Title: Identifies Package Differences
Description: Identifies differences between
versions of a package. Specifically, the functions help
determine if there are breaking changes from one package version
to the next. The package also includes a stability assessment,
to help you determine the overall stability of a package, or even
an entire repository.
Author: David Bosak [aut, cre],
Brian Varney [ctb],
Kevin Putschko [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between pkgdiff versions 1.0.1 dated 2025-12-16 and 1.0.2 dated 2026-03-25
DESCRIPTION | 6 MD5 | 20 +- NEWS.md | 4 R/stability.R | 50 +++-- tests/testthat/test-diff.R | 133 +++++++++------ tests/testthat/test-pkginfo.R | 354 +++++++++++++++++++++++----------------- tests/testthat/test-pkgrepo.R | 14 - tests/testthat/test-reports.R | 64 ++++--- tests/testthat/test-stability.R | 176 ++++++++++++------- tests/testthat/test-summary.R | 83 ++++++--- tests/testthat/test-utilities.R | 297 +++++++++++++++++++++------------ 11 files changed, 738 insertions(+), 463 deletions(-)
Title: Create Maps from a Column of Place Names
Description: Mapping tools that convert place names to coordinates on the fly.
These 'ggplot2' extensions make maps from a data frame where one of the
columns contains place names, without having to directly work with the
underlying geospatial data and tools. The corresponding map data must be
registered with 'cartographer' either by the user or by another package.
Author: Carl Suster [aut, cre, cph] ,
Western Sydney Local Health District, NSW Health [cph]
Maintainer: Carl Suster <carl.suster@sydney.edu.au>
Diff between ggautomap versions 0.3.3 dated 2025-09-10 and 0.4.0 dated 2026-03-25
ggautomap-0.3.3/ggautomap/R/configure_inset.R |only ggautomap-0.3.3/ggautomap/man/configure_inset.Rd |only ggautomap-0.4.0/ggautomap/DESCRIPTION | 27 - ggautomap-0.4.0/ggautomap/MD5 | 66 +- ggautomap-0.4.0/ggautomap/NAMESPACE | 17 ggautomap-0.4.0/ggautomap/NEWS.md | 13 ggautomap-0.4.0/ggautomap/R/aaa.R | 46 + ggautomap-0.4.0/ggautomap/R/choropleth.R | 68 +- ggautomap-0.4.0/ggautomap/R/coord_automap.R | 6 ggautomap-0.4.0/ggautomap/R/geom_boundaries.R | 107 ++-- ggautomap-0.4.0/ggautomap/R/geom_centroids.R | 49 + ggautomap-0.4.0/ggautomap/R/geoscatter.R | 187 ++++--- ggautomap-0.4.0/ggautomap/R/ggautomap-package.R | 4 ggautomap-0.4.0/ggautomap/R/position_circle_repel.R | 32 - ggautomap-0.4.0/ggautomap/R/stat_automap.R | 28 - ggautomap-0.4.0/ggautomap/R/stat_automap_coords.R | 47 + ggautomap-0.4.0/ggautomap/README.md | 6 ggautomap-0.4.0/ggautomap/build/vignette.rds |binary ggautomap-0.4.0/ggautomap/inst/doc/ggautomap.R | 169 ++++-- ggautomap-0.4.0/ggautomap/inst/doc/ggautomap.Rmd | 169 ++++-- ggautomap-0.4.0/ggautomap/inst/doc/ggautomap.html | 265 ++++++---- ggautomap-0.4.0/ggautomap/man/choropleth.Rd | 23 ggautomap-0.4.0/ggautomap/man/coord_automap.Rd | 2 ggautomap-0.4.0/ggautomap/man/figures/README-example-basic-1.png |binary ggautomap-0.4.0/ggautomap/man/figures/README-example-basic-2.png |binary ggautomap-0.4.0/ggautomap/man/geom_boundaries.Rd | 12 ggautomap-0.4.0/ggautomap/man/geom_centroids.Rd | 12 ggautomap-0.4.0/ggautomap/man/geoscatter.Rd | 13 ggautomap-0.4.0/ggautomap/man/ggautomap-package.Rd | 4 ggautomap-0.4.0/ggautomap/man/position_circle_repel.Rd | 17 ggautomap-0.4.0/ggautomap/man/reexports.Rd | 6 ggautomap-0.4.0/ggautomap/man/stat_automap.Rd | 10 ggautomap-0.4.0/ggautomap/man/stat_automap_coords.Rd | 16 ggautomap-0.4.0/ggautomap/tests |only ggautomap-0.4.0/ggautomap/vignettes/ggautomap.Rmd | 169 ++++-- 35 files changed, 1086 insertions(+), 504 deletions(-)
Title: Software for Evaluating Counterfactuals
Description: Inferences about counterfactuals are essential for prediction,
answering what if questions, and estimating causal effects.
However, when the counterfactuals posed are too far from the data at
hand, conclusions drawn from well-specified statistical analyses
become based largely on speculation hidden in convenient modeling
assumptions that few would be willing to defend. Unfortunately,
standard statistical approaches assume the veracity of the model
rather than revealing the degree of model-dependence, which makes this
problem hard to detect. 'WhatIf' offers easy-to-apply methods to
evaluate counterfactuals that do not require sensitivity testing over
specified classes of models. If an analysis fails the tests offered
here, then we know that substantive inferences will be sensitive to at
least some modeling choices that are not based on empirical evidence,
no matter what method of inference one chooses to use. 'WhatIf'
implements the methods for evaluating counterfactuals discussed in
Ga [...truncated...]
Author: Heather Stoll [aut],
Gary King [aut],
Langche Zeng [aut],
Christopher Gandrud [aut],
Ben Sabath [aut],
Soubhik Barari [ctb],
Katalina Toth [cre]
Maintainer: Katalina Toth <katalinaltoth@gmail.com>
This is a re-admission after prior archival of version 1.5-10 dated 2020-11-14
Diff between WhatIf versions 1.5-10 dated 2020-11-14 and 1.5-11 dated 2026-03-25
DESCRIPTION | 48 ++++++++++++++++++++++---------- MD5 | 14 ++++----- NEWS.md | 35 +++++++++++++++-------- R/whatif.R | 2 - data/peacecf.RData |binary data/peacef.RData |binary man/whatif.Rd | 5 +-- tests/testthat/test-whatif_convexhull.R | 13 ++++---- 8 files changed, 72 insertions(+), 45 deletions(-)
Title: Solar Potential Calculation for Point Clouds using 'VOSTOK'
Description: Calculate solar potential for LiDAR point clouds using the 'VOSTOK'
(Voxel Octree Solar Toolkit) algorithm. This R program provides an interface to
the original 'VOSTOK' C++ implementation by Bechtold and Hofle (2020), enabling
efficient ray casting and solar position algorithms to compute solar irradiance
for each point while accounting for shadowing effects. Integrates seamlessly with
the 'lidR' package for LiDAR data processing workflows. The original 'VOSTOK'
toolkit is available at <doi:10.11588/data/QNA02B>.
Author: Andrew J. Sanchez Meador [aut, cre],
Sebastian Bechtold [aut] ,
Bernhard Hofle [aut]
Maintainer: Andrew J. Sanchez Meador <andrew.sanchezmeador@nau.edu>
Diff between vostokR versions 0.2.0 dated 2026-03-23 and 0.2.1 dated 2026-03-25
DESCRIPTION | 10 ++--- MD5 | 14 +++---- man/compute_normals_cpp.Rd | 52 +++++++++++++------------- man/compute_normals_with_features_cpp.Rd | 62 +++++++++++++++---------------- src/Makevars.win | 4 +- src/ShadowCalc.cpp | 2 + src/add_normals_fast.cpp | 8 ++-- src/rcpp_interface.cpp | 34 ++++++----------- 8 files changed, 90 insertions(+), 96 deletions(-)
Title: Interface to the 'ValidMind' Platform
Description: Deploy, execute, and analyze the results of models hosted on the
'ValidMind' Platform <https://validmind.ai>. This package interfaces with the
'Python' Library API in order to allow advanced diagnostics and insight
into trained models all from an 'R' environment.
Author: Andres Rodriguez [aut, cre, cph]
Maintainer: Andres Rodriguez <andres@validmind.ai>
Diff between validmind versions 0.1.2 dated 2024-11-07 and 2.12.5 dated 2026-03-25
DESCRIPTION | 16 ++--- MD5 | 17 +++--- NAMESPACE | 2 R/custom_tests.R | 6 +- R/platform.R | 56 +++++++++++++++++--- README.md | 121 +++++++++++++++++++++++++++++++++++++++++--- man/py_print.Rd |only man/register_custom_test.Rd | 4 - man/run_custom_test.Rd | 2 man/vm.Rd | 15 +++-- 10 files changed, 198 insertions(+), 41 deletions(-)
Title: Estimating Infection Rates from Serological Data
Description: Translates antibody levels measured in cross-sectional
population samples into estimates of the frequency with which
seroconversions (infections) occur in the sampled populations.
Replaces the previous `seroincidence` package.
Author: Kristina Lai [aut, cre],
Chris Orwa [aut],
Kwan Ho Lee [ctb],
Peter Teunis [aut, cph] ,
Kristen Aiemjoy [aut],
Douglas Ezra Morrison [aut]
Maintainer: Kristina Lai <kwlai@ucdavis.edu>
This is a re-admission after prior archival of version 1.4.0 dated 2025-12-11
Diff between serocalculator versions 1.4.0 dated 2025-12-11 and 1.4.1 dated 2026-03-25
DESCRIPTION | 20 MD5 | 93 ++- NAMESPACE | 4 NEWS.md | 58 ++ R/autoplot.seroincidence.by.R | 10 R/compare_seroincidence.R |only R/compute_cluster_robust_var.R |only R/est_seroincidence.R | 132 ++++- R/est_seroincidence_by.R | 39 + R/graph_seroresponse_model_1.R | 2 R/load_noise_params.R | 53 +- R/load_sr_params.R | 49 + R/sim_pop_data_multi.R | 38 + R/stratify_data.R | 48 + R/summary.seroincidence.R | 34 + R/utils.R | 71 +- R/validate_cluster_params.R |only README.md | 4 inst/WORDLIST | 17 inst/examples/exm-analyze_sims.R | 2 inst/examples/exm-autoplot.sim_results.R | 2 inst/examples/exm-compare_seroincidence.R |only inst/examples/exm-sim_pop_data_multi.R | 3 man/analyze_sims.Rd | 2 man/autoplot.seroincidence.by.Rd | 2 man/autoplot.sim_results.Rd | 2 man/compare_seroincidence.Rd |only man/est_seroincidence.Rd | 43 + man/est_seroincidence_by.Rd | 16 man/load_noise_params.Rd | 4 man/serocalculator-package.Rd | 2 man/sim_pop_data_multi.Rd | 5 man/stratify_data.Rd | 4 man/summary.seroincidence.Rd | 5 tests/testthat/_snaps/autoplot.seroincidence.by/seroinc-plot.svg | 259 +++++----- tests/testthat/_snaps/compare_seroincidence.md |only tests/testthat/_snaps/darwin |only tests/testthat/_snaps/est_seroincidence.md | 11 tests/testthat/_snaps/graph_seroresponse_model_1 |only tests/testthat/_snaps/linux |only tests/testthat/_snaps/print.summary.seroincidence.by.md | 14 tests/testthat/_snaps/summary.seroincidence.by.md | 37 - tests/testthat/_snaps/windows |only tests/testthat/fixtures/make-test_sim_results.R | 2 tests/testthat/test-autoplot.seroincidence.by.R | 21 tests/testthat/test-cluster_robust_se.R |only tests/testthat/test-compare_seroincidence.R |only tests/testthat/test-est_seroincidence.R | 87 +++ tests/testthat/test-est_seroincidence_by.R | 113 ++++ tests/testthat/test-graph_seroresponse_model_1.R |only tests/testthat/test-load_noise_params.R |only tests/testthat/test-load_sr_params.R | 62 ++ tests/testthat/test-sim_pop_data.R | 13 tests/testthat/test-sim_pop_data_multi.R | 91 +++ 54 files changed, 1132 insertions(+), 342 deletions(-)
More information about serocalculator at CRAN
Permanent link
Title: The Truncated Elliptical Family of Distributions
Description: It provides a function for random number generation from members of the truncated multivariate elliptical family of distributions, including truncated versions of the Normal, Student-t, Pearson type VII, Slash, Logistic, and related distributions. Additional distributions can be specified by supplying the density generating function. The package also computes first- and second-order moments, including the covariance matrix, for selected distributions.
References used for this package: Galarza, C. E., Matos, L. A., Castro, L. M., & Lachos, V. H. (2022). Moments of the doubly truncated selection elliptical distributions with emphasis on the unified multivariate skew-t distribution. Journal of Multivariate Analysis, 189, 104944 <doi:10.1016/j.jmva.2021.104944>; Ho, H. J., Lin, T. I., Chen, H. Y., & Wang, W. L. (2012). Some results on the truncated multivariate t distribution. Journal of Statistical Planning and Inference, 142(1), 25-40 <doi:10.1016/j.jspi.2011.06.006>; [...truncated...]
Author: Katherine A. L. Valeriano [aut, cre] ,
Larissa Avila Matos [ctb] ,
Christian Galarza Morales [ctb]
Maintainer: Katherine A. L. Valeriano <katandreina@gmail.com>
This is a re-admission after prior archival of version 1.3.0 dated 2024-02-07
Diff between relliptical versions 1.3.0 dated 2024-02-07 and 1.4.0 dated 2026-03-25
DESCRIPTION | 27 ++- MD5 | 30 ++-- NAMESPACE | 28 ++-- NEWS.md | 21 +-- R/Compute_Moments.R | 74 +++++----- R/Random_Numbers.R | 184 ++++++++++++++++----------- README.md | 245 +++++++++++++++++++----------------- build/partial.rdb |binary inst/REFERENCES.bib | 114 ++++++++-------- man/figures/README-example1-1.png |binary man/figures/README-example2.0-1.png |binary man/figures/README-example2.1-1.png |binary man/figures/README-example3-1.png |binary man/figures/README-example3.1-1.png |only man/figures/README-example4-1.png |only man/mvtelliptical.Rd | 62 +++++---- man/rtelliptical.Rd | 107 +++++++++------ 17 files changed, 497 insertions(+), 395 deletions(-)
Title: Bayesian Network Learning with the PCHC and Related Algorithms
Description: Bayesian network learning using the PCHC, FEDHC, MMHC and variants of these algorithms. PCHC stands for PC Hill-Climbing, a new hybrid algorithm that uses PC to construct the skeleton of the BN and then
applies the Hill-Climbing greedy search. More algorithms and variants have been added, such as MMHC, FEDHC, and the Tabu search variants, PCTABU, MMTABU and FEDTABU.
The relevant papers are:
a) Tsagris M. (2021). "A new scalable Bayesian network learning algorithm with applications to economics". Computational Economics, 57(1): 341-367. <doi:10.1007/s10614-020-10065-7>.
b) Tsagris M. (2022). "The FEDHC Bayesian Network Learning Algorithm". Mathematics 2022, 10(15): 2604. <doi:10.3390/math10152604>.
c) Sevinc V. and Tsagris M. (2024). "On the Hyperparameters of PCTABU and PCHC Bayesian Network Learning Algorithms". <doi:10.21203/rs.3.rs-5137132/v1>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between pchc versions 1.3 dated 2024-12-06 and 1.4 dated 2026-03-25
DESCRIPTION | 11 ++++++----- MD5 | 10 +++++----- NAMESPACE | 4 +++- R/rbn2.R | 6 +++--- R/rbn3.R | 2 +- man/pchc-package.Rd | 7 +++++-- 6 files changed, 23 insertions(+), 17 deletions(-)
Title: Bridging Simultaneous Confidence Corridors and PET Neuroimaging
Description: Tools for the structured processing of PET neuroimaging data
in preparation for the estimation of Simultaneous Confidence Corridors (SCCs)
for one-group, two-group, or single-patient vs group comparisons.
The package facilitates PET image loading, data restructuring, integration
into a Functional Data Analysis framework, contour extraction, identification
of significant results, and performance evaluation. It bridges established
packages (e.g., 'oro.nifti') with novel statistical methodologies (e.g.,
'ImageSCC') and enables reproducible analysis pipelines, including
comparison with Statistical Parametric Mapping ('SPM').
Author: Juan A. Arias Lopez [aut, cre, cph] ,
Virgilio Gomez Rubio [rev] ,
Pablo Aguiar Fernandez [ths] ,
Andrew Haddon Kemp [ths]
Maintainer: Juan A. Arias Lopez <iguanamarina@protonmail.com>
This is a re-admission after prior archival of version 1.0.0 dated 2025-03-27
Diff between neuroSCC versions 1.0.0 dated 2025-03-27 and 1.0.1 dated 2026-03-25
DESCRIPTION | 26 +++++++------ MD5 | 39 ++++++++++---------- NEWS.md | 9 ++++ R/internal-contours.R |only R/neuroContour.R | 72 +++++++++++-------------------------- README.md | 38 +++++++++++++++---- inst/doc/landing_vignette.R | 2 - inst/doc/landing_vignette.Rmd | 2 - inst/doc/landing_vignette.html | 57 ++++++++++++++--------------- inst/doc/one_vs_group.R | 2 - inst/doc/one_vs_group.Rmd | 2 - inst/doc/one_vs_group.html | 9 ++-- inst/doc/two_group_comparison.R | 2 - inst/doc/two_group_comparison.Rmd | 2 - inst/doc/two_group_comparison.html | 7 ++- man/figures/workflow.png |binary man/neuroContour.Rd | 39 +++++++++----------- man/neuroSCC-package.Rd | 2 - vignettes/landing_vignette.Rmd | 2 - vignettes/one_vs_group.Rmd | 2 - vignettes/two_group_comparison.Rmd | 2 - 21 files changed, 161 insertions(+), 155 deletions(-)
Title: Implement Descriptive Studies Using the Common Data Model
Description: An end-to-end framework that enables users to implement various descriptive studies for a given set of target and outcome cohorts for data mapped to the Observational Medical Outcomes Partnership Common Data Model.
