Title: Sparse Multiple Canonical Correlation Network Analysis Tool
('SmCCNet')
Description: A canonical correlation based framework ('SmCCNet') designed for the construction of phenotype-specific multi-omics networks. This framework adeptly integrates single or multiple omics data types along with a quantitative or binary phenotype of interest. It offers a streamlined setup process that can be tailored manually or configured automatically, ensuring a flexible and user-friendly experience. Methods are described in Shi et al. (2019) "Unsupervised discovery of phenotype-specific multi-omics networks" <doi:10.1093/bioinformatics/btz226>.
Author: Abhinav Pundir [cre],
Weixuan Liu [aut],
Yonghua Zhuang [aut],
W. Jenny Shi [aut],
Thao Vu [aut],
Iain Konigsberg [aut],
Katherine Pratte [aut],
Laura Saba [aut],
Katerina Kechris [aut]
Maintainer: Abhinav Pundir <abhinav.pundir@ucdenver.edu>
Diff between SmCCNet versions 2.0.6 dated 2026-04-28 and 2.0.7 dated 2026-05-01
DESCRIPTION | 12 ++++++------ MD5 | 20 ++++++++++---------- inst/doc/SmCCNet_Vignette_AutoSmCCNet.pdf |binary inst/doc/SmCCNet_Vignette_MultiOmics.R | 6 +++--- inst/doc/SmCCNet_Vignette_MultiOmics.Rmd | 12 ++++++------ inst/doc/SmCCNet_Vignette_MultiOmics.pdf |binary inst/doc/SmCCNet_Vignette_SingleOmics.R | 6 +++--- inst/doc/SmCCNet_Vignette_SingleOmics.Rmd | 10 +++++----- inst/doc/SmCCNet_Vignette_SingleOmics.pdf |binary vignettes/SmCCNet_Vignette_MultiOmics.Rmd | 12 ++++++------ vignettes/SmCCNet_Vignette_SingleOmics.Rmd | 10 +++++----- 11 files changed, 44 insertions(+), 44 deletions(-)
Title: Wrapper for Statistics Portugal API
Description: An R6-based client to facilitate interaction with the Statistics
Portugal (Instituto Nacional de Estatistica - INE) API
(<https://www.ine.pt/xportal/xmain?xpid=INE&xpgid=ine_api&INST=322751522&xlang=en>).
Author: Carlos Matos [aut, cre, cph]
Maintainer: Carlos Matos <carlosmdmatos@gmail.com>
Diff between ineptr2 versions 0.3.0 dated 2026-04-28 and 0.3.1 dated 2026-05-01
DESCRIPTION | 6 MD5 | 98 NAMESPACE | 8 NEWS.md | 10 R/INEClient-fields.R | 76 R/INEClient.R | 2400 +++++++++++------------ R/utils.R | 528 ++--- README.md | 10 inst/doc/ineptr2.R | 5 inst/doc/ineptr2.Rmd | 372 +-- inst/doc/ineptr2.html | 38 man/INEClient-fields.Rd | 94 man/INEClient.Rd | 1096 +++++----- man/calc_dims_length_from_raw.Rd | 36 man/extract_dim_values.Rd | 36 man/figures/lifecycle-deprecated.svg | 42 man/figures/lifecycle-experimental.svg | 42 man/figures/lifecycle-stable.svg | 58 man/figures/lifecycle-superseded.svg | 42 man/filter_cached_data.Rd | 44 man/finalize_chunk.Rd | 40 man/gracefully_fail.Rd | 42 man/ineptr2-package.Rd | 52 man/is_filter_subset.Rd | 40 man/normalize_dim_filters.Rd | 36 man/process_ine_catalog.Rd | 36 man/process_ine_data.Rd | 36 man/records_to_df.Rd | 38 tests/testthat/fixtures/mock_catalog.xml | 154 - tests/testthat/helper-catalog.R | 48 tests/testthat/test-INEClient-clear_cache.R | 80 tests/testthat/test-INEClient-constructor.R | 110 - tests/testthat/test-INEClient-download_catalog.R | 88 tests/testthat/test-INEClient-download_data.R | 286 +- tests/testthat/test-INEClient-get_catalog.R | 56 tests/testthat/test-INEClient-get_data.R | 70 tests/testthat/test-INEClient-get_dim_info.R | 58 tests/testthat/test-INEClient-get_dim_values.R | 54 tests/testthat/test-INEClient-get_metadata.R | 52 tests/testthat/test-INEClient-info.R | 116 - tests/testthat/test-INEClient-is_updated.R | 142 - tests/testthat/test-INEClient-is_valid.R | 56 tests/testthat/test-INEClient-list_cached.R | 192 - tests/testthat/test-INEClient-load_raw_data.R | 126 - tests/testthat/test-INEClient-preview_chunks.R | 110 - tests/testthat/test-INEClient-print.R | 60 tests/testthat/test-INEClient-use_cache.R | 134 - tests/testthat/test-process_ine_catalog.R | 106 - tests/testthat/test-utils-filters.R | 244 +- vignettes/ineptr2.Rmd | 372 +-- 50 files changed, 4040 insertions(+), 4035 deletions(-)
Title: Spacing Tests for Multi-Modality
Description: Tests for modality of data using its spacing. The main approach
evaluates features (peaks, flats) using a combination of parametric models
and non-parametric tests, either after smoothing the spacing by a low-pass
filter or by looking over larger intervals.
Author: Greg Kreider [aut, cre],
Melissa O'Neill [cph],
Primordial Machine Vision Systems, Inc. [cph]
Maintainer: Greg Kreider <support@primachvis.com>
Diff between Dimodal versions 1.0.3 dated 2026-02-18 and 1.0.4 dated 2026-05-01
ChangeLog | 9 +++++-- DESCRIPTION | 8 +++--- MD5 | 24 ++++++++++---------- R/Dimodal.R | 10 ++++---- R/methods.R | 4 +-- R/sigtests.R | 6 +++-- R/utility.R | 15 ++++++------ man/Diopt.Rd | 4 +-- man/utilities.Rd | 22 +++++++----------- src/sigtests.c | 7 +---- tests/test_Dimodal.Rtest | 54 +++++++++++++++++++++++----------------------- tests/test_sigtests.Rtest | 31 ++++++++++++++------------ tests/test_utility.Rtest | 16 ++++++------- 13 files changed, 107 insertions(+), 103 deletions(-)
Title: Categorical Regression Splines
Description: Regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <https://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://www.sharcnet.ca>). We would also like to acknowledge the contributions of the GNU GSL authors. In particular, we adapt the GNU GSL B-spline routine gsl_bspline.c adding automated support for quantile knots (in addition to uniform knots), providing missing functionality for derivatives, and for extending the splines beyond their endpoints.
Author: Jeffrey S. Racine [aut, cre],
Zhenghua Nie [aut],
Brian D. Ripley [ctb]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between crs versions 0.15-41 dated 2026-04-11 and 0.15-42 dated 2026-05-01
CHANGELOG | 30 + DESCRIPTION | 8 MD5 | 54 - R/zzz.R | 7 build/vignette.rds |binary demo/crsiv.R | 31 - demo/crsiv_exog.R | 31 - demo/crsiv_exog_persp.R | 35 + demo/nomad_factor.R | 5 demo/radial_persp.R | 31 - demo/radial_rgl.R | 31 - demo/sine_rgl.R | 31 - inst/doc/crs_getting_started.html | 66 +- man/clsd.Rd | 161 +++-- man/crs.Rd | 292 ++++++---- man/crsiv.Rd | 123 +++- man/crsivderiv.Rd | 87 ++ man/crssigtest.Rd | 31 - man/data-cps71.Rd | 11 man/frscv.Rd | 80 +- man/frscvNOMAD.Rd | 141 +++- man/gsl-bs.Rd | 50 + man/krscv.Rd | 85 ++ man/krscvNOMAD.Rd | 174 +++-- man/snomadr.Rd | 218 ++++--- src/nomad4_src/src/Algos/MainStep.cpp | 18 src/nomad4_src/src/Param/EvaluatorControlGlobalParameters.cpp | 22 src/nomad4_src/src/Param/RunParameters.cpp | 22 28 files changed, 1272 insertions(+), 603 deletions(-)
Title: Create ToxPi Prioritization Models
Description: Enables users to build 'ToxPi' prioritization models and provides
functionality within the grid framework for plotting ToxPi graphs.
'toxpiR' allows for more customization than the 'ToxPi GUI'
(<https://toxpi.github.io/>) and integration into existing workflows for greater
ease-of-use, reproducibility, and transparency.
toxpiR package behaves nearly identically to the GUI; the package
documentation includes notes about all differences.
The vignettes download example files from
<https://github.com/ToxPi/ToxPi-example-files>.
Author: Jonathon F Fleming [aut, cre] ,
Dayne L Filer [aut, fnd] ,
Dillon T Lloyd [aut],
Preethi Thunga [aut] ,
Skylar W Marvel [aut],
Alison A Motsinger-Reif [fnd] ,
David M Reif [aut, fnd]
Maintainer: Jonathon F Fleming <jffleming0129@gmail.com>
Diff between toxpiR versions 1.3.1 dated 2025-12-16 and 1.3.2 dated 2026-05-01
DESCRIPTION | 6 MD5 | 24 NEWS.md | 4 R/txpImportGui.R | 260 ++++---- build/vignette.rds |binary data/txp_example_model.rda |binary inst/doc/exportToGui.rmd | 220 +++---- inst/doc/importFromGui.Rmd | 192 +++--- inst/doc/introduction.Rmd | 1302 ++++++++++++++++++++++---------------------- inst/doc/introduction.html | 52 - vignettes/exportToGui.rmd | 220 +++---- vignettes/importFromGui.Rmd | 192 +++--- vignettes/introduction.Rmd | 1302 ++++++++++++++++++++++---------------------- 13 files changed, 1889 insertions(+), 1885 deletions(-)
Title: Coarse-to-Fine Spatial Modeling
Description: Provides functions for coarse-to-fine spatial modeling (CFSM), enabling fast spatial prediction, regression, and uncertainty quantification. This method is suitable for moderate to large samples. For further details, see Murakami et al. (2026) <doi:10.1111/gean.70034>.
Author: Daisuke Murakami [aut, cre],
Alexis Comber [aut],
Takahiro Yoshida [aut],
Narumasa Tsutsumida [aut],
Chris Brunsdon [aut],
Tomoki Nakaya [aut]
Maintainer: Daisuke Murakami <dmuraka@ism.ac.jp>
Diff between spCF versions 0.1.0 dated 2026-01-19 and 0.1.1 dated 2026-05-01
spCF-0.1.0/spCF/R/internal_utils.R |only spCF-0.1.1/spCF/DESCRIPTION | 15 +- spCF-0.1.1/spCF/MD5 | 43 +++++-- spCF-0.1.1/spCF/NAMESPACE | 13 ++ spCF-0.1.1/spCF/R/RcppExports.R |only spCF-0.1.1/spCF/R/cf_glm.R |only spCF-0.1.1/spCF/R/cf_glm_hv.R |only spCF-0.1.1/spCF/R/cf_lm.R | 118 +++++++++++++-------- spCF-0.1.1/spCF/R/cf_lm_hv.R | 91 ++++++++++------ spCF-0.1.1/spCF/R/internal_utils_glm.R |only spCF-0.1.1/spCF/R/internal_utils_lm.R |only spCF-0.1.1/spCF/R/spCF-package.R |only spCF-0.1.1/spCF/R/sp_scalewise.R | 20 ++- spCF-0.1.1/spCF/build/vignette.rds |binary spCF-0.1.1/spCF/inst/doc/spCF_glm.R |only spCF-0.1.1/spCF/inst/doc/spCF_glm.Rmd |only spCF-0.1.1/spCF/inst/doc/spCF_glm.html |only spCF-0.1.1/spCF/inst/doc/spCF_intro.R | 31 ++--- spCF-0.1.1/spCF/inst/doc/spCF_intro.Rmd | 53 +++++---- spCF-0.1.1/spCF/inst/doc/spCF_intro.html | 171 +++++++++++++++---------------- spCF-0.1.1/spCF/man/cf_glm.Rd |only spCF-0.1.1/spCF/man/cf_glm_hv.Rd |only spCF-0.1.1/spCF/man/cf_lm.Rd | 48 ++++---- spCF-0.1.1/spCF/man/cf_lm_hv.Rd | 37 +++--- spCF-0.1.1/spCF/man/spCF.Rd |only spCF-0.1.1/spCF/man/sp_scalewise.Rd | 12 +- spCF-0.1.1/spCF/src |only spCF-0.1.1/spCF/vignettes/spCF_glm.Rmd |only spCF-0.1.1/spCF/vignettes/spCF_intro.Rmd | 53 +++++---- 29 files changed, 411 insertions(+), 294 deletions(-)
Title: In-Line Documentation for R
Description: Generate your Rd documentation, 'NAMESPACE' file, and
collation field using specially formatted comments. Writing
documentation in-line with code makes it easier to keep your
documentation up-to-date as your requirements change. 'roxygen2' is
inspired by the 'Doxygen' system for C++.
Author: Hadley Wickham [aut, cre, cph] ,
Peter Danenberg [aut, cph],
Gabor Csardi [aut],
Manuel Eugster [aut, cph],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between roxygen2 versions 7.3.3 dated 2025-09-03 and 8.0.0 dated 2026-05-01
roxygen2-7.3.3/roxygen2/R/rd-find-link-files.R |only roxygen2-7.3.3/roxygen2/inst/doc/rd-other.R |only roxygen2-7.3.3/roxygen2/inst/doc/rd-other.Rmd |only roxygen2-7.3.3/roxygen2/inst/doc/rd-other.html |only roxygen2-7.3.3/roxygen2/inst/doc/rd.R |only roxygen2-7.3.3/roxygen2/inst/doc/rd.Rmd |only roxygen2-7.3.3/roxygen2/inst/doc/rd.html |only roxygen2-7.3.3/roxygen2/man/tags-rd-other.Rd |only roxygen2-7.3.3/roxygen2/man/tags-rd.Rd |only roxygen2-7.3.3/roxygen2/tests/testthat/_snaps/rd-find-link-files.md |only roxygen2-7.3.3/roxygen2/tests/testthat/roxygen-block-1.R |only roxygen2-7.3.3/roxygen2/tests/testthat/roxygen-block-2.R |only roxygen2-7.3.3/roxygen2/tests/testthat/roxygen-block-3-A.Rd |only roxygen2-7.3.3/roxygen2/tests/testthat/roxygen-block-3-B.Rd |only roxygen2-7.3.3/roxygen2/tests/testthat/roxygen-block-3-C.Rd |only roxygen2-7.3.3/roxygen2/tests/testthat/roxygen-block-3.R |only roxygen2-7.3.3/roxygen2/tests/testthat/test-rd-find-link-files.R |only roxygen2-7.3.3/roxygen2/tests/testthat/testMdLinks2 |only roxygen2-7.3.3/roxygen2/vignettes/rd-other.Rmd |only roxygen2-7.3.3/roxygen2/vignettes/rd.Rmd |only roxygen2-8.0.0/roxygen2/DESCRIPTION | 21 roxygen2-8.0.0/roxygen2/MD5 | 465 ++++--- roxygen2-8.0.0/roxygen2/NAMESPACE | 35 roxygen2-8.0.0/roxygen2/NEWS.md | 97 + roxygen2-8.0.0/roxygen2/R/block.R | 69 - 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Title: Phased or Unphased Linkage Disequilibrium
Description: Computes the D', Wn, and conditional asymmetric linkage disequilibrium (ALD) measures for pairs of genetic loci. Performs these linkage disequilibrium (LD) calculations on phased genotype data recorded using Genotype List (GL) String or columnar formats. Alternatively, generates expectation-maximization (EM) estimated haplotypes from phased data, or performs LD calculations on EM estimated haplotypes. Performs sign tests comparing LD values for phased and unphased datasets, and generates heat-maps for each LD measure. Described by Osoegawa et al. (2019a) <doi:10.1016/j.humimm.2019.01.010>, and Osoegawa et. al. (2019b) <doi:10.1016/j.humimm.2019.05.018>.
Author: Steven Mack [aut, cre]
Maintainer: Steven Mack <steven.mack@ucsf.edu>
This is a re-admission after prior archival of version 1.0.1 dated 2020-10-16
Diff between pould versions 1.0.1 dated 2020-10-16 and 1.0.2 dated 2026-05-01
DESCRIPTION | 11 - MD5 | 30 +-- NAMESPACE | 1 NEWS | 69 +++---- R/LD.heatmap.R | 136 +++++++++----- R/LD.sign.test.R | 54 ++--- R/LocusExtractor.R | 9 R/cALD_FamilyFunctions.R | 147 +++++++-------- build/vignette.rds |binary inst/doc/pould.Rmd | 10 - inst/doc/pould.html | 452 ++++++++++++++++++++++++++++++++++++++--------- man/LD.heat.map.Rd | 19 + man/LD.sign.test.Rd | 10 - man/LDWrap.Rd | 2 man/cALD.Rd | 10 - vignettes/pould.Rmd | 10 - 16 files changed, 667 insertions(+), 303 deletions(-)
Title: Colour Palette for Reading and Code, Inspired by Moby-Dick
Description: The Pequod colour palette, named after the whaler in
Herman Melville's Moby-Dick. Provides the full Log base scale
from warm paper (Log 50) to deep ink (Log 950), eight crew
accent hues with light and dark variants, and 'ggplot2' scales
for discrete and continuous mapping. Designed for long-form
reading and code, with low saturation and a consistent earth-
pigment register. Full design rationale and accessibility notes
at <https://tiagojct.eu/projects/pequod/>.
Author: Tiago Jacinto [aut, cre]
Maintainer: Tiago Jacinto <tiagojacinto@med.up.pt>
Diff between pequod versions 0.1.1 dated 2026-04-29 and 0.2.0 dated 2026-05-01
DESCRIPTION | 6 ++--- MD5 | 4 +-- R/palettes-data.R | 58 +++++++++++++++++++++++++++--------------------------- 3 files changed, 34 insertions(+), 34 deletions(-)
Title: Run GWAS/GWEIS Scans Using Binary Dosage Files
Description: Tools to run genome-wide association study (GWAS) and
genome-wide by environment interaction study (GWEIS) scans using the genetic
data stored in a binary dosage file. The user provides a data frame with
the subject's covariate data and the information about the binary dosage
file returned by the BinaryDosage::getbdinfo() routine.
Author: John Morrison [aut, cre],
W. James Gauderman [aut],
NCI [fnd] ,
NCI [fnd] ,
NIEHS [fnd] ,
NHLBI [fnd]
Maintainer: John Morrison <jmorr@usc.edu>
This is a re-admission after prior archival of version 2.0.2 dated 2020-10-02
Diff between GxEScanR versions 2.0.2 dated 2020-10-02 and 3.0.0 dated 2026-05-01
GxEScanR-2.0.2/GxEScanR/R/LinReg.R |only GxEScanR-2.0.2/GxEScanR/R/LogReg.R |only GxEScanR-2.0.2/GxEScanR/R/RcppExports.R |only GxEScanR-2.0.2/GxEScanR/inst/WORDLIST |only GxEScanR-2.0.2/GxEScanR/inst/extdata/covdata.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/defaultblk.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/largebdinfo.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/lingwas.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/lingweis.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/loggwas.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/loggweis.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/loggweisc.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/models.rds |only GxEScanR-2.0.2/GxEScanR/inst/extdata/pdata_4_1.bdinfo |only GxEScanR-2.0.2/GxEScanR/inst/extdata/pdata_4_1.bdose |only GxEScanR-2.0.2/GxEScanR/inst/extdata/pdata_4_2.bdinfo |only GxEScanR-2.0.2/GxEScanR/inst/extdata/pdata_4_2.bdose |only GxEScanR-2.0.2/GxEScanR/inst/extdata/skipreason.rds |only GxEScanR-2.0.2/GxEScanR/man/gwas.Rd |only GxEScanR-2.0.2/GxEScanR/man/gweis.Rd |only GxEScanR-2.0.2/GxEScanR/src |only GxEScanR-2.0.2/GxEScanR/tests/testthat/test-gwasinput.R |only GxEScanR-2.0.2/GxEScanR/tests/testthat/test-results.R |only GxEScanR-3.0.0/GxEScanR/DESCRIPTION | 24 GxEScanR-3.0.0/GxEScanR/MD5 | 56 GxEScanR-3.0.0/GxEScanR/NAMESPACE | 14 GxEScanR-3.0.0/GxEScanR/NEWS.md | 10 GxEScanR-3.0.0/GxEScanR/R/GxEScanR.R | 696 +++------ GxEScanR-3.0.0/GxEScanR/README.md |only GxEScanR-3.0.0/GxEScanR/build/vignette.rds |binary GxEScanR-3.0.0/GxEScanR/inst/doc/UsingGxEScanR.R | 202 +- GxEScanR-3.0.0/GxEScanR/inst/doc/UsingGxEScanR.Rmd | 416 ++--- GxEScanR-3.0.0/GxEScanR/inst/doc/UsingGxEScanR.html | 1217 ++++++---------- GxEScanR-3.0.0/GxEScanR/inst/extdata/gendata.bdose |only GxEScanR-3.0.0/GxEScanR/inst/extdata/gendata.bdose.bdi |only GxEScanR-3.0.0/GxEScanR/inst/extdata/gendata.vcf.gz |only GxEScanR-3.0.0/GxEScanR/inst/extdata/subdata.rds |only GxEScanR-3.0.0/GxEScanR/man/gweis.mem.Rd |only GxEScanR-3.0.0/GxEScanR/man/rungweis.Rd |only GxEScanR-3.0.0/GxEScanR/tests/testthat.R | 8 GxEScanR-3.0.0/GxEScanR/tests/testthat/test-gweis.R |only GxEScanR-3.0.0/GxEScanR/vignettes/UsingGxEScanR.Rmd | 416 ++--- 42 files changed, 1372 insertions(+), 1687 deletions(-)
Title: Graphical Output in Terminals
Description: Defines a graphics device and functions for graphical output in
terminal emulators that support graphical output. Currently terminals that
support the Terminal Graphics Protocol
(<https://sw.kovidgoyal.net/kitty/graphics-protocol/>) and terminal supporting Sixel
(<https://en.wikipedia.org/wiki/Sixel>) are supported.
Author: Jan van der Laan [aut, cre] ,
Doug Kelkhoff [ctb]
Maintainer: Jan van der Laan <r@eoos.dds.nl>
Diff between terminalgraphics versions 0.2.1 dated 2025-11-26 and 0.3.0 dated 2026-05-01
terminalgraphics-0.2.1/terminalgraphics/man/tgp_diacritics.Rd |only terminalgraphics-0.3.0/terminalgraphics/DESCRIPTION | 10 - terminalgraphics-0.3.0/terminalgraphics/MD5 | 42 +++---- terminalgraphics-0.3.0/terminalgraphics/NAMESPACE | 3 terminalgraphics-0.3.0/terminalgraphics/NEWS.md | 24 ++++ terminalgraphics-0.3.0/terminalgraphics/R/RcppExports.R | 4 terminalgraphics-0.3.0/terminalgraphics/R/device_manager.R | 54 ++++++++- terminalgraphics-0.3.0/terminalgraphics/R/has_sixel_support.R | 7 + terminalgraphics-0.3.0/terminalgraphics/R/has_tgp_support.R | 13 +- terminalgraphics-0.3.0/terminalgraphics/R/is_terminal.R | 30 ++++- terminalgraphics-0.3.0/terminalgraphics/R/kitty_colors.R | 8 + terminalgraphics-0.3.0/terminalgraphics/R/sixel.R | 19 +-- terminalgraphics-0.3.0/terminalgraphics/R/term_colors.R | 17 +- terminalgraphics-0.3.0/terminalgraphics/R/term_dim.R | 7 + terminalgraphics-0.3.0/terminalgraphics/R/tgp.R | 59 ++++------ terminalgraphics-0.3.0/terminalgraphics/README.md | 16 ++ terminalgraphics-0.3.0/terminalgraphics/man/is_terminal.Rd | 9 + terminalgraphics-0.3.0/terminalgraphics/man/kitty_colors.Rd | 2 terminalgraphics-0.3.0/terminalgraphics/man/sixel.Rd | 6 - terminalgraphics-0.3.0/terminalgraphics/man/tgp.Rd | 6 - terminalgraphics-0.3.0/terminalgraphics/src/Makevars |only terminalgraphics-0.3.0/terminalgraphics/src/RcppExports.cpp | 9 - terminalgraphics-0.3.0/terminalgraphics/src/query_sixel_support.cpp | 53 +++----- 23 files changed, 267 insertions(+), 131 deletions(-)
More information about terminalgraphics at CRAN
Permanent link
Title: Simulate Experimental Crosses
Description: Simulate and plot general experimental crosses. The focus is on simulating genotypes with an aim towards flexibility rather than speed. Meiosis is simulated following the Stahl model, in which chiasma locations are the superposition of two processes: a proportion p coming from a process exhibiting no interference, and the remainder coming from a process following the chi-square model.
Author: Karl W Broman [aut, cre]
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between simcross versions 0.6 dated 2023-11-29 and 0.8 dated 2026-05-01
DESCRIPTION | 13 +++++++------ MD5 | 20 ++++++++++---------- NEWS.md | 9 +++++++++ R/plot_cross.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary data/AILped.RData |binary data/mouseL_cox.RData |binary data/mouseL_mgi.RData |binary inst/doc/simcross.html | 7 ++++--- man/plot_crosslines.Rd | 2 +- 11 files changed, 32 insertions(+), 21 deletions(-)
Title: UK Flood Estimation
Description: Functions to implement the methods of the Flood Estimation Handbook (FEH), associated updates and the revitalised flood hydrograph model (ReFH). Currently the package uses NRFA peak flow dataset version 14. Aside from FEH functionality, further hydrological functions are available. Most of the methods implemented in this package are described in one or more of the following: "Flood Estimation Handbook", Centre for Ecology & Hydrology (1999, ISBN:0 948540 94 X). "Flood Estimation Handbook Supplementary Report No. 1", Kjeldsen (2007, ISBN:0 903741 15 7). "Regional Frequency Analysis - an approach based on L-moments", Hosking & Wallis (1997, ISBN: 978 0 521 01940 8). "Making better use of local data in flood frequency estimation", Environment Agency (2017, ISBN: 978 1 84911 387 8). "Sampling uncertainty of UK design flood estimation" , Hammond (2021, <doi:10.2166/nh.2021.059>). "The FEH 2025 statistical method update", UK Centre for Ecology and Hydrology (2025). "Low flow es [...truncated...]
Author: Anthony Hammond [aut, cre]
Maintainer: Anthony Hammond <agqhammond@gmail.com>
Diff between UKFE versions 2.0.0 dated 2025-10-28 and 2.0.1 dated 2026-05-01
UKFE-2.0.0/UKFE/man/AggDayHour.Rd |only UKFE-2.0.0/UKFE/man/QMEDPOT.Rd |only UKFE-2.0.1/UKFE/DESCRIPTION | 6 UKFE-2.0.1/UKFE/MD5 | 33 ++-- UKFE-2.0.1/UKFE/R/All.R | 246 +++++++++++++++-------------------- UKFE-2.0.1/UKFE/R/FEH08.R |only UKFE-2.0.1/UKFE/R/FlowAnalysis.R | 112 +++++++++++++++ UKFE-2.0.1/UKFE/R/GetData.R | 60 ++++++-- UKFE-2.0.1/UKFE/R/RainfallAnalysis.R | 2 UKFE-2.0.1/UKFE/R/ReFH.R | 167 ++++++++++------------- UKFE-2.0.1/UKFE/man/AggMonDayHour.Rd |only UKFE-2.0.1/UKFE/man/Bootstrap.Rd | 2 UKFE-2.0.1/UKFE/man/DesHydro.Rd | 5 UKFE-2.0.1/UKFE/man/GetDataNRFA.Rd | 2 UKFE-2.0.1/UKFE/man/LowFlows.Rd | 19 +- UKFE-2.0.1/UKFE/man/PoolEst_FEH08.Rd |only UKFE-2.0.1/UKFE/man/Pool_FEH08.Rd |only UKFE-2.0.1/UKFE/man/QMED.Rd | 2 UKFE-2.0.1/UKFE/man/QMED_FEH08.Rd |only UKFE-2.0.1/UKFE/man/Rating.Rd | 4 UKFE-2.0.1/UKFE/man/ReFH.Rd | 8 - 21 files changed, 391 insertions(+), 277 deletions(-)
Title: Meta-Analysis of Significance Values
Description: The canonical way to perform meta-analysis involves using effect sizes.
When they are not available this package provides a number of methods for
meta-analysis of significance values including the methods of Edgington, Fisher,
Lancaster, Stouffer, Tippett, and Wilkinson; a number of data-sets to replicate published results;
and routines for graphical display.
Author: Michael Dewey [aut, cre]
Maintainer: Michael Dewey <lists@dewey.myzen.co.uk>
Diff between metap versions 1.13 dated 2025-12-18 and 1.14 dated 2026-05-01
DESCRIPTION | 12 ++++++------ MD5 | 36 ++++++++++++++++++------------------ NAMESPACE | 2 +- NEWS | 7 +++++++ R/truncated.R | 7 +++++-- build/metap.pdf |binary build/partial.rdb |binary build/stage23.rdb |binary build/vignette.rds |binary inst/doc/compare.R | 2 -- inst/doc/compare.Rnw | 15 +++++++++++---- inst/doc/compare.pdf |binary inst/doc/metap.R | 2 -- inst/doc/metap.pdf |binary inst/doc/plotmetap.R | 2 -- inst/doc/plotmetap.pdf |binary man/macros/macros.Rd | 6 +++--- man/truncated.Rd | 13 ++++++++++--- vignettes/compare.Rnw | 15 +++++++++++---- 19 files changed, 72 insertions(+), 47 deletions(-)
Title: Quality Control for Label-Free Proteomics Expression Data
Description: Label-free bottom-up proteomics expression data is often affected by data heterogeneity and missing values. Normalization and missing value imputation are commonly used techniques to address these issues and make the dataset suitable for further downstream analysis. This package provides an optimal combination of normalization and imputation methods for the dataset. The package utilizes three normalization methods and three imputation methods.The statistical evaluation measures named pooled co-efficient of variance, pooled estimate of variance and pooled median absolute deviation are used for selecting the best combination of normalization and imputation method for the given dataset. The user can also visualize the results by using various plots available in this package. The user can also perform the differential expression analysis between two sample groups with the function included in this package. The chosen three normalization methods, three imputation methods and three evaluati [...truncated...]
Author: Kabilan S [aut, cre],
Dr Shashi Bhushan Lal [aut, ths],
Dr Sudhir Srivastava [aut, ths],
Dr Krishna Kumar Chaturvedi [ths],
Dr Yasin Jeshima K [ths],
Dr Ramasubramanian V [ths],
Dr Girish Kumar Jha [ctb],
Dr Sharanbasappa [ctb]
Maintainer: Kabilan S <kabilan151414@gmail.com>
Diff between lfproQC versions 1.4.1 dated 2025-07-02 and 1.4.2 dated 2026-05-01
DESCRIPTION | 13 ++++--- MD5 | 10 ++--- NEWS | 7 ++++ inst/CITATION | 3 - inst/doc/user_guide.html | 81 +++++++++++++++++++++++++---------------------- man/lfproQC-package.Rd | 1 6 files changed, 65 insertions(+), 50 deletions(-)
Title: 'binb' is not 'Beamer'
Description: A collection of 'LaTeX' styles using 'Beamer' customization for
pdf-based presentation slides in 'RMarkdown'. At present it contains
'RMarkdown' adaptations of the LaTeX themes 'Metropolis' (formerly 'mtheme')
theme by Matthias Vogelgesang and others (now included in 'TeXLive'), the
'IQSS' them by Ista Zahn (which is included here), and the 'Monash' theme by
Rob J Hyndman. Additional (free) fonts may be needed: 'Metropolis' prefers
'Fira', and 'IQSS' requires 'Libertinus'.
Author: Dirk Eddelbuettel [aut, cre] ,
Ista Zahn [aut] ,
Rob Hyndman [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between binb versions 0.0.7 dated 2024-07-06 and 0.0.8 dated 2026-05-01
ChangeLog | 39 +++++++++++++ DESCRIPTION | 23 +++++-- MD5 | 25 ++++---- README.md | 10 +-- build/vignette.rds |binary inst/NEWS.Rd | 17 +++++ inst/doc/metropolisDemo.R | 14 ++-- inst/doc/metropolisDemo.pdf |binary inst/rmarkdown/templates/iqss/resources/auto |only inst/rmarkdown/templates/iqss/resources/template.tex | 2 inst/rmarkdown/templates/metropolis/resources/template.tex | 2 inst/rmarkdown/templates/monash/resources/auto |only inst/rmarkdown/templates/monash/resources/template.tex | 2 inst/rmarkdown/templates/presento/resources/auto |only inst/rmarkdown/templates/presento/resources/template.tex | 6 +- 15 files changed, 109 insertions(+), 31 deletions(-)
Title: Functions for Nonlinear Least Squares Solutions - Updated 2022
Description: Provides tools for working with nonlinear least squares problems.
For the estimation of models reliable and robust tools than nls(), where the
the Gauss-Newton method frequently stops with 'singular gradient' messages.
This is accomplished by using, where possible, analytic derivatives to compute
the matrix of derivatives and a stabilization of the solution of the estimation
equations. Tools for approximate or externally supplied derivative matrices
are included. Bounds and masks on parameters are handled properly.
Author: John C Nash [aut, cre],
Duncan Murdoch [aut],
Fernando Miguez [ctb],
Arkajyoti Bhattacharjee [ctb]
Maintainer: John C Nash <profjcnash@gmail.com>
Diff between nlsr versions 2023.8.31 dated 2023-09-05 and 2026.4.29 dated 2026-05-01
nlsr-2023.8.31/nlsr/inst/doc/development |only nlsr-2026.4.29/nlsr/DESCRIPTION | 12 nlsr-2026.4.29/nlsr/MD5 | 37 - nlsr-2026.4.29/nlsr/build/vignette.rds |binary nlsr-2026.4.29/nlsr/inst/doc/FixedParameters.pdf |binary nlsr-2026.4.29/nlsr/inst/doc/Intro-to-nlsr.R | 46 - nlsr-2026.4.29/nlsr/inst/doc/Intro-to-nlsr.pdf |binary nlsr-2026.4.29/nlsr/inst/doc/R-analytic-derivatives.R | 266 +++++----- nlsr-2026.4.29/nlsr/inst/doc/R-analytic-derivatives.pdf |binary nlsr-2026.4.29/nlsr/inst/doc/nlsr-derivs.pdf |binary nlsr-2026.4.29/nlsr/inst/doc/nlsr-devdoc.R | 402 ++++++++-------- nlsr-2026.4.29/nlsr/inst/doc/nlsr-devdoc.Rmd | 5 nlsr-2026.4.29/nlsr/inst/doc/nlsr-devdoc.pdf |binary nlsr-2026.4.29/nlsr/vignettes/ImproveNLS.bib | 181 +++---- nlsr-2026.4.29/nlsr/vignettes/nlsr-devdoc.Rmd | 5 15 files changed, 477 insertions(+), 477 deletions(-)
Title: Automatic Plotting and Theming of Many Graphs
Description: Visual exploration and presentation of networks should not be difficult.
This package includes functions for plotting networks and network-related metrics with sensible and pretty defaults.
It includes 'ggplot2'-based plot methods for many popular network package classes.
It also includes some novel layout algorithms, and options for straightforward, consistent themes.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between autograph versions 1.0.0 dated 2026-04-04 and 1.0.3 dated 2026-05-01
autograph-1.0.0/autograph/data/ergm_res.rda |only autograph-1.0.0/autograph/inst/autograph_logo.png |only autograph-1.0.3/autograph/DESCRIPTION | 8 autograph-1.0.3/autograph/MD5 | 35 +-- autograph-1.0.3/autograph/NAMESPACE | 1 autograph-1.0.3/autograph/NEWS.md | 27 ++ autograph-1.0.3/autograph/R/autograph-package.R | 2 autograph-1.0.3/autograph/R/data_precooked.R | 6 autograph-1.0.3/autograph/R/plot_convergence.R | 7 autograph-1.0.3/autograph/R/plot_interp.R | 1 autograph-1.0.3/autograph/inst/autograph.png |only autograph-1.0.3/autograph/inst/autograph_old.png |only autograph-1.0.3/autograph/inst/extdata |only autograph-1.0.3/autograph/inst/tutorials/tutorial2/visualisation.Rmd | 26 +- autograph-1.0.3/autograph/inst/tutorials/tutorial2/visualisation.html | 110 +++++----- autograph-1.0.3/autograph/man/autograph-package.Rd | 2 autograph-1.0.3/autograph/man/figures/logo.png |binary autograph-1.0.3/autograph/man/made_earlier.Rd | 5 autograph-1.0.3/autograph/man/plot_convergence.Rd | 4 autograph-1.0.3/autograph/man/plot_interp.Rd | 1 autograph-1.0.3/autograph/tests/testthat/test-plot_convergence.R | 1 21 files changed, 136 insertions(+), 100 deletions(-)
Title: Numeric Matrices K-NN and PCA Imputation
Description: Fast k-nearest neighbors (K-NN) and principal component
analysis (PCA) imputation algorithms for missing values in
high-dimensional numeric matrices, i.e., epigenetic data. For
extremely high-dimensional data with ordered features, a sliding
window approach for K-NN or PCA imputation is provided. Additional
features include group-wise imputation (e.g., by chromosome),
hyperparameter tuning with repeated cross-validation, multi-core
parallelization, and optional subset imputation. The K-NN algorithm is
described in: Hastie, T., Tibshirani, R., Sherlock, G., Eisen, M.,
Brown, P. and Botstein, D. (1999) "Imputing Missing Data for Gene
Expression Arrays". The PCA imputation is an optimized version of the
imputePCA() function from the 'missMDA' package described in: Josse,
J. and Husson, F. (2016) <doi:10.18637/jss.v070.i01> "missMDA: A
Package for Handling Missing Values in Multivariate Data Analysis".
Author: Hung Pham [aut, cre, cph]
Maintainer: Hung Pham <amser.hoanghung@gmail.com>
Diff between slideimp versions 1.0.0 dated 2026-04-16 and 1.1.0 dated 2026-05-01
slideimp-1.0.0/slideimp/R/slideimp_registry.R |only slideimp-1.0.0/slideimp/man/register_group_resolver.Rd |only slideimp-1.0.0/slideimp/src/fastSVD.cpp |only slideimp-1.0.0/slideimp/src/openmp_utils.cpp |only slideimp-1.1.0/slideimp/DESCRIPTION | 11 slideimp-1.1.0/slideimp/MD5 | 117 + slideimp-1.1.0/slideimp/NAMESPACE | 6 slideimp-1.1.0/slideimp/NEWS.md | 33 slideimp-1.1.0/slideimp/R/RcppExports.R | 20 slideimp-1.1.0/slideimp/R/col_vars.R | 44 slideimp-1.1.0/slideimp/R/group_imp.R | 480 ++++---- slideimp-1.1.0/slideimp/R/knn_imp.R | 202 +-- slideimp-1.1.0/slideimp/R/mat_miss.R |only slideimp-1.1.0/slideimp/R/mean_imp_col.R | 45 slideimp-1.1.0/slideimp/R/pca_imp.R | 514 +++++++- slideimp-1.1.0/slideimp/R/print.R | 115 + slideimp-1.1.0/slideimp/R/sim_mat.R | 52 slideimp-1.1.0/slideimp/R/slide_imp.R | 240 ++-- slideimp-1.1.0/slideimp/R/slideimp-package.R | 11 slideimp-1.1.0/slideimp/R/tune_imp.R | 717 ++++++------ slideimp-1.1.0/slideimp/R/utils.R | 183 ++- slideimp-1.1.0/slideimp/README.md | 96 - slideimp-1.1.0/slideimp/inst/doc/slideimp.Rmd | 8 slideimp-1.1.0/slideimp/inst/doc/slideimp.html | 72 - slideimp-1.1.0/slideimp/man/col_vars.Rd | 70 - slideimp-1.1.0/slideimp/man/compute_metrics.Rd | 28 slideimp-1.1.0/slideimp/man/group_imp.Rd | 291 ++-- slideimp-1.1.0/slideimp/man/knn_imp.Rd | 204 +-- slideimp-1.1.0/slideimp/man/lobpcg_control.Rd |only slideimp-1.1.0/slideimp/man/mat_miss.Rd |only slideimp-1.1.0/slideimp/man/mean_imp_col.Rd | 47 slideimp-1.1.0/slideimp/man/pca_imp.Rd | 138 +- slideimp-1.1.0/slideimp/man/prep_groups.Rd | 102 - slideimp-1.1.0/slideimp/man/print.slideimp_results.Rd | 9 slideimp-1.1.0/slideimp/man/print.slideimp_sim.Rd | 2 slideimp-1.1.0/slideimp/man/print.slideimp_tbl.Rd | 17 slideimp-1.1.0/slideimp/man/sample_na_loc.Rd | 83 - slideimp-1.1.0/slideimp/man/sim_mat.Rd | 51 slideimp-1.1.0/slideimp/man/slide_imp.Rd | 250 ++-- slideimp-1.1.0/slideimp/man/slideimp-package.Rd |only slideimp-1.1.0/slideimp/man/slideimp_resolve_group.Rd |only slideimp-1.1.0/slideimp/man/tune_imp.Rd | 263 ++-- slideimp-1.1.0/slideimp/src/Makevars | 3 slideimp-1.1.0/slideimp/src/Makevars.win | 1 slideimp-1.1.0/slideimp/src/RcppExports.cpp | 72 - slideimp-1.1.0/slideimp/src/armaSVD.cpp |only slideimp-1.1.0/slideimp/src/eig_sym_sel.h | 284 ---- slideimp-1.1.0/slideimp/src/find_windows.cpp | 2 slideimp-1.1.0/slideimp/src/gram_ops.h |only slideimp-1.1.0/slideimp/src/hybrid_topk_eig.h |only slideimp-1.1.0/slideimp/src/impute_knn_brute.cpp | 948 +++++----------- slideimp-1.1.0/slideimp/src/impute_knn_mlpack.cpp | 220 ++- slideimp-1.1.0/slideimp/src/imputed_value.cpp | 268 +++- slideimp-1.1.0/slideimp/src/imputed_value.h | 155 ++ slideimp-1.1.0/slideimp/src/lobpcg_warm.h |only slideimp-1.1.0/slideimp/src/loc_timer.h | 15 slideimp-1.1.0/slideimp/src/mat_stats.cpp | 180 ++- slideimp-1.1.0/slideimp/src/pca_linalg_utils.h |only slideimp-1.1.0/slideimp/src/sample_each_rep_cpp.cpp | 2 slideimp-1.1.0/slideimp/src/svd_triplet.h |only slideimp-1.1.0/slideimp/tests/testthat/helper.R |only slideimp-1.1.0/slideimp/tests/testthat/test-group_imp.R | 26 slideimp-1.1.0/slideimp/tests/testthat/test-knn_imp.R | 31 slideimp-1.1.0/slideimp/tests/testthat/test-mat_miss.R |only slideimp-1.1.0/slideimp/tests/testthat/test-pca_imp.R | 357 +++++- slideimp-1.1.0/slideimp/tests/testthat/test-slide_imp.R | 58 slideimp-1.1.0/slideimp/tests/testthat/test-tune_imp.R | 153 ++ slideimp-1.1.0/slideimp/vignettes/slideimp.Rmd | 8 68 files changed, 4266 insertions(+), 3038 deletions(-)
Title: Visualizes Preferential Data in One and More Contests
Description: A visualization toolkit for preferential data, such as ranked-choice election results, tournament outcomes,
and survey responses. The package provides methods to visualise the preference distribution of one contest with
bar charts and pairwise comparisons of two contestants, as well as methods to visualise multiple contests through
2D and high-dimensional simplex plots both statically and interactively. HD simplex displays are implemented via projection
methods using the 'tourr' and 'detourr' packages, enabling dynamic exploration of high-dimensional preference structure.
For more details on HD simplex projection, see Wickham et al. (2011) <doi:10.21105/joss.03419>.
Author: Linh Ngo [aut, cre],
Dianne Cook [aut] ,
Damjan Vukcevic [aut]
Maintainer: Linh Ngo <linhngo66.work@gmail.com>
Diff between prefviz versions 0.1.1 dated 2026-04-13 and 0.1.2 dated 2026-05-01
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Title: Parallel Nonparametric Kernel Smoothing Methods for Mixed Data
Types Using 'MPI'
Description: Nonparametric (and semiparametric) kernel methods that seamlessly
handle a mix of continuous, unordered, and ordered factor data types. This
package is a parallel implementation of the 'np' package based on the 'MPI'
specification that incorporates the 'Rmpi' package (Hao Yu
<hyu@stats.uwo.ca>) with minor modifications and we are extremely grateful
to Hao Yu for his contributions to the 'R' community. We would like to
gratefully acknowledge support from the Natural Sciences and Engineering
Research Council of Canada (NSERC, <https://www.nserc-crsng.gc.ca/>), the
Social Sciences and Humanities Research Council of Canada (SSHRC,
<https://www.sshrc-crsh.gc.ca/>), and the Shared Hierarchical Academic
Research Computing Network (SHARCNET, <https://sharcnet.ca/>). We would
also like to acknowledge the contributions of the 'GNU GSL' authors. In
particular, we adapt the 'GNU GSL' B-spline routine 'gsl_bspline.c' adding
automated support for quantile knots (in addition t [...truncated...]
Author: Jeffrey S. Racine [aut, cre],
Tristen Hayfield [aut],
Hao Yu [ctb, cph],
The GSL Team [cph],
Numerical Recipes Software [cph]
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
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npRmpi-0.70-1/npRmpi/src/hash.c | 14 npRmpi-0.70-1/npRmpi/src/headers.h | 64 npRmpi-0.70-1/npRmpi/src/internal.c | 12 npRmpi-0.70-1/npRmpi/src/jksum.c |15555 +++++++++++++- npRmpi-0.70-1/npRmpi/src/kernel.c | 107 npRmpi-0.70-1/npRmpi/src/kernelcv.c | 1 npRmpi-0.70-1/npRmpi/src/kernele.c | 1403 - npRmpi-0.70-1/npRmpi/src/linalg.c |only npRmpi-0.70-1/npRmpi/src/linalg.h |only npRmpi-0.70-1/npRmpi/src/mat_vec.c | 9 npRmpi-0.70-1/npRmpi/src/np.c | 7121 ++++++ npRmpi-0.70-1/npRmpi/src/np_init.c | 260 npRmpi-0.70-1/npRmpi/src/nr.c | 5 npRmpi-0.70-1/npRmpi/src/statmods.c | 726 npRmpi-0.70-1/npRmpi/src/tree.c | 32 npRmpi-0.70-1/npRmpi/tests |only npRmpi-0.70-1/npRmpi/vignettes/npRmpi_getting_started.Rmd |only 381 files changed, 54345 insertions(+), 11993 deletions(-)
Title: Lagged Cross-Correlation Analysis of Environmental Time Series
Description: Tools for analysing lagged relationships between
environmental variables and ecological or epidemiological time series.
The package implements a workflow to aggregate meteorological data
over multiple lagged intervals, fit regression models, including
mixed-effect models using 'glmmTMB', for each lag window, and
visualise varied models outcomes (effect strength and direction, model
prediction error...) using cross-correlation maps ('CCM').
Author: Nicolas Moiroux [aut, cre] ,
Colombine Bartholomee [aut] ,
Paul Taconet [aut]
Maintainer: Nicolas Moiroux <nicolas.moiroux@ird.fr>
Diff between ecoXCorr versions 0.2.1 dated 2026-04-01 and 0.2.2 dated 2026-05-01
DESCRIPTION | 45 +++++++++++++++++--------------------- MD5 | 16 ++++++------- NEWS.md | 10 ++++++++ R/funs.R | 18 ++++++++++++--- build/partial.rdb |binary inst/CITATION | 2 - inst/shiny/app.R | 12 ++++++++-- man/aggregate_lagged_intervals.Rd | 2 - man/ecoXCorr.Rd | 19 +++++++++++++--- 9 files changed, 82 insertions(+), 42 deletions(-)
Title: Immunoglobulin Somatic Hypermutation Analysis
Description: Provides a computational framework for analyzing mutations in
immunoglobulin (Ig) sequences. Includes methods for Bayesian estimation of
antigen-driven selection pressure, mutational load quantification, building of
somatic hypermutation (SHM) models, and model-dependent distance calculations.
Also includes empirically derived models of SHM for both mice and humans.
Citations:
Gupta and Vander Heiden, et al (2015) <doi:10.1093/bioinformatics/btv359>,
Yaari, et al (2012) <doi:10.1093/nar/gks457>,
Yaari, et al (2013) <doi:10.3389/fimmu.2013.00358>,
Cui, et al (2016) <doi:10.4049/jimmunol.1502263>.
Author: Mohamed Uduman [aut],
Namita Gupta [aut],
Susanna Marquez [aut, cre],
Julian Zhou [aut],
Nima Nouri [aut],
Noah Yann Lee [aut],
Ang Cui [ctb],
Jason Vander Heiden [aut],
Gur Yaari [aut],
Steven Kleinstein [aut, cph]
Maintainer: Susanna Marquez <susanna.marquez@yale.edu>
Diff between shazam versions 1.3.1 dated 2026-01-08 and 1.3.2 dated 2026-05-01
DESCRIPTION | 8 +++---- MD5 | 40 ++++++++++++++++++------------------ NEWS.md | 13 +++++++++++ R/Deprecated.R | 3 ++ R/DistToNearest.R | 32 +++++++++++++++++++++++++--- R/MutationProfiling.R | 5 ++++ R/Shmulate.R | 2 + README.md | 2 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/Baseline-Vignette.pdf |binary inst/doc/DistToNearest-Vignette.pdf |binary inst/doc/Mutation-Vignette.pdf |binary inst/doc/Shmulate-Vignette.R | 6 +++++ inst/doc/Shmulate-Vignette.Rmd | 6 +++++ inst/doc/Shmulate-Vignette.pdf |binary inst/doc/Targeting-Vignette.pdf |binary man/plotSlideWindowTune.Rd | 5 ++++ man/shmulateTree.Rd | 2 + man/slideWindowTunePlot.Rd | 3 ++ vignettes/Shmulate-Vignette.Rmd | 6 +++++ 21 files changed, 104 insertions(+), 29 deletions(-)
Title: Continuous Norming
Description: A comprehensive toolkit for generating continuous test norms in
psychometrics and biometrics, and analyzing model fit. The package offers
both distribution-free modeling using Taylor polynomials and parametric
modeling using the beta-binomial and the 'Sinh-Arcsinh' distribution.
Originally developed for achievement tests, it is applicable to a wide
range of mental, physical, or other test scores dependent on continuous or
discrete explanatory variables. The package provides several advantages:
It minimizes deviations from representativeness in subsamples, interpolates
between discrete levels of explanatory variables, and significantly reduces
the required sample size compared to conventional norming per age group.
cNORM enables graphical and analytical evaluation of model fit,
accommodates a wide range of scales including those with negative and
descending values, and even supports conventional norming. It generates
norm tables including confidence intervals. It also includes methods f [...truncated...]
Author: Alexandra Lenhard [aut] ,
Wolfgang Lenhard [cre, aut] ,
Sebastian Gary [aut],
WPS Publisher [fnd]
Maintainer: Wolfgang Lenhard <wolfgang.lenhard@uni-wuerzburg.de>
Diff between cNORM versions 3.5.2 dated 2026-02-26 and 3.5.3 dated 2026-05-01
cNORM-3.5.2/cNORM/man/prettyPrint.Rd |only cNORM-3.5.3/cNORM/DESCRIPTION | 6 cNORM-3.5.3/cNORM/MD5 | 111 - cNORM-3.5.3/cNORM/NAMESPACE | 2 cNORM-3.5.3/cNORM/NEWS.md | 36 cNORM-3.5.3/cNORM/R/betaBinomial.R | 250 +- cNORM-3.5.3/cNORM/R/cNORM.R | 471 ++-- cNORM-3.5.3/cNORM/R/data.R | 13 cNORM-3.5.3/cNORM/R/modelling.R | 1530 ++++++++------- cNORM-3.5.3/cNORM/R/plot.R | 1264 ++++++++---- cNORM-3.5.3/cNORM/R/predict.R | 562 ++--- cNORM-3.5.3/cNORM/R/preparation.R | 626 ++++-- cNORM-3.5.3/cNORM/R/raking.R | 127 - cNORM-3.5.3/cNORM/R/roots.R | 136 - cNORM-3.5.3/cNORM/R/shash.R | 346 ++- cNORM-3.5.3/cNORM/R/utilities.R | 204 +- cNORM-3.5.3/cNORM/inst/doc/BetaBinomial.html | 4 cNORM-3.5.3/cNORM/inst/doc/WeightedRegression.html | 16 cNORM-3.5.3/cNORM/inst/doc/cNORM-Demo.Rmd | 2 cNORM-3.5.3/cNORM/inst/doc/cNORM-Demo.html | 155 - cNORM-3.5.3/cNORM/inst/doc/sinh.html | 12 cNORM-3.5.3/cNORM/man/CDC.Rd | 9 cNORM-3.5.3/cNORM/man/bestModel.Rd | 194 - cNORM-3.5.3/cNORM/man/betaCoefficients.Rd | 8 cNORM-3.5.3/cNORM/man/cNORM.Rd | 263 +- cNORM-3.5.3/cNORM/man/checkConsistency.Rd | 9 cNORM-3.5.3/cNORM/man/computePowers.Rd | 26 cNORM-3.5.3/cNORM/man/computeWeights.Rd | 168 - cNORM-3.5.3/cNORM/man/derivationTable.Rd | 2 cNORM-3.5.3/cNORM/man/derive.Rd | 6 cNORM-3.5.3/cNORM/man/elfe.Rd | 6 cNORM-3.5.3/cNORM/man/getGroups.Rd | 2 cNORM-3.5.3/cNORM/man/getNormCurve.Rd | 3 cNORM-3.5.3/cNORM/man/normTable.Rd | 8 cNORM-3.5.3/cNORM/man/plotDerivative.Rd | 3 cNORM-3.5.3/cNORM/man/plotPercentileSeries.Rd | 8 cNORM-3.5.3/cNORM/man/plotPercentiles.Rd | 8 cNORM-3.5.3/cNORM/man/plotRaw.Rd | 8 cNORM-3.5.3/cNORM/man/plotSubset.Rd | 2 cNORM-3.5.3/cNORM/man/predictNorm.Rd | 7 cNORM-3.5.3/cNORM/man/predictRaw.Rd | 3 cNORM-3.5.3/cNORM/man/prepareData.Rd | 190 - cNORM-3.5.3/cNORM/man/printSubset.Rd | 8 cNORM-3.5.3/cNORM/man/rangeCheck.Rd | 6 cNORM-3.5.3/cNORM/man/rankByGroup.Rd | 3 cNORM-3.5.3/cNORM/man/rankBySlidingWindow.Rd | 248 +- cNORM-3.5.3/cNORM/man/rawTable.Rd | 4 cNORM-3.5.3/cNORM/man/regressionFunction.Rd | 7 cNORM-3.5.3/cNORM/man/shash.Rd | 2 cNORM-3.5.3/cNORM/man/simMean.Rd | 44 cNORM-3.5.3/cNORM/man/simSD.Rd | 44 cNORM-3.5.3/cNORM/man/simulateRasch.Rd | 2 cNORM-3.5.3/cNORM/man/standardize.Rd | 2 cNORM-3.5.3/cNORM/man/weighted.quantile.Rd | 90 cNORM-3.5.3/cNORM/man/weighted.quantile.harrell.davis.Rd | 46 cNORM-3.5.3/cNORM/man/weighted.quantile.type7.Rd | 46 cNORM-3.5.3/cNORM/vignettes/cNORM-Demo.Rmd | 2 57 files changed, 4395 insertions(+), 2965 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2026-04-16 1.0.0
Title: Rounded Bar Plots
Description: Creates bar plots with rounded corners using 'ggplot2'.
The code in this package was adapted from a solution provided by
Stack Overflow user 'sthoch' in the following post
<https://stackoverflow.com/questions/62176038/r-ggplot2-bar-chart-with-round-corners-on-top-of-bar>.
Author: Botan Agin [aut, cre, cph]
Maintainer: Botan Agin <aginbotan@gmail.com>
Diff between ggrounded versions 0.1.0 dated 2026-04-10 and 0.2.0 dated 2026-05-01
DESCRIPTION | 6 +- MD5 | 20 +++++---- NEWS.md | 10 ++++ R/geom-col-rounded.R | 22 ++++++++-- R/geom-histogram-rounded.R | 32 ++++++++------ R/utils.R | 72 ++++++++++++++++++++++++++++++++- README.md | 19 ++++++-- man/figures/README-example5-1.png |only tests/testthat/Rplots.pdf |only tests/testthat/test-geom-bar-rounded.R | 12 +++++ tests/testthat/test-geom-col-rounded.R | 28 ++++++++++++ tests/testthat/test-radius.R | 37 ++++++++++++++++ 12 files changed, 221 insertions(+), 37 deletions(-)
Title: Multiple Imputation of Covariates by Substantive Model
Compatible Fully Conditional Specification
Description: Implements multiple imputation of missing covariates by
Substantive Model Compatible Fully Conditional Specification.
This is a modification of the popular FCS/chained equations
multiple imputation approach, and allows imputation of missing
covariate values from models which are compatible with the user
specified substantive model.
Author: Jonathan Bartlett [aut, cre],
Ruth Keogh [aut],
Edouard F. Bonneville [aut],
Lars van der Burg [aut],
Claus Thorn Ekstroem [ctb]
Maintainer: Jonathan Bartlett <jonathan.bartlett1@lshtm.ac.uk>
Diff between smcfcs versions 2.0.1 dated 2025-07-17 and 2.0.2 dated 2026-05-01
DESCRIPTION | 9 +++-- MD5 | 16 ++++----- R/smcfcs.r | 4 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/coarsening.html | 25 ++++++++------- inst/doc/coverror.html | 7 ++-- inst/doc/smcfcs-vignette.html | 7 ++-- tests/testthat/test_podds.r | 68 ++++++++++++++++++++++++++++++++++++++++++ 9 files changed, 104 insertions(+), 32 deletions(-)
Title: Cryptographic Hash Functions and Data Encoding
Description: Fast and memory-efficient streaming hash functions,
binary/text encoding and serialization. Hashes strings and raw vectors
directly. Stream hashes files which can be larger than memory, as
well as in-memory objects through R's serialization mechanism.
Implements the SHA-256, SHA-3 and 'Keccak' cryptographic hash
functions, SHAKE256 extendable-output function (XOF), 'SipHash'
pseudo-random function, base64 and base58 encoding, 'CBOR' and 'JSON'
serialization.
Author: Charlie Gao [aut, cre] ,
Posit Software, PBC [cph, fnd] ,
Hibiki AI Limited [cph],
The Mbed TLS Contributors [cph] ,
Red Hat, Inc. [cph] ,
Luke Dashjr [cph]
Maintainer: Charlie Gao <charlie.gao@posit.co>
Diff between secretbase versions 1.2.1 dated 2026-03-30 and 1.2.2 dated 2026-05-01
DESCRIPTION | 23 ++++++++++++++++------- MD5 | 14 +++++++------- NEWS.md | 5 +++++ build/partial.rdb |binary man/secretbase-package.Rd | 5 ++++- src/json.c | 3 +-- src/sha3.c | 15 +++++++++------ tests/tests.R | 6 +++++- 8 files changed, 47 insertions(+), 24 deletions(-)
Title: Learning from Black-Box Models by Maximum Interpretation
Decomposition
Description: The goal of 'midr' is to provide a model-agnostic method for interpreting and explaining black-box predictive models by creating a globally interpretable surrogate model. The package implements 'Maximum Interpretation Decomposition' (MID), a functional decomposition technique that finds an optimal additive approximation of the original model. This approximation is achieved by minimizing the squared error between the predictions of the black-box model and the surrogate model. The theoretical foundations of MID are described in Iwasawa & Matsumori (2025) [Forthcoming], and the package itself is detailed in Asashiba et al. (2025) <doi:10.48550/arXiv.2506.08338>.
Author: Ryoichi Asashiba [aut, cre] ,
Hirokazu Iwasawa [aut],
Reiji Kozuma [ctb]
Maintainer: Ryoichi Asashiba <ryoichi.asashiba@gmail.com>
Diff between midr versions 0.6.0 dated 2026-03-08 and 0.6.1 dated 2026-05-01
DESCRIPTION | 11 - MD5 | 40 ++-- NAMESPACE | 4 NEWS.md | 23 ++ R/get_yhat.R | 264 +++++++++++++++++++++++-------- R/ggmid.R | 42 ++-- R/ggmid_midbrk.R | 33 ++- R/ggmid_midbrks.R | 6 R/ggmid_midcons.R | 33 ++- R/ggmid_midimp.R | 28 +-- R/ggmid_midimps.R | 6 R/ggmid_mids.R | 10 - R/interpret.R | 13 + R/misc_functions.R | 20 +- R/theme_midr.R | 22 +- README.md | 2 man/figures/README-mid_breakdown-1.png |binary man/figures/README-mid_conditional-1.png |binary man/get.yhat.Rd | 20 +- man/midr-package.Rd | 2 man/theme_midr.Rd | 5 21 files changed, 384 insertions(+), 200 deletions(-)
Title: Bayesian Latent Gaussian Modelling using INLA and Extensions
Description: Facilitates spatial and general latent Gaussian modeling using
integrated nested Laplace approximation via the INLA package (<https://www.r-inla.org>).
Additionally, extends the GAM-like model class to more general nonlinear predictor
expressions, and implements a log Gaussian Cox process likelihood for
modeling univariate and spatial point processes based on ecological survey data.
Model components are specified with general inputs and mapping methods to the
latent variables, and the predictors are specified via general R expressions,
with separate expressions for each observation likelihood model in
multi-likelihood models. A prediction method based on fast Monte Carlo sampling
allows posterior prediction of general expressions of the latent variables.
Ecology-focused introduction in Bachl, Lindgren, Borchers, and Illian (2019)
<doi:10.1111/2041-210X.13168>.
Author: Finn Lindgren [aut, cre, cph] ,
Fabian E. Bachl [aut, cph] ,
David L. Borchers [ctb, dtc, cph] ,
Daniel Simpson [ctb, cph] ,
Lindesay Scott-Howard [ctb, dtc, cph] ,
Seaton Andy [ctb] ,
Suen Man Ho [ctb, cph] ,
Roudier Pierre [ctb, cph] ,
Meehan Tim [ [...truncated...]
Maintainer: Finn Lindgren <finn.lindgren@gmail.com>
Diff between inlabru versions 2.14.0 dated 2026-03-08 and 2.14.1 dated 2026-05-01
inlabru-2.14.0/inlabru/inst/examples |only inlabru-2.14.0/inlabru/man/gg.SpatialGridDataFrame.Rd |only inlabru-2.14.0/inlabru/man/gg.SpatialLines.Rd |only inlabru-2.14.0/inlabru/man/gg.SpatialPixels.Rd |only inlabru-2.14.0/inlabru/man/gg.SpatialPixelsDataFrame.Rd |only inlabru-2.14.0/inlabru/man/gg.SpatialPoints.Rd |only inlabru-2.14.0/inlabru/man/gg.SpatialPolygons.Rd |only inlabru-2.14.0/inlabru/man/globe.Rd |only inlabru-2.14.0/inlabru/man/summary.bru.Rd |only inlabru-2.14.1/inlabru/DESCRIPTION | 12 inlabru-2.14.1/inlabru/MD5 | 190 ++-- inlabru-2.14.1/inlabru/NAMESPACE | 6 inlabru-2.14.1/inlabru/NEWS.md | 26 inlabru-2.14.1/inlabru/R/bru.gof.R | 248 +++++- inlabru-2.14.1/inlabru/R/bru.inference.R | 375 ++++++++- inlabru-2.14.1/inlabru/R/bru_input.R | 4 inlabru-2.14.1/inlabru/R/data.mrsea.R | 2 inlabru-2.14.1/inlabru/R/data.shrimp.R | 4 inlabru-2.14.1/inlabru/R/data.toygroups.R | 32 inlabru-2.14.1/inlabru/R/deltaIC.R | 211 +++++ inlabru-2.14.1/inlabru/R/effect.R | 80 +- inlabru-2.14.1/inlabru/R/environment.R | 1 inlabru-2.14.1/inlabru/R/fmesher.R | 14 inlabru-2.14.1/inlabru/R/ggplot.R | 390 +++++++--- inlabru-2.14.1/inlabru/R/hierarchical_basis.R | 32 inlabru-2.14.1/inlabru/R/inla.R | 2 inlabru-2.14.1/inlabru/R/local_testthat.R | 10 inlabru-2.14.1/inlabru/R/mappers.R | 10 inlabru-2.14.1/inlabru/R/model.R | 2 inlabru-2.14.1/inlabru/R/object_upgrade.R | 304 ++++--- inlabru-2.14.1/inlabru/R/rgl.R | 140 +-- inlabru-2.14.1/inlabru/R/sampling.R | 2 inlabru-2.14.1/inlabru/R/spde.R | 64 + inlabru-2.14.1/inlabru/R/utils.R | 75 + inlabru-2.14.1/inlabru/README.md | 1 inlabru-2.14.1/inlabru/build/partial.rdb |binary inlabru-2.14.1/inlabru/build/vignette.rds |binary inlabru-2.14.1/inlabru/inst/doc/component.html | 2 inlabru-2.14.1/inlabru/inst/doc/linearapprox.R | 3 inlabru-2.14.1/inlabru/inst/doc/linearapprox.Rmd | 3 inlabru-2.14.1/inlabru/inst/doc/linearapprox.html | 91 +- inlabru-2.14.1/inlabru/inst/doc/prediction_scores.html | 62 - inlabru-2.14.1/inlabru/inst/misc/2d_lgcp_residuals_functions.R | 3 inlabru-2.14.1/inlabru/inst/misc/2d_lgcp_residuals_functions_sf.R | 3 inlabru-2.14.1/inlabru/man/bincount.Rd | 2 inlabru-2.14.1/inlabru/man/bm_fm_mesh_1d.Rd | 6 inlabru-2.14.1/inlabru/man/bru.Rd | 29 inlabru-2.14.1/inlabru/man/bru_comp.Rd | 2 inlabru-2.14.1/inlabru/man/bru_info.Rd | 7 inlabru-2.14.1/inlabru/man/bru_obs.Rd | 13 inlabru-2.14.1/inlabru/man/bru_safe_inla.Rd | 4 inlabru-2.14.1/inlabru/man/deltaIC.Rd | 12 inlabru-2.14.1/inlabru/man/devel.cvmeasure.Rd | 17 inlabru-2.14.1/inlabru/man/evaluate_model.Rd | 2 inlabru-2.14.1/inlabru/man/figures/README-plot-1.png |binary inlabru-2.14.1/inlabru/man/generate.Rd | 24 inlabru-2.14.1/inlabru/man/gg.RasterLayer.Rd | 13 inlabru-2.14.1/inlabru/man/gg.Rd | 30 inlabru-2.14.1/inlabru/man/gg.SpatRaster.Rd | 16 inlabru-2.14.1/inlabru/man/gg.Spatial.Rd |only inlabru-2.14.1/inlabru/man/gg.bru_prediction.Rd | 44 - inlabru-2.14.1/inlabru/man/gg.fm_mesh_1d.Rd | 14 inlabru-2.14.1/inlabru/man/gg.fm_mesh_2d.Rd | 16 inlabru-2.14.1/inlabru/man/gg.matrix.Rd | 12 inlabru-2.14.1/inlabru/man/gg.sf.Rd | 88 +- inlabru-2.14.1/inlabru/man/glplot.Rd | 55 - inlabru-2.14.1/inlabru/man/lgcp.Rd | 6 inlabru-2.14.1/inlabru/man/lgcp_IC.Rd |only inlabru-2.14.1/inlabru/man/local_testthat.Rd | 2 inlabru-2.14.1/inlabru/man/mrsea.Rd | 2 inlabru-2.14.1/inlabru/man/pcmatern_B.Rd | 32 inlabru-2.14.1/inlabru/man/plot.bru.Rd | 9 inlabru-2.14.1/inlabru/man/predict.bru.Rd | 36 inlabru-2.14.1/inlabru/man/reexports.Rd | 4 inlabru-2.14.1/inlabru/man/sample.lgcp.Rd | 2 inlabru-2.14.1/inlabru/man/shrimp.Rd | 4 inlabru-2.14.1/inlabru/man/spde.posterior.Rd | 4 inlabru-2.14.1/inlabru/man/toygroups.Rd | 6 inlabru-2.14.1/inlabru/tests/testthat/setup.R | 4 inlabru-2.14.1/inlabru/tests/testthat/test-02_predict.R | 14 inlabru-2.14.1/inlabru/tests/testthat/test-aggregate.R | 5 inlabru-2.14.1/inlabru/tests/testthat/test-bru_sf.R | 4 inlabru-2.14.1/inlabru/tests/testthat/test-bru_sp.R |only inlabru-2.14.1/inlabru/tests/testthat/test-component.R | 13 inlabru-2.14.1/inlabru/tests/testthat/test-copy.R | 9 inlabru-2.14.1/inlabru/tests/testthat/test-data.R | 1 inlabru-2.14.1/inlabru/tests/testthat/test-environment.R | 18 inlabru-2.14.1/inlabru/tests/testthat/test-fmesher_pixels.R | 15 inlabru-2.14.1/inlabru/tests/testthat/test-gcpo.R | 7 inlabru-2.14.1/inlabru/tests/testthat/test-latent_clinear.R | 5 inlabru-2.14.1/inlabru/tests/testthat/test-latent_factor.R | 25 inlabru-2.14.1/inlabru/tests/testthat/test-latent_linear.R | 10 inlabru-2.14.1/inlabru/tests/testthat/test-latent_spde_2d.R | 4 inlabru-2.14.1/inlabru/tests/testthat/test-mapper.R | 151 +++ inlabru-2.14.1/inlabru/tests/testthat/test-mdata.R | 2 inlabru-2.14.1/inlabru/vignettes/linearapprox.Rmd | 3 96 files changed, 2306 insertions(+), 901 deletions(-)
Title: Goodness-of-Fit Functions for Comparison of Simulated and
Observed Hydrological Time Series
Description: S3 functions implementing both statistical and graphical goodness-of-fit measures between observed and simulated values, mainly oriented to be used during the calibration, validation, and application of hydrological models. Missing values in observed and/or simulated values can be removed before computations. Comments / questions / collaboration of any kind are very welcomed.
Author: Mauricio Zambrano-Bigiarini [aut, cre, cph]
Maintainer: Mauricio Zambrano-Bigiarini <mzb.devel@gmail.com>
Diff between hydroGOF versions 0.6-0.1 dated 2024-11-04 and 0.7-0 dated 2026-05-01
DESCRIPTION | 20 +- MD5 | 85 ++++++---- NAMESPACE | 23 ++ NEWS.md | 38 ++++ R/APFB.R | 222 ++++++++++++--------------- R/HFB.R | 148 ++++++++++-------- R/JDKGE.R |only R/KGE.R | 158 ++++++++++++------- R/KGEkm.R | 26 ++- R/LCE.R |only R/LME.R |only R/PMR.R |only R/ggof.R | 92 ++++++++--- R/gof.R | 326 +++++++++++++++++++++++++++++----------- R/nrmse.R | 72 ++++---- R/pfactor.R | 6 R/plot2.R | 77 ++++++--- R/rfactor.R | 6 R/sKGE.R | 40 ++-- build/vignette.rds |binary data/EgaEnEstellaQts.RData |binary inst/CITATION | 14 - inst/doc/hydroGOF_Vignette.R | 252 +++++++++++++++++++----------- inst/doc/hydroGOF_Vignette.Rmd | 325 ++++++++++++++++++++++++++------------- inst/doc/hydroGOF_Vignette.pdf |binary man/APFB.Rd | 51 ++++-- man/HFB.Rd | 56 +++++- man/JDKGE.Rd |only man/KGEkm.Rd | 94 ++++++++--- man/LCE.Rd |only man/LME.Rd |only man/PMR.Rd |only man/figures |only man/ggof.Rd | 14 + man/gof.Rd | 111 +++++++++++-- man/hydroGOF-package.Rd | 25 ++- man/nrmse.Rd | 14 + man/pfactor.Rd | 22 +- man/plot2.Rd | 4 man/rfactor.Rd | 28 ++- man/sKGE.Rd | 76 ++++++++- man/wNSE.Rd | 2 man/wsNSE.Rd | 42 ++++- tests |only vignettes/hydroGOF_Vignette.Rmd | 325 ++++++++++++++++++++++++++------------- 45 files changed, 1867 insertions(+), 927 deletions(-)
Title: Bayesian partial least squares regression
Description: Fits the Bayesian partial least squares regression model
introduced in Urbas et al. (2024) <doi:10.1214/24-AOAS1947>. Suitable
for univariate and multivariate regression with high-dimensional data.
Author: Szymon Urbas [aut, cre],
Pierre Lovera [ctb],
Robert Daly [ctb],
Alan O'Riordan [ctb],
Donagh Berry [ctb],
Isobel Claire Gormley [ctb]
Maintainer: Szymon Urbas <szymon.urbas@mu.ie>
Diff between bplsr versions 1.0.4 dated 2025-07-10 and 1.0.5 dated 2026-05-01
DESCRIPTION | 8 +-- MD5 | 15 +++-- R/BPLSR.R | 6 +- README.md | 98 ++++++++++---------------------------- build/partial.rdb |binary data/milk_MIR.rda |binary man/bplsr.Rd | 2 man/bplsr.predict.Rd | 2 man/figures/README-pressure-1.png |only 9 files changed, 43 insertions(+), 88 deletions(-)
Title: Rocket-Fast Clinical Research Reporting
Description: Description of the tables, both grouped and not grouped, with some associated data management actions,
such as sorting the terms of the variables and deleting terms with zero numbers.
Author: USMR CHU de Bordeaux [aut, cre],
Valentine Renaudeau [aut],
Marion Kret [aut],
Matisse Decilap [aut],
Sahardid Mohamed Houssein [aut],
Thomas Ferte [aut]
Maintainer: USMR CHU de Bordeaux <astreinte.usmr@chu-bordeaux.fr>
Diff between RastaRocket versions 1.1.3 dated 2026-03-23 and 1.1.4 dated 2026-05-01
RastaRocket-1.1.3/RastaRocket/R/write_datestamp_output_file.R |only RastaRocket-1.1.3/RastaRocket/man/write_datestamp_output_file.Rd |only RastaRocket-1.1.4/RastaRocket/DESCRIPTION | 11 RastaRocket-1.1.4/RastaRocket/MD5 | 72 RastaRocket-1.1.4/RastaRocket/NAMESPACE | 2 RastaRocket-1.1.4/RastaRocket/NEWS.md | 13 RastaRocket-1.1.4/RastaRocket/R/add_pvalues.R | 2 RastaRocket-1.1.4/RastaRocket/R/base_table.R | 18 RastaRocket-1.1.4/RastaRocket/R/custom_format.R | 40 RastaRocket-1.1.4/RastaRocket/R/customize_table.R | 22 RastaRocket-1.1.4/RastaRocket/R/desc_var_function.R | 7 RastaRocket-1.1.4/RastaRocket/R/globals.R | 9 RastaRocket-1.1.4/RastaRocket/R/indent_table.R |only RastaRocket-1.1.4/RastaRocket/R/prepare_table.R | 39 RastaRocket-1.1.4/RastaRocket/R/select_plus.R | 4 RastaRocket-1.1.4/RastaRocket/R/start_new_reporting.R | 16 RastaRocket-1.1.4/RastaRocket/R/write_html_file.R | 2 RastaRocket-1.1.4/RastaRocket/R/write_qmd.R | 118 RastaRocket-1.1.4/RastaRocket/R/write_rendercopy.R |only RastaRocket-1.1.4/RastaRocket/R/zzz.R | 3 RastaRocket-1.1.4/RastaRocket/inst/doc/DescribeAE.R | 16 RastaRocket-1.1.4/RastaRocket/inst/doc/DescribeAE.Rmd | 33 RastaRocket-1.1.4/RastaRocket/inst/doc/DescribeAE.html | 2457 +++++++++- RastaRocket-1.1.4/RastaRocket/inst/doc/RastaRocketVignette.R | 18 RastaRocket-1.1.4/RastaRocket/inst/doc/RastaRocketVignette.Rmd | 27 RastaRocket-1.1.4/RastaRocket/inst/doc/RastaRocketVignette.html | 1259 ++++- RastaRocket-1.1.4/RastaRocket/inst/doc/SetupProject.html | 5 RastaRocket-1.1.4/RastaRocket/man/base_table.Rd | 21 RastaRocket-1.1.4/RastaRocket/man/custom_format.Rd | 4 RastaRocket-1.1.4/RastaRocket/man/customize_table.Rd | 31 RastaRocket-1.1.4/RastaRocket/man/desc_var.Rd | 5 RastaRocket-1.1.4/RastaRocket/man/indent_table.Rd |only RastaRocket-1.1.4/RastaRocket/man/prepare_table.Rd | 19 RastaRocket-1.1.4/RastaRocket/man/select_plus.Rd | 2 RastaRocket-1.1.4/RastaRocket/man/write_qmd.Rd | 8 RastaRocket-1.1.4/RastaRocket/man/write_rendercopy.Rd |only RastaRocket-1.1.4/RastaRocket/tests |only RastaRocket-1.1.4/RastaRocket/vignettes/DescribeAE.Rmd | 33 RastaRocket-1.1.4/RastaRocket/vignettes/RastaRocketVignette.Rmd | 27 39 files changed, 3794 insertions(+), 549 deletions(-)