Title: Distribution Utilities
Description: Utilities are provided which are of use in the
packages I have developed for dealing with
distributions. Currently these packages are GeneralizedHyperbolic,
VarianceGamma, and SkewHyperbolic and NormalLaplace. Each of these
packages requires DistributionUtils. Functionality includes sample
skewness and kurtosis, log-histogram, tail plots, moments by
integration, changing the point about which a moment is
calculated, functions for testing distributions using inversion
tests and the Massart inequality. Also includes an implementation
of the incomplete Bessel K function.
Author: David Scott [aut, cre]
Maintainer: David Scott <d.scott@auckland.ac.nz>
Diff between DistributionUtils versions 0.6-1 dated 2023-08-28 and 0.6-2 dated 2025-03-28
ChangeLog | 6 + DESCRIPTION | 14 ++- MD5 | 10 +- man/distIneqMassart.Rd | 144 +++++++++++++++++------------------ man/inversionTests.Rd | 198 ++++++++++++++++++++++++------------------------- man/moranTest.Rd | 4 6 files changed, 193 insertions(+), 183 deletions(-)
More information about DistributionUtils at CRAN
Permanent link
Title: Shared Memory Atomic Operations
Description: Implements named semaphores from the 'boost' 'C++' library
<https://www.boost.org/> for interprocess communication. Multiple 'R'
sessions on the same host can block (with optional timeout) on a semaphore
until it becomes positive, then atomically decrement it and unblock. Any
session can increment the semaphore.
Author: Daniel P. Smith [aut, cre] ,
Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>
Diff between semaphore versions 1.1.0 dated 2025-03-18 and 1.2.0 dated 2025-03-28
DESCRIPTION | 18 ++++++------ MD5 | 18 ++++++------ NEWS.md | 5 +++ R/RcppExports.R | 20 +++++++++++-- R/semaphore.r | 44 +++++++++++++++++------------- README.md | 12 ++++---- man/semaphores.Rd | 17 ++++------- src/RcppExports.cpp | 58 ++++++++++++++++++++++++++++++++-------- src/semaphore.cpp | 48 +++++++++++++++++++-------------- tests/testthat/test-semaphore.r | 13 +++++--- 10 files changed, 161 insertions(+), 92 deletions(-)
Title: Correction of Preprocessed MS Data
Description: An 'R' implementation of the 'python' program Metabolomics Peak Analysis Computational Tool ('MPACT') (Robert M. Samples, Sara P. Puckett, and Marcy J. Balunas (2023) <doi:10.1021/acs.analchem.2c04632>). Filters in the package serve to address common errors in tandem mass spectrometry preprocessing, including: (1) isotopic patterns that are incorrectly split during preprocessing, (2) features present in solvent blanks due to carryover between samples, (3) features whose abundance is greater than user-defined abundance threshold in a specific group of samples, for example media blanks, (4) ions that are inconsistent between technical replicates, and (5) in-source fragment ions created during ionization before fragmentation in the tandem mass spectrometry workflow.
Author: Allison Mason [aut] ,
Gregory Johnson [aut] ,
Patrick Schloss [aut, cre, cph]
Maintainer: Patrick Schloss <pschloss@umich.edu>
Diff between mpactr versions 0.2.0 dated 2025-03-13 and 0.2.1 dated 2025-03-28
mpactr-0.2.0/mpactr/src/filters.cpp |only mpactr-0.2.1/mpactr/DESCRIPTION | 6 ++-- mpactr-0.2.1/mpactr/MD5 | 20 ++++++++-------- mpactr-0.2.1/mpactr/NEWS.md | 2 + mpactr-0.2.1/mpactr/R/RcppExports.R | 4 +++ mpactr-0.2.1/mpactr/R/import_data.R | 22 ++++-------------- mpactr-0.2.1/mpactr/R/peak_table_formatter.R | 3 +- mpactr-0.2.1/mpactr/README.md | 1 mpactr-0.2.1/mpactr/inst/doc/downstream_analyses.html | 12 ++++----- mpactr-0.2.1/mpactr/src/RcppExports.cpp | 12 +++++++++ mpactr-0.2.1/mpactr/src/main.cpp |only mpactr-0.2.1/mpactr/tests/testthat/test-import_data.R | 13 ++++++++-- 12 files changed, 55 insertions(+), 40 deletions(-)
Title: Functional Data Analysis for Density Functions by Transformation
to a Hilbert Space
Description: An implementation of the methodology described in
Petersen and Mueller (2016) <doi:10.1214/15-AOS1363> for the functional
data analysis of samples of density functions. Densities are first
transformed to their corresponding log quantile densities, followed by
ordinary Functional Principal Components Analysis (FPCA). Transformation
modes of variation yield improved interpretation of the variability in the
data as compared to FPCA on the densities themselves. The standard
fraction of variance explained (FVE) criterion commonly used for functional
data is adapted to the transformation setting, also allowing for an
alternative quantification of variability for density data through the
Wasserstein metric of optimal transport.
Author: A. Petersen [aut],
P. Z. Hadjipantelis [aut],
H.G. Mueller [aut],
Alexander Petersen [cre]
Maintainer: Alexander Petersen <petersen@stat.byu.edu>
Diff between fdadensity versions 0.1.2 dated 2019-12-05 and 0.1.4 dated 2025-03-28
DESCRIPTION | 30 +++++++++++++++++++++++------- MD5 | 16 ++++++++-------- NAMESPACE | 2 +- R/FPCAdens.R | 6 ++++-- README.md | 2 +- man/BacteriaPI.Rd | 6 ++++-- man/FPCAdens.Rd | 7 +++++-- man/Top50BabyNames.Rd | 6 ++++-- src/RcppExports.cpp | 5 +++++ 9 files changed, 55 insertions(+), 25 deletions(-)
Title: Messages, Warnings, Strings with Ascii Animals
Description: Allows printing of character strings as messages/warnings/etc.
with ASCII animals, including cats, cows, frogs, chickens, ghosts,
and more.
Author: Scott Chamberlain [aut, cre],
Amanda Dobbyn [aut],
Tyler Rinker [ctb],
Thomas Leeper [ctb],
Noam Ross [ctb],
Rich FitzJohn [ctb],
Carson Sievert [ctb],
Kiyoko Gotanda [ctb],
Andy Teucher [ctb],
Karl Broman [ctb],
Franz-Sebastian Krah [ctb],
Lucy D'Ag [...truncated...]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between cowsay versions 1.0.0 dated 2024-12-05 and 1.2.0 dated 2025-03-28
DESCRIPTION | 6 MD5 | 102 +++++- NAMESPACE | 1 NEWS.md | 10 R/animal_fetch.R |only R/animals.R | 687 ---------------------------------------------- R/bubble.R | 16 - R/endless_horse.R | 86 ++--- R/get_who.R | 27 + R/onload.R |only R/say.R | 25 - README.md | 213 ++++++-------- build/vignette.rds |binary inst/cows |only inst/doc/cowsay.R | 8 inst/doc/cowsay.Rmd | 2 inst/doc/cowsay.html | 43 +- man/animal_fetch.Rd |only man/animals.Rd | 22 - man/bubble_say.Rd | 2 man/bubble_tail.Rd | 8 man/endless_horse.Rd | 9 man/say.Rd | 23 - tests/testthat/test-say.R | 5 vignettes/cowsay.Rmd | 2 25 files changed, 326 insertions(+), 971 deletions(-)
Title: Designs for Computer Experimentations
Description: In computer experiments space-filling designs are having great impact. Most popularly used space-filling designs are Uniform designs (UDs), Latin hypercube designs (LHDs) etc. For further references one can see Mckay (1979) <DOI:10.1080/00401706.1979.10489755> and Fang (1980) <https://cir.nii.ac.jp/crid/1570291225616774784>. In this package, we have provided algorithms for generate efficient LHDs and UDs. Here, generated LHDs are efficient as they possess lower value of Maxpro measure, Phi_p value and Maximum Absolute Correlation (MAC) value based on the weightage given to each criterion. On the other hand, the produced UDs are having good space-filling property as they always attain the lower bound of Discrete Discrepancy measure. Further, some useful functions added in this package for adding more value to this package.
Author: Ashutosh Dalal [aut, cre],
Cini Varghese [aut, ctb],
Rajender Parsad [aut, ctb],
Mohd Harun [aut, ctb]
Maintainer: Ashutosh Dalal <ashutosh.dalal97@gmail.com>
Diff between CompExpDes versions 1.0.6 dated 2024-11-28 and 1.0.7 dated 2025-03-28
CompExpDes-1.0.6/CompExpDes/R/LHDs_I.R |only CompExpDes-1.0.6/CompExpDes/R/LHDs_II.R |only CompExpDes-1.0.6/CompExpDes/man/LHDs_I.Rd |only CompExpDes-1.0.6/CompExpDes/man/LHDs_II.Rd |only CompExpDes-1.0.7/CompExpDes/DESCRIPTION | 8 +++--- CompExpDes-1.0.7/CompExpDes/MD5 | 16 ++++++------ CompExpDes-1.0.7/CompExpDes/NAMESPACE | 4 +-- CompExpDes-1.0.7/CompExpDes/R/PhipMeasure.R | 30 +++++++++++++----------- CompExpDes-1.0.7/CompExpDes/R/wtLHDs.R |only CompExpDes-1.0.7/CompExpDes/R/wtLHDs_prime.R |only CompExpDes-1.0.7/CompExpDes/man/PhipMeasure.Rd | 4 +-- CompExpDes-1.0.7/CompExpDes/man/wtLHDs.Rd |only CompExpDes-1.0.7/CompExpDes/man/wtLHDs_prime.Rd |only 13 files changed, 33 insertions(+), 29 deletions(-)
Title: Import Articles from 'LexisNexis' Using the 'tm' Text Mining
Framework
Description: Provides a 'tm' Source to create corpora from
articles exported from the 'LexisNexis' content provider as
HTML files. It is able to read both text content and meta-data
information (including source, date, title, author and pages).
Note that the file format is highly unstable: there is no warranty
that this package will work for your corpus, and you may have
to adjust the code to adapt it to your particular format.
Author: Milan Bouchet-Valat [aut, cre],
Tom Nicholls [ctb]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between tm.plugin.lexisnexis versions 1.4.1 dated 2019-10-19 and 1.4.2 dated 2025-03-28
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 3 +++ man/LexisNexisSource.Rd | 2 +- man/readLexisNexis.Rd | 2 +- man/tm.plugin.lexisnexis-package.Rd | 2 +- 6 files changed, 15 insertions(+), 12 deletions(-)
More information about tm.plugin.lexisnexis at CRAN
Permanent link
Title: Import Articles from 'Factiva' Using the 'tm' Text Mining
Framework
Description: Provides a 'tm' Source to create corpora from
articles exported from the Dow Jones 'Factiva' content provider as
XML or HTML files. It is able to read both text content and meta-data
information (including source, date, title, author, subject,
geographical coverage, company, industry, and various
provider-specific fields).
Author: Milan Bouchet-Valat [aut, cre],
Grigorij Ljubownikow [ctb],
Juliane Krueger [ctb],
Tom Nicholls [ctb]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between tm.plugin.factiva versions 1.8 dated 2019-10-19 and 1.8.1 dated 2025-03-28
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 3 +++ man/FactivaSource.Rd | 4 ++-- man/readFactiva.Rd | 2 +- man/tm.plugin.factiva-package.Rd | 6 +++--- 6 files changed, 18 insertions(+), 15 deletions(-)
More information about tm.plugin.factiva at CRAN
Permanent link
Title: Import Articles from 'Europresse' Using the 'tm' Text Mining
Framework
Description: Provides a 'tm' Source to create corpora from
articles exported from the 'Europresse' content provider as
HTML files. It is able to read both text content and meta-data
information (including source, date, title, author and pages).
Author: Milan Bouchet-Valat [aut, cre]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between tm.plugin.europresse versions 1.4 dated 2016-08-23 and 1.4.1 dated 2025-03-28
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS | 3 +++ R/readEuropresseHTML.R | 15 +++++++++------ man/EuropresseSource.Rd | 2 +- man/readEuropresse.Rd | 2 +- man/tm.plugin.europresse-package.Rd | 2 +- 7 files changed, 27 insertions(+), 21 deletions(-)
More information about tm.plugin.europresse at CRAN
Permanent link
Title: Visualisation, Verification and Calibration of Ternary
Probabilistic Forecasts
Description: A suite of functions for visualising ternary probabilistic forecasts, as discussed in the paper by Jupp (2012) <doi:10.1098/rsta.2011.0350>.
Author: Tim Jupp [aut, cre]
Maintainer: Tim Jupp <T.E.Jupp@exeter.ac.uk>
Diff between ternvis versions 1.2 dated 2019-07-05 and 1.3 dated 2025-03-28
DESCRIPTION | 16 ++++++++++------ MD5 | 30 +++++++++++++++--------------- inst/CITATION | 5 ++--- man/rain.Rd | 2 +- man/tcalibrate.Rd | 4 ++-- man/tcolour.Rd | 6 +++--- man/ternvis-package.Rd | 8 ++++---- man/tgetcal.Rd | 4 ++-- man/tgrid.Rd | 4 ++-- man/tmap.Rd | 4 ++-- man/tpalette.Rd | 6 +++--- man/tscore.Rd | 4 ++-- man/tsetup.Rd | 4 ++-- man/tverify.Rd | 4 ++-- man/xf.Rd | 4 ++-- man/yf.Rd | 4 ++-- 16 files changed, 56 insertions(+), 53 deletions(-)
Title: Modules for 'ShinyItemAnalysis'
Description: Package including additional modules for interactive
'ShinyItemAnalysis' application for the psychometric analysis of
educational tests, psychological assessments, health-related and other
types of multi-item measurements, or ratings from multiple raters.
