Title: REDCap Metadata Casting and Castellated Data Handling
Description: Casting metadata for REDCap database creation and handling of
castellated data using repeated instruments and longitudinal projects in
'REDCap'. Keeps a focused data export approach, by allowing to only export
required data from the database. Also for casting new REDCap databases based
on datasets from other sources.
Originally forked from the R part of 'REDCapRITS' by Paul Egeler.
See <https://github.com/pegeler/REDCapRITS>.
'REDCap' (Research Electronic Data Capture) is a secure, web-based software
platform designed to support data capture for research studies, providing
1) an intuitive interface for validated data capture; 2) audit trails for
tracking data manipulation and export procedures; 3) automated export
procedures for seamless data downloads to common statistical packages; and
4) procedures for data integration and interoperability with external
sources (Harris et al (2009) <doi:10.1016/j.jbi.2008.08.010>;
Harris et al (2019) <doi:10.1016/j.jbi.2019.103208> [...truncated...]
Author: Andreas Gammelgaard Damsbo [aut, cre] ,
Paul Egeler [aut]
Maintainer: Andreas Gammelgaard Damsbo <andreas@gdamsbo.dk>
Diff between REDCapCAST versions 26.1.1 dated 2026-01-29 and 26.10.1 dated 2026-10-29
DESCRIPTION | 10 MD5 | 35 - NAMESPACE | 30 NEWS.md | 13 R/ds2dd_detailed.R | 5 R/read_redcap_tables.R | 4 R/shiny_cast.R | 13 R/shiny_descr.R |only R/topological_sort.R |only build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 12 inst/doc/REDCapCAST.html | 330 +++++----- inst/shiny-examples/casting/app.R | 301 ++++++--- inst/shiny-examples/casting/rsconnect/shinyapps.io/agdamsbo/redcapcast.dcf | 2 man/REDCapCAST-package.Rd | 3 man/ds2dd_detailed.Rd | 4 man/read_input.Rd | 6 man/safe_topological_sort.Rd |only man/topological_sort.Rd |only tests/testthat/test-topological_sort.R |only 21 files changed, 457 insertions(+), 311 deletions(-)
Title: A Logistic Regression Model for Testing Microbial Differential
Abundance
Description: Testing differential abundance at individual taxa and in a whole microbial community. The tests are based on the log-ratio of relative abundances. The tests accommodate continuous, discrete (binary, categorical), and multivariate traits, and allow adjustment of confounders. For more details see He (2026) <doi:10.64898/2026.04.07.716976>. This package also includes the 'com2seq' function that combines two sequencing datasets (e.g., from 16S marker-gene and shotgun sequencing) for integrative analysis of differential abundance. For more details see <doi:10.1080/01621459.2025.2516205>.
Author: Yi-Juan Hu [aut, cre]
Maintainer: Yi-Juan Hu <yijuanhu@bicmr.pku.edu.cn>
Diff between LOCOM2 versions 1.0 dated 2026-05-04 and 1.1 dated 2026-10-29
DESCRIPTION | 10 - MD5 | 32 ++- NAMESPACE | 3 R/LOCOM2_fun.R | 392 +++++++++++++++++++++++++++++++----------- R/RcppExports.R | 12 + R/com2seq_fun.R |only R/meta.1.R |only R/meta.2.R |only R/otu.table.1.R |only R/otu.table.2.R |only README.md | 40 +++- data/meta.1.RData |only data/meta.2.RData |only data/otu.table.1.RData |only data/otu.table.2.RData |only man/com2seq.Rd |only man/locom2.Rd | 38 ++-- man/meta.1.Rd |only man/meta.2.Rd |only man/otu.table.1.Rd |only man/otu.table.2.Rd |only src/Newton.cpp |only src/RcppExports.cpp | 58 ++++++ tests/testthat/test-com2seq.R |only tests/testthat/test-locom2.R | 2 25 files changed, 456 insertions(+), 131 deletions(-)
Title: Exponential Multivariate Hawkes Model
Description: Simulate and fit multivariate Hawkes models with exponential
kernels, introduced by Hawkes (1971) <doi:10.2307/2334319>.
Includes marked, state-dependent, and multi-kernel specifications.
Parameter estimation uses maximum likelihood, following Ozaki (1979)
<doi:10.1007/BF02480272>, through the optional 'maxLik' package or
the optimization functions supplied with R.
Author: Kyungsub Lee [aut, cre]
Maintainer: Kyungsub Lee <kyungsub@gmail.com>
Diff between emhawkes versions 1.0.1 dated 2026-10-18 and 1.0.2 dated 2026-10-29
DESCRIPTION | 6 ++-- MD5 | 18 ++++++++------ NEWS.md | 12 +++++++++ inst/doc/example.html | 6 ++-- src/hawkes_loglik.cpp | 46 ++++++++++++++++++++++++++++---------- src/hawkes_simulate.cpp | 33 ++++++++++++++++++--------- src/hawkes_simulate_callbacks.cpp | 29 +++++++++++++++++------ src/hawkes_simulate_equal.cpp | 27 +++++++++++++++------- src/r_precision.h |only src/simulation_state.h | 31 +++++++++---------------- tests/native-precision.R |only 11 files changed, 136 insertions(+), 72 deletions(-)
Title: Native Simulation and Estimation of Network Models
Description: A self-contained native engine (a C interface over C++ host
logic) for stochastic actor-oriented models (the model family of
'RSiena'), exponential random graph models (cross-sectional, temporal,
and separable temporal), and models for binary actor attributes,
callable from R without a Python runtime. The CRAN build is CPU-only
(C++17, multi-threaded with 'OpenMP'); a 'CUDA' backend implements the
same interface and is built separately from source. The data
preparation, host statistics ('RSiena' Appendix B conventions), and
moment targets are validated bit-for-bit against the reference
implementation and reproduce 'RSiena' targets on public datasets to
machine precision; the estimators match 'RSiena', 'ergm', 'btergm', and
'tergm' on public benchmark models. The method-of-moments estimator
returns standard fit objects with the simulated networks on request, and
the simulator also plugs into the unmodified 'RSiena' estimator.
Author: Artem Maltsev [aut, cre]
Maintainer: Artem Maltsev <MaltsevSNA@proton.me>
Diff between cusna versions 0.1.0 dated 2026-07-15 and 0.1.1 dated 2026-10-29
DESCRIPTION | 40 + MD5 | 79 ++- NAMESPACE | 3 NEWS.md | 92 +++- R/cpp11.R | 4 R/cusna-package.R | 16 R/ergm.R | 127 +++++- R/estimate.R | 19 R/fran.R | 31 + R/mom.R | 39 + R/simulate.R |only R/stats.R | 6 README.md | 122 ++--- build/vignette.rds |binary configure | 46 +- configure.win | 53 +- data |only inst/doc/cusna.R | 167 ++++---- inst/doc/cusna.Rmd | 430 +++++++++++---------- inst/doc/cusna.html | 857 ++++++++++++++++++++++-------------------- inst/doc/siena07-backend.R | 39 + inst/doc/siena07-backend.Rmd | 162 ++++--- inst/doc/siena07-backend.html | 432 +++++++++++---------- man/cusna-package.Rd | 14 man/cusna_abi_version.Rd | 10 man/cusna_effect.Rd | 154 +++---- man/cusna_fit.Rd | 116 +++-- man/cusna_fran.Rd | 107 +++-- man/cusna_gof_distribution.Rd | 7 man/cusna_set_threads.Rd | 50 +- man/mom_estimate.Rd | 187 +++++---- man/s50.Rd |only man/saom_data.Rd | 84 ++-- man/saom_multinet.Rd | 130 +++--- man/saom_simulate.Rd |only man/stergm_simulate.Rd |only src/cpp11.cpp | 8 src/cusna_glue.cpp | 26 - tests/testthat/test-api.R | 6 tests/testthat/test-ergm.R | 76 +++ tests/testthat/test-fran.R |only tests/testthat/test-nets.R |only vignettes/cusna.Rmd | 430 +++++++++++---------- vignettes/siena07-backend.Rmd | 162 ++++--- 44 files changed, 2445 insertions(+), 1886 deletions(-)
More information about MultinomFourier at CRAN
Permanent link
Title: Calculation of Slope-Dependant Accumulated Cost Surface,
Least-Cost Paths, Least-Cost Corridors, Least-Cost Networks
Related to Human Movement Across the Landscape
Description: Provides the facility to calculate non-isotropic accumulated cost surfaces, least-cost paths, least-cost corridors, least-cost networks, ranked alternative paths, cost allocation and cost boundaries, using a number of human-movement-related cost functions that can be selected by the user. The terrain factor can be set as a single value or vary across the landscape via a raster of terrain factors or terrain classes. The package is built around a compute-once design: a single cost surface object is created first and then reused by every analysis function, avoiding redundant computation. Visualisation is fully decoupled from computation and is provided through 'ggplot2' methods that can be invoked, customised, and re-invoked at any time without re-running any analysis. It just requires a Digital Terrain Model, a start location and (optionally) destination locations. See Alberti (2019) <doi:10.1016/j.softx.2019.100331>.
Author: Gianmarco Alberti [aut, cre]
Maintainer: Gianmarco Alberti <gianmarcoalberti@gmail.com>
Diff between movecost versions 3.0.0 dated 2026-06-15 and 3.1.0 dated 2026-10-29
DESCRIPTION | 8 MD5 | 49 ++--- NAMESPACE | 1 NEWS.md | 98 ++++++++++ R/cost_functions.R | 123 ++++++++++-- R/data.R | 2 R/mc_comp.R | 12 + R/mc_export.R | 5 R/mc_surface.R | 171 ++++++++++++++++- R/mc_terrain.R |only R/plot_methods.R | 30 ++- R/utils.R | 12 + README.md | 17 + build/vignette.rds |binary inst/CITATION | 9 inst/doc/movecost.R | 80 ++++++-- inst/doc/movecost.Rmd | 179 +++++++++++++----- inst/doc/movecost.html | 410 ++++++++++++++++++++++++------------------ man/mc_comp.Rd | 6 man/mc_cost_functions.Rd | 90 +++++++-- man/mc_export.Rd | 4 man/mc_surface.Rd | 91 ++++++++- man/mc_terrain_factors.Rd |only man/movecost-package.Rd | 2 man/plot.movecost_surface.Rd | 12 + tests/testthat/test-terrain.R |only vignettes/movecost.Rmd | 179 +++++++++++++----- 27 files changed, 1203 insertions(+), 387 deletions(-)
More information about MixedDiversityAnalysis at CRAN
Permanent link
Title: Manage 'CDISC' 'ADaM' Dataset Specifications in 'YAML' Format
Description: Load, validate, and manipulate Clinical Data Interchange
Standards Consortium ('CDISC') Analysis Data Model ('ADaM') dataset
metadata stored as 'YAML' files. Metadata files are validated against
a JSON schema. Provides functions to inspect and modify columns,
parameters, and row-level operations within and across 'ADaM' domains.
Designed for use with the 'mighty' framework.
Author: Aksel Thomsen [aut, cre],
Ari Siggaard Knoph [aut],
Matthew Phelps [aut],
Giulia Pais [aut],
Katarzyna Graczyk [aut],
Michael Hedegaard Thomsen [aut],
Novo Nordisk A/S [cph]
Maintainer: Aksel Thomsen <oath@novonordisk.com>
Diff between mighty.metadata versions 0.1.0 dated 2026-05-15 and 0.2.0 dated 2026-10-29
mighty.metadata-0.1.0/mighty.metadata/R/z_resolve.R |only mighty.metadata-0.1.0/mighty.metadata/tests/testthat/test-z_resolve.R |only mighty.metadata-0.2.0/mighty.metadata/DESCRIPTION | 18 mighty.metadata-0.2.0/mighty.metadata/MD5 | 160 ++++-- mighty.metadata-0.2.0/mighty.metadata/NAMESPACE | 29 + mighty.metadata-0.2.0/mighty.metadata/NEWS.md | 29 + mighty.metadata-0.2.0/mighty.metadata/R/a_mighty_config.R |only mighty.metadata-0.2.0/mighty.metadata/R/a_study_config.R |only mighty.metadata-0.2.0/mighty.metadata/R/documents.R |only mighty.metadata-0.2.0/mighty.metadata/R/mighty_codelists.R |only mighty.metadata-0.2.0/mighty.metadata/R/mighty_domain.R | 39 + mighty.metadata-0.2.0/mighty.metadata/R/mighty_study.R | 165 ++++-- mighty.metadata-0.2.0/mighty.metadata/R/reexports.R | 4 mighty.metadata-0.2.0/mighty.metadata/R/utils-create-md.R |only mighty.metadata-0.2.0/mighty.metadata/R/utils-schema.R |only mighty.metadata-0.2.0/mighty.metadata/R/utils-vector.R | 74 ++- mighty.metadata-0.2.0/mighty.metadata/R/utils-yml.R | 23 mighty.metadata-0.2.0/mighty.metadata/R/y_codelists.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_create_md.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_create_md_col.R | 40 - mighty.metadata-0.2.0/mighty.metadata/R/y_create_md_param.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_create_md_table.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_create_md_values.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_documents.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_filter_domains.R |only mighty.metadata-0.2.0/mighty.metadata/R/y_populate_core.R | 24 - mighty.metadata-0.2.0/mighty.metadata/R/y_populate_sparse.R | 29 - mighty.metadata-0.2.0/mighty.metadata/R/y_write_config.R | 55 +- mighty.metadata-0.2.0/mighty.metadata/R/z_resolve_includes.R |only mighty.metadata-0.2.0/mighty.metadata/R/z_resolve_subsets.R |only mighty.metadata-0.2.0/mighty.metadata/R/zzz.R | 18 mighty.metadata-0.2.0/mighty.metadata/README.md | 31 - mighty.metadata-0.2.0/mighty.metadata/build/vignette.rds |binary mighty.metadata-0.2.0/mighty.metadata/inst/WORDLIST | 143 ++++-- mighty.metadata-0.2.0/mighty.metadata/inst/doc/adam-schema.html | 118 ++++- mighty.metadata-0.2.0/mighty.metadata/inst/doc/codelists-schema.R |only mighty.metadata-0.2.0/mighty.metadata/inst/doc/codelists-schema.Rmd |only mighty.metadata-0.2.0/mighty.metadata/inst/doc/codelists-schema.html |only mighty.metadata-0.2.0/mighty.metadata/inst/doc/mighty-metadata.R | 9 mighty.metadata-0.2.0/mighty.metadata/inst/doc/mighty-metadata.Rmd | 41 + mighty.metadata-0.2.0/mighty.metadata/inst/doc/mighty-metadata.html | 236 ++++++---- mighty.metadata-0.2.0/mighty.metadata/inst/doc/mighty-schema.html | 25 - mighty.metadata-0.2.0/mighty.metadata/inst/doc/study-schema.Rmd | 35 + mighty.metadata-0.2.0/mighty.metadata/inst/doc/study-schema.html | 112 ++++ mighty.metadata-0.2.0/mighty.metadata/inst/examples/_mighty.yml | 3 mighty.metadata-0.2.0/mighty.metadata/inst/examples/_study.yml | 14 mighty.metadata-0.2.0/mighty.metadata/inst/schema/adam.json | 51 ++ mighty.metadata-0.2.0/mighty.metadata/inst/schema/codelists.json |only mighty.metadata-0.2.0/mighty.metadata/inst/schema/documents.json |only mighty.metadata-0.2.0/mighty.metadata/inst/schema/mighty.json | 20 mighty.metadata-0.2.0/mighty.metadata/inst/schema/study.json | 29 + mighty.metadata-0.2.0/mighty.metadata/man/codelists.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/create_md.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/create_md_col.Rd | 6 mighty.metadata-0.2.0/mighty.metadata/man/create_md_param.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/create_md_table.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/create_md_values.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/documents.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/filter_domains.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/mighty.metadata-options-params.Rd | 2 mighty.metadata-0.2.0/mighty.metadata/man/mighty.metadata-package.Rd | 3 mighty.metadata-0.2.0/mighty.metadata/man/mighty_config.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/mighty_domain.Rd | 32 + mighty.metadata-0.2.0/mighty.metadata/man/mighty_study.Rd | 52 +- mighty.metadata-0.2.0/mighty.metadata/man/reexports.Rd | 5 mighty.metadata-0.2.0/mighty.metadata/man/resolve_includes.Rd | 5 mighty.metadata-0.2.0/mighty.metadata/man/resolve_subsets.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/study_config.Rd |only mighty.metadata-0.2.0/mighty.metadata/man/write_config.Rd |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/a_mighty_config.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/a_study_config.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/mighty_codelists.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/mighty_study.md | 23 mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/y_codelists.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/y_create_md_param.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/y_create_md_table.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/y_create_md_values.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/y_documents.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/y_write_config.md | 3 mighty.metadata-0.2.0/mighty.metadata/tests/testthat/_snaps/z_resolve_subsets.md |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/helper-codelists.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/helper-validations.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-a_mighty_config.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-a_study_config.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-documents.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-mighty_codelists.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-mighty_domain.R | 29 + mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-mighty_study.R | 88 +++ mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-utils-create-md.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-utils-schema.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-utils-vector.R | 67 ++ mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-utils-yml.R | 48 -- mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_codelists.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_create_md.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_create_md_param.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_create_md_table.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_create_md_values.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_documents.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_filter_domains.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_populate_core.R | 42 + mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_populate_sparse.R | 28 + mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-y_write_config.R | 67 ++ mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-z_resolve_includes.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test-z_resolve_subsets.R |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test_study/_codelists.yml |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test_study/_documents.yml |only mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test_study/_mighty.yml | 2 mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test_study/adae.yml | 3 mighty.metadata-0.2.0/mighty.metadata/tests/testthat/test_study/advs.yml | 10 mighty.metadata-0.2.0/mighty.metadata/vignettes/codelists-schema.Rmd |only mighty.metadata-0.2.0/mighty.metadata/vignettes/mighty-metadata.Rmd | 41 + mighty.metadata-0.2.0/mighty.metadata/vignettes/study-schema.Rmd | 35 + 112 files changed, 1690 insertions(+), 475 deletions(-)
More information about mighty.metadata at CRAN
Permanent link
Title: Iterated Racing for Automatic Algorithm Configuration
Description: Iterated race is an extension of the Iterated F-race method for
the automatic configuration of optimization algorithms, that is,
(offline) tuning their parameters by finding the most appropriate
settings given a set of instances of an optimization problem.
