | 9 - man/compIndexBuilder.Rd | 5 tests/testthat/test-data-prep.R |only 10 files changed, 257 insertions(+), 103 deletions(-)
More information about compIndexBuilder at CRAN
Permanent link
Title: 'DEXi' Decision Tree Analysis and Visualization
Description: Provides a versatile toolkit for analyzing and visualizing 'DEXi' (Decision EXpert for education)
decision trees, facilitating multi-criteria decision analysis directly within R. Users can
read .dxi files, manipulate decision trees, and evaluate various scenarios. It supports sensitivity
analysis through Monte Carlo simulations, one-at-a-time approaches, and variance-based
methods, helping to discern the impact of input variations. Additionally, it includes functionalities
for generating sampling plans and an array of visualization options for decision trees and
analysis results. A distinctive feature is the synoptic table plot, aiding in the efficient
comparison of scenarios. Whether for in-depth decision modeling or sensitivity analysis, this
package stands as a comprehensive solution. Definition of sensitivity analyses available in
Carpani, Bergez and Monod (2012) <doi:10.1016/j.envsoft.2011.10.002> and detailed description of the package available in
Alaphilippe et al. (2025) [...truncated...]
Author: Roland Allart [aut],
Jacques-Eric Bergez [aut] ,
Marta Carpani [aut],
Herve Monod [aut] ,
Aude Alaphilippe [ctb] ,
Nicolas Cavan [ctb, cre],
INRAE [cph] )
Maintainer: Nicolas Cavan <nicolas.cavan@inrae.fr>
Diff between dexisensitivity versions 1.0.3 dated 2026-08-30 and 1.0.4 dated 2026-09-13
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/option.R | 2 +- tests/testthat/test-monte_carlo.R | 1 + tests/testthat/test-node.R | 2 +- tests/testthat/test-oat.R | 1 + tests/testthat/test-option.R | 2 +- 8 files changed, 19 insertions(+), 13 deletions(-)
More information about dexisensitivity at CRAN
Permanent link
Title: Longitudinal Bayesian Historical Borrowing Models
Description: Historical borrowing in clinical trials can improve
precision and operating characteristics. This package supports
a longitudinal hierarchical model to borrow historical
control data from other studies to better characterize the
control response of the current study. It also quantifies
the amount of borrowing through longitudinal benchmark models (independent
and pooled). The hierarchical model approach to historical borrowing
is discussed by Viele et al. (2013) <doi:10.1002/pst.1589>.
Author: William Michael Landau [aut, cre] ,
Albert Man [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between historicalborrowlong versions 0.1.0 dated 2024-09-25 and 0.1.1 dated 2026-09-13
DESCRIPTION | 12 MD5 | 88 NAMESPACE | 110 NEWS.md | 4 R/hbl_convergence.R | 12 R/hbl_data.R | 38 R/hbl_ess.R | 2 R/hbl_plot_borrow.R | 4 R/hbl_plot_group.R | 2 R/hbl_summary.R | 111 R/utils_assert.R | 2 R/utils_matrix.R | 6 R/utils_sim.R | 32 R/utils_stan.R | 17 build/vignette.rds |binary inst/doc/methods.html | 693 +++- man/hbl_convergence.Rd | 10 man/hbl_ess.Rd | 4 man/hbl_mcmc_hierarchical.Rd | 10 man/hbl_mcmc_independent.Rd | 10 man/hbl_mcmc_pool.Rd | 10 man/hbl_mcmc_sge.Rd | 10 man/hbl_plot_borrow.Rd | 6 man/hbl_plot_group.Rd | 6 man/hbl_plot_tau.Rd | 6 man/hbl_sim_hierarchical.Rd | 6 man/hbl_sim_independent.Rd | 6 man/hbl_sim_pool.Rd | 6 man/hbl_summary.Rd | 4 src/stanExports_historicalborrowlong.cc | 34 src/stanExports_historicalborrowlong.h | 4523 ++++++++++++++-------------- tests/testthat/test-hbl_convergence.R | 4 tests/testthat/test-hbl_data.R | 2 tests/testthat/test-hbl_ess.R | 40 tests/testthat/test-hbl_mcmc_hierarchical.R | 4 tests/testthat/test-hbl_mcmc_independent.R | 4 tests/testthat/test-hbl_mcmc_pool.R | 4 tests/testthat/test-hbl_mcmc_sge.R | 4 tests/testthat/test-hbl_plot_borrow.R | 12 tests/testthat/test-hbl_plot_group.R | 12 tests/testthat/test-hbl_plot_tau.R | 4 tests/testthat/test-hbl_summary.R | 224 - tests/testthat/test-utils_sim.R | 8 tests/testthat/test-utils_stan.R | 4 vignettes/bibliography.bib | 12 45 files changed, 3379 insertions(+), 2743 deletions(-)
More information about historicalborrowlong at CRAN
Permanent link
Title: Visualizing Hypothesis Tests in Multivariate Linear Models
Description: Provides HE plot and other functions for visualizing hypothesis
tests in multivariate linear models. HE plots represent sums-of-squares-and-products
matrices for linear hypotheses and for error using ellipses (in two
dimensions) and ellipsoids (in three dimensions). It also provides other tools for analysis and graphical display of the models
such as robust methods and homogeneity of variance covariance matrices.
The related 'candisc' package provides visualizations in a reduced-rank canonical discriminant space when
there are more than a few response variables.
Author: Michael Friendly [aut, cre] ,
John Fox [aut] ,
Georges Monette [aut] ,
Phil Chalmers [ctb] ,
Duncan Murdoch [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between heplots versions 1.8.4 dated 2026-08-23 and 1.8.5 dated 2026-09-13
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Title: Generalized Linear Models with Truncated Lasso Penalty
Description: Extremely efficient procedures for fitting regularization path with l0, l1, and truncated lasso penalty for linear regression and logistic regression models. This version is a completely new version compared with our previous version, which was mainly based on R. New core algorithms are developed and are now written in C++ and highly optimized.
Author: Chunlin Li [aut, cph] ,
Yu Yang [aut, cre, cph] ,
Chong Wu [aut, cph] ,
Xiaotong Shen [ths, cph],
Wei Pan [ths, cph]
Maintainer: Yu Yang <yuyang.stat@gmail.com>
Diff between glmtlp versions 2.0.2 dated 2024-10-02 and 2.0.3 dated 2026-09-13
DESCRIPTION | 15 ++++++++------- MD5 | 22 +++++++++++----------- NEWS.md | 8 ++++++++ build/vignette.rds |binary inst/doc/glmtlp.R | 2 +- inst/doc/glmtlp.html | 43 ++++++++++++++++++++++++++----------------- src/linreg_l0.cc | 1 + src/linreg_l1.cc | 2 +- src/linreg_tlp.cc | 2 +- src/logistic_l0.cc | 1 + src/logistic_l1.cc | 2 +- src/logistic_tlp.cc | 2 +- 12 files changed, 60 insertions(+), 40 deletions(-)
Title: Bayesian Calibration of Complex Computer Codes
Description: Performs Bayesian calibration of computer models as per
Kennedy and O'Hagan 2001. The package includes routines to find the
hyperparameters and parameters; see the help page for stage1() for a
worked example using the toy dataset. A tutorial is provided in the
calex.Rnw vignette; and a suite of especially simple one dimensional
examples appears in inst/doc/one.dim/.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between calibrator versions 1.2-8 dated 2019-03-07 and 1.2-9 dated 2026-09-13
DESCRIPTION | 13 +++++++------ MD5 | 23 ++++++++++++----------- R/calibrator.R | 3 --- build/partial.rdb |binary build/vignette.rds |binary data/toys.rda |binary inst/CITATION | 9 ++++----- inst/doc/calex.R | 2 -- inst/doc/calex.pdf |binary inst/toys.R |only man/H.fun.Rd | 1 - man/phi.fun.toy.Rd | 4 ++-- man/toys.Rd | 10 ++-------- 13 files changed, 27 insertions(+), 38 deletions(-)
Title: Image Processing for Simulated Cameras
Description: Uses convolution-based techniques to generate simulated camera bokeh, depth of field, and other camera effects, using an image and an optional depth map. Accepts both filename inputs and in-memory array representations of images and matrices, including common raster formats such as 'JPEG', 'PNG', 'TIFF', 'TGA', 'BMP', 'PSD', 'GIF', 'HDR', 'PIC', 'PNM', 'DNG', and 'EXR'. Includes functions to perform 2D convolutions, color correction, colorspace conversion, image/matrix reorientation and resizing, image and text overlays, exposure adjustment, camera vignette effects, and image titles.
Author: Tyler Morgan-Wall [aut, cph, cre]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayimage versions 0.26.1 dated 2026-06-12 and 0.27.1 dated 2026-09-13
DESCRIPTION | 8 MD5 | 58 +- NAMESPACE | 2 R/cli_helpers.R | 17 R/colorspace_helpers.R | 196 +++---- R/exr_metadata.R |only R/plot_image_grid.R | 7 R/print.R | 33 - R/ray_read_image.R | 62 +- R/ray_write_image.R | 20 R/rayimg.R | 306 ++++++----- R/render_alpha_outline.R | 4 R/render_color_correction.R | 68 +- R/render_environment_white_balance.R |only R/render_gamma_linear.R | 286 +++++------ R/render_to_display.R | 64 +- R/render_white_balance.R | 148 ++--- R/rotate_image_array.R | 20 man/colorspace_from_exr_metadata.Rd |only man/colorspace_to_exr_chromaticities.Rd |only man/estimate_environment_white.Rd |only man/exr_metadata_from_rayimg.Rd |only man/libopenexr_supports_metadata.Rd |only man/normalize_exr_chromaticities.Rd |only man/preserved_exr_metadata.Rd |only man/render_alpha_outline.Rd | 2 man/render_environment_white_balance.Rd |only man/white_current_from_exr_metadata.Rd |only man/xy_to_xyz.Rd |only man/xyz_to_xy.Rd |only tests/testthat/test-dng-io.R | 26 - tests/testthat/test-dng-read-transforms.R | 8 tests/testthat/test-ray_write_image_exr.R | 154 ++++++ tests/testthat/test-rayimg-camera-settings.R | 168 +++--- tests/testthat/test-render_environment_white_balance.R |only tests/testthat/test-render_gamma_linear.R | 436 ++++++++--------- tests/testthat/test-render_text_image-trim.R | 3 37 files changed, 1190 insertions(+), 906 deletions(-)
Title: Copula-Based Mixed Regression Models
Description: Estimation of 2-level factor copula-based regression models for clustered data where the response variable can be either discrete or continuous.
Author: Pavel Krupskii [aut, ctb, cph],
Bouchra R. Nasri [aut, ctb, cph],
Bruno N Remillard [aut, cre, cph]
Maintainer: Bruno N Remillard <bruno.remillard@hec.ca>
Diff between CopulaGAMM versions 0.6.5 dated 2025-04-24 and 0.7.4 dated 2026-09-13
DESCRIPTION | 8 ++++---- MD5 | 37 +++++++++++++++++++++---------------- NAMESPACE | 5 +++-- R/EstContinuous.R | 20 ++++++++++++-------- R/EstDiscrete.R | 16 ++++++++++------ R/cop2param.R |only R/coplik.R | 8 +++++--- R/dcop.R | 18 +++++++++--------- R/linkCop.R | 19 ++++++++++++++++--- R/margins.R | 39 +++++++++++++++++++++++++++++++++------ R/pcond.R | 46 +++++++++++++++++++++++++++++++--------------- R/predictContinuous.R | 3 ++- R/qcond.R | 9 ++++----- man/coplik.Rd | 2 +- man/cpar2param.Rd |only man/dcop.Rd | 2 +- man/dlap.Rd |only man/expcpdf.Rd | 2 +- man/linkCop.Rd | 2 +- man/plap.Rd |only man/qcond.Rd | 2 -- man/qlap.Rd |only 22 files changed, 154 insertions(+), 84 deletions(-)
Title: Design of Experiments and Factorial Plans Utilities
Description: A number of functions to create and analyze factorial plans according to the Design of Experiments (DoE) approach, with the addition of some utility function to perform some statistical analyses. DoE approach follows the approach in "Design and Analysis of Experiments" by Douglas C. Montgomery (2019, ISBN:978-1-119-49244-3). The package also provides utilities used in the course "Analysis of Data and Statistics" at the University of Trento, Italy.
Author: Paolo Bosetti [aut, cre]
Maintainer: Paolo Bosetti <paolo.bosetti@unitn.it>
Diff between adas.utils versions 1.4.0 dated 2026-02-27 and 1.4.1 dated 2026-09-13
DESCRIPTION | 8 - MD5 | 26 ++-- NAMESPACE | 162 ++++++++++++++++--------------- NEWS.md | 4 R/utils.R | 2 README.md | 12 +- build/vignette.rds |binary inst/doc/adas.utils.html | 148 ++++++++++++++-------------- man/adas.utils-package.Rd | 5 man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-6-2.png |binary man/scale_y_pareto.Rd | 2 tests/testthat/test-stats.R | 6 - tests/testthat/test-utils.R | 2 14 files changed, 206 insertions(+), 171 deletions(-)
Title: Access to the 'twelvedata' Financial Data API
Description: The 'twelvedata' REST service offers access to current and historical
data on stocks, standard as well as digital 'crypto' currencies, and other financial
assets covering a wide variety of course and time spans. See <https://twelvedata.com/>
for details, to create an account, and to request an API key for free-but-capped access
to the data.
Author: Dirk Eddelbuettel [aut, cre] ,
Kenneth Rose [ctb]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between td versions 0.0.6 dated 2022-01-26 and 0.0.7 dated 2026-09-13
ChangeLog | 46 ++++++++++++++++++++++++++++++++++++++++++++++ DESCRIPTION | 17 +++++++++++------ MD5 | 14 +++++++++----- R/fun_profile.R |only R/fun_statistics.R |only README.md | 5 +++-- build/partial.rdb |binary inst/NEWS.Rd | 11 ++++++++++- man/fun_profile.Rd |only man/fun_statistics.Rd |only 10 files changed, 79 insertions(+), 14 deletions(-)
Title: Models and Diagnostics for Rasch Measurement Theory
Description: Fits models for Rasch Measurement Theory, whose defining
measurement properties include sufficiency and invariance. Available
models include the dichotomous Rasch, partial credit, rating scale,
many-facet, extended frame of reference and explanatory models.
Explanatory modelling supports predictors at the item and threshold
levels. Comparative judgement models are available for dichotomous and
ordered pairwise responses, with support for extended frames of reference
and explanatory predictors. Functions support estimation and examination
of model fit, targeting, reliability, dimensionality, local dependence,
differential item functioning, equating and simulation. A graphical
interface for fitting models and examining results is provided through an
interactive 'shiny' application.
Author: Joshua A. McGrane [aut, cre]
Maintainer: Joshua A. McGrane <drjoshmcgrane@gmail.com>
Diff between rasch versions 1.12.0 dated 2026-08-24 and 1.12.1 dated 2026-09-13
DESCRIPTION | 47 LICENSE | 2 MD5 | 515 - NAMESPACE | 12 NEWS.md | 1701 +++++ R/RcppExports.R | 1 R/app-project.R | 1360 ++++ R/app.R | 13 R/btl-efrm.R | 994 ++- R/btl-equating.R | 610 + R/btl-independence.R | 672 +- R/btl-targeting.R | 163 R/btl.R | 1113 ++- R/compare.R | 390 - R/ctt.R | 160 R/dependence.R | 148 R/dif-bootstrap.R |only R/dif.R | 1629 +++- R/dimensionality.R | 999 ++- R/drop-items.R | 267 R/efrm.R | 1737 ++++- R/equating.R | 434 + R/estimation.R | 880 ++ R/explanatory.R | 681 +- R/export.R | 886 ++ R/fit-bootstrap.R |only R/fit.R | 334 - R/format.R | 139 R/frame-invariance.R | 533 + R/guttman.R | 11 R/mc.R | 252 R/mfrm.R | 388 - R/person.R | 667 +- R/plots.R | 789 ++ R/rasch-package.R | 17 R/rasch.R | 656 +- R/refuse.R | 102 R/resolve-frames.R | 23 R/simulate.R | 1889 +++++ R/subtests.R | 404 + R/summary-tables.R | 107 R/tailored.R | 366 - R/wright-map.R | 68 README.md | 37 build/vignette.rds |binary inst/CITATION | 2 inst/casestudies/wording_units_selfesteem.R | 18 inst/doc/data-structures.R |only inst/doc/data-structures.Rmd |only inst/doc/data-structures.html |only inst/doc/dif-repeated-measures.R | 9 inst/doc/dif-repeated-measures.Rmd | 54 inst/doc/dif-repeated-measures.html | 134 inst/doc/explanatory-models.R | 10 inst/doc/explanatory-models.Rmd | 40 inst/doc/explanatory-models.html | 122 inst/doc/extended-frame-reference.R | 37 inst/doc/extended-frame-reference.Rmd | 124 inst/doc/extended-frame-reference.html | 338 - inst/doc/many-facet.R | 9 inst/doc/many-facet.Rmd | 19 inst/doc/many-facet.html | 100 inst/doc/paired-comparisons.R | 93 inst/doc/paired-comparisons.Rmd | 269 inst/doc/paired-comparisons.html | 469 + inst/doc/plant-and-detect.Rmd | 97 inst/doc/plant-and-detect.html | 453 + inst/doc/precomputed |only inst/doc/precomputed.R |only inst/doc/rasch-workflow.R | 104 inst/doc/rasch-workflow.Rmd | 297 inst/doc/rasch-workflow.html | 412 - inst/rmarkdown/rasch-report.Rmd | 376 + inst/shiny/app.R | 4264 ++++++++++--- inst/shiny/examples.R | 125 inst/shiny/help.R | 198 man/btl.Rd | 62 man/btl_dif.Rd | 43 man/btl_dimensionality.Rd | 61 man/btl_efrm.Rd | 89 man/btl_equate.Rd | 92 man/btl_explanatory.Rd | 31 man/btl_information.Rd | 2 man/btl_next_pairs.Rd | 13 man/btl_transitivity.Rd | 4 man/chisq_detail.Rd | 11 man/combine_items.Rd | 14 man/compare_fits.Rd | 45 man/ctt_table.Rd | 11 man/dependence_magnitude.Rd | 13 man/dif_anova.Rd | 36 man/dif_bootstrap.Rd |only man/dif_contrasts.Rd | 49 man/dif_posthoc.Rd | 14 man/dif_size.Rd | 55 man/dimensionality_magnitude.Rd | 10 man/dimensionality_test.Rd | 127 man/distractor_analysis.Rd | 19 man/distractor_rescore.Rd | 11 man/drop_items.Rd | 12 man/equate_tests.Rd | 53 man/explanatory_diagnostics.Rd | 15 man/explanatory_test.Rd | 4 man/figures/app-items.png |binary man/fit_bootstrap.Rd |only man/fit_summary_table.Rd | 8 man/frame_invariance.Rd | 57 man/judge_pair_surprise.Rd | 27 man/judge_surprise.Rd | 25 man/lr_test.Rd | 3 man/pcml.Rd | 30 man/pcml_pc.Rd | 31 man/person_extrapolated.Rd | 9 man/person_wle.Rd | 6 man/plot_btl.Rd | 8 man/plot_btl_categories.Rd | 6 man/plot_btl_dim_map.Rd | 8 man/plot_btl_equate.Rd | 4 man/plot_btl_icc.Rd | 5 man/plot_btl_judge_map.Rd | 12 man/plot_btl_scree.Rd | 5 man/plot_btl_targeting.Rd | 8 man/plot_btl_units.Rd | 5 man/plot_ccc.Rd | 12 man/plot_distractors.Rd | 12 man/plot_equate.Rd | 3 man/plot_frames.Rd | 3 man/plot_icc.Rd | 2 man/plot_icc_frames.Rd | 12 man/plot_item_map.Rd | 16 man/plot_kidmap.Rd | 4 man/plot_pcc.Rd | 24 man/plot_person_fit.Rd | 16 man/plot_pimap.Rd | 25 man/plot_scree.Rd | 61 man/plot_tcc.Rd | 5 man/plot_threshold_prob.Rd | 12 man/plot_tif.Rd | 2 man/plot_wright.Rd | 3 man/rack_data.Rd | 3 man/rasch-package.Rd | 26 man/rasch.Rd | 95 man/rasch_efrm.Rd | 149 man/rasch_explanatory.Rd | 29 man/rasch_mfrm.Rd | 39 man/rasch_rng.Rd |only man/relax_explanatory.Rd | 10 man/report_document.Rd | 39 man/report_html.Rd | 54 man/residual_correlations.Rd | 2 man/residual_pca.Rd | 2 man/resolve_dif.Rd | 41 man/resolve_frames.Rd | 7 man/run_app.Rd | 13 man/save_item_plots.Rd | 7 man/save_outputs.Rd | 58 man/sim_recovery.Rd | 46 man/sim_replicate.Rd | 5 man/simulate_btl.Rd | 26 man/simulate_btl_efrm.Rd | 17 man/simulate_efrm.Rd | 39 man/simulate_mfrm.Rd | 23 man/simulate_rasch.Rd | 55 man/split_items.Rd | 8 man/spread_test.Rd | 25 man/tailored_analysis.Rd | 38 man/targeting_table.Rd | 5 man/test_information.Rd | 24 man/weighted_person_estimates.Rd |only man/wright_map.Rd | 12 src/efrm_npml.cpp | 124 tests/testthat.R | 15 tests/testthat/setup-plot-device.R |only tests/testthat/test-anchor-equating-audit.R |only tests/testthat/test-app-bootstrap-code.R |only tests/testthat/test-app-btl-dif-role-freeze.R |only tests/testthat/test-app-cj-dif-code.R |only tests/testthat/test-app-dif-project-migration.R |only tests/testthat/test-app-export-selected-dif.R |only tests/testthat/test-app-project.R | 1266 +++ tests/testthat/test-app-simulation-bundle.R |only 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Title: Checks Session Status
Description: Provides tools for checking whether an R session is in a clean state,
including the global environment, attached packages, loaded namespaces,
attached environments, session run time, R options, locale settings, and
system environment variables. Intended as a safer replacement for the
common 'rm(list = ls())' idiom: rather than silently wiping the global
environment, sessioncheck() surfaces problems so the user can make an
informed decision. The package also supplies tools for documenting the
session state, to aid in the overall process.
Author: Danielle Navarro [aut, cre, cph] ,
Meghan Harris [ctb]
Maintainer: Danielle Navarro <djnavarro@protonmail.com>
Diff between sessioncheck versions 0.1.1 dated 2026-07-28 and 0.2.0 dated 2026-09-13
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Title: 1d Goodness of Fit Tests
Description: Routines that allow the user to run a large number of goodness-of-fit tests.
It allows for data to be continuous or discrete. It includes routines to estimate
the power of the tests and display them as a power graph.
The routine run.studies allows a user to quickly study the power of a new method and
how it compares to some of the standard ones.
