Title: Cluster Analysis via Random Partition Distributions
Description: Cluster analysis is performed using pairwise distance information and a random partition distribution. The method is
implemented for two random partition distributions. It draws samples and then obtains and plots clustering estimates.
An implementation of a selection algorithm is provided for the mass parameter of the partition distribution. Since
pairwise distances are the principal input to this procedure, it is most comparable to the hierarchical and k-medoids
clustering methods. The method is Dahl, Andros, Carter (2022+) <doi:10.1002/sam.11602>.
Author: David B. Dahl [aut, cre] ,
R. Jacob Andros [aut] ,
J. Brandon Carter [aut] ,
Authors of the dependency Rust crates [ctb]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between caviarpd versions 0.3.21 dated 2025-10-09 and 0.3.22 dated 2026-03-07
caviarpd-0.3.21/caviarpd/src/Makevars |only caviarpd-0.3.21/caviarpd/src/Makevars.win |only caviarpd-0.3.21/caviarpd/src/rust/vendor.tar.gz |only caviarpd-0.3.21/caviarpd/tools/build_rust_library.R |only caviarpd-0.3.22/caviarpd/DESCRIPTION | 56 +----- caviarpd-0.3.22/caviarpd/MD5 | 38 ++-- caviarpd-0.3.22/caviarpd/NEWS | 3 caviarpd-0.3.22/caviarpd/R/roxido.R | 7 caviarpd-0.3.22/caviarpd/cleanup |only caviarpd-0.3.22/caviarpd/cleanup.win |only caviarpd-0.3.22/caviarpd/configure | 4 caviarpd-0.3.22/caviarpd/configure.win | 3 caviarpd-0.3.22/caviarpd/inst |only caviarpd-0.3.22/caviarpd/man/caviarpd-package.Rd | 18 -- caviarpd-0.3.22/caviarpd/src/Makevars.in |only caviarpd-0.3.22/caviarpd/src/Makevars.win.in |only caviarpd-0.3.22/caviarpd/src/abort_shim.c |only caviarpd-0.3.22/caviarpd/src/rust/Cargo.lock | 119 +++++-------- caviarpd-0.3.22/caviarpd/src/rust/Cargo.toml | 4 caviarpd-0.3.22/caviarpd/src/rust/build.rs | 7 caviarpd-0.3.22/caviarpd/src/rust/epa/Cargo.lock | 74 +++----- caviarpd-0.3.22/caviarpd/src/rust/roxido/Cargo.lock | 16 - caviarpd-0.3.22/caviarpd/src/rust/roxido_macro/Cargo.lock | 16 - caviarpd-0.3.22/caviarpd/src/rust/roxido_macro/src/lib.rs | 124 ++++---------- caviarpd-0.3.22/caviarpd/src/rust/vendor.tar.xz |only caviarpd-0.3.22/caviarpd/tools/configure.R |only 26 files changed, 177 insertions(+), 312 deletions(-)
Title: Understanding Nonlinear Mixed Effects Modeling for Population
Pharmacokinetics
Description: This shows how NONMEM(R) software works. NONMEM's classical estimation methods like 'First Order(FO) approximation', 'First Order Conditional Estimation(FOCE)', and 'Laplacian approximation' are explained.
Author: Kyun-Seop Bae [aut, cre]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between nmw versions 0.1.5 dated 2023-05-09 and 0.1.6 dated 2026-03-07
nmw-0.1.5/nmw/inst/doc/nmw-manual.pdf |only nmw-0.1.6/nmw/DESCRIPTION | 14 +++++++++----- nmw-0.1.6/nmw/MD5 | 17 ++++++++--------- nmw-0.1.6/nmw/NAMESPACE | 2 +- nmw-0.1.6/nmw/inst/NEWS.Rd | 10 ++++++++-- nmw-0.1.6/nmw/inst/doc/nmw-vignette.R | 2 +- nmw-0.1.6/nmw/inst/doc/nmw-vignette.Rout.txt | 4 ++-- nmw-0.1.6/nmw/man/InitStep.Rd | 2 +- nmw-0.1.6/nmw/man/TrimOut.Rd | 4 ++-- nmw-0.1.6/nmw/man/nmw-package.Rd | 2 +- 10 files changed, 33 insertions(+), 24 deletions(-)
Title: Feature Allocation Neighborhood Greedy Search Algorithm
Description: A neighborhood-based, greedy search algorithm is performed to estimate a feature allocation by minimizing the expected loss based on posterior samples from the feature allocation distribution. The method is described in Dahl, Johnson, and Andros (2023) "Comparison and Bayesian Estimation of Feature Allocations" <doi:10.1080/10618600.2023.2204136>.
Author: David B. Dahl [aut, cre] ,
R. Jacob Andros [aut] ,
Devin J. Johnson [aut] ,
Authors of the dependency Rust crates [ctb]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between fangs versions 0.2.21 dated 2025-04-10 and 0.2.22 dated 2026-03-07
fangs-0.2.21/fangs/src/Makevars |only fangs-0.2.21/fangs/src/Makevars.win |only fangs-0.2.21/fangs/src/rust/vendor.tar.gz |only fangs-0.2.21/fangs/tools/build_rust_library.R |only fangs-0.2.22/fangs/DESCRIPTION | 61 ++------ fangs-0.2.22/fangs/MD5 | 45 +++--- fangs-0.2.22/fangs/NEWS | 3 fangs-0.2.22/fangs/R/roxido.R | 7 - fangs-0.2.22/fangs/cleanup |only fangs-0.2.22/fangs/cleanup.win |only fangs-0.2.22/fangs/configure | 4 fangs-0.2.22/fangs/configure.win | 3 fangs-0.2.22/fangs/inst/AUTHORS | 61 ++------ fangs-0.2.22/fangs/man/fangs-package.Rd | 16 -- fangs-0.2.22/fangs/src/Makevars.in |only fangs-0.2.22/fangs/src/Makevars.win.in |only fangs-0.2.22/fangs/src/abort_shim.c |only fangs-0.2.22/fangs/src/rust/Cargo.lock | 106 +++++++-------- fangs-0.2.22/fangs/src/rust/Cargo.toml | 4 fangs-0.2.22/fangs/src/rust/build.rs | 7 - fangs-0.2.22/fangs/src/rust/lapjv-rust/Cargo.lock | 102 ++++++-------- fangs-0.2.22/fangs/src/rust/lapjv-rust/Cargo.toml | 2 fangs-0.2.22/fangs/src/rust/rbindings/src/lib.rs | 6 fangs-0.2.22/fangs/src/rust/roxido/Cargo.lock | 16 +- fangs-0.2.22/fangs/src/rust/roxido/src/lib.rs | 78 ++++++++++- fangs-0.2.22/fangs/src/rust/roxido_macro/Cargo.lock | 16 +- fangs-0.2.22/fangs/src/rust/roxido_macro/src/lib.rs | 137 +++++++------------- fangs-0.2.22/fangs/src/rust/vendor.tar.xz |only fangs-0.2.22/fangs/tools/configure.R |only 29 files changed, 309 insertions(+), 365 deletions(-)
Title: Probabilistic Reconciliation via Conditioning
Description: Provides methods for probabilistic reconciliation of hierarchical forecasts of time series.
The available methods include analytical Gaussian reconciliation (Corani et al., 2021)
<doi:10.1007/978-3-030-67664-3_13>,
MCMC reconciliation of count time series (Corani et al., 2024)
<doi:10.1016/j.ijforecast.2023.04.003>,
Bottom-Up Importance Sampling (Zambon et al., 2024)
<doi:10.1007/s11222-023-10343-y>,
methods for the reconciliation of mixed hierarchies (Mix-Cond and TD-cond) (Zambon et al., 2024)
<https://proceedings.mlr.press/v244/zambon24a.html>,
analytical reconciliation with Bayesian treatment of the covariance matrix (Carrara et al., 2025)
<doi: 10.48550/arXiv.2506.19554>.