M. López-Ibáñez, J. Dubois-Lacoste, L. Pérez Cáceres, T. Stützle,
and M. Birattari (2016) <doi:10.1016/j.orp.2016.09.002>.
Author: Manuel Lopez-Ibanez [aut, cre] ,
Jeremie Dubois-Lacoste [aut],
Leslie Perez Caceres [aut],
Thomas Stuetzle [aut],
Mauro Birattari [aut],
Eric Yuan [ctb],
Prasanna Balaprakash [ctb],
Nguyen Dang [ctb]
Maintainer: Manuel Lopez-Ibanez <manuel.lopez-ibanez@manchester.ac.uk>
Diff between irace versions 4.5 dated 2026-09-15 and 4.5.1 dated 2026-10-29
DESCRIPTION | 8 +++--- MD5 | 22 +++++++++-------- NAMESPACE | 20 ++++++++------- NEWS.md | 12 +++++++++ R/generation.R | 20 ++++++++++----- R/irace.R | 9 ++++--- R/utils.R | 4 --- R/version.R | 2 - build/partial.rdb |binary inst/doc/irace-package.pdf |binary tests/testthat/test-bug-102.R |only tests/testthat/test-bug-103.R |only vignettes/irace-package.bib | 54 ++++++++++++++++++++++++++++++++---------- 13 files changed, 103 insertions(+), 48 deletions(-)
Title: Offline Credit Risk Modelling, Calibration and Validation
Description: Native credit risk calculations, statistical
estimation, calibration, validation and cash flow simulation using local
structured data. Methods cover consumer and business lending with
explicit modelling assumptions, diagnostics and reproducible reference data.
Author: RiskDataScience GmbH [aut, cph],
Dimitrios Geromichalos [cre]
Maintainer: Dimitrios Geromichalos <riskdatascience@web.de>
Diff between creditratingsystem versions 0.1.0 dated 2026-10-28 and 0.1.1 dated 2026-10-29
DESCRIPTION | 6 ++-- MD5 | 14 +++++----- R/links.R | 8 +++--- README.md | 5 +++ inst/examples/wholesale_sector_journey_review.R | 9 ++++++ tests/test-links.R | 15 +++++++++++ tests/test-retail-pools.R | 2 - tests/test-wholesale-sector-journey-review.R | 31 ++++++++++++++++++++++++ 8 files changed, 74 insertions(+), 16 deletions(-)
More information about creditratingsystem at CRAN
Permanent link
Title: VITA, IG, PLSIM and VM Simulation for Given Covariance and
Marginals
Description: Random sampling from distributions with user-specified population covariance matrix. Marginal information may be fully
specified, for which the package implements the VITA (VIne-To-Anything) algorithm
Grønneberg and Foldnes (2017) <doi:10.1007/s11336-017-9569-6>. See also Grønneberg, Foldnes and Marcoulides (2022) <doi:10.18637/jss.v102.i03>.
Alternatively, marginal skewness and kurtosis may be specified, for which the package
implements the IG (independent generator), PLSIM (piecewise linear) and VM (Vale-Maurelli) algorithms, see Foldnes and Olsson (2016) <doi:10.1080/00273171.2015.1133274>,
Foldnes and Grønneberg (2021) <doi:10.1080/10705511.2021.1949323> and Vale and Maurelli (1983) <doi:10.1007/BF02293687>, respectively.
Author: Njaal Foldnes [aut, cre],
Steffen Groenneberg [aut]
Maintainer: Njaal Foldnes <njal.foldnes@gmail.com>
Diff between covsim versions 1.1.0 dated 2024-05-31 and 1.2.0 dated 2026-10-29
covsim-1.1.0/covsim/vignettes/IG_PL-1.png |only covsim-1.1.0/covsim/vignettes/IG_PL-2.png |only covsim-1.1.0/covsim/vignettes/vignette.Rmd.orig |only covsim-1.1.0/covsim/vignettes/vita-1.png |only covsim-1.2.0/covsim/DESCRIPTION | 21 covsim-1.2.0/covsim/MD5 | 60 covsim-1.2.0/covsim/NAMESPACE | 11 covsim-1.2.0/covsim/NEWS.md | 62 covsim-1.2.0/covsim/R/IG.R | 175 +- covsim-1.2.0/covsim/R/PLSIM.R | 280 ++- covsim-1.2.0/covsim/R/VM.R |only covsim-1.2.0/covsim/R/auxiliary.R | 123 + covsim-1.2.0/covsim/R/simulate_estimate.R |only covsim-1.2.0/covsim/R/vita.R | 69 covsim-1.2.0/covsim/README.md | 54 covsim-1.2.0/covsim/build/vignette.rds |binary covsim-1.2.0/covsim/inst/doc/calibrate-simulate.R |only covsim-1.2.0/covsim/inst/doc/calibrate-simulate.Rmd |only covsim-1.2.0/covsim/inst/doc/calibrate-simulate.html |only covsim-1.2.0/covsim/inst/doc/simulation-study.R |only covsim-1.2.0/covsim/inst/doc/simulation-study.Rmd |only covsim-1.2.0/covsim/inst/doc/simulation-study.html |only covsim-1.2.0/covsim/inst/doc/vignette.R |only covsim-1.2.0/covsim/inst/doc/vignette.Rmd | 402 ----- covsim-1.2.0/covsim/inst/doc/vignette.html | 1117 +++++--------- covsim-1.2.0/covsim/man/calibrate_ig.Rd |only covsim-1.2.0/covsim/man/calibrate_plsim.Rd |only covsim-1.2.0/covsim/man/calibrate_vita.Rd |only covsim-1.2.0/covsim/man/calibrate_vm.Rd |only covsim-1.2.0/covsim/man/rIG.Rd | 17 covsim-1.2.0/covsim/man/rPLSIM.Rd | 25 covsim-1.2.0/covsim/man/rVM.Rd |only covsim-1.2.0/covsim/man/simulate.covsim_calib_ig.Rd |only covsim-1.2.0/covsim/man/simulate.covsim_calib_plsim.Rd |only covsim-1.2.0/covsim/man/simulate.covsim_calib_vita.Rd |only covsim-1.2.0/covsim/man/simulate.covsim_calib_vm.Rd |only covsim-1.2.0/covsim/man/simulate_estimate.Rd |only covsim-1.2.0/covsim/tests/testthat/testCalibrate.R |only covsim-1.2.0/covsim/tests/testthat/testIG.R | 19 covsim-1.2.0/covsim/tests/testthat/testPL.R | 69 covsim-1.2.0/covsim/tests/testthat/testSimulateEstimate.R |only covsim-1.2.0/covsim/tests/testthat/testVM.R |only covsim-1.2.0/covsim/vignettes/calibrate-simulate.Rmd |only covsim-1.2.0/covsim/vignettes/simulation-study.Rmd |only covsim-1.2.0/covsim/vignettes/vignette.Rmd | 402 ----- 45 files changed, 1339 insertions(+), 1567 deletions(-)
Title: Regression Modeling Strategies
Description: Regression modeling, testing, estimation, validation,
graphics, prediction, and typesetting by storing enhanced model design
attributes in the fit. 'rms' is a collection of functions that
assist with and streamline modeling. It also contains functions for
binary and ordinal logistic regression models, ordinal models for
continuous Y with a variety of distribution families and types of censoring
with optional random effects, and the Buckley-James
multiple regression model for right-censored responses, and implements
penalized maximum likelihood estimation for logistic and ordinary
linear models. 'rms' works with almost any regression model, but it
was especially written to work with binary or ordinal regression
models, Cox regression, accelerated failure time models,
ordinary linear models, the Buckley-James model, generalized least
squares for serially or spatially correlated observations, generalized
linear models, and quantile regression.
Author: Frank E Harrell Jr [aut, cre]
Maintainer: Frank E Harrell Jr <fh@fharrell.com>
Diff between rms versions 8.1-1 dated 2026-02-18 and 8.2-0 dated 2026-10-29
rms-8.1-1/rms/R/orm.fit.s |only rms-8.2-0/rms/DESCRIPTION | 17 rms-8.2-0/rms/MD5 | 207 ++- rms-8.2-0/rms/NAMESPACE | 13 rms-8.2-0/rms/NEWS | 35 rms-8.2-0/rms/R/Glm.r | 57 - rms-8.2-0/rms/R/Gls.s | 76 - rms-8.2-0/rms/R/Ocens.r | 944 +++++++++++------ rms-8.2-0/rms/R/Olinks.r | 22 rms-8.2-0/rms/R/Rq.s | 133 ++ rms-8.2-0/rms/R/Survival.orm.r | 309 +++-- rms-8.2-0/rms/R/adapt_orm.r | 28 rms-8.2-0/rms/R/anova.rms.s | 353 ++++++ rms-8.2-0/rms/R/bj.s | 36 rms-8.2-0/rms/R/calibrate.cph.s | 4 rms-8.2-0/rms/R/calibrate.default.s | 2 rms-8.2-0/rms/R/calibrate.orm.r | 2 rms-8.2-0/rms/R/calibrate.psm.s | 4 rms-8.2-0/rms/R/cluster.r |only rms-8.2-0/rms/R/contrast.s | 49 rms-8.2-0/rms/R/corFloorExp.r |only rms-8.2-0/rms/R/cph.s | 134 +- rms-8.2-0/rms/R/hazard.ratio.plot.s | 2 rms-8.2-0/rms/R/impactPO.r | 14 rms-8.2-0/rms/R/infoMxop.r | 243 +++- rms-8.2-0/rms/R/latex.cph.s | 158 ++ rms-8.2-0/rms/R/latex.lrm.s | 80 + rms-8.2-0/rms/R/latex.ols.s | 10 rms-8.2-0/rms/R/latex.pphsm.s | 27 rms-8.2-0/rms/R/latex.psm.s | 27 rms-8.2-0/rms/R/latex.rms.s | 211 +++ rms-8.2-0/rms/R/lrm.fit.r | 1226 ++++++++++++----------- rms-8.2-0/rms/R/lrm.s | 115 +- rms-8.2-0/rms/R/nomogram.s | 2 rms-8.2-0/rms/R/ols.s | 117 +- rms-8.2-0/rms/R/ordParallel.r | 2 rms-8.2-0/rms/R/orm.fit.r |only rms-8.2-0/rms/R/orm.rfit.r |only rms-8.2-0/rms/R/orm.s | 151 ++ rms-8.2-0/rms/R/plot.Predict.s | 2 rms-8.2-0/rms/R/plot.nomogram.s | 2 rms-8.2-0/rms/R/print.psm.s | 51 rms-8.2-0/rms/R/processMI.r | 158 ++ rms-8.2-0/rms/R/psm.s | 2 rms-8.2-0/rms/R/quickRefit.r | 16 rms-8.2-0/rms/R/recode2integer.r | 63 - rms-8.2-0/rms/R/residuals.lrm.s | 2 rms-8.2-0/rms/R/rms.s | 107 +- rms-8.2-0/rms/R/rms.trans.s | 53 rms-8.2-0/rms/R/rmsMisc.s | 689 ++++++++++-- rms-8.2-0/rms/R/summary.rms.s | 211 ++- rms-8.2-0/rms/R/survest.psm.s | 2 rms-8.2-0/rms/R/survplot.npsurv.s | 60 - rms-8.2-0/rms/R/survplot.rms.s | 2 rms-8.2-0/rms/R/val.prob.s | 6 rms-8.2-0/rms/R/val.surv.s | 2 rms-8.2-0/rms/R/validate.cph.s | 31 rms-8.2-0/rms/R/validate.ols.s | 291 +++-- rms-8.2-0/rms/inst/tests/Survival-orm-km.r | 90 + rms-8.2-0/rms/inst/tests/corFloorExp.r |only rms-8.2-0/rms/inst/tests/orm-censor-likelihood.r | 34 rms-8.2-0/rms/inst/tests/orm-censor3.r | 10 rms-8.2-0/rms/inst/tests/orm-re-exact-opt.rds |only rms-8.2-0/rms/inst/tests/orm-re-exact.r |only rms-8.2-0/rms/inst/tests/orm-re.r |only rms-8.2-0/rms/inst/tests/orm7.r | 15 rms-8.2-0/rms/inst/tests/typst.qmd |only rms-8.2-0/rms/inst/tests/yu.rds |only rms-8.2-0/rms/man/ExProb.Rd | 13 rms-8.2-0/rms/man/Glm.Rd | 4 rms-8.2-0/rms/man/Gls.Rd | 4 rms-8.2-0/rms/man/Ocens.Rd | 2 rms-8.2-0/rms/man/Ocens2ord.Rd | 14 rms-8.2-0/rms/man/Olinks.Rd | 5 rms-8.2-0/rms/man/Rq.Rd | 10 rms-8.2-0/rms/man/anova.rms.Rd | 30 rms-8.2-0/rms/man/bj.Rd | 4 rms-8.2-0/rms/man/cluster.Rd |only rms-8.2-0/rms/man/corFloorExp.Rd |only rms-8.2-0/rms/man/impactPO.Rd | 4 rms-8.2-0/rms/man/infoMxop.Rd | 21 rms-8.2-0/rms/man/latex.cph.Rd | 9 rms-8.2-0/rms/man/latexrms.Rd | 19 rms-8.2-0/rms/man/lrm.Rd | 4 rms-8.2-0/rms/man/lrm.fit.Rd | 6 rms-8.2-0/rms/man/mix_re.Rd |only rms-8.2-0/rms/man/nomogram.Rd | 4 rms-8.2-0/rms/man/orm.Rd | 16 rms-8.2-0/rms/man/orm.fit.Rd | 741 +++++++++++-- rms-8.2-0/rms/man/plot.Predict.Rd | 20 rms-8.2-0/rms/man/predict.lrm.Rd | 10 rms-8.2-0/rms/man/print.Glm.Rd | 2 rms-8.2-0/rms/man/print.cph.Rd | 4 rms-8.2-0/rms/man/print.ols.Rd | 4 rms-8.2-0/rms/man/prmiInfo.Rd | 2 rms-8.2-0/rms/man/processMI.Rd | 2 rms-8.2-0/rms/man/processMI.fit.mult.impute.Rd | 2 rms-8.2-0/rms/man/psm.Rd | 4 rms-8.2-0/rms/man/recode2integer.Rd | 10 rms-8.2-0/rms/man/rexVar.Rd | 2 rms-8.2-0/rms/man/rms.Rd | 14 rms-8.2-0/rms/man/rms.trans.Rd | 8 rms-8.2-0/rms/man/rmsMisc.Rd | 65 - rms-8.2-0/rms/man/summary.rms.Rd | 28 rms-8.2-0/rms/man/survplot.Rd | 46 rms-8.2-0/rms/man/validate.Rd | 33 rms-8.2-0/rms/man/validate.Rq.Rd | 3 rms-8.2-0/rms/man/validate.ols.Rd | 2 rms-8.2-0/rms/src/init.c | 22 rms-8.2-0/rms/src/orm_links.f90 |only rms-8.2-0/rms/src/ormeta.f90 |only rms-8.2-0/rms/src/ormidx.f90 |only rms-8.2-0/rms/src/ormll.f90 | 443 +++----- 113 files changed, 5582 insertions(+), 2763 deletions(-)
Title: Histogram-Valued Data Analysis
Description: In the framework of Symbolic Data Analysis, a relatively new
approach to the statistical analysis of multi-valued data, we consider
histogram-valued data, i.e., data described by univariate histograms. The
methods and the basic statistics for histogram-valued data are mainly based
on the L2 Wasserstein metric between distributions, i.e., the Euclidean metric
between quantile functions. The package contains unsupervised classification
techniques, least square regression and tools for histogram-valued data and for
histogram time series. An introducing paper is Irpino A. Verde R. (2015) <doi: 10.1007/s11634-014-0176-4>.
