Title: SPArse Matrix
Description: Set of functions for sparse matrix algebra.
Differences with other sparse matrix packages are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within G(M)RF.
(4) and it is fast and scalable (with the extension package spam64).
Documentation about 'spam' is provided by vignettes included in this package, see also Furrer and Sain (2010) <doi:10.18637/jss.v036.i10>; see 'citation("spam")' for details.
Author: Reinhard Furrer [aut, cre] ,
Florian Gerber [aut] ,
Roman Flury [aut] ,
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Annina Cincera [ctb],
Youcef Saad [ctb] ,
Esmond G. Ng [ctb] ,
Barry W. Peyton [ctb] ,
Joseph W.H. Liu [ctb] ,
Alan D. George [ctb] , [...truncated...]
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam versions 2.11-3 dated 2026-01-08 and 2.11-4 dated 2026-05-29
DESCRIPTION | 10 ++--- MD5 | 56 ++++++++++++++++++++++--------- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 4 +- inst/doc/spam.pdf |binary inst/gradient-mle-short.pdf |only inst/gradient-mle.html |only inst/gradient-mle.pdf |only inst/gradient-mle_cache |only inst/gradient-mle_files |only inst/spam_IterPara_extensive.pdf |only inst/spam_IterPara_normal.pdf |only tests/Examples/spam-Ex.Rout.save | 30 ++++++++-------- tests/demo_cholesky.Rout.save | 8 ++-- tests/demo_jss10-example1.Rout.save | 8 ++-- tests/demo_jss10-figures-table.Rout.save | 8 ++-- tests/demo_jss15-BYM.Rout.save | 8 ++-- tests/demo_jss15-Leroux.Rout.save | 8 ++-- tests/demo_spam.Rout.save | 8 ++-- tests/demo_timing.Rout.save | 8 ++-- tests/jss_areal_counts.Rout.save | 8 ++-- tests/testthat.Rout.save | 8 ++-- 23 files changed, 99 insertions(+), 73 deletions(-)
Title: Thematic Cartography
Description: Create and integrate thematic maps in your workflow. This package
helps to design various cartographic representations such as proportional
symbols, choropleth or typology maps. It also offers several functions to
display layout elements that improve the graphic presentation of maps
(e.g. scale bar, north arrow, title, labels). 'mapsf' maps 'sf' objects on
'base' graphics.
Author: Timothee Giraud [cre, aut] ,
Hugues Pecout [ctb] ,
Ronan Ysebaert [ctb] ,
Elina Marveaux [ctb] ,
Ian Fellows [cph] ,
Jim Lemon [cph] ,
Danielle Navarro [cph]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between mapsf versions 1.2.0 dated 2026-05-05 and 1.2.1 dated 2026-05-29
DESCRIPTION | 8 +-- MD5 | 91 ++++++++++++++++++++--------------------- NEWS.md | 10 ++++ R/mf_annotation.R | 9 ++-- R/mf_arrow.R | 3 - R/mf_credits.R | 6 +- R/mf_distr.R | 1 R/mf_frame.R | 3 - R/mf_get_ratio.R | 6 +- R/mf_graticule.R | 14 ++++-- R/mf_label.R | 16 ++++++- R/mf_legend.R | 9 ++-- R/mf_map.R | 10 ++-- R/mf_pkg_utils.R | 34 ++++++--------- R/mf_png.R | 6 +- R/mf_prop_typo.R | 2 R/mf_raster.R | 6 +- R/mf_scale.R | 8 ++- R/mf_shadow.R | 15 ++++-- R/mf_svg.R | 6 +- R/mf_text.R | 17 ++++--- R/mf_theme.R | 19 ++++---- R/mf_title.R | 16 +++++-- R/mf_worldmap.R | 12 +++-- README.md | 14 ++++-- inst/doc/mapsf.html | 20 ++++----- inst/tinytest/test_label.R | 1 man/figures/mapsf_gui_logo.png |only man/mapsf.Rd | 5 ++ man/mf_annotation.Rd | 9 ++-- man/mf_arrow.Rd | 3 - man/mf_credits.Rd | 6 +- man/mf_frame.Rd | 3 - man/mf_get_ratio.Rd | 6 +- man/mf_graticule.Rd | 14 ++++-- man/mf_label.Rd | 14 ++++++ man/mf_legend.Rd | 8 ++- man/mf_map.Rd | 10 ++-- man/mf_png.Rd | 6 +- man/mf_raster.Rd | 6 +- man/mf_scale.Rd | 8 ++- man/mf_shadow.Rd | 15 ++++-- man/mf_svg.Rd | 6 +- man/mf_text.Rd | 16 ++++--- man/mf_theme.Rd | 18 ++++---- man/mf_title.Rd | 13 +++-- man/mf_worldmap.Rd | 12 +++-- 47 files changed, 339 insertions(+), 201 deletions(-)
Title: 'Imath' Computer Graphics Linear Algebra Static Library
Description: Provides a static library for 'Imath'
(see <https://github.com/AcademySoftwareFoundation/Imath>),
a library for functions and data types common in computer graphics
applications, including a 16-bit floating-point type.
Author: Tyler Morgan-Wall [aut, cre] ,
Andrew Kunz [ctb, cph],
Antonio Rojas [ctb, cph],
Brecht Van Lommel [ctb, cph],
Cary Phillips [ctb, cph],
Christina Tempelaar-Lietz [ctb, cph],
Christopher Kulla [ctb, cph],
Daniel Kaneider [ctb, cph],
Dirk Lemstra [ctb [...truncated...]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between libimath versions 3.2.2-0 dated 2026-02-22 and 3.2.2-1 dated 2026-05-29
DESCRIPTION | 8 MD5 | 11 src/Makevars.in | 21 - src/Makevars.win.in | 17 tools/config.R | 728 +++++++++++++++++++++-------------------- tools/config/configure.R | 445 +++++++++++++------------ tools/write-runtime-metadata.R |only 7 files changed, 657 insertions(+), 573 deletions(-)
Title: Libreria Del Laboratorio Di Statistica Con R
Description: Insieme di funzioni di supporto al volume "Laboratorio di
Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia, 2006.
This package contains sets of functions defined in "Laboratorio
di Statistica con R", Iacus-Masarotto, MacGraw-Hill Italia,
2006. Function names and docs are in italian as well.
Author: Stefano M. Iacus [aut, cre],
Guido Masarotto [aut]
Maintainer: Stefano M. Iacus <siacus@iq.harvard.edu>
Diff between labstatR versions 1.0.13 dated 2022-08-08 and 1.0.14 dated 2026-05-29
DESCRIPTION | 20 ++++++++++++++------ MD5 | 5 +++-- NAMESPACE | 2 +- README.md |only 4 files changed, 18 insertions(+), 9 deletions(-)
Title: Structured Learning in Time-Dependent Cox Models
Description: Efficient procedures for fitting and cross-validating the structurally-regularized time-dependent Cox models.
Author: Yi Lian [aut, cre],
Guanbo Wang [aut],
Archer Y. Yang [aut],
Mireille E. Schnitzer [aut],
Robert W. Platt [aut],
Rui Wang [aut],
Marc Dorais [aut],
Sylvie Perreault [aut],
Julien Mairal [ctb],
Yuansi Chen [ctb]
Maintainer: Yi Lian <yi.lian@mail.mcgill.ca>
Diff between sox versions 1.2.2 dated 2025-05-07 and 1.2.3 dated 2026-05-29
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/RcppExports.R | 30 +++++++++++++++--------------- inst/include/linalg/misc.h | 2 +- 4 files changed, 24 insertions(+), 24 deletions(-)
Title: Simulate DNA Methylation Dynamics on Different Genomic
Structures along Genealogies
Description: DNA methylation is an epigenetic modification involved in genomic stability,
gene regulation, development and disease.
DNA methylation occurs mainly through the addition of a methyl group to cytosines,
for example to cytosines in a CpG dinucleotide context (CpG stands for a cytosine followed by a guanine).
Tissue-specific methylation patterns lead to genomic regions with different characteristic
methylation levels.
E.g. in vertebrates CpG islands (regions with high CpG content) that are associated to promoter regions of
expressed genes tend to be unmethylated.
'MethEvolSIM' is a model-based simulation software for the generation and modification
of cytosine methylation patterns along a given tree, which can be a genealogy of
cells within an organism, a coalescent tree of DNA sequences sampled from a population, or a species tree.
The simulations are based on an extension of the model of
Grosser & Metzler (2020) <doi:10.1186/s12859-020-3438-5> and allows for changes of
the met [...truncated...]
Author: Sara Castillo Vicente [aut, cre],
Dirk Metzler [aut, ths]
Maintainer: Sara Castillo Vicente <castillo@bio.lmu.de>
Diff between MethEvolSIM versions 0.2.1 dated 2025-04-11 and 0.3.0 dated 2026-05-29
DESCRIPTION | 8 MD5 | 20 R/multiRegion_SIM.R | 96 ++ build/vignette.rds |binary inst/doc/intro-vignette.R | 16 inst/doc/intro-vignette.html | 127 +-- man/cftpStepGenerator.Rd | 150 ++-- man/combiStructureGenerator.Rd | 925 +++++++++++++++------------ man/singleStructureGenerator.Rd | 1144 ++++++++++++++++++---------------- man/treeMultiRegionSimulator.Rd | 158 ++-- tests/testthat/test-multiRegion_SIM.R | 226 ++++++ 11 files changed, 1689 insertions(+), 1181 deletions(-)
Title: Broadcasted Array Operations Like 'NumPy'
Description: Implements efficient 'NumPy'-like broadcasted operations for atomic and recursive arrays.
In the context of operations involving 2 (or more) arrays,
“broadcasting” (AKA singleton expansion) refers to efficiently recycling array dimensions,
without making copies.
Besides linking to 'Rcpp',
'broadcast' does not use any external libraries in any way;
'broadcast' was essentially made from scratch and can be installed out-of-the-box.
The implementations available in 'broadcast' include, but are not limited to, the following.
1) Broadcasted element-wise operations on any 2 arrays;
they support a large set of
relational, arithmetic, Boolean, string, and bit-wise operations.
2) A faster, more memory efficient, and broadcasted abind-like function,
for binding arrays along an arbitrary dimension.
3) Broadcasted ifelse-like and apply-like functions.
4) Casting functions,
that cast subset-groups of an array to a new dimension, cast nested lists to dimensional lists, and vice-versa.
5) A few linear [...truncated...]
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tony_a_wilkes@outlook.com>
Diff between broadcast versions 0.1.8 dated 2026-02-20 and 0.1.9 dated 2026-05-29
broadcast-0.1.8/broadcast/src/C_dims_allge.c |only broadcast-0.1.9/broadcast/DESCRIPTION | 6 broadcast-0.1.9/broadcast/MD5 | 144 - broadcast-0.1.9/broadcast/NEWS.md | 24 broadcast-0.1.9/broadcast/R/RcppExports.R | 336 --- broadcast-0.1.9/broadcast/R/bc_b.R | 37 broadcast-0.1.9/broadcast/R/bc_bit.R | 32 broadcast-0.1.9/broadcast/R/bc_cplx.R | 33 broadcast-0.1.9/broadcast/R/bc_d.R | 47 broadcast-0.1.9/broadcast/R/bc_i.R | 47 broadcast-0.1.9/broadcast/R/bc_ifelse.R | 15 broadcast-0.1.9/broadcast/R/bc_list.R | 18 broadcast-0.1.9/broadcast/R/bc_raw.R | 17 broadcast-0.1.9/broadcast/R/bc_rel.R | 48 broadcast-0.1.9/broadcast/R/bc_str.R | 50 broadcast-0.1.9/broadcast/R/bc_strrep.R | 15 broadcast-0.1.9/broadcast/R/bcapply.R | 16 broadcast-0.1.9/broadcast/R/broadcastWrappers.R | 4 broadcast-0.1.9/broadcast/R/broadcaster.R | 30 broadcast-0.1.9/broadcast/R/cast_shallow2atomic.R | 2 broadcast-0.1.9/broadcast/R/internal_acast_names.R | 2 broadcast-0.1.9/broadcast/R/internal_binary.R | 2 broadcast-0.1.9/broadcast/R/internal_functions.R | 32 broadcast-0.1.9/broadcast/R/internal_opfuns.R | 7 broadcast-0.1.9/broadcast/R/ndim.R | 2 broadcast-0.1.9/broadcast/R/overload_relops.R | 51 broadcast-0.1.9/broadcast/inst/examples/bc_str.R | 11 broadcast-0.1.9/broadcast/inst/examples/linear_algebra_stats.R | 16 broadcast-0.1.9/broadcast/inst/examples/recast_dirvector.R |only broadcast-0.1.9/broadcast/inst/tinytest/bc_b/test-bc_b_andor.R | 22 broadcast-0.1.9/broadcast/inst/tinytest/bc_b/test-bc_b_equivalences.R |only broadcast-0.1.9/broadcast/inst/tinytest/bc_bytes/test-bc_bit_int.R | 26 broadcast-0.1.9/broadcast/inst/tinytest/bc_bytes/test-bc_bit_raw.R | 16 broadcast-0.1.9/broadcast/inst/tinytest/bc_general/test-bcapply-attr.R | 2 broadcast-0.1.9/broadcast/inst/tinytest/bc_str/test-bc_str_dist.R | 39 broadcast-0.1.9/broadcast/inst/tinytest/binary_prep/test-binary_prep.R | 41 broadcast-0.1.9/broadcast/inst/tinytest/binary_prep/test-dimmode.R | 31 broadcast-0.1.9/broadcast/inst/tinytest/internal/test-mini.R | 46 broadcast-0.1.9/broadcast/man/bc.b.Rd | 9 broadcast-0.1.9/broadcast/man/bc.bit.Rd | 4 broadcast-0.1.9/broadcast/man/bc.cplx.Rd | 3 broadcast-0.1.9/broadcast/man/bc.d.Rd | 2 broadcast-0.1.9/broadcast/man/bc.i.Rd | 2 broadcast-0.1.9/broadcast/man/bc.list.Rd | 3 broadcast-0.1.9/broadcast/man/bc.raw.Rd | 2 broadcast-0.1.9/broadcast/man/bc.rel.Rd | 2 broadcast-0.1.9/broadcast/man/bc.str.Rd | 16 broadcast-0.1.9/broadcast/man/broadcaster.Rd | 30 broadcast-0.1.9/broadcast/man/cast_shallow2atomic.Rd | 2 broadcast-0.1.9/broadcast/man/linear_algebra_stats.Rd | 16 broadcast-0.1.9/broadcast/src/C_determine_dimmode.c | 33 broadcast-0.1.9/broadcast/src/C_dims_is_vector.c |only broadcast-0.1.9/broadcast/src/RcppExports.cpp | 907 +--------- broadcast-0.1.9/broadcast/src/broadcast.h | 210 +- broadcast-0.1.9/broadcast/src/rcpp_bcD_dec.cpp | 56 broadcast-0.1.9/broadcast/src/rcpp_bcD_int.cpp | 54 broadcast-0.1.9/broadcast/src/rcpp_bcD_str.cpp | 91 - broadcast-0.1.9/broadcast/src/rcpp_bcRel_b.cpp | 78 broadcast-0.1.9/broadcast/src/rcpp_bcRel_bit.cpp | 92 - broadcast-0.1.9/broadcast/src/rcpp_bcRel_cplx.cpp | 62 broadcast-0.1.9/broadcast/src/rcpp_bcRel_dec.cpp | 54 broadcast-0.1.9/broadcast/src/rcpp_bcRel_int.cpp | 56 broadcast-0.1.9/broadcast/src/rcpp_bcRel_raw.cpp | 54 broadcast-0.1.9/broadcast/src/rcpp_bcRel_str.cpp | 62 broadcast-0.1.9/broadcast/src/rcpp_bc_b.cpp | 80 broadcast-0.1.9/broadcast/src/rcpp_bc_bit.cpp | 92 - broadcast-0.1.9/broadcast/src/rcpp_bc_cplx.cpp | 58 broadcast-0.1.9/broadcast/src/rcpp_bc_dec.cpp | 54 broadcast-0.1.9/broadcast/src/rcpp_bc_ifelse.cpp | 72 broadcast-0.1.9/broadcast/src/rcpp_bc_int.cpp | 54 broadcast-0.1.9/broadcast/src/rcpp_bc_list.cpp | 52 broadcast-0.1.9/broadcast/src/rcpp_bc_raw.cpp | 54 broadcast-0.1.9/broadcast/src/rcpp_bc_str.cpp | 56 broadcast-0.1.9/broadcast/src/rcpp_bc_strrep.cpp | 52 broadcast-0.1.9/broadcast/src/rcpp_bcapply.cpp | 36 75 files changed, 1089 insertions(+), 2738 deletions(-)
Title: Topic Inference to Identify Tissue Architecture in Multiplexed
Images
Description: A novel spatial topic model to integrate both cell type and spatial information to identify the complex spatial tissue architecture on multiplexed tissue images without human intervention. The Package implements a collapsed Gibbs sampling algorithm for inference. The method is highly scalable to large-scale image datasets without extracting neighborhood information for every single cell. The package supports spatially resolved cell-level data analysis, topic inference, visualization, and downstream biological interpretation of tissue microenvironments.
Author: Xiyu Peng [aut, cre] ,
Nikki Xiao [aut]
Maintainer: Xiyu Peng <pansypeng124@gmail.com>
Diff between SpaTopic versions 1.2.0 dated 2025-03-03 and 1.3.1 dated 2026-05-29
DESCRIPTION | 30 ++-- MD5 | 35 +++- NAMESPACE | 46 +++--- NEWS.md | 6 R/Gibbs_sampler.R | 84 ++++++++--- R/frex_topic.R |only R/label_topics.R |only R/lift_topic.R |only R/prob_topic.R |only R/score_topic.R |only R/spatial_func.R | 254 ++++++++++++++++++++++++----------- README.md | 53 ++++++- build/partial.rdb |only inst/CITATION |only inst/WORDLIST |only inst/doc/Intro_SpaTopic.html | 2 man/SpaTopic-Package.Rd | 2 man/SpaTopic_inference.Rd | 10 + man/frex_topic.Rd |only man/label_topics.Rd |only man/lift_topic.Rd |only man/prob_topic.Rd |only man/score_topic.Rd |only man/stratified_sampling_3D_via_2D.Rd |only src/Gibbs.cpp | 1 tests |only 26 files changed, 378 insertions(+), 145 deletions(-)
Title: Latent Space Item Response Model
Description: Analysis of dichotomous, ordinal, and continuous response data using latent space item response model ('LSIRM'). Provides 1PL and 2PL 'LSIRM' for binary response data as described in Jeon et al. (2021) <doi:10.1007/s11336-021-09762-5>, graded response models ('GRM') for ordinal data (De Carolis et al., 2025, <doi:10.1080/00273171.2025.2605678>), and extensions for continuous response data. Supports Bayesian model selection with spike-and-slab priors, adaptive MCMC algorithms, and methods for handling missing data under missing at random ('MAR') and missing completely at random ('MCAR') assumptions. Provides various diagnostic plots to inspect the latent space and summaries of estimated parameters.
Author: Dongyoung Go [aut],
Gwanghee Kim [aut, cre],
Jina Park [aut],
Ickhoon Jin [ctb],
Minjeong Jeon [ctb]
Maintainer: Gwanghee Kim <musagh08@yonsei.ac.kr>
Diff between lsirm12pl versions 2.0.1 dated 2026-05-04 and 2.0.2 dated 2026-05-29
DESCRIPTION | 8 MD5 | 184 ++++++------- R/data.R | 2 R/diagnostic.lsirm.R | 66 ++++ R/lsirm1pl_fixed_gamma_mar.R | 8 R/lsirm1pl_fixed_gamma_mcar.R | 8 R/lsirm1pl_mar.R | 8 R/lsirm1pl_mar_ss.R | 6 R/lsirm1pl_mcar.R | 8 R/lsirm1pl_mcar_ss.R | 8 R/lsirm1pl_normal_fixed_gamma.R | 5 R/lsirm1pl_normal_fixed_gamma_mar.R | 11 R/lsirm1pl_normal_fixed_gamma_mcar.R | 11 R/lsirm1pl_normal_mar.R | 359 +++++++++++++------------- R/lsirm1pl_normal_mar_ss.R | 9 R/lsirm1pl_normal_mcar.R | 357 +++++++++++++------------- R/lsirm1pl_normal_mcar_ss.R | 399 ++++++++++++++--------------- R/lsirm1pl_normal_o.R | 323 ++++++++++++------------ R/lsirm1pl_normal_ss.R | 363 +++++++++++++-------------- R/lsirm2pl_fixed_gamma_mar.R | 6 R/lsirm2pl_fixed_gamma_mcar.R | 6 R/lsirm2pl_mar.R | 6 R/lsirm2pl_mar_ss.R | 6 R/lsirm2pl_mcar.R | 6 R/lsirm2pl_mcar_ss.R | 6 R/lsirm2pl_normal_fixed_gamma.R | 303 +++++++++++----------- R/lsirm2pl_normal_fixed_gamma_mar.R | 335 ++++++++++++------------ R/lsirm2pl_normal_fixed_gamma_mcar.R | 335 ++++++++++++------------ R/lsirm2pl_normal_mar.R | 381 ++++++++++++++-------------- R/lsirm2pl_normal_mar_ss.R | 429 ++++++++++++++++---------------- R/lsirm2pl_normal_mcar.R | 381 ++++++++++++++-------------- R/lsirm2pl_normal_mcar_ss.R | 415 +++++++++++++++--------------- R/lsirm2pl_normal_o.R | 337 ++++++++++++------------- R/lsirm2pl_normal_ss.R | 357 +++++++++++++------------- R/lsirmgrm.R | 41 --- R/lsirmgrm2pl.R | 25 - R/lsirmgrm2pl_fixed_gamma.R | 2 R/lsirmgrm2pl_mcar.R | 2 R/lsirmgrm2pl_ss.R | 2 R/lsirmgrm_fixed_gamma.R | 2 R/lsirmgrm_mcar.R | 2 R/lsirmgrm_ss.R | 2 R/plot.lsirm.R | 174 ++++++++---- R/print.summary.lsirm.R | 153 ++++++++++- R/summary.lsirm.R | 145 ++++++++++ R/utilities.R | 10 man/TDRI.Rd | 2 man/diagnostic.Rd | 16 + man/lsirm1pl_fixed_gamma_mar.Rd | 4 man/lsirm1pl_fixed_gamma_mcar.Rd | 4 man/lsirm1pl_mar.Rd | 4 man/lsirm1pl_mar_ss.Rd | 2 man/lsirm1pl_mcar.Rd | 4 man/lsirm1pl_mcar_ss.Rd | 4 man/lsirm1pl_normal_fixed_gamma.Rd | 5 man/lsirm1pl_normal_fixed_gamma_mar.Rd | 7 man/lsirm1pl_normal_fixed_gamma_mcar.Rd | 7 man/lsirm1pl_normal_mar.Rd | 7 man/lsirm1pl_normal_mar_ss.Rd | 5 man/lsirm1pl_normal_mcar.Rd | 7 man/lsirm1pl_normal_mcar_ss.Rd | 7 man/lsirm1pl_normal_o.Rd | 5 man/lsirm1pl_normal_ss.Rd | 5 man/lsirm2pl_fixed_gamma_mar.Rd | 2 man/lsirm2pl_fixed_gamma_mcar.Rd | 2 man/lsirm2pl_mar.Rd | 2 man/lsirm2pl_mar_ss.Rd | 2 man/lsirm2pl_mcar.Rd | 2 man/lsirm2pl_mcar_ss.Rd | 2 man/lsirm2pl_normal_fixed_gamma.Rd | 5 man/lsirm2pl_normal_fixed_gamma_mar.Rd | 5 man/lsirm2pl_normal_fixed_gamma_mcar.Rd | 5 man/lsirm2pl_normal_mar.Rd | 5 man/lsirm2pl_normal_mar_ss.Rd | 5 man/lsirm2pl_normal_mcar.Rd | 5 man/lsirm2pl_normal_mcar_ss.Rd | 5 man/lsirm2pl_normal_o.Rd | 5 man/lsirm2pl_normal_ss.Rd | 5 man/lsirmgrm.Rd | 33 -- man/lsirmgrm2pl.Rd | 17 - man/lsirmgrm2pl_fixed_gamma.Rd | 2 man/lsirmgrm2pl_mcar.Rd | 2 man/lsirmgrm2pl_o.Rd | 2 man/lsirmgrm2pl_ss.Rd | 2 man/lsirmgrm_fixed_gamma.Rd | 2 man/lsirmgrm_mcar.Rd | 2 man/lsirmgrm_o.Rd | 2 man/lsirmgrm_ss.Rd | 2 man/plot.Rd | 23 + man/print.summary.lsirm.Rd | 8 man/summary.lsirm.Rd | 17 + src/lsirm1pl.cpp | 14 - src/lsirm2pl.cpp | 12 93 files changed, 3365 insertions(+), 2939 deletions(-)
Title: Transport Modeling: Network Processing, Route Enumeration, and
Traffic Assignment
Description: High-performance tools for transport modeling - network processing, route
enumeration, and traffic assignment in R. The package implements the Path-Sized Logit
model for traffic assignment - Ben-Akiva and Bierlaire (1999) <doi:10.1007/978-1-4615-5203-1_2> -
an efficient route enumeration algorithm, and provides powerful utility functions for (multimodal)
network generation, consolidation/contraction, and/or simplification. The user is expected to provide
a transport network (either a graph or collection of linestrings) and an origin-destination (OD)
matrix of trade/traffic flows. Maintained by transport consultants at CPCS (cpcs.ca).
Author: Sebastian Krantz [aut, cre],
Kamol Roy [ctb]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between flownet versions 0.2.2 dated 2026-03-22 and 0.3.0 dated 2026-05-29
DESCRIPTION | 12 MD5 | 36 - NAMESPACE | 1 NEWS.md | 43 + R/critical_link_analysis.R |only R/utils.R | 678 +++++++++++++++++++++++---- README.md | 1 build/partial.rdb |binary build/vignette.rds |binary inst/doc/introduction.html | 103 ++-- man/consolidate_graph.Rd | 8 man/create_undirected_graph.Rd | 7 man/critical_link_analysis.Rd |only man/flownet-package.Rd | 1 man/simplify_network.Rd | 33 + src/Makevars |only src/Makevars.win |only src/critical_link_analysis.c |only src/init.c | 5 src/utils.c | 176 +++++++ tests/testthat/test-consolidation.R | 424 ++++++++++++++++ tests/testthat/test-critical-link-analysis.R |only 22 files changed, 1348 insertions(+), 180 deletions(-)
Title: Missing Value Imputation with Compositional Data
Description: Functions to perform missing value imputation with compositional data using the Jensen-Shannon divergence based k--NN and a--k--NN algorithms. The functions are based on the following paper:
Tsagris M., Alenazi A. and Stewart C. (2026). "A Jensen--Shannon divergence based k--NN algorithm for missing value imputation in compositional data", <doi:10.1080/02664763.2026.2677908>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between CompositionalNAimp versions 1.0 dated 2026-03-31 and 1.1 dated 2026-05-29
DESCRIPTION | 11 +++++------ MD5 | 12 ++++++------ man/CompositionalNAimp-package.Rd | 5 +++-- man/alfa.knnimp.Rd | 1 + man/alfaknnimp.tune.Rd | 1 + man/cv.knnimp.Rd | 3 ++- man/knnimp.Rd | 1 + 7 files changed, 19 insertions(+), 15 deletions(-)
More information about CompositionalNAimp at CRAN
Permanent link
Title: Toolkit for Reduced Form and Structural Smooth Transition Vector
Autoregressive Models
Description: Penalized and non-penalized maximum likelihood estimation of smooth
transition vector autoregressive models with various types of transition weight
functions, conditional distributions, and identification methods. Constrained
estimation with various types of constraints is available. Residual based
model diagnostics, forecasting, simulations, counterfactual analysis, and
computation of impulse response functions, generalized impulse response functions,
generalized forecast error variance decompositions, as well as historical
decompositions. See
Heather Anderson, Farshid Vahid (1998) <doi:10.1016/S0304-4076(97)00076-6>,
Helmut Lütkepohl, Aleksei Netšunajev (2017) <doi:10.1016/j.jedc.2017.09.001>,
Markku Lanne, Savi Virolainen (2025) <doi:10.1016/j.jedc.2025.105162>,
Savi Virolainen (in press) <doi:10.1080/07474938.2026.2673986>.
Author: Savi Virolainen [aut, cre]
Maintainer: Savi Virolainen <savi.virolainen@helsinki.fi>
Diff between sstvars versions 1.2.3 dated 2026-01-26 and 1.2.4 dated 2026-05-29
DESCRIPTION | 10 +-- MD5 | 130 +++++++++++++++++++++-------------------- NAMESPACE | 1 NEWS.md | 12 +++ R/GIRFandGFEVD.R | 12 ++- R/LSest.R | 10 +-- R/MAINest.R | 7 +- R/RcppExports.R | 46 ++++++++++++++ R/STVARconstruction.R | 7 -- R/argumentChecks.R | 5 - R/data.R | 6 - R/distributionFuns.R | 5 - R/histDecomp.R | 2 R/jointSpectralRadius.R | 42 ++++++------- R/loglikelihood.R | 5 - R/matcal.R | 2 R/miscellaneous.R | 27 ++++++++ R/moreEst.R | 7 -- R/plotMethods.R | 68 +++++++++++++-------- README.md | 24 +++---- build/vignette.rds |binary inst/doc/sstvars-vignette.R | 2 inst/doc/sstvars-vignette.Rnw | 62 ++++++++++--------- inst/doc/sstvars-vignette.pdf |binary man/GIRF.Rd | 20 ++++-- man/GIRF_int.Rd | 8 +- man/STVAR.Rd | 7 -- man/alt_stvar.Rd | 5 - man/bound_JSR.Rd | 44 ++++--------- man/bound_jsr_G.Rd | 5 - man/bound_jsr_G_Cpp.Rd |only man/cfact_girf.Rd | 2 man/change_regime.Rd | 5 - man/check_params.Rd | 5 - man/diag_Omegas.Rd | 2 man/diagnostic_plot.Rd | 5 - man/estim_LS.Rd | 5 - man/estim_NLS.Rd | 5 - man/fitSSTVAR.Rd | 7 -- man/fitSTVAR.Rd | 8 +- man/fitbsSSTVAR.Rd | 5 - man/get_IC.Rd | 2 man/get_alpha_mt.Rd | 5 - man/get_penalized_IC.Rd |only man/get_residuals.Rd | 5 - man/hist_decomp.Rd | 5 - man/in_paramspace.Rd | 5 - man/iterate_more.Rd | 5 - man/loglikelihood.Rd | 5 - man/n_params.Rd | 5 - man/plot_struct_shocks.Rd | 5 - man/predict.stvar.Rd | 5 - man/profile_logliks.Rd | 5 - man/reform_constrained_pars.Rd | 5 - man/regime_distance.Rd | 5 - man/simulate.stvar.Rd | 5 - man/simulate_from_regime.Rd | 5 - man/simulate_stvar_int.Rd | 5 - man/spectral_radius.Rd |only man/sstvars-package.Rd | 5 + man/stand_t_dens.Rd | 5 - man/standard_errors.Rd | 5 - man/swap_parametrization.Rd | 5 - man/usacpu.Rd | 6 - src/RcppExports.cpp | 15 ++++ src/bound_jsr_G_Cpp.cpp |only vignettes/refs.bib | 9 +- vignettes/sstvars-vignette.Rnw | 62 ++++++++++--------- 68 files changed, 457 insertions(+), 362 deletions(-)
Title: Calculate (Stratified) Percentiles
Description: Calculate (stratified) percentiles on a data.frame
Stratification will split the data.frame into subgroups and calculate percentiles for each independently.
Author: Dr Peter Amin Marquardt [aut, cre]
Maintainer: Dr Peter Amin Marquardt <peter@kmarquardt.de>
Diff between percentiles versions 0.2.3 dated 2026-04-03 and 0.3.0 dated 2026-05-29
DESCRIPTION | 15 +- MD5 | 15 +- R/Stratified_percentile_calculator.R | 6 R/calculate_percentiles.R | 34 +---- man/Stratified_percentile_calculator_generator.Rd | 133 ++++++++++------------ man/calculate_percentiles.Rd | 2 man/calculate_stratified_percentiles.Rd | 2 tests |only 8 files changed, 95 insertions(+), 112 deletions(-)
Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles, random deviates,
and densities. Log-likelihoods for multivariate Gaussian models and Gaussian copulae
parameterised by Cholesky factors of covariance or precision matrices are implemented
for interval-censored and exact data, or a mix thereof. Score functions for these
log-likelihoods are available. A class representing multiple lower triangular matrices
and corresponding methods are part of this package.
Author: Alan Genz [aut],
Frank Bretz [aut],
Tetsuhisa Miwa [aut],
Xuefei Mi [aut],
Friedrich Leisch [ctb],
Fabian Scheipl [ctb],
Bjoern Bornkamp [ctb] ,
Martin Maechler [ctb] ,
Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mvtnorm versions 1.3-7 dated 2026-04-15 and 1.4-0 dated 2026-05-29
DESCRIPTION | 12 MD5 | 50 NAMESPACE | 8 R/interface.R | 15 R/lpmvnorm.R | 36 R/ltMatrices.R | 383 +++-- R/mvnorm.R | 2 R/mvt.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 49 inst/doc/MVT_Rnews.pdf |binary inst/doc/lmvnorm_src.R | 303 ++-- inst/doc/lmvnorm_src.Rnw | 2727 ++++++++++++++++++++-------------------- inst/doc/lmvnorm_src.pdf |binary inst/include/mvtnorm.h | 6 inst/nuweb |only man/ltMatrices.Rd | 11 src/C_FORTRAN_interface.c | 2 src/ltMatrices.c | 479 ++----- src/mvt.f | 2 src/mvtnorm-init.c | 10 src/mvtnorm.h | 6 tests/regtest-Mult-crossprod.R |only tests/regtest-aperm.R | 1 vignettes/lmvnorm_src.Rnw | 2727 ++++++++++++++++++++-------------------- vignettes/lmvnorm_src.Rout.save | 138 +- 27 files changed, 3640 insertions(+), 3329 deletions(-)
Title: 'GitHub' 'API'
Description: Minimal client to access the 'GitHub' 'API'.