Author: Wolfgang Rolke [aut, cre]
Maintainer: Wolfgang Rolke <wolfgang.rolke@upr.edu>
Diff between Rgof versions 3.3.0 dated 2025-06-16 and 4.0.0 dated 2026-09-13
Rgof-3.3.0/Rgof/R/case.studies.R |only Rgof-3.3.0/Rgof/R/signif.digits.R |only Rgof-3.3.0/Rgof/data/power_studies_results.rda |only Rgof-3.3.0/Rgof/man/case.studies.Rd |only Rgof-3.3.0/Rgof/man/power_studies_results.Rd |only Rgof-3.3.0/Rgof/man/signif.digits.Rd |only Rgof-4.0.0/Rgof/DESCRIPTION | 11 Rgof-4.0.0/Rgof/MD5 | 95 + Rgof-4.0.0/Rgof/NAMESPACE | 28 Rgof-4.0.0/Rgof/NEWS.md | 4 Rgof-4.0.0/Rgof/R/case_studies.R |only Rgof-4.0.0/Rgof/R/chi_power_disc.R | 2 Rgof-4.0.0/Rgof/R/data.R | 27 Rgof-4.0.0/Rgof/R/extra.R | 6 Rgof-4.0.0/Rgof/R/gof_power.R | 233 ++- Rgof-4.0.0/Rgof/R/gof_power_adaptive.R |only Rgof-4.0.0/Rgof/R/gof_test.R | 522 +++++--- Rgof-4.0.0/Rgof/R/gof_test_adjusted_pvalue.R | 93 - Rgof-4.0.0/Rgof/R/helper_functions.R |only Rgof-4.0.0/Rgof/R/make_bins_cont.R | 2 Rgof-4.0.0/Rgof/R/mle.R |only Rgof-4.0.0/Rgof/R/myTS.R |only Rgof-4.0.0/Rgof/R/plot_power.R | 81 - Rgof-4.0.0/Rgof/R/power_newtest.R | 7 Rgof-4.0.0/Rgof/R/run.studies.R | 310 +---- Rgof-4.0.0/Rgof/R/signif_digits.R |only Rgof-4.0.0/Rgof/R/test_methods.R | 2 Rgof-4.0.0/Rgof/build/vignette.rds |binary Rgof-4.0.0/Rgof/data/case_studies_sample_sizes.rda |only Rgof-4.0.0/Rgof/data/funs_list.rda |only Rgof-4.0.0/Rgof/data/power.uniform.linear.rda |only Rgof-4.0.0/Rgof/data/power_study.rda |only Rgof-4.0.0/Rgof/inst/doc/Rgof.R | 79 - Rgof-4.0.0/Rgof/inst/doc/Rgof.Rmd | 274 +++- Rgof-4.0.0/Rgof/inst/doc/Rgof.html | 893 +++++++++------ Rgof-4.0.0/Rgof/man/Rgof-package.Rd | 5 Rgof-4.0.0/Rgof/man/as.data.frame.Rgof_power_adaptive.Rd |only Rgof-4.0.0/Rgof/man/as.data.frame.Rgof_test.Rd |only Rgof-4.0.0/Rgof/man/case_studies.Rd |only Rgof-4.0.0/Rgof/man/case_studies_sample_sizes.Rd |only Rgof-4.0.0/Rgof/man/funs_list.Rd |only Rgof-4.0.0/Rgof/man/gof_power.Rd | 21 Rgof-4.0.0/Rgof/man/gof_power_adaptive.Rd |only Rgof-4.0.0/Rgof/man/gof_test.Rd | 88 - Rgof-4.0.0/Rgof/man/gof_test_adjusted_pvalue.Rd | 4 Rgof-4.0.0/Rgof/man/makeTSextra.Rd |only Rgof-4.0.0/Rgof/man/maketypeTS.Rd |only Rgof-4.0.0/Rgof/man/mledexp.Rd |only Rgof-4.0.0/Rgof/man/mlemix.Rd |only Rgof-4.0.0/Rgof/man/mletexp.Rd |only Rgof-4.0.0/Rgof/man/myTS_cont.Rd |only Rgof-4.0.0/Rgof/man/myTS_disc.Rd |only Rgof-4.0.0/Rgof/man/power.uniform.linear.Rd |only Rgof-4.0.0/Rgof/man/power_study.Rd |only Rgof-4.0.0/Rgof/man/print.Rgof_power_adaptive.Rd |only Rgof-4.0.0/Rgof/man/print.Rgof_test.Rd |only Rgof-4.0.0/Rgof/man/run.studies.Rd | 62 - Rgof-4.0.0/Rgof/man/signif_digits.Rd |only Rgof-4.0.0/Rgof/man/summary.Rgof_test.Rd |only Rgof-4.0.0/Rgof/src/TS_cont.cpp | 5 Rgof-4.0.0/Rgof/src/calcTS.cpp | 17 Rgof-4.0.0/Rgof/tests |only Rgof-4.0.0/Rgof/vignettes/Rgof.Rmd | 274 +++- 63 files changed, 1885 insertions(+), 1260 deletions(-)
Title: Interventional Prediction Evaluation
Description: Provides methods to evaluate predictive performance of models that
estimate risks under hypothetical intervention scenarios
(interventional/causal/counterfactual predictions) with observational data
subject to treatment-outcome confounding. Inverse probability of treatment
weighting (IPTW) is used to construct a pseudopopulation in which all
individuals receive a specified intervention, enabling assessment of
agreement between predicted risks under the intervention and observed
outcomes in the pseudo-population corresponding to that intervention.
Supports interventions with binary or categorical treatment levels, applied
at a single time point. Performance measures supported are AUC (Area
Under the receiving operating characteristic Curve), Brier score,
observed-expected ratio, and calibration plots. Methods implemented in this
package are based on work by Keogh and Van Geloven (2024)
<DOI:10.1097/EDE.0000000000001713>.
Author: Jasper van Egeraat [aut, cre],
Nan van Geloven [aut, cph],
Ruth Keogh [aut, cph],
Leiden University Medical Center [fnd]
Maintainer: Jasper van Egeraat <j.w.a.van_egeraat@lumc.nl>
Diff between ipeval versions 0.1.1 dated 2026-08-29 and 0.1.2 dated 2026-09-13
DESCRIPTION | 6 ++-- MD5 | 16 ++++++------ NEWS.md | 4 +++ R/bootstrap.R | 9 ++++++- R/helpers.R | 8 ++++++ R/ip_score.R | 10 ++++---- inst/doc/time-to-event.html | 12 ++++----- man/ip_score.Rd | 9 ++++--- tests/testthat/test-ip_score.R | 51 ++++++++++++++++++++++++++++++++++------- 9 files changed, 91 insertions(+), 34 deletions(-)
Title: A Text Mining Workflow Tool
Description: Provides a text mining and natural language processing
workflow for documents. Includes preprocessing
via 'quanteda', lexical analysis (term frequency-inverse document
frequency, log-odds ratios, lexical diversity) via 'tidytext',
topic modeling via 'stm' and the 'BERTopic' approach, semantic
similarity and document clustering on transformer representations,
an interactive 'Shiny' interface with 'ggplot2' visualization,
optional 'spaCy' preprocessing, and local 'sentence-transformers'
or web-based ('OpenAI', 'Gemini') model
providers for retrieval-augmented generation, as described in
Shin et al. (2026) <doi:10.1177/07319487251412879>.
Author: Mikyung Shin [aut, cre]
Maintainer: Mikyung Shin <shin.mikyung@gmail.com>
Diff between TextAnalysisR versions 0.1.4 dated 2026-07-27 and 0.1.5 dated 2026-09-13
DESCRIPTION | 27 MD5 | 179 NAMESPACE | 17 NEWS.md | 78 R/analytic_memos.R |only R/coding_rounds.R |only R/lexical_analysis.R | 4 R/pattern_confirmation.R |only R/preprocessing.R | 3054 - R/qualitative_coding.R |only R/semantic_analysis.R | 39 R/topic_modeling.R | 319 R/utils.R | 6660 +- README.md | 157 build/partial.rdb |binary build/vignette.rds |binary inst/TextAnalysisR.app/global.R | 721 inst/TextAnalysisR.app/markdown/about.md | 116 inst/TextAnalysisR.app/markdown/ai_integration.md | 106 inst/TextAnalysisR.app/markdown/cybersecurity.md | 54 inst/TextAnalysisR.app/markdown/features.md | 58 inst/TextAnalysisR.app/markdown/guides/stm_guide.html | 1 inst/TextAnalysisR.app/markdown/installation_lexical.md | 58 inst/TextAnalysisR.app/markdown/installation_semantic.md | 66 inst/TextAnalysisR.app/markdown/language.md |only inst/TextAnalysisR.app/markdown/links.md | 42 inst/TextAnalysisR.app/markdown/logo.png |only inst/TextAnalysisR.app/markdown/support.md | 38 inst/TextAnalysisR.app/markdown/web_accessibility.md | 54 inst/TextAnalysisR.app/server.R |43034 +++++++-------- inst/TextAnalysisR.app/ui.R | 69 inst/TextAnalysisR.app/www/script.js | 154 inst/TextAnalysisR.app/www/styles.css | 75 inst/doc/ai_integration.html | 2 inst/doc/cybersecurity.Rmd | 10 inst/doc/cybersecurity.html | 12 inst/doc/installation.R | 6 inst/doc/installation.Rmd | 13 inst/doc/installation.html | 14 inst/doc/lexical_analysis.Rmd | 4 inst/doc/lexical_analysis.html | 15 inst/doc/multimodal_analysis.Rmd | 4 inst/doc/multimodal_analysis.html | 7 inst/doc/preprocessing.Rmd | 36 inst/doc/preprocessing.html | 59 inst/doc/python_environment.Rmd | 4 inst/doc/python_environment.html | 6 inst/doc/qualitative_coding.R |only inst/doc/qualitative_coding.Rmd |only inst/doc/qualitative_coding.html |only inst/doc/quickstart.R | 3 inst/doc/quickstart.Rmd | 7 inst/doc/quickstart.html | 9 inst/doc/semantic_analysis.Rmd | 2 inst/doc/semantic_analysis.html | 20 inst/doc/topic_modeling.R | 20 inst/doc/topic_modeling.Rmd | 382 inst/doc/topic_modeling.html | 193 man/add_memo.Rd |only man/align_categories.Rd |only man/apply_codes.Rd |only man/assign_noise.Rd |only man/call_llm_api.Rd | 4 man/cluster_embedding_topics.Rd |only man/cluster_embeddings.Rd | 2 man/code_agreement.Rd |only man/code_retest.Rd |only man/detect_language.Rd |only man/detect_language_llm.Rd |only man/estimate_topic_effects.Rd |only man/find_optimal_k.Rd | 5 man/fit_embedding_model.Rd | 4 man/fit_embedding_topics.Rd | 4 man/fit_semantic_model.Rd | 2 man/get_memos.Rd |only man/lexical_frequency_analysis.Rd | 2 man/log_round.Rd |only man/merge_codes.Rd |only man/plot_cluster_terms.Rd | 2 man/plot_topic_effects_categorical.Rd | 2 man/plot_topic_effects_continuous.Rd | 2 man/prep_texts.Rd | 246 man/round_summary.Rd |only man/run_neural_topics_internal.Rd | 15 man/semantic_similarity_analysis.Rd | 2 man/sentiment_embedding_analysis.Rd | 4 man/split_texts.Rd |only man/uncoded_units.Rd |only man/validate_categories.Rd |only tests/testthat/test-coding-trail.R |only tests/testthat/test-detect-language.R |only tests/testthat/test-math-mode.R |only tests/testthat/test-pattern-confirmation.R |only tests/testthat/test-prevalence-formula.R |only tests/testthat/test-qualitative-coding.R |only tests/testthat/test-sentiment-sign.R |only tests/testthat/test-statistical-methods.R | 2 tests/testthat/test-topic-effects.R |only vignettes/cybersecurity.Rmd | 10 vignettes/installation.Rmd | 13 vignettes/lexical_analysis.Rmd | 4 vignettes/multimodal_analysis.Rmd | 4 vignettes/preprocessing.Rmd | 36 vignettes/python_environment.Rmd | 4 vignettes/qualitative_coding.Rmd |only vignettes/quickstart.Rmd | 7 vignettes/semantic_analysis.Rmd | 2 vignettes/topic_modeling.Rmd | 382 108 files changed, 29089 insertions(+), 27679 deletions(-)
Title: Cluster Gauss-Newton Method
Description: Find multiple solutions of a nonlinear least squares problem. Cluster Gauss-Newton method does not assume uniqueness of the solution of the nonlinear least squares problem and compute multiple minimizers. Please cite the following paper when this software is used in your research: Aoki et al. (2020) <doi:10.1007/s11081-020-09571-2>. Cluster Gauss–Newton method. Optimization and Engineering, 1-31. Please cite the following paper when profile likelihood plot is drawn with this software and used in your research: Aoki and Sugiyama (2024) <doi:10.1002/psp4.13055>. Cluster Gauss-Newton method for a quick approximation of profile likelihood: With application to physiologically-based pharmacokinetic models. CPT Pharmacometrics Syst Pharmacol.13(1):54-67. GPT based helper bot available at <https://chatgpt.com/g/g-684936db9e748191a2796debb00cd755-cluster-gauss-newton-method-helper-bot> .
Author: Yasunori Aoki [aut, cre]
Maintainer: Yasunori Aoki <yaoki@uwaterloo.ca>
Diff between CGNM versions 0.9.3 dated 2026-01-08 and 0.10.0 dated 2026-09-13
DESCRIPTION | 15 LICENSE | 4 MD5 | 98 NAMESPACE | 78 R/CGNM-package.R |only R/CGNM_result-class.R |only R/Cluster_Gauss_Newton_method.R | 134 R/PostProcess.R | 6028 +++++----- R/generateCGNM_script.R |only R/shinyCGNM_related.R | 282 README.md |only build/partial.rdb |only inst/doc/CGNM-vignette.Rmd | 490 inst/doc/CGNM-vignette.html | 282 inst/shinyCGNM/CodeGenerationRelatedFunctions.R | 1510 +- inst/shinyCGNM/rsconnect/shinyapps.io/bluetreeme/shinyCGNM.dcf | 24 inst/shinyCGNM/server.R | 5338 ++++---- inst/shinyCGNM/ui.R | 544 man/CGNM-package.Rd |only man/CGNM_result-class.Rd |only man/Cluster_Gauss_Newton_Bootstrap_method.Rd | 145 man/Cluster_Gauss_Newton_EBE_method.Rd | 149 man/Cluster_Gauss_Newton_method.Rd | 326 man/acceptedApproximateMinimizers.Rd | 130 man/acceptedIndices.Rd | 118 man/acceptedIndices_binary.Rd | 118 man/acceptedMaxSSR.Rd | 118 man/as_CGNM_result_S4.Rd |only man/bestApproximateMinimizers.Rd | 112 man/compare_profileLikelihood.Rd | 132 man/generateCGNM_script.Rd |only man/make_ShinyCGNM_doseData.Rd | 89 man/make_ShinyCGNM_initialCondition.Rd |only man/make_ShinyCGNM_observationData.Rd | 96 man/make_ShinyCGNM_parameterInfo.Rd |only man/make_ShinyCGNM_simulationTimepoints.Rd |only man/plot_2DprofileLikelihood.Rd | 180 man/plot_Rank_SSR.Rd | 94 man/plot_SSR_parameterValue.Rd | 118 man/plot_SSRsurface.Rd | 150 man/plot_goodnessOfFit.Rd | 140 man/plot_paraDistribution_byHistogram.Rd | 132 man/plot_paraDistribution_byViolinPlots.Rd | 126 man/plot_parameterValue_scatterPlots.Rd | 94 man/plot_profileLikelihood.Rd | 132 man/plot_simulationMatrixWithCI.Rd | 148 man/plot_simulationWithCI.Rd | 152 man/table_parameterSummary.Rd | 128 man/table_profileLikelihoodConfidenceInterval.Rd | 138 man/topIndices.Rd | 100 tests |only vignettes/CGNM-vignette.Rmd | 490 52 files changed, 9551 insertions(+), 9131 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-27 1.0.2
Title: Static Library and Headers for 'OpenEXR' Image I/O
Description: Provides the 'OpenEXR' static library and 'C++' headers
for high-dynamic-range image I/O (see <https://openexr.com/>)
needed to link R packages against the 'OpenEXR' library, along
with a basic R interface to load 'EXR' images.
Author: Tyler Morgan-Wall [aut, cre] ,
Aaron Demolder [ctb, cph],
Abe Fettig [ctb, cph],
Aloys Baillet [ctb, cph],
Andre Mazzone [ctb, cph],
Andrew Kunz [ctb, cph],
Anton Dukhovnikov [ctb, cph],
Antonio Rojas [ctb, cph],
Aras Pranckevicius [ctb, cph],
Arkady [...truncated...]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between libopenexr versions 3.4.12-4 dated 2026-05-31 and 3.4.12-6 dated 2026-09-13
DESCRIPTION | 6 MD5 | 19 - R/read_write_exr.R | 274 +++++++++++++++--- man/read_exr.Rd | 12 man/write_exr.Rd | 20 + src/OpenEXR/src/lib/IlmThread/IlmThreadProcessGroup.h | 2 src/r-api.cpp | 200 ++++++++++++- tests |only tools/config.R | 259 +++++++++-------- tools/remove_stderr.R | 49 +-- tools/search-replace.R | 102 +++--- 11 files changed, 689 insertions(+), 254 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-12-06 0.1.3
2025-10-28 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-05-05 0.6.0
2024-09-16 0.5.0
2023-03-08 0.4.0
2022-06-09 0.3.4
2022-01-05 0.3.3
2022-01-04 0.3.2
2021-04-03 0.3.1
2021-04-01 0.3.0
2020-01-29 0.2.0
2020-01-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-09-03 1.3-1
2023-07-15 1.3
2022-05-25 1.2-6
2019-07-27 1.2-5
2019-01-22 1.2-4
2018-07-25 1.2
2018-04-09 1.1
2016-09-03 1.0
2015-05-03 0.7-5
2014-12-10 0.7-4
2013-12-12 0.7-0
2013-03-11 0.6-2
Title: Language Server Protocol
Description: An implementation of the Language Server Protocol
for R. The Language Server protocol is used by an editor client to
integrate features like auto completion. See
<https://microsoft.github.io/language-server-protocol/> for details.
Author: Randy Lai [aut, cre],
Kun Ren [ctb]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between languageserver versions 0.3.18 dated 2026-05-02 and 0.3.19 dated 2026-09-13
DESCRIPTION | 10 MD5 | 175 +++-- NEWS.md | 94 +++ R/call_hierarchy.R | 682 ++++++++++++++++------- R/capabilities.R | 33 - R/code_action.R | 590 ++++++++++++++++--- R/code_lens.R |only R/completion.R | 569 +++++++++++++++---- R/definition.R | 18 R/diagnostics.R | 57 + R/document.R | 336 +++++++++-- R/folding.R | 86 +- R/formatting.R | 364 ++++++++++-- R/handlers-general.R | 21 R/handlers-langfeatures.R | 141 ++++ R/handlers-textsync.R | 65 ++ R/handlers-workspace.R | 101 ++- R/highlight.R | 30 - R/hover.R | 108 +-- R/index.R |only R/inlay_hint.R |only R/inline_value.R |only R/interfaces.R | 2 R/languagebase.R | 4 R/languageserver.R | 221 ++++++- R/link.R | 64 +- R/linked_editing.R |only R/literate.R |only R/namespace.R | 228 ++++--- R/protocol.R | 17 R/provider_index.R |only R/refactor.R |only R/references.R | 255 ++++++++ R/rename.R | 12 R/section.R | 84 -- R/selection.R | 1 R/semantic.R | 288 +++++++++ R/settings.R | 27 R/signature.R | 395 ++----------- R/symbol.R | 16 R/task.R | 446 ++++++++++++--- R/type_hierarchy.R | 124 ++-- R/utils.R | 232 +++++-- R/workspace.R | 398 ++++++++++++- README.md | 49 + inst/benchmarks |only man/document_code_action_reply.Rd | 10 man/languageserver-package.Rd | 5 src/call_hierarchy.c |only src/call_hierarchy.h |only src/completion.c |only src/completion.h |only src/index.c |only src/index.h |only src/json.c |only src/json.h |only src/languageserver.c | 22 src/navigation.c |only src/navigation.h |only src/provider_index.c |only src/search.c | 94 +++ src/search.h | 3 src/semantic.c | 132 ++++ src/semantic.h | 5 src/signature.c |only src/signature.h |only tests/testthat/helper-provider.R |only tests/testthat/helper-utils.R | 13 tests/testthat/test-cache.R |only tests/testthat/test-call-hierarchy-performance.R |only tests/testthat/test-call-hierarchy.R | 94 +++ tests/testthat/test-call-scan-cache.R |only tests/testthat/test-code-action.R | 318 ++++++++++ tests/testthat/test-code-lens.R |only tests/testthat/test-color.R | 21 tests/testthat/test-completion-typing.R |only tests/testthat/test-completion.R | 346 +++++++++++ tests/testthat/test-document-core.R |only tests/testthat/test-formatting.R | 227 +++++++ tests/testthat/test-handlers-langfeatures.R |only tests/testthat/test-handlers-textsync.R |only tests/testthat/test-hover.R | 109 +++ tests/testthat/test-index.R |only tests/testthat/test-inlay-hint.R |only tests/testthat/test-inline-value.R |only tests/testthat/test-intelligence-performance.R |only tests/testthat/test-interfaces.R |only tests/testthat/test-langauagecilent.R | 15 tests/testthat/test-languagebase.R |only tests/testthat/test-languageserver-core.R |only tests/testthat/test-link-core.R |only tests/testthat/test-linked-editing.R |only tests/testthat/test-lintr.R | 122 ++++ tests/testthat/test-literate.R |only tests/testthat/test-lsp-3-18.R |only tests/testthat/test-native-utilities.R |only tests/testthat/test-navigation-index.R |only tests/testthat/test-performance-index.R |only tests/testthat/test-range-index.R |only tests/testthat/test-refactor.R |only tests/testthat/test-references.R | 77 ++ tests/testthat/test-response-json.R |only tests/testthat/test-selection.R | 18 tests/testthat/test-semantic-tokens.R | 425 ++++++++++++++ tests/testthat/test-settings-log.R |only tests/testthat/test-signature.R | 112 +++ tests/testthat/test-symbol.R | 68 ++ tests/testthat/test-task-supersession.R |only tests/testthat/test-task.R | 339 +++++++++++ tests/testthat/test-type-hierarchy-parsing.R |only tests/testthat/test-type-hierarchy.R | 88 ++ tests/testthat/test-utils.R |only tests/testthat/test-workspace-core.R |only 113 files changed, 7430 insertions(+), 1576 deletions(-)
More information about languageserver at CRAN
Permanent link
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 0.20 dated 2026-08-21 and 0.21 dated 2026-09-12
DESCRIPTION | 6 MD5 | 25 R/DDI_Codebook_2.6.R | 7870 ++++++++++++++++++++++++++++++++++++++++++++++++++- R/DDIwR_package.R | 4 R/children.R | 92 R/schemaModel.R |only R/showDetails.R | 69 R/testValid.R | 255 - R/updateSchema.R | 1058 +----- inst/ChangeLog | 5 man/DDI-children.Rd | 4 man/DDIwR_package.Rd | 4 man/testValid.Rd | 25 man/updateSchema.Rd | 29 14 files changed, 8247 insertions(+), 1199 deletions(-)
Title: Changepoint Detection via Modified Genetic Algorithms
Description: The Genetic Algorithm (GA) is used to perform changepoint analysis in time series data. The package also includes an extended island version of GA, as described in Lu, Lund, and Lee (2010, <doi:10.1214/09-AOAS289>). By mimicking the principles of natural selection and evolution, GA provides a powerful stochastic search technique for solving combinatorial optimization problems. In 'changepointGA', each chromosome represents a changepoint configuration, including the number and locations of changepoints, hyperparameters, and model parameters. The package employs genetic operators—selection, crossover, and mutation—to iteratively improve solutions based on the given fitness (objective) function. Key features of 'changepointGA' include encoding changepoint configurations in an integer format, enabling dynamic and simultaneous estimation of model hyperparameters, changepoint configurations, and associated parameters. The detailed algorithmic implementation can be found in the package [...truncated...]