Author: Patricia Martinkova [aut, cre]
,
Jan Netik [aut] ,
Adela Hladka [aut]
Maintainer: Patricia Martinkova <martinkova@cs.cas.cz>
Diff between SIAmodules versions 0.1.1 dated 2024-04-23 and 0.1.2 dated 2025-03-28
DESCRIPTION | 40 +- MD5 | 20 - NAMESPACE | 1 NEWS.md | 20 + R/sm_cat.R | 10 R/sm_dif_c.R | 696 ++++++++++++++++++++-------------------------- R/sm_irr.R | 12 R/sysdata.rda |binary README.md | 9 build/partial.rdb |binary man/SIAmodules-package.Rd | 1 11 files changed, 363 insertions(+), 446 deletions(-)
Title: Just a Rather Bayesian Evidence Synthesis
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>
Diff between jarbes versions 2.2.3 dated 2024-12-05 and 2.2.5 dated 2025-03-28
ChangeLog | 17 + DESCRIPTION | 8 MD5 | 47 ++-- NAMESPACE | 3 R/bchmr.R |only R/bcmeta.R | 4 R/bcmixmeta.R | 21 + R/data-documentation.R | 517 ++++++++++++++++++++++++++++++++++++++++++++++++- R/dpmetareg.R | 31 -- R/hmr.R | 4 R/metarisk.R | 3 data/acupuncture.rda |only data/colon_cancer.rda |only data/diabetes_eyes.rda |only data/fnrpcr.rda |only data/longcovid.rda |only data/macula_rwe.rda |only man/acupuncture.Rd |only man/bchmr.Rd |only man/bcmixmeta.Rd | 3 man/colon_cancer.Rd |only man/covid19.Rd | 2 man/diabetes_eyes.Rd |only man/dpmetareg.Rd | 16 - man/fnrpcr.Rd |only man/hips.Rd | 2 man/hmr.Rd | 4 man/longcovid.Rd |only man/macula_rwe.Rd |only man/metarisk.Rd | 3 man/print.bchmr.Rd |only man/stemcells.Rd | 4 32 files changed, 599 insertions(+), 90 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to safely and efficiently organize and execute
Monte Carlo simulation experiments in R.
The package controls the structure and back-end of Monte Carlo simulation experiments
by utilizing a generate-analyse-summarise workflow. The workflow safeguards against
common simulation coding issues, such as automatically re-simulating non-convergent results,
prevents inadvertently overwriting simulation files, catches error and warning messages
during execution, implicitly supports parallel processing with high-quality random number
generation, and provides tools for managing high-performance computing (HPC) array jobs
submitted to schedulers such as SLURM. For a pedagogical introduction to the package see
Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>. For a more in-depth overview of
the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] ,
Matthew Sigal [ctb],
Ogreden Oguzhan [ctb],
Mikko Ronkko [ctb],
Moritz Ketzer [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 2.19.1 dated 2025-03-17 and 2.19.2 dated 2025-03-28
DESCRIPTION | 6 - MD5 | 40 ++++++------ R/Design.R | 2 inst/doc/Catch_errors.Rmd | 6 - inst/doc/Catch_errors.html | 41 ++++++------ inst/doc/Fixed_obj_fun.Rmd | 8 +- inst/doc/Fixed_obj_fun.html | 24 +++---- inst/doc/HPC-computing.R | 12 ++- inst/doc/HPC-computing.Rmd | 34 +++++++--- inst/doc/HPC-computing.html | 125 +++++++++++++++++++++++++++------------ inst/doc/MultipleAnalyses.html | 4 - inst/doc/Parallel-computing.html | 4 - inst/doc/Saving-results.Rmd | 10 +-- inst/doc/Saving-results.html | 46 ++++++++------ inst/doc/SimDesign-intro.Rmd | 35 +++++----- inst/doc/SimDesign-intro.html | 110 ++++++++++++++++++---------------- vignettes/Catch_errors.Rmd | 6 - vignettes/Fixed_obj_fun.Rmd | 8 +- vignettes/HPC-computing.Rmd | 34 +++++++--- vignettes/Saving-results.Rmd | 10 +-- vignettes/SimDesign-intro.Rmd | 35 +++++----- 21 files changed, 350 insertions(+), 250 deletions(-)
Title: Vertical Profiles of Biological Signals in Weather Radar Data
Description: 'R' implementation of the 'vol2bird' software for generating vertical profiles
of birds and other biological signals in weather radar data. See Dokter et al.
(2011) <doi:10.1098/rsif.2010.0116> for a paper describing the methodology.
Author: Anders Henja [aut] ,
Adriaan M. Dokter [aut, cre] ,
Alexander Tedeschi [ctb] ,
Tsung-Yu Lin [ctb] ,
Subranshu Maji [ctb] ,
Daniel Sheldon [ctb] ,
Bart Kranstauber [ctb] ,
Jurriaan H. Spaaks [ctb] ,
Lourens Veen [ctb] ,
Iwan Holleman [ctb] ,
Hidde Lei [...truncated...]
Maintainer: Adriaan M. Dokter <vol2birdr@cornell.edu>
Diff between vol2birdR versions 1.0.8 dated 2025-03-27 and 1.0.9 dated 2025-03-28
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 3 +++ src/libvol2bird/librsl.c | 3 ++- 4 files changed, 12 insertions(+), 8 deletions(-)
Title: Multivariate Distance Matrix Regression
Description: Allows users to conduct multivariate distance matrix regression using analytic p-values and compute measures of effect size. For details on the method, see McArtor, Lubke, & Bergeman (2017) <doi:10.1007/s11336-016-9527-8>.
Author: Dan McArtor [aut, cre]
Maintainer: Dan McArtor <dmcartor@gmail.com>
Diff between MDMR versions 0.5.1 dated 2018-02-14 and 0.5.2 dated 2025-03-28
DESCRIPTION | 28 + MD5 | 32 + R/MDMR-package.R | 2 R/mdmr.R | 27 + build/vignette.rds |binary inst/doc/mdmr-vignette.R | 12 inst/doc/mdmr-vignette.html | 734 +++++++++++++++++++++++++++++++++++--------- man/MDMR-package.Rd | 12 man/X.clust.Rd | 4 man/X.mdmr.Rd | 4 man/Y.clust.Rd | 4 man/Y.mdmr.Rd | 4 man/delta.Rd | 19 - man/dot-hat.Rd |only man/dot-mdmr.permstats.Rd |only man/dot-pmdmr.Rd |only man/dot-pseudo.r2.Rd |only man/mdmr.Rd | 17 - man/mixed.mdmr.Rd | 17 - 19 files changed, 714 insertions(+), 202 deletions(-)
Title: Variables Interpretability with Kernel PCA
Description: The kernelized version of principal component analysis (KPCA) has proven to be a valid nonlinear alternative for tackling the nonlinearity of biological sample spaces. However, it poses new challenges in terms of the interpretability of the original variables. 'kpcaIG' aims to provide a tool to select the most relevant variables based on the kernel PCA representation of the data as in Briscik et al. (2023) <doi:10.1186/s12859-023-05404-y>. It also includes functions for 2D and 3D visualization of the original variables (as arrows) into the kernel principal components axes, highlighting the contribution of the most important ones.
Author: Mitja Briscik [aut, cre],
Mohamed Heimida [aut],
Sebastien Dejean [aut]
Maintainer: Mitja Briscik <mitja.briscik@math.univ-toulouse.fr>
Diff between kpcaIG versions 1.0 dated 2024-07-21 and 1.0.1 dated 2025-03-28
DESCRIPTION | 8 +-- MD5 | 14 +++--- NAMESPACE | 1 R/plot_kpca2D.R | 78 ++++++++++++++++++++++++++++---------- R/plot_kpca3D.R | 107 +++++++++++++++++++++++++++-------------------------- man/kernelpca.Rd | 6 ++ man/plot_kpca2D.Rd | 20 +++++++-- man/plot_kpca3D.Rd | 9 +++- 8 files changed, 153 insertions(+), 90 deletions(-)
Title: Group Elastic Net Regularized GLMs and GAMs
Description: Efficient algorithms for fitting generalized linear and additive models with group elastic net penalties as described in Helwig (2025) <doi:10.1080/10618600.2024.2362232>. Implements group LASSO, group MCP, and group SCAD with an optional group ridge penalty. Computes the regularization path for linear regression (gaussian), multivariate regression (multigaussian), logistic regression (binomial), multinomial logistic regression (multinomial), log-linear count regression (poisson and negative.binomial), and log-linear continuous regression (gamma and inverse gaussian). Supports default and formula methods for model specification, k-fold cross-validation for tuning the regularization parameters, and nonparametric regression via tensor product reproducing kernel (smoothing spline) basis function expansion.
Author: Nathaniel E. Helwig [aut, cre]
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>
Diff between grpnet versions 0.7 dated 2025-01-24 and 0.8 dated 2025-03-28
ChangeLog | 19 +++++++++++++++++++ DESCRIPTION | 10 +++++----- MD5 | 44 ++++++++++++++++++++++---------------------- R/cv.grpnet.default.R | 17 ++++++++--------- R/grpnet.R | 7 ++++--- R/grpnet.default.R | 4 ++-- build/partial.rdb |binary inst/CITATION | 7 +++++-- man/coef.Rd | 2 +- man/cv.compare.Rd | 2 +- man/cv.grpnet.Rd | 8 ++++---- man/family.grpnet.Rd | 2 +- man/grpnet.Rd | 8 ++++---- man/plot.cv.grpnet.Rd | 2 +- man/plot.grpnet.Rd | 2 +- man/predict.cv.grpnet.Rd | 2 +- man/predict.grpnet.Rd | 2 +- man/print.Rd | 2 +- man/rk.Rd | 2 +- man/rk.model.matrix.Rd | 2 +- man/visualize.penalty.Rd | 6 +++--- man/visualize.shrink.Rd | 6 +++--- src/grpnet_init.c | 2 +- 23 files changed, 90 insertions(+), 68 deletions(-)
Title: Retrieve, Harmonise and Map Open Data Regarding the Italian
School System
Description: Compiles and displays the available data sets regarding the Italian school system, with a focus on the infrastructural aspects.
Input datasets are downloaded from the web, with the aim of updating everything to real time.
The functions are divided in four main modules, namely
'Get', to scrape raw data from the web
'Util', various utilities needed to process raw data
'Group', to aggregate data at the municipality or province level
'Map', to visualize the output datasets.
Author: Leonardo Cefalo [aut, cre] ,
Alessio Pollice [ctb, ths] ,
Paolo Maranzano [ctb]
Maintainer: Leonardo Cefalo <leonardo.cefalo@uniba.it>
Diff between SchoolDataIT versions 0.2.3 dated 2025-01-08 and 0.2.4 dated 2025-03-28
DESCRIPTION | 6 +-- MD5 | 22 +++++------ NEWS.md | 8 ++++ R/Get_nteachers_prov.R | 3 + R/Set_DB.R | 23 ++++++++++- R/Util_nstud_wide.R | 81 +++++++++++++++++++++++++++++++++++++++--- R/example_Invalsi23_prov.R | 2 - R/tabrename.manual.R | 2 - README.md | 2 - man/Set_DB.Rd | 21 +++++++++- man/Util_nstud_wide.Rd | 21 +++++++++- man/example_Invalsi23_prov.Rd | 2 - 12 files changed, 162 insertions(+), 31 deletions(-)
Title: R Bindings for the 'prqlc' Rust Library
Description: Provides a function to convert 'PRQL' strings to 'SQL' strings.
Combined with other R functions that take 'SQL' as an argument,
'PRQL' can be used on R.
Author: Tatsuya Shima [aut, cre],
Authors of the dependency Rust crates [aut]
Maintainer: Tatsuya Shima <ts1s1andn@gmail.com>
Diff between prqlr versions 0.10.0 dated 2025-01-29 and 0.10.1 dated 2025-03-28
prqlr-0.10.0/prqlr/src/Makevars.win |only prqlr-0.10.1/prqlr/DESCRIPTION | 9 prqlr-0.10.1/prqlr/LICENSE.note | 134 ++++--- prqlr-0.10.1/prqlr/MD5 | 41 +- prqlr-0.10.1/prqlr/NEWS.md | 13 prqlr-0.10.1/prqlr/README.md | 24 - prqlr-0.10.1/prqlr/build/vignette.rds |binary prqlr-0.10.1/prqlr/cleanup | 4 prqlr-0.10.1/prqlr/configure | 71 +++- prqlr-0.10.1/prqlr/inst/AUTHORS | 8 prqlr-0.10.1/prqlr/inst/doc/knitr.html | 13 prqlr-0.10.1/prqlr/inst/doc/prqlr.html | 7 prqlr-0.10.1/prqlr/src/Makevars.in | 58 ++- prqlr-0.10.1/prqlr/src/Makevars.win.in |only prqlr-0.10.1/prqlr/src/rust/Cargo.lock | 256 +++++++-------- prqlr-0.10.1/prqlr/src/rust/Cargo.toml | 6 prqlr-0.10.1/prqlr/src/rust/api.h | 1 prqlr-0.10.1/prqlr/src/rust/vendor.tar.xz |binary prqlr-0.10.1/prqlr/tests/testthat/_snaps/compile.md | 8 prqlr-0.10.1/prqlr/tests/testthat/_snaps/knitr-engine.md | 4 prqlr-0.10.1/prqlr/tests/testthat/setup.R |only prqlr-0.10.1/prqlr/tools/lib-sums.tsv | 12 prqlr-0.10.1/prqlr/tools/prep-lib.R | 13 23 files changed, 389 insertions(+), 293 deletions(-)
Title: Using CF-Compliant Calendars with Climate Projection Data
Description: Support for all calendars as specified in the Climate and Forecast
(CF) Metadata Conventions for climate and forecasting data. The CF Metadata
Conventions is widely used for distributing files with climate observations
or projections, including the Coupled Model Intercomparison Project (CMIP)
data used by climate change scientists and the Intergovernmental Panel on
Climate Change (IPCC). This package specifically allows the user to work
with any of the CF-compliant calendars (many of which are not compliant with
POSIXt). The CF time coordinate is formally defined in the CF Metadata
Conventions document available at <https://cfconventions.org/Data/cf-conventions/cf-conventions-1.12/cf-conventions.html#time-coordinate>.