Author: Jenna Reps [aut, cre],
Patrick Ryan [aut],
Chris Knoll [aut]
Maintainer: Jenna Reps <jreps@its.jnj.com>
Diff between Characterization versions 2.2.0 dated 2025-09-10 and 3.0.0 dated 2026-03-25
Characterization-2.2.0/Characterization/R/AggregateCovariates.R |only Characterization-2.2.0/Characterization/R/SaveLoad.R |only Characterization-2.2.0/Characterization/inst/sql/postgresql |only Characterization-2.2.0/Characterization/inst/sql/sql_server/CaseCohortsPart1.sql |only Characterization-2.2.0/Characterization/inst/sql/sql_server/CaseCohortsPart2.sql |only Characterization-2.2.0/Characterization/inst/sql/sql_server/migrations/Migration_1-v0_3_0_store_version.sql |only Characterization-2.2.0/Characterization/inst/sql/sql_server/migrations/Migration_2-v2_1_1_mean_exposure_time_type.sql |only Characterization-2.2.0/Characterization/inst/sql/sql_server/migrations/Migration_3-v2_2_0_count_as_bigint.sql |only Characterization-2.2.0/Characterization/inst/sql/sqlite |only Characterization-2.2.0/Characterization/man/createAggregateCovariateSettings.Rd |only Characterization-2.2.0/Characterization/tests/testthat/test-aggregateCovariate.R |only Characterization-2.2.0/Characterization/tests/testthat/testdata |only Characterization-3.0.0/Characterization/DESCRIPTION | 12 Characterization-3.0.0/Characterization/MD5 | 203 Characterization-3.0.0/Characterization/NAMESPACE | 48 Characterization-3.0.0/Characterization/R/CaseSeries.R |only Characterization-3.0.0/Characterization/R/Characterization.R | 44 Characterization-3.0.0/Characterization/R/CohortGeneration.R |only Characterization-3.0.0/Characterization/R/CombineCovariateSettings.R |only Characterization-3.0.0/Characterization/R/CustomCovariates.R | 1074 +-- Characterization-3.0.0/Characterization/R/Database.R | 776 +- Characterization-3.0.0/Characterization/R/DechallengeRechallenge.R | 1101 +-- Characterization-3.0.0/Characterization/R/Demographics.R |only Characterization-3.0.0/Characterization/R/ExportingCsvFiles.R |only Characterization-3.0.0/Characterization/R/HelperFunctions.R | 629 - Characterization-3.0.0/Characterization/R/Incremental.R | 439 - Characterization-3.0.0/Characterization/R/LookupCohortSettings.R |only Characterization-3.0.0/Characterization/R/RiskFactorAnalysis.R |only Characterization-3.0.0/Characterization/R/RunCharacterization.R | 1501 ++-- Characterization-3.0.0/Characterization/R/TargetAnalysis.R |only Characterization-3.0.0/Characterization/R/TimeToEvent.R | 676 - Characterization-3.0.0/Characterization/R/ViewShiny.R | 607 - Characterization-3.0.0/Characterization/build/vignette.rds |binary Characterization-3.0.0/Characterization/inst/doc/Specification.R | 1160 +-- Characterization-3.0.0/Characterization/inst/doc/Specification.Rmd | 1642 ++-- Characterization-3.0.0/Characterization/inst/doc/Specification.html | 3503 +++++----- Characterization-3.0.0/Characterization/inst/doc/UsingPackage.R | 407 - Characterization-3.0.0/Characterization/inst/doc/UsingPackage.Rmd | 688 + Characterization-3.0.0/Characterization/inst/doc/UsingPackage.html | 823 +- Characterization-3.0.0/Characterization/inst/settings/resultsDataModelSpecification.csv | 204 Characterization-3.0.0/Characterization/inst/shinyConfig.json | 64 Characterization-3.0.0/Characterization/inst/shinyConfigUpdate.json | 52 Characterization-3.0.0/Characterization/inst/sql/sql_server/CaseCohorts.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/CaseSeriesBinaryExtraction.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/CaseSeriesContinuousExtraction.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/ConceptCountsDuring.sql | 510 - Characterization-3.0.0/Characterization/inst/sql/sql_server/CreateTargetCohortTable.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/DechallengeRechallenge.sql | 342 Characterization-3.0.0/Characterization/inst/sql/sql_server/DomainConceptDuring.sql | 158 Characterization-3.0.0/Characterization/inst/sql/sql_server/DomainConceptGroupDuring.sql | 304 Characterization-3.0.0/Characterization/inst/sql/sql_server/DropCaseCovariate.sql | 72 Characterization-3.0.0/Characterization/inst/sql/sql_server/DropCaseSeriesTempTables.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/DropDechallengeRechallenge.sql | 20 Characterization-3.0.0/Characterization/inst/sql/sql_server/DropRechallengeFailCaseSeries.sql | 22 Characterization-3.0.0/Characterization/inst/sql/sql_server/DropRiskFactorTempTables.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/DropTargetCohortTable.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/DropTargetCovariate.sql | 48 Characterization-3.0.0/Characterization/inst/sql/sql_server/DropTimeToEvent.sql | 76 Characterization-3.0.0/Characterization/inst/sql/sql_server/GetTimeToEvent.sql | 20 Characterization-3.0.0/Characterization/inst/sql/sql_server/IncludeDescendants.sql | 52 Characterization-3.0.0/Characterization/inst/sql/sql_server/NonCaseCohorts.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/RechallengeFailCaseSeries.sql | 122 Characterization-3.0.0/Characterization/inst/sql/sql_server/ResultTables.sql | 428 - Characterization-3.0.0/Characterization/inst/sql/sql_server/RiskFactorBinaryExtraction.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/RiskFactorContinuousExtraction.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/TargetCohorts.sql | 149 Characterization-3.0.0/Characterization/inst/sql/sql_server/TargetCounts.sql |only Characterization-3.0.0/Characterization/inst/sql/sql_server/TimeToEvent.sql | 652 - Characterization-3.0.0/Characterization/inst/sql/sql_server/UpdateVersionNumber.sql | 10 Characterization-3.0.0/Characterization/inst/sql/sql_server/migrations/Migration_1-v3_0_0_store_version.sql |only Characterization-3.0.0/Characterization/man/Characterization-package.Rd | 60 Characterization-3.0.0/Characterization/man/cleanIncremental.Rd | 70 Characterization-3.0.0/Characterization/man/cleanNonIncremental.Rd | 60 Characterization-3.0.0/Characterization/man/computeDechallengeRechallengeAnalyses.Rd | 168 Characterization-3.0.0/Characterization/man/computeRechallengeFailCaseSeriesAnalyses.Rd | 175 Characterization-3.0.0/Characterization/man/computeTimeToEventAnalyses.Rd | 181 Characterization-3.0.0/Characterization/man/createCaseSeriesSettings.Rd |only Characterization-3.0.0/Characterization/man/createCharacterizationSettings.Rd | 102 Characterization-3.0.0/Characterization/man/createCharacterizationTables.Rd | 118 Characterization-3.0.0/Characterization/man/createDechallengeRechallengeSettings.Rd | 84 Characterization-3.0.0/Characterization/man/createDuringCovariateSettings.Rd | 222 Characterization-3.0.0/Characterization/man/createRiskFactorSettings.Rd |only Characterization-3.0.0/Characterization/man/createSqliteDatabase.Rd | 64 Characterization-3.0.0/Characterization/man/createTargetBaselineSettings.Rd |only Characterization-3.0.0/Characterization/man/createTimeToEventSettings.Rd | 68 Characterization-3.0.0/Characterization/man/exampleOmopConnectionDetails.Rd | 54 Characterization-3.0.0/Characterization/man/getDbDuringCovariateData.Rd | 197 Characterization-3.0.0/Characterization/man/insertResultsToDatabase.Rd | 174 Characterization-3.0.0/Characterization/man/loadCharacterizationSettings.Rd | 100 Characterization-3.0.0/Characterization/man/runCharacterizationAnalyses.Rd | 241 Characterization-3.0.0/Characterization/man/saveCharacterizationSettings.Rd | 90 Characterization-3.0.0/Characterization/man/viewCharacterization.Rd | 112 Characterization-3.0.0/Characterization/tests/testthat.R | 4 Characterization-3.0.0/Characterization/tests/testthat/setup.R | 16 Characterization-3.0.0/Characterization/tests/testthat/test-CaseSeries.R |only Characterization-3.0.0/Characterization/tests/testthat/test-CohortGeneration.R |only Characterization-3.0.0/Characterization/tests/testthat/test-Database.R | 124 Characterization-3.0.0/Characterization/tests/testthat/test-ExportingCsvFiles.R |only Characterization-3.0.0/Characterization/tests/testthat/test-Incremental.R | 688 - Characterization-3.0.0/Characterization/tests/testthat/test-RiskFactor.R |only Characterization-3.0.0/Characterization/tests/testthat/test-dbs.R | 576 - Characterization-3.0.0/Characterization/tests/testthat/test-dechallengeRechallenge.R | 757 +- Characterization-3.0.0/Characterization/tests/testthat/test-manualData.R | 1026 +- Characterization-3.0.0/Characterization/tests/testthat/test-runCharacterization.R | 969 +- Characterization-3.0.0/Characterization/tests/testthat/test-targetAnalysis.R |only Characterization-3.0.0/Characterization/tests/testthat/test-timeToEvent.R | 187 Characterization-3.0.0/Characterization/tests/testthat/test-viewShiny.R | 252 Characterization-3.0.0/Characterization/vignettes/Specification.Rmd | 1642 ++-- Characterization-3.0.0/Characterization/vignettes/UsingPackage.Rmd | 688 + 109 files changed, 14572 insertions(+), 13335 deletions(-)
More information about Characterization at CRAN
Permanent link
More information about SpatialInference at CRAN
Permanent link
Title: Communicate with 'Ollama' to Run Large Language Models Locally
Description: Wraps the 'Ollama' <https://ollama.com> API, which can be used to
communicate with generative large language models locally.
Author: Johannes B. Gruber [aut, cre] ,
Maximilian Weber [aut, ctb]
Maintainer: Johannes B. Gruber <JohannesB.Gruber@gmail.com>
Diff between rollama versions 0.2.2 dated 2025-04-25 and 0.3.0 dated 2026-03-25
rollama-0.2.2/rollama/inst/extdata/modelfile.txt |only rollama-0.2.2/rollama/man/figures/logo.svg |only rollama-0.3.0/rollama/DESCRIPTION | 18 rollama-0.3.0/rollama/MD5 | 62 +- rollama-0.3.0/rollama/NAMESPACE | 24 rollama-0.3.0/rollama/NEWS.md | 15 rollama-0.3.0/rollama/R/chat.r | 343 ++++++++---- rollama-0.3.0/rollama/R/embedding.r | 88 +-- rollama-0.3.0/rollama/R/lib.R | 247 ++++---- rollama-0.3.0/rollama/R/models.r | 268 ++++++--- rollama-0.3.0/rollama/R/progress.R |only rollama-0.3.0/rollama/R/structures.r |only rollama-0.3.0/rollama/R/utils.r | 94 ++- rollama-0.3.0/rollama/README.md | 85 ++ rollama-0.3.0/rollama/build/vignette.rds |binary rollama-0.3.0/rollama/inst/WORDLIST | 27 rollama-0.3.0/rollama/inst/doc/authentication.R |only rollama-0.3.0/rollama/inst/doc/authentication.Rmd |only rollama-0.3.0/rollama/inst/doc/authentication.html |only rollama-0.3.0/rollama/inst/doc/hf-gguf.Rmd | 2 rollama-0.3.0/rollama/inst/doc/structured_outputs.Rmd |only rollama-0.3.0/rollama/inst/doc/structured_outputs.html |only rollama-0.3.0/rollama/man/check_model_installed.Rd | 2 rollama-0.3.0/rollama/man/create_model.Rd | 50 + rollama-0.3.0/rollama/man/create_schema.Rd |only rollama-0.3.0/rollama/man/embed_text.Rd | 15 rollama-0.3.0/rollama/man/figures/logo-fullsize.svg |only rollama-0.3.0/rollama/man/list_running_models.Rd |only rollama-0.3.0/rollama/man/make_query.Rd | 2 rollama-0.3.0/rollama/man/pull_model.Rd | 49 + rollama-0.3.0/rollama/man/query.Rd | 110 +++ rollama-0.3.0/rollama/tests/testthat/test-cache.R |only rollama-0.3.0/rollama/tests/testthat/test-chat.R | 100 ++- rollama-0.3.0/rollama/tests/testthat/test-embedding.R | 33 + rollama-0.3.0/rollama/tests/testthat/test-models.R | 61 +- rollama-0.3.0/rollama/vignettes/authentication.Rmd |only rollama-0.3.0/rollama/vignettes/hf-gguf.Rmd | 2 rollama-0.3.0/rollama/vignettes/hf-gguf.Rmd.orig | 2 rollama-0.3.0/rollama/vignettes/structured_outputs.Rmd |only rollama-0.3.0/rollama/vignettes/structured_outputs.Rmd.orig |only 40 files changed, 1218 insertions(+), 481 deletions(-)
More information about reproresearchR at CRAN
Permanent link
Title: Rank Distance Correlation Coefficient
Description: The rank distance correlation <doi:10.1080/01621459.2020.1782223> is computed. Included also is a function to perform permutation based testing.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between rdcor versions 1.0 dated 2025-12-08 and 1.1 dated 2026-03-25
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- NAMESPACE | 2 +- R/rdcor.test.R | 4 ++-- man/rdcor-package.Rd | 4 ++-- 5 files changed, 15 insertions(+), 14 deletions(-)
Title: Group Iterative Multiple Model Estimation
Description: Data-driven approach for arriving at person-specific time series models. The method first identifies which relations replicate across the majority of individuals to detect signal from noise. These group-level relations are then used as a foundation for starting the search for person-specific (or individual-level) relations. See Gates & Molenaar (2012) <doi:10.1016/j.neuroimage.2012.06.026>.
Author: Stephanie Lane [aut, trl],
Kathleen M Gates [aut, cre, ccp],
Zachary Fisher [aut],
Cara Arizmendi [aut],
Peter Molenaar [aut, ccp],
Edgar Merkle [ctb],
Michael Hallquist [ctb],
Hallie Pike [ctb],
Teague Henry [ctb],
Kelly Duffy [ctb],
Lan Luo [ctb],
[...truncated...]
Maintainer: Kathleen M Gates <gateskm@email.unc.edu>
Diff between gimme versions 0.9.3 dated 2025-11-13 and 0.9.4 dated 2026-03-25
DESCRIPTION | 8 ++--- MD5 | 40 +++++++++++++------------- R/aggSEM.R | 12 +++++++ R/gimme.R | 23 +++++++++++---- R/highest.mi.R | 51 +++++++++++++++++++-------------- R/indSEM.R | 12 +++++++ R/indiv.search.R | 5 ++- R/search.paths.ind.R | 5 +++ R/setup.R | 4 +- README.md | 5 ++- inst/doc/gimme_vignette.R | 1 inst/doc/gimme_vignette.Rmd | 2 + inst/doc/gimme_vignette.html | 22 +++++++++----- man/aggSEM.Rd | 7 ++++ man/gimmeSEM.Rd | 13 +++++++- man/highest.mi.Rd | 7 ++++ man/indSEM.Rd | 7 ++++ man/indiv.search.Rd | 3 + man/search.paths.ind.Rd | 3 + tests/testthat/test-gimme.R | 65 +++++++++++++++++++++++++++++++++++++++++++ vignettes/gimme_vignette.Rmd | 2 + 21 files changed, 234 insertions(+), 63 deletions(-)
Title: Variational Autoencoders for Heterogeneous Tabular Data
Description: Build and train a variational autoencoder (VAE) for mixed-type
tabular data (continuous, binary, categorical).
Models are implemented using 'TensorFlow' and 'Keras' via the 'reticulate'
interface, enabling reproducible VAE training for heterogeneous tabular
datasets.
Author: Sarah Milligan [aut, cre]
Maintainer: Sarah Milligan <slm1999@bu.edu>
Diff between autotab versions 0.1.3 dated 2026-02-08 and 1.0 dated 2026-03-25
DESCRIPTION | 6 ++-- MD5 | 10 +++---- R/loss.R | 82 ++++++++++++++++++++++++++++++++++++++++++++++------------- R/model.R | 39 +++++++++++++--------------- R/training.R | 5 ++- README.md | 2 - 6 files changed, 95 insertions(+), 49 deletions(-)
Title: Integration to 'Apache' 'Arrow'
Description: 'Apache' 'Arrow' <https://arrow.apache.org/> is a cross-language
development platform for in-memory data. It specifies a standardized
language-independent columnar memory format for flat and hierarchical data,
organized for efficient analytic operations on modern hardware. This
package provides an interface to the 'Arrow C++' library.
Author: Neal Richardson [aut],
Ian Cook [aut],
Nic Crane [aut],
Dewey Dunnington [aut] ,
Romain Francois [aut] ,
Jonathan Keane [aut, cre],
Bryce Mecum [aut],
Dragoș Moldovan-Gruenfeld [aut],
Jeroen Ooms [aut],
Jacob Wujciak-Jens [aut],
Javier Luraschi [ctb], [...truncated...]
Maintainer: Jonathan Keane <jkeane@gmail.com>
Diff between arrow versions 23.0.1.1 dated 2026-02-24 and 23.0.1.2 dated 2026-03-25
arrow-23.0.1.1/arrow/tools/cpp/CMakeLists.txt-e |only arrow-23.0.1.2/arrow/DESCRIPTION | 6 ++-- arrow-23.0.1.2/arrow/MD5 | 15 +++++------ arrow-23.0.1.2/arrow/NEWS.md | 10 ++++++- arrow-23.0.1.2/arrow/man/acero.Rd | 2 - arrow-23.0.1.2/arrow/man/read_json_arrow.Rd | 2 - arrow-23.0.1.2/arrow/man/schema.Rd | 2 - arrow-23.0.1.2/arrow/src/arrow_cpp11.h | 21 ++++++---------- arrow-23.0.1.2/arrow/tests/testthat/test-dplyr-mutate.R | 3 ++ 9 files changed, 34 insertions(+), 27 deletions(-)
Title: Assessing Package Risk Metrics
Description: A reliable and validated tool that captures detailed risk metrics
such as R 'CMD' check, test coverage, traceability matrix, documentation, dependencies,
reverse dependencies, suggested dependency analysis, repository data,
and enhanced reporting for R packages that are local or stored
on remote repositories such as GitHub, CRAN, and Bioconductor.