Author: Mo Li [aut, cre],
QiQi Lu [aut]
Maintainer: Mo Li <mo.li@louisiana.edu>
Diff between changepointGA versions 0.1.5 dated 2026-05-18 and 0.1.6 dated 2026-09-12
DESCRIPTION | 10 MD5 | 38 +-- R/RcppExports.R | 2 R/amoc_func.R | 25 +- R/arima_bic.R | 2 R/arima_bic_order_pq.R | 2 R/cptgaisl.R | 2 README.md | 54 +++-- inst/doc/vignette.Rmd | 12 - inst/doc/vignette.html | 331 +++++++++++++++---------------- man/amoc_crossover.Rd | 3 man/amoc_mutation.Rd | 20 - man/amoc_population.Rd | 2 man/arima_bic.Rd | 2 man/arima_bic_order_pq.Rd | 2 man/cptgaisl.Rd | 2 man/random_population.Rd | 2 src/PopInitia.cpp | 2 tests/testthat/test-arima-bic-order-pq.R | 4 vignettes/vignette.Rmd | 12 - 20 files changed, 273 insertions(+), 256 deletions(-)
Title: A Companion Package for the Book "A Course in Statistics with R"
Description: A book designed to meet the requirements of masters students. Tattar, P.N., Suresh, R., and Manjunath, B.G. "A Course in Statistics with R", J. Wiley, ISBN 978-1-119-15272-9.
Author: Prabhanjan Tattar [aut, cre]
Maintainer: Prabhanjan Tattar <prabhanjannt@gmail.com>
Diff between ACSWR versions 1.0 dated 2015-09-05 and 1.0.1 dated 2026-09-12
DESCRIPTION | 12 ++++++------ MD5 | 24 ++++++++++++------------ man/Disease.Rd | 3 ++- man/Ehrenfest.Rd | 4 ++-- man/bs.Rd | 3 ++- man/chest.Rd | 3 ++- man/cloud.Rd | 3 ++- man/cork.Rd | 4 +++- man/cs.Rd | 3 ++- man/depression.Rd | 3 ++- man/flight.Rd | 3 ++- man/lowbwt.Rd | 3 ++- man/memory.Rd | 5 +++-- 13 files changed, 42 insertions(+), 31 deletions(-)
Title: Probabilistic Support Vector Machines
Description: Implements kernel-based classification Support Vector Machines with reliable estimated probabilities of class membership. Theoretical support for the functions in this package can be found in Duarte Silva (2025) <doi:10.1016/j.cor.2025.107203>.
Author: A. Pedro Duarte Silva [aut, cre]
Maintainer: A. Pedro Duarte Silva <psilva@ucp.pt>
Diff between ProbSVMs versions 0.1.0 dated 2026-06-25 and 0.2.0 dated 2026-09-12
CHANGELOG |only DESCRIPTION | 6 +- MD5 | 27 ++++++------- R/LPmodels.R | 4 - R/makeKMat.R | 12 ++++- R/predictPVM.R | 96 +++++++++++++++++++++++++++++++++++------------ R/predkernSVM.R | 90 +++++++++++++++++++++++--------------------- R/trainPVM.R | 7 +-- R/trainSVM.R | 12 ++++- man/ClassProb-methods.Rd | 2 man/ProbSVMs-package.Rd | 13 +++--- man/predictPVM.Rd | 22 ++++++---- man/predictSVM.Rd | 8 ++- man/trainPVM.Rd | 70 +++++++++++++++++++++++++--------- man/trainSVM.Rd | 36 ++++++++++------- 15 files changed, 265 insertions(+), 140 deletions(-)
Title: Muscle Near-Infrared Spectroscopy Processing and Analysis
Description: Read, process, and analyse data from muscle near-infrared
spectroscopy (mNIRS) devices. Import raw data from file and return
time-series data and metadata. Standardised methods for cleaning,
filtering, transforming, and analysing mNIRS data. Custom plot theme
and colour palette. Intended for mNIRS researchers and practitioners
in exercise physiology, sports science, and clinical practice.
Author: Jem Arnold [aut, cre, cph]
Maintainer: Jem Arnold <jem.arnold@gmail.com>
Diff between mnirs versions 0.7.0 dated 2026-08-01 and 0.8.0 dated 2026-09-12
mnirs-0.7.0/mnirs/R/replace_helpers.R |only mnirs-0.7.0/mnirs/inst/extdata/portamon-oxcap.xlsx |only mnirs-0.7.0/mnirs/man/detect_device_channels.Rd |only mnirs-0.7.0/mnirs/man/figures/mnirs-hex-v1.svg |only mnirs-0.7.0/mnirs/man/findInt_mnirs.Rd |only mnirs-0.7.0/mnirs/man/parse_sample_rate.Rd |only mnirs-0.7.0/mnirs/man/portamon-oxcap.xlsx.Rd |only mnirs-0.7.0/mnirs/man/read_data_table.Rd |only mnirs-0.7.0/mnirs/man/select_rename_data.Rd |only mnirs-0.7.0/mnirs/tests/testthat/test-replace_helpers.R |only mnirs-0.7.0/mnirs/vignettes/_extensions |only mnirs-0.8.0/mnirs/DESCRIPTION | 10 mnirs-0.8.0/mnirs/MD5 | 332 + mnirs-0.8.0/mnirs/NAMESPACE | 70 mnirs-0.8.0/mnirs/NEWS.md | 232 + mnirs-0.8.0/mnirs/R/aanalyse_kinetics_helpers.R |only mnirs-0.8.0/mnirs/R/analyse_biexponential.R |only mnirs-0.8.0/mnirs/R/analyse_exponential_drift.R |only mnirs-0.8.0/mnirs/R/analyse_kinetics.R |only mnirs-0.8.0/mnirs/R/analyse_monoexponential.R |only mnirs-0.8.0/mnirs/R/analyse_peak_slope.R |only mnirs-0.8.0/mnirs/R/analyse_response_time.R |only mnirs-0.8.0/mnirs/R/analyse_sigmoidal.R |only mnirs-0.8.0/mnirs/R/analyse_sigmoidal_drift.R |only mnirs-0.8.0/mnirs/R/as_data_list.R | 46 mnirs-0.8.0/mnirs/R/channel_args.R | 113 mnirs-0.8.0/mnirs/R/correct_blood_volume.R |only mnirs-0.8.0/mnirs/R/data.R | 86 mnirs-0.8.0/mnirs/R/extract_interval_helpers.R | 157 mnirs-0.8.0/mnirs/R/extract_intervals.R | 61 mnirs-0.8.0/mnirs/R/filter_mnirs.R | 53 mnirs-0.8.0/mnirs/R/mnirs-package.R | 4 mnirs-0.8.0/mnirs/R/mnirs_methods.R | 127 mnirs-0.8.0/mnirs/R/plot.mnirs.R | 661 +++ mnirs-0.8.0/mnirs/R/read_mnirs.R | 371 +- mnirs-0.8.0/mnirs/R/read_mnirs_helpers.R | 725 ++-- mnirs-0.8.0/mnirs/R/replace_mnirs.R | 20 mnirs-0.8.0/mnirs/R/resample_mnirs.R | 10 mnirs-0.8.0/mnirs/R/rescale_mnirs.R | 2 mnirs-0.8.0/mnirs/R/rolling_helpers.R |only mnirs-0.8.0/mnirs/R/shift_mnirs.R | 34 mnirs-0.8.0/mnirs/R/signif_trailing.R |only mnirs-0.8.0/mnirs/R/validate_mnirs.R | 130 mnirs-0.8.0/mnirs/README.md | 53 mnirs-0.8.0/mnirs/build/partial.rdb |only mnirs-0.8.0/mnirs/inst/doc/reading-mnirs-data.R | 13 mnirs-0.8.0/mnirs/inst/doc/reading-mnirs-data.html | 252 - mnirs-0.8.0/mnirs/inst/doc/reading-mnirs-data.qmd | 129 mnirs-0.8.0/mnirs/inst/extdata/moxy_intervals.csv | 1740 +++++----- mnirs-0.8.0/mnirs/inst/extdata/moxy_ramp.xlsx |binary mnirs-0.8.0/mnirs/inst/extdata/pionirs_occlusion.ftn |only mnirs-0.8.0/mnirs/inst/extdata/portamon_oxcap.xlsx |only mnirs-0.8.0/mnirs/inst/skills |only mnirs-0.8.0/mnirs/man/SSbiexponential.Rd |only mnirs-0.8.0/mnirs/man/SSexponential_drift.Rd |only mnirs-0.8.0/mnirs/man/SSgompertz.Rd |only mnirs-0.8.0/mnirs/man/SSlogistic.Rd |only mnirs-0.8.0/mnirs/man/SSmonoexponential.Rd |only mnirs-0.8.0/mnirs/man/SSsigmoidal_drift.Rd |only mnirs-0.8.0/mnirs/man/accept_port_fit.Rd |only mnirs-0.8.0/mnirs/man/analyse_biexponential.Rd |only mnirs-0.8.0/mnirs/man/analyse_exponential_drift.Rd |only mnirs-0.8.0/mnirs/man/analyse_kinetics.Rd |only mnirs-0.8.0/mnirs/man/analyse_kinetics_channels.Rd |only mnirs-0.8.0/mnirs/man/analyse_kinetics_intervals.Rd |only mnirs-0.8.0/mnirs/man/analyse_logistic.Rd |only mnirs-0.8.0/mnirs/man/analyse_monoexponential.Rd |only mnirs-0.8.0/mnirs/man/analyse_peak_slope.Rd |only mnirs-0.8.0/mnirs/man/analyse_response_time.Rd |only mnirs-0.8.0/mnirs/man/analyse_sigmoidal_drift.Rd |only mnirs-0.8.0/mnirs/man/apply_interval_groups.Rd | 6 mnirs-0.8.0/mnirs/man/apply_span.Rd | 6 mnirs-0.8.0/mnirs/man/artinis_intervals.xlsx.Rd | 7 mnirs-0.8.0/mnirs/man/as_data_list.Rd | 5 mnirs-0.8.0/mnirs/man/as_plot_data.Rd | 8 mnirs-0.8.0/mnirs/man/biexp_core.Rd |only mnirs-0.8.0/mnirs/man/biexp_init.Rd |only mnirs-0.8.0/mnirs/man/biexp_start.Rd |only mnirs-0.8.0/mnirs/man/biexponential.Rd |only mnirs-0.8.0/mnirs/man/build_fit_results.Rd |only mnirs-0.8.0/mnirs/man/build_kinetics_results.Rd |only mnirs-0.8.0/mnirs/man/build_na_results.Rd |only mnirs-0.8.0/mnirs/man/build_ss_formula.Rd |only mnirs-0.8.0/mnirs/man/by_time.Rd | 25 mnirs-0.8.0/mnirs/man/clean_channel_names.Rd |only mnirs-0.8.0/mnirs/man/clean_cnd_message.Rd |only mnirs-0.8.0/mnirs/man/compute_diagnostics.Rd |only mnirs-0.8.0/mnirs/man/compute_helpers.Rd | 82 mnirs-0.8.0/mnirs/man/convert_type.Rd | 36 mnirs-0.8.0/mnirs/man/correct_blood_volume.Rd |only mnirs-0.8.0/mnirs/man/count_decimals.Rd |only mnirs-0.8.0/mnirs/man/count_sigfigs.Rd |only mnirs-0.8.0/mnirs/man/create_mnirs_data.Rd | 18 mnirs-0.8.0/mnirs/man/detect_direction.Rd |only mnirs-0.8.0/mnirs/man/detect_dttm_format.Rd |only mnirs-0.8.0/mnirs/man/detect_irregular_samples.Rd | 6 mnirs-0.8.0/mnirs/man/detect_mnirs_device.Rd | 2 mnirs-0.8.0/mnirs/man/detect_time_channel.Rd | 25 mnirs-0.8.0/mnirs/man/device_patterns.Rd | 5 mnirs-0.8.0/mnirs/man/dttm_opts.Rd | 4 mnirs-0.8.0/mnirs/man/embed_fit_call.Rd |only mnirs-0.8.0/mnirs/man/enforce_direction.Rd |only mnirs-0.8.0/mnirs/man/ensemble_intervals.Rd | 6 mnirs-0.8.0/mnirs/man/expdrift_init.Rd |only mnirs-0.8.0/mnirs/man/expdrift_model.Rd |only mnirs-0.8.0/mnirs/man/expdrift_onset.Rd |only mnirs-0.8.0/mnirs/man/expdrift_start.Rd |only mnirs-0.8.0/mnirs/man/exponential_drift.Rd |only mnirs-0.8.0/mnirs/man/extract_intervals.Rd | 29 mnirs-0.8.0/mnirs/man/figures/README-extract_intervals_distinct-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-extract_intervals_ensemble-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-filter_mnirs-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-pipeline-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-read_mnirs-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-replace_mnirs-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-rescale_mnirs-1.png |binary mnirs-0.8.0/mnirs/man/figures/README-shift_mnirs-1.png |binary mnirs-0.8.0/mnirs/man/filter_butterworth.Rd | 4 mnirs-0.8.0/mnirs/man/filter_mnirs.Rd | 10 mnirs-0.8.0/mnirs/man/filter_moving_average.Rd | 6 mnirs-0.8.0/mnirs/man/find_header_row.Rd |only mnirs-0.8.0/mnirs/man/find_kinetics_idx.Rd |only mnirs-0.8.0/mnirs/man/fit_biexponential.Rd |only mnirs-0.8.0/mnirs/man/fit_control.Rd |only mnirs-0.8.0/mnirs/man/fit_exponential_drift.Rd |only mnirs-0.8.0/mnirs/man/fit_monoexponential.Rd |only mnirs-0.8.0/mnirs/man/fit_names.Rd |only mnirs-0.8.0/mnirs/man/fit_sigmoidal.Rd |only mnirs-0.8.0/mnirs/man/fit_sigmoidal_drift.Rd |only mnirs-0.8.0/mnirs/man/fit_td_fallback.Rd |only mnirs-0.8.0/mnirs/man/free_params.Rd |only mnirs-0.8.0/mnirs/man/full_coefs.Rd |only mnirs-0.8.0/mnirs/man/gompertz.Rd |only mnirs-0.8.0/mnirs/man/gompertz_init.Rd |only mnirs-0.8.0/mnirs/man/hms_to_seconds.Rd |only mnirs-0.8.0/mnirs/man/init_asymptotes.Rd |only mnirs-0.8.0/mnirs/man/init_fixed.Rd |only mnirs-0.8.0/mnirs/man/init_inflection.Rd |only mnirs-0.8.0/mnirs/man/is_arg_map.Rd |only mnirs-0.8.0/mnirs/man/kinetics_annotations.Rd |only mnirs-0.8.0/mnirs/man/kinetics_warnings_df.Rd |only mnirs-0.8.0/mnirs/man/logistic.Rd |only mnirs-0.8.0/mnirs/man/logistic_init.Rd |only mnirs-0.8.0/mnirs/man/map_mnirs_intervals.Rd | 4 mnirs-0.8.0/mnirs/man/monoexp_init.Rd |only mnirs-0.8.0/mnirs/man/monoexp_model.Rd |only mnirs-0.8.0/mnirs/man/monoexp_start.Rd |only mnirs-0.8.0/mnirs/man/monoexponential.Rd |only mnirs-0.8.0/mnirs/man/moxy_intervals.csv.Rd | 2 mnirs-0.8.0/mnirs/man/moxy_ramp.xlsx.Rd | 2 mnirs-0.8.0/mnirs/man/name_channels.Rd | 25 mnirs-0.8.0/mnirs/man/normalise_interval_groups.Rd | 6 mnirs-0.8.0/mnirs/man/oxysoft_sample_rate.Rd |only mnirs-0.8.0/mnirs/man/palette_mnirs.Rd | 2 mnirs-0.8.0/mnirs/man/parse_dttm.Rd |only mnirs-0.8.0/mnirs/man/parse_oxysoft_legend.Rd |only mnirs-0.8.0/mnirs/man/parse_time_channel.Rd | 24 mnirs-0.8.0/mnirs/man/peak_slope.Rd |only mnirs-0.8.0/mnirs/man/pionirs_occlusion.ftn.Rd |only mnirs-0.8.0/mnirs/man/plot.mnirs_kinetics.Rd |only mnirs-0.8.0/mnirs/man/portamon_oxcap.xlsx.Rd |only mnirs-0.8.0/mnirs/man/preserve_na.Rd | 2 mnirs-0.8.0/mnirs/man/print.mnirs.Rd | 3 mnirs-0.8.0/mnirs/man/print.mnirs_kinetics.Rd |only mnirs-0.8.0/mnirs/man/read_mnirs.Rd | 160 mnirs-0.8.0/mnirs/man/recycle_param.Rd | 3 mnirs-0.8.0/mnirs/man/recycle_span.Rd | 4 mnirs-0.8.0/mnirs/man/recycle_to_length.Rd | 9 mnirs-0.8.0/mnirs/man/replace_mnirs.Rd | 8 mnirs-0.8.0/mnirs/man/resample_mnirs.Rd | 6 mnirs-0.8.0/mnirs/man/rescale_mnirs.Rd | 8 mnirs-0.8.0/mnirs/man/resolve_channel_args.Rd | 6 mnirs-0.8.0/mnirs/man/resolve_channels.Rd |only mnirs-0.8.0/mnirs/man/resolve_fixed_params.Rd |only mnirs-0.8.0/mnirs/man/resolve_interval_args.Rd |only mnirs-0.8.0/mnirs/man/response_time.Rd |only mnirs-0.8.0/mnirs/man/rolling_slope.Rd |only mnirs-0.8.0/mnirs/man/select_channels.Rd |only mnirs-0.8.0/mnirs/man/seq_range.Rd |only mnirs-0.8.0/mnirs/man/setup_kinetics_worker.Rd |only mnirs-0.8.0/mnirs/man/shift_mnirs.Rd | 12 mnirs-0.8.0/mnirs/man/sigdrift_init.Rd |only mnirs-0.8.0/mnirs/man/sigdrift_model.Rd |only mnirs-0.8.0/mnirs/man/sigdrift_onset.Rd |only mnirs-0.8.0/mnirs/man/sigdrift_rate.Rd |only mnirs-0.8.0/mnirs/man/sigdrift_start.Rd |only mnirs-0.8.0/mnirs/man/sigdrift_texc.Rd |only mnirs-0.8.0/mnirs/man/sigmoid_core.Rd |only mnirs-0.8.0/mnirs/man/sigmoidal_drift.Rd |only mnirs-0.8.0/mnirs/man/signif_trailing.Rd |only mnirs-0.8.0/mnirs/man/solve_grid3.Rd |only mnirs-0.8.0/mnirs/man/split_kinetics_groups.Rd |only mnirs-0.8.0/mnirs/man/theme_mnirs.Rd | 3 mnirs-0.8.0/mnirs/man/train.red_intervals.csv.Rd | 6 mnirs-0.8.0/mnirs/man/validate_findInt.Rd |only mnirs-0.8.0/mnirs/man/validate_fix.Rd |only mnirs-0.8.0/mnirs/man/validate_kinetics_args.Rd |only mnirs-0.8.0/mnirs/man/validate_mnirs.Rd | 6 mnirs-0.8.0/mnirs/man/warn_fit_failed.Rd |only mnirs-0.8.0/mnirs/man/warn_map_keys.Rd |only mnirs-0.8.0/mnirs/man/within.Rd | 2 mnirs-0.8.0/mnirs/man/wrap.Rd |only mnirs-0.8.0/mnirs/tests/testthat/Rplots.pdf |binary mnirs-0.8.0/mnirs/tests/testthat/test-analyse_biexponential.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_exponential_drift.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_kinetics.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_monoexponential.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_peak_slope.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_response_time.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_sigmoidal.R |only mnirs-0.8.0/mnirs/tests/testthat/test-analyse_sigmoidal_drift.R |only mnirs-0.8.0/mnirs/tests/testthat/test-as_data_list.R | 82 mnirs-0.8.0/mnirs/tests/testthat/test-call-attribution.R | 37 mnirs-0.8.0/mnirs/tests/testthat/test-correct_blood_volume.R |only mnirs-0.8.0/mnirs/tests/testthat/test-extract_intervals.R | 213 + mnirs-0.8.0/mnirs/tests/testthat/test-plot.mnirs.R | 80 mnirs-0.8.0/mnirs/tests/testthat/test-plot.mnirs_kinetics.R |only mnirs-0.8.0/mnirs/tests/testthat/test-read_mnirs.R | 1532 ++++---- mnirs-0.8.0/mnirs/tests/testthat/test-replace_mnirs.R | 1 mnirs-0.8.0/mnirs/tests/testthat/test-resample_mnirs.R | 1 mnirs-0.8.0/mnirs/tests/testthat/test-rolling_helpers.R |only mnirs-0.8.0/mnirs/tests/testthat/test-shift_mnirs.R | 88 mnirs-0.8.0/mnirs/tests/testthat/test-signif_trailing.R |only mnirs-0.8.0/mnirs/tests/testthat/test-validate_mnirs.R | 12 mnirs-0.8.0/mnirs/vignettes/_quarto.yaml |only mnirs-0.8.0/mnirs/vignettes/apa.csl |only mnirs-0.8.0/mnirs/vignettes/reading-mnirs-data.qmd | 129 227 files changed, 5149 insertions(+), 3050 deletions(-)
Title: Groupwise Regularized Adaptive Sparse Precision Solution
Description: Provides a unified framework for sparse-group regularization and
precision matrix estimation in Gaussian graphical models. It implements
multiple sparse-group penalties, including sparse-group lasso, sparse-group
adaptive lasso, sparse-group SCAD, and sparse-group MCP, and solves them
efficiently using ADMM-based optimization. The package is designed for
high-dimensional network inference where both sparsity and group structure
are present.