Author: Antonio Irpino [aut, cre]
Maintainer: Antonio Irpino <antonio.irpino@unicampania.it>
Diff between HistDAWass versions 1.0.9 dated 2026-10-18 and 1.0.10 dated 2026-10-29
DESCRIPTION | 11 MD5 | 210 ++++---- NAMESPACE | 238 +++++----- NEWS.md | 197 ++++++++ R/For_Rccp_int.R | 6 R/Fuzzy_cmeans.R | 12 R/H_time_series.R | 17 R/Kohonen_maps.R | 9 R/Met_MatH.R | 37 - R/Met_distributionH.R | 35 + R/Plotting_with_ggplot.R | 21 R/RcppExports.R | 362 +++++++-------- R/Utility.R | 24 + R/principal_components.R | 91 ++- R/regression.R | 12 R/unsuperv_classification.R | 6 README.md | 666 ++++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |only inst |only man/Age_Pyramids_2014.Rd | 44 - man/Agronomique.Rd | 46 - man/Arith-distributionH.Rd | 4 man/BLOOD.Rd | 44 - man/BloodBRITO.Rd | 40 - man/Center.cell.MatH-methods.Rd | 44 - man/China_Month.Rd | 60 +- man/China_Seas.Rd | 60 +- man/DouglasPeucker.Rd | 58 +- man/HTS-class.Rd | 68 +- man/HTS.exponential.smoothing.Rd | 56 +- man/HTS.moving.averages.Rd | 62 +- man/HTS.predict.knn.Rd | 66 +- man/HistDAWass-package.Rd | 176 +++---- man/MatH-class.Rd | 164 +++--- man/OzoneFull.Rd | 42 - man/OzoneH.Rd | 42 - man/RetHTS.Rd | 34 - man/ShortestDistance.Rd | 52 +- man/TMatH-class.Rd | 60 +- man/TdistributionH-class.Rd | 86 +-- man/WH.1d.PCA.Rd | 132 ++--- man/WH.MultiplePCA.Rd | 80 +-- man/WH.bind-methods.Rd | 80 +-- man/WH.mat.prod-methods.Rd | 54 +- man/WH.mat.sum-methods.Rd | 48 +- man/WH.plot_multiple_Spanish.funs.Rd | 92 +-- man/WH.plot_multiple_indivs.Rd | 139 +++-- man/WH.regression.GOF.Rd | 76 +-- man/WH.regression.two.components.Rd | 96 ++-- man/WH.regression.two.components.predict.Rd | 64 +- man/WH.var.covar-methods.Rd | 134 ++--- man/WH.vec.mean-methods.Rd | 72 +-- man/WH_2d_Adaptive_Kohonen_maps.Rd | 242 +++++----- man/WH_2d_Kohonen_maps.Rd | 186 +++---- man/WH_MAT_DIST.Rd | 82 +-- man/WH_adaptive.kmeans.Rd | 170 +++---- man/WH_adaptive_fcmeans.Rd | 170 +++---- man/WH_fcmeans.Rd | 104 ++-- man/WH_hclust.Rd | 114 ++-- man/WH_kmeans.Rd | 136 ++--- man/WassSqDistH-methods.Rd | 90 +-- man/checkEmptyBins-methods.Rd | 66 +- man/compP-methods.Rd | 56 +- man/compQ-methods.Rd | 62 +- man/crwtransform-methods.Rd | 64 +- man/data2hist.Rd | 108 ++-- man/distributionH-class.Rd | 144 +++--- man/dotpW-methods.Rd | 72 +-- man/extract-methods.Rd | 60 +- man/get.MatH.main.info-methods.Rd | 90 +-- man/get.MatH.stats-methods.Rd | 68 +- man/get.cell.MatH-methods.Rd | 68 +- man/get.distr-methods.Rd | 54 +- man/get.histo-methods.Rd | 54 +- man/get.m-methods.Rd | 52 +- man/get.s-methods.Rd | 54 +- man/kurtH-methods.Rd | 52 +- man/meanH-methods.Rd | 50 +- man/plot-HTS.Rd | 72 +-- man/plot-MatH.Rd | 72 +-- man/plot-TdistributionH.Rd | 66 +- man/plot-distributionH.Rd | 80 +-- man/plotPredVsObs.Rd | 82 +-- man/plot_errors.Rd | 78 +-- man/rQQ-methods.Rd | 60 +- man/register-methods.Rd | 70 +- man/registerMH-methods.Rd | 84 +-- man/show-MatH-methods.Rd | 44 - man/show-distributionH-methods.Rd | 46 - man/skewH-methods.Rd | 52 +- man/stations_coordinates.Rd | 48 +- man/stdH-methods.Rd | 52 +- man/subsetHTS-methods.Rd | 46 - src/RcppExports.cpp | 12 src/Utility_fun.cpp | 193 +++++--- tests/testthat/test-hts-arith.R |only tests/testthat/test-plots.R | 30 + vignettes |only 99 files changed, 4205 insertions(+), 3779 deletions(-)
Title: Test for Differences in Diversification Rates over Time
Description: Employ time-calibrated phylogenies and trait/range data to test for
differences in diversification rates over evolutionary time. Extend
the STRAPP test from BAMMtools::traitDependentBAMM() to any time step
along phylogenies. See inst/COPYRIGHTS for details on third-party code.
Author: Mael Dore [aut, cre, cph] ,
Dan Rabosky [ctb],
Mike Grundler [ctb],
Huateng Huang [ctb],
Pascal Title [ctb],
Liam Revell [ctb],
Nicholas J. Matzke [ctb]
Maintainer: Mael Dore <mael.dore@gmail.com>
Diff between deepSTRAPP versions 1.1.0 dated 2026-09-27 and 1.1.1 dated 2026-10-29
DESCRIPTION | 6 MD5 | 85 - NEWS.md | 8 R/build_BAMM_object.R | 10 R/convert_BSMs_to_simmaps.R | 110 + R/convert_contsimmap_to_contMaps.R | 10 README.md | 32 data/eel_biogeo_data.rda |binary inst/CITATION | 2 inst/doc/cut_phylogenies.R | 16 inst/doc/cut_phylogenies.Rmd | 1398 +++++++++++----------- inst/doc/cut_phylogenies.html | 10 inst/doc/deepSTRAPP.html | 4 inst/doc/deepSTRAPP_biogeographic_data.R | 4 inst/doc/deepSTRAPP_biogeographic_data.Rmd | 4 inst/doc/deepSTRAPP_biogeographic_data.html | 6 inst/doc/deepSTRAPP_categorical_data.R | 4 inst/doc/deepSTRAPP_categorical_data.Rmd | 4 inst/doc/deepSTRAPP_categorical_data.html | 6 inst/doc/deepSTRAPP_continuous_data.R | 2 inst/doc/deepSTRAPP_continuous_data.Rmd | 2 inst/doc/deepSTRAPP_continuous_data.html | 4 inst/doc/handle_uncertainty.html | 4 inst/doc/import_external_analyses.R | 23 inst/doc/import_external_analyses.Rmd | 23 inst/doc/import_external_analyses.html | 409 +++--- inst/doc/main_tutorial.R | 4 inst/doc/main_tutorial.Rmd | 4 inst/doc/main_tutorial.html | 8 inst/doc/model_biogeographic_range_evolution.html | 4 inst/doc/model_categorical_trait_evolution.html | 4 inst/doc/model_continuous_trait_evolution.html | 4 inst/doc/model_diversification_dynamics.html | 4 inst/extdata |only man/build_BAMM_object.Rd | 10 man/convert_BSM_to_simmap.Rd | 7 man/convert_contsimmap_to_contMaps.Rd | 10 vignettes/cut_phylogenies.Rmd | 1398 +++++++++++----------- vignettes/deepSTRAPP_biogeographic_data.Rmd | 4 vignettes/deepSTRAPP_categorical_data.Rmd | 4 vignettes/deepSTRAPP_continuous_data.Rmd | 2 vignettes/import_external_analyses.Rmd | 23 vignettes/main_tutorial.Rmd | 4 43 files changed, 1938 insertions(+), 1742 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-08-29 2.1.12
2024-07-17 2.1.11
2024-07-09 2.1.10
2024-06-01 2.1.9
2023-12-01 2.1.6
2023-11-04 2.1.4
2023-11-02 2.1.3
2023-07-10 2.1.0
2023-07-09 2.0.0
2023-06-27 1.4.2
2023-03-06 1.4.1
2022-12-16 1.4.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-22 1.0.7
2025-09-03 1.0.3
Title: Zstandard Compression
Description: Compress and decompress data with the 'Zstandard'
algorithm <https://meta.github.io/zstd/>, a fast lossless
compression format. Works on raw vectors in memory and on files, and
can create and extract 'zstd' compressed 'tar' archives. Supports
compression levels, multithreaded compression, long distance
matching, content checksums, and training dictionaries for better
compression of small, similar inputs.
Author: Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd] ,
Yann Collet [aut] ,
Meta Platforms, Inc. and affiliates. [cph] ,
rxi [aut, cph]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between zstd versions 0.1.0 dated 2026-10-20 and 0.1.1 dated 2026-10-29
zstd-0.1.0/zstd/src/Makevars |only zstd-0.1.0/zstd/src/zdict.h |only zstd-0.1.0/zstd/src/zstd.c |only zstd-0.1.0/zstd/src/zstd.h |only zstd-0.1.0/zstd/src/zstd_errors.h |only zstd-0.1.1/zstd/DESCRIPTION | 13 +++--- zstd-0.1.1/zstd/MD5 | 43 ++++++++++++--------- zstd-0.1.1/zstd/NAMESPACE | 3 + zstd-0.1.1/zstd/NEWS.md | 5 ++ zstd-0.1.1/zstd/R/zstd-tar.R | 2 zstd-0.1.1/zstd/R/zstd-version.R |only zstd-0.1.1/zstd/cleanup |only zstd-0.1.1/zstd/configure |only zstd-0.1.1/zstd/configure.win |only zstd-0.1.1/zstd/man/zstd_tar_decompress.Rd | 2 zstd-0.1.1/zstd/man/zstd_version.Rd |only zstd-0.1.1/zstd/src/Makevars.in |only zstd-0.1.1/zstd/src/glue.c | 10 ++-- zstd-0.1.1/zstd/src/init.c | 2 zstd-0.1.1/zstd/src/libzstd |only zstd-0.1.1/zstd/src/microtar.c | 6 +- zstd-0.1.1/zstd/src/zstd_r.c | 7 +-- zstd-0.1.1/zstd/src/zstd_r.h | 2 zstd-0.1.1/zstd/src/zstd_stream.c | 3 - zstd-0.1.1/zstd/src/zstd_tar.c | 3 - zstd-0.1.1/zstd/src/zstd_version.c |only zstd-0.1.1/zstd/tests/testthat/test-zstd-version.R |only zstd-0.1.1/zstd/tools/zstd.patch | 12 ++--- 28 files changed, 68 insertions(+), 45 deletions(-)
Title: Multi-State Markov and Hidden Markov Models in Continuous Time
Description: Functions for fitting continuous-time Markov and hidden
Markov multi-state models to longitudinal data. Designed for
processes observed at arbitrary times in continuous time (panel data)
but some other observation schemes are supported. Both Markov
transition rates and the hidden Markov output process can be modelled
in terms of covariates, which may be constant or piecewise-constant
in time.
Author: Christopher Jackson [aut, cre]
Maintainer: Christopher Jackson <chris.jackson@mrc-bsu.cam.ac.uk>
Diff between msm versions 1.8.2 dated 2024-11-07 and 1.9 dated 2026-10-29
DESCRIPTION | 10 MD5 | 70 ++-- NAMESPACE | 112 ++++--- NEWS.md | 15 + R/hmm-dists.R | 6 R/internals_doc.R | 8 R/medists.R | 3 R/msm.R | 31 +- R/optim.R | 500 +++++++++++++++++----------------- R/outputs.R | 3 R/pearson.R | 44 ++ R/prevalence.R | 2 R/simul.R | 289 ++++++++++--------- R/simul_legacy.R |only R/tidy.R | 1 build/vignette.rds |binary inst/doc/msm-manual.R | 2 inst/doc/msm-manual.pdf |binary man/hmmMV.Rd | 2 man/msm-package.Rd | 5 man/msm.object.Rd | 8 man/pearson.msm.Rd | 2 man/plot.prevalence.msm.Rd | 2 man/sim.msm.Rd | 21 + man/simmulti.msm.Rd | 27 + src/lik.c | 3 src/msm-init.c | 4 src/pijt.c | 65 +--- src/simul.c |only tests/testthat/test_datasumm.r | 20 + tests/testthat/test_deriv.r | 63 +++- tests/testthat/test_models.r | 3 tests/testthat/test_models_hmmmulti.r | 8 tests/testthat/test_models_misc.r | 8 tests/testthat/test_pearson.R | 18 + tests/testthat/test_phase.R | 2 tests/testthat/test_simul.R | 108 +++++++ 37 files changed, 878 insertions(+), 587 deletions(-)
Title: Core 'hubverse' Utilities
Description: Core set of low-level utilities common across the
'hubverse'. Used to interact with 'hubverse' schema, Hub configuration files
and model outputs and designed to be primarily used internally by other
'hubverse' packages. See Reich et al. (2022) <doi:10.2105/AJPH.2022.306831>
for an overview of Collaborative Hubs.
Author: Anna Krystalli [aut, cre] ,
Li Shandross [aut],
Nicholas G. Reich [ctb] ,
Evan L. Ray [ctb],
Zhian N. Kamvar [ctb] ,
Consortium of Infectious Disease Modeling Hubs [cph]
Maintainer: Anna Krystalli <annakrystalli@googlemail.com>
Diff between hubUtils versions 1.2.1 dated 2026-07-15 and 1.3.0 dated 2026-10-29
DESCRIPTION | 13 +-- MD5 | 77 +++++++++++------- NAMESPACE | 9 ++ NEWS.md | 20 ++++ R/as_model_out_tbl.R | 5 - R/get_round_value_sets_config.R |only R/get_task_id_type.R |only R/read_model_metadata.R |only R/utils-checks.R |only R/utils-config.R | 54 ++++++++++-- R/utils-get_hub.R | 34 +++---- R/utils-output_type_ids.R |only R/utils-round-config.R | 81 +++++++++++++++---- R/utils-round_ids.R | 34 +++++-- man/create_s3_url.Rd | 2 man/get_config_tid.Rd | 2 man/get_derived_task_ids_config.Rd |only man/get_hub_timezone.Rd | 21 +++- man/get_round_config.Rd |only man/get_round_idx.Rd | 13 ++- man/get_round_model_tasks.Rd | 10 +- man/get_round_output_type_names.Rd |only man/get_round_task_id_names.Rd | 10 +- man/get_round_value_sets_config.Rd |only man/get_schema.Rd | 2 man/get_schema_url.Rd | 2 man/get_schema_valid_versions.Rd | 2 man/get_schema_version_latest.Rd | 2 man/get_task_id_names.Rd | 13 ++- man/get_task_id_type.Rd |only man/get_task_id_values.Rd |only man/get_version_config.Rd | 4 man/is_s3_base_fs.Rd | 2 man/read_config.Rd | 2 man/read_config_file.Rd | 2 man/read_model_metadata.Rd |only tests/testthat/_snaps/get_round_value_sets_config.md |only tests/testthat/_snaps/get_task_id_type.md |only tests/testthat/_snaps/read_model_metadata.md |only tests/testthat/_snaps/utils-config.md |only tests/testthat/_snaps/utils-round-config.md | 57 +++++++++++-- tests/testthat/_snaps/utils-round_ids.md | 15 +-- tests/testthat/helper-expectations.R |only tests/testthat/test-get_round_value_sets_config.R |only tests/testthat/test-get_task_id_type.R |only tests/testthat/test-read_model_metadata.R |only tests/testthat/test-utils-config.R |only tests/testthat/test-utils-get_hub.R | 19 ++++ tests/testthat/test-utils-round-config.R | 80 ++++++++++++++++++ tests/testthat/test-utils-round_ids.R | 61 ++++++++++++++ 50 files changed, 514 insertions(+), 134 deletions(-)
Title: Heteroscedasticity Diagnostics for Linear Models
Description: Provides a unified set of heteroscedasticity diagnostics for
linear-model workflows. It implements classical auxiliary-regression
tests, including those of White (1980) <doi:10.2307/1912934>, Breusch
and Pagan (1979) <doi:10.2307/1911963>, Koenker (1981)
<doi:10.1016/0304-4076(81)90062-2>, Goldfeld and Quandt (1965)
<doi:10.1080/01621459.1965.10480811> and Harvey (1976)
<doi:10.2307/1913974>; the score test of Cook and Weisberg (1983)
<doi:10.1093/biomet/70.1.1>; the ARCH test of Engle (1982)
<doi:10.2307/1912773>; and group-wise tests of equal variance, including
those of Bartlett (1937) <doi:10.1098/rspa.1937.0109>, Brown and Forsythe
(1974) <doi:10.1080/01621459.1974.10482955> and Hartley (1950)
<doi:10.2307/2332383>. Resampling and scalable variants, simulation
utilities, diagnostic visualisation and remediation helpers share a
consistent interface designed for reproducible statistical workflows and
integration with common [...truncated...]
