Title: Functions for Pre-Processing Data for Multivariate Data
Visualisation using Tours
Description: This is a companion to the book Cook, D. and Laa, U. (2023) <https://dicook.github.io/mulgar_book/>
"Interactively exploring high-dimensional data and models in R".
by Cook and Laa. It contains useful functions for processing data in preparation for
visualising with a tour. There are also several sample data sets.
Author: Dianne Cook [aut, cre] ,
Ursula Laa [aut]
Maintainer: Dianne Cook <dicook@monash.edu>
Diff between mulgar versions 1.0.2 dated 2023-08-25 and 1.0.5 dated 2025-04-06
mulgar-1.0.2/mulgar/data/challenge1.rda |only mulgar-1.0.2/mulgar/data/challenge2.rda |only mulgar-1.0.2/mulgar/data/challenge3.rda |only mulgar-1.0.2/mulgar/data/challenge4.rda |only mulgar-1.0.2/mulgar/data/challenge5.rda |only mulgar-1.0.2/mulgar/data/challenge6.rda |only mulgar-1.0.2/mulgar/data/challenge7.rda |only mulgar-1.0.2/mulgar/man/c1.Rd |only mulgar-1.0.5/mulgar/DESCRIPTION | 12 +- mulgar-1.0.5/mulgar/MD5 | 45 +++++--- mulgar-1.0.5/mulgar/NEWS.md | 12 ++ mulgar-1.0.5/mulgar/R/data.R | 149 +++++++++++++++++++++++++-- mulgar-1.0.5/mulgar/data/anomaly1.rda |only mulgar-1.0.5/mulgar/data/anomaly2.rda |only mulgar-1.0.5/mulgar/data/anomaly3.rda |only mulgar-1.0.5/mulgar/data/anomaly4.rda |only mulgar-1.0.5/mulgar/data/anomaly5.rda |only mulgar-1.0.5/mulgar/data/assoc1.rda |only mulgar-1.0.5/mulgar/data/assoc2.rda |only mulgar-1.0.5/mulgar/data/assoc3.rda |only mulgar-1.0.5/mulgar/data/c1.rda |only mulgar-1.0.5/mulgar/data/c2.rda |only mulgar-1.0.5/mulgar/data/c3.rda |only mulgar-1.0.5/mulgar/data/c4.rda |only mulgar-1.0.5/mulgar/data/c5.rda |only mulgar-1.0.5/mulgar/data/c6.rda |only mulgar-1.0.5/mulgar/data/c7.rda |only mulgar-1.0.5/mulgar/data/copclayton.rda |only mulgar-1.0.5/mulgar/data/copfrank.rda |only mulgar-1.0.5/mulgar/data/copjoe.rda |only mulgar-1.0.5/mulgar/data/copnorm.rda |only mulgar-1.0.5/mulgar/data/pisa.rda |binary mulgar-1.0.5/mulgar/inst |only mulgar-1.0.5/mulgar/man/anomalies.Rd |only mulgar-1.0.5/mulgar/man/associations.Rd |only mulgar-1.0.5/mulgar/man/clusterchallenges.Rd |only mulgar-1.0.5/mulgar/man/copula.Rd |only mulgar-1.0.5/mulgar/man/pisa.Rd | 6 - 38 files changed, 195 insertions(+), 29 deletions(-)
Title: 'Rstudio' Addin for Version Control and Assignment Management
using Git
Description: An 'Rstudio' addin for version control that allows users to clone
repositories, create and delete branches, and sync forks on GitHub, GitLab, etc.
Furthermore, the addin uses the GitLab API to allow instructors to create
forks and merge requests for all students/teams with one click of a button.
Author: Vincent Nijs [aut, cre],
Sanjiv Erat [aut]
Maintainer: Vincent Nijs <vnijs@ucsd.edu>
Diff between gitgadget versions 0.8.1 dated 2023-08-24 and 0.8.2 dated 2025-04-06
DESCRIPTION | 12 +++--- MD5 | 42 ++++++++++----------- NEWS.md | 5 ++ R/aaa.R | 3 - R/git.R | 28 +++++++------- R/group_management.R | 10 ++--- README.md | 6 --- build/vignette.rds |binary inst/app/components/create.R | 2 - inst/app/components/intro.R | 85 ++++++++++++++++++++++++++++--------------- inst/app/gitgadget_ui.R | 56 ++++++++++++++-------------- inst/app/help/help.md | 2 + inst/doc/gitgadget.html | 23 ++--------- man/add_users_repo.Rd | 4 +- man/assign_work.Rd | 2 - man/check_tokens.Rd | 2 - man/collect_work.Rd | 4 +- man/create_group.Rd | 2 - man/create_repo.Rd | 6 +-- man/fetch_work.Rd | 2 - man/gitgadget.Rd | 20 ++++++++++ man/remove_users_repo.Rd | 2 - 22 files changed, 179 insertions(+), 139 deletions(-)
Title: Bayesian Hierarchical Analysis of Cognitive Models of Choice
Description: Fit Bayesian (hierarchical) cognitive models
using a linear modeling language interface using particle Metropolis Markov
chain Monte Carlo sampling with Gibbs steps. The diffusion decision model (DDM),
linear ballistic accumulator model (LBA), racing diffusion model (RDM), and the lognormal
race model (LNR) are supported. Additionally, users can specify their own likelihood
function and/or choose for non-hierarchical
estimation, as well as for a diagonal, blocked or full multivariate normal
group-level distribution to test individual differences. Prior specification
is facilitated through methods that visualize the (implied) prior.
A wide range of plotting functions assist in assessing model convergence and
posterior inference. Models can be easily evaluated using functions
that plot posterior predictions or using relative model comparison metrics
such as information criteria or Bayes factors.
References: Stevenson et al. (2024) <doi:10.31234/osf.io/2e4dq>.
Author: Niek Stevenson [aut, cre] ,
Michelle Donzallaz [aut],
Andrew Heathcote [aut],
Steven Miletic [ctb],
Raphael Hartmann [ctb],
Karl C. Klauer [ctb],
Steven G. Johnson [ctb],
Jean M. Linhart [ctb],
Brian Gough [ctb],
Gerard Jungman [ctb],
Rudolf Schuerer [...truncated...]
Maintainer: Niek Stevenson <niek.stevenson@gmail.com>
Diff between EMC2 versions 3.1.0 dated 2025-03-10 and 3.1.1 dated 2025-04-06
DESCRIPTION | 6 - MD5 | 46 +++++----- NAMESPACE | 2 NEWS.md | 16 +++ R/design.R | 14 ++- R/fitting.R | 80 ++++++++--------- R/get_type_objects.R | 4 R/likelihood.R | 24 ++++- R/make_data.R | 10 +- R/model_DDM.R | 85 ++++++++++++++++++ R/model_SDT.R | 63 +++++++------- R/objects.R | 8 - R/plot_data.R | 38 +++++--- R/priors.R | 2 R/s3_funcs.R | 130 ++++++++++++----------------- inst/doc/Simulation-based-Calibration.html | 4 man/DDMGNG.Rd |only man/SDT.Rd |only man/fit.Rd | 70 ++++----------- man/plot.emc.Rd | 4 man/run_emc.Rd | 16 +-- man/summary.emc.Rd | 3 tests/testthat/_snaps/Linux/fit.md | 20 ++-- tests/testthat/_snaps/new_models.md |only tests/testthat/test-fit.R | 2 tests/testthat/test-new_models.R |only 26 files changed, 377 insertions(+), 270 deletions(-)
Title: Create Demographic Table
Description: To create demographic table with simple summary statistics, with optional comparison(s) over one or more groups.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between DemographicTable versions 0.2.0 dated 2025-03-29 and 0.2.1 dated 2025-04-06
DemographicTable-0.2.0/DemographicTable/inst/doc/intro.Rmd |only DemographicTable-0.2.0/DemographicTable/vignettes/intro.Rmd |only DemographicTable-0.2.1/DemographicTable/DESCRIPTION | 19 DemographicTable-0.2.1/DemographicTable/MD5 | 22 DemographicTable-0.2.1/DemographicTable/R/0PACKAGE.R | 12 DemographicTable-0.2.1/DemographicTable/R/DemographicTable.R | 18 DemographicTable-0.2.1/DemographicTable/R/msg.R | 4 DemographicTable-0.2.1/DemographicTable/build/vignette.rds |binary DemographicTable-0.2.1/DemographicTable/inst/doc/intro.R | 60 DemographicTable-0.2.1/DemographicTable/inst/doc/intro.html | 713 +++------- DemographicTable-0.2.1/DemographicTable/inst/doc/intro.qmd |only DemographicTable-0.2.1/DemographicTable/inst/extR/xtable.R | 4 DemographicTable-0.2.1/DemographicTable/man/DemographicTable-package.Rd | 12 DemographicTable-0.2.1/DemographicTable/vignettes/intro.qmd |only 14 files changed, 364 insertions(+), 500 deletions(-)
More information about DemographicTable at CRAN
Permanent link
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial trading strategies.
Author: Jeffrey A. Ryan [aut, cph],
Joshua M. Ulrich [cre, aut],
Ethan B. Smith [ctb],
Wouter Thielen [ctb],
Paul Teetor [ctb],
Steve Bronder [ctb]
Maintainer: Joshua M. Ulrich <josh.m.ulrich@gmail.com>
Diff between quantmod versions 0.4.26 dated 2024-02-14 and 0.4.27 dated 2025-04-06
quantmod-0.4.26/quantmod/tests/test_Defaults.R |only quantmod-0.4.26/quantmod/tests/test_getDividends.R |only quantmod-0.4.26/quantmod/tests/test_getSplits.R |only quantmod-0.4.26/quantmod/tests/test_getSymbols.R |only quantmod-0.4.26/quantmod/tests/tests.R |only quantmod-0.4.27/quantmod/DESCRIPTION | 8 +- quantmod-0.4.27/quantmod/MD5 | 35 +++++---- quantmod-0.4.27/quantmod/NAMESPACE | 2 quantmod-0.4.27/quantmod/NEWS.md | 40 ++++++++++ quantmod-0.4.27/quantmod/R/OHLC.transformations.R | 70 +++++++++++-------- quantmod-0.4.27/quantmod/R/addTA.R | 2 quantmod-0.4.27/quantmod/R/getQuote.R | 8 +- quantmod-0.4.27/quantmod/R/getSymbols.R | 10 +- quantmod-0.4.27/quantmod/R/quantmod.R | 41 ++++------- quantmod-0.4.27/quantmod/R/tradeModel.R | 2 quantmod-0.4.27/quantmod/R/zzz.R | 15 ---- quantmod-0.4.27/quantmod/inst |only quantmod-0.4.27/quantmod/man/OHLC.Transformations.Rd | 2 quantmod-0.4.27/quantmod/tests/test-Defaults.R |only quantmod-0.4.27/quantmod/tests/test-misc.R |only quantmod-0.4.27/quantmod/tests/tinytest.R |only 21 files changed, 138 insertions(+), 97 deletions(-)
Title: Multiple Imputation Through 'XGBoost'
Description: Multiple imputation using 'XGBoost', subsampling, and predictive mean
matching as described in Deng and Lumley (2023)
<doi:10.1080/10618600.2023.2252501>. The package supports various types of
variables, offers flexible settings, and enables saving an imputation model to impute
new data. Data processing and memory usage have been optimised to speed up
the imputation process.
Author: Yongshi Deng [aut, cre] ,
Thomas Lumley [ths]
Maintainer: Yongshi Deng <agnes.yongshideng@gmail.com>
Diff between mixgb versions 1.5.2 dated 2024-12-02 and 1.5.3 dated 2025-04-06
DESCRIPTION | 8 +- MD5 | 18 ++--- NEWS.md | 9 ++ R/mixgb_load_use.R | 69 ++++++++++----------- R/mixgb_null.R | 72 ++++++++++------------ R/mixgb_save.R | 131 ++++++++++++++++++----------------------- R/mixgb_use.R | 76 +++++++++++------------ R/mixgb_xgb_save.R | 126 +++++++++++++++++---------------------- inst/doc/Imputing-newdata.html | 4 - inst/doc/Using-mixgb.html | 72 ++++++++++------------ 10 files changed, 271 insertions(+), 314 deletions(-)
Title: Basic Functions for Pre-Processing Microarrays
Description: Provides classes to pre-process microarray gene
expression data as part of the OOMPA collection of packages
described at <http://oompa.r-forge.r-project.org/>.
Author: Kevin R. Coombes [aut, cre]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between PreProcess versions 3.1.7 dated 2019-05-06 and 3.1.9 dated 2025-04-06
PreProcess-3.1.7/PreProcess/tests/test07-complete-channel.Rout.save |only PreProcess-3.1.9/PreProcess/DESCRIPTION | 16 +++++----- PreProcess-3.1.9/PreProcess/MD5 | 13 +++----- PreProcess-3.1.9/PreProcess/build/vignette.rds |binary PreProcess-3.1.9/PreProcess/inst/doc/oompa-prep.pdf |binary PreProcess-3.1.9/PreProcess/man/b07-0-CompleteChannel-class.Rd | 6 +-- PreProcess-3.1.9/PreProcess/tests/test04-channel.R | 2 - PreProcess-3.1.9/PreProcess/tests/test04-channel.Rout.save | 14 ++++---- 8 files changed, 26 insertions(+), 25 deletions(-)
Title: Qualitative Palettes with Many Colors
Description: Tools for creating, viewing, and assessing qualitative
palettes with many (20-30 or more) colors. See Coombes and colleagues
(2019) <doi:10.18637/jss.v090.c01>.
Author: Guy Brock [aut],
Kevin R. Coombes [aut, cre]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between Polychrome versions 1.5.1 dated 2022-05-03 and 1.5.4 dated 2025-04-06
DESCRIPTION | 18 + MD5 | 38 +-- build/vignette.rds |binary data/Dark24.rda |binary data/Light24.rda |binary data/alphabet.rda |binary data/colorsafe.rda |binary data/glasbey.rda |binary data/iscc.rda |binary data/palette36.rda |binary data/sky-colors.rda |binary inst/doc/color-deficits.R | 4 inst/doc/color-deficits.html | 345 +++++++++++++++++-------------- inst/doc/creatingPalettes.html | 450 ++++++++++++++++++++++++----------------- inst/doc/polychrome.html | 246 ++++++++++++---------- inst/doc/testgg.html | 275 +++++++++++++------------ man/invertColors.Rd | 2 man/isccNames.Rd | 4 tests/testDeficit.R | 4 tests/testDeficit.Rout.save | 34 +-- 20 files changed, 792 insertions(+), 628 deletions(-)
Title: Provides R-Language Code to Examine Quantitative Risk Management
Concepts
Description: Provides functions/methods to accompany the book
Quantitative Risk Management: Concepts, Techniques and Tools by
Alexander J. McNeil, Ruediger Frey, and Paul Embrechts.
Author: Bernhard Pfaff [aut, cre],
Marius Hofert [ctb],
Alexander McNeil) [aut] ,
Scott Ulmann [trl]
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>
Diff between QRM versions 0.4-31 dated 2020-02-15 and 0.4-35 dated 2025-04-06
DESCRIPTION | 32 ++++- MD5 | 14 +- NAMESPACE | 6 - R/game.R | 316 ++++++++++++++++++++++++++++---------------------------- demo/game.R | 20 +-- man/CopulaAC.Rd | 2 man/game-aux.Rd | 14 +- man/game.Rd | 74 ++++++------- 8 files changed, 250 insertions(+), 228 deletions(-)
Title: Data to Illustrate OOMPA Algorithms
Description: This is a data-only package to provide example data for
other packages that are part of the "Object-Oriented Microrray and
Proteomics Analysis" suite of packages. These are described in more
detail at the package URL.
Author: Kevin R. Coombes [aut, cre]
Maintainer: Kevin R. Coombes <krc@silicovore.com>
Diff between oompaData versions 3.1.4 dated 2024-04-28 and 3.1.5 dated 2025-04-06
DESCRIPTION | 18 +++++++++++------- MD5 | 10 +++++----- data/clinical.info.rda |binary data/expression.data.rda |binary data/gene.info.rda |binary data/lungData.rda |binary 6 files changed, 16 insertions(+), 12 deletions(-)
Title: Export Data Frames to Excel 'xlsx' Format
Description: Zero-dependency data frame to xlsx exporter based on 'libxlsxwriter'
<https://libxlsxwriter.github.io>. Fast and no Java or Excel required.
Author: Jeroen Ooms [aut, cre] ,
John McNamara [cph] )
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between writexl versions 1.5.2 dated 2025-03-17 and 1.5.3 dated 2025-04-06
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 4 ++++ src/Makevars | 7 +++++-- src/write_xlsx.c | 6 ++++-- 5 files changed, 20 insertions(+), 11 deletions(-)
Title: Optimal Convex M-Estimation for Linear Regression via Antitonic
Score Matching
Description: Performs linear regression with respect to a data-driven convex loss function that is chosen to minimize the asymptotic covariance of the resulting M-estimator. The convex loss function is estimated in 5 steps: (1) form an initial OLS (ordinary least squares) or LAD (least absolute deviation) estimate of the regression coefficients; (2) use the resulting residuals to obtain a kernel estimator of the error density; (3) estimate the score function of the errors by differentiating the logarithm of the kernel density estimate; (4) compute the L2 projection of the estimated score function onto the set of decreasing functions; (5) take a negative antiderivative of the projected score function estimate. Newton's method (with Hessian modification) is then used to minimize the convex empirical risk function. Further details of the method are given in Feng et al. (2024) <doi:10.48550/arXiv.2403.16688>.
Author: Yu-Chun Kao [aut],
Oliver Y. Feng [aut],
Lucy Xia [aut],
Yang Feng [aut],
Min Xu [aut, cre],
Richard J. Samworth [aut]
Maintainer: Min Xu <min.cut@gmail.com>
Diff between asm versions 0.2.2 dated 2025-03-22 and 0.2.3 dated 2025-04-06
DESCRIPTION | 6 - MD5 | 6 - R/asm.R | 173 +++++++++++++++++++++++++++++++++++++++++++-------------- man/asm.fit.Rd | 8 +- 4 files changed, 145 insertions(+), 48 deletions(-)
Title: Visualize Simon's Two-Stage Design
Description: To visualize the probabilities of early termination, fail
and success of Simon's two-stage design. To evaluate and
visualize the operating characteristics of Simon's two-stage
design.
Author: Tingting Zhan [aut, cre]
Maintainer: Tingting Zhan <tingtingzhan@gmail.com>
Diff between VisualizeSimon2Stage versions 0.1.7 dated 2025-03-18 and 0.2.0 dated 2025-04-06
VisualizeSimon2Stage-0.1.7/VisualizeSimon2Stage/R/print.R |only VisualizeSimon2Stage-0.1.7/VisualizeSimon2Stage/build/partial.rdb |only VisualizeSimon2Stage-0.1.7/VisualizeSimon2Stage/inst/extR |only VisualizeSimon2Stage-0.1.7/VisualizeSimon2Stage/man/print_ph2simon.Rd |only VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/DESCRIPTION | 15 +-- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/MD5 | 48 +++++---- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/NAMESPACE | 12 ++ VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/0PACKAGE.R | 47 +-------- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/0S4.R | 48 +-------- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/Sprintf.R | 3 VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/autoplot.R | 12 ++ VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/ph2simon4.R | 11 -- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/r_simon.R | 9 - VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/show.R | 13 +- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/simon_oc.R | 1 VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/simon_pr.R | 50 +++++++++- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/R/summary.R | 7 - VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/build/vignette.rds |only VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/inst/doc |only VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/VisualizeSimon2Stage-package.Rd | 41 +------- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/as_flextable.simon_pr.Rd |only VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/gg_ph2simon.Rd | 3 VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/ph2simon4.Rd | 26 ----- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/r_simon.Rd | 10 -- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/simon_oc.Rd | 1 VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/simon_pr.Rd | 28 ----- VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/man/summary_ph2simon.Rd | 5 - VisualizeSimon2Stage-0.2.0/VisualizeSimon2Stage/vignettes |only 28 files changed, 143 insertions(+), 247 deletions(-)
More information about VisualizeSimon2Stage at CRAN
Permanent link
Title: Paleoecology Functions for Regime Shift Analysis
Description: Contains a variety of functions, based around
regime shift analysis of paleoecological data.
Citations:
Rodionov() from Rodionov (2004) <doi:10.1029/2004GL019448>
Lanzante() from Lanzante (1996) <doi:10.1002/(SICI)1097-0088(199611)16:11%3C1197::AID-JOC89%3E3.0.CO;2-L>
Hellinger_trans from Numerical Ecology, Legendre & Legendre (ISBN 9780444538680)
rolling_autoc from Liu, Gao & Wang (2018) <doi:10.1016/j.scitotenv.2018.06.276>
Sample data sets lake_data & lake_RSI processed from Bush, Silman & Urrego (2004) <doi:10.1126/science.1090795>
Sample data set January_PDO from NOAA: <https://www.ncei.noaa.gov/access/monitoring/pdo/>.
Author: Alex H. Room [aut, cre, cph] ,
Felipe Franco-Gaviria [ctb, fnd]
,
Dunia H. Urrego [ctb, fnd] ,
The authors of the dependency Rust crates [ctb]
Maintainer: Alex H. Room <alexhroom+cran@protonmail.com>
Diff between rshift versions 3.1.1 dated 2024-09-09 and 3.1.2 dated 2025-04-06
rshift-3.1.1/rshift/src/Makevars |only rshift-3.1.1/rshift/src/Makevars.win |only rshift-3.1.1/rshift/src/rust/cargo_vendor_config.toml |only rshift-3.1.1/rshift/src/rust/vendor.sh |only rshift-3.1.2/rshift/DESCRIPTION | 10 +++--- rshift-3.1.2/rshift/MD5 | 28 ++++++++++-------- rshift-3.1.2/rshift/NAMESPACE | 1 rshift-3.1.2/rshift/R/Lanzante.R | 9 +++-- rshift-3.1.2/rshift/configure | 23 +------------- rshift-3.1.2/rshift/configure.win |only rshift-3.1.2/rshift/inst/doc/STARSmanual.pdf |binary rshift-3.1.2/rshift/man/regime_means.Rd | 1 rshift-3.1.2/rshift/src/Makevars.in |only rshift-3.1.2/rshift/src/Makevars.win.in |only rshift-3.1.2/rshift/src/rshift-win.def |only rshift-3.1.2/rshift/src/rust/Cargo.lock |only rshift-3.1.2/rshift/src/rust/Cargo.toml | 9 ++++- rshift-3.1.2/rshift/src/rust/vendor-config.toml |only rshift-3.1.2/rshift/src/rust/vendor.tar.xz |binary rshift-3.1.2/rshift/tools |only 20 files changed, 38 insertions(+), 43 deletions(-)
Title: Calculate Persistent Homology with Ripser-Based Engines
Description: Ports the Ripser <doi:10.48550/arXiv.1908.02518>
and Cubical Ripser <doi:10.48550/arXiv.2005.12692>
persistent homology calculation engines from C++.
Can be used as a rapid calculation tool in topological data analysis
pipelines.
Author: Raoul Wadhwa [aut] ,
Matt Piekenbrock [aut],
Jacob Scott [aut] ,
Jason Cory Brunson [aut, cre] ,
Emily Noble [ctb],
Takeki Sudo [cph, ctb] , which was refactored prior to inclusion in
ripserr.),
Kazushi Ahara [cph, ctb] , which was refactored prior t [...truncated...]
Maintainer: Jason Cory Brunson <cornelioid@gmail.com>
Diff between ripserr versions 0.1.1 dated 2020-10-20 and 0.3.0 dated 2025-04-06
ripserr-0.1.1/ripserr/R/calculate.R |only ripserr-0.1.1/ripserr/tests/testthat/test-ripser.R |only ripserr-0.3.0/ripserr/DESCRIPTION | 97 ++++++++------ ripserr-0.3.0/ripserr/MD5 | 57 ++++++-- ripserr-0.3.0/ripserr/NAMESPACE | 25 +++ ripserr-0.3.0/ripserr/NEWS.md |only ripserr-0.3.0/ripserr/R/PHom.R |only ripserr-0.3.0/ripserr/R/cubical.R |only ripserr-0.3.0/ripserr/R/data.r |only ripserr-0.3.0/ripserr/R/ripserr.R | 3 ripserr-0.3.0/ripserr/R/utility.R |only ripserr-0.3.0/ripserr/R/vietoris_rips.R |only ripserr-0.3.0/ripserr/build |only ripserr-0.3.0/ripserr/data |only ripserr-0.3.0/ripserr/inst |only ripserr-0.3.0/ripserr/man/PHom.Rd |only ripserr-0.3.0/ripserr/man/aegypti.Rd |only ripserr-0.3.0/ripserr/man/as.PHom.Rd |only ripserr-0.3.0/ripserr/man/case_predictors.Rd |only ripserr-0.3.0/ripserr/man/cubical.Rd | 54 ++++--- ripserr-0.3.0/ripserr/man/head.PHom.Rd |only ripserr-0.3.0/ripserr/man/is.PHom.Rd |only ripserr-0.3.0/ripserr/man/print.PHom.Rd |only ripserr-0.3.0/ripserr/man/ripserr.Rd | 29 ++++ ripserr-0.3.0/ripserr/man/tail.PHom.Rd |only ripserr-0.3.0/ripserr/man/vietoris_rips.Rd | 92 +++++++++---- ripserr-0.3.0/ripserr/src/RcppExports.cpp | 5 ripserr-0.3.0/ripserr/tests/testthat/test-cubical-2dim.R | 5 ripserr-0.3.0/ripserr/tests/testthat/test-cubical-3dim.R | 1 ripserr-0.3.0/ripserr/tests/testthat/test-cubical-4dim.R | 1 ripserr-0.3.0/ripserr/tests/testthat/test-cubical-error.R | 3 ripserr-0.3.0/ripserr/tests/testthat/test-phom-s3.R |only ripserr-0.3.0/ripserr/tests/testthat/test-print.R |only ripserr-0.3.0/ripserr/tests/testthat/test-vr.R |only ripserr-0.3.0/ripserr/vignettes |only 35 files changed, 259 insertions(+), 113 deletions(-)
Title: Total, Between-, and Within-Cluster Spearman Rank Correlations
for Clustered Data
Description: Estimates the total, between-, and within-cluster Spearman rank correlations for continuous and ordinal clustered data. See Tu et al. (2024) <DOI:10.1002/sim.10326> for details.
Author: Shengxin Tu [aut, cre],
Chun Li [aut],
Bryan Shepherd [aut]
Maintainer: Shengxin Tu <shengxin.tu@gmail.com>
Diff between rankCorr versions 1.0.2 dated 2025-03-31 and 1.0.3 dated 2025-04-06
DESCRIPTION | 16 ++++++++-------- MD5 | 4 ++-- R/rcc_internal_functions.R | 8 ++++++-- 3 files changed, 16 insertions(+), 12 deletions(-)
Title: PC-Axis with R
Description: Provides a set of functions for reading and writing PC-Axis files, used by different statistical organizations around the globe for data dissemination.
Author: Carlos J. Gil Bellosta [cre, aut],
Francisco J. Viciana [aut],
Oscar Perpinan Lamigueiro [aut],
Emilio Torres Manzanera [ctb]
Maintainer: Carlos J. Gil Bellosta <gilbellosta@gmail.com>
Diff between pxR versions 0.42.7 dated 2022-11-23 and 0.42.8 dated 2025-04-06
DESCRIPTION | 14 +++---- MD5 | 12 +++--- NAMESPACE | 2 - R/write.json.stat.R | 94 +++++++++++++++++++++++----------------------------- R/write.px.R | 4 +- README.md | 2 - man/read.px.Rd | 2 - 7 files changed, 62 insertions(+), 68 deletions(-)
Title: Write MongoDB Queries with R
Description: Translate R code into MongoDB aggregation pipelines.
Author: Oliver Haag [aut, cre]
Maintainer: Oliver Haag <oliver_haag@e.mail.de>
Diff between mongopipe versions 0.1.1 dated 2021-01-20 and 0.1.2 dated 2025-04-06
DESCRIPTION | 13 ++++++------- MD5 | 14 ++++++++------ NEWS.md |only R/aggregation_stages.R | 2 +- README.md | 12 ++++++------ inst |only man/match.Rd | 2 +- man/mongopipe-package.Rd | 4 ++-- tests/testthat/test-utils.R | 2 +- 9 files changed, 25 insertions(+), 24 deletions(-)
Title: A Probe-Level Data File Format Used by 'aroma.affymetrix'
[deprecated]
Description: DEPRECATED. Do not start building new projects based on this package. (The (in-house) APD file format was initially developed to store Affymetrix probe-level data, e.g. normalized CEL intensities. Chip types can be added to APD file and similar to methods in the affxparser package, this package provides methods to read APDs organized by units (probesets). In addition, the probe elements can be arranged optimally such that the elements are guaranteed to be read in order when, for instance, data is read unit by unit. This speeds up the read substantially. This package is supporting the Aroma framework and should not be used elsewhere.)
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between aroma.apd versions 0.7.0 dated 2023-06-23 and 0.7.1 dated 2025-04-06
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NEWS.md | 7 +++++++ 3 files changed, 13 insertions(+), 6 deletions(-)
Title: ELISA Data Analysis with Batch Correction
Description: To run data analysis for enzyme-link immunosorbent assays (ELISAs).
Either the five- or four-parameter logistic model will be fitted for data of single ELISA.
Moreover, the batch effect correction/normalization will be carried out, when there are more than one batches of ELISAs.
Feng (2018) <doi:10.1101/483800>.
Author: Feng Feng [aut, cre]
Maintainer: Feng Feng <ffeng@BU.edu>
Diff between ELISAtools versions 0.1.5 dated 2021-01-21 and 0.1.8 dated 2025-04-06
DESCRIPTION | 14 ++++++------- MD5 | 39 +++++++++++++++++++------------------ NAMESPACE | 1 NEWS.md |only R/BatchCorrection.R | 36 ++++++++++++++++++---------------- R/ELISAplate.R | 33 +++++++++++++++++-------------- R/ELISAtools_IO.R | 16 +++++++-------- README.md | 4 +-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/elisatools-vignette.R | 34 ++++++++++++++++---------------- inst/doc/elisatools-vignette.pdf |binary inst/extdata/design_plate2_27.txt |only inst/extdata/plate2_27_dataSdf.txt |only man/elisa_batch-class.Rd | 2 - man/elisa_batch.Rd | 2 - man/elisa_plate-class.Rd | 2 - man/elisa_plate.Rd | 2 - man/elisa_run-class.Rd | 2 - man/elisa_run.Rd | 2 - man/load.ODs.Rd | 4 +-- man/prepareInitsLM.Rd | 16 +++++++-------- 22 files changed, 110 insertions(+), 99 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-22 1.7.0
2017-02-17 1.6-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-15 1.3.0
2017-11-02 1.2.0
2017-08-14 1.1.0
2014-05-12 1.0.1
2013-12-24 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-14 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-09-21 1.1.3
2021-04-05 1.1.1
Title: Conditional Process Analysis (CPA) via SEM Approach
Description: Utilizes the Reliability-Adjusted Product Indicator (RAPI) method to
estimate effects among latent variables, thus allowing for more precise definition and analysis of
mediation and moderation models. Our simulation studies reveal that while 'silp' may exhibit
instability with smaller sample sizes and lower reliability scores (e.g., N = 100, 'omega' = 0.7),
implementing nearest positive definite matrix correction and bootstrap confidence interval
estimation can significantly ameliorate this volatility. When these adjustments are applied,
'silp' achieves estimations akin in quality to those derived from LMS. In conclusion, the 'silp'
package is a valuable tool for researchers seeking to explore complex relational structures between
variables without resorting to commercial software.
Cheung et al.(2021)<doi:10.1007/s10869-020-09717-0>
Hsiao et al.(2018)<doi:10.1177/0013164416679877>.
Author: Yi-Hsuan Tseng [aut, cre],
Po-Hsien Huang [aut]
Maintainer: Yi-Hsuan Tseng <r12227115@g.ntu.edu.tw>
Diff between silp versions 1.0.2 dated 2025-04-02 and 1.0.3 dated 2025-04-06
DESCRIPTION | 6 +-- MD5 | 12 +++--- NEWS.md | 2 + R/defclass.R | 10 ++++- R/resilp.R | 103 ++++++++++++++++++++++++++++++++++++++++++++---------- man/Silp-class.Rd | 2 + man/resilp.Rd | 4 +- 7 files changed, 110 insertions(+), 29 deletions(-)
Title: Genomic Region Processing using Tools Such as 'BEDTools',
'BEDOPS' and 'Tabix'
Description: Genomic regions processing using open-source command line tools such as 'BEDTools', 'BEDOPS' and 'Tabix'.
These tools offer scalable and efficient utilities to perform genome arithmetic e.g indexing, formatting and merging.
bedr API enhances access to these tools as well as offers additional utilities for genomic regions processing.
Author: Syed Haider [aut],
Daryl Waggott [aut],
Emilie Lalonde [ctb],
Clement Fung [ctb],
Helena Winata [ctb],
Dan Knight [ctb],
Michael Chirico [ctb],
Melinda Luo [ctb],
Paul C. Boutros [aut, cre, cph]
Maintainer: Paul C. Boutros <pboutros@mednet.ucla.edu>
Diff between bedr versions 1.0.7 dated 2019-04-01 and 1.1.3 dated 2025-04-06
bedr-1.0.7/bedr/NEWS |only bedr-1.0.7/bedr/inst/extdata/gap.sql |only bedr-1.0.7/bedr/inst/extdata/gap.txt.gz |only bedr-1.0.7/bedr/inst/extdata/rmsk.sql |only bedr-1.0.7/bedr/inst/tests |only bedr-1.0.7/bedr/man/bedR-package.Rd |only bedr-1.0.7/bedr/tests/test.all.R |only bedr-1.1.3/bedr/DESCRIPTION | 35 bedr-1.1.3/bedr/MD5 | 118 - bedr-1.1.3/bedr/NAMESPACE | 114 - bedr-1.1.3/bedr/NEWS.md |only bedr-1.1.3/bedr/R/adjust.coordinates.R |only bedr-1.1.3/bedr/R/bedr.R | 3 bedr-1.1.3/bedr/R/get.bedpe.id.R |only bedr-1.1.3/bedr/R/get.strand.R |only bedr-1.1.3/bedr/R/in.region.R | 4 bedr-1.1.3/bedr/R/query.ucsc.R | 8 bedr-1.1.3/bedr/R/read.vcf.R | 4 bedr-1.1.3/bedr/R/test.region.similarity.R | 42 bedr-1.1.3/bedr/R/vcf2bedpe.R |only bedr-1.1.3/bedr/R/write.vcf.R | 4 bedr-1.1.3/bedr/build/vignette.rds |binary bedr-1.1.3/bedr/inst/config/config.yaml | 2 bedr-1.1.3/bedr/inst/doc/Using-bedr.R | 32 bedr-1.1.3/bedr/inst/doc/Using-bedr.Rmd | 14 bedr-1.1.3/bedr/inst/doc/Using-bedr.html | 1882 +++++++++++++++-------- bedr-1.1.3/bedr/inst/extdata/gridssSV.vcf.gz |only bedr-1.1.3/bedr/man/adjust.coordinates.Rd |only bedr-1.1.3/bedr/man/bedr.join.multiple.region.Rd | 2 bedr-1.1.3/bedr/man/bedr.join.region.Rd | 2 bedr-1.1.3/bedr/man/bedr.merge.region.Rd | 2 bedr-1.1.3/bedr/man/bedr.plot.region.Rd | 4 bedr-1.1.3/bedr/man/bedr.sort.region.Rd | 2 bedr-1.1.3/bedr/man/bedr.subtract.region.Rd | 2 bedr-1.1.3/bedr/man/cluster.region.Rd | 2 bedr-1.1.3/bedr/man/flank.region.Rd | 2 bedr-1.1.3/bedr/man/get.bedpe.id.Rd |only bedr-1.1.3/bedr/man/get.fasta.Rd | 2 bedr-1.1.3/bedr/man/get.strand.Rd |only bedr-1.1.3/bedr/man/grow.region.Rd | 2 bedr-1.1.3/bedr/man/in.region.Rd | 4 bedr-1.1.3/bedr/man/is.valid.ref.Rd | 21 bedr-1.1.3/bedr/man/jaccard.Rd | 2 bedr-1.1.3/bedr/man/order.region.Rd | 2 bedr-1.1.3/bedr/man/query.ucsc.Rd | 2 bedr-1.1.3/bedr/man/reldist.Rd | 4 bedr-1.1.3/bedr/man/vcf2bedpe.Rd |only bedr-1.1.3/bedr/tests/testthat |only bedr-1.1.3/bedr/tests/testthat.R |only bedr-1.1.3/bedr/vignettes/Using-bedr.Rmd | 14 50 files changed, 1528 insertions(+), 805 deletions(-)
Title: Augments 'ASReml-R' in Fitting Mixed Models and Packages
Generally in Exploring Prediction Differences
Description: Assists in automating the selection of terms to include in mixed models when
'asreml' is used to fit the models. Procedures are available for choosing models that
conform to the hierarchy or marginality principle, for fitting and choosing between
two-dimensional spatial models using correlation, natural cubic smoothing spline and
P-spline models. A history of the fitting of a sequence of models is kept in a data frame.
Also used to compute functions and contrasts of, to investigate differences between and
to plot predictions obtained using any model fitting function. The content falls into
the following natural groupings: (i) Data, (ii) Model modification functions, (iii) Model
selection and description functions, (iv) Model diagnostics and simulation functions,
(v) Prediction production and presentation functions, (vi) Response transformation
functions, (vii) Object manipulation functions, and (viii) Miscellaneous functions
(for further details see 'asremlPlus-package' in help). The [...truncated...]
Author: Chris Brien [aut, cre]
Maintainer: Chris Brien <chris.brien@adelaide.edu.au>
Diff between asremlPlus versions 4.4.46 dated 2025-02-16 and 4.4.48 dated 2025-04-06
DESCRIPTION | 8 ++-- MD5 | 30 +++++++-------- R/REMLRTIC.v4.r | 7 ++- R/choose.r | 8 ++-- R/psplineUtilities.v2.R | 2 - R/reml4.v13.r | 42 ++++++++++++++------- R/spatial.funcs.v11.r | 9 ++++ build/partial.rdb |binary inst/NEWS.Rd | 76 ++++++++++++++++++++++----------------- inst/doc/LadybirdEMMs.asreml.pdf |binary inst/doc/LadybirdEMMs.lm.pdf |binary inst/doc/Wheat.analysis.pdf |binary inst/doc/Wheat.infoCriteria.pdf |binary inst/doc/WheatSpatialModels.pdf |binary inst/doc/asremlPlus-manual.pdf |binary man/changeModelOnIC.asrtests.Rd | 6 ++- 16 files changed, 114 insertions(+), 74 deletions(-)
Title: Adds Functionality to the R Markdown + Shiny Bootstrap Framework
Description: The Bootstrap framework lets you add some JavaScript functionality to your web site by
adding attributes to your HTML tags - Bootstrap takes care of the JavaScript
<https://getbootstrap.com/docs/3.3/javascript/>. If you are using R Markdown or Shiny, you can
use these functions to create collapsible sections, accordion panels, modals, tooltips,
popovers, and an accordion sidebar framework (not described at Bootstrap site).
Please note this package was designed for Bootstrap 3.3.
Author: Ian Lyttle [aut, cre] ,
Alex Shum [ctb],
Emerson Berry [ctb]
Maintainer: Ian Lyttle <ijlyttle@me.com>
Diff between bsplus versions 0.1.4 dated 2022-11-15 and 0.1.5 dated 2025-04-06
DESCRIPTION | 13 +++++++------ MD5 | 10 +++++----- NEWS.md | 8 ++++++++ R/modal.R | 13 +++++++++++-- README.md | 2 -- man/bs_modal.Rd | 13 +++++++++++-- 6 files changed, 42 insertions(+), 17 deletions(-)
Title: Creating Tables of Excluded Observations
Description: Instead of counting observations before and after a subset()
call, the ExclusionTable() function reports the number before and after
each subset() call together with the number of observations that have been
excluded. This is especially useful in observational studies for keeping
track how many observations have been excluded for each in-/ or
exclusion criteria. You just need to provide ExclusionTable() with a
dataset and a list of logical filter statements.
Author: Joshua P. Entrop [aut, cre] ,
Simon Steiger [ctb]
Maintainer: Joshua P. Entrop <joshuaentrop@posteo.de>
Diff between ExclusionTable versions 1.1.0 dated 2023-09-21 and 1.2.0 dated 2025-04-06
DESCRIPTION | 18 MD5 | 29 NAMESPACE | 9 NEWS.md | 20 R/exclusion_table.R | 675 +++++++++++--------- R/print.exl_tbl.R | 294 ++++---- README.md | 112 +-- build/vignette.rds |binary inst/doc/ExclusionTable_vignette.R | 136 ++-- inst/doc/ExclusionTable_vignette.Rmd | 15 inst/doc/ExclusionTable_vignette.html | 1124 +++++++++++++++++----------------- man/exclusion_table.Rd | 173 ++--- man/print.exl_tbl.Rd | 40 - tests |only vignettes/ExclusionTable_vignette.Rmd | 15 15 files changed, 1406 insertions(+), 1254 deletions(-)
More information about ExclusionTable at CRAN
Permanent link
Title: Save Output of Statistical Tests
Description: Save the output of statistical tests in an organized file that can
be shared with others or used to report statistics in scientific papers.
Author: Willem Sleegers [aut, cre]
Maintainer: Willem Sleegers <w.sleegers@me.com>
Diff between tidystats versions 0.6.2 dated 2024-07-14 and 0.6.3 dated 2025-04-06
DESCRIPTION | 14 ++-- MD5 | 30 ++++----- NEWS.md | 7 ++ R/tidy_stats.R | 99 ++++++++++++++++++++++---------- R/tidy_stats.lmerMod.r | 86 +++++++++++++++++++-------- README.md | 4 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/custom-statistics.R | 74 +++++++++++------------ inst/doc/custom-statistics.html | 5 - inst/doc/introduction-to-tidystats.R | 2 inst/doc/introduction-to-tidystats.html | 5 - inst/doc/reusing-statistics.html | 5 - tests/data/lme4.json | 19 ++---- tests/data/lmerTest.json | 37 +++++------ tests/prep/prep_lme4.R | 3 16 files changed, 237 insertions(+), 153 deletions(-)
Title: Mathematical Modelling of (Dynamic) Microbial Inactivation
Description: Functions for modelling microbial inactivation under
isothermal or dynamic conditions. The calculations are based on several mathematical models broadly
used by the scientific community and industry. Functions enable to make predictions for cases where the
kinetic parameters are known. It also implements functions for parameter estimation for isothermal and
dynamic conditions. The model fitting capabilities include an Adaptive Monte Carlo method for a Bayesian
approach to parameter estimation.
Author: Alberto Garre [aut, cre],
Pablo S. Fernandez [aut],
Jose A. Egea [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>
Diff between bioinactivation versions 1.2.3 dated 2019-08-01 and 1.3.0 dated 2025-04-06
DESCRIPTION | 19 MD5 | 155 +-- NAMESPACE | 131 +-- NEWS.md | 10 R/AIC_functions.R | 314 +++---- R/arrhenius_model.R | 128 +-- R/bigelow_model.R | 228 ++--- R/calculate_cost.R | 7 R/doc_examples.R | 144 +-- R/dynamic_fit.R | 21 R/fit_MCMC.R | 19 R/function_mapping.R | 219 ++--- R/geeraerd_model.R | 138 +-- R/isothermal_fit.R | 8 R/isothermal_models.R | 55 - R/make_predictions.R | 26 R/methods_s3_others.R | 270 +++--- R/methods_s3_plot.R | 725 ++++++++--------- R/metselaar_model.R | 136 +-- R/predict_MCMC.R | 10 R/temperature_interpolation.R | 86 +- R/time_to_reduction.R | 116 +- R/weibull-mafart_model.R | 246 ++--- R/weibull-peleg_model.R | 260 +++--- build/vignette.rds |binary data/dynamic_inactivation.rda |binary inst/CITATION | 29 inst/doc/inactivation.R | 141 +-- inst/doc/inactivation.Rmd | 31 inst/doc/inactivation.html | 1399 +++++++++++++++++++++++----------- man/Arrhenius_iso.Rd | 58 - man/Bigelow_iso.Rd | 54 - man/Geeraerd_iso.Rd |only man/Metselaar_iso.Rd | 64 - man/WeibullMafart_iso.Rd | 60 - man/WeibullPeleg_iso.Rd | 56 - man/build_temperature_interpolator.Rd | 58 - man/check_model_params.Rd | 70 - man/dArrhenius_model.Rd | 104 +- man/dBigelow_model.Rd | 108 +- man/dGeeraerd_model.Rd | 139 +-- man/dMafart_model.Rd | 127 +-- man/dMetselaar_model.Rd | 129 +-- man/dPeleg_model.Rd | 127 +-- man/dynamic_inactivation.Rd | 46 - man/fit_dynamic_inactivation.Rd | 194 ++-- man/fit_inactivation_MCMC.Rd | 191 ++-- man/fit_isothermal_inactivation.Rd | 161 ++- man/get_isothermal_model_data.Rd | 52 - man/get_model_data.Rd | 90 +- man/get_prediction_cost.Rd | 79 - man/goodness_MCMC.Rd | 28 man/goodness_dyna.Rd | 28 man/goodness_iso.Rd | 28 man/goodness_of_fit.Rd | 52 - man/is.FitInactivation.Rd | 36 man/is.FitInactivationMCMC.Rd | 36 man/is.IsoFitInactivation.Rd | 36 man/is.PredInactivationMCMC.Rd | 36 man/is.SimulInactivation.Rd | 36 man/isothermal_inactivation.Rd | 46 - man/laterosporus_dyna.Rd | 46 - man/laterosporus_iso.Rd | 46 - man/plot.FitInactivation.Rd | 87 +- man/plot.FitInactivationMCMC.Rd | 87 +- man/plot.IsoFitInactivation.Rd | 48 - man/plot.PredInactivationMCMC.Rd | 74 - man/plot.SimulInactivation.Rd | 85 +- man/predict_inactivation.Rd | 201 ++-- man/predict_inactivation_MCMC.Rd | 98 +- man/sample_IsoFit.Rd | 79 - man/sample_MCMCfit.Rd | 66 - man/sample_dynaFit.Rd | 80 - man/summary.FitInactivation.Rd | 32 man/summary.FitInactivationMCMC.Rd | 32 man/summary.IsoFitInactivation.Rd | 32 man/time_to_logreduction.Rd | 40 tests/testthat.R | 120 +- vignettes/inactivation.Rmd | 31 79 files changed, 4662 insertions(+), 4022 deletions(-)
More information about bioinactivation at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-12-06 0.1.2
2021-10-28 0.1.1
Title: Skill Estimation Based on a Single Bayesian Network
Description: Most estimators implemented by the video game industry cannot obtain reliable initial estimates nor guarantee comparability between distant estimates. TrueSkill Through Time solves all these problems by modeling the entire history of activities using a single Bayesian network allowing the information to propagate correctly throughout the system. This algorithm requires only a few iterations to converge, allowing millions of observations to be analyzed using any low-end computer.
Landfried G, Mocskos E (2025). "TrueSkill Through Time: Reliable Initial Skill Estimates and Historical Comparability with Julia, Python, and R." <doi:10.18637/jss.v112.i06>.
The core ideas implemented in this project were developed by Dangauthier P, Herbrich R, Minka T, Graepel T (2007). "Trueskill through time: Revisiting the history of chess.".
Author: Gustavo Landfried [aut, cre]
Maintainer: Gustavo Landfried <gustavolandfried@gmail.com>
Diff between TrueSkillThroughTime versions 0.1.1 dated 2023-04-26 and 1.0.0 dated 2025-04-06
DESCRIPTION | 18 +++++++++++------- MD5 | 5 +++-- R/trueskillthroughtime.R | 2 +- inst |only 4 files changed, 15 insertions(+), 10 deletions(-)
More information about TrueSkillThroughTime at CRAN
Permanent link
Title: Spring Phenological Prediction
Description: Predicts the occurrence times (in day-of-year) of spring phenological events. Three methods, including the accumulated degree days (ADD) method, the accumulated days transferred to a standardized temperature (ADTS) method, and the accumulated developmental progress (ADP) method, were used. See Shi et al. (2017a) <doi:10.1016/j.agrformet.2017.04.001> and Shi et al. (2017b) <doi:10.1093/aesa/sax063> for details.
Author: Peijian Shi [aut, cre],
Zhenghong Chen [aut],
Jing Tan [aut],
Brady K. Quinn [aut]
Maintainer: Peijian Shi <pjshi@njfu.edu.cn>
Diff between spphpr versions 1.0.0 dated 2025-01-08 and 1.1.4 dated 2025-04-06
DESCRIPTION | 10 ++++++---- MD5 | 34 +++++++++++++++++++++++----------- R/ADD2.R |only R/ADP2.R |only R/ADTS.R | 2 +- R/ADTS2.R |only R/predADD2.R |only R/predADP2.R |only R/predADTS2.R |only build/partial.rdb |binary man/ADD.Rd | 20 ++++++++++---------- man/ADD2.Rd |only man/ADP.Rd | 21 +++++++++++---------- man/ADP2.Rd |only man/ADTS.Rd | 18 +++++++++--------- man/ADTS2.Rd |only man/predADD.Rd | 25 +++++++++++++------------ man/predADD2.Rd |only man/predADP.Rd | 12 ++++++------ man/predADP2.Rd |only man/predADTS.Rd | 21 +++++++++++---------- man/predADTS2.Rd |only man/spphpr.Rd | 4 ++-- man/toDOY.Rd | 4 ++-- 24 files changed, 94 insertions(+), 77 deletions(-)
Title: Friendly Input-Output Analysis
Description: Simplifies the process of importing and managing input-output
matrices from 'Microsoft Excel' into R, and provides a suite of functions for
analysis. It leverages the 'R6' class for clean, memory-efficient
object-oriented programming. Furthermore, all linear algebra computations are
implemented in 'Rust' to achieve highly optimized performance.
Author: Alberson da Silva Miranda [aut, cre, cph]
,
Celso Bissoli Sessa [dtc]
Maintainer: Alberson da Silva Miranda <albersonmiranda@hotmail.com>
Diff between fio versions 0.1.5 dated 2025-04-02 and 0.1.6 dated 2025-04-06
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NEWS.md | 5 ++++- README.md | 12 ++++++------ build/partial.rdb |binary inst/WORDLIST | 12 +++++------- inst/doc/getting_started.html | 4 ++-- src/Makevars.in | 3 ++- src/Makevars.win.in | 3 ++- src/rust/Cargo.lock | 2 +- src/rust/Cargo.toml | 2 +- src/rust/vendor.tar.xz |binary 12 files changed, 38 insertions(+), 35 deletions(-)
Title: Functions for Discordant Kinship Modeling
Description: Functions for discordant kinship modeling (and other sibling-based quasi-experimental designs). Contains data restructuring functions and functions for generating biometrically informed data for kin pairs. See [Garrison and Rodgers, 2016 <doi:10.1016/j.intell.2016.08.008>], [Sims, Trattner, and Garrison, 2024 <doi:10.3389/fpsyg.2024.1430978>] for empirical examples, and Garrison et al for theoretical work <https://osf.io/zpdwt/>.
Author: S. Mason Garrison [aut, cre, cph]
,
Jonathan Trattner [aut] ,
Yoo Ri Hwang [aut],
Cermet Ream [ctb]
Maintainer: S. Mason Garrison <garrissm@wfu.edu>
Diff between discord versions 1.1.0 dated 2021-07-15 and 1.2.3 dated 2025-04-06
discord-1.1.0/discord/R/discord.R |only discord-1.1.0/discord/data/sample_data.rda |only discord-1.1.0/discord/man/sample_data.Rd |only discord-1.2.3/discord/DESCRIPTION | 36 discord-1.2.3/discord/MD5 | 82 - discord-1.2.3/discord/NAMESPACE | 17 discord-1.2.3/discord/NEWS.md | 55 discord-1.2.3/discord/R/data.R | 28 discord-1.2.3/discord/R/discord-package.R |only discord-1.2.3/discord/R/func_discord_data.R | 245 +-- discord-1.2.3/discord/R/func_discord_regression.R | 182 +- discord-1.2.3/discord/R/func_kinsim.R | 447 +++-- discord-1.2.3/discord/R/helpers_regression.R | 402 ++-- discord-1.2.3/discord/R/helpers_simulation.R | 273 ++- discord-1.2.3/discord/R/legacy.R | 386 ++-- discord-1.2.3/discord/R/utils_conditions.R |only discord-1.2.3/discord/README.md | 107 - discord-1.2.3/discord/build |only discord-1.2.3/discord/data/data_flu_ses.rda |only discord-1.2.3/discord/data/data_sample.rda |only discord-1.2.3/discord/inst/WORDLIST | 32 discord-1.2.3/discord/inst/doc |only discord-1.2.3/discord/man/check_discord_errors.Rd | 50 discord-1.2.3/discord/man/check_sibling_order.Rd | 56 discord-1.2.3/discord/man/data_flu_ses.Rd |only discord-1.2.3/discord/man/data_sample.Rd |only discord-1.2.3/discord/man/discord-package.Rd | 82 - discord-1.2.3/discord/man/discord_cond.Rd |only discord-1.2.3/discord/man/discord_data.Rd | 120 - discord-1.2.3/discord/man/discord_data_legacy.Rd | 112 - discord-1.2.3/discord/man/discord_regression.Rd | 114 - discord-1.2.3/discord/man/discord_regression_legacy.Rd | 72 discord-1.2.3/discord/man/kinsim.Rd | 179 +- discord-1.2.3/discord/man/kinsim_internal.Rd | 111 - discord-1.2.3/discord/man/make_mean_diffs.Rd |only discord-1.2.3/discord/man/rmvn.Rd | 42 discord-1.2.3/discord/tests/testthat.R | 8 discord-1.2.3/discord/tests/testthat/test-discord_regression.R | 197 +- discord-1.2.3/discord/tests/testthat/test-discord_regression_arguments.R | 286 +-- discord-1.2.3/discord/tests/testthat/test-discord_regression_legacy.R | 244 +-- discord-1.2.3/discord/tests/testthat/test-kinsim.R |only discord-1.2.3/discord/tests/testthat/test-new-legacy.R | 805 +++++----- discord-1.2.3/discord/tests/testthat/test-utils_conditions.R |only discord-1.2.3/discord/vignettes |only 44 files changed, 2688 insertions(+), 2082 deletions(-)
Title: Fast and Vectorized Base 64 Engine
Description: Provides a fast, lightweight, and vectorized base 64 engine
to encode and decode character and raw vectors as well as files stored
on disk. Common base 64 alphabets are supported out of the box
including the standard, URL-safe, bcrypt, crypt, 'BinHex', and
IMAP-modified UTF-7 alphabets. Custom engines can be created to
support unique base 64 encoding and decoding needs.
Author: Josiah Parry [aut, cre] ,
Etienne Bacher [ctb]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Diff between b64 versions 0.1.4 dated 2025-03-31 and 0.1.5 dated 2025-04-06
b64-0.1.4/b64/README.md |only b64-0.1.5/b64/DESCRIPTION | 6 +++--- b64-0.1.5/b64/MD5 | 13 ++++++------- b64-0.1.5/b64/src/Makevars.in | 2 +- b64-0.1.5/b64/src/Makevars.win.in | 2 +- b64-0.1.5/b64/src/rust/Cargo.lock | 32 ++++++++++++++++---------------- b64-0.1.5/b64/src/rust/Cargo.toml | 1 + b64-0.1.5/b64/src/rust/vendor.tar.xz |binary 8 files changed, 28 insertions(+), 28 deletions(-)
Title: Algorithmic Experimental Design
Description: Algorithmic experimental designs. Calculates exact and
approximate theory experimental designs for D,A, and I
criteria. Very large designs may be created. Experimental
designs may be blocked or blocked designs created from a
candidate list, using several criteria. The blocking can be
done when whole and within plot factors interact.
Author: Bob Wheeler [aut],
Jerome Braun [cre]
Maintainer: Jerome Braun <jvbraun.statistics@gmail.com>
Diff between AlgDesign versions 1.2.1.1 dated 2024-09-21 and 1.2.1.2 dated 2025-04-06
DESCRIPTION | 24 +- INDEX |only MD5 | 43 ++-- build/vignette.rds |binary data/CCTable11.1a.rda |binary data/GVTable1.rda |binary data/GVTable3.rda |binary data/TGTable3.rda |binary data/TGTable5.rda |binary inst/doc/AlgDesign.pdf |binary man/AlgDesign-Internal.Rd | 30 +- man/EffRound.Rd | 70 +++--- man/Federov.Rd | 482 +++++++++++++++++++++++----------------------- man/ModelMatrix.Rd | 66 +++--- man/ModelMatrixTerms.Rd | 30 +- man/MonteOpt.Rd | 462 ++++++++++++++++++++++---------------------- man/blockOpt.Rd | 328 +++++++++++++++---------------- man/genFact.Rd | 82 +++---- man/genMixture.Rd | 66 +++--- src/FederovOpt.c | 88 ++++---- src/OptBlock.c | 72 +++--- src/Utility.c | 6 src/wheeler.h | 4 23 files changed, 926 insertions(+), 927 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-10-08 1.1.3
Title: Functions to Handle and Preprocess Infrared Spectra
Description: Functions to import and handle infrared spectra (import from '.csv' and
Thermo Galactic's '.spc', baseline correction, binning, clipping,
interpolating, smoothing, averaging, adding, subtracting, dividing,
multiplying, atmospheric correction, 'tidyverse' methods, plotting).
Author: Henning Teickner [aut, cre, cph]
Maintainer: Henning Teickner <henning.teickner@uni-muenster.de>
Diff between ir versions 0.2.1 dated 2022-05-02 and 0.4.1 dated 2025-04-06
DESCRIPTION | 29 - MD5 | 206 ++++----- NAMESPACE | 9 NEWS.md | 71 ++- R/Ops.R | 265 ++++++----- R/bind.R | 4 R/data.R | 2 R/ir.R | 157 ++++++- R/ir_average.R | 12 R/ir_bc.R | 174 ++++--- R/ir_bin.R | 115 ++++- R/ir_clip.R | 54 +- R/ir_correct_atmosphere.R |only R/ir_export_prepare.R |only R/ir_flat.R | 2 R/ir_flatten.R | 43 + R/ir_get_intensity.R | 6 R/ir_get_spectrum.R | 2 R/ir_get_wavenumberindex.R | 18 R/ir_import_csv.R | 8 R/ir_import_spc.R | 11 R/ir_interpolate.R | 91 ++-- R/ir_interpolate_region.R | 5 R/ir_normalize.R | 108 +++- R/ir_remove_missing.R | 4 R/ir_sample_prospectr.R |only R/ir_scale.R |only R/ir_smooth.R | 44 + R/ir_stack.R | 27 - R/ir_to_transmittance.R | 6 R/ir_variance_region.R | 6 R/plot.ir.R | 13 R/range.R | 8 R/tidyverse.R | 34 - R/utils-pipe.R | 28 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION |only inst/REFERENCES.bib | 187 +++----- inst/WORDLIST | 27 - inst/doc/ir-class.R | 79 +-- inst/doc/ir-class.Rmd | 53 +- inst/doc/ir-class.html | 481 +++++++++++---------- inst/doc/ir-introduction.R | 99 ++-- inst/doc/ir-introduction.Rmd | 157 +++---- inst/doc/ir-introduction.html | 581 +++++++++++++------------- man/Ops.ir.Rd | 8 man/arrange.ir.Rd | 7 man/bind.Rd | 72 +-- man/distinct.ir.Rd | 8 man/extract.ir.Rd | 11 man/figures/README-sample_data_workflow-1.png |binary man/filter-joins.Rd | 56 +- man/filter.ir.Rd | 11 man/group_by.Rd | 2 man/ir-package.Rd | 4 man/ir_add.Rd | 13 man/ir_as_ir.Rd | 158 ++++--- man/ir_average.Rd | 29 + man/ir_bc.Rd | 36 - man/ir_bc_polynomial.Rd | 12 man/ir_bc_rubberband.Rd | 12 man/ir_bc_sg.Rd | 8 man/ir_bin.Rd | 51 +- man/ir_clip.Rd | 13 man/ir_correct_atmosphere.Rd |only man/ir_divide.Rd | 11 man/ir_drop_spectra.Rd | 48 +- man/ir_export_prepare.Rd |only man/ir_flatten.Rd | 2 man/ir_get_intensity.Rd | 2 man/ir_get_spectrum.Rd | 2 man/ir_get_wavenumberindex.Rd | 4 man/ir_identify_empty_spectra.Rd |only man/ir_import_csv.Rd | 8 man/ir_interpolate.Rd | 12 man/ir_interpolate_region.Rd | 2 man/ir_multiply.Rd | 11 man/ir_new_ir.Rd | 78 +-- man/ir_new_ir_flat.Rd | 2 man/ir_normalize.Rd | 74 ++- man/ir_remove_missing.Rd | 4 man/ir_sample_data.Rd | 2 man/ir_sample_prospectr.Rd |only man/ir_scale.Rd |only man/ir_smooth.Rd | 24 - man/ir_stack.Rd | 10 man/ir_subtract.Rd | 11 man/ir_to_transmittance.Rd | 6 man/ir_variance_region.Rd | 6 man/mutate-joins.Rd | 67 +- man/mutate.Rd | 8 man/nest.Rd | 55 +- man/pipe.Rd | 40 - man/pivot_longer.ir.Rd | 10 man/pivot_wider.ir.Rd | 18 man/plot.ir.Rd | 1 man/range.Rd | 170 +++---- man/rename.Rd | 2 man/rep.ir.Rd | 56 +- man/rowwise.ir.Rd | 4 man/select.ir.Rd | 2 man/separate.ir.Rd | 23 - man/separate_rows.ir.Rd | 6 man/slice.Rd | 33 - man/summarize.Rd | 23 - man/unite.ir.Rd | 12 vignettes/ir-class.Rmd | 53 +- vignettes/ir-introduction.Rmd | 157 +++---- 109 files changed, 2810 insertions(+), 1986 deletions(-)