Author: Shiying Xiao [aut, cre] ,
Jun Yan [aut] ,
Panpan Zhang [aut]
Maintainer: Shiying Xiao <shiying.xiao@outlook.com>
Diff between grasps versions 0.1.1 dated 2026-05-02 and 0.1.2 dated 2026-09-12
DESCRIPTION | 8 ++-- MD5 | 30 ++++++++-------- NAMESPACE | 6 ++- NEWS.md | 31 ++++++++++++++++ R/gen_prec_sbm.R | 36 ++++++++++++++++--- R/grasps.R | 83 ++++++++++++++++++++++++++++++--------------- R/line_search_lambda_max.R | 14 ++++--- build/partial.rdb |binary build/vignette.rds |binary inst/REFERENCES.bib | 14 +++++++ inst/doc/crit.html | 11 +++-- inst/doc/pen_est.html | 13 ++++--- inst/doc/pen_est.qmd | 2 - man/gen_prec_sbm.Rd | 11 ++++- man/grasps.Rd | 11 +++-- vignettes/pen_est.qmd | 2 - 16 files changed, 195 insertions(+), 77 deletions(-)
Title: Very Large Numbers in R
Description: Very large numbers in R. Real numbers are held
using their natural logarithms, plus a logical flag indicating
sign. Functionality for complex numbers is also provided. The
package includes a vignette that gives a step-by-step
introduction to using S4 methods.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between Brobdingnag versions 1.2-9 dated 2022-10-19 and 1.3-1 dated 2026-09-12
DESCRIPTION | 21 ++-- MD5 | 69 ++++++++------ NAMESPACE | 73 +++++++++++---- NEWS.md |only R/brob.R | 223 ++++++++++++++++++++++++++++------------------ R/extract.R | 5 - R/glub.R | 48 ++++++--- R/matrix.R | 27 ++++- README.md | 38 +++---- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 19 +-- inst/doc/Brobdingnag.R | 2 inst/doc/Brobdingnag.Rnw | 6 - inst/doc/Brobdingnag.pdf |binary inst/doc/S4_brob.R | 2 inst/doc/S4_brob.Rnw | 8 - inst/doc/S4_brob.pdf |binary inst/doc/brobmat.R |only inst/doc/brobmat.Rmd |only inst/doc/brobmat.html |only man/Compare.Rd | 2 man/Extract.Rd | 13 ++ man/Logic.Rd | 2 man/Math.Rd | 19 +++ man/Summary.Rd | 12 ++ man/as.numeric.Rd | 7 + man/brob.Rd | 11 +- man/brobmat-class.Rd | 2 man/brobmat.Rd | 18 ++- man/cbrob.Rd | 10 +- tests/testthat/test_aab.R |only tests/testthat/test_aac.R |only tests/testthat/test_aad.R |only tests/testthat/test_aae.R |only tests/testthat/test_aaf.R |only vignettes/Brobdingnag.Rnw | 6 - vignettes/S4_brob.Rnw | 8 - vignettes/brob.bib | 29 ++--- vignettes/brobmat.Rmd | 65 ++++++++----- 40 files changed, 465 insertions(+), 280 deletions(-)
Title: Local Partial Likelihood Estimation and Simultaneous Confidence
Band
Description: Local partial likelihood estimation by Fan, Lin and Zhou(2006)<doi:10.1214/009053605000000796> and simultaneous confidence band is a set of tools to test the covariates-biomarker interaction for survival data. Test for the covariates-biomarker interaction using the bootstrap method and the asymptotic method with simultaneous confidence band (Liu, Jiang and Chen (2015)<doi:10.1002/sim.6563>).
Author: Bingshu E. Chen [aut, cre],
Yicong Liu [aut],
Siwei Zhang [aut],
Teng Wen [aut],
Wenyu Jiang [aut]
Maintainer: Bingshu E. Chen <bingshu.chen@queensu.ca>
Diff between lpl versions 0.13 dated 2025-08-20 and 0.15 dated 2026-09-12
DESCRIPTION | 8 ++++---- MD5 | 19 +++++++++++++------ NAMESPACE | 9 ++++++++- R/coxlogLik.R |only R/numScoreHess.R | 38 +++++++++++++------------------------- R/utils.R |only man/coxScoreHess.Rd | 24 ++++++++++++++++++------ man/coxcumhaz.Rd |only man/coxlogLik.Rd |only man/csv.Rd |only man/numHessian.Rd | 10 +++++----- man/oddsRadio.Rd |only man/rSurv.Rd | 2 +- man/softmax.Rd |only 14 files changed, 62 insertions(+), 48 deletions(-)
Title: C/C++ Source Code to Trigger Address and Undefined Behaviour
Sanitizers
Description: Recent gcc and clang compiler versions provide functionality to
test for memory violations and other undefined behaviour; this is often
referred to as "Address Sanitizer" (or 'ASAN') and "Undefined Behaviour
Sanitizer" ('UBSAN'). The Writing R Extension manual describes this in some
detail in Section 4.3 title "Checking Memory Access".
This feature has to be enabled in the corresponding binary, eg in R, which
is somewhat involved as it also required a current compiler toolchain which
is not yet widely available, or in the case of Windows, not available at all
(via the common Rtools mechanism).
As an alternative, pre-built Docker containers such as the Rocker container
'r-devel-san' or the multi-purpose container 'r-debug' can be used.
This package then provides a means of testing the compiler setup as the
known code failures provides in the sample code here should be detected
correctly, whereas a default build of R will let the package pass.
The code samples are based on the exampl [...truncated...]
Author: Dirk Eddelbuettel [aut, cre]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between sanitizers versions 0.1.1 dated 2023-06-11 and 0.1.2 dated 2026-09-12
ChangeLog | 36 ++++++++++++++++++++++++++++++++++++ DESCRIPTION | 15 +++++++++------ MD5 | 12 ++++++------ README.md | 5 +++-- build/partial.rdb |binary inst/NEWS.Rd | 12 +++++++++++- man/sanitizers-package.Rd | 12 ++++++++++++ 7 files changed, 77 insertions(+), 15 deletions(-)
Title: Analysis of Visual Meteor Data
Description: Provides a suite of analytical functionalities to process and analyze
visual meteor observations from the Visual Meteor Database
of the International Meteor Organization <https://www.imo.net/>.
Author: Janko Richter [aut, cre]
Maintainer: Janko Richter <janko@richtej.de>
Diff between vismeteor versions 3.0.1 dated 2026-05-19 and 3.1.0 dated 2026-09-12
DESCRIPTION | 8 MD5 | 98 ++- NAMESPACE | 6 NEWS.md | 63 ++ R/load_data.R | 22 R/mideal.R | 24 R/vmgeom.R | 10 R/vmgeom_glm.R |only R/vmgeom_vst.R | 253 ++++++---- R/vmgeom_vst_lm.R |only R/vmideal.R | 98 ++- R/vmideal_glm.R |only R/vmideal_vst.R | 55 +- build/vignette.rds |binary inst/derivation/vmgeom_vst.R | 457 +++++++++--------- inst/derivation/vmideal_vst.R | 165 ++---- inst/derivation/vmperceptions.R | 129 +---- inst/doc/select_knots.html | 4 inst/doc/vismeteor.Rmd | 21 inst/doc/vismeteor.html | 29 + inst/doc/vmgeom.R | 97 ++- inst/doc/vmgeom.Rmd | 538 +++++++++++++++++++-- inst/doc/vmgeom.html | 876 ++++++++++++++++++++++++++--------- inst/doc/vmideal.R | 97 +++ inst/doc/vmideal.Rmd | 400 ++++++++++++++- inst/doc/vmideal.html | 666 +++++++++++++++++++------- man/load_vmdb.Rd | 22 man/mideal.Rd | 2 man/vmgeom.Rd | 2 man/vmgeom_glm.Rd |only man/vmgeom_vst.Rd | 95 ++- man/vmgeom_vst_lm.Rd |only man/vmideal.Rd | 12 man/vmideal_glm.Rd |only man/vmideal_vst.Rd | 18 tests/manual |only tests/testthat/test_cvmideal.R | 13 tests/testthat/test_dmideal.R | 6 tests/testthat/test_dvmideal.R | 87 +++ tests/testthat/test_load_vmdb.R | 9 tests/testthat/test_pmideal.R | 9 tests/testthat/test_pvmideal.R | 24 tests/testthat/test_qmideal.R | 19 tests/testthat/test_qvmgeom.R | 14 tests/testthat/test_qvmideal.R | 28 + tests/testthat/test_rmideal.R | 5 tests/testthat/test_rvmideal.R | 21 tests/testthat/test_vmgeom_family.R |only tests/testthat/test_vmgeom_vst.R | 140 ++++- tests/testthat/test_vmgeom_vst_lm.R |only tests/testthat/test_vmideal_family.R |only tests/testthat/test_vmideal_vst.R | 82 +++ vignettes/vismeteor.Rmd | 21 vignettes/vmgeom.Rmd | 538 +++++++++++++++++++-- vignettes/vmideal.Rmd | 400 ++++++++++++++- 55 files changed, 4359 insertions(+), 1324 deletions(-)
Title: Forced-Choice Modeling Based on Item Response Theory and
Cognitive Diagnostic Models
Description: Fits, simulates, and evaluates forced-choice and traditional
item response theory (IRT) models for noncognitive assessment. Eight model
families are supported, spanning dominance (multidimensional IRT (MIRT)
1PL--4PL; multidimensional generalized partial credit model (MGPCM)),
ideal-point unfolding (multidimensional generalized graded unfolding
model (MGGUM)), and forced-choice designs (forced-choice multidimensional
IRT (FCMIRT), forced-choice generalized graded unfolding model (FCGGUM),
Thurstonian IRT (TIRT), forced-choice diagnostic classification model
(FCDCM), forced-choice generalized deterministic inputs, noisy "and" gate
model (FCGDINA)) that mitigate response biases such as acquiescence and
social desirability. Core estimation backends include full Bayesian
inference via Hamiltonian Monte Carlo (Stan) and a fast improved
stochastic expectation-maximization (iStEM) algorithm suitable for
large-scale data; FCGDINA also provides a deterministic
expectation-maximization (EM) esti [...truncated...]
Author: Haijiang Qin [aut, cre, cph] ,
Lei Guo [aut, cph]
Maintainer: Haijiang Qin <haijiang133@outlook.com>
Diff between ForceChoice versions 1.0.0 dated 2026-07-30 and 1.0.1 dated 2026-09-12
DESCRIPTION | 11 MD5 | 62 +-- NAMESPACE | 36 +- NEWS.md | 10 build/partial.rdb |binary build/vignette.rds |binary configure | 7 configure.win | 9 inst/doc/ForceChoice-intro.html | 4 inst/doc/ForceChoice-models.html | 4 inst/stan/FCGGUM.stan | 672 +++++++++++++++++++-------------------- inst/stan/FCMIRT.stan | 594 +++++++++++++++++----------------- inst/stan/MGPCM.stan | 278 ++++++++-------- inst/stan/MIRT.stan | 320 +++++++++--------- inst/stan/include/license.stan | 28 - man/ForceChoice-package.Rd | 1 src/stanExports_FCDCM.cc | 34 - src/stanExports_FCDCM.h | 295 +++++++++++------ src/stanExports_FCGDINA.cc | 34 - src/stanExports_FCGDINA.h | 472 ++++++++++++++++++++------- src/stanExports_FCGGUM.cc | 34 - src/stanExports_FCGGUM.h | 667 +++++++++++++++++++++++++++----------- src/stanExports_FCMIRT.cc | 34 - src/stanExports_FCMIRT.h | 558 +++++++++++++++++++++++--------- src/stanExports_MGGUM.cc | 34 - src/stanExports_MGGUM.h | 545 ++++++++++++++++++++++++------- src/stanExports_MGPCM.cc | 34 - src/stanExports_MGPCM.h | 346 ++++++++++++++------ src/stanExports_MIRT.cc | 34 - src/stanExports_MIRT.h | 447 ++++++++++++++++++------- src/stanExports_TIRT.cc | 34 - src/stanExports_TIRT.h | 378 ++++++++++++++------- 32 files changed, 3834 insertions(+), 2182 deletions(-)
Title: Psychometric Analysis with Rasch Measurement Theory
Description: Streamlines reproducible Rasch measurement theory analyses
for ordinal item-response data, combining estimation routines from
'eRm', 'psychotools', 'mirt', 'iarm', and 'lavaan' with consistent
diagnostic, plotting, and reporting layers. Covers the four basic
psychometric criteria summarised by Christensen et al. (2021)
<doi:10.1111/sms.13908> -- unidimensionality, local independence,
ordered response category thresholds, and invariance across
subgroups -- together with item fit, targeting, reliability,
category functioning, and descriptive item-response plots. A
distinguishing feature is the use of simulation-based critical
values to replace rule-of-thumb cutoffs for conditional infit mean-square,
Yen's Q3 local-dependence statistic, the largest residual-PCA eigenvalue,
ordinal CFA fit indices, and partial-gamma DIF and local-dependence
coefficients, optionally augmented with multiplicity-corrected bootstrap
p-values. Outputs are knitr::kable() tables and
'ggplot2' figures suitab [...truncated...]
Author: Magnus Johansson [aut, cre] ,
Nicklas Korsell [ctb] ,
Mirka Henninger [ctb] ,
Jan Radek [ctb]
Maintainer: Magnus Johansson <pgmj@pm.me>
Diff between easyRasch2 versions 1.2.0 dated 2026-08-23 and 1.3.0 dated 2026-09-12
easyRasch2-1.2.0/easyRasch2/vignettes/figures/rasch-q3-1.png |only easyRasch2-1.3.0/easyRasch2/DESCRIPTION | 10 easyRasch2-1.3.0/easyRasch2/MD5 | 58 - easyRasch2-1.3.0/easyRasch2/NAMESPACE | 3 easyRasch2-1.3.0/easyRasch2/NEWS.md | 47 easyRasch2-1.3.0/easyRasch2/R/cfa_cutoff.R | 21 easyRasch2-1.3.0/easyRasch2/R/ld_partgam.R | 45 easyRasch2-1.3.0/easyRasch2/R/person_change.R |only easyRasch2-1.3.0/easyRasch2/R/person_change_exact.R |only easyRasch2-1.3.0/easyRasch2/R/reliability.R | 102 + easyRasch2-1.3.0/easyRasch2/R/reliability_curve.R |only easyRasch2-1.3.0/easyRasch2/R/retest_sd.R |only easyRasch2-1.3.0/easyRasch2/R/targeting_plot.R | 519 +++++++++- easyRasch2-1.3.0/easyRasch2/R/utils-theta.R | 88 + easyRasch2-1.3.0/easyRasch2/R/zzz.R |only easyRasch2-1.3.0/easyRasch2/README.md | 15 easyRasch2-1.3.0/easyRasch2/inst/doc/easyRasch2.Rmd | 103 + easyRasch2-1.3.0/easyRasch2/inst/doc/easyRasch2.html | 160 ++- easyRasch2-1.3.0/easyRasch2/man/RMlocdepGamma.Rd | 7 easyRasch2-1.3.0/easyRasch2/man/RMlocdepGammaCutoff.Rd | 19 easyRasch2-1.3.0/easyRasch2/man/RMlocdepGammaPlot.Rd | 6 easyRasch2-1.3.0/easyRasch2/man/RMpersonChange.Rd |only easyRasch2-1.3.0/easyRasch2/man/RMreliability.Rd | 44 easyRasch2-1.3.0/easyRasch2/man/RMreliabilityCurve.Rd |only easyRasch2-1.3.0/easyRasch2/man/RMretestSD.Rd |only easyRasch2-1.3.0/easyRasch2/man/RMtargeting.Rd | 65 + easyRasch2-1.3.0/easyRasch2/tests/testthat/test-cfa_cutoff.R | 33 easyRasch2-1.3.0/easyRasch2/tests/testthat/test-person_change.R |only easyRasch2-1.3.0/easyRasch2/tests/testthat/test-reliability.R | 43 easyRasch2-1.3.0/easyRasch2/tests/testthat/test-reliability_curve.R |only easyRasch2-1.3.0/easyRasch2/tests/testthat/test-retest_sd.R |only easyRasch2-1.3.0/easyRasch2/tests/testthat/test-startup.R |only easyRasch2-1.3.0/easyRasch2/tests/testthat/test-targeting.R | 74 + easyRasch2-1.3.0/easyRasch2/vignettes/easyRasch2.Rmd | 103 + easyRasch2-1.3.0/easyRasch2/vignettes/easyRasch2.Rmd.orig | 75 + easyRasch2-1.3.0/easyRasch2/vignettes/figures/rasch-relcurve-1.png |only easyRasch2-1.3.0/easyRasch2/vignettes/figures/rasch-targeting-1.png |binary 37 files changed, 1387 insertions(+), 253 deletions(-)
Title: Methods and Measures for Semantic Network Analysis
Description: Implements several functions for the analysis of semantic networks including different network estimation algorithms, partial node bootstrapping (Kenett, Anaki, & Faust, 2014 <doi:10.3389/fnhum.2014.00407>), random walk simulation (Kenett & Austerweil, 2016), and a function to compute global network measures. Significance tests and plotting features are also implemented.
Author: Alexander P. Christensen [aut, cre] ,
Yoed N. Kenett [aut, ctb]
Maintainer: Alexander P. Christensen <alexpaulchristensen@gmail.com>
Diff between SemNeT versions 1.4.5 dated 2025-11-03 and 2.0.0 dated 2026-09-12
SemNeT-1.4.5/SemNeT/NEWS |only SemNeT-1.4.5/SemNeT/R/ASPL.R |only SemNeT-1.4.5/SemNeT/R/CC.R |only SemNeT-1.4.5/SemNeT/R/CN.R |only SemNeT-1.4.5/SemNeT/R/NRW.R |only SemNeT-1.4.5/SemNeT/R/PF.R |only SemNeT-1.4.5/SemNeT/R/Q.R |only SemNeT-1.4.5/SemNeT/R/SemNeT.R |only SemNeT-1.4.5/SemNeT/R/TMFG.R |only SemNeT-1.4.5/SemNeT/R/bootSemNeT.R |only SemNeT-1.4.5/SemNeT/R/compare_nets.R |only SemNeT-1.4.5/SemNeT/R/methods.R |only SemNeT-1.4.5/SemNeT/R/permSemNeT.R |only SemNeT-1.4.5/SemNeT/R/plot.bootSemNeT.R |only SemNeT-1.4.5/SemNeT/R/randnet.test.R |only SemNeT-1.4.5/SemNeT/R/randwalk.R |only SemNeT-1.4.5/SemNeT/R/response.analysis.R |only SemNeT-1.4.5/SemNeT/R/semnetmeas.R |only SemNeT-1.4.5/SemNeT/R/sim.fluency.R |only SemNeT-1.4.5/SemNeT/R/test.bootSemNeT.R |only SemNeT-1.4.5/SemNeT/R/utils-SemNeT.R |only SemNeT-1.4.5/SemNeT/R/utils-SemNeTShiny.R |only SemNeT-1.4.5/SemNeT/inst/CITATION |only SemNeT-1.4.5/SemNeT/man/ASPL.Rd |only SemNeT-1.4.5/SemNeT/man/CC.Rd |only SemNeT-1.4.5/SemNeT/man/CN.Rd |only SemNeT-1.4.5/SemNeT/man/NRW.Rd |only SemNeT-1.4.5/SemNeT/man/PF.Rd |only SemNeT-1.4.5/SemNeT/man/Q.Rd |only SemNeT-1.4.5/SemNeT/man/TMFG.Rd |only SemNeT-1.4.5/SemNeT/man/plot.animateShiny.Rd |only SemNeT-1.4.5/SemNeT/man/plot.compareShiny.Rd |only SemNeT-2.0.0/SemNeT/DESCRIPTION | 25 SemNeT-2.0.0/SemNeT/MD5 | 182 - SemNeT-2.0.0/SemNeT/NAMESPACE | 132 - SemNeT-2.0.0/SemNeT/NEWS.md |only SemNeT-2.0.0/SemNeT/R/SemNeT-package.R |only SemNeT-2.0.0/SemNeT/R/SemNeTShiny.R | 82 SemNeT-2.0.0/SemNeT/R/aspl.R |only SemNeT-2.0.0/SemNeT/R/bootstrap_SemNeT.R |only SemNeT-2.0.0/SemNeT/R/bootstrap_test_SemNeT.R |only SemNeT-2.0.0/SemNeT/R/cc.R |only SemNeT-2.0.0/SemNeT/R/cn.R |only SemNeT-2.0.0/SemNeT/R/compare_networks.R |only SemNeT-2.0.0/SemNeT/R/convert2cytoscape.R | 169 - SemNeT-2.0.0/SemNeT/R/convert2igraph.R | 81 SemNeT-2.0.0/SemNeT/R/equate.R | 216 + SemNeT-2.0.0/SemNeT/R/finalize.R | 118 SemNeT-2.0.0/SemNeT/R/forward_flow.R |only SemNeT-2.0.0/SemNeT/R/helpers.R |only SemNeT-2.0.0/SemNeT/R/legacy.R |only SemNeT-2.0.0/SemNeT/R/nrw.R |only SemNeT-2.0.0/SemNeT/R/permutation_SemNeT.R |only SemNeT-2.0.0/SemNeT/R/pf.R |only SemNeT-2.0.0/SemNeT/R/plot.bootstrap_SemNeT.R |only SemNeT-2.0.0/SemNeT/R/q.R |only SemNeT-2.0.0/SemNeT/R/random_network_test.R |only SemNeT-2.0.0/SemNeT/R/random_walk.R |only SemNeT-2.0.0/SemNeT/R/response_analysis.R |only SemNeT-2.0.0/SemNeT/R/semantic_network_measures.R |only SemNeT-2.0.0/SemNeT/R/shiny_helpers.R |only SemNeT-2.0.0/SemNeT/R/similarity.R | 258 +- SemNeT-2.0.0/SemNeT/R/simulate_fluency.R |only SemNeT-2.0.0/SemNeT/R/tmfg.R |only SemNeT-2.0.0/SemNeT/R/zzz.R | 102 SemNeT-2.0.0/SemNeT/build |only SemNeT-2.0.0/SemNeT/inst/Shiny/R |only SemNeT-2.0.0/SemNeT/inst/Shiny/global.R |only SemNeT-2.0.0/SemNeT/inst/Shiny/server.R | 2438 ------------------- SemNeT-2.0.0/SemNeT/inst/Shiny/ui.R | 366 -- SemNeT-2.0.0/SemNeT/man/SemNeT-package.Rd | 4 SemNeT-2.0.0/SemNeT/man/SemNeTShiny.Rd | 54 SemNeT-2.0.0/SemNeT/man/animals.freq.Rd | 40 SemNeT-2.0.0/SemNeT/man/aspl.Rd |only SemNeT-2.0.0/SemNeT/man/bootSemNeT.Rd | 131 - SemNeT-2.0.0/SemNeT/man/bootstrap_SemNeT.Rd |only SemNeT-2.0.0/SemNeT/man/bootstrap_test_SemNeT.Rd |only SemNeT-2.0.0/SemNeT/man/cc.Rd |only SemNeT-2.0.0/SemNeT/man/cn.Rd |only SemNeT-2.0.0/SemNeT/man/compare_nets.Rd | 90 SemNeT-2.0.0/SemNeT/man/compare_networks.Rd |only SemNeT-2.0.0/SemNeT/man/convert2cytoscape.Rd | 21 SemNeT-2.0.0/SemNeT/man/convert2igraph.Rd | 19 SemNeT-2.0.0/SemNeT/man/equate.Rd | 31 SemNeT-2.0.0/SemNeT/man/finalize.Rd | 26 SemNeT-2.0.0/SemNeT/man/forward_flow.Rd |only SemNeT-2.0.0/SemNeT/man/nrw.Rd |only SemNeT-2.0.0/SemNeT/man/one.result.Rd | 38 SemNeT-2.0.0/SemNeT/man/permutation_SemNeT.Rd |only SemNeT-2.0.0/SemNeT/man/pf.Rd |only SemNeT-2.0.0/SemNeT/man/plot.bootSemNeT.Rd | 34 SemNeT-2.0.0/SemNeT/man/plot.bootstrap_SemNeT.Rd |only SemNeT-2.0.0/SemNeT/man/q.Rd |only SemNeT-2.0.0/SemNeT/man/randnet.test.Rd | 50 SemNeT-2.0.0/SemNeT/man/random_network_test.Rd |only SemNeT-2.0.0/SemNeT/man/random_walk.Rd |only SemNeT-2.0.0/SemNeT/man/randwalk.Rd | 62 SemNeT-2.0.0/SemNeT/man/read_uploaded_file.Rd |only SemNeT-2.0.0/SemNeT/man/response.analysis.Rd | 42 SemNeT-2.0.0/SemNeT/man/response_analysis.Rd |only SemNeT-2.0.0/SemNeT/man/responses_to_binary.Rd |only SemNeT-2.0.0/SemNeT/man/semantic_network_measures.Rd |only SemNeT-2.0.0/SemNeT/man/semnetmeas.Rd | 37 SemNeT-2.0.0/SemNeT/man/sim.fluency.Rd | 31 SemNeT-2.0.0/SemNeT/man/similarity.Rd | 51 SemNeT-2.0.0/SemNeT/man/simulate_fluency.Rd |only SemNeT-2.0.0/SemNeT/man/test.bootSemNeT.Rd | 138 - SemNeT-2.0.0/SemNeT/man/tmfg.Rd |only SemNeT-2.0.0/SemNeT/man/two.result.Rd | 38 SemNeT-2.0.0/SemNeT/src |only SemNeT-2.0.0/SemNeT/tests |only 111 files changed, 1199 insertions(+), 3907 deletions(-)
More information about USPopulationSampler at CRAN
Permanent link
Title: Collection of Household Survey Packages Conducted by IBGE
Description: Provides access to packages developed for downloading, reading and analyzing
microdata from household surveys in Integrated System of Household Surveys - SIPD
conducted by Brazilian Institute of Geography and Statistics - IBGE.