Author: Edward Gillian [cre, aut] ,
Hugo Bottois [aut] ,
Paulin Charliquart [aut],
Andre Couturier [aut],
Sanofi [cph, fnd]
Maintainer: Edward Gillian <edward.gillian-ext@sanofi.com>
Diff between risk.assessr versions 3.0.1 dated 2025-12-01 and 3.1.0 dated 2026-03-25
risk.assessr-3.0.1/risk.assessr/R/sanofi.risk.assessr-package.R |only risk.assessr-3.0.1/risk.assessr/man/find_reverse_dependencies.Rd |only risk.assessr-3.0.1/risk.assessr/man/get_pkg_license.Rd |only risk.assessr-3.0.1/risk.assessr/man/get_reverse_dependencies.Rd |only risk.assessr-3.1.0/risk.assessr/DESCRIPTION | 19 risk.assessr-3.1.0/risk.assessr/MD5 | 222 + risk.assessr-3.1.0/risk.assessr/NAMESPACE | 17 risk.assessr-3.1.0/risk.assessr/NEWS.md | 13 risk.assessr-3.1.0/risk.assessr/R/assess_pkg.R | 71 risk.assessr-3.1.0/risk.assessr/R/assess_pkg_r_package.R | 94 risk.assessr-3.1.0/risk.assessr/R/core_metrics.R | 1 risk.assessr-3.1.0/risk.assessr/R/create_empty_results.R | 2 risk.assessr-3.1.0/risk.assessr/R/create_traceability_matrix.R | 13 risk.assessr-3.1.0/risk.assessr/R/dependencies.R | 28 risk.assessr-3.1.0/risk.assessr/R/dependency_tree.R | 275 +- risk.assessr-3.1.0/risk.assessr/R/documentation_metrics.R | 617 +++- risk.assessr-3.1.0/risk.assessr/R/generate_html_report.R | 286 +- risk.assessr-3.1.0/risk.assessr/R/generate_traceability_matrix.R | 108 risk.assessr-3.1.0/risk.assessr/R/get_exports.R | 47 risk.assessr-3.1.0/risk.assessr/R/get_func_descriptions.R | 40 risk.assessr-3.1.0/risk.assessr/R/get_github_data.R | 3 risk.assessr-3.1.0/risk.assessr/R/get_package_host_info.R | 114 risk.assessr-3.1.0/risk.assessr/R/get_risk_analysis.R | 22 risk.assessr-3.1.0/risk.assessr/R/get_tests_long_sum_stf.R |only risk.assessr-3.1.0/risk.assessr/R/get_tests_skip_stf.R |only risk.assessr-3.1.0/risk.assessr/R/globals.R | 8 risk.assessr-3.1.0/risk.assessr/R/map_tests_stf.R |only risk.assessr-3.1.0/risk.assessr/R/risk.assessr-package.R |only risk.assessr-3.1.0/risk.assessr/R/run_covr_modes.R |only risk.assessr-3.1.0/risk.assessr/R/run_covr_skip_nstf.R |only risk.assessr-3.1.0/risk.assessr/R/run_covr_skip_stf.R |only risk.assessr-3.1.0/risk.assessr/R/unittest_methods.R | 69 risk.assessr-3.1.0/risk.assessr/R/write_summary_report.R |only risk.assessr-3.1.0/risk.assessr/inst/config/risk-definition.json | 10 risk.assessr-3.1.0/risk.assessr/inst/doc/Popularity_metric.R | 7 risk.assessr-3.1.0/risk.assessr/inst/doc/Popularity_metric.Rmd | 3 risk.assessr-3.1.0/risk.assessr/inst/doc/Popularity_metric.html | 16 risk.assessr-3.1.0/risk.assessr/inst/doc/Pubmed_data.Rmd | 4 risk.assessr-3.1.0/risk.assessr/inst/doc/Pubmed_data.html | 1 risk.assessr-3.1.0/risk.assessr/inst/doc/define_custom_risk_rules.R | 80 risk.assessr-3.1.0/risk.assessr/inst/doc/define_custom_risk_rules.Rmd | 10 risk.assessr-3.1.0/risk.assessr/inst/doc/define_custom_risk_rules.html | 169 - risk.assessr-3.1.0/risk.assessr/inst/doc/dependency_tree.R | 23 risk.assessr-3.1.0/risk.assessr/inst/doc/dependency_tree.Rmd | 45 risk.assessr-3.1.0/risk.assessr/inst/doc/dependency_tree.html | 409 ++- risk.assessr-3.1.0/risk.assessr/inst/doc/get-package-host.R | 3 risk.assessr-3.1.0/risk.assessr/inst/doc/get-package-host.Rmd | 14 risk.assessr-3.1.0/risk.assessr/inst/doc/get-package-host.html | 6 risk.assessr-3.1.0/risk.assessr/inst/doc/risk.assessr_metric.Rmd | 7 risk.assessr-3.1.0/risk.assessr/inst/doc/risk.assessr_metric.html | 4 risk.assessr-3.1.0/risk.assessr/inst/examples/assessr.R | 2 risk.assessr-3.1.0/risk.assessr/inst/examples/risk_report_ggplot2_3.5.2.html | 82 risk.assessr-3.1.0/risk.assessr/inst/report_templates/risk_report_template.Rmd | 289 ++ risk.assessr-3.1.0/risk.assessr/inst/report_templates/styles.css |only risk.assessr-3.1.0/risk.assessr/inst/report_templates/summary.Rmd |only risk.assessr-3.1.0/risk.assessr/inst/test-data/MASS_7.3-65.tar.gz |only risk.assessr-3.1.0/risk.assessr/inst/test-data/package_test_case.csv | 2 risk.assessr-3.1.0/risk.assessr/inst/test-data/riskdata_results_slim.csv | 8 risk.assessr-3.1.0/risk.assessr/inst/test-data/test.package.0014_0.1.0.tar.gz |only risk.assessr-3.1.0/risk.assessr/inst/tools |only risk.assessr-3.1.0/risk.assessr/man/as_iso_date.Rd | 7 risk.assessr-3.1.0/risk.assessr/man/assess_examples.Rd | 25 risk.assessr-3.1.0/risk.assessr/man/assess_exported_functions_docs.Rd |only risk.assessr-3.1.0/risk.assessr/man/assess_pkg_r_package.Rd | 22 risk.assessr-3.1.0/risk.assessr/man/build_dependency_tree.Rd | 19 risk.assessr-3.1.0/risk.assessr/man/build_rd_index.Rd |only risk.assessr-3.1.0/risk.assessr/man/check_covr_skip_nstf.Rd |only risk.assessr-3.1.0/risk.assessr/man/check_pkg_tests_and_snaps.Rd | 1 risk.assessr-3.1.0/risk.assessr/man/cleanup_and_return_null.Rd |only risk.assessr-3.1.0/risk.assessr/man/coverage_skip.Rd |only risk.assessr-3.1.0/risk.assessr/man/create_covr_list_no_skip.Rd |only risk.assessr-3.1.0/risk.assessr/man/create_has_ex_docs_score.Rd |only risk.assessr-3.1.0/risk.assessr/man/create_results_summary.Rd |only risk.assessr-3.1.0/risk.assessr/man/download_and_parse_dependencies.Rd | 28 risk.assessr-3.1.0/risk.assessr/man/evaluate_risk_highlighting.Rd |only risk.assessr-3.1.0/risk.assessr/man/extract_examples_text.Rd |only risk.assessr-3.1.0/risk.assessr/man/extract_license_from_description.Rd |only risk.assessr-3.1.0/risk.assessr/man/fetch_all_dependencies.Rd | 13 risk.assessr-3.1.0/risk.assessr/man/find_rd_for_fun.Rd |only risk.assessr-3.1.0/risk.assessr/man/generate_coverage_section.Rd | 4 risk.assessr-3.1.0/risk.assessr/man/generate_risk_analysis.Rd |only risk.assessr-3.1.0/risk.assessr/man/generate_traceability_matrix.Rd | 11 risk.assessr-3.1.0/risk.assessr/man/get_expect.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_exports.Rd | 2 risk.assessr-3.1.0/risk.assessr/man/get_function_no_tests.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_internal_package_url.Rd | 2 risk.assessr-3.1.0/risk.assessr/man/get_package_tarfile.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_rd_section.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_rd_sections.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_risk_analysis.Rd | 17 risk.assessr-3.1.0/risk.assessr/man/get_source_test_mapping_nstf.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_test_path.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_tests_long_sum_stf.Rd |only risk.assessr-3.1.0/risk.assessr/man/get_tests_skip_stf.Rd |only risk.assessr-3.1.0/risk.assessr/man/load_package_datasets.Rd |only risk.assessr-3.1.0/risk.assessr/man/map_test.Rd |only risk.assessr-3.1.0/risk.assessr/man/map_testthat.Rd |only risk.assessr-3.1.0/risk.assessr/man/nest_expect.Rd |only risk.assessr-3.1.0/risk.assessr/man/nest_test.Rd |only risk.assessr-3.1.0/risk.assessr/man/rd_aliases.Rd |only risk.assessr-3.1.0/risk.assessr/man/rd_examples_to_text.Rd |only risk.assessr-3.1.0/risk.assessr/man/rd_flatten_text.Rd |only risk.assessr-3.1.0/risk.assessr/man/rd_name.Rd |only risk.assessr-3.1.0/risk.assessr/man/risk.assessr-package.Rd | 2 risk.assessr-3.1.0/risk.assessr/man/run_covr_modes.Rd |only risk.assessr-3.1.0/risk.assessr/man/run_covr_safe_stf.Rd |only risk.assessr-3.1.0/risk.assessr/man/run_covr_skip_nstf.Rd |only risk.assessr-3.1.0/risk.assessr/man/run_covr_skip_stf.Rd |only risk.assessr-3.1.0/risk.assessr/man/unrowname.Rd |only risk.assessr-3.1.0/risk.assessr/man/write_summary_report.Rd |only risk.assessr-3.1.0/risk.assessr/tests/testthat/_snaps/dependency_tree.md | 17 risk.assessr-3.1.0/risk.assessr/tests/testthat/setup.R | 32 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-assess_pkg.R | 829 ++++-- risk.assessr-3.1.0/risk.assessr/tests/testthat/test-assess_pkg_r_package.R | 279 -- risk.assessr-3.1.0/risk.assessr/tests/testthat/test-check_suggested_exp_funcs.R | 34 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-create_empty_results.R | 2 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-create_traceability_matrix.R | 3 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-dependency_tree.R | 1258 +++++++++- risk.assessr-3.1.0/risk.assessr/tests/testthat/test-documentation_metrics.R | 286 ++ risk.assessr-3.1.0/risk.assessr/tests/testthat/test-generate_html_report.R | 459 +++ risk.assessr-3.1.0/risk.assessr/tests/testthat/test-generate_traceability_matrix.R | 326 -- risk.assessr-3.1.0/risk.assessr/tests/testthat/test-get_exports.R | 950 +++++++ risk.assessr-3.1.0/risk.assessr/tests/testthat/test-get_tests_long_sum_stf.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test-get_tests_skip_stf.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test-install_package_local.R | 2 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-map_tests_stf.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test-reverse_dependencies.R | 39 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-risk_assess_pkg.R | 19 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-run_coverage.R | 309 -- risk.assessr-3.1.0/risk.assessr/tests/testthat/test-run_covr.R | 99 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-run_covr_modes.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test-run_covr_skip_nstf.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test-run_covr_skip_stf.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test-run_rcmdcheck.R | 294 -- risk.assessr-3.1.0/risk.assessr/tests/testthat/test-unittest_methods.R | 38 risk.assessr-3.1.0/risk.assessr/tests/testthat/test-write_summary_report.R |only risk.assessr-3.1.0/risk.assessr/tests/testthat/test_get_package_tarfile.R |only risk.assessr-3.1.0/risk.assessr/vignettes/Popularity_metric.Rmd | 3 risk.assessr-3.1.0/risk.assessr/vignettes/Pubmed_data.Rmd | 4 risk.assessr-3.1.0/risk.assessr/vignettes/define_custom_risk_rules.Rmd | 10 risk.assessr-3.1.0/risk.assessr/vignettes/dependency_tree.Rmd | 45 risk.assessr-3.1.0/risk.assessr/vignettes/get-package-host.Rmd | 14 risk.assessr-3.1.0/risk.assessr/vignettes/risk.assessr_metric.Rmd | 7 143 files changed, 6306 insertions(+), 2468 deletions(-)
Title: Observational Health Data Sciences and Informatics Report
Generator
Description: Extract results into R from the Observational Health Data Sciences and Informatics result database (see <https://ohdsi.github.io/Strategus/results-schema/index.html>) and generate reports/presentations via 'quarto' that summarize results in HTML format. Learn more about 'OhdsiReportGenerator' at <https://ohdsi.github.io/OhdsiReportGenerator/>.
Author: Jenna Reps [aut, cre],
Anthony Sena [aut]
Maintainer: Jenna Reps <jreps@its.jnj.com>
Diff between OhdsiReportGenerator versions 2.0.2 dated 2025-12-17 and 2.1.0 dated 2026-03-25
OhdsiReportGenerator-2.0.2/OhdsiReportGenerator/man/getCaseBinaryFeatures.Rd |only OhdsiReportGenerator-2.0.2/OhdsiReportGenerator/man/getCaseContinuousFeatures.Rd |only OhdsiReportGenerator-2.0.2/OhdsiReportGenerator/man/getCaseTargetBinaryFeatures.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/DESCRIPTION | 17 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/MD5 | 254 - OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/NAMESPACE | 11 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/CharacterizationPlots.R | 73 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/CharacterzationQueries.R | 1979 +++------- OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/CohortQueries.R | 658 ++- OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/EstimationPlots.R | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/EstimationQueries.R | 497 -- OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/Generate.R | 11 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/Helpers.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/PredictionQueries.R | 86 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/TargetOutcomeInfo.R | 36 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/R/TreatmentPatternsQueries.R |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/doc/ExampleCode.html | 668 +-- OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/exampledata/results.sqlite.zip |binary OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/sql |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/causal_inference.qmd | 35 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/characterization.qmd | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/characterization/demographics.qmd | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/characterization/index_breakdown.qmd | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/characterization/risk_factors.qmd | 18 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/definitions.qmd | 10 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/full-report/main_template.qmd | 220 - OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/presentation/assure_presentation.qmd | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/presentation/characterization.qmd | 27 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/inst/templates/summary-templates/prediction-questions/question2.qmd | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/dot-getCmVersion.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/generateFullReport.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getAnalysisCohorts.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getBinaryCaseSeries.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getBinaryRiskFactors.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCMEstimation.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCaseCounts.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCaseTargetCounts.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCharacterizationCohortBinary.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCharacterizationCohortContinuous.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCharacterizationDemographics.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCharacterizationOutcomes.Rd | 8 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCharacterizationTargets.Rd | 11 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmDiagnosticsData.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmMetaEstimation.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmNegativeControlEstimates.Rd | 4 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmOutcomes.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmPropensityModel.Rd | 4 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmTable.Rd | 4 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCmTargets.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortAttrition.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortCounts.Rd | 9 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortDefinitions.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortInclusionRules.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortInclusionStats.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortInclusionSummary.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortMeta.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortSubsetAttrition.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getCohortSubsetDefinitions.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getContinuousCaseSeries.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getContinuousRiskFactors.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getDechallengeRechallenge.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getDechallengeRechallengeFails.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getEventDuration.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getIncidenceOutcomes.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getIncidenceRates.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getIncidenceTargets.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsDiagnosticsData.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsEstimation.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsMetaEstimation.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsModel.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsNegativeControlEstimates.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsOutcomes.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsTable.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsTargets.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSccsTimeToEvent.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getSubsetText.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getTargetBinaryFeatures.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getTargetContinuousFeatures.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getTimeToEvent.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/getTreatmentPathways.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/plotAgeDistributions.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/plotCmEstimates.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/plotSccsEstimates.Rd | 1 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/plotSexDistributions.Rd | 3 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/processCohortDefinitionsForQuarto.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/processCohorts.Rd | 7 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/man/restrictCohortDefinitionsForQuarto.Rd |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat.R | 10 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/Rplots.pdf |only OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-Backwards.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-CharacterizationPlots.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-CharacterizationQueries.R | 108 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-CohortQueries.R | 333 + OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-Database.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-EstimationPlots.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-EstimationQueries.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-Generate.R | 6 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-Helpers.R | 4 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-PredictionQueries.R | 8 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-PredictionReport.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-TargetOutcomeInfo.R | 2 OhdsiReportGenerator-2.1.0/OhdsiReportGenerator/tests/testthat/test-TreatmentPatternsQueries.R |only 102 files changed, 2633 insertions(+), 2632 deletions(-)
More information about OhdsiReportGenerator at CRAN
Permanent link
Title: Analysis of Event Data with Two Time Scales
Description: Analyse time to event data with two time scales by estimating a smooth hazard that varies over two time scales. If covariates are available, estimate a proportional hazards model with such a two-dimensional baseline hazard.
Functions are provided to prepare the raw data for estimation, to fit the model and to plot the two-dimensional smooth hazard.
Extension to a competing risks model are implemented. For details about the method please refer to Carollo et al. (2025) <doi:10.1002/sim.10297>.