Author: Patrick Van Laake [aut, cre, cph]
Maintainer: Patrick Van Laake <patrick@vanlaake.net>
Diff between CFtime versions 1.5.1 dated 2025-03-03 and 1.6.0 dated 2025-03-28
DESCRIPTION | 11 MD5 | 72 +++-- NAMESPACE | 2 NEWS.md | 17 + R/CFCalendar.R | 2 R/CFCalendarNone.R |only R/CFCalendarUTC.R | 5 R/CFClimatology.R |only R/CFtime-package.R | 5 R/CFtime.R | 298 ++++++++++++++++-------- R/api.R | 41 +-- R/deprecated.R | 2 R/helpers.R | 2 README.md | 25 +- TODO | 4 build/vignette.rds |binary inst/doc/CFtime.R | 38 +-- inst/doc/CFtime.Rmd | 346 ++++++---------------------- inst/doc/CFtime.html | 439 +++++++++++++++++++----------------- inst/doc/Conformance.Rmd | 15 + inst/doc/Conformance.html | 15 + inst/doc/Processing.R | 46 +-- inst/doc/Processing.Rmd | 191 +++------------ inst/doc/Processing.html | 260 ++++++++++----------- man/CFCalendarNone.Rd |only man/CFCalendarUTC.Rd | 2 man/CFClimatology.Rd |only man/CFTime.Rd | 83 +++--- man/CFtime-package.Rd | 5 man/deprecated_functions.Rd | 2 man/month_days.Rd | 5 man/slice.Rd | 34 +- man/str.CFTime.Rd |only tests/testthat/test-CFClimatology.R |only tests/testthat/test-CFformat.R | 27 +- tests/testthat/test-CFtime.R | 31 +- tests/testthat/test-parse_deparse.R | 27 +- vignettes/CFtime.Rmd | 346 ++++++---------------------- vignettes/Conformance.Rmd | 15 + vignettes/Processing.Rmd | 191 +++------------ 40 files changed, 1133 insertions(+), 1471 deletions(-)
Title: Support for Parallel Computation, Logging, and Function
Automation
Description: Support for parallel computation with progress bar, and option to stop or proceed on errors. Also provides logging to console and disk,
and the logging persists in the parallel threads. Additional functions support function call automation with delayed execution (e.g. for executing functions in
parallel).
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between ParallelLogger versions 3.4.0 dated 2025-03-27 and 3.4.1 dated 2025-03-28
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 8 ++++++++ R/Cluster.R | 2 +- inst/doc/Logging.pdf |binary inst/doc/Parallel.pdf |binary tests/testthat/test-cluster.R | 27 +++++++++++++++------------ 7 files changed, 34 insertions(+), 23 deletions(-)
More information about ParallelLogger at CRAN
Permanent link
Title: R Interface to 'IGN' Web Services
Description: Automatic open data acquisition from resources of IGN
('Institut National de Information Geographique et forestiere')
(<https://www.ign.fr/>). Available datasets include various types of
raster and vector data, such as digital elevation models, state
borders, spatial databases, cadastral parcels, and more. There also
access to point clouds data ('LIDAR') and specifics API
(<https://apicarto.ign.fr/api/doc/>).
Author: Paul Carteron [aut, cre]
Maintainer: Paul Carteron <carteronpaul@gmail.com>
Diff between happign versions 0.3.2 dated 2025-01-24 and 0.3.3 dated 2025-03-28
DESCRIPTION | 11 - MD5 | 18 +- NAMESPACE | 1 NEWS.md | 10 + R/get_wms_raster.R | 185 +++++++++++++++++---------- man/get_wms_raster.Rd | 25 +-- tests/testthat/test-get_iso.R | 2 tests/testthat/test-get_wms_raster.R | 135 +++++++++++-------- vignettes/web_only/api_carto.Rmd | 24 +-- vignettes/web_only/happign_for_foresters.Rmd | 132 ++++++++++--------- 10 files changed, 320 insertions(+), 223 deletions(-)
Title: Generalized Linear Autoregressive Moving Average Models
Description: Functions are provided for estimation, testing, diagnostic checking and forecasting of generalized linear autoregressive moving average (GLARMA) models for discrete valued time series with regression variables. These are a class of observation driven non-linear non-Gaussian state space models. The state vector consists of a linear regression component plus an observation driven component consisting of an autoregressive-moving average (ARMA) filter of past predictive residuals. Currently three distributions (Poisson, negative binomial and binomial) can be used for the response series. Three options (Pearson, score-type and unscaled) for the residuals in the observation driven component are available. Estimation is via maximum likelihood (conditional on initializing values for the ARMA process) optimized using Fisher scoring or Newton Raphson iterative methods. Likelihood ratio and Wald tests for the observation driven component allow testing for serial dependence in generalized linear [...truncated...]
Author: William T.M. Dunsmuir [aut, cre],
Cenanning Li [aut],
David J. Scott [aut]
Maintainer: William T.M. Dunsmuir <w.dunsmuir@unsw.edu.au>
Diff between glarma versions 1.6-0 dated 2018-02-06 and 1.7-1 dated 2025-03-28
ChangeLog | 58 + DESCRIPTION | 32 MD5 | 55 NAMESPACE | 4 R/accessors.R | 96 + R/forecast.R | 180 +-- R/glarma.R | 2 R/glarmaBinomialIdentity.R | 6 R/glarmaSim.R |only R/glarmaSimModel.R |only R/likTests.R | 183 +-- TODO | 3 build/partial.rdb |only build/vignette.rds |binary inst/doc/glarma.R | 8 inst/doc/glarma.Rnw | 2104 ++++++++++++++++++------------------- inst/doc/glarma.pdf |binary inst/unitTests/runit.glarma.R | 2 inst/unitTests/runit.likTests.R | 2 inst/unitTests/runit.plot.glarma.R | 2 man/RobberyConvict.Rd | 2 man/extractGlarmaSimModel.Rd |only man/forecast.Rd | 16 man/glarma.Rd | 2 man/glarmaSim.Rd |only man/glarmaSimModel.Rd |only man/initial.Rd | 4 man/likTests.Rd | 15 man/randPIT.Rd | 2 tests/extractGlarmaSimModelTests.R |only tests/glarmaSimModelTests.R |only tests/glarmaSimTests.R |only vignettes/glarma.Rnw | 2104 ++++++++++++++++++------------------- 33 files changed, 2523 insertions(+), 2359 deletions(-)
Title: Clustering Graphics
Description: Orders panels in scatterplot matrices and parallel coordinate
displays by some merit index. Package contains various indices of merit,
ordering functions, and enhanced versions of pairs and parcoord which
color panels according to their merit level.
Author: Catherine Hurley [aut, cre]
Maintainer: Catherine Hurley <catherine.hurley@mu.ie>
Diff between gclus versions 1.3.2 dated 2019-01-07 and 1.3.3 dated 2025-03-28
DESCRIPTION | 14 - MD5 | 18 - build/vignette.rds |binary inst/doc/gclus.R | 26 +- inst/doc/gclus.Rmd | 3 inst/doc/gclus.html | 485 ++++++++++++++++++++++++++++++++++++++++++---------- man/ac.Rd | 5 man/cparcoord.Rd | 2 man/wine.Rd | 6 vignettes/gclus.Rmd | 3 10 files changed, 431 insertions(+), 131 deletions(-)
Title: Statistical Tests for the Production of Reference Materials
Description: The production of certified reference materials (CRMs) requires
various statistical tests depending on the task and recorded data to ensure
that reported values of CRMs are appropriate.
Often these tests are performed according to the procedures described in
'ISO GUIDE 35:2017'. The 'eCerto' package contains a 'Shiny' app which
provides functionality to load, process, report and backup data recorded
during CRM production and facilitates following the recommended procedures.
It is described in Lisec et al (2023) <doi:10.1007/s00216-023-05099-3> and
can also be accessed online <https://apps.bam.de/shn00/eCerto/> without
package installation.
Author: Jan Lisec [cre, aut] ,
Frederik Kress [ctb]
Maintainer: Jan Lisec <jan.lisec@bam.de>
Diff between eCerto versions 0.8.4 dated 2025-03-26 and 0.8.5 dated 2025-03-28
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS.md | 7 ++++++- inst/golem-config.yml | 2 +- tests/testthat/test-help_the_user_modal.R | 1 + 5 files changed, 18 insertions(+), 12 deletions(-)
Title: Generic Implementation of a PK/PD Model
Description: A generic, easy-to-use and expandable implementation of a
pharmacokinetic (PK) / pharmacodynamic (PD) model based on the S4
class system. This package allows the user to read/write a
pharmacometric model from/to files and adapt it further on the fly in
the R environment. For this purpose, this package provides an
intuitive API to add, modify or delete equations, ordinary
differential equations (ODE's), model parameters or compartment
properties (like infusion duration or rate, bioavailability and
initial values). Finally, this package also provides a useful export
of the model for use with simulation packages 'rxode2' and 'mrgsolve'.
This package is designed and intended to be used with package
'campsis', a PK/PD simulation platform built on top of 'rxode2' and
'mrgsolve'.
Author: Nicolas Luyckx [aut, cre]
Maintainer: Nicolas Luyckx <nicolas.luyckx@calvagone.com>
Diff between campsismod versions 1.2.1 dated 2025-03-17 and 1.2.2 dated 2025-03-28
DESCRIPTION | 6 ++-- MD5 | 12 ++++----- NEWS.md | 3 ++ build/vignette.rds |binary tests/testthat/testMiscellaneous.R | 14 +++++++++-- tests/testthat/testReplicatedCampsisModel.R | 11 +++++++-- tests/testthat/testUtils.R | 34 ++++++++++++++++++++++++++++ 7 files changed, 67 insertions(+), 13 deletions(-)
Title: Analysis of Binding Events + l
Description: A free software for a fast and easy analysis of 1:1 molecular interaction studies.
This package is suitable for a high-throughput data analysis.
Both the online app and the package are completely open source.
You provide a table of sensogram, tell 'anabel' which method to use,
and it takes care of all fitting details.
The first two releases of 'anabel' were created and implemented as in
(<doi:10.1177/1177932218821383>, <doi:10.1093/database/baz101>).
Author: Hoor Al-Hasani [aut] ,
Oliver Selinger [aut] ,
Stefan Kraemer [aut, cre]
Maintainer: Stefan Kraemer <stefan.kraemer.91@gmail.com>
Diff between anabel versions 3.0.1 dated 2023-05-11 and 3.0.2 dated 2025-03-28
anabel-3.0.1/anabel/LICENSE |only anabel-3.0.2/anabel/DESCRIPTION | 22 anabel-3.0.2/anabel/MD5 | 70 +- anabel-3.0.2/anabel/NEWS.md | 12 anabel-3.0.2/anabel/R/MCK.R | 15 anabel-3.0.2/anabel/R/SCA.R | 16 anabel-3.0.2/anabel/R/SCK.R | 16 anabel-3.0.2/anabel/R/anabel-package.R |only anabel-3.0.2/anabel/R/anabel.R | 16 anabel-3.0.2/anabel/R/check_deps.R | 15 anabel-3.0.2/anabel/R/fittingQC_assessment.R | 14 anabel-3.0.2/anabel/R/model_functions.R | 20 anabel-3.0.2/anabel/R/plots_functions.R | 16 anabel-3.0.2/anabel/R/run_anabel.R | 16 anabel-3.0.2/anabel/R/unit_converter.R | 16 anabel-3.0.2/anabel/R/utils.R | 16 anabel-3.0.2/anabel/R/zzz.R | 14 anabel-3.0.2/anabel/build/partial.rdb |only anabel-3.0.2/anabel/build/vignette.rds |binary anabel-3.0.2/anabel/inst/CITATION | 4 anabel-3.0.2/anabel/inst/doc/anabel.R | 66 +- anabel-3.0.2/anabel/inst/doc/anabel.Rmd | 10 anabel-3.0.2/anabel/inst/doc/anabel.html | 318 ++++------ anabel-3.0.2/anabel/man/anabel-package.Rd |only anabel-3.0.2/anabel/tests/testthat.R | 5 anabel-3.0.2/anabel/vignettes/anabel.Rmd | 10 anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/mck_drift-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/mck_prev-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/mck_rslts-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sca_drift-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sca_drift_1-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sca_rev-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sca_rslt-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sck_decay-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sck_decay_rslts-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sck_prev-1.png |binary anabel-3.0.2/anabel/vignettes/anabel_files/figure-html/sck_rslt-1.png |binary anabel-3.0.2/anabel/vignettes/paper.bib | 6 38 files changed, 441 insertions(+), 272 deletions(-)
Title: Generalized Propensity Score Estimation and Matching for
Multiple Groups
Description: Implements the Vector Matching algorithm to match multiple
treatment groups based on previously estimated generalized propensity
scores. The package includes tools for visualizing initial confounder
imbalances, estimating treatment assignment probabilities using various
methods, defining the common support region, performing matching across
multiple groups, and evaluating matching quality. For more details, see
Lopez and Gutman (2017) <doi:10.1214/17-STS612>.