Author: Diogo Ribeiro [aut, cre]
Maintainer: Diogo Ribeiro <dfr@esmad.ipp.pt>
Diff between heteroTests versions 0.11.2 dated 2026-09-26 and 0.16.0 dated 2026-10-29
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heteroTests-0.16.0/heteroTests/R/effect_sizes.R | 16 heteroTests-0.16.0/heteroTests/R/error_handling.R | 74 heteroTests-0.16.0/heteroTests/R/fitWLS.R | 810 + heteroTests-0.16.0/heteroTests/R/ggplot_extensions.R | 171 heteroTests-0.16.0/heteroTests/R/intelligent_recommendations.R | 123 heteroTests-0.16.0/heteroTests/R/interface.R |only heteroTests-0.16.0/heteroTests/R/messages.R | 36 heteroTests-0.16.0/heteroTests/R/model_context.R |only heteroTests-0.16.0/heteroTests/R/modern_diagnostics.R | 380 heteroTests-0.16.0/heteroTests/R/parallel_streams.R |only heteroTests-0.16.0/heteroTests/R/performArchLMTest.R | 32 heteroTests-0.16.0/heteroTests/R/performBPRandomEffectsTest.R | 64 heteroTests-0.16.0/heteroTests/R/performBPTest.R | 222 heteroTests-0.16.0/heteroTests/R/performBartlettTest.R | 108 heteroTests-0.16.0/heteroTests/R/performBoxMTest.R | 325 heteroTests-0.16.0/heteroTests/R/performBrownForsytheTest.R | 110 heteroTests-0.16.0/heteroTests/R/performCookWeisbergTest.R | 59 heteroTests-0.16.0/heteroTests/R/performDavidianCarrollTest.R | 30 heteroTests-0.16.0/heteroTests/R/performFlignerKilleenTest.R | 390 heteroTests-0.16.0/heteroTests/R/performGQTest.R | 166 heteroTests-0.16.0/heteroTests/R/performGlejserTest.R | 217 heteroTests-0.16.0/heteroTests/R/performHarrisonMcCabeTest.R |only heteroTests-0.16.0/heteroTests/R/performHartleyFmaxTest.R | 67 heteroTests-0.16.0/heteroTests/R/performHarveyTest.R | 60 heteroTests-0.16.0/heteroTests/R/performKoenkerTest.R | 198 heteroTests-0.16.0/heteroTests/R/performLeveneTest.R | 111 heteroTests-0.16.0/heteroTests/R/performMcLeodLiTest.R | 33 heteroTests-0.16.0/heteroTests/R/performNCVTest.R | 97 heteroTests-0.16.0/heteroTests/R/performOBrienTest.R | 100 heteroTests-0.16.0/heteroTests/R/performParkTest.R | 70 heteroTests-0.16.0/heteroTests/R/performPesaranTest.R | 262 heteroTests-0.16.0/heteroTests/R/performRESETTest.R | 75 heteroTests-0.16.0/heteroTests/R/performScatterDiagnostic.R | 44 heteroTests-0.16.0/heteroTests/R/performSpearmanTest.R | 29 heteroTests-0.16.0/heteroTests/R/performSpreadLevelTest.R | 19 heteroTests-0.16.0/heteroTests/R/performVarianceFormTest.R |only heteroTests-0.16.0/heteroTests/R/performWhiteTest.R | 706 + heteroTests-0.16.0/heteroTests/R/performance.R | 601 + heteroTests-0.16.0/heteroTests/R/plotDiagnostics.R | 133 heteroTests-0.16.0/heteroTests/R/quantile_regression_joint.R | 138 heteroTests-0.16.0/heteroTests/R/remediation.R | 10 heteroTests-0.16.0/heteroTests/R/reporting.R | 6 heteroTests-0.16.0/heteroTests/R/robust_implementations.R | 244 heteroTests-0.16.0/heteroTests/R/runDiagnostics.R | 39 heteroTests-0.16.0/heteroTests/R/runHeteroTests.R | 281 heteroTests-0.16.0/heteroTests/R/runPanelTests.R | 18 heteroTests-0.16.0/heteroTests/R/runTimeSeriesTests.R | 2 heteroTests-0.16.0/heteroTests/R/simulation_framework.R | 51 heteroTests-0.16.0/heteroTests/R/suite_summary.R |only heteroTests-0.16.0/heteroTests/R/test_factory.R | 109 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heteroTests-0.16.0/heteroTests/tests/testthat/test-integration.R | 5 heteroTests-0.16.0/heteroTests/tests/testthat/test-intelligent-recommendations.R | 95 heteroTests-0.16.0/heteroTests/tests/testthat/test-invalid-inputs.R | 2 heteroTests-0.16.0/heteroTests/tests/testthat/test-koenker-studentized.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-memory-usage.R | 2 heteroTests-0.16.0/heteroTests/tests/testthat/test-model-context.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-model-data-convention.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-model-eligibility.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-network-handling.R | 2 heteroTests-0.16.0/heteroTests/tests/testthat/test-otherTests.R | 2 heteroTests-0.16.0/heteroTests/tests/testthat/test-panel-reference.R | 70 heteroTests-0.16.0/heteroTests/tests/testthat/test-parallel-reproducibility.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-pass-a-reference.R | 148 heteroTests-0.16.0/heteroTests/tests/testthat/test-pass-b-reference.R | 17 heteroTests-0.16.0/heteroTests/tests/testthat/test-pass-c-reference.R | 11 heteroTests-0.16.0/heteroTests/tests/testthat/test-perform-error-handling.R | 4 heteroTests-0.16.0/heteroTests/tests/testthat/test-performRemainingTests.R | 4 heteroTests-0.16.0/heteroTests/tests/testthat/test-performWhiteTest.R | 636 + heteroTests-0.16.0/heteroTests/tests/testthat/test-plots.R | 10 heteroTests-0.16.0/heteroTests/tests/testthat/test-plotting.R | 21 heteroTests-0.16.0/heteroTests/tests/testthat/test-public-api.R | 235 heteroTests-0.16.0/heteroTests/tests/testthat/test-quantile-joint-reference.R | 43 heteroTests-0.16.0/heteroTests/tests/testthat/test-r-prefixed-and-test.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-reference-comparisons.R | 110 heteroTests-0.16.0/heteroTests/tests/testthat/test-reference-index.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-registry-systems.R | 73 heteroTests-0.16.0/heteroTests/tests/testthat/test-remediation.R | 23 heteroTests-0.16.0/heteroTests/tests/testthat/test-resampling-refits.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-return-contract.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-robust-methods.R | 124 heteroTests-0.16.0/heteroTests/tests/testthat/test-runHeteroTests.R | 50 heteroTests-0.16.0/heteroTests/tests/testthat/test-s3-classes.R | 61 heteroTests-0.16.0/heteroTests/tests/testthat/test-simulation-names.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-simulation_framework.R | 10 heteroTests-0.16.0/heteroTests/tests/testthat/test-statistical-accuracy.R | 2 heteroTests-0.16.0/heteroTests/tests/testthat/test-statistical_properties.R | 2 heteroTests-0.16.0/heteroTests/tests/testthat/test-streaming.R | 153 heteroTests-0.16.0/heteroTests/tests/testthat/test-suite-summary.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-survey-designs.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-szroeter-registry.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-utils.R | 8 heteroTests-0.16.0/heteroTests/tests/testthat/test-validation.R | 49 heteroTests-0.16.0/heteroTests/tests/testthat/test-variance-form.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-weighted-fits.R |only heteroTests-0.16.0/heteroTests/tests/testthat/test-weighted-resampling.R |only heteroTests-0.16.0/heteroTests/vignettes/comprehensive_guide.Rmd | 2 heteroTests-0.16.0/heteroTests/vignettes/performance_comparison_guide.Rmd | 2 heteroTests-0.16.0/heteroTests/vignettes/real_world_case_studies.Rmd | 13 heteroTests-0.16.0/heteroTests/vignettes/statistical_theory_and_implementation.Rmd | 31 heteroTests-0.16.0/heteroTests/vignettes/troubleshooting.Rmd | 6 heteroTests-0.16.0/heteroTests/vignettes/tutorial.Rmd | 30 heteroTests-0.16.0/heteroTests/vignettes/using_heteroTests.Rmd | 10 313 files changed, 21216 insertions(+), 6940 deletions(-)
Title: Read and Write Frictionless Data Packages
Description: Read and write Frictionless Data Packages. A 'Data Package'
(<https://datapackage.org/>) is a simple container format and standard to
describe and package a collection of (tabular) data. It is typically used to
publish FAIR (<https://www.gofair.foundation/fair-principles>) and open
datasets.
Author: Peter Desmet [aut, cre] ),
Damiano Oldoni [aut] ),
Pieter Huybrechts [aut] ),
Sanne Govaert [aut] ),
Kyle Husmann [ctb] ,
Research Institute for Nature and Forest [cph] ,
Research Foundation - Flanders [fnd] ,
NLnet foundation [fnd] ,
Beatriz Milz [ [...truncated...]
Maintainer: Peter Desmet <peter.desmet@inbo.be>
Diff between frictionless versions 1.3.0 dated 2026-07-31 and 2.0.1 dated 2026-10-29
frictionless-1.3.0/frictionless/tests/testthat/data/mark_decimal.csv |only frictionless-1.3.0/frictionless/tests/testthat/data/mark_decimal_group.csv |only frictionless-1.3.0/frictionless/tests/testthat/data/mark_default.csv |only frictionless-2.0.1/frictionless/DESCRIPTION | 21 frictionless-2.0.1/frictionless/MD5 | 180 +-- frictionless-2.0.1/frictionless/NAMESPACE | 2 frictionless-2.0.1/frictionless/NEWS.md | 37 frictionless-2.0.1/frictionless/R/add_properties.R |only frictionless-2.0.1/frictionless/R/add_resource.R | 70 - frictionless-2.0.1/frictionless/R/check_path.R | 18 frictionless-2.0.1/frictionless/R/check_schema.R | 6 frictionless-2.0.1/frictionless/R/col_types.R | 3 frictionless-2.0.1/frictionless/R/collectors.R | 4 frictionless-2.0.1/frictionless/R/create_package.R | 9 frictionless-2.0.1/frictionless/R/create_schema.R | 5 frictionless-2.0.1/frictionless/R/deprecated.R | 4 frictionless-2.0.1/frictionless/R/example_package.R | 20 frictionless-2.0.1/frictionless/R/locale.R | 21 frictionless-2.0.1/frictionless/R/read_from_path.R | 13 frictionless-2.0.1/frictionless/R/read_package.R | 12 frictionless-2.0.1/frictionless/R/read_resource.R | 2 frictionless-2.0.1/frictionless/R/resource.R | 2 frictionless-2.0.1/frictionless/R/schema.R | 11 frictionless-2.0.1/frictionless/R/upgrade_descriptor.R |only frictionless-2.0.1/frictionless/R/upgrade_package.R |only frictionless-2.0.1/frictionless/R/upgrade_resource.R |only frictionless-2.0.1/frictionless/R/upgrade_schema.R |only frictionless-2.0.1/frictionless/R/utils.R | 46 frictionless-2.0.1/frictionless/R/version.R | 49 frictionless-2.0.1/frictionless/R/write_package.R | 4 frictionless-2.0.1/frictionless/README.md | 14 frictionless-2.0.1/frictionless/inst/doc/data-package.R | 22 frictionless-2.0.1/frictionless/inst/doc/data-package.Rmd | 77 - frictionless-2.0.1/frictionless/inst/doc/data-package.html | 167 +-- frictionless-2.0.1/frictionless/inst/doc/data-resource.R | 46 frictionless-2.0.1/frictionless/inst/doc/data-resource.Rmd | 113 +- frictionless-2.0.1/frictionless/inst/doc/data-resource.html | 504 +++++---- frictionless-2.0.1/frictionless/inst/doc/frictionless.Rmd | 95 + frictionless-2.0.1/frictionless/inst/doc/frictionless.html | 258 ++-- frictionless-2.0.1/frictionless/inst/doc/table-dialect.R | 4 frictionless-2.0.1/frictionless/inst/doc/table-dialect.Rmd | 72 - frictionless-2.0.1/frictionless/inst/doc/table-dialect.html | 137 +- frictionless-2.0.1/frictionless/inst/doc/table-schema.R | 7 frictionless-2.0.1/frictionless/inst/doc/table-schema.Rmd | 127 +- frictionless-2.0.1/frictionless/inst/doc/table-schema.html | 431 +++++--- frictionless-2.0.1/frictionless/inst/extdata/v2/datapackage.json | 21 frictionless-2.0.1/frictionless/man/add_properties.Rd |only frictionless-2.0.1/frictionless/man/add_resource.Rd | 15 frictionless-2.0.1/frictionless/man/create_schema.Rd | 2 frictionless-2.0.1/frictionless/man/example_package.Rd | 15 frictionless-2.0.1/frictionless/man/frictionless-package.Rd | 3 frictionless-2.0.1/frictionless/man/read_package.Rd | 2 frictionless-2.0.1/frictionless/man/read_resource.Rd | 2 frictionless-2.0.1/frictionless/man/remove_resource.Rd | 1 frictionless-2.0.1/frictionless/man/schema.Rd | 2 frictionless-2.0.1/frictionless/man/upgrade_package.Rd |only frictionless-2.0.1/frictionless/man/version.Rd | 42 frictionless-2.0.1/frictionless/man/write_package.Rd | 4 frictionless-2.0.1/frictionless/tests/testthat/data/deployments_schema.json | 20 frictionless-2.0.1/frictionless/tests/testthat/data/deployments_schema.yaml | 59 - frictionless-2.0.1/frictionless/tests/testthat/data/deployments_schema_v1.json |only frictionless-2.0.1/frictionless/tests/testthat/data/mark.json | 87 + frictionless-2.0.1/frictionless/tests/testthat/data/mark_int_group.csv |only frictionless-2.0.1/frictionless/tests/testthat/data/mark_int_group_invalid.csv |only frictionless-2.0.1/frictionless/tests/testthat/data/mark_int_group_num_decimal.csv |only frictionless-2.0.1/frictionless/tests/testthat/data/mark_num_decimal.csv |only frictionless-2.0.1/frictionless/tests/testthat/data/mark_num_decimal_group.csv |only frictionless-2.0.1/frictionless/tests/testthat/data/mark_num_default.csv |only frictionless-2.0.1/frictionless/tests/testthat/data/schema_custom.json | 1 frictionless-2.0.1/frictionless/tests/testthat/data/type_datetime.csv | 4 frictionless-2.0.1/frictionless/tests/testthat/data/type_other.csv | 4 frictionless-2.0.1/frictionless/tests/testthat/data/types.json | 46 frictionless-2.0.1/frictionless/tests/testthat/data/valid_minimal.yml | 6 frictionless-2.0.1/frictionless/tests/testthat/test-add_properties.R |only frictionless-2.0.1/frictionless/tests/testthat/test-add_resource.R | 155 +- frictionless-2.0.1/frictionless/tests/testthat/test-check_data.R | 2 frictionless-2.0.1/frictionless/tests/testthat/test-check_package.R | 34 frictionless-2.0.1/frictionless/tests/testthat/test-check_path.R | 23 frictionless-2.0.1/frictionless/tests/testthat/test-check_schema.R | 48 frictionless-2.0.1/frictionless/tests/testthat/test-create_package.R | 46 frictionless-2.0.1/frictionless/tests/testthat/test-create_schema.R | 7 frictionless-2.0.1/frictionless/tests/testthat/test-deprecated.R | 2 frictionless-2.0.1/frictionless/tests/testthat/test-example_package.R | 14 frictionless-2.0.1/frictionless/tests/testthat/test-print.datapackage.R | 18 frictionless-2.0.1/frictionless/tests/testthat/test-read_package.R | 45 frictionless-2.0.1/frictionless/tests/testthat/test-read_resource.R | 517 +++++----- frictionless-2.0.1/frictionless/tests/testthat/test-remove_resource.R | 15 frictionless-2.0.1/frictionless/tests/testthat/test-resource.R | 33 frictionless-2.0.1/frictionless/tests/testthat/test-resource_names.R | 10 frictionless-2.0.1/frictionless/tests/testthat/test-upgrade_descriptor.R |only frictionless-2.0.1/frictionless/tests/testthat/test-upgrade_package.R |only frictionless-2.0.1/frictionless/tests/testthat/test-upgrade_resource.R |only frictionless-2.0.1/frictionless/tests/testthat/test-upgrade_schema.R |only frictionless-2.0.1/frictionless/tests/testthat/test-utils.R | 42 frictionless-2.0.1/frictionless/tests/testthat/test-version.R | 188 +++ frictionless-2.0.1/frictionless/tests/testthat/test-write_package.R | 198 ++- frictionless-2.0.1/frictionless/vignettes/data-package.Rmd | 77 - frictionless-2.0.1/frictionless/vignettes/data-resource.Rmd | 113 +- frictionless-2.0.1/frictionless/vignettes/frictionless.Rmd | 95 + frictionless-2.0.1/frictionless/vignettes/frictionless.Rmd.orig | 34 frictionless-2.0.1/frictionless/vignettes/table-dialect.Rmd | 72 - frictionless-2.0.1/frictionless/vignettes/table-schema.Rmd | 127 +- 102 files changed, 3008 insertions(+), 1856 deletions(-)
Title: Kernel Ridge Regression using 'RcppArmadillo'
Description: Provides core computational operations in C++ via 'RcppArmadillo', enabling faster performance than pure R, improved numerical stability, and parallel execution with OpenMP where available. On systems without OpenMP support, the package automatically falls back to single-threaded execution with no user configuration required. For efficient model selection, it integrates with 'CVST' to provide sequential-testing cross-validation and additionally supports restricted maximum likelihood (REML) for continuous optimization of the regularization parameter. The package offers a unified interface for exact kernel ridge regression and three scalable approximations—Nyström, Pivoted Cholesky, and Random Fourier Features—allowing analyses with substantially larger sample sizes than are feasible with exact KRR. It also integrates with the 'tidymodels' ecosystem via the 'parsnip' model specification 'krr_reg', and the S3 method tunable.krr_reg(). To understand the theoretical background, one can refe [...truncated...]