Author: Angela Carollo [aut, cre, cph] ,
Paul H.C. Eilers [aut],
Jutta Gampe [aut]
Maintainer: Angela Carollo <carollo@demogr.mpg.de>
Diff between TwoTimeScales versions 1.0.0 dated 2024-12-23 and 1.2.0 dated 2026-03-25
DESCRIPTION | 21 +- MD5 | 190 ++++++++++-------- NAMESPACE | 15 + NEWS.md | 58 +++++ R/GLAM_1d_covariates.R | 60 +++-- R/GLAM_2d_covariates.R | 6 R/GLAM_2d_no_covariates.R | 2 R/array_functions.R | 1 R/check_inputs.R | 2 R/competing_risks_methods.R | 57 ++--- R/covariates_plot.R | 135 ++++++------ R/data.R | 8 R/exposures_events_2d.R | 24 +- R/exposures_events_Lexis.R | 4 R/fit1ts.R | 94 +++++--- R/fit1tsmodel_ucminf.R | 57 +++-- R/fit2ts.R | 119 +++++++---- R/fit2tsmodel_ucminf.R | 13 - R/fitpgam.R |only R/fitvcm.R |only R/getAIC_BIC_LMM.R | 1 R/get_aic_fit_1d.R | 2 R/get_aic_fit_2d.R | 2 R/get_bic_fit_1d.R | 2 R/get_bic_fit_2d.R | 2 R/get_hazard_1d.R | 7 R/get_hazard_1d_LMM.R | 5 R/get_hazard_2d.R | 387 ++++++++++++++++++++++--------------- R/get_hr.R | 4 R/grid_search_1d.R | 8 R/grid_search_2d.R | 6 R/haz2ts_methods.R | 23 ++ R/haz2ts_summary.R | 174 ++++++++++++++++ R/imageplot_2ts.R | 5 R/iwls_1d.R | 2 R/make_grid.R |only R/pgam_functions.R |only R/plot.haz1ts.R | 138 ++++++------- R/plot.haz1tsLMM.R | 10 R/plot.haz2ts.R | 156 ++++++++------ R/plot.haz2tsLMM.R | 18 - R/plot.haz2tsPGAM.R |only R/plot.haz2tsVCM.R |only R/plot_slices.R | 8 R/predict_cif2ts_pointwise.R |only R/predict_comprisks2ts.R |only R/predict_haz2ts.R |only R/predict_haz2ts_pointwise.R |only R/prepare_data.R | 19 + R/prepare_data_LMMsolver.R | 2 R/print.data2ts.R | 3 R/select_model2ts.R |only R/utot.R | 1 build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST |only inst/doc/TwoTimeScales.R | 120 +++++------ inst/doc/onetime.R | 394 ++++++++++++++++++------------------- inst/doc/twotimes.R | 210 ++++++++++---------- inst/doc/visualization.R | 418 ++++++++++++++++++++-------------------- man/GLAM_1d_covariates.Rd | 25 +- man/GLAM_2d_covariates.Rd | 3 man/GLAM_2d_no_covariates.Rd | 1 man/covariates_plot.Rd | 47 ++-- man/cumhaz2ts.Rd | 6 man/exposures_events_2d.Rd | 24 +- man/exposures_events_Lexis.Rd | 4 man/fit1ts.Rd | 52 ++-- man/fit1tsmodel_ucminf.Rd | 5 man/fit2ts.Rd | 67 ++++-- man/fit2tsmodel_ucminf.Rd | 3 man/fitpgam.Rd |only man/fitpgammodel_ucminf.Rd |only man/fitvcm.Rd |only man/getAIC_BIC_LMM.Rd | 1 man/get_aic_fit_1d.Rd | 1 man/get_aic_fit_2d.Rd | 1 man/get_aic_fit_pgam.Rd |only man/get_bic_fit_1d.Rd | 1 man/get_bic_fit_2d.Rd | 1 man/get_bic_fit_pgam.Rd |only man/get_hazard_1d.Rd | 2 man/get_hazard_1d_LMM.Rd | 5 man/get_hazard_2d.Rd | 51 +++- man/get_hr.Rd | 4 man/grid_search_1d.Rd | 5 man/grid_search_2d.Rd | 5 man/grid_search_pgam.Rd |only man/haz2tsPGAM_summary.Rd |only man/haz2tsVCM_summary.Rd |only man/haz2ts_summary.Rd | 4 man/imageplot_2ts.Rd | 2 man/iwls_1d.Rd | 1 man/make_grid.Rd |only man/plot.haz1ts.Rd | 14 - man/plot.haz1tsLMM.Rd | 2 man/plot.haz2ts.Rd | 54 +++-- man/plot.haz2tsPGAM.Rd |only man/plot.haz2tsVCM.Rd |only man/plot_slices.Rd | 3 man/predict_cif2ts_pointwise.Rd |only man/predict_comprisks2ts.Rd |only man/predict_haz2ts.Rd |only man/predict_haz2ts_pointwise.Rd |only man/prepare_data.Rd | 17 - man/reccolon2ts.Rd | 8 man/select_model2ts.Rd |only man/surv2ts.Rd | 13 - tests |only 109 files changed, 2007 insertions(+), 1418 deletions(-)
Title: Fast Unified Random Forests for Survival, Regression, and
Classification (RF-SRC)
Description: Fast OpenMP parallel computing of Breiman's random forests for univariate, multivariate, unsupervised, survival, competing risks, class imbalanced classification and quantile regression. New Mahalanobis splitting for correlated outcomes. Extreme random forests and randomized splitting. Suite of imputation methods for missing data. Fast random forests using subsampling. Confidence regions and standard errors for variable importance. New improved holdout importance. Case-specific importance. Minimal depth variable importance. Visualize trees on your Safari or Google Chrome browser. Anonymous random forests for data privacy.
Author: Hemant Ishwaran [aut],
Udaya B. Kogalur [aut, cre]
Maintainer: Udaya B. Kogalur <ubk@kogalur.com>
Diff between randomForestSRC versions 3.5.1 dated 2026-02-12 and 3.6.0 dated 2026-03-25
DESCRIPTION | 9 +++++---- MD5 | 15 +++++++++------ NAMESPACE | 13 ++++++++++++- R/generic.predict.rfsrc.R | 2 +- R/impute.learn.rfsrc.R |only R/rfsrc.R | 4 ++-- R/utilities_impute.learn.R |only inst/NEWS | 11 +++++++++-- man/impute.learn.rfsrc.Rd |only man/impute.rfsrc.Rd | 8 +++----- 10 files changed, 41 insertions(+), 21 deletions(-)
More information about randomForestSRC at CRAN
Permanent link
Title: Fertility Models
Description: Four fertility models are fitted using non-linear least squares. These are the Hadwiger, the Gamma, the Model1 and Model2, following the terminology of the following paper: Peristera P. and Kostaki A. (2007). "Modeling fertility in modern populations". Demographic Research, 16(6): 141--194. <doi:10.4054/DemRes.2007.16.6>. Model based averaging is also supported.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between fertilmodel versions 1.4 dated 2024-11-29 and 1.5 dated 2026-03-25
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 2 +- R/comb.R | 30 +++++++++++++++++++++++------- man/fertilmodel-package.Rd | 4 ++-- 5 files changed, 35 insertions(+), 19 deletions(-)
Title: Data on Base and Recommended Packages for Current and Previous
Versions of R
Description: Provides a dataset of functions in all base and recommended packages of R versions 0.50 onwards.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between rcheology versions 4.5.2.0 dated 2025-11-16 and 4.5.3.0 dated 2026-03-25
DESCRIPTION | 6 +-- MD5 | 14 +++---- NEWS.md | 5 ++ README.md | 55 ++++++++++++++++++------------- data/Rversions.rda |binary data/rcheology.rda |binary man/figures/README-unnamed-chunk-6-1.png |binary man/figures/README-unnamed-chunk-7-1.png |binary 8 files changed, 47 insertions(+), 33 deletions(-)
Title: Assess Study Cohorts Using a Common Data Model
Description: Phenotype study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model. Diagnostics
are run at the database, code list, cohort, and population level to assess
whether study cohorts are ready for research.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Xihang Chen [aut] ,
Marta Alcalde-Herraiz [aut] ,
Nuria Mercade-Besora [aut] ,
Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between PhenotypeR versions 0.3.3 dated 2026-02-23 and 0.3.4 dated 2026-03-25
DESCRIPTION | 21 +-- MD5 | 59 +++++----- R/cohortDiagnostics.R | 6 - R/databaseDiagnostics.R | 13 ++ R/documentationHelper.R | 12 ++ R/drugDiagnostics.R | 38 ++++-- R/phenotypeDiagnostics.R | 7 - R/populationDiagnostics.R | 2 R/shinyDiagnostics.R | 2 inst/doc/CodelistDiagnostics.html | 5 inst/doc/CohortDiagnostics.html | 5 inst/doc/DatabaseDiagnostics.html | 5 inst/doc/PhenotypeDiagnostics.html | 5 inst/doc/PhenotypeExpectations.html | 5 inst/doc/PopulationDiagnostics.R | 3 inst/doc/PopulationDiagnostics.Rmd | 3 inst/doc/PopulationDiagnostics.html | 8 - inst/doc/ShinyDiagnostics.html | 5 inst/shiny/global.R | 71 ++++++++---- inst/shiny/scripts/functions.R | 148 +++++++++++++++++++++++++ inst/shiny/scripts/preprocess.R | 12 +- inst/shiny/server.R | 169 ++++++++++++++++------------- man/clinicalTableSample.Rd |only man/databaseDiagnostics.Rd | 7 + man/phenotypeDiagnostics.Rd | 8 + man/populationDiagnostics.Rd | 2 man/shinyDiagnostics.Rd | 2 tests/testthat/test-databaseDiagnostics.R | 21 +++ tests/testthat/test-phenotypeDiagnostics.R | 11 + tests/testthat/test-shinyDiagnostics.R | 4 vignettes/PopulationDiagnostics.Rmd | 3 31 files changed, 468 insertions(+), 194 deletions(-)
Title: Grouped Date Classes
Description: Provides a coherent interface and implementation for creating
grouped date classes.
Author: Tim Taylor [aut, cre]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between grates versions 1.7.2 dated 2026-02-27 and 1.8.0 dated 2026-03-25
DESCRIPTION | 6 +++--- MD5 | 36 +++++++++++++++++++----------------- NAMESPACE | 12 ++++++++++++ NEWS.md | 20 ++++++++++++++++++++ R/get_interval_duration.R |only R/int_period-class.R | 8 ++++++++ R/int_period-scale.R | 10 +++++----- R/utils.R | 2 +- build/vignette.rds |binary inst/doc/grates.html | 4 ++-- man/get_interval_duration.Rd |only tests/testthat/test-epiweek.R | 11 +++++++++++ tests/testthat/test-int_period.R | 10 ++++++++++ tests/testthat/test-isoweek.R | 9 +++++++++ tests/testthat/test-month.R | 8 ++++++++ tests/testthat/test-period.R | 9 +++++++++ tests/testthat/test-year.R | 7 +++++++ tests/testthat/test-yearmonth.R | 7 +++++++ tests/testthat/test-yearquarter.R | 7 +++++++ tests/testthat/test-yearweek.R | 9 +++++++++ 20 files changed, 147 insertions(+), 28 deletions(-)
Title: Bayesian Super Imposition by Translation and Rotation Growth
Curve Analysis
Description: The Super Imposition by Translation and Rotation (SITAR) model
is a shape-invariant nonlinear mixed effect model that fits a natural cubic
spline mean curve to the growth data and aligns individual-specific growth
curves to the underlying mean curve via a set of random effects (see Cole,
2010 <doi:10.1093/ije/dyq115> for details). The non-Bayesian version of the
SITAR model can be fit by using the already available R package 'sitar'. Unlike
the 'sitar' package which allows modelling of a single outcome only, the 'bsitar'
package offers great flexibility in fitting models of varying complexities,
including joint modelling of multiple outcomes such as height and weight
(multivariate model). Additionally, the 'bsitar' package allows for the simultaneous
analysis of an outcome separately for subgroups defined by a factor variable such
as gender. This is achieved by fitting separate models for each subgroup
(for example males and females for gender variable). An advantage of this appr [...truncated...]
Author: Satpal Sandhu [aut, cre, cph]
Maintainer: Satpal Sandhu <satpal.sandhu@bristol.ac.uk>
Diff between bsitar versions 0.3.2 dated 2025-02-07 and 0.3.3 dated 2026-03-25
bsitar-0.3.2/bsitar/R/growthparameters_comparison.R |only bsitar-0.3.2/bsitar/R/marginal_comparison.R |only bsitar-0.3.2/bsitar/R/marginal_draws.R |only bsitar-0.3.2/bsitar/R/utils-helper-44.R |only bsitar-0.3.2/bsitar/R/utils-helper-55.R |only bsitar-0.3.2/bsitar/R/utils-helper-555.R |only bsitar-0.3.2/bsitar/R/utils-pipe.R |only bsitar-0.3.2/bsitar/inst/stanhelper |only bsitar-0.3.2/bsitar/man/add_model_criterion.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/expose_model_functions.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/fitted_draws.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/growthparameters.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/growthparameters_comparison.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/loo_validation.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/marginal_comparison.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/marginal_draws.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/optimize_model.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/plot_conditional_effects.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/plot_curves.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/plot_ppc.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/predict_draws.bgmfit.Rd |only bsitar-0.3.2/bsitar/man/update_model.bgmfit.Rd |only bsitar-0.3.2/bsitar/tests/testthat/test-bsitar.R |only bsitar-0.3.3/bsitar/DESCRIPTION | 45 bsitar-0.3.3/bsitar/MD5 | 180 bsitar-0.3.3/bsitar/NAMESPACE | 36 bsitar-0.3.3/bsitar/NEWS.md | 362 bsitar-0.3.3/bsitar/R/add_model_criterion.R | 432 bsitar-0.3.3/bsitar/R/bsitar.R | 9424 ++++++-- bsitar-0.3.3/bsitar/R/check_and_get_object.R | 4 bsitar-0.3.3/bsitar/R/expose_model_functions.R | 437 bsitar-0.3.3/bsitar/R/fitted_draws.R | 757 bsitar-0.3.3/bsitar/R/get_comparisons.R |only bsitar-0.3.3/bsitar/R/get_growthparameters.R |only bsitar-0.3.3/bsitar/R/get_predictions.R |only bsitar-0.3.3/bsitar/R/growthparameters.R | 999 bsitar-0.3.3/bsitar/R/hypothesis_test.R |only bsitar-0.3.3/bsitar/R/loo_validation.R | 80 bsitar-0.3.3/bsitar/R/modelbased_growthparameters.R |only bsitar-0.3.3/bsitar/R/optimize_model.R | 425 bsitar-0.3.3/bsitar/R/plot_conditional_effects.R | 542 bsitar-0.3.3/bsitar/R/plot_curves.R | 1623 - bsitar-0.3.3/bsitar/R/plot_ppc.R | 95 bsitar-0.3.3/bsitar/R/predict_draws.R | 731 bsitar-0.3.3/bsitar/R/update_model.R | 88 bsitar-0.3.3/bsitar/R/utils-helper-1.R | 5907 ++++- bsitar-0.3.3/bsitar/R/utils-helper-10.R | 8142 ++++++- bsitar-0.3.3/bsitar/R/utils-helper-11.R |only bsitar-0.3.3/bsitar/R/utils-helper-12.R |only bsitar-0.3.3/bsitar/R/utils-helper-13.R |only bsitar-0.3.3/bsitar/R/utils-helper-14.R |only bsitar-0.3.3/bsitar/R/utils-helper-15.R |only bsitar-0.3.3/bsitar/R/utils-helper-16.R |only bsitar-0.3.3/bsitar/R/utils-helper-17.R |only bsitar-0.3.3/bsitar/R/utils-helper-18.R |only bsitar-0.3.3/bsitar/R/utils-helper-19.R |only bsitar-0.3.3/bsitar/R/utils-helper-2.R | 6611 ++++- bsitar-0.3.3/bsitar/R/utils-helper-20.R |only bsitar-0.3.3/bsitar/R/utils-helper-21.R |only bsitar-0.3.3/bsitar/R/utils-helper-22.R |only bsitar-0.3.3/bsitar/R/utils-helper-23.R |only bsitar-0.3.3/bsitar/R/utils-helper-24.R |only bsitar-0.3.3/bsitar/R/utils-helper-25.R |only bsitar-0.3.3/bsitar/R/utils-helper-26.R |only bsitar-0.3.3/bsitar/R/utils-helper-27.R |only bsitar-0.3.3/bsitar/R/utils-helper-28.R |only bsitar-0.3.3/bsitar/R/utils-helper-3.R | 393 bsitar-0.3.3/bsitar/R/utils-helper-4.R | 708 bsitar-0.3.3/bsitar/R/utils-helper-5.R | 5121 ++-- bsitar-0.3.3/bsitar/R/utils-helper-6.R | 4717 ---- bsitar-0.3.3/bsitar/R/utils-helper-7.R |11405 +++------- bsitar-0.3.3/bsitar/R/utils-helper-8.R | 2517 -- bsitar-0.3.3/bsitar/R/utils-helper-9.R | 4294 +++ bsitar-0.3.3/bsitar/R/zzz.R | 65 bsitar-0.3.3/bsitar/README.md | 13 bsitar-0.3.3/bsitar/build/partial.rdb |binary bsitar-0.3.3/bsitar/build/vignette.rds |binary bsitar-0.3.3/bsitar/data/berkeley_exdata.rda |binary bsitar-0.3.3/bsitar/data/berkeley_exfit.rda |binary bsitar-0.3.3/bsitar/inst/CITATION | 20 bsitar-0.3.3/bsitar/inst/REFERENCES.bib | 37 bsitar-0.3.3/bsitar/inst/WORDLIST | 27 bsitar-0.3.3/bsitar/inst/doc/Bayesian_SITAR_model_An_Introduction.Rmd | 57 bsitar-0.3.3/bsitar/inst/doc/Bayesian_SITAR_model_An_Introduction.html | 83 bsitar-0.3.3/bsitar/inst/doc/Bayesian_SITAR_model_fit.R | 839 bsitar-0.3.3/bsitar/inst/doc/Bayesian_SITAR_model_fit.Rmd | 67 bsitar-0.3.3/bsitar/inst/doc/Bayesian_SITAR_model_fit.html | 126 bsitar-0.3.3/bsitar/man/add_model_criterion.Rd |only bsitar-0.3.3/bsitar/man/berkeley.Rd | 124 bsitar-0.3.3/bsitar/man/bsitar.Rd | 899 bsitar-0.3.3/bsitar/man/expose_model_functions.Rd |only bsitar-0.3.3/bsitar/man/fitted_draws.Rd |only bsitar-0.3.3/bsitar/man/getNsObject.Rd | 2 bsitar-0.3.3/bsitar/man/get_comparisons.Rd |only bsitar-0.3.3/bsitar/man/get_growthparameters.Rd |only bsitar-0.3.3/bsitar/man/get_predictions.Rd |only bsitar-0.3.3/bsitar/man/growthparameters.Rd |only bsitar-0.3.3/bsitar/man/hypothesis_test.Rd |only bsitar-0.3.3/bsitar/man/is.bgmfit.Rd |only bsitar-0.3.3/bsitar/man/loo_validation.Rd |only bsitar-0.3.3/bsitar/man/modelbased_growthparameters.Rd |only bsitar-0.3.3/bsitar/man/optimize_model.Rd |only bsitar-0.3.3/bsitar/man/pipe.Rd | 2 bsitar-0.3.3/bsitar/man/plot_conditional_effects.Rd |only bsitar-0.3.3/bsitar/man/plot_curves.Rd |only bsitar-0.3.3/bsitar/man/plot_ppc.Rd |only bsitar-0.3.3/bsitar/man/predict_draws.Rd |only bsitar-0.3.3/bsitar/man/update_model.Rd |only bsitar-0.3.3/bsitar/tests/testthat.R | 11 bsitar-0.3.3/bsitar/tests/testthat/helper-ci.R |only bsitar-0.3.3/bsitar/tests/testthat/helper-data.R |only bsitar-0.3.3/bsitar/tests/testthat/test-bsitar-nsk-settings.R |only bsitar-0.3.3/bsitar/tests/testthat/test-bsitar-nsp-settings.R |only bsitar-0.3.3/bsitar/tests/testthat/test-bsitar-rcs-settings.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_comparisons-d0.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_comparisons-d1.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_growthparameters_nocov.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-bycov-byvariable.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-bycov.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-comparisons-bycov-byvariable.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-comparisons-d0.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-comparisons-parameters-default-d0.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-comparisons-parameters-default-d1.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-comparisons-slopes-bycov.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions-comparisons-slopes.R |only bsitar-0.3.3/bsitar/tests/testthat/test-get_predictions.R |only bsitar-0.3.3/bsitar/tests/testthat/test-hypothesis_test.R |only bsitar-0.3.3/bsitar/tests/testthat/test-modelbased_growthparameters.R |only bsitar-0.3.3/bsitar/vignettes/Bayesian_SITAR_model_An_Introduction.Rmd | 57 bsitar-0.3.3/bsitar/vignettes/Bayesian_SITAR_model_fit.Rmd | 67 bsitar-0.3.3/bsitar/vignettes/bibliography.bib | 1 131 files changed, 45160 insertions(+), 23412 deletions(-)
Title: Toolbox for Downloading and Extracting Copernicus AgERA5 Data
Description: Tools for downloading and extracting data from the Copernicus "Agrometeorological indicators
from 1979 to present derived from reanalysis"
<https://cds.climate.copernicus.eu/datasets/sis-agrometeorological-indicators?tab=overview> (AgERA5).
