Title: Download and Process Brazilian Education Data from INEP
Description: Download and process public education data from INEP (Instituto
Nacional de Estudos e Pesquisas Educacionais Anísio Teixeira). Provides
functions to access microdata from the School Census (Censo Escolar),
ENEM (Exame Nacional do Ensino Médio), SAEB (Sistema de Avaliação da
Educação Básica), Higher Education Census (Censo da Educação Superior),
ENADE (Exame Nacional de Desempenho dos Estudantes),
ENCCEJA (Exame Nacional para Certificação de Competências de Jovens e Adultos),
IDD (Indicador de Diferença entre os Desempenhos Observado e Esperado),
CPC (Conceito Preliminar de Curso),
IGC (Índice Geral de Cursos),
CAPES graduate education data,
FUNDEB (Fundo de Manutencao e Desenvolvimento da Educacao Basica),
IDEB (Índice de Desenvolvimento da Educação Básica),
and other educational datasets. Returns data in
tidy format ready for analysis. Data source: INEP Open Data Portal
<https://www.gov.br/inep/pt-br/acesso-a-informacao/dados-abertos>.
Author: Sidney da Silva Pereira Bissoli [aut, cre]
Maintainer: Sidney da Silva Pereira Bissoli <sbissoli76@gmail.com>
Diff between educabR versions 1.1.0 dated 2026-08-23 and 1.2.0 dated 2026-10-02
DESCRIPTION | 6 MD5 | 56 NEWS.md | 685 ++++----- R/get-encceja.R | 406 +++-- R/get-enem.R | 686 ++++----- R/get-saeb.R | 616 +++++--- R/utils-download.R | 1741 +++++++++++------------ README.md | 42 build/vignette.rds |binary inst/doc/basic-education-assessments.R | 24 inst/doc/basic-education-assessments.Rmd | 38 inst/doc/basic-education-assessments.html | 58 inst/doc/educabr-and-the-alternatives.R |only inst/doc/educabr-and-the-alternatives.Rmd |only inst/doc/educabr-and-the-alternatives.html |only man/figures/vignette-basic-encceja-states.png |binary man/find_encceja_file.Rd | 11 man/find_saeb_aluno_by_serie.Rd |only man/find_saeb_file.Rd | 11 man/get_encceja.Rd | 23 man/get_enem.Rd | 2 man/get_enem_itens.Rd | 2 man/get_saeb.Rd | 33 man/normalize_saeb_serie.Rd |only tests/testthat/test-encceja.R | 15 tests/testthat/test-file-finders.R | 179 ++ tests/testthat/test-get-enem.R | 10 tests/testthat/test-get-pipelines.R | 39 tests/testthat/test-utils-cache.R | 4 tests/testthat/test-utils-download.R | 1916 +++++++++++++------------- vignettes/basic-education-assessments.Rmd | 38 vignettes/educabr-and-the-alternatives.Rmd |only 32 files changed, 3625 insertions(+), 3016 deletions(-)
Title: Tables and Graphs for Mixed Models for Repeated Measures (MMRM)
Description: Mixed models for repeated measures (MMRM) are a popular
choice for analyzing longitudinal continuous outcomes in randomized
clinical trials and beyond; see for example Cnaan, Laird and Slasor
(1997)
<doi:10.1002/(SICI)1097-0258(19971030)16:20%3C2349::AID-SIM667%3E3.0.CO;2-E>.
This package provides an interface for fitting MMRM within the 'tern'
<https://cran.r-project.org/package=tern> framework by Zhu et al.
(2023) and tabulate results easily using 'rtables'
<https://cran.r-project.org/package=rtables> by Becker et al. (2023).
It builds on 'mmrm' <https://cran.r-project.org/package=mmrm> by
Sabanés Bové et al. (2023) for the actual MMRM computations.
Author: Daniel Sabanes Bove [aut],
Joe Zhu [aut, cre] ,
Godwin Yung [aut],
Francois Collin [aut],
Julia Dedic [aut],
Jana Stoilova [aut],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between tern.mmrm versions 0.3.3 dated 2025-07-04 and 0.3.4 dated 2026-10-02
tern.mmrm-0.3.3/tern.mmrm/tests/testthat/Rplots.pdf |only tern.mmrm-0.3.3/tern.mmrm/tests/testthat/_snaps/covariance_plot |only tern.mmrm-0.3.3/tern.mmrm/tests/testthat/_snaps/g_mmrm |only tern.mmrm-0.3.3/tern.mmrm/tests/testthat/_snaps/subgroups |only tern.mmrm-0.3.4/tern.mmrm/DESCRIPTION | 26 tern.mmrm-0.3.4/tern.mmrm/MD5 | 70 tern.mmrm-0.3.4/tern.mmrm/NAMESPACE | 13 tern.mmrm-0.3.4/tern.mmrm/NEWS.md | 173 tern.mmrm-0.3.4/tern.mmrm/R/fit_mmrm.R | 346 tern.mmrm-0.3.4/tern.mmrm/R/g_mmrm.R | 10 tern.mmrm-0.3.4/tern.mmrm/R/labels.R | 106 tern.mmrm-0.3.4/tern.mmrm/R/subgroups.R | 1014 +- tern.mmrm-0.3.4/tern.mmrm/R/tabulate_mmrm.R | 20 tern.mmrm-0.3.4/tern.mmrm/R/tern.mmrm-package.R | 1 tern.mmrm-0.3.4/tern.mmrm/build/vignette.rds |binary tern.mmrm-0.3.4/tern.mmrm/inst/doc/introduction.R | 102 tern.mmrm-0.3.4/tern.mmrm/inst/doc/introduction.html | 4039 ++++------ tern.mmrm-0.3.4/tern.mmrm/man/g_mmrm_lsmeans.Rd | 2 tern.mmrm-0.3.4/tern.mmrm/man/reexports.Rd | 4 tern.mmrm-0.3.4/tern.mmrm/man/tabulate_mmrm.Rd | 22 tern.mmrm-0.3.4/tern.mmrm/man/tabulate_mmrm_subgroups.Rd | 4 tern.mmrm-0.3.4/tern.mmrm/man/tern.mmrm-package.Rd | 1 tern.mmrm-0.3.4/tern.mmrm/tests/testthat/helper-data.R | 46 tern.mmrm-0.3.4/tern.mmrm/tests/testthat/test-assert_data.R | 2 tern.mmrm-0.3.4/tern.mmrm/tests/testthat/test-lsmeans.R | 6 tern.mmrm-0.3.4/tern.mmrm/tests/testthat/test-subgroups.R | 4 tern.mmrm-0.3.4/tern.mmrm/tests/testthat/test-table_mmrmt01.R | 10 tern.mmrm-0.3.4/tern.mmrm/tests/testthat/test-tabulate_mmrm.R | 28 28 files changed, 2956 insertions(+), 3093 deletions(-)
Title: Tables and Graphs for Generalized Estimating Equations (GEE)
Model Fits
Description: Generalized estimating equations (GEE) are a popular choice
for analyzing longitudinal binary outcomes. This package provides an
interface for fitting GEE, currently for logistic regression, within
the 'tern' <https://cran.r-project.org/package=tern> framework (Zhu,
Sabanés Bové et al., 2023) and tabulate results easily using 'rtables'
<https://cran.r-project.org/package=rtables> (Becker, Waddell et al.,
2023). It builds on 'geepack' <doi:10.18637/jss.v015.i02> (Højsgaard,
Halekoh and Yan, 2006) for the actual GEE model fitting.
Author: Daniel Sabanes Bove [aut],
Joe Zhu [aut, cre] ,
Emily de la Rua [aut],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between tern.gee versions 0.1.5 dated 2024-08-23 and 0.1.6 dated 2026-10-02
DESCRIPTION | 24 - MD5 | 62 +-- NAMESPACE | 46 +- NEWS.md | 40 +- R/data.R | 30 - R/fit_gee.R | 358 +++++++++++----------- R/gee_methods.R | 110 +++---- R/lsmeans.R | 154 ++++----- R/package.R | 36 +- R/tabulate_gee.R | 364 +++++++++++------------ build/vignette.rds |binary inst/WORDLIST | 53 +-- inst/doc/tern-gee.R | 10 inst/doc/tern-gee.Rmd | 288 +++++++++--------- inst/doc/tern-gee.html | 530 ++++++++++++++++------------------ man/fev_data.Rd | 54 +-- man/fit_gee.Rd | 94 +++--- man/gee_methods.Rd | 62 +-- man/lsmeans.Rd | 102 +++--- man/reexports.Rd | 32 +- man/tabulate_gee.Rd | 198 ++++++------ man/tern.gee-package.Rd | 69 ++-- man/vars_gee.Rd | 84 ++--- tests/testthat.R | 6 tests/testthat/_snaps/tabulate_gee.md | 88 ++--- tests/testthat/helper-setup.R | 20 - tests/testthat/setup-options.R | 40 +- tests/testthat/test-fit_gee.R | 228 +++++++------- tests/testthat/test-gee_methods.R | 118 +++---- tests/testthat/test-lsmeans.R | 36 +- tests/testthat/test-tabulate_gee.R | 198 ++++++------ vignettes/tern-gee.Rmd | 288 +++++++++--------- 32 files changed, 1899 insertions(+), 1923 deletions(-)
Title: R Interface to Proximal Interior Point Quadratic Programming
Solver
Description: An embedded proximal interior point quadratic programming solver, which can solve dense and sparse quadratic programs, described in Schwan, Jiang, Kuhn, and Jones (2023) <doi:10.48550/arXiv.2304.00290>. Combining an infeasible interior point method with the proximal method of multipliers, the algorithm can handle ill-conditioned convex quadratic programming problems without the need for linear independence of the constraints. The solver is written in header only 'C++ 14' leveraging the 'Eigen' library for vectorized linear algebra. For small dense problems, vectorized instructions and cache locality can be exploited more efficiently. Allocation free problem updates and re-solves are also provided.
Author: Balasubramanian Narasimhan [aut, cre],
Roland Schwan [aut, cph],
Yuning Jiang [aut],
Daniel Kuhn [aut],
Colin N. Jones [aut]
Maintainer: Balasubramanian Narasimhan <naras@stanford.edu>
Diff between piqp versions 0.6.2 dated 2026-02-18 and 0.6.4 dated 2026-10-02
piqp-0.6.2/piqp/src/piqp/include/piqp/dense/ldlt_no_pivot.tpp |only piqp-0.6.2/piqp/src/piqp/include/piqp/sparse/ordering.tpp |only piqp-0.6.2/piqp/src/r_patches/piqp |only piqp-0.6.4/piqp/DESCRIPTION | 8 piqp-0.6.4/piqp/MD5 | 72 piqp-0.6.4/piqp/NAMESPACE | 24 piqp-0.6.4/piqp/NEWS.md | 6 piqp-0.6.4/piqp/R/piqp.R | 7 piqp-0.6.4/piqp/build/vignette.rds |binary piqp-0.6.4/piqp/inst/doc/piqp.html | 2 piqp-0.6.4/piqp/man/piqp_model.Rd | 9 piqp-0.6.4/piqp/src/Makevars | 6 piqp-0.6.4/piqp/src/piqp/include/piqp/dense/data.hpp | 192 - piqp-0.6.4/piqp/src/piqp/include/piqp/dense/data.tpp | 178 piqp-0.6.4/piqp/src/piqp/include/piqp/dense/kkt.hpp | 145 piqp-0.6.4/piqp/src/piqp/include/piqp/dense/kkt.tpp | 144 piqp-0.6.4/piqp/src/piqp/include/piqp/dense/ldlt_no_pivot.hpp | 10 piqp-0.6.4/piqp/src/piqp/include/piqp/dense/preconditioner.hpp | 378 -- piqp-0.6.4/piqp/src/piqp/include/piqp/dense/preconditioner.tpp | 254 + piqp-0.6.4/piqp/src/piqp/include/piqp/fwd.hpp | 6 piqp-0.6.4/piqp/src/piqp/include/piqp/kkt_system.hpp | 489 -- piqp-0.6.4/piqp/src/piqp/include/piqp/kkt_system.tpp |only piqp-0.6.4/piqp/src/piqp/include/piqp/solver.hpp | 1286 ------- piqp-0.6.4/piqp/src/piqp/include/piqp/solver.tpp | 1312 +++++++ piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/blocksparse/block_mat.hpp | 1 piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/data.hpp | 193 - piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/data.tpp | 179 piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/kkt.hpp | 207 - piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/kkt.tpp | 204 + piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/ldlt.hpp | 204 - piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/ldlt.tpp | 187 + piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/multistage_kkt.hpp | 1732 --------- piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/multistage_kkt.tpp | 1797 +++++++++- piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/ordering.hpp | 4 piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/preconditioner.hpp | 400 -- piqp-0.6.4/piqp/src/piqp/include/piqp/sparse/preconditioner.tpp | 276 + piqp-0.6.4/piqp/src/piqp/include/piqp/utils/blasfeo_wrapper.hpp | 1 piqp-0.6.4/piqp/src/piqp/include/piqp/utils/eigen_matio.hpp | 13 piqp-0.6.4/piqp/src/r_patches/piqp.patch |only 39 files changed, 5071 insertions(+), 4855 deletions(-)
Title: Multiblock Sparse Multivariable Analysis
Description: Several functions can be used to analyze multiblock multivariable data. If the input is a single matrix, then principal components analysis (PCA) is implemented. If the input is a list of matrices, then multiblock PCA is implemented. If the input is two matrices, for exploratory and objective variables, then partial least squares (PLS) analysis is implemented. If the input is two lists of matrices, for exploratory and objective variables, then multiblock PLS analysis is implemented. Additionally, if an extra outcome variable is specified, then a supervised version of the methods above is implemented. For each method, sparse modeling is also incorporated. Functions for selecting the number of components and regularized parameters are also provided. Version 4.0 adds opt-in supervised sparse soft-structured principal component analysis, reconstruction, and repeated split reconstruction-based parameter selection while preserving the default Version 3.2 computational paths.
Author: Atsushi Kawaguchi [aut, cre]
Maintainer: Atsushi Kawaguchi <kawa_a24@yahoo.co.jp>
Diff between msma versions 3.2 dated 2026-08-26 and 4.0 dated 2026-10-02
DESCRIPTION | 10 MD5 | 54 +- NAMESPACE | 44 +- NEWS | 91 ++++ R/src.r | 438 ++++++++++++++++++++- build/vignette.rds |binary inst/CITATION | 2 inst/doc/msma-ecmsma.Rmd | 2 inst/doc/msma-ecmsma.html | 15 inst/doc/msma-introduction.Rmd | 2 inst/doc/msma-introduction.html | 19 inst/doc/msma-model-selection.Rmd | 2 inst/doc/msma-model-selection.html | 17 inst/doc/msma-multiblock.Rmd | 2 inst/doc/msma-multiblock.html | 19 inst/doc/msma-soft-structured.R |only inst/doc/msma-soft-structured.Rmd |only inst/doc/msma-soft-structured.html |only man/msma.Rd | 12 man/s4pca_conformal_select.Rd |only man/s4pca_reconstruct.Rd |only tests/testthat.R | 2 tests/testthat/reference |only tests/testthat/test-release-api.R |only tests/testthat/test-s4pca-model-selection.R |only tests/testthat/test-s4pca-reference-regression.R |only tests/testthat/test-s4pca-validation-diagnostics.R |only tests/testthat/test-soft-structure-contract.R |only tests/testthat/test-version-3.2.R | 2 vignettes/msma-ecmsma.Rmd | 2 vignettes/msma-introduction.Rmd | 2 vignettes/msma-model-selection.Rmd | 2 vignettes/msma-multiblock.Rmd | 2 vignettes/msma-soft-structured.Rmd |only 34 files changed, 657 insertions(+), 84 deletions(-)
Title: Fuzzy & Randomized Confidence Intervals
Description: Contains the methods proposed by Geyer and Meeden (2005)
<doi:10.1214/088342305000000340> and Trigo et al. (2025)
<doi:10.47749/T/UNICAMP.2025.1500297> to construct fuzzy
confidence intervals. Compute and plot the fuzzy membership
functions of the methods, and the expected length compared
with the infimum.
Author: Carlos Henrique Trigo Nasser Felix [aut, cre],
Nancy Lopes Garcia [aut],
Alex Rodrigo dos Santos Sousa [aut]
Maintainer: Carlos Henrique Trigo Nasser Felix <c214344@dac.unicamp.br>
Diff between FRCI versions 0.1.0 dated 2025-12-11 and 0.1.1 dated 2026-10-02
DESCRIPTION | 23 MD5 | 12 R/plot.R | 1106 ++++++++++++++++++++++++++------------------- R/psi.R | 625 ++++++++++++------------- man/plot.psi.Rd | 43 - man/psi.Rd | 20 tests/testthat/test-plot.R | 8 7 files changed, 1011 insertions(+), 826 deletions(-)
Title: Prophet Modelling Interface for 'fable'
Description: Allows prophet models from the 'prophet' package to be used in a tidy workflow with the modelling interface of 'fabletools'. This extends 'prophet' to provide enhanced model specification and management, performance evaluation methods, and model combination tools.
Author: Mitchell O'Hara-Wild [aut, cre],
Sean Taylor [ctb] ,
Ben Letham [ctb]
Maintainer: Mitchell O'Hara-Wild <mail@mitchelloharawild.com>
Diff between fable.prophet versions 0.1.0 dated 2020-08-20 and 0.1.1 dated 2026-10-02
DESCRIPTION | 9 MD5 | 36 - NEWS.md | 7 R/model.R | 2 README.md | 46 +- build/vignette.rds |binary inst/doc/intro.R | 2 inst/doc/intro.Rmd | 2 inst/doc/intro.html | 577 +++++++++++++++++++------------ man/fable.prophet-package.Rd | 5 man/figures/README-components-plot-1.png |binary man/figures/README-components-plot-2.png |binary man/figures/README-fable-1.png |binary man/figures/README-plot-1.png |binary man/fitted.fbl_prophet.Rd | 4 man/forecast.fbl_prophet.Rd | 8 man/residuals.fbl_prophet.Rd | 4 tests/testthat/test-prophet.R | 4 vignettes/intro.Rmd | 2 19 files changed, 429 insertions(+), 279 deletions(-)
Title: Bayesian Estimation and Forecasting of Age-Specific Rates
Description: Fast Bayesian estimation and forecasting of age-specific
rates, probabilities, and means, based on 'Template Model Builder'.
Author: John Bryant [aut, cre],
Junni Zhang [aut],
Bayesian Demography Limited [cph]
Maintainer: John Bryant <john@bayesiandemography.com>
Diff between bage versions 0.10.10 dated 2026-08-21 and 0.10.11 dated 2026-10-02
DESCRIPTION | 6 MD5 | 26 ++- NEWS.md | 21 +++ R/bage_mod-methods.R | 219 ++++++++++++++++++++++++++------- R/forecast.R | 34 +++-- R/make-outputs.R | 105 ++++++++++----- README.md | 16 +- inst/TMB-version | 2 inst/doc/vig01_intro.html | 16 +- man/forecast.bage_mod.Rd | 3 tests/testthat/test-bage_mod-methods.R | 65 +++++++++ tests/testthat/test-blocked-draws.R |only tests/testthat/test-forecast-labels.R |only tests/testthat/test-forecast.R | 7 + tests/testthat/test-make-outputs.R | 10 + 15 files changed, 414 insertions(+), 116 deletions(-)
Title: Enhanced 'mutate' with 'Apache Spark' Style Window Operations
Description: Window operations for R dataframes with 'by', 'order_by' and 'frame' defined by 'rows_between' or 'range_between', inspired by 'Apache Spark' via 'mutate' in 'dplyr' flavor.