Author: Gabor Csardi [cre, ctb],
Jennifer Bryan [aut],
Hadley Wickham [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between gh versions 1.5.0 dated 2025-05-26 and 1.6.0 dated 2026-05-29
gh-1.5.0/gh/tests/testthat/helper-offline.R |only gh-1.6.0/gh/DESCRIPTION | 14 gh-1.6.0/gh/MD5 | 95 ++-- gh-1.6.0/gh/NAMESPACE | 3 gh-1.6.0/gh/NEWS.md | 39 + gh-1.6.0/gh/R/fake-github-app.R |only gh-1.6.0/gh/R/gh.R | 275 +++++++++++--- gh-1.6.0/gh/R/gh_gql.R | 2 gh-1.6.0/gh/R/gh_rate_limit.R | 4 gh-1.6.0/gh/R/gh_request.R | 10 gh-1.6.0/gh/R/gh_response.R | 25 + gh-1.6.0/gh/R/gh_token.R | 86 +++- gh-1.6.0/gh/R/import-standalone-obj-type.R |only gh-1.6.0/gh/R/import-standalone-types-check.R |only gh-1.6.0/gh/R/pagination.R | 49 -- gh-1.6.0/gh/R/utils.R | 41 -- gh-1.6.0/gh/README.md | 77 ++- gh-1.6.0/gh/build/vignette.rds |binary gh-1.6.0/gh/inst/WORDLIST | 3 gh-1.6.0/gh/inst/doc/managing-personal-access-tokens.html | 3 gh-1.6.0/gh/man/fake_github_app.Rd |only gh-1.6.0/gh/man/gh.Rd | 34 + gh-1.6.0/gh/man/gh_gql.Rd | 2 gh-1.6.0/gh/man/gh_next.Rd | 2 gh-1.6.0/gh/man/gh_token.Rd | 13 gh-1.6.0/gh/man/gh_tree_remote.Rd | 2 gh-1.6.0/gh/man/gh_whoami.Rd | 4 gh-1.6.0/gh/tests/testthat/_snaps/gh.md | 22 + gh-1.6.0/gh/tests/testthat/_snaps/gh_gql.md |only gh-1.6.0/gh/tests/testthat/_snaps/gh_rate_limit.md | 2 gh-1.6.0/gh/tests/testthat/_snaps/gh_request.md | 8 gh-1.6.0/gh/tests/testthat/_snaps/gh_response.md | 8 gh-1.6.0/gh/tests/testthat/_snaps/gh_token.md | 51 ++ gh-1.6.0/gh/tests/testthat/_snaps/gh_whoami.md | 2 gh-1.6.0/gh/tests/testthat/_snaps/git.md |only gh-1.6.0/gh/tests/testthat/_snaps/pagination.md | 8 gh-1.6.0/gh/tests/testthat/_snaps/print.md | 21 - gh-1.6.0/gh/tests/testthat/_snaps/utils.md | 10 gh-1.6.0/gh/tests/testthat/helper-fake-github.R |only gh-1.6.0/gh/tests/testthat/helper.R | 47 ++ gh-1.6.0/gh/tests/testthat/setup.R | 13 gh-1.6.0/gh/tests/testthat/test-gh.R | 157 +++++++ gh-1.6.0/gh/tests/testthat/test-gh_gql.R |only gh-1.6.0/gh/tests/testthat/test-gh_rate_limit.R | 30 + gh-1.6.0/gh/tests/testthat/test-gh_request.R | 33 + gh-1.6.0/gh/tests/testthat/test-gh_response.R | 56 ++ gh-1.6.0/gh/tests/testthat/test-gh_token.R | 74 +++ gh-1.6.0/gh/tests/testthat/test-gh_whoami.R | 8 gh-1.6.0/gh/tests/testthat/test-git.R | 78 +++ gh-1.6.0/gh/tests/testthat/test-mock-repos.R | 6 gh-1.6.0/gh/tests/testthat/test-pagination.R | 95 ++++ gh-1.6.0/gh/tests/testthat/test-print.R | 2 gh-1.6.0/gh/tests/testthat/test-utils.R | 89 ++++ 53 files changed, 1293 insertions(+), 310 deletions(-)
Title: Ecological Stability Metrics
Description: Standardises and facilitates the use of eleven established stability properties that have been used to assess systems’ responses to press or pulse disturbances at different ecological levels (e.g. population, community). There are two sets of functions. The first set corresponds to functions that measure stability at any level of organisation, from individual to community and can be applied to a time series of a system’s state variables (e.g., body mass, population abundance, or species diversity). The properties included in this set are: invariability, resistance, extent and rate of recovery, persistence, and overall ecological vulnerability. The second set of functions can be applied to Jacobian matrices. The functions in this set measure the stability of a community at short and long time scales. In the short term, the community’s response is measured by maximal amplification, reactivity and initial resilience (i.e. initial rate of return to equilibrium). In the long term, stability [...truncated...]
Author: Ludmilla Figueiredo [aut, cre] ,
Viktoriia Radchuk [aut] ,
Cedric Scherer [ctb]
Maintainer: Ludmilla Figueiredo <ludmilla.figueiredo@protonmail.com>
Diff between estar versions 1.0-1 dated 2025-11-28 and 2.0-0 dated 2026-05-29
DESCRIPTION | 10 MD5 | 65 - NEWS.md |only R/asympt_resil.R | 15 R/common_params.R | 4 R/data.R | 158 +- R/extractB.R | 76 - R/init_resil.R | 76 - R/max_amp.R | 108 - R/oev.R | 244 ++-- R/reactivity.R | 94 - R/recovery_extent.R | 2 R/recovery_rate.R | 25 R/resistance.R | 508 ++++----- R/stoch_var.R | 86 - README.md | 2 inst/doc/functional_stability_properties.R | 20 inst/doc/functional_stability_properties.Rmd | 1406 +++++++++++++------------- inst/doc/functional_stability_properties.html | 165 +-- inst/doc/jacobian_stability_properties.R | 45 inst/doc/jacobian_stability_properties.Rmd | 986 +++++++++--------- inst/doc/jacobian_stability_properties.html | 622 +++++------ man/asympt_resil.Rd | 300 ++--- man/extractB.Rd | 282 ++--- man/figures/hex_sticker.png |binary man/max_amp.Rd | 328 +++--- man/oev.Rd | 290 ++--- man/recovery_rate.Rd | 24 man/resistance.Rd | 432 +++---- vignettes/MARSS_example_vignette.R |only vignettes/figures/B_matrix.png |only vignettes/functional_stability_properties.Rmd | 1406 +++++++++++++------------- vignettes/jacobian_stability_properties.Rmd | 986 +++++++++--------- vignettes/performance_analysis.R | 1006 +++++++++--------- vignettes/references.bib | 256 ++-- 35 files changed, 5058 insertions(+), 4969 deletions(-)
Title: Steve's R Markdown Templates
Description: These are my collection of 'R Markdown' templates, mostly for compilation to PDF.
These are useful for all things academic and professional, if you are using 'R Markdown'
for things like your CV or your articles and manuscripts.
Author: Steven Miller [aut, cre]
Maintainer: Steven Miller <steve@svmiller.com>
Diff between stevetemplates versions 1.1.0 dated 2025-02-07 and 1.3.0 dated 2026-05-29
DESCRIPTION | 11 MD5 | 74 ++--- NEWS.md | 11 R/article.R | 2 R/article2.R | 2 R/article3.R | 2 R/beamer.R | 2 R/cover_letter.R | 5 R/cv.R | 2 R/cv2.R | 2 R/memo.R | 2 R/resume.R | 2 R/syllabus.R | 4 README.md | 145 +++++----- inst/rmarkdown/templates/anonms/resources/template.tex | 43 ++ inst/rmarkdown/templates/article/resources/template.tex | 41 ++ inst/rmarkdown/templates/article2/resources/template.tex | 83 ++++- inst/rmarkdown/templates/article3/resources/template.tex | 88 ++++-- inst/rmarkdown/templates/beamer/resources/template.tex | 43 ++ inst/rmarkdown/templates/cover_letter/resources/template.tex | 61 +++- inst/rmarkdown/templates/cv/resources/template.tex | 44 ++- inst/rmarkdown/templates/cv2/resources/template.tex | 46 ++- inst/rmarkdown/templates/ekohist_thesis/resources/template.tex | 46 ++- inst/rmarkdown/templates/memo/resources/template.tex | 61 +++- inst/rmarkdown/templates/resume/resources/template.tex | 52 ++- inst/rmarkdown/templates/statement/resources/template.tex | 62 +++- inst/rmarkdown/templates/syllabus/resources/template.tex | 41 ++ inst/rmarkdown/templates/syllabus2/resources/template.tex | 47 ++- man/article.Rd | 2 man/article2.Rd | 2 man/article3.Rd | 2 man/beamer.Rd | 2 man/cover_letter.Rd | 5 man/cv.Rd | 2 man/cv2.Rd | 2 man/memo.Rd | 2 man/resume.Rd | 2 man/syllabus.Rd | 4 38 files changed, 752 insertions(+), 297 deletions(-)
More information about stevetemplates at CRAN
Permanent link
More information about ElicitationWizard at CRAN
Permanent link
Title: Download Administrative Boundary Data from 'geoBoundaries'
Description: Tools for downloading administrative boundary data from
'geoBoundaries' <https://www.geoboundaries.org/> across multiple
administrative levels. Boundary data are returned as 'sf' objects for
mapping and spatial analysis. See Runfola, D. et al. (2020)
"geoBoundaries: A global database of political administrative
boundaries." PLOS ONE 15(4), e0231866.
<doi:10.1371/journal.pone.0231866>.
Author: Diego Hernangomez [aut, cre, cph] ,
William and Mary geoLab [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between geobounds versions 0.1.1 dated 2026-03-24 and 0.1.2 dated 2026-05-29
DESCRIPTION | 21 +- MD5 | 82 +++---- NAMESPACE | 36 +-- NEWS.md | 59 +++-- R/gb-cache.R | 201 +++++++++---------- R/gb-get-adm.R | 52 ++-- R/gb-get-max-lvl.R | 13 - R/gb-get-metadata.R | 164 ++++++--------- R/gb-get-world.R | 46 +--- R/gb-get.R | 154 +++++--------- R/utils.R | 145 ++++++++++--- README.md | 104 +++++---- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 114 +++++----- inst/COPYRIGHTS | 130 ++++++------ inst/REFERENCES.bib | 38 +-- inst/WORDLIST | 63 +++--- inst/doc/geobounds.html | 129 ++++++------ inst/doc/geobounds.qmd | 163 ++++++++------- inst/schemaorg.json | 10 man/figures/README-map-coverage-1.png |binary man/gb_clear_cache.Rd | 118 +++++------ man/gb_detect_cache_dir.Rd | 59 ++--- man/gb_get.Rd | 250 +++++++++++------------ man/gb_get_adm.Rd | 325 +++++++++++++++---------------- man/gb_get_max_adm_lvl.Rd | 115 +++++----- man/gb_get_metadata.Rd | 244 +++++++++++------------ man/gb_get_world.Rd | 175 ++++++++-------- man/gb_set_cache_dir.Rd | 161 +++++++-------- man/geobounds-package.Rd | 67 +++--- tests/testthat/_snaps/gb-get-metadata.md | 6 tests/testthat/_snaps/gb-get-world.md | 2 tests/testthat/_snaps/gb-get.md | 8 tests/testthat/_snaps/utils.md | 12 - tests/testthat/test-gb-get-metadata.R | 34 --- tests/testthat/test-gb-get-world.R | 4 tests/testthat/test-utils.R | 129 +++++------- vignettes/REFERENCES.bib | 38 +-- vignettes/cgaz-1.png |binary vignettes/geobounds.qmd | 163 ++++++++------- vignettes/intersect-1.png |binary 42 files changed, 1802 insertions(+), 1832 deletions(-)
Title: Detection of Multiple Changes in Slope in Univariate Time-Series
Description: Detects multiple changes in slope using the CPOP dynamic programming approach of Fearnhead, Maidstone, and Letchford (2019) <doi:10.1080/10618600.2018.1512868>. This method finds the best continuous piecewise linear fit to data under a criterion that measures fit to data using the residual sum of squares, but penalizes complexity based on an L0 penalty on changes in slope. Further information regarding the use of this package with detailed examples can be found in Fearnhead and Grose (2024) <doi:10.18637/jss.v109.i07>.
Author: Daniel Grose [aut, cre],
Paul Fearnhead [aut]
Maintainer: Daniel Grose <dan.grose@lancaster.ac.uk>
Diff between cpop versions 1.0.8 dated 2025-06-11 and 1.0.9 dated 2026-05-29
cpop-1.0.8/cpop/build/cpop.pdf |only cpop-1.0.9/cpop/DESCRIPTION | 10 +++++----- cpop-1.0.9/cpop/MD5 | 15 +++++++-------- cpop-1.0.9/cpop/NEWS.md | 5 +++++ cpop-1.0.9/cpop/R/cpop.R | 33 ++++++++++++++++----------------- cpop-1.0.9/cpop/R/cpop.crops.R | 11 +++++------ cpop-1.0.9/cpop/build/partial.rdb |binary cpop-1.0.9/cpop/build/stage23.rdb |binary cpop-1.0.9/cpop/man/cpop.Rd | 6 +++--- 9 files changed, 41 insertions(+), 39 deletions(-)
Title: Optimize and Compress Image Files with 'reSmush.it'
Description: Optimize and compress local image files, directories and
online images with the 'reSmush.it' API <https://resmush.it/>.
Supports 'png', 'jpg/jpeg', 'gif', 'bmp' and 'tiff' files.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between resmush versions 1.0.0 dated 2026-03-14 and 1.0.1 dated 2026-05-29
DESCRIPTION | 14 MD5 | 78 +- NAMESPACE | 16 NEWS.md | 53 + R/resmush-package.R | 14 R/resmush_clean_dir.R | 152 ++--- R/resmush_dir.R | 211 +++---- R/resmush_file.R | 480 ++++++---------- R/resmush_url.R | 490 ++++++---------- R/show_report.R | 68 -- R/sysdata.rda |binary R/utils.R | 361 ++++++++---- README.md | 110 ++- build/vignette.rds |binary inst/CITATION | 42 - inst/REFERENCES.bib | 8 inst/WORDLIST | 4 inst/doc/resmush.html | 110 ++- inst/doc/resmush.qmd | 115 ++- inst/schemaorg.json | 6 man/resmush-package.Rd | 57 + man/resmush_clean_dir.Rd | 125 ++-- man/resmush_dir.Rd | 208 +++---- man/resmush_file.Rd | 203 +++---- man/resmush_url.Rd | 190 +++--- man/roxygen/meta.R | 12 tests/testthat.R | 24 tests/testthat/_snaps/formats.md | 8 tests/testthat/_snaps/remush_url.md | 20 tests/testthat/_snaps/resmuh_dir.md | 2 tests/testthat/_snaps/show_report.md | 62 +- tests/testthat/test-formats-local.R | 186 +++--- tests/testthat/test-formats.R | 256 ++++---- tests/testthat/test-remush_url.R | 923 +++++++++++++++----------------- tests/testthat/test-resmuh_dir.R | 454 +++++++-------- tests/testthat/test-resmush_clean_dir.R | 131 ++-- tests/testthat/test-resmush_file.R | 799 +++++++++++++-------------- tests/testthat/test-utils.R | 82 +- vignettes/REFERENCES.bib | 8 vignettes/resmush.qmd | 115 ++- 40 files changed, 3037 insertions(+), 3160 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-03 1.2.2
2019-01-06 1.2.1
2018-10-17 1.2.0
2015-12-16 1.1.2
2015-07-16 1.1.1
2015-06-08 1.1.0
2014-05-30 1.0.2
2013-04-10 1.0.1
2013-02-14 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-01-06 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-28 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-06 0.1.0
Title: Linear Mixed Models with Sparse Matrix Methods and Smoothing
Description: Provides tools for fitting linear mixed models using sparse matrix
methods and variance component estimation. Applications include spline-based
modeling of spatial and temporal trends using penalized splines (Boer, 2023)
<doi:10.1177/1471082X231178591>.
Author: Martin Boer [aut] ,
Bart-Jan van Rossum [aut, cre]
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Diff between LMMsolver versions 1.0.12 dated 2025-12-05 and 1.0.13 dated 2026-05-29
DESCRIPTION | 10 - MD5 | 120 +++++++----- NAMESPACE | 5 NEWS.md | 9 R/HarvilleODE.R |only R/LMMsolve-class.R | 55 ++++- R/LMMsolve.R | 25 ++ R/chkInputLMMsolve.R | 14 - R/constructFixed.R | 101 +++++++++- R/constructRandom.R | 154 +++++++++++++--- R/fitLMM.R | 4 R/getHeritability.R |only R/ginverse.R |only R/makeGrid.R |only R/orthoBsplines.R |only R/orthoModel.R |only R/sparseMixedModels.R | 143 +++++++++++++++ R/utils.R | 132 ++++++++++---- README.md | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Solving_Linear_Mixed_Models.R | 33 +-- inst/doc/Solving_Linear_Mixed_Models.Rmd | 41 +--- inst/doc/Solving_Linear_Mixed_Models.html | 277 ++++++++++++++---------------- inst/tinytest/GLMMFull |binary inst/tinytest/LMMsolve0 |binary inst/tinytest/LMMsolve1 |binary inst/tinytest/LMMsolve2 |binary inst/tinytest/LMMsolve3 |binary inst/tinytest/LMMsolve4 |binary inst/tinytest/LMMsolve5 |binary inst/tinytest/binomial1 |binary inst/tinytest/binomial2 |binary inst/tinytest/binomial3 |binary inst/tinytest/cfFull |binary inst/tinytest/effDim0 |binary inst/tinytest/effDims |binary inst/tinytest/gam1DFull |binary inst/tinytest/mLogLik0 |binary inst/tinytest/modCoefs |binary inst/tinytest/modCoefsSe |binary inst/tinytest/modFit |binary inst/tinytest/modResid |binary inst/tinytest/multinomial1 |binary inst/tinytest/ortho_fit1 |only inst/tinytest/ortho_fit2 |only inst/tinytest/pred10 |only inst/tinytest/spl1DFull |binary inst/tinytest/spl2DFull |binary inst/tinytest/spl2DFull2 |binary inst/tinytest/spl2DFull3 |binary inst/tinytest/spl3DFull |binary inst/tinytest/spl3DFull2 |binary inst/tinytest/spl3DFull3 |binary inst/tinytest/test_HarvilleODE.R |only inst/tinytest/test_LMMsolve.R | 30 +-- inst/tinytest/test_gam.R | 2 inst/tinytest/test_getHeritability.R |only inst/tinytest/test_orthoBsplines.R |only inst/tinytest/test_orthoModel.R |only inst/tinytest/test_predict.R | 48 ++++- inst/tinytest/test_spl1D.R | 2 inst/tinytest/test_spl2D.R | 22 +- inst/tinytest/test_spl3D.R | 6 man/LMMsolveObject.Rd | 2 man/as.ginverse.Rd |only man/getHeritability.Rd |only man/makeGrid.Rd |only vignettes/Solving_Linear_Mixed_Models.Rmd | 41 +--- 69 files changed, 858 insertions(+), 426 deletions(-)
Title: Geographically Weighted Panel Regression
Description: A modern, first implementation of Geographically Weighted Panel Regression (GWPR) for spatial panel data. The package provides a unified public API supporting Gaussian and binomial family models, within/pooling/random panel effects, three bandwidth search strategies (grid, Stochastic Gradient Descent, random), five kernel functions, and optional parallel execution via the 'future' framework. Diagnostic tools include spatial Moran's I, local F-test, Hausman test, and Lagrange Multiplier test.
Author: Chao Li [aut, cre] ,
Shunsuke Managi [aut]
Maintainer: Chao Li <chaoli0394@gmail.com>
This is a re-admission after prior archival of version 0.2.1 dated 2022-06-21
Diff between GWPR.light versions 0.2.1 dated 2022-06-21 and 1.0.0 dated 2026-05-29
GWPR.light-0.2.1/GWPR.light/R/AIC_A.R |only GWPR.light-0.2.1/GWPR.light/R/AIC_A_para.R |only GWPR.light-0.2.1/GWPR.light/R/AIC_F.R |only GWPR.light-0.2.1/GWPR.light/R/AIC_F_para.R |only GWPR.light-0.2.1/GWPR.light/R/CV_A.R |only GWPR.light-0.2.1/GWPR.light/R/CV_A_para.R |only GWPR.light-0.2.1/GWPR.light/R/CV_F.R |only GWPR.light-0.2.1/GWPR.light/R/CV_F_para.R |only GWPR.light-0.2.1/GWPR.light/R/GWPR.R |only GWPR.light-0.2.1/GWPR.light/R/GWPR.light-package.R |only GWPR.light-0.2.1/GWPR.light/R/GWPR.moran.test.R |only GWPR.light-0.2.1/GWPR.light/R/GWPR.pFtest.R |only GWPR.light-0.2.1/GWPR.light/R/GWPR.phtest.R |only GWPR.light-0.2.1/GWPR.light/R/GWPR.plmtest.R |only GWPR.light-0.2.1/GWPR.light/R/bw_GWPR.R |only GWPR.light-0.2.1/GWPR.light/R/drop_ID_with_single_observation.R |only GWPR.light-0.2.1/GWPR.light/R/golden_selection_function.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_A.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_A_pFtest.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_A_phtest.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_A_plmtest.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_F.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_F_pFtest.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_F_phtest.R |only GWPR.light-0.2.1/GWPR.light/R/gwpr_F_plmtest.R |only GWPR.light-0.2.1/GWPR.light/R/progress_bar.R |only GWPR.light-0.2.1/GWPR.light/R/protect_model_with_enough_freedom.R |only GWPR.light-0.2.1/GWPR.light/R/protect_model_with_least_individuals.R |only GWPR.light-0.2.1/GWPR.light/man/GWPR.Rd |only GWPR.light-0.2.1/GWPR.light/man/GWPR.light-package.Rd |only GWPR.light-0.2.1/GWPR.light/man/GWPR.moran.test.Rd |only GWPR.light-0.2.1/GWPR.light/man/GWPR.pFtest.Rd |only GWPR.light-0.2.1/GWPR.light/man/GWPR.phtest.Rd |only GWPR.light-0.2.1/GWPR.light/man/GWPR.plmtest.Rd |only GWPR.light-0.2.1/GWPR.light/man/bw.GWPR.Rd |only GWPR.light-1.0.0/GWPR.light/DESCRIPTION | 26 GWPR.light-1.0.0/GWPR.light/MD5 | 179 - GWPR.light-1.0.0/GWPR.light/NAMESPACE | 52 GWPR.light-1.0.0/GWPR.light/NEWS.md |only GWPR.light-1.0.0/GWPR.light/R/California.R | 36 GWPR.light-1.0.0/GWPR.light/R/TransAirPolCalif.R | 84 GWPR.light-1.0.0/GWPR.light/R/api.R |only GWPR.light-1.0.0/GWPR.light/R/bandwidth_grid.R |only GWPR.light-1.0.0/GWPR.light/R/bandwidth_random.R |only GWPR.light-1.0.0/GWPR.light/R/bandwidth_sgd.R |only GWPR.light-1.0.0/GWPR.light/R/context.R |only GWPR.light-1.0.0/GWPR.light/R/data_prepare.R |only GWPR.light-1.0.0/GWPR.light/R/diagnostics.R |only GWPR.light-1.0.0/GWPR.light/R/memory.R |only GWPR.light-1.0.0/GWPR.light/R/metrics.R |only GWPR.light-1.0.0/GWPR.light/R/model_linear.R |only GWPR.light-1.0.0/GWPR.light/R/model_logistic.R |only GWPR.light-1.0.0/GWPR.light/R/parallel.R |only GWPR.light-1.0.0/GWPR.light/R/result.R |only GWPR.light-1.0.0/GWPR.light/R/spatial_sf.R |only GWPR.light-1.0.0/GWPR.light/R/validation.R |only GWPR.light-1.0.0/GWPR.light/R/weights.R |only GWPR.light-1.0.0/GWPR.light/README.md | 343 -- GWPR.light-1.0.0/GWPR.light/build/vignette.rds |binary 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GWPR.light-1.0.0/GWPR.light/man/format_memory_warning.Rd |only GWPR.light-1.0.0/GWPR.light/man/get_local_distances.Rd |only GWPR.light-1.0.0/GWPR.light/man/gwpr.Rd |only GWPR.light-1.0.0/GWPR.light/man/memory.Rd |only GWPR.light-1.0.0/GWPR.light/man/metrics.Rd |only GWPR.light-1.0.0/GWPR.light/man/model_linear.Rd |only GWPR.light-1.0.0/GWPR.light/man/model_logistic.Rd |only GWPR.light-1.0.0/GWPR.light/man/new_gwpr_context.Rd |only GWPR.light-1.0.0/GWPR.light/man/parallel_map.Rd |only GWPR.light-1.0.0/GWPR.light/man/parallel_module.Rd |only GWPR.light-1.0.0/GWPR.light/man/predict_linear_local_model.Rd |only GWPR.light-1.0.0/GWPR.light/man/predict_logistic_local_model.Rd |only GWPR.light-1.0.0/GWPR.light/man/prepare_data.Rd |only GWPR.light-1.0.0/GWPR.light/man/prepare_panel_data.Rd |only GWPR.light-1.0.0/GWPR.light/man/prepare_spatial_data.Rd |only GWPR.light-1.0.0/GWPR.light/man/print.gwpr_bandwidth.Rd |only GWPR.light-1.0.0/GWPR.light/man/print.gwpr_diagnostics.Rd |only 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Title: Polynomial Maximization Method for Non-Gaussian Regression
Description: Implements the Polynomial Maximization Method ('PMM') for parameter estimation
in linear and time series models when error distributions deviate from normality.
The 'PMM2' variant achieves lower variance parameter estimates compared to ordinary
least squares ('OLS') when errors exhibit significant skewness. The 'PMM3' variant
(S=3) targets symmetric platykurtic error distributions, reducing variance when
excess kurtosis is negative. Includes automatic method selection ('pmm_dispatch'),
linear regression, 'AR'/'MA'/'ARMA'/'ARIMA' models, and bootstrap inference.
Methodology described in Zabolotnii, Warsza, and Tkachenko (2018) <doi:10.1007/978-3-319-77179-3_75>,
Zabolotnii, Tkachenko, and Warsza (2022) <doi:10.1007/978-3-031-03502-9_37>, and
Zabolotnii, Tkachenko, and Warsza (2023) <doi:10.1007/978-3-031-25844-2_21>, and
Zabolotnii (2025) <doi:10.48550/arXiv.2511.07059>.
Author: Serhii Zabolotnii [aut, cre]
Maintainer: Serhii Zabolotnii <zabolotniua@gmail.com>
Diff between EstemPMM versions 0.3.2 dated 2026-05-15 and 0.4.0 dated 2026-05-29
EstemPMM-0.3.2/EstemPMM/man/AIC-PMM2fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/AIC-PMM3fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/AIC-TS2fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/AIC-TS3fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/BIC-PMM2fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/BIC-PMM3fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/BIC-TS2fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/BIC-TS3fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/logLik-PMM2fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/logLik-PMM3fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/logLik-TS2fit-method.Rd |only EstemPMM-0.3.2/EstemPMM/man/logLik-TS3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/DESCRIPTION | 18 - EstemPMM-0.4.0/EstemPMM/MD5 | 114 ++++--- EstemPMM-0.4.0/EstemPMM/NAMESPACE | 22 + EstemPMM-0.4.0/EstemPMM/NEWS.md | 100 ++++++ EstemPMM-0.4.0/EstemPMM/R/pmm2_classes.R | 57 +-- EstemPMM-0.4.0/EstemPMM/R/pmm2_inference.R | 148 ++++++--- EstemPMM-0.4.0/EstemPMM/R/pmm2_main.R | 65 +--- EstemPMM-0.4.0/EstemPMM/R/pmm2_ts_methods.R | 62 +--- EstemPMM-0.4.0/EstemPMM/R/pmm3_classes.R | 55 ++- EstemPMM-0.4.0/EstemPMM/R/pmm3_dispatch.R | 98 +++++- EstemPMM-0.4.0/EstemPMM/R/pmm3_main.R | 99 ++++-- EstemPMM-0.4.0/EstemPMM/R/pmm3_ts_classes.R | 50 --- EstemPMM-0.4.0/EstemPMM/R/pmm3_ts_methods.R | 128 +++++--- EstemPMM-0.4.0/EstemPMM/R/pmm3_utils.R | 43 ++ EstemPMM-0.4.0/EstemPMM/R/pmm_base_classes.R |only EstemPMM-0.4.0/EstemPMM/R/pmm_show_methods.R |only EstemPMM-0.4.0/EstemPMM/R/pmm_unified_api.R |only EstemPMM-0.4.0/EstemPMM/build/partial.rdb |binary EstemPMM-0.4.0/EstemPMM/build/vignette.rds |binary EstemPMM-0.4.0/EstemPMM/inst/doc/bootstrap_inference.html | 154 +++++----- EstemPMM-0.4.0/EstemPMM/inst/doc/pmm2_introduction.html | 44 +- EstemPMM-0.4.0/EstemPMM/inst/doc/pmm2_time_series.html | 32 +- EstemPMM-0.4.0/EstemPMM/inst/doc/pmm3_symmetric_errors.html | 80 ++--- EstemPMM-0.4.0/EstemPMM/inst/doc/pmm3_time_series.html | 40 +- EstemPMM-0.4.0/EstemPMM/inst/doc/seasonal_models.html | 6 EstemPMM-0.4.0/EstemPMM/inst/notes |only EstemPMM-0.4.0/EstemPMM/man/BasePMM2-class.Rd | 19 - EstemPMM-0.4.0/EstemPMM/man/BasePMM3-class.Rd |only EstemPMM-0.4.0/EstemPMM/man/EstemPMM-package.Rd | 5 EstemPMM-0.4.0/EstemPMM/man/PMM3fit-class.Rd | 35 -- EstemPMM-0.4.0/EstemPMM/man/PMMfit-class.Rd |only EstemPMM-0.4.0/EstemPMM/man/PMMtsfit-class.Rd |only EstemPMM-0.4.0/EstemPMM/man/TS2fit-class.Rd | 39 -- EstemPMM-0.4.0/EstemPMM/man/TS3fit-class.Rd | 47 --- EstemPMM-0.4.0/EstemPMM/man/ar_pmm2.Rd | 10 EstemPMM-0.4.0/EstemPMM/man/arima_pmm2.Rd | 10 EstemPMM-0.4.0/EstemPMM/man/arma_pmm2.Rd | 10 EstemPMM-0.4.0/EstemPMM/man/confint-PMM3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/confint-TS3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/format.PMMdispatch.Rd |only EstemPMM-0.4.0/EstemPMM/man/logLik.PMM2fit.Rd |only EstemPMM-0.4.0/EstemPMM/man/logLik.PMM3fit.Rd |only EstemPMM-0.4.0/EstemPMM/man/logLik.TS2fit.Rd |only EstemPMM-0.4.0/EstemPMM/man/logLik.TS3fit.Rd |only EstemPMM-0.4.0/EstemPMM/man/ma_pmm2.Rd | 10 EstemPMM-0.4.0/EstemPMM/man/pmm2_inference.Rd | 30 + EstemPMM-0.4.0/EstemPMM/man/pmm3_variance_matrices.Rd |only EstemPMM-0.4.0/EstemPMM/man/pmm_ar.Rd |only EstemPMM-0.4.0/EstemPMM/man/pmm_arima.Rd |only EstemPMM-0.4.0/EstemPMM/man/pmm_arma.Rd |only EstemPMM-0.4.0/EstemPMM/man/pmm_dispatch.Rd | 4 EstemPMM-0.4.0/EstemPMM/man/pmm_lm.Rd |only EstemPMM-0.4.0/EstemPMM/man/pmm_ma.Rd |only EstemPMM-0.4.0/EstemPMM/man/pmm_sarima.Rd |only EstemPMM-0.4.0/EstemPMM/man/print.PMMdispatch.Rd |only EstemPMM-0.4.0/EstemPMM/man/show-PMM2fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/show-PMM3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/show-TS2fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/show-TS3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/summary.PMMdispatch.Rd |only EstemPMM-0.4.0/EstemPMM/man/ts_pmm2.Rd | 10 EstemPMM-0.4.0/EstemPMM/man/ts_pmm2_inference.Rd | 23 + EstemPMM-0.4.0/EstemPMM/man/vcov-PMM3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/man/vcov-TS3fit-method.Rd |only EstemPMM-0.4.0/EstemPMM/tests/testthat/Rplots.pdf |binary EstemPMM-0.4.0/EstemPMM/tests/testthat/test-s4-generics.R | 107 ++++++ EstemPMM-0.4.0/EstemPMM/tests/testthat/test-v040-new-features.R |only 79 files changed, 1070 insertions(+), 704 deletions(-)
Title: Differential Pattern Analysis via Linear Modeling
Description: Individual gene expression patterns are encoded into a series of eigenvector patterns ('WGCNA' package). Using the framework of linear model-based differential expression comparisons ('limma' package), time-course expression patterns for genes in different conditions are compared and analyzed for significant pattern changes. For reference, see: Greenham K, Sartor RC, Zorich S, Lou P, Mockler TC and McClung CR. eLife. 2020 Sep 30;9(4). <doi:10.7554/eLife.58993>.
Author: Ryan C. Sartor [aut, cre],
Kathleen Greenham [aut],
William Gustafson [aut]
Maintainer: Ryan C. Sartor <sartorry@gmail.com>
Diff between DiPALM versions 1.2 dated 2022-06-27 and 1.3 dated 2026-05-29
DESCRIPTION | 30 ++++++++++++++++++++++-------- MD5 | 20 ++++++++++++++++---- NAMESPACE | 2 ++ R/Interface.R |only data/datalist | 1 + data/smallTestData.txt.gz |only inst/CITATION | 4 ++-- man/col_format_sub.Rd |only man/dipalm.Rd |only man/joinOutputs.Rd |only man/main.Rd |only man/make_TCs.Rd |only man/msub.Rd |only man/open_log.Rd |only man/re_esc.Rd |only man/sampleReplicates.Rd |only man/smallTestData.Rd |only 17 files changed, 43 insertions(+), 14 deletions(-)
Title: Multivariate Weather-State Approach Conditionally Skew-Normal
Generator
Description: A multivariate weather generator for daily climate variables based
on weather-states (Flecher et al. (2010) <doi:10.1029/2009WR008098>).
It uses a Markov chain for modeling the succession of weather states.
Conditionally to the weather states, the multivariate variables are modeled
using the family of Complete Skew-Normal distributions. Parameters are
estimated on measured series. Must include the variable 'Rain' and can
accept as many other variables as desired.
Author: Denis Allard [aut] ,
Ronan Trepos [aut, cre]
Maintainer: Ronan Trepos <ronan.trepos@inrae.fr>
Diff between WACS versions 1.1.0 dated 2020-06-05 and 1.2.0 dated 2026-05-29
DESCRIPTION | 32 +++++++++++++++++++++----------- MD5 | 28 ++++++++++++++-------------- R/WACScompare.R | 12 ++++++------ R/WACSdata.R | 3 ++- R/WACSestim.R | 9 +++++---- R/WACSplot.R | 24 +++++++++++++----------- R/WACSplotdensity.R | 2 +- R/WACSreadAgroclim.R | 10 ++++------ R/WACSsimul.R | 4 ++-- R/WACSvalid.R | 8 ++++---- R/wacs-package.R | 25 ++++++++++++------------- R/wacs.simul_innercall.R | 2 +- data/ClimateSeries.rda |binary man/WACS.Rd | 37 +++++++++++++++++++++++++++---------- man/WACSreadAgroclim.Rd | 10 ++++------ 15 files changed, 116 insertions(+), 90 deletions(-)
Title: Genotype-by-Environment Interaction in Polygenic Score Models
Description: A novel PRS model is introduced to enhance the prediction accuracy by utilising GxE effects. This package performs Genome Wide Association Studies (GWAS) and Genome Wide Environment Interaction Studies (GWEIS) using a discovery dataset. The package has the ability to obtain polygenic risk scores (PRSs) for a target sample. Finally it predicts the risk values of each individual in the target sample. Users have the choice of using existing models (Li et al., 2015) <doi:10.1093/annonc/mdu565>, (Pandis et al., 2013) <doi:10.1093/ejo/cjt054>, (Peyrot et al., 2018) <doi:10.1016/j.biopsych.2017.09.009> and (Song et al., 2022) <doi:10.1038/s41467-022-32407-9>, as well as newly proposed models for genomic risk prediction (refer to the URL for more details).