Author: Gyeongmin Kim [aut] ,
Seyoung Lee [aut] ,
Miyoung Jang [aut] ,
Kwan-Young Bak [aut, cre, cph]
Maintainer: Kwan-Young Bak <kybak@sungshin.ac.kr>
Diff between FastKRR versions 0.2.1 dated 2026-07-21 and 0.2.2 dated 2026-10-29
DESCRIPTION | 10 +- MD5 | 54 ++++++++-------- R/CVST_linkfunction.R | 107 +++++++++++++++++++++++++++----- R/RcppExports.R | 10 +- R/approx_kernel.R | 13 ++- R/error.R | 59 +++++++++++++---- R/link2tidymodels.R | 6 - R/make_kernel.R | 10 +- R/param.R | 2 R/print.R | 2 R/rff_random.R | 2 README.md | 6 - man/approx_kernel.Rd | 11 +-- man/error.krr.Rd | 20 ++++- man/fastkrr.Rd | 42 +++++++++--- man/fastkrr_fit_wrapper.Rd | 2 man/krr_reg.Rd | 4 - man/make_kernel.Rd | 10 +- man/param.krr.Rd | 2 man/predict.krr.Rd | 4 + man/print.approx_kernel.Rd | 2 src/Makevars | 2 src/Makevars.win | 2 src/kernel.cpp | 4 - src/nystorm.cpp | 4 - src/rff.cpp | 4 - tests/testthat/test-CVST_linkfunction.R | 82 ++++++++++++++++++++++++ tests/testthat/test-error.R | 34 ++++++++++ 28 files changed, 385 insertions(+), 125 deletions(-)
Title: Calculate and Visualize Degree-Days for Pest Monitoring
Description: Combines pest trap observations with daily temperatures to
calculate and visualize cumulative degree-days. Temperature inputs
include 'Daymet' <https://daymet.ornl.gov>,
'Open-Meteo' <https://open-meteo.com/>, reports from the California
Irrigation Management Information System ('CIMIS')
<https://cimis.water.ca.gov>, and user-supplied daily weather data.
Degree-days are calculated using the simple-average method with
either an upper threshold applied to the daily mean or an explicitly
selected calculation without an upper cutoff. The first positive
trap count defines the biofix for every pest, with accumulation
beginning on the following day. Negative daily degree-day values
are set to zero. Users can provide temperature thresholds and
optional thermal reference values. Thermal reference
markers and their multiples do not independently establish flight
or generation identities. Complete daily calculations and weather
provenance are retained with the output to support [...truncated...]
Author: Santosh Bhandari [aut, cre],
Lalit Kharel [aut],
Mahesh Ghimire [aut]
Maintainer: Santosh Bhandari <santoshbhandari4556@gmail.com>
Diff between TrackTrap versions 1.0.1 dated 2026-08-20 and 1.1.0 dated 2026-10-29
DESCRIPTION | 44 +- MD5 | 39 + NAMESPACE | 1 NEWS.md | 136 ++++++ R/TrackTrap-package.R | 1 R/data.R | 32 + R/phenology.R | 592 ++++++++++++++++-------------- data/pest_thresholds.rda |binary inst/doc/cimis-manual-workflow.R | 90 +++- inst/doc/cimis-manual-workflow.html | 265 +++++++++++-- inst/doc/cimis-manual-workflow.rmd | 192 ++++++++- inst/extdata |only man/TrackTrap-package.Rd | 4 man/calc_pest_phenology.Rd | 112 +++-- man/fetch_open_meteo.Rd | 50 +- man/pest_thresholds.Rd | 33 + man/plot_trap_phenology.Rd | 80 ++-- tests/testthat/helper-cimis.R |only tests/testthat/test-calc_pest_phenology.R | 162 ++++++-- tests/testthat/test-pest_thresholds.R | 56 ++ tests/testthat/test-phenology.R |only vignettes/cimis-manual-workflow.rmd | 192 ++++++++- 22 files changed, 1488 insertions(+), 593 deletions(-)
Title: Access the 'Open Data API' of Pernambuco Court of Accounts
Description: An R interface to the 'Open Data API' of the Tribunal de Contas do
Estado de Pernambuco (TCE-PE), the Court of Accounts of the State of
Pernambuco, Brazil. Provides tidy, ready-to-use functions to query public
data on revenues, expenditures, commitments, procurement, contracts,
agreements, public works, legal processes, personnel and reference tables
for all state and municipal government entities in Pernambuco. All results
are returned as tibbles with column names converted to 'snake_case' by
default. Uses 'httr2' for HTTP requests and 'cli' for user-friendly
messages. See <https://sistemas.tcepe.tc.br/DadosAbertos/> for the API
documentation.
Author: Andre Leite [aut, cre] ,
Marcos Wasiliew [aut] ,
Hugo Vasconcelos [aut] ,
Carlos Amorim [aut] ,
Diogo Bezerra [aut] ,
Julia Nascimento Barreto [aut]
Maintainer: Andre Leite <leite@castlab.org>
Diff between tceper versions 0.1.4 dated 2026-06-01 and 0.1.5 dated 2026-10-29
DESCRIPTION | 37 - MD5 | 57 +- NAMESPACE | 1 NEWS.md | 31 + R/introspection.R | 11 R/remessa.R | 14 README.md | 6 inst/doc/endpoints-reference.html | 4 inst/extdata/tcepe_dados_abertos_catalogo.json | 595 ++++++++++++++++--------- man/figures/logo.svg | 4 man/tce_benefit_types.Rd | 1 man/tce_budget_statuses.Rd | 1 man/tce_catalog.Rd | 2 man/tce_legal_instrument_documents.Rd | 1 man/tce_legal_instrument_items.Rd | 1 man/tce_legal_instrument_participants.Rd | 1 man/tce_legal_instrument_terms.Rd |only man/tce_legal_instruments.Rd | 1 man/tce_procurement_process_budget.Rd | 1 man/tce_procurement_process_documents.Rd | 1 man/tce_procurement_process_participants.Rd | 1 man/tce_procurement_processes.Rd | 1 man/tce_reference_codes.Rd | 1 man/tce_reference_dates.Rd | 1 man/tce_reference_sources.Rd | 1 man/tce_remessa_works.Rd | 1 man/tce_remessa_works_execution.Rd | 1 man/tce_remessa_works_geometry.Rd | 1 man/tce_update_indices.Rd | 1 man/tceper-package.Rd | 13 30 files changed, 529 insertions(+), 263 deletions(-)
Title: Connecting Stream Mining Components Using Sockets and Web
Services
Description: Adds functionality to connect stream mining components from the stream package using sockets and Web services. The package can be used to create distributed workflows and plumber-based Web services that can be deployed on most common cloud services.
Author: Michael Hahsler [aut, cre, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
This is a re-admission after prior archival of version 0.1.0 dated 2026-10-23
Diff between streamConnect versions 0.1.0 dated 2026-10-23 and 0.1.1 dated 2026-10-29
DESCRIPTION | 8 +- MD5 | 44 +++++++-------- NAMESPACE | 1 NEWS.md | 4 + R/DSC_WebService.R | 44 ++++++++------- R/DSD_ReadSocket.R | 50 +++++++++-------- R/DSD_ReadWebService.R | 52 +++++++++-------- R/has_localhost_server.R |only R/publish_DSC_via_WebService.R | 90 ++++++++++++++++--------------- R/publish_DSD_via_Socket.R | 50 +++++++++-------- R/publish_DSD_via_WebService.R | 110 +++++++++++++++++++------------------- README.md | 11 ++- inst/doc/streamConnect.R | 23 +++++-- inst/doc/streamConnect.Rmd | 24 +++++--- inst/doc/streamConnect.html | 76 +++++++++++++------------- man/DSC_WebService.Rd | 42 +++++++------- man/DSD_ReadSocket.Rd | 50 +++++++++-------- man/DSD_ReadWebService.Rd | 52 +++++++++-------- man/has_localhost_server.Rd |only man/publish_DSC_via_WebService.Rd | 90 ++++++++++++++++--------------- man/publish_DSD_via_Socket.Rd | 50 +++++++++-------- man/publish_DSD_via_WebService.Rd | 110 +++++++++++++++++++------------------- man/streamConnect-package.Rd | 4 - vignettes/streamConnect.Rmd | 24 +++++--- 24 files changed, 544 insertions(+), 465 deletions(-)
Title: Robust Test Statistics for Structural Equation Models
Description: Computes robust p-values for overall fit and nested comparisons of
structural equation models fitted with 'lavaan'. Implements penalized
eigenvalue block averaging and penalized regression (Foldnes, Moss,
Grønneberg, 2025) <doi:10.1080/10705511.2024.2372028>, including their
extension to nested models (Foldnes, Grønneberg, Moss, 2026)
<doi:10.3758/s13428-026-02968-4>, alongside familiar corrections such as
Satorra-Bentler. Supported settings include complete-data ML, GLS, and ULS,
categorical DWLS and ULS, and full-information maximum likelihood with one
or several groups. Score and criterion-difference tests of parameter
restrictions are also available, including restrictions in misspecified
models.
Author: Jonas Moss [aut, cre] ,
Njal Foldnes [ctb] ,
Steffen Groenneberg [ctb]
Maintainer: Jonas Moss <jonas.moss.statistics@gmail.com>
Diff between semTests versions 1.0.0 dated 2026-07-19 and 2.0.0 dated 2026-10-29
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Title: Analyse Citation Data from Google Scholar
Description: Provides tools to retrieve, analyse, and format publication and
citation data from Google Scholar profiles. It supports profile lookup,
publication records, citation histories, scholar comparison, coauthor
networks, journal ranking queries, CV-ready publication lists, and citation
metric summaries.
Author: Guangchuang Yu [aut, cre] ,
James Keirstead [aut],
Gregory Jefferis [aut] ,
Gordon Getzinger [ctb],
Jorge Cimentada [ctb],
Max Czapanskiy [ctb],
Dominique Makowski [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between scholar versions 1.0.0 dated 2026-07-07 and 1.0.1 dated 2026-10-29
DESCRIPTION | 14 LICENSE | 4 MD5 | 132 ++- NAMESPACE | 126 ++- NEWS | 152 ++-- NEWS.md | 125 +-- R/citing.R |only R/coauthors.R | 187 ++--- R/compare.r | 234 +++--- R/data.R | 90 +- R/format_publications.R | 94 +- R/getCompleteAuthors.R | 158 ++-- R/h_index_history.R |only R/openalex.R |only R/predict.r | 134 +-- R/publications.r | 1111 ++++++++++++++------------------ R/scholar-package.r | 159 +++- R/scholar.r | 751 +++++++++++---------- R/utils.R | 778 +++++++++++++++++++--- R/zzz.r | 8 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 30 inst/WORDLIST | 14 inst/doc/scholar.R | 261 ++++--- inst/doc/scholar.html | 949 ++++++++++++++------------- inst/doc/scholar.qmd | 114 +++ man/author_position.Rd | 70 +- man/compare_scholar_careers.Rd | 62 - man/compare_scholars.Rd | 62 - man/format_authors.Rd | 28 man/format_publications.Rd | 56 - man/get_article_cite_history.Rd | 40 - man/get_article_scholar_url.Rd | 38 - man/get_citation_history.Rd | 52 - man/get_citing_articles.Rd |only man/get_coauthors.Rd | 92 +- man/get_complete_authors.Rd | 60 - man/get_h_index_history.Rd |only man/get_journalrank.Rd | 35 - man/get_num_articles.Rd | 34 man/get_num_distinct_journals.Rd | 46 - man/get_num_top_journals.Rd | 54 - man/get_oldest_article.Rd | 34 man/get_profile.Rd | 86 +- man/get_publication_data_extended.Rd | 42 - man/get_publication_date.Rd | 42 - man/get_publication_url.Rd | 42 - man/get_publications.Rd | 114 +-- man/get_scholar_id.Rd | 66 + man/get_scholar_resp.Rd | 46 - man/plot_coauthors.Rd | 58 - man/predict_h_index.Rd | 106 +-- man/scholar-package.Rd | 219 ++++-- man/search_openalex_authors.Rd |only man/search_scholar_ids.Rd | 5 man/set_scholar_cookie.Rd |only man/set_scholar_mirror.Rd | 40 - man/tidy_id.Rd | 34 tests/spelling.R | 6 tests/testthat.R | 8 tests/testthat/_problems |only tests/testthat/fixtures |only tests/testthat/test-citing-articles.R |only tests/testthat/test-coauthors.R | 88 ++ tests/testthat/test-h-index-history.R |only tests/testthat/test-openalex.R |only tests/testthat/test-scholar-id-search.R | 42 + tests/testthat/test-scholar-response.R | 400 +++++++++++ tests/testthat/test-scholar-session.R |only tests/testthat/test-scholar.R | 89 +- tests/testthat/testthat-problems.rds |only vignettes/scholar.qmd | 114 +++ 73 files changed, 4838 insertions(+), 3197 deletions(-)
Title: Get the Category of Content Hosted by a Domain
Description: Fetch website content and classify it through the Python 'piedomains'
text model. Look up domains in 'UT-Capitole', Steven Black, university, archived
'Shallalist' and 'DMOZ' lists, or use 'VirusTotal' <https://www.virustotal.com/>,
'OpenAI' and 'Anthropic' APIs. Report collection outcomes and source provenance.
Includes a historical domain-name classifier trained on 'Shallalist' data.
Author: Gaurav Sood [aut, cre]
Maintainer: Gaurav Sood <gsood07@gmail.com>
Diff between rdomains versions 0.6.0 dated 2026-10-27 and 0.6.1 dated 2026-10-29
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 7 +++++++ tests/testthat/test-audit-http.R | 4 ++++ tests/testthat/test-e2e-fetch.R | 5 ++++- 5 files changed, 23 insertions(+), 9 deletions(-)
Title: Aggregate and Disaggregate Continuous Parameters for
Compartmental Models
Description: A convenient framework for aggregating and disaggregating continuously
varying parameters (for example, case fatality ratio, with age) for proper
parametrization of lower-resolution compartmental models (for example, with
broad age categories) and subsequent upscaling of model outputs to high resolution
(for example, as needed when calculating age-sensitive measures like years-life-lost).
Methods and application to calculating years of life lost are described in
Goodfellow et al. (2025) <doi:10.1371/journal.pcbi.1013420>.