Author: David Brown [aut, cre] ,
Kaue de Sousa [ctb] ,
Jacob van Etten [ths] ,
Sytze de Bruin [ths]
Maintainer: David Brown <db877@cornell.edu>
Diff between ag5Tools versions 0.0.2 dated 2023-10-12 and 0.0.3 dated 2026-03-25
DESCRIPTION | 18 ++++++------- MD5 | 32 ++++++++++++------------ NEWS.md | 4 +++ R/check_args.R | 28 ++++++++++----------- R/download.R | 19 +++++++++----- R/extract.R | 56 +++++++++++++++++++++---------------------- R/get_file_path.R | 8 +++++- README.md | 14 +++++----- build/vignette.rds |binary inst/doc/ag5Tools.R | 20 +++++++-------- inst/doc/ag5Tools.Rmd | 6 ++-- inst/doc/ag5Tools.html | 9 +++--- inst/doc/extracing_data.R | 32 ++++++++++++------------ inst/doc/extracing_data.html | 3 +- man/ag5_download.Rd | 11 ++++++-- man/ag5_extract.Rd | 56 +++++++++++++++++++++---------------------- vignettes/ag5Tools.Rmd | 6 ++-- 17 files changed, 172 insertions(+), 150 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-27 1.1.0
2021-11-19 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-02 0.6.0
2018-12-03 0.5.2
2018-04-03 0.4.3
2017-10-24 0.3.4
2017-10-17 0.3.3
2017-01-14 0.1.23
2016-12-19 0.1.16
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-06 1.0.6
2024-06-27 1.0.5
2024-06-10 1.0.4
2024-06-08 1.0.3
2024-04-14 1.0.2
2024-02-05 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-08-21 0.1.4
2016-08-09 0.1.3
2016-07-27 0.1.2
2016-07-25 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-28 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-30 0.3.0
2017-04-16 0.2.0
2016-06-05 0.1.5.20
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-03 0.3.0
2019-03-08 0.2.1
2018-07-03 0.2.0
2016-08-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-08-25 0.8.1
2021-09-02 0.8.0
2016-02-09 0.7.3
2015-08-31 0.7.2
2014-02-08 0.7.1
2014-01-15 0.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-09 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-08 0.0.5
2022-01-04 0.0.3
2021-06-19 0.0.2
2021-06-14 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-01-27 0.3.2
2024-08-28 0.3.1
2022-08-31 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-04 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-12 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-08-17 3.0.0
2021-02-10 2.0.2
2020-09-21 2.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-01 0.1-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-22 0.3.0
2021-09-14 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-09-22 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-11-22 0.26.6.14
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-27 0.9.1
2017-10-28 0.9
2016-03-04 0.8
2013-03-04 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-12-14 2.1.1
2022-04-08 2.1.0
2021-09-22 2.0.0
2020-01-15 1.1.0
2019-06-14 1.0.0
2019-02-04 0.7.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-16 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-26 1.2.5
2023-07-19 1.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-11 0.1.1
2017-04-24 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-03-17 0.4.0
2022-02-09 0.3.0
2021-08-09 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-09-13 0.5-1
2017-10-11 0.4-2
2016-10-17 0.4-1
2016-07-04 0.3-3
2016-06-28 0.3-0
2016-04-04 0.2-2
2016-02-23 0.2-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-30 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-09-06 1.1
2013-10-21 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-13 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-12-09 0.3.0
2024-11-11 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-03 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-04-02 0.3.0
2024-11-11 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-11 2.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-13 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-01 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-26 1.0.10
2023-08-07 1.0.9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-06-12 1.1.1
2024-04-14 1.1.0
2024-01-09 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-23 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-27 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-09 1.1
2018-03-13 1.0
2013-06-17 0.5
2013-04-09 0.4
2013-02-13 0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-06 1.6
2022-08-11 1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-12 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-29 1.6.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-19 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-24 1.0.1
2016-12-09 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-09-21 6.8.8
2018-07-16 5.1
2016-08-05 3.0
2016-06-22 2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-08-17 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-02-12 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-10-29 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-10-19 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-12 0.4
2016-10-04 0.3
2016-06-21 0.2
2016-05-09 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-05-03 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-08-19 1.0.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-05 0.1.5
2017-01-05 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-23 1.0-2
2009-11-09 1.0-1
2009-09-18 1.0-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-08 0.3
2017-12-10 0.2
2017-11-21 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-06-16 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-02-17 1.0.0
Title: Identify Rogue Taxa in Sets of Phylogenetic Trees
Description: Rogue ("wildcard") taxa are leaves with uncertain phylogenetic
position.
Their position may vary from tree to tree under inference methods that yield a
tree set (e.g. bootstrapping, Bayesian tree searches, maximum parsimony).
The presence of rogue taxa in a tree set can potentially remove all
information from a consensus tree. The information content of a consensus
tree - a function of its resolution and branch support values - can often be
increased by removing rogue taxa.
'Rogue' provides an explicitly information-theoretic approach to rogue
detection (Smith 2022) <doi:10.1093/sysbio/syab099>,
and an interface to 'RogueNaRok' (Aberer et al. 2013)
<doi:10.1093/sysbio/sys078>.
Author: Martin R. Smith [aut, cre, cph] ,
Andre J. Aberer [aut, cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Rogue versions 2.1.7 dated 2025-07-01 and 2.2.0 dated 2026-03-25
DESCRIPTION | 28 MD5 | 32 NAMESPACE | 4 NEWS.md | 27 R/RogueTaxa.R | 12 R/SPIC.R | 24 R/stability.R | 67 build/partial.rdb |binary inst/WORDLIST | 29 inst/apa-old-doi-prefix.csl | 3169 ++++++++++++++++++++++++---------------- inst/doc/Bayesian.html | 18 man/Rogue-package.Rd | 2 man/RogueTaxa.Rd | 6 man/TipVolatility.Rd | 2 src/Rogue_init.c | 2 src/graph_geodesic.c | 49 tests/testthat/test-stability.R | 11 17 files changed, 2157 insertions(+), 1325 deletions(-)
Title: Ratio-of-Uniforms Sampling for Bayesian Extreme Value Analysis
Description: Provides functions for the Bayesian analysis of extreme value
models. The 'rust' package <https://cran.r-project.org/package=rust> is
used to simulate a random sample from the required posterior distribution.
The functionality of 'revdbayes' is similar to the 'evdbayes' package
<https://cran.r-project.org/package=evdbayes>, which uses Markov Chain
Monte Carlo ('MCMC') methods for posterior simulation. In addition, there
are functions for making inferences about the extremal index, using
the models for threshold inter-exceedance times of Suveges and Davison
(2010) <doi:10.1214/09-AOAS292> and Holesovsky and Fusek (2020)
<doi:10.1007/s10687-020-00374-3>. Also provided are d,p,q,r functions for
the Generalised Extreme Value ('GEV') and Generalised Pareto ('GP')
distributions that deal appropriately with cases where the shape parameter
is very close to zero.
Author: Paul J. Northrop [aut, cre, cph],
Scott D. Grimshaw [ctb]
Maintainer: Paul J. Northrop <p.northrop@ucl.ac.uk>
Diff between revdbayes versions 1.5.6 dated 2026-01-11 and 1.5.7 dated 2026-03-25
DESCRIPTION | 10 ++-- MD5 | 28 +++++------ NEWS.md | 6 ++ R/frequentist.R | 56 +---------------------- R/revdbayes-internal.R | 56 +++++++++++++++++++++++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/revdbayes-a-vignette.html | 32 ++++++------- inst/doc/revdbayes-b-using-rcpp-vignette.R | 16 +++--- inst/doc/revdbayes-b-using-rcpp-vignette.Rmd | 16 +++--- inst/doc/revdbayes-b-using-rcpp-vignette.html | 62 +++++++++++++------------- inst/doc/revdbayes-c-predictive-vignette.html | 28 +++++------ inst/doc/revdbayes-d-kgaps-vignette.html | 6 +- man/set_prior.Rd | 2 vignettes/revdbayes-b-using-rcpp-vignette.Rmd | 16 +++--- 15 files changed, 172 insertions(+), 162 deletions(-)
Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create
and manage project-local R libraries, save the state of these libraries to
a 'lockfile', and later restore your library as required. Together, these
tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre] ,
Hadley Wickham [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between renv versions 1.1.8 dated 2026-03-05 and 1.2.0 dated 2026-03-25
renv-1.1.8/renv/R/encoding.R |only renv-1.1.8/renv/R/release.R |only renv-1.1.8/renv/R/revdeps.R |only renv-1.1.8/renv/inst/repos/src/contrib/renv_1.1.7.tar.gz |only renv-1.1.8/renv/man/graph.Rd |only renv-1.1.8/renv/tests/testthat/_snaps/init.md |only renv-1.2.0/renv/DESCRIPTION | 8 renv-1.2.0/renv/MD5 | 273 - renv-1.2.0/renv/NAMESPACE | 1 renv-1.2.0/renv/NEWS.md | 81 renv-1.2.0/renv/R/acls.R | 8 renv-1.2.0/renv/R/available-packages.R | 135 renv-1.2.0/renv/R/backports.R | 17 renv-1.2.0/renv/R/bootstrap.R | 23 renv-1.2.0/renv/R/cellar.R | 17 renv-1.2.0/renv/R/checkout.R | 134 renv-1.2.0/renv/R/config-defaults.R | 18 renv-1.2.0/renv/R/curl.R | 28 renv-1.2.0/renv/R/dependencies.R | 54 renv-1.2.0/renv/R/description.R | 64 renv-1.2.0/renv/R/download.R | 400 ++ renv-1.2.0/renv/R/embed.R | 155 - renv-1.2.0/renv/R/expr.R | 6 renv-1.2.0/renv/R/ffi.R | 10 renv-1.2.0/renv/R/files.R | 10 renv-1.2.0/renv/R/git.R | 12 renv-1.2.0/renv/R/graph.R | 2180 ++++++++++++--- renv-1.2.0/renv/R/graphviz.R |only renv-1.2.0/renv/R/hydrate.R | 45 renv-1.2.0/renv/R/index.R | 1 renv-1.2.0/renv/R/init.R | 9 renv-1.2.0/renv/R/install.R | 174 - renv-1.2.0/renv/R/load.R | 9 renv-1.2.0/renv/R/lockfile-write.R | 59 renv-1.2.0/renv/R/manifest-convert.R | 6 renv-1.2.0/renv/R/methods.R | 8 renv-1.2.0/renv/R/namespace.R | 10 renv-1.2.0/renv/R/options.R | 6 renv-1.2.0/renv/R/package.R | 150 - renv-1.2.0/renv/R/packages.R | 9 renv-1.2.0/renv/R/pipe.R |only renv-1.2.0/renv/R/plan.R |only renv-1.2.0/renv/R/platform.R | 4 renv-1.2.0/renv/R/ppm.R | 21 renv-1.2.0/renv/R/preflight.R | 4 renv-1.2.0/renv/R/pretty.R | 18 renv-1.2.0/renv/R/python-conda.R | 4 renv-1.2.0/renv/R/r.R | 45 renv-1.2.0/renv/R/rebuild.R | 1 renv-1.2.0/renv/R/regexps.R | 14 renv-1.2.0/renv/R/remotes.R | 2 renv-1.2.0/renv/R/report.R | 2 renv-1.2.0/renv/R/repos.R | 8 renv-1.2.0/renv/R/restore.R | 42 renv-1.2.0/renv/R/retrieve.R | 41 renv-1.2.0/renv/R/run.R | 20 renv-1.2.0/renv/R/settings.R | 4 renv-1.2.0/renv/R/shims.R | 4 renv-1.2.0/renv/R/socket.R | 12 renv-1.2.0/renv/R/spinner.R |only renv-1.2.0/renv/R/sysreqs.R | 43 renv-1.2.0/renv/R/timer.R |only renv-1.2.0/renv/R/update.R | 2 renv-1.2.0/renv/R/upgrade.R | 25 renv-1.2.0/renv/R/url.R | 4 renv-1.2.0/renv/R/use-python.R | 26 renv-1.2.0/renv/R/use.R | 100 renv-1.2.0/renv/R/utils-format.R | 18 renv-1.2.0/renv/R/utils.R | 31 renv-1.2.0/renv/R/version.R | 43 renv-1.2.0/renv/R/watchdog.R | 10 renv-1.2.0/renv/R/xcode.R | 6 renv-1.2.0/renv/build/vignette.rds |binary renv-1.2.0/renv/inst/config.yml | 21 renv-1.2.0/renv/inst/doc/ci.Rmd | 39 renv-1.2.0/renv/inst/doc/ci.html | 56 renv-1.2.0/renv/inst/doc/docker.Rmd | 232 - renv-1.2.0/renv/inst/doc/docker.html | 477 +-- renv-1.2.0/renv/inst/doc/faq.R | 13 renv-1.2.0/renv/inst/doc/faq.Rmd | 28 renv-1.2.0/renv/inst/doc/faq.html | 26 renv-1.2.0/renv/inst/doc/package-install.Rmd | 4 renv-1.2.0/renv/inst/doc/package-install.html | 6 renv-1.2.0/renv/inst/doc/package-sources.R | 11 renv-1.2.0/renv/inst/doc/package-sources.Rmd | 24 renv-1.2.0/renv/inst/doc/package-sources.html | 43 renv-1.2.0/renv/inst/doc/profiles.Rmd | 29 renv-1.2.0/renv/inst/doc/profiles.html | 27 renv-1.2.0/renv/inst/doc/python.R | 3 renv-1.2.0/renv/inst/doc/python.Rmd | 14 renv-1.2.0/renv/inst/doc/python.html | 112 renv-1.2.0/renv/inst/doc/renv.Rmd | 2 renv-1.2.0/renv/inst/doc/renv.html | 8 renv-1.2.0/renv/inst/ext/renv.c | 84 renv-1.2.0/renv/inst/repos/src/contrib/PACKAGES | 6 renv-1.2.0/renv/inst/repos/src/contrib/PACKAGES.gz |binary renv-1.2.0/renv/inst/repos/src/contrib/PACKAGES.rds |binary renv-1.2.0/renv/inst/repos/src/contrib/renv_1.2.0.tar.gz |only renv-1.2.0/renv/inst/resources/activate.R | 23 renv-1.2.0/renv/inst/sysreqs/sysreqs.json | 1723 ++++++++++- renv-1.2.0/renv/man/checkout.Rd | 13 renv-1.2.0/renv/man/config.Rd | 4 renv-1.2.0/renv/man/embed.Rd | 28 renv-1.2.0/renv/man/graphviz.Rd |only renv-1.2.0/renv/man/plan.Rd |only renv-1.2.0/renv/man/renv_lockfile_from_manifest.Rd | 6 renv-1.2.0/renv/man/restore.Rd | 8 renv-1.2.0/renv/man/use_python.Rd | 7 renv-1.2.0/renv/tests/testthat/_snaps/install.md | 32 renv-1.2.0/renv/tests/testthat/_snaps/load.md | 21 renv-1.2.0/renv/tests/testthat/_snaps/plan.md |only renv-1.2.0/renv/tests/testthat/_snaps/snapshot.md | 10 renv-1.2.0/renv/tests/testthat/helper-setup.R | 21 renv-1.2.0/renv/tests/testthat/helper-snapshot.R | 19 renv-1.2.0/renv/tests/testthat/helper-testthat.R | 32 renv-1.2.0/renv/tests/testthat/resources/system-file.R |only renv-1.2.0/renv/tests/testthat/test-available-packages.R | 88 renv-1.2.0/renv/tests/testthat/test-cache.R | 12 renv-1.2.0/renv/tests/testthat/test-checkout.R | 31 renv-1.2.0/renv/tests/testthat/test-dependencies.R | 6 renv-1.2.0/renv/tests/testthat/test-download.R | 175 + renv-1.2.0/renv/tests/testthat/test-embed.R | 46 renv-1.2.0/renv/tests/testthat/test-ffi.R | 18 renv-1.2.0/renv/tests/testthat/test-graph.R |only renv-1.2.0/renv/tests/testthat/test-init.R | 23 renv-1.2.0/renv/tests/testthat/test-install.R | 50 renv-1.2.0/renv/tests/testthat/test-load.R | 3 renv-1.2.0/renv/tests/testthat/test-lockfile.R | 36 renv-1.2.0/renv/tests/testthat/test-plan.R |only renv-1.2.0/renv/tests/testthat/test-repos.R | 19 renv-1.2.0/renv/tests/testthat/test-restore.R | 193 + renv-1.2.0/renv/tests/testthat/test-sandbox.R | 2 renv-1.2.0/renv/tests/testthat/test-snapshot.R | 4 renv-1.2.0/renv/tests/testthat/test-socket.R | 108 renv-1.2.0/renv/tests/testthat/test-sysreqs.R | 8 renv-1.2.0/renv/tests/testthat/test-testthat.R |only renv-1.2.0/renv/tests/testthat/test-url.R | 28 renv-1.2.0/renv/tests/testthat/test-use.R | 88 renv-1.2.0/renv/tests/testthat/test-version.R | 38 renv-1.2.0/renv/vignettes/ci.Rmd | 39 renv-1.2.0/renv/vignettes/docker.Rmd | 232 - renv-1.2.0/renv/vignettes/faq.Rmd | 28 renv-1.2.0/renv/vignettes/package-install.Rmd | 4 renv-1.2.0/renv/vignettes/package-sources.Rmd | 24 renv-1.2.0/renv/vignettes/profiles.Rmd | 29 renv-1.2.0/renv/vignettes/python.Rmd | 14 renv-1.2.0/renv/vignettes/renv.Rmd | 2 147 files changed, 7274 insertions(+), 1960 deletions(-)
Title: Plackett-Luce Models for Rankings
Description: Functions to prepare rankings data and fit the Plackett-Luce model
jointly attributed to Plackett (1975) <doi:10.2307/2346567> and Luce
(1959, ISBN:0486441369). The standard Plackett-Luce model is generalized
to accommodate ties of any order in the ranking. Partial rankings, in which
only a subset of items are ranked in each ranking, are also accommodated in
the implementation. Disconnected/weakly connected networks implied by the
rankings may be handled by adding pseudo-rankings with a hypothetical item.