Author: Dovini Jayasinghe [aut, cre, cph],
Hong Lee [aut, cph],
Moksedul Momin [aut, cph]
Maintainer: Dovini Jayasinghe <dovini.jayasinghe@mymail.unisa.edu.au>
Diff between GxEprs versions 1.2 dated 2024-05-29 and 1.3 dated 2026-05-29
DESCRIPTION | 10 MD5 | 46 - data/Bcov_discovery.rda |binary data/Bcov_target.rda |binary data/Qcov_discovery.rda |binary data/Qcov_target.rda |binary data/Qphe_discovery.rda |binary data/Qphe_target.rda |binary inst/Bcov_discovery.txt | 1600 ++++++++++++++++++++++++------------------------ inst/Bcov_target.txt | 400 ++++++------ inst/Qcov_discovery.txt | 1600 ++++++++++++++++++++++++------------------------ inst/Qcov_target.txt | 400 ++++++------ inst/Qphe_discovery.txt | 1600 ++++++++++++++++++++++++------------------------ inst/Qphe_target.txt | 400 ++++++------ man/Bcov_discovery.Rd | 36 - man/Bcov_target.Rd | 36 - man/Bphe_discovery.Rd | 6 man/Bphe_target.Rd | 6 man/DummyData.bim.Rd | 12 man/DummyData.fam.Rd | 12 man/Qcov_discovery.Rd | 36 - man/Qcov_target.Rd | 36 - man/Qphe_discovery.Rd | 6 man/Qphe_target.Rd | 6 24 files changed, 3124 insertions(+), 3124 deletions(-)
Title: Earth Observation Data Cubes from Satellite Image Collections
Description: Processing collections of Earth observation images as on-demand multispectral, multitemporal raster data cubes. Users
define cubes by spatiotemporal extent, resolution, and spatial reference system and let 'gdalcubes' automatically apply cropping, reprojection, and
resampling using the 'Geospatial Data Abstraction Library' ('GDAL'). Implemented functions on data cubes include reduction over space and time,
applying arithmetic expressions on pixel band values, moving window aggregates over time, filtering by space, time, bands, and predicates on pixel values,
exporting data cubes as 'netCDF' or 'GeoTIFF' files, plotting, and extraction from spatial and or spatiotemporal features.
All computational parts are implemented in C++, linking to the 'GDAL', 'netCDF', 'CURL', and 'SQLite' libraries.
See Appel and Pebesma (2019) <doi:10.3390/data4030092> for further details.
Author: Marius Appel [aut, cre] ,
Edzer Pebesma [ctb] ,
Roger Bivand [ctb],
Jeroen Ooms [ctb] ,
Lewis Van Winkle [cph],
Ole Christian Eidheim [cph],
Howard Hinnant [cph],
Adrian Colomitchi [cph],
Florian Dang [cph],
Paul Thompson [cph],
Tomasz Kaminski [cph] [...truncated...]
Maintainer: Marius Appel <marius.appel@hs-bochum.de>
Diff between gdalcubes versions 0.7.3 dated 2026-01-18 and 0.7.4 dated 2026-05-29
gdalcubes-0.7.3/gdalcubes/src/gdalcubes/src/gdalcubes.cpp |only gdalcubes-0.7.3/gdalcubes/src/gdalcubes/src/progress.cpp |only gdalcubes-0.7.3/gdalcubes/src/gdalcubes/src/progress.h |only gdalcubes-0.7.4/gdalcubes/DESCRIPTION | 10 ++-- gdalcubes-0.7.4/gdalcubes/MD5 | 22 ++++------ gdalcubes-0.7.4/gdalcubes/NEWS.md | 5 ++ gdalcubes-0.7.4/gdalcubes/build/vignette.rds |binary gdalcubes-0.7.4/gdalcubes/configure.ac | 2 gdalcubes-0.7.4/gdalcubes/inst/doc/gc01_MODIS.html | 7 +-- gdalcubes-0.7.4/gdalcubes/man/gdalcubes.Rd | 5 ++ gdalcubes-0.7.4/gdalcubes/src/gdalcubes/src/config.h | 2 gdalcubes-0.7.4/gdalcubes/src/gdalcubes/src/gdalcubes.h | 2 gdalcubes-0.7.4/gdalcubes/src/gdalcubes/src/image_collection.cpp | 8 +-- gdalcubes-0.7.4/gdalcubes/src/gdalcubes/src/progress_virt.h |only 14 files changed, 36 insertions(+), 27 deletions(-)
Title: Nonlinear Dependence and Lead-Lag Analysis via Chatterjee's Xi
Description: Computes Chatterjee's non-parametric correlation coefficient for time series data. It extends the original metric to time series analysis by providing the univariate Xi-Autocorrelation Function (Xi-ACF), directional Xi-Cross-Correlation Function (Xi-CCF), and multivariate network evaluation matrices. The package allows users to test for non-linear dependence using Iterative Amplitude Adjusted Fourier Transform (IAAFT) and Multivariate IAAFT (MIAAFT) surrogate data with strict Family-Wise Error Rate ('FWER') control via Max-statistic approaches. Methodologies are based on Chatterjee (2021) <doi:10.1080/01621459.2020.1758115>, surrogate data testing methods by Schreiber and Schmitz (1996) <doi:10.1103/PhysRevLett.77.635>, and local structural identification by Watanabe (2026) <doi:10.2139/ssrn.6829431>.
Author: Yasunori Watanabe [aut, cre]
Maintainer: Yasunori Watanabe <watanabe.yasunori@outlook.com>
Diff between xiacf versions 0.5.0 dated 2026-05-17 and 0.6.0 dated 2026-05-29
xiacf-0.5.0/xiacf/man/figures/README-ccf-example-1.png |only xiacf-0.5.0/xiacf/man/figures/README-extract_example-1.png |only xiacf-0.5.0/xiacf/man/figures/README-plot_xi_matrix-1.png |only xiacf-0.5.0/xiacf/man/figures/README-xi-acf-test-1.png |only xiacf-0.5.0/xiacf/man/figures/README-xi-ccf-rolling-1.png |only xiacf-0.5.0/xiacf/man/figures/README-xi-ccf-test-1.png |only xiacf-0.5.0/xiacf/man/figures/README-xi_matrix_example-1.png |only xiacf-0.6.0/xiacf/DESCRIPTION | 12 xiacf-0.6.0/xiacf/MD5 | 52 - xiacf-0.6.0/xiacf/NEWS.md | 10 xiacf-0.6.0/xiacf/R/RcppExports.R | 4 xiacf-0.6.0/xiacf/R/autoplot.R | 281 ++++++---- xiacf-0.6.0/xiacf/R/extract.R | 205 +++---- xiacf-0.6.0/xiacf/R/globals.R | 7 xiacf-0.6.0/xiacf/R/xi_ccf.R | 226 +++++--- xiacf-0.6.0/xiacf/R/xi_matrix.R | 31 - xiacf-0.6.0/xiacf/R/xi_rolling_ccf.R | 27 - xiacf-0.6.0/xiacf/README.md | 289 +++++------ xiacf-0.6.0/xiacf/inst/CITATION | 56 +- xiacf-0.6.0/xiacf/man/extract_xi_acf.Rd | 17 xiacf-0.6.0/xiacf/man/extract_xi_ccf.Rd | 19 xiacf-0.6.0/xiacf/man/figures/README-xi-acf-1.png |only xiacf-0.6.0/xiacf/man/figures/README-xi-ccf-1.png |only xiacf-0.6.0/xiacf/man/figures/README-xi-matrix-1.png |only xiacf-0.6.0/xiacf/man/figures/README-xi-matrix-2.png |only xiacf-0.6.0/xiacf/man/print.xi_ccf.Rd |only xiacf-0.6.0/xiacf/man/reexports.Rd | 2 xiacf-0.6.0/xiacf/man/xi_ccf.Rd | 35 - xiacf-0.6.0/xiacf/src/RcppExports.cpp | 9 xiacf-0.6.0/xiacf/src/testing_engine.cpp | 78 +- xiacf-0.6.0/xiacf/tests/testthat/test-extractors.R | 84 +-- xiacf-0.6.0/xiacf/tests/testthat/test-xi_ccf.R | 58 +- xiacf-0.6.0/xiacf/tests/testthat/test-xi_matrix.R | 55 -- 33 files changed, 872 insertions(+), 685 deletions(-)
Title: Parametric Statistical Modelling and Inference for the
'spatstat' Family
Description: Functionality for parametric statistical modelling and inference for spatial data,
mainly spatial point patterns, in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Supports parametric modelling, formal statistical inference, and model validation.
Parametric models include Poisson point processes, Cox point processes, Neyman-Scott cluster processes, Gibbs point processes and determinantal point processes. Models can be fitted to data using maximum likelihood, maximum pseudolikelihood, maximum composite likelihood and the method of minimum contrast. Fitted models can be simulated and predicted. Formal inference includes hypothesis tests (quadrat counting tests, Cressie-Read tests, Clark-Evans test, Berman test, Diggle-Cressie-Loosmore-Ford test, scan test, studentised permutation test, segregation test, ANOVA tests of fitted models, adjusted composite likelihood ratio test, envelope t [...truncated...]
Author: Adrian Baddeley [aut, cre, cph] ,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Achmad Choiruddin [ctb, cph],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ctb],
Julian Gilbey [ctb],
Yongtao [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.model versions 3.7-0 dated 2026-03-29 and 3.7-1 dated 2026-05-29
DESCRIPTION | 16 ++++----- MD5 | 54 ++++++++++++++++---------------- NAMESPACE | 18 ++++++++++ NEWS | 68 +++++++++++++++++++++++++++++++++++++++++ R/Kcom.R | 10 +++--- R/detPPF-class.R | 10 ++++++ R/kppm.R | 44 ++++++++++++++++++++++---- R/makepspace.R | 52 ++++++++++++++++++++++++++++--- R/mppm.R | 19 +++++++++-- R/percy.R | 32 ++++++++++++------- R/ppmclass.R | 13 +++++++ R/predict.ppm.R | 5 ++- R/predictmppm.R | 24 +++++++++++--- R/relrisk.ppm.R | 12 ++++--- R/rppm.R | 5 ++- R/slrm.R | 11 +++++- R/sysdata.rda |binary build/partial.rdb |binary inst/doc/packagesizes.txt | 2 - inst/info/packagesizes.txt | 2 - man/intensity.kppm.Rd |only man/intensity.mppm.Rd |only man/intensity.ppm.Rd | 18 ++++++++-- man/macros/defns.Rd | 1 man/predict.mppm.Rd | 13 +++++++ man/predict.ppm.Rd | 19 +++++++++++ man/relrisk.ppm.Rd | 21 ++++++++++++ man/repul.Rd | 65 +++++++++++++++++++++++++++++++++------ man/spatstat.model-internal.Rd | 20 +++++------- 29 files changed, 449 insertions(+), 105 deletions(-)
More information about spatstat.model at CRAN
Permanent link
Title: Network Analysis and Visualization
Description: Routines for simple graphs and network analysis. It can
handle large graphs very well and provides functions for generating
random and regular graphs, graph visualization, centrality methods and
much more.
Author: Gabor Csardi [aut] ,
Tamas Nepusz [aut] ,
Vincent Traag [aut] ,
Szabolcs Horvat [aut] ,
Fabio Zanini [aut] ,
Daniel Noom [aut],
Kirill Mueller [aut, cre] ,
Michael Antonov [ctb],
Chan Zuckerberg Initiative [fnd] ,
David Schoch [aut] ,
Maelle Salmon [a [...truncated...]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between igraph versions 2.3.1 dated 2026-05-04 and 2.3.2 dated 2026-05-29
DESCRIPTION | 6 ++--- MD5 | 12 +++++----- NEWS.md | 7 ++++++ inst/doc/igraph.html | 52 +++++++++++++++++++++++----------------------- inst/doc/igraph_ES.html | 52 +++++++++++++++++++++++----------------------- src/vendor/arpack/dmout.f | 2 - src/vendor/arpack/dvout.f | 2 - 7 files changed, 70 insertions(+), 63 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-07-23 0.9.1
2023-02-10 0.9.0
Title: Recreates Some 'SAS®' Procedures in 'R'
Description: Contains functions to simulate the most commonly used
'SAS®' procedures. Specifically, the package aims to
simulate the functionality of 'proc freq', 'proc means', 'proc ttest',
'proc reg', 'proc transpose', 'proc sort', and 'proc print'.
The simulation will include recreating
all statistics with the highest fidelity possible.
Author: David Bosak [aut, cre],
Diyu Yang [aut],
Athenkosi Nkonyeni [aut],
Kevin Kramer [ctb],
Brian Varney [ctb],
Duong Tran [ctb],
Yifei Chen [ctb]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between procs versions 1.0.8 dated 2026-03-20 and 1.0.9 dated 2026-05-29
procs-1.0.8/procs/man/images/archive |only procs-1.0.8/procs/man/images/procedure.png |only procs-1.0.8/procs/man/images/procs1.png |only procs-1.0.9/procs/DESCRIPTION | 6 procs-1.0.9/procs/MD5 | 169 +-- procs-1.0.9/procs/NEWS.md | 6 procs-1.0.9/procs/R/freqplots.R | 2 procs-1.0.9/procs/R/proc_means.R | 208 ++-- procs-1.0.9/procs/R/proc_transpose.R | 1 procs-1.0.9/procs/R/proc_ttest.R | 292 ++++- procs-1.0.9/procs/R/regplots.R | 97 + procs-1.0.9/procs/R/statistics.R | 99 - procs-1.0.9/procs/R/ttestplots.R | 1055 +++++++++++++-------- procs-1.0.9/procs/R/utilities.R | 68 + procs-1.0.9/procs/README.md | 8 procs-1.0.9/procs/inst/doc/procs-example1.html | 2 procs-1.0.9/procs/inst/doc/procs-example2.html | 2 procs-1.0.9/procs/inst/doc/procs-example3.html | 2 procs-1.0.9/procs/inst/doc/procs-freq.html | 24 procs-1.0.9/procs/inst/doc/procs-means.html | 16 procs-1.0.9/procs/inst/doc/procs-reg.html | 20 procs-1.0.9/procs/inst/doc/procs-ttest.html | 14 procs-1.0.9/procs/inst/doc/procs.html | 14 procs-1.0.9/procs/man/images/ae.png |binary procs-1.0.9/procs/man/images/demog.png |binary procs-1.0.9/procs/man/images/disp.png |binary procs-1.0.9/procs/man/images/freq1.png |binary procs-1.0.9/procs/man/images/freqtut1.png |binary procs-1.0.9/procs/man/images/freqtut10.png |binary procs-1.0.9/procs/man/images/freqtut11.png |binary procs-1.0.9/procs/man/images/freqtut12.png |binary procs-1.0.9/procs/man/images/freqtut13.png |binary procs-1.0.9/procs/man/images/freqtut2.png |binary procs-1.0.9/procs/man/images/freqtut3.png |binary procs-1.0.9/procs/man/images/freqtut4.png |binary procs-1.0.9/procs/man/images/freqtut5.png |binary procs-1.0.9/procs/man/images/freqtut6.png |binary procs-1.0.9/procs/man/images/freqtut7.png |binary procs-1.0.9/procs/man/images/freqtut8.png |binary procs-1.0.9/procs/man/images/freqtut9.png |binary procs-1.0.9/procs/man/images/means1.png |binary procs-1.0.9/procs/man/images/meanstut1.png |binary procs-1.0.9/procs/man/images/meanstut2.png |binary procs-1.0.9/procs/man/images/meanstut3.png |binary procs-1.0.9/procs/man/images/meanstut4.png |binary procs-1.0.9/procs/man/images/meanstut5.png |binary procs-1.0.9/procs/man/images/meanstut6.png |binary procs-1.0.9/procs/man/images/meanstut7.png |binary procs-1.0.9/procs/man/images/meanstut8.png |binary procs-1.0.9/procs/man/images/print1.png |binary procs-1.0.9/procs/man/images/procs.png |binary procs-1.0.9/procs/man/images/procs_new.png |binary procs-1.0.9/procs/man/images/reg1.png |binary procs-1.0.9/procs/man/images/reg2.png |binary procs-1.0.9/procs/man/images/reg3.png |binary procs-1.0.9/procs/man/images/reg4.png |binary procs-1.0.9/procs/man/images/reg5.png |binary procs-1.0.9/procs/man/images/reg6.png |binary procs-1.0.9/procs/man/images/reg7a.png |binary procs-1.0.9/procs/man/images/reg7b.png |binary procs-1.0.9/procs/man/images/reg7c.png |binary procs-1.0.9/procs/man/images/reg7d.png |binary procs-1.0.9/procs/man/images/ttest.png |binary procs-1.0.9/procs/man/images/ttest1.png |binary procs-1.0.9/procs/man/images/ttest2.png |binary procs-1.0.9/procs/man/images/ttest3.png |binary procs-1.0.9/procs/man/images/ttest4.png |binary procs-1.0.9/procs/man/images/ttest5a.png |binary procs-1.0.9/procs/man/images/ttest5b.png |binary procs-1.0.9/procs/man/images/ttest5c.png |binary procs-1.0.9/procs/man/images/ttesta.png |binary procs-1.0.9/procs/man/images/ttestb.png |binary procs-1.0.9/procs/man/images/ttestc.png |binary procs-1.0.9/procs/man/images/ttestd.png |binary procs-1.0.9/procs/man/proc_means.Rd | 10 procs-1.0.9/procs/man/proc_ttest.Rd | 952 +++++++++--------- procs-1.0.9/procs/man/ttestplot.Rd | 382 +++---- procs-1.0.9/procs/tests/testthat/data/vs2.rds |only procs-1.0.9/procs/tests/testthat/test-freqplots.R | 84 + procs-1.0.9/procs/tests/testthat/test-means.R | 258 ++++- procs-1.0.9/procs/tests/testthat/test-print.R | 65 - procs-1.0.9/procs/tests/testthat/test-regplots.R | 144 ++ procs-1.0.9/procs/tests/testthat/test-statistics.R | 52 + procs-1.0.9/procs/tests/testthat/test-transpose.R | 27 procs-1.0.9/procs/tests/testthat/test-ttest.R | 183 +++ procs-1.0.9/procs/tests/testthat/test-ttestplots.R | 462 +++++++++ procs-1.0.9/procs/tests/testthat/test-utilities.R | 15 87 files changed, 3336 insertions(+), 1403 deletions(-)
Title: Green Index Quantification, Analysis and Visualization
Description: Quantification, analysis, and visualization of urban greenness within city networks using data from 'OpenStreetMap' <https://www.openstreetmap.org>.
Author: Sachit Mahajan [aut, cre]
Maintainer: Sachit Mahajan <sachitmahajan90@gmail.com>
Diff between greenR versions 0.0.1.6 dated 2025-11-30 and 0.0.1.7 dated 2026-05-29
DESCRIPTION | 29 MD5 | 55 - NAMESPACE | 74 + R/RcppExports.R |only R/accessibility_greenspace.R | 4 R/chm_analysis.R | 1395 ++++++++++++++++++++++++++------- R/get_osm_data.R | 330 +++++-- R/uh_decision.R |only R/uh_svf.R |only R/zzz.R | 14 inst/doc/introduction.R | 36 inst/doc/introduction.Rmd | 66 + inst/doc/introduction.html | 78 + man/assess_urban_priority_equity.Rd |only man/build_street_canyon_priority.Rd |only man/build_urban_block_priority.Rd |only man/build_urban_priority_grid.Rd |only man/chm_analysis.Rd | 138 +-- man/compute_gini_bootstrap.Rd |only man/dot-way_geom_to_matrix.Rd |only man/emulate_canyon_microclimate.Rd |only man/get_osm_data.Rd | 50 - man/plot_canyon_diamond_bivariate.Rd |only man/plot_canyon_priority_map.Rd |only man/plot_hybrid_field_map.Rd |only man/plot_multilayer_leaflet.Rd |only man/plot_priority_3d_explorer.Rd |only man/plot_priority_3d_isometric.Rd |only man/plot_priority_action_classes.Rd |only man/plot_priority_bivariate.Rd |only man/plot_priority_diamond_bivariate.Rd |only man/plot_priority_interactive.Rd |only man/save_3d_deckgl_dashboard.Rd |only man/uh_decision.Rd |only man/uh_svf.Rd |only man/uh_svf_plot_distribution.Rd |only man/uh_svf_plot_skyline.Rd |only src |only tests/testthat/test.R | 56 + vignettes/chm.jpg |binary vignettes/introduction.Rmd | 66 + 41 files changed, 1886 insertions(+), 505 deletions(-)
Title: Extra Analysis Results Data Utilities
Description: Create extra Analysis Results Data (ARD) summary objects.
The package supplements the simple ARD functions from the 'cards'
package, exporting functions to put statistical results in the ARD
format. These objects are used and re-used to construct summary
tables, visualizations, and written reports.
Author: Daniel D. Sjoberg [aut, cre] ,
Abinaya Yogasekaram [aut],
Emily de la Rua [aut],
Malcolm Barrett [ctb] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cardx versions 0.3.2 dated 2026-02-05 and 0.3.3 dated 2026-05-29
DESCRIPTION | 10 - MD5 | 128 ++++++++--------- NEWS.md | 10 + R/ard_aod_wald_test.R | 5 R/ard_car_anova.R | 2 R/ard_car_vif.R | 12 + R/ard_categorical_ci.R | 4 R/ard_categorical_ci.survey.design.R | 4 R/ard_continuous.survey.design.R | 7 R/ard_continuous_ci.R | 2 R/ard_continuous_ci.survey.design.R | 4 R/ard_effectsize_cohens_d.R | 6 R/ard_effectsize_hedges_g.R | 6 R/ard_emmeans_contrast.R | 2 R/ard_emmeans_emmeans.R | 2 R/ard_incidence_rate.R | 2 R/ard_missing.survey.design.R | 4 R/ard_regression.R | 2 R/ard_smd_smd.R | 4 R/ard_stats_anova.R | 2 R/ard_stats_aov.R | 2 R/ard_stats_chisq_test.R | 4 R/ard_stats_fisher_test.R | 4 R/ard_stats_kruskal_test.R | 4 R/ard_stats_mantelhaen_test.R | 4 R/ard_stats_mcnemar_test.R | 6 R/ard_stats_mood_test.R | 4 R/ard_stats_oneway_test.R | 2 R/ard_stats_poisson_test.R | 4 R/ard_stats_prop_test.R | 7 R/ard_stats_t_test.R | 6 R/ard_stats_t_test_onesample.R | 4 R/ard_stats_wilcox_test.R | 6 R/ard_stats_wilcox_test_onesample.R | 4 R/ard_survey_svychisq.R | 4 R/ard_survey_svyranktest.R | 4 R/ard_survey_svyttest.R | 4 R/ard_survival_survdiff.R | 2 R/ard_survival_survfit.R | 45 ++++- R/ard_survival_survfit_diff.R | 2 R/ard_tabulate.survey.design.R | 5 R/ard_tabulate_abnormal.R | 2 R/ard_tabulate_max.R | 2 R/ard_tabulate_value.survey.design.R | 2 R/deprecated.R | 4 man/ard_car_vif.Rd | 2 man/ard_effectsize_hedges_g.Rd | 2 man/ard_emmeans.Rd | 3 man/cardx-package.Rd | 1 man/deprecated.Rd | 6 man/dot-extract_wald_results.Rd | 4 man/dot-format_proptest_results.Rd | 4 man/reexports.Rd | 4 tests/testthat/_snaps/ard_car_vif.md | 29 +++ tests/testthat/_snaps/ard_stats_mood_test.md | 17 -- tests/testthat/_snaps/ard_survival_survfit.md | 4 tests/testthat/test-ard_car_vif.R | 24 +++ tests/testthat/test-ard_categorical_ci.data.frame.R | 12 + tests/testthat/test-ard_categorical_ci.survey.design.R | 2 tests/testthat/test-ard_continuous_ci.survey.design.R | 2 tests/testthat/test-ard_stats_mood_test.R | 3 tests/testthat/test-ard_stats_t_test_onesample.R | 2 tests/testthat/test-ard_stats_wilcox_test_onesample.R | 2 tests/testthat/test-ard_survival_survfit.R | 22 ++ tests/testthat/test-ard_tabulate_max.R | 3 65 files changed, 321 insertions(+), 182 deletions(-)
Title: Unified Interface for AI Model Providers
Description: A production-grade AI toolkit for R featuring a layered
architecture (Specification, Utilities, Providers, Core), request
interception support, robust error handling with exponential retry
delays, support for multiple AI model providers ('OpenAI',
'Anthropic', etc.), local small language model inference,
distributed 'MCP' ecosystem, multi-agent orchestration, progressive
knowledge loading through skills, and a global skill store for
sharing AI capabilities.
Author: Yonghe Xia [aut, cre]
Maintainer: Yonghe Xia <xiayh17@gmail.com>
Diff between aisdk versions 1.1.0 dated 2026-03-31 and 1.4.10 dated 2026-05-29
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aisdk-1.1.0/aisdk/R/provider_xai.R |only aisdk-1.1.0/aisdk/R/scaffold.R |only aisdk-1.1.0/aisdk/R/shiny_config.R |only aisdk-1.1.0/aisdk/R/shiny_config_server.R |only aisdk-1.1.0/aisdk/R/shiny_config_ui.R |only aisdk-1.1.0/aisdk/R/shiny_server.R |only aisdk-1.1.0/aisdk/R/shiny_ui.R |only aisdk-1.1.0/aisdk/R/skill_forge_tools.R |only aisdk-1.1.0/aisdk/R/skill_store.R |only aisdk-1.1.0/aisdk/R/slm_engine.R |only aisdk-1.1.0/aisdk/R/team.R |only aisdk-1.1.0/aisdk/R/tool_shiny.R |only aisdk-1.1.0/aisdk/R/utils_mcp.R |only aisdk-1.1.0/aisdk/inst/extdata/channel_scripts |only aisdk-1.1.0/aisdk/inst/skills |only aisdk-1.1.0/aisdk/man/AgentTeam.Rd |only aisdk-1.1.0/aisdk/man/AiHubMixLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/AiHubMixProvider.Rd |only aisdk-1.1.0/aisdk/man/BailianLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/BailianProvider.Rd |only aisdk-1.1.0/aisdk/man/ChannelAdapter.Rd |only aisdk-1.1.0/aisdk/man/ChannelRuntime.Rd |only aisdk-1.1.0/aisdk/man/ChannelSessionStore.Rd |only aisdk-1.1.0/aisdk/man/ChatManager.Rd |only aisdk-1.1.0/aisdk/man/DeepSeekLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/DeepSeekProvider.Rd |only aisdk-1.1.0/aisdk/man/FeishuChannelAdapter.Rd |only aisdk-1.1.0/aisdk/man/FileChannelSessionStore.Rd |only aisdk-1.1.0/aisdk/man/KNOWN_AESTHETICS.Rd |only aisdk-1.1.0/aisdk/man/KNOWN_POSITIONS.Rd |only aisdk-1.1.0/aisdk/man/McpClient.Rd |only aisdk-1.1.0/aisdk/man/McpDiscovery.Rd |only aisdk-1.1.0/aisdk/man/McpRouter.Rd |only aisdk-1.1.0/aisdk/man/McpServer.Rd |only aisdk-1.1.0/aisdk/man/McpSseClient.Rd |only aisdk-1.1.0/aisdk/man/MissionHookHandler.Rd |only aisdk-1.1.0/aisdk/man/MissionOrchestrator.Rd |only aisdk-1.1.0/aisdk/man/MissionStep.Rd |only aisdk-1.1.0/aisdk/man/NvidiaLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/NvidiaProvider.Rd |only aisdk-1.1.0/aisdk/man/OpenRouterLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/OpenRouterProvider.Rd |only aisdk-1.1.0/aisdk/man/SkillStore.Rd |only aisdk-1.1.0/aisdk/man/SlmEngine.Rd |only aisdk-1.1.0/aisdk/man/StepfunLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/StepfunProvider.Rd |only aisdk-1.1.0/aisdk/man/THEME_ELEMENT_TYPES.Rd |only aisdk-1.1.0/aisdk/man/THEME_HIERARCHY.Rd |only aisdk-1.1.0/aisdk/man/VolcengineLanguageModel.Rd |only aisdk-1.1.0/aisdk/man/VolcengineProvider.Rd |only aisdk-1.1.0/aisdk/man/XAILanguageModel.Rd |only aisdk-1.1.0/aisdk/man/XAIProvider.Rd |only aisdk-1.1.0/aisdk/man/add_stable_ids.Rd |only aisdk-1.1.0/aisdk/man/aiChatServer.Rd |only aisdk-1.1.0/aisdk/man/aiChatUI.Rd |only aisdk-1.1.0/aisdk/man/analyze_r_package.Rd |only aisdk-1.1.0/aisdk/man/apiConfigServer.Rd |only aisdk-1.1.0/aisdk/man/apiConfigUI.Rd |only aisdk-1.1.0/aisdk/man/auto_detect_vars.Rd |only aisdk-1.1.0/aisdk/man/benchmark_agent.Rd |only aisdk-1.1.0/aisdk/man/build_context.Rd |only aisdk-1.1.0/aisdk/man/channel_documents.Rd |only aisdk-1.1.0/aisdk/man/channel_feishu.Rd |only aisdk-1.1.0/aisdk/man/channel_runtime.Rd |only aisdk-1.1.0/aisdk/man/channel_session_store.Rd |only 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aisdk-1.1.0/aisdk/man/create_mcp_server.Rd |only aisdk-1.1.0/aisdk/man/create_mcp_sse_client.Rd |only aisdk-1.1.0/aisdk/man/create_mission.Rd |only aisdk-1.1.0/aisdk/man/create_mission_hooks.Rd |only aisdk-1.1.0/aisdk/man/create_mission_orchestrator.Rd |only aisdk-1.1.0/aisdk/man/create_nvidia.Rd |only aisdk-1.1.0/aisdk/man/create_openrouter.Rd |only aisdk-1.1.0/aisdk/man/create_orchestration.Rd |only aisdk-1.1.0/aisdk/man/create_skill.Rd |only aisdk-1.1.0/aisdk/man/create_skill_forge_tools.Rd |only aisdk-1.1.0/aisdk/man/create_step.Rd |only aisdk-1.1.0/aisdk/man/create_stepfun.Rd |only aisdk-1.1.0/aisdk/man/create_team.Rd |only aisdk-1.1.0/aisdk/man/create_volcengine.Rd |only aisdk-1.1.0/aisdk/man/create_xai.Rd |only aisdk-1.1.0/aisdk/man/download_model.Rd |only aisdk-1.1.0/aisdk/man/eng_ai.Rd |only aisdk-1.1.0/aisdk/man/extract_geom_params.Rd |only aisdk-1.1.0/aisdk/man/extract_guides.Rd |only aisdk-1.1.0/aisdk/man/extract_r_code.Rd |only 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aisdk-1.1.0/aisdk/tests/testthat/test-provider-aihubmix.R |only aisdk-1.1.0/aisdk/tests/testthat/test-provider-bailian.R |only aisdk-1.1.0/aisdk/tests/testthat/test-provider-deepseek.R |only aisdk-1.1.0/aisdk/tests/testthat/test-provider-openrouter.R |only aisdk-1.1.0/aisdk/tests/testthat/test-provider-stepfun.R |only aisdk-1.1.0/aisdk/tests/testthat/test-provider-volcengine.R |only aisdk-1.1.0/aisdk/tests/testthat/test-provider-xai.R |only aisdk-1.4.10/aisdk/DESCRIPTION | 15 aisdk-1.4.10/aisdk/LICENSE | 4 aisdk-1.4.10/aisdk/MD5 | 644 +- aisdk-1.4.10/aisdk/NAMESPACE | 176 aisdk-1.4.10/aisdk/NEWS.md |only aisdk-1.4.10/aisdk/R/agent.R | 76 aisdk-1.4.10/aisdk/R/agent_evals.R | 273 - aisdk-1.4.10/aisdk/R/agent_library.R | 37 aisdk-1.4.10/aisdk/R/agent_runtime.R |only aisdk-1.4.10/aisdk/R/aisdk-package.R | 20 aisdk-1.4.10/aisdk/R/ask_ai.R |only aisdk-1.4.10/aisdk/R/capability_models.R |only aisdk-1.4.10/aisdk/R/compat.R | 29 aisdk-1.4.10/aisdk/R/computer.R | 197 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Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] ,
Jan Wielemaker [ctb, cph] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rswipl versions 10.1.7 dated 2026-05-12 and 10.1.8 dated 2026-05-29
DESCRIPTION | 8 MD5 | 187 ++- NEWS.md | 6 inst/swipl |only src/install.libs.R | 2 src/swipl-devel/CMakeLists.txt | 10 src/swipl-devel/VERSION | 2 src/swipl-devel/boot/build_home.pl | 11 src/swipl-devel/boot/toplevel.pl | 4 src/swipl-devel/cmake/Install.cmake | 30 src/swipl-devel/cmake/InstallSource.cmake | 10 src/swipl-devel/cmake/Locations.cmake | 61 + src/swipl-devel/cmake/LocationsPostPorts.cmake | 4 src/swipl-devel/cmake/PackageSelection.cmake | 2 src/swipl-devel/cmake/macos_app_fixup |only src/swipl-devel/cmake/port/Darwin.cmake | 61 - src/swipl-devel/desktop/Framework-Info.plist.in |only src/swipl-devel/desktop/distribution.xml.in |only src/swipl-devel/desktop/installer-background.png |only src/swipl-devel/desktop/swipl.entitlements.plist |only src/swipl-devel/doc/MacOSXInstaller.md |only src/swipl-devel/library/dialect/swi/syspred_options.pl | 7 src/swipl-devel/library/writef.pl | 6 src/swipl-devel/packages/clib/bsd-crypt.c | 5 src/swipl-devel/packages/clib/process.c.rej |only src/swipl-devel/packages/cpp/SWI-cpp2.cpp | 15 src/swipl-devel/packages/cpp/SWI-cpp2.h | 93 + src/swipl-devel/packages/cpp/pl2cpp.plx | 164 ++- src/swipl-devel/packages/cpp/test_cpp.cpp | 81 + src/swipl-devel/packages/cpp/test_cpp.cpp.orig |only src/swipl-devel/packages/cpp/test_cpp.pl | 55 - 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src/swipl-devel/src/pl-read.h | 1 src/swipl-devel/src/pl-supervisor.c | 9 src/swipl-devel/src/pl-thread.c | 41 src/swipl-devel/src/pl-trie.c.save |only src/swipl-devel/src/pl-umap.c | 495 +++++----- src/swipl-devel/src/pl-write.c | 83 + src/swipl-devel/tests/core/test_bips.pl | 11 src/swipl-devel/tests/core/test_syntax_unicode.pl | 65 + src/swipl-devel/tests/core/test_text.pl | 75 + src/swipl-devel/tests/engines/test_engines.pl | 6 108 files changed, 2277 insertions(+), 697 deletions(-)
Title: Fractional Weighted Bootstrap
Description: An implementation of the fractional weighted bootstrap to be used as a drop-in for functions in the 'boot' package. The fractional weighted bootstrap (also known as the Bayesian bootstrap) involves drawing weights randomly that are applied to the data rather than resampling units from the data. See Xu et al. (2020) <doi:10.1080/00031305.2020.1731599> for details.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between fwb versions 0.5.1 dated 2025-09-19 and 0.6.0 dated 2026-05-29
DESCRIPTION | 15 - MD5 | 69 ++++---- NAMESPACE | 4 NEWS.md | 48 ++++- R/compute.ci.R | 19 +- R/fwb.R | 245 +++++++++++++++++++----------- R/fwb.array.R | 31 ++- R/fwb.ci.R | 64 +++---- R/plot.fwb.R | 65 ++++--- R/set_fwb_wtype.R | 32 +-- R/simultaneous.R | 28 +-- R/summary.fwb.R | 59 +++---- R/utils.R | 226 +++++++-------------------- R/vcovFWB.R | 205 +++++++++++++++---------- R/weighted-statistics.R | 39 +++- README.md | 86 ++++++---- build/stage23.rdb |binary build/vignette.rds |binary inst/doc/fwb-rep.Rmd | 22 +- inst/doc/fwb-rep.html | 58 ++++--- man/figures/README-unnamed-chunk-10-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary man/fwb-package.Rd | 5 man/fwb.Rd | 48 ++++- man/fwb.array.Rd | 9 - man/fwb.ci.Rd | 14 + man/macros/macros.Rd | 2 man/plot.fwb.Rd | 6 man/set_fwb_wtype.Rd | 12 - man/summary.fwb.Rd | 6 man/vcovFWB.Rd | 28 ++- tests/testthat/helpers.R | 4 tests/testthat/test-fwb.R | 66 +++++++- tests/testthat/test-vcovFWB.R |only vignettes/fwb-rep.Rmd | 22 +- 36 files changed, 866 insertions(+), 671 deletions(-)
Title: Partitioning Uncertainty Components of an Incomplete Ensemble of
Climate Projections
Description: These functions apply an analysis of variance to incomplete ensembles of climate projections.
It provides estimates of climate change responses of all simulation chains and of all uncertainty
variables. It has been applied to different ensembles of projections simulated to study the impact of climate change:
for climate indicators in Evin et al. (2019) <doi:10.1175/JCLI-D-18-0606.1>; seasonal precipitation
and temperature in Evin, Somot and Hingray (2021) <doi:10.5194/esd-12-1543-2021>; hydrological variables
in Evin et al. (2026) <doi:10.5194/hess-30-1023-2026>; photovoltaic energy in Bichet et al. (2019)
<doi:10.1088/1748-9326/ab500a>.
Author: Guillaume Evin [aut, cre]
Maintainer: Guillaume Evin <guillaume.evin@inrae.fr>
Diff between QUALYPSO versions 3.0 dated 2026-05-12 and 3.1 dated 2026-05-28
DESCRIPTION | 17 +++-- MD5 | 16 ++--- R/QUALYPSO.r | 112 +++++++++++++++++++++---------------- README.md | 11 ++- man/QUALYPSO.Rd | 49 +++++++++------- man/checkTypeandDimension.Rd | 2 man/fit.climate.response.Rd | 2 man/plotQUALYPSOclimateResponse.Rd | 3 man/plotQUALYPSOinternalvar.Rd | 3 9 files changed, 128 insertions(+), 87 deletions(-)
Title: Species Distribution Modeling with H3 Grids
Description: Provides tools for species distribution modeling using H3
hexagonal grids (Uber Technologies Inc., 2022, <https://h3geo.org>).
Facilitates retrieval of species occurrence records, generation of H3 grids,
computation of landscape metrics, and preparation of spatial data for modern
species distribution models workflows. Designed for biodiversity and landscape ecology research.
Author: Manuel Spinola [aut, cre]
Maintainer: Manuel Spinola <mspinola10@gmail.com>
Diff between h3sdm versions 0.1.2 dated 2026-05-22 and 0.1.3 dated 2026-05-28
DESCRIPTION | 10 +++++----- MD5 | 16 +++++++++------- NAMESPACE | 7 +++++++ NEWS.md | 16 ++++++++++++++++ R/h3sdm_aoa.R |only R/h3sdm_get_grid.R | 9 ++++++++- R/h3sdm_predict.R | 17 +++++++++-------- inst/doc/h3sdm.html | 32 ++++++++++++++++---------------- man/h3sdm_aoa.Rd |only man/h3sdm_predict.Rd | 3 +++ 10 files changed, 73 insertions(+), 37 deletions(-)
Title: Fechnerian Scaling of Discrete Object Sets
Description: Functions and example datasets for Fechnerian scaling of discrete
object sets. User can compute Fechnerian distances among objects representing
subjective dissimilarities, and other related information. See
package?fechner for an overview.
Author: Ali Uenlue [aut, cre],
Thomas Kiefer [aut, trl]
Maintainer: Ali Uenlue <aligalibuenlue@gmail.com>
This is a re-admission after prior archival of version 1.0-3 dated 2016-06-06
Diff between fechner versions 1.0-3 dated 2016-06-06 and 1.0-4 dated 2026-05-28
DESCRIPTION | 20 ++++++++--------- MD5 | 45 ++++++++++++++++++++------------------- NAMESPACE | 2 - NEWS | 7 ++++++ inst/CITATION | 37 +++++++++++++++++--------------- inst/doc/fechner.pdf |binary inst/doc/sourcefiles/fechner.bib | 14 ++++++------ inst/doc/sourcefiles/fechner.tex | 7 ++---- inst/doc/sourcefiles/fig3.pdf |binary inst/doc/sourcefiles/jss.bst |only inst/doc/sourcefiles/jss.cls |only man/check.data.Rd | 6 ++--- man/check.regular.Rd | 16 ++++++------- man/fechner-package.Rd | 8 +++--- man/fechner.Rd | 16 ++++++------- man/morse.Rd | 10 ++++---- man/noRegMin.Rd | 6 ++--- man/plot.fechner.Rd | 4 +-- man/print.fechner.Rd | 4 +-- man/print.summary.fechner.Rd | 4 +-- man/regMin.Rd | 4 +-- man/summary.fechner.Rd | 4 +-- man/wish.Rd | 12 +++++----- src/fechner.c | 2 - src/fechner_init.c |only 25 files changed, 120 insertions(+), 108 deletions(-)
Title: AI Agent Runtime
Description: An agent runtime that gives Large Language Models (LLMs)
from 'Anthropic' <https://www.anthropic.com/>, 'OpenAI'
<https://openai.com/>, 'Moonshot' <https://www.moonshot.ai/>, and
'Ollama' <https://ollama.com/> direct access to a live R session with
managed workspace state. Tools execute as R function calls with
provenance tracking, and a deterministic retrieval system keeps
relevant objects in context across turns. Three entry points: a
shell command-line interface (CLI), a console read-eval-print-loop
via chat(), and a Model Context Protocol (MCP) server via serve()
for external clients.
Author: Troy Hernandez [aut, cre] ,
Grant McDermott [ctb] ,
Jorge Krzyzaniak [ctb],
cornball.ai [cph]
Maintainer: Troy Hernandez <troy@cornball.ai>
Diff between corteza versions 0.6.3 dated 2026-05-04 and 0.6.9 dated 2026-05-28
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Title: Tidy Tools for Actuarial Mathematics and Life Contingencies
Description: Provides tidyverse-aligned tools for actuarial mathematics
and life contingencies, including life tables, survival probabilities,
actuarial present values of cash flows, life annuities, life insurance,
premiums, reserves, multiple-life calculations, Monte Carlo simulation,
and deterministic cash-flow diagrams. The package emphasizes clear
actuarial notation, reproducible workflows, and pipe-friendly tools for
actuarial education and applied actuarial analysis.
Author: Julian Fajardo [aut, cre]
Maintainer: Julian Fajardo <julian.fajardo1908@gmail.com>
Diff between tidyactuarial versions 0.1.2 dated 2026-05-17 and 0.1.3 dated 2026-05-28
tidyactuarial-0.1.2/tidyactuarial/R/Da_angle.R |only tidyactuarial-0.1.2/tidyactuarial/R/Ia_angle.R |only tidyactuarial-0.1.2/tidyactuarial/R/Var_annuity_x.R |only tidyactuarial-0.1.2/tidyactuarial/R/Var_insurance_x.R |only tidyactuarial-0.1.2/tidyactuarial/R/arithmetic_annuity_av_tbl.R |only tidyactuarial-0.1.2/tidyactuarial/R/arithmetic_annuity_pv_tbl.R |only tidyactuarial-0.1.2/tidyactuarial/R/forward_rate_tbl.R |only tidyactuarial-0.1.2/tidyactuarial/R/ga_angle_n.R |only tidyactuarial-0.1.2/tidyactuarial/R/gs_angle_n.R |only tidyactuarial-0.1.2/tidyactuarial/R/portfolio_convexity_tbl.R |only tidyactuarial-0.1.2/tidyactuarial/R/portfolio_duration_tbl.R |only tidyactuarial-0.1.2/tidyactuarial/man/Da_angle.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/Da_angle_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/Ia_angle.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/Var_annuity_x.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/Var_insurance_x.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/a_angle_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/arithmetic_annuity_av_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/arithmetic_annuity_pv_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/bond_book_value_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/bond_callable_price_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/discount_factor_spot_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/forward_rate_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/future_value_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/ga_angle.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/ga_angle_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/gs_angle.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/gs_angle_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/portfolio_convexity_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/portfolio_duration_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/present_value_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/s_angle_tbl.Rd |only tidyactuarial-0.1.2/tidyactuarial/man/yield_curve_tbl.Rd |only tidyactuarial-0.1.3/tidyactuarial/DESCRIPTION | 27 tidyactuarial-0.1.3/tidyactuarial/MD5 | 191 +- tidyactuarial-0.1.3/tidyactuarial/NAMESPACE | 41 tidyactuarial-0.1.3/tidyactuarial/NEWS.md | 45 tidyactuarial-0.1.3/tidyactuarial/R/a_angle.R | 414 ++--- tidyactuarial-0.1.3/tidyactuarial/R/annuity_arith.R |only tidyactuarial-0.1.3/tidyactuarial/R/annuity_geom.R |only tidyactuarial-0.1.3/tidyactuarial/R/annuity_x.R | 670 +++++++-- tidyactuarial-0.1.3/tidyactuarial/R/annuity_xy.R | 457 +++--- tidyactuarial-0.1.3/tidyactuarial/R/bond_book_value.R | 296 +--- tidyactuarial-0.1.3/tidyactuarial/R/bond_callable_price.R | 256 +-- tidyactuarial-0.1.3/tidyactuarial/R/data-soa08lt.R |only tidyactuarial-0.1.3/tidyactuarial/R/discount_factor_spot.R | 219 +-- tidyactuarial-0.1.3/tidyactuarial/R/forward_rate.R |only tidyactuarial-0.1.3/tidyactuarial/R/future_value.R | 296 +--- tidyactuarial-0.1.3/tidyactuarial/R/insurance_variable_k.R | 4 tidyactuarial-0.1.3/tidyactuarial/R/insurance_x.R | 537 +++++-- tidyactuarial-0.1.3/tidyactuarial/R/insurance_xy.R | 481 ++++-- tidyactuarial-0.1.3/tidyactuarial/R/life_contract.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc-utils.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc_annuity.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc_insurance.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc_loss.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc_multilife_status.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc_premium.R |only tidyactuarial-0.1.3/tidyactuarial/R/mc_reserve.R |only tidyactuarial-0.1.3/tidyactuarial/R/plot_cash_flow.R | 529 +++++-- tidyactuarial-0.1.3/tidyactuarial/R/portfolio_convexity.R |only tidyactuarial-0.1.3/tidyactuarial/R/portfolio_duration.R |only tidyactuarial-0.1.3/tidyactuarial/R/premium_gross.R | 241 +-- tidyactuarial-0.1.3/tidyactuarial/R/premium_x.R | 582 +++++--- tidyactuarial-0.1.3/tidyactuarial/R/premium_xy.R | 664 +++++---- tidyactuarial-0.1.3/tidyactuarial/R/present_value.R | 300 +--- tidyactuarial-0.1.3/tidyactuarial/R/reserve_x.R | 661 +++++---- tidyactuarial-0.1.3/tidyactuarial/R/reserve_xy.R | 716 ++++++---- tidyactuarial-0.1.3/tidyactuarial/R/s_angle.R | 362 +---- tidyactuarial-0.1.3/tidyactuarial/R/simulate_life_mc.R |only tidyactuarial-0.1.3/tidyactuarial/R/simulate_lifetime.R |only tidyactuarial-0.1.3/tidyactuarial/R/simulate_lifetimes.R |only tidyactuarial-0.1.3/tidyactuarial/R/summary_mc.R |only tidyactuarial-0.1.3/tidyactuarial/R/yield_curve.R | 45 tidyactuarial-0.1.3/tidyactuarial/README.md | 20 tidyactuarial-0.1.3/tidyactuarial/data/soa08lt.rda |only tidyactuarial-0.1.3/tidyactuarial/man/a_angle.Rd | 119 - tidyactuarial-0.1.3/tidyactuarial/man/annuity_arith.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/annuity_geom.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/annuity_x.Rd | 176 +- tidyactuarial-0.1.3/tidyactuarial/man/annuity_xy.Rd | 171 -- tidyactuarial-0.1.3/tidyactuarial/man/bond_book_value.Rd | 84 - tidyactuarial-0.1.3/tidyactuarial/man/bond_callable_price.Rd | 84 - tidyactuarial-0.1.3/tidyactuarial/man/bond_convexity.Rd | 6 tidyactuarial-0.1.3/tidyactuarial/man/bond_duration.Rd | 6 tidyactuarial-0.1.3/tidyactuarial/man/bond_price.Rd | 6 tidyactuarial-0.1.3/tidyactuarial/man/bond_ytm.Rd | 6 tidyactuarial-0.1.3/tidyactuarial/man/discount_factor_spot.Rd | 52 tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_annuity_payment_times_annual.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_annuity_payment_times_fractional.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_assert_character_scalar.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_assert_column.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_assert_numeric_column.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_assert_numeric_scalar.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_assert_positive_integer.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_discount_factor.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_effective_rate.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_multilife_status_rank.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_payment_times.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_quantile_names.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/dot-mc_reserve_benefit_info.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/forward_rate.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/future_value.Rd | 107 - tidyactuarial-0.1.3/tidyactuarial/man/fv_flow.Rd | 2 tidyactuarial-0.1.3/tidyactuarial/man/insurance_variable_k.Rd | 4 tidyactuarial-0.1.3/tidyactuarial/man/insurance_x.Rd | 193 +- tidyactuarial-0.1.3/tidyactuarial/man/insurance_xy.Rd | 168 +- tidyactuarial-0.1.3/tidyactuarial/man/interest_equivalents.Rd | 5 tidyactuarial-0.1.3/tidyactuarial/man/irr_flow.Rd | 2 tidyactuarial-0.1.3/tidyactuarial/man/irr_flow_multi.Rd | 2 tidyactuarial-0.1.3/tidyactuarial/man/life_contract.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/mc_annuity.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/mc_insurance.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/mc_loss.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/mc_multilife_status.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/mc_premium.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/mc_reserve.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/plot_cash_flow.Rd | 125 + tidyactuarial-0.1.3/tidyactuarial/man/portfolio_convexity.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/portfolio_duration.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/premium_gross.Rd | 158 +- tidyactuarial-0.1.3/tidyactuarial/man/premium_x.Rd | 243 +-- tidyactuarial-0.1.3/tidyactuarial/man/premium_xy.Rd | 214 +- tidyactuarial-0.1.3/tidyactuarial/man/present_value.Rd | 108 - tidyactuarial-0.1.3/tidyactuarial/man/pv_flow.Rd | 4 tidyactuarial-0.1.3/tidyactuarial/man/reserve_x.Rd | 189 +- tidyactuarial-0.1.3/tidyactuarial/man/reserve_xy.Rd | 201 +- tidyactuarial-0.1.3/tidyactuarial/man/s_angle.Rd | 115 - tidyactuarial-0.1.3/tidyactuarial/man/simulate_annuity_x.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/simulate_insurance_x.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/simulate_lifetime.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/simulate_lifetimes.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/soa08lt.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/standardize_interest.Rd | 5 tidyactuarial-0.1.3/tidyactuarial/man/summary_mc.Rd |only tidyactuarial-0.1.3/tidyactuarial/man/yield_curve.Rd |only tidyactuarial-0.1.3/tidyactuarial/tests/testthat.R | 16 tidyactuarial-0.1.3/tidyactuarial/tests/testthat/test-smoke.R | 15 tidyactuarial-0.1.3/tidyactuarial/tests/testthat/test-soa08lt.R |only 139 files changed, 6098 insertions(+), 4542 deletions(-)
Title: Simulate Agricultural Production and Evolution of Pesticide
Resistance
Description: Simulates individual-based models of agricultural pest management
and the evolution of pesticide resistance. Management occurs on a spatially
explicit landscape that is divided into an arbitrary number of farms that
can grow one of up to 10 crops and apply one of up to 10 pesticides. Pest
genomes are modelled in a way that allows for any number of pest traits with
an arbitrary covariance structure that is constructed using an evolutionary
algorithm in the mine_gmatrix() function. Simulations are then run using the
run_farm_sim() function. This package thereby allows for highly mechanistic
social-ecological models of the evolution of pesticide resistance under
different types of crop rotation and pesticide application regimes.
Author: A. Bradley Duthie [aut, cre] ,
Rose McKeon [aut, ctr],
Rosie Mangan [ctr],
Luc Bussiére [ctr],
Matthew Tinsley [ctr]
Maintainer: A. Bradley Duthie <brad.duthie@gmail.com>
Diff between resevol versions 0.4.0.2 dated 2025-05-01 and 0.4.0.4 dated 2026-05-28
DESCRIPTION | 6 +-- MD5 | 14 ++++---- R/landscape.R | 4 +- inst/doc/advanced_techniques.html | 6 +-- inst/doc/evolutionary_algorithm.html | 55 ++++++++++++++++++----------------- inst/doc/pesticide_thresholds.html | 4 +- inst/doc/resevol.html | 2 - inst/refs.bib | 12 +++++++ 8 files changed, 59 insertions(+), 44 deletions(-)
Title: Crystallographic Information File (CIF) Data Processing Tools
Description: Provides a suite of functions to parse Crystallographic Information
Files (.cif), extracting essential data such as chemical formulas, unit cell
parameters, atomic coordinates, and symmetry operations. It also includes
tools to calculate interatomic distances, identify bonded pairs using various
algorithms (minimum_distance, brunner_nn_reciprocal, econ_nn, crystal_nn), determine nearest
neighbor counts, and calculate bond angles. The package is designed to
facilitate the preparation of crystallographic data for further analysis,
including machine learning applications in materials science.
Methods are described in:
Brunner (1977) <doi:10.1107/S0567739477000461>;
Hoppe (1979) <doi:10.1524/zkri.1979.150.14.23>;
O'Keeffe (1979) <doi:10.1107/S0567739479001765>;
Shannon (1976) <doi:10.1107/S0567739476001551>;
Pan et al. (2021) <doi:10.1021/acs.inorgchem.0c02996>;
Pauling (1960, ISBN:978-0801403330).
Author: Don Ngo [aut, cre] ,
Anirudh Prabhu [aut] ,
Julia-Maria Hubner [aut]
Maintainer: Don Ngo <dngo@carnegiescience.edu>
Diff between crystract versions 1.0.0 dated 2026-03-20 and 1.0.1 dated 2026-05-28
DESCRIPTION | 6 MD5 | 41 +- NEWS.md | 6 R/calculate_properties.R | 2 R/extract_cif_data.R | 101 +++--- R/predict_bonds.R | 4 R/process_cif_files.R | 11 README.md | 55 ++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/crystract.R | 47 +- inst/doc/crystract.Rmd | 107 +++--- inst/doc/crystract.html | 663 ++++++++++++++++++++-------------------- inst/extdata/2405219.cif |only man/aggregate_batch_results.Rd | 2 man/analyze_cif_files.Rd | 2 man/analyze_single_cif.Rd | 2 man/crystal_nn.Rd | 2 man/export_analysis_to_csv.Rd | 2 man/filter_by_wyckoff_symbol.Rd | 2 man/voronoi_nn.Rd | 2 vignettes/crystract.Rmd | 107 +++--- 22 files changed, 641 insertions(+), 523 deletions(-)
Title: Consensus Seriation for Binary Data
Description: Determining consensus seriations for binary incidence matrices, using a two-step process of Procrustes-fit correspondence analysis for heuristic selection of partial seriations and iterative regression to establish a single consensus. Contains the Lakhesis Calculator, a graphical platform for identifying seriated sequences. Collins-Elliott (2026) "Lakhesis: Consensus Seriation via Iterative Regression of Partial Rankings for Binary Data" <doi:10.1080/02664763.2026.2672564>.
Author: Stephen A. Collins-Elliott [aut, cre]
Maintainer: Stephen A. Collins-Elliott <sce@utk.edu>
Diff between lakhesis versions 1.1 dated 2026-04-25 and 1.1.2 dated 2026-05-28
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- README.md | 9 +++++++++ build/partial.rdb |binary inst/CITATION | 6 ++++-- 5 files changed, 21 insertions(+), 10 deletions(-)
Title: Native and Extensible R Driver for 'Zarr'
Description: The 'Zarr' specification is widely used to build libraries for the storage and retrieval of n-dimensional array data from data stores ranging from local file systems to the cloud. This package is a native 'Zarr' implementation in R with support for all required features of 'Zarr' version 3. It is designed to be extensible such that new stores, codecs and extensions can be added easily.
Author: Patrick Van Laake [aut, cre, cph]
Maintainer: Patrick Van Laake <patrick@vanlaake.net>
Diff between zarr versions 0.3.0 dated 2026-04-18 and 0.4.0 dated 2026-05-28
DESCRIPTION | 16 +- MD5 | 76 ++++++--- NAMESPACE | 4 NEWS.md | 14 + R/RcppExports.R |only R/api.R | 15 + R/array.R | 24 ++- R/array_builder.R | 140 ++++++++++++----- R/chunking.R |only R/chunking_regular.R | 231 ++++++++++++++--------------- R/codec.R | 270 ++++++++++++++++++++++++++++++---- R/convention_ref.R | 133 ++++++---------- R/data_types.R | 56 +++---- R/node.R | 29 +++ R/sharding.R |only R/store.R | 40 +++-- R/store_http.R | 63 ++++++- R/store_local.R | 8 - R/uri.R | 74 +++++++++ R/utils.R | 46 +++++ R/zarr.R | 7 R/zzz.R | 1 README.md | 2 man/as_zarr.Rd | 6 man/chunk_grid_regular.Rd | 41 +---- man/chunk_grid_sharded.Rd |only man/chunk_grid_sharded_IO.Rd |only man/chunking.Rd |only man/fill_array_impl.Rd |only man/str.chunk_grid_sharded.Rd |only man/zarr.Rd | 7 man/zarr_array.Rd | 9 - man/zarr_codec_blosc.Rd | 2 man/zarr_codec_bytes.Rd | 9 - man/zarr_codec_sharding.Rd |only man/zarr_codec_ucs4.Rd |only man/zarr_codec_vlenutf8.Rd |only man/zarr_conv_ref.Rd | 49 +++--- man/zarr_conventions.Rd |only man/zarr_data_type.Rd | 2 man/zarr_httpstore.Rd | 9 + src |only tests/testthat/helper-string-arrays.R |only tests/testthat/setup.R |only tests/testthat/test-parallel.R |only tests/testthat/test-sharding.R |only tests/testthat/test-strings.R |only tests/testthat/testdata.zip |only 48 files changed, 941 insertions(+), 442 deletions(-)
Title: Bayesian Adaptive Trial Simulator Software (BATSS) for
Generalised Linear Models
Description: Defines operating characteristics of Bayesian Adaptive Trials considering a generalised linear model response via Monte Carlo simulations of Bayesian GLM fitted via integrated Laplace approximations (INLA).
Author: Dominique-Laurent Couturier [aut, cre] ,
Liz Ryan [aut] ,
Rainer Puhr [aut],
Thomas Jaki [aut] ,
Stephane Heritier [aut]
Maintainer: Dominique-Laurent Couturier <dominique.couturier@mrc-bsu.cam.ac.uk>
Diff between BATSS versions 1.1.1 dated 2025-10-02 and 1.2.0 dated 2026-05-28
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/glm.R | 27 ++++++++++++++++++--------- R/glm_combine.R | 4 ++-- R/glm_internal.R | 48 ++++++++++++++++++++++++++++++------------------ R/plot.batss.R | 12 ++++++------ R/summary.batss.R | 10 +++++----- man/batss.glm.Rd | 2 +- 8 files changed, 72 insertions(+), 51 deletions(-)
Title: Sparse Arrays and Multivariate Polynomials
Description: Sparse arrays interpreted as multivariate polynomials.
Uses 'disordR' discipline (Hankin, 2022,
<doi:10.48550/ARXIV.2210.03856>). To cite the package in
publications please use Hankin (2022) <doi:10.48550/ARXIV.2210.10848>.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between spray versions 1.0-27 dated 2025-01-29 and 1.1-1 dated 2026-05-28
spray-1.0-27/spray/src/spray_init.c |only spray-1.1-1/spray/DESCRIPTION | 12 - spray-1.1-1/spray/MD5 | 57 ++-- spray-1.1-1/spray/NAMESPACE | 2 spray-1.1-1/spray/NEWS.md | 7 spray-1.1-1/spray/R/RcppExports.R | 34 +- spray-1.1-1/spray/R/spray.R | 324 +++++++++++++++++----------- spray-1.1-1/spray/R/spray_ops.R | 10 spray-1.1-1/spray/README.md | 2 spray-1.1-1/spray/build/vignette.rds |binary spray-1.1-1/spray/inst/doc/spray.R | 22 - spray-1.1-1/spray/inst/doc/spray.Rnw | 22 + spray-1.1-1/spray/inst/doc/spray.pdf |binary spray-1.1-1/spray/man/asum.Rd | 10 spray-1.1-1/spray/man/constant.Rd | 8 spray-1.1-1/spray/man/deriv.Rd | 6 spray-1.1-1/spray/man/ooom.Rd | 6 spray-1.1-1/spray/man/pmax.Rd | 46 +-- spray-1.1-1/spray/man/rspray.Rd | 4 spray-1.1-1/spray/man/spray-class.Rd | 12 - spray-1.1-1/spray/man/spray_cpp.Rd | 24 -- spray-1.1-1/spray/man/spraycross.Rd | 14 - spray-1.1-1/spray/man/subs.Rd | 6 spray-1.1-1/spray/man/zap.Rd | 6 spray-1.1-1/spray/man/zero.Rd | 4 spray-1.1-1/spray/src/RcppExports.cpp | 85 ++++--- spray-1.1-1/spray/src/spray_ops.cpp | 312 ++++---------------------- spray-1.1-1/spray/src/spray_ops.h |only spray-1.1-1/spray/tests/testthat/test_aad.R |only spray-1.1-1/spray/vignettes/spray.Rnw | 22 + spray-1.1-1/spray/vignettes/spray.bib | 2 31 files changed, 481 insertions(+), 578 deletions(-)
Title: Interface to the 'Pharmpy' 'Pharmacometrics' Library
Description: Interface to the 'Pharmpy' 'pharmacometrics' library. The 'Reticulate' package is used to interface Python from R.
Author: Rikard Nordgren [aut, cre, cph],
Stella Belin [aut, cph],
Mats O. Karlsson [sad],
Andrew C. Hooker [sad],
Xiaomei Chen [sad],
Sebastian Ueckert [sad] ,
Simon Buatois [rev],
Joao A. Abrantes [rev],
Emilie Schindler [rev],
F. Hoffmann-La Roche Ltd. [fn [...truncated...]
Maintainer: Rikard Nordgren <rikard.nordgren@uu.se>
Diff between pharmr versions 2.1.0 dated 2026-05-11 and 2.1.1 dated 2026-05-28
DESCRIPTION | 12 ++++++------ MD5 | 16 ++++++++-------- NAMESPACE | 3 ++- R/functions_wrapper.R | 4 ++-- R/install.R | 2 +- R/printing.R | 18 ++++++++++++------ R/zzz.R | 1 - README.md | 8 -------- man/run_iivsearch.Rd | 4 ++-- 9 files changed, 33 insertions(+), 35 deletions(-)
Title: Nested Dichotomy Logistic Regression Models
Description: Provides functions for specifying and fitting nested
dichotomy logistic regression models for a multi-category response and
methods for summarising and plotting those models. Nested dichotomies are
statistically independent, and hence provide an additive decomposition
of tests for the overall 'polytomous' response. When the dichotomies
make sense substantively, this method can be a simpler alternative to
the standard 'multinomial' logistic model which compares response
categories to a reference level. See: J. Fox (2016), "Applied
Regression Analysis and Generalized Linear Models", 3rd Ed., ISBN
1452205663.
Author: John Fox [aut] ,
Michael Friendly [aut, cre] ,
Achim Zeileis [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between nestedLogit versions 0.4.0 dated 2026-03-06 and 0.4.2 dated 2026-05-28
DESCRIPTION | 18 MD5 | 85 +- NAMESPACE | 16 NEWS.md | 15 R/RSQ.R |only R/equatiomatic.R |only R/nested.R | 3 R/nestedHypotheses.R | 393 ++++++------ R/nestedMethods.R | 609 +++++++++--------- R/predict.nestedLogit.R | 3 build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST | 29 inst/doc/ggeffects.html | 18 inst/doc/latex-equations.R |only inst/doc/latex-equations.Rmd |only inst/doc/latex-equations.html |only inst/doc/nestedLogit.R | 3 inst/doc/nestedLogit.Rmd | 32 inst/doc/nestedLogit.html | 683 +++++++++++---------- inst/doc/other-examples.R | 6 inst/doc/other-examples.Rmd | 32 inst/doc/other-examples.html | 1359 ++++++++++++++++++++++-------------------- inst/doc/plotting-ggplot.html | 29 man/RSQ.Rd |only man/extract_eq.nestedLogit.Rd |only man/partials/methods.Rmd | 1 vignettes/fig |only vignettes/latex-equations.Rmd |only vignettes/nestedLogit.Rmd | 32 vignettes/other-examples.Rmd | 32 vignettes/references.bib | 102 ++- 32 files changed, 1985 insertions(+), 1515 deletions(-)
Title: Wait for a Key Press in a Terminal
Description: Wait for a single key press at the 'R' prompt. This works in
terminals, but does not currently work in the 'Windows' 'GUI', the
'macOS' 'GUI' ('R.app'), in 'Emacs' 'ESS', in an 'Emacs' shell buffer
or in 'R Studio'. In these cases 'keypress' stops with an error
message.
Author: Gabor Csardi [aut, cre, cph] ,
Jon Griffiths [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between keypress versions 1.3.1 dated 2023-12-10 and 1.3.2 dated 2026-05-28
DESCRIPTION | 36 +++++++++++++++++++++++------------- MD5 | 30 ++++++++++++++++++------------ NEWS.md | 4 ++++ R/keypress.R | 22 +++++++++++++--------- R/rstudio-detect.R | 40 +++++++++++++++++++++++----------------- R/utils.R |only README.md | 11 +++++------ inst/include/keypress.h | 4 ++-- man/keypress.Rd | 4 ++-- man/without_echo.Rd | 2 +- src/init.c | 2 ++ src/keypress-internal.h | 3 +++ src/keypress-unix.c | 30 ++++++++++++++++++++++++++++++ src/keypress-win.c | 11 +++++++++++ tests |only 15 files changed, 137 insertions(+), 62 deletions(-)
Title: Hidden Markov Models for Multivariate Panel Data
Description: Estimates hidden Markov models from the family of Cholesky-decomposed Gaussian hidden Markov models (CDGHMM) under various missingness schemes. This family improves upon estimation of traditional Gaussian HMMs by introducing parsimony, as well as, controlling for dropped out observations and non-random missingness. See Neal, Sochaniwsky and McNicholas (2024) <DOI:10.1007/s11222-024-10462-0>.
Author: Mackenzie R. Neal [aut, cre] ,
Alexa A. Sochaniwsky [aut],
Paul D. McNicholas [aut]
Maintainer: Mackenzie R. Neal <nealm6@mcmaster.ca>
Diff between CDGHMM versions 0.1.3 dated 2026-05-27 and 0.1.4 dated 2026-05-28
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/Support_functions.R | 37 ++++++++++++++----------------------- R/cdghmm.R | 4 ++-- man/cdghmm.Rd | 4 ++-- 5 files changed, 26 insertions(+), 35 deletions(-)
Title: An Interface to the 'AutoDesk' 'API' Platform
Description: An interface to the 'AutoDesk' Platform Services ('APS') 'API' including
the Authentication 'API' for obtaining 'OAuth2' tokens with expiry tracking, Data
Management 'API' for managing buckets and objects across the platform's cloud
services, Design Automation 'API' for running automated tasks on design files in
the cloud, Model Derivative 'API' for translating design files into 'SVF', 'SVF2',
'OBJ', and 'STL' formats and extracting model data, Reality Capture 'API' for
generating 3D models from photogrammetry image sets, and Viewer for rendering 2D
and 3D models in 'Shiny' applications.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between AutoDeskR versions 0.1.5 dated 2024-09-10 and 0.5.0 dated 2026-05-28
AutoDeskR-0.1.5/AutoDeskR/build |only AutoDeskR-0.1.5/AutoDeskR/inst/doc |only AutoDeskR-0.1.5/AutoDeskR/vignettes |only AutoDeskR-0.5.0/AutoDeskR/DESCRIPTION | 40 - AutoDeskR-0.5.0/AutoDeskR/MD5 | 112 ++- AutoDeskR-0.5.0/AutoDeskR/NAMESPACE | 50 + AutoDeskR-0.5.0/AutoDeskR/NEWS.md | 111 +++ AutoDeskR-0.5.0/AutoDeskR/R/authentication.R | 55 - AutoDeskR-0.5.0/AutoDeskR/R/dataManagement.R | 306 ++++++++-- AutoDeskR-0.5.0/AutoDeskR/R/designAutomation.R | 149 +--- AutoDeskR-0.5.0/AutoDeskR/R/mcp.R |only AutoDeskR-0.5.0/AutoDeskR/R/modelDerivative.R | 362 +++++++----- AutoDeskR-0.5.0/AutoDeskR/R/print.R |only AutoDeskR-0.5.0/AutoDeskR/R/realityCapture.R |only AutoDeskR-0.5.0/AutoDeskR/R/utils.R |only AutoDeskR-0.5.0/AutoDeskR/R/viewer.R | 10 AutoDeskR-0.5.0/AutoDeskR/README.md | 93 ++- AutoDeskR-0.5.0/AutoDeskR/inst/CITATION | 6 AutoDeskR-0.5.0/AutoDeskR/inst/images/make_stickers.R |only AutoDeskR-0.5.0/AutoDeskR/inst/images/sticker1_cube.png |only AutoDeskR-0.5.0/AutoDeskR/inst/images/sticker2_building.png |only AutoDeskR-0.5.0/AutoDeskR/inst/images/sticker3_network.png |only AutoDeskR-0.5.0/AutoDeskR/inst/mcp-server.R |only AutoDeskR-0.5.0/AutoDeskR/inst/viewer3D/headless.html | 85 +- AutoDeskR-0.5.0/AutoDeskR/inst/viewer3D/template.html | 30 AutoDeskR-0.5.0/AutoDeskR/inst/viewer3D/vr.html | 53 - AutoDeskR-0.5.0/AutoDeskR/man/aps_error.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/as_tibble.listBuckets.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/as_tibble.listObjects.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/autodeskr_mcp_tools.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/checkBucket.Rd | 2 AutoDeskR-0.5.0/AutoDeskR/man/checkFile.Rd | 4 AutoDeskR-0.5.0/AutoDeskR/man/checkPdf.Rd | 33 - AutoDeskR-0.5.0/AutoDeskR/man/checkPhotoscene.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/createPhotoscene.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/deleteBucket.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/deleteObject.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/downloadFile.Rd | 24 AutoDeskR-0.5.0/AutoDeskR/man/figures |only AutoDeskR-0.5.0/AutoDeskR/man/getData.Rd | 6 AutoDeskR-0.5.0/AutoDeskR/man/getMetadata.Rd | 4 AutoDeskR-0.5.0/AutoDeskR/man/getObjectTree.Rd | 8 AutoDeskR-0.5.0/AutoDeskR/man/getOutputUrn.Rd | 6 AutoDeskR-0.5.0/AutoDeskR/man/getToken.Rd | 19 AutoDeskR-0.5.0/AutoDeskR/man/is_expired.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/listBuckets.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/listObjects.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/makeBucket.Rd | 5 AutoDeskR-0.5.0/AutoDeskR/man/makePdf.Rd | 18 AutoDeskR-0.5.0/AutoDeskR/man/processPhotoscene.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/translateObj.Rd | 8 AutoDeskR-0.5.0/AutoDeskR/man/translateStl.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/translateSvf.Rd | 4 AutoDeskR-0.5.0/AutoDeskR/man/translateSvf2.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/uploadFile.Rd | 5 AutoDeskR-0.5.0/AutoDeskR/man/uploadFileSigned.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/uploadImages.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/waitForFile.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/waitForPhotoscene.Rd |only AutoDeskR-0.5.0/AutoDeskR/man/waitForWorkItem.Rd |only AutoDeskR-0.5.0/AutoDeskR/tests |only 61 files changed, 1046 insertions(+), 562 deletions(-)
More information about SSReliabilityClaytonMWD at CRAN
Permanent link
Title: Native Raster Image Tools
Description: Native rasters are a core R image format which use a compact
color representation. This color representation closely aligns with
graphics device internals meaning that these images can be rendered quickly.
This package provides functions to quickly create, manipulate and composite native
rasters.
Author: Mike Cheng [aut, cre, cph],
Julien Vernay [ctb]
Maintainer: Mike Cheng <mikefc@coolbutuseless.com>
Diff between nara versions 1.0.1 dated 2026-05-27 and 1.0.2 dated 2026-05-28
DESCRIPTION | 8 ++--- MD5 | 70 ++++++++++++++++++++++---------------------- NEWS.md | 6 +++ build/vignette.rds |binary inst/doc/blitting.html | 12 +++---- inst/doc/conversion.html | 14 ++++---- inst/doc/masks.html | 4 +- inst/doc/triangles.html | 8 ++--- inst/include/private/nara.h | 9 +++-- man/magick_to_nr.Rd | 16 +++------- man/matrix_to_nr.Rd | 10 +++--- man/nara-package.Rd | 5 +++ man/nr_blit.Rd | 4 +- man/nr_blit_multi.Rd | 4 +- man/nr_circle.Rd | 10 +++--- man/nr_color_replace.Rd | 8 ++--- man/nr_copy.Rd | 4 +- man/nr_desaturate.Rd | 8 ++--- man/nr_dither.Rd | 8 ++--- man/nr_fliph.Rd | 8 ++--- man/nr_flipv.Rd | 8 ++--- man/nr_new.Rd | 4 +- man/nr_polygon.Rd | 10 +++--- man/nr_polyline.Rd | 10 +++--- man/nr_rect.Rd | 10 +++--- man/nr_resize.Rd | 4 +- man/nr_rotate.Rd | 8 ++--- man/nr_scale.Rd | 4 +- man/nr_threshold.Rd | 8 ++--- man/nr_to_raster.Rd | 10 +++--- man/nr_transpose.Rd | 8 ++--- man/nr_tri_mesh.Rd | 10 +++--- man/nrs_to_gif.Rd | 10 +++--- man/nrs_to_mp4.Rd | 10 +++--- src/init-decls.h | 2 - src/init.c | 4 +- 36 files changed, 170 insertions(+), 166 deletions(-)
Title: API Wrapper for 'Ipeadata'
Description: Provides direct access to the macroeconomic, financial,
and regional database maintained by the Institute for
Applied Economic Research (Ipea) via the Ipeadata API.
For more information, see <https://www.ipeadata.gov.br/>.
Author: Luiz Eduardo Gomes [aut, cre] ,
Daniel Herszenhut [ctb] ,
Instituto de Pesquisa Economica Aplicada [cph, fnd]
Maintainer: Luiz Eduardo Gomes <luiz.gomes@ipea.gov.br>
Diff between ipeadatar versions 0.1.6 dated 2022-02-03 and 0.2.0 dated 2026-05-28
ipeadatar-0.1.6/ipeadatar/R/ipeadata_pkg.R |only ipeadatar-0.1.6/ipeadatar/inst/doc/intro-ipeadatar.R |only ipeadatar-0.1.6/ipeadatar/inst/doc/intro-ipeadatar.Rmd |only ipeadatar-0.1.6/ipeadatar/inst/doc/intro-ipeadatar.html |only ipeadatar-0.1.6/ipeadatar/man/available_countries.Rd |only ipeadatar-0.1.6/ipeadatar/tests/testthat/test-skip_ipeadata.R |only ipeadatar-0.1.6/ipeadatar/tests/testthat/test-skip_metadata.R |only ipeadatar-0.1.6/ipeadatar/vignettes/intro-ipeadatar.Rmd |only ipeadatar-0.2.0/ipeadatar/DESCRIPTION | 67 ++++--- ipeadatar-0.2.0/ipeadatar/LICENSE | 4 ipeadatar-0.2.0/ipeadatar/MD5 | 55 ++++-- ipeadatar-0.2.0/ipeadatar/NAMESPACE | 5 ipeadatar-0.2.0/ipeadatar/NEWS.md |only ipeadatar-0.2.0/ipeadatar/R/available_series.R |only ipeadatar-0.2.0/ipeadatar/R/available_subjects.R |only ipeadatar-0.2.0/ipeadatar/R/available_territories.R |only ipeadatar-0.2.0/ipeadatar/R/ipeadata.R |only ipeadatar-0.2.0/ipeadatar/R/ipeadatar-package.R |only ipeadatar-0.2.0/ipeadatar/R/metadata.R |only ipeadatar-0.2.0/ipeadatar/R/search_series.R |only ipeadatar-0.2.0/ipeadatar/R/sysdata.rda |only ipeadatar-0.2.0/ipeadatar/build/vignette.rds |binary ipeadatar-0.2.0/ipeadatar/inst/WORDLIST |only ipeadatar-0.2.0/ipeadatar/inst/doc/ipeadatar.R |only ipeadatar-0.2.0/ipeadatar/inst/doc/ipeadatar.Rmd |only ipeadatar-0.2.0/ipeadatar/inst/doc/ipeadatar.html |only ipeadatar-0.2.0/ipeadatar/man/available_series.Rd | 21 +- ipeadatar-0.2.0/ipeadatar/man/available_subjects.Rd | 17 + ipeadatar-0.2.0/ipeadatar/man/available_territories.Rd | 43 ++-- ipeadatar-0.2.0/ipeadatar/man/figures |only ipeadatar-0.2.0/ipeadatar/man/ipeadata.Rd | 86 +++++---- ipeadatar-0.2.0/ipeadatar/man/ipeadatar-package.Rd |only ipeadatar-0.2.0/ipeadatar/man/metadata.Rd | 89 +++++----- ipeadatar-0.2.0/ipeadatar/man/search_series.Rd | 63 +++---- ipeadatar-0.2.0/ipeadatar/tests/spelling.R |only ipeadatar-0.2.0/ipeadatar/tests/testthat.R | 8 ipeadatar-0.2.0/ipeadatar/tests/testthat/test-available_series.R |only ipeadatar-0.2.0/ipeadatar/tests/testthat/test-available_subjects.R |only ipeadatar-0.2.0/ipeadatar/tests/testthat/test-available_territories.R |only ipeadatar-0.2.0/ipeadatar/tests/testthat/test-ipeadata.R |only ipeadatar-0.2.0/ipeadatar/tests/testthat/test-metadata.R |only ipeadatar-0.2.0/ipeadatar/tests/testthat/test-search_series.R |only ipeadatar-0.2.0/ipeadatar/vignettes/ipeadatar.Rmd |only 43 files changed, 254 insertions(+), 204 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Provides functions for the identification, classification, and
ranking of influential nodes and candidate features from network and omics
data. The package implements the Integrated Value of Influence (IVI) for
integrative network centrality analysis, the SIR-based Influence Ranking
(SIRIR) model for unsupervised influence ranking, and the Experimental
data-based Integrative Ranking (ExIR) model for prioritizing candidate
driver, biomarker, and mediator features from experimental omics data.
Functions are provided for network reconstruction from adjacency matrices
and data frames, topological analysis, centrality calculation, assessment
of associations between centrality measures, and conditional probability
analysis. ExIR supports bulk and single-cell omics data, including matrices,
sparse matrices, data frames, tibbles, and Seurat objects.
Author: Adrian Salavaty [aut, cre] ,
Mirana Ramialison [ths],
Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.3.0 dated 2026-02-13 and 2.3.1 dated 2026-05-28
influential-2.3.0/influential/R/functions.R |only influential-2.3.1/influential/DESCRIPTION | 36 influential-2.3.1/influential/MD5 | 99 - influential-2.3.1/influential/NAMESPACE | 2 influential-2.3.1/influential/NEWS.md | 157 + influential-2.3.1/influential/R/RcppExports.R |only influential-2.3.1/influential/R/cent-network-vis.R |only influential-2.3.1/influential/R/centrality-betweenness.R |only influential-2.3.1/influential/R/centrality-clusterRank.R |only influential-2.3.1/influential/R/centrality-collective-influence.R |only influential-2.3.1/influential/R/centrality-h-index.R |only influential-2.3.1/influential/R/centrality-hubness-score.R |only influential-2.3.1/influential/R/centrality-ivi-from-indices.R |only influential-2.3.1/influential/R/centrality-ivi.R |only influential-2.3.1/influential/R/centrality-lh-index.R |only influential-2.3.1/influential/R/centrality-neighborhood-connectivity.R |only influential-2.3.1/influential/R/centrality-spreading-score.R |only influential-2.3.1/influential/R/comp-manipulate.R |only influential-2.3.1/influential/R/cond-prob-analysis.R |only influential-2.3.1/influential/R/double-cent-assess-noRegression.R |only influential-2.3.1/influential/R/double-cent-assess.R |only influential-2.3.1/influential/R/exir-diff-data-assembly.R |only influential-2.3.1/influential/R/exir-vis.R |only influential-2.3.1/influential/R/exir.R |only influential-2.3.1/influential/R/fcor.R |only influential-2.3.1/influential/R/globals.R |only influential-2.3.1/influential/R/helpers.R |only influential-2.3.1/influential/R/igraph-reexports.R |only influential-2.3.1/influential/R/influential-package.R |only influential-2.3.1/influential/R/shiny.R |only influential-2.3.1/influential/R/sif2igraph.R |only influential-2.3.1/influential/R/sirir.R |only influential-2.3.1/influential/README.md | 29 influential-2.3.1/influential/inst/CITATION | 46 influential-2.3.1/influential/inst/doc/Vignettes.R | 194 +- influential-2.3.1/influential/inst/doc/Vignettes.Rmd | 341 +++ influential-2.3.1/influential/inst/doc/Vignettes.html | 878 ++++++---- influential-2.3.1/influential/man/betweenness.Rd | 7 influential-2.3.1/influential/man/cent_network.vis.Rd | 2 influential-2.3.1/influential/man/clusterRank.Rd | 2 influential-2.3.1/influential/man/collective.influence.Rd | 2 influential-2.3.1/influential/man/comp_manipulate.Rd | 2 influential-2.3.1/influential/man/cond.prob.analysis.Rd | 2 influential-2.3.1/influential/man/diff_data.assembly.Rd | 2 influential-2.3.1/influential/man/double.cent.assess.Rd | 2 influential-2.3.1/influential/man/double.cent.assess.noRegression.Rd | 2 influential-2.3.1/influential/man/exir.Rd | 133 + influential-2.3.1/influential/man/exir.vis.Rd | 2 influential-2.3.1/influential/man/fcor.Rd | 63 influential-2.3.1/influential/man/h_index.Rd | 2 influential-2.3.1/influential/man/hubness.score.Rd | 2 influential-2.3.1/influential/man/igraph-reexports.Rd |only influential-2.3.1/influential/man/influential-package.Rd | 2 influential-2.3.1/influential/man/ivi.Rd | 2 influential-2.3.1/influential/man/ivi.from.indices.Rd | 2 influential-2.3.1/influential/man/lh_index.Rd | 2 influential-2.3.1/influential/man/neighborhood.connectivity.Rd | 2 influential-2.3.1/influential/man/reexports.Rd | 2 influential-2.3.1/influential/man/runShinyApp.Rd | 2 influential-2.3.1/influential/man/sif2igraph.Rd | 2 influential-2.3.1/influential/man/sirir.Rd | 2 influential-2.3.1/influential/man/spreading.score.Rd | 2 influential-2.3.1/influential/src |only influential-2.3.1/influential/vignettes/Vignettes.Rmd | 341 +++ influential-2.3.1/influential/vignettes/influentialVignette.css | 472 +++-- 65 files changed, 2091 insertions(+), 749 deletions(-)
Title: Open-Access Computational Biology Datasets
Description: Efficiently access the 'Bedrock Bio' library of open-access
computational biology datasets. Lazily query datasets backed by 'DuckDB'
and 'Apache Iceberg', with support for predicate pushdown and column
projection to the cloud storage backend. This enables quick, iterative
access to otherwise massive, unwieldy datasets without downloading them
in full. See <https://bedrock.bio> for available datasets and
documentation.
Author: Liam Abbott [aut, cre, cph]
Maintainer: Liam Abbott <liam@bedrock.bio>
Diff between bedrockbio versions 1.3.1 dated 2026-05-18 and 1.4.0 dated 2026-05-28
DESCRIPTION | 11 +--- MD5 | 24 +++++--- NAMESPACE | 2 NEWS.md | 6 ++ R/describe_namespace.R |only R/describe_table.R | 2 R/list_namespaces.R |only R/utils.R | 85 ++++++++++++++++++++----------- README.md | 40 ++++++++------ man/bedrockbio-package.Rd | 4 - man/describe_namespace.Rd |only man/describe_table.Rd | 2 man/list_namespaces.Rd |only tests/testthat/test-describe_namespace.R |only tests/testthat/test-list_namespaces.R |only tests/testthat/test-utils.R | 66 ++++++++++++++---------- 16 files changed, 149 insertions(+), 93 deletions(-)
Title: An Improved Wrapper of image()
Description: This is a wrapper function for image(), which makes reasonable
raster plots with nice axis and other useful features.
Author: Martin Seilmayer [aut, cre]
Maintainer: Martin Seilmayer <martin.seilmayer@dhsn.de>
Diff between rasterImage versions 0.4.0 dated 2019-10-14 and 0.4.1 dated 2026-05-28
rasterImage-0.4.0/rasterImage/NEWS.md |only rasterImage-0.4.1/rasterImage/DESCRIPTION | 18 + rasterImage-0.4.1/rasterImage/MD5 | 10 rasterImage-0.4.1/rasterImage/NEWS |only rasterImage-0.4.1/rasterImage/R/colorPalette.R | 242 +++++++++++----------- rasterImage-0.4.1/rasterImage/man/colorPalette.Rd | 104 ++++----- rasterImage-0.4.1/rasterImage/man/rasterImage2.Rd | 175 ++++++++------- 7 files changed, 284 insertions(+), 265 deletions(-)
Title: Evolutionary Transcriptomics
Description: Investigate the evolution of biological processes by capturing evolutionary signatures in transcriptomes (Drost et al. (2018) <doi:10.1093/bioinformatics/btx835>). This package aims to provide a transcriptome analysis environment to quantify the average evolutionary age of genes contributing to a transcriptome of interest.
Author: Hajk-Georg Drost [aut, cre] ,
Stefan Manolache [aut, ctb] ,
Jaruwatana Sodai Lotharukpong [aut, ctb] ,
Nikola Kalabova [aut, ctb] ,
Filipa Martins Costa [aut, ctb],
Kristian K Ullrich [aut, ctb]
Maintainer: Hajk-Georg Drost <hajk-georg.drost@tuebingen.mpg.de>
Diff between myTAI versions 2.3.5 dated 2026-02-05 and 2.3.6 dated 2026-05-28
DESCRIPTION | 8 - MD5 | 28 ++-- NEWS.md | 4 build/vignette.rds |binary inst/doc/myTAI.html | 2 inst/doc/other-strata.html | 4 inst/doc/phylo-expression-object.html | 6 inst/doc/tai-gallery.html | 88 ++++++------- inst/doc/tai-stats.html | 56 ++++---- inst/doc/tai-transform.html | 16 +- inst/doc/taxonomy.R | 66 +++++----- inst/doc/taxonomy.Rmd | 36 +++-- inst/doc/taxonomy.html | 223 +++++----------------------------- man/plot_signature.Rd | 5 vignettes/taxonomy.Rmd | 36 +++-- 15 files changed, 229 insertions(+), 349 deletions(-)
More information about fable.bayesRecon at CRAN
Permanent link
Title: Assessing Skill of Climate Forecasts on Seasonal-to-Decadal
Timescales
Description: Exploits dynamical seasonal forecasts in order to provide
information relevant to stakeholders at the seasonal timescale. The package
contains process-based methods for forecast calibration, bias correction,
statistical and stochastic downscaling, optimal forecast combination and
multivariate verification, as well as basic and advanced tools to obtain
tailored products. This package was developed in the context of the ERA4CS
project MEDSCOPE and the H2020 S2S4E project and includes contributions from
ArticXchange project founded by EU-PolarNet 2. Implements methods described in
Pérez-Zanón et al. (2022) <doi:10.5194/gmd-15-6115-2022>,
Doblas-Reyes et al. (2005) <doi:10.1111/j.1600-0870.2005.00104.x>,
Mishra et al. (2018) <doi:10.1007/s00382-018-4404-z>,
Sanchez-Garcia et al. (2019) <doi:10.5194/asr-16-165-2019>,
Straus et al. (2007) <doi:10.1175/JCLI4070.1>,
Terzago et al. (2018) <doi:10.5194/nhess-18-2825-2018>,
Torralba et al. (2017) <doi:10.117 [...truncated...]
Author: Nuria Perez-Zanon [aut] ,
Louis-Philippe Caron [aut] ,
Carmen Alvarez-Castro [aut] ,
Lauriane Batte [aut],
Carlos Delgado [aut],
Jost von Hardenberg [aut] ,
Llorenc LLedo [aut],
Nicolau Manubens [aut],
Lluis Palma [aut],
Eroteida Sanchez-Garcia [aut] [...truncated...]
Maintainer: Victoria Agudetse <victoria.agudetse@bsc.es>
Diff between CSTools versions 5.3.1 dated 2026-03-17 and 5.3.2 dated 2026-05-28
DESCRIPTION | 8 - MD5 | 44 +++--- NEWS.md | 11 + R/CST_QuantileMapping.R | 105 ++++++++------- R/CST_Subset.R | 22 ++- build/partial.rdb |binary build/vignette.rds |binary data/lonlat_prec.rda |binary data/lonlat_prec_st.rda |binary data/lonlat_temp.rda |binary data/lonlat_temp_st.rda |binary inst/doc/Analogs_vignette.html | 199 ++++++++++++++++------------- inst/doc/BestEstimateIndex_vignette.html | 134 +++++++------------ inst/doc/Data_Considerations.html | 202 +++++++++++++++++------------- inst/doc/ENSclustering_vignette.html | 206 +++++++++++++++++------------- inst/doc/MostLikelyTercile_vignette.html | 202 +++++++++++++++++------------- inst/doc/MultiModelSkill_vignette.html | 198 ++++++++++++++++------------- inst/doc/MultivarRMSE_vignette.html | 194 ++++++++++++++++------------ inst/doc/PlotForecastPDF.html | 200 +++++++++++++++++------------ inst/doc/RainFARM_vignette.R | 182 +++++++++++++-------------- inst/doc/RainFARM_vignette.html | 199 ++++++++++++++++------------- inst/doc/WeatherRegimes_vignette.html | 208 +++++++++++++++++-------------- man/CST_Subset.Rd | 16 ++ 23 files changed, 1305 insertions(+), 1025 deletions(-)
Title: Spectral Modularity Clustering
Description: Implements the network clustering algorithm described in
Newman (2006) <doi:10.1103/PhysRevE.74.036104>. The complete
iterative algorithm comprises of two steps. In the first step, the
network is expressed in terms of its leading eigenvalue and
eigenvector and recursively partition into two communities.
Partitioning occurs if the maximum positive
eigenvalue is greater than the tolerance (10e-5) for the current
partition, and if it results in a positive contribution to the
Modularity.
Given an initial separation using the leading eigen step, 'rSpectral'
then continues to maximise for the change in Modularity using a
fine-tuning step - or variate thereof. The first stage here is to
find the node which, when moved from one community to another,
gives the maximum change in Modularity. This node’s community is
then fixed and we repeat the process until all nodes have been moved.
The whole process is repeated from this new state until the change
in the Modularity, between the new and o [...truncated...]
Author: Colin Mclean [aut] ,
Anatoly Sorokin [aut, cre]
Maintainer: Anatoly Sorokin <lptolik@gmail.com>
Diff between rSpectral versions 1.0.0.14 dated 2025-12-07 and 1.0.0.16 dated 2026-05-28
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/igraph.R | 6 +++++- build/partial.rdb |binary man/spectral_igraph_communities.Rd | 2 ++ man/spectral_igraph_membership.Rd | 2 ++ tests/testthat/test-igraph.R | 9 ++++++++- 7 files changed, 28 insertions(+), 13 deletions(-)
Title: Wrapper for MUMPS Library
Description: Some basic features of 'MUMPS' (Multifrontal Massively Parallel
sparse direct Solver) are wrapped in a class whose methods can be used
for sequentially solving a sparse linear system (symmetric or not)
with one or many right hand sides (dense or sparse).
There is a possibility to do separately symbolic analysis,
LU (or LDL^t) factorization and system solving.
Third part ordering libraries are included and can be used: 'PORD', 'METIS', 'SCOTCH'.
'MUMPS' method was first described in Amestoy et al. (2001) <doi:10.1137/S0895479899358194>
and Amestoy et al. (2006) <doi:10.1016/j.parco.2005.07.004>.
Author: Serguei Sokol [aut, cre],
Emmanuel Agullo [ctb],
Patrick Amestoy [ctb, cph],
Maurice Bremond [ctb],
Alfredo Buttari [ctb],
Philippe Combes [ctb],
Marie Durand [ctb],
Aurelia Fevre [ctb],
Abdou Guermouche [ctb],
Guillaume Joslin [ctb],
Jacko Koster [c [...truncated...]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between rmumps versions 5.2.1-42 dated 2026-05-26 and 5.2.1-43 dated 2026-05-28
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS | 11 ++++++++--- src/init.c | 3 ++- 4 files changed, 16 insertions(+), 10 deletions(-)
Title: Tidy Tools for Joinpoint Regression Models
Description: Provides tools to fit joinpoint regression models with a log-linear
specification by levels of a categorical variable. The package acts as a
wrapper around the 'segmented' package, facilitating model fitting, selection,
and interpretation. It includes functions to estimate the Annual Percent Change
(APC) and the Average Annual Percent Change (AAPC), along with their 95%
confidence intervals, and to generate formatted summary tables and plots of results.
Author: Tamara Ricardo [aut, cre]
Maintainer: Tamara Ricardo <tamararicardo83@gmail.com>
Diff between joinpointR versions 0.6.0 dated 2026-05-19 and 0.6.2 dated 2026-05-28
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 7 ++++--- R/model_jp.R | 9 +++++---- 4 files changed, 16 insertions(+), 14 deletions(-)
Title: Accessing FDIC Bank Data
Description: A system provides a set of functions for
working with data from the Federal Deposit Insurance Corporation
(FDIC), including retrieving financial data for FDIC-insured
institutions and accessing the data taxonomy.
Author: Ugur Dar [aut, cre],
Brian Pillmore [aut, cph]
Maintainer: Ugur Dar <ugurdarr@gmail.com>
This is a re-admission after prior archival of version 0.1.1 dated 2024-09-12
Diff between fdicdata versions 0.1.1 dated 2024-09-12 and 0.1.2 dated 2026-05-28
DESCRIPTION | 12 ++- MD5 | 63 ++++++++++--------- NAMESPACE | 5 + R/cert2idrssd.R | 32 ++++----- R/dataTaxonomy.R | 29 ++++---- R/getFailures.R | 18 +++-- R/getFinancials.R | 22 +++--- R/getHistory.R | 20 +++--- R/getInstitution.R | 19 +++-- R/getInstitutionsAll.R | 24 +++---- R/getLocation.R | 20 +++--- R/getSummary.R | 17 +++-- R/getTaxonomy.R | 29 ++++++-- R/utils_fetch.R |only README.md | 2 man/cert2idrssd.Rd | 5 + man/dataTaxonomy.Rd | 9 +- man/getFailures.Rd | 5 + man/getFinancials.Rd | 9 +- man/getHistory.Rd | 8 +- man/getInstitution.Rd | 5 + man/getInstitutionsAll.Rd | 11 ++- man/getLocation.Rd | 7 +- man/getSummary.Rd | 5 + man/getTaxonomy.Rd | 16 +++- man/idrssd2cert.Rd | 5 + tests/testthat/helper-skip.R |only tests/testthat/test-getFailures.R | 6 - tests/testthat/test-getFinancials.R | 102 +++++++++++++++---------------- tests/testthat/test-getHistory.R | 6 + tests/testthat/test-getInstitution.R | 8 +- tests/testthat/test-getInstitutionsAll.R |only tests/testthat/test-getLocation.R | 7 +- tests/testthat/test-getSummary.R | 6 + 34 files changed, 309 insertions(+), 223 deletions(-)
More information about cellkeyperturbation at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-06 1.2.0
2019-10-07 1.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-08-07 1.0.0
2022-02-09 0.3.0
2020-10-21 0.2.6
2020-10-02 0.2.5
2018-12-18 0.2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-03 0.1.21
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-13 0.9.6.2
2021-01-14 0.9.4
2020-09-02 0.9.2
2020-08-31 0.9.0
2020-08-28 0.8.9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-13 0.1.0
Title: Estimation and Inference for Boundary Discontinuity Designs
Description: Provides pointwise and uniform estimation and inference methods for boundary discontinuity (BD) designs,
a causal inference design that generalizes univariate regression discontinuity (RD) designs to settings with bivariate scores.
Implements local polynomial methods for location-based and distance-based analyses, including sharp and fuzzy designs,
data-driven bandwidth selection, pointwise confidence intervals, and uniform confidence bands. Methodology is developed in
Cattaneo, Titiunik, and Yu (2026) <doi:10.48550/arXiv.2505.05670> for location-based methods and
Cattaneo, Titiunik, and Yu (2026) <doi:10.48550/arXiv.2510.26051> for distance-based methods.
For an overview and empirical guidance, see Cattaneo, Titiunik, and Yu (2026) <doi:10.48550/arXiv.2511.06474>.
The companion software article is Cattaneo, Titiunik, and Yu (2025) <doi:10.48550/arXiv.2505.07989>.
Author: Matias D. Cattaneo [aut, cre],
Rocio Titiunik [aut],
Ruiqi Rae Yu [aut]
Maintainer: Matias D. Cattaneo <matias.d.cattaneo@gmail.com>
Diff between rd2d versions 0.2.0 dated 2026-05-23 and 1.0.0 dated 2026-05-28
DESCRIPTION | 6 MD5 | 41 - NAMESPACE | 10 NEWS.md | 25 R/rd2d-package.R | 6 R/rd2d.R | 359 ++++++-- R/rd2d_distance.R | 186 ++-- R/rd2d_distance_fn.R | 369 +++++++-- R/rd2d_fn.R | 1184 +++++++++++++++++++++-------- R/rd2d_methods.R |only R/rdbw2d.R | 259 +++++- R/rdbw2d_distance.R | 105 ++ man/coef.rd2d.Rd |only man/confint.rd2d.Rd |only man/plot.rd2d.Rd |only man/rd2d-package.Rd | 6 man/rd2d.Rd | 24 man/rd2d.distance.Rd | 22 man/rdbw2d.Rd | 30 man/rdbw2d.distance.Rd | 29 man/vcov.rd2d.Rd |only tests/testthat/test-distance-methods.R | 401 +++++++++ tests/testthat/test-numerical-regression.R | 532 ++++++++++++- tests/testthat/test-package.R | 101 +- 24 files changed, 2994 insertions(+), 701 deletions(-)
Title: Work with Microsoft Access Files
Description: Work with Microsoft Access '.mdb' and '.accdb' files using the
open source 'MDB Tools' library <https://github.com/mdbtools/mdbtools/>.
The library is compiled and bundled with the package, so no external
installation is required. Provides high-level helpers for reading tables,
exporting to CSV or JSON, inspecting table definitions, and running SQL queries.
Also exposes a full read-only 'DBI' interface for use with standard
database workflows.
Author: Kiernan Nicholls [aut, cre, cph] ,
Bruno Tremblay [ctb]
Maintainer: Kiernan Nicholls <k5cents@gmail.com>
Diff between mdbr versions 0.3.0 dated 2026-05-23 and 0.3.1 dated 2026-05-28
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 2 ++ src/Makevars.in | 2 +- src/mdb_native.c | 7 +++++-- src/mdbtools/include/mdbtools.h | 4 ++++ 6 files changed, 20 insertions(+), 11 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-05-25 2.2.2
2026-05-15 2.2.1
2026-04-22 2.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-05-27 1.0.0
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description: Contains functions for multiple imputation which
complements existing functionality in R.
In particular, several imputation methods for the
mice package (van Buuren & Groothuis-Oudshoorn, 2011,
<doi:10.18637/jss.v045.i03>) are implemented.
Main features of the miceadds package include
plausible value imputation (Mislevy, 1991,
<doi:10.1007/BF02294457>), multilevel imputation for
variables at any level or with any number of hierarchical
and non-hierarchical levels (Grund, Luedtke & Robitzsch,
2018, <doi:10.1177/1094428117703686>; van Buuren, 2018,
Ch.7, <doi:10.1201/9780429492259>), imputation using
partial least squares (PLS) for high dimensional
predictors (Robitzsch, Pham & Yanagida, 2016),
nested multiple imputation (Rubin, 2003,
<doi:10.1111/1467-9574.00217>), substantive model
compatible imputation (Bartlett et al., 2015,
<doi:10.1177/0962280214521348>), and features
for the generation of synthetic datasets
(Reiter, 2005, <doi:10. [...truncated...]
Author: Alexander Robitzsch [aut, cre] ,
Simon Grund [aut] ,
Thorsten Henke [ctb]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 3.19-16 dated 2026-03-13 and 3.20-10 dated 2026-05-28
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/RcppExports.R | 2 +- R/mice.impute.pls.R | 4 ++-- R/mice_imputation_extract_list_arguments.R | 5 ++++- R/mice_imputation_pls_estimate_pls_regression.R | 11 +++-------- build/partial.rdb |binary inst/NEWS | 11 +++++++++++ src/RcppExports.cpp | 2 +- 9 files changed, 34 insertions(+), 25 deletions(-)
Title: Monte Carlo Maximum Likelihood and Analysis of Generalised
Linear Mixed Models
Description: Specification, analysis, simulation, and fitting of generalised linear mixed models.
Monte Carlo Maximum likelihood model fitting for a range of models,
non-linear fixed effect specifications, a wide range of flexible covariance functions including
Gaussian Process approximations. Methods described in Watson, Wang, and Giorgi (2026) <doi:10.48550/arXiv.2601.16022>.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
This is a re-admission after prior archival of version 1.4.0 dated 2026-04-29
Diff between glmmrBase versions 1.4.0 dated 2026-04-29 and 1.4.1 dated 2026-05-28
DESCRIPTION | 21 +++++++------ MD5 | 22 +++++++------- R/R6Model.R | 10 +++--- R/R6covariance.R | 28 +---------------- R/R6meanfunction.R | 3 - R/lme4_functions.R | 55 ++++++++++++++++++----------------- build/partial.rdb |binary inst/include/glmmr/randomeffects.hpp | 2 - man/Model.Rd | 17 +++++++--- man/mcml_glmer.Rd | 17 +++------- man/mcml_lmer.Rd | 13 +++----- src/model_module.cpp | 2 - 12 files changed, 84 insertions(+), 106 deletions(-)
Title: Comparing and Visualizing Differences Between Surveys
Description: Easily analyze and visualize differences between samples (e.g., benchmark comparisons, nonresponse comparisons in surveys) on three levels. The comparisons can be univariate, bivariate or multivariate. On univariate level the variables of interest of a survey and a comparison survey (i.e. benchmark) are compared, by calculating one of several difference measures (e.g., relative difference in mean), and an average difference between the surveys. On bivariate level a function can calculate significant differences in correlations for the surveys. And on multivariate levels a function can calculate significant differences in model coefficients between the surveys of comparison. All of those differences can be easily plotted and outputted as a table. For more detailed information on the methods and example use see Rohr, B., Silber, H., & Felderer, B. (2024). Comparing the Accuracy of Univariate, Bivariate, and Multivariate Estimates across Probability and Nonprobability Surveys with Po [...truncated...]
Author: Bjoern Rohr [aut, cre, cph],
Barbara Felderer [aut]
Maintainer: Bjoern Rohr <bjoern.rohr@gesis.org>
Diff between sampcompR versions 0.3.2 dated 2025-12-09 and 0.3.3 dated 2026-05-28
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/Multidiff.R | 5 ++--- R/Multidiff_Plot.R | 22 +++++++++++----------- 5 files changed, 24 insertions(+), 21 deletions(-)
Title: Plotting Functions for Climate Science and Services
Description: A plotting package for climate science and services. Provides a set
of functions for visualizing climate data, including maps, time series,
scorecards and other diagnostics. Some functions are adapted and extended
from the 's2dv' and 'CSTools' packages (Manubens et al. (2018)
<doi:10.1016/j.envsoft.2018.01.018>; Pérez-Zanón et al. (2022)
<doi:10.5194/gmd-15-6115-2022>), with more consistent and integrated
functionalities.
Author: BSC-CNS [aut, cph],
An-Chi Ho [aut],
Eva Rifa [ctb],
Victoria Agudetse [ctb],
Ariadna Batalla [ctb, cre],
Nuria Perez-Zanon [ctb],
Nadia Milders [ctb],
Veronica Torralba [ctb],
Raul Capellan [ctb],
Anindita Patra [ctb]
Maintainer: Ariadna Batalla <ariadna.batalla@bsc.es>
Diff between esviz versions 0.0.2 dated 2026-02-04 and 0.0.3 dated 2026-05-28
DESCRIPTION | 8 +++--- MD5 | 14 ++++++---- NAMESPACE | 5 +++ NEWS.md | 10 +++++++ R/VizCombinedMap.R | 64 +++++++++++++++++++++++++++++++++++++++++++++----- R/VizEquiMap.R | 51 ++++++++++++++++++++++++++------------- R/VizPolygonsMap.R |only R/VizRobinson.R | 1 man/VizPolygonsMap.Rd |only 9 files changed, 120 insertions(+), 33 deletions(-)
Title: Ecological Niche Modeling using Presence-Absence Data
Description: A set of tools to perform Ecological Niche Modeling with
presence-absence data. It includes algorithms for data partitioning,
model fitting, calibration, evaluation, selection, and prediction.
Other functions help to explore signals of ecological niche using univariate
and multivariate analyses, and model features such as variable response
curves and variable importance. Unique characteristics of this package are
the ability to exclude models with concave quadratic responses, and the
option to clamp model predictions to specific variables. These tools are
implemented following principles proposed in
Cobos et al., (2022) <doi:10.17161/bi.v17i.15985>,
Cobos et al., (2019) <doi:10.7717/peerj.6281>,
and Peterson et al., (2008) <doi:10.1016/j.ecolmodel.2007.11.008>.
Author: Luis F. Arias-Giraldo [aut, cre] ,
Marlon E. Cobos [aut] ,
A. Townsend Peterson [ctb]
Maintainer: Luis F. Arias-Giraldo <lfarias.giraldo@gmail.com>
Diff between enmpa versions 0.2.3 dated 2026-01-26 and 0.2.4 dated 2026-05-28
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 6 ++++++ man/enmpa.Rd | 1 + src/trap_roc.cpp | 2 +- 5 files changed, 17 insertions(+), 10 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis (Balduzzi et al., 2023) <doi:10.18637/jss.v106.i02> and supporting Schwarzer et al. (2015) <doi:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <doi:10.1002/jrsm.1058>;
- additive network meta-analysis for combinations of treatments (Rücker et al., 2020) <doi:10.1002/bimj.201800167>;
- network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) <doi:10.1002/sim.8158>, or penalised logistic regression (Evrenoglou et al., 2022) <doi:10.1002/sim.9562>;
- rankograms and ranking of treatments by the Surface under the cumulative ranking curve (SUCRA) (Salanti et al., 2013) <doi:10.1016/j.jclinepi.2010.03.016>;
- ranking of treatments using P-scores (frequentist analogue of SUCRAs without resampling) according to [...truncated...]
Author: Gerta Ruecker [aut] ,
Ulrike Krahn [aut],
Jochem Koenig [aut] ,
Orestis Efthimiou [aut] ,
Annabel Davies [aut] ,
Theodoros Papakonstantinou [aut] ,
Theodoros Evrenoglou [ctb] ,
Krzysztof Ciomek [ctb] ,
Nana-adjoa Kwarteng [ctb] ,
Guido Schwarzer [aut, [...truncated...]
Maintainer: Guido Schwarzer <guido.schwarzer@uniklinik-freiburg.de>
Diff between netmeta versions 3.4-0 dated 2026-04-11 and 3.5-0 dated 2026-05-28
DESCRIPTION | 22 ++-- MD5 | 73 +++++++-------- NAMESPACE | 15 +++ NEWS.md | 22 ++++ R/decomp.design.R | 2 R/forest.netsplit.R | 13 -- R/formatCC.R | 2 R/formatComp.R | 2 R/is.installed.package.R | 3 R/netcomparison.R | 2 R/netcomplex.R | 2 R/netconnection.R | 3 R/netdistance.R | 3 R/netmeta-package.R | 71 +++++++------- R/netmetabin.R | 6 - R/netmetareg-internal.R | 4 R/netmetareg.R | 155 ++++++++++++++++++++++++++------ R/netsplit.R | 28 ++++- R/optcircle.R | 128 ++++++++++++-------------- R/plot.netsplit.R |only R/print.netcomb.R | 2 R/print.netmeta.R | 6 - R/print.summary.netmeta.R | 2 R/subgroup.netmeta.R | 2 R/summary.netcomb.R | 2 R/summary.netmeta.R | 2 build/partial.rdb |only build/vignette.rds |binary inst/doc/netmeta-workflow.pdf |binary inst/doc/netmeta.pdf |binary man/decomp.design.Rd | 2 man/forest.netsplit.Rd | 5 - man/netmeta-package.Rd | 24 ++++ man/netmetabin.Rd | 2 man/netmetareg.Rd | 123 +++++++++++++++++++++---- man/netsplit.Rd | 24 ++++ man/plot.netsplit.Rd |only vignettes/netmeta-workflow-diagram.pdf |binary vignettes/netmeta-workflow-diagram.pptx |binary 39 files changed, 512 insertions(+), 240 deletions(-)
Title: Analyzing Gene Tree Quartets under the Multi-Species Coalescent
Description: Methods for analyzing and using quartets displayed on a collection
of gene trees, primarily to make inferences about the species tree or network
under the multi-species coalescent model. These include quartet hypothesis tests
for the model, as developed by Mitchell et al. (2019) <doi:10.1214/19-EJS1576>,
simplex plots of quartet concordance factors as presented by Allman et al. (2020)
<doi:10.1101/2020.02.13.948083>, species tree inference methods based on quartet
distances of Rhodes (2019) <doi:10.1109/TCBB.2019.2917204> and Yourdkhani and
Rhodes (2019) <doi:10.1007/s11538-020-00773-4>, the NANUQ algorithm for inference
of level-1 species networks of Allman et al. (2019) <doi:10.1186/s13015-019-0159-2>,
the TINNIK algorithm for inference of the tree of blobs of an arbitrary
network of Allman et al.(2022) <doi:10.1007/s00285-022-01838-9>,
NANUQ+ routines for resolving multifurcations in the tree of blobs to cycles as in
Rhodes et al.(2024) <doi:10 [...truncated...]
Author: Elizabeth Allman [aut],
Hector Banos [aut],
Jonathan Mitchell [aut],
Kristina Wicke [aut],
John Rhodes [aut, cre]
Maintainer: John Rhodes <j.rhodes@alaska.edu>
Diff between MSCquartets versions 3.2 dated 2025-03-19 and 3.3 dated 2026-05-28
DESCRIPTION | 18 +-- LICENSE | 2 MD5 | 77 ++++++++------ NAMESPACE | 9 + R/ECToBlob.R |only R/MSCquartets-package.R | 38 +++++- R/NANUQ.R | 54 ++++----- R/ToBtoLevel1.R | 24 ++-- R/TreeOfBlobs.R | 186 ++++++++++++++++++---------------- R/TreeQuartetHypTest.R | 62 ++++++++--- R/quartetDistTree.R |only build/partial.rdb |binary build/vignette.rds |binary data/ASTRALtreeLeopardusLescroart.rda |only data/tableHeliconiusMartin.rda |binary inst/REFERENCES.bib | 71 +++++++++--- inst/doc/ECToBlob.R |only inst/doc/ECToBlob.Rmd |only inst/doc/ECToBlob.html |only inst/doc/NANUQplus.html | 57 ++++------ inst/doc/TINNIK.html | 35 +++--- man/ASTRALtreeLeopardusLescroart.Rd |only man/ECToBlob.Rd |only man/ECToBlob_bi.Rd |only man/ECToBlob_mul.Rd |only man/ECToBlob_quad.Rd |only man/M0.Rd | 7 - man/MSCquartets-package.Rd | 8 - man/NANUQ.Rd | 8 - man/NANUQdist.Rd | 10 - man/TINNIK.Rd | 6 - man/combineCycleResolutions.Rd | 2 man/combineP.Rd |only man/compatibleSplits.Rd | 2 man/dataYeastRokas.Rd | 2 man/ordersHeuristicmodNANUQ.Rd | 2 man/pTableYeastRokas.Rd | 2 man/quartetCutTest.Rd | 2 man/quartetDistTree.Rd |only man/quartetECtestInd.Rd |only man/quartetNetworkDist.Rd | 2 man/quartetTestPlot.Rd | 15 +- man/resolveCycle.Rd | 8 - man/resolveLevel1.Rd | 11 -- man/tableHeliconiusMartin.Rd | 3 man/treeFromSplits.Rd | 2 vignettes/ECToBlob.Rmd |only 47 files changed, 427 insertions(+), 298 deletions(-)
Title: Unified S3 Interface to Machine Learning Models
Description: Provides a unified and consistent S3 interface for training and predicting with a variety of machine learning models in R. The package wraps popular algorithms (e.g., from 'glmnet', 'lightgbm', 'ranger', 'e1071', and 'caret') under a common workflow based on simple wrap_*() and predict() functions, allowing users to switch between models without changing their code structure. It supports both classification and regression tasks and facilitates rapid experimentation, benchmarking, and comparison of models. By abstracting away package-specific APIs while preserving flexibility in parameter specification, the package streamlines machine learning workflows and promotes reproducibility.
Author: T. Moudiki [aut, cre]
Maintainer: T. Moudiki <thierry.moudiki@gmail.com>
Diff between mlS3 versions 0.1.0 dated 2026-04-28 and 0.1.1 dated 2026-05-28
DESCRIPTION | 7 ++++--- MD5 | 14 +++++++------- NEWS.md | 6 ++++++ R/wrap_caret.R | 6 +++--- R/wrap_lightgbm.R | 6 ++++++ README.md | 25 +++++++++++-------------- man/wrap_caret.Rd | 4 ++-- man/wrap_lightgbm.Rd | 15 +++++++++++++++ 8 files changed, 54 insertions(+), 29 deletions(-)
Title: Turn Geospatial Polygons into Regular or Hexagonal Grids
Description: Turn irregular polygons (such as geographical regions) into regular or hexagonal grids.
This package enables the generation of regular (square) and hexagonal grids through the package
'sp' and then assigns the content of the existing polygons to the new grid using
the Hungarian algorithm, Kuhn (1955) (<doi:10.1007/978-3-540-68279-0_2>).
This prevents the need for manual generation of hexagonal grids or regular grids
that are supposed to reflect existing geography.
Author: Joseph Bailey [aut, cph],
Ryan Hafen [ctb, cre] ,
Jakub Nowosad [ctb] ,
Lars Simon Zehnder [ctb]
Maintainer: Ryan Hafen <rhafen@gmail.com>
Diff between geogrid versions 0.1.2 dated 2023-08-19 and 0.1.3 dated 2026-05-28
DESCRIPTION | 15 ++++++++------- MD5 | 14 +++++++------- R/assign_polygons.R | 2 +- R/calculate_grid.R | 2 +- README.md | 10 ++++------ build/partial.rdb |binary man/assign_polygons.Rd | 2 +- man/calculate_grid.Rd | 2 +- 8 files changed, 23 insertions(+), 24 deletions(-)
Title: Analysis Results Data
Description: Construct CDISC (Clinical Data Interchange Standards
Consortium) compliant Analysis Results Data objects. These objects are
used and re-used to construct summary tables, visualizations, and
written reports. The package also exports utilities for working with
these objects and creating new Analysis Results Data objects.
Author: Daniel D. Sjoberg [aut, cre] ,
Becca Krouse [aut],
Emily de la Rua [aut] ,
Malan Bosman [aut] ,
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline Research & Development Limited [cph]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cards versions 0.7.1 dated 2025-12-02 and 0.8.0 dated 2026-05-28
DESCRIPTION | 8 - MD5 | 118 ++++++++++++----------- NAMESPACE | 5 NEWS.md | 26 +++++ R/add_calculated_row.R | 2 R/ard_attributes.R | 2 R/ard_formals.R | 2 R/ard_hierarchical.R | 30 ++++- R/ard_missing.R | 18 ++- R/ard_mvsummary.R | 30 ++++- R/ard_pairwise.R | 6 + R/ard_stack_hierarchical.R | 6 - R/ard_strata.R | 12 +- R/ard_summary.R | 18 ++- R/ard_tabulate.R | 48 +++++++-- R/ard_tabulate_rows.R |only R/ard_tabulate_value.R | 19 ++- R/as_card.R | 29 ++++- R/bind_ard.R | 2 R/check_ard_structure.R | 40 ++++++- R/compare_ard.R |only R/compare_ard_helpers.R |only R/deprecated.R | 14 +- R/filter_ard_hierarchical.R | 18 +-- R/mock.R | 4 R/nest_for_ard.R | 11 +- R/print.R | 46 ++++++++ R/rename_ard_columns.R | 20 +++ R/sort_ard_hierarchical.R | 16 +-- R/tidy_as_ard.R | 2 R/utils.R | 33 ++++++ inst/WORDLIST | 2 man/ard_tabulate_rows.Rd |only man/as_card.Rd | 15 ++ man/cards-package.Rd | 1 man/check_ard_structure.Rd | 10 + man/compare_ard.Rd |only man/dot-message_or_error.Rd |only man/print.card.Rd | 3 man/reexports.Rd | 2 man/rename_ard_columns.Rd | 7 + tests/testthat/_snaps/ard_tabulate.md | 8 + tests/testthat/_snaps/ard_tabulate_rows.md |only tests/testthat/_snaps/as_card.md | 12 +- tests/testthat/_snaps/check_ard_structure.md | 42 ++++++++ tests/testthat/_snaps/filter_ard_hierarchical.md | 5 tests/testthat/_snaps/sort_ard_hierarchical.md | 9 - tests/testthat/test-ard_hierarchical.R | 26 +++++ tests/testthat/test-ard_missing.R | 13 ++ tests/testthat/test-ard_mvsummary.R | 21 +++- tests/testthat/test-ard_pairwise.R | 24 ++++ tests/testthat/test-ard_stack_hierarchical.R | 42 +++++--- tests/testthat/test-ard_strata.R | 28 ++++- tests/testthat/test-ard_summary.R | 82 +++++++++++---- tests/testthat/test-ard_tabulate.R | 90 +++++++++++++---- tests/testthat/test-ard_tabulate_rows.R |only tests/testthat/test-ard_tabulate_value.R | 24 +++- tests/testthat/test-as_card.R | 36 ++++++- tests/testthat/test-check_ard_structure.R | 62 ++++++++++++ tests/testthat/test-compare_ard.R |only tests/testthat/test-filter_ard_hierarchical.R | 6 - tests/testthat/test-nest_for_ard.R | 12 ++ tests/testthat/test-rename_ard_columns.R | 33 ++++++ tests/testthat/test-sort_ard_hierarchical.R | 7 - tests/testthat/test-utils.R |only 65 files changed, 976 insertions(+), 231 deletions(-)
Title: Bayesian Model Selection Approach for Parsimonious Gaussian
Mixture Models
Description: Model-based clustering using Bayesian parsimonious Gaussian mixture models.
MCMC (Markov chain Monte Carlo) are used for parameter estimation. The RJMCMC (Reversible-jump Markov chain Monte Carlo) is used for model selection.
GREEN et al. (1995) <doi:10.1093/biomet/82.4.711>.
Author: Yaoxiang Li [aut, cre],
Xiang Lu [aut],
Tanzy Love [aut]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
Diff between bpgmm versions 1.1.1 dated 2025-10-30 and 1.3.1 dated 2026-05-28
bpgmm-1.1.1/bpgmm/R/PGMMmain.R |only bpgmm-1.1.1/bpgmm/R/choosem |only bpgmm-1.1.1/bpgmm/R/hyperParamClass.R |only bpgmm-1.1.1/bpgmm/R/paramClass.R |only bpgmm-1.1.1/bpgmm/R/pgmmMstep.R |only bpgmm-1.1.1/bpgmm/R/pgmmStay.R |only bpgmm-1.1.1/bpgmm/R/pgmmVstep.R |only bpgmm-1.1.1/bpgmm/R/pkgData.R |only bpgmm-1.1.1/bpgmm/R/posteriorZ.R |only bpgmm-1.1.1/bpgmm/R/proposalLambda.R |only bpgmm-1.1.1/bpgmm/R/proposalPsi.R |only bpgmm-1.1.1/bpgmm/R/sourceR.R |only bpgmm-1.1.1/bpgmm/R/summerizeRes.R |only bpgmm-1.1.1/bpgmm/R/updatePostThetaY.R |only bpgmm-1.1.1/bpgmm/man/CalculateProposalLambda.Rd |only bpgmm-1.1.1/bpgmm/man/CalculateProposalPsy.Rd |only bpgmm-1.1.1/bpgmm/man/EvaluateProposalLambda.Rd |only bpgmm-1.1.1/bpgmm/man/generatePriorLambda.Rd |only bpgmm-1.1.1/bpgmm/man/generatePriorPsi.Rd |only bpgmm-1.1.1/bpgmm/man/generatePriorThetaY.Rd |only bpgmm-1.1.1/bpgmm/man/pgmmRJMCMC.Rd |only bpgmm-1.1.1/bpgmm/man/stayMCMCupdate.Rd |only bpgmm-1.1.1/bpgmm/man/summerizePgmmRJMCMC.Rd |only bpgmm-1.1.1/bpgmm/man/toEthetaYlist.Rd |only bpgmm-1.1.1/bpgmm/src/calculateCxy.cpp |only bpgmm-1.1.1/bpgmm/src/calculatePostLambdaPsy.cpp |only bpgmm-1.1.1/bpgmm/src/calculatePostLambdaPsy.h |only bpgmm-1.1.1/bpgmm/src/updatePostZ.cpp |only bpgmm-1.1.1/bpgmm/src/update_Hyperparameter.cpp |only bpgmm-1.3.1/bpgmm/DESCRIPTION | 31 ++-- bpgmm-1.3.1/bpgmm/MD5 | 131 +++++++++++----- bpgmm-1.3.1/bpgmm/NAMESPACE | 5 bpgmm-1.3.1/bpgmm/NEWS.md |only bpgmm-1.3.1/bpgmm/R/RcppExports.R | 40 +++-- bpgmm-1.3.1/bpgmm/R/choosem-combine.R |only bpgmm-1.3.1/bpgmm/R/choosem-proposal-functions.R |only bpgmm-1.3.1/bpgmm/R/choosem-split.R |only bpgmm-1.3.1/bpgmm/R/class-hparam.R |only bpgmm-1.3.1/bpgmm/R/class-theta-y.R |only bpgmm-1.3.1/bpgmm/R/constraints.R |only bpgmm-1.3.1/bpgmm/R/dev-source.R |only bpgmm-1.3.1/bpgmm/R/internal-rcpp-aliases.R |only bpgmm-1.3.1/bpgmm/R/parallel-utils.R |only bpgmm-1.3.1/bpgmm/R/pgmm-chains.R |only bpgmm-1.3.1/bpgmm/R/pgmm-m-step.R |only bpgmm-1.3.1/bpgmm/R/pgmm-main.R |only bpgmm-1.3.1/bpgmm/R/pgmm-stay.R |only bpgmm-1.3.1/bpgmm/R/pgmm-v-step.R |only bpgmm-1.3.1/bpgmm/R/pkg-data.R |only bpgmm-1.3.1/bpgmm/R/posterior-z.R |only bpgmm-1.3.1/bpgmm/R/prior.R | 138 ++++------------- bpgmm-1.3.1/bpgmm/R/proposal-lambda.R |only bpgmm-1.3.1/bpgmm/R/proposal-psi.R |only bpgmm-1.3.1/bpgmm/R/summarize-result.R |only bpgmm-1.3.1/bpgmm/R/update-post-theta-y.R |only bpgmm-1.3.1/bpgmm/R/utils.R | 118 +++++++++------ bpgmm-1.3.1/bpgmm/R/zzz.R | 19 +- bpgmm-1.3.1/bpgmm/README.md |only bpgmm-1.3.1/bpgmm/build |only bpgmm-1.3.1/bpgmm/inst |only bpgmm-1.3.1/bpgmm/man/Hparam-class.Rd | 17 +- bpgmm-1.3.1/bpgmm/man/ThetaYList.Rd | 15 + bpgmm-1.3.1/bpgmm/man/constraint_to_model.Rd |only bpgmm-1.3.1/bpgmm/man/model_to_constraint.Rd |only bpgmm-1.3.1/bpgmm/man/pgmm_rjmcmc.Rd |only bpgmm-1.3.1/bpgmm/man/pgmm_rjmcmc_chains.Rd |only bpgmm-1.3.1/bpgmm/man/summarize_pgmm_rjmcmc.Rd |only bpgmm-1.3.1/bpgmm/src/Makevars | 7 bpgmm-1.3.1/bpgmm/src/Makevars.win | 3 bpgmm-1.3.1/bpgmm/src/RcppExports.cpp | 155 +++++++++++++------- bpgmm-1.3.1/bpgmm/src/calculate_cxy.cpp |only bpgmm-1.3.1/bpgmm/src/calculate_post_lambda_psi.cpp |only bpgmm-1.3.1/bpgmm/src/calculate_post_lambda_psi.h |only bpgmm-1.3.1/bpgmm/src/prior_evaluators.cpp |only bpgmm-1.3.1/bpgmm/src/update_hyperparameter.cpp |only bpgmm-1.3.1/bpgmm/src/update_latent_scores.cpp |only bpgmm-1.3.1/bpgmm/src/update_post_z.cpp |only bpgmm-1.3.1/bpgmm/src/utils.cpp | 126 ++++++++++++++-- bpgmm-1.3.1/bpgmm/src/utils.h | 88 ++++++++--- bpgmm-1.3.1/bpgmm/tests |only bpgmm-1.3.1/bpgmm/vignettes |only 81 files changed, 557 insertions(+), 336 deletions(-)
Title: Import, Manipulate and Explore the Results of an 'Antares'
Simulation
Description: Import, manipulate and explore results generated by 'Antares', a
powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems
(more information about 'Antares' here : <https://antares-simulator.org/>).
Author: Tatiana Vargas [aut, cre],
Jalal-Edine ZAWAM [aut],
Frederic Breant [ctb],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
Victor Perrier [ctb],
Etienne Sanchez [ctb],
Assil Mansouri [ctb],
Clement Berthet [ctb],
Kamel Kemiha [c [...truncated...]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresRead versions 3.0.0 dated 2026-01-28 and 3.0.1 dated 2026-05-28
DESCRIPTION | 6 MD5 | 16 + NEWS.md | 6 R/importOutput.R | 78 +++++--- R/setSimulationPathAPI.R | 18 +- inst/doc/antaresRead.html | 4 inst/format_output/simulation_variables_names_by_support.csv | 7 tests/testthat/test-importOutput.R |only tests/testthat/test-importOutputForClusters.R | 98 ----------- tests/testthat/test-setSimulationPathAPI.R |only 10 files changed, 84 insertions(+), 149 deletions(-)
Title: Seeded Sequential LDA for Topic Modeling
Description: Seeded Sequential LDA can classify sentences of texts into pre-define topics with a small number of seed words (Watanabe & Baturo, 2023) <doi:10.1177/08944393231178605>.
Implements Seeded LDA (Lu et al., 2010) <doi:10.1109/ICDMW.2011.125> and Sequential LDA (Du et al., 2012) <doi:10.1007/s10115-011-0425-1> with the distributed LDA algorithm (Newman, et al., 2009) for parallel computing.
Author: Kohei Watanabe [aut, cre, cph],
Phan Xuan-Hieu [aut, cph]
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between seededlda versions 1.4.3 dated 2025-09-28 and 1.4.4 dated 2026-05-28
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- NEWS.md | 4 ++++ R/lda.R | 4 ++-- R/seededlda.R | 4 ++-- R/seqlda.R | 4 ++-- man/textmodel_lda.Rd | 4 ++-- man/textmodel_seededlda.Rd | 4 ++-- man/textmodel_seqlda.Rd | 4 ++-- tests/testthat/test-utils.R | 2 +- 10 files changed, 29 insertions(+), 25 deletions(-)
Title: Forest Spatial Structure Analysis Systems
Description: Recent years have seen significant interest in neighborhood-based structural parameters that effectively represent the spatial characteristics of tree populations and forest communities, and possess strong applicability for guiding forestry practices. This package provides valuable information that enhances our understanding and analysis of the fine-scale spatial structure of tree populations and forest stands. Reference: Yan L, Tan W, Chai Z, et al (2019) <doi:10.13323/j.cnki.j.fafu(nat.sci.).2019.03.007>.
Author: Zongzheng Chai [aut, cre]
Maintainer: Zongzheng Chai <chaizz@126.com>
Diff between forestSAS versions 2.0.4 dated 2024-11-11 and 2.0.5 dated 2026-05-28
DESCRIPTION | 12 +++++++----- MD5 | 14 +++++++++----- R/forestSAS_simapp.R |only R/ggrosechart.R |only R/simtreecom.R | 8 ++++---- R/storeydvd.R | 2 +- build/partial.rdb |binary man/forestSAS_simapp.Rd |only man/ggrosechart.Rd |only man/storeydvd.Rd | 2 +- 10 files changed, 22 insertions(+), 16 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-05-25 0.1.4
2020-02-06 0.1.3
2019-12-10 0.1.2
2019-10-09 0.1.1
2019-05-17 0.1.0
Title: Spatial Regression Models for Large Datasets using Nearest
Neighbor Gaussian Processes
Description: Fits univariate Bayesian spatial regression models for large datasets using Nearest Neighbor Gaussian Processes (NNGP) detailed in Finley, Datta, Banerjee (2022) <doi:10.18637/jss.v103.i05>, Finley, Datta, Cook, Morton, Andersen, and Banerjee (2019) <doi:10.1080/10618600.2018.1537924>, and Datta, Banerjee, Finley, and Gelfand (2016) <doi:10.1080/01621459.2015.1044091>.
Author: Andrew Finley [aut, cre],
Abhirup Datta [aut],
Sudipto Banerjee [aut]
Maintainer: Andrew Finley <finleya@msu.edu>
Diff between spNNGP versions 1.0.1 dated 2024-09-23 and 1.0.2 dated 2026-05-28
DESCRIPTION | 14 ++++++---- MD5 | 13 +++++---- R/spNNGP.R | 24 ++++++++++++++++- README.md |only build/partial.rdb |binary src/sNNGP.cpp | 71 ++++++++++++++++++++++++++++++++++++----------------- src/sNNGPLogit.cpp | 71 ++++++++++++++++++++++++++++++++++++----------------- tests |only 8 files changed, 137 insertions(+), 56 deletions(-)
Title: Univariate and Multivariate Spatial-Temporal Modeling
Description: Fits univariate and multivariate spatio-temporal
random effects models for point-referenced data using Markov chain Monte Carlo (MCMC). Details are given in Finley, Banerjee, and Gelfand (2015) <doi:10.18637/jss.v063.i13> and Finley and Banerjee <doi:10.1016/j.envsoft.2019.104608>.
Author: Andrew Finley [aut, cre],
Sudipto Banerjee [aut]
Maintainer: Andrew Finley <finleya@msu.edu>
Diff between spBayes versions 0.4-8 dated 2024-09-23 and 0.4-9 dated 2026-05-28
DESCRIPTION | 17 ++++++++++------- MD5 | 12 ++++++++++-- README.md |only inst/figures |only man/SVCMvData.dat.Rd | 3 +-- man/figures |only tests |only 7 files changed, 21 insertions(+), 11 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut, cre] ,
Wenping Wang [aut],
Alan Hindmarsh [ctb],
Arun Srinivasan [ctb],
Awad H. Al-Mohy [ctb],
Bill Denney [ctb] ,
Cleve Moler [ctb],
David Cooley [ctb],
Drew Schmidt [ctb],
Ernst Hairer [ctb],
Gabriel Staples [ctb],
Gerhard W [...truncated...]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2 versions 5.0.2 dated 2026-03-20 and 5.1.1 dated 2026-05-28
rxode2-5.0.2/rxode2/tests/testthat/_problems |only rxode2-5.0.2/rxode2/tests/testthat/testthat-problems.rds |only rxode2-5.1.1/rxode2/DESCRIPTION | 15 rxode2-5.1.1/rxode2/MD5 | 421 rxode2-5.1.1/rxode2/NAMESPACE | 57 rxode2-5.1.1/rxode2/NEWS.md | 91 rxode2-5.1.1/rxode2/R/DollarNames.R | 17 rxode2-5.1.1/rxode2/R/RcppExports.R | 92 rxode2-5.1.1/rxode2/R/confint.R | 36 rxode2-5.1.1/rxode2/R/d.R | 14 rxode2-5.1.1/rxode2/R/err-sim.R | 52 rxode2-5.1.1/rxode2/R/et-helpers.R |only rxode2-5.1.1/rxode2/R/et-methods.R |only rxode2-5.1.1/rxode2/R/et.R | 1539 - rxode2-5.1.1/rxode2/R/etNew.R |only rxode2-5.1.1/rxode2/R/etTran.R | 66 rxode2-5.1.1/rxode2/R/etVctrs.R |only rxode2-5.1.1/rxode2/R/evidPush.R |only rxode2-5.1.1/rxode2/R/genShinyApp.template.R | 9 rxode2-5.1.1/rxode2/R/getBaseSim.R | 7 rxode2-5.1.1/rxode2/R/localOptions.R |only rxode2-5.1.1/rxode2/R/parseFuns.R | 10 rxode2-5.1.1/rxode2/R/plogis.R |only rxode2-5.1.1/rxode2/R/print.R | 70 rxode2-5.1.1/rxode2/R/rudfui.R | 92 rxode2-5.1.1/rxode2/R/rxLinCmt.R | 439 rxode2-5.1.1/rxode2/R/rxMemoryEstimate.R |only rxode2-5.1.1/rxode2/R/rxSerialize.R |only rxode2-5.1.1/rxode2/R/rxStack.R | 2 rxode2-5.1.1/rxode2/R/rxUiGet.R | 3 rxode2-5.1.1/rxode2/R/rxode-options.R | 5 rxode2-5.1.1/rxode2/R/rxode2.R | 10 rxode2-5.1.1/rxode2/R/rxode2_md5.R | 2 rxode2-5.1.1/rxode2/R/rxrandom.R | 2 rxode2-5.1.1/rxode2/R/rxsolve.R | 813 rxode2-5.1.1/rxode2/R/splitBolus.R |only rxode2-5.1.1/rxode2/R/symengine.R | 13 rxode2-5.1.1/rxode2/R/tran.R | 6 rxode2-5.1.1/rxode2/R/utils.R | 31 rxode2-5.1.1/rxode2/build/partial.rdb |binary rxode2-5.1.1/rxode2/build/vignette.rds |binary rxode2-5.1.1/rxode2/data/rxReservedKeywords.rda |binary rxode2-5.1.1/rxode2/data/rxResidualError.rda |binary rxode2-5.1.1/rxode2/data/rxSyntaxFunctions.rda |binary rxode2-5.1.1/rxode2/inst/doc/rxode2-syntax.Rmd | 3 rxode2-5.1.1/rxode2/inst/doc/rxode2-syntax.html | 43 rxode2-5.1.1/rxode2/inst/include/rxMemoryCalc.h |only rxode2-5.1.1/rxode2/inst/include/rxode2.h | 19 rxode2-5.1.1/rxode2/inst/include/rxode2EventTranslate.h |only rxode2-5.1.1/rxode2/inst/include/rxode2_RcppExports.h | 125 rxode2-5.1.1/rxode2/inst/include/rxode2_control.h | 7 rxode2-5.1.1/rxode2/inst/include/rxode2_model_shared.c | 42 rxode2-5.1.1/rxode2/inst/include/rxode2_model_shared.h | 21 rxode2-5.1.1/rxode2/inst/include/rxode2parseGetTime.h | 85 rxode2-5.1.1/rxode2/inst/include/rxode2parseHandleEvid.h | 111 rxode2-5.1.1/rxode2/inst/include/rxode2parseStruct.h | 113 rxode2-5.1.1/rxode2/inst/include/rxode2parseVer.h | 4 rxode2-5.1.1/rxode2/inst/include/rxode2parse_control.h | 14 rxode2-5.1.1/rxode2/inst/include/rxode2ptr.h | 54 rxode2-5.1.1/rxode2/inst/include/sbuf.c | 17 rxode2-5.1.1/rxode2/inst/tools/workaround.R | 16 rxode2-5.1.1/rxode2/inst/tran.g | 98 rxode2-5.1.1/rxode2/man/ELU.Rd | 32 rxode2-5.1.1/rxode2/man/GELU.Rd | 32 rxode2-5.1.1/rxode2/man/PReLU.Rd | 32 rxode2-5.1.1/rxode2/man/ReLU.Rd | 32 rxode2-5.1.1/rxode2/man/SELU.Rd | 32 rxode2-5.1.1/rxode2/man/Swish.Rd | 32 rxode2-5.1.1/rxode2/man/add.sampling.Rd | 2 rxode2-5.1.1/rxode2/man/as.data.table.rxEt.Rd |only rxode2-5.1.1/rxode2/man/as_tibble.rxEt.Rd |only rxode2-5.1.1/rxode2/man/assertCompartmentExists.Rd | 16 rxode2-5.1.1/rxode2/man/assertCompartmentName.Rd | 16 rxode2-5.1.1/rxode2/man/assertCompartmentNew.Rd | 16 rxode2-5.1.1/rxode2/man/assertRxUi.Rd | 16 rxode2-5.1.1/rxode2/man/assertVariableExists.Rd | 16 rxode2-5.1.1/rxode2/man/assertVariableNew.Rd | 16 rxode2-5.1.1/rxode2/man/binomProbs.Rd | 2 rxode2-5.1.1/rxode2/man/bolus.Rd |only rxode2-5.1.1/rxode2/man/dELU.Rd | 32 rxode2-5.1.1/rxode2/man/dGELU.Rd | 32 rxode2-5.1.1/rxode2/man/dPReLU.Rd | 32 rxode2-5.1.1/rxode2/man/dReLU.Rd | 32 rxode2-5.1.1/rxode2/man/dSELU.Rd | 32 rxode2-5.1.1/rxode2/man/dSwish.Rd | 32 rxode2-5.1.1/rxode2/man/dlReLU.Rd | 32 rxode2-5.1.1/rxode2/man/dot-rxLastCompileSuccess.Rd |only rxode2-5.1.1/rxode2/man/dsoftplus.Rd | 32 rxode2-5.1.1/rxode2/man/et.Rd | 34 rxode2-5.1.1/rxode2/man/etRbind.Rd | 10 rxode2-5.1.1/rxode2/man/etRep.Rd | 6 rxode2-5.1.1/rxode2/man/etTrans.Rd | 17 rxode2-5.1.1/rxode2/man/evid_.Rd |only rxode2-5.1.1/rxode2/man/genShinyApp.template.Rd | 9 rxode2-5.1.1/rxode2/man/getRxThreads.Rd | 12 rxode2-5.1.1/rxode2/man/infuse.Rd |only rxode2-5.1.1/rxode2/man/infuseDur.Rd |only rxode2-5.1.1/rxode2/man/ini.Rd | 4 rxode2-5.1.1/rxode2/man/is.rxEt.Rd | 17 rxode2-5.1.1/rxode2/man/lReLU.Rd | 32 rxode2-5.1.1/rxode2/man/linMod.Rd | 16 rxode2-5.1.1/rxode2/man/linToOde.Rd |only rxode2-5.1.1/rxode2/man/multiply.Rd |only rxode2-5.1.1/rxode2/man/obs.Rd |only rxode2-5.1.1/rxode2/man/phantom.Rd |only rxode2-5.1.1/rxode2/man/plot.rxSolve.Rd | 4 rxode2-5.1.1/rxode2/man/print.rxModelVars.Rd | 7 rxode2-5.1.1/rxode2/man/reexports.Rd | 4 rxode2-5.1.1/rxode2/man/replace.Rd |only rxode2-5.1.1/rxode2/man/reset.Rd |only rxode2-5.1.1/rxode2/man/rmdhunks/rxode2-create-models.Rmd | 4 rxode2-5.1.1/rxode2/man/rmdhunks/rxode2-syntax-hunk.Rmd | 2 rxode2-5.1.1/rxode2/man/rxCombineErrorLines.Rd | 3 rxode2-5.1.1/rxode2/man/rxDfdy.Rd | 12 rxode2-5.1.1/rxode2/man/rxInits.Rd | 12 rxode2-5.1.1/rxode2/man/rxLhs.Rd | 12 rxode2-5.1.1/rxode2/man/rxLoadState.Rd |only rxode2-5.1.1/rxode2/man/rxMemSummary.Rd |only rxode2-5.1.1/rxode2/man/rxMemoryEstimate.Rd |only rxode2-5.1.1/rxode2/man/rxModelVars.Rd | 12 rxode2-5.1.1/rxode2/man/rxParams.Rd | 16 rxode2-5.1.1/rxode2/man/rxRename.Rd | 4 rxode2-5.1.1/rxode2/man/rxSaveState.Rd |only rxode2-5.1.1/rxode2/man/rxSolve.Rd | 104 rxode2-5.1.1/rxode2/man/rxState.Rd | 12 rxode2-5.1.1/rxode2/man/rxTheme.Rd | 4 rxode2-5.1.1/rxode2/man/rxUdfUi.Rd | 28 rxode2-5.1.1/rxode2/man/rxUdfUiControl.Rd | 16 rxode2-5.1.1/rxode2/man/rxUdfUiData.Rd | 16 rxode2-5.1.1/rxode2/man/rxUdfUiEst.Rd | 16 rxode2-5.1.1/rxode2/man/rxUdfUiExpr.Rd |only rxode2-5.1.1/rxode2/man/rxUdfUiFlag.Rd |only rxode2-5.1.1/rxode2/man/rxUdfUiIniLhs.Rd | 16 rxode2-5.1.1/rxode2/man/rxUdfUiIsValue.Rd |only rxode2-5.1.1/rxode2/man/rxUdfUiMv.Rd | 16 rxode2-5.1.1/rxode2/man/rxUdfUiNum.Rd | 16 rxode2-5.1.1/rxode2/man/rxUdfUiParsing.Rd | 16 rxode2-5.1.1/rxode2/man/rxUiGet.Rd | 6 rxode2-5.1.1/rxode2/man/rxode2.Rd | 11 rxode2-5.1.1/rxode2/man/softplus.Rd | 32 rxode2-5.1.1/rxode2/man/splitBolus.Rd |only rxode2-5.1.1/rxode2/man/testIniDf.Rd | 16 rxode2-5.1.1/rxode2/man/testRxUnbounded.Rd | 16 rxode2-5.1.1/rxode2/man/zeroRe.Rd | 4 rxode2-5.1.1/rxode2/src/Makevars.in | 6 rxode2-5.1.1/rxode2/src/RcppExports.cpp | 315 rxode2-5.1.1/rxode2/src/approx.cpp | 36 rxode2-5.1.1/rxode2/src/cbindThetaOmega.cpp | 12 rxode2-5.1.1/rxode2/src/checkmate.cpp | 6 rxode2-5.1.1/rxode2/src/codegen.c | 40 rxode2-5.1.1/rxode2/src/codegen.h | 13 rxode2-5.1.1/rxode2/src/codegen2.h | 40 rxode2-5.1.1/rxode2/src/cvPost.cpp | 160 rxode2-5.1.1/rxode2/src/dop853.c | 374 rxode2-5.1.1/rxode2/src/dop853.h | 65 rxode2-5.1.1/rxode2/src/et.cpp | 3622 -- rxode2-5.1.1/rxode2/src/etTran.cpp | 202 rxode2-5.1.1/rxode2/src/expm.cpp | 27 rxode2-5.1.1/rxode2/src/fast_factor.cpp | 52 rxode2-5.1.1/rxode2/src/forder.cpp | 2 rxode2-5.1.1/rxode2/src/genModelVars.c | 127 rxode2-5.1.1/rxode2/src/genModelVars.h | 29 rxode2-5.1.1/rxode2/src/handle_evid.cpp | 42 rxode2-5.1.1/rxode2/src/init.c | 86 rxode2-5.1.1/rxode2/src/isEt.c | 42 rxode2-5.1.1/rxode2/src/linCmt.cpp | 79 rxode2-5.1.1/rxode2/src/lsoda.c | 17 rxode2-5.1.1/rxode2/src/omegaChol.c | 198 rxode2-5.1.1/rxode2/src/par_solve.cpp | 1577 - rxode2-5.1.1/rxode2/src/par_solve.h | 60 rxode2-5.1.1/rxode2/src/parseFuns.h | 456 rxode2-5.1.1/rxode2/src/parseLinCmt.c | 36 rxode2-5.1.1/rxode2/src/parseLogical.h | 138 rxode2-5.1.1/rxode2/src/parseStatements.h | 15 rxode2-5.1.1/rxode2/src/parseSyntaxErrors.h | 17 rxode2-5.1.1/rxode2/src/rx2api.c | 42 rxode2-5.1.1/rxode2/src/rx2api.h | 29 rxode2-5.1.1/rxode2/src/rxData.cpp | 1713 + rxode2-5.1.1/rxode2/src/rxData.h | 8 rxode2-5.1.1/rxode2/src/rxDerived.cpp | 162 rxode2-5.1.1/rxode2/src/rxGlobals.h |only rxode2-5.1.1/rxode2/src/rxMemAvail.h |only rxode2-5.1.1/rxode2/src/rxMemoryComponents.cpp |only rxode2-5.1.1/rxode2/src/rxProtect.h |only rxode2-5.1.1/rxode2/src/rxSerialize.cpp |only rxode2-5.1.1/rxode2/src/rxode2_altrep.c |only rxode2-5.1.1/rxode2/src/rxode2_altrep.h |only rxode2-5.1.1/rxode2/src/rxode2_df.cpp | 1179 rxode2-5.1.1/rxode2/src/rxode2_df.h | 8 rxode2-5.1.1/rxode2/src/rxomp.h | 10 rxode2-5.1.1/rxode2/src/rxthreefry.cpp | 76 rxode2-5.1.1/rxode2/src/sbuf.c | 17 rxode2-5.1.1/rxode2/src/seed.cpp | 3 rxode2-5.1.1/rxode2/src/strdup_printf.c | 4 rxode2-5.1.1/rxode2/src/tran.c | 78 rxode2-5.1.1/rxode2/src/tran.g.d_parser.h |12480 +++++++--- rxode2-5.1.1/rxode2/src/tran.h | 35 rxode2-5.1.1/rxode2/src/udf.cpp | 7 rxode2-5.1.1/rxode2/src/utilc.cpp | 194 rxode2-5.1.1/rxode2/tests/testthat/test-000-modelVars.R | 61 rxode2-5.1.1/rxode2/tests/testthat/test-altrep-output.R |only rxode2-5.1.1/rxode2/tests/testthat/test-backward.R | 43 rxode2-5.1.1/rxode2/tests/testthat/test-cov.R | 18 rxode2-5.1.1/rxode2/tests/testthat/test-dollar-names.R | 10 rxode2-5.1.1/rxode2/tests/testthat/test-dsl.R | 7 rxode2-5.1.1/rxode2/tests/testthat/test-et-r.R |only rxode2-5.1.1/rxode2/tests/testthat/test-et-vctrs.R |only rxode2-5.1.1/rxode2/tests/testthat/test-et.R | 249 rxode2-5.1.1/rxode2/tests/testthat/test-etTrans.R | 692 rxode2-5.1.1/rxode2/tests/testthat/test-evid-push.R |only rxode2-5.1.1/rxode2/tests/testthat/test-evid3.R | 62 rxode2-5.1.1/rxode2/tests/testthat/test-iCov.R | 24 rxode2-5.1.1/rxode2/tests/testthat/test-ind-alloc.R |only rxode2-5.1.1/rxode2/tests/testthat/test-ini.R | 7 rxode2-5.1.1/rxode2/tests/testthat/test-interp.R | 13 rxode2-5.1.1/rxode2/tests/testthat/test-issue-999.R |only rxode2-5.1.1/rxode2/tests/testthat/test-issue-lhs-string-segfault.R |only rxode2-5.1.1/rxode2/tests/testthat/test-lhs-str.R | 32 rxode2-5.1.1/rxode2/tests/testthat/test-lincmt-solve-sens.R |only rxode2-5.1.1/rxode2/tests/testthat/test-lincmt-solve.R | 2 rxode2-5.1.1/rxode2/tests/testthat/test-logical.R | 30 rxode2-5.1.1/rxode2/tests/testthat/test-nmtest.R | 43 rxode2-5.1.1/rxode2/tests/testthat/test-par-dop853.R |only rxode2-5.1.1/rxode2/tests/testthat/test-pkg-exported-funs.R |only rxode2-5.1.1/rxode2/tests/testthat/test-plogis.R |only rxode2-5.1.1/rxode2/tests/testthat/test-random.R | 24 rxode2-5.1.1/rxode2/tests/testthat/test-resample.R | 46 rxode2-5.1.1/rxode2/tests/testthat/test-rxIs.R | 6 rxode2-5.1.1/rxode2/tests/testthat/test-rxMemoryEstimate.R |only rxode2-5.1.1/rxode2/tests/testthat/test-rxode-issue-982.R |only rxode2-5.1.1/rxode2/tests/testthat/test-seq.R | 2 rxode2-5.1.1/rxode2/tests/testthat/test-serialize.R |only rxode2-5.1.1/rxode2/tests/testthat/test-sticky-vars.R |only rxode2-5.1.1/rxode2/tests/testthat/test-tolFactor.R |only rxode2-5.1.1/rxode2/tests/testthat/test-ui-err.R | 6 rxode2-5.1.1/rxode2/tests/testthat/test-ui-piping.R | 2 rxode2-5.1.1/rxode2/tests/testthat/test-ui-solve.R | 16 rxode2-5.1.1/rxode2/tests/testthat/test-ui.R | 218 rxode2-5.1.1/rxode2/tests/testthat/test-zzzz-rxUse.R | 14 rxode2-5.1.1/rxode2/vignettes/rxode2-syntax.Rmd | 3 240 files changed, 19988 insertions(+), 11406 deletions(-)
Title: R Interface to API 'vk.com'
Description: Load data from vk.com api about your communiti users and views,
ads performance, post on user wall and etc. For more information
see API Documentation <https://vk.com/dev/first_guide>.
Author: Alexey Seleznev [aut, cre]
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rvkstat versions 3.2.0 dated 2021-10-18 and 3.3.2 dated 2026-05-28
DESCRIPTION | 16 +++++---- MD5 | 76 ++++++++++++++++++++++---------------------- NEWS.md | 20 +++++++++++ R/vkGetAdAccounts.R | 2 - R/vkGetAdAgeStats.R | 2 - R/vkGetAdBudget.R | 2 - R/vkGetAdCampaigns.R | 2 - R/vkGetAdCategories.R | 2 - R/vkGetAdCityStats.R | 2 - R/vkGetAdClients.R | 2 - R/vkGetAdGenderAgeStats.R | 2 - R/vkGetAdGenderStats.R | 2 - R/vkGetAdPostsReach.R | 2 - R/vkGetAdStatistics.R | 6 +-- R/vkGetAds.R | 2 - R/vkGetAdsLayout.R | 2 - R/vkGetDbCities.R | 2 - R/vkGetDbCountries.R | 2 - R/vkGetDbMetroStations.R | 2 - R/vkGetDbRegions.R | 2 - R/vkGetDbSchools.R | 2 - R/vkGetDbUniversities.R | 2 - R/vkGetGroupMembers.R | 2 - R/vkGetGroupStat.R | 2 - R/vkGetGroupStatAge.R | 2 - R/vkGetGroupStatCity.R | 2 - R/vkGetGroupStatCountries.R | 2 - R/vkGetGroupStatGender.R | 2 - R/vkGetGroupStatGenderAge.R | 2 - R/vkGetGroupStatPostReach.R | 2 - R/vkGetUserFriends.R | 2 - R/vkGetUserGroups.R | 2 - R/vkGetUserWall.R | 2 - R/zzz.R | 2 - README.md | 12 +++--- build/partial.rdb |binary man/vkGetDbMetroStations.Rd | 62 +++++++++++++++++------------------ man/vkGetDbSchools.Rd | 68 +++++++++++++++++++-------------------- man/vkGetDbUniversities.Rd | 74 +++++++++++++++++++++--------------------- 39 files changed, 208 insertions(+), 186 deletions(-)
Title: Multilevel B-Spline Approximation
Description: Functions to interpolate irregularly and regularly spaced data using Multilevel B-spline Approximation (MBA). Functions call portions of the SINTEF Multilevel B-spline Library written by Øyvind Hjelle which implements methods developed by Lee, Wolberg and Shin (1997; <doi:10.1109/2945.620490>).
Author: Andrew Finley [aut, cre],
Sudipto Banerjee [aut],
Oeyvind Hjelle [aut],
Roger Bivand [ctb]
Maintainer: Andrew Finley <finleya@msu.edu>
Diff between MBA versions 0.1-2 dated 2024-09-23 and 0.1-3 dated 2026-05-28
DESCRIPTION | 13 ++++++++----- MD5 | 7 ++++++- README.md |only inst |only man/figures |only tests |only 6 files changed, 14 insertions(+), 6 deletions(-)
Title: Generalized Kumaraswamy Distribution Family
Description: Implements the five-parameter Generalized Kumaraswamy ('gkw')
distribution proposed by 'Carrasco, Ferrari and Cordeiro (2010)'
<doi:10.48550/arXiv.1004.0911> and its seven nested sub-families for
modeling bounded continuous data on the unit interval (0,1). The 'gkw'
distribution extends the Kumaraswamy distribution described by Jones (2009)
<doi:10.1016/j.stamet.2008.04.001>. Provides density, distribution,
quantile, and random generation functions, along with analytical
log-likelihood, gradient, and Hessian functions implemented in 'C++' via
'RcppArmadillo' for maximum computational efficiency. Suitable for modeling
proportions, rates, percentages, and indices exhibiting complex features
such as asymmetry, or heavy tails and other shapes not adequately captured by
standard distributions like simple Beta or Kumaraswamy.
Author: Jose Evandeilton Lopes [aut, cre]
Maintainer: Jose Evandeilton Lopes <evandeilton@gmail.com>
Diff between gkwdist versions 1.1.3 dated 2026-05-21 and 1.1.4 dated 2026-05-28
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 9 +++++++++ inst/doc/into-gkwdist.html | 6 +++--- inst/doc/theory-gkwdist.html | 4 ++-- tests/testthat/test-mle-performance.R | 2 ++ 6 files changed, 24 insertions(+), 13 deletions(-)
Title: Genetic Analysis Package
Description: As first reported [Zhao, J. H. 2007. "gap: Genetic Analysis Package". J Stat Soft 23(8):1-18.
<doi:10.18637/jss.v023.i08>], it is designed as an integrated package for genetic data
analysis of both population and family data. Currently, it contains functions for
sample size calculations of both population-based and family-based designs, probability
of familial disease aggregation, kinship calculation, statistics in linkage analysis,
and association analysis involving genetic markers including haplotype analysis with or
without environmental covariates. Over years, the package has been developed in-between
many projects hence also in line with the name (gap).
Author: Jing Hua Zhao [aut, cre] ,
Kurt Hornik [ctb],
Brian Ripley [ctb],
Uwe Ligges [ctb],
Achim Zeileis [ctb]
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between gap versions 1.15.1 dated 2026-05-24 and 1.15.2 dated 2026-05-28
gap-1.15.1/gap/inst/doc/gap_incl.html |only gap-1.15.2/gap/ChangeLog | 3 +++ gap-1.15.2/gap/DESCRIPTION | 8 ++++---- gap-1.15.2/gap/MD5 | 23 +++++++++++------------ gap-1.15.2/gap/build/partial.rdb |binary gap-1.15.2/gap/build/vignette.rds |binary gap-1.15.2/gap/inst/README.md | 1 + gap-1.15.2/gap/inst/doc/gap.R | 5 ++--- gap-1.15.2/gap/inst/doc/gap.Rmd | 10 +++++----- gap-1.15.2/gap/inst/doc/gap.html | 2 +- gap-1.15.2/gap/inst/doc/shinygap.html | 4 ++-- gap-1.15.2/gap/src/pfc.sim.f | 9 ++++++--- gap-1.15.2/gap/vignettes/gap.Rmd | 10 +++++----- 13 files changed, 40 insertions(+), 35 deletions(-)
Title: Dunn's Test of Multiple Comparisons Using Rank Sums
Description: Computes Dunn's test (1964) for stochastic superiority and reports the results among multiple pairwise comparisons after a Kruskal-Wallis test for stochastic superiority among k groups (Kruskal and Wallis, 1952). 'dunn.test' makes k(k-1)/2 multiple pairwise comparisons based on Dunn's z-test-statistic approximations to the actual rank statistics. The null hypothesis for each pairwise comparison is that the probability of observing a randomly selected value from the first group that is larger than a randomly selected value from the second group equals one half; this null hypothesis corresponds to that of the Wilcoxon-Mann-Whitney rank-sum test. 'dunn.test' accounts for tied ranks.
Author: Alexis Dinno [aut, cre, cph]
Maintainer: Alexis Dinno <alexis.dinno@pdx.edu>
Diff between dunn.test versions 1.3.7 dated 2026-02-13 and 1.4.0 dated 2026-05-28
DESCRIPTION | 12 MD5 | 26 - NAMESPACE | 1 R/all.integers.R |only R/alphabetize.factor.R |only R/centertext.R |only R/dunn.test.R | 748 +++++++++++------------------------- R/dunntestheader.R |only R/dunntestptable.R |only R/dunntestztable.R |only R/get_order.R |only R/kwallis.test.R |only R/multiple_comparisons_adjustment.R |only R/pad.left.R | 3 R/pad.spaces.R | 3 R/tiedranks.R |only R/tpad.R |only R/zformat.R |only build/partial.rdb |binary man/dunn.test.Rd | 63 ++- 20 files changed, 314 insertions(+), 542 deletions(-)
Title: Vectorised Computation of P-Values and Their Supports for
Several Discrete Statistical Tests
Description: Provides vectorised functions for computing p-values of various
common discrete statistical tests, as described e.g. in Agresti (2002)
<doi:10.1002/0471249688>, including their distributions. Exact and
approximate computation methods are provided. For exact ones, several
procedures of determining two-sided p-values are included, which are
outlined in more detail in Hirji (2006) <doi:10.1201/9781420036190>.
Author: Florian Junge [cre, aut] ,
Christina Kihn [aut],
Sebastian Doehler [ctb] ,
Guillermo Durand [ctb]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Diff between DiscreteTests versions 0.4.0 dated 2026-05-19 and 0.4.1 dated 2026-05-28
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/DiscreteTests-package.R | 8 ++++---- R/permutation.r | 6 +++--- man/DiscreteTests-package.Rd | 8 ++++---- man/perm_test_pv.Rd | 6 +++--- src/permutation.cpp | 1 + 8 files changed, 31 insertions(+), 25 deletions(-)
Title: Retrieval Functions for USGS and EPA Hydrology and Water Quality
Data
Description: Collection of functions to help retrieve U.S. Geological Survey
and U.S. Environmental Protection Agency water quality and
hydrology data from web services.
Author: Laura DeCicco [aut, cre] ,
Robert Hirsch [aut] ,
David Lorenz [aut],
Jordan Read [ctb],
Jordan Walker [ctb],
Lindsay Platt [ctb],
David Watkins [aut] ,
David Blodgett [aut] ,
Mike Johnson [aut] ,
Aliesha Krall [ctb] ,
Lee Stanish [ctb] ,
Joseph Zemme [...truncated...]
Maintainer: Laura DeCicco <ldecicco@usgs.gov>
Diff between dataRetrieval versions 2.7.24 dated 2026-03-31 and 2.7.25 dated 2026-05-28
DESCRIPTION | 8 - MD5 | 161 ++++++++++---------- NAMESPACE | 2 NEWS | 25 +++ R/AAA.R | 34 ++-- R/constructNWISURL.R | 20 -- R/construct_api_requests.R | 156 ++++++++++++------- R/dataRetrieval-package.R | 4 R/findNLDI.R | 17 +- R/getWebServiceData.R | 11 + R/get_ogc_data.R | 156 ++++++++++++++++--- R/importWQP.R | 20 -- R/readNGWMNdata.R | 19 +- R/readNWISdata.R | 75 --------- R/readNWISunit.R | 91 ++++------- R/readWQPdata.R | 206 ++++++++++++------------- R/readWQPqw.R | 26 +-- R/read_waterdata.R | 43 +++-- R/read_waterdata_channel.R | 32 +--- R/read_waterdata_combined_meta.R | 41 ++--- R/read_waterdata_continuous.R | 25 +-- R/read_waterdata_daily.R | 33 +--- R/read_waterdata_field_measurements.R | 42 ++--- R/read_waterdata_field_meta.R | 33 +--- R/read_waterdata_latest_continuous.R | 32 +--- R/read_waterdata_latest_daily.R | 34 +--- R/read_waterdata_metadata.R | 24 ++- R/read_waterdata_monitoring_location.R | 27 +-- R/read_waterdata_parameter_codes.R | 13 + R/read_waterdata_peaks.R |only R/read_waterdata_ratings.R |only R/read_waterdata_samples.R | 103 ++---------- R/read_waterdata_stats.R | 51 +++++- R/read_waterdata_ts_meta.R | 39 +--- R/rejigger_cols.R | 8 - R/sysdata.rda |binary R/walk_pages.R | 71 ++++---- R/whatWQPdata.R | 38 ++-- R/whatWQPsites.R | 58 +++---- build/vignette.rds |binary inst/CITATION | 4 inst/doc/dataRetrieval.R | 24 +-- inst/doc/dataRetrieval.Rmd | 28 +-- inst/doc/dataRetrieval.html | 39 ++-- man/check_arguments_api.Rd |only man/check_arguments_non_api.Rd |only man/construct_api_requests.Rd | 57 +++++-- man/construct_waterdata_sample_request.Rd | 2 man/get_nldi_sources.Rd | 2 man/readNWISdata.Rd | 78 --------- man/readNWISpeak.Rd | 10 - man/readNWISrating.Rd | 4 man/readNWISstat.Rd | 34 ++-- man/readNWISuv.Rd | 19 -- man/readWQPdata.Rd | 194 ++++++++++++------------ man/readWQPqw.Rd | 26 +-- man/readWQPsummary.Rd | 44 ++--- man/read_USGS_samples.Rd |only man/read_waterdata.Rd | 19 ++ man/read_waterdata_channel.Rd | 51 ++++-- man/read_waterdata_combined_meta.Rd | 66 +++++--- man/read_waterdata_continuous.Rd | 38 +++- man/read_waterdata_daily.Rd | 48 ++++-- man/read_waterdata_field_measurements.Rd | 68 ++++++-- man/read_waterdata_field_meta.Rd | 48 ++++-- man/read_waterdata_latest_continuous.Rd | 48 ++++-- man/read_waterdata_latest_daily.Rd | 50 ++++-- man/read_waterdata_metadata.Rd | 20 ++ man/read_waterdata_monitoring_location.Rd | 45 ++++- man/read_waterdata_parameter_codes.Rd | 11 + man/read_waterdata_peaks.Rd |only man/read_waterdata_ratings.Rd |only man/read_waterdata_samples.Rd | 30 --- man/read_waterdata_stats.Rd | 23 ++ man/read_waterdata_ts_meta.Rd | 70 +++++--- man/summarize_waterdata_samples.Rd | 11 - man/whatWQPdata.Rd | 20 +- man/wqpSpecials.Rd | 32 ++-- man/wqp_check_status.Rd | 12 - tests/testthat/test_waterdata_stats.R | 29 +++ tests/testthat/tests_general.R | 240 +++++++++++------------------- tests/testthat/tests_imports.R | 212 -------------------------- tests/testthat/tests_nldi.R | 1 tests/testthat/tests_userFriendly_fxns.R | 157 +++++++++++-------- vignettes/dataRetrieval.Rmd | 28 +-- 85 files changed, 1842 insertions(+), 1878 deletions(-)
Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Interchange Standards
Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R.
ADaM datasets are a mandatory part of any New Drug or Biologics
License Application submitted to the United States Food and Drug
Administration (FDA). Analysis derivations are implemented in
accordance with the "Analysis Data Model Implementation Guide" (CDISC
Analysis Data Model Team, 2021,
<https://www.cdisc.org/standards/foundational/adam>).
Author: Edoardo Mancini [aut, cre] ,
Stefan Bundfuss [aut] ,
Matt Bearham [aut],
Arianna Cascone [aut] ,
Kristin Dahnert [aut],
Jeffrey Dickinson [aut],
Ross Farrugia [aut],
Fanny Gautier [aut],
Gordon Miller [aut],
Lina Patil [aut],
Jim Rothstein [aut] ,
Be [...truncated...]
Maintainer: Edoardo Mancini <edoardo.mancini@roche.com>
Diff between admiral versions 1.4.1 dated 2026-02-03 and 1.4.2 dated 2026-05-28
DESCRIPTION | 19 MD5 | 346 +++++++++--------- NEWS.md | 4 R/data.R | 2 R/derive_merged.R | 2 R/derive_var_extreme_flag.R | 2 build/vignette.rds |binary inst/doc/generic.html | 4 man/adjust_last_day_imputation.Rd | 12 man/admiral-package.Rd | 4 man/assert_date_imputation.Rd | 12 man/assert_db_requirements.Rd | 36 - man/assert_highest_imputation.Rd | 30 - man/assert_parameters_argument.Rd | 12 man/assert_terms.Rd | 24 - man/assert_time_imputation.Rd | 12 man/basket_select.Rd | 31 - man/call_derivation.Rd | 24 - man/call_user_fun.Rd | 6 man/censor_source.Rd | 37 - man/chr2vars.Rd | 6 man/compute_age_years.Rd | 14 man/compute_bmi.Rd | 14 man/compute_bsa.Rd | 21 - man/compute_dtf.Rd | 12 man/compute_duration.Rd | 52 -- man/compute_egfr.Rd | 42 -- man/compute_framingham.Rd | 48 -- man/compute_map.Rd | 18 man/compute_qtc.Rd | 19 man/compute_qual_imputation.Rd | 18 man/compute_qual_imputation_dec.Rd | 6 man/compute_rr.Rd | 6 man/compute_scale.Rd | 31 - man/compute_tmf.Rd | 19 man/consolidate_metadata.Rd | 35 - man/convert_blanks_to_na.Rd | 6 man/convert_date_to_dtm.Rd | 50 -- man/convert_dtc_to_dt.Rd | 43 -- man/convert_dtc_to_dtm.Rd | 51 -- man/convert_na_to_blanks.Rd | 6 man/convert_xxtpt_to_hours.Rd | 136 ------- man/count_vals.Rd | 12 man/create_period_dataset.Rd | 18 man/create_query_data.Rd | 18 man/create_single_dose_dataset.Rd | 62 --- man/date_source.Rd | 24 - man/default_qtc_paramcd.Rd | 7 man/derivation_slice.Rd | 12 man/derive_basetype_records.Rd | 12 man/derive_expected_records.Rd | 22 - man/derive_extreme_event.Rd | 518 --------------------------- man/derive_extreme_records.Rd | 622 -------------------------------- man/derive_locf_records.Rd | 195 ---------- man/derive_param_bmi.Rd | 55 -- man/derive_param_bsa.Rd | 62 --- man/derive_param_computed.Rd | 382 ------------------- man/derive_param_doseint.Rd | 67 --- man/derive_param_exist_flag.Rd | 64 --- man/derive_param_exposure.Rd | 34 - man/derive_param_extreme_record.Rd | 43 -- man/derive_param_framingham.Rd | 97 ----- man/derive_param_map.Rd | 56 -- man/derive_param_qtc.Rd | 56 -- man/derive_param_rr.Rd | 42 -- man/derive_param_tte.Rd | 587 ------------------------------ man/derive_param_wbc_abs.Rd | 52 -- man/derive_summary_records.Rd | 333 ----------------- man/derive_var_age_years.Rd | 25 - man/derive_var_analysis_ratio.Rd | 24 - man/derive_var_anrind.Rd | 18 man/derive_var_atoxgr.Rd | 18 man/derive_var_atoxgr_dir.Rd | 87 ---- man/derive_var_base.Rd | 30 - man/derive_var_chg.Rd | 6 man/derive_var_dthcaus.Rd | 24 - man/derive_var_extreme_dt.Rd | 37 - man/derive_var_extreme_dtm.Rd | 37 - man/derive_var_extreme_flag.Rd | 413 --------------------- man/derive_var_joined_exist_flag.Rd | 627 -------------------------------- man/derive_var_merged_ef_msrc.Rd | 56 -- man/derive_var_merged_exist_flag.Rd | 65 --- man/derive_var_merged_summary.Rd | 42 -- man/derive_var_nfrlt.Rd | 627 -------------------------------- man/derive_var_obs_number.Rd | 33 - man/derive_var_ontrtfl.Rd | 61 --- man/derive_var_pchg.Rd | 6 man/derive_var_relative_flag.Rd | 67 --- man/derive_var_shift.Rd | 36 - man/derive_var_trtdurd.Rd | 18 man/derive_var_trtemfl.Rd | 378 ------------------- man/derive_vars_aage.Rd | 45 -- man/derive_vars_atc.Rd | 30 - man/derive_vars_cat.Rd | 227 ----------- man/derive_vars_computed.Rd | 54 -- man/derive_vars_crit_flag.Rd | 188 --------- man/derive_vars_dt.Rd | 331 ----------------- man/derive_vars_dtm.Rd | 276 -------------- man/derive_vars_dtm_to_dt.Rd | 12 man/derive_vars_dtm_to_tm.Rd | 12 man/derive_vars_duration.Rd | 70 --- man/derive_vars_dy.Rd | 18 man/derive_vars_extreme_event.Rd | 60 --- man/derive_vars_joined.Rd | 689 ------------------------------------ man/derive_vars_joined_summary.Rd | 359 ------------------ man/derive_vars_merged.Rd | 363 ------------------ man/derive_vars_merged_lookup.Rd | 74 --- man/derive_vars_merged_summary.Rd | 42 -- man/derive_vars_period.Rd | 24 - man/derive_vars_query.Rd | 12 man/derive_vars_transposed.Rd | 50 -- man/dt_level.Rd | 8 man/dthcaus_source.Rd | 44 -- man/dtm_level.Rd | 9 man/event.Rd | 51 -- man/event_joined.Rd | 72 --- man/event_source.Rd | 31 - man/ex_single.Rd | 2 man/extend_condition.Rd | 18 man/extract_duplicate_records.Rd | 13 man/extract_unit.Rd | 6 man/filter_date_sources.Rd | 44 -- man/filter_exist.Rd | 24 - man/filter_extreme.Rd | 35 - man/filter_joined.Rd | 361 ------------------ man/filter_not_exist.Rd | 24 - man/filter_relative.Rd | 61 --- man/flag_event.Rd | 21 - man/format.basket_select.Rd | 12 man/format_imputed_dtc.Rd | 6 man/get_admiral_option.Rd | 6 man/get_dt_dtm_range.Rd | 12 man/get_flagged_records.Rd | 25 - man/get_highest_imputation_level.Rd | 12 man/get_hori_data.Rd | 33 - man/get_imputation_target_date.Rd | 10 man/get_imputation_target_time.Rd | 4 man/get_imputation_targets.Rd | 14 man/get_joined_data.Rd | 84 ---- man/get_joined_sub_data.Rd | 62 --- man/get_partialdatetime.Rd | 12 man/get_summary_records.Rd | 22 - man/get_terms_from_db.Rd | 54 -- man/get_vars_query.Rd | 12 man/impute_date_time.Rd | 12 man/impute_dtc_dt.Rd | 43 -- man/impute_dtc_dtm.Rd | 51 -- man/is_partial_datetime.Rd | 6 man/list_all_templates.Rd | 6 man/list_tte_source_objects.Rd | 6 man/max_cond.Rd | 12 man/min_cond.Rd | 12 man/negate_vars.Rd | 6 man/params.Rd | 6 man/pipe.Rd | 12 man/print.adam_templates.Rd | 12 man/print.duplicates.Rd | 12 man/print.source.Rd | 12 man/print_named_list.Rd | 12 man/propagate_na_values.Rd | 6 man/query.Rd | 37 - man/records_source.Rd | 20 - man/restrict_derivation.Rd | 24 - man/restrict_imputed_dtc_dt.Rd | 27 - man/restrict_imputed_dtc_dtm.Rd | 27 - man/set_admiral_options.Rd | 18 man/signal_duplicate_records.Rd | 35 - man/slice_derivation.Rd | 24 - man/transform_range.Rd | 32 - man/tte_source.Rd | 37 - man/use_ad_template.Rd | 30 - man/validate_basket_select.Rd | 6 man/validate_query.Rd | 6 man/yn_to_numeric.Rd | 6 174 files changed, 1014 insertions(+), 11140 deletions(-)
Title: R Client for the 'ChEA3' Transcription Factor Enrichment API
Description: Interface to the 'ChEA3' transcription factor enrichment API.
'ChEA3' integrates evidence from ChIP-seq, co-expression, and literature
resources to prioritize transcription factors regulating a given set
of genes. This package provides convenient R functions to query the API,
retrieve ranked results across collections (including integrated scores),
and standardize output for downstream analysis in R/Bioconductor workflows.
See <https://maayanlab.cloud/chea3/> or Keenan (2019) <doi:10.1093/nar/gkz446>
for further details.
Author: Christophe Tav [aut, cre]
Maintainer: Christophe Tav <christophe.tav@gmail.com>
Diff between rChEA3 versions 0.2.0 dated 2025-10-15 and 1.0.1 dated 2026-05-28
DESCRIPTION | 8 +++--- MD5 | 24 +++++++++---------- NEWS.md | 19 +++++++++++++-- R/queryChEA3.R | 21 ++++++++++++++-- README.md | 38 +++++++++++++++++++++++++++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/rChEA3.R | 14 +++++++++++ inst/doc/rChEA3.Rmd | 29 +++++++++++++++++++++++ inst/doc/rChEA3.html | 64 +++++++++++++++++++++++++++++++++++++-------------- man/queryChEA3.Rd | 20 +++++++++++++++ man/today.Rd | 2 - vignettes/rChEA3.Rmd | 29 +++++++++++++++++++++++ 13 files changed, 224 insertions(+), 44 deletions(-)
Title: Sports Physiology Analysis from Local 'Strava' Data
Description: Tools for reproducible, offline analysis of endurance-training data
exported from 'Strava'. Provides data import, quality-control,
cohort-reference, and visualization helpers for sports-science indicators
including acute:chronic workload ratio, aerobic efficiency, cardiovascular
decoupling, exposure, and personal-best profiles.
Author: Zhiang He [aut, cre],
Eunseop Kim [rev] for
rOpenSci, see
https://github.com/ropensci/software-review/issues/728),
Simon Nolte [rev] for
rOpenSci, see
https://github.com/ropensci/software-review/issues/728)
Maintainer: Zhiang He <ang@hezhiang.com>
Diff between Athlytics versions 0.1.2 dated 2025-05-16 and 1.0.5 dated 2026-05-27
Athlytics-0.1.2/Athlytics/R/strava_helpers.R |only Athlytics-0.1.2/Athlytics/R/zzz.R |only Athlytics-0.1.2/Athlytics/data/Athlytics_sample_data.RData |only Athlytics-0.1.2/Athlytics/inst/doc/Athlytics-introduction.R |only Athlytics-0.1.2/Athlytics/inst/doc/Athlytics-introduction.Rmd |only Athlytics-0.1.2/Athlytics/inst/doc/Athlytics-introduction.html |only Athlytics-0.1.2/Athlytics/inst/doc/Athlytics-introduction.md |only Athlytics-0.1.2/Athlytics/man/athlytics_sample_acwr.Rd |only Athlytics-0.1.2/Athlytics/man/athlytics_sample_decoupling.Rd |only Athlytics-0.1.2/Athlytics/man/athlytics_sample_ef.Rd |only Athlytics-0.1.2/Athlytics/man/athlytics_sample_exposure.Rd |only Athlytics-0.1.2/Athlytics/man/athlytics_sample_pbs.Rd |only Athlytics-0.1.2/Athlytics/man/fetch_strava_activities.Rd |only Athlytics-0.1.2/Athlytics/tests/testthat/helper-mockapi.R |only Athlytics-0.1.2/Athlytics/tests/testthat/helper-mockdata.R |only Athlytics-0.1.2/Athlytics/tests/testthat/test-calculate_decoupling.R |only Athlytics-0.1.2/Athlytics/tests/testthat/test-calculate_exposure.R |only Athlytics-0.1.2/Athlytics/tests/testthat/test-calculate_pbs.R |only Athlytics-0.1.2/Athlytics/tests/testthat/test-strava_helpers.R |only Athlytics-0.1.2/Athlytics/tests/testthat/testthat.R |only Athlytics-0.1.2/Athlytics/vignettes/Athlytics-introduction.Rmd |only Athlytics-1.0.5/Athlytics/DESCRIPTION | 53 Athlytics-1.0.5/Athlytics/LICENSE | 4 Athlytics-1.0.5/Athlytics/MD5 | 174 - Athlytics-1.0.5/Athlytics/NAMESPACE | 136 Athlytics-1.0.5/Athlytics/NEWS.md | 404 ++ Athlytics-1.0.5/Athlytics/R/Athlytics-package.R |only Athlytics-1.0.5/Athlytics/R/calculate_acwr.R | 752 +++-- Athlytics-1.0.5/Athlytics/R/calculate_acwr_ewma.R |only Athlytics-1.0.5/Athlytics/R/calculate_decoupling.R | 1018 ++++--- Athlytics-1.0.5/Athlytics/R/calculate_ef.R | 1052 ++++++- Athlytics-1.0.5/Athlytics/R/calculate_exposure.R | 537 +-- Athlytics-1.0.5/Athlytics/R/calculate_pbs.R | 751 +++-- Athlytics-1.0.5/Athlytics/R/cohort_reference.R |only Athlytics-1.0.5/Athlytics/R/color_palettes.R |only Athlytics-1.0.5/Athlytics/R/data.R | 164 - Athlytics-1.0.5/Athlytics/R/flag_quality.R |only Athlytics-1.0.5/Athlytics/R/internal_load.R |only Athlytics-1.0.5/Athlytics/R/load_local_activities.R |only Athlytics-1.0.5/Athlytics/R/parse_activity_file.R |only Athlytics-1.0.5/Athlytics/R/plot_acwr.R | 462 +-- Athlytics-1.0.5/Athlytics/R/plot_acwr_enhanced.R |only Athlytics-1.0.5/Athlytics/R/plot_decoupling.R | 375 -- Athlytics-1.0.5/Athlytics/R/plot_ef.R | 324 +- Athlytics-1.0.5/Athlytics/R/plot_exposure.R | 392 +- Athlytics-1.0.5/Athlytics/R/plot_pbs.R | 393 +- Athlytics-1.0.5/Athlytics/R/utils.R | 296 ++ Athlytics-1.0.5/Athlytics/README.md | 498 +-- Athlytics-1.0.5/Athlytics/build/partial.rdb |only Athlytics-1.0.5/Athlytics/build/vignette.rds |binary Athlytics-1.0.5/Athlytics/data/sample_acwr.rda |only Athlytics-1.0.5/Athlytics/data/sample_decoupling.rda |only Athlytics-1.0.5/Athlytics/data/sample_ef.rda |only Athlytics-1.0.5/Athlytics/data/sample_exposure.rda |only Athlytics-1.0.5/Athlytics/data/sample_pbs.rda |only Athlytics-1.0.5/Athlytics/inst/CITATION | 130 Athlytics-1.0.5/Athlytics/inst/doc/advanced_features.R |only Athlytics-1.0.5/Athlytics/inst/doc/advanced_features.Rmd |only Athlytics-1.0.5/Athlytics/inst/doc/advanced_features.html |only Athlytics-1.0.5/Athlytics/inst/doc/athlytics_introduction.R |only Athlytics-1.0.5/Athlytics/inst/doc/athlytics_introduction.Rmd |only Athlytics-1.0.5/Athlytics/inst/doc/athlytics_introduction.html |only Athlytics-1.0.5/Athlytics/inst/extdata |only Athlytics-1.0.5/Athlytics/man/Athlytics-package.Rd |only Athlytics-1.0.5/Athlytics/man/add_reference_bands.Rd |only Athlytics-1.0.5/Athlytics/man/athlytics_palette_nature.Rd |only Athlytics-1.0.5/Athlytics/man/athlytics_palette_vibrant.Rd |only Athlytics-1.0.5/Athlytics/man/calculate_acwr.Rd | 359 +- Athlytics-1.0.5/Athlytics/man/calculate_acwr_ewma.Rd |only Athlytics-1.0.5/Athlytics/man/calculate_cohort_reference.Rd |only Athlytics-1.0.5/Athlytics/man/calculate_decoupling.Rd | 284 +- Athlytics-1.0.5/Athlytics/man/calculate_ef.Rd | 364 ++ Athlytics-1.0.5/Athlytics/man/calculate_ef_from_stream.Rd |only Athlytics-1.0.5/Athlytics/man/calculate_exposure.Rd | 215 - Athlytics-1.0.5/Athlytics/man/calculate_pbs.Rd | 210 - Athlytics-1.0.5/Athlytics/man/figures |only Athlytics-1.0.5/Athlytics/man/find_best_effort.Rd |only Athlytics-1.0.5/Athlytics/man/flag_quality.Rd |only Athlytics-1.0.5/Athlytics/man/load_local_activities.Rd |only Athlytics-1.0.5/Athlytics/man/parse_activity_file.Rd |only Athlytics-1.0.5/Athlytics/man/parse_fit_file.Rd |only Athlytics-1.0.5/Athlytics/man/parse_gpx_file.Rd |only Athlytics-1.0.5/Athlytics/man/parse_tcx_file.Rd |only Athlytics-1.0.5/Athlytics/man/plot_acwr.Rd | 175 - Athlytics-1.0.5/Athlytics/man/plot_acwr_comparison.Rd |only Athlytics-1.0.5/Athlytics/man/plot_acwr_enhanced.Rd |only Athlytics-1.0.5/Athlytics/man/plot_decoupling.Rd | 205 - Athlytics-1.0.5/Athlytics/man/plot_ef.Rd | 144 - Athlytics-1.0.5/Athlytics/man/plot_exposure.Rd | 182 - Athlytics-1.0.5/Athlytics/man/plot_pbs.Rd | 200 - Athlytics-1.0.5/Athlytics/man/plot_with_reference.Rd |only Athlytics-1.0.5/Athlytics/man/sample_acwr.Rd |only Athlytics-1.0.5/Athlytics/man/sample_decoupling.Rd |only Athlytics-1.0.5/Athlytics/man/sample_ef.Rd |only Athlytics-1.0.5/Athlytics/man/sample_exposure.Rd |only Athlytics-1.0.5/Athlytics/man/sample_pbs.Rd |only Athlytics-1.0.5/Athlytics/man/summarize_quality.Rd |only Athlytics-1.0.5/Athlytics/man/theme_athlytics.Rd |only Athlytics-1.0.5/Athlytics/tests/testthat.R |only Athlytics-1.0.5/Athlytics/tests/testthat/_snaps |only Athlytics-1.0.5/Athlytics/tests/testthat/helper-test-data.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-acwr.R | 1302 ++++++--- Athlytics-1.0.5/Athlytics/tests/testthat/test-cohort-reference.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-decoupling.R | 760 +++-- Athlytics-1.0.5/Athlytics/tests/testthat/test-ef.R | 1392 ++++++++-- Athlytics-1.0.5/Athlytics/tests/testthat/test-exposure.R | 309 +- Athlytics-1.0.5/Athlytics/tests/testthat/test-flag-quality.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-internal-load.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-load-local-activities.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-parse-activity-file-stream.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-pbs.R | 775 ++++- Athlytics-1.0.5/Athlytics/tests/testthat/test-plot-acwr-enhanced.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-plot-exposure-comprehensive.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-plot-snapshots.R |only Athlytics-1.0.5/Athlytics/tests/testthat/test-utils.R | 162 - Athlytics-1.0.5/Athlytics/tests/testthat/test-vignettes.R |only Athlytics-1.0.5/Athlytics/vignettes/advanced_features.Rmd |only Athlytics-1.0.5/Athlytics/vignettes/athlytics_introduction.Rmd |only 118 files changed, 9775 insertions(+), 5178 deletions(-)
Title: Voter Distance to Polling Locations
Description: Calculates the distance between each voter in a voter file
(given lat/long coordinates or sf point geometries) and multiple
polling or vote-by-mail drop box locations. Returns nearest location,
k-nearest locations, or all locations within a distance threshold.
Core computation uses the Haversine formula implemented in C++ via
'Rcpp'.
Author: Loren Collingwood [aut, cre]
Maintainer: Loren Collingwood <lcollingwood@unm.edu>
This is a re-admission after prior archival of version 1.1 dated 2017-03-20
Diff between Rvoterdistance versions 1.1 dated 2017-03-20 and 2.0.0 dated 2026-05-27
Rvoterdistance-1.1/Rvoterdistance/R/dist_km.R |only Rvoterdistance-1.1/Rvoterdistance/R/dist_mile.R |only Rvoterdistance-1.1/Rvoterdistance/R/smorgesboard.R |only Rvoterdistance-1.1/Rvoterdistance/demo |only Rvoterdistance-1.1/Rvoterdistance/inst/doc/Rvoterdistance-manual.pdf |only Rvoterdistance-1.1/Rvoterdistance/man/deg2rad.Rd |only Rvoterdistance-1.1/Rvoterdistance/man/distanceEarth.Rd |only Rvoterdistance-1.1/Rvoterdistance/man/nearest_dbox.Rd |only Rvoterdistance-1.1/Rvoterdistance/man/nearest_dbox2.Rd |only Rvoterdistance-1.1/Rvoterdistance/man/rad2deg.Rd |only Rvoterdistance-1.1/Rvoterdistance/man/smorgesboard.Rd |only Rvoterdistance-1.1/Rvoterdistance/man/vecminInd.Rd |only Rvoterdistance-1.1/Rvoterdistance/src/haversine_dbox.cpp |only Rvoterdistance-1.1/Rvoterdistance/src/registerDynamicSymbol.c |only Rvoterdistance-2.0.0/Rvoterdistance/DESCRIPTION | 34 ++- Rvoterdistance-2.0.0/Rvoterdistance/MD5 | 59 +++--- Rvoterdistance-2.0.0/Rvoterdistance/NAMESPACE | 9 Rvoterdistance-2.0.0/Rvoterdistance/R/RcppExports.R | 24 -- Rvoterdistance-2.0.0/Rvoterdistance/R/Rvoterdistance-package.R |only Rvoterdistance-2.0.0/Rvoterdistance/R/data.R |only Rvoterdistance-2.0.0/Rvoterdistance/R/nearest_location.R |only Rvoterdistance-2.0.0/Rvoterdistance/R/utils.R |only Rvoterdistance-2.0.0/Rvoterdistance/R/voter_distance.R |only Rvoterdistance-2.0.0/Rvoterdistance/README.md |only Rvoterdistance-2.0.0/Rvoterdistance/build |only Rvoterdistance-2.0.0/Rvoterdistance/inst/doc/introduction.R |only Rvoterdistance-2.0.0/Rvoterdistance/inst/doc/introduction.Rmd |only Rvoterdistance-2.0.0/Rvoterdistance/inst/doc/introduction.html |only Rvoterdistance-2.0.0/Rvoterdistance/man/Rvoterdistance-package.Rd | 39 +-- Rvoterdistance-2.0.0/Rvoterdistance/man/dbox.Rd | 37 +-- Rvoterdistance-2.0.0/Rvoterdistance/man/dist_km.Rd | 47 +--- Rvoterdistance-2.0.0/Rvoterdistance/man/dist_mile.Rd | 47 +--- Rvoterdistance-2.0.0/Rvoterdistance/man/early_meck.Rd | 35 +-- Rvoterdistance-2.0.0/Rvoterdistance/man/haversine.Rd |only Rvoterdistance-2.0.0/Rvoterdistance/man/king_geo.Rd | 36 +-- Rvoterdistance-2.0.0/Rvoterdistance/man/nearest_location.Rd |only Rvoterdistance-2.0.0/Rvoterdistance/man/voter_meck.Rd | 35 +-- Rvoterdistance-2.0.0/Rvoterdistance/src/Makevars |only Rvoterdistance-2.0.0/Rvoterdistance/src/RcppExports.cpp | 98 ++++------ Rvoterdistance-2.0.0/Rvoterdistance/src/haversine.cpp |only Rvoterdistance-2.0.0/Rvoterdistance/src/knearest.cpp |only Rvoterdistance-2.0.0/Rvoterdistance/tests |only Rvoterdistance-2.0.0/Rvoterdistance/vignettes |only 43 files changed, 218 insertions(+), 282 deletions(-)
More information about Rvoterdistance at CRAN
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Title: Hidden Markov Models for Multivariate Panel Data
Description: Estimates hidden Markov models from the family of Cholesky-decomposed Gaussian hidden Markov models (CDGHMM) under various missingness schemes. This family improves upon estimation of traditional Gaussian HMMs by introducing parsimony, as well as, controlling for dropped out observations and non-random missingness. See Neal, Sochaniwsky and McNicholas (2024) <DOI:10.1007/s11222-024-10462-0>.
Author: Mackenzie R. Neal [aut, cre] ,
Alexa A. Sochaniwsky [aut],
Paul D. McNicholas [aut]
Maintainer: Mackenzie R. Neal <nealm6@mcmaster.ca>
Diff between CDGHMM versions 0.1.2 dated 2025-06-12 and 0.1.3 dated 2026-05-27
DESCRIPTION | 10 MD5 | 11 NAMESPACE | 2 R/Support_functions.R |only R/cdghmm.R | 1009 +++++++------------------------------------------- inst/CITATION | 4 man/cdghmm.Rd | 8 7 files changed, 172 insertions(+), 872 deletions(-)
Title: Extracting and Visualizing Paleobiodiversity
Description: Contains various tools for conveniently downloading and editing taxon-specific datasets from the Paleobiology Database <https://paleobiodb.org>, extracting information on abundance, temporal distribution of subtaxa and taxonomic diversity through deep time, and visualizing these data in relation to phylogeny and stratigraphy.
Author: Darius Nau [aut, cre]
Maintainer: Darius Nau <dariusnau@gmx.at>
Diff between paleoDiv versions 0.4.6 dated 2025-03-23 and 0.4.12 dated 2026-05-27
DESCRIPTION | 8 MD5 | 38 ++-- NAMESPACE | 2 NEWS.md | 24 ++ R/data.R | 4 R/paleoDiv.R | 277 ++++++++++++++++++++++--------- build/vignette.rds |binary inst/doc/Paleobiodiversity_analysis.html | 34 +-- man/ages_archosauria.Rd | 2 man/divdistr_.Rd | 4 man/diversity_table.Rd | 2 man/multijitter.Rd | 9 + man/occ.cleanup.Rd | 9 - man/phylo.spindles.Rd | 3 man/rmeana.Rd | 15 + man/ts.periods.Rd | 12 + man/ts.stages.Rd | 11 + man/viol.Rd | 6 man/violins.Rd | 3 tests/testthat/test-paleodiv.R | 3 20 files changed, 325 insertions(+), 141 deletions(-)
Title: Import 'REDATAM' Files
Description: Import 'REDATAM' formats into R via the 'Open REDATAM' C++ library.
The full context of this project and details about the implementation are
available in <doi:10.1017/dap.2025.4> (Open Access).
Author: Mauricio Vargas Sepulveda [aut, cre] ,
Lital Barkai [aut],
Ivan Krylov [ctb],
Arseny Kapoulkine [ctb] ,
Oriental Republic of Uruguay [dtc]
Maintainer: Mauricio Vargas Sepulveda <m.vargas.sepulveda@gmail.com>
Diff between redatam versions 2.3.0 dated 2026-05-17 and 2.3.1 dated 2026-05-27
DESCRIPTION | 6 - MD5 | 10 - NEWS.md | 14 ++ src/vendor/pugiconfig.hpp | 13 +- src/vendor/pugixml.cpp | 242 ++++++++++++++++++++++++++++++++++------------ src/vendor/pugixml.hpp | 81 ++++++++------- 6 files changed, 252 insertions(+), 114 deletions(-)
Title: Interface for Large Language Models via 'llama.cpp'
Description: Provides 'R' bindings to 'llama.cpp' for running Large Language Models
('LLMs') locally with optional 'Vulkan' GPU acceleration via 'ggmlR'. Supports
model loading, text generation, 'tokenization', token-to-piece conversion,
'embeddings' (single and batch), encoder-decoder inference, low-level batch
management, chat templates, 'LoRA' adapters, explicit backend/device selection,
multi-GPU split, and 'NUMA' optimization. Includes a high-level 'ragnar'-compatible
embedding provider ('embed_llamar'). Built on top of 'ggmlR' for efficient tensor
operations.
Author: Yuri Baramykov [aut, cre] ,
Georgi Gerganov [cph]
Maintainer: Yuri Baramykov <lbsbmsu@mail.ru>
Diff between llamaR versions 0.2.3 dated 2026-04-06 and 0.2.4 dated 2026-05-27
DESCRIPTION | 16 MD5 | 68 ++- NAMESPACE | 7 NEWS.md | 20 R/chat.R |only R/llama.R | 260 ++++++++++- R/serve.R |only README.md | 100 ++++ build |only cleanup | 4 inst/doc |only inst/examples |only inst/scripts/bench_batch.R |only inst/scripts/benchmark.R | 2 inst/scripts/benchmark_compare.R |only inst/scripts/diag_graph_reuse.R |only inst/scripts/diag_offload_profile.R |only inst/scripts/diag_splits.R |only inst/scripts/profile_gpu.R |only inst/scripts/profile_vs_llamacpp.R |only inst/scripts/profile_vs_llamacpp.sh |only inst/scripts/test.R | 2 inst/scripts/test_batch.R |only man/chat_llamar.Rd |only man/chat_llamar_stop.Rd |only man/llamaR-package.Rd | 2 man/llama_gen_begin.Rd |only man/llama_gen_end.Rd |only man/llama_gen_next.Rd |only man/llama_generate.Rd | 11 man/llama_generate_batch.Rd |only man/llama_load_model.Rd | 29 + man/llama_new_context.Rd | 37 + man/llama_serve_openai.Rd |only man/llama_tokenize.Rd | 12 src/llama-context.cpp | 99 ++++ src/llama-context.h | 2 src/llama.cpp | 4 src/llama.h | 5 src/r_llama_interface.cpp | 813 ++++++++++++++++++++++++++++++++++-- tests/testthat/test-basic.R | 50 ++ tests/testthat/test-chat.R |only tests/testthat/test-serve.R |only vignettes |only 44 files changed, 1451 insertions(+), 92 deletions(-)
Title: Query Composite Hypotheses
Description: Provides functions for the joint analysis of Q sets of
p-values obtained for the same list of items. This joint analysis is
performed by querying a composite hypothesis, i.e. an arbitrary
complex combination of simple hypotheses, as described in Mary-Huard
et al. (2021) <doi:10.1093/bioinformatics/btab592> and De Walsche et
al.(2025) <doi: 10.1093/nargab/lqaf118>. In this approach, the Q-uplet
of p-values associated with each item is distributed as a multivariate
mixture, where each of the 2^Q components corresponds to a specific
combination of simple hypotheses. The dependence between the p-value
series is considered using a Gaussian copula function. A p-value for
the composite hypothesis test is derived from the posterior
probabilities.
Author: Tristan Mary-Huard [aut, cre] ,
Annaig De Walsche [aut] ,
Franck Gauthier [ctb]
Maintainer: Tristan Mary-Huard <tristan.mary-huard@agroparistech.fr>
Diff between qch versions 2.1.2 dated 2026-02-16 and 2.1.3 dated 2026-05-27
COPYING |only DESCRIPTION | 10 MD5 | 53 - NAMESPACE | 1 R/Data.R | 54 - R/EM_functions.R | 842 +++++++++++----------- R/FastKerFDR_functions.R | 762 ++++++++++--------- R/GetHinfo.R | 505 ++++++------- R/RcppExports.R | 39 + R/pi0est_from_pkg_qvalue.R |only R/qch_fit.R | 665 ++++++++--------- R/qch_test.R | 473 ++++++------ inst/WORDLIST | 98 +- man/EM_calibration_gaussian.Rd | 87 +- man/EM_calibration_gaussian_memory.Rd | 5 man/EM_calibration_indep.Rd | 4 man/EM_calibration_indep_memory.Rd | 5 man/FastKerFdr_signed.Rd | 84 +- man/FastKerFdr_unsigned.Rd | 85 +- man/GetH1AtLeast.Rd | 62 - man/GetH1Equal.Rd | 62 - man/PvalSets_cor.Rd | 42 - man/f1_separation_signed.Rd | 64 - man/last_incomplete_trapezoid_arma.Rd |only man/qch-package.Rd | 74 - man/qch.fit.Rd | 13 man/remove_decreasing_values_cpp.Rd |only man/remove_decreasing_values_cpp_slow_ordering.Rd |only src/RcppExports.cpp | 43 + src/updatePrior_rcpp.cpp | 786 +++++++++++--------- 30 files changed, 2617 insertions(+), 2301 deletions(-)
Title: Bayesian Screening and Variable Selection
Description: Performs Bayesian variable screening and selection for ultra-high dimensional linear regression models.Also contains an user friendly web application to perform multi trait GWAS.
Author: Dongjin Li [aut, cre],
Debarshi Chakraborty [aut],
Somak Dutta [aut],
Vivekananda Roy [ctb]
Maintainer: Dongjin Li <liyangxiaobei@gmail.com>
Diff between bravo versions 3.2.2 dated 2024-10-29 and 4.0.0 dated 2026-05-27
DESCRIPTION | 38 +++++++++++++++----------------------- MD5 | 35 +++++++++++++++++++++++++++++++++-- NAMESPACE | 30 ++++++++++++++++++++++++++---- R/calc_functions.R |only R/sparse_convert.R |only R/svenetics.R |only R/xzpredIntv.R |only R/xzpredPoint.R |only R/xzpredict.sven.R |only R/xzsven_new.R |only inst |only man/FDR_WS.Rd |only man/FDR_corrected.Rd |only man/FPR_WS.Rd |only man/FPR_corrected.Rd |only man/TPR_WS.Rd |only man/TPR_corrected.Rd |only man/basic.sven.model.Rd |only man/bwas.Rd |only man/calc.runtime.Rd |only man/clean.Rd |only man/create_param_mat.Rd |only man/dense2sparse.Rd |only man/dense_to_sparse_converter.Rd |only man/jcidx.Rd |only man/parameter_selection.Rd |only man/pipeline_single_trait.Rd |only man/run_all_params.Rd |only man/svenetics.Rd |only man/svenetics_pipeline.Rd |only man/tune.sven.Rd |only man/tune.sven.all.Rd |only man/unite.sven.Rd |only 33 files changed, 74 insertions(+), 29 deletions(-)
Title: Workflows for Health Technology Assessments in R using Discrete
EveNts
Description: Toolkit to support and perform discrete event simulations with and without
resource constraints in the context of health technology assessments (HTA).
The package focuses on cost-effectiveness modelling and aims to be submission-ready
to relevant HTA bodies in alignment with 'NICE TSD 15'
<https://sheffield.ac.uk/nice-dsu/tsds/patient-level-simulation>.
More details an examples can be found in the package website <https://jsanchezalv.github.io/WARDEN/>.
Author: Javier Sanchez Alvarez [aut, cre],
Gabriel Lemyre [ctb],
Valerie Aponte Ribero [ctb]
Maintainer: Javier Sanchez Alvarez <javiersanchezeco@gmail.com>
Diff between WARDEN versions 2.0.2 dated 2026-03-18 and 2.0.3 dated 2026-05-27
WARDEN-2.0.2/WARDEN/tests/testthat/test_model_runs.R |only WARDEN-2.0.2/WARDEN/tests/testthat/test_queues.R |only WARDEN-2.0.3/WARDEN/DESCRIPTION | 11 WARDEN-2.0.3/WARDEN/MD5 | 55 WARDEN-2.0.3/WARDEN/NAMESPACE | 2 WARDEN-2.0.3/WARDEN/NEWS.md | 9 WARDEN-2.0.3/WARDEN/R/RcppExports.R | 4 WARDEN-2.0.3/WARDEN/R/engine_helper_f.R | 359 +-- WARDEN-2.0.3/WARDEN/R/input_f.R | 353 ++ WARDEN-2.0.3/WARDEN/R/results_summary_f.R | 34 WARDEN-2.0.3/WARDEN/R/run_engine.R | 52 WARDEN-2.0.3/WARDEN/R/run_engine_constrained.R | 43 WARDEN-2.0.3/WARDEN/R/run_sim.R | 102 WARDEN-2.0.3/WARDEN/R/run_sim_parallel.R | 232 + WARDEN-2.0.3/WARDEN/inst/doc/example_ssd.R | 101 WARDEN-2.0.3/WARDEN/inst/doc/example_ssd.Rmd | 122 - WARDEN-2.0.3/WARDEN/inst/doc/example_ssd.html | 571 ++-- WARDEN-2.0.3/WARDEN/man/add_item.Rd | 25 WARDEN-2.0.3/WARDEN/man/input_block.Rd |only WARDEN-2.0.3/WARDEN/man/run_sim.Rd | 7 WARDEN-2.0.3/WARDEN/man/run_sim_parallel.Rd | 5 WARDEN-2.0.3/WARDEN/src/RcppExports.cpp | 12 WARDEN-2.0.3/WARDEN/src/condq.cpp | 137 - WARDEN-2.0.3/WARDEN/src/evt_queue.cpp | 16 WARDEN-2.0.3/WARDEN/src/resource_constrained.cpp | 11 WARDEN-2.0.3/WARDEN/tests/testthat/test-input_f.R | 1193 ++++++++++ WARDEN-2.0.3/WARDEN/tests/testthat/test-model_runs.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-queues.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_eBC.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_inputs_selector.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_ssd.R |only WARDEN-2.0.3/WARDEN/tests/testthat/test-regression_ssd_constrained.R |only WARDEN-2.0.3/WARDEN/vignettes/example_ssd.Rmd | 122 - 33 files changed, 2649 insertions(+), 929 deletions(-)
Title: Computation of Topp-Leone Cauchy Rayleigh (TLCAR )
distribution's properties
Description: Provides a comprehensive suite of statistical tools for analyzing, simulating, and computing properties of the Topp-Leone Cauchy Rayleigh (TLCAR) distribution, a versatile distribution amalgamating features of the Topp-Leone, Cauchy, and Rayleigh distributions, ideal for modeling intricate, heterogeneous data across scientific domains. See Atchadé, M.N., Bogninou, M.J., and Djibril, A.M. (2023) <doi:10.1007/s44199-023-00066-4> and Atchadé, M.N., Bogninou, M.J., and Djibril, A.M. (2024) <doi:10.1007/s44199-023-00069-1> for further insights.
Author: Mintode Nicodeme Atchade [aut],
Jude Mahoule Bogninou [aut, cre]
Maintainer: Jude Mahoule Bogninou <mahoulejude2001@gmail.com>
Diff between TLCAR versions 0.1.0 dated 2024-02-19 and 0.1.1 dated 2026-05-27
DESCRIPTION | 10 ++-- MD5 | 12 ++--- R/analysis.R | 2 R/fitTLCAR.R | 1 build/vignette.rds |binary inst/doc/Practical-Guide-to-Using-TLCAR-in-R.html | 45 +++++++++++----------- man/sTLCAR.Rd | 1 7 files changed, 38 insertions(+), 33 deletions(-)
Title: Interactive Reliability Probability Plots
Description: Build interactive Reliability Probability Plots with 'plotly' by Carson Sievert (2020) <https://plotly.com/r/>, an interactive web-based graphing library.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between ReliaPlotR versions 0.5 dated 2026-04-18 and 0.6 dated 2026-05-27
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/plotly_nhpp.R | 32 ++++++++++++++++---------------- man/plotly_nhpp.Rd | 16 ++++++++-------- tests/testthat/test-nhpp.R | 2 +- 6 files changed, 39 insertions(+), 33 deletions(-)
Title: Lightweight Framework for Orchestrating Multi-Agent Large
Language Models
Description: Provides tools for creating agents with persistent state using
R6 classes <https://cran.r-project.org/package=R6> and the 'ellmer'
package <https://cran.r-project.org/package=ellmer>. Tracks prompts,
messages, and agent metadata for reproducible, multi-turn large language
model sessions.
Author: Mohamed El Fodil Ihaddaden [aut, cre]
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Diff between mini007 versions 0.3.0 dated 2026-01-12 and 0.4.0 dated 2026-05-27
DESCRIPTION | 8 MD5 | 23 NAMESPACE | 2 NEWS.md | 8 R/Agent.R | 68 - R/Workflow.R |only README.md | 1980 +----------------------------- man/Agent.Rd | 65 man/LeadAgent.Rd | 1 man/Workflow.Rd |only man/WorkflowAgent.Rd |only man/figures/README-unnamed-chunk-23-1.png |binary man/figures/README-unnamed-chunk-24-1.png |only tests/testthat/test-agent.R | 20 tests/testthat/test-workflow.R |only 15 files changed, 307 insertions(+), 1868 deletions(-)
Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially
distributed animal population sampled with an array of passive detectors,
such as traps, or by searching polygons or transects. Models incorporating
distance-dependent detection are fitted by maximizing the likelihood.
Tools are included for data manipulation and model selection.
Author: Murray Efford [aut, cre] ,
Philipp Jund [ctb] ,
David Fletcher [ctb] ,
Yan Ru Choo [ctb]
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secr versions 5.4.2 dated 2026-02-24 and 5.4.3 dated 2026-05-27
DESCRIPTION | 8 ++++---- MD5 | 26 ++++++++++++++------------ NAMESPACE | 2 ++ NEWS | 10 ++++++++++ R/binCovariate.R | 20 +++++++++++++++----- R/exportedutility.R | 9 +++++---- R/fillNA.R |only inst/doc/secr-datainput.pdf |binary inst/doc/secr-overview.pdf |binary man/addCovariates.Rd | 6 +++++- man/binCovariate.Rd | 16 ++++++++++++---- man/fillNA.Rd |only man/secr-internal.Rd | 4 ++-- man/secr-package.Rd | 4 ++-- src/makegk.cpp | 18 ++++++++++++++++-- 15 files changed, 87 insertions(+), 36 deletions(-)
Title: Learning Modules for Reliability Analysis
Description: Learning modules for reliability analysis including modules for Reliability,
Availability, and Maintainability (RAM) Analysis, Life Data Analysis, Reliability Testing,
Repairable Systems Analysis, and Reliability Block Diagrams.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between ReliaLearnR versions 0.3 dated 2026-01-06 and 0.5 dated 2026-05-27
ReliaLearnR-0.3/ReliaLearnR/inst/paper |only ReliaLearnR-0.5/ReliaLearnR/DESCRIPTION | 20 ReliaLearnR-0.5/ReliaLearnR/MD5 | 78 ++- ReliaLearnR-0.5/ReliaLearnR/NAMESPACE | 2 ReliaLearnR-0.5/ReliaLearnR/NEWS.md | 28 + ReliaLearnR-0.5/ReliaLearnR/R/helpers.R | 39 - ReliaLearnR-0.5/ReliaLearnR/R/rbd.R |only ReliaLearnR-0.5/ReliaLearnR/R/rs.R |only ReliaLearnR-0.5/ReliaLearnR/README.md | 35 + ReliaLearnR-0.5/ReliaLearnR/inst/CITATION | 24 - ReliaLearnR-0.5/ReliaLearnR/inst/doc/helpers.R | 2 ReliaLearnR-0.5/ReliaLearnR/inst/doc/helpers.Rmd | 14 ReliaLearnR-0.5/ReliaLearnR/inst/doc/helpers.html | 21 ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/lda/lda.Rmd | 106 ++++ ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/lda/lda.html |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/lda/lda_files |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/ram.Rmd | 260 +++++++++++- ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/ram.html |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/ram_files |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/ram/rsconnect |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rbd |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rs |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rt/rt.Rmd | 85 +++ ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rt/rt.html |only ReliaLearnR-0.5/ReliaLearnR/inst/tutorials/rt/rt_files |only ReliaLearnR-0.5/ReliaLearnR/man/ReliaLearnR-package.Rd | 2 ReliaLearnR-0.5/ReliaLearnR/man/rbd.Rd |only ReliaLearnR-0.5/ReliaLearnR/man/rs.Rd |only ReliaLearnR-0.5/ReliaLearnR/tests/testthat/test-helpers.R | 44 +- ReliaLearnR-0.5/ReliaLearnR/tests/testthat/test-launchers.R | 10 ReliaLearnR-0.5/ReliaLearnR/vignettes/helpers.Rmd | 14 31 files changed, 670 insertions(+), 114 deletions(-)
Title: Power for Meta-Analysis of Dependent Effects
Description: Provides functions to compute and plot power levels, minimum detectable effect sizes, and minimum required sample sizes for the test of the overall average effect size in meta-analysis of dependent effect sizes.
Author: Mikkel H. Vembye [aut, cre] ,
James E. Pustejovsky [aut]
Maintainer: Mikkel H. Vembye <mikkel.vembye@gmail.com>
Diff between POMADE versions 0.2.0 dated 2024-02-13 and 0.2.1 dated 2026-05-27
DESCRIPTION | 17 MD5 | 46 - NEWS.md | 20 R/MDES_MADE.R | 10 R/data-documentation.R | 58 +- R/min_studies_MADE.R | 10 R/plot_MADE.R | 49 + R/plot_MADE.mdes.R | 8 R/plot_MADE.min_studies.R | 77 +- R/plot_MADE.power.R | 17 R/power_MADE.R | 1087 ++++++++++++++++++-------------------- build/partial.rdb |binary man/VWB23_pilot.Rd | 78 +- man/figures/README-example2-1.png |binary man/figures/README-example3-1.png |binary man/figures/README-example4-1.png |binary man/figures/README-example5-1.png |binary man/figures/README-example7-1.png |binary man/figures/README-example8-1.png |only man/figures/README-example9-1.png |only man/plot_MADE.Rd | 40 + man/plot_MADE.mdes.Rd | 36 - man/plot_MADE.min_studies.Rd | 36 - man/plot_MADE.power.Rd | 36 - tests/testthat/test-plot_MADE.R | 112 +++ 25 files changed, 984 insertions(+), 753 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] ,
yoonkyoung Chun [aut],
Zarathu [cph, fnd],
sungho Choi [aut],
Mingu Jee [aut],
Wonbin Hahn [aut],
Taehong Kim [aut],
Sangho Oh [aut],
Sewon Lee [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.6.2 dated 2026-03-17 and 0.6.3 dated 2026-05-27
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Title: Graphical Models Estimation from Multiple Sources
Description: Estimates networks of conditional dependencies (Gaussian graphical models) from multiple classes of data (similar but not exactly, i.e. measurements on different equipment, in different locations or for various sub-types). Package also allows to generate simulation data and evaluate the performance. Implementation of the method described in Angelini, De Canditiis and Plaksienko (2022) <doi:10.3390/math10213983>.
Author: Anna Plaksienko [aut, cre] ,
Claudia Angelini [aut] ,
Daniela De Canditiis [aut]
Maintainer: Anna Plaksienko <anna@plaxienko.com>
Diff between jewel versions 2.0.2 dated 2024-05-22 and 2.0.3 dated 2026-05-27
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Title: Study Design Toolbox for Movement Ecology Studies
Description: Toolbox and 'shiny' application to help researchers design
movement ecology studies, focusing on two key objectives: estimating
home range areas, and estimating fine-scale movement behavior,
specifically speed and distance traveled. It provides interactive
simulations and methodological guidance to support study planning and
decision-making. The application is described in Silva et al. (2023)
<doi:10.1111/2041-210X.14153>.
Author: Ines Silva [cre, aut, cph]
Maintainer: Ines Silva <i.simoes-silva@hzdr.de>
Diff between movedesign versions 0.3.2 dated 2025-07-30 and 0.3.3 dated 2026-05-27
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