Author: Carl Pearson [aut, cre] ,
Simon Proctor [aut] ,
Lucy Goodfellow [aut]
Maintainer: Carl Pearson <carl.ab.pearson@gmail.com>
Diff between paramix versions 0.0.2 dated 2025-06-10 and 0.0.3 dated 2026-10-29
paramix-0.0.2/paramix/inst/analysis/Rplots.pdf |only paramix-0.0.2/paramix/man/make_partition.Rd |only paramix-0.0.2/paramix/man/make_weight.Rd |only paramix-0.0.2/paramix/man/to_function.Rd |only paramix-0.0.2/paramix/vignettes/intro_cache |only paramix-0.0.2/paramix/vignettes/intro_files |only paramix-0.0.3/paramix/DESCRIPTION | 24 paramix-0.0.3/paramix/LICENSE | 2 paramix-0.0.3/paramix/MD5 | 129 paramix-0.0.3/paramix/NAMESPACE | 34 paramix-0.0.3/paramix/NEWS.md | 31 paramix-0.0.3/paramix/R/aggregate.R | 96 paramix-0.0.3/paramix/R/globals.R |only paramix-0.0.3/paramix/R/helper.R | 51 paramix-0.0.3/paramix/R/internal.R | 234 - paramix-0.0.3/paramix/R/messages.R |only paramix-0.0.3/paramix/R/paramix-package.R | 4 paramix-0.0.3/paramix/R/plotting.R | 101 paramix-0.0.3/paramix/README.md |only paramix-0.0.3/paramix/build/partial.rdb |only paramix-0.0.3/paramix/build/vignette.rds |binary paramix-0.0.3/paramix/inst/CITATION |only paramix-0.0.3/paramix/inst/WORDLIST |only paramix-0.0.3/paramix/inst/analysis/GNUmakefile | 4 paramix-0.0.3/paramix/inst/analysis/README.md |only paramix-0.0.3/paramix/inst/analysis/install.R | 66 paramix-0.0.3/paramix/inst/analysis/renv.lock | 2176 ++++++++-- paramix-0.0.3/paramix/inst/analysis/renv/activate.R | 197 paramix-0.0.3/paramix/inst/analysis/renv/settings.json | 4 paramix-0.0.3/paramix/inst/analysis/scripts/consolidate.R | 13 paramix-0.0.3/paramix/inst/analysis/scripts/disease_pars.R | 24 paramix-0.0.3/paramix/inst/analysis/scripts/distill.R | 40 paramix-0.0.3/paramix/inst/analysis/scripts/fig_averted.R | 213 paramix-0.0.3/paramix/inst/analysis/scripts/fig_fullsummary.R | 174 paramix-0.0.3/paramix/inst/analysis/scripts/fig_incidence.R | 61 paramix-0.0.3/paramix/inst/analysis/scripts/fig_utilities.R | 185 paramix-0.0.3/paramix/inst/analysis/scripts/fig_yll.R | 294 + paramix-0.0.3/paramix/inst/analysis/scripts/incidence.R | 13 paramix-0.0.3/paramix/inst/analysis/scripts/lex.R | 37 paramix-0.0.3/paramix/inst/analysis/scripts/odin.R | 47 paramix-0.0.3/paramix/inst/analysis/scripts/param.R | 77 paramix-0.0.3/paramix/inst/analysis/scripts/population.R | 17 paramix-0.0.3/paramix/inst/analysis/scripts/r0.R | 56 paramix-0.0.3/paramix/inst/analysis/scripts/run_numbers.R | 274 + paramix-0.0.3/paramix/inst/analysis/scripts/simulate.R | 157 paramix-0.0.3/paramix/inst/analysis/scripts/yll.R | 50 paramix-0.0.3/paramix/inst/doc/intro.R | 148 paramix-0.0.3/paramix/inst/doc/intro.Rmd | 152 paramix-0.0.3/paramix/inst/doc/intro.html | 341 + paramix-0.0.3/paramix/inst/doc/reproducing-paper-analysis.R |only paramix-0.0.3/paramix/inst/doc/reproducing-paper-analysis.Rmd |only paramix-0.0.3/paramix/inst/doc/reproducing-paper-analysis.html |only paramix-0.0.3/paramix/man/distill.Rd | 2 paramix-0.0.3/paramix/man/distill_summary.Rd | 2 paramix-0.0.3/paramix/man/figures |only paramix-0.0.3/paramix/man/parameter_summary.Rd | 6 paramix-0.0.3/paramix/man/paramix-package.Rd | 9 paramix-0.0.3/paramix/tests/spelling.R |only paramix-0.0.3/paramix/tests/testthat/test-alembic.R | 170 paramix-0.0.3/paramix/tests/testthat/test-interpolateopts.R | 8 paramix-0.0.3/paramix/tests/testthat/test-messages.R |only paramix-0.0.3/paramix/tests/testthat/test-partitioning.R | 16 paramix-0.0.3/paramix/tests/testthat/test-tofunction.R | 25 paramix-0.0.3/paramix/vignettes/intro.Rmd | 152 paramix-0.0.3/paramix/vignettes/reproducing-paper-analysis.Rmd |only 65 files changed, 4367 insertions(+), 1549 deletions(-)
Title: Panel Sample Selection Models
Description: Fits sample selection models with continuous, binary, and count outcomes in panel and cross-sectional data. Model details are provided in
Bailey and Peng (2025) <doi:10.2139/ssrn.5475626> and Peng and Van den Bulte
(2024) <doi:10.1287/mnsc.2019.01897>.
Author: Jing Peng [aut, cre]
Maintainer: Jing Peng <jing.peng@uconn.edu>
Diff between PanelSelect versions 1.0.1 dated 2026-08-27 and 2.0.0 dated 2026-10-29
PanelSelect-1.0.1/PanelSelect/R/PanelSelect.R |only PanelSelect-1.0.1/PanelSelect/R/imported.R |only PanelSelect-1.0.1/PanelSelect/R/probitRE_linearRE.R |only PanelSelect-1.0.1/PanelSelect/R/probitRE_probitRE.R |only PanelSelect-1.0.1/PanelSelect/R/utilities.R |only PanelSelect-1.0.1/PanelSelect/man/PanelSelect.Rd |only PanelSelect-1.0.1/PanelSelect/man/predict_probitRE_linearRE.Rd |only PanelSelect-1.0.1/PanelSelect/man/predict_probitRE_probitRE.Rd |only PanelSelect-1.0.1/PanelSelect/man/probitRE_PLNRE.Rd |only PanelSelect-1.0.1/PanelSelect/man/probitRE_PoissonRE.Rd |only PanelSelect-1.0.1/PanelSelect/man/probitRE_linearRE.Rd |only PanelSelect-1.0.1/PanelSelect/man/probitRE_probitRE.Rd |only PanelSelect-2.0.0/PanelSelect/DESCRIPTION | 19 PanelSelect-2.0.0/PanelSelect/MD5 | 211 ++ PanelSelect-2.0.0/PanelSelect/NAMESPACE | 95 - PanelSelect-2.0.0/PanelSelect/R/PLNRE.R |only PanelSelect-2.0.0/PanelSelect/R/PanelSelect-package.R |only PanelSelect-2.0.0/PanelSelect/R/PoissonRE.R |only PanelSelect-2.0.0/PanelSelect/R/ProbitRE.R |only PanelSelect-2.0.0/PanelSelect/R/ProbitRE_LinearRE.R |only PanelSelect-2.0.0/PanelSelect/R/ProbitRE_PLNRE.R |only PanelSelect-2.0.0/PanelSelect/R/ProbitRE_PoissonRE.R |only PanelSelect-2.0.0/PanelSelect/R/ProbitRE_ProbitRE.R |only PanelSelect-2.0.0/PanelSelect/R/Probit_Linear.R |only PanelSelect-2.0.0/PanelSelect/R/Probit_PLN.R |only PanelSelect-2.0.0/PanelSelect/R/Probit_Probit.R |only PanelSelect-2.0.0/PanelSelect/R/RcppExports.R | 32 PanelSelect-2.0.0/PanelSelect/R/data_preparation.R |only PanelSelect-2.0.0/PanelSelect/R/diagnostics.R |only PanelSelect-2.0.0/PanelSelect/R/fit_staging.R |only PanelSelect-2.0.0/PanelSelect/R/inference.R |only PanelSelect-2.0.0/PanelSelect/R/initialization_linear.R |only PanelSelect-2.0.0/PanelSelect/R/likelihood.R |only PanelSelect-2.0.0/PanelSelect/R/model_assembly.R |only PanelSelect-2.0.0/PanelSelect/R/model_context.R |only PanelSelect-2.0.0/PanelSelect/R/model_methods.R |only PanelSelect-2.0.0/PanelSelect/R/numerics.R |only PanelSelect-2.0.0/PanelSelect/R/optimizer.R |only PanelSelect-2.0.0/PanelSelect/R/panel_control.R |only PanelSelect-2.0.0/PanelSelect/R/panel_select.R |only PanelSelect-2.0.0/PanelSelect/R/parameters.R |only PanelSelect-2.0.0/PanelSelect/R/predict.R |only PanelSelect-2.0.0/PanelSelect/R/probability.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_inner.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_inner_adaptive.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_split.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_staged.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_staged_inner.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_staged_pln.R |only PanelSelect-2.0.0/PanelSelect/R/quadrature_staged_prepare.R |only PanelSelect-2.0.0/PanelSelect/R/summary.R |only PanelSelect-2.0.0/PanelSelect/build/partial.rdb |only PanelSelect-2.0.0/PanelSelect/build/vignette.rds |binary PanelSelect-2.0.0/PanelSelect/inst/doc/migration.R |only PanelSelect-2.0.0/PanelSelect/inst/doc/migration.Rmd |only PanelSelect-2.0.0/PanelSelect/inst/doc/migration.html |only PanelSelect-2.0.0/PanelSelect/inst/doc/vignette.R | 82 PanelSelect-2.0.0/PanelSelect/inst/doc/vignette.Rmd | 676 ++++--- PanelSelect-2.0.0/PanelSelect/inst/doc/vignette.html | 871 ++++++---- PanelSelect-2.0.0/PanelSelect/man/PanelSelect-package.Rd |only PanelSelect-2.0.0/PanelSelect/man/add_information.Rd |only PanelSelect-2.0.0/PanelSelect/man/check_quadrature.Rd |only PanelSelect-2.0.0/PanelSelect/man/check_stationarity.Rd |only PanelSelect-2.0.0/PanelSelect/man/panel_control.Rd |only PanelSelect-2.0.0/PanelSelect/man/panel_select.Rd |only PanelSelect-2.0.0/PanelSelect/man/panelselect-comparison.Rd |only PanelSelect-2.0.0/PanelSelect/man/panelselect-design.Rd |only PanelSelect-2.0.0/PanelSelect/man/panelselect-inference.Rd |only PanelSelect-2.0.0/PanelSelect/man/panelselect-methods.Rd |only PanelSelect-2.0.0/PanelSelect/man/predict.panelselect.Rd |only PanelSelect-2.0.0/PanelSelect/man/random_effects.Rd |only PanelSelect-2.0.0/PanelSelect/man/residuals.panelselect.Rd |only PanelSelect-2.0.0/PanelSelect/man/summary.panelselect.Rd |only PanelSelect-2.0.0/PanelSelect/man/update.panelselect.Rd |only PanelSelect-2.0.0/PanelSelect/src/Makevars |only PanelSelect-2.0.0/PanelSelect/src/Makevars.win |only PanelSelect-2.0.0/PanelSelect/src/RcppExports.cpp | 142 + PanelSelect-2.0.0/PanelSelect/src/matrix.cpp | 399 +++- PanelSelect-2.0.0/PanelSelect/tests |only PanelSelect-2.0.0/PanelSelect/vignettes/guide.css |only PanelSelect-2.0.0/PanelSelect/vignettes/migration.Rmd |only PanelSelect-2.0.0/PanelSelect/vignettes/vignette.Rmd | 676 ++++--- 83 files changed, 2000 insertions(+), 1203 deletions(-)
Title: More Miscellaneous Steps for the 'recipes' Package
Description: Contains additional miscellaneous steps for the 'recipes' package.
These steps are useful, but doesn't have a good home in other 'recipes'
packages or its extensions.
Author: Emil Hvitfeldt [aut, cre]
Maintainer: Emil Hvitfeldt <emilhhvitfeldt@gmail.com>
This is a re-admission after prior archival of version 0.3.0 dated 2025-09-05
Diff between extrasteps versions 0.3.0 dated 2025-09-05 and 0.3.1 dated 2026-10-29
DESCRIPTION | 6 ++-- MD5 | 46 +++++++++++++++++------------------ NEWS.md | 4 +++ R/date_after.R | 6 +++- R/date_before.R | 6 +++- R/date_nearest.R | 6 +++- R/encoding_binary.R | 2 - R/encoding_frequency.R | 2 - R/time_event.R | 4 ++- README.md | 2 - man/step_date_after.Rd | 12 +++++++-- man/step_date_before.Rd | 12 +++++++-- man/step_date_nearest.Rd | 12 +++++++-- man/step_encoding_binary.Rd | 2 + man/step_encoding_frequency.Rd | 2 + man/step_time_event.Rd | 4 ++- tests/testthat/test-date_after.R | 1 tests/testthat/test-date_before.R | 1 tests/testthat/test-date_nearest.R | 1 tests/testthat/test-maxabs.R | 1 tests/testthat/test-minmax.R | 1 tests/testthat/test-robust.R | 1 tests/testthat/test-time_event.R | 1 tests/testthat/test-unit_normalize.R | 1 24 files changed, 93 insertions(+), 43 deletions(-)
Title: Information-Theoretic Measurement Mapping and Rank Estimation
Description: Maps relationships among measurements using a double-centered,
joint-entropy-normalized mutual information matrix. Provides informational-axis
loadings, primary and extended spectral-boundary diagnostics, and spectral-volume
and informational-gravity summaries for discrete and discretized tabular data.
The selected Primary Informational Rank is a candidate information-spectrum
boundary, not an identified generating dimension. Optional, explicitly
recorded missing-data preparation supports categorical missing states and
numeric median fills with protected missingness indicators.
For methodological details, see Lee-St. John (2026)
<doi:10.5281/zenodo.22028086>.
Author: Terrence J. Lee-St. John [aut, cre]
Maintainer: Terrence J. Lee-St. John <terry@enli.com.au>
Diff between Entropic.Scree versions 1.0.1 dated 2026-09-15 and 1.0.2 dated 2026-10-29
DESCRIPTION | 25 - MD5 | 16 NEWS |only R/Diagnostics.R |only R/EntropicScree.R | 742 +++++++++++++++++++++++++------------------ R/Preparation.R |only build |only man/Entropic.Scree.Rd | 253 +++++++++++--- man/Update.Entropic.Scree.Rd | 54 ++- src/entropic_mi.cpp | 10 tests |only 11 files changed, 728 insertions(+), 372 deletions(-)
More information about Entropic.Scree at CRAN
Permanent link
Title: Multilevel Modeling of Dendroclimatical Fluctuations
Description: Processes multilevel ecological data series (MEDS)
arranged in temporal or spatial hierarchies defined by sampling
designs. The package recursively applies one-level stage functions to
long-format tree-ring and climate data, then optionally fits a
terminal model to the processed series. Terminal fits currently
include mixed-effects detrending through 'nlme' and Friedman
supersmoother detrending through supsmu() of 'stats'. The package also
supports post-detrending comparison and inference tools for
multilevel dendroclimatic analyses. The method is described in
Lara et al. (2018) <doi:10.1371/journal.pone.0196923>.