Author: Mateusz Kolek [aut, cre, cph]
Maintainer: Mateusz Kolek <mati.kolek13@gmail.com>
Diff between vecmatch versions 1.0.2 dated 2025-03-07 and 1.0.3 dated 2025-03-28
vecmatch-1.0.2/vecmatch/build/vignette.rds |only vecmatch-1.0.2/vecmatch/inst/doc |only vecmatch-1.0.2/vecmatch/vignettes |only vecmatch-1.0.3/vecmatch/DESCRIPTION | 9 +--- vecmatch-1.0.3/vecmatch/MD5 | 16 ++----- vecmatch-1.0.3/vecmatch/README.md | 30 +++++++------- vecmatch-1.0.3/vecmatch/build/partial.rdb |binary vecmatch-1.0.3/vecmatch/man/figures/unnamed-chunk-2-1.png |binary vecmatch-1.0.3/vecmatch/tests/spelling.R | 9 ++-- 9 files changed, 30 insertions(+), 34 deletions(-)
Title: Convert Between Jalaali (Persian or Solar Hijri) and Gregorian
Calendar Dates
Description: The Jalaali calendar, also known as the Persian or Solar Hijri
calendar, is the official calendar of Iran and Afghanistan. It starts on
Nowruz, the spring equinox, and follows an astronomical system for
determining leap years. Each year consists of 365 or 366 days, divided into
12 months. This package provides functions for converting dates between the
Jalaali and Gregorian calendars. The conversion calculations are based on
the work of Kazimierz M. Borkowski (1996) (<doi:10.1007/BF00055188>), who
used an analytical model of Earth's motion to compute equinoxes from AD 550
to 3800 and determine leap years based on Tehran time.
Author: Abdollah Jalilian [aut, cre] ,
Kazimierz M. Borkowski [ctb]
Maintainer: Abdollah Jalilian <stat4aj@gmail.com>
Diff between jalcal versions 0.1.0 dated 2021-09-07 and 0.3.0 dated 2025-03-28
jalcal-0.1.0/jalcal/R/isLeap.R |only jalcal-0.1.0/jalcal/R/jal2greg.R |only jalcal-0.1.0/jalcal/man/greg2jal0.Rd |only jalcal-0.1.0/jalcal/man/isLeap.Rd |only jalcal-0.3.0/jalcal/DESCRIPTION | 51 +++++---- jalcal-0.3.0/jalcal/MD5 | 19 +-- jalcal-0.3.0/jalcal/NAMESPACE | 3 jalcal-0.3.0/jalcal/R/greg2jal.R | 168 +++++++++++++++++-------------- jalcal-0.3.0/jalcal/R/jal2grep.R |only jalcal-0.3.0/jalcal/R/jalLeap.R |only jalcal-0.3.0/jalcal/README.md | 186 ++++++++++++++++++++++++++++++++++- jalcal-0.3.0/jalcal/man/greg2jal.Rd | 45 ++++++-- jalcal-0.3.0/jalcal/man/jal2greg.Rd | 49 ++++++--- jalcal-0.3.0/jalcal/man/jalLeap.Rd |only 14 files changed, 384 insertions(+), 137 deletions(-)
Title: Tools for Environmental Analyses, Ecotoxicology and Various R
Functions
Description: Contains miscellaneous functions useful for managing 'NetCDF' files (see <https://en.wikipedia.org/wiki/NetCDF>), get moon phase and time for sun rise and fall, tide level, analyse and reconstruct periodic time series of temperature with irregular sinusoidal pattern, show scales and wind rose in plot with change of color of text, Metropolis-Hastings algorithm for Bayesian MCMC analysis, plot graphs or boxplot with error bars, search files in disk by there names or their content, read the contents of all files from a folder at one time.
Author: Marc Girondot [aut, cre]
Maintainer: Marc Girondot <marc.girondot@gmail.com>
Diff between HelpersMG versions 6.4 dated 2025-01-28 and 6.4.5 dated 2025-03-28
DESCRIPTION | 8 +++--- MD5 | 26 +++++++++++----------- NEWS | 8 +++++- R/HelpersMG-package.R | 4 +-- R/MHalgoGen.R | 54 ++++++++++++++++++++++++++++++++++++++--------- R/as.parameters.R | 50 ++++++++++++++++++++++++++++++------------- R/cutter.R | 21 +++++++++++------- R/dcutter.R | 18 +++++++++------ R/sysdata.rda |binary inst/shiny/cutter/ui.R | 2 - man/HelpersMG-package.Rd | 4 +-- man/MHalgoGen.Rd | 12 +++++++--- man/as.parameters.Rd | 20 ++++++++++++----- man/cutter.Rd | 6 +++++ 14 files changed, 160 insertions(+), 73 deletions(-)
Title: Geometrically Designed Spline Regression
Description: Spline Regression, Generalized Additive Models, and Component-wise Gradient
Boosting, utilizing Geometrically Designed (GeD) Splines. GeDS regression is a
non-parametric method inspired by geometric principles, for fitting spline regression
models with variable knots in one or two independent variables. It efficiently estimates
the number of knots and their positions, as well as the spline order, assuming the
response variable follows a distribution from the exponential family. GeDS models
integrate the broader category of Generalized (Non-)Linear Models, offering a flexible
approach to modeling complex relationships. A description of the method can be found in
Kaishev et al. (2016) <doi:10.1007/s00180-015-0621-7> and Dimitrova et al. (2023)
<doi:10.1016/j.amc.2022.127493>. Further extending its capabilities, GeDS's implementation
includes Generalized Additive Models (GAM) and Functional Gradient Boosting (FGB),
enabling versatile multivariate predictor modeling, as discuss [...truncated...]
Author: Dimitrina S. Dimitrova [aut],
Vladimir K. Kaishev [aut],
Andrea Lattuada [aut],
Emilio L. Saenz Guillen [aut, cre],
Richard J. Verrall [aut]
Maintainer: Emilio L. Saenz Guillen <Emilio.Saenz-Guillen@citystgeorges.ac.uk>
Diff between GeDS versions 0.2.8 dated 2025-03-14 and 0.2.9 dated 2025-03-28
GeDS-0.2.8/GeDS/man/PPolyInv.Rd |only GeDS-0.2.9/GeDS/DESCRIPTION | 20 GeDS-0.2.9/GeDS/MD5 | 45 - GeDS-0.2.9/GeDS/NAMESPACE | 1 GeDS-0.2.9/GeDS/R/BivariateFitter.R | 104 +--- GeDS-0.2.9/GeDS/R/GGeDS.R | 2 GeDS-0.2.9/GeDS/R/GeDS-package.R | 12 GeDS-0.2.9/GeDS/R/GeDSClass.R | 4 GeDS-0.2.9/GeDS/R/NGeDSboost.R | 32 + GeDS-0.2.9/GeDS/R/NGeDSgam.R | 12 GeDS-0.2.9/GeDS/R/S3methods.R | 8 GeDS-0.2.9/GeDS/R/S3methods_GeDSboost-GeDSgam.R | 233 ++++----- GeDS-0.2.9/GeDS/R/SplineReg_Multivar.R | 33 - GeDS-0.2.9/GeDS/R/UnivariateFitter.R | 23 GeDS-0.2.9/GeDS/R/cpp_functions_R.R | 3 GeDS-0.2.9/GeDS/R/helpers_NGeDSboost-NGeDSgam.R | 54 +- GeDS-0.2.9/GeDS/R/plot_GeDSMethod.R | 568 ----------------------- GeDS-0.2.9/GeDS/R/pprep.R | 288 ----------- GeDS-0.2.9/GeDS/man/GGeDS.Rd | 2 GeDS-0.2.9/GeDS/man/GeDS-class.Rd | 5 GeDS-0.2.9/GeDS/man/GeDS-package.Rd | 12 GeDS-0.2.9/GeDS/man/NGeDSboost.Rd | 8 GeDS-0.2.9/GeDS/man/predict.GeDSboost_GeDSgam.Rd | 24 GeDS-0.2.9/GeDS/src/GeDS1.cpp | 7 24 files changed, 365 insertions(+), 1135 deletions(-)
Title: Tools for Descriptive Statistics
Description: A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in ab [...truncated...]
Author: Andri Signorell [aut, cre] ,
Ken Aho [ctb],
Andreas Alfons [ctb],
Nanina Anderegg [ctb],
Tomas Aragon [ctb],
Chandima Arachchige [ctb],
Antti Arppe [ctb],
Adrian Baddeley [ctb],
Kamil Barton [ctb],
Ben Bolker [ctb],
Hans W. Borchers [ctb],
Frederico [...truncated...]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between DescTools versions 0.99.59 dated 2025-01-26 and 0.99.60 dated 2025-03-28
DESCRIPTION | 10 MD5 | 50 ++- NAMESPACE | 11 NEWS | 26 + R/CorCI.R |only R/DateFunctions.R |only R/Desc.R | 245 ++++++++-------- R/DescTools.r | 760 ++++++--------------------------------------------- R/Downloads.R |only R/FisherZ.R |only R/NumStats.R |only R/RcppExports.R | 32 ++ R/StatsAndCIs.r | 52 --- R/moments.R |only build/vignette.rds |binary man/CorCI.Rd |only man/DateFunctions.Rd | 4 man/Downloads.Rd |only man/FisherZ.Rd | 124 +++----- man/Format.Rd | 3 man/Outlier.Rd | 2 man/mbeta.Rd |only man/mbinom.Rd |only man/mchisq.Rd |only man/mexp.Rd |only man/mf.Rd |only man/mgamma.Rd |only man/mgeom.Rd |only man/mhyper.Rd |only man/mlnorm.Rd |only man/mnbinom.Rd |only man/mnorm.Rd |only man/mpois.Rd |only man/mt.Rd |only src/RcppExports.cpp | 88 +++++ src/dates.cpp |only src/init.c | 18 + 37 files changed, 505 insertions(+), 920 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-03-26 0.9.6
2022-02-09 0.9.4
2022-02-07 0.9.2
Title: Trend of High-Dimensional Time Series Matrix Estimation
Description: Matrix factorization for multivariate time series with both low rank and temporal structures.
The procedure is the one proposed by Alquier, P. and Marie, N.
"Matrix factorization for multivariate time series analysis."
Electronic Journal of Statistics, 13(2), 4346-4366 (2019).
Author: Emilie Lebarbier [aut, cre],
Nicolas Marie [aut],
Amelie Rosier [aut]
Maintainer: Emilie Lebarbier <emilie.lebarbier@parisnanterre.fr>
Diff between TrendTM versions 2.0.19 dated 2023-11-16 and 2.0.21 dated 2025-03-28
DESCRIPTION | 26 ++++++++++++++++++-------- MD5 | 8 ++++---- R/FM_kt.R | 56 +++++++++++++++++++++++++++----------------------------- R/OurSlope.R | 9 ++------- R/TrendTM.R | 5 +++-- 5 files changed, 54 insertions(+), 50 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 3.2.0 dated 2025-02-14 and 3.3.0 dated 2025-03-28
spant-3.2.0/spant/R/data.R |only spant-3.2.0/spant/data |only spant-3.2.0/spant/man/spant_mpress_drift.Rd |only spant-3.3.0/spant/DESCRIPTION | 11 spant-3.3.0/spant/MD5 | 82 +-- spant-3.3.0/spant/NAMESPACE | 3 spant-3.3.0/spant/NEWS.md | 6 spant-3.3.0/spant/R/abfit.R | 16 spant-3.3.0/spant/R/amp_scaling.R | 51 +- spant-3.3.0/spant/R/basis_set.R | 16 spant-3.3.0/spant/R/cli_utils.R | 20 spant-3.3.0/spant/R/fit_svs.R | 260 ++++++++++-- spant-3.3.0/spant/R/fit_svs_edited.R |only spant-3.3.0/spant/R/image_reg.R | 13 spant-3.3.0/spant/R/mrs_data_proc.R | 2 spant-3.3.0/spant/R/mrs_read_twix.R | 5 spant-3.3.0/spant/R/utils.R | 30 + spant-3.3.0/spant/inst/cli_scripts/spant_fit_svs | 110 +++-- spant-3.3.0/spant/inst/doc/abfit-baseline-opts.R | 4 spant-3.3.0/spant/inst/doc/abfit-baseline-opts.Rmd | 4 spant-3.3.0/spant/inst/doc/abfit-baseline-opts.html | 12 spant-3.3.0/spant/inst/doc/spant-basis-simulation.R | 4 spant-3.3.0/spant/inst/doc/spant-basis-simulation.Rmd | 4 spant-3.3.0/spant/inst/doc/spant-basis-simulation.html | 8 spant-3.3.0/spant/inst/doc/spant-intro.R | 4 spant-3.3.0/spant/inst/doc/spant-intro.Rmd | 4 spant-3.3.0/spant/inst/doc/spant-intro.html | 142 +++--- spant-3.3.0/spant/inst/doc/spant-metabolite-simulation.R | 4 spant-3.3.0/spant/inst/doc/spant-metabolite-simulation.Rmd | 4 spant-3.3.0/spant/inst/doc/spant-metabolite-simulation.html | 10 spant-3.3.0/spant/inst/doc/spant-preprocessing.R | 4 spant-3.3.0/spant/inst/doc/spant-preprocessing.Rmd | 4 spant-3.3.0/spant/inst/doc/spant-preprocessing.html | 14 spant-3.3.0/spant/inst/rmd/dyn_svs_report.Rmd | 99 +++- spant-3.3.0/spant/inst/rmd/svs_edited_report.Rmd |only spant-3.3.0/spant/inst/rmd/svs_report.Rmd | 57 ++ spant-3.3.0/spant/man/fit_svs.Rd | 26 + spant-3.3.0/spant/man/fit_svs_edited.Rd |only spant-3.3.0/spant/man/fit_svs_group_results.Rd |only spant-3.3.0/spant/man/install_cli.Rd | 3 spant-3.3.0/spant/man/segment_t1_fsl.Rd |only spant-3.3.0/spant/vignettes/abfit-baseline-opts.Rmd | 4 spant-3.3.0/spant/vignettes/spant-basis-simulation.Rmd | 4 spant-3.3.0/spant/vignettes/spant-intro.Rmd | 4 spant-3.3.0/spant/vignettes/spant-metabolite-simulation.Rmd | 4 spant-3.3.0/spant/vignettes/spant-preprocessing.Rmd | 4 46 files changed, 741 insertions(+), 315 deletions(-)
Title: Conditional Permutation Importance
Description: An add-on to the 'party' package, with a faster implementation
of the partial-conditional permutation importance for random forests. The
standard permutation importance is implemented exactly the same as in
the 'party' package. The conditional permutation importance can be
computed faster, with an option to be backward compatible to the 'party'
implementation. The package is compatible with random forests fit using the
'party' and the 'randomForest' package. The methods are described in
Strobl et al. (2007) <doi:10.1186/1471-2105-8-25> and
Debeer and Strobl (2020) <doi:10.1186/s12859-020-03622-2>.