Optionally, a multivariate normal prior may be set on the log-worth
parameters and ranker reliabilities may be incorporated as proposed by
Raman and Joachims (2014) <doi:10.1145/2623330.2623654>. Maximum a
posteriori estimation is used when priors are set. Methods are provided to
estimate standard errors or quasi-standard errors for inference as well as
to fit Plackett-Luce trees. See the package website or vignette for further
details.
Author: Heather Turner [aut, cre] ,
Ioannis Kosmidis [aut] ,
David Firth [aut] ,
Jacob van Etten [ctb]
Maintainer: Heather Turner <ht@heatherturner.net>
Diff between PlackettLuce versions 0.4.4 dated 2025-09-03 and 0.4.5 dated 2026-03-25
DESCRIPTION | 16 MD5 | 68 - NAMESPACE | 3 NEWS.md | 7 R/PlackettLuce.R | 1746 ++++++++++++++++---------------- R/admm_log.R | 10 R/pladmm.R | 44 R/pudding.R | 2 R/salad.R |only R/utils.R | 10 README.md | 7 build/partial.rdb |binary build/vignette.rds |binary data/salad.rda |only inst/CITATION | 1 inst/WORDLIST | 1 inst/doc/Overview.R | 7 inst/doc/Overview.Rmd | 26 inst/doc/Overview.html | 520 --------- inst/doc/PLADMM.R | 3 inst/doc/PLADMM.Rmd | 24 inst/doc/PLADMM.html | 460 -------- man/PlackettLuce.Rd | 2 man/pladmm.Rd | 40 man/pudding.Rd | 2 man/salad.Rd |only tests/testthat/helper.R | 42 tests/testthat/test-S3-methods-PLADMM.R | 20 tests/testthat/test-admm.R | 45 tests/testthat/test-anova.R | 3 tests/testthat/test-estfun-PLADMM.R | 3 tests/testthat/test-itempar-PLADMM.R | 290 ++--- tests/testthat/test-pltree-PLADMM.R | 307 ++--- tests/testthat/test-predict-PLADMM.R | 212 +-- vignettes/Overview.Rmd | 26 vignettes/PLADMM.Rmd | 24 vignettes/mathjax.html |only 37 files changed, 1558 insertions(+), 2413 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc] ,
Christoph Burow [aut, trl, dtc] ,
Michael Dietze [aut] ,
Margret C. Fuchs [aut] ,
Christoph Schmidt [aut] ,
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] ,
Norbert Mercier [aut] ,
Rachel K. Smedley [ct [...truncated...]
Maintainer: Sebastian Kreutzer <maintainer_luminescence@r-luminescence.org>
Diff between Luminescence versions 1.2.0 dated 2026-03-12 and 1.2.1 dated 2026-03-25
Luminescence-1.2.0/Luminescence/tests/testthat/_data/DRAC_Input_Template.csv |only Luminescence-1.2.1/Luminescence/DESCRIPTION | 8 Luminescence-1.2.1/Luminescence/MD5 | 429 +++++----- Luminescence-1.2.1/Luminescence/NEWS.md | 143 +++ Luminescence-1.2.1/Luminescence/R/Luminescence-generics.R | 7 Luminescence-1.2.1/Luminescence/R/Luminescence-package.R | 2 Luminescence-1.2.1/Luminescence/R/analyse_FadingMeasurement.R | 6 Luminescence-1.2.1/Luminescence/R/analyse_IRSAR.RF.R | 6 Luminescence-1.2.1/Luminescence/R/analyse_SAR.CWOSL.R | 10 Luminescence-1.2.1/Luminescence/R/analyse_SAR.TL.R | 4 Luminescence-1.2.1/Luminescence/R/calc_CosmicDoseRate.R | 15 Luminescence-1.2.1/Luminescence/R/calc_FadingCorr.R | 8 Luminescence-1.2.1/Luminescence/R/calc_Huntley2006.R | 2 Luminescence-1.2.1/Luminescence/R/calc_IEU.R | 4 Luminescence-1.2.1/Luminescence/R/calc_OSLLxTxRatio.R | 47 - Luminescence-1.2.1/Luminescence/R/calc_Statistics.R | 1 Luminescence-1.2.1/Luminescence/R/calc_TLLxTxRatio.R | 16 Luminescence-1.2.1/Luminescence/R/calc_ThermalLifetime.R | 2 Luminescence-1.2.1/Luminescence/R/calc_WodaFuchs2008.R | 7 Luminescence-1.2.1/Luminescence/R/convert_Activity2Concentration.R | 5 Luminescence-1.2.1/Luminescence/R/convert_CW2pHMi.R | 13 Luminescence-1.2.1/Luminescence/R/convert_CW2pLM.R | 2 Luminescence-1.2.1/Luminescence/R/convert_CW2pLMi.R | 8 Luminescence-1.2.1/Luminescence/R/convert_CW2pPMi.R | 8 Luminescence-1.2.1/Luminescence/R/correct_PMTLinearity.R | 2 Luminescence-1.2.1/Luminescence/R/fit_CWCurve.R | 10 Luminescence-1.2.1/Luminescence/R/fit_DoseResponseCurve.R | 12 Luminescence-1.2.1/Luminescence/R/fit_EmissionSpectra.R | 2 Luminescence-1.2.1/Luminescence/R/fit_LMCurve.R | 19 Luminescence-1.2.1/Luminescence/R/fit_OSLLifeTimes.R | 30 Luminescence-1.2.1/Luminescence/R/fit_ThermalQuenching.R | 7 Luminescence-1.2.1/Luminescence/R/internal_as.latex.table.R | 12 Luminescence-1.2.1/Luminescence/R/internals_RLum.R | 7 Luminescence-1.2.1/Luminescence/R/merge_RLum.Data.Curve.R | 4 Luminescence-1.2.1/Luminescence/R/merge_RLum.Data.Spectrum.R | 2 Luminescence-1.2.1/Luminescence/R/merge_RLum.R | 3 Luminescence-1.2.1/Luminescence/R/methods_DRAC.R | 7 Luminescence-1.2.1/Luminescence/R/plot_DRTResults.R | 42 Luminescence-1.2.1/Luminescence/R/plot_FilterCombinations.R | 6 Luminescence-1.2.1/Luminescence/R/plot_KDE.R | 3 Luminescence-1.2.1/Luminescence/R/plot_RLum.Data.Curve.R | 2 Luminescence-1.2.1/Luminescence/R/report_RLum.R | 8 Luminescence-1.2.1/Luminescence/R/template_DRAC.R | 30 Luminescence-1.2.1/Luminescence/R/use_DRAC.R | 13 Luminescence-1.2.1/Luminescence/R/verify_SingleGrainData.R | 38 Luminescence-1.2.1/Luminescence/inst/doc/crosstalk.html | 60 - Luminescence-1.2.1/Luminescence/man/BaseDataSet.CosmicDoseRate.Rd | 2 Luminescence-1.2.1/Luminescence/man/Risoe.BINfileData-class.Rd | 2 Luminescence-1.2.1/Luminescence/man/Risoe.BINfileData2RLum.Analysis.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_Al2O3C_CrossTalk.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_Al2O3C_ITC.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_Al2O3C_Measurement.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_FadingMeasurement.Rd | 8 Luminescence-1.2.1/Luminescence/man/analyse_IRSAR.RF.Rd | 8 Luminescence-1.2.1/Luminescence/man/analyse_SAR.CWOSL.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_SAR.TL.Rd | 4 Luminescence-1.2.1/Luminescence/man/analyse_baSAR.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_pIRIRSequence.Rd | 2 Luminescence-1.2.1/Luminescence/man/analyse_portableOSL.Rd | 2 Luminescence-1.2.1/Luminescence/man/apply_CosmicRayRemoval.Rd | 2 Luminescence-1.2.1/Luminescence/man/apply_Crosstalk.Rd | 2 Luminescence-1.2.1/Luminescence/man/apply_EfficiencyCorrection.Rd | 2 Luminescence-1.2.1/Luminescence/man/bin_RLum.Data.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_AliquotSize.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_AverageDose.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_CentralDose.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_CobbleDoseRate.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_CommonDose.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_CosmicDoseRate.Rd | 12 Luminescence-1.2.1/Luminescence/man/calc_EED_Model.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_FadingCorr.Rd | 10 Luminescence-1.2.1/Luminescence/man/calc_FastRatio.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_FiniteMixture.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_FuchsLang2001.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_HomogeneityTest.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_Huntley2006.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_IEU.Rd | 4 Luminescence-1.2.1/Luminescence/man/calc_Lamothe2003.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_MaxDose.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_MinDose.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_MoransI.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_OSLLxTxDecomposed.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_OSLLxTxRatio.Rd | 26 Luminescence-1.2.1/Luminescence/man/calc_SourceDoseRate.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_Statistics.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_TLLxTxRatio.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_ThermalLifetime.Rd | 4 Luminescence-1.2.1/Luminescence/man/calc_WodaFuchs2008.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_gSGC.Rd | 2 Luminescence-1.2.1/Luminescence/man/calc_gSGC_feldspar.Rd | 2 Luminescence-1.2.1/Luminescence/man/combine_De_Dr.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_Activity2Concentration.Rd | 6 Luminescence-1.2.1/Luminescence/man/convert_BIN2CSV.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_CW2pHMi.Rd | 10 Luminescence-1.2.1/Luminescence/man/convert_CW2pLM.Rd | 4 Luminescence-1.2.1/Luminescence/man/convert_CW2pLMi.Rd | 4 Luminescence-1.2.1/Luminescence/man/convert_CW2pPMi.Rd | 4 Luminescence-1.2.1/Luminescence/man/convert_Concentration2DoseRate.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_Daybreak2CSV.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_PSL2CSV.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_PSL2Risoe.BINfileData.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_RLum2Risoe.BINfileData.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_SG2MG.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_Second2Gray.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_Wavelength2Energy.Rd | 2 Luminescence-1.2.1/Luminescence/man/convert_XSYG2CSV.Rd | 2 Luminescence-1.2.1/Luminescence/man/correct_PMTLinearity.Rd | 4 Luminescence-1.2.1/Luminescence/man/dot-as.latex.table.Rd | 2 Luminescence-1.2.1/Luminescence/man/extract_IrradiationTimes.Rd | 2 Luminescence-1.2.1/Luminescence/man/extract_ROI.Rd | 2 Luminescence-1.2.1/Luminescence/man/fit_CWCurve.Rd | 12 Luminescence-1.2.1/Luminescence/man/fit_DoseResponseCurve.Rd | 14 Luminescence-1.2.1/Luminescence/man/fit_EmissionSpectra.Rd | 4 Luminescence-1.2.1/Luminescence/man/fit_LMCurve.Rd | 18 Luminescence-1.2.1/Luminescence/man/fit_OSLLifeTimes.Rd | 14 Luminescence-1.2.1/Luminescence/man/fit_SurfaceExposure.Rd | 2 Luminescence-1.2.1/Luminescence/man/fit_ThermalQuenching.Rd | 6 Luminescence-1.2.1/Luminescence/man/get_Layout.Rd | 2 Luminescence-1.2.1/Luminescence/man/get_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/get_rightAnswer.Rd | 2 Luminescence-1.2.1/Luminescence/man/import_Data.Rd | 2 Luminescence-1.2.1/Luminescence/man/length_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/melt_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/merge_RLum.Analysis.Rd | 2 Luminescence-1.2.1/Luminescence/man/merge_RLum.Data.Curve.Rd | 2 Luminescence-1.2.1/Luminescence/man/merge_RLum.Data.Spectrum.Rd | 2 Luminescence-1.2.1/Luminescence/man/merge_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/merge_RLum.Results.Rd | 2 Luminescence-1.2.1/Luminescence/man/merge_Risoe.BINfileData.Rd | 2 Luminescence-1.2.1/Luminescence/man/metadata.Rd | 2 Luminescence-1.2.1/Luminescence/man/names_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/normalise_RLum.Rd | 6 Luminescence-1.2.1/Luminescence/man/plot_AbanicoPlot.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_DRCSummary.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_DRTResults.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_DetPlot.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_DoseResponseCurve.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_FilterCombinations.Rd | 8 Luminescence-1.2.1/Luminescence/man/plot_GrowthCurve.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_Histogram.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_KDE.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_MoranScatterplot.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_NRt.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_OSLAgeSummary.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_RLum.Analysis.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_RLum.Data.Curve.Rd | 4 Luminescence-1.2.1/Luminescence/man/plot_RLum.Data.Image.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_RLum.Data.Spectrum.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_RLum.Results.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_ROI.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_RadialPlot.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_Risoe.BINfileData.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_SingleGrainDisc.Rd | 2 Luminescence-1.2.1/Luminescence/man/plot_ViolinPlot.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_BIN2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_BINXLOG2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_Daybreak2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_HeliosOSL2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_PSL2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_RF2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_SPE2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_TIFF2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/read_XSYG2R.Rd | 2 Luminescence-1.2.1/Luminescence/man/remove_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/remove_SignalBackground.Rd | 2 Luminescence-1.2.1/Luminescence/man/replicate_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/report_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/sTeve.Rd | 2 Luminescence-1.2.1/Luminescence/man/scale_GammaDose.Rd | 2 Luminescence-1.2.1/Luminescence/man/set_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/set_Risoe.BINfileData.Rd | 2 Luminescence-1.2.1/Luminescence/man/smooth_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/sort_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/structure_RLum.Rd | 2 Luminescence-1.2.1/Luminescence/man/subset_SingleGrainData.Rd | 2 Luminescence-1.2.1/Luminescence/man/template_DRAC.Rd | 2 Luminescence-1.2.1/Luminescence/man/trim_RLum.Data.Rd | 2 Luminescence-1.2.1/Luminescence/man/tune_Data.Rd | 2 Luminescence-1.2.1/Luminescence/man/use_DRAC.Rd | 6 Luminescence-1.2.1/Luminescence/man/verify_SingleGrainData.Rd | 14 Luminescence-1.2.1/Luminescence/man/view.Rd | 2 Luminescence-1.2.1/Luminescence/man/write_R2BIN.Rd | 2 Luminescence-1.2.1/Luminescence/man/write_R2TIFF.Rd | 2 Luminescence-1.2.1/Luminescence/man/write_RLum2CSV.Rd | 2 Luminescence-1.2.1/Luminescence/src/src_analyse_IRSARRF_SRS.cpp | 8 Luminescence-1.2.1/Luminescence/tests/testthat/_data/DRAC_Input_Template_v1.2.csv |only Luminescence-1.2.1/Luminescence/tests/testthat/_data/DRAC_Input_Template_v1.3.csv |only Luminescence-1.2.1/Luminescence/tests/testthat/test_RLum.Analysis-class.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_RLum.Results-class.R | 4 Luminescence-1.2.1/Luminescence/tests/testthat/test_analyse_pIRIRSequence.R | 4 Luminescence-1.2.1/Luminescence/tests/testthat/test_as_latex_table.R | 38 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_Huntley2006.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_IEU.R | 4 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_MinDose.R | 29 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_OSLLxTxRatio.R | 13 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_Statistics.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_TLLxTxRatio.R | 18 Luminescence-1.2.1/Luminescence/tests/testthat/test_calc_gSGC.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_convert_Activity2Concentration.R | 5 Luminescence-1.2.1/Luminescence/tests/testthat/test_convert_CW2pX.R | 25 Luminescence-1.2.1/Luminescence/tests/testthat/test_fit_DoseResponseCurve.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_fit_LMCurve.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_fit_OSLLifeTimes.R | 37 Luminescence-1.2.1/Luminescence/tests/testthat/test_fit_ThermalQuenching.R | 5 Luminescence-1.2.1/Luminescence/tests/testthat/test_internals.R | 6 Luminescence-1.2.1/Luminescence/tests/testthat/test_merge_RLum.Data.Curve.R | 4 Luminescence-1.2.1/Luminescence/tests/testthat/test_merge_RLum.Data.Spectrum.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_merge_RLum.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_merge_Risoe.BINfileData.R | 6 Luminescence-1.2.1/Luminescence/tests/testthat/test_normalise_RLum.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_plot_DRTResults.R | 28 Luminescence-1.2.1/Luminescence/tests/testthat/test_plot_DetPlot.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_plot_KDE.R | 2 Luminescence-1.2.1/Luminescence/tests/testthat/test_report_RLum.R | 37 Luminescence-1.2.1/Luminescence/tests/testthat/test_use_DRAC.R | 26 Luminescence-1.2.1/Luminescence/tests/testthat/test_verify_SingleGrainData.R | 11 217 files changed, 1118 insertions(+), 726 deletions(-)
Title: Add Inset Panels to Maps
Description: Helper to add insets based on geom_sf() from 'ggplot2'.
This package gives you a drop-in replacement for geom_sf() that supports
adding a zoomed inset map without having to create and embed a separate plot.