Author: Srikanth Komala Sheshachala [aut, cre]
Maintainer: Srikanth Komala Sheshachala <sri.teach@gmail.com>
Diff between tidier versions 0.2.0 dated 2023-09-11 and 0.3.0 dated 2026-10-02
tidier-0.2.0/tidier/man/mutate_.Rd |only tidier-0.3.0/tidier/DESCRIPTION | 19 tidier-0.3.0/tidier/MD5 | 21 tidier-0.3.0/tidier/NAMESPACE | 4 tidier-0.3.0/tidier/NEWS.md | 12 tidier-0.3.0/tidier/R/mutate.R | 1021 +++++----------- tidier-0.3.0/tidier/README.md | 87 - tidier-0.3.0/tidier/inst/CITATION | 19 tidier-0.3.0/tidier/man/mutate.Rd | 148 +- tidier-0.3.0/tidier/man/range_between.Rd |only tidier-0.3.0/tidier/man/remove_common_nested_columns.Rd | 1 tidier-0.3.0/tidier/man/rows_between.Rd |only tidier-0.3.0/tidier/tests/testthat/tests_tidier.R | 411 +----- 13 files changed, 626 insertions(+), 1117 deletions(-)
Title: Estimation for the Power Series Cure Rate Model
Description: Provides estimation and simulation tools for particular cases
of the power series cure rate model
<doi:10.1080/03610918.2011.639971>. For the distribution of the concurrent causes the
alternative models are the Poisson, logarithmic, negative binomial and Bernoulli (which
are includes in the original work), the polylogarithm model
<doi:10.1080/00949655.2018.1451850> and the Flory-Schulz <doi:10.3390/math10244643>.
The estimation procedure is based on the EM algorithm discussed in
<doi:10.1080/03610918.2016.1202276>.
For the distribution of the time-to-event the alternative models are slash half-normal,
Weibull, gamma and Birnbaum-Saunders distributions.
Author: Diego Gallardo [aut, cre],
Reza Azimi [ctb],
Daniel Jana [ctb],
Yolanda Gomez [ctb]
Maintainer: Diego Gallardo <diego.gallardo.mateluna@gmail.com>
Diff between PScr versions 1.1 dated 2023-04-03 and 1.2 dated 2026-10-02
DESCRIPTION | 19 ++++++++++++------- MD5 | 11 +++++++---- NAMESPACE | 3 ++- NEWS.md | 7 ++++++- R/EM.PScr.R | 14 +++++++++----- R/rcura.R |only build |only man/rcura.rd |only 8 files changed, 36 insertions(+), 18 deletions(-)
Title: Tools for Summarising and Analysing Soundscape Data
Description: A variety of tools relevant to the analysis
of marine soundscape data. There are tools for downloading AIS (automatic identification system)
data from Marine Cadastre <https://hub.marinecadastre.gov>,
connecting AIS data to GPS coordinates, plotting summaries of various soundscape
measurements, and downloading relevant environmental variables (wind, swell height) from the
National Center for Atmospheric Research data server <https://gdex.ucar.edu/datasets/d084001/>.
Most tools were developed to work well with output from 'Triton' software, but can be adapted
to work with any similar measurements.
Author: Taiki Sakai [aut, cre],
Anne Simonis [ctb],
Shannon Rankin [ctb],
Megan McKenna [ctb],
Kaitlin Palmer [ctb]
Maintainer: Taiki Sakai <taiki.sakai@noaa.gov>
Diff between PAMscapes versions 0.15.0 dated 2026-02-04 and 0.17.2 dated 2026-10-02
DESCRIPTION | 8 MD5 | 68 +++---- NAMESPACE | 352 ++++++++++++++++++++++------------------ NEWS.md | 54 ++++++ R/addDataQuality.R |only R/binDetectionData.R | 55 +++++- R/createOctaveLevel.R | 24 ++ R/formatEffort.R | 220 ++++++++++++++++++------- R/loadDetectionData.R | 130 ++++++++++++-- R/loadMantaNc.R | 9 - R/loadMultiscapeData.R | 2 R/loadSoundscapeData.R | 8 R/matchGFS.R | 71 +++++--- R/plotAcousticScene.R | 73 ++++---- R/plotDetectionBoxplot.R | 57 +++--- R/plotPSD.R | 89 ++++++++-- R/plotPolarDetections.R | 39 +++- R/plotQAQC.R | 16 + R/runDailyLTSAReview.R | 87 ++++++++- R/runDetectionExplorer.R | 14 - R/utils.R | 30 +++ README.md | 2 man/addDataQuality.Rd |only man/binDetectionData.Rd | 10 - man/createOctaveLevel.Rd | 6 man/loadDetectionData.Rd | 11 - man/loadMantaNc.Rd | 2 man/loadMultiscapeData.Rd | 2 man/loadSoundscapeData.Rd | 2 man/matchGFS.Rd | 4 man/plotAcousticScene.Rd | 25 ++ man/plotDetectionBoxplot.Rd | 21 ++ man/plotPSD.Rd | 26 ++ man/plotPolarDetections.Rd | 25 ++ man/plotQAQC.Rd | 4 tests/testthat/test-detection.R | 2 36 files changed, 1117 insertions(+), 431 deletions(-)
Title: Bayesian Spatio-Temporal Factor Analysis Model
Description: Implements Bayesian spatio-temporal factor analysis models for multivariate data observed across space and time. The package provides tools for model fitting via Markov chain Monte Carlo (MCMC), spatial and temporal interpolation, and visualization of latent factors and loadings to support inference and exploration of underlying spatio-temporal patterns. Designed for use in environmental, ecological, or public health applications, with support for posterior prediction and uncertainty quantification. Includes functions such as BSTFA() for model fitting and plot_factor() to visualize the latent processes. Functions are based on and extended from methods described in Berrett, et al. (2020) <doi:10.1002/env.2609>.
Author: Adam Simpson [aut],
Candace Berrett [aut, cre]
Maintainer: Candace Berrett <cberrett@stat.byu.edu>
Diff between BSTFA versions 0.1.0 dated 2025-08-28 and 0.1.2 dated 2026-10-02
BSTFA-0.1.0/BSTFA/data/out.sm.rda |only BSTFA-0.1.0/BSTFA/man/out.sm.Rd |only BSTFA-0.1.2/BSTFA/DESCRIPTION | 14 - BSTFA-0.1.2/BSTFA/MD5 | 67 +++++---- BSTFA-0.1.2/BSTFA/NAMESPACE | 5 BSTFA-0.1.2/BSTFA/R/BSTFA.R | 180 ++++++++++++++----------- BSTFA-0.1.2/BSTFA/R/BSTFAfull.R | 150 +++++++++++++------- BSTFA-0.1.2/BSTFA/R/bisquare_knots.R | 20 ++ BSTFA-0.1.2/BSTFA/R/bstfa_class_functions.R |only BSTFA-0.1.2/BSTFA/R/data-description.R | 37 ----- BSTFA-0.1.2/BSTFA/R/plot_fourier_bases.R | 2 BSTFA-0.1.2/BSTFA/R/posterior_diagnostics.R | 141 ++++++++++++------- BSTFA-0.1.2/BSTFA/R/posterior_inference.R | 179 +++++++++++++++++------- BSTFA-0.1.2/BSTFA/build/vignette.rds |binary BSTFA-0.1.2/BSTFA/data/out.sim.rda |only BSTFA-0.1.2/BSTFA/inst/doc/BSTFA-Vignette.R | 124 ++++++++--------- BSTFA-0.1.2/BSTFA/inst/doc/BSTFA-Vignette.Rmd | 146 +++++++++----------- BSTFA-0.1.2/BSTFA/inst/doc/BSTFA-Vignette.pdf |binary BSTFA-0.1.2/BSTFA/man/BSTFA.Rd | 50 +++--- BSTFA-0.1.2/BSTFA/man/BSTFAfull.Rd | 26 ++- BSTFA-0.1.2/BSTFA/man/bisquare2d.Rd | 4 BSTFA-0.1.2/BSTFA/man/coef.bstfa.Rd |only BSTFA-0.1.2/BSTFA/man/computeLogLik.Rd | 6 BSTFA-0.1.2/BSTFA/man/convergence_diag.Rd | 19 +- BSTFA-0.1.2/BSTFA/man/makeNewS.Rd | 5 BSTFA-0.1.2/BSTFA/man/map_spatial_param.Rd | 14 + BSTFA-0.1.2/BSTFA/man/out.sim.Rd |only BSTFA-0.1.2/BSTFA/man/plot.bstfa.Rd |only BSTFA-0.1.2/BSTFA/man/plot_annual.Rd | 6 BSTFA-0.1.2/BSTFA/man/plot_factor.Rd | 6 BSTFA-0.1.2/BSTFA/man/plot_fourier_bases.Rd | 2 BSTFA-0.1.2/BSTFA/man/plot_location.Rd | 9 - BSTFA-0.1.2/BSTFA/man/plot_spatial_param.Rd | 14 + BSTFA-0.1.2/BSTFA/man/plot_trace.Rd | 6 BSTFA-0.1.2/BSTFA/man/predictBSTFA.Rd | 6 BSTFA-0.1.2/BSTFA/man/print.bstfa.Rd |only BSTFA-0.1.2/BSTFA/man/summary.bstfa.Rd |only BSTFA-0.1.2/BSTFA/vignettes/BSTFA-Vignette.Rmd | 146 +++++++++----------- BSTFA-0.1.2/BSTFA/vignettes/references.bib | 2 39 files changed, 795 insertions(+), 591 deletions(-)
Title: Dynamic Effects from Single-Equation Time Series Models (with
Interactions)
Description: Autoregressive distributed lag (A[R]DL) models (and their reparameterized equivalent, the Generalized Error-Correction Model [GECM]) are the workhorse dynamic linear models in uncovering dynamic inferences. ADL models are simple to estimate; this is what makes them attractive. Once these models are estimated, what is less clear is how to uncover a rich set of dynamic inferences from these models. We provide tools for recovering those inferences. These tools apply to traditional time-series quantities of interest and are built from the Impulse Response Function and Step Response Function (sometimes described as a pulse effect or a cumulative effect). They also allow for a variety of shock histories to be applied to the independent variable (beyond just a one-time, one-unit increase) as well as the recovery of inferences in levels for shocks applied to (in)dependent variables in differences through the Generalized Dynamic Response Function. These tools are also available for the general [...truncated...]
Author: Soren Jordan [aut, cre, cph] ,
Garrett N. Vande Kamp [aut],
Reshi Rajan [aut]
Maintainer: Soren Jordan <sorenjordanpols@gmail.com>
Diff between tseffects versions 0.3.1 dated 2026-07-15 and 0.4.1 dated 2026-10-02
DESCRIPTION | 11 MD5 | 82 NAMESPACE | 1 R/tseffects.R | 1903 +++++++++++++------- inst/doc/tseffects-vignette.R | 10 inst/doc/tseffects-vignette.Rmd | 12 inst/doc/tseffects-vignette.html | 132 - inst/tseffects-manual.pdf |binary man/GDRF.adl.plot.Rd | 57 man/GDRF.dummy.checks.Rd | 22 man/GDRF.gecm.plot.Rd | 55 man/adl.dummy.checks.Rd | 21 man/adl.plot.Rd | 17 man/convolution.calculator.Rd |only man/gecm.dummy.checks.Rd | 27 man/gecm.plot.Rd | 23 man/gecm.to.adl.Rd | 4 man/general.calculator.Rd | 8 man/get.value.Rd | 7 man/inference.adjustr.Rd |only man/interact.adl.plot.Rd | 77 man/lrm.existr.Rd |only man/make.fill.scale.Rd |only man/mpoly.subber.Rd | 3 man/pulse.calculator.Rd | 6 man/shockr.and.cumr.Rd |only man/toy.ts.interaction.data.Rd | 2 man/what.to.return.Rd | 9 man/yhat.calculator.Rd | 33 tests/testthat/test-GDRF.adl.plot.R | 2026 +++++++++++++++------ tests/testthat/test-GDRF.dummy.checks.R | 158 + tests/testthat/test-GDRF.gecm.plot.R | 2521 ++++++++++++++++----------- tests/testthat/test-adl.dummy.checks.R | 463 ++-- tests/testthat/test-adl.plot.R | 52 tests/testthat/test-convolution.calculator.R |only tests/testthat/test-gecm.dummy.checks.R | 747 ++------ tests/testthat/test-gecm.plot.R | 56 tests/testthat/test-general.calculator.R | 48 tests/testthat/test-inference.adjustr.R |only tests/testthat/test-interact.adl.plot.R | 2256 ++++++++++++++++++++++-- tests/testthat/test-lrm.existr.R |only tests/testthat/test-make.fill.scale.R |only tests/testthat/test-mpoly.subber.R | 31 tests/testthat/test-shockr.and.cumr.R |only tests/testthat/test-what.to.return.R | 20 tests/testthat/test-yhat.calculator.R | 744 +++++++ vignettes/tseffects-vignette.Rmd | 12 47 files changed, 8043 insertions(+), 3613 deletions(-)
Title: Tools for Working with 'StreamCat' and 'LakeCat' Data
Description: Tools for using the 'StreamCat' and 'LakeCat' API and
interacting with the 'StreamCat' and 'LakeCat' database.
Convenience functions in the package wrap the API for 'StreamCat'
on <https://api.epa.gov/StreamCat/streams/metrics>.
Author: Marc Weber [aut, cre],
Ryan Hill [aut],
Selia Markley [aut],
Travis Hudson [aut],
Allen Brookes [aut],
David Rebhuhn [ctb],
Michael Dumelle [ctb],
Justin Bousquin [ctb],
Zachary Smith [ctb]
Maintainer: Marc Weber <weber.marc@epa.gov>
Diff between StreamCatTools versions 0.11.0 dated 2026-05-14 and 0.12.0 dated 2026-10-02
DESCRIPTION | 56 - LICENSE |only MD5 | 68 - NEWS.md | 9 R/count_metrics.R |only R/helper-api.R |only R/lc_get_comid.R | 53 - R/lc_get_data.R | 182 +++ R/lc_get_params.R | 11 R/sc_get_comid.R | 294 ++++- R/sc_get_data.R | 278 ++++- R/sc_get_params.R | 10 R/sc_plot.R | 9 R/zzz.R |only README.md | 34 build/vignette.rds |binary inst/LICENSE.md |only inst/doc/StartHere.Rmd | 20 inst/doc/StartHere.html | 1808 +++++------------------------------- man/dot-parse_comids.Rd |only man/lc_fullname.Rd | 3 man/lc_get_comid.Rd | 2 man/lc_get_metric_names.Rd | 2 man/lc_get_watershed.Rd | 170 +-- man/sc_fullname.Rd | 2 man/sc_get_comid.Rd | 85 + man/sc_get_metric_names.Rd | 2 tests/testthat/test-lc_get_params.R | 17 tests/testthat/test-lc_getdata.R | 7 tests/testthat/test-sc_get_comid.R | 14 tests/testthat/test-sc_get_nlcd.R | 2 tests/testthat/test-sc_get_params.R | 3 tests/testthat/test-sc_getdata.R | 13 vignettes/Articles/Applications.Rmd | 8 vignettes/Articles/Introduction.Rmd | 17 vignettes/Articles/LakeCat.Rmd | 39 vignettes/Articles/NNI.Rmd | 6 vignettes/StartHere.Rmd | 20 38 files changed, 1342 insertions(+), 1902 deletions(-)
More information about StreamCatTools at CRAN
Permanent link
Title: Access and Control LM Studio
Description: Run local Large Language Models (LLMs) over many texts from 'R'
without sending data to a third party. A community-maintained wrapper for
the 'LM Studio' command line interface and API that provides functions to
manage the local daemon and server, download and load models, and score,
label, or generate text at scale.