More information can be obtained from the official website <https://www.ibge.gov.br/>.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb],
Viviane Quintaes [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between SIPDIBGE versions 0.2.1 dated 2024-02-01 and 0.2.2 dated 2026-09-12
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NAMESPACE | 39 +++++++++++++++++++-------------------- NEWS.md | 4 ++++ R/sipd_conflicts.R | 4 ++-- R/sipd_deps.R | 4 ++-- R/sipd_logo.R | 4 ++-- R/sipd_packages.R | 4 ++-- R/sipd_sitrep.R | 4 ++-- R/sipd_update.R | 4 ++-- 10 files changed, 49 insertions(+), 46 deletions(-)
Title: Calculate ANSI/ASA S3.5-1997 (R2024) Speech Intelligibility
Index
Description: Calculates the American National Standards Institute (ANSI) S3.5-1997
Speech Intelligibility Index (SII) (ANSI 1997,
(ANSI, 1997)), a standard
method for computing the intelligibility of speech from acoustical
measurements of speech, noise, and hearing thresholds. This package
includes data frames corresponding to Tables 1 - 4 in the ANSI standard as
well as functions utilizing these tables and user-provided hearing
threshold and noise level measurements to compute the SII score. The
methods implemented here extend the standard computations to allow
calculation of SII when the measured frequencies do not match those
required by the standard by applying interpolation. Furthermore, the
package now includes a native, highly optimized C++ implementation of the
canonical Moore & Glasberg (2004) specific loudness model for impaired
hearing, which structurally mirrors the bramslow2004 implementation from
the Auditory Modeling Toolbox (AMT) to calculate loudness in perceptual
sones. It als [...truncated...]
Author: Gregory R. Warnes [aut, cph],
Mark Shaver [cre, aut]
Maintainer: Mark Shaver <mark.shaver@posteo.net>
This is a re-admission after prior archival of version 1.0.3.1 dated 2018-11-18
Diff between SII versions 1.0.3.1 dated 2018-11-18 and 1.2.4 dated 2026-09-12
SII-1.0.3.1/SII/R/reload.constants.R |only SII-1.2.4/SII/ChangeLog | 2 SII-1.2.4/SII/DESCRIPTION | 77 +- SII-1.2.4/SII/LICENSE |only SII-1.2.4/SII/MD5 | 69 +- SII-1.2.4/SII/NAMESPACE | 13 SII-1.2.4/SII/NEWS | 27 SII-1.2.4/SII/R/RcppExports.R |only SII-1.2.4/SII/R/benchmark_reference_audiograms.R |only SII-1.2.4/SII/R/benchmark_targets.R |only SII-1.2.4/SII/R/globals.R |only SII-1.2.4/SII/R/moore_glasberg.R |only SII-1.2.4/SII/R/nalr.R |only SII-1.2.4/SII/R/open_nl.R |only SII-1.2.4/SII/R/plot.SII.R | 541 +++++++++++++++++-- SII-1.2.4/SII/R/print.SII.R | 1 SII-1.2.4/SII/R/sii.R | 501 +++++++++++++++++ SII-1.2.4/SII/R/sii.excel.R | 4 SII-1.2.4/SII/R/summary.SII.R | 1 SII-1.2.4/SII/README.md |only SII-1.2.4/SII/build/vignette.rds |binary SII-1.2.4/SII/inst/ChangeLog | 2 SII-1.2.4/SII/inst/NEWS | 27 SII-1.2.4/SII/inst/doc/SII.R | 60 -- SII-1.2.4/SII/inst/doc/SII.Rnw | 41 - SII-1.2.4/SII/inst/doc/SII.pdf |binary SII-1.2.4/SII/man/SII-package.Rd | 10 SII-1.2.4/SII/man/calculate_binaural_loudness.Rd |only SII-1.2.4/SII/man/calculate_loudness.Rd |only SII-1.2.4/SII/man/calculate_loudness_bramslow2004.Rd |only SII-1.2.4/SII/man/calculate_loudness_cpp.Rd |only SII-1.2.4/SII/man/convert_1_3_octave_to_density.Rd |only SII-1.2.4/SII/man/critical.Rd | 8 SII-1.2.4/SII/man/export_gains.Rd |only SII-1.2.4/SII/man/get_specific_loudness.Rd |only SII-1.2.4/SII/man/open_nl.Rd |only SII-1.2.4/SII/man/prescribe_compression.Rd |only SII-1.2.4/SII/man/sic.critical.Rd | 15 SII-1.2.4/SII/man/sii.Rd | 122 +++- SII-1.2.4/SII/src |only SII-1.2.4/SII/tests/test_loudness_equivalence.R |only SII-1.2.4/SII/tests/test_opennl_mixed.R |only SII-1.2.4/SII/tests/testthat |only SII-1.2.4/SII/tests/testthat.R |only SII-1.2.4/SII/vignettes/Open-NL_Algorithm.md |only SII-1.2.4/SII/vignettes/SII.Rnw | 41 - 46 files changed, 1341 insertions(+), 221 deletions(-)
Title: Creates Statistical Reports
Description: Contains functions to create regulatory-style statistical reports.
Originally designed to create tables, listings, and figures for the
pharmaceutical, biotechnology, and medical device industries, these
reports are generalized enough that they could be used in any industry.
Generates text, rich-text, PDF, HTML, and Microsoft Word file formats.
The package specializes
in printing wide and long tables with automatic page wrapping and splitting.
Reports can be produced with a minimum of function calls, and without
relying on other table packages. The package supports titles, footnotes,
page header, page footers, spanning headers, page by variables,
and automatic page numbering.
Author: David Bosak [aut, cre],
Bill Huang [aut],
Kevin Kramer [ctb],
Duong Tran [ctb],
Raphael Huang [ctb],
Archytas Clinical Solutions [cph]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between reporter versions 1.4.8 dated 2026-07-21 and 1.4.9 dated 2026-09-12
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Title: General Class of Models for Recurrent Event Data
Description: Parameter estimation for the general class of semiparametric
models for recurrent event data proposed by Peña and Hollander (2004,
<ISBN:978-1-4020-7737-6>). The model incorporates an effective age
function encoding the impact of interventions after each event
occurrence, the effect of accumulating event occurrences, a link
function for possibly time-dependent covariates, and optional gamma
frailties to induce dependence among inter-event times. It also fits
the extension for cancer relapses of González et al. (2005)
<doi:10.1002/sim.2410>. Estimation is performed by profile likelihood,
with an expectation-maximization algorithm for the frailty model, and
the package provides descriptive, diagnostic and predictive tools for
the fitted models.
Author: Dolors Pelegri-Siso [aut, cre] ,
Juan R. Gonzalez [aut],
Elizabeth H. Slate [aut],
Edsel A. Pena [aut]
Maintainer: Dolors Pelegri-Siso <dolors.pelegri@isglobal.org>
This is a re-admission after prior archival of version 1.0-3 dated 2009-02-06
Diff between gcmrec versions 1.0-3 dated 2009-02-06 and 2.0.0 dated 2026-09-12
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Title: Detect Periods of Sleep and Non-Wear in 'ActiGraph' Data
Description: Reads *.agd files exported from 'ActiGraph' devices;
implements the Troiano (2008) <doi:10.1249/mss.0b013e31815a51b3> and
Choi (2011) <doi:10.1249/MSS.0b013e3181ed61a3> algorithms for
detecting periods on non-wear;
implements the Sadeh (1994) <doi:10.1093/sleep/17.3.201>,
Cole-Kripke (1992) <doi:10.1093/sleep/15.5.461>, and Oakley (1997)
algorithms for
detecting asleep/awake state
and the Tudor-Locke (2014) <doi:10.1139/apnm-2013-0173> algorithm
to detect sleep periods from asleep/awake states.
Author: Desislava Petkova [aut, cre],
John Muschelli [ctb]
Maintainer: Desislava Petkova <desislavka@gmail.com>
Diff between actigraph.sleepr versions 0.3.1 dated 2026-06-02 and 0.4.0 dated 2026-09-12
DESCRIPTION | 19 ++++----- MD5 | 39 ++++++++++--------- NAMESPACE | 58 ++++++++++++++++++---------- NEWS.md | 5 ++ R/actigraph.sleepr-package.R | 1 R/apply_cole_kripke.R | 69 +++++++++++++++++++++++++++++++--- R/apply_oakley.R |only R/read_agd.R | 6 +- R/tbl_agd.R | 2 README.md | 61 ++++++++++++------------------ build/partial.rdb |only build/vignette.rds |binary inst/doc/detect-sleep.Rmd | 26 ++++++++---- inst/doc/detect-sleep.html | 69 +++++++++++++++++++++------------- man/apply_cole_kripke.Rd | 20 ++++++++- man/apply_oakley.Rd |only man/read_agd.Rd | 6 +- man/tbl_agd.Rd | 2 tests/testthat/test_input_agdb.R | 13 ++++++ tests/testthat/test_nonwear_func.R | 43 +++++++++++++++++++++ tests/testthat/test_sleep_func.R | 75 +++++++++++++++++++++++++++++++++++++ vignettes/detect-sleep.Rmd | 26 ++++++++---- 22 files changed, 396 insertions(+), 144 deletions(-)
More information about actigraph.sleepr at CRAN
Permanent link
More information about MobilityDataPT at CRAN
Permanent link
Title: Easily Download Data and Metadata from 'DataONE'
Description: A set of tools to foster the development of reproducible analytical workflow by simplifying the download of data and
metadata from 'DataONE' (<https://www.dataone.org>) and easily importing this information into R.
Author: Julien Brun [cre, aut] ,
Irene Steves [aut] ,
Mitchell Maier [aut] ,
Kristen Peach [aut] ,
Nicholas Lyon [aut] ,
Nathan Hwangbo [ctb] ,
Derek Strong [ctb] ,
Colin Smith [ctb] ,
Regents of the University of California [cph]
Maintainer: Julien Brun <julien.brun@alumni.duke.edu>
This is a re-admission after prior archival of version 0.3.1 dated 2024-08-16
Diff between metajam versions 0.3.1 dated 2024-08-16 and 0.3.2 dated 2026-09-12
DESCRIPTION | 30 +- MD5 | 68 ++--- NEWS.md | 7 R/check_version.R | 4 R/download_ISO_data.R | 2 R/download_d1_data.R | 56 ++-- R/download_d1_data_pkg.R | 6 R/get_pkg_pids.R | 2 R/tabularize_eml.R | 8 R/utils.R | 2 README.md | 1 build/vignette.rds |binary inst/doc/use01_dataset-single-arctic.R | 22 - inst/doc/use01_dataset-single-arctic.Rmd | 4 inst/doc/use01_dataset-single-arctic.html | 13 - inst/doc/use02_dataset-single-dataone.R | 59 +---- inst/doc/use02_dataset-single-dataone.Rmd | 73 +----- inst/doc/use02_dataset-single-dataone.html | 110 +++------ inst/doc/use03_dataset-batch-processing.R | 318 +++++++++++++-------------- inst/doc/use03_dataset-batch-processing.Rmd | 2 inst/doc/use03_dataset-batch-processing.html | 11 inst/doc/use04_reading-raster.R | 48 ++-- inst/doc/use04_reading-raster.Rmd | 2 inst/doc/use04_reading-raster.html | 11 inst/doc/use05_package-download.R | 28 +- inst/doc/use05_package-download.html | 9 man/check_version.Rd | 4 man/download_d1_data.Rd | 6 man/download_d1_data_pkg.Rd | 6 man/tabularize_eml.Rd | 8 tests/testthat/test-download_d1_data.R | 9 vignettes/use01_dataset-single-arctic.Rmd | 4 vignettes/use02_dataset-single-dataone.Rmd | 73 +----- vignettes/use03_dataset-batch-processing.Rmd | 2 vignettes/use04_reading-raster.Rmd | 2 35 files changed, 461 insertions(+), 549 deletions(-)
Title: Distributes Teachers Lessons On Days in a Balanced Manner
Description: The set of teacher/class lessons is completed with a column that
allocates a day to each lesson, so that the distribution of lessons by
day, by class, and by teacher is as uniform as possible.
<https://vlad.bazon.net/>.
Author: Vlad Bazon [aut, cre]
Maintainer: Vlad Bazon <vlad.bazon@gmail.com>
Diff between days2lessons versions 0.1.3 dated 2025-05-20 and 1.0.0 dated 2026-09-12
DESCRIPTION | 8 ++-- MD5 | 33 ++++++++++--------- NAMESPACE | 29 +++++++++------- NEWS.md | 6 +++ R/daily_cls2prof.R |only R/data.R | 2 - R/days2tupl.R | 11 ++++-- R/globals.R |only R/less2days.R | 2 - R/mount_days.R | 6 ++- inst/doc/balanced_sch.R | 18 +++++----- inst/doc/balanced_sch.Rmd | 9 +++-- inst/doc/balanced_sch.html | 76 ++++++++++++++++++++++++-------------------- man/LSS.Rd | 2 - man/daily_cls2prof.Rd |only man/days2lessons-package.Rd | 5 ++ man/days2tupl.Rd | 5 +- man/mount_days.Rd | 3 + vignettes/balanced_sch.Rmd | 9 +++-- 19 files changed, 131 insertions(+), 93 deletions(-)
More information about Compositionalscsmr at CRAN
Permanent link
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors as described in Migueles and colleagues (JMPB 2019), and van Hees and colleagues (JApplPhysiol 2014; PLoSONE 2015). The package has been developed and tested for binary data from 'GENEActiv' <https://activinsights.com/>, binary (.gt3x) and .csv-export data from 'Actigraph' <https://ametris.com/> devices, and binary (.cwa) and .csv-export data from 'Axivity' <https://axivity.com>. These devices are currently widely used in research on human daily physical activity. Further, the package can handle accelerometer data file from any other sensor brand providing that the data is stored in csv format. Also the package allows for external function embedding.
Author: Vincent T van Hees [aut, cre],
Jairo H Migueles [aut] ,
Samuel T Afolabi [ctb] ,
Severine Sabia [ctb],
Matthew R Patterson [ctb],
Zhou Fang [ctb],
Joe Heywood [ctb],
Joan Capdevila Pujol [ctb],
Lena Kushleyeva [ctb],
Mathilde Chen [ctb],
Manasa Yerra [...truncated...]
Maintainer: Vincent T van Hees <v.vanhees@accelting.com>
Diff between GGIR versions 3.3-8 dated 2026-07-24 and 3.3-9 dated 2026-09-12
DESCRIPTION | 8 - MD5 | 67 +++++++------- NEWS.md | 10 ++ R/HASPT.R | 13 ++ R/check_params.R | 4 R/g.getmeta.R | 9 + R/g.part5.R | 17 ++- R/g.part5.definedays.R | 143 +++++++++++++++++-------------- R/g.part5.lux_persegment.R | 19 ++-- R/g.part5.onsetwaketiming.R | 1 R/g.part5.savetimeseries.R | 4 R/g.part5_analyseSegment.R | 70 ++++++++++----- R/g.report.part5.R | 67 +++++++++----- R/load_params.R | 4 R/visualReport.R | 2 R/zzz.R | 9 + build/vignette.rds |binary inst/doc/CutPoints.html | 2 inst/doc/ExternalFunction.html | 2 inst/doc/GGIR.html | 2 inst/doc/GGIRParameters.Rmd | 2 inst/doc/GGIRParameters.html | 27 +++++ inst/doc/GGIRoutput.html | 2 inst/doc/TutorialDaySegmentAnalyses.Rmd | 8 + inst/doc/TutorialDaySegmentAnalyses.html | 32 +++++- inst/doc/readmyacccsv.html | 2 man/GGIR-package.Rd | 4 man/GGIR.Rd | 16 +++ tests/testthat/test_HASPT.R | 27 +++++ tests/testthat/test_greadaccfile.R | 26 +---- tests/testthat/test_load_check_params.R | 2 tests/testthat/test_part5_qwindow.R | 56 +++++++++--- tests/testthat/test_zzz.R |only vignettes/GGIRParameters.Rmd | 2 vignettes/TutorialDaySegmentAnalyses.Rmd | 8 + 35 files changed, 444 insertions(+), 223 deletions(-)
Title: Open Source OCR Engine
Description: Bindings to 'Tesseract':
a powerful optical character recognition (OCR) engine that supports over 100 languages.
The engine is highly configurable in order to tune the detection algorithms and
obtain the best possible results.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between tesseract versions 5.3.0 dated 2026-09-04 and 5.3.1 dated 2026-09-12
tesseract-5.3.0/tesseract/inst/tessdata |only tesseract-5.3.1/tesseract/DESCRIPTION | 6 +-- tesseract-5.3.1/tesseract/MD5 | 46 ++------------------------ tesseract-5.3.1/tesseract/NEWS | 3 + tesseract-5.3.1/tesseract/cleanup | 1 tesseract-5.3.1/tesseract/inst/doc/intro.html | 4 +- tesseract-5.3.1/tesseract/src/tesseract.cpp | 8 ++-- 7 files changed, 17 insertions(+), 51 deletions(-)
More information about RobustArithmetic at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-31 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-08-22 0.1.4
2026-05-11 0.1.4
2023-06-30 0.1.3
2022-08-09 0.1.2
2019-11-30 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-09-05 0.3.0
2024-10-03 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-08-21 0.1.2
2026-04-15 0.1.1-1
2023-02-11 0.1.1
2022-12-05 0.1.0
Title: Data Driven Smooth Tests
Description: Smooth tests are data driven (alternative hypothesis is dynamically selected based on data).
In this package you will find two groups of smooth of test: goodness-of-fit tests and
nonparametric tests for comparing distributions.
Among goodness-of-fit tests there are tests for exponent, Gaussian, Gumbel
and uniform distribution.
Among nonparametric tests there are tests for stochastic dominance,
k-sample test, test with umbrella alternatives and test for change-point problems.
Author: Przemyslaw Biecek [aut, cre] ,
Teresa Ledwina [aut],
Grzegorz Wylupek [aut]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between ddst versions 1.4 dated 2016-05-26 and 1.6.11 dated 2026-09-12
ddst-1.4/ddst/R/ddst.IIC.R |only ddst-1.4/ddst/R/ddst.base.cos.R |only ddst-1.4/ddst/R/ddst.base.legendre.R |only ddst-1.4/ddst/R/ddst.exp.Nk.R |only ddst-1.4/ddst/R/ddst.extr.Nk.R |only ddst-1.4/ddst/R/ddst.extr.test.R |only ddst-1.4/ddst/R/ddst.norm.Nk.R |only ddst-1.4/ddst/R/ddst.norm.test.R |only ddst-1.4/ddst/R/ddst.phi.R |only ddst-1.4/ddst/R/ddst.uniform.Nk.R |only ddst-1.4/ddst/man/ddst-package.Rd |only ddst-1.4/ddst/man/ddst.extr.test.Rd |only ddst-1.4/ddst/man/ddst.norm.test.Rd |only ddst-1.6.11/ddst/DESCRIPTION | 45 ddst-1.6.11/ddst/MD5 | 56 ddst-1.6.11/ddst/NAMESPACE | 46 ddst-1.6.11/ddst/NEWS.md |only ddst-1.6.11/ddst/R/ddst.againststochdom.test.R |only ddst-1.6.11/ddst/R/ddst.evd.test.R |only ddst-1.6.11/ddst/R/ddst.exp.test.R | 3586 ++++++++++++++++----- ddst-1.6.11/ddst/R/ddst.forstochdom.test.R |only ddst-1.6.11/ddst/R/ddst.ksample.test.R |only ddst-1.6.11/ddst/R/ddst.misc.R |only ddst-1.6.11/ddst/R/ddst.normbounded.test.R |only ddst-1.6.11/ddst/R/ddst.normunbounded.test.R |only ddst-1.6.11/ddst/R/ddst.plot.R |only ddst-1.6.11/ddst/R/ddst.twosample.test.R |only ddst-1.6.11/ddst/R/ddst.umbrellaknownp.test.R |only ddst-1.6.11/ddst/R/ddst.umbrellaunknownp.test.R |only ddst-1.6.11/ddst/R/ddst.uniform.test.R | 149 ddst-1.6.11/ddst/R/ddst.upwardtrend.test.R |only ddst-1.6.11/ddst/R/zzz.R | 3568 ++++++++++---------- ddst-1.6.11/ddst/build |only ddst-1.6.11/ddst/inst |only ddst-1.6.11/ddst/man/ddst.againststochdom.test.Rd |only ddst-1.6.11/ddst/man/ddst.evd.test.Rd |only ddst-1.6.11/ddst/man/ddst.exp.test.Rd | 96 ddst-1.6.11/ddst/man/ddst.forstochdom.test.Rd |only ddst-1.6.11/ddst/man/ddst.ksample.test.Rd |only ddst-1.6.11/ddst/man/ddst.normbounded.test.Rd |only ddst-1.6.11/ddst/man/ddst.normunbounded.test.Rd |only ddst-1.6.11/ddst/man/ddst.twosample.test.Rd |only ddst-1.6.11/ddst/man/ddst.umbrellaknownp.test.Rd |only ddst-1.6.11/ddst/man/ddst.umbrellaunknownp.test.Rd |only ddst-1.6.11/ddst/man/ddst.uniform.test.Rd | 103 ddst-1.6.11/ddst/man/ddst.upwardtrend.test.Rd |only ddst-1.6.11/ddst/man/plot.ddst.test.Rd |only ddst-1.6.11/ddst/vignettes |only 48 files changed, 4851 insertions(+), 2798 deletions(-)
Title: Access Brazilian National Treasury Open Data APIs
Description: Provides a unified interface to access open data from the
Brazilian National Treasury ('Tesouro Nacional') and related government
APIs. Covers six data sources: 'SICONFI'
<https://apidatalake.tesouro.gov.br/docs/siconfi/> for fiscal reports
('RREO', 'RGF', 'DCA', 'MSC') and entity information; 'CUSTOS'
<https://apidatalake.tesouro.gov.br/docs/custos/> for federal
government cost data; 'SADIPEM'
<https://apidatalake.tesouro.gov.br/docs/sadipem/> for public debt and
credit operations; 'Transferencias Constitucionais'
<https://apiapex.tesouro.gov.br/aria/v1/transferencias_constitucionais/docs>
for constitutional transfers to states and municipalities; 'SIORG'
<https://estruturaorganizacional.dados.gov.br> for federal
organizational structure; and 'SIOPE' ('FNDE'/'MEC') for education
spending data. Features automatic pagination, in-memory caching,
retry logic, and tidy output.
Author: Andre Leite [aut, cre],
Marcos Wasilew [aut],
Hugo Vasconcelos [aut],
Carlos Amorim [aut],
Diogo Bezerra [aut],
Tiago Pereira [aut],
Fernando Barbalho [aut]
Maintainer: Andre Leite <leite@castlab.org>
Diff between tesouror versions 0.3.0 dated 2026-08-19 and 0.3.1 dated 2026-09-11
DESCRIPTION | 6 MD5 | 17 - NEWS.md | 21 + R/transferencias.R | 66 +++-- R/utils.R | 73 +++++ inst/WORDLIST | 325 ++++++++++++------------- inst/doc/transferencias_pernambuco.html | 4 man/get_tc_por_municipio.Rd | 25 + man/get_tc_por_municipio_detalhe.Rd | 10 tests/testthat/test-transferencias-municipio.R |only 10 files changed, 355 insertions(+), 192 deletions(-)
Title: Relative Importance Factor Analysis
Description: Tools for estimating, comparing, and visualizing Relative
Importance Factor (RIF) indices based on rank-frequency distributions
and discrete power-law models. The package provides reproducible
workflows for data preparation, model fitting, goodness-of-fit
assessment, bootstrap inference, and publication-ready outputs.
The implemented methodology is described in Llinas et al. (2026)
<doi:10.3390/math14060966>.
Author: Humberto J. Llinas M. [aut, cre],
Humberto J. Llinas S. [aut],
Javier A. De la Hoz M. [aut],
Brian J. Llinas M. [aut],
Jose J. Padilla [aut]
Maintainer: Humberto J. Llinas M. <lhumberto@uninorte.edu.co>
Diff between RIFanalysis versions 0.9.2 dated 2026-08-20 and 0.9.3 dated 2026-09-11
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 23 +++++++++++++++++++++++ R/rif_compute.R | 2 +- inst/doc/Vignette1.html | 2 +- inst/doc/Vignette2.html | 2 +- inst/doc/Vignette3.html | 2 +- man/rif_compute.Rd | 2 +- tests/testthat/test-rif-fit-powerlaw.R | 22 +++++++++++++++------- 9 files changed, 54 insertions(+), 23 deletions(-)
Title: Weighted Double Score Matching for Survey-Weighted Causal
Inference
Description: Implements weighted double score matching (WDSM) for estimating
population-level causal effects from complex survey data. Combines
propensity scores and prognostic scores with survey design weights for
matching, survey-weighted imputation within match sets, and Hajek
normalization to target the population average treatment effect (PATE) and
the population average treatment effect on the treated (PATT). Supports
both retrospective (treatment-dependent) and prospective
(treatment-independent) sampling designs. Uses propensity probabilities
and arm-specific prognostic scores for matching, with a complete quadratic
bias correction in each arm's double score. Provides linearization-based
multinomial replication variance estimates and centered normal Wald
confidence intervals, retaining the original matching reuse coefficients
without re-matching. Supplied scores can be held fixed for inference
conditional on those scores. This weight-only interface does not encode
survey strata, clusters, o [...truncated...]
Author: Yukang Zeng [aut, cre],
Guangyu Tong [aut],
Jiaqi Tong [aut],
Haidong Lu [aut],
Bhramar Mukherjee [aut],
Fan Li [aut]
Maintainer: Yukang Zeng <ykzeng2019@gmail.com>
Diff between wdsmatch versions 0.1.1 dated 2026-04-21 and 0.2.0 dated 2026-09-11
wdsmatch-0.1.1/wdsmatch/R/zzz.R |only wdsmatch-0.2.0/wdsmatch/DESCRIPTION | 25 - wdsmatch-0.2.0/wdsmatch/MD5 | 32 - wdsmatch-0.2.0/wdsmatch/NEWS.md |only wdsmatch-0.2.0/wdsmatch/R/bootstrap.R | 193 +-------- wdsmatch-0.2.0/wdsmatch/R/estimate_scores.R | 68 +-- wdsmatch-0.2.0/wdsmatch/R/matching.R | 167 +------ wdsmatch-0.2.0/wdsmatch/R/print.R | 8 wdsmatch-0.2.0/wdsmatch/R/utils.R | 171 +++++--- wdsmatch-0.2.0/wdsmatch/R/wdsm.R |only wdsmatch-0.2.0/wdsmatch/R/wdsmatchATE.R | 212 +++++----- wdsmatch-0.2.0/wdsmatch/R/wdsmatchATT.R | 102 +--- wdsmatch-0.2.0/wdsmatch/man/print.wdsmatch.Rd | 2 wdsmatch-0.2.0/wdsmatch/man/wdsmatchATE.Rd | 172 +++++--- wdsmatch-0.2.0/wdsmatch/man/wdsmatchATT.Rd | 126 +++-- wdsmatch-0.2.0/wdsmatch/tests/testthat/test-corrected-inference.R |only wdsmatch-0.2.0/wdsmatch/tests/testthat/test-internals.R | 126 +++-- wdsmatch-0.2.0/wdsmatch/tests/testthat/test-validation.R | 204 +++++++-- wdsmatch-0.2.0/wdsmatch/tests/testthat/test-wdsmatchATE.R | 3 19 files changed, 819 insertions(+), 792 deletions(-)
Title: Declarative Recipes for Staged Survey Weighting with
Recipe-Aware Replicate Variances
Description: Builds survey analysis weights by declaring the whole weighting
process as an ordered recipe of explicit adjustments, estimated in a
single call. Steps cover within-cluster selection, subsampling for
two-phase designs, nonresponse by weighting classes or
response-propensity models (optionally machine-learning, with
cross-fitting), calibration to known totals following Deville and
Sarndal (1992) <doi:10.2307/2290268>, optionally model-assisted,
non-probability samples by pseudo-weighting, mass imputation and
doubly robust estimators, and range-restricted trimming. Rotating and
pure panels add panel-selection probabilities, attrition, longitudinal
weights, gross flows and composite estimation. Variances come from a
recipe-aware bootstrap and jackknife that resample or delete primary
sampling units and re-apply the entire cascade on each replicate,
following Rao and Wu (1988) <doi:10.1080/01621459.1988.10478591>;
panel replicates are coordinated across waves, so the sample ove [...truncated...]
Author: Juan Pablo Ferreira [aut, cre, cph] ,
Andres Gutierrez [aut]
Maintainer: Juan Pablo Ferreira <juanpablo.ferreira@fcea.edu.uy>
Diff between weightflow versions 1.2.0 dated 2026-08-29 and 1.3.0 dated 2026-09-11
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Title: Prediction Explanation with Dependence-Aware Shapley Values
Description: Complex machine learning models are often hard to interpret. However, in
many situations it is crucial to understand and explain why a model made a specific
prediction. Shapley values is the only method for such prediction explanation framework
with a solid theoretical foundation. Previously known methods for estimating the Shapley
values do, however, assume feature independence. This package implements methods which accounts for any feature
dependence, and thereby produces more accurate estimates of the true Shapley values.
An accompanying 'Python' wrapper ('pyshapr') is available through PyPI.
Author: Martin Jullum [cre, aut] ,
Lars Henry Berge Olsen [aut] ,
Annabelle Redelmeier [aut],
Jon Lachmann [aut] ,
Nikolai Sellereite [aut] ,
Anders Loeland [ctb],
Jens Christian Wahl [ctb],
Camilla Lingjaerde [ctb],
Norsk Regnesentral [cph, fnd]
Maintainer: Martin Jullum <Martin.Jullum@nr.no>
Diff between shapr versions 1.0.8 dated 2026-01-20 and 1.1.0 dated 2026-09-11
DESCRIPTION | 19 MD5 | 201 NAMESPACE | 84 NEWS.md | 41 R/approach.R | 5 R/approach_arf.R |only R/approach_copula.R | 5 R/approach_empirical.R | 7 R/approach_gaussian.R | 5 R/approach_regression_separate.R | 2 R/approach_vaeac.R | 19 R/approach_vaeac_torch_modules.R | 8 R/asymmetric_and_causal_Shapley.R | 4 R/cli.R | 13 R/compute_estimates.R | 44 R/explain.R | 75 R/explain_forecast.R | 9 R/finalize_explanation.R | 13 R/get_feature_specs.R | 3 R/get_results.R | 62 R/plot.R | 86 R/setup.R | 297 R/shapr-package.R | 4 R/summary.R | 6 R/zzz.R | 2 README.md | 137 build/vignette.rds |binary inst/REFERENCES.bib | 9 inst/doc/asymmetric_causal.Rmd | 818 - inst/doc/asymmetric_causal.html | 2149 ++-- inst/doc/general_usage.Rmd | 892 - inst/doc/general_usage.html | 3516 +++---- inst/doc/regression.Rmd | 2162 ++-- inst/doc/regression.html | 4492 ++++------ inst/doc/vaeac.Rmd | 388 inst/doc/vaeac.html | 970 -- man/cap_dense_batch_size.Rd |only man/cli_topline.Rd | 2 man/compute_vS_loss.Rd |only man/explain.Rd | 83 man/explain_forecast.Rd | 39 man/figures/README-sage_example-1.png |only man/get_extra_comp_args_default.Rd | 21 man/get_results.Rd | 27 man/log_loss.Rd |only man/mse_loss.Rd |only man/plot.shapr.Rd | 4 man/plot_SV_several_approaches.Rd | 4 man/prepare_data.Rd | 9 man/regression.train_model.Rd | 2 man/set_global_parameters.Rd |only man/setup.Rd | 23 man/setup_approach.Rd | 60 man/shapr-package.Rd | 3 man/vaeac_check_parameters.Rd | 2 man/vaeac_check_save_names.Rd | 2 man/vaeac_get_data_objects.Rd | 2 man/vaeac_get_extra_para_default.Rd | 4 man/vaeac_get_save_file_names.Rd | 2 man/vaeac_train_model.Rd | 2 tests/testthat/helper-lm.R | 11 tests/testthat/test-cli-output.R |only tests/testthat/test-fixes.R |only tests/testthat/test-iterative-setup.R | 25 tests/testthat/test-macos-smoke.R |only tests/testthat/test-plot.R | 1 tests/testthat/test-regression-output.R | 32 tests/testthat/test-regular-output.R | 58 tests/testthat/test-sage-output.R |only tests/testthat/test-sage-setup.R |only vignettes/asymmetric_causal.Rmd | 818 - vignettes/figure_asymmetric_causal/compare_plots-1.webp |binary vignettes/figure_asymmetric_causal/explanation_asym_cau_SV-1.webp |binary vignettes/figure_asymmetric_causal/explanation_asym_cau_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/explanation_asym_con_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/explanation_sym_cau_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/explanation_sym_con_SV-1.webp |binary vignettes/figure_asymmetric_causal/explanation_sym_con_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/explanation_sym_mar_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/group_cor-1.webp |binary vignettes/figure_asymmetric_causal/group_gaussian_plot_SV-1.webp |binary vignettes/figure_asymmetric_causal/group_gaussian_plot_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/n_coalitions_plot_SV-1.webp |binary vignettes/figure_asymmetric_causal/n_coalitions_plot_beeswarm-1.webp |binary vignettes/figure_asymmetric_causal/scatter_plots-1.webp |binary vignettes/figure_asymmetric_causal/setup_2-1.webp |binary vignettes/figure_asymmetric_causal/sym_and_asym_Shapley_values-1.webp |binary vignettes/figure_asymmetric_causal/two_dates_1-1.webp |binary vignettes/figure_asymmetric_causal/two_dates_2-1.webp |binary vignettes/figure_asymmetric_causal/two_dates_3-1.webp |binary vignettes/figure_general_usage/arf-1.webp |only vignettes/figure_general_usage/plot-waterfall-1.webp |binary vignettes/figure_general_usage/sage-1.webp |only vignettes/figure_general_usage/sage-2.webp |only vignettes/figure_regression/MSEv-sum-1.webp |binary vignettes/figure_regression/MSEv-sum-2-1.webp |binary vignettes/figure_regression/SV-sum-1.webp |binary vignettes/figure_regression/SV-sum-2.webp |binary vignettes/figure_regression/SV-sum-3.webp |binary vignettes/figure_regression/mixed-plot-1.webp |binary vignettes/figure_regression/mixed-plot-2-1.webp |binary vignettes/figure_regression/mixed-plot-3-1.webp |binary vignettes/figure_regression/mixed-plot-4-1.webp |binary vignettes/figure_regression/ppr-plot-1.webp |binary vignettes/figure_vaeac/continue-training-2.webp |binary vignettes/figure_vaeac/continue-training-5.webp |binary vignettes/general_usage.Rmd | 892 - vignettes/regression.Rmd | 2162 ++-- vignettes/vaeac.Rmd | 388 109 files changed, 9942 insertions(+), 11283 deletions(-)
Title: A Simple Way to Specify Symmetric, Block Diagonal Matrices
Description: Provides a simple mechanism to specify a symmetric block
diagonal matrices (often used for covariance matrices). This is based
on the domain specific language implemented in 'nlmixr2' but expanded
to create matrices in R generally instead of specifying parts of
matrices to estimate. It has expanded to include some matrix manipulation
functions that are generally useful for 'rxode2' and 'nlmixr2'.
Author: Matthew L. Fidler [aut, cre] ,
Mauricio Vargas Sepulveda [ctb] ,
Bill Denney [ctb]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between lotri versions 1.0.4 dated 2026-05-14 and 1.0.5 dated 2026-09-11
DESCRIPTION | 10 MD5 | 94 NAMESPACE | 13 NEWS.md | 361 ++ R/as.data.frame.R | 84 R/as.expression.R | 295 +- R/as.lotri.R | 172 + R/err.R | 2 R/lotri.R | 2467 ++++++++++++++++--- R/lotriMatInv.R | 71 R/lotriNearPD.R | 12 R/lotriPtrs.R | 3 R/print.R | 42 R/priors.R |only R/rcm.R | 13 R/same.R |only R/thetaEst.R | 144 - build/vignette.rds |binary inst/doc/lotri-motivation.html | 18 inst/doc/lotri-priors.R |only inst/doc/lotri-priors.Rmd |only inst/doc/lotri-priors.html |only inst/doc/lotri-same.R |only inst/doc/lotri-same.Rmd |only inst/doc/lotri-same.html |only man/lotri.Rd | 109 man/lotriBaseCondition.Rd |only man/lotriPriorDists.Rd |only src/lotriLstToMat.c | 26 src/lotriLstToMat.h | 138 + src/lotriProp.c | 6 src/matlist.c | 4 src/matlist.h | 6 src/nearPD.cpp | 23 src/rcm.cpp | 5 tests/testthat/_snaps/as.data.frame.md | 49 tests/testthat/_snaps/estimate-matrix-combination.md | 24 tests/testthat/test-as.data.frame.R | 6 tests/testthat/test-as.expression.R | 31 tests/testthat/test-as.lotri.R | 8 tests/testthat/test-attr-exact.R |only tests/testthat/test-estimate-matrix-combination.R | 23 tests/testthat/test-fixed-combine.R | 14 tests/testthat/test-fixed.R | 8 tests/testthat/test-labels-conditions.R |only tests/testthat/test-lotri-matrix.R | 174 - tests/testthat/test-lotri.R | 14 tests/testthat/test-lotriMat.R | 26 tests/testthat/test-lotriSep.R | 6 tests/testthat/test-nearPD.R | 16 tests/testthat/test-priors-offdiag.R |only tests/testthat/test-priors.R |only tests/testthat/test-same-api.R |only tests/testthat/test-same.R |only tests/testthat/test-theta-lhs-as.expression.R | 30 vignettes/lotri-priors.Rmd |only vignettes/lotri-same.Rmd |only 57 files changed, 3828 insertions(+), 719 deletions(-)
Title: G-means Clustering
Description: Gaussian-means (G-means) clustering is a clustering algorithm
that extends the k-means algorithm by automatically determining the
number of clusters.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between gmeans versions 0.1.0 dated 2026-08-05 and 0.2.0 dated 2026-09-11
gmeans-0.1.0/gmeans/inst/doc/mlr3-integration.R |only gmeans-0.1.0/gmeans/inst/doc/mlr3-integration.Rmd |only gmeans-0.1.0/gmeans/inst/doc/mlr3-integration.html |only gmeans-0.1.0/gmeans/vignettes/mlr3-integration.Rmd |only gmeans-0.2.0/gmeans/DESCRIPTION | 13 +--- gmeans-0.2.0/gmeans/MD5 | 32 ++++------ gmeans-0.2.0/gmeans/NEWS.md | 12 +++ gmeans-0.2.0/gmeans/R/assertions.R | 2 gmeans-0.2.0/gmeans/R/gmeans.R | 51 ++++++++++++---- gmeans-0.2.0/gmeans/README.md | 9 ++ gmeans-0.2.0/gmeans/build/vignette.rds |binary gmeans-0.2.0/gmeans/inst/doc/introduction.R | 20 +++--- gmeans-0.2.0/gmeans/inst/doc/introduction.Rmd | 20 +++--- gmeans-0.2.0/gmeans/inst/doc/introduction.html | 32 +++++----- gmeans-0.2.0/gmeans/man/compute_wss.Rd | 3 gmeans-0.2.0/gmeans/man/gmeans.Rd | 12 ++- gmeans-0.2.0/gmeans/man/predict.gmeans.Rd | 5 - gmeans-0.2.0/gmeans/tests/testthat/test-gmeans.R | 65 +++++++++++++++++++-- gmeans-0.2.0/gmeans/vignettes/introduction.Rmd | 20 +++--- 19 files changed, 205 insertions(+), 91 deletions(-)
Title: Access EPA 'ECHO' Data
Description: An R interface to United States Environmental
Protection Agency (EPA) Environmental Compliance
History Online ('ECHO') Application Program Interface
(API). 'ECHO' provides information about EPA permitted
facilities, discharges, and other reporting info
associated with permitted entities. Data are obtained
from <https://echo.epa.gov/>.
Author: Michael Schramm [aut, cre, cph]
Maintainer: Michael Schramm <mpschramm@gmail.com>
Diff between echor versions 0.1.9 dated 2023-06-22 and 0.1.10 dated 2026-09-11
echor-0.1.10/echor/DESCRIPTION | 16 echor-0.1.10/echor/MD5 | 85 echor-0.1.10/echor/NAMESPACE | 33 echor-0.1.10/echor/NEWS.md | 196 echor-0.1.10/echor/R/air.R | 94 echor-0.1.10/echor/R/echoGetReports.R | 10 echor-0.1.10/echor/R/nncr.R |only echor-0.1.10/echor/R/sdw.R | 48 echor-0.1.10/echor/R/utils.R | 46 echor-0.1.10/echor/R/water.R | 100 echor-0.1.10/echor/README.md | 227 echor-0.1.10/echor/man/echoAirGetFacilityInfo.Rd | 84 echor-0.1.10/echor/man/echoGetReports.Rd | 46 echor-0.1.10/echor/man/echoNNCRGetQuarters.Rd |only echor-0.1.10/echor/man/echoNNCRGetReport.Rd |only echor-0.1.10/echor/man/echoNNCRGetSearch.Rd |only echor-0.1.10/echor/man/echoNNCRGetViolations.Rd |only echor-0.1.10/echor/man/echoWaterGetFacilityInfo.Rd | 20 echor-0.1.10/echor/man/figures/README-example3-1.png |binary echor-0.1.10/echor/man/figures/README-unnamed-chunk-2-1.png |binary echor-0.1.10/echor/tests/testthat/api/air_rest_services.get_download-7d79e8.csv |only echor-0.1.10/echor/tests/testthat/api/air_rest_services.get_download-d0d67e.csv |only echor-0.1.10/echor/tests/testthat/api/air_rest_services.get_facilities-2c1991.json |only echor-0.1.10/echor/tests/testthat/api/air_rest_services.get_facilities-fa0469.json |only echor-0.1.10/echor/tests/testthat/api/air_rest_services.get_geojson-1a1a48.json |only echor-0.1.10/echor/tests/testthat/api/air_rest_services.get_geojson-561852.json |only echor-0.1.10/echor/tests/testthat/api/air_rest_services.metadata-a4f118.json | 1478 +---- echor-0.1.10/echor/tests/testthat/api/caa_poll_rpt_rest_services.get_caapr-75a2fe.json | 880 +-- echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_download-06fc20.csv |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_download-15ac27.csv |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_download-790899.csv |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_download-c60a28.csv |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_facilities-055e07.json |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_facilities-2b2b6e.json |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_facilities-7240e7.json |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_facilities-cc8093.json |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_geojson-69732b.json |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.get_geojson-762b5f.json |only echor-0.1.10/echor/tests/testthat/api/cwa_rest_services.metadata-a4f118.json | 2702 +++------- echor-0.1.10/echor/tests/testthat/api/eff_rest_services.download_effluent_chart-81e3b7.csv | 654 -- echor-0.1.10/echor/tests/testthat/api/nncr_services |only echor-0.1.10/echor/tests/testthat/api/sdw_rest_services.get_download-7dc1b8.csv |only echor-0.1.10/echor/tests/testthat/api/sdw_rest_services.get_download-7f82cf.csv |only echor-0.1.10/echor/tests/testthat/api/sdw_rest_services.get_systems-44eac4.json |only echor-0.1.10/echor/tests/testthat/api/sdw_rest_services.metadata-a4f118.json | 42 echor-0.1.10/echor/tests/testthat/test-expected_errors.R | 9 echor-0.1.10/echor/tests/testthat/test-expected_objects.R | 70 echor-0.1.9/echor/tests/testthat/api/air_rest_services.get_download-1c1064.csv |only echor-0.1.9/echor/tests/testthat/api/air_rest_services.get_facility_info-96582d.json |only echor-0.1.9/echor/tests/testthat/api/air_rest_services.get_facility_info-fdcbbc.json |only echor-0.1.9/echor/tests/testthat/api/air_rest_services.get_geojson-ff3b70.json |only echor-0.1.9/echor/tests/testthat/api/cwa_rest_services.get_download-7c6f23.csv |only echor-0.1.9/echor/tests/testthat/api/cwa_rest_services.get_download-b2c8cc.csv |only echor-0.1.9/echor/tests/testthat/api/cwa_rest_services.get_facility_info-3c5df1.json |only echor-0.1.9/echor/tests/testthat/api/cwa_rest_services.get_facility_info-3ebb0f.json |only echor-0.1.9/echor/tests/testthat/api/cwa_rest_services.get_facility_info-5daf35.json |only echor-0.1.9/echor/tests/testthat/api/cwa_rest_services.get_geojson-6fc0a8.json |only echor-0.1.9/echor/tests/testthat/api/sdw_rest_services.get_download-6659b8.csv |only echor-0.1.9/echor/tests/testthat/api/sdw_rest_services.get_systems-d3eb10.json |only echor-0.1.9/echor/tests/testthat/ofmpub.epa.gov |only 60 files changed, 2537 insertions(+), 4303 deletions(-)
Title: Diffs for R Objects
Description: Generate a colorized diff of two R objects for an intuitive
visualization of their differences.
Author: Brodie Gaslam [aut, cre],
Michael B. Allen [ctb, cph]
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>
Diff between diffobj versions 0.3.8 dated 2026-07-17 and 0.3.9 dated 2026-09-11
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ tests/_helper/commonobjects.R | 6 ++---- tests/_helper/objs/diffObj/400.rds |binary tests/_helper/objs/diffStr/100.rds |binary tests/_helper/objs/diffStr/500.rds |binary tests/_helper/objs/diffStr/550.rds |binary 8 files changed, 16 insertions(+), 14 deletions(-)
Title: Create Color-Coded Choropleth Maps in R
Description: Easily create color-coded (choropleth) maps in R. No knowledge of
cartography or shapefiles needed; go directly from your geographically
identified data to a highly customizable map with a single line of code!
Supported geographies: U.S. states, counties, census tracts, and zip codes,
world countries and sub-country regions (e.g., provinces, prefectures, etc.).
Author: Ari Lamstein [aut],
Zhaochen He [ctb, cre],
Brian Johnson [ctb],
Trulia, Inc. [cph]
Maintainer: Zhaochen He <zhaochen.he@cnu.edu>
This is a re-admission after prior archival of version 5.0.1 dated 2025-10-18
Diff between choroplethr versions 5.0.1 dated 2025-10-18 and 5.0.2 dated 2026-09-11
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/acs.R | 15 --------------- R/choropleth.R | 3 ++- man/county_choropleth_acs.Rd | 8 -------- man/state_choropleth_acs.Rd | 9 --------- 7 files changed, 16 insertions(+), 42 deletions(-)
Title: Utilities for Certara's Nonlinear Mixed-Effects Modeling Engine
Description: Interface to Certara's Nonlinear Mixed-Effects (NLME) modeling
engine ('NLME-Engine') for pharmacokinetic and pharmacodynamic (PK/PD)
modeling and simulation. Provides access to the Maximum Likelihood
estimation algorithms available in the 'Phoenix' NLME platform for
population, individual, and pooled analyses using parametric methods.
Includes utilities for setting up NLME installations and
parallel settings, running estimation, bootstrap, and covariate search
workflows, and updating model files from engine output. Jobs can be
executed locally or across high-performance computing resources,
including Linux Sun Grid Engine (SGE) and Simple Linux Utility for
Resource Management (SLURM) grids as well as multicore Linux and
Windows hosts.
Author: Soltanshahi Fred [aut],
Michael Tomashevskiy [aut],
James Craig [aut, cre],
Shuhua Hu [ctb],
Certara USA, Inc. [cph, fnd]
Maintainer: James Craig <james.craig@certara.com>
Diff between Certara.NLME8 versions 3.0.2 dated 2025-08-20 and 3.2.0 dated 2026-09-11
Certara.NLME8-3.0.2/Certara.NLME8/R/generateInitialScenarios.R |only Certara.NLME8-3.0.2/Certara.NLME8/R/generateSelCovarSearchArgsLine.R |only Certara.NLME8-3.0.2/Certara.NLME8/R/getBestResults.R |only Certara.NLME8-3.2.0/Certara.NLME8/DESCRIPTION | 33 Certara.NLME8-3.2.0/Certara.NLME8/MD5 | 101 Certara.NLME8-3.2.0/Certara.NLME8/NAMESPACE | 74 Certara.NLME8-3.2.0/Certara.NLME8/R/CovariateResultReader.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/CovariateScenarioUtils.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/CovariateSearchConfig.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/CovariateSearchLogic.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/OLDrunNLMEInitialRun.R | 165 Certara.NLME8-3.2.0/Certara.NLME8/R/UpdateMDLfrom_dmptxt.R | 487 +- Certara.NLME8-3.2.0/Certara.NLME8/R/UpdateProgressMessages.R | 570 +- Certara.NLME8-3.2.0/Certara.NLME8/R/bootstrapShrinkage.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/collateTables.R | 418 +- Certara.NLME8-3.2.0/Certara.NLME8/R/collectJobErrors.R | 264 - Certara.NLME8-3.2.0/Certara.NLME8/R/collectJobResults.R | 203 - Certara.NLME8-3.2.0/Certara.NLME8/R/collectJobResultsGeneric.R | 421 +- Certara.NLME8-3.2.0/Certara.NLME8/R/copy_filesWarnLong.R | 130 Certara.NLME8-3.2.0/Certara.NLME8/R/generateEtaSpreadsheet.R | 457 +- Certara.NLME8-3.2.0/Certara.NLME8/R/generateGenericTable.R | 453 +- Certara.NLME8-3.2.0/Certara.NLME8/R/generateJobResults.R | 131 Certara.NLME8-3.2.0/Certara.NLME8/R/generateNLMEScriptAndRun.R | 561 +- Certara.NLME8-3.2.0/Certara.NLME8/R/generateOmegaEtas.R | 538 +- Certara.NLME8-3.2.0/Certara.NLME8/R/generateStatusWindow.R | 339 - Certara.NLME8-3.2.0/Certara.NLME8/R/get_bluptable.R | 103 Certara.NLME8-3.2.0/Certara.NLME8/R/globals.R | 54 Certara.NLME8-3.2.0/Certara.NLME8/R/gridSubmission.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/mpiBatchPlanning.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/parallel_utl.r | 2009 ++++------ Certara.NLME8-3.2.0/Certara.NLME8/R/parseShrinkageLines.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/performBootstrap.R | 627 +-- Certara.NLME8-3.2.0/Certara.NLME8/R/performParallelNLMERun.R | 609 +-- Certara.NLME8-3.2.0/Certara.NLME8/R/performStepwiseCovarSearch.R | 1224 +++--- Certara.NLME8-3.2.0/Certara.NLME8/R/readProgressDotTxt.R | 73 Certara.NLME8-3.2.0/Certara.NLME8/R/runNLMEInitialRun.R | 382 - Certara.NLME8-3.2.0/Certara.NLME8/R/runNLMESample.R | 593 +- Certara.NLME8-3.2.0/Certara.NLME8/R/scmArchive.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/scmDmpNormalize.R |only Certara.NLME8-3.2.0/Certara.NLME8/R/startGenericGridJob.R | 862 ++-- Certara.NLME8-3.2.0/Certara.NLME8/R/summarizeBootstrap.R | 859 ++-- Certara.NLME8-3.2.0/Certara.NLME8/R/tdl5_utils.R |only Certara.NLME8-3.2.0/Certara.NLME8/inst/extdata/performStepwiseCovarSearch_enable421 |only Certara.NLME8-3.2.0/Certara.NLME8/inst/extdata/performVPC/predout.expected | 450 +- Certara.NLME8-3.2.0/Certara.NLME8/man/dot-planMpiBatch.Rd |only Certara.NLME8-3.2.0/Certara.NLME8/man/generateTDL5ModelInfo.Rd |only Certara.NLME8-3.2.0/Certara.NLME8/man/performStepwiseCovarSearch.Rd | 70 Certara.NLME8-3.2.0/Certara.NLME8/man/readProgressDotTxt.Rd |only Certara.NLME8-3.2.0/Certara.NLME8/man/renderTDL5Override.Rd |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/fixtures |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/helper-bootstrap.R |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_bootstrap_summary_outputs.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_collectJobResults.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_gridSubmission.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_mpiBatchPlanning.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_scm_archive_dmp_prune.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_scm_archive_mdl.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_scm_update_initials.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_shotgun_scm_archive.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_startGenericGridJob_expiry.R |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_stepwise.r | 113 Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_stepwiseCompileCache.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_stepwise_enable421.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_stepwise_scm_archive.r |only Certara.NLME8-3.2.0/Certara.NLME8/tests/testthat/test_tdl5_resolve.r |only 65 files changed, 6999 insertions(+), 6374 deletions(-)
Title: Access Data from Brazilian Central Bank: IFdata, Active
Institutions, Balance Sheets and Normative Acts
Description: Provides functions to query, retrieve, and tidy economic and
financial data from Brazilian Central Bank web services for use in R
analyses and workflows. Active institutions information, balance sheets and normative acts.
Author: Ricardo Theodoro [aut, cre]
Maintainer: Ricardo Theodoro <rtheodoro@usp.br>
Diff between bacenR versions 0.4.4 dated 2026-07-03 and 0.5.0 dated 2026-09-11
DESCRIPTION | 8 +-- MD5 | 24 ++++----- NAMESPACE | 84 +++++++++++++++++++-------------- NEWS.md | 4 + R/get_institutions.R | 74 ++++++++++++++++------------- R/tidy_institutions.R | 7 +- README.md | 9 +-- inst/doc/bacenR.Rmd | 18 +++---- inst/doc/bacenR.html | 20 ++++--- man/get_institutions.Rd | 34 +++++++------ man/tidy_institutions.Rd | 7 +- tests/testthat/test-get_institutions.R | 13 +++-- vignettes/bacenR.Rmd | 18 +++---- 13 files changed, 184 insertions(+), 136 deletions(-)
Title: Gaussian Graphical Models with Latent Clustering Structure
Description: Implements the Normal-Block model, a Gaussian graphical model
with a latent clustering structure for the multivariate analysis
of continuous data. The model clusters variables and, building
on the graphical lasso, infers a network of statistical
dependencies between clusters rather than between individual
variables, for known or unknown clusterings, with an optional
zero-inflation extension for data with an excess of exact
zeros. A complementary family clusters variables by their
regression response to covariates rather than by their
covariance, sharing one profile per cluster. See Tous & Chiquet (2026)
<doi:10.1016/j.csda.2026.108347> for the model itself and its
variational expectation-maximization estimation procedure.
Author: Jeanne Tous [aut],
Nestor Ngalala Manguitini [ctb],
Julien Chiquet [aut, cre]
Maintainer: Julien Chiquet <julien.chiquet@inrae.fr>
Diff between normalblockr versions 0.2.1 dated 2026-09-03 and 0.3.0 dated 2026-09-11
normalblockr-0.2.1/normalblockr/R/NormalBlockVarBase-S3methods.R |only normalblockr-0.2.1/normalblockr/R/NormalBlockVarCollection-S3methods.R |only normalblockr-0.2.1/normalblockr/R/NormalBlockVarCollection.R |only normalblockr-0.2.1/normalblockr/R/SelectionNClusters.R |only normalblockr-0.2.1/normalblockr/man/BIC.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/BIC.NormalBlockVarCollection.Rd |only normalblockr-0.2.1/normalblockr/man/NormalBlockVarCollection.Rd |only normalblockr-0.2.1/normalblockr/man/SelectionNClusters.Rd |only normalblockr-0.2.1/normalblockr/man/coef.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/fitted.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/logLik.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/logLik.NormalBlockVarCollection.Rd |only normalblockr-0.2.1/normalblockr/man/plot.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/predict.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/print.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/print.NormalBlockVarCollection.Rd |only normalblockr-0.2.1/normalblockr/man/print.summary.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/print.summary.NormalBlockVarCollection.Rd |only normalblockr-0.2.1/normalblockr/man/sigma.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/summary.NormalBlockVarBase.Rd |only normalblockr-0.2.1/normalblockr/man/summary.NormalBlockVarCollection.Rd |only normalblockr-0.2.1/normalblockr/tests/testthat/test-clustering-approx.R |only normalblockr-0.2.1/normalblockr/tests/testthat/test-initialization.R |only normalblockr-0.2.1/normalblockr/tests/testthat/test-sbm-clustering-path.R |only normalblockr-0.2.1/normalblockr/tests/testthat/test-selection-n-clusters.R |only normalblockr-0.3.0/normalblockr/DESCRIPTION | 22 normalblockr-0.3.0/normalblockr/MD5 | 238 ++- normalblockr-0.3.0/normalblockr/NAMESPACE | 44 normalblockr-0.3.0/normalblockr/NEWS.md | 71 + normalblockr-0.3.0/normalblockr/R/NormalBlockBase-S3methods.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockBase.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockCollection-S3methods.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockCollection.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockCollectionClusters.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockCollectionClustersSparsity.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockCollectionSparsity.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockData.R | 117 + normalblockr-0.3.0/normalblockr/R/NormalBlockMeanBase.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockMeanCollectionClusters.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockMeanCollectionClustersSparsity.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockMeanCollectionSparsity.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockMeanKnownClusters.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockMeanUnknownClusters.R |only normalblockr-0.3.0/normalblockr/R/NormalBlockVarBase.R | 644 ---------- normalblockr-0.3.0/normalblockr/R/NormalBlockVarCollectionClusters.R | 132 -- normalblockr-0.3.0/normalblockr/R/NormalBlockVarCollectionClustersSparsity.R | 80 - normalblockr-0.3.0/normalblockr/R/NormalBlockVarCollectionSparsity.R | 74 - normalblockr-0.3.0/normalblockr/R/NormalBlockVarKnownClusters.R | 24 normalblockr-0.3.0/normalblockr/R/NormalBlockVarUnknownClusters.R | 25 normalblockr-0.3.0/normalblockr/R/RcppExports.R | 153 ++ normalblockr-0.3.0/normalblockr/R/ZINormalBlockMeanKnownClusters.R |only normalblockr-0.3.0/normalblockr/R/ZINormalBlockMeanUnknownClusters.R |only normalblockr-0.3.0/normalblockr/R/ZINormalBlockVarKnownClusters.R | 27 normalblockr-0.3.0/normalblockr/R/ZINormalBlockVarUnknownClusters.R | 27 normalblockr-0.3.0/normalblockr/R/normal_block.R | 104 + normalblockr-0.3.0/normalblockr/R/normal_block_data_generation.R | 104 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Title: Influence Measures and Diagnostic Plots for Multivariate Linear
Models
Description: Computes regression deletion diagnostics for multivariate linear models and provides some associated
diagnostic plots. The diagnostic measures include hat-values (leverages), generalized Cook's distance, and
generalized squared 'studentized' residuals. Several types of plots to detect influential observations are
provided.
Author: Michael Friendly [aut, cre]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between mvinfluence versions 0.9.2 dated 2025-07-23 and 0.9.4 dated 2026-09-11
DESCRIPTION | 10 - MD5 | 28 +-- NAMESPACE | 58 ++++--- NEWS.md | 20 ++ R/Jfuns.R | 1 R/mlm.influence.R | 13 + R/print.inflmlm.R | 2 build/vignette.rds |binary inst/doc/uni-vs-multi.R | 26 +++ inst/doc/uni-vs-multi.Rmd | 87 +++++++++++ inst/doc/uni-vs-multi.html | 204 ++++++++++++++++++++------ man/Jfuns.Rd | 5 man/mlm.influence.Rd | 2 man/mvinfluence-package.Rd | 351 ++++++++++++++++++++++----------------------- vignettes/uni-vs-multi.Rmd | 87 +++++++++++ 15 files changed, 623 insertions(+), 271 deletions(-)
Title: Generalized Linear Latent Variable Models
Description: Analysis of multivariate data using generalized linear latent variable models (gllvm).
Estimation is performed using either the Laplace method, variational approximations, or extended variational approximations, implemented via TMB (Kristensen et al. (2016), <doi:10.18637/jss.v070.i05>).
Author: Jenni Niku [aut, cre],
Wesley Brooks [aut],
Riki Herliansyah [aut],
Francis K.C. Hui [aut],
Pekka Korhonen [aut],
Sara Taskinen [aut],
Bert van der Veen [aut],
David I. Warton [aut]
Maintainer: Jenni Niku <jenni.m.e.niku@jyu.fi>
Diff between gllvm versions 2.0.13 dated 2026-07-09 and 2.0.15 dated 2026-09-11
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Title: Bayesian Inference of Vector Autoregressive and Error Correction
Models
Description: Assists in the set-up of algorithms for Bayesian inference of vector autoregressive (VAR) and error correction (VEC) models. Functions for posterior simulation, forecasting, impulse response analysis and forecast error variance decomposition are largely based on the introductory texts of Chan, Koop, Poirier and Tobias (2019, ISBN: 9781108437493), Koop and Korobilis (2010) <doi:10.1561/0800000013> and Luetkepohl (2006, ISBN: 9783540262398).