Author: Dario Azzimonti [aut, cre] ,
Lorenzo Zambon [aut] ,
Stefano Damato [aut] ,
Nicolo Rubattu [aut] ,
Giorgio Corani [aut]
Maintainer: Dario Azzimonti <dario.azzimonti@gmail.com>
Diff between bayesRecon versions 0.3.3 dated 2025-07-21 and 1.0.0 dated 2026-03-07
bayesRecon-0.3.3/bayesRecon/man/PMF.get_mean.Rd |only bayesRecon-0.3.3/bayesRecon/man/PMF.get_quantile.Rd |only bayesRecon-0.3.3/bayesRecon/man/PMF.get_var.Rd |only bayesRecon-0.3.3/bayesRecon/man/PMF.sample.Rd |only bayesRecon-0.3.3/bayesRecon/man/PMF.summary.Rd |only bayesRecon-0.3.3/bayesRecon/man/reconc_MixCond.Rd |only bayesRecon-0.3.3/bayesRecon/man/reconc_TDcond.Rd |only bayesRecon-0.3.3/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_a1e8d8fd15099b693549111bf0ad7931.RData |only bayesRecon-0.3.3/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_a1e8d8fd15099b693549111bf0ad7931.rdb |only bayesRecon-0.3.3/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_a1e8d8fd15099b693549111bf0ad7931.rdx |only bayesRecon-1.0.0/bayesRecon/DESCRIPTION | 36 bayesRecon-1.0.0/bayesRecon/MD5 | 128 +- bayesRecon-1.0.0/bayesRecon/NAMESPACE | 22 bayesRecon-1.0.0/bayesRecon/NEWS.md | 17 bayesRecon-1.0.0/bayesRecon/R/PMF.R | 530 ++++---- bayesRecon-1.0.0/bayesRecon/R/bayesRecon-package.R | 63 - bayesRecon-1.0.0/bayesRecon/R/data.R | 177 +- bayesRecon-1.0.0/bayesRecon/R/hierarchy.R | 425 +++---- bayesRecon-1.0.0/bayesRecon/R/reconc_BUIS.R | 522 +++++--- bayesRecon-1.0.0/bayesRecon/R/reconc_MCMC.R | 202 +-- bayesRecon-1.0.0/bayesRecon/R/reconc_MixCond.R | 300 +++-- bayesRecon-1.0.0/bayesRecon/R/reconc_TDcond.R | 597 ++++------ bayesRecon-1.0.0/bayesRecon/R/reconc_gaussian.R | 254 ++-- bayesRecon-1.0.0/bayesRecon/R/reconc_t.R |only bayesRecon-1.0.0/bayesRecon/R/shrink_cov.R | 77 - bayesRecon-1.0.0/bayesRecon/R/utils.R | 584 ++++++--- bayesRecon-1.0.0/bayesRecon/README.md | 135 +- bayesRecon-1.0.0/bayesRecon/build/partial.rdb |binary bayesRecon-1.0.0/bayesRecon/build/vignette.rds |binary bayesRecon-1.0.0/bayesRecon/data/swiss_tourism.rda |only bayesRecon-1.0.0/bayesRecon/inst/doc/bayesRecon.R | 165 +- bayesRecon-1.0.0/bayesRecon/inst/doc/bayesRecon.Rmd | 167 +- bayesRecon-1.0.0/bayesRecon/inst/doc/bayesRecon.html | 317 ++--- bayesRecon-1.0.0/bayesRecon/inst/doc/mixed_reconciliation.R | 244 ++-- bayesRecon-1.0.0/bayesRecon/inst/doc/mixed_reconciliation.Rmd | 250 ++-- bayesRecon-1.0.0/bayesRecon/inst/doc/mixed_reconciliation.html | 282 ++-- bayesRecon-1.0.0/bayesRecon/inst/doc/reconciliation_properties.R | 161 +- bayesRecon-1.0.0/bayesRecon/inst/doc/reconciliation_properties.Rmd | 161 +- bayesRecon-1.0.0/bayesRecon/inst/doc/reconciliation_properties.html | 216 ++- bayesRecon-1.0.0/bayesRecon/man/Mixed_reconciliation.Rd |only bayesRecon-1.0.0/bayesRecon/man/PMF.Rd |only bayesRecon-1.0.0/bayesRecon/man/bayesRecon-package.Rd | 24 bayesRecon-1.0.0/bayesRecon/man/dot-check_hierarchical.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-compute_naive_cov.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-core_reconc_BUIS.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-core_reconc_MixCond.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-core_reconc_TDcond.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-core_reconc_t.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-get_Au.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-get_HG.Rd |only bayesRecon-1.0.0/bayesRecon/man/dot-lowest_lev.Rd |only bayesRecon-1.0.0/bayesRecon/man/figures/logo.png |only bayesRecon-1.0.0/bayesRecon/man/figures/logoVecchio.png |only bayesRecon-1.0.0/bayesRecon/man/get_reconc_matrices.Rd | 4 bayesRecon-1.0.0/bayesRecon/man/multi_log_score_optimization.Rd |only bayesRecon-1.0.0/bayesRecon/man/reconc_BUIS.Rd | 80 - bayesRecon-1.0.0/bayesRecon/man/reconc_MCMC.Rd | 47 bayesRecon-1.0.0/bayesRecon/man/reconc_gaussian.Rd | 149 +- bayesRecon-1.0.0/bayesRecon/man/reconc_t.Rd |only bayesRecon-1.0.0/bayesRecon/man/schaferStrimmer_cov.Rd | 15 bayesRecon-1.0.0/bayesRecon/man/swiss_tourism.Rd |only bayesRecon-1.0.0/bayesRecon/man/temporal_aggregation.Rd | 4 bayesRecon-1.0.0/bayesRecon/tests/testthat/dataForTests/generate_weeklyTestData.R | 18 bayesRecon-1.0.0/bayesRecon/tests/testthat/test-PMF.R | 96 - bayesRecon-1.0.0/bayesRecon/tests/testthat/test-get_hier_rows.R | 4 bayesRecon-1.0.0/bayesRecon/tests/testthat/test-hierarchy.R | 93 - bayesRecon-1.0.0/bayesRecon/tests/testthat/test-hierfamily_rel.R | 132 +- bayesRecon-1.0.0/bayesRecon/tests/testthat/test-reconc_BUIS_gaussian.R | 283 +++- bayesRecon-1.0.0/bayesRecon/tests/testthat/test-reconc_MCMC.R | 19 bayesRecon-1.0.0/bayesRecon/tests/testthat/test-reconc_MixCond.R | 140 +- bayesRecon-1.0.0/bayesRecon/tests/testthat/test-reconc_TDcond.R | 135 +- bayesRecon-1.0.0/bayesRecon/tests/testthat/test-reconc_t.R |only bayesRecon-1.0.0/bayesRecon/tests/testthat/test-sample_funs.R | 71 - bayesRecon-1.0.0/bayesRecon/tests/testthat/test-schaferStrimmer.R | 44 bayesRecon-1.0.0/bayesRecon/tests/testthat/test-weightswarn.R | 80 - bayesRecon-1.0.0/bayesRecon/vignettes/bayesRecon.Rmd | 167 +- bayesRecon-1.0.0/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_6201ad31974025a5f7246c5adcd82562.RData |only bayesRecon-1.0.0/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_6201ad31974025a5f7246c5adcd82562.rdb |only bayesRecon-1.0.0/bayesRecon/vignettes/bayesRecon_cache/html/hier-fore_6201ad31974025a5f7246c5adcd82562.rdx |only bayesRecon-1.0.0/bayesRecon/vignettes/mixed_reconciliation.Rmd | 250 ++-- bayesRecon-1.0.0/bayesRecon/vignettes/reconciliation_properties.Rmd | 161 +- 81 files changed, 4570 insertions(+), 3478 deletions(-)
Title: Tesselation Visualization Plots for 2D Data
Description: Creates visualization plots for 2D data including ellipse plots, Voronoi tesselation plots, and combined ellipse-Voronoi plots. Designed to visualize class separation in 2D data, raw of from projection techniques like principal component analysis (PCA), partial least squares discriminant analysis (PLS-DA) or others. For more details see Lotsch and Kringel (2026) and Lotsch and Ultsch (2024) <doi:10.1016/j.imu.2024.101573>.
Author: Jorn Lotsch [aut, cre]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between VoronoiBiomedPlot versions 0.2 dated 2025-09-02 and 0.3 dated 2026-03-07
VoronoiBiomedPlot-0.2/VoronoiBiomedPlot/R/create_projection_plots.R |only VoronoiBiomedPlot-0.2/VoronoiBiomedPlot/man/create_projection_plots.Rd |only VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/DESCRIPTION | 14 VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/MD5 | 19 - VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/NAMESPACE | 2 VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/R/create_tesselation_plots.R |only VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/R/create_voronoi_plot.R | 183 +++++++--- VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/R/globals.R | 1 VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/build/partial.rdb |binary VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/inst |only VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/man/VoronoiBiomedPlot-package.Rd | 34 + VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/man/create_tesselation_plots.Rd |only VoronoiBiomedPlot-0.3/VoronoiBiomedPlot/man/create_voronoi_plot.Rd | 38 +- 13 files changed, 213 insertions(+), 78 deletions(-)
More information about VoronoiBiomedPlot at CRAN
Permanent link
Title: Optimal Regression Design under the Second-Order Least Squares
Estimator
Description: With given inputs that include number of points, discrete design space, a measure of skewness, models and parameter value, this package calculates the objective value, optimal designs and plot the equivalence theory under A- and D-optimal criteria under the second-order Least squares estimator. This package is based on the paper "Properties of optimal regression designs under the second-order least squares estimator" by Chi-Kuang Yeh and Julie Zhou (2021) <doi:10.1007/s00362-018-01076-6>.
Author: Chi-Kuang Yeh [aut, cre] ,
Julie Zhou [aut, ctb],
Jason Hou-Liu [ctb]
Maintainer: Chi-Kuang Yeh <cyeh@gsu.edu>
Diff between SLSEdesign versions 0.0.5 dated 2025-06-05 and 0.1.0 dated 2026-03-07
DESCRIPTION | 20 +++++++++------- MD5 | 26 +++++++++++---------- R/Aopt.R | 28 ++++++++++++++--------- R/Dopt.R | 26 +++++++++++++-------- R/copt.R | 25 ++++++++++++-------- build/vignette.rds |binary inst/doc/SLSEdesign.R | 17 +++++++++----- inst/doc/SLSEdesign.Rmd | 19 ++++++++++----- inst/doc/SLSEdesign.html | 56 ++++++++++++++++++++++++++--------------------- man/Aopt.Rd | 6 ++--- man/Dopt.Rd | 6 ++--- man/copt.Rd | 8 +++--- tests |only vignettes/SLSEdesign.Rmd | 19 ++++++++++----- 14 files changed, 150 insertions(+), 106 deletions(-)
Title: A Comprehensive Interface for Accessing the Protein Data Bank
Description: Provides an R interface to the 'RCSB' Protein Data Bank ('PDB') Search
and Data APIs (<https://www.rcsb.org/>). Supports full-text, attribute,
sequence, motif, structure, and chemical searches; retrieval of entry-,
assembly-, polymer-entity-, and chemical-component-level metadata; and
conversion of API responses into analysis-ready tables and typed R objects for
reproducible structural bioinformatics workflows.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between rPDBapi versions 3.0.0 dated 2026-03-06 and 3.0.1 dated 2026-03-07
DESCRIPTION | 18 MD5 | 28 NAMESPACE | 1 R/fetch_data.R | 2 R/find_papers.R | 7 R/find_results.R | 7 R/get_pdb_file.R | 22 inst/doc/rPDBapi-structural-bioinformatics.R | 1264 +++---- inst/doc/rPDBapi-structural-bioinformatics.Rmd | 295 - inst/doc/rPDBapi-structural-bioinformatics.html | 4283 ++++++++++++++++++++++-- man/find_papers.Rd | 6 man/find_results.Rd | 6 man/get_pdb_file.Rd | 22 man/rPDBapi-package.Rd | 2 vignettes/rPDBapi-structural-bioinformatics.Rmd | 295 - 15 files changed, 4941 insertions(+), 1317 deletions(-)
Title: A Comprehensive Toolkit for Working with Encrypted Parquet Files
Description: Utilities for reading, writing, and managing RCDF files, including encryption and decryption support. It offers a flexible interface for handling data stored in encrypted Parquet format, along with metadata extraction, key management, and secure operations using AES and RSA encryptions.