Author: Dries Debeer [aut, cre],
Torsten Hothorn [aut],
Carolin Strobl [aut]
Maintainer: Dries Debeer <debeer.dries@gmail.com>
Diff between permimp versions 1.0-2 dated 2021-09-13 and 1.1-0 dated 2025-03-28
permimp-1.0-2/permimp/tests/testthat/Rplots.pdf |only permimp-1.1-0/permimp/DESCRIPTION | 11 permimp-1.1-0/permimp/MD5 | 68 permimp-1.1-0/permimp/NAMESPACE | 66 permimp-1.1-0/permimp/NEWS.md | 6 permimp-1.1-0/permimp/R/Utils.R | 800 +++---- permimp-1.1-0/permimp/R/VarImp-methods.r | 506 ++-- permimp-1.1-0/permimp/R/VarImp.R | 94 permimp-1.1-0/permimp/R/doPermimp.R | 324 +- permimp-1.1-0/permimp/R/permimp.R | 44 permimp-1.1-0/permimp/R/permimp.cforest.R | 15 permimp-1.1-0/permimp/R/permimp.randomForest.R | 11 permimp-1.1-0/permimp/R/ranks.R | 28 permimp-1.1-0/permimp/R/selFreq.R | 60 permimp-1.1-0/permimp/R/utilsMethods.R | 330 +-- permimp-1.1-0/permimp/R/utilsParty.R | 92 permimp-1.1-0/permimp/R/zzz.R |only permimp-1.1-0/permimp/build/partial.rdb |binary permimp-1.1-0/permimp/build/vignette.rds |binary permimp-1.1-0/permimp/inst/WORDLIST | 48 permimp-1.1-0/permimp/inst/doc/permimp-package.R | 21 permimp-1.1-0/permimp/inst/doc/permimp-package.Rmd | 37 permimp-1.1-0/permimp/inst/doc/permimp-package.html | 1087 +++++++--- permimp-1.1-0/permimp/man/VarImp-methods.Rd | 162 - permimp-1.1-0/permimp/man/VarImp.Rd | 140 - permimp-1.1-0/permimp/man/permimp-package.Rd | 48 permimp-1.1-0/permimp/man/permimp.Rd | 80 permimp-1.1-0/permimp/man/ranks.Rd | 72 permimp-1.1-0/permimp/man/selFreq.Rd | 4 permimp-1.1-0/permimp/tests/testthat.R | 6 permimp-1.1-0/permimp/tests/testthat/test_GetUniqueParts.R | 48 permimp-1.1-0/permimp/tests/testthat/test_fast_implementations.R | 76 permimp-1.1-0/permimp/tests/testthat/test_permimp.R | 12 permimp-1.1-0/permimp/tests/testthat/test_utils.R | 134 - permimp-1.1-0/permimp/vignettes/permimp-package.Rmd | 37 permimp-1.1-0/permimp/vignettes/vignetteBib.bib | 796 +++---- 36 files changed, 2956 insertions(+), 2307 deletions(-)
Title: The Normal Laplace Distribution
Description: Functions for the normal Laplace distribution. Currently, it
provides limited functionality. Density, distribution and quantile
functions, random number generation, and moments are provided.
Author: David Scott [aut, cre],
Jason Shicong Fu [aut],
Simon Potter [aut]
Maintainer: David Scott <d.scott@auckland.ac.nz>
Diff between NormalLaplace versions 0.3-1 dated 2023-11-25 and 0.3-2 dated 2025-03-28
ChangeLog | 4 ++++ DESCRIPTION | 23 +++++++++++++++++------ MD5 | 8 ++++---- R/dnl.R | 2 +- man/nlFit.Rd | 3 ++- 5 files changed, 28 insertions(+), 12 deletions(-)
Title: Make 'ggplot2' Graphics Interactive
Description: Create interactive 'ggplot2' graphics using 'htmlwidgets'.
Author: David Gohel [aut, cre],
Panagiotis Skintzos [aut],
Mike Bostock [cph] ,
Speros Kokenes [cph] ,
Eric Shull [cph] ,
Lee Thomason [cph] ,
Vladimir Agafonkin [cph] ,
Eric Book [ctb]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between ggiraph versions 0.8.12 dated 2025-01-08 and 0.8.13 dated 2025-03-28
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 15 ++++++++++++++- build/vignette.rds |binary src/Makevars.ucrt | 10 ++++++++-- 5 files changed, 29 insertions(+), 10 deletions(-)
Title: Plots of the Empirical Attainment Function
Description: Computation and visualization of the empirical attainment function (EAF) for the analysis of random sets in multi-criterion optimization. M. López-Ibáñez, L. Paquete, and T. Stützle (2010) <doi:10.1007/978-3-642-02538-9_9>.
Author: Manuel Lopez-Ibanez [aut, cre]
,
Marco Chiarandini [aut],
Carlos Fonseca [aut],
Luis Paquete [aut],
Thomas Stuetzle [aut],
Mickael Binois [ctb]
Maintainer: Manuel Lopez-Ibanez <manuel.lopez-ibanez@manchester.ac.uk>
Diff between eaf versions 2.5.1 dated 2024-08-19 and 2.5.2 dated 2025-03-28
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ README.md | 4 ++++ build/partial.rdb |binary src/Makevars.ucrt | 29 +++++++++++++++++++++++++++-- 6 files changed, 43 insertions(+), 10 deletions(-)
Title: Spatially Balanced Sampling Algorithms
Description: Encapsulates a number of spatially balanced sampling algorithms,
namely, Balanced Acceptance Sampling (equal, unequal, seed point, panels), Halton frames
(for discretizing a continuous resource), Halton Iterative Partitioning (equal probability)
and Simple Random Sampling.
Robertson, B. L., Brown, J. A., McDonald, T. and Jaksons, P. (2013) <doi:10.1111/biom.12059>.
Robertson, B. L., McDonald, T., Price, C. J. and Brown, J. A. (2017) <doi:10.1016/j.spl.2017.05.004>.
Robertson, B. L., McDonald, T., Price, C. J. and Brown, J. A. (2018) <doi:10.1007/s10651-018-0406-6>.
Robertson, B. L., van Dam-Bates, P. and Gansell, O. (2021a) <doi:10.1007/s10651-020-00481-1>.
Robertson, B. L., Davies, P., Gansell, O., van Dam-Bates, P., McDonald, T. (2025) <doi:10.1111/anzs.12435>.
Author: Phil Davies [aut, cre],
Blair Robertson [aut],
Paul van Dam-Bates [aut],
Oliver Gansell [aut]
Maintainer: Phil Davies <philip.davies@canterbury.ac.nz>
Diff between spbal versions 1.0.0 dated 2024-05-17 and 1.0.1 dated 2025-03-28
DESCRIPTION | 9 MD5 | 26 NEWS.md | 4 R/BAS.R | 83 - R/HaltonFrames.R | 4 R/findFirstStudyRegionPoint.R | 117 + build/vignette.rds |binary inst/doc/spbal.R | 2 inst/doc/spbal.Rmd | 4 inst/doc/spbal.html | 1550 ++++++++++++------------ man/findBASSeed.Rd |only man/findRandomHaltonIndex.Rd |only tests/testthat/test-spbal-BAS-1.R | 16 tests/testthat/test-spbal-Utility-Functions-1.R | 21 vignettes/spbal.Rmd | 4 15 files changed, 998 insertions(+), 842 deletions(-)
Title: Geographic Data Analysis and Modeling
Description: Reading, writing, manipulating, analyzing and modeling of spatial data. This package has been superseded by the "terra" package <https://CRAN.R-project.org/package=terra>.
Author: Robert J. Hijmans [cre, aut] ,
Jacob van Etten [ctb],
Michael Sumner [ctb],
Joe Cheng [ctb],
Dan Baston [ctb],
Andrew Bevan [ctb],
Roger Bivand [ctb],
Lorenzo Busetto [ctb],
Mort Canty [ctb],
Ben Fasoli [ctb],
David Forrest [ctb],
Aniruddha Ghosh [ct [...truncated...]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between raster versions 3.6-31 dated 2025-01-16 and 3.6-32 dated 2025-03-28
DESCRIPTION | 8 ++--- MD5 | 39 ++++++++++++++------------- R/coerce.R | 18 +++++++++--- build/partial.rdb |binary src/Makevars.ucrt |only src/aggregate.cpp | 13 ++++----- src/broom.cpp | 6 ++-- src/clamp.cpp | 1 src/distance.cpp | 36 ++++++++++++------------- src/focal_get.cpp | 1 src/focal_sum.cpp | 13 ++++----- src/geodesic.c | 66 +++++++++++++++++++++++------------------------ src/memory.cpp | 3 +- src/modal.cpp | 26 +++++++++--------- src/ppmin.cpp | 21 +++++++------- src/raster_aggregate.cpp | 11 ++++--- src/raster_distance.cpp | 8 ++--- src/rasterize.cpp | 15 +++++----- src/spat.h | 6 ++-- src/terrain.cpp | 17 ++++++------ src/xyCell.cpp | 12 ++++---- 21 files changed, 169 insertions(+), 151 deletions(-)
Title: Assess Study Cohorts Using a Common Data Model
Description: Phenotype study cohorts in data mapped to the
Observational Medical Outcomes Partnership Common Data Model. Diagnostics
are run at the database, code list, cohort, and population level to assess
whether study cohorts are ready for research.
Author: Edward Burn [aut, cre] ,
Marti Catala [aut] ,
Xihang Chen [aut] ,
Marta Alcalde-Herraiz [aut] ,
Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between PhenotypeR versions 0.1.3 dated 2025-02-16 and 0.1.4 dated 2025-03-28
DESCRIPTION | 14 MD5 | 40 R/codelistDiagnostics.R | 116 R/cohortDiagnostics.R | 60 R/matchedDiagnostics.R | 58 R/phenotypeDiagnostics.R | 8 R/populationDiagnostics.R | 3 inst/doc/a01_DatabaseDiagnostics.html | 226 - inst/doc/a02_CodelistDiagnostics.R | 6 inst/doc/a02_CodelistDiagnostics.Rmd | 11 inst/doc/a02_CodelistDiagnostics.html | 245 + inst/doc/a03_CohortDiagnostics.html | 3438 +++++++++++++++++++++++++--- inst/doc/a04_MatchedDiagnostics.html | 2 inst/doc/a05_PopulationDiagnostics.html | 222 - inst/shiny/server.R | 33 inst/shiny/ui.R | 45 tests/testthat/test-codelistDiagnostics.R | 72 tests/testthat/test-matchedDiagnostics.R | 27 tests/testthat/test-phenotypeDiagnostics.R | 5 tests/testthat/test-populationDiagnostics.R | 7 vignettes/a02_CodelistDiagnostics.Rmd | 11 21 files changed, 3822 insertions(+), 827 deletions(-)
Title: Microbial Community Ecology Data Analysis
Description: A series of statistical and plotting approaches in microbial community ecology based on the R6 class. The classes are designed for data preprocessing, taxa abundance plotting, alpha diversity analysis, beta diversity analysis, differential abundance test, null model analysis, network analysis, machine learning, environmental data analysis and functional analysis.
Author: Chi Liu [aut, cre],
Felipe R. P. Mansoldo [ctb],
Minjie Yao [ctb],
Xiangzhen Li [ctb]
Maintainer: Chi Liu <liuchi0426@126.com>
Diff between microeco versions 1.13.0 dated 2025-02-08 and 1.14.0 dated 2025-03-28
DESCRIPTION | 6 - MD5 | 30 ++++---- R/microtable.R | 140 +++++++++++++++++++++++++---------------- R/trans_alpha.R | 8 +- R/trans_beta.R | 164 +++++++++++++++++++++++++++++++++++-------------- R/trans_diff.R | 21 ++++-- R/trans_env.R | 38 ++++++++--- R/trans_norm.R | 2 R/trans_nullmodel.R | 4 - R/utility.R | 13 +++ data/dataset.RData |binary man/microtable.Rd | 23 ++++-- man/trans_beta.Rd | 36 ++++++++-- man/trans_diff.Rd | 9 +- man/trans_env.Rd | 10 ++ man/trans_nullmodel.Rd | 4 - 16 files changed, 345 insertions(+), 163 deletions(-)
Title: Spatial Network Analysis
Description: Interface package for 'sala', the spatial network analysis library
from the 'depthmapX' software application. The R parts of the code are based
on the 'rdepthmap' package. Allows for the analysis of urban and
building-scale networks and provides metrics and methods usually found
within the Space Syntax domain. Methods in this package are described by K.