Author: Wilson Lara-Henao [aut, cre] ,
Felipe Bravo [aut]
Maintainer: Wilson Lara-Henao <wilarhen@gmail.com>
Diff between BIOdry versions 0.9.1 dated 2025-04-03 and 0.9.5 dated 2026-10-29
BIOdry-0.9.1/BIOdry/NEWS |only BIOdry-0.9.1/BIOdry/R/anova.modelFrame.R |only BIOdry-0.9.1/BIOdry/R/frametoLme.R |only BIOdry-0.9.1/BIOdry/R/lmeForm.R |only BIOdry-0.9.1/BIOdry/R/modelFrame.R |only BIOdry-0.9.1/BIOdry/R/plot.modelFrame.R |only BIOdry-0.9.1/BIOdry/R/ringApply.R |only BIOdry-0.9.1/BIOdry/R/summary.modelFrame.R |only BIOdry-0.9.1/BIOdry/R/tdForm.R |only BIOdry-0.9.5/BIOdry/DESCRIPTION | 33 BIOdry-0.9.5/BIOdry/MD5 | 157 +- BIOdry-0.9.5/BIOdry/NAMESPACE | 16 BIOdry-0.9.5/BIOdry/NEWS.md |only BIOdry-0.9.5/BIOdry/R/FriedmanForm_patched_inlinedocs_v3.R |only BIOdry-0.9.5/BIOdry/R/amod.R | 347 ++++- BIOdry-0.9.5/BIOdry/R/anova.frametoLme_patched_inlinedocs.R |only BIOdry-0.9.5/BIOdry/R/arguSelect.R | 101 + BIOdry-0.9.5/BIOdry/R/cClass.R | 75 - BIOdry-0.9.5/BIOdry/R/defineDataRoles_patched_inlinedocs_v2.R |only BIOdry-0.9.5/BIOdry/R/frametoFriedman_patched_inlinedocs_v4.R |only BIOdry-0.9.5/BIOdry/R/frametoLme_patched_inlinedocs_v3.R |only BIOdry-0.9.5/BIOdry/R/levexp.R | 192 ++- BIOdry-0.9.5/BIOdry/R/lmeForm_patched_inlinedocs_v2.R |only BIOdry-0.9.5/BIOdry/R/mUnits.R | 4 BIOdry-0.9.5/BIOdry/R/modelFrame_formNULL_trellis_inlinedocs.R |only BIOdry-0.9.5/BIOdry/R/modelFrame_methods_trellis_inlinedocs.R |only BIOdry-0.9.5/BIOdry/R/moveYr.R | 311 +++-- BIOdry-0.9.5/BIOdry/R/muleMan.R | 92 - BIOdry-0.9.5/BIOdry/R/normalizeGroupLevels_patched_inlinedocs.R |only BIOdry-0.9.5/BIOdry/R/plot.frametoFriedman_patched_inlinedocs_v3.R |only BIOdry-0.9.5/BIOdry/R/plot.frametoLme_patched_inlinedocs.R |only BIOdry-0.9.5/BIOdry/R/plot.modelFrame_trellis_inlinedocs.R |only BIOdry-0.9.5/BIOdry/R/plot.muleMan.R | 101 - BIOdry-0.9.5/BIOdry/R/plot.wlai.R | 279 +++- BIOdry-0.9.5/BIOdry/R/ringApply_patched_inlinedocs_v5.R |only BIOdry-0.9.5/BIOdry/R/roles_types.R |only BIOdry-0.9.5/BIOdry/R/rtimes.R | 283 ++++ BIOdry-0.9.5/BIOdry/R/scacum.R | 278 +++- BIOdry-0.9.5/BIOdry/R/shiftFrame.R | 603 +++++++-- BIOdry-0.9.5/BIOdry/R/slitFrame.R | 154 +- BIOdry-0.9.5/BIOdry/R/tdForm_patched_inlinedocs_docfix2.R |only BIOdry-0.9.5/BIOdry/R/update.frametoLme_patched_inlinedocs_v2.R |only BIOdry-0.9.5/BIOdry/R/wlai.R | 608 +++++++--- BIOdry-0.9.5/BIOdry/build/partial.rdb |binary BIOdry-0.9.5/BIOdry/inst |only BIOdry-0.9.5/BIOdry/man/BIOdry-package.Rd | 2 BIOdry-0.9.5/BIOdry/man/FriedmanForm.Rd |only BIOdry-0.9.5/BIOdry/man/amod.Rd | 96 + BIOdry-0.9.5/BIOdry/man/anova.frametoLme.Rd |only BIOdry-0.9.5/BIOdry/man/anova.modelFrame.Rd | 96 - BIOdry-0.9.5/BIOdry/man/arguSelect.Rd | 11 BIOdry-0.9.5/BIOdry/man/cClass.Rd | 21 BIOdry-0.9.5/BIOdry/man/defineDataRoles.Rd |only BIOdry-0.9.5/BIOdry/man/frametoFriedman.Rd |only BIOdry-0.9.5/BIOdry/man/frametoLme.Rd | 197 +-- BIOdry-0.9.5/BIOdry/man/levexp.Rd | 30 BIOdry-0.9.5/BIOdry/man/lmeForm.Rd | 43 BIOdry-0.9.5/BIOdry/man/mUnits.Rd | 7 BIOdry-0.9.5/BIOdry/man/modelFrame.Rd | 202 ++- BIOdry-0.9.5/BIOdry/man/moveYr.Rd | 104 + BIOdry-0.9.5/BIOdry/man/muleMan.Rd | 57 BIOdry-0.9.5/BIOdry/man/normalizeGroupLevels.Rd |only BIOdry-0.9.5/BIOdry/man/plot.frametoFriedman.Rd |only BIOdry-0.9.5/BIOdry/man/plot.frametoLme.Rd |only BIOdry-0.9.5/BIOdry/man/plot.modelFrame.Rd | 71 - BIOdry-0.9.5/BIOdry/man/plot.muleMan.Rd | 68 - BIOdry-0.9.5/BIOdry/man/plot.wlai.Rd | 112 + BIOdry-0.9.5/BIOdry/man/print.frametoFriedman.Rd |only BIOdry-0.9.5/BIOdry/man/print.frametoLme.Rd |only BIOdry-0.9.5/BIOdry/man/print.modelFrame.Rd |only BIOdry-0.9.5/BIOdry/man/print.summary.frametoFriedman.Rd |only BIOdry-0.9.5/BIOdry/man/print.summary.frametoLme.Rd |only BIOdry-0.9.5/BIOdry/man/print.summary.modelFrame.Rd |only BIOdry-0.9.5/BIOdry/man/ringApply.Rd | 160 ++ BIOdry-0.9.5/BIOdry/man/rtimes.Rd | 32 BIOdry-0.9.5/BIOdry/man/scacum.Rd | 60 BIOdry-0.9.5/BIOdry/man/shiftFrame.Rd | 103 + BIOdry-0.9.5/BIOdry/man/slitFrame.Rd | 34 BIOdry-0.9.5/BIOdry/man/summary.frametoFriedman.Rd |only BIOdry-0.9.5/BIOdry/man/summary.frametoLme.Rd |only BIOdry-0.9.5/BIOdry/man/summary.modelFrame.Rd | 54 BIOdry-0.9.5/BIOdry/man/tdForm.Rd | 38 BIOdry-0.9.5/BIOdry/man/update.frametoLme.Rd |only BIOdry-0.9.5/BIOdry/man/wlai.Rd | 113 + BIOdry-0.9.5/BIOdry/tests |only 85 files changed, 3874 insertions(+), 1471 deletions(-)
Title: Create Metrics of Actigraphy and Activity Analysis
Description: Provides functions for calibrating, counting, and summarizing
actigraphy and activity data into specific metrics and sleep measures.
The metrics include activity counts, step counts, activity index,
Monitor Independent Movement Summary Unit (MIMS), mean amplitude
deviation (MAD), and provides wrappers for sleep estimation from
activity counts using Tudor-Locke (2014) <doi:10.1139/apnm-2013-0173> and
Sadeh (1994) <doi:10.1093/sleep/17.3.201>. Count-intensity thresholds
include Montoye et al. (2020) <doi:10.1080/02640414.2020.1794244> and
Sasaki et al. (2011) <doi:10.1016/j.jsams.2011.04.003>. Raw-acceleration
Euclidean Norm Minus One (ENMO) thresholds include Hildebrand et al. (2014)
<doi:10.1249/MSS.0000000000000289>.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between actimetrics versions 0.9.0 dated 2026-10-20 and 0.10.0 dated 2026-10-29
DESCRIPTION | 30 +++++++----- MD5 | 69 +++++++++++++++++++++-------- NAMESPACE | 27 +++++++++++ NEWS.md | 77 +++++++++++++++++++++++++++++++++ R/ab_calculate_counts.R | 23 +++++++-- R/acti_calculate_stepcount.R | 31 +++++++++++-- R/acti_calculate_walking.R | 1 R/acti_calculate_wear_raw.R |only R/acti_calculate_wear_raw_actipy.R |only R/acti_calculate_wear_raw_ggir.R |only R/acti_count_measures.R | 14 ++++++ R/acti_process.R | 4 + R/acti_sleep_guiders.R |only R/acti_threshold_counts.R |only R/calculate_measures.R | 36 +++++++-------- R/calibrate.R | 6 ++ R/imports.R | 2 R/standardize_for_sleepr.R | 32 +++++-------- man/acti_calculate_ai.Rd | 9 --- man/acti_calculate_counts.Rd | 5 +- man/acti_calculate_measures.Rd | 2 man/acti_calculate_stepcount.Rd | 18 ++++++- man/acti_calculate_wear_raw.Rd |only man/acti_calculate_wear_raw_actipy.Rd |only man/acti_calculate_wear_raw_ggir.Rd |only man/acti_sleep_diary.Rd |only man/acti_sleep_ensemble.Rd |only man/acti_sleep_fuse_labels.Rd |only man/acti_sleep_guider.Rd |only man/acti_sleep_guider_requirements.Rd |only man/acti_sleep_hdcza.Rd |only man/acti_sleep_hlrb.Rd |only man/acti_sleep_horangle.Rd |only man/acti_sleep_l5.Rd |only man/acti_sleep_label.Rd |only man/acti_sleep_labels.Rd |only man/acti_sleep_notworn.Rd |only man/acti_sleep_setwindow.Rd |only man/acti_sleep_sib.Rd |only man/acti_threshold_counts.Rd |only man/acti_threshold_enmo.Rd |only man/acti_threshold_hildebrand.Rd |only man/acti_threshold_montoye.Rd |only man/acti_threshold_romanzini.Rd |only man/acti_threshold_sasaki.Rd |only tests/testthat.R | 4 + tests/testthat/test-coverage-drivers.R | 14 +++--- tests/testthat/test-regressions.R | 61 ++++++++++++++++++++++++++ tests/testthat/test-sleep-guiders.R |only tests/testthat/test-threshold-counts.R |only tests/testthat/test-wear-raw.R |only 51 files changed, 364 insertions(+), 101 deletions(-)
Title: Convert Vietnamese Encodings
Description: Conversion of characters from unsupported Vietnamese character encodings to Unicode characters. These Vietnamese encodings (TCVN3, VISCII, VPS) are not natively supported in R and lead to printing of wrong characters and garbled text (mojibake). This package fixes that problem and provides readable output with the correct Unicode characters (with or without diacritics).
Author: Juergen Niedballa [aut, cre] ,
An The Truong Nguyen [ctb]
Maintainer: Juergen Niedballa <camtrapr@gmail.com>
Diff between vietnameseConverter versions 0.4.0 dated 2021-10-20 and 0.4.1 dated 2026-10-29
DESCRIPTION | 24 MD5 | 28 - NEWS | 30 - R/decodeVN.R | 348 ++++++------- R/loadEncodingTableVN.R | 840 ++++++++++++++++----------------- README.md | 21 build/vignette.rds |binary inst/doc/vietnameseConverter.pdf.asis | 10 man/decodeVN.Rd | 2 man/loadEncodingTableVN.Rd | 2 man/vietnameseConverter-package.Rd | 42 - man/vn_samples.Rd | 96 +-- tests/test-all.R | 4 tests/testthat/test_decodeVN.R | 132 ++--- vignettes/vietnameseConverter.pdf.asis | 10 15 files changed, 807 insertions(+), 782 deletions(-)
More information about vietnameseConverter at CRAN
Permanent link
Title: An Interface to Google Drive
Description: Manage Google Drive files from R.
Author: Lucy D'Agostino McGowan [aut],
Jennifer Bryan [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between googledrive versions 2.1.2 dated 2025-09-10 and 2.2.0 dated 2026-10-29
googledrive-2.1.2/googledrive/R/deprecated.R |only googledrive-2.1.2/googledrive/R/team_drive.R |only googledrive-2.1.2/googledrive/build |only googledrive-2.1.2/googledrive/inst/doc |only googledrive-2.1.2/googledrive/man/deprecated-team-drive-functions.Rd |only googledrive-2.1.2/googledrive/man/figures/lifecycle-archived.svg |only googledrive-2.1.2/googledrive/man/figures/lifecycle-defunct.svg |only googledrive-2.1.2/googledrive/man/figures/lifecycle-maturing.svg |only googledrive-2.1.2/googledrive/man/figures/lifecycle-questioning.svg |only googledrive-2.1.2/googledrive/man/figures/lifecycle-soft-deprecated.svg |only googledrive-2.1.2/googledrive/man/googledrive-deprecated.Rd |only googledrive-2.1.2/googledrive/tests/testthat/_snaps/deprecated.md |only googledrive-2.1.2/googledrive/tests/testthat/_snaps/utils-ui.md |only googledrive-2.1.2/googledrive/tests/testthat/driver.R |only googledrive-2.1.2/googledrive/tests/testthat/test-deprecated.R |only googledrive-2.1.2/googledrive/tests/testthat/test-utils-ui.R |only googledrive-2.1.2/googledrive/vignettes |only googledrive-2.2.0/googledrive/DESCRIPTION | 22 googledrive-2.2.0/googledrive/MD5 | 222 ++++------ googledrive-2.2.0/googledrive/NAMESPACE | 50 +- googledrive-2.2.0/googledrive/NEWS.md | 43 + googledrive-2.2.0/googledrive/R/dribble.R | 171 ++++--- googledrive-2.2.0/googledrive/R/drive_auth.R | 136 +++++- googledrive-2.2.0/googledrive/R/drive_cp.R | 6 googledrive-2.2.0/googledrive/R/drive_create.R | 8 googledrive-2.2.0/googledrive/R/drive_download.R | 5 googledrive-2.2.0/googledrive/R/drive_endpoints.R | 8 googledrive-2.2.0/googledrive/R/drive_examples.R | 50 +- googledrive-2.2.0/googledrive/R/drive_fields.R | 2 googledrive-2.2.0/googledrive/R/drive_find.R | 88 ++- googledrive-2.2.0/googledrive/R/drive_get.R | 27 - googledrive-2.2.0/googledrive/R/drive_get_path.R | 30 - googledrive-2.2.0/googledrive/R/drive_id-class.R | 20 googledrive-2.2.0/googledrive/R/drive_ls.R | 6 googledrive-2.2.0/googledrive/R/drive_mime_type.R | 6 googledrive-2.2.0/googledrive/R/drive_mkdir.R | 5 googledrive-2.2.0/googledrive/R/drive_mv.R | 6 googledrive-2.2.0/googledrive/R/drive_publish.R | 7 googledrive-2.2.0/googledrive/R/drive_put.R | 4 googledrive-2.2.0/googledrive/R/drive_read.R | 13 googledrive-2.2.0/googledrive/R/drive_rename.R | 5 googledrive-2.2.0/googledrive/R/drive_reveal.R | 2 googledrive-2.2.0/googledrive/R/drive_rm.R | 6 googledrive-2.2.0/googledrive/R/drive_share.R | 13 googledrive-2.2.0/googledrive/R/drive_trash.R | 12 googledrive-2.2.0/googledrive/R/drive_update.R | 4 googledrive-2.2.0/googledrive/R/drive_upload.R | 7 googledrive-2.2.0/googledrive/R/drive_user.R | 6 googledrive-2.2.0/googledrive/R/request_make.R | 8 googledrive-2.2.0/googledrive/R/shared_drive_create.R | 2 googledrive-2.2.0/googledrive/R/shared_drive_find.R | 13 googledrive-2.2.0/googledrive/R/shared_drive_get.R | 13 googledrive-2.2.0/googledrive/R/shared_drives.R | 50 -- googledrive-2.2.0/googledrive/R/sysdata.rda |binary googledrive-2.2.0/googledrive/R/utils-paths.R | 93 +++- googledrive-2.2.0/googledrive/R/utils-ui.R | 45 -- googledrive-2.2.0/googledrive/R/utils.R | 40 + googledrive-2.2.0/googledrive/R/zzz.R | 6 googledrive-2.2.0/googledrive/README.md | 54 +- googledrive-2.2.0/googledrive/inst/WORDLIST | 6 googledrive-2.2.0/googledrive/man/dribble-checks.Rd | 15 googledrive-2.2.0/googledrive/man/drive_auth.Rd | 8 googledrive-2.2.0/googledrive/man/drive_auth_configure.Rd | 19 googledrive-2.2.0/googledrive/man/drive_cp.Rd | 24 - googledrive-2.2.0/googledrive/man/drive_create.Rd | 24 - googledrive-2.2.0/googledrive/man/drive_deauth.Rd | 8 googledrive-2.2.0/googledrive/man/drive_download.Rd | 15 googledrive-2.2.0/googledrive/man/drive_empty_trash.Rd | 10 googledrive-2.2.0/googledrive/man/drive_find.Rd | 14 googledrive-2.2.0/googledrive/man/drive_get.Rd | 19 googledrive-2.2.0/googledrive/man/drive_has_token.Rd | 8 googledrive-2.2.0/googledrive/man/drive_mkdir.Rd | 17 googledrive-2.2.0/googledrive/man/drive_mv.Rd | 23 - googledrive-2.2.0/googledrive/man/drive_publish.Rd | 11 googledrive-2.2.0/googledrive/man/drive_put.Rd | 16 googledrive-2.2.0/googledrive/man/drive_rename.Rd | 17 googledrive-2.2.0/googledrive/man/drive_rm.Rd | 9 googledrive-2.2.0/googledrive/man/drive_scopes.Rd | 8 googledrive-2.2.0/googledrive/man/drive_share.Rd | 12 googledrive-2.2.0/googledrive/man/drive_token.Rd | 10 googledrive-2.2.0/googledrive/man/drive_token_write.Rd |only googledrive-2.2.0/googledrive/man/drive_trash.Rd | 11 googledrive-2.2.0/googledrive/man/drive_update.Rd | 9 googledrive-2.2.0/googledrive/man/drive_upload.Rd | 27 - googledrive-2.2.0/googledrive/man/drive_user.Rd | 10 googledrive-2.2.0/googledrive/man/googledrive-configuration.Rd | 6 googledrive-2.2.0/googledrive/man/googledrive-package.Rd | 1 googledrive-2.2.0/googledrive/man/request_generate.Rd | 10 googledrive-2.2.0/googledrive/man/request_make.Rd | 27 - googledrive-2.2.0/googledrive/man/shortcut_create.Rd | 8 googledrive-2.2.0/googledrive/tests/testthat/_snaps/dribble.md | 79 +++ googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_auth.md | 40 + googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_cp.md | 6 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_create.md | 15 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_download.md | 2 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_endpoints.md |only googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_examples.md | 22 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_fields.md | 8 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_find.md | 79 +++ googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_get.md | 54 ++ googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_ls.md | 26 + googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_mime_type.md | 8 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_share.md | 8 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_update.md | 4 googledrive-2.2.0/googledrive/tests/testthat/_snaps/drive_upload.md | 8 googledrive-2.2.0/googledrive/tests/testthat/_snaps/shared_drives.md | 69 ++- googledrive-2.2.0/googledrive/tests/testthat/_snaps/utils-paths.md | 29 - googledrive-2.2.0/googledrive/tests/testthat/test-dribble.R | 53 +- googledrive-2.2.0/googledrive/tests/testthat/test-drive_auth.R | 56 ++ googledrive-2.2.0/googledrive/tests/testthat/test-drive_create.R | 1 googledrive-2.2.0/googledrive/tests/testthat/test-drive_endpoints.R | 10 googledrive-2.2.0/googledrive/tests/testthat/test-drive_examples.R | 5 googledrive-2.2.0/googledrive/tests/testthat/test-drive_fields.R | 4 googledrive-2.2.0/googledrive/tests/testthat/test-drive_find.R | 27 + googledrive-2.2.0/googledrive/tests/testthat/test-drive_get.R | 12 googledrive-2.2.0/googledrive/tests/testthat/test-drive_id-class.R | 55 ++ googledrive-2.2.0/googledrive/tests/testthat/test-drive_ls.R | 9 googledrive-2.2.0/googledrive/tests/testthat/test-drive_upload.R | 7 googledrive-2.2.0/googledrive/tests/testthat/test-request_generate.R | 11 googledrive-2.2.0/googledrive/tests/testthat/test-shared_drives.R | 15 googledrive-2.2.0/googledrive/tests/testthat/test-utils-paths.R | 3 121 files changed, 1515 insertions(+), 926 deletions(-)
Title: Access Google Sheets using the Sheets API V4
Description: Interact with Google Sheets through the Sheets API v4
<https://developers.google.com/sheets/api>. "API" is an acronym for
"application programming interface"; the Sheets API allows users to
interact with Google Sheets programmatically, instead of via a web
browser. The "v4" refers to the fact that the Sheets API is currently
at version 4. This package can read and write both the metadata and
the cell data in a Sheet.