Author: Bhas Abdulsamad [aut, cre, cph]
Maintainer: Bhas Abdulsamad <aeabdulsamad@gmail.com>
Diff between rcdf versions 0.1.4 dated 2026-03-03 and 0.1.5 dated 2026-03-07
rcdf-0.1.4/rcdf/tests/testthat/test-read_env.R |only rcdf-0.1.5/rcdf/DESCRIPTION | 6 +- rcdf-0.1.5/rcdf/MD5 | 37 +++++++------ rcdf-0.1.5/rcdf/NAMESPACE | 2 rcdf-0.1.5/rcdf/NEWS.md | 14 ++++- rcdf-0.1.5/rcdf/R/helpers.R | 56 +++++++++++++++++++++ rcdf-0.1.5/rcdf/R/merge_rcdf.R | 2 rcdf-0.1.5/rcdf/R/metadata.R | 27 ++++++---- rcdf-0.1.5/rcdf/R/read_rcdf.R | 2 rcdf-0.1.5/rcdf/R/read_rcdf_helpers.R | 4 + rcdf-0.1.5/rcdf/R/utils.R | 25 --------- rcdf-0.1.5/rcdf/R/write_rcdf.R | 2 rcdf-0.1.5/rcdf/R/write_rcdf_as.R | 40 ++++++++++++--- rcdf-0.1.5/rcdf/man/decrypt_string.Rd |only rcdf-0.1.5/rcdf/man/encrypt_string.Rd |only rcdf-0.1.5/rcdf/man/get_attr.Rd | 4 - rcdf-0.1.5/rcdf/man/get_rcdf_metadata.Rd | 6 +- rcdf-0.1.5/rcdf/man/write_rcdf_dta.Rd | 2 rcdf-0.1.5/rcdf/man/write_rcdf_xlsx.Rd | 13 ++++ rcdf-0.1.5/rcdf/tests/testthat/test-metadata.R |only rcdf-0.1.5/rcdf/tests/testthat/test-read_dot_env.R |only rcdf-0.1.5/rcdf/tests/testthat/test-utils.R | 6 +- 22 files changed, 174 insertions(+), 74 deletions(-)
Title: Modify and Share Images
Description: Tools for manipulating, visualizing, and exporting raster images in R.
Designed as an educational resource for students learning the basics of remote sensing,
the package provides user-friendly functions to apply color ramps, export RGB composites,
and create multi-frame visualizations. Built on top of the 'terra' and 'ggplot2' packages.
See <https://github.com/ducciorocchini/imageRy> for more details and examples.
Author: Duccio Rocchini [aut, cre],
Ludovico Chieffallo [aut],
Giovanni Andrea Nocera [ctb],
Giacomo Panza [ctb],
Michele Torresani [aut],
Elisa Thouverai [aut]
Maintainer: Duccio Rocchini <duccio.rocchini@unibo.it>
Diff between imageRy versions 0.3.0 dated 2025-07-17 and 0.4.0 dated 2026-03-07
DESCRIPTION | 21 +++------- LICENSE |only MD5 | 19 +++++---- NEWS.md |only R/im.pca.R | 74 +++++++++++++++++++++++------------- R/im.plotRGB.R | 15 ++++--- R/im.plotRGB.auto.R | 30 ++++++-------- man/im.pca.Rd | 24 +++++------ man/im.plotRGB.Rd | 5 +- man/im.plotRGB.auto.Rd | 10 ---- tests/testthat/test-im.pca.R | 28 +++++-------- tests/testthat/test-nome_funzione.R |only 12 files changed, 120 insertions(+), 106 deletions(-)
Title: Distributional Synthetic Controls Estimation
Description: The method of synthetic controls is a widely-adopted tool for evaluating causal effects of policy changes in settings with observational data. In many settings where it is applicable, researchers want to identify causal effects of policy changes on a treated unit at an aggregate level while having access to data at a finer granularity. This package implements a simple extension of the synthetic controls estimator, developed in Gunsilius (2023) <doi:10.3982/ECTA18260>, that takes advantage of this additional structure and provides nonparametric estimates of the heterogeneity within the aggregate unit. The idea is to replicate the quantile function associated with the treated unit by a weighted average of quantile functions of the control units. The package contains tools for aggregating and plotting the resulting distributional estimates, as well as for carrying out inference on them.
Author: David Van Dijcke [aut, cre] ,
Florian Gunsilius [aut] ,
Siyun He [aut]
Maintainer: David Van Dijcke <dvdijcke@umich.edu>
Diff between DiSCos versions 0.1.2 dated 2026-02-04 and 0.1.3 dated 2026-03-07
DESCRIPTION | 8 MD5 | 24 NEWS.md | 4 R/DiSCo.R | 2 R/DiSCoTEA.R | 2 R/DiSCo_mixture.R | 15 R/DiSCo_weights_reg.R | 2 build/partial.rdb |binary inst/doc/Dube2019.html | 4 man/DiSCo.Rd | 8 man/DiSCoTEA.Rd | 9 man/DiSCo_iter.Rd | 3 tests/testthat/Rplots.pdf | 1380 ++++++++++++++++++++-------------------------- 13 files changed, 659 insertions(+), 802 deletions(-)
Title: Analysis Tools for 'PsyToolkit'
Description: Analyses and reports questionnaire and experiment data exported from 'PsyToolkit'. The package reads downloaded study folders, parses questionnaire structure, optionally merges demographic exports from CloudResearch or Prolific, and produces summary overviews of responses and completion times. It also provides helper functions to extract and aggregate experiment measures and survey variables, and to export results to spreadsheet files for further analysis and archiving. See Stoet (2017) <doi:10.1177/0098628316677643> for the 'PsyToolkit' platform.
Author: Gijsbert Stoet [cre, aut]
Maintainer: Gijsbert Stoet <g.stoet@essex.ac.uk>
Diff between PsyToolkit versions 1.1.2 dated 2026-02-23 and 1.1.4 dated 2026-03-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/psytkExport.r | 7 ++++++- R/psytkReadData.r | 32 +++++++++++++++++++++++++++----- 4 files changed, 39 insertions(+), 12 deletions(-)
Title: Utilities for SNP-Based Kinship Analysis
Description: Utilities for single nucleotide polymorphism (SNP) based kinship analysis
testing and evaluation. The 'skater' package contains functions for importing, parsing,
and analyzing pedigree data, performing relationship degree inference, benchmarking
relationship degree classification, and summarizing identity by descent (IBD) segment data.
Package functions and methods are described in Turner et al. (2021) "skater: An R package
for SNP-based Kinship Analysis, Testing, and Evaluation" <doi:10.1101/2021.07.21.453083>.
Author: Stephen Turner [aut] ,
Matthew Scholz [aut] ,
VP Nagraj [aut, cre] ,
Signature Science, LLC. [cph]
Maintainer: VP Nagraj <nagraj@nagraj.net>
Diff between skater versions 0.1.2 dated 2023-01-31 and 0.2.0 dated 2026-03-07
DESCRIPTION | 21 - MD5 | 18 - NEWS.md | 5 R/read.R | 4 README.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/basic_usage.R | 6 inst/doc/basic_usage.html | 671 +++++++++++++++++++++++----------------------- man/skater-package.Rd | 4 10 files changed, 369 insertions(+), 364 deletions(-)
Title: The Breakdown of Genomic Ancestry Blocks in Hybrid Lineages
Description: Individual based simulations of hybridizing populations,
where the accumulation of junctions is tracked. Furthermore,
mathematical equations are provided to verify simulation outcomes.
Both simulations and mathematical equations are based on Janzen
(2018, <doi:10.1101/058107>) and Janzen (2022,
<doi:10.1111/1755-0998.13519>).
Author: Thijs Janzen [aut, cre]
Maintainer: Thijs Janzen <thijsjanzen@gmail.com>
Diff between junctions versions 2.1.3 dated 2025-04-09 and 2.1.4 dated 2026-03-07
junctions-2.1.3/junctions/src/util.h |only junctions-2.1.4/junctions/DESCRIPTION | 8 junctions-2.1.4/junctions/MD5 | 46 junctions-2.1.4/junctions/NEWS.md | 4 junctions-2.1.4/junctions/R/RcppExports.R | 12 junctions-2.1.4/junctions/R/estimate_time_diploid.R | 20 junctions-2.1.4/junctions/R/log_likelihood_diploid.R | 3 junctions-2.1.4/junctions/R/sim_phased_unphased.R | 7 junctions-2.1.4/junctions/build/vignette.rds |binary junctions-2.1.4/junctions/inst/doc/Overview_of_the_junctions_package.R | 124 - junctions-2.1.4/junctions/inst/doc/Overview_of_the_junctions_package.Rmd | 202 +- junctions-2.1.4/junctions/inst/doc/Overview_of_the_junctions_package.html | 867 +++++----- junctions-2.1.4/junctions/inst/doc/junctions_vignette.Rmd | 2 junctions-2.1.4/junctions/inst/doc/junctions_vignette.html | 13 junctions-2.1.4/junctions/inst/doc/phased_and_unphased_data.R | 37 junctions-2.1.4/junctions/inst/doc/phased_and_unphased_data.Rmd | 37 junctions-2.1.4/junctions/inst/doc/phased_and_unphased_data.html | 130 - junctions-2.1.4/junctions/man/sim_phased_unphased.Rd | 8 junctions-2.1.4/junctions/src/RcppExports.cpp | 27 junctions-2.1.4/junctions/src/estimate_time_unphased.cpp | 63 junctions-2.1.4/junctions/src/tbb_stub.h |only junctions-2.1.4/junctions/src/unphased.cpp | 68 junctions-2.1.4/junctions/vignettes/Overview_of_the_junctions_package.Rmd | 202 +- junctions-2.1.4/junctions/vignettes/junctions_vignette.Rmd | 2 junctions-2.1.4/junctions/vignettes/phased_and_unphased_data.Rmd | 37 25 files changed, 980 insertions(+), 939 deletions(-)
Title: Minimization Tool for Pharmacokinetic-Pharmacodynamic Data
Analysis
Description: This is a set of minimization tools (maximum likelihood estimation and least square fitting) to solve examples in the Johan Gabrielsson and Dan Weiner's book "Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications" 5th ed. (ISBN:9198299107). Examples include linear and nonlinear compartmental model, turn-over model, single or multiple dosing bolus/infusion/oral models, allometry, toxicokinetics, reversible metabolism, in-vitro/in-vivo extrapolation, enterohepatic circulation, metabolite modeling, Emax model, inhibitory model, tolerance model, oscillating response model, enantiomer interaction model, effect compartment model, drug-drug interaction model, receptor occupancy model, and rebound phenomena model.
Author: Kyun-Seop Bae [aut, cre, cph]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between wnl versions 0.8.4 dated 2025-09-07 and 0.8.5 dated 2026-03-07
DESCRIPTION | 6 MD5 | 36 ++--- R/BasicUtil.R | 174 ++++++++++++++++++++------- R/Comp1.R | 41 +++++- R/EnvObj.R | 9 + R/ExpandDH.R | 41 +++++- R/Objs.R | 95 +++++++++------ R/Secondary.R | 27 +++- R/SolComp2.R | 47 +++++-- R/SolComp3.R | 50 ++++++-- R/cmpChi.R | 29 ++++ R/dx.R | 20 +++ R/hSkew.R | 27 +++- R/nComp.R | 56 +++++++- R/nlr.R | 362 +++++++++++++++++++++++++++++++++++++--------------------- R/pComp.R | 131 ++++++++++---------- R/pProf.R | 26 +++- R/wnl5.R | 71 +++++++++-- inst/NEWS.Rd | 8 + 19 files changed, 889 insertions(+), 367 deletions(-)
Title: Utility Functions for Plotting
Description: Provides utility functions for plotting. Includes functions for color manipulation, plot customization, panel size control, data optimization for plots, and layout adjustments.
Author: Meng Xu [aut, cre]
Maintainer: Meng Xu <mengxu98@qq.com>
Diff between thisplot versions 0.3.5 dated 2026-02-23 and 0.3.6 dated 2026-03-07
thisplot-0.3.5/thisplot/man/check_ci_env.Rd |only thisplot-0.3.6/thisplot/DESCRIPTION | 17 ++- thisplot-0.3.6/thisplot/MD5 | 28 ++++-- thisplot-0.3.6/thisplot/NAMESPACE | 9 +- thisplot-0.3.6/thisplot/NEWS.md | 43 ++++++---- thisplot-0.3.6/thisplot/R/StatPlot.R | 8 - thisplot-0.3.6/thisplot/R/colors.R | 21 +--- thisplot-0.3.6/thisplot/R/heatmap.R |only thisplot-0.3.6/thisplot/R/utils.R | 23 ----- thisplot-0.3.6/thisplot/man/BlendRGBList.Rd | 3 thisplot-0.3.6/thisplot/man/StatPlot.Rd | 6 - thisplot-0.3.6/thisplot/man/annotation_block_fill_graphics.Rd |only thisplot-0.3.6/thisplot/man/annotation_block_graphics.Rd |only thisplot-0.3.6/thisplot/man/annotation_graphics.Rd |only thisplot-0.3.6/thisplot/man/build_heatmap_annotation.Rd |only thisplot-0.3.6/thisplot/man/cluster_within_group2.Rd |only thisplot-0.3.6/thisplot/man/heatmap_fixsize.Rd |only thisplot-0.3.6/thisplot/man/heatmap_rendersize.Rd |only thisplot-0.3.6/thisplot/man/normalize_drawable.Rd |only thisplot-0.3.6/thisplot/man/simple_colors.Rd | 4 20 files changed, 79 insertions(+), 83 deletions(-)
Title: Power and Sample Size Calculation for Non-Proportional Hazards
and Beyond
Description: Performs power and sample size calculation for non-proportional hazards model using the Fleming-Harrington family of weighted log-rank tests. The sequentially calculated log-rank test score statistics are assumed to have independent increments as characterized in Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean and variance of log-rank test score statistics are calculated based on Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities are calculated using the recursive integration algorithm described in Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168). The package can also be used for continuous, binary, and count data. For continuous data, it can handle missing data through mixed-model for repeated measures (MMRM). In crossover designs, it can estimate direct treatment effects while accounting for carryover effects. For binary data, it can design Simon's 2-stage, modified toxicity probability-2 (mTPI-2), a [...truncated...]
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.2.15 dated 2025-07-14 and 0.3.0 dated 2026-03-07
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lrstat-0.3.0/lrstat/R/logisregr.R |only lrstat-0.3.0/lrstat/R/lrsim.R |only lrstat-0.3.0/lrstat/R/lrstat-package.R | 9 lrstat-0.3.0/lrstat/R/multiplicity.R |only lrstat-0.3.0/lrstat/R/parameter_descriptions.R | 5 lrstat-0.3.0/lrstat/R/plots.R |only lrstat-0.3.0/lrstat/R/prints.R | 657 lrstat-0.3.0/lrstat/R/survival_analysis.R |only lrstat-0.3.0/lrstat/R/utilities.R |only lrstat-0.3.0/lrstat/build/vignette.rds |binary lrstat-0.3.0/lrstat/data/liver.rda |only lrstat-0.3.0/lrstat/inst/doc/direct_approximation_vs_schoenfeld.R | 5 lrstat-0.3.0/lrstat/inst/doc/direct_approximation_vs_schoenfeld.Rmd | 5 lrstat-0.3.0/lrstat/inst/doc/direct_approximation_vs_schoenfeld.html | 61 lrstat-0.3.0/lrstat/inst/doc/fixed_follow-up.R | 6 lrstat-0.3.0/lrstat/inst/doc/fixed_follow-up.Rmd | 10 lrstat-0.3.0/lrstat/inst/doc/fixed_follow-up.html | 124 lrstat-0.3.0/lrstat/inst/doc/group_sequential_simulation.R | 4 lrstat-0.3.0/lrstat/inst/doc/group_sequential_simulation.Rmd | 144 lrstat-0.3.0/lrstat/inst/doc/group_sequential_simulation.html | 69 lrstat-0.3.0/lrstat/inst/doc/maxcombo.R | 4 lrstat-0.3.0/lrstat/inst/doc/maxcombo.Rmd | 4 lrstat-0.3.0/lrstat/inst/doc/maxcombo.html | 150 lrstat-0.3.0/lrstat/inst/doc/non-proportional_hazards.R | 2 lrstat-0.3.0/lrstat/inst/doc/non-proportional_hazards.Rmd | 2 lrstat-0.3.0/lrstat/inst/doc/non-proportional_hazards.html | 30 lrstat-0.3.0/lrstat/inst/doc/stratified.R | 5 lrstat-0.3.0/lrstat/inst/doc/stratified.Rmd | 7 lrstat-0.3.0/lrstat/inst/doc/stratified.html | 85 lrstat-0.3.0/lrstat/inst/licenses |only lrstat-0.3.0/lrstat/inst/shinyApp/app.R | 5543 +-- lrstat-0.3.0/lrstat/inst/vendor |only lrstat-0.3.0/lrstat/man/accrual.Rd | 7 lrstat-0.3.0/lrstat/man/adaptDesign.Rd | 2 lrstat-0.3.0/lrstat/man/assess_phregr.Rd |only lrstat-0.3.0/lrstat/man/binary_tte_sim.Rd | 86 lrstat-0.3.0/lrstat/man/caltime.Rd | 2 lrstat-0.3.0/lrstat/man/corr_pfs_os.Rd |only lrstat-0.3.0/lrstat/man/dtpwexp.Rd |only 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lrstat-0.3.0/lrstat/man/kmsamplesizeequiv.Rd | 5 lrstat-0.3.0/lrstat/man/kmstat.Rd | 2 lrstat-0.3.0/lrstat/man/liferegr.Rd | 33 lrstat-0.3.0/lrstat/man/liver.Rd |only lrstat-0.3.0/lrstat/man/logisregr.Rd | 28 lrstat-0.3.0/lrstat/man/lrpower.Rd | 7 lrstat-0.3.0/lrstat/man/lrpowerequiv.Rd | 10 lrstat-0.3.0/lrstat/man/lrsamplesize.Rd | 19 lrstat-0.3.0/lrstat/man/lrsamplesizeequiv.Rd | 12 lrstat-0.3.0/lrstat/man/lrschoenfeld.Rd | 4 lrstat-0.3.0/lrstat/man/lrsim.Rd | 103 lrstat-0.3.0/lrstat/man/lrsim2e.Rd | 180 lrstat-0.3.0/lrstat/man/lrsim2e3a.Rd | 239 lrstat-0.3.0/lrstat/man/lrsim3a.Rd | 72 lrstat-0.3.0/lrstat/man/lrsimsub.Rd | 66 lrstat-0.3.0/lrstat/man/lrstat.Rd | 2 lrstat-0.3.0/lrstat/man/lrtest.Rd | 47 lrstat-0.3.0/lrstat/man/mnOddsRatioCI.Rd | 8 lrstat-0.3.0/lrstat/man/mnRateDiffCI.Rd | 8 lrstat-0.3.0/lrstat/man/mnRiskDiffCI.Rd | 11 lrstat-0.3.0/lrstat/man/mnRiskRatioCI.Rd | 11 lrstat-0.3.0/lrstat/man/mtpwexp.Rd |only lrstat-0.3.0/lrstat/man/natrisk.Rd | 27 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lrstat-0.3.0/lrstat/src/enrollment_event.cpp |only lrstat-0.3.0/lrstat/src/enrollment_event.h |only lrstat-0.3.0/lrstat/src/exact_tests.cpp |only lrstat-0.3.0/lrstat/src/generic_design.cpp |only lrstat-0.3.0/lrstat/src/generic_design.h |only lrstat-0.3.0/lrstat/src/kmstat.cpp | 8109 ++--- lrstat-0.3.0/lrstat/src/logistic_regression.cpp | 1900 - lrstat-0.3.0/lrstat/src/logistic_regression.h | 64 lrstat-0.3.0/lrstat/src/lrsim.cpp |13258 ++++----- lrstat-0.3.0/lrstat/src/lrstat.cpp | 8350 +++-- lrstat-0.3.0/lrstat/src/miettinen_nurminen.cpp |only lrstat-0.3.0/lrstat/src/miettinen_nurminen.h |only lrstat-0.3.0/lrstat/src/multiplicity.cpp |only lrstat-0.3.0/lrstat/src/nbstat.cpp | 8586 ++--- lrstat-0.3.0/lrstat/src/rmstat.cpp | 8466 ++--- lrstat-0.3.0/lrstat/src/simon.cpp |only lrstat-0.3.0/lrstat/src/ska |only lrstat-0.3.0/lrstat/src/survival_analysis.cpp |14596 +++++----- lrstat-0.3.0/lrstat/src/survival_analysis.h | 403 lrstat-0.3.0/lrstat/src/thread_utils.h |only 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Title: Bayesian Fractional Polynomials
Description: Implements the Bayesian paradigm for fractional
polynomial models under the assumption of normally distributed error terms, see
Sabanes Bove, D. and Held, L. (2011) <doi:10.1007/s11222-010-9170-7>.
Author: Daniel Sabanes Bove [aut, cre] ,
Isaac Gravestock [aut],
Robert Davies [cph],
Stephen Moshier [cph],
Gareth Ambler [cph],
Axel Benner [cph]
Maintainer: Daniel Sabanes Bove <daniel.sabanesbove@gmx.net>
Diff between bfp versions 0.0-49 dated 2025-03-29 and 0.0-50 dated 2026-03-07
ChangeLog | 4 ++++ DESCRIPTION | 14 ++++++++------ MD5 | 26 +++++++++++++------------- src/RnewMat.cpp | 1 - src/RnewMat.h | 1 - src/bayesMfp.cpp | 9 +++++---- src/combinatorics.cpp | 3 ++- src/conversions.cpp | 3 ++- src/conversions.h | 1 - src/dataStructure.cpp | 2 +- src/dataStructure.h | 4 ++-- src/hyp2f1.c | 2 +- src/hyperg.h | 1 - src/mytypes.h | 1 - 14 files changed, 38 insertions(+), 34 deletions(-)
Title: Computation of Bayes Factors for Common Designs
Description: A suite of functions for computing
various Bayes factors for simple designs, including contingency tables,
one- and two-sample designs, one-way designs, general ANOVA designs, and
linear regression.
Author: Richard D. Morey [aut, cre, cph],
Jeffrey N. Rouder [aut],
Tahira Jamil [ctb, cph],
Simon Urbanek [ctb, cph],
Karl Forner [ctb, cph],
Alexander Ly [ctb, cph]
Maintainer: Richard D. Morey <richarddmorey@gmail.com>
Diff between BayesFactor versions 0.9.12-4.7 dated 2024-01-24 and 0.9.12-4.8 dated 2026-03-07
BayesFactor-0.9.12-4.7/BayesFactor/R/BayesFactorPCL-package.R |only BayesFactor-0.9.12-4.8/BayesFactor/DESCRIPTION | 14 BayesFactor-0.9.12-4.8/BayesFactor/MD5 | 44 BayesFactor-0.9.12-4.8/BayesFactor/NEWS | 7 BayesFactor-0.9.12-4.8/BayesFactor/R/BayesFactor-package.R |only BayesFactor-0.9.12-4.8/BayesFactor/R/correlationBF.R | 2 BayesFactor-0.9.12-4.8/BayesFactor/R/logMean.R | 2 BayesFactor-0.9.12-4.8/BayesFactor/build/vignette.rds |binary BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/compare_lme4.html | 223 +- BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/index.html | 128 - BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/manual.R | 12 BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/manual.Rmd | 16 BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/manual.html | 914 +++------- BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/odds_probs.Rmd | 13 BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/odds_probs.html | 217 -- BayesFactor-0.9.12-4.8/BayesFactor/inst/doc/priors.html | 211 -- BayesFactor-0.9.12-4.8/BayesFactor/man/BayesFactor-package.Rd | 36 BayesFactor-0.9.12-4.8/BayesFactor/man/correlationBF.Rd | 2 BayesFactor-0.9.12-4.8/BayesFactor/man/logMeanExpLogs.Rd | 2 BayesFactor-0.9.12-4.8/BayesFactor/man/puzzles.Rd | 2 BayesFactor-0.9.12-4.8/BayesFactor/man/raceDolls.Rd | 2 BayesFactor-0.9.12-4.8/BayesFactor/src/RcppExports.cpp | 2 BayesFactor-0.9.12-4.8/BayesFactor/vignettes/manual.Rmd | 16 BayesFactor-0.9.12-4.8/BayesFactor/vignettes/odds_probs.Rmd | 13 24 files changed, 731 insertions(+), 1147 deletions(-)
Title: Another Test of Association for Count Data
Description: The Upsilon test assesses association among
categorical variables against the null hypothesis of
independence (Luo 2021 MS thesis; ProQuest Publication
No. 28649813). While promoting dominant function patterns,
it demotes non-dominant function patterns. It is robust
to low expected count---continuity correction
like Yates's seems unnecessary. Using a common null
population following a uniform distribution, contingency
tables are comparable by statistical significance---not
the case for most association tests defining a varying
null population by tensor product of observed marginals.
Although Pearson's chi-squared test, Fisher's exact test,
and Woolf's G-test (related to mutual information) are
useful in some contexts, the Upsilon test appeals to
ranking association patterns not necessarily following
same marginal distributions, such as in count data
from DNA and RNA sequencing---a rapidly expanding frontier
in modern science.
Author: Xuye Luo [aut],
Joe Song [aut, cre]
Maintainer: Joe Song <joemsong@nmsu.edu>
Diff between Upsilon versions 0.1.0 dated 2026-01-06 and 0.1.1 dated 2026-03-07
DESCRIPTION | 14 ++--- MD5 | 20 ++++---- NAMESPACE | 2 NEWS.md | 14 ++++- R/plot_matrix.R | 89 +++++++++++++++++------------------- build/partial.rdb |binary inst/doc/upsilon_test_examples.Rmd | 13 ++--- inst/doc/upsilon_test_examples.html | 48 ++++++++++--------- man/plot_matrix.Rd | 16 ++++-- src/RcppExports.cpp | 12 ++-- vignettes/upsilon_test_examples.Rmd | 13 ++--- 11 files changed, 126 insertions(+), 115 deletions(-)
Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by
providing a high level interface to writing, styling and editing
worksheets.
Author: Jordan Mark Barbone [aut] ,
Jan Marvin Garbuszus [aut, cre],
Olivier Roy [ctb],
openxlsx authors [cph] ,
Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between openxlsx2 versions 1.24 dated 2026-02-21 and 1.25 dated 2026-03-07
DESCRIPTION | 6 - MD5 | 58 ++++++++-------- NEWS.md | 33 +++++++-- R/RcppExports.R | 4 - R/class-workbook-wrappers.R | 10 ++ R/class-workbook.R | 103 +++++++++++++++++++++------- R/pugixml.R | 6 + R/utils.R | 9 +- R/wb_styles.R | 17 ++++ build/vignette.rds |binary inst/doc/conditional-formatting.html | 104 ++++++++++++++++++----------- inst/doc/openxlsx2_charts_manual.html | 10 +- inst/doc/openxlsx2_style_manual.html | 8 +- man/create_dxfs_style.Rd | 5 + man/read_xml.Rd | 5 + man/wbWorkbook.Rd | 12 ++- man/wb_add_dxfs_style.Rd | 5 + man/wb_save.Rd | 3 src/RcppExports.cpp | 9 +- src/openxlsx2.h | 3 src/pugi.cpp | 26 ++++++- tests/testthat/helper.R | 8 +- tests/testthat/test-loading_workbook.R | 39 ++++++++++ tests/testthat/test-outlines.R | 24 +++--- tests/testthat/test-pugi_cpp.R | 20 ++--- tests/testthat/test-pugixml.R | 34 ++++++--- tests/testthat/test-read_from_created_wb.R | 33 +++++---- tests/testthat/test-tables.R | 3 tests/testthat/test-wb_styles.R | 65 +++++++++++++----- tests/testthat/test-write.R | 10 ++ 30 files changed, 473 insertions(+), 199 deletions(-)
Title: 'HTML' Element Construction
Description: Provides a deterministic, framework-agnostic Domain-Specific Language for building
'HTML' nodes and rendering them to a string.
Author: Kennedy Mwavu [aut, cre] ,
Sigflux [cph, fnd]
Maintainer: Kennedy Mwavu <mwavukennedy@gmail.com>
Diff between hypertext versions 1.0.0 dated 2026-02-27 and 1.1.0 dated 2026-03-07
hypertext-1.0.0/hypertext/man/dot-tag.Rd |only hypertext-1.1.0/hypertext/DESCRIPTION | 6 hypertext-1.1.0/hypertext/MD5 | 26 - hypertext-1.1.0/hypertext/NAMESPACE | 7 hypertext-1.1.0/hypertext/R/tags.R | 248 ++++++++-- hypertext-1.1.0/hypertext/README.md | 233 +++++++-- hypertext-1.1.0/hypertext/man/doctype.Rd |only hypertext-1.1.0/hypertext/man/dot-flatten_children.Rd | 6 hypertext-1.1.0/hypertext/man/raw_html.Rd |only hypertext-1.1.0/hypertext/man/render.Rd | 49 + hypertext-1.1.0/hypertext/man/tag.Rd |only hypertext-1.1.0/hypertext/man/tag_list.Rd |only hypertext-1.1.0/hypertext/tests/testthat/test-doctype.R |only hypertext-1.1.0/hypertext/tests/testthat/test-flatten_children.R | 6 hypertext-1.1.0/hypertext/tests/testthat/test-raw_html.R |only hypertext-1.1.0/hypertext/tests/testthat/test-render.R | 190 +++++++ hypertext-1.1.0/hypertext/tests/testthat/test-tag.R | 151 ++++-- hypertext-1.1.0/hypertext/tests/testthat/test-tag_list.R |only 18 files changed, 781 insertions(+), 141 deletions(-)
Title: Scientific Content and Citation Analysis from PDF Documents
Description: Provides comprehensive tools for extracting and analyzing scientific
content from PDF documents, including citation extraction, reference matching,
text analysis, and bibliometric indicators. Supports multi-column PDF layouts,
'CrossRef' API <https://www.crossref.org/documentation/retrieve-metadata/rest-api/> integration, and advanced citation parsing.