Author: Franz X. Mohr [aut, cre]
Maintainer: Franz X. Mohr <franz.x.mohr@outlook.com>
Diff between bvartools versions 0.2.4 dated 2024-01-08 and 0.3.0 dated 2026-09-11
bvartools-0.2.4/bvartools/src/prep_covar_data.cpp |only bvartools-0.3.0/bvartools/DESCRIPTION | 21 bvartools-0.3.0/bvartools/MD5 | 287 - bvartools-0.3.0/bvartools/NAMESPACE | 114 bvartools-0.3.0/bvartools/NEWS.md | 306 + bvartools-0.3.0/bvartools/R/RcppExports.R | 1792 +++++----- bvartools-0.3.0/bvartools/R/add_priors.R | 50 bvartools-0.3.0/bvartools/R/add_priors.bvarmodel.R | 1240 +++--- bvartools-0.3.0/bvartools/R/add_priors.bvecmodel.R | 1452 ++++---- bvartools-0.3.0/bvartools/R/add_priors.dfmodel.R | 352 - bvartools-0.3.0/bvartools/R/bvar.R | 630 +-- bvartools-0.3.0/bvartools/R/bvar_fill_helper.R | 94 bvartools-0.3.0/bvartools/R/bvarpost.R | 243 - bvartools-0.3.0/bvartools/R/bvartools-package.R | 102 bvartools-0.3.0/bvartools/R/bvec.R | 1320 +++---- bvartools-0.3.0/bvartools/R/bvec_to_bvar.R | 1027 ++--- bvartools-0.3.0/bvartools/R/bvecpost.R | 407 +- bvartools-0.3.0/bvartools/R/data.R | 184 - bvartools-0.3.0/bvartools/R/dfm.R | 187 - bvartools-0.3.0/bvartools/R/dfmpost.R | 107 bvartools-0.3.0/bvartools/R/draw_posterior.R | 29 bvartools-0.3.0/bvartools/R/draw_posterior.bvarmodel.R | 172 bvartools-0.3.0/bvartools/R/draw_posterior.bvecmodel.R | 194 - bvartools-0.3.0/bvartools/R/draw_posterior.dfmodel.R | 172 bvartools-0.3.0/bvartools/R/fevd.R | 20 bvartools-0.3.0/bvartools/R/fevd.bvar.R | 365 +- bvartools-0.3.0/bvartools/R/gen_dfm.R | 231 - bvartools-0.3.0/bvartools/R/gen_var.R | 609 +-- bvartools-0.3.0/bvartools/R/gen_vec.R | 889 ++-- bvartools-0.3.0/bvartools/R/get_regressor_names.R | 434 +- bvartools-0.3.0/bvartools/R/inclusion_prior.R | 408 +- bvartools-0.3.0/bvartools/R/irf.R | 20 bvartools-0.3.0/bvartools/R/irf.bvar.R | 444 +- bvartools-0.3.0/bvartools/R/minnesota_prior.R | 494 +- bvartools-0.3.0/bvartools/R/plot.bvar.R | 566 +-- bvartools-0.3.0/bvartools/R/plot.bvarfevd.R | 78 bvartools-0.3.0/bvartools/R/plot.bvarirf.R | 76 bvartools-0.3.0/bvartools/R/plot.bvarlist.R | 68 bvartools-0.3.0/bvartools/R/plot.bvarprd.R | 98 bvartools-0.3.0/bvartools/R/plot.bvec.R | 702 +-- bvartools-0.3.0/bvartools/R/plot.dfm.R | 128 bvartools-0.3.0/bvartools/R/post_normal_covar_const.R | 135 bvartools-0.3.0/bvartools/R/post_normal_covar_tvp.R | 167 bvartools-0.3.0/bvartools/R/predict.bvar.R | 500 +- bvartools-0.3.0/bvartools/R/print.summary.bvar.R | 248 - bvartools-0.3.0/bvartools/R/print.summary.bvec.R | 222 - bvartools-0.3.0/bvartools/R/ssvs_prior.R | 202 - bvartools-0.3.0/bvartools/R/summary.bvar.R | 478 +- bvartools-0.3.0/bvartools/R/summary.bvarlist.R | 400 +- bvartools-0.3.0/bvartools/R/summary.bvec.R | 518 +- bvartools-0.3.0/bvartools/R/summary.dfm.R | 444 +- bvartools-0.3.0/bvartools/R/thin.bvar.R | 138 bvartools-0.3.0/bvartools/R/thin.bvarlist.R | 74 bvartools-0.3.0/bvartools/R/thin.bvec.R | 142 bvartools-0.3.0/bvartools/R/thin.dfm.R | 124 bvartools-0.3.0/bvartools/R/transition.R |only bvartools-0.3.0/bvartools/R/transition_wrappers.R |only bvartools-0.3.0/bvartools/R/tvpribbon.R | 10 bvartools-0.3.0/bvartools/R/zzz.R | 20 bvartools-0.3.0/bvartools/build/partial.rdb |binary bvartools-0.3.0/bvartools/build/vignette.rds |binary bvartools-0.3.0/bvartools/inst/CITATION | 274 - bvartools-0.3.0/bvartools/inst/doc/bvartools.R | 296 - bvartools-0.3.0/bvartools/inst/doc/bvartools.Rmd | 644 +-- bvartools-0.3.0/bvartools/inst/doc/bvartools.html | 1740 ++++----- bvartools-0.3.0/bvartools/inst/doc/bvec.R | 334 - bvartools-0.3.0/bvartools/inst/doc/bvec.Rmd | 518 +- bvartools-0.3.0/bvartools/inst/doc/bvec.html | 1523 ++++---- bvartools-0.3.0/bvartools/inst/doc/model-comparison.R | 84 bvartools-0.3.0/bvartools/inst/doc/model-comparison.Rmd | 202 - bvartools-0.3.0/bvartools/inst/doc/model-comparison.html | 937 ++--- bvartools-0.3.0/bvartools/inst/doc/ssvs.R | 304 - bvartools-0.3.0/bvartools/inst/doc/ssvs.Rmd | 456 +- bvartools-0.3.0/bvartools/inst/doc/ssvs.html | 1787 ++++----- bvartools-0.3.0/bvartools/inst/doc/transition.R |only bvartools-0.3.0/bvartools/inst/doc/transition.Rmd |only bvartools-0.3.0/bvartools/inst/doc/transition.html |only bvartools-0.3.0/bvartools/inst/include/bvartools_RcppExports.h | 42 bvartools-0.3.0/bvartools/man/add_priors.Rd | 74 bvartools-0.3.0/bvartools/man/add_priors.bvarmodel.Rd | 360 +- bvartools-0.3.0/bvartools/man/add_priors.bvecmodel.Rd | 434 +- bvartools-0.3.0/bvartools/man/add_priors.dfmodel.Rd | 176 bvartools-0.3.0/bvartools/man/bem_dfmdata.Rd | 54 bvartools-0.3.0/bvartools/man/bvar.Rd | 510 +- bvartools-0.3.0/bvartools/man/bvarpost.Rd | 128 bvartools-0.3.0/bvartools/man/bvartools-package.Rd | 51 bvartools-0.3.0/bvartools/man/bvec.Rd | 612 +-- bvartools-0.3.0/bvartools/man/bvec_to_bvar.Rd | 254 - bvartools-0.3.0/bvartools/man/bvecpost.Rd | 156 bvartools-0.3.0/bvartools/man/bvs.Rd | 168 bvartools-0.3.0/bvartools/man/covar_prepare_data.Rd |only bvartools-0.3.0/bvartools/man/covar_vector_to_matrix.Rd |only bvartools-0.3.0/bvartools/man/dfm.Rd | 206 - bvartools-0.3.0/bvartools/man/dfmpost.Rd | 96 bvartools-0.3.0/bvartools/man/draw_posterior.Rd | 34 bvartools-0.3.0/bvartools/man/draw_posterior.bvarmodel.Rd | 100 bvartools-0.3.0/bvartools/man/draw_posterior.bvecmodel.Rd | 120 bvartools-0.3.0/bvartools/man/draw_posterior.dfmodel.Rd | 104 bvartools-0.3.0/bvartools/man/e1.Rd | 56 bvartools-0.3.0/bvartools/man/e6.Rd | 60 bvartools-0.3.0/bvartools/man/fevd.Rd | 94 bvartools-0.3.0/bvartools/man/fevd.bvar.Rd | 190 - bvartools-0.3.0/bvartools/man/gen_dfm.Rd | 134 bvartools-0.3.0/bvartools/man/gen_var.Rd | 212 - bvartools-0.3.0/bvartools/man/gen_vec.Rd | 236 - bvartools-0.3.0/bvartools/man/inclusion_prior.Rd | 162 bvartools-0.3.0/bvartools/man/irf.Rd | 90 bvartools-0.3.0/bvartools/man/irf.bvar.Rd | 216 - bvartools-0.3.0/bvartools/man/kalman_dk.Rd | 202 - bvartools-0.3.0/bvartools/man/loglik_normal.Rd | 90 bvartools-0.3.0/bvartools/man/minnesota_prior.Rd | 170 bvartools-0.3.0/bvartools/man/plot.bvarlist.Rd | 46 bvartools-0.3.0/bvartools/man/plot.bvarprd.Rd | 84 bvartools-0.3.0/bvartools/man/post_coint_kls.Rd | 246 - bvartools-0.3.0/bvartools/man/post_coint_kls_sur.Rd | 266 - bvartools-0.3.0/bvartools/man/post_gamma_measurement_variance.Rd |only bvartools-0.3.0/bvartools/man/post_gamma_state_variance.Rd |only bvartools-0.3.0/bvartools/man/post_normal.Rd | 140 bvartools-0.3.0/bvartools/man/post_normal_covar_const.Rd | 112 bvartools-0.3.0/bvartools/man/post_normal_covar_tvp.Rd | 126 bvartools-0.3.0/bvartools/man/post_normal_sur.Rd | 142 bvartools-0.3.0/bvartools/man/ssvs.Rd | 170 bvartools-0.3.0/bvartools/man/ssvs_prior.Rd | 92 bvartools-0.3.0/bvartools/man/stoch_vol.Rd | 96 bvartools-0.3.0/bvartools/man/stochvol_ksc1998.Rd | 136 bvartools-0.3.0/bvartools/man/stochvol_ocsn2007.Rd | 136 bvartools-0.3.0/bvartools/man/summary.bvar.Rd | 82 bvartools-0.3.0/bvartools/man/summary.bvarlist.Rd | 62 bvartools-0.3.0/bvartools/man/summary.bvec.Rd | 82 bvartools-0.3.0/bvartools/man/summary.dfm.Rd | 70 bvartools-0.3.0/bvartools/man/sur_const_to_tvp.Rd |only bvartools-0.3.0/bvartools/man/thin.bvar.Rd | 82 bvartools-0.3.0/bvartools/man/thin.bvarlist.Rd | 82 bvartools-0.3.0/bvartools/man/thin.bvec.Rd | 82 bvartools-0.3.0/bvartools/man/thin.dfm.Rd | 90 bvartools-0.3.0/bvartools/man/us_macrodata.Rd | 56 bvartools-0.3.0/bvartools/src/RcppExports.cpp | 148 bvartools-0.3.0/bvartools/src/covar_prepare_data.cpp |only bvartools-0.3.0/bvartools/src/covar_vector_to_matrix.cpp |only bvartools-0.3.0/bvartools/src/dfmalg.cpp | 2 bvartools-0.3.0/bvartools/src/post_gamma_measurement_variance.cpp |only bvartools-0.3.0/bvartools/src/post_gamma_state_variance.cpp |only bvartools-0.3.0/bvartools/src/stochvol_ksc1998.cpp | 23 bvartools-0.3.0/bvartools/src/stochvol_ocsn2007.cpp | 21 bvartools-0.3.0/bvartools/src/sur_const_to_tvp.cpp |only bvartools-0.3.0/bvartools/src/vardecomp.cpp | 9 bvartools-0.3.0/bvartools/tests |only bvartools-0.3.0/bvartools/vignettes/bvartools.Rmd | 644 +-- bvartools-0.3.0/bvartools/vignettes/bvec.Rmd | 518 +- bvartools-0.3.0/bvartools/vignettes/model-comparison.Rmd | 202 - bvartools-0.3.0/bvartools/vignettes/ssvs.Rmd | 456 +- bvartools-0.3.0/bvartools/vignettes/transition.Rmd |only 152 files changed, 19848 insertions(+), 19279 deletions(-)
Title: Prediction Rule Ensembles
Description: Fits prediction rule ensembles (PREs). Largely follows the
procedure for deriving PREs as described in Friedman & Popescu (2008;
<DOI:10.1214/07-AOAS148>), with adjustments and improvements described in
Fokkema (2020; <DOI:10.18637/jss.v092.i12>) and Fokkema & Strobl
(2020; <DOI:10.1037/met0000256>). The main function pre() derives
prediction rule ensembles consisting of rules and/or linear terms for
continuous, binary, count, multinomial, survival and multivariate
continuous responses. Function gpe() derives generalized prediction
ensembles, consisting of rules, hinge and linear functions of the
predictor variables.
Author: Marjolein Fokkema [aut, cre],
Benjamin Christoffersen [aut],
Giorgio Spadaccini [ctb]
Maintainer: Marjolein Fokkema <m.fokkema@fsw.leidenuniv.nl>
Diff between pre versions 1.1.0 dated 2026-08-31 and 1.1.1 dated 2026-09-11
DESCRIPTION | 6 - MD5 | 26 +++---- NEWS.md | 11 +++ R/shap.R | 2 inst/doc/Missingness.html | 2 inst/doc/relaxed.html | 2 inst/doc/shap.R | 11 +++ inst/doc/shap.Rmd | 32 ++++++++- inst/doc/shap.html | 75 ++++++++++++++-------- inst/doc/speed.html | 12 +-- tests/testthat/previous_results/SHAP_marginal.RDS |binary tests/testthat/previous_results/explain.RDS |binary tests/testthat/test_explain_and_shap.R | 11 ++- vignettes/shap.Rmd | 32 ++++++++- 14 files changed, 159 insertions(+), 63 deletions(-)
Title: MCMC Sampling from 'TMB' Model Object using 'Stan'
Description: Enables all 'rstan' functionality for a 'TMB' model object, in particular MCMC sampling and chain visualization. Sampling can be performed with or without Laplace approximation for the random effects. This is demonstrated in Monnahan & Kristensen (2018) <DOI:10.1371/journal.pone.0197954>.
Author: Kasper Kristensen [aut, cre] ,
Andrew Johnson [ctb],
Cole Monnahan [ctb]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between tmbstan versions 1.2.0 dated 2026-07-28 and 1.2.1 dated 2026-09-11
DESCRIPTION | 22 ++++--- MD5 | 14 ++-- NEWS | 8 ++ inst/doc/tmbstan.html | 20 +++--- inst/model.hpp | 144 ++++++++++++++++++++++++++++++++++---------------- inst/tinytest |only src/include/model.hpp | 144 ++++++++++++++++++++++++++++++++++---------------- tests |only tools/autogen.R | 4 - 9 files changed, 238 insertions(+), 118 deletions(-)
Title: Stateful Matrix Client Helpers
Description: Stateful helpers for building 'Matrix' (<https://matrix.org>)
chat clients in R. Builds on the low-level 'mx.api' Client-Server API
bindings, adding local configuration persistence, room resolution,
sync cursor handling, sync-event extraction, invite acceptance, a
conservative Markdown-to-HTML converter for formatted messages, and
'Olm'/'Megolm' end-to-end encryption orchestration over the optional
'mx.crypto' package.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between mx.client versions 0.2.0 dated 2026-08-04 and 0.2.1 dated 2026-09-11
mx.client-0.2.0/mx.client/inst/skills/mx.client |only mx.client-0.2.1/mx.client/DESCRIPTION | 12 mx.client-0.2.1/mx.client/MD5 | 122 +- mx.client-0.2.1/mx.client/NAMESPACE | 21 mx.client-0.2.1/mx.client/NEWS.md | 202 ++++ mx.client-0.2.1/mx.client/R/cross-signing.R |only mx.client-0.2.1/mx.client/R/crypto.R | 74 + mx.client-0.2.1/mx.client/R/e2ee.R | 239 ++++- mx.client-0.2.1/mx.client/R/identity-trust.R |only mx.client-0.2.1/mx.client/R/key-requests.R |only mx.client-0.2.1/mx.client/R/messages.R | 280 ++++++ mx.client-0.2.1/mx.client/R/olm-receive.R |only mx.client-0.2.1/mx.client/R/profile.R | 2 mx.client-0.2.1/mx.client/R/sas-console.R |only mx.client-0.2.1/mx.client/R/sas-display.R |only mx.client-0.2.1/mx.client/R/sas-identity.R |only mx.client-0.2.1/mx.client/R/sas-receive.R |only mx.client-0.2.1/mx.client/R/sas-session.R |only mx.client-0.2.1/mx.client/R/store-version.R |only mx.client-0.2.1/mx.client/R/transport.R | 163 +++ mx.client-0.2.1/mx.client/R/user-verification.R |only mx.client-0.2.1/mx.client/R/verification-transport.R |only mx.client-0.2.1/mx.client/R/verify-console.R |only mx.client-0.2.1/mx.client/README.md | 95 ++ mx.client-0.2.1/mx.client/build/partial.rdb |binary mx.client-0.2.1/mx.client/inst/doc/e2ee.html | 446 ++++++++-- mx.client-0.2.1/mx.client/inst/doc/e2ee.md | 349 +++++++ mx.client-0.2.1/mx.client/inst/skills/matrix-messaging |only mx.client-0.2.1/mx.client/inst/tinytest/test_cross_signing.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_key_requests.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_mx.client.R | 358 ++++++++ mx.client-0.2.1/mx.client/inst/tinytest/test_olm_receive.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_sas.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_sas_identity.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_sas_own_device.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_sas_transport.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_skills.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_store_version.R |only mx.client-0.2.1/mx.client/inst/tinytest/test_transport.R | 270 ++++++ mx.client-0.2.1/mx.client/inst/tinytest/test_user_verification.R |only mx.client-0.2.1/mx.client/man/mx_client_configure.Rd | 12 mx.client-0.2.1/mx.client/man/mx_client_load.Rd | 8 mx.client-0.2.1/mx.client/man/mx_crypto_account.Rd | 3 mx.client-0.2.1/mx.client/man/mx_crypto_account_save.Rd | 3 mx.client-0.2.1/mx.client/man/mx_crypto_claim_otks.Rd | 9 mx.client-0.2.1/mx.client/man/mx_crypto_cross_signing_bootstrap.Rd |only mx.client-0.2.1/mx.client/man/mx_crypto_cross_signing_load.Rd |only mx.client-0.2.1/mx.client/man/mx_crypto_decrypt_event.Rd | 14 mx.client-0.2.1/mx.client/man/mx_crypto_encrypt_event.Rd | 24 mx.client-0.2.1/mx.client/man/mx_crypto_encrypt_for_devices.Rd | 16 mx.client-0.2.1/mx.client/man/mx_crypto_handle_to_device.Rd | 21 mx.client-0.2.1/mx.client/man/mx_crypto_known_devices.Rd | 31 mx.client-0.2.1/mx.client/man/mx_crypto_mark_key_requests_sent.Rd |only mx.client-0.2.1/mx.client/man/mx_crypto_process_sync.Rd | 40 mx.client-0.2.1/mx.client/man/mx_crypto_room_key_payload.Rd | 15 mx.client-0.2.1/mx.client/man/mx_crypto_send_key_requests.Rd |only mx.client-0.2.1/mx.client/man/mx_crypto_sessions_load.Rd | 3 mx.client-0.2.1/mx.client/man/mx_crypto_sessions_new.Rd | 2 mx.client-0.2.1/mx.client/man/mx_crypto_sessions_save.Rd | 1 mx.client-0.2.1/mx.client/man/mx_crypto_user_trust.Rd |only mx.client-0.2.1/mx.client/man/mx_crypto_verify_user.Rd |only mx.client-0.2.1/mx.client/man/mx_extract_invite_records.Rd |only mx.client-0.2.1/mx.client/man/mx_extract_media_events.Rd |only mx.client-0.2.1/mx.client/man/mx_extract_reaction_verdict.Rd | 10 mx.client-0.2.1/mx.client/man/mx_extract_reactions.Rd |only mx.client-0.2.1/mx.client/man/mx_extract_text_events.Rd | 10 mx.client-0.2.1/mx.client/man/mx_resolve_room.Rd | 10 mx.client-0.2.1/mx.client/man/mx_sas_accept.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_cancel.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_confirm.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_console.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_from_request.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_outgoing.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_receive.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_record_trust.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_session.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_start.Rd |only mx.client-0.2.1/mx.client/man/mx_sas_status.Rd |only mx.client-0.2.1/mx.client/man/mx_send_encrypted.Rd | 18 mx.client-0.2.1/mx.client/man/mx_send_media.Rd | 14 mx.client-0.2.1/mx.client/man/mx_send_table.Rd | 11 mx.client-0.2.1/mx.client/man/mx_send_text.Rd | 24 mx.client-0.2.1/mx.client/man/mx_sync_update.Rd | 10 mx.client-0.2.1/mx.client/man/mx_verify_console.Rd |only mx.client-0.2.1/mx.client/vignettes/e2ee.md | 349 +++++++ 85 files changed, 3027 insertions(+), 264 deletions(-)
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 0.2.0 dated 2026-08-21 and 0.2.1 dated 2026-09-11
DESCRIPTION | 13 +++++++------ MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/bayesRecon_MixCond.R | 6 +++--- README.md | 11 +++++++++++ inst/doc/fable.bayesRecon.html | 8 ++++---- man/bayesRecon_MixCond.Rd | 6 +++--- man/figures/README-unnamed-chunk-15-1.png |binary man/figures/README-unnamed-chunk-18-1.png |binary man/figures/README-unnamed-chunk-25-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary 11 files changed, 42 insertions(+), 26 deletions(-)
More information about fable.bayesRecon at CRAN
Permanent link
Title: Visualizing and Quantifying Decision Uncertainty
Description: A suite of tools to help modelers and decision-makers effectively
interpret and communicate decision risk when evaluating multiple policy options.
It uses model outputs from uncertainty analysis for baseline scenarios and policy
alternatives to generate visual representations of uncertainty and quantitative
measures for assessing associated risks. For more details see
Wiggins and colleagues (2025) <doi:10.1371/journal.pone.0332522> and <https://dut.ihe.ca/>.
Author: Megan Wiggins [aut, cre] ,
Marie Betsy Varughese [aut] ,
Ellen Rafferty [aut] ,
Sasha van Katwyk [aut] ,
Christopher McCabe [aut] ,
Jeff Round [aut] ,
Erin Kirwin [aut] ,
Institute of Health Economics [cph, aut],
Canadian Network for Modelling Infect [...truncated...]
Maintainer: Megan Wiggins <mwiggins@ihe.ca>
Diff between DUToolkit versions 1.0.2 dated 2025-10-06 and 1.0.3 dated 2026-09-11
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS.md | 10 ++++++++++ R/gen_stand_descr.R | 6 +++--- R/plot_density.R | 22 +++++++++++++++------- R/plot_fan.R | 11 ++++++++--- build/vignette.rds |binary inst/doc/Fan_Plots.html | 4 ++-- inst/doc/density_plots.html | 4 ++-- inst/doc/rain_plot.html | 2 +- inst/doc/temporal_plot.html | 2 +- 11 files changed, 57 insertions(+), 34 deletions(-)
Title: Win Time Methods for Time-to-Event Data in Clinical Trials
Description: Performs an analysis of time-to-event clinical trial data using various "win time" methods,
including 'ewt', 'ewtr', 'rmt', 'ewtp', 'rewtp', 'ewtpr', 'rewtpr', 'max', 'wtr', 'rwtr', 'pwt', and 'rpwt'. These methods are used to calculate and compare
treatment effects on ordered composite endpoints. The package handles event times, event indicators, and treatment
arm indicators and supports calculations on observed and resampled data. Detailed explanations of each method and
usage examples are provided in "Use of win time for ordered composite endpoints in clinical trials," by Troendle et al.
(2024)<doi:10.1002/sim.10045>. For more information, see the package documentation or the vignette titled "Introduction to wintime."
Author: James Troendle [aut, cre],
Samuel Lawrence [aut]
Maintainer: James Troendle <james.troendle@nih.gov>
Diff between wintime versions 0.4.4 dated 2026-04-23 and 1.0.0 dated 2026-09-11
DESCRIPTION | 11 MD5 | 58 - R/bootstrap.R | 28 R/ewt.R | 409 ++++++-- R/ewtp.R | 443 ++++---- R/ewtpr.R | 1394 ++++++++++------------------ R/markov.R | 57 + R/perm.R | 17 R/rewtp.R | 321 +++--- R/rewtpr.R | 1145 ++++++++-------------- R/rmt.R | 477 +++++---- R/wintime.R | 128 -- build/vignette.rds |binary inst/doc/wintime_vignette.Rmd | 2 inst/doc/wintime_vignette.html | 369 +++---- man/EWT.Rd | 25 man/EWTP.Rd | 6 man/EWTPR.Rd | 28 man/REWTP.Rd | 6 man/REWTPR.Rd | 16 man/RMT.Rd | 23 man/bootstrap.Rd | 5 man/markov.Rd | 6 man/perm.Rd | 5 man/wintime.Rd | 54 - tests/testthat/_problems |only tests/testthat/test-main_wintime_function.R | 33 vignettes/wintime_vignette.Rmd | 2 28 files changed, 2314 insertions(+), 2754 deletions(-)
Title: Access the Weekly 'TidyTuesday' Project Dataset
Description: 'TidyTuesday' is a project by the 'Data Science Learning
Community' in which they post a weekly dataset in a public data
repository (<https://github.com/rfordatascience/tidytuesday>) for
people to analyze and visualize. This package provides the tools to
easily download this data and the description of the source.
Author: Jon Harmon [aut, cre] ,
Ellis Hughes [aut],
Thomas Mock [ctb],
Data Science Learning Community [dtc]
Maintainer: Jon Harmon <jonthegeek@gmail.com>
Diff between tidytuesdayR versions 1.3.2 dated 2026-04-12 and 1.3.3 dated 2026-09-11
DESCRIPTION | 21 +++++------ MD5 | 56 ++++++++++++++--------------- NAMESPACE | 8 ++-- NEWS.md | 6 +++ R/github_api.R | 10 ++++- R/tt_available.R | 4 -- R/tt_meta.R | 6 +++ build/vignette.rds |binary man/tidytuesdayR-package.Rd | 1 tests/testthat/_snaps/aaa-conditions.md | 6 +-- tests/testthat/_snaps/github_api.md | 36 ++++++------------ tests/testthat/_snaps/last_tuesday.md | 10 ++--- tests/testthat/_snaps/tt_available.md | 5 +- tests/testthat/_snaps/tt_check_date.md | 57 ++++++++++-------------------- tests/testthat/_snaps/tt_download.md | 6 +-- tests/testthat/_snaps/tt_download_file.md | 11 ++--- tests/testthat/_snaps/tt_load_gh.md | 6 +-- tests/testthat/_snaps/tt_meta.md | 26 +++++++------ tests/testthat/_snaps/tt_submit.md | 42 +++++++--------------- tests/testthat/test-aaa-conditions.R | 1 tests/testthat/test-github_api.R | 38 ++++++++++++++++++++ tests/testthat/test-last_tuesday.R | 1 tests/testthat/test-tt_available.R | 1 tests/testthat/test-tt_check_date.R | 6 +++ tests/testthat/test-tt_download.R | 1 tests/testthat/test-tt_download_file.R | 1 tests/testthat/test-tt_load_gh.R | 1 tests/testthat/test-tt_meta.R | 13 ++++++ tests/testthat/test-tt_submit.R | 6 +++ 29 files changed, 211 insertions(+), 175 deletions(-)