Author: Jennifer Bryan [cre, aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between googlesheets4 versions 1.1.2 dated 2025-09-03 and 1.1.3 dated 2026-10-29
googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-archived.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-defunct.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-deprecated.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-experimental.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-maturing.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-questioning.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-retired.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-soft-deprecated.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-stable.svg |only googlesheets4-1.1.2/googlesheets4/man/figures/lifecycle-superseded.svg |only googlesheets4-1.1.2/googlesheets4/man/gs4_oauth_app.Rd |only googlesheets4-1.1.3/googlesheets4/DESCRIPTION | 18 - googlesheets4-1.1.3/googlesheets4/MD5 | 109 ++++------ googlesheets4-1.1.3/googlesheets4/NAMESPACE | 60 +++-- googlesheets4-1.1.3/googlesheets4/NEWS.md | 15 + googlesheets4-1.1.3/googlesheets4/R/googlesheets4-package.R | 1 googlesheets4-1.1.3/googlesheets4/R/gs4_auth.R | 32 -- googlesheets4-1.1.3/googlesheets4/R/sysdata.rda |binary googlesheets4-1.1.3/googlesheets4/R/utils-ui.R | 6 googlesheets4-1.1.3/googlesheets4/README.md | 22 +- googlesheets4-1.1.3/googlesheets4/inst/WORDLIST | 8 googlesheets4-1.1.3/googlesheets4/man/cell-specification.Rd | 4 googlesheets4-1.1.3/googlesheets4/man/googlesheets4-configuration.Rd | 6 googlesheets4-1.1.3/googlesheets4/man/googlesheets4-package.Rd | 5 googlesheets4-1.1.3/googlesheets4/man/gs4_auth.Rd | 8 googlesheets4-1.1.3/googlesheets4/man/gs4_auth_configure.Rd | 15 - googlesheets4-1.1.3/googlesheets4/man/gs4_browse.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/gs4_create.Rd | 14 - googlesheets4-1.1.3/googlesheets4/man/gs4_deauth.Rd | 8 googlesheets4-1.1.3/googlesheets4/man/gs4_examples.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/gs4_formula.Rd | 14 - googlesheets4-1.1.3/googlesheets4/man/gs4_get.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/gs4_has_token.Rd | 8 googlesheets4-1.1.3/googlesheets4/man/gs4_scopes.Rd | 8 googlesheets4-1.1.3/googlesheets4/man/gs4_token.Rd | 10 googlesheets4-1.1.3/googlesheets4/man/gs4_user.Rd | 4 googlesheets4-1.1.3/googlesheets4/man/range_autofit.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/range_delete.Rd | 16 - googlesheets4-1.1.3/googlesheets4/man/range_flood.Rd | 16 - googlesheets4-1.1.3/googlesheets4/man/range_read.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/range_read_cells.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/range_speedread.Rd | 2 googlesheets4-1.1.3/googlesheets4/man/range_write.Rd | 16 - googlesheets4-1.1.3/googlesheets4/man/request_generate.Rd | 10 googlesheets4-1.1.3/googlesheets4/man/request_make.Rd | 14 - googlesheets4-1.1.3/googlesheets4/man/sheet_add.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_append.Rd | 36 +-- googlesheets4-1.1.3/googlesheets4/man/sheet_copy.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_delete.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_properties.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_relocate.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_rename.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_resize.Rd | 20 - googlesheets4-1.1.3/googlesheets4/man/sheet_write.Rd | 36 +-- googlesheets4-1.1.3/googlesheets4/man/sheets_id.Rd | 14 - googlesheets4-1.1.3/googlesheets4/tests/testthat/_snaps/gs4_auth.md | 18 - googlesheets4-1.1.3/googlesheets4/tests/testthat/_snaps/sheets_id-class.md | 2 googlesheets4-1.1.3/googlesheets4/tests/testthat/_snaps/utils-ui.md | 22 ++ googlesheets4-1.1.3/googlesheets4/tests/testthat/test-gs4_auth.R | 25 -- googlesheets4-1.1.3/googlesheets4/tests/testthat/test-request_generate.R | 2 googlesheets4-1.1.3/googlesheets4/tests/testthat/test-utils-ui.R | 15 + 61 files changed, 371 insertions(+), 400 deletions(-)
Title: Tools for qPCR
Description: Provides tools for quantitative PCR (qPCR) data analysis,
including standard curve calculation with amplification efficiency,
relative expression calculation by the 2-'dCt', 2-'ddCt',
standard curve and 'RqPCR' methods, and RNA volume calculation for
reverse transcription.
Author: Xiang LI [cre, aut]
Maintainer: Xiang LI <lixiang117423@gmail.com>
Diff between qPCRtools versions 1.0.1 dated 2023-11-02 and 1.0.2 dated 2026-10-29
DESCRIPTION | 15 MD5 | 29 - R/CalCurve.R | 460 ++++++++++++------------- R/CalExp2dCt.R | 255 +++++++------- R/CalExp2ddCt.R | 745 ++++++++++++++++++++++------------------- R/CalExpCurve.R | 569 ++++++++++++++++++------------- R/CalExpRqPCR.R | 954 ++++++++++++++++++++++++++++------------------------- R/CalRTable.R | 93 ++--- inst/WORDLIST |only man/CalCurve.Rd | 10 man/CalExp2dCt.Rd | 3 man/CalExp2ddCt.Rd | 14 man/CalExpCurve.Rd | 20 + man/CalExpRqPCR.Rd | 13 man/CalRTable.Rd | 3 tests |only 16 files changed, 1728 insertions(+), 1455 deletions(-)
Title: Dynamic Bayesian Learning for Spatiotemporal Mechanistic Models
Description: Provides tools for Bayesian learning of spatiotemporal dynamical mechanistic models.
Includes methods for parameter estimation, simulation, and inference using hierarchical and
state-space modeling approaches, following Banerjee, Chen, Frankenburg and Zhou (2025)
<https://jmlr.org/papers/v26/22-0896.html>.
Author: Xiang Chen [aut, cre],
Sudipto Banerjee [aut]
Maintainer: Xiang Chen <xiangchen@ucla.edu>
Diff between spDBL versions 1.0.2 dated 2026-06-09 and 1.1.1 dated 2026-10-29
DESCRIPTION | 14 MD5 | 68 ++- NAMESPACE | 8 NEWS.md |only R/calibration_fit.R |only R/calibration_prepare.R |only R/calibration_recover.R |only R/data-dt_calibration.R |only R/func_BS.R | 2 R/func_FFBS.R | 349 ++++++++----------- R/func_gen_data.R | 31 + R/func_wrapper.R | 438 +++++++++--------------- README.md | 82 ++++ build/vignette.rds |binary data/dt_calibration.rda |only inst/doc/calibration-details.Rmd |only inst/doc/calibration-details.html |only inst/doc/calibration.R |only inst/doc/calibration.Rmd |only inst/doc/calibration.html |only inst/doc/emulation.R | 2 inst/doc/emulation.Rmd | 42 +- inst/doc/emulation.html | 520 ++++++++++++++--------------- inst/examples |only inst/extdata |only inst/stan |only man/FFBS_predict_MC.Rd | 2 man/FFBS_predict_exact.Rd | 18 - man/FFBS_sampling.Rd | 21 + man/FFBS_sampling_sigma2R.Rd | 11 man/calibration_fit.Rd |only man/calibration_predict.Rd |only man/calibration_prepare.Rd |only man/calibration_validate.Rd |only man/dt_calibration.Rd |only man/emulator_learn.Rd | 82 ++-- man/emulator_predict.Rd | 49 -- man/plot.spDBL_calibration.Rd |only man/recover_from_EP_exact.Rd | 4 man/summary.spDBL_calibration.Rd |only tests/testthat/helper-calibration.R |only tests/testthat/test-calibration-gaussian.R |only tests/testthat/test-calibration-prepare.R |only tests/testthat/test-calibration-stan.R |only tests/testthat/test-sampling-methods.R |only vignettes/calibration-details.Rmd |only vignettes/calibration.Rmd |only vignettes/emulation.Rmd | 42 +- vignettes/renderEmulation.sh |only 49 files changed, 918 insertions(+), 867 deletions(-)
Title: Publication-Quality 'ggplot2' Visualisation
Description: Wrapper 'ggplot2' functions for publication-quality visualisation.
Aligned with 'ggplot2' and 'tidyverse'. Covers much of what 'ggplot2' does.
Author: David Hodge [aut, cre, cph]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between ggblanket versions 21.0.0 dated 2026-07-06 and 30.0.0 dated 2026-10-29
ggblanket-21.0.0/ggblanket/R/set-blanket.R |only ggblanket-21.0.0/ggblanket/man/modern_drift.Rd |only ggblanket-21.0.0/ggblanket/man/set_blanket.Rd |only ggblanket-21.0.0/ggblanket/man/void_drop.Rd |only ggblanket-30.0.0/ggblanket/DESCRIPTION | 12 ggblanket-30.0.0/ggblanket/MD5 | 163 +-- ggblanket-30.0.0/ggblanket/NAMESPACE | 6 ggblanket-30.0.0/ggblanket/NEWS.md | 6 ggblanket-30.0.0/ggblanket/R/gg-area.R | 4 ggblanket-30.0.0/ggblanket/R/gg-bar.R | 4 ggblanket-30.0.0/ggblanket/R/gg-bin2d.R | 4 ggblanket-30.0.0/ggblanket/R/gg-blanket-utils.R | 72 - ggblanket-30.0.0/ggblanket/R/gg-blanket.R | 494 ++++------ ggblanket-30.0.0/ggblanket/R/gg-boxplot.R | 4 ggblanket-30.0.0/ggblanket/R/gg-col.R | 4 ggblanket-30.0.0/ggblanket/R/gg-contour-filled.R | 4 ggblanket-30.0.0/ggblanket/R/gg-contour.R | 4 ggblanket-30.0.0/ggblanket/R/gg-crossbar.R | 4 ggblanket-30.0.0/ggblanket/R/gg-density.R | 4 ggblanket-30.0.0/ggblanket/R/gg-density2d-filled.R | 4 ggblanket-30.0.0/ggblanket/R/gg-density2d.R | 4 ggblanket-30.0.0/ggblanket/R/gg-errorbar.R | 4 ggblanket-30.0.0/ggblanket/R/gg-freqpoly.R | 4 ggblanket-30.0.0/ggblanket/R/gg-hex.R | 4 ggblanket-30.0.0/ggblanket/R/gg-histogram.R | 4 ggblanket-30.0.0/ggblanket/R/gg-jitter.R | 4 ggblanket-30.0.0/ggblanket/R/gg-line.R | 4 ggblanket-30.0.0/ggblanket/R/gg-linerange.R | 4 ggblanket-30.0.0/ggblanket/R/gg-path.R | 4 ggblanket-30.0.0/ggblanket/R/gg-point.R | 4 ggblanket-30.0.0/ggblanket/R/gg-polygon.R | 4 ggblanket-30.0.0/ggblanket/R/gg-qq.R | 4 ggblanket-30.0.0/ggblanket/R/gg-quantile.R | 4 ggblanket-30.0.0/ggblanket/R/gg-raster.R | 4 ggblanket-30.0.0/ggblanket/R/gg-rect.R | 4 ggblanket-30.0.0/ggblanket/R/gg-ribbon.R | 4 ggblanket-30.0.0/ggblanket/R/gg-segment.R | 4 ggblanket-30.0.0/ggblanket/R/gg-sf.R | 4 ggblanket-30.0.0/ggblanket/R/gg-smooth.R | 4 ggblanket-30.0.0/ggblanket/R/gg-spoke.R | 4 ggblanket-30.0.0/ggblanket/R/gg-step.R | 4 ggblanket-30.0.0/ggblanket/R/gg-tile.R | 4 ggblanket-30.0.0/ggblanket/R/gg-violin.R | 4 ggblanket-30.0.0/ggblanket/R/refine-axis-grid.R |only ggblanket-30.0.0/ggblanket/R/refine-legend.R |only ggblanket-30.0.0/ggblanket/R/refine.R | 144 ++ ggblanket-30.0.0/ggblanket/R/set-options.R |only ggblanket-30.0.0/ggblanket/R/theme.R |only ggblanket-30.0.0/ggblanket/README.md | 22 ggblanket-30.0.0/ggblanket/man/figures/README-unnamed-chunk-2-1.png |binary ggblanket-30.0.0/ggblanket/man/figures/README-unnamed-chunk-3-1.png |binary ggblanket-30.0.0/ggblanket/man/gg_area.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_bar.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_bin2d.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_blanket.Rd | 16 ggblanket-30.0.0/ggblanket/man/gg_boxplot.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_col.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_contour.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_contour_filled.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_crossbar.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_density.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_density2d.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_density2d_filled.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_errorbar.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_freqpoly.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_hex.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_histogram.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_jitter.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_line.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_linerange.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_path.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_point.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_polygon.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_qq.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_quantile.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_raster.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_rect.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_ribbon.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_segment.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_sf.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_smooth.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_spoke.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_step.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_tile.Rd | 12 ggblanket-30.0.0/ggblanket/man/gg_violin.Rd | 12 ggblanket-30.0.0/ggblanket/man/set_colour_blend.Rd |only ggblanket-30.0.0/ggblanket/man/set_fill_blend.Rd |only ggblanket-30.0.0/ggblanket/man/set_refine.Rd |only 88 files changed, 723 insertions(+), 740 deletions(-)
Title: Elastic Functional Data Analysis
Description: Performs alignment, PCA, and modeling of multidimensional and
unidimensional functions using the square-root velocity framework
(Srivastava et al., 2011 <doi:10.48550/arXiv.1103.3817> and Tucker et al., 2014
<DOI:10.1016/j.csda.2012.12.001>). This framework allows for elastic
analysis of functional data through phase and amplitude separation.
Author: J. Derek Tucker [aut, cre] ,
Aymeric Stamm [ctb]
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between fdasrvf versions 2.5.0 dated 2026-09-16 and 2.5.1 dated 2026-10-29
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