Author: Massimo Aria [cre, aut, cph] ,
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between contentanalysis versions 0.2.1 dated 2025-12-12 and 1.0.0 dated 2026-03-07
DESCRIPTION | 6 MD5 | 54 +- NAMESPACE | 5 NEWS.md | 9 R/citation_analysis.R | 113 +++-- R/citation_matching.R | 2 R/create_citation_network.R | 656 ++++++++++++++++++++++++++++++ R/document_sections.R | 180 ++++++++ R/globals.R | 9 R/pdf2txtAI.R | 70 --- R/pdf_import.R | 307 +++++++++++--- README.md | 609 +++++++++++++++++---------- build/vignette.rds |binary inst/doc/introduction.html | 429 +++++++++---------- man/analyze_scientific_content.Rd | 5 man/describe_citation_clusters.Rd |only man/figures/README-refs-per-section.png |only man/figures/README-tfidf-bars.png |only man/figures/README-tfidf-heatmap.png |only man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-14-1.png |binary man/figures/README-unnamed-chunk-14-2.png |only man/figures/README-unnamed-chunk-14-3.png |only man/figures/README-unnamed-chunk-15-1.png |only man/figures/README-unnamed-chunk-15-2.png |only man/figures/README-unnamed-chunk-15-3.png |only man/figures/README-unnamed-chunk-16-1.png |only man/figures/README-unnamed-chunk-19-1.png |only man/figures/README-unnamed-chunk-20-1.png |only man/figures/README-unnamed-chunk-21-1.png |only man/figures/README-word-distribution.png |binary man/plot_citation_clusters.Rd |only tests/testthat/test-citation_analysis.r | 70 +++ tests/testthat/test-citation_network.r | 306 +++++++++++++ tests/testthat/test-pdf_import.R | 47 ++ 35 files changed, 2249 insertions(+), 628 deletions(-)
More information about contentanalysis at CRAN
Permanent link
Title: Patient Subgroup Identification for Clinical Drug Development
Description: Implementation of Sequential BATTing (bootstrapping and aggregating of thresholds from trees) for developing threshold-based multivariate (prognostic/predictive) biomarker signatures. Variable selection is automatically built-in. Final signatures are returned with interaction plots for predictive signatures. Cross-validation performance evaluation and testing dataset results are also output. Detail algorithms are described in Huang et al (2017) <doi:10.1002/sim.7236>.
Author: Xin Huang [aut, cre, cph],
Yan Sun [aut],
Saptarshi Chatterjee [aut],
Paul Trow [aut]
Maintainer: Xin Huang <xin.huang@abbvie.com>
Diff between SubgrpID versions 0.12 dated 2024-02-03 and 0.13 dated 2026-03-07
SubgrpID-0.12/SubgrpID/R/filter.R |only SubgrpID-0.12/SubgrpID/man/filter.Rd |only SubgrpID-0.12/SubgrpID/man/filter.glmnet.Rd |only SubgrpID-0.12/SubgrpID/man/filter.unicart.Rd |only SubgrpID-0.12/SubgrpID/man/filter.univariate.Rd |only SubgrpID-0.13/SubgrpID/DESCRIPTION | 9 - SubgrpID-0.13/SubgrpID/MD5 | 20 +- SubgrpID-0.13/SubgrpID/NAMESPACE | 2 SubgrpID-0.13/SubgrpID/R/cross_validation_functions.R | 150 +++++++++++------ SubgrpID-0.13/SubgrpID/R/master_function.R | 48 +++-- SubgrpID-0.13/SubgrpID/R/prefilter_variables.R |only SubgrpID-0.13/SubgrpID/R/sequential_batting.R | 93 +++++++--- SubgrpID-0.13/SubgrpID/man/dot-prefilter_glmnet.Rd |only SubgrpID-0.13/SubgrpID/man/dot-prefilter_unicart.Rd |only SubgrpID-0.13/SubgrpID/man/dot-prefilter_univariate.Rd |only SubgrpID-0.13/SubgrpID/man/prefilter_variables.Rd |only 16 files changed, 218 insertions(+), 104 deletions(-)
Title: Statistical Modeling of Animal Movements
Description: Animal movement models including Moving-Resting Process
with Embedded Brownian Motion
(Yan et al., 2014, <doi:10.1007/s10144-013-0428-8>;
Pozdnyakov et al., 2017, <doi:10.1007/s11009-017-9547-6>),
Brownian Motion with Measurement Error
(Pozdnyakov et al., 2014, <doi:10.1890/13-0532.1>),
Moving-Resting-Handling Process with Embedded Brownian Motion
(Pozdnyakov et al., 2020, <doi:10.1007/s11009-020-09774-1>),
Moving-Resting Process with Measurement Error
(Hu et al., 2021, <doi:10.1111/2041-210X.13694>),
Moving-Moving Process with two Embedded Brownian Motions.
Author: Chaoran Hu [aut, cre],
Vladimir Pozdnyakov [aut],
Jun Yan [aut]
Maintainer: Chaoran Hu <huchaoran.stat@gmail.com>
Diff between smam versions 0.7.2 dated 2024-01-10 and 0.7.3 dated 2026-03-07
DESCRIPTION | 8 +- MD5 | 12 ++-- NEWS.md | 4 + configure | 18 +++--- configure.ac | 2 inst/CITATION | 10 +-- src/RcppExports.cpp | 154 ++++++++++++++++++++++++++-------------------------- 7 files changed, 106 insertions(+), 102 deletions(-)
Title: A Collection of Efficient and Extremely Fast R Functions II
Description: A collection of fast statistical and utility functions for data analysis. Functions for regression, maximum likelihood, column-wise statistics and many more have been included. C++ has been utilized to speed up the functions. References: Tsagris M., Papadakis M. (2018). Taking R to its limits: 70+ tips. PeerJ Preprints 6:e26605v1 <doi:10.7287/peerj.preprints.26605v1>.
Author: Manos Papadakis [aut, cre, cph],
Michail Tsagris [aut],
Stefanos Fafalios [aut],
Marios Dimitriadis [aut],
Manos Lasithiotakis [aut],
Nikolaos Kontemeniotis [ctb]
Maintainer: Manos Papadakis <rfastofficial@gmail.com>
Diff between Rfast2 versions 0.1.5.5 dated 2025-10-14 and 0.1.5.6 dated 2026-03-07
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- NEWS.md | 15 +++++++++++++++ R/kernel.R | 3 +++ build/partial.rdb |binary inst/include/Rfast2/helpers.hpp | 6 +++--- inst/include/Rfast2/matrix.hpp | 4 ++-- inst/include/Rfast2/templates.h | 26 +++++++++++++------------- inst/include/Rfast2/templates_rfast2.h | 6 +++--- inst/include/Rfast2/vector.hpp | 16 ++++++++-------- man/boot.james.Rd | 5 ++--- man/boot.student2.Rd | 5 ++--- man/moranI.Rd | 7 ++++--- src/Random.cpp | 4 ++-- src/Random.h | 6 +++--- src/mn.cpp | 4 ++-- 16 files changed, 81 insertions(+), 64 deletions(-)
Title: Multimodal Access and Interactive Data Representation
Description: Provides accessible, interactive visualizations through the 'MAIDR'
(Multimodal Access and Interactive Data Representation) system. Converts
'ggplot2' and Base R plots into accessible HTML/SVG formats with keyboard
navigation, screen reader support, and 'sonification' capabilities. Supports
bar charts (simple, grouped, stacked), histograms, line plots, scatter plots,
box plots, violin plots, heat maps, density/smooth curves, faceted plots,
multi-panel layouts (including patchwork), and multi-layered plot combinations. Enables
data exploration for users with visual impairments through multiple sensory
modalities. For more details see the 'MAIDR' project
<https://maidr.ai/>.
Author: JooYoung Seo [aut, cph],
Niranjan Kalaiselvan [aut, cre]
Maintainer: Niranjan Kalaiselvan <nk46@illinois.edu>
Diff between maidr versions 0.1.2 dated 2026-02-23 and 0.2.0 dated 2026-03-07
maidr-0.1.2/maidr/inst/htmlwidgets/lib/maidr-3.50.0 |only maidr-0.2.0/maidr/DESCRIPTION | 10 maidr-0.2.0/maidr/MD5 | 134 +- maidr-0.2.0/maidr/NAMESPACE | 35 maidr-0.2.0/maidr/NEWS.md | 32 maidr-0.2.0/maidr/R/base_r_function_patching.R | 82 + maidr-0.2.0/maidr/R/base_r_wrapper_exports.R |only maidr-0.2.0/maidr/R/ggplot2_adapter.R | 4 maidr-0.2.0/maidr/R/ggplot2_bar_layer_processor.R | 70 - maidr-0.2.0/maidr/R/ggplot2_dodged_bar_layer_processor.R | 25 maidr-0.2.0/maidr/R/ggplot2_plot_orchestrator.R | 87 + maidr-0.2.0/maidr/R/ggplot2_print_method.R |only maidr-0.2.0/maidr/R/ggplot2_processor_factory.R | 3 maidr-0.2.0/maidr/R/ggplot2_stacked_bar_layer_processor.R | 179 +++ maidr-0.2.0/maidr/R/ggplot2_system_init.R | 35 maidr-0.2.0/maidr/R/ggplot2_violin_layer_processor.R |only maidr-0.2.0/maidr/R/html_dependencies.R | 2 maidr-0.2.0/maidr/R/knitr_support.R | 116 +- maidr-0.2.0/maidr/R/layer_processor.R | 18 maidr-0.2.0/maidr/R/maidr.R | 20 maidr-0.2.0/maidr/R/maidr_options.R |only maidr-0.2.0/maidr/R/rdp_utils.R |only maidr-0.2.0/maidr/R/svg_utils.R | 154 +++ maidr-0.2.0/maidr/README.md | 10 maidr-0.2.0/maidr/inst/doc/getting-started.html | 4 maidr-0.2.0/maidr/inst/doc/plot-types.R | 28 maidr-0.2.0/maidr/inst/doc/plot-types.Rmd | 40 maidr-0.2.0/maidr/inst/doc/plot-types.html | 461 +++++----- maidr-0.2.0/maidr/inst/doc/shiny-integration.html | 4 maidr-0.2.0/maidr/inst/examples/ggplot2/violin.R |only maidr-0.2.0/maidr/inst/examples/ggplot2_all_plot_types_example.R | 52 - maidr-0.2.0/maidr/inst/htmlwidgets/lib/maidr-3.55.2 |only maidr-0.2.0/maidr/inst/htmlwidgets/maidr.yaml | 4 maidr-0.2.0/maidr/man/BaseRBarplotLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRBoxplotLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRDodgedBarLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRHeatmapLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRHistogramLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRLineLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRPointLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRSmoothLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRStackedBarLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/BaseRUnknownLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2BarLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2BoxplotLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2DodgedBarLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2HeatmapLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2HistogramLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2LineLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2PointLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2SmoothLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2StackedBarProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2UnknownLayerProcessor.Rd | 2 maidr-0.2.0/maidr/man/Ggplot2ViolinLayerProcessor.Rd |only maidr-0.2.0/maidr/man/LayerProcessor.Rd | 39 maidr-0.2.0/maidr/man/base-r-wrappers.Rd |only maidr-0.2.0/maidr/man/cancel_auto_show.Rd |only maidr-0.2.0/maidr/man/dot-maidr_ggplot_state.Rd |only maidr-0.2.0/maidr/man/dot-maidr_patching_env.Rd | 2 maidr-0.2.0/maidr/man/initialize_maidr_options.Rd |only maidr-0.2.0/maidr/man/inject_violin_kde_svg_coords.Rd |only maidr-0.2.0/maidr/man/is_base_r_enabled.Rd |only maidr-0.2.0/maidr/man/is_ggplot2_enabled.Rd |only maidr-0.2.0/maidr/man/is_maidr_enabled.Rd |only maidr-0.2.0/maidr/man/maidr-options.Rd |only maidr-0.2.0/maidr/man/maidr_off.Rd | 4 maidr-0.2.0/maidr/man/maidr_on.Rd | 12 maidr-0.2.0/maidr/man/maidr_print_ggplot.Rd |only maidr-0.2.0/maidr/man/perpendicular_distance.Rd |only maidr-0.2.0/maidr/man/rdp.Rd |only maidr-0.2.0/maidr/man/register_ggplot2_print_method.Rd |only maidr-0.2.0/maidr/man/restore_ggplot2_print_method.Rd |only maidr-0.2.0/maidr/man/save_html.Rd | 10 maidr-0.2.0/maidr/man/schedule_auto_show.Rd |only maidr-0.2.0/maidr/man/show.Rd | 10 maidr-0.2.0/maidr/man/simplify_curve.Rd |only maidr-0.2.0/maidr/tests/testthat/Rplots.pdf |binary maidr-0.2.0/maidr/tests/testthat/helper.R | 13 maidr-0.2.0/maidr/tests/testthat/test-ggplot2-violin-layer-processor.R |only maidr-0.2.0/maidr/vignettes/plot-types.Rmd | 40 80 files changed, 1359 insertions(+), 420 deletions(-)
Title: Language Server Protocol
Description: An implementation of the Language Server Protocol
for R. The Language Server protocol is used by an editor client to
integrate features like auto completion. See
<https://microsoft.github.io/language-server-protocol/> for details.
Author: Randy Lai [aut, cre],
Kun Ren [ctb]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between languageserver versions 0.3.16 dated 2023-08-18 and 0.3.17 dated 2026-03-07
DESCRIPTION | 20 - MD5 | 110 ++++--- NAMESPACE | 1 NEWS.md | 30 ++ R/capabilities.R | 22 + R/code_action.R | 15 - R/completion.R | 160 ++++++++++- R/definition.R | 8 R/diagnostics.R | 61 ++++ R/document.R | 108 ++++++- R/folding.R | 12 R/formatting.R | 9 R/handlers-langfeatures.R | 74 +++++ R/handlers-textsync.R | 19 - R/hover.R | 8 R/interfaces.R | 25 + R/languageserver.R | 89 +++--- R/references.R | 117 +++++--- R/rename.R | 98 +++---- R/section.R | 14 - R/selection.R | 68 ++-- R/semantic.R |only R/session.R | 253 ------------------ R/settings.R | 4 R/signature.R | 369 ++++++++++++++++++++++++++ R/symbol.R | 92 +++++- R/task.R | 215 +++++++++++---- R/type_hierarchy.R |only R/utils.R | 88 ++++-- R/workspace.R | 19 + README.md | 39 +- src/encoding.c |only src/encoding.h |only src/languageserver.c | 10 src/match.c |only src/match.h |only src/semantic.c |only src/semantic.h |only src/token.c |only src/token.h |only tests/testthat/helper-utils.R | 86 +++++- tests/testthat/test-call-hierarchy.R | 10 tests/testthat/test-color.R | 4 tests/testthat/test-completion.R | 442 +++++++++++++++++++++++++++++--- tests/testthat/test-definition-blocks.R |only tests/testthat/test-definition.R | 28 +- tests/testthat/test-folding.R | 16 - tests/testthat/test-formatting.R | 16 - tests/testthat/test-highlight-blocks.R |only tests/testthat/test-highlight.R | 4 tests/testthat/test-hover.R | 52 ++- tests/testthat/test-link.R | 10 tests/testthat/test-lintr.R | 11 tests/testthat/test-references.R | 14 - tests/testthat/test-rename.R | 16 - tests/testthat/test-selection.R | 6 tests/testthat/test-semantic-tokens.R |only tests/testthat/test-signature.R | 186 +++++++++++++ tests/testthat/test-symbol-blocks.R |only tests/testthat/test-symbol.R | 66 ++-- tests/testthat/test-task.R |only tests/testthat/test-type-hierarchy.R |only tests/testthat/test-unicode-path.R | 8 tests/testthat/test-workspace.R | 2 64 files changed, 2304 insertions(+), 830 deletions(-)
More information about languageserver at CRAN
Permanent link
Title: 'ggplot2' Pattern Geoms
Description: Provides 'ggplot2' geoms filled with various patterns. Includes a patterned version of every 'ggplot2' geom that has a region that can be filled with a pattern. Provides a suite of 'ggplot2' aesthetics and scales for controlling pattern appearances. Supports over a dozen builtin patterns (every pattern implemented by 'gridpattern') as well as allowing custom user-defined patterns.
Author: Mike FC [aut],
Trevor L. Davis [aut, cre] ,
ggplot2 authors [aut]
Maintainer: Trevor L. Davis <trevor.l.davis@gmail.com>
Diff between ggpattern versions 1.2.1 dated 2025-08-27 and 1.3.1 dated 2026-03-07
ggpattern-1.2.1/ggpattern/R/zxx.r |only ggpattern-1.3.1/ggpattern/DESCRIPTION | 19 ggpattern-1.3.1/ggpattern/MD5 | 86 +- ggpattern-1.3.1/ggpattern/NAMESPACE | 2 ggpattern-1.3.1/ggpattern/NEWS.md | 49 + ggpattern-1.3.1/ggpattern/R/a-geom-docs.R | 1 ggpattern-1.3.1/ggpattern/R/aaa-ggplot2-compat-plyr.R | 5 ggpattern-1.3.1/ggpattern/R/geom-.R | 2 ggpattern-1.3.1/ggpattern/R/geom-bar.R | 79 -- ggpattern-1.3.1/ggpattern/R/geom-bin2d.R | 29 ggpattern-1.3.1/ggpattern/R/geom-boxplot.R | 154 ++-- ggpattern-1.3.1/ggpattern/R/geom-col.R | 32 ggpattern-1.3.1/ggpattern/R/geom-crossbar.R | 49 + ggpattern-1.3.1/ggpattern/R/geom-density.R | 52 - ggpattern-1.3.1/ggpattern/R/geom-histogram.R | 33 ggpattern-1.3.1/ggpattern/R/geom-map.R | 12 ggpattern-1.3.1/ggpattern/R/geom-polygon.R | 51 - ggpattern-1.3.1/ggpattern/R/geom-rect.R | 43 - ggpattern-1.3.1/ggpattern/R/geom-ribbon.R | 123 --- ggpattern-1.3.1/ggpattern/R/geom-sf.R | 60 - ggpattern-1.3.1/ggpattern/R/geom-tile.R | 52 - ggpattern-1.3.1/ggpattern/R/geom-violin.R | 97 +- ggpattern-1.3.1/ggpattern/R/zxx.R |only ggpattern-1.3.1/ggpattern/R/zzz.R | 2 ggpattern-1.3.1/ggpattern/build/vignette.rds |binary ggpattern-1.3.1/ggpattern/inst/doc/developing-patterns.html | 93 +- ggpattern-1.3.1/ggpattern/inst/doc/patterns-noise.html | 377 +++++----- ggpattern-1.3.1/ggpattern/inst/doc/patterns-points.html | 193 ++--- ggpattern-1.3.1/ggpattern/inst/doc/patterns-stripes.html | 223 +++-- ggpattern-1.3.1/ggpattern/man/geom-docs.Rd | 189 +++-- ggpattern-1.3.1/ggpattern/man/ggpattern-ggproto.Rd | 12 ggpattern-1.3.1/ggpattern/man/scale_continuous.Rd | 2 ggpattern-1.3.1/ggpattern/man/scale_discrete.Rd | 2 ggpattern-1.3.1/ggpattern/man/scale_pattern_alpha_continuous.Rd | 2 ggpattern-1.3.1/ggpattern/man/scale_pattern_colour_brewer.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_colour_continuous.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_colour_gradient.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_colour_grey.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_colour_hue.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_colour_viridis_d.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_identity.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_linetype.Rd | 2 ggpattern-1.3.1/ggpattern/man/scale_pattern_manual.Rd | 4 ggpattern-1.3.1/ggpattern/man/scale_pattern_shape.Rd | 2 ggpattern-1.3.1/ggpattern/man/scale_pattern_size_continuous.Rd | 2 45 files changed, 1124 insertions(+), 1039 deletions(-)
Title: Efficient Bayesian Inference for Stochastic Volatility (SV)
Models
Description: Efficient algorithms for fully Bayesian estimation of stochastic volatility (SV) models with and without asymmetry (leverage) via Markov chain Monte Carlo (MCMC) methods. Methodological details are given in Kastner and Frühwirth-Schnatter (2014) <doi:10.1016/j.csda.2013.01.002> and Hosszejni and Kastner (2019) <doi:10.1007/978-3-030-30611-3_8>; the most common use cases are described in Hosszejni and Kastner (2021) <doi:10.18637/jss.v100.i12> and Kastner (2016) <doi:10.18637/jss.v069.i05> and the package examples.
Author: Darjus Hosszejni [aut, cre] ,
Gregor Kastner [aut]
Maintainer: Darjus Hosszejni <darjus.hosszejni@icloud.com>
Diff between stochvol versions 3.2.8 dated 2025-10-13 and 3.2.9 dated 2026-03-07
DESCRIPTION | 6 ++--- MD5 | 48 +++++++++++++++++++++--------------------- NEWS.md | 5 ++++ build/partial.rdb |binary build/vignette.rds |binary data/exrates.RData |binary inst/doc/article.Rnw | 4 +-- inst/doc/article.pdf |binary inst/doc/article2.Rnw | 2 - inst/doc/article2.pdf |binary inst/doc/ref1.bib | 13 +++++------ inst/doc/ref2.bib | 6 ++--- inst/include/adaptation.hpp | 4 +-- src/sampling_latent_states.cc | 2 - src/sampling_main.cc | 8 +++---- src/sampling_parameters.cc | 6 ++--- src/single_update.cc | 2 - src/utils.h | 6 ++--- src/utils_main.cc | 30 +++++++++++++------------- src/utils_main.h | 2 - src/utils_parameters.cc | 14 ++++++------ vignettes/article.Rnw | 4 +-- vignettes/article2.Rnw | 2 - vignettes/ref1.bib | 13 +++++------ vignettes/ref2.bib | 6 ++--- 25 files changed, 93 insertions(+), 90 deletions(-)
Title: R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Description: Protocol Buffers are a way of encoding structured data in an
efficient yet extensible format. Google uses Protocol Buffers for almost all
of its internal 'RPC' protocols and file formats. Additional documentation
is available in two included vignettes one of which corresponds to our 'JSS'
paper (2016, <doi:10.18637/jss.v071.i02>. A sufficiently recent version of
'Protocol Buffers' library is required; currently version 3.3.0 from 2017
is the tested minimum.
Author: Romain Francois [aut] ,
Dirk Eddelbuettel [aut, cre] ,
Murray Stokely [aut] ,
Jeroen Ooms [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RProtoBuf versions 0.4.25 dated 2026-01-11 and 0.4.26 dated 2026-03-07
ChangeLog | 32 +++++++++++++++++++++ DESCRIPTION | 13 ++++---- MD5 | 18 ++++++------ NAMESPACE | 54 ++++++++++++++++++------------------ configure | 26 ++++++++--------- configure.ac | 10 +++--- inst/NEWS.Rd | 11 +++++++ src/lookup.cpp | 2 - src/rprotobuf.h | 2 - src/wrapper_ZeroCopyInputStream.cpp | 2 - 10 files changed, 106 insertions(+), 64 deletions(-)
Title: Correct Bias in DNA Methylation Analyses
Description: Implementation of the algorithms (with minor modifications)
to correct bias in quantitative DNA methylation analyses as described
by Moskalev et al. (2011) <doi:10.1093/nar/gkr213>. Publication:
Kapsner et al. (2021) <doi:10.1002/ijc.33681>.
Author: Lorenz A. Kapsner [cre, aut, cph] ,
Evgeny A. Moskalev [aut]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between rBiasCorrection versions 0.3.5 dated 2025-04-05 and 0.3.6 dated 2026-03-07
DESCRIPTION | 18 +- MD5 | 22 +-- NAMESPACE | 1 R/utils.R | 3 R/zzz.R | 1 build/partial.rdb |binary build/vignette.rds |binary inst/doc/rBiasCorrection_benchmarking.R | 2 inst/doc/rBiasCorrection_benchmarking.html | 187 +++++++++++++++++++++++------ inst/doc/rBiasCorrection_benchmarking.qmd | 2 inst/doc/rBiasCorrection_howto.html | 187 +++++++++++++++++++++++------ vignettes/rBiasCorrection_benchmarking.qmd | 2 12 files changed, 322 insertions(+), 103 deletions(-)
More information about rBiasCorrection at CRAN
Permanent link
Title: Methods and Classes for the OMOP Common Data Model
Description: Provides definitions of core classes and methods used by analytic
pipelines that query the OMOP (Observational Medical Outcomes Partnership)
common data model.
Author: Marti Catala [aut, cre] ,
Edward Burn [aut] ,
Mike Du [ctb] ,
Yuchen Guo [ctb] ,
Adam Black [ctb] ,
Marta Alcalde-Herraiz [ctb]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between omopgenerics versions 1.3.6 dated 2026-01-28 and 1.3.7 dated 2026-03-07
DESCRIPTION | 6 MD5 | 18 NEWS.md | 5 R/classCdmReference.R | 5 R/classOmopTable.R | 7 R/importConceptSetExpression.R | 8 build/vignette.rds |binary inst/doc/cohorts.html | 2 inst/doc/logging.html | 137 +++--- inst/doc/summarised_result.html | 886 ++++++++++++++++++++-------------------- 10 files changed, 541 insertions(+), 533 deletions(-)
Title: Multidimensional Item Response Theory
Description: Analysis of discrete response data using
unidimensional and multidimensional item analysis models under the Item
Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>).
Exploratory and confirmatory item factor analysis models
are estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory
bi-factor and two-tier models are available for modeling item testlets using
dimension reduction EM algorithms, while multiple group analyses and
mixed effects designs are included for detecting differential item, bundle,
and test functioning, and for modeling item and person covariates.
Finally, latent class models such as the DINA, DINO, multidimensional latent class,
mixture IRT models, and zero-inflated response models are supported, as well
as a wide family of probabilistic unfolding models.
Author: Phil Chalmers [aut, cre] ,
Joshua Pritikin [ctb],
Alexander Robitzsch [ctb],
Mateusz Zoltak [ctb],
KwonHyun Kim [ctb],
Carl F. Falk [ctb],
Adam Meade [ctb],
Lennart Schneider [ctb],
David King [ctb],
Chen-Wei Liu [ctb],
Ogreden Oguzhan [ctb],
Samuel [...truncated...]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between mirt versions 1.45.1 dated 2025-09-06 and 1.46.1 dated 2026-03-07
DESCRIPTION | 36 +++--- MD5 | 122 +++++++++++----------- NAMESPACE | 6 + NEWS.md | 25 ++++ R/02a-general_methods.R | 51 +++++++++ R/02b-item_methods.R | 9 - R/03-estimation.R | 24 ++-- R/06-LoadPars.R | 16 +-- R/DIF.R | 18 +-- R/DRF.R | 53 +++++++++ R/M2.R | 4 R/MHRM.group.R | 75 ++++++++------ R/MHRM.utils.R | 27 ++--- R/MultipleGroup-methods.R | 20 +++ R/PLCI.mirt.R | 4 R/RCI.R | 70 ++++++++++++- R/RMSD_DIF.R | 2 R/SingleGroup-methods.R | 49 ++++++--- R/averageMI.R | 2 R/boot.LR.R | 2 R/extract.group.R | 5 R/extract.item.R | 9 + R/extract.mirt.R | 20 +++ R/fscores.R | 2 R/fscores.internal.R | 25 ---- R/itemfit.R | 17 ++- R/marginal_moments.R |only R/mdirt.R | 9 + R/mirt-package.R | 37 ++++++ R/mirt.R | 129 ++++++++++++++++++------ R/mirtCluster.R | 69 +++++++++--- R/multipleGroup.R | 89 ++++++++++++++-- R/read.mirt.R | 2 R/utils.R | 70 +++++++++---- R/wald.R | 2 README.md | 13 -- inst/doc/mirt-vignettes.html | 2 man/DIF.Rd | 7 - man/DRF.Rd | 12 +- man/LSAT7.Rd | 19 +++ man/PLCI.mirt.Rd | 4 man/RCI.Rd | 38 ++++++- man/SAT12.Rd | 15 ++ man/boot.LR.Rd | 2 man/extract.item.Rd | 5 man/extract.mirt.Rd | 10 + man/fscores.Rd | 2 man/head.mirt_matrix.Rd |only man/marginal_moments.Rd |only man/mdirt.Rd | 9 + man/mirt.Rd | 128 ++++++++++++++++++------ man/mirtCluster.Rd | 7 - man/multipleGroup.Rd | 60 ++++++++++- man/plot-method.Rd | 10 + man/print.mirt_matrix.Rd | 3 man/residuals-method.Rd | 4 man/tail.mirt_matrix.Rd |only src/Estep.cpp | 186 ++++++++++++++++++++++------------- src/Makevars | 2 src/Makevars.win | 2 src/traceLinePts.cpp | 32 +++--- tests/testthat/test-01-mirtOne.R | 12 +- tests/testthat/test-05-confmirtOne.R | 9 + tests/testthat/test-16-DCIRT.R | 2 64 files changed, 1225 insertions(+), 470 deletions(-)
Title: Convolution of Gamma Distributions
Description: Evaluation for density and distribution function of convolution of gamma
distributions in R. Two related exact methods and one approximate method are
implemented with efficient algorithm and C++ code. A quick guide for choosing
correct method and usage of this package is given in package vignette. For the
detail of methods used in this package, we refer the user to
Mathai(1982)<doi:10.1007/BF02481056>,
Moschopoulos(1984)<doi:10.1007/BF02481123>,
Barnabani(2017)<doi:10.1080/03610918.2014.963612>,
Hu et al.(2020)<doi:10.1007/s00180-019-00924-9>.
Author: Chaoran Hu [aut, cre],
Vladimir Pozdnyakov [ths],
Jun Yan [ths]
Maintainer: Chaoran Hu <huchaoran.stat@gmail.com>
Diff between coga versions 1.2.2 dated 2024-01-10 and 1.2.3 dated 2026-03-07
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 8 ++++++++ R/coga.R | 2 +- configure | 18 +++++++++--------- configure.ac | 2 +- inst/CITATION | 8 ++++---- man/coga.Rd | 2 +- src/RcppExports.cpp | 48 ++++++++++++++++++++++++------------------------ 9 files changed, 60 insertions(+), 52 deletions(-)
Title: Clinical Publication
Description: Accelerate the process from clinical data to medical publication,
including clinical data cleaning, significant result screening, and the
generation of publish-ready tables and figures.
Author: Yue Niu [aut, cre, cph] ,
Keyun Wang [aut]
Maintainer: Yue Niu <niuyuesam@163.com>
Diff between clinpubr versions 1.2.0 dated 2026-01-08 and 1.3.0 dated 2026-03-07
DESCRIPTION | 20 - MD5 | 33 +- NAMESPACE | 3 NEWS.md | 31 -- R/baseline_table.R | 15 R/data_overview.R | 12 R/data_screen.R |only R/misc.R | 179 +++++++++++ R/utils.R | 2 README.md | 51 +++ man/data_overview.Rd | 6 man/detect_outliers.Rd | 94 +++--- man/keep_by_keyword.Rd |only man/merge_by_substring.Rd | 98 +++--- man/screen_data_list.Rd |only man/to_wide.Rd |only tests/testthat/test-data_overview.R | 548 ++++++++++++++++++------------------ tests/testthat/test-data_screen.R |only tests/testthat/test-mark_outlier.R | 276 +++++++++--------- tests/testthat/test-misc.R | 105 ++++++ 20 files changed, 908 insertions(+), 565 deletions(-)