Author: Jeffrey Girard [aut, cph, cre]
Maintainer: Jeffrey Girard <me@jmgirard.com>
Diff between rlmstudio versions 0.2.2 dated 2026-05-05 and 0.3.0 dated 2026-10-02
rlmstudio-0.2.2/rlmstudio/inst/doc/getting-started.R |only rlmstudio-0.2.2/rlmstudio/inst/doc/headless-config.R |only rlmstudio-0.3.0/rlmstudio/DESCRIPTION | 20 rlmstudio-0.3.0/rlmstudio/MD5 | 213 rlmstudio-0.3.0/rlmstudio/NAMESPACE | 3 rlmstudio-0.3.0/rlmstudio/NEWS.md | 89 rlmstudio-0.3.0/rlmstudio/R/chat.R | 2611 +++++++++- rlmstudio-0.3.0/rlmstudio/R/chat_oop.R | 14 rlmstudio-0.3.0/rlmstudio/R/conditions.R |only rlmstudio-0.3.0/rlmstudio/R/daemon.R | 87 rlmstudio-0.3.0/rlmstudio/R/download.R | 311 - rlmstudio-0.3.0/rlmstudio/R/embed.R |only rlmstudio-0.3.0/rlmstudio/R/list.R | 484 + rlmstudio-0.3.0/rlmstudio/R/load.R | 238 rlmstudio-0.3.0/rlmstudio/R/rlmstudio-package.R | 8 rlmstudio-0.3.0/rlmstudio/R/score.R | 69 rlmstudio-0.3.0/rlmstudio/R/serve.R | 673 ++ rlmstudio-0.3.0/rlmstudio/R/setup.R | 80 rlmstudio-0.3.0/rlmstudio/R/token.R |only rlmstudio-0.3.0/rlmstudio/R/unload.R | 105 rlmstudio-0.3.0/rlmstudio/R/utils-api-error.R |only rlmstudio-0.3.0/rlmstudio/R/utils-args.R |only rlmstudio-0.3.0/rlmstudio/R/utils-token.R |only rlmstudio-0.3.0/rlmstudio/README.md | 17 rlmstudio-0.3.0/rlmstudio/build/vignette.rds |binary rlmstudio-0.3.0/rlmstudio/inst/doc/chat-options.Rmd |only rlmstudio-0.3.0/rlmstudio/inst/doc/chat-options.html |only rlmstudio-0.3.0/rlmstudio/inst/doc/getting-started.Rmd | 258 rlmstudio-0.3.0/rlmstudio/inst/doc/getting-started.html | 325 - rlmstudio-0.3.0/rlmstudio/inst/doc/headless-config.Rmd | 316 - rlmstudio-0.3.0/rlmstudio/inst/doc/headless-config.html | 355 - rlmstudio-0.3.0/rlmstudio/inst/doc/text-analysis.Rmd |only rlmstudio-0.3.0/rlmstudio/inst/doc/text-analysis.html |only rlmstudio-0.3.0/rlmstudio/man/check_lms_version.Rd | 3 rlmstudio-0.3.0/rlmstudio/man/has_lms.Rd | 7 rlmstudio-0.3.0/rlmstudio/man/install_lmstudio.Rd | 12 rlmstudio-0.3.0/rlmstudio/man/list_instances.Rd |only rlmstudio-0.3.0/rlmstudio/man/list_models.Rd | 210 rlmstudio-0.3.0/rlmstudio/man/lms_chat.Rd | 516 + rlmstudio-0.3.0/rlmstudio/man/lms_chat_batch.Rd | 577 ++ rlmstudio-0.3.0/rlmstudio/man/lms_chat_native.Rd | 303 + rlmstudio-0.3.0/rlmstudio/man/lms_chat_openai.Rd | 552 ++ rlmstudio-0.3.0/rlmstudio/man/lms_chat_openresponses.Rd | 449 + rlmstudio-0.3.0/rlmstudio/man/lms_daemon_start.Rd | 12 rlmstudio-0.3.0/rlmstudio/man/lms_daemon_stop.Rd | 31 rlmstudio-0.3.0/rlmstudio/man/lms_download.Rd | 189 rlmstudio-0.3.0/rlmstudio/man/lms_download_status.Rd | 176 rlmstudio-0.3.0/rlmstudio/man/lms_embed.Rd |only rlmstudio-0.3.0/rlmstudio/man/lms_load.Rd | 281 + rlmstudio-0.3.0/rlmstudio/man/lms_score_expected.Rd | 26 rlmstudio-0.3.0/rlmstudio/man/lms_server_ready.Rd |only rlmstudio-0.3.0/rlmstudio/man/lms_server_start.Rd | 93 rlmstudio-0.3.0/rlmstudio/man/lms_server_status.Rd | 12 rlmstudio-0.3.0/rlmstudio/man/lms_server_stop.Rd | 15 rlmstudio-0.3.0/rlmstudio/man/lms_unload.Rd | 115 rlmstudio-0.3.0/rlmstudio/man/lms_unload_all.Rd | 182 rlmstudio-0.3.0/rlmstudio/man/rlmstudio-conditions.Rd |only rlmstudio-0.3.0/rlmstudio/man/rlmstudio-package.Rd | 9 rlmstudio-0.3.0/rlmstudio/man/rlmstudio_token.Rd |only rlmstudio-0.3.0/rlmstudio/man/with_lms_daemon.Rd | 7 rlmstudio-0.3.0/rlmstudio/tests/testthat/chat_cutoff_live |only rlmstudio-0.3.0/rlmstudio/tests/testthat/chat_integration/localhost-1234/api/v1/models.json | 124 rlmstudio-0.3.0/rlmstudio/tests/testthat/chat_integration/localhost-1234/api/v1/models/load-829813-POST.json | 2 rlmstudio-0.3.0/rlmstudio/tests/testthat/chat_integration/localhost-1234/v1/responses-09410e-POST.json | 60 rlmstudio-0.3.0/rlmstudio/tests/testthat/chat_integration/localhost-1234/v1/responses-8a9847-POST.json | 16 rlmstudio-0.3.0/rlmstudio/tests/testthat/chat_schema_live |only rlmstudio-0.3.0/rlmstudio/tests/testthat/embed_live |only rlmstudio-0.3.0/rlmstudio/tests/testthat/fixtures |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-brace-probe.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-chat-bodies.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-conditions.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-json-forms.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-mock-http.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-ports.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/helper-skips.R | 17 rlmstudio-0.3.0/rlmstudio/tests/testthat/integration_e2e/localhost-1234/api/v1/models.json | 137 rlmstudio-0.3.0/rlmstudio/tests/testthat/integration_e2e/localhost-1234/api/v1/models/load-383040-POST.json | 2 rlmstudio-0.3.0/rlmstudio/tests/testthat/integration_e2e/localhost-1234/v1/responses-18c3cb-POST.json | 8 rlmstudio-0.3.0/rlmstudio/tests/testthat/list_instances |only rlmstudio-0.3.0/rlmstudio/tests/testthat/list_models/localhost-1234/api/v1/models.json | 127 rlmstudio-0.3.0/rlmstudio/tests/testthat/mismatch_live |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-api-error.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-arg-guards.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-bare-body.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-batch-native-logprobs.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-batch-repeated-args.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-body-parse.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-body-write.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-batch-cut-off.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-batch-usage.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-batch.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-body-parse.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-dot-clash.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-first-choice.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat-schema.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-chat.R | 687 ++ rlmstudio-0.3.0/rlmstudio/tests/testthat/test-cli-output.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-daemon.R | 35 rlmstudio-0.3.0/rlmstudio/tests/testthat/test-download.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-embed.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-flag-args.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-input-length.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-integration.R | 10 rlmstudio-0.3.0/rlmstudio/tests/testthat/test-list-args.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-list-instances.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-list.R | 22 rlmstudio-0.3.0/rlmstudio/tests/testthat/test-load-download-shape.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-load.R | 38 rlmstudio-0.3.0/rlmstudio/tests/testthat/test-long-prompts.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-mock-http-helper.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-model-check.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-model-list-shape.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-name-faults.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-ports.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-score.R | 168 rlmstudio-0.3.0/rlmstudio/tests/testthat/test-serve.R | 868 +++ rlmstudio-0.3.0/rlmstudio/tests/testthat/test-server-ready.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-setup.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-skip-helpers.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-store.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-thread.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-token-hint.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-token-rejected.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-token-wrappers.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-token.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-ttl.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-unload.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-utils-args.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-vignette-claims.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/test-vignette-knit.R |only rlmstudio-0.3.0/rlmstudio/tests/testthat/thread_live |only rlmstudio-0.3.0/rlmstudio/vignettes/chat-options.Rmd |only rlmstudio-0.3.0/rlmstudio/vignettes/getting-started.Rmd | 258 rlmstudio-0.3.0/rlmstudio/vignettes/headless-config.Rmd | 316 - rlmstudio-0.3.0/rlmstudio/vignettes/text-analysis.Rmd |only 135 files changed, 11319 insertions(+), 1629 deletions(-)
Title: Asynchronous 'gRPC' Client and Server Runtime
Description: A first-class asynchronous 'gRPC' <https://grpc.io/> runtime
built on the generic asynchronous 'C++' API ('GenericStub',
'AsyncGenericService') <https://grpc.github.io/grpc/cpp/>. Requests and
responses cross the native boundary as method names plus opaque byte
buffers; 'RProtoBuf' supplies and consumes the bytes, so schemas are
loaded at runtime and no generated service stubs are required. Native
completion threads never call the R API: completions are queued natively
and delivered in batches on the R main thread. Complements 'RProtoBuf'
rather than replacing it. Links against the system 'gRPC' library for
'C++'.
Author: Troy Hernandez [aut, cre] ,
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between rgrpc versions 0.1.1 dated 2026-09-17 and 0.1.2 dated 2026-10-02
DESCRIPTION | 19 +- MD5 | 100 +++++----- NAMESPACE | 1 NEWS.md | 40 ++++ R/client.R | 252 ++++++++++++++------------- R/generics.R | 350 +++++++++++++++++++------------------- R/rgrpc-package.R | 20 ++ R/server.R | 284 +++++++++++++++--------------- R/shim.R | 19 +- R/tls.R | 42 ++-- README.md | 6 build/partial.rdb |binary configure | 105 +++++++++-- inst/tinytest/test_await.R | 2 inst/tinytest/test_await_server.R | 2 inst/tinytest/test_cleanup.R | 2 inst/tinytest/test_client.R | 2 inst/tinytest/test_cri.R | 2 inst/tinytest/test_dispatch.R | 2 inst/tinytest/test_fencing.R | 2 inst/tinytest/test_grpc.R | 10 - inst/tinytest/test_keepalive.R | 2 inst/tinytest/test_poll.R | 2 inst/tinytest/test_proto.R | 2 inst/tinytest/test_server.R | 2 inst/tinytest/test_services.R | 2 inst/tinytest/test_stream.R | 2 inst/tinytest/test_tls.R | 51 +++-- man/grpc_available.Rd |only man/grpc_await.Rd | 74 ++++---- man/grpc_call.Rd | 64 +++--- man/grpc_cancel.Rd | 60 +++--- man/grpc_client.Rd | 54 +++-- man/grpc_close.Rd | 12 - man/grpc_fd.Rd | 18 + man/grpc_finish.Rd | 90 ++++----- man/grpc_pending.Rd | 48 ++--- man/grpc_poll.Rd | 56 +++--- man/grpc_read.Rd | 58 +++--- man/grpc_reply.Rd | 68 +++---- man/grpc_send.Rd | 78 ++++---- man/grpc_server.Rd | 52 ++--- man/grpc_server_port.Rd | 12 - man/grpc_state.Rd | 42 ++-- man/grpc_stream.Rd | 78 ++++---- man/grpc_version.Rd | 2 man/grpc_writes_done.Rd | 56 +++--- src/Makevars.in | 1 src/Makevars.win | 3 src/init.cpp |only src/routines.h |only src/shim.cpp | 104 +++-------- src/stub.cpp |only 53 files changed, 1302 insertions(+), 1053 deletions(-)
Title: Weighting All of Us
Description: Utilities for using a probability sample to reweight prevalence estimates calculated from the All of Us research program. Weighted estimates will still not be representative of the general U.S. population. However, they will provide an early indication for how unweighted estimates may be biased by the sampling bias in the All of Us sample.
Author: Daniel Brannock [aut, cre] ,
Mahmoud Elkasabi [aut] ,
Barrett Montgomery [aut]
Maintainer: Daniel Brannock <mbrannock@rti.org>
Diff between waou versions 0.1.0 dated 2025-09-15 and 0.1.1 dated 2026-10-02
DESCRIPTION | 16 ++++++++----- MD5 | 26 +++++++++++----------- NAMESPACE | 36 +++++++++++++++++++------------ NEWS.md | 4 +++ R/calculate_weights.R | 22 +++++++++++++++---- R/extract_totals.R | 1 R/summarize.R | 44 +++++++++++++++++++++++++++++++------- R/variable_selection.R | 6 ----- R/visualize.R | 22 +++++++++++++++---- man/calculate_weights.Rd | 18 +++++++++++++-- man/plot_prevalence.Rd | 22 +++++++++++++++---- man/select_variables.Rd | 6 ----- man/summarize_results.Rd | 20 ++++++++++++++--- man/summarize_results_by_group.Rd | 22 +++++++++++++++---- 14 files changed, 192 insertions(+), 73 deletions(-)
Title: Health Geography Toolbox for Model-Based Analysis of Infections
Panel Data
Description: Within epidemic outbreaks, infections grow and decline differently between regions, and the velocity of spatial spread differs between countries. The swash library offers a set of model-based analyses for these topics. Spread velocity may be analysed with the Swash-Backwash Model for the Single Epidemic Wave and corresponding functions for bootstrap confidence intervals, country comparison, and visualization of results. Differences in epidemic growth between regions may be analysed using logistic growth models, exponential growth models, Hawkes processes and breakpoint analyses. Cluster and hotspot analyses can be conducted using neighborhood matrices. All functionalities are accessed by the class "infpan" for infections panel data defined in this package, which is built from a data.frame provided by the user.
Author: Thomas Wieland [aut, cre]
Maintainer: Thomas Wieland <geowieland@googlemail.com>
Diff between swash versions 2.0.2 dated 2026-08-30 and 3.0.0 dated 2026-10-02
DESCRIPTION | 12 MD5 | 42 NAMESPACE | 17 NEWS.md | 17 R/config.R |only R/growthmodels.R |only R/helper.R |only R/infpan.R |only R/nbmat.R |only R/stathelp.R |only R/swash.R | 4860 ----------------------------------- data/K4kant20260101gf_ch2007Poly.rda |only data/datalist | 1 man/K4kant20260101gf_ch2007Poly.Rd |only man/RKI_Corona_counties.Rd | 28 man/add_geodata-method.Rd |only man/add_geodata.Rd |only man/getisord-method.Rd |only man/getisord.Rd |only man/gstar-method.Rd |only man/gstar.Rd |only man/infpan-class.Rd | 4 man/moran-method.Rd |only man/moran.Rd |only man/nbmatrix-class.Rd |only man/nbmatrix.Rd | 69 man/nbstat-method.Rd |only man/nbstat.Rd | 81 man/plot-methods.Rd | 24 man/plot_map-method.Rd |only man/plot_map.Rd |only man/spatial_statistic-method.Rd |only man/spatial_statistic.Rd |only 33 files changed, 245 insertions(+), 4910 deletions(-)
Title: Partitioning of Individual Autozygosity into Multiple
Homozygous-by-Descent Classes
Description: Functions to identify Homozygous-by-Descent (HBD) segments associated with runs of homozygosity (ROH) and to
estimate individual autozygosity (or inbreeding coefficient). HBD segments and autozygosity are assigned to multiple HBD classes
with a model-based approach relying on a mixture of exponential distributions. The rate of the exponential distribution is distinct
for each HBD class and defines the expected length of the HBD segments. This rate is called the "rate of coancestry change". The HBD
classes are therefore related to the age of the segments (longer segments and smaller rates for recent autozygosity / recent common
ancestor). The functions allow to estimate the parameters of the model (rates of the exponential distributions called also rates of
coancestry change; mixing proportions related to the inbreeding rate per layer or generation), to estimate global and local
autozygosity probabilities and to identify HBD segments with the Viterbi decoding. Functions also allow to co [...truncated...]
Author: Tom Druet [aut, cre],
Naveen Kumar Kadri [aut],
Natalia Forneris [ctb],
Pierre Faux [ctb],
Amandine Bertrand [ctb],
Mathieu Gautier [aut]
Maintainer: Tom Druet <tom.druet@uliege.be>
Diff between RZooRoH versions 0.4.1 dated 2025-06-08 and 0.4.2 dated 2026-10-02
RZooRoH-0.4.1/RZooRoH/build/partial.rdb |only RZooRoH-0.4.2/RZooRoH/DESCRIPTION | 27 + RZooRoH-0.4.2/RZooRoH/MD5 | 78 ++-- RZooRoH-0.4.2/RZooRoH/NAMESPACE | 3 RZooRoH-0.4.2/RZooRoH/NEWS.md |only RZooRoH-0.4.2/RZooRoH/R/RZooRoH-package.R | 2 RZooRoH-0.4.2/RZooRoH/R/lib_kl.R | 2 RZooRoH-0.4.2/RZooRoH/R/lib_mixkl.R | 15 RZooRoH-0.4.2/RZooRoH/R/param_function.R | 73 +++- RZooRoH-0.4.2/RZooRoH/R/prob_emission.R | 36 +- RZooRoH-0.4.2/RZooRoH/R/read_zdata.R | 314 ++++++++++++++----- RZooRoH-0.4.2/RZooRoH/R/zookin.R | 130 ++++++-- RZooRoH-0.4.2/RZooRoH/R/zookin_accessor.R | 139 ++++++++ RZooRoH-0.4.2/RZooRoH/R/zooroh.R | 322 +++++++++++++++----- RZooRoH-0.4.2/RZooRoH/R/zooroh_accessor.R | 280 +++++++++++++++-- RZooRoH-0.4.2/RZooRoH/R/zooroh_model.R | 32 - RZooRoH-0.4.2/RZooRoH/inst/CITATION | 110 ++++-- RZooRoH-0.4.2/RZooRoH/inst/doc/zooroh-vignette.R | 41 ++ RZooRoH-0.4.2/RZooRoH/inst/doc/zooroh-vignette.Rmd | 241 ++++++++++++-- RZooRoH-0.4.2/RZooRoH/inst/doc/zooroh-vignette.pdf |binary RZooRoH-0.4.2/RZooRoH/man/ComputeFseg.Rd |only RZooRoH-0.4.2/RZooRoH/man/ComputeFsegAllT.Rd |only RZooRoH-0.4.2/RZooRoH/man/RZooRoH-package.Rd | 56 ++- RZooRoH-0.4.2/RZooRoH/man/merge_kinres.Rd |only RZooRoH-0.4.2/RZooRoH/man/merge_zres.Rd | 22 + RZooRoH-0.4.2/RZooRoH/man/update_kinres.Rd |only RZooRoH-0.4.2/RZooRoH/man/update_zres.Rd | 27 + RZooRoH-0.4.2/RZooRoH/man/zoodata.Rd | 173 ++++++---- RZooRoH-0.4.2/RZooRoH/man/zookin.Rd | 101 ++++-- RZooRoH-0.4.2/RZooRoH/man/zoomodel.Rd | 32 - RZooRoH-0.4.2/RZooRoH/man/zoorun.Rd | 99 ++++-- RZooRoH-0.4.2/RZooRoH/src/RZooRoH_init.c | 35 ++ RZooRoH-0.4.2/RZooRoH/src/getfreq.c |only RZooRoH-0.4.2/RZooRoH/src/getfreqem.c |only RZooRoH-0.4.2/RZooRoH/src/malloc_trim.c |only RZooRoH-0.4.2/RZooRoH/src/set_na_to_zero_inplace.c |only RZooRoH-0.4.2/RZooRoH/src/zoolayerFB.f90 | 2 RZooRoH-0.4.2/RZooRoH/src/zoosumlayerFB.f90 | 54 ++- RZooRoH-0.4.2/RZooRoH/src/zoosumlayerFB2.f90 | 51 ++- RZooRoH-0.4.2/RZooRoH/src/zoosumlayerViterbi.f90 | 43 ++ RZooRoH-0.4.2/RZooRoH/src/zoosumlayerViterbi2.f90 | 48 ++ RZooRoH-0.4.2/RZooRoH/src/zoosumlayerlik.f90 | 40 ++ RZooRoH-0.4.2/RZooRoH/src/zoosumlayerlik2.f90 | 38 ++ RZooRoH-0.4.2/RZooRoH/tests/testthat/test1.R | 14 RZooRoH-0.4.2/RZooRoH/vignettes/zooroh-vignette.Rmd | 241 ++++++++++++-- 45 files changed, 2265 insertions(+), 656 deletions(-)
Title: Package Checks for 'rOpenSci'
Description: Check whether a package is ready for submission to the 'rOpenSci'
peer review system ('rOpenSci' authors (2026) <doi:10.5281/zenodo.2553043>
"'rOpenSci' Packages: Development, Maintenance, and Peer Review").
Incorporates the 'goodpractice' package and many additional checks,
including aspects related to maintenance of online public code
repositories.
Author: Mark Padgham [aut, cre] ,
Maelle Salmon [aut],
Jacob Wujciak-Jens [aut] ,
Kelli F. Johnson [ctb] ,
Eunseop Kim [aut] ,
Katrina Brock [ctb] ,
Andy Teucher [aut] ,
Eric R. Scott [aut]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between pkgcheck versions 0.3.1 dated 2026-09-28 and 0.3.2 dated 2026-10-02
DESCRIPTION | 6 - MD5 | 52 ++++++------ NEWS.md | 24 +++++ R/check-ci.R | 12 +- R/check-orcid-ror.R | 9 +- R/check-uses-dontrun.R | 20 ++-- R/format-checks.R | 7 - R/pkgcheck-info.R | 4 R/pkgcheck-methods.R | 78 ++++++++++--------- README.md | 28 ++++-- inst/doc/autotest-pkgcheck-gp.html | 4 inst/doc/environment.html | 4 inst/doc/extending-checks.R | 3 inst/doc/extending-checks.Rmd | 10 -- inst/doc/extending-checks.html | 13 --- inst/doc/list-checks.html | 4 tests/testthat/_snaps/check-uses-dontrun.md | 12 ++ tests/testthat/_snaps/extra-checks/checks-extra.html | 21 +++++ tests/testthat/_snaps/extra-checks/checks-extra.md | 25 ++++++ tests/testthat/_snaps/extra-checks/checks-print.md | 42 ++++++---- tests/testthat/_snaps/pkgcheck/checks0.html | 13 +++ tests/testthat/_snaps/pkgcheck/checks0.md | 18 ++++ tests/testthat/_snaps/pkgcheck/checks1.html | 13 +++ tests/testthat/_snaps/pkgcheck/checks1.md | 18 ++++ tests/testthat/test-check-ci.R | 10 +- tests/testthat/test-check-uses-dontrun.R | 4 vignettes/extending-checks.Rmd | 10 -- 27 files changed, 305 insertions(+), 159 deletions(-)
Title: Copula Mixed Models for Multivariate Meta-Analysis of Diagnostic
Test Accuracy Studies
Description: The bivariate copula mixed model for meta-analysis of diagnostic test accuracy studies in Nikoloulopoulos (2015) <doi:10.1002/sim.6595> and Nikoloulopoulos (2018) <doi:10.1007/s10182-017-0299-y>. The vine copula mixed model for meta-analysis of diagnostic test accuracy studies accounting for disease prevalence in Nikoloulopoulos (2017) <doi:10.1177/0962280215596769> and also accounting for non-evaluable subjects in Nikoloulopoulos (2020) <doi:10.1515/ijb-2019-0107>. The hybrid vine copula mixed model for meta-analysis of diagnostic test accuracy case-control and cohort studies in Nikoloulopoulos (2018) <doi:10.1177/0962280216682376>. The D-vine copula mixed model for meta-analysis and comparison of two diagnostic tests in Nikoloulopoulos (2019) <doi:10.1177/0962280218796685>. The multinomial quadrivariate D-vine copula mixed model for meta-analysis of diagnostic tests with non-evaluable subjects in Nikoloulopoulos (2020) <doi:10.1177/0962280220913 [...truncated...]
Author: Aristidis K. Nikoloulopoulos [aut, cre]
Maintainer: Aristidis K. Nikoloulopoulos <A.Nikoloulopoulos@uea.ac.uk>
Diff between CopulaREMADA versions 1.7.5 dated 2025-05-27 and 1.8.1 dated 2026-10-02
DESCRIPTION | 10 +++++----- MD5 | 11 ++++++++--- NAMESPACE | 2 +- R/network-beta.R |only R/network-norm.R |only data/DVT.rda |only man/CopulaREMADA-package.Rd | 9 ++++++--- man/DVT.Rd |only man/networkVineCopulaREMADA.Rd |only 9 files changed, 20 insertions(+), 12 deletions(-)
Title: Streamline Bioacoustic Analysis
Description: Functions aiming to facilitate the analysis of the structure of animal acoustic signals in 'R'. 'warbleR' makes use of the basic sound analysis tools from the packages 'tuneR' and 'seewave', and offers new tools for exploring and quantifying acoustic signal structure. The package allows users to organize and manipulate multiple sound files, create spectrograms of complete recordings or individual signals in different formats, run several measures of acoustic structure, and characterize different structural levels in acoustic signals (Araya-Salas and Smith-Vidaurre 2017 <doi:10.1111/2041-210X.12624>).
Author: Marcelo Araya-Salas [aut, cre] ,
Grace Smith-Vidaurre [aut]
Maintainer: Marcelo Araya-Salas <marcelo.araya@ucr.ac.cr>
Diff between warbleR versions 1.1.37 dated 2025-10-22 and 1.1.38 dated 2026-10-02
DESCRIPTION | 28 - MD5 | 92 ++-- NAMESPACE | 5 NEWS.md | 12 R/RcppExports.R | 15 R/acoustic_activity.R | 225 +++++++---- R/consolidate.R | 2 R/deprec_funs.R | 9 R/fix_wavs.R | 6 R/internal_functions.R | 45 -- R/mp32wav.R | 15 R/query_xc.R | 62 +-- R/read_sound_file.R | 17 R/spectro_analysis.R | 2 R/test_coordination.R | 647 +++++++++++++++++++-------------- R/warbleR-package.R | 7 R/xc_maps.R | 54 -- README.md | 225 ++++++----- build/vignette.rds |binary data/comp_matrix.rda |binary data/lbh_selec_table.rda |binary data/sim_coor_sing.rda |binary data/sth_annotations.rda |binary inst/CITATION | 23 - inst/doc/a_warbleR.Rmd | 5 inst/doc/a_warbleR.html | 87 +--- inst/doc/b_annotation_data_format.R | 11 inst/doc/b_annotation_data_format.Rmd | 13 inst/doc/b_annotation_data_format.html | 42 +- inst/doc/c_warbleR_workflow_02.R | 9 inst/doc/c_warbleR_workflow_02.Rmd | 13 inst/doc/c_warbleR_workflow_02.html | 30 - man/acoustic_activity.Rd | 13 man/envelope.Rd | 8 man/map_xc.Rd | 53 -- man/mp32wav.Rd | 9 man/querxc.Rd | 12 man/query_xc.Rd | 65 +-- man/read_sound_file.Rd | 15 man/spectro_analysis.Rd | 2 man/test_coordination.Rd | 47 ++ man/warbleR.Rd | 4 src/envelope.cpp | 36 - vignettes/a_warbleR.Rmd | 5 vignettes/b_annotation_data_format.Rmd | 13 vignettes/c_warbleR_workflow_02.Rmd | 13 vignettes/function_descrip_table.csv | 2 47 files changed, 1020 insertions(+), 978 deletions(-)
Title: Tree-Spatial Scan Statistic for Cluster Detection
Description: Implements the tree-spatial scan statistic for detecting clusters
that combine both spatial and hierarchical structures, as proposed by
Cancado et al. (2025) <doi:10.1007/s10651-025-00670-w>. The method extends
Kulldorff (1997) <doi:10.1080/03610929708831995> circular spatial scan
statistic and the tree-based scan statistic of Kulldorff et al. (2003)
<doi:10.1111/1541-0420.00039> by searching for anomalies in both
geographic regions and branches of hierarchical trees simultaneously. The
package also provides standalone implementations of Kulldorff's circular
spatial scan statistic and the tree-based scan statistic. Statistical
significance is assessed via Monte Carlo simulation under a Poisson or
binomial model, with optional 'OpenMP' parallelization.
Author: Allan Quadros [aut, cre] ,
Andre L. F. Cancado [aut]
Maintainer: Allan Quadros <allanvcq@gmail.com>
Diff between treeSS versions 0.2.6 dated 2026-07-28 and 0.2.9 dated 2026-10-02
DESCRIPTION | 10 - MD5 | 63 ++++--- NAMESPACE | 16 + NEWS.md | 99 +++++++++-- R/accessors.R |only R/circular_scan.R | 2 R/csr_helpers.R | 2 R/filter_clusters.R | 61 ++++-- R/plot.R |only R/print.R | 33 +++ R/sequential_scan.R | 10 - R/tree_scan.R | 3 R/treespatial_scan.R | 2 R/vector_inputs.R | 2 README.md | 2 inst/doc/florida.R | 342 +++++++++++++++++++------------------- inst/doc/florida.Rmd | 8 inst/doc/florida.html | 10 - inst/doc/introduction.R | 172 +++++++++---------- inst/doc/introduction.Rmd | 10 - inst/doc/introduction.html | 10 - inst/examples/example_brazil_rj.R | 2 inst/examples/example_chicago.R | 2 inst/examples/example_florida.R | 2 man/filter_clusters.Rd | 16 + man/most_likely_cluster.Rd |only man/plot.tree_scan.Rd |only man/plot.treess.Rd |only man/print.treespatial_scan.Rd | 2 man/pvalue.Rd |only man/secondary_clusters.Rd |only man/sequential_scan.Rd | 4 man/treeSS-package.Rd | 1 tests/testthat/test-accessors.R |only tests/testthat/test-plot.R |only vignettes/florida.Rmd | 8 vignettes/introduction.Rmd | 10 - 37 files changed, 534 insertions(+), 370 deletions(-)
Title: Connect to ODBC Compatible Databases (using the DBI Interface)
Description: A DBI-compatible interface to ODBC databases.
Author: Jim Hester [aut],
Hadley Wickham [aut, cre],
Oliver Gjoneski [aut],
Simon Couch [aut],
lexicalunit [cph] ,
Google Inc. [cph] ,
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between odbc versions 1.7.1 dated 2026-09-16 and 1.7.2 dated 2026-10-02
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- NEWS.md | 9 +++++++++ R/connection-pane.R | 20 ++++++++------------ R/dbi-table.R | 4 ++-- R/driver-databricks.R | 4 ++-- R/driver-teradata.R | 3 +-- R/utils.R | 19 ++++++++----------- inst/doc/develop.Rmd | 2 +- inst/doc/develop.html | 5 +++-- src/nanodbc/nanodbc.cpp | 4 +++- tests/testthat/test-driver-mysql.R | 2 +- tests/testthat/test-driver-postgres.R | 3 +-- tests/testthat/test-driver-sql-server.R | 11 ++++------- vignettes/develop.Rmd | 2 +- 15 files changed, 62 insertions(+), 62 deletions(-)
Title: Web Interface to 'R' Functions
Description: Web front end for your 'R' functions producing plots or tables.
If you have a function or set of related functions, you can make them
available over the internet through a web browser. This is the same
motivation as the 'shiny' package, but note that the development of
'shinylight' is not in any way linked to that of 'shiny' (beyond the use of
the 'httpuv' package). You might prefer 'shinylight' to 'shiny' if you want
a lighter weight deployment with easier horizontal scaling, or if you want
to develop your front end yourself in JavaScript and HTML just using
a lightweight remote procedure call interface to your R code on the
server.
Author: Pieter Vermeesch [aut],
Tim Band [aut, cre]
Maintainer: Tim Band <t.band@ucl.ac.uk>
Diff between shinylight versions 1.2 dated 2024-04-22 and 1.3 dated 2026-10-02
DESCRIPTION | 12 +-- MD5 | 94 +++++++++++++-------------- R/shinylight.R | 5 - README.md | 19 +++++ man/framework.shinylightFrameworkStart.Rd | 8 +- man/runR.Rd | 2 man/shinylight.call.Rd | 18 ++--- man/shinylight.makeTable.Rd | 14 ++-- man/shinylight.passToOther.Rd | 8 +- man/shinylight.runR.Rd | 18 ++--- man/shinylight.setElementJson.Rd | 8 +- man/shinylight.setElementPlot.Rd | 8 +- man/shinylight.setElementText.Rd | 8 +- man/shinylight.setGridResult.Rd | 8 +- man/shinylight.setGridResultWithNamedRows.Rd | 8 +- man/toolkit.all.Rd | 8 +- man/toolkit.any.Rd | 8 +- man/toolkit.banner.Rd | 14 ++-- man/toolkit.button.Rd | 16 ++-- man/toolkit.deref.Rd | 16 ++-- man/toolkit.footer.Rd | 14 ++-- man/toolkit.forEach.Rd | 8 +- man/toolkit.groupTitle.Rd | 8 +- man/toolkit.header.Rd | 14 ++-- man/toolkit.image.Rd | 12 +-- man/toolkit.leftSideBar.Rd | 14 ++-- man/toolkit.loadFileButton.Rd | 18 ++--- man/toolkit.makeLabel.Rd | 18 ++--- man/toolkit.nonScrollingWrapper.Rd | 16 ++-- man/toolkit.optionsPage.Rd | 6 - man/toolkit.overlay.Rd | 14 ++-- man/toolkit.pages.Rd | 16 ++-- man/toolkit.paramBoolean.Rd | 20 ++--- man/toolkit.paramColor.Rd | 20 ++--- man/toolkit.paramFloat.Rd | 24 +++--- man/toolkit.paramInteger.Rd | 24 +++--- man/toolkit.paramSelector.Rd | 24 +++--- man/toolkit.paramText.Rd | 22 +++--- man/toolkit.preformattedText.Rd | 16 ++-- man/toolkit.progressBar.Rd | 6 - man/toolkit.rightSideBar.Rd | 14 ++-- man/toolkit.scrollingWrapper.Rd | 16 ++-- man/toolkit.setAsBody.Rd | 6 - man/toolkit.stack.Rd | 12 +-- man/toolkit.staticText.Rd | 16 ++-- man/toolkit.verticalDivide.Rd | 16 ++-- man/toolkit.whenQuiet.Rd | 14 ++-- man/toolkit.withTimeout.Rd | 12 +-- 48 files changed, 367 insertions(+), 353 deletions(-)
Title: Query 'SWI'-'Prolog' from R
Description: This R package connects to SWI-Prolog, <https://www.swi-prolog.org/>, so that R can send deterministic and non-deterministic queries to prolog (consult, query/submit, once, findall).
Author: Matthias Gondan [aut, com, cre] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
This is a re-admission after prior archival of version 0.9.28 dated 2026-06-25
Diff between rolog versions 0.9.28 dated 2026-06-25 and 0.9.29 dated 2026-10-02
DESCRIPTION | 14 +++---- MD5 | 22 ++++++------ NEWS.md | 4 ++ R/RcppExports.R | 4 ++ R/consult.R | 4 +- R/usemodule.R |only inst/doc/rolog.R | 6 +++ inst/doc/rolog.Rmd | 9 ++++ inst/doc/rolog.html | 82 +++++++++++++++++++++++++------------------- man/usemodule.Rd |only src/RcppExports.cpp | 12 ++++++ src/rolog.cpp | 95 +++++++++++++++++++++++++++++++++++++++++++++++----- vignettes/rolog.Rmd | 9 ++++ 13 files changed, 196 insertions(+), 65 deletions(-)
Title: Searching for Optimal MDS Procedure for Metric, Nonmetric and
Interval-Valued Data
Description: Selecting the optimal multidimensional scaling (MDS) procedure for metric data via metric MDS (ratio, interval, mspline) and nonmetric MDS (ordinal). Selecting the optimal multidimensional scaling (MDS) procedure for interval-valued data via metric MDS (ratio, interval, mspline).Selecting the optimal multidimensional scaling procedure for interval-valued data by varying all combinations of normalization and optimization methods.Selecting the optimal MDS procedure for statistical data referring to the evaluation of tourist attractiveness of Lower Silesian counties.
(Borg, I., Groenen, P.J.F., Mair, P. (2013) <doi:10.1007/978-3-642-31848-1>,
Dehnel, G., Walesiak, M. (2019) <doi:10.21307/stattrans-2019-014>,
Walesiak, M. (2016) <doi:10.15611/ekt.2016.2.01>,
Walesiak, M. (2017) <doi:10.15611/ekt.2017.3.01>),
Walesiak, M., Dehnel, G. (2020) <doi:10.3390/su12187664>,
Walesiak, M., Dehnel, G., Dudek, A. (2025) <doi:10.15611/aoe.2025.1.12>,
Walesiak, M., Deh [...truncated...]
Author: Marek Walesiak [aut] ,
Andrzej Dudek [aut, cre]
Maintainer: Andrzej Dudek <andrzej.dudek@ue.wroc.pl>
Diff between mdsOpt versions 0.7-7 dated 2025-06-27 and 0.8-1 dated 2026-10-02
DESCRIPTION | 20 ++++-- MD5 | 34 +++++++---- NAMESPACE | 7 +- R/findOptimalIscalInterval.r |only R/ispb.r |only R/optIscalInterval.r |only build/partial.rdb |binary build/vignette.rds |binary inst/doc/mdsOpt.pdf |binary man/IMDS.rd |only man/drawIsoquants.rd | 12 +++- man/findOptimalIscalInterval.rd |only man/findOptimalSmacofSym.rd | 12 +++- man/iddistBox.rd |only man/ispb.rd |only man/optIscalInterval.rd |only man/optSmacofSymInterval.rd | 14 ++++ man/optSmacofSym_mMDS.rd | 118 ++++++++++++++++++++++++++++++++++++++-- man/optSmacofSym_nMDS.rd | 12 +++- man/plot.imds.rd |only man/rotation2dAnimation.rd | 14 +++- src |only 22 files changed, 208 insertions(+), 35 deletions(-)
Title: Create Vector Tiles from Spatial Data
Description: Create vector tile archives in 'PMTiles' format from 'sf' spatial
data frames. Supports 'Mapbox Vector Tile' ('MVT') and 'MapLibre Tile'
('MLT') output formats. Uses a 'Rust' backend via 'extendr' for fast,
in-memory tiling with zero external system dependencies.
Author: Kyle Walker [aut, cre],
Mapbox [cph] ),
Vladimir Agafonkin [cph] )
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between freestiler versions 0.2.0 dated 2026-06-24 and 0.3.0 dated 2026-10-02
freestiler-0.2.0/freestiler/src/rust/freestiler-core/examples |only freestiler-0.3.0/freestiler/DESCRIPTION | 22 freestiler-0.3.0/freestiler/LICENSE.note |only freestiler-0.3.0/freestiler/MD5 | 72 freestiler-0.3.0/freestiler/NEWS.md | 88 freestiler-0.3.0/freestiler/R/build-support.R |only freestiler-0.3.0/freestiler/R/clustering.R |only freestiler-0.3.0/freestiler/R/freestile.R | 162 freestiler-0.3.0/freestiler/R/freestile_h3.R | 286 + freestiler-0.3.0/freestiler/R/serve.R | 68 freestiler-0.3.0/freestiler/inst |only freestiler-0.3.0/freestiler/man/freestile_file.Rd | 32 freestiler-0.3.0/freestiler/man/freestile_h3.Rd | 35 freestiler-0.3.0/freestiler/man/freestile_query.Rd | 11 freestiler-0.3.0/freestiler/man/freestiler-package.Rd | 11 freestiler-0.3.0/freestiler/man/view_h3_tiles.Rd | 6 freestiler-0.3.0/freestiler/src/rust/Cargo.lock | 183 - freestiler-0.3.0/freestiler/src/rust/Cargo.toml | 4 freestiler-0.3.0/freestiler/src/rust/freestiler-core/Cargo.lock | 258 - freestiler-0.3.0/freestiler/src/rust/freestiler-core/Cargo.toml | 7 freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/categorical_cluster.rs |only freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/cluster_output.rs |only freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/engine.rs | 279 - freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/file_input.rs | 190 - freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/lib.rs | 3 freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/mvt.rs | 164 freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/pmtiles_writer.rs | 600 ++- freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/streaming.rs | 1758 ++++++++-- freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/supercluster |only freestiler-0.3.0/freestiler/src/rust/freestiler-core/src/tiler.rs | 20 freestiler-0.3.0/freestiler/src/rust/src/lib.rs | 42 freestiler-0.3.0/freestiler/src/rust/vendor.tar.xz |binary freestiler-0.3.0/freestiler/tests/fixtures |only freestiler-0.3.0/freestiler/tests/testthat/test-build-support.R |only freestiler-0.3.0/freestiler/tests/testthat/test-categorical-clustering.R |only freestiler-0.3.0/freestiler/tests/testthat/test-file-input.R | 14 freestiler-0.3.0/freestiler/tests/testthat/test-h3.R | 108 freestiler-0.3.0/freestiler/tests/testthat/test-overwrite.R |only freestiler-0.3.0/freestiler/tests/testthat/test-query-reprojection.R |only freestiler-0.3.0/freestiler/tests/testthat/test-query.R | 2 freestiler-0.3.0/freestiler/tests/testthat/test-serve.R |only freestiler-0.3.0/freestiler/tools/config.R | 32 42 files changed, 3438 insertions(+), 1019 deletions(-)
Title: Comparative Shortest Path Forest Stand Segmentation from LiDAR
Data
Description: Functionality for segmenting individual trees from a forest stand scanned with a close-range (e.g., terrestrial or mobile) laser scanner. The complete workflow from a raw point cloud to a complete tabular forest inventory is provided. The package contains several algorithms for detecting tree bases and a graph-based algorithm to attach all remaining points to these tree bases. It builds heavily on the 'lidR' package. A description of the segmentation algorithm can be found in Larysch et al. (2025) <doi:10.1007/s10342-025-01796-z>.
Author: Julian Frey [aut, cre] ,
Zoe Schindler [ctb] ,
Katja Kroener [ctb]
Maintainer: Julian Frey <julian.frey@wwd.uni-freiburg.de>
This is a re-admission after prior archival of version 0.2.0 dated 2026-02-17
Diff between CspStandSegmentation versions 0.2.0 dated 2026-02-17 and 0.2.1 dated 2026-10-02
DESCRIPTION | 11 + MD5 | 23 ++-- NAMESPACE | 5 NEWS.md | 7 + R/RcppExports.R | 17 +++ R/farthest_point_sampling.R | 133 +++++++++++++++--------- R/instance_colors.R |only R/zzz.R | 2 man/color_ids.Rd |only man/fds.Rd | 25 +++- man/get_pal.Rd |only man/p_mat_dist.Rd | 46 ++++---- src/2021-11-12_A1_JF_csp_cost_cpp_functions.cpp | 64 +++++++++++ src/RcppExports.cpp | 14 ++ 14 files changed, 250 insertions(+), 97 deletions(-)
More information about CspStandSegmentation at CRAN
Permanent link
Title: International Classification of Diseases 'ICD-10'/'ICD-11' for
Chile
Description: Tools for working with the International Classification of
Diseases ('ICD-10' Chile official 'MINSAL'/'DEIS' v2018). Includes
optimized 'SQL' search with 'SQLite', fuzzy matching of medical terms
('Jaro-Winkler'), Charlson and Elixhauser comorbidity calculation,
'WHO' 'ICD-11' 'API' integration, and hierarchical code validation.
Data from Centro FIC Chile 'DEIS' <https://deis.minsal.cl/centrofic/>.
Author: Rodolfo Tasso Suazo [aut, cre] ,
Francisca Jofre [ctb] ,
Maelle Salmon [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/765>),
Yanina Bellini [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/765 [...truncated...]
Maintainer: Rodolfo Tasso Suazo <rtasso@uchile.cl>
Diff between ciecl versions 0.9.6 dated 2026-04-19 and 1.0.0 dated 2026-10-02
ciecl-0.9.6/ciecl/R/cie-data.R |only ciecl-0.9.6/ciecl/inst/doc/caso-uso-egresos.R |only ciecl-0.9.6/ciecl/inst/doc/caso-uso-egresos.Rmd |only ciecl-0.9.6/ciecl/inst/doc/caso-uso-egresos.html |only ciecl-0.9.6/ciecl/tests/testthat/test-cie-data.R |only ciecl-0.9.6/ciecl/tests/testthat/test-comorbid-validation.R |only ciecl-0.9.6/ciecl/vignettes/caso-uso-egresos.Rmd |only ciecl-1.0.0/ciecl/DESCRIPTION | 51 ciecl-1.0.0/ciecl/MD5 | 175 + ciecl-1.0.0/ciecl/NAMESPACE | 36 ciecl-1.0.0/ciecl/NEWS.md | 1248 +++++++----- ciecl-1.0.0/ciecl/R/cie-api.R | 403 ++- ciecl-1.0.0/ciecl/R/cie-comorbid.R | 134 - ciecl-1.0.0/ciecl/R/cie-describe.R |only ciecl-1.0.0/ciecl/R/cie-guide.R |only ciecl-1.0.0/ciecl/R/cie-lookup.R |only ciecl-1.0.0/ciecl/R/cie-search.R | 1100 +--------- ciecl-1.0.0/ciecl/R/cie-siglas.R |only ciecl-1.0.0/ciecl/R/cie-sql.R | 433 ++-- ciecl-1.0.0/ciecl/R/cie-table.R | 109 - ciecl-1.0.0/ciecl/R/cie-utils.R | 285 +- ciecl-1.0.0/ciecl/R/data.R |only ciecl-1.0.0/ciecl/R/globals.R | 30 ciecl-1.0.0/ciecl/R/sysdata.rda |only ciecl-1.0.0/ciecl/README.md | 391 +-- ciecl-1.0.0/ciecl/build/vignette.rds |binary ciecl-1.0.0/ciecl/data/cie10_cl.rda |binary ciecl-1.0.0/ciecl/inst/CITATION | 25 ciecl-1.0.0/ciecl/inst/_vcr |only ciecl-1.0.0/ciecl/inst/doc/case-study-discharges.R |only ciecl-1.0.0/ciecl/inst/doc/case-study-discharges.Rmd |only ciecl-1.0.0/ciecl/inst/doc/case-study-discharges.html |only ciecl-1.0.0/ciecl/inst/doc/ciecl-en.R |only ciecl-1.0.0/ciecl/inst/doc/ciecl-en.Rmd |only ciecl-1.0.0/ciecl/inst/doc/ciecl-en.html |only ciecl-1.0.0/ciecl/inst/doc/ciecl-es.R | 63 ciecl-1.0.0/ciecl/inst/doc/ciecl-es.Rmd | 277 +- ciecl-1.0.0/ciecl/inst/doc/ciecl-es.html | 757 ++++++- ciecl-1.0.0/ciecl/inst/doc/ciecl.R | 141 - ciecl-1.0.0/ciecl/inst/doc/ciecl.Rmd | 302 +- ciecl-1.0.0/ciecl/inst/doc/ciecl.html | 399 ++- ciecl-1.0.0/ciecl/inst/doc/idiomas.R | 75 ciecl-1.0.0/ciecl/inst/doc/idiomas.Rmd | 204 - ciecl-1.0.0/ciecl/inst/doc/idiomas.html | 419 ++-- ciecl-1.0.0/ciecl/inst/doc/instalacion.R | 59 ciecl-1.0.0/ciecl/inst/doc/instalacion.Rmd | 431 ++-- ciecl-1.0.0/ciecl/inst/doc/instalacion.html | 221 +- ciecl-1.0.0/ciecl/inst/doc/installation.R |only ciecl-1.0.0/ciecl/inst/doc/installation.Rmd |only ciecl-1.0.0/ciecl/inst/doc/installation.html |only ciecl-1.0.0/ciecl/inst/doc/languages.R |only ciecl-1.0.0/ciecl/inst/doc/languages.Rmd |only ciecl-1.0.0/ciecl/inst/doc/languages.html |only ciecl-1.0.0/ciecl/inst/extdata |only ciecl-1.0.0/ciecl/man/cie10_cl.Rd | 55 ciecl-1.0.0/ciecl/man/cie10_clear_cache.Rd | 38 ciecl-1.0.0/ciecl/man/cie10_disconnect.Rd | 44 ciecl-1.0.0/ciecl/man/cie10_sql.Rd | 38 ciecl-1.0.0/ciecl/man/cie11_search.Rd | 85 ciecl-1.0.0/ciecl/man/cie_comorbid.Rd | 14 ciecl-1.0.0/ciecl/man/cie_describe.Rd |only ciecl-1.0.0/ciecl/man/cie_expand.Rd | 23 ciecl-1.0.0/ciecl/man/cie_guia_busqueda.Rd | 24 ciecl-1.0.0/ciecl/man/cie_guide.Rd |only ciecl-1.0.0/ciecl/man/cie_lookup.Rd | 101 ciecl-1.0.0/ciecl/man/cie_map_comorbid.Rd | 20 ciecl-1.0.0/ciecl/man/cie_norm.Rd |only ciecl-1.0.0/ciecl/man/cie_normalizar.Rd | 59 ciecl-1.0.0/ciecl/man/cie_search.Rd | 86 ciecl-1.0.0/ciecl/man/cie_short.Rd |only ciecl-1.0.0/ciecl/man/cie_siglas.Rd | 32 ciecl-1.0.0/ciecl/man/cie_table.Rd | 31 ciecl-1.0.0/ciecl/man/cie_validate_vector.Rd | 23 ciecl-1.0.0/ciecl/man/ciecl-package.Rd | 64 ciecl-1.0.0/ciecl/man/figures/logo-CDSP_color.png |binary ciecl-1.0.0/ciecl/man/get_icd_api_key.Rd |only ciecl-1.0.0/ciecl/tests/testthat/_snaps |only ciecl-1.0.0/ciecl/tests/testthat/helper-expect-shape.R |only ciecl-1.0.0/ciecl/tests/testthat/setup-vcr.R |only ciecl-1.0.0/ciecl/tests/testthat/setup.R | 28 ciecl-1.0.0/ciecl/tests/testthat/test-api-mock.R | 471 ++-- ciecl-1.0.0/ciecl/tests/testthat/test-cie-api-validation.R |only ciecl-1.0.0/ciecl/tests/testthat/test-cie-api.R | 276 -- ciecl-1.0.0/ciecl/tests/testthat/test-cie-comorbid.R | 399 --- ciecl-1.0.0/ciecl/tests/testthat/test-cie-describe.R |only ciecl-1.0.0/ciecl/tests/testthat/test-cie-map-comorbid.R |only ciecl-1.0.0/ciecl/tests/testthat/test-cie-search.R | 725 +----- ciecl-1.0.0/ciecl/tests/testthat/test-cie-sql-cache.R |only ciecl-1.0.0/ciecl/tests/testthat/test-cie-sql.R | 295 -- ciecl-1.0.0/ciecl/tests/testthat/test-cie-table.R | 55 ciecl-1.0.0/ciecl/tests/testthat/test-cie-utils.R | 472 ---- ciecl-1.0.0/ciecl/tests/testthat/test-coverage-paths.R |only ciecl-1.0.0/ciecl/tests/testthat/test-data-integrity.R | 50 ciecl-1.0.0/ciecl/tests/testthat/test-deprecated-args.R |only ciecl-1.0.0/ciecl/tests/testthat/test-edge-cases.R | 170 - ciecl-1.0.0/ciecl/tests/testthat/test-encoding.R | 96 ciecl-1.0.0/ciecl/tests/testthat/test-integration.R | 182 - ciecl-1.0.0/ciecl/tests/testthat/test-performance-scale.R | 4 ciecl-1.0.0/ciecl/tests/testthat/test-robustness.R | 151 - ciecl-1.0.0/ciecl/tests/testthat/test-uso-cl-flags.R |only ciecl-1.0.0/ciecl/tests/testthat/test-utils-internal.R | 145 - ciecl-1.0.0/ciecl/vignettes/case-study-discharges.Rmd |only ciecl-1.0.0/ciecl/vignettes/ciecl-en.Rmd |only ciecl-1.0.0/ciecl/vignettes/ciecl-es.Rmd | 277 +- ciecl-1.0.0/ciecl/vignettes/ciecl.Rmd | 302 +- ciecl-1.0.0/ciecl/vignettes/idiomas.Rmd | 204 - ciecl-1.0.0/ciecl/vignettes/instalacion.Rmd | 431 ++-- ciecl-1.0.0/ciecl/vignettes/installation.Rmd |only ciecl-1.0.0/ciecl/vignettes/languages.Rmd |only 109 files changed, 6447 insertions(+), 6791 deletions(-)
Title: Creates and Plots P-Value Functions, S-Value Functions,
Confidence Distributions and Confidence Densities
Description: Contains functions to compute and plot confidence distributions, confidence densities, p-value functions and s-value (surprisal) functions for several commonly used estimates. Instead of just calculating one p-value and one confidence interval, p-value functions display p-values and confidence intervals for many levels thereby allowing to gauge the compatibility of several parameter values with the data. These methods are discussed by Infanger D, Schmidt-Trucksäss A. (2019) <doi:10.1002/sim.8293>; Poole C. (1987) <doi:10.2105/AJPH.77.2.195>; Schweder T, Hjort NL. (2002) <doi:10.1111/1467-9469.00285>; Bender R, Berg G, Zeeb H. (2005) <doi:10.1002/bimj.200410104> ; Singh K, Xie M, Strawderman WE. (2007) <doi:10.1214/074921707000000102>; Rothman KJ, Greenland S, Lash TL. (2008, ISBN:9781451190052); Amrhein V, Trafimow D, Greenland S. (2019) <doi:10.1080/00031305.2018.1543137>; Greenland S. (2019) <doi:10.1080/00031305.2018.1529625> and Rafi Z, Gre [...truncated...]
Author: Denis Infanger [aut, cre]
Maintainer: Denis Infanger <denis.infanger@unibas.ch>
Diff between pvaluefunctions versions 1.6.3 dated 2025-09-15 and 1.7.0 dated 2026-10-02
DESCRIPTION | 20 MD5 | 42 NAMESPACE | 48 NEWS.md | 187 + R/aucc.R |only R/cdist_corr.R |only R/cdist_helpers.R |only R/cdist_location_scale.R |only R/cdist_prop.R |only R/cdist_var.R |only R/confidence_distributions.R | 3909 +++++++++++++---------------------------- R/plot_helpers.R |only R/pvaluefunctions-package.R |only R/utils.R |only R/validate.R |only build/partial.rdb |only build/vignette.rds |binary inst/doc/pvaluefun.html | 64 man/conf_dist.Rd | 16 man/pvaluefunctions-package.Rd |only tests |only 21 files changed, 1518 insertions(+), 2768 deletions(-)
More information about pvaluefunctions at CRAN
Permanent link
Title: Interactive Maps with 'Mapbox GL JS' and 'MapLibre GL JS'
Description: Provides an interface to the 'Mapbox GL JS' (<https://docs.mapbox.com/mapbox-gl-js/guides>)
and the 'MapLibre GL JS' (<https://maplibre.org/maplibre-gl-js/docs/>) interactive mapping libraries to help users
create custom interactive maps in R. Users can create interactive globe visualizations; layer 'sf' objects to create
filled maps, circle maps, 'heatmaps', and three-dimensional graphics; and customize map styles and views. The package
also includes utilities to use 'Mapbox' and 'MapLibre' maps in 'Shiny' web applications.
Author: Kyle Walker [aut, cre],
Egor Kotov [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between mapgl versions 0.5.0 dated 2026-06-20 and 0.5.2 dated 2026-10-02
mapgl-0.5.0/mapgl/inst/htmlwidgets/lib/mapbox-pmtiles |only mapgl-0.5.0/mapgl/inst/htmlwidgets/styles/layers-control.css |only mapgl-0.5.2/mapgl/DESCRIPTION | 12 mapgl-0.5.2/mapgl/LICENSE.note | 14 mapgl-0.5.2/mapgl/MD5 | 148 - mapgl-0.5.2/mapgl/NAMESPACE | 8 mapgl-0.5.2/mapgl/NEWS.md | 54 mapgl-0.5.2/mapgl/R/controls.R | 665 +++++ mapgl-0.5.2/mapgl/R/layers.R | 1178 +++++++--- mapgl-0.5.2/mapgl/R/legends.R | 137 + mapgl-0.5.2/mapgl/R/legends_compare.R | 47 mapgl-0.5.2/mapgl/R/mapboxgl.R | 7 mapgl-0.5.2/mapgl/R/maplibre.R | 9 mapgl-0.5.2/mapgl/R/plugins.R | 14 mapgl-0.5.2/mapgl/R/quickview.R | 2 mapgl-0.5.2/mapgl/R/shiny.R | 2 mapgl-0.5.2/mapgl/R/slider.R | 12 mapgl-0.5.2/mapgl/R/sources.R | 15 mapgl-0.5.2/mapgl/R/style_helpers.R | 187 + mapgl-0.5.2/mapgl/R/turf.R | 30 mapgl-0.5.2/mapgl/R/utils.R | 42 mapgl-0.5.2/mapgl/inst/htmlwidgets/flowmap.js | 17 mapgl-0.5.2/mapgl/inst/htmlwidgets/lib/layers-control |only mapgl-0.5.2/mapgl/inst/htmlwidgets/lib/legend-interactivity/legend-interactivity.css | 8 mapgl-0.5.2/mapgl/inst/htmlwidgets/lib/legend-interactivity/legend-interactivity.js | 331 ++ mapgl-0.5.2/mapgl/inst/htmlwidgets/lib/mapgl-cluster-donut |only mapgl-0.5.2/mapgl/inst/htmlwidgets/lib/mapgl-expressions |only mapgl-0.5.2/mapgl/inst/htmlwidgets/lib/terra-draw-control |only mapgl-0.5.2/mapgl/inst/htmlwidgets/mapboxgl.js | 877 ++----- mapgl-0.5.2/mapgl/inst/htmlwidgets/mapboxgl.yaml | 42 mapgl-0.5.2/mapgl/inst/htmlwidgets/mapboxgl_compare.js | 779 +++--- mapgl-0.5.2/mapgl/inst/htmlwidgets/mapboxgl_compare.yaml | 44 mapgl-0.5.2/mapgl/inst/htmlwidgets/maplibregl.js | 852 ++----- mapgl-0.5.2/mapgl/inst/htmlwidgets/maplibregl.yaml | 28 mapgl-0.5.2/mapgl/inst/htmlwidgets/maplibregl_compare.js | 822 +++--- mapgl-0.5.2/mapgl/inst/htmlwidgets/maplibregl_compare.yaml | 28 mapgl-0.5.2/mapgl/man/add_bivariate_legend.Rd | 12 mapgl-0.5.2/mapgl/man/add_circle_layer.Rd | 2 mapgl-0.5.2/mapgl/man/add_draw_control.Rd | 85 mapgl-0.5.2/mapgl/man/add_layer.Rd | 5 mapgl-0.5.2/mapgl/man/add_layers_control.Rd | 39 mapgl-0.5.2/mapgl/man/add_pmtiles_source.Rd | 2 mapgl-0.5.2/mapgl/man/add_slider_control.Rd | 12 mapgl-0.5.2/mapgl/man/add_symbol_layer.Rd | 2 mapgl-0.5.2/mapgl/man/add_terradraw_control.Rd |only mapgl-0.5.2/mapgl/man/cluster_options.Rd | 92 mapgl-0.5.2/mapgl/man/conditional_expressions.Rd |only mapgl-0.5.2/mapgl/man/get_drawn_features.Rd | 4 mapgl-0.5.2/mapgl/man/map_legends.Rd | 45 mapgl-0.5.2/mapgl/man/mapgl-package.Rd | 5 mapgl-0.5.2/mapgl/man/maplibre.Rd | 2 mapgl-0.5.2/mapgl/man/maplibre_view.Rd | 2 mapgl-0.5.2/mapgl/man/terradraw_options.Rd |only mapgl-0.5.2/mapgl/tests/testthat.R | 6 mapgl-0.5.2/mapgl/tests/testthat/_problems |only mapgl-0.5.2/mapgl/tests/testthat/fixtures |only mapgl-0.5.2/mapgl/tests/testthat/test-cluster-donut.R |only mapgl-0.5.2/mapgl/tests/testthat/test-draw-terradraw.R |only mapgl-0.5.2/mapgl/tests/testthat/test-dynamic-legends.R | 518 ++++ mapgl-0.5.2/mapgl/tests/testthat/test-filter-slots.R |only mapgl-0.5.2/mapgl/tests/testthat/test-flowmap.R | 23 mapgl-0.5.2/mapgl/tests/testthat/test-layers-control.R |only mapgl-0.5.2/mapgl/tests/testthat/test-legend-patch-toggle.R |only mapgl-0.5.2/mapgl/tests/testthat/test-match-expr.R |only mapgl-0.5.2/mapgl/tests/testthat/test-tooltips.R | 713 ++++++ mapgl-0.5.2/mapgl/tests/testthat/testthat-problems.rds |only 66 files changed, 5384 insertions(+), 2596 deletions(-)
Title: Uncertainty Quantification and Global Sensitivity Analysis
Description: In the field of systems biology, chemical reaction networks are modeled in various ways, two of those are: (i) stochastic simulations (e.g. Gillespie algorithm) and (ii) ordinary differential equations. In this package we use a simple tabular model description of reaction systems and automatically generate C code for either solver type. We use the ordinary differential equation solvers from the GNU Scientific Library and provide an interface that deals with lists of simulation experiments. Each simulation experiment contains both the data, and instructions for the model to replicate the data. We use approximate Bayesian computation methods (combined with Markov chain Monte Carlo and sequential Monte Carlo, particle filters) as well as classic methods such as Random Walk Metropolis (Gaussian transition kernel) and Simplified Manifold Metropolis adjusted Langevin algorithm for a Bayesian investigation of the model´s parameter space. Experiments can be evaluated in a sequence; intermediat [...truncated...]
Author: Alexandra Jauhiainen [aut],
Olivia Eriksson [aut, ctb, cph],
Federica Milinanni [aut],
Andrei Kramer [cre]
Maintainer: Andrei Kramer <andreikr@kth.se>
Diff between uqsa versions 0.8.0 dated 2026-09-24 and 0.8.1 dated 2026-10-02
DESCRIPTION | 6 ++--- MD5 | 23 +++++++++++---------- NEWS.md | 10 +++++++++ R/mcmc.R | 2 - R/showPosterior.R | 20 ++++++++++++++---- R/simplified_systems_biology_tables.R | 32 ++++++++++++++++-------------- R/units.R | 21 +++++++++++++------ README.md | 36 +++++++++++++++++++++++++++++++++- inst/doc/simulations.html | 13 ++++-------- man/experiments.Rd | 4 ++- man/grapes-as-grapes.Rd | 21 +++++++++++++------ src/concise.c | 4 ++- tests/testthat/test-concise.R |only 13 files changed, 132 insertions(+), 60 deletions(-)
Title: A Unified Framework for Machine Learning Ensembles in Survival
Analysis
Description: Implements a Super Learner framework for right-censored survival data.
The package fits convex combinations of parametric, semiparametric, and machine
learning survival learners by minimizing cross-validated risk using inverse
probability of censoring weighting (IPCW). It provides tools for automated
hyperparameter grid search, high-dimensional variable screening, and evaluation
of prediction performance using metrics such as the Brier score, Uno's C-index,
and time-dependent area under the curve (AUC). Additional utilities support
model interpretation for survival ensembles, including Shapley additive
explanations (SHAP), and estimation of covariate-adjusted restricted mean
survival time (RMST) contrasts. The methodology is related to treatment-specific
survival curve estimation using machine learning described by Westling et al.
(2024) <doi:10.1080/01621459.2023.2205060>, and the unified
ensemble framework described in Lyu et al. (2026) <doi:10.64898/2026.03.11.711010>.
Author: Yue Lyu [aut, cre]
Maintainer: Yue Lyu <yuelyu0521@gmail.com>
Diff between SuperSurv versions 0.1.7 dated 2026-06-11 and 0.1.9 dated 2026-10-02
DESCRIPTION | 16 MD5 | 177 +++--- NAMESPACE | 24 R/SuperSurv-methods.R | 76 ++ R/SuperSurv.R | 100 ++- R/control.R | 107 +++ R/evaluation.R | 544 +++++++++++++++---- R/explainability.R | 303 +++++++--- R/helper.R | 192 ++++-- R/predict.SuperSurv.R | 85 ++- R/rmst.R | 282 +++------ R/utils_internal.R | 1017 ++++++++++++++++++++++++++++++++++-- R/visualization.R | 136 ++-- R/wrapper-additional.R |only R/wrapper-flexible.R |only R/wrapper.R | 511 ++++++++---------- README.md | 17 build/vignette.rds |binary inst/doc/base-learner-rfsrc.R | 20 inst/doc/base-learner-rfsrc.Rmd | 30 - inst/doc/base-learner-rfsrc.html | 86 +-- inst/doc/causal-rmst.R | 42 - inst/doc/causal-rmst.Rmd | 69 +- inst/doc/causal-rmst.html | 196 +++--- inst/doc/extending-supersurv.R | 7 inst/doc/extending-supersurv.Rmd | 59 ++ inst/doc/extending-supersurv.html | 288 +++++++--- inst/doc/grid-search.Rmd | 2 inst/doc/grid-search.html | 10 inst/doc/installation.R | 5 inst/doc/installation.Rmd | 11 inst/doc/installation.html | 37 - inst/doc/model-performance.R | 10 inst/doc/model-performance.Rmd | 20 inst/doc/model-performance.html | 57 +- inst/doc/parametric-models.html | 13 inst/doc/screening-methods.html | 5 inst/doc/shap-explanations.R | 135 ++-- inst/doc/shap-explanations.Rmd | 98 ++- inst/doc/shap-explanations.html | 203 ++++--- inst/doc/supersurv-best.Rmd | 4 inst/doc/supersurv-best.html | 22 inst/doc/supersurv-ensemble.R | 53 + inst/doc/supersurv-ensemble.Rmd | 87 ++- inst/doc/supersurv-ensemble.html | 345 ++++++------ man/SuperSurv.Rd | 18 man/SuperSurv.control.Rd | 31 + man/create_grid.Rd | 7 man/estimate_marginal_rmst.Rd | 55 - man/eval_benchmark.Rd |only man/eval_brier.Rd | 13 man/eval_logloss.Rd |only man/eval_summary.Rd | 5 man/eval_times.Rd | 3 man/event_weights.Rd | 6 man/explain_kernel.Rd | 24 man/learner_names.Rd | 3 man/plot_beeswarm.Rd | 2 man/plot_benchmark.Rd | 22 man/plot_dependence.Rd | 2 man/plot_global_importance.Rd | 2 man/plot_marginal_rmst_curve.Rd | 20 man/plot_patient_waterfall.Rd | 2 man/plot_rmst_vs_obs.Rd | 2 man/selected_variables.Rd | 3 man/surv.coxboost.Rd | 9 man/surv.coxtime.Rd |only man/surv.deephit.Rd |only man/surv.deepsurv.Rd |only man/surv.flexsurvreg.Rd |only man/surv.flexsurvspline.Rd |only man/surv.gbm.Rd | 9 man/surv.glmnet.Rd | 10 man/surv.grf.Rd |only man/surv.mboost.Rd |only man/surv.ridge.Rd | 9 man/surv.rpart.Rd | 9 man/surv.survPen.Rd |only man/surv.xgboost.Rd | 9 man/training_variables.Rd | 3 tests/test-SuperSurv-methods.R | 38 + tests/test-additional-wrappers.R |only tests/test-evaluation.R |only tests/test-explain-kernel.R |only tests/test-flexible-wrappers.R |only tests/test-input-validation.R |only tests/test-ipcw-algorithm.R |only tests/test-ipcw-pipeline-stress.R |only tests/test-local-library-lookup.R |only tests/test-neural-wrappers.R |only tests/test-risk-score-calibration.R |only tests/test-singleton-predictions.R |only vignettes/base-learner-rfsrc.Rmd | 30 - vignettes/causal-rmst.Rmd | 69 +- vignettes/extending-supersurv.Rmd | 59 ++ vignettes/grid-search.Rmd | 2 vignettes/installation.Rmd | 11 vignettes/model-performance.Rmd | 20 vignettes/shap-explanations.Rmd | 98 ++- vignettes/supersurv-best.Rmd | 4 vignettes/supersurv-ensemble.Rmd | 87 ++- 101 files changed, 4289 insertions(+), 1908 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385>, Wilson (2025) <DOI:10.1002/mrm.30462> and
spectral alignment: Wilson (2018) <DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin.wilson111@gmail.com>
Diff between spant versions 4.4.0 dated 2026-08-24 and 4.5.0 dated 2026-10-02
DESCRIPTION | 12 - MD5 | 84 +++++---- NAMESPACE | 5 NEWS.md | 28 +++ R/abfit.R | 22 +- R/amp_scaling.R | 6 R/basis_set.R | 59 ++++++ R/cli_utils.R | 53 +++-- R/dicom_reader.R | 2 R/fit_svs.R | 304 +++++++++++++++++++--------------- R/fit_svs_edited.R | 14 - R/fitting.R | 4 R/fmrs.R | 23 ++ R/gsl_functions.R | 2 R/image_reg.R | 4 R/interactive_plotting.R | 4 R/mol_parameters.R | 8 R/mrs_data_display.R | 25 +- R/mrs_data_io.R | 2 R/mrs_data_proc.R | 16 - R/mrs_read_twix.R | 6 R/mrs_write_nifti.R | 2 R/pulse_sequences.R | 4 R/pulse_shapes.R | 12 + R/qm_simulation.R | 12 - R/spant.R | 2 R/utils.R | 2 inst/cli_scripts/spant_fit_svs | 38 ++++ inst/cli_scripts/spant_fit_svs_edited |only inst/cli_scripts/spant_fit_svs_gui |only inst/doc/spant-intro.html | 124 ++++++------- inst/doc/spant-preprocessing.Rmd | 2 inst/doc/spant-preprocessing.html | 6 man/abfit_reg_opts.Rd | 4 man/fit_svs.Rd | 4 man/fp_scale_basis.Rd |only man/gen_numeric_reg.Rd | 3 man/get_gaussian_pulse.Rd |only man/glm_spec_fmrs_fl.Rd | 2 man/image.mrs_data.Rd | 5 man/install_cli.Rd | 4 man/read_fslmrs_json_basis_dir.Rd |only man/read_fslmrs_json_basis_file.Rd |only man/spant-package.Rd | 4 man/stackplot.mrs_data.Rd | 2 vignettes/spant-preprocessing.Rmd | 2 46 files changed, 568 insertions(+), 349 deletions(-)
Title: Spatial Projection of Network Signals along Geodesic Paths
Description: For a given graph containing vertices, edges, and a signal
associated with the vertices, the 'PathwaySpace' package performs a convolution
operation, which involves a weighted combination of neighboring vertices and
their associated signals. The package uses a decay function to project these
signals, creating geodesic paths on a 2D-image space. 'PathwaySpace' has various
applications, such as visualizing network data in a graphical format that
highlights the relationships and signal strengths between vertices. By
combining graph theory, signal processing, and visualization, 'PathwaySpace'
provides a way of representing graph data on a continuous projection space.
Based on methods introduced in Tercan et al. (2025)
<doi:10.1016/j.xpro.2025.103681> and Ellrott et al. (2025)
<doi:10.1016/j.ccell.2024.12.002>.
Author: Sysbiolab Team [aut],
Victor Apolonio [ctb],
Jonathan Back [ctb],
Lana Querne [ctb],
Vinicius Chagas [ctb],
Bahar Tercan [ctb],
Mauro Castro [cre]
Maintainer: Mauro Castro <mauro.a.castro@gmail.com>
Diff between PathwaySpace versions 1.5.1 dated 2026-08-24 and 1.5.2 dated 2026-10-02
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/pspace-supplements.R | 20 +++++++++++++++++--- inst/NEWS.Rd | 12 ++++++++++++ inst/doc/PathwaySpace.html | 40 +++++++++++++++++++--------------------- 5 files changed, 55 insertions(+), 31 deletions(-)
Title: Download and Processing of Automatic Weather Stations (AWS) Data
of INMET-Brazil
Description: A collection of functions for downloading and processing automatic weather station (AWS) data from INMET (Brazil’s National Institute of Meteorology), designed to support the estimation of reference evapotranspiration (ETo). The package facilitates streamlined access to meteorological data and aims to simplify analyses in agricultural and environmental contexts.
Author: Roberto Filgueiras [aut, cre] ,
Luan P. Venancio [aut] ,
Catariny C. Aleman [aut] ,
Fernando F. da Cunha [aut] ,
Arthur T. Calegario [ctb]
Maintainer: Roberto Filgueiras <betofilgueiras@gmail.com>
Diff between BrazilMet versions 0.4.0 dated 2025-05-23 and 0.5.0 dated 2026-10-02
DESCRIPTION | 12 + MD5 | 72 +++++++--- NAMESPACE | 6 NEWS.md | 18 ++ R/climatological_normal_CWS.R | 9 - R/daily_download_AWS_INMET.R | 226 ++++++++++++++++++++-------------- R/eto_hs.R | 14 +- R/fill_gaps.R |only R/hourly_download_AWS_INMET.R | 17 +- R/max_eto_grid_download.R | 101 ++++++--------- R/utils_download.R |only R/variables_air_humidity.R | 2 R/water_balance.R |only README.md | 42 +----- build |only inst/doc |only inst/extdata/A001_daily_2000_2025.rds |only inst/extdata/A001_daily_2023_2024.rds |only man/Patm.Rd | 50 +++---- man/correction_etp_thornwaite.Rd | 58 ++++---- man/design_eto.Rd | 58 ++++---- man/ea_dew_calculation.Rd | 50 +++---- man/ea_rh_calculation.Rd | 66 ++++----- man/es_calculation.Rd | 54 ++++---- man/es_ea_calculation.Rd | 74 +++++------ man/eto_hs.Rd | 10 - man/figures/logo_BrazilMet.png |binary man/fill_gaps.Rd |only man/get_max_eto_at_location.Rd | 68 +++++----- man/max_eto_grid_download.Rd | 79 +++++------ man/psy_const.Rd | 50 +++---- man/rh_calculation.Rd | 54 ++++---- man/u2_calculation.Rd | 54 ++++---- man/water_balance.Rd |only tests |only vignettes |only 36 files changed, 660 insertions(+), 584 deletions(-)
Title: Client for the 'World Bank' APIs
Description: Download and search data from the 'World Bank' APIs,
including the 'Indicators' API, the 'Poverty and Inequality Platform
(PIP)' API, the 'Finances One' API, the 'Projects' API, and the
'Documents & Reports' API. See
<https://datahelpdesk.worldbank.org/knowledgebase/articles/889386-developer-information-overview>
for further details.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between worldbank versions 0.10.0 dated 2026-08-21 and 0.11.0 dated 2026-10-02
DESCRIPTION | 13 - MD5 | 77 ++++---- NAMESPACE | 4 NEWS.md | 29 +++ R/assertions.R | 13 + R/cache.R | 14 + R/documents.R |only R/fone.R | 3 R/httr2.R | 21 +- R/indicators.R | 240 ++++++++++++++++++-------- R/pip.R | 55 ++---- R/projects.R | 81 ++++++-- R/utils.R | 11 - R/worldbank-package.R | 11 - README.md | 5 man/cache.Rd | 11 - man/figures/README-demo-1.png |binary man/pip_cp.Rd | 5 man/pip_data.Rd | 9 man/pip_group.Rd | 9 man/wb_country.Rd | 20 ++ man/wb_data.Rd | 28 ++- man/wb_document.Rd |only man/wb_indicator.Rd | 20 +- man/wb_project.Rd | 13 + man/wb_search.Rd | 16 + man/worldbank-package.Rd | 14 + tests/testthat/_snaps/cache.md |only tests/testthat/_snaps/documents.md |only tests/testthat/_snaps/indicators.md | 187 ++++++++++++++++++++ tests/testthat/_snaps/pip.md | 23 ++ tests/testthat/_snaps/projects.md | 24 ++ tests/testthat/fixtures/wb-document.rds |only tests/testthat/fixtures/wb-project.rds |binary tests/testthat/helper.R | 2 tests/testthat/test-assertions.R | 24 ++ tests/testthat/test-cache.R |only tests/testthat/test-documents.R |only tests/testthat/test-httr2.R | 24 ++ tests/testthat/test-indicators.R | 292 +++++++++++++++++++++++++++----- tests/testthat/test-pip.R | 45 ++++ tests/testthat/test-projects.R | 61 ++++++ tests/testthat/test-utils.R | 6 43 files changed, 1158 insertions(+), 252 deletions(-)
More information about shinyHierarchy at CRAN
Permanent link
More information about likingInitiative at CRAN
Permanent link
Title: Toolbox for Model Building and Forecasting
Description: Implements functions and instruments for regression model building and its
application to forecasting. The main scope of the package is in variables selection
and models specification for cases of time series data. This includes promotional
modelling, selection between different dynamic regressions with non-standard
distributions of errors, selection based on cross validation, solutions to the fat
regression model problem and more. Models developed in the package are tailored
specifically for forecasting purposes. So as a results there are several methods
that allow producing forecasts from these models and visualising them.
Author: Ivan Svetunkov [aut, cre] ,
Yves R. Sagaert [ctb]
Maintainer: Ivan Svetunkov <ivan@svetunkov.com>
Diff between greybox versions 2.0.8 dated 2026-02-22 and 2.0.9 dated 2026-10-02
greybox-2.0.8/greybox/R/lmCombine.R |only greybox-2.0.9/greybox/DESCRIPTION | 21 - greybox-2.0.9/greybox/MD5 | 64 ++-- greybox-2.0.9/greybox/NAMESPACE | 288 +++++++++++---------- greybox-2.0.9/greybox/NEWS | 24 + greybox-2.0.9/greybox/R/alm.R | 96 ++----- greybox-2.0.9/greybox/R/bcnorm.R | 43 ++- greybox-2.0.9/greybox/R/calm.R |only greybox-2.0.9/greybox/R/isFunctions.R | 8 greybox-2.0.9/greybox/R/lmDynamic.R | 12 greybox-2.0.9/greybox/R/methods.R | 73 ++--- greybox-2.0.9/greybox/R/pointLik.R | 103 ++++--- greybox-2.0.9/greybox/R/scaler.R | 86 ++---- greybox-2.0.9/greybox/R/stepwise.R | 2 greybox-2.0.9/greybox/R/stick.R |only greybox-2.0.9/greybox/R/zzz.R | 2 greybox-2.0.9/greybox/README.md | 45 ++- greybox-2.0.9/greybox/build/partial.rdb |binary greybox-2.0.9/greybox/build/vignette.rds |binary greybox-2.0.9/greybox/inst/doc/alm.Rmd | 4 greybox-2.0.9/greybox/inst/doc/alm.html | 88 +++--- greybox-2.0.9/greybox/inst/doc/greybox.Rmd | 3 greybox-2.0.9/greybox/inst/doc/greybox.html | 188 +++++++------ greybox-2.0.9/greybox/inst/doc/maUsingGreybox.html | 19 - greybox-2.0.9/greybox/inst/doc/ro.html | 15 - greybox-2.0.9/greybox/man/BCNormal.Rd | 12 greybox-2.0.9/greybox/man/alm.Rd | 5 greybox-2.0.9/greybox/man/calm.Rd | 4 greybox-2.0.9/greybox/man/extractScale.Rd | 5 greybox-2.0.9/greybox/man/isFunctions.Rd | 8 greybox-2.0.9/greybox/man/plot.greybox.Rd | 3 greybox-2.0.9/greybox/man/reexports.Rd | 4 greybox-2.0.9/greybox/man/stick.Rd |only greybox-2.0.9/greybox/vignettes/alm.Rmd | 4 greybox-2.0.9/greybox/vignettes/greybox.Rmd | 3 35 files changed, 672 insertions(+), 560 deletions(-)
Title: 32-Bit Floats
Description: R comes with a suite of utilities for linear algebra with "numeric"
(double precision) vectors/matrices. However, sometimes single precision (or
less!) is more than enough for a particular task. This package extends R's
linear algebra facilities to include 32-bit float (single precision) data.
Float vectors/matrices have half the precision of their "numeric"-type
counterparts but are generally faster to numerically operate on, for a
performance vs accuracy trade-off. The internal representation is an S4
class, which allows us to keep the syntax identical to that of base R's.
Interaction between floats and base types for binary operators is generally
possible; in these cases, type promotion always defaults to the higher
precision. The package ships with copies of the single precision 'BLAS' and
'LAPACK', which are automatically built in the event they are not available
on the system.
Author: Drew Schmidt [aut, cph],
Stefano Cacciatore [aut, cre],
Wei-Chen Chen [aut],
Dmitriy Selivanov [ctb] ,
ORNL [cph]
Maintainer: Stefano Cacciatore <tkcaccia@gmail.com>
Diff between float versions 0.3-3 dated 2025-03-12 and 0.3-4 dated 2026-10-02
ChangeLog | 10 ++++++++++ DESCRIPTION | 16 +++++++++------- MD5 | 28 +++++++++++++++------------- NEWS.md |only R/02-libflags.r | 4 ++-- R/binary.r | 3 --- R/cond.r | 1 + R/zzz.r | 22 ---------------------- build |only inst/doc/float.pdf |binary man/comparison.Rd | 3 --- man/rcond.Rd | 1 + src/binary.c | 30 ++++++++++++++++++++++++++++++ tests/arithmetic.r | 39 +++++++++++++++++++++++++++++++++++++++ tests/comparison.r | 38 ++++++++++++++++++++++++++++++++++++++ vignettes/include/float.bib | 12 +++++++++++- 16 files changed, 156 insertions(+), 51 deletions(-)
Title: A Simple HTTP Database Interface to 'ClickHouse'
Description: 'ClickHouse' (<https://clickhouse.com/>)
is an open-source, high performance columnar
OLAP (online analytical processing of queries) database management system
for real-time analytics using SQL. This 'DBI' backend
relies on the 'ClickHouse' HTTP interface and support HTTPS protocol.
Author: Patrice Godard [aut, cre, cph] ,
Eusebiu Marcu [ctb]
Maintainer: Patrice Godard <patrice.godard@gmail.com>
Diff between ClickHouseHTTP versions 1.0.0 dated 2026-05-18 and 1.1.2 dated 2026-10-02
DESCRIPTION | 24 + MD5 | 29 +- NAMESPACE | 4 R/connection.R | 8 R/dbplyr.R |only R/result.R | 155 ++++++++++-- build |only inst |only man/ClickHouseHTTPConnection-class.Rd | 428 +++++++++++++++++----------------- man/ClickHouseHTTPDriver-class.Rd | 135 +++++----- man/figures |only tests |only vignettes |only 13 files changed, 465 insertions(+), 318 deletions(-)
More information about ClickHouseHTTP at CRAN
Permanent link
Title: Censored Regression (Tobit) Models
Description: Maximum Likelihood estimation of censored regression (Tobit) models
with cross-sectional and panel data.
Author: Arne Henningsen [aut, cre]
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between censReg versions 0.5-38 dated 2024-05-20 and 0.5-40 dated 2026-10-02
DESCRIPTION | 22 +++++++---- MD5 | 35 +++++++++--------- build/vignette.rds |binary inst/NEWS.Rd | 8 +++- inst/doc/censReg.R | 2 - inst/doc/censReg.Rnw | 4 +- inst/doc/censReg.pdf |binary tests/censRegFail.R | 2 - tests/censRegFail.Rout.save | 24 ++---------- tests/censRegPanelLargerTest.R | 8 ++-- tests/censRegPanelLargerTest.Rout.save | 30 ++++----------- tests/censRegPanelTest.R | 8 ++-- tests/censRegPanelTest.RData |only tests/censRegPanelTest.RData.save |binary tests/censRegPanelTest.Rout.save | 50 ++++++++++---------------- tests/censRegTest.R | 10 +++-- tests/censRegTest.Rout.save | 62 +++++++++++---------------------- vignettes/censReg.Rnw | 4 +- vignettes/censReg.bib | 13 +++--- 19 files changed, 120 insertions(+), 162 deletions(-)
Title: Build 'Tidyverse'-Style Meta-Packages from Local Package Files
Description: Turns a curated set of package archives (.tar.gz, .zip) into one
meta-package in the style of the 'tidyverse', so that a group of
interdependent packages can be distributed and installed as a single
unit. The generated meta-package records the exact archive versions it
was built from and installs its components in dependency order, so that
whoever receives it does not have to work out which package to install
first.
The component archives are copied into the generated meta-package, so it
is the only artifact that has to be distributed and no directory has to be
agreed on between machines. Resolves dependencies by building a graph with
topological ordering and cycle detection, classifies them as local or
external, and detects implicit dependencies by scanning source code.
Installation needs no repository access unless a component depends on a
package that only exists in one, which suits teams working behind
institutional firewalls. Generates the complete meta-package scaffold,
including [...truncated...]
Author: Sebastian Lucas [aut, cre] ,
Richard Detomasi [ctb]
Maintainer: Sebastian Lucas <sebalucas@gmail.com>
Diff between bigbang versions 0.4.0 dated 2026-08-19 and 0.5.0 dated 2026-10-02
DESCRIPTION | 10 MD5 | 108 - NEWS.md | 102 R/create_metapackage.R | 771 ++++--- R/dependencies.R | 1828 ++++++++++++++++- R/fs-utils.R | 225 +- R/i18n-tools.R | 9 R/install_local_pkg.R | 21 R/results.R | 16 R/scaffold.R | 117 - R/scan_bigbang_artifact.R | 31 R/templates-engine.R | 957 +++++++- R/translations.R | 202 + R/update-journal.R |only README.md | 157 + inst/WORDLIST | 17 inst/doc/bigbang-es.Rmd | 21 inst/doc/bigbang-es.html | 26 inst/doc/getting-started.Rmd | 19 inst/doc/getting-started.html | 30 inst/po/es/LC_MESSAGES/R-bigbang.mo |binary man/create_metapackage.Rd | 241 ++ po/R-bigbang.pot | 448 ++++ po/R-es.po | 450 ++++ tests/testthat/fixtures |only tests/testthat/helper-links.R |only tests/testthat/helper-processes.R |only tests/testthat/teardown.R |only tests/testthat/test-algorithms.R | 2 tests/testthat/test-api.R | 20 tests/testthat/test-component-inputs.R | 63 tests/testthat/test-generated-features.R | 44 tests/testthat/test-generation-corrections.R | 138 + tests/testthat/test-generation-safety.R | 16 tests/testthat/test-group-c-features.R | 2 tests/testthat/test-i18n.R | 79 tests/testthat/test-portability.R | 4 tests/testthat/test-reexport-active-bindings.R | 172 + tests/testthat/test-round051-reexport-collisions.R |only tests/testthat/test-round052-update-journal.R |only tests/testthat/test-round054-journal-and-diagnostics.R |only tests/testthat/test-round056-refutation17.R |only tests/testthat/test-round058-generation-diagnostics.R |only tests/testthat/test-round059-update-journal.R |only tests/testthat/test-round060-source-diagnostics.R |only tests/testthat/test-round061-coverage-gaps.R |only tests/testthat/test-round061-lock.R |only tests/testthat/test-round062-coverage.R |only tests/testthat/test-round062-guards.R |only tests/testthat/test-round063-lock-r20.R |only tests/testthat/test-round064-installation-r21.R |only tests/testthat/test-round065-final.R |only tests/testthat/test-round067-r24.R |only tests/testthat/test-round104-107.R | 26 tests/testthat/test-round108-109.R | 51 tests/testthat/test-round76-81.R | 2 tests/testthat/test-round82-manifest-and-identity.R | 1 tests/testthat/test-round83-85.R | 2 tests/testthat/test-round87-89.R | 2 tests/testthat/test-round99-update-transaction.R | 91 tests/testthat/test-self-contained-metapackage.R | 12 tests/testthat/test-z-process-cleanup.R |only vignettes/bigbang-es.Rmd | 21 vignettes/getting-started.Rmd | 19 64 files changed, 5802 insertions(+), 771 deletions(-)
Title: Many Global Governance Datacubes
Description: This is the core package offering a portal to the many packages universe.
It includes functions to help researchers access, work across, and maintain
ensembles of datasets on global governance called datacubes.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [aut, ctb] ,
Bernhard Bieri [ctb] ,
Esther Peev [ctb] ,
Jael Tan [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between manydata versions 1.1.3 dated 2025-09-30 and 1.1.4 dated 2026-10-02
DESCRIPTION | 16 ++--- MD5 | 54 ++++++++-------- NAMESPACE | 121 +++++++++++++++++++++----------------- NEWS.md | 18 +++++ R/call_packages.R | 12 +-- R/call_sources.R | 4 - R/call_treaties.R | 16 ++--- R/code_extend.R | 22 +++--- R/compare_dimensions.R | 40 ++++++------ R/data_description.R | 1 R/data_wrangling.R | 8 +- R/merge_consolidate.R | 10 +-- R/merge_resolve.R | 36 +++++------ R/zzz.R | 5 - data/emperors.rda |binary man/call_packages.Rd | 6 - man/call_releases.Rd | 6 - man/call_treaties.Rd | 6 - man/code_extend.Rd | 4 + man/compare_categories.Rd | 8 +- man/compare_dimensions.Rd | 8 +- man/compare_missing.Rd | 8 +- man/compare_overlap.Rd | 10 +-- man/emperors.Rd | 2 man/reexports.Rd | 2 tests/testthat/test_compare.R | 1 tests/testthat/test_consolidate.R | 10 ++- tests/testthat/test_data_UNRV.R | 10 +++ 28 files changed, 250 insertions(+), 194 deletions(-)
Title: Bayesian Simultaneous Equation Models for Forecasting
Description: Estimate and forecast Bayesian simultaneous equation models for macroeconomic time series. Provides tools to specify systems of behavioral equations and accounting identities, transform and manage time series, simulate from the posterior using a Metropolis-within-Gibbs sampler, and generate unconditional and conditional forecasts with user-defined priors and restrictions. Methods are described in Rathke A. and Sarferaz S. (forthcoming) "Bayesian Estimation of Simultaneous Equations Model".
Author: Samad Sarferaz [aut, cph] ,
Merlin Scherer [aut, cre, cph] ,
Laurent Florin [ctb],
Andrew D. Martin [ctb, cph] ,
Kevin M. Quinn [ctb, cph] ,
Jong Hee Park [ctb, cph] ,
Bill Venables [ctb, cph] ,
Brian D. Ripley [ctb, cph]
Maintainer: Merlin Scherer <scherer@kof.ethz.ch>
This is a re-admission after prior archival of version 0.3.1 dated 2026-07-29
Diff between koma versions 0.3.1 dated 2026-07-29 and 0.4.0 dated 2026-10-02
DESCRIPTION | 18 MD5 | 192 +++--- NAMESPACE | 3 NEWS.md | 49 + R/construct_balanced_data.R | 18 R/construct_posterior.R | 67 +- R/estimate.R | 228 ++++--- R/estimate_sem.R | 40 - R/extract_estimates_from_draws.R | 2 R/fill_ragged_edge.R | 6 R/forecast.R | 76 -- R/forecast_sem.R | 214 ++++--- R/gibbs_settings.R | 24 R/matrix_construction.R | 57 + R/mh_within_gibbs_algorithm.R | 113 ++- R/mh_within_gibbs_algorithm_informative.R | 108 ++- R/model_evaluation.R | 77 ++ R/model_identification.R | 77 ++ R/plot.R | 14 R/plot_ticks.R | 7 R/plotli.R | 16 R/progress_bar.R | 3 R/system_of_equations.R | 305 +++++++++- R/themes.R | 12 R/time_series.R | 132 ++++ R/ts_transform.R | 2 R/utils_plot.R | 167 ++--- R/validate.R | 303 +++++++++- README.md | 77 -- inst/doc/koma-equations.Rmd | 52 + inst/doc/koma-equations.html | 51 + inst/doc/koma-error-correction.html | 70 +- inst/doc/koma-extended-timeseries.R | 6 inst/doc/koma-extended-timeseries.Rmd | 16 inst/doc/koma-extended-timeseries.html | 23 inst/doc/koma-getting-started.R | 23 inst/doc/koma-getting-started.Rmd | 35 - inst/doc/koma-getting-started.html | 144 ++-- inst/doc/koma-klein.html | 90 +-- inst/doc/koma-small-macro-model.html | 32 - man/build_fan_data.Rd | 10 man/construct_balanced_data.Rd | 7 man/construct_beta_hat_j_matrix.Rd | 13 man/construct_phi.Rd | 16 man/construct_pi_hat_0.Rd | 5 man/construct_posterior.Rd | 5 man/construct_theta_bar_j.Rd | 5 man/construct_theta_hat_j.Rd | 5 man/create_annotations.Rd | 6 man/default_koma_attr_merge.Rd |only man/draw_gamma_j.Rd | 11 man/draw_omega_j.Rd | 11 man/draw_parameters_j.Rd | 7 man/draw_parameters_j_informative.Rd | 7 man/draw_theta_j.Rd | 6 man/draw_theta_j_informative.Rd | 6 man/estimate.Rd | 27 man/expand_dummies.Rd |only man/find_dependent_columns.Rd |only man/find_phi_positions.Rd |only man/forecast_draw.Rd | 7 man/get_default_gibbs_spec.Rd | 3 man/get_koma_attr_policy.Rd |only man/init_koma_theme.Rd | 11 man/initial_omega_j.Rd | 11 man/initialize_sampler.Rd | 11 man/initialize_sampler_informative.Rd | 11 man/koma.Rd | 3 man/parse_index_spec.Rd |only man/rebase_fan_data.Rd |only man/reset_koma_attr_policy.Rd |only man/set_gibbs_spec.Rd | 3 man/set_koma_attr_policy.Rd | 36 + man/shorten_forecast_horizon.Rd |only man/summarise_draw_conditions.Rd |only man/system_of_equations.Rd | 6 man/target_j.Rd | 11 man/target_j_informative_initial.Rd | 11 man/the.Rd | 4 man/validate_date_range.Rd |only man/validate_full_rank.Rd |only man/validate_identity_lag_collinearity.Rd |only man/validate_model_evaluation_input.Rd |only man/validate_restrictions.Rd |only man/validate_thetas_exist.Rd |only man/validate_unique_endogenous_variables.Rd |only tests/testthat/helper-xbtxb.R |only tests/testthat/test-construct_balanced_data.R | 14 tests/testthat/test-construct_posterior.R | 16 tests/testthat/test-estimate.R | 288 +++++++-- tests/testthat/test-forecast.R | 203 ++++++ tests/testthat/test-gibbs_settings.R | 29 tests/testthat/test-mass.R | 3 tests/testthat/test-matrix_construction.R | 7 tests/testthat/test-mh_within_gibbs_algorithm.R | 68 +- tests/testthat/test-mh_within_gibbs_algorithm_informative.R | 42 + tests/testthat/test-model_evaluation.R | 80 ++ tests/testthat/test-model_identification.R | 126 ++++ tests/testthat/test-plot.R | 142 ++++ tests/testthat/test-system_of_equations.R | 349 ++++++++++++ tests/testthat/test-time_series.R | 105 +++ tests/testthat/test-ts_transform.R | 20 tests/testthat/test-validate.R | 86 ++ vignettes/koma-equations.Rmd | 52 + vignettes/koma-extended-timeseries.Rmd | 16 vignettes/koma-getting-started.Rmd | 35 - 106 files changed, 3850 insertions(+), 1055 deletions(-)
Title: Estimate Brain Networks and Connectivity with Population-Derived
Priors
Description: Implements Bayesian brain mapping with population-derived priors,
including the original model described in Mejia et al. (2020)
<doi:10.1080/01621459.2019.1679638>, the model with spatial priors described
in Mejia et al. (2022) <doi:10.1080/10618600.2022.2104289>, and the model
with population-derived priors on functional connectivity described in Mejia
et al. (2025) <doi:10.1093/biostatistics/kxaf022>. Population-derived priors
are based on templates representing established brain network maps, for
example derived from independent component analysis (ICA), parcellations,
or other methods. Model estimation is based on expectation-maximization or
variational Bayes algorithms. Includes direct support for 'CIFTI', 'GIFTI',
and 'NIFTI' neuroimaging file formats.
Author: Amanda Mejia [aut, cre] ,
Damon Pham [aut] ,
Nohelia Da Silva [ctb]
Maintainer: Amanda Mejia <mandy.mejia@gmail.com>
Diff between BayesBrainMap versions 0.2.0 dated 2026-02-03 and 0.3.1 dated 2026-10-02
BayesBrainMap-0.2.0/BayesBrainMap/R/norm_BOLD.R |only BayesBrainMap-0.2.0/BayesBrainMap/man/estimate_prior_from_DR_two.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/make_mask.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/norm_BOLD.Rd |only BayesBrainMap-0.2.0/BayesBrainMap/man/scale_Param.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/DESCRIPTION | 18 BayesBrainMap-0.3.1/BayesBrainMap/MD5 | 235 BayesBrainMap-0.3.1/BayesBrainMap/NAMESPACE | 191 BayesBrainMap-0.3.1/BayesBrainMap/NEWS.md | 52 BayesBrainMap-0.3.1/BayesBrainMap/R/EM_BBM.R | 2880 ++++----- BayesBrainMap-0.3.1/BayesBrainMap/R/INLA_check.R | 30 BayesBrainMap-0.3.1/BayesBrainMap/R/VB_FC_BBM.R | 1764 ++--- BayesBrainMap-0.3.1/BayesBrainMap/R/aliases.R | 46 BayesBrainMap-0.3.1/BayesBrainMap/R/check_parallel_packages.R | 46 BayesBrainMap-0.3.1/BayesBrainMap/R/dim_reduce.R | 116 BayesBrainMap-0.3.1/BayesBrainMap/R/dual_reg2.R | 1102 +-- BayesBrainMap-0.3.1/BayesBrainMap/R/estimate_prior.R | 3081 ++++------ BayesBrainMap-0.3.1/BayesBrainMap/R/estimate_prior.methods.R | 1522 ++-- BayesBrainMap-0.3.1/BayesBrainMap/R/estimate_prior.utils.R | 268 BayesBrainMap-0.3.1/BayesBrainMap/R/export_prior.R | 446 - BayesBrainMap-0.3.1/BayesBrainMap/R/fit_BBM.R | 2548 ++++---- BayesBrainMap-0.3.1/BayesBrainMap/R/fit_BBM.methods.R | 950 +-- BayesBrainMap-0.3.1/BayesBrainMap/R/id_engagements.R | 675 +- BayesBrainMap-0.3.1/BayesBrainMap/R/id_engagements.methods.R | 812 +- BayesBrainMap-0.3.1/BayesBrainMap/R/id_engagements_utils.R | 144 BayesBrainMap-0.3.1/BayesBrainMap/R/make_mesh.R | 240 BayesBrainMap-0.3.1/BayesBrainMap/R/orthonorm.R |only BayesBrainMap-0.3.1/BayesBrainMap/R/removebs_prior.R | 66 BayesBrainMap-0.3.1/BayesBrainMap/R/resample_prior.R | 96 BayesBrainMap-0.3.1/BayesBrainMap/R/rm_nuisIC.R | 261 BayesBrainMap-0.3.1/BayesBrainMap/R/rox_args_docs.R | 162 BayesBrainMap-0.3.1/BayesBrainMap/R/utils.R | 462 - BayesBrainMap-0.3.1/BayesBrainMap/R/zzz.R |only BayesBrainMap-0.3.1/BayesBrainMap/README.md | 176 BayesBrainMap-0.3.1/BayesBrainMap/inst/CITATION | 116 BayesBrainMap-0.3.1/BayesBrainMap/inst/REFERENCES | 46 BayesBrainMap-0.3.1/BayesBrainMap/inst/REFERENCES.bib | 224 BayesBrainMap-0.3.1/BayesBrainMap/man/BrainMap.Rd | 28 BayesBrainMap-0.3.1/BayesBrainMap/man/Chol_samp_fun.Rd | 48 BayesBrainMap-0.3.1/BayesBrainMap/man/EM_BBM.spatial.Rd | 196 BayesBrainMap-0.3.1/BayesBrainMap/man/GSR_Param.Rd | 28 BayesBrainMap-0.3.1/BayesBrainMap/man/INLA_check.Rd | 30 BayesBrainMap-0.3.1/BayesBrainMap/man/IW_var.Rd | 50 BayesBrainMap-0.3.1/BayesBrainMap/man/IW_var_cor.Rd | 42 BayesBrainMap-0.3.1/BayesBrainMap/man/LL2_kappa.Rd | 104 BayesBrainMap-0.3.1/BayesBrainMap/man/LL_SQUAREM.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/Q2_max_check.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/TR_param.Rd | 26 BayesBrainMap-0.3.1/BayesBrainMap/man/UpdateThetaSQUAREM_BBM.Rd | 106 BayesBrainMap-0.3.1/BayesBrainMap/man/UpdateTheta_BBM.Rd | 154 BayesBrainMap-0.3.1/BayesBrainMap/man/VB_FC_BBM.Rd | 178 BayesBrainMap-0.3.1/BayesBrainMap/man/add_str.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/bdiag_m.Rd | 42 BayesBrainMap-0.3.1/BayesBrainMap/man/bdiag_m2.Rd | 38 BayesBrainMap-0.3.1/BayesBrainMap/man/check_parallel_packages.Rd | 32 BayesBrainMap-0.3.1/BayesBrainMap/man/check_req_ifti_pkg.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/compute_LL_std.Rd | 52 BayesBrainMap-0.3.1/BayesBrainMap/man/compute_R_inv.Rd | 52 BayesBrainMap-0.3.1/BayesBrainMap/man/compute_mu_s.Rd | 64 BayesBrainMap-0.3.1/BayesBrainMap/man/dim_reduce.Rd | 66 BayesBrainMap-0.3.1/BayesBrainMap/man/dot-onAttach.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/man/dual_reg2.Rd | 380 - BayesBrainMap-0.3.1/BayesBrainMap/man/engagements.Rd | 28 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate.ESS.Rd | 54 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_nu.Rd | 42 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_nu_matrix.Rd | 38 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_prior.Rd | 761 +- BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_prior_FC_Chol.Rd | 30 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_prior_FC_IW.Rd | 40 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_prior_FC_empirical.Rd | 30 BayesBrainMap-0.3.1/BayesBrainMap/man/estimate_prior_from_DR.Rd | 45 BayesBrainMap-0.3.1/BayesBrainMap/man/export_prior.Rd | 88 BayesBrainMap-0.3.1/BayesBrainMap/man/fit_BBM.Rd | 511 - BayesBrainMap-0.3.1/BayesBrainMap/man/format_engagement_name.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/getInvCovAR.Rd | 40 BayesBrainMap-0.3.1/BayesBrainMap/man/get_FORMAT.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/halflogdetX.Rd | 36 BayesBrainMap-0.3.1/BayesBrainMap/man/hpf_lpf_param.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/man/hpf_param.Rd | 42 BayesBrainMap-0.3.1/BayesBrainMap/man/id_engagements.Rd | 146 BayesBrainMap-0.3.1/BayesBrainMap/man/lik.Rd | 50 BayesBrainMap-0.3.1/BayesBrainMap/man/loglik_kappa_est.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/lpf_param.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/man/make_Pmat.Rd | 46 BayesBrainMap-0.3.1/BayesBrainMap/man/make_mesh.Rd | 56 BayesBrainMap-0.3.1/BayesBrainMap/man/make_mesh_2D.Rd | 52 BayesBrainMap-0.3.1/BayesBrainMap/man/orthonorm.Rd | 42 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.bMap.cifti.Rd | 64 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.bMap.matrix.Rd | 38 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.bMap.nifti.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.bMap_eng.cifti.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.prior.cifti.Rd | 94 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.prior.gifti.Rd | 92 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.prior.matrix.Rd | 38 BayesBrainMap-0.3.1/BayesBrainMap/man/plot.prior.nifti.Rd | 116 BayesBrainMap-0.3.1/BayesBrainMap/man/pw_estimate.Rd | 42 BayesBrainMap-0.3.1/BayesBrainMap/man/removebs_prior.Rd | 34 BayesBrainMap-0.3.1/BayesBrainMap/man/resample_prior.Rd | 44 BayesBrainMap-0.3.1/BayesBrainMap/man/rm_nuisIC.Rd | 103 BayesBrainMap-0.3.1/BayesBrainMap/man/scale_by_Param.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/man/scale_sm_FWHM_Param.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/man/sqrt_XtX.Rd | 40 BayesBrainMap-0.3.1/BayesBrainMap/man/struct_prior.Rd | 60 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.bMap.cifti.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.bMap.matrix.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.bMap.nifti.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.bMap_eng.cifti.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.bMap_eng.matrix.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.bMap_eng.nifti.Rd | 62 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.prior.cifti.Rd | 64 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.prior.gifti.Rd | 64 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.prior.matrix.Rd | 64 BayesBrainMap-0.3.1/BayesBrainMap/man/summary.prior.nifti.Rd | 64 BayesBrainMap-0.3.1/BayesBrainMap/man/update_A.Rd | 88 BayesBrainMap-0.3.1/BayesBrainMap/man/update_A_Chol.Rd | 100 BayesBrainMap-0.3.1/BayesBrainMap/man/update_S.Rd | 74 BayesBrainMap-0.3.1/BayesBrainMap/man/update_tau2.Rd | 56 BayesBrainMap-0.3.1/BayesBrainMap/man/varTol_Param.Rd | 32 BayesBrainMap-0.3.1/BayesBrainMap/man/var_sq_err.Rd | 54 BayesBrainMap-0.3.1/BayesBrainMap/man/var_sq_err_constrained.Rd | 52 BayesBrainMap-0.3.1/BayesBrainMap/man/welcome_msg.Rd |only BayesBrainMap-0.3.1/BayesBrainMap/tests/run_BayesBrainMap_tests.R | 38 BayesBrainMap-0.3.1/BayesBrainMap/tests/testthat.R | 8 BayesBrainMap-0.3.1/BayesBrainMap/tests/testthat/test-dr2_estPrior.R |only BayesBrainMap-0.3.1/BayesBrainMap/tests/testthat/test-fit_BBM.R |only BayesBrainMap-0.3.1/BayesBrainMap/tests/testthat/test-misc.R | 12 126 files changed, 12483 insertions(+), 12494 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-09-16 0.3.4
2026-08-27 0.3.3
2025-12-16 0.3.2
2025-11-18 0.3.1
2025-02-13 0.3.0
2024-12-07 0.2.7
2024-11-24 0.2.6
2024-11-17 0.2.4
2024-10-31 0.2.3
Title: Interface Between R and the OpenStreetMap-Based Routing Service
OSRM
Description: An interface between R and the 'OSRM' API. 'OSRM' is a routing
service based on 'OpenStreetMap' data. See <https://project-osrm.org/> for more
information. This package enables the computation of routes, trips, isochrones and
travel distances matrices (travel time and kilometric distance).
Author: Timothee Giraud [cre, aut] ,
Robin Cura [ctb] ,
Matthieu Viry [ctb] ,
Robin Lovelace [ctb] ,
Egor Kotov [ctb]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between osrm versions 5.0.0 dated 2025-12-17 and 6.0.0 dated 2026-10-02
osrm-5.0.0/osrm/NEWS |only osrm-5.0.0/osrm/inst/tinytest/coord_format_out.rds |only osrm-5.0.0/osrm/inst/tinytest/test_internals_coord_format.R |only osrm-5.0.0/osrm/man/figures/cov.png |only osrm-5.0.0/osrm/man/figures/iso.png |only osrm-5.0.0/osrm/man/figures/route.png |only osrm-5.0.0/osrm/man/figures/trip.png |only osrm-6.0.0/osrm/DESCRIPTION | 22 - osrm-6.0.0/osrm/MD5 | 73 ++--- osrm-6.0.0/osrm/NAMESPACE | 31 +- osrm-6.0.0/osrm/NEWS.md |only osrm-6.0.0/osrm/R/osrmIsochrone.R | 47 +-- osrm-6.0.0/osrm/R/osrmIsodistance.R | 66 ++-- osrm-6.0.0/osrm/R/osrmNearest.R | 42 +- osrm-6.0.0/osrm/R/osrmRoute.R | 98 ++++-- osrm-6.0.0/osrm/R/osrmTable.R | 92 ++++-- osrm-6.0.0/osrm/R/osrmTrip.R | 28 + osrm-6.0.0/osrm/R/package.R | 5 osrm-6.0.0/osrm/R/utils.R | 68 +++- osrm-6.0.0/osrm/R/zzz.R | 4 osrm-6.0.0/osrm/README.md | 171 ++++++------ osrm-6.0.0/osrm/inst/tinytest/tab_format_in.rds |binary osrm-6.0.0/osrm/inst/tinytest/tab_format_out_dist.rds |binary osrm-6.0.0/osrm/inst/tinytest/tab_format_out_dur.rds |binary osrm-6.0.0/osrm/inst/tinytest/test_internals_input_route.R | 31 ++ osrm-6.0.0/osrm/inst/tinytest/test_internals_input_table.R | 23 + osrm-6.0.0/osrm/inst/tinytest/test_internals_tab_format.R | 8 osrm-6.0.0/osrm/inst/tinytest/test_osrmIsochrone.R | 42 -- osrm-6.0.0/osrm/inst/tinytest/test_osrmIsodistance.R | 52 --- osrm-6.0.0/osrm/inst/tinytest/test_osrmNearest.R | 4 osrm-6.0.0/osrm/inst/tinytest/test_osrmRoute.R | 32 +- osrm-6.0.0/osrm/inst/tinytest/test_osrmTable.R | 100 +------ osrm-6.0.0/osrm/inst/tinytest/test_osrmTrip.R | 12 osrm-6.0.0/osrm/man/figures/iso-1.png |only osrm-6.0.0/osrm/man/figures/route-1.png |only osrm-6.0.0/osrm/man/figures/trip-1.png |only osrm-6.0.0/osrm/man/osrm.Rd | 15 - osrm-6.0.0/osrm/man/osrmIsochrone.Rd | 4 osrm-6.0.0/osrm/man/osrmIsodistance.Rd | 18 - osrm-6.0.0/osrm/man/osrmNearest.Rd | 2 osrm-6.0.0/osrm/man/osrmRoute.Rd | 36 +- osrm-6.0.0/osrm/man/osrmTable.Rd | 19 - osrm-6.0.0/osrm/man/osrmTrip.Rd | 8 43 files changed, 629 insertions(+), 524 deletions(-)
Title: Linear Mixed Models with Sparse Matrix Methods and Smoothing
Description: Provides tools for fitting linear mixed models using sparse matrix
methods and variance component estimation. Applications include spline-based
modeling of spatial and temporal trends using penalized splines (Boer, 2023)
<doi:10.1177/1471082X231178591>.
Author: Martin Boer [aut] ,
Bart-Jan van Rossum [aut, cre]
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between LMMsolver versions 1.0.14 dated 2026-09-24 and 1.0.14.1 dated 2026-10-02
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ inst/doc/Solving_Linear_Mixed_Models.html | 4 ++-- src/LMMsolver_chol.cpp | 24 +++++------------------- 5 files changed, 19 insertions(+), 29 deletions(-)
Title: Tilted and Data-Sharpened Nonparametric Density Estimation
Description: High-order nonparametric density estimators built by perturbing a
conventional kernel estimator, either by re-weighting the observations
("tilting") or by moving them ("data sharpening"). The perturbation is
chosen so that the estimator inherits the fast convergence rate of an
infinite-order kernel estimator, such as the sinc or trapezoidal flat-top
estimator, while remaining a proper non-negative density without the
oscillatory tails those estimators suffer from. Two criteria are provided:
minimising the L2 distance to an infinite-order comparator, following
Doosti and Hall (2016) <doi:10.1111/rssb.12112>, and minimising a
cross-validation criterion that needs no comparator and is much faster,
following Doosti, Hall and Mateu (2018) <doi:10.1016/j.jspi.2017.12.003>.
Author: Hassan Doosti [aut, cre, cph]
Maintainer: Hassan Doosti <hassan.doosti@mq.edu.au>
Diff between tiltdens versions 0.2.0 dated 2026-09-28 and 0.2.1 dated 2026-10-02
DESCRIPTION | 6 - MD5 | 20 ++--- NAMESPACE | 3 NEWS.md | 11 ++ R/kernel_registry.R | 164 ++++++++++++++++++++++++++++++++--------- R/sharpen.R | 1 R/tilt.R | 4 - R/tilt_cv.R | 5 + man/make_kernel.Rd | 41 +++++++--- man/plot.tilt_kernel.Rd |only man/summary.tilt_kernel.Rd |only tests/testthat/test-revision.R | 45 ++++++++++- 12 files changed, 234 insertions(+), 66 deletions(-)
Title: Parse, Clean, and Normalize URLs
Description: A lightweight toolkit for extracting structured information from URLs.
Includes functions for parsing, normalizing protocols, extracting domains, and constructing clean URLs.
Domain and public-suffix extraction is delegated to the 'pslr' package,
which implements the Public Suffix List from <https://publicsuffix.org>.
Punycode and IDNA encoding is handled by the 'punycoder' package.
Author: Bart Turczynski [aut, cre]
Maintainer: Bart Turczynski <bartek@turczynski.pl>
Diff between rurl versions 3.0.1 dated 2026-09-09 and 3.1.0 dated 2026-10-02
DESCRIPTION | 6 MD5 | 121 +++-- NAMESPACE | 1 NEWS.md | 59 ++ R/accessors.R | 54 ++ R/canonical_join.R | 1 R/diagnostics.R | 12 R/domain.R | 249 +++++++++++- R/email-diagnostics.R | 2 R/host-policy.R | 4 R/parse-phases.R | 16 R/parse-state.R | 6 R/parse-web.R | 28 - R/parse.R | 63 ++- R/profiles.R | 10 R/resolve.R | 2 R/scheme-policy.R | 75 +++ R/serialize.R | 6 R/url-key.R | 2 R/utils.R | 4 R/zzz.R | 55 ++ inst/WORDLIST | 198 +++++++++ man/check_schemes.Rd | 32 + man/get_clean_url.Rd | 11 man/get_mailto_recipients.Rd | 2 man/get_path.Rd | 11 man/get_url_diagnostics.Rd | 28 + man/query_param_summary.Rd | 2 man/safe_parse_url.Rd | 18 man/safe_parse_urls.Rd | 11 man/serialize_url.Rd | 12 tests/testthat/helper-security.R |only tests/testthat/test-ace-presentation-decode.R |only tests/testthat/test-domain-invalid-ace-label.R |only tests/testthat/test-g4-coverage-negatives.R | 2 tests/testthat/test-host-parsers.R | 2 tests/testthat/test-host-policy.R | 13 tests/testthat/test-osv.R | 10 tests/testthat/test-parse-cache-long-key.R |only tests/testthat/test-parse-web.R | 10 tests/testthat/test-punycoder-host-probe-characterization.R | 154 +++++++ tests/testthat/test-query-param-summary.R | 6 tests/testthat/test-scheme-policy.R | 142 ++++++ tests/testthat/test-security.R | 222 +++++++++- tests/testthat/test-spelling-aliases.R |only tests/testthat/test-url-diagnostics.R | 1 tests/testthat/test-url-key.R | 2 tests/testthat/test-url-standard-forbidden-host.R | 53 ++ tests/testthat/test-url-standard-path-encoding-orthogonal.R | 2 tests/testthat/test-wpt-base-relative.R | 6 tools/architecture-map-gate.R | 2 tools/authority-at-sweep.R | 2 tools/cran-comments-gate.R | 114 ++++- tools/local-ci-plan.R | 245 ++++++++++- tools/local-ci.sh | 8 tools/octet-acceptance-sweep.R | 4 tools/oracle/README.md | 4 tools/oracle/derive-verifydnslength.R | 2 tools/oracle/verify-ada-extra-urltestdata.R | 2 tools/oracle/verify-youarealiar.R | 2 tools/pkgdown-reference-gate.R | 2 tools/posture-probe.R | 2 tools/pqf-component-sweep.R | 2 tools/verify.R | 49 ++ 64 files changed, 1901 insertions(+), 265 deletions(-)
Title: A Tool for Processing and Analyzing Dendrometer Data
Description: Tools for importing, cleaning, analyzing, and visualizing
high-resolution dendrometer data and for linking them with climate data.
Dendrometer and climate records can be imported with automatic date-time
parsing (read.dendrometer(), read.climate()) and checked for a regular
temporal resolution (reso_dm()). Preprocessing functions detect and correct
artificial jumps with a threshold-based or an automatic changepoint method
(jump.locator()), detect and fill gaps with spline, seasonal, or network
interpolation (dm.na.interpolation(), network.interpolation()), and truncate
or resample the series (dendro.truncate(), dendro.resample()). Daily
statistics (daily.data()), the stem-cycle approach (phase.sc()), and the
zero-growth approach (phase.zg()) separate radial growth from reversible
stem shrinkage and swelling. The function phase.zg() also returns metrics of
tree water deficit (TWD) phases, including the event-based ABr index, and the
daily drought indices of Peters et al. (2025) <doi: [...truncated...]
Author: Sugam Aryal [aut, cre, dtc],
Martin Haeusser [aut],
Jussi Griessinger [aut],
Ze-Xin Fan [aut],
Achim Braeuning [aut, dgs]
Maintainer: Sugam Aryal <sugam.aryal@fau.de>
Diff between dendRoAnalyst versions 0.1.6 dated 2026-05-20 and 2.0.0 dated 2026-10-02
dendRoAnalyst-0.1.6/dendRoAnalyst/R/plot_SC_output.R |only dendRoAnalyst-0.1.6/dendRoAnalyst/R/plot_ZG_output.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/DESCRIPTION | 57 dendRoAnalyst-2.0.0/dendRoAnalyst/MD5 | 63 dendRoAnalyst-2.0.0/dendRoAnalyst/NAMESPACE | 282 - dendRoAnalyst-2.0.0/dendRoAnalyst/R/dendroanalyst.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/R/globals.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/R/ktm_rain17.R | 18 dendRoAnalyst-2.0.0/dendRoAnalyst/R/phase.sc.R | 429 - dendRoAnalyst-2.0.0/dendRoAnalyst/R/phase.zg.R | 678 ++ dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot.SC_output.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot.ZG_output.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot.dm_growth_fit.R | 2603 ++++------ dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot_climate_phase.R | 36 dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot_distribution_helpers.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot_growth_boundaries.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/R/plot_zg_scatter.R |only dendRoAnalyst-2.0.0/dendRoAnalyst/build/partial.rdb |binary dendRoAnalyst-2.0.0/dendRoAnalyst/build/vignette.rds |binary dendRoAnalyst-2.0.0/dendRoAnalyst/inst/doc/dendRoAnalyst_vignettes.R | 12 dendRoAnalyst-2.0.0/dendRoAnalyst/inst/doc/dendRoAnalyst_vignettes.Rmd | 12 dendRoAnalyst-2.0.0/dendRoAnalyst/inst/doc/dendRoAnalyst_vignettes.html | 332 - dendRoAnalyst-2.0.0/dendRoAnalyst/inst/shiny |only dendRoAnalyst-2.0.0/dendRoAnalyst/man/dendroanalyst.Rd |only dendRoAnalyst-2.0.0/dendRoAnalyst/man/dm_plot_climate.Rd | 4 dendRoAnalyst-2.0.0/dendRoAnalyst/man/dm_plot_climate_compare.Rd | 4 dendRoAnalyst-2.0.0/dendRoAnalyst/man/ktm_rain17.Rd | 2 dendRoAnalyst-2.0.0/dendRoAnalyst/man/phase.sc.Rd | 135 dendRoAnalyst-2.0.0/dendRoAnalyst/man/phase.zg.Rd | 234 dendRoAnalyst-2.0.0/dendRoAnalyst/man/plot.SC_output.Rd | 164 dendRoAnalyst-2.0.0/dendRoAnalyst/man/plot.SC_output_clim.Rd | 4 dendRoAnalyst-2.0.0/dendRoAnalyst/man/plot.ZG_output.Rd | 255 dendRoAnalyst-2.0.0/dendRoAnalyst/man/plot.ZG_output_clim.Rd | 4 dendRoAnalyst-2.0.0/dendRoAnalyst/man/plot.daily_output_clim.Rd | 4 dendRoAnalyst-2.0.0/dendRoAnalyst/tests |only dendRoAnalyst-2.0.0/dendRoAnalyst/vignettes/dendRoAnalyst_vignettes.Rmd | 12 36 files changed, 2985 insertions(+), 2359 deletions(-)