Author: Carl Suster [aut, cre] ,
Western Sydney Local Health District, NSW Health [cph]
Maintainer: Carl Suster <carl.suster@sydney.edu.au>
Diff between ggmapinset versions 0.4.0 dated 2024-12-18 and 0.5.0 dated 2026-03-25
ggmapinset-0.4.0/ggmapinset/man/get_inset_config.Rd |only ggmapinset-0.5.0/ggmapinset/DESCRIPTION | 24 + ggmapinset-0.5.0/ggmapinset/LICENSE | 4 ggmapinset-0.5.0/ggmapinset/MD5 | 61 ++-- ggmapinset-0.5.0/ggmapinset/NAMESPACE | 9 ggmapinset-0.5.0/ggmapinset/NEWS.md | 10 ggmapinset-0.5.0/ggmapinset/R/coerce_centre.R |only ggmapinset-0.5.0/ggmapinset/R/configure_inset.R | 49 +-- ggmapinset-0.5.0/ggmapinset/R/coord_sf_inset.R | 11 ggmapinset-0.5.0/ggmapinset/R/geom_inset_frame.R | 42 ++- ggmapinset-0.5.0/ggmapinset/R/geom_sf_inset.R | 64 +++-- ggmapinset-0.5.0/ggmapinset/R/ggmapinset-package.R | 2 ggmapinset-0.5.0/ggmapinset/R/inset_shape_circle.R | 9 ggmapinset-0.5.0/ggmapinset/R/inset_shape_rectangle.R | 9 ggmapinset-0.5.0/ggmapinset/R/inset_shape_sf.R | 2 ggmapinset-0.5.0/ggmapinset/R/layer_helpers.R | 137 +++++++---- ggmapinset-0.5.0/ggmapinset/R/stat_sf_coordinates_inset.R | 49 ++- ggmapinset-0.5.0/ggmapinset/R/stat_sf_inset.R | 42 ++- ggmapinset-0.5.0/ggmapinset/README.md | 2 ggmapinset-0.5.0/ggmapinset/build/vignette.rds |binary ggmapinset-0.5.0/ggmapinset/inst/doc/ggmapinset.html | 27 +- ggmapinset-0.5.0/ggmapinset/man/build_sf_inset_layers.Rd | 46 +++ ggmapinset-0.5.0/ggmapinset/man/coerce_centre.Rd |only ggmapinset-0.5.0/ggmapinset/man/configure_inset.Rd | 22 + ggmapinset-0.5.0/ggmapinset/man/figures/README-example-1.png |binary ggmapinset-0.5.0/ggmapinset/man/geom_inset_frame.Rd | 4 ggmapinset-0.5.0/ggmapinset/man/geom_sf_inset.Rd | 10 ggmapinset-0.5.0/ggmapinset/man/ggmapinset-package.Rd | 4 ggmapinset-0.5.0/ggmapinset/man/shape_circle.Rd | 4 ggmapinset-0.5.0/ggmapinset/man/shape_rectangle.Rd | 4 ggmapinset-0.5.0/ggmapinset/man/stat_sf_coordinates_inset.Rd | 6 ggmapinset-0.5.0/ggmapinset/tests |only 32 files changed, 431 insertions(+), 222 deletions(-)
Title: Time Series Analysis and Control Package
Description: Functions for statistical analysis, prediction and control of time
series based mainly on Akaike and Nakagawa (1988) <ISBN 978-90-277-2786-2>.
Author: Yoshinori Kawasaki [aut, cre],
Junji Nakano [aut],
Masami Saga [aut],
The Institute of Statistical Mathematics [cph, fnd]
Maintainer: Yoshinori Kawasaki <kawasaki@ism.ac.jp>
Diff between timsac versions 1.3.8-4 dated 2023-09-30 and 1.3.8-6 dated 2026-03-25
timsac-1.3.8-4/timsac/inst/AUTHORS |only timsac-1.3.8-4/timsac/src/timsac.h |only timsac-1.3.8-6/timsac/DESCRIPTION | 20 +++-- timsac-1.3.8-6/timsac/MD5 | 111 +++++++++++++--------------- timsac-1.3.8-6/timsac/NEWS.md | 5 + timsac-1.3.8-6/timsac/data/Airpollution.rda |binary timsac-1.3.8-6/timsac/data/Amerikamaru.rda |binary timsac-1.3.8-6/timsac/data/Blsallfood.rda |binary timsac-1.3.8-6/timsac/data/Canadianlynx.rda |binary timsac-1.3.8-6/timsac/data/LaborData.rda |binary timsac-1.3.8-6/timsac/data/Powerplant.rda |binary timsac-1.3.8-6/timsac/data/bispecData.rda |binary timsac-1.3.8-6/timsac/data/locarData.rda |binary timsac-1.3.8-6/timsac/data/nonstData.rda |binary timsac-1.3.8-6/timsac/inst/COPYRIGHTS |only timsac-1.3.8-6/timsac/src/auspecf.f | 2 timsac-1.3.8-6/timsac/src/autarmf.f | 2 timsac-1.3.8-6/timsac/src/autcorf.f | 2 timsac-1.3.8-6/timsac/src/bayseaf.f | 4 - timsac-1.3.8-6/timsac/src/bispecf.f | 2 timsac-1.3.8-6/timsac/src/blocarf.f | 4 - timsac-1.3.8-6/timsac/src/blomarf.f | 2 timsac-1.3.8-6/timsac/src/bsubstf.f | 2 timsac-1.3.8-6/timsac/src/canarmf.f | 2 timsac-1.3.8-6/timsac/src/canocaf.f | 2 timsac-1.3.8-6/timsac/src/comsub.f | 1 timsac-1.3.8-6/timsac/src/covgenf.f | 2 timsac-1.3.8-6/timsac/src/decomp6f.f | 2 timsac-1.3.8-6/timsac/src/exsarf.f | 2 timsac-1.3.8-6/timsac/src/fftcorf.f | 2 timsac-1.3.8-6/timsac/src/fpeautf.f | 2 timsac-1.3.8-6/timsac/src/fpecf.f | 2 timsac-1.3.8-6/timsac/src/init.c | 22 ----- timsac-1.3.8-6/timsac/src/markovf.f | 2 timsac-1.3.8-6/timsac/src/mlocarf.f | 2 timsac-1.3.8-6/timsac/src/mlomarf.f | 2 timsac-1.3.8-6/timsac/src/mulbarf.f | 2 timsac-1.3.8-6/timsac/src/mulcorf.f | 2 timsac-1.3.8-6/timsac/src/mulfref.f | 2 timsac-1.3.8-6/timsac/src/mulmarf.f | 2 timsac-1.3.8-6/timsac/src/mulnosf.f | 2 timsac-1.3.8-6/timsac/src/mulrspf.f | 2 timsac-1.3.8-6/timsac/src/mulspef.f | 2 timsac-1.3.8-6/timsac/src/nonstf.f | 2 timsac-1.3.8-6/timsac/src/optdesf.f | 2 timsac-1.3.8-6/timsac/src/optsimf.f | 2 timsac-1.3.8-6/timsac/src/perarsf.f | 2 timsac-1.3.8-6/timsac/src/prdctrf.f | 2 timsac-1.3.8-6/timsac/src/raspecf.f | 2 timsac-1.3.8-6/timsac/src/regF77.h | 22 ----- timsac-1.3.8-6/timsac/src/sglfref.f | 2 timsac-1.3.8-6/timsac/src/simconf.f | 2 timsac-1.3.8-6/timsac/src/spgrhf.f | 2 timsac-1.3.8-6/timsac/src/thirmof.f | 2 timsac-1.3.8-6/timsac/src/unibarf.f | 2 timsac-1.3.8-6/timsac/src/unimarf.f | 2 timsac-1.3.8-6/timsac/src/wnoisef.f | 2 timsac-1.3.8-6/timsac/src/xsarmaf.f | 2 58 files changed, 76 insertions(+), 189 deletions(-)
Title: Slice into 'Zarr' Arrays
Description: An implementation of chunked, compressed, N-dimensional arrays
for R following the 'Zarr' specification. Provides array and group creation,
reading and writing with configurable chunk shapes, compression codecs, and
storage backends including in-memory, local directory, and HTTP stores.
Supports both 'Zarr' spec V2 (2024) <doi:10.5281/zenodo.11320255> and V3,
enabling interoperable access to large array data commonly used in scientific
computing and geospatial applications.
Author: David Blodgett [cre, aut] ,
Mark Keller [aut] ,
Artuer Manukyan [aut] ,
zarr-developers [cph]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between pizzarr versions 0.1.0 dated 2026-03-24 and 0.1.1 dated 2026-03-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ tests/testthat/test-01-parallel.R | 10 ++++++---- 4 files changed, 16 insertions(+), 10 deletions(-)
Title: Clean and Analyze Continuous Glucose Monitor Data
Description: This code provides several different functions for cleaning and analyzing continuous glucose monitor data. Currently it works with 'Dexcom', 'iPro 2', 'Diasend', 'Libre', or 'Carelink' data. The cleandata() function takes a directory of CGM data files and prepares them for analysis. cgmvariables() iterates through a directory of cleaned CGM data files and produces a single spreadsheet with data for each file in either rows or columns. The column format of this spreadsheet is compatible with REDCap data upload. cgmreport() also iterates through a directory of cleaned data, and produces PDFs of individual and aggregate AGP plots. Please visit <https://github.com/childhealthbiostatscore/R-Packages/> to download the new-user guide.
Author: Tim Vigers [aut, cre]
Maintainer: Tim Vigers <tvigers@uw.edu>
Diff between cgmanalysis versions 3.1.1 dated 2025-06-09 and 3.2.0 dated 2026-03-25
DESCRIPTION | 12 MD5 | 8 R/cgmreport.R | 195 +++++++++++--- R/cgmvariables.R | 730 ++++++++++++++++++++++++++++++++++++++----------------- R/cleandata.R | 220 +++++++++++----- 5 files changed, 837 insertions(+), 328 deletions(-)
Title: Rendering Parameterized SQL and Translation to Dialects
Description: A rendering tool for parameterized SQL that also translates into
different SQL dialects. These dialects include 'Microsoft SQL Server', 'Oracle',
'PostgreSql', 'Amazon RedShift', 'Apache Impala', 'IBM Netezza', 'Google BigQuery', 'Microsoft PDW', 'Snowflake',
'Azure Synapse Analytics Dedicated', 'Apache Spark', 'SQLite', and 'InterSystems IRIS'.
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between SqlRender versions 1.19.4 dated 2025-09-26 and 1.19.5 dated 2026-03-25
DESCRIPTION | 8 MD5 | 38 +-- NEWS.md | 12 + R/HelperFunctions.R | 2 R/RenderSql.R | 2 R/ShinyApps.R | 2 R/SparkSql.R | 2 R/SqlRender.R | 2 inst/csv/replacementPatterns.csv | 5 inst/doc/UsingSqlRender.pdf |binary inst/shinyApps/SqlDeveloper/ui.R | 90 ++++---- java/org/ohdsi/sql/BigQuerySparkTranslate.java | 2 java/org/ohdsi/sql/JarChecksum.java | 2 java/org/ohdsi/sql/MainClass.java | 2 java/org/ohdsi/sql/SqlRender.java | 2 java/org/ohdsi/sql/SqlSplit.java | 2 java/org/ohdsi/sql/SqlTranslate.java | 2 java/org/ohdsi/sql/StringUtils.java | 2 tests/testthat/test-translate-duckdb.R | 15 + tests/testthat/test-translate-iris.R | 272 +++++++++++++------------ 20 files changed, 255 insertions(+), 209 deletions(-)
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects with unknown variance-covariance structures (e.g., heterogeneous and unstructured) and known covariance among levels of random effects (e.g., pedigree and genomic relationship matrices) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>; Jensen et al., 1997). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms for the problems r x r (r being the number of records) or using the Henderson-based average information algorithm for the problem c x c (c being the number of coefficients to estimate). Spatial models can also be fitted using the two-dimensional spline functionality available.
Author: Giovanny Covarrubias-Pazaran [aut, cre]
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.4.4 dated 2025-11-26 and 4.4.5 dated 2026-03-25
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/DEPRECATED_mmer.R | 2 +- R/mmes.R | 2 +- inst/doc/sommer.gxe.html | 2 +- inst/doc/sommer.qg.html | 2 +- inst/doc/sommer.spatial.html | 2 +- inst/doc/sommer.vs.lme4.html | 2 +- man/MNR.Rd | 2 ++ 9 files changed, 20 insertions(+), 18 deletions(-)
Title: Simulate Data from State Space Models
Description: Provides a streamlined and user-friendly framework
for simulating data in state space models,
particularly when the number of subjects/units (n) exceeds one,
a scenario commonly encountered in social and behavioral sciences.
This package was designed to generate data for the simulations
performed in Pesigan, Russell, and Chow (2025) <doi:10.1037/met0000779>.
Author: Ivan Jacob Agaloos Pesigan [aut, cre, cph] ,
Michael A. Russell [ctb] ,
Sy-Miin Chow [ctb]
Maintainer: Ivan Jacob Agaloos Pesigan <r.jeksterslab@gmail.com>
Diff between simStateSpace versions 1.2.15 dated 2026-02-06 and 1.2.16 dated 2026-03-25
DESCRIPTION | 8 MD5 | 125 ++++++++------- NAMESPACE | 4 NEWS.md | 8 R/RcppExports.R | 103 ------------ R/simStateSpace-lin-sde-intercept-eta.R |only R/simStateSpace-lin-sde-intercept-y.R |only R/simStateSpace-sim-mvn.R |only R/simStateSpace-sim-ssm-fixed.R | 40 ++-- R/simStateSpace-sim-ssm-i-vary.R | 40 ++-- R/simStateSpace-sim-ssm-lin-growth-i-vary.R | 40 ++-- R/simStateSpace-sim-ssm-lin-growth.R | 40 ++-- R/simStateSpace-sim-ssm-lin-sde-i-vary.R | 42 ++--- R/simStateSpace-sim-ssm-ou-i-vary.R | 42 ++--- R/simStateSpace-sim-ssm-var-fixed.R | 38 ++-- R/simStateSpace-sim-ssm-var-i-vary.R | 38 ++-- R/simStateSpace-ssm-intercept-eta.R | 2 build/partial.rdb |binary man/LinSDE2SSM.Rd | 82 +++++----- man/LinSDECovEta.Rd | 82 +++++----- man/LinSDECovY.Rd | 82 +++++----- man/LinSDEInterceptEta.Rd |only man/LinSDEInterceptY.Rd |only man/LinSDEMeanEta.Rd | 82 +++++----- man/LinSDEMeanY.Rd | 82 +++++----- man/ProjectToHurwitz.Rd | 82 +++++----- man/ProjectToStability.Rd | 82 +++++----- man/SSMCovEta.Rd | 82 +++++----- man/SSMCovY.Rd | 82 +++++----- man/SSMInterceptEta.Rd | 84 +++++----- man/SSMInterceptY.Rd | 82 +++++----- man/SSMMeanEta.Rd | 82 +++++----- man/SSMMeanY.Rd | 82 +++++----- man/SimAlphaN.Rd | 84 +++++----- man/SimBetaN.Rd | 82 +++++----- man/SimBetaN2.Rd | 82 +++++----- man/SimBetaNCovariate.Rd | 82 +++++----- man/SimCovDiagN.Rd | 82 +++++----- man/SimCovN.Rd | 82 +++++----- man/SimIotaN.Rd | 84 +++++----- man/SimMVN.Rd |only man/SimMuN.Rd |only man/SimNuN.Rd | 84 +++++----- man/SimPhiN.Rd | 82 +++++----- man/SimPhiN2.Rd | 82 +++++----- man/SimPhiNCovariate.Rd | 82 +++++----- man/SimSSMFixed.Rd | 82 +++++----- man/SimSSMIVary.Rd | 82 +++++----- man/SimSSMLinGrowth.Rd | 82 +++++----- man/SimSSMLinGrowthIVary.Rd | 122 +++++---------- man/SimSSMLinSDEFixed.Rd | 82 +++++----- man/SimSSMLinSDEIVary.Rd | 82 +++++----- man/SimSSMOUFixed.Rd | 82 +++++----- man/SimSSMOUIVary.Rd | 82 +++++----- man/SimSSMVARFixed.Rd | 82 +++++----- man/SimSSMVARIVary.Rd | 82 +++++----- man/SpectralRadius.Rd | 82 +++++----- man/TestPhi.Rd | 82 +++++----- man/TestPhiHurwitz.Rd | 82 +++++----- man/TestStability.Rd | 82 +++++----- man/TestStationarity.Rd | 82 +++++----- man/simStateSpace-package.Rd | 5 src/RcppExports.cpp | 55 ++---- src/source.cpp | 153 ++----------------- tests/testthat/test-simStateSpace-lin-sde-mean-eta.R | 14 + tests/testthat/test-simStateSpace-lin-sde-mean-y.R | 15 + tests/testthat/test-simStateSpace-sim-mu-n.R |only tests/testthat/test-simStateSpace-sim-mvn.R |only 68 files changed, 2029 insertions(+), 2029 deletions(-)
Title: Procedures for Psychological, Psychometric, and Personality
Research
Description: A general purpose toolbox developed originally for personality, psychometric theory and experimental psychology. Functions are primarily for multivariate analysis and scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multiple levels include within and between group statistics, including correlations and factor analysis. Validation and cross validation of scales developed using basic machine learning algorithms are provided, as are functions for simulating and testing particular item and test structures. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, including mediation models, factor analysis and structural equation models are created using basic graphics. Some of the fu [...truncated...]
Author: William Revelle [aut, cre]
Maintainer: William Revelle <revelle@northwestern.edu>
Diff between psych versions 2.6.1 dated 2026-02-03 and 2.6.3 dated 2026-03-25
psych-2.6.1/psych/R/cfa.r |only psych-2.6.3/psych/DESCRIPTION | 8 +-- psych-2.6.3/psych/MD5 | 60 ++++++++++++------------ psych-2.6.3/psych/NAMESPACE | 3 + psych-2.6.3/psych/R/CFA.bifactor.r |only psych-2.6.3/psych/R/CFA.r |only psych-2.6.3/psych/R/alpha.R | 8 ++- psych-2.6.3/psych/R/anova.psych.R | 4 - psych-2.6.3/psych/R/biplot.psych.R | 14 +++++ psych-2.6.3/psych/R/diagram.R | 2 psych-2.6.3/psych/R/factor.congruence.R | 17 ++++-- psych-2.6.3/psych/R/irt.cfa.r |only psych-2.6.3/psych/R/misc.R | 40 +++++++++++----- psych-2.6.3/psych/R/parallel.irt.r | 2 psych-2.6.3/psych/R/print.psych.R | 2 psych-2.6.3/psych/R/print.psych.omega.R | 3 - psych-2.6.3/psych/R/print_psych.cfa.r | 37 +++++++++++++- psych-2.6.3/psych/R/score.irt.r | 6 +- psych-2.6.3/psych/build/partial.rdb |binary psych-2.6.3/psych/build/vignette.rds |binary psych-2.6.3/psych/inst/CITATION | 2 psych-2.6.3/psych/inst/NEWS.Rd | 22 ++++++++ psych-2.6.3/psych/inst/doc/scoring.pdf |binary psych-2.6.3/psych/man/00.psych-package.Rd | 51 ++++++++++++++------ psych-2.6.3/psych/man/alpha.Rd | 5 +- psych-2.6.3/psych/man/best.scales.Rd | 2 psych-2.6.3/psych/man/biplot.psych.Rd | 26 ++++++---- psych-2.6.3/psych/man/cfa.Rd | 75 ++++++++++++++++++++---------- psych-2.6.3/psych/man/fa.Rd | 11 +++- psych-2.6.3/psych/man/fa.lookup.Rd | 3 - psych-2.6.3/psych/man/irt.fa.Rd | 2 psych-2.6.3/psych/man/omega.Rd | 14 ++++- psych-2.6.3/psych/man/score.items.Rd | 4 + 33 files changed, 301 insertions(+), 122 deletions(-)
Title: Parallelised Estimation of Prediction Error
Description: Designed for prediction error estimation
through resampling techniques, possibly accelerated by parallel
execution on a compute cluster. Newly developed model fitting
routines can be easily incorporated. Methods used in the package are detailed in
Porzelius Ch., Binder H. and Schumacher M. (2009) <doi:10.1093/bioinformatics/btp062>
and were used, for instance, in
Porzelius Ch., Schumacher M. and Binder H. (2011) <doi:10.1007/s00180-011-0236-6>.
