CRANberries

Fri, 21 Feb 2025

New package runExamplesWrapper with initial version 1.0
Package: runExamplesWrapper
Version: 1.0
Date: 2025-02-20
Title: Wrapper for 'run_examples()'
Maintainer: Barry Zeeberg <barryz2013@gmail.com>
Author: Barry Zeeberg [aut, cre]
Depends: R (>= 4.2.0)
Imports: devtools
Description: Captures errors encountered when running 'run_examples()', and processes and archives them. The function 'run_examples()' within the 'devtools' package allows batch execution of all of the examples within a given package. This is much more convenient than testing each example manually. However, a major inconvenience is that if an error is encountered, the program stops and does not complete testing the remaining examples. Also, there is not a systematic record of the results, namely which package functions had no examples, which had examples that failed, and which had examples that succeeded. The current package provides the missing functionality.
License: GPL (>= 2)
Encoding: UTF-8
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-21 12:58:01 UTC; barryzeeberg
Repository: CRAN
Date/Publication: 2025-02-21 20:20:02 UTC

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New package HGDMr with initial version 1.0.0
Package: HGDMr
Title: Hysteretic and Gatekeeping Depressions Model
Version: 1.0.0
Date: 2025-02-19
Author: Kevin Shook [cre, aut]
Maintainer: Kevin Shook <kevin.shook@usask.ca>
Description: Implementation of the Hysteretic and Gatekeeping Depressions Model (HGDM) which calculates variable connected/contributing areas and resulting discharge volumes in prairie basins dominated by depressions ("slough" or "potholes"). The small depressions are combined into a single "meta" depression which explicitly models the hysteresis between the storage of water and the connected/contributing areas of the depressions. The largest (greater than 5% of the total depressional area) depression (if it exists) is represented separately to model its gatekeeping, i.e. the blocking of upstream flows until it is filled. The methodolgy is described in detail in Shook and Pomeroy (2025, <doi:10.1016/j.jhydrol.2025.132821>).
License: GPL-3
URL: https://github.com/CentreForHydrology/HGDMr
Depends: R (>= 4.0.0)
Imports: stringr, stats
Suggests: knitr, testthat, rmarkdown, readr, ggplot2
VignetteBuilder: knitr
LazyData: true
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-21 13:14:12 UTC; kevin
Repository: CRAN
Date/Publication: 2025-02-21 20:20:05 UTC

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New package tab2xml with initial version 1.0.0
Package: tab2xml
Title: XML Generation from Tables
Version: 1.0.0
Description: Converting structured data from tables into XML format using predefined templates ensures consistency and flexibility, making it ideal for data exchange, reporting, and automated workflows.
License: MIT + file LICENSE
URL: https://josesamos.github.io/tab2xml/, https://github.com/josesamos/tab2xml
BugReports: https://github.com/josesamos/tab2xml/issues
Imports: readODS, readxl, stringr, tools
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), xml2
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-20 21:58:51 UTC; jsamos
Author: Jose Samos [aut, cre] , Universidad de Granada [cph]
Maintainer: Jose Samos <jsamos@ugr.es>
Repository: CRAN
Date/Publication: 2025-02-21 19:40:02 UTC

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New package gaawr2 with initial version 0.0.2
Package: gaawr2
Title: Genetic Association Analysis
Version: 0.0.2
Date: 2025-2-20
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Description: It gathers information, meta-data and scripts in a two-part Henry-Stewart talk by Zhao (2009, <doi:10.69645/DCRY5578>), which showcases analysis in aspects such as testing of polymorphic variant(s) for Hardy-Weinberg equilibrium, association with trait using genetic and statistical models as well as Bayesian implementation, power calculation in study design and genetic annotation. It also covers R integration with the Linux environment, GitHub, package creation and web applications.
License: MIT + file LICENSE
URL: https://jinghuazhao.github.io/gaawr2/, https://github.com/jinghuazhao/gaawr2
BugReports: https://github.com/jinghuazhao/gaawr2/issues
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: dplyr, gap, gap.datasets, ggplot2, survival, Rdpack
LazyData: Yes
LazyLoad: Yes
LazyDataCompression: xz
VignetteBuilder: knitr
Suggests: BLR, BGLR, biomaRt, bookdown, EnsDb.Hsapiens.v75, ensembldb, GMMAT, HardyWeinberg, haplo.stats, httr, httpuv, jsonlite, kableExtra, knitr, MCMCglmm, plumber, powerEQTL, R2jags, regress, seqminer, SNPassoc, testthat, tidyr
NeedsCompilation: no
Packaged: 2025-02-20 23:01:40 UTC; jhz22
Author: Jing Hua Zhao [aut, cre] , Benjamin Altmann [ctb]
Repository: CRAN
Date/Publication: 2025-02-21 19:40:05 UTC

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New package dnapath with initial version 0.7.6
Package: dnapath
Title: Differential Network Analysis using Gene Pathways
Version: 0.7.6
Description: Integrates pathway information into the differential network analysis of two gene expression datasets as described in Grimes, Potter, and Datta (2019) <doi:10.1038/s41598-019-41918-3>. Provides summary functions to break down the results at the pathway, gene, or individual connection level. The differential networks for each pathway of interest can be plotted, and the visualization will highlight any differentially expressed genes and all of the gene-gene associations that are significantly differentially connected.
Depends: R (>= 3.6)
License: GPL-2 | GPL-3
LazyData: true
Imports: Rcpp (>= 1.0.1), corpcor, igraph, ggplot2, SeqNet, Rdpack, dplyr, tibble, stats, methods, curl, graphics, grDevices, gtools, utils, wCorr, parallel
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
SystemRequirements: C++
Suggests: testthat (>= 2.1.0), knitr, rmarkdown, markdown, xml2, readr, bc3net, huge, GENIE3, minet, AnnotationDbi, reactome.db, biomaRt
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-21 01:57:02 UTC; gregory
Author: Tyler Grimes [aut, cre], Somnath Datta [aut]
Maintainer: Tyler Grimes <tylerlukegrimes@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-21 19:50:02 UTC

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New package BlueCarbon with initial version 0.1.0
Package: BlueCarbon
Title: Estimation of Organic Carbon Stocks and Sequestration Rates from Soil Core Data
Version: 0.1.0
Description: Tools to estimate soil organic carbon stocks and sequestration rates in blue carbon ecosystems. 'BlueCarbon' contains functions to estimate and correct for core compaction, estimate sample thickness, estimate organic carbon content from organic matter content, estimate organic carbon stocks and sequestration rates, and visualize the error of carbon stock extrapolation.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/EcologyR/BlueCarbon, https://ecologyr.github.io/BlueCarbon/
BugReports: https://github.com/EcologyR/BlueCarbon/issues
Depends: R (>= 4.1)
LazyData: true
Suggests: covr, testthat (>= 3.0.0)
Imports: dplyr, ggplot2, gridExtra, reshape
NeedsCompilation: no
Packaged: 2025-02-21 10:41:51 UTC; frs
Author: Nerea Pineiro-Juncal [aut, cre, cph] , Julen Astigarraga [aut] , Valentina Costa [aut] , Marcio Martins [aut] , Francisco Rodriguez-Sanchez [aut]
Maintainer: Nerea Pineiro-Juncal <nerea.pineiro.juncal@uvigo.gal>
Repository: CRAN
Date/Publication: 2025-02-21 20:00:02 UTC

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New package vigicaen with initial version 0.15.5
Package: vigicaen
Title: 'VigiBase' Pharmacovigilance Database Toolbox
Version: 0.15.5
Description: Perform the analysis of the World Health Organization (WHO) Pharmacovigilance database 'VigiBase' (Extract Case Level version), <https://who-umc.org/> e.g., load data, perform data management, disproportionality analysis, and descriptive statistics. Intended for pharmacovigilance routine use or studies. This package is NOT supported nor reflect the opinion of the WHO, or the Uppsala Monitoring Centre. Disproportionality methods are described by Norén et al (2013) <doi:10.1177/0962280211403604>.
Depends: R (>= 4.1.0),
License: CeCILL-2.1
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
URL: https://github.com/pharmacologie-caen/vigicaen, https://pharmacologie-caen.github.io/vigicaen/
BugReports: https://github.com/pharmacologie-caen/vigicaen/issues
Suggests: here, knitr, rmarkdown, testthat (>= 3.0.0), tzdb, vdiffr
Imports: arrow, cli, dplyr, data.table, fst, ggplot2, gridExtra, lifecycle, purrr, rlang, stringr, tidyr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-20 13:52:06 UTC; dolladi231
Author: Charles Dolladille [aut, cre] , Basile Chretien [aut] , Universite de Caen Normandie [cph] , Unite de pharmaco-epidemiologie [cph]
Maintainer: Charles Dolladille <cdolladille@hotmail.com>
Repository: CRAN
Date/Publication: 2025-02-21 11:30:03 UTC

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New package traumar with initial version 1.0.0
Package: traumar
Title: Calculate Metrics for Trauma System Performance
Version: 1.0.0
Description: Hospitals, hospital systems, and even trauma systems that provide care to injured patients may not be aware of robust metrics that can help gauge the efficacy of their programs in saving the lives of injured patients. 'traumar' provides robust functions driven by the academic literature to automate the calculation of relevant metrics to individuals desiring to measure the performance of their trauma center or even a trauma system. 'traumar' also provides some helper functions for the data analysis journey. Users can refer to the following publications for descriptions of the methods used in 'traumar'. TRISS methodology, including probability of survival, and the W, M, and Z Scores - Flora (1978) <doi:10.1097/00005373-197810000-00003>, Boyd et al. (1987, PMID:3106646), Llullaku et al. (2009) <doi:10.1186/1749-7922-4-2>, Singh et al. (2011) <doi:10.4103/0974-2700.86626>, Baker et al. (1974, PMID:4814394), and Champion et al. (1989) <doi:10.1097/00005373-198905000-0 [...truncated...]
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1)
Suggests: broom, testthat (>= 3.0.0)
Imports: cli (>= 3.6.3), dplyr (>= 1.1.4), ggplot2 (>= 3.5.1), rlang (>= 1.1.5), stats, tibble (>= 3.2.1), tidyr (>= 1.3.1), tidyselect (>= 1.2.1), utils, lubridate (>= 1.9.4), lifecycle (>= 1.0.4), infer (>= 1.0.7), purrr (>= 1.0.2)
URL: https://bemts-hhs.github.io/traumar/, https://github.com/bemts-hhs/traumar
BugReports: https://github.com/bemts-hhs/traumar/issues
NeedsCompilation: no
Packaged: 2025-02-20 19:15:00 UTC; nfoss0
Author: Nicolas Foss [aut, cre], Iowa Department of Health and Human Services [cph]
Maintainer: Nicolas Foss <nicolas.foss@hhs.iowa.gov>
Repository: CRAN
Date/Publication: 2025-02-21 11:50:07 UTC

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New package steppedwedge with initial version 1.0.0
Package: steppedwedge
Title: Analyze Data from Stepped Wedge Cluster Randomized Trials
Version: 1.0.0
Description: Provide various functions and tools to help fit models for estimating treatment effects in stepped wedge cluster randomized trials. Implements methods described in Kenny, Voldal, Xia, and Heagerty (2022) "Analysis of stepped wedge cluster randomized trials in the presence of a time-varying treatment effect", <doi:10.1002/sim.9511>.
License: GPL-3
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
Imports: dplyr (>= 1.0.10), stats (>= 4.0.0), forcats (>= 1.0.0), stringr (>= 1.5.1), magrittr (>= 2.0.3), methods (>= 3.6.2), ggplot2 (>= 3.5.1), lme4 (>= 1.1.35.5), geepack (>= 1.3.12), performance (>= 0.12.4)
URL: https://avi-kenny.github.io/steppedwedge/, https://github.com/Avi-Kenny/steppedwedge
BugReports: https://github.com/Avi-Kenny/steppedwedge/issues
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2025-02-20 16:29:34 UTC; dea30
Author: Avi Kenny [aut, cre, cph], David Arthur [aut], Yongdong Ouyang [aut]
Maintainer: Avi Kenny <avi.kenny@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-21 11:40:03 UTC

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New package qountstat with initial version 0.1.1
Package: qountstat
Title: Statistical Analysis of Count Data and Quantal Data
Version: 0.1.1
Maintainer: Benjamin Daniels <Benjamin.Daniels@uba.de>
Description: Methods for statistical analysis of count data and quantal data. For the analysis of count data an implementation of the Closure Principle Computational Approach Test ("CPCAT") is provided (Lehmann, R et al. (2016) <doi:10.1007/s00477-015-1079-4>), as well as an implementation of a "Dunnett GLM" approach using a Quasi-Poisson regression (Hothorn, L, Kluxen, F (2020) <doi:10.1101/2020.01.15.907881>). For the analysis of quantal data an implementation of the Closure Principle Fisher–Freeman–Halton test ("CPFISH") is provided (Lehmann, R et al. (2018) <doi:10.1007/s00477-017-1392-1>). P-values and no/lowest observed (adverse) effect concentration values are calculated. All implemented methods include further functions to evaluate the power and the minimum detectable difference using a bootstrapping approach.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: multcomp
Suggests: knitr, rmarkdown, testthat
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2025-02-20 12:23:17 UTC; Benni Daniels
Author: Benjamin Daniels [cre, ctb] , Christian Dietrich [aut], Thomas Graeff [ctb], Magnus Wang [ctb]
Repository: CRAN
Date/Publication: 2025-02-21 11:30:25 UTC

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New package ILSAstats with initial version 0.3.7
Package: ILSAstats
Title: Statistics for International Large-Scale Assessments (ILSA)
Version: 0.3.7
Maintainer: Andres Christiansen <andres.christiansen@iea-hamburg.de>
Description: Calculates point estimates and standard errors using replicate weights and plausