Title: Maximum Likelihood Estimation of Various Univariate and
Multivariate Distributions
Description: Several functions for maximum likelihood estimation of various univariate and multivariate distributions. The list includes more than 100 functions for univariate continuous and discrete distributions, distributions that lie on the real line, the positive line, interval restricted, circular distributions. Further, multivariate continuous and discrete distributions, distributions for compositional and directional data, etc. Some references include Johnson N. L., Kotz S. and Balakrishnan N. (1994). "Continuous Univariate Distributions, Volume 1" <ISBN:978-0-471-58495-7>, Johnson, Norman L. Kemp, Adrianne W. Kotz, Samuel (2005). "Univariate Discrete Distributions". <ISBN:978-0-471-71580-1> and Mardia, K. V. and Jupp, P. E. (2000). "Directional Statistics". <ISBN:978-0-471-95333-3>.
Author: Michail Tsagris [aut, cre],
Sofia Piperaki [aut],
Muhammad Imran [ctb],
Rafail Vargiakakis [aut],
Nikolaos Kontemeniotis [aut]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between MLE versions 1.5 dated 2025-04-03 and 1.6 dated 2025-10-20
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/colprop.mle.R | 10 ++++++---- R/colreal.mle.R | 14 +++++++++++++- R/prop.mle.R | 3 +++ R/real.mle.R | 14 ++++++++++++-- man/MLE-package.Rd | 4 ++-- man/colprop.mle.Rd | 2 +- man/prop.mle.Rd | 3 ++- 9 files changed, 51 insertions(+), 23 deletions(-)
Title: A Toolbox for CM SAF NetCDF Data
Description: The Satellite Application Facility on Climate Monitoring (CM SAF)
is a ground segment of the European Organization for the Exploitation of
Meteorological Satellites (EUMETSAT) and one of EUMETSATs Satellite Application
Facilities. The CM SAF contributes to the sustainable monitoring of the climate
system by providing essential climate variables related to the energy and water
cycle of the atmosphere (<https://www.cmsaf.eu>). It is a joint cooperation of eight
National Meteorological and Hydrological Services.
The 'cmsaf' R-package includes a 'shiny' based interface for an easy application of
the 'cmsafops' and 'cmsafvis' packages - the CM SAF R Toolbox. The Toolbox offers an
easy way to prepare, manipulate, analyse and visualize CM SAF NetCDF formatted data.
Other CF conform NetCDF data with time, longitude and latitude dimension should be
applicable, but there is no guarantee for an error-free application.
CM SAF climate data records are provided for free via (<https://wui.cm [...truncated...]
Author: Steffen Kothe [aut, cre],
Danny Parsons [ctb]
Maintainer: Steffen Kothe <Steffen.Kothe@dwd.de>
Diff between cmsaf versions 3.5.2 dated 2024-09-27 and 3.6.0 dated 2025-10-20
DESCRIPTION | 16 +- MD5 | 10 - NEWS.md | 4 inst/toolbox/global.R | 31 ++++ inst/toolbox/server.R | 337 ++++++++++++++++++++++++++++++++++++-------------- inst/toolbox/ui.R | 56 +++++++- 6 files changed, 339 insertions(+), 115 deletions(-)
Title: Strategy Estimation
Description: Variants of strategy estimation (Dal Bo & Frechette, 2011, <doi:10.1257/aer.101.1.411>), including the model with parameters for the choice probabilities of the strategies (Breitmoser, 2015, <doi:10.1257/aer.20130675>), and the model with individual level covariates for the selection of strategies by individuals (Dvorak & Fehrler, 2018, <doi:10.2139/ssrn.2986445>).
Author: Fabian Dvorak [aut, cre]
Maintainer: Fabian Dvorak <fabian.dvorak@uni.kn>
Diff between stratEst versions 1.1.7 dated 2025-04-01 and 1.1.8 dated 2025-10-20
DESCRIPTION | 11 ++++++----- MD5 | 4 ++-- src/stratEst.cpp | 24 ++++++++++++------------ 3 files changed, 20 insertions(+), 19 deletions(-)
Title: Ready-to-Use Omics Formatting, Analysis, and Visualization
Pipeline
Description: Provides a flexible and streamlined pipeline for formatting, analyzing, and
visualizing omics data, regardless of omics type (e.g. transcriptomics, proteomics,
metabolomics). The package includes tools for shaping input data into analysis-ready
structures, fitting linear or mixed-effect models, extracting key contrasts, and
generating a rich variety of ready-to-use publication-quality plots.
Designed for transparency and reproducibility across a wide range of study designs,
with customizable components for statistical modeling.
Author: Laura Martinez-Gili [cre, aut, cph]
Maintainer: Laura Martinez-Gili <martinez.gili.laura@gmail.com>
Diff between readyomics versions 0.1.2 dated 2025-09-18 and 0.2.0 dated 2025-10-20
DESCRIPTION | 6 +- MD5 | 10 +-- NEWS.md | 6 +- R/utils_analysis.R | 106 ++++++++++++++++++++++++++++---------- man/adjust_pval.Rd | 31 +++++++---- tests/testthat/test-adjust_pval.R | 58 ++++++++++++++++++++ 6 files changed, 168 insertions(+), 49 deletions(-)
Title: Approximate Algorithm for Horseshoe Prior
Description: Provides exact and approximate algorithms for the horseshoe prior
in linear regression models, which were proposed by Johndrow et al. (2020)
<https://www.jmlr.org/papers/v21/19-536.html>.
Author: Kang Mingi [aut, cre],
Lee Kyoungjae [aut]
Maintainer: Kang Mingi <leehuimin115@g.skku.edu>
Diff between Mhorseshoe versions 0.1.4 dated 2025-03-16 and 0.1.5 dated 2025-10-20
DESCRIPTION | 10 MD5 | 18 - NEWS.md | 56 ++-- R/approximate_algorithm.R | 506 ++++++++++++++++++++++----------------------- R/exact_algorithm.R | 388 +++++++++++++++++----------------- build/vignette.rds |binary inst/doc/Mhorseshoe.R | 21 - inst/doc/Mhorseshoe.Rmd | 517 ++++++++++++++++++++++------------------------ inst/doc/Mhorseshoe.html | 188 +++++++--------- vignettes/Mhorseshoe.Rmd | 517 ++++++++++++++++++++++------------------------ 10 files changed, 1071 insertions(+), 1150 deletions(-)
Title: Storing, Manipulating and Analysis Spectroscopy and Associated
Data
Description: Stores and eases the manipulation of spectra and associated data,
with dedicated classes for spatial and soil-related data.
Author: Pierre Roudier [aut, cre],
Max Kuhn [ctb],
Kristian Hovde Liland [ctb],
Bjorn-Helge Mevik [ctb],
Hadley Wickham [ctb],
Raphael Viscarra Rossel [dtc]
Maintainer: Pierre Roudier <roudierp@landcareresearch.co.nz>
This is a re-admission after prior archival of version 0.5-4 dated 2023-07-07
Diff between spectacles versions 0.5-4 dated 2023-07-07 and 0.5-5 dated 2025-10-20
DESCRIPTION | 10 MD5 | 30 R/Spectra-methods.R | 2530 +++++++++++++++++------------------ R/SpectraDataFrame-methods.R | 1032 +++++++------- R/australia.R | 10 R/preprocessing.R | 560 +++---- R/spectacles-package.R | 3 build/vignette.rds |binary inst/doc/interfacing-with-caret.R | 220 +-- inst/doc/interfacing-with-caret.html | 1269 ++++++++--------- inst/doc/quickstart.R | 130 - inst/doc/quickstart.html | 1003 ++++++------- man/australia.Rd | 10 man/base_line.Rd | 2 man/continuum_removal.Rd | 2 man/spectacles-package.Rd | 1 16 files changed, 3411 insertions(+), 3401 deletions(-)
Title: Radix Tree and Trie-Based String Distances
Description: A collection of Radix Tree and Trie algorithms for finding similar sequences and calculating sequence distances (Levenshtein and other distance metrics). This work was inspired by a trie implementation in Python: "Fast and Easy Levenshtein distance using a Trie." Hanov (2011) <https://stevehanov.ca/blog/index.php?id=114>.
Author: Travers Ching [aut, cre, cph],
Martin Moene [ctb, cph] ,
Steve Hanov [ctb] ,
Martin Leitner-Ankerl [ctb]
Maintainer: Travers Ching <traversc@gmail.com>
Diff between seqtrie versions 0.2.9 dated 2025-03-02 and 0.3.5 dated 2025-10-20
seqtrie-0.2.9/seqtrie/R/covid_cdr3.r |only seqtrie-0.3.5/seqtrie/ChangeLog | 14 seqtrie-0.3.5/seqtrie/DESCRIPTION | 11 seqtrie-0.3.5/seqtrie/MD5 | 68 seqtrie-0.3.5/seqtrie/R/RadixForest.R | 4 seqtrie-0.3.5/seqtrie/R/RadixTree.R | 38 seqtrie-0.3.5/seqtrie/R/RadixTree_search_helpers.R | 8 seqtrie-0.3.5/seqtrie/R/RcppExports.R | 16 seqtrie-0.3.5/seqtrie/R/covid_cdr3.R |only seqtrie-0.3.5/seqtrie/R/pairwise.R | 19 seqtrie-0.3.5/seqtrie/R/utils.R | 210 - seqtrie-0.3.5/seqtrie/README.md | 159 - seqtrie-0.3.5/seqtrie/build/vignette.rds |binary seqtrie-0.3.5/seqtrie/inst/doc/vignette.R | 56 seqtrie-0.3.5/seqtrie/inst/doc/vignette.html | 481 ++-- seqtrie-0.3.5/seqtrie/inst/doc/vignette.rmd | 47 seqtrie-0.3.5/seqtrie/inst/fix_rd_subsections.R |only seqtrie-0.3.5/seqtrie/inst/include/seqtrie/pairwise.h | 73 seqtrie-0.3.5/seqtrie/inst/include/seqtrie/radixmap.h | 1139 +++++++--- seqtrie-0.3.5/seqtrie/inst/include/seqtrie/utility.h | 15 seqtrie-0.3.5/seqtrie/inst/include/simple_progress/simple_progress.h | 1 seqtrie-0.3.5/seqtrie/man/RadixForest.Rd | 56 seqtrie-0.3.5/seqtrie/man/RadixTree.Rd | 106 seqtrie-0.3.5/seqtrie/man/covid_cdr3.Rd | 2 seqtrie-0.3.5/seqtrie/man/dist_matrix.Rd | 13 seqtrie-0.3.5/seqtrie/man/dist_pairwise.Rd | 13 seqtrie-0.3.5/seqtrie/man/dist_search.Rd | 13 seqtrie-0.3.5/seqtrie/man/generate_cost_matrix.Rd | 23 seqtrie-0.3.5/seqtrie/src/RadixForest.cpp | 13 seqtrie-0.3.5/seqtrie/src/RadixTree.cpp | 82 seqtrie-0.3.5/seqtrie/src/RcppExports.cpp | 49 seqtrie-0.3.5/seqtrie/src/pairwise.cpp | 86 seqtrie-0.3.5/seqtrie/src/seqtrie_types.h | 278 +- seqtrie-0.3.5/seqtrie/tests/test_RadixTree.R | 2 seqtrie-0.3.5/seqtrie/tests/test_pairwise.R | 36 seqtrie-0.3.5/seqtrie/tests/test_single_gap_search.R |only seqtrie-0.3.5/seqtrie/vignettes/vignette.rmd | 47 37 files changed, 1970 insertions(+), 1208 deletions(-)
Title: Joint Inference for Competing Risks Data Using Multiple
Endpoints
Description: Tools for competing risks trials that allow simultaneous inference on
recovery and mortality endpoints. Provides data preparation helpers, standard
cumulative incidence estimators (restricted mean time gained/lost), and severity
weighted extensions that integrate longitudinal ordinal outcomes to summarise
treatment benefit. Methods follow Wen, Hu, and Wang (2023) Biometrics 79(3):1635-1645
<doi:10.1111/biom.13752>.
Author: Wenqing Zhang [aut, cre],
Jiyang Wen [aut],
Chen Hu [aut],
Meicheng Wang [aut]
Maintainer: Wenqing Zhang <wzhan115@jhu.edu>
Diff between jointCompRisk versions 0.1.0 dated 2025-10-14 and 0.1.1 dated 2025-10-20
DESCRIPTION | 9 +++++---- MD5 | 15 ++++++++------- NEWS.md |only R/cif_inference.R | 2 +- R/weighted_cif.R | 2 +- inst/doc/Example_analysis.html | 12 ++++++------ inst/doc/Vignette.Rmd | 6 +++++- inst/doc/Vignette.html | 40 ++++++++++++++++++++++------------------ vignettes/Vignette.Rmd | 6 +++++- 9 files changed, 53 insertions(+), 39 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-20 0.3.0
2020-10-29 0.2.0
2020-09-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-05-22 0.3.1
Title: 'WhiteboxTools' R Frontend
Description: An R frontend for the 'WhiteboxTools' library, which is an advanced geospatial data analysis platform developed by Prof. John Lindsay at the University of Guelph's Geomorphometry and Hydrogeomatics Research Group. 'WhiteboxTools' can be used to perform common geographical information systems (GIS) analysis operations, such as cost-distance analysis, distance buffering, and raster reclassification. Remote sensing and image processing tasks include image enhancement (e.g. panchromatic sharpening, contrast adjustments), image mosaicing, numerous filtering operations, simple classification (k-means), and common image transformations. 'WhiteboxTools' also contains advanced tooling for spatial hydrological analysis (e.g. flow-accumulation, watershed delineation, stream network analysis, sink removal), terrain analysis (e.g. common terrain indices such as slope, curvatures, wetness index, hillshading; hypsometric analysis; multi-scale topographic position analysis), and LiDAR data processing. [...truncated...]
Author: Qiusheng Wu [aut],
Andrew Brown [aut, cre]
Maintainer: Andrew Brown <brown.andrewg@gmail.com>
Diff between whitebox versions 2.4.2 dated 2025-10-14 and 2.4.3 dated 2025-10-20
DESCRIPTION | 6 +-- MD5 | 25 ++++++------ NEWS.md | 16 ++++++++ R/wbt.R | 1 R/whitebox-package.R | 55 ++++++++++++++++----------- README.md | 26 ++++++------- inst/CITATION | 4 +- inst/doc/datasets.html | 3 - inst/doc/demo.html | 33 ++++++++-------- inst/doc/wbt-method.html | 59 ++++++++++++++---------------- inst/extdata/DEM.tif |only man/extdata-gis.Rd | 9 +--- man/figures/README-terra-plot-facc-1.jpeg |binary tests/testthat/test-wbt_source.R | 6 +++ 14 files changed, 135 insertions(+), 108 deletions(-)
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
The package includes demos reproducing analyzes presented
in the book "Multiple Comparisons Using R" (Bretz, Hothorn,
Westfall, 2010, CRC Press).
Author: Torsten Hothorn [aut, cre] ,
Frank Bretz [aut],
Peter Westfall [aut],
Richard M. Heiberger [ctb],
Andre Schuetzenmeister [ctb],
Susan Scheibe [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between multcomp versions 1.4-28 dated 2025-01-29 and 1.4-29 dated 2025-10-20
multcomp-1.4-28/multcomp/inst/doc/multcomp-examples.R |only multcomp-1.4-28/multcomp/inst/doc/multcomp-examples.Rnw |only multcomp-1.4-28/multcomp/inst/doc/multcomp-examples.pdf |only multcomp-1.4-28/multcomp/tests/Examples |only multcomp-1.4-28/multcomp/vignettes/multcomp-examples.Rnw |only multcomp-1.4-29/multcomp/DESCRIPTION | 11 ++--- multcomp-1.4-29/multcomp/MD5 | 32 +++++++-------- multcomp-1.4-29/multcomp/R/print.R | 6 +- multcomp-1.4-29/multcomp/build/vignette.rds |binary multcomp-1.4-29/multcomp/data/cholesterol.rda |binary multcomp-1.4-29/multcomp/data/litter.rda |binary multcomp-1.4-29/multcomp/demo/Ch_Appl.Rout.save |only multcomp-1.4-29/multcomp/demo/Ch_GLM.Rout.save |only multcomp-1.4-29/multcomp/demo/Ch_Intro.Rout.save |only multcomp-1.4-29/multcomp/demo/Ch_Misc.Rout.save |only multcomp-1.4-29/multcomp/demo/Ch_Theory.Rout.save |only multcomp-1.4-29/multcomp/inst/NEWS | 4 + multcomp-1.4-29/multcomp/inst/doc/chfls1.pdf |binary multcomp-1.4-29/multcomp/inst/doc/generalsiminf.pdf |binary multcomp-1.4-29/multcomp/man/fattyacid.Rd | 2 multcomp-1.4-29/multcomp/man/methods.Rd | 2 multcomp-1.4-29/multcomp/man/mmm.Rd | 4 - 22 files changed, 33 insertions(+), 28 deletions(-)
Title: Conditioned Latin Hypercube Sampling
Description: Conditioned Latin hypercube sampling, as published by Minasny and McBratney (2006) <DOI:10.1016/j.cageo.2005.12.009>. This method proposes to stratify sampling in presence of ancillary data. An extension of this method, which propose to associate a cost to each individual and take it into account during the optimisation process, is also proposed (Roudier et al., 2012, <DOI:10.1201/b12728>).
Author: Pierre Roudier [aut, cre],
Colby Brugnard [ctb],
Dylan Beaudette [ctb],
Benjamin Louis [ctb],
Kiri Daust [ctb],
David Clifford [ctb],
Andrew Brown [ctb]
Maintainer: Pierre Roudier <roudierp@landcareresearch.co.nz>
Diff between clhs versions 0.9.0 dated 2021-10-14 and 0.9.2 dated 2025-10-20
DESCRIPTION | 22 + MD5 | 34 +- NAMESPACE | 2 NEWS.md | 40 +-- R/clhs-data.frame.R | 61 +++-- R/clhs-package.R | 2 R/clhs-sf.R | 2 R/clhs-terra.R |only R/similarity.R | 6 README.md | 2 build/vignette.rds |binary inst/CITATION | 20 - inst/doc/intro-clhs.html | 443 +++++++++++++++++++++++++++++---------- man/similarity_buffer.Rd | 5 src/Makevars | 2 src/Makevars.win | 2 tests/testthat/test-clhs-gower.R | 4 tests/testthat/test-spdf.R | 4 tests/testthat/test-terra.R |only 19 files changed, 453 insertions(+), 198 deletions(-)
Title: Working with Audio and Video in R
Description: Bindings to 'FFmpeg' <http://www.ffmpeg.org/> AV library for working with
audio and video in R. Generates high quality video from images or R graphics with
custom audio. Also offers high performance tools for reading raw audio, creating
'spectrograms', and converting between countless audio / video formats. This package
interfaces directly to the C API and does not require any command line utilities.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between av versions 0.9.5 dated 2025-08-25 and 0.9.6 dated 2025-10-20
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 3 +++ R/fft.R | 4 +++- src/fft.c | 23 ++++++++++++++--------- 5 files changed, 27 insertions(+), 17 deletions(-)
Title: Aster Models
Description: Aster models (Geyer, Wagenius, and Shaw, 2007,
<doi:10.1093/biomet/asm030>; Shaw, Geyer, Wagenius, Hangelbroek, and
Etterson, 2008, <doi:10.1086/588063>; Geyer, Ridley, Latta, Etterson,
and Shaw, 2013, <doi:10.1214/13-AOAS653>) are exponential family
regression models for life
history analysis. They are like generalized linear models except that
elements of the response vector can have different families (e. g.,
some Bernoulli, some Poisson, some zero-truncated Poisson, some normal)
and can be dependent, the dependence indicated by a graphical structure.
Discrete time survival analysis, life table analysis,
zero-inflated Poisson regression, and
generalized linear models that are exponential family (e. g., logistic
regression and Poisson regression with log link) are special cases.
Main use is for data in which there is survival over discrete time periods
and there is additional data about what happens conditional on survival
(e. g., number of offspring). Uses the ex [...truncated...]
Author: Charles J. Geyer [aut, cre]
Maintainer: Charles J. Geyer <geyer@umn.edu>
Diff between aster versions 1.3-5 dated 2025-06-03 and 1.3-6 dated 2025-10-20
CHANGES | 2 ++ DESCRIPTION | 10 +++++----- MD5 | 29 ++++++++++++++++++----------- R/reaster.R | 4 ++-- build/partial.rdb |binary build/vignette.rds |binary data/grey_cloud_2015.rda |only inst/doc/delta.R |only inst/doc/delta.Rnw |only inst/doc/delta.pdf |only inst/doc/linkingTo.pdf |binary inst/doc/re.pdf |binary inst/doc/trunc.pdf |binary inst/doc/tutor.pdf |binary man/aster.Rd | 2 ++ man/grey_cloud_2015.Rd |only man/vcov.Rd | 46 ++++++++++++++++++++++++++++++++++++++++++++++ vignettes/delta.Rnw |only vignettes/rout.rda |only 19 files changed, 75 insertions(+), 18 deletions(-)