Author: Christine Porzelius [aut],
Harald Binder [aut],
Frederic Bertrand [cre]
Maintainer: Frederic Bertrand <frederic.bertrand@lecnam.net>
Diff between peperr versions 1.6 dated 2025-09-15 and 1.7 dated 2026-03-25
DESCRIPTION | 15 +++-- MD5 | 74 ++++++++++++++++++++++------ NAMESPACE | 81 +++++++++++++++++++++++-------- NEWS.md | 6 ++ R/CoxBoost-utils.R |only R/PLL.CoxBoost.R |only R/PLL.SGL_cox.R |only R/PLL.coxnet.R |only R/PLL.grpsurv.R |only R/PLL.mboost_coxph.R |only R/PLL.ncvsurv.R |only R/PLL.penfit.R |only R/backend-utils.R |only R/complexity.LASSO.R | 33 ++++++++++-- R/complexity.ipec.CoxBoost.R |only R/complexity.mincv.CoxBoost.R |only R/fit.CoxBoost.R |only R/fit.LASSO.R | 41 +++++++++++++-- R/fit.SGL.cox.R |only R/fit.glmnet.R |only R/fit.grpsurv.R |only R/fit.mboost.coxph.R |only R/fit.ncvsurv.R |only R/fit.rfsrc.R |only R/peperr.R | 43 ++++++++++------ R/predictProb.CoxBoost.R |only R/predictProb.SGL_cox.R |only R/predictProb.coxnet.R |only R/predictProb.coxph.R | 19 ++----- R/predictProb.grpsurv.R |only R/predictProb.mboost_coxph.R |only R/predictProb.ncvsurv.R |only R/predictProb.penfit.R |only R/predictProb.rfsrc.R |only R/predictProb.survfit.R | 8 ++- README.md | 1 man/PLL.CoxBoost.Rd |only man/PLL.Rd | 6 +- man/PLL.penfit.Rd |only man/SGL-backend.Rd |only man/complexity.LASSO.Rd | 28 ++++++---- man/complexity.ipec.CoxBoost.Rd |only man/complexity.mincv.CoxBoost.Rd |only man/fit.CoxBoost.Rd |only man/fit.LASSO.Rd | 30 +++++++---- man/fit.coxph.Rd | 4 - man/glmnet-backend.Rd |only man/grpreg-backend.Rd |only man/mboost-backend.Rd |only man/ncvreg-backend.Rd |only man/peperr.Rd | 9 +-- man/predictProb.CoxBoost.Rd |only man/predictProb.Rd | 4 - man/predictProb.penfit.Rd |only man/randomForestSRC-backend.Rd |only tests/testthat/setup-survival-backends.R |only tests/testthat/test-behavior.R | 49 ++++++++++++++++++ tests/testthat/test-coxboost-flow.R |only tests/testthat/test-survival-backends.R |only 59 files changed, 333 insertions(+), 118 deletions(-)
Title: Padé Approximant Coefficients
Description: Given a vector of Taylor series coefficients of sufficient length
as input, the function returns the numerator and denominator coefficients
for the Padé approximant of appropriate order (Baker, 1975)
<ISBN:9780120748556>.
Author: Avraham Adler [aut, cph, cre]
Maintainer: Avraham Adler <Avraham.Adler@gmail.com>
Diff between Pade versions 1.0.9 dated 2026-01-07 and 1.1.0 dated 2026-03-25
DESCRIPTION | 9 ++++----- MD5 | 16 ++++++++-------- NAMESPACE | 3 --- R/Pade.R | 28 ++++++++++++++++++++-------- build/partial.rdb |binary inst/CITATION | 2 +- inst/NEWS.Rd | 22 +++++++++++++++++++++- inst/tinytest/test_Pade.R | 8 +++++--- man/Pade.Rd | 13 +++++++++---- 9 files changed, 68 insertions(+), 33 deletions(-)
Title: Bindings to 'GDAL'
Description: API bindings to the Geospatial Data Abstraction Library ('GDAL',
<https://gdal.org>). Implements the 'GDAL' Raster and Vector Data Models.
Bindings are implemented with 'Rcpp' modules. Exposed C++ classes and
stand-alone functions wrap much of the 'GDAL' API and provide additional
functionality. Calling signatures resemble the native C, C++ and Python APIs
provided by the 'GDAL' project. Class 'GDALRaster' encapsulates a
'GDALDataset' and its raster band objects. Class 'GDALVector' encapsulates
an 'OGRLayer' and the 'GDALDataset' that contains it. Initial bindings are
provided to the unified 'gdal' command line interface added in 'GDAL' 3.11.
C++ stand-alone functions provide bindings to most 'GDAL' "traditional"
raster and vector utilities, including 'OGR' facilities for vector
geoprocessing, several algorithms, as well as the Geometry API ('GEOS' via
'GDAL' headers), the Spatial Reference Systems API, and methods for
coordinate transformation. Bindings to the Virtual Systems In [...truncated...]
Author: Chris Toney [aut, cre] ,
Michael D. Sumner [aut] ,
Pepijn de Vries [ctb] ,
Frank Warmerdam [ctb, cph] ,
Even Rouault [ctb, cph] ,
Marius Appel [ctb, cph] ,
Daniel James [ctb, cph] ,
Peter Dimov [ctb, cph]
Maintainer: Chris Toney <jctoney@gmail.com>
Diff between gdalraster versions 2.4.0 dated 2025-12-18 and 2.5.0 dated 2026-03-25
DESCRIPTION | 33 - MD5 | 152 +++---- NAMESPACE | 1 NEWS.md | 51 ++ R/RcppExports.R | 171 +++++++- R/display.R | 3 R/gdal_helpers.R | 230 +++++++++- R/gdal_rat.R | 24 - R/gdalraster.R | 64 ++- R/gdalraster_proc.R | 698 ++++++++++++++++++++++++++------- R/gdalvector.R | 5 R/geom.R | 220 +++++++--- R/grid_helpers.R |only R/s3_methods.R | 6 R/vsifile.R | 42 + README.md | 6 build/vignette.rds |binary configure | 18 configure.ac | 2 inst/CITATION | 10 inst/COPYRIGHTS | 26 - inst/doc/raster-api-tutorial.html | 92 ++-- inst/doc/raster-attribute-tables.R | 2 inst/doc/raster-attribute-tables.Rmd | 6 inst/doc/raster-attribute-tables.html | 243 +++++------ inst/extdata/storml_los_pts_b.geojson |only man/DEFAULT_NODATA.Rd | 6 man/GDALRaster-class.Rd | 64 ++- man/GDALVector-class.Rd | 5 man/VSIFile-class.Rd | 47 +- man/addFilesInZip.Rd | 20 man/bbox_from_dim_gt.Rd |only man/buildRAT.Rd | 20 man/calc.Rd | 119 +++-- man/g_factory.Rd | 90 +++- man/g_unary_op.Rd | 2 man/gdalraster-package.Rd | 12 man/gt_from_dim_bbox.Rd |only man/is_los_visible.Rd |only man/make_chunk_index.Rd | 2 man/push_error_handler.Rd | 8 man/read_to_nativeRaster.Rd |only man/set_config_option.Rd | 15 man/vector_to_MEM.Rd |only man/vsi_glob.Rd |only man/vsi_read_dir.Rd | 2 man/vsi_uri_to_vsi_path.Rd |only src/RcppExports.cpp | 151 ++++++- src/gdal_exp.cpp | 441 ++++++++++++++++++-- src/gdal_vsi.cpp | 171 ++++++-- src/gdal_vsi.h | 5 src/gdalalg.cpp | 326 ++++++--------- src/gdalalg.h | 1 src/gdalraster.cpp | 501 ++++++++++++++++++----- src/gdalraster.h | 23 - src/gdalvector.cpp | 299 +++++++------- src/gdalvector.h | 1 src/geom_api.cpp | 624 +++++++++++++++++++++-------- src/geom_api.h | 28 - src/ogr_util.cpp | 55 +- src/progress_r.cpp | 107 +---- src/rcpp_util.cpp | 110 ++++- src/rcpp_util.h | 16 src/srs_api.cpp | 2 src/srs_api.h | 2 src/transform.cpp | 18 src/vsifile.cpp | 61 +- src/vsifile.h | 11 tests/testthat/test-GDALRaster-class.R | 116 ++++- tests/testthat/test-GDALVector-class.R | 10 tests/testthat/test-VSIFile-class.R | 22 - tests/testthat/test-display.R | 10 tests/testthat/test-gdal_exp.R | 206 +++++++++ tests/testthat/test-gdal_helpers.R | 149 +++++++ tests/testthat/test-gdal_rat.R | 12 tests/testthat/test-gdal_vsi.R | 16 tests/testthat/test-gdalraster_proc.R | 191 ++++++--- tests/testthat/test-geom.R | 120 +++++ tests/testthat/test-grid-helpers.R |only tests/testthat/test-ogr_manage.R | 10 tests/testthat/test-s3_methods.R | 6 vignettes/raster-attribute-tables.Rmd | 6 82 files changed, 4744 insertions(+), 1600 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') Driver Manager
Description: Provides a developer-facing interface to 'Arrow' Database
Connectivity ('ADBC') for the purposes of driver development, driver
testing, and building high-level database interfaces for users. 'ADBC'
<https://arrow.apache.org/adbc/> is an API standard for database access
libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between adbcdrivermanager versions 0.22.0-1 dated 2026-03-09 and 0.22.0-2 dated 2026-03-25
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/radbc.cc | 13 ++++++++++++- 3 files changed, 17 insertions(+), 6 deletions(-)
More information about adbcdrivermanager at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-30 1.0.1
2025-11-19 1.0.0
Title: Dynamic Relational Event Analysis and Modeling
Description: A set of tools for relational and event analysis, including two- and one-mode network brokerage and structural measures, and helper functions optimized for relational event analysis with large datasets, including creating relational risk sets, computing network statistics, estimating relational event models, and simulating relational event sequences. For more information on relational event models, see Butts (2008) <doi:10.1111/j.1467-9531.2008.00203.x>, Lerner and Lomi (2020) <doi:10.1017/nws.2019.57>, Bianchi et al. (2024) <doi:10.1146/annurev-statistics-040722-060248>, and Butts et al. (2023) <doi:10.1017/nws.2023.9>. In terms of the structural measures in this package, see Leal (2025) <doi:10.1177/00491241251322517>, Burchard and Cornwell (2018) <doi:10.1016/j.socnet.2018.04.001>, and Fujimoto et al. (2018) <doi:10.1017/nws.2018.11>. This package was developed with support from the National Science Foundation’s (NSF) Human Networks and Data [...truncated...]
Author: Kevin A. Carson [aut, cre] ,
Diego F. Leal [aut]
Maintainer: Kevin A. Carson <kacarson@arizona.edu>
Diff between dream versions 1.0.1 dated 2026-02-07 and 1.1.1 dated 2026-03-25
dream-1.0.1/dream/R/npaths_deprecatedV100.R |only dream-1.0.1/dream/R/onemode_Constraint_deprecatedV100.R |only dream-1.0.1/dream/R/onemode_EffectiveSize_deprecatedV100.R |only dream-1.0.1/dream/R/onemode_PIB_deprecatedV100.R |only dream-1.0.1/dream/R/rem_dyadiccutoffhelp_deprecatedV100.R |only dream-1.0.1/dream/R/rem_exp_weights_deprecated.R |only dream-1.0.1/dream/R/rem_fourcyles_deprecatedV100.R |only dream-1.0.1/dream/R/rem_incomingsharedpartners_deprecatedV100.R |only dream-1.0.1/dream/R/rem_incomingtwopaths_deprecatedV100.R |only dream-1.0.1/dream/R/rem_logit_deprecatedV100.R |only dream-1.0.1/dream/R/rem_onemoderiskset_deprecatedV100.R |only dream-1.0.1/dream/R/rem_outgoingsharedpartners_deprecatedV100.R |only dream-1.0.1/dream/R/rem_outgoingtwopaths_deprecatedV100.R |only dream-1.0.1/dream/R/rem_reciprocity_deprecatedV100.R |only dream-1.0.1/dream/R/rem_repetition_deprecatedV100.R |only dream-1.0.1/dream/R/rem_senderindegree_deprecatedV100.R |only dream-1.0.1/dream/R/rem_senderoutdegree_deprecatedV100.R |only dream-1.0.1/dream/R/rem_simulate_deprecatedV100.R |only dream-1.0.1/dream/R/rem_stat_persistence_deprecatedV100.R |only dream-1.0.1/dream/R/rem_stat_preferential_attachment_deprecatedV100.R |only dream-1.0.1/dream/R/rem_stat_recency_deprecatedV100.R |only dream-1.0.1/dream/R/rem_targetindegree_deprecatedV100.R |only dream-1.0.1/dream/R/rem_targetoutdegree_deprecatedV100.R |only dream-1.0.1/dream/R/rem_triadic_deprecatedV100.R |only dream-1.0.1/dream/R/rem_twomoderiskset_deprecatedV100.R |only dream-1.0.1/dream/R/tm_EgoDisHomophily_deprecatedV100.R |only dream-1.0.1/dream/R/twomode_Constraint_deprecatedV100.R |only dream-1.0.1/dream/R/twomode_Degree_deprecatedV100.R |only dream-1.0.1/dream/R/twomode_Density_deprecatedV100.R |only dream-1.0.1/dream/R/twomode_EffectiveSize_deprecatedV100.R |only dream-1.0.1/dream/R/twomode_Redunancy_deprecatedV100.R |only dream-1.0.1/dream/R/twomode_homophilous4Cycles_deprecatedV100.R |only dream-1.0.1/dream/man/computeBCConstraint.Rd |only dream-1.0.1/dream/man/computeBCES.Rd |only dream-1.0.1/dream/man/computeBCRedund.Rd |only dream-1.0.1/dream/man/computeBurtsConstraint.Rd |only dream-1.0.1/dream/man/computeBurtsES.Rd |only dream-1.0.1/dream/man/computeFourCycles.Rd |only dream-1.0.1/dream/man/computeHomFourCycles.Rd |only dream-1.0.1/dream/man/computeISP.Rd |only dream-1.0.1/dream/man/computeITP.Rd |only dream-1.0.1/dream/man/computeLealBrokerage.Rd |only dream-1.0.1/dream/man/computeNPaths.Rd |only dream-1.0.1/dream/man/computeOSP.Rd |only dream-1.0.1/dream/man/computeOTP.Rd |only dream-1.0.1/dream/man/computePersistence.Rd |only dream-1.0.1/dream/man/computePrefAttach.Rd |only dream-1.0.1/dream/man/computeReceiverIndegree.Rd |only dream-1.0.1/dream/man/computeReceiverOutdegree.Rd |only dream-1.0.1/dream/man/computeRecency.Rd |only dream-1.0.1/dream/man/computeReciprocity.Rd |only dream-1.0.1/dream/man/computeRemDyadCut.Rd |only dream-1.0.1/dream/man/computeRepetition.Rd |only dream-1.0.1/dream/man/computeSenderIndegree.Rd |only dream-1.0.1/dream/man/computeSenderOutdegree.Rd |only dream-1.0.1/dream/man/computeTMDegree.Rd |only dream-1.0.1/dream/man/computeTMDens.Rd |only dream-1.0.1/dream/man/computeTMEgoDis.Rd |only dream-1.0.1/dream/man/computeTriads.Rd |only dream-1.0.1/dream/man/estimateREM.Rd |only dream-1.0.1/dream/man/processOMEventSeq.Rd |only dream-1.0.1/dream/man/processTMEventSeq.Rd |only dream-1.0.1/dream/man/remExpWeights.Rd |only dream-1.0.1/dream/man/simulateRESeq.Rd |only dream-1.1.1/dream/DESCRIPTION | 8 dream-1.1.1/dream/MD5 | 124 --- dream-1.1.1/dream/NAMESPACE | 48 - dream-1.1.1/dream/NEWS.md | 11 dream-1.1.1/dream/R/createriskset.R | 227 +++++ dream-1.1.1/dream/R/degreestatrem.R | 397 +++++++++ dream-1.1.1/dream/R/dream.R | 6 dream-1.1.1/dream/R/rem_dyadiccutoffhelp.R | 130 +++ dream-1.1.1/dream/R/rem_fourcyles.R | 265 ++++++ dream-1.1.1/dream/R/rem_reciprocity.R | 228 +++++ dream-1.1.1/dream/R/rem_repetition.R | 222 +++++ dream-1.1.1/dream/R/rem_stat_persistence.R | 177 ++++ dream-1.1.1/dream/R/rem_stat_preferential_attachment.R | 147 +++ dream-1.1.1/dream/R/rem_stat_recency.R | 220 +++++ dream-1.1.1/dream/R/remtriadicformations.R | 406 +++++++++- dream-1.1.1/dream/man/create_riskset.Rd | 4 dream-1.1.1/dream/man/create_riskset_constant.Rd |only dream-1.1.1/dream/man/dream.Rd | 6 dream-1.1.1/dream/man/dreamstats_degree.Rd |only dream-1.1.1/dream/man/dreamstats_dyadcut.Rd |only dream-1.1.1/dream/man/dreamstats_fourcycles.Rd |only dream-1.1.1/dream/man/dreamstats_persistence.Rd |only dream-1.1.1/dream/man/dreamstats_prefattachment.Rd |only dream-1.1.1/dream/man/dreamstats_recency.Rd |only dream-1.1.1/dream/man/dreamstats_reciprocity.Rd |only dream-1.1.1/dream/man/dreamstats_repetition.Rd |only dream-1.1.1/dream/man/dreamstats_triads.Rd |only dream-1.1.1/dream/man/remstats_degree.Rd | 6 dream-1.1.1/dream/man/remstats_dyadcut.Rd | 4 dream-1.1.1/dream/man/remstats_fourcycles.Rd | 6 dream-1.1.1/dream/man/remstats_persistence.Rd | 6 dream-1.1.1/dream/man/remstats_prefattachment.Rd | 6 dream-1.1.1/dream/man/remstats_recency.Rd | 6 dream-1.1.1/dream/man/remstats_reciprocity.Rd | 4 dream-1.1.1/dream/man/remstats_repetition.Rd | 6 dream-1.1.1/dream/man/remstats_triads.Rd | 6 100 files changed, 2505 insertions(+), 171 deletions(-)