Al-Sayed, A. Turner, B. Hillier, S. Iida and A. Penn (2014) "Space Syntax
methodology", and also by A. Turner (2004)
<https://discovery.ucl.ac.uk/id/eprint/2651> "Depthmap 4: a researcher's
handbook".
Author: Petros Koutsolampros [cre, aut]
,
Fani Kostourou [ctb] ,
Kimon Krenz [ctb] ,
Alasdair Turner [ctb] ,
Tasos Varoudis [ctb] ,
Christian Sailer [ctb] ,
Eva Friedrich [ctb] ,
University College London [fnd, cph] ,
Spacelab UK [fnd]
Maintainer: Petros Koutsolampros <r-devel@pklampros.net>
Diff between alcyon versions 0.7.0 dated 2025-01-21 and 0.8.0 dated 2025-03-28
alcyon-0.7.0/alcyon/src/communicator.h |only alcyon-0.7.0/alcyon/src/enum_AgentLookMode.h |only alcyon-0.7.0/alcyon/src/enum_TraversalType.h |only alcyon-0.7.0/alcyon/src/enum_VGALocalAlgorithm.h |only alcyon-0.7.0/alcyon/src/helper_attr.h |only alcyon-0.7.0/alcyon/src/helper_enum.h |only alcyon-0.7.0/alcyon/src/helper_nullablevalue.h |only alcyon-0.7.0/alcyon/src/helper_rcppanalysisresults.h |only alcyon-0.7.0/alcyon/src/helper_runAnalysis.h |only alcyon-0.7.0/alcyon/src/libs/salalib/agents/agent.h |only alcyon-0.7.0/alcyon/src/libs/salalib/agents/agentanalysis.h |only alcyon-0.7.0/alcyon/src/libs/salalib/agents/agentga.h |only alcyon-0.7.0/alcyon/src/libs/salalib/agents/agentprogram.h |only alcyon-0.7.0/alcyon/src/libs/salalib/alllinemap.h |only alcyon-0.7.0/alcyon/src/libs/salalib/analysisresult.h |only alcyon-0.7.0/alcyon/src/libs/salalib/analysistype.h |only alcyon-0.7.0/alcyon/src/libs/salalib/attributemap.h |only alcyon-0.7.0/alcyon/src/libs/salalib/attributetable.h |only 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alcyon-0.8.0/alcyon/src/libs/salalib/parsers/tigerp.cpp | 13 alcyon-0.8.0/alcyon/src/libs/salalib/parsers/tigerp.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/pixelref.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/point.cpp | 4 alcyon-0.8.0/alcyon/src/libs/salalib/point.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/pointmap.cpp | 147 - alcyon-0.8.0/alcyon/src/libs/salalib/pointmap.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/pushvalues.cpp | 123 - alcyon-0.8.0/alcyon/src/libs/salalib/pushvalues.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/radiustype.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/salaedgeu.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/salaevent.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/salaprogram.cpp | 440 ++-- alcyon-0.8.0/alcyon/src/libs/salalib/salaprogram.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/salashape.cpp | 12 alcyon-0.8.0/alcyon/src/libs/salalib/salashape.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/CMakeLists.txt | 23 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmangular.cpp | 57 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmangular.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmhelpers.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmmetric.cpp | 59 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmmetric.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmmetricpd.cpp | 39 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmmetricpd.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmmetricshortestpath.cpp | 63 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmmetricshortestpath.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtopological.cpp | 62 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtopological.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtopologicalpd.cpp | 38 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtopologicalpd.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtopologicalshortestpath.cpp | 66 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtopologicalshortestpath.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtulip.cpp | 208 +- alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtulip.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtulipdepth.cpp | 49 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtulipdepth.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtulipshortestpath.cpp | 87 alcyon-0.8.0/alcyon/src/libs/salalib/segmmodules/segmtulipshortestpath.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/shapegraph.cpp | 248 +- alcyon-0.8.0/alcyon/src/libs/salalib/shapegraph.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/shapemap.cpp | 896 +++++----- alcyon-0.8.0/alcyon/src/libs/salalib/shapemap.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/shapemapgroupdata.cpp | 6 alcyon-0.8.0/alcyon/src/libs/salalib/shapemapgroupdata.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/shaperef.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/spacepix.cpp | 305 +-- alcyon-0.8.0/alcyon/src/libs/salalib/spacepix.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/sparksieve2.cpp | 21 alcyon-0.8.0/alcyon/src/libs/salalib/sparksieve2.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/tidylines.cpp | 92 - alcyon-0.8.0/alcyon/src/libs/salalib/tidylines.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/tolerances.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/CMakeLists.txt | 52 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/extractlinkdata.cpp | 27 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/extractlinkdata.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/ivga.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/ivgaangular.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/ivgametric.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/ivgatraversing.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/ivgavisual.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangular.cpp | 18 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangular.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangulardepth.cpp | 2 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangulardepth.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangularopenmp.cpp | 45 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangularopenmp.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangularshortestpath.cpp | 18 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaangularshortestpath.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaisovist.cpp | 18 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaisovist.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaisovistzone.cpp | 31 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgaisovistzone.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametric.cpp | 32 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametric.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricdepth.cpp | 4 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricdepth.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricdepthlinkcost.cpp | 10 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricdepthlinkcost.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricopenmp.cpp | 49 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricopenmp.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricshortestpath.cpp | 24 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricshortestpath.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricshortestpathtomany.cpp | 14 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgametricshortestpathtomany.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgathroughvision.cpp | 13 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgathroughvision.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualglobal.cpp | 53 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualglobal.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualglobaldepth.cpp | 2 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualglobaldepth.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualglobalopenmp.cpp | 84 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualglobalopenmp.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisuallocal.cpp | 23 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisuallocal.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisuallocaladjmatrix.cpp | 76 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisuallocaladjmatrix.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisuallocalopenmp.cpp | 69 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisuallocalopenmp.hpp |only alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualshortestpath.cpp | 18 alcyon-0.8.0/alcyon/src/libs/salalib/vgamodules/vgavisualshortestpath.hpp |only alcyon-0.8.0/alcyon/src/process_convertExternal.cpp | 14 alcyon-0.8.0/alcyon/src/process_convertInternal.cpp | 18 alcyon-0.8.0/alcyon/src/process_isovist.cpp | 16 alcyon-0.8.0/alcyon/src/process_link.cpp | 13 alcyon-0.8.0/alcyon/src/rcpp_AllLineMap.cpp | 4 alcyon-0.8.0/alcyon/src/rcpp_PointMap.cpp | 32 alcyon-0.8.0/alcyon/src/rcpp_PointMap.hpp |only alcyon-0.8.0/alcyon/src/rcpp_ShapeGraph.cpp | 6 alcyon-0.8.0/alcyon/src/rcpp_ShapeMap.cpp | 18 alcyon-0.8.0/alcyon/src/rcpp_ShapeMap.hpp |only alcyon-0.8.0/alcyon/src/rcpp_metagraphdata.cpp | 12 390 files changed, 4005 insertions(+), 3644 deletions(-)
Title: R Interface to the 'PostgreSQL' Database System
Description: Database interface and 'PostgreSQL' driver for 'R'.
This package provides a Database Interface 'DBI' compliant
driver for 'R' to access 'PostgreSQL' database systems.
In order to build and install this package from source, 'PostgreSQL'
itself must be present your system to provide 'PostgreSQL' functionality
via its libraries and header files. These files are provided as
'postgresql-devel' package under some Linux distributions.
On 'macOS' and 'Microsoft Windows' system the attached 'libpq' library source will be used.
Author: Joe Conway [aut],
Dirk Eddelbuettel [aut],
Tomoaki Nishiyama [aut, cre],
Sameer Kumar Prayaga [aut] ,
Neil Tiffin [aut]
Maintainer: Tomoaki Nishiyama <tomoaki@sci.u-toyama.ac.jp>
Diff between RPostgreSQL versions 0.7-7 dated 2024-09-30 and 0.7-8 dated 2025-03-28
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ src/Makevars.win | 17 +++++++---------- src/libpq/Makefile.darwin | 2 +- src/libpq/Makefile.win | 2 +- src/libpq/bcc32.mak | 2 -- src/libpq/blibpqdll.def | 6 ------ src/libpq/exports.txt | 3 --- src/libpq/libpq-fe.h | 39 --------------------------------------- src/libpq/libpqddll.def | 3 --- src/libpq/libpqdll.def | 3 --- src/libpq/win32.mak | 2 -- 13 files changed, 29 insertions(+), 86 deletions(-)
Title: Kriging Modeling
Description: An 'Eigen'-based computationally efficient 'C++' implementation for fitting various kriging models to data. This research is supported by U.S. National Science Foundation grant DMS-2310637.
Author: Chaofan Huang [aut, cre],
V. Roshan Joseph [aut]
Maintainer: Chaofan Huang <10billhuang01@gmail.com>
Diff between rkriging versions 1.0.1 dated 2024-07-19 and 1.0.2 dated 2025-03-28
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/kernel.R | 4 ++-- man/MultiplicativeUDF.Kernel.Rd | 2 +- man/UDF.Kernel.Rd | 2 +- src/utils.cpp | 1 - 6 files changed, 12 insertions(+), 13 deletions(-)
Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including
functions modelled on base graphics (plot3d(), etc.) as well as functions for
constructing representations of geometric objects (cube3d(), etc.). Output
may be on screen using OpenGL, or to various standard 3D file formats including
WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Duncan Murdoch [aut, cre],
Daniel Adler [aut],
Oleg Nenadic [ctb],
Simon Urbanek [ctb],
Ming Chen [ctb],
Albrecht Gebhardt [ctb],
Ben Bolker [ctb],
Gabor Csardi [ctb],
Adam Strzelecki [ctb],
Alexander Senger [ctb],
The R Core Team [ctb, cph],
Dirk Ed [...truncated...]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between rgl versions 1.3.17 dated 2025-01-17 and 1.3.18 dated 2025-03-28
DESCRIPTION | 6 MD5 | 96 NAMESPACE | 1 NEWS.md | 8 R/device.R | 3 R/mesh3d.R | 3 R/r3d.rgl.R | 5 build/vignette.rds |binary inst/doc/WebGL.Rmd | 2 inst/doc/WebGL.html | 9321 ----------------------------------------- inst/doc/demos.html | 9154 ---------------------------------------- inst/doc/deprecation.html | 241 - inst/doc/pkgdown.Rmd | 4 inst/doc/pkgdown.html | 9076 --------------------------------------- inst/doc/rgl.Rmd | 6 inst/doc/rgl.html | 9265 ---------------------------------------- inst/doc/transparency.Rmd | 4 inst/doc/transparency.html | 9104 ---------------------------------------- src/BBoxDeco.cpp | 16 src/Background.cpp | 2 src/Device.h | 2 src/DeviceManager.h | 2 src/NULLgui.cpp | 4 src/NULLgui.h | 2 src/R.h | 1 src/SpriteSet.cpp | 32 src/TextSet.cpp | 4 src/TextSet.h | 2 src/api.cpp | 7 src/api.h | 2 src/callbacks.cpp | 2 src/device.cpp | 4 src/devicemanager.cpp | 8 src/earcut.cpp | 2 src/ext/ftgl/config.h | 5 src/ext/glad/include/glad/gl.h | 4 src/gl.c | 93 src/gl2ps.c | 6 src/gui.cpp | 4 src/gui.h | 6 src/init.cpp | 7 src/win32gui.cpp | 28 src/win32gui.h | 2 src/x11gui.cpp | 15 src/x11gui.h | 2 vignettes/WebGL.Rmd | 2 vignettes/pkgdown.Rmd | 4 vignettes/rgl.Rmd | 6 vignettes/transparency.Rmd | 4 49 files changed, 929 insertions(+), 45650 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
Doug Bates [aut] ,
Binxiang Ni [aut],
Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 14.4.0-1 dated 2025-03-18 and 14.4.1-1 dated 2025-03-28
ChangeLog | 11 + DESCRIPTION | 8 MD5 | 78 ++++----- configure | 18 +- configure.ac | 2 inst/NEWS.Rd | 14 + inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo_bits/Cube_meat.hpp | 2 inst/include/armadillo_bits/GenCube_meat.hpp | 2 inst/include/armadillo_bits/Gen_meat.hpp | 2 inst/include/armadillo_bits/MapMat_meat.hpp | 2 inst/include/armadillo_bits/Mat_meat.hpp | 26 ++- inst/include/armadillo_bits/SpMat_meat.hpp | 16 - inst/include/armadillo_bits/SpSubview_iterators_meat.hpp | 2 inst/include/armadillo_bits/arma_version.hpp | 2 inst/include/armadillo_bits/band_helper.hpp | 2 inst/include/armadillo_bits/diagview_meat.hpp | 2 inst/include/armadillo_bits/diskio_meat.hpp | 8 inst/include/armadillo_bits/eglue_core_meat.hpp | 4 inst/include/armadillo_bits/eop_aux.hpp | 2 inst/include/armadillo_bits/eop_core_meat.hpp | 4 inst/include/armadillo_bits/fft_engine_fftw3.hpp | 37 ++++ inst/include/armadillo_bits/field_meat.hpp | 12 - inst/include/armadillo_bits/fn_diags_spdiags.hpp | 4 inst/include/armadillo_bits/fn_interp1.hpp | 2 inst/include/armadillo_bits/fn_size.hpp | 10 - inst/include/armadillo_bits/gmm_diag_meat.hpp | 2 inst/include/armadillo_bits/gmm_full_meat.hpp | 2 inst/include/armadillo_bits/include_superlu.hpp | 2 inst/include/armadillo_bits/mul_gemm_mixed.hpp | 4 inst/include/armadillo_bits/op_dot_meat.hpp | 127 ++++++--------- inst/include/armadillo_bits/op_fft_meat.hpp | 4 inst/include/armadillo_bits/op_trimat_bones.hpp | 2 inst/include/armadillo_bits/sp_auxlib_bones.hpp | 2 inst/include/armadillo_bits/sp_auxlib_meat.hpp | 10 - inst/include/armadillo_bits/spdiagview_meat.hpp | 2 inst/include/armadillo_bits/subview_cube_meat.hpp | 2 inst/include/armadillo_bits/subview_meat.hpp | 2 inst/include/armadillo_bits/translate_superlu.hpp | 2 40 files changed, 243 insertions(+), 192 deletions(-)
Title: Quantile G-Computation
Description: G-computation for a set of time-fixed exposures with
quantile-based basis functions, possibly under linearity and
homogeneity assumptions. This approach estimates a regression line
corresponding to the expected change in the outcome (on the link
basis) given a simultaneous increase in the quantile-based category
for all exposures. Works with continuous, binary, and right-censored
time-to-event outcomes. Reference: Alexander P. Keil, Jessie P.
Buckley, Katie M. OBrien, Kelly K. Ferguson, Shanshan Zhao, and
Alexandra J. White (2019) A quantile-based g-computation approach to
addressing the effects of exposure mixtures; <doi:10.1289/EHP5838>.
Author: Alexander Keil [aut, cre]
Maintainer: Alexander Keil <alex.keil@nih.gov>
Diff between qgcomp versions 2.17.4 dated 2025-02-23 and 2.18.4 dated 2025-03-28
qgcomp-2.17.4/qgcomp/man/homogeneity_test.qgcompmultfit.Rd |only qgcomp-2.17.4/qgcomp/man/joint_test.qgcompmultfit.Rd |only qgcomp-2.17.4/qgcomp/man/summary.qgcompmultfit.Rd |only qgcomp-2.18.4/qgcomp/DESCRIPTION | 8 qgcomp-2.18.4/qgcomp/MD5 | 67 - qgcomp-2.18.4/qgcomp/NAMESPACE | 56 - qgcomp-2.18.4/qgcomp/NEWS.md | 14 qgcomp-2.18.4/qgcomp/R/base.R | 2 qgcomp-2.18.4/qgcomp/R/base_bounds.R | 475 +++++++----- qgcomp-2.18.4/qgcomp/R/base_esteq.R | 56 - qgcomp-2.18.4/qgcomp/R/base_experimental.R | 137 --- qgcomp-2.18.4/qgcomp/R/base_generics.R | 232 ++++- qgcomp-2.18.4/qgcomp/R/base_multinomial.R | 45 - qgcomp-2.18.4/qgcomp/R/base_plots.R | 441 +++++------ qgcomp-2.18.4/qgcomp/R/base_surv.R | 190 ++++ qgcomp-2.18.4/qgcomp/README.md | 2 qgcomp-2.18.4/qgcomp/build/vignette.rds |binary qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-advanced-vignette.R | 2 qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-advanced-vignette.Rmd | 20 qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-advanced-vignette.html | 50 - qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-basic-vignette.R | 53 - qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-basic-vignette.Rmd | 98 +- qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-basic-vignette.html | 113 +- qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-vignette.R | 9 qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-vignette.Rmd | 7 qgcomp-2.18.4/qgcomp/inst/doc/qgcomp-vignette.html | 6 qgcomp-2.18.4/qgcomp/man/homogeneity_test.Rd | 9 qgcomp-2.18.4/qgcomp/man/joint_test.Rd | 12 qgcomp-2.18.4/qgcomp/man/modelbound.ee.Rd |only qgcomp-2.18.4/qgcomp/man/plot.qgcompfit.Rd | 4 qgcomp-2.18.4/qgcomp/man/qgcomp.cch.noboot.Rd | 101 +- qgcomp-2.18.4/qgcomp/man/qgcomp.glm.ee.Rd | 5 qgcomp-2.18.4/qgcomp/man/qgcomp.glm.noboot.Rd | 1 qgcomp-2.18.4/qgcomp/man/summary.Rd |only qgcomp-2.18.4/qgcomp/vignettes/qgcomp-advanced-vignette.Rmd | 20 qgcomp-2.18.4/qgcomp/vignettes/qgcomp-basic-vignette.Rmd | 98 +- qgcomp-2.18.4/qgcomp/vignettes/qgcomp-vignette.Rmd | 7 37 files changed, 1351 insertions(+), 989 deletions(-)
Title: Convert Statistical Objects into Tidy Tibbles
Description: Summarizes key information about statistical
objects in tidy tibbles. This makes it easy to report results, create
plots and consistently work with large numbers of models at once.
Broom provides three verbs that each provide different types of
information about a model. tidy() summarizes information about model
components such as coefficients of a regression. glance() reports
information about an entire model, such as goodness of fit measures
like AIC and BIC. augment() adds information about individual
observations to a dataset, such as fitted values or influence
measures.
Author: David Robinson [aut],
Alex Hayes [aut] ,
Simon Couch [aut, cre] ,
Posit Software, PBC [cph, fnd],
Indrajeet Patil [ctb] ,
Derek Chiu [ctb],
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb],
Luke Johnston [ctb],
Be [...truncated...]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between broom versions 1.0.7 dated 2024-09-26 and 1.0.8 dated 2025-03-28
broom-1.0.7/broom/R/aer-tidiers.R |only broom-1.0.7/broom/R/auc-tidiers.R |only broom-1.0.7/broom/R/base-tidiers.R |only broom-1.0.7/broom/R/bbmle-tidiers.R |only broom-1.0.7/broom/R/betareg-tidiers.R |only broom-1.0.7/broom/R/biglm-tidiers.R |only broom-1.0.7/broom/R/bingroup-tidiers.R |only broom-1.0.7/broom/R/boot-tidiers.R |only broom-1.0.7/broom/R/btergm-tidiers.R |only broom-1.0.7/broom/R/car-tidiers.R |only broom-1.0.7/broom/R/caret-tidiers.R |only broom-1.0.7/broom/R/cluster-tidiers.R |only broom-1.0.7/broom/R/cmprsk-tidiers.R |only broom-1.0.7/broom/R/data-frame-tidiers.R |only broom-1.0.7/broom/R/drc-tidiers.R |only broom-1.0.7/broom/R/emmeans-tidiers.R |only broom-1.0.7/broom/R/epiR-tidiers.R |only broom-1.0.7/broom/R/ergm-tidiers.R |only broom-1.0.7/broom/R/fixest-tidiers.R |only broom-1.0.7/broom/R/gam-tidiers.R |only broom-1.0.7/broom/R/geepack-tidiers.R |only broom-1.0.7/broom/R/glmnet-cv-glmnet-tidiers.R |only broom-1.0.7/broom/R/glmnet-glmnet-tidiers.R |only broom-1.0.7/broom/R/gmm-tidiers.R |only broom-1.0.7/broom/R/hmisc-tidiers.R |only broom-1.0.7/broom/R/joinerml-tidiers.R |only broom-1.0.7/broom/R/kendall-tidiers.R |only broom-1.0.7/broom/R/ks-tidiers.R |only broom-1.0.7/broom/R/lavaan-tidiers.R |only broom-1.0.7/broom/R/leaps-tidiers.R |only broom-1.0.7/broom/R/lfe-tidiers.R |only broom-1.0.7/broom/R/list-optim-tidiers.R |only broom-1.0.7/broom/R/list-svd-tidiers.R |only broom-1.0.7/broom/R/list-tidiers.R |only broom-1.0.7/broom/R/list-xyz-tidiers.R |only broom-1.0.7/broom/R/lm-beta-tidiers.R |only broom-1.0.7/broom/R/lmodel2-tidiers.R |only broom-1.0.7/broom/R/lmtest-tidiers.R |only broom-1.0.7/broom/R/maps-tidiers.R |only broom-1.0.7/broom/R/margins-tidiers.R |only broom-1.0.7/broom/R/mass-fitdistr-tidiers.R |only broom-1.0.7/broom/R/mass-negbin-tidiers.R |only broom-1.0.7/broom/R/mass-polr-tidiers.R |only broom-1.0.7/broom/R/mass-ridgelm-tidiers.R |only broom-1.0.7/broom/R/mass-rlm-tidiers.R |only broom-1.0.7/broom/R/mclust-tidiers.R |only broom-1.0.7/broom/R/mediation-tidiers.R |only broom-1.0.7/broom/R/metafor-tidiers.R |only broom-1.0.7/broom/R/mfx-tidiers.R |only broom-1.0.7/broom/R/mgcv-tidiers.R |only broom-1.0.7/broom/R/mlogit-tidiers.R |only broom-1.0.7/broom/R/muhaz-tidiers.R |only broom-1.0.7/broom/R/multcomp-tidiers.R |only broom-1.0.7/broom/R/nnet-tidiers.R |only broom-1.0.7/broom/R/null-and-default-tidiers.R |only broom-1.0.7/broom/R/orcutt-tidiers.R |only broom-1.0.7/broom/R/ordinal-clm-tidiers.R |only broom-1.0.7/broom/R/ordinal-clmm-tidiers.R |only broom-1.0.7/broom/R/plm-tidiers.R |only broom-1.0.7/broom/R/polca-tidiers.R |only broom-1.0.7/broom/R/psych-tidiers.R |only broom-1.0.7/broom/R/quantreg-nlrq-tidiers.R |only broom-1.0.7/broom/R/quantreg-rq-tidiers.R |only broom-1.0.7/broom/R/quantreg-rqs-tidiers.R |only broom-1.0.7/broom/R/robust-glmrob-tidiers.R |only broom-1.0.7/broom/R/robust-lmrob-tidiers.R |only broom-1.0.7/broom/R/robustbase-glmrob-tidiers.R |only broom-1.0.7/broom/R/robustbase-lmrob-tidiers.R |only broom-1.0.7/broom/R/sp-tidiers.R |only broom-1.0.7/broom/R/spdep-tidiers.R |only broom-1.0.7/broom/R/speedglm-speedglm-tidiers.R |only broom-1.0.7/broom/R/speedglm-speedlm-tidiers.R |only broom-1.0.7/broom/R/stats-anova-tidiers.R |only broom-1.0.7/broom/R/stats-arima-tidiers.R |only broom-1.0.7/broom/R/stats-decompose-tidiers.R |only broom-1.0.7/broom/R/stats-factanal-tidiers.R |only broom-1.0.7/broom/R/stats-glm-tidiers.R |only broom-1.0.7/broom/R/stats-htest-tidiers.R |only broom-1.0.7/broom/R/stats-kmeans-tidiers.R |only broom-1.0.7/broom/R/stats-lm-tidiers.R |only broom-1.0.7/broom/R/stats-loess-tidiers.R |only broom-1.0.7/broom/R/stats-mlm-tidiers.R |only broom-1.0.7/broom/R/stats-nls-tidiers.R |only broom-1.0.7/broom/R/stats-prcomp-tidiers.R |only broom-1.0.7/broom/R/stats-smooth.spline-tidiers.R |only broom-1.0.7/broom/R/stats-summary-lm-tidiers.R |only broom-1.0.7/broom/R/stats-time-series-tidiers.R |only broom-1.0.7/broom/R/survey-tidiers.R |only broom-1.0.7/broom/R/survival-aareg-tidiers.R |only broom-1.0.7/broom/R/survival-cch-tidiers.R |only broom-1.0.7/broom/R/survival-coxph-tidiers.R |only broom-1.0.7/broom/R/survival-pyears-tidiers.R |only broom-1.0.7/broom/R/survival-survdiff-tidiers.R |only broom-1.0.7/broom/R/survival-survexp-tidiers.R |only broom-1.0.7/broom/R/survival-survfit-tidiers.R |only broom-1.0.7/broom/R/survival-survreg-tidiers.R |only broom-1.0.7/broom/R/systemfit-tidiers.R |only broom-1.0.7/broom/R/tseries-tidiers.R |only broom-1.0.7/broom/R/vars-tidiers.R |only broom-1.0.7/broom/R/zoo-tidiers.R |only broom-1.0.7/broom/man/glance.orcutt.Rd |only broom-1.0.7/broom/man/tidy.orcutt.Rd |only broom-1.0.7/broom/tests/testthat/test-orcutt.R |only broom-1.0.8/broom/DESCRIPTION | 93 - broom-1.0.8/broom/MD5 | 900 ++++++------ broom-1.0.8/broom/NAMESPACE | 4 broom-1.0.8/broom/NEWS.md | 24 broom-1.0.8/broom/R/aaa-documentation-helper.R | 20 broom-1.0.8/broom/R/aer.R |only broom-1.0.8/broom/R/auc.R |only broom-1.0.8/broom/R/base.R |only broom-1.0.8/broom/R/bbmle.R |only broom-1.0.8/broom/R/betareg.R |only broom-1.0.8/broom/R/biglm.R |only broom-1.0.8/broom/R/bingroup.R |only broom-1.0.8/broom/R/boot.R |only broom-1.0.8/broom/R/broom-package.R | 2 broom-1.0.8/broom/R/btergm.R |only broom-1.0.8/broom/R/car.R |only broom-1.0.8/broom/R/caret.R |only broom-1.0.8/broom/R/cluster.R |only broom-1.0.8/broom/R/cmprsk.R |only broom-1.0.8/broom/R/data-frame.R |only broom-1.0.8/broom/R/deprecated-0-7-0.R | 9 broom-1.0.8/broom/R/drc.R |only broom-1.0.8/broom/R/emmeans.R |only broom-1.0.8/broom/R/epiR.R |only broom-1.0.8/broom/R/ergm.R |only broom-1.0.8/broom/R/fixest.R |only broom-1.0.8/broom/R/gam.R |only broom-1.0.8/broom/R/geepack.R |only broom-1.0.8/broom/R/glmnet-cv-glmnet.R |only broom-1.0.8/broom/R/glmnet-glmnet.R |only broom-1.0.8/broom/R/gmm.R |only broom-1.0.8/broom/R/hmisc.R |only broom-1.0.8/broom/R/import-standalone-obj-type.R |only broom-1.0.8/broom/R/import-standalone-types-check.R |only broom-1.0.8/broom/R/joinerml.R |only broom-1.0.8/broom/R/kendall.R |only broom-1.0.8/broom/R/ks.R |only broom-1.0.8/broom/R/lavaan.R |only broom-1.0.8/broom/R/leaps.R |only broom-1.0.8/broom/R/lfe.R |only broom-1.0.8/broom/R/list-optim.R |only broom-1.0.8/broom/R/list-svd.R |only broom-1.0.8/broom/R/list-xyz.R |only broom-1.0.8/broom/R/list.R |only broom-1.0.8/broom/R/lm-beta.R |only broom-1.0.8/broom/R/lmodel2.R |only broom-1.0.8/broom/R/lmtest.R |only broom-1.0.8/broom/R/maps.R |only broom-1.0.8/broom/R/margins.R |only broom-1.0.8/broom/R/mass-fitdistr.R |only broom-1.0.8/broom/R/mass-negbin.R |only broom-1.0.8/broom/R/mass-polr.R |only broom-1.0.8/broom/R/mass-ridgelm.R |only broom-1.0.8/broom/R/mass-rlm.R |only broom-1.0.8/broom/R/mclust.R |only broom-1.0.8/broom/R/mediation.R |only broom-1.0.8/broom/R/metafor.R |only broom-1.0.8/broom/R/mfx.R |only broom-1.0.8/broom/R/mgcv.R |only broom-1.0.8/broom/R/mlogit.R |only broom-1.0.8/broom/R/muhaz.R |only broom-1.0.8/broom/R/multcomp.R |only broom-1.0.8/broom/R/nnet.R |only broom-1.0.8/broom/R/nobs.R | 6 broom-1.0.8/broom/R/null-and-default.R |only broom-1.0.8/broom/R/ordinal-clm.R |only broom-1.0.8/broom/R/ordinal-clmm.R |only broom-1.0.8/broom/R/plm.R |only broom-1.0.8/broom/R/polca.R |only broom-1.0.8/broom/R/psych.R |only broom-1.0.8/broom/R/quantreg-nlrq.R |only broom-1.0.8/broom/R/quantreg-rq.R |only broom-1.0.8/broom/R/quantreg-rqs.R |only broom-1.0.8/broom/R/robust-glmrob.R |only broom-1.0.8/broom/R/robust-lmrob.R |only broom-1.0.8/broom/R/robustbase-glmrob.R |only broom-1.0.8/broom/R/robustbase-lmrob.R |only broom-1.0.8/broom/R/sp.R |only broom-1.0.8/broom/R/spdep.R |only broom-1.0.8/broom/R/speedglm-speedglm.R |only broom-1.0.8/broom/R/speedglm-speedlm.R |only broom-1.0.8/broom/R/stats-anova.R |only broom-1.0.8/broom/R/stats-arima.R |only broom-1.0.8/broom/R/stats-decompose.R |only broom-1.0.8/broom/R/stats-factanal.R |only broom-1.0.8/broom/R/stats-glm.R |only broom-1.0.8/broom/R/stats-htest.R |only broom-1.0.8/broom/R/stats-kmeans.R |only broom-1.0.8/broom/R/stats-lm.R |only broom-1.0.8/broom/R/stats-loess.R |only broom-1.0.8/broom/R/stats-mlm.R |only broom-1.0.8/broom/R/stats-nls.R |only broom-1.0.8/broom/R/stats-prcomp.R |only broom-1.0.8/broom/R/stats-smooth.spline.R |only broom-1.0.8/broom/R/stats-summary-lm.R |only broom-1.0.8/broom/R/stats-time-series.R |only broom-1.0.8/broom/R/survey.R |only broom-1.0.8/broom/R/survival-aareg.R |only broom-1.0.8/broom/R/survival-cch.R |only broom-1.0.8/broom/R/survival-coxph.R |only broom-1.0.8/broom/R/survival-pyears.R |only broom-1.0.8/broom/R/survival-survdiff.R |only broom-1.0.8/broom/R/survival-survexp.R |only broom-1.0.8/broom/R/survival-survfit.R |only broom-1.0.8/broom/R/survival-survreg.R |only broom-1.0.8/broom/R/systemfit.R |only broom-1.0.8/broom/R/tseries.R |only broom-1.0.8/broom/R/utilities.R | 53 broom-1.0.8/broom/R/vars.R |only broom-1.0.8/broom/R/zoo.R |only broom-1.0.8/broom/inst/doc/adding-tidiers.Rmd | 2 broom-1.0.8/broom/inst/doc/adding-tidiers.html | 6 broom-1.0.8/broom/inst/doc/available-methods.html | 88 - broom-1.0.8/broom/inst/doc/bootstrapping.html | 4 broom-1.0.8/broom/inst/doc/broom.html | 4 broom-1.0.8/broom/inst/doc/broom_and_dplyr.html | 4 broom-1.0.8/broom/man/augment.Mclust.Rd | 2 broom-1.0.8/broom/man/augment.betamfx.Rd | 2 broom-1.0.8/broom/man/augment.betareg.Rd | 2 broom-1.0.8/broom/man/augment.clm.Rd | 2 broom-1.0.8/broom/man/augment.coxph.Rd | 2 broom-1.0.8/broom/man/augment.decomposed.ts.Rd | 2 broom-1.0.8/broom/man/augment.drc.Rd | 2 broom-1.0.8/broom/man/augment.factanal.Rd | 2 broom-1.0.8/broom/man/augment.felm.Rd | 2 broom-1.0.8/broom/man/augment.fixest.Rd | 2 broom-1.0.8/broom/man/augment.gam.Rd | 2 broom-1.0.8/broom/man/augment.glm.Rd | 2 broom-1.0.8/broom/man/augment.glmRob.Rd | 2 broom-1.0.8/broom/man/augment.htest.Rd | 2 broom-1.0.8/broom/man/augment.ivreg.Rd | 2 broom-1.0.8/broom/man/augment.kmeans.Rd | 4 broom-1.0.8/broom/man/augment.lm.Rd | 2 broom-1.0.8/broom/man/augment.lmRob.Rd | 2 broom-1.0.8/broom/man/augment.loess.Rd | 2 broom-1.0.8/broom/man/augment.mfx.Rd | 2 broom-1.0.8/broom/man/augment.mjoint.Rd | 2 broom-1.0.8/broom/man/augment.mlogit.Rd | 2 broom-1.0.8/broom/man/augment.nlrq.Rd | 2 broom-1.0.8/broom/man/augment.nls.Rd | 2 broom-1.0.8/broom/man/augment.pam.Rd | 2 broom-1.0.8/broom/man/augment.plm.Rd | 2 broom-1.0.8/broom/man/augment.poLCA.Rd | 2 broom-1.0.8/broom/man/augment.polr.Rd | 2 broom-1.0.8/broom/man/augment.prcomp.Rd | 2 broom-1.0.8/broom/man/augment.rlm.Rd | 2 broom-1.0.8/broom/man/augment.rma.Rd | 2 broom-1.0.8/broom/man/augment.robustbase.glmrob.Rd | 2 broom-1.0.8/broom/man/augment.robustbase.lmrob.Rd | 2 broom-1.0.8/broom/man/augment.rq.Rd | 2 broom-1.0.8/broom/man/augment.rqs.Rd | 2 broom-1.0.8/broom/man/augment.sarlm.Rd | 2 broom-1.0.8/broom/man/augment.smooth.spline.Rd | 4 broom-1.0.8/broom/man/augment.speedlm.Rd | 2 broom-1.0.8/broom/man/augment.stl.Rd | 2 broom-1.0.8/broom/man/augment.survreg.Rd | 2 broom-1.0.8/broom/man/durbinWatsonTest_tidiers.Rd | 2 broom-1.0.8/broom/man/glance.Arima.Rd | 2 broom-1.0.8/broom/man/glance.Mclust.Rd | 2 broom-1.0.8/broom/man/glance.aareg.Rd | 2 broom-1.0.8/broom/man/glance.anova.Rd | 2 broom-1.0.8/broom/man/glance.aov.Rd | 2 broom-1.0.8/broom/man/glance.betamfx.Rd | 2 broom-1.0.8/broom/man/glance.betareg.Rd | 2 broom-1.0.8/broom/man/glance.biglm.Rd | 2 broom-1.0.8/broom/man/glance.binDesign.Rd | 2 broom-1.0.8/broom/man/glance.cch.Rd | 2 broom-1.0.8/broom/man/glance.clm.Rd | 2 broom-1.0.8/broom/man/glance.clmm.Rd | 2 broom-1.0.8/broom/man/glance.coeftest.Rd | 2 broom-1.0.8/broom/man/glance.coxph.Rd | 2 broom-1.0.8/broom/man/glance.crr.Rd | 2 broom-1.0.8/broom/man/glance.cv.glmnet.Rd | 2 broom-1.0.8/broom/man/glance.drc.Rd | 2 broom-1.0.8/broom/man/glance.ergm.Rd | 2 broom-1.0.8/broom/man/glance.factanal.Rd | 2 broom-1.0.8/broom/man/glance.felm.Rd | 2 broom-1.0.8/broom/man/glance.fitdistr.Rd | 2 broom-1.0.8/broom/man/glance.fixest.Rd | 2 broom-1.0.8/broom/man/glance.gam.Rd | 2 broom-1.0.8/broom/man/glance.garch.Rd | 2 broom-1.0.8/broom/man/glance.geeglm.Rd | 2 broom-1.0.8/broom/man/glance.glm.Rd | 2 broom-1.0.8/broom/man/glance.glmRob.Rd | 2 broom-1.0.8/broom/man/glance.glmnet.Rd | 4 broom-1.0.8/broom/man/glance.gmm.Rd | 2 broom-1.0.8/broom/man/glance.ivreg.Rd | 2 broom-1.0.8/broom/man/glance.kmeans.Rd | 4 broom-1.0.8/broom/man/glance.lavaan.Rd | 2 broom-1.0.8/broom/man/glance.lm.Rd | 2 broom-1.0.8/broom/man/glance.lmRob.Rd | 2 broom-1.0.8/broom/man/glance.lmodel2.Rd | 2 broom-1.0.8/broom/man/glance.margins.Rd | 2 broom-1.0.8/broom/man/glance.mfx.Rd | 2 broom-1.0.8/broom/man/glance.mjoint.Rd | 2 broom-1.0.8/broom/man/glance.mlogit.Rd | 2 broom-1.0.8/broom/man/glance.muhaz.Rd | 2 broom-1.0.8/broom/man/glance.multinom.Rd | 2 broom-1.0.8/broom/man/glance.negbin.Rd | 2 broom-1.0.8/broom/man/glance.nlrq.Rd | 2 broom-1.0.8/broom/man/glance.nls.Rd | 2 broom-1.0.8/broom/man/glance.pam.Rd | 2 broom-1.0.8/broom/man/glance.plm.Rd | 2 broom-1.0.8/broom/man/glance.poLCA.Rd | 2 broom-1.0.8/broom/man/glance.polr.Rd | 2 broom-1.0.8/broom/man/glance.pyears.Rd | 2 broom-1.0.8/broom/man/glance.ridgelm.Rd | 2 broom-1.0.8/broom/man/glance.rlm.Rd | 2 broom-1.0.8/broom/man/glance.rma.Rd | 2 broom-1.0.8/broom/man/glance.robustbase.lmrob.Rd | 2 broom-1.0.8/broom/man/glance.rq.Rd | 2 broom-1.0.8/broom/man/glance.sarlm.Rd | 2 broom-1.0.8/broom/man/glance.smooth.spline.Rd | 4 broom-1.0.8/broom/man/glance.speedglm.Rd | 2 broom-1.0.8/broom/man/glance.speedlm.Rd | 2 broom-1.0.8/broom/man/glance.summary.lm.Rd | 2 broom-1.0.8/broom/man/glance.survdiff.Rd | 2 broom-1.0.8/broom/man/glance.survexp.Rd | 2 broom-1.0.8/broom/man/glance.survfit.Rd | 2 broom-1.0.8/broom/man/glance.survreg.Rd | 2 broom-1.0.8/broom/man/glance.svyglm.Rd | 2 broom-1.0.8/broom/man/glance.svyolr.Rd | 2 broom-1.0.8/broom/man/glance.varest.Rd | 2 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broom-1.0.8/broom/tests/testthat/test-systemfit.R | 4 broom-1.0.8/broom/tests/testthat/test-tseries.R | 8 broom-1.0.8/broom/tests/testthat/test-utilities.R | 53 broom-1.0.8/broom/tests/testthat/test-vars.R | 6 broom-1.0.8/broom/tests/testthat/test-zoo.R | 2 broom-1.0.8/broom/vignettes/adding-tidiers.Rmd | 2 542 files changed, 1119 insertions(+), 1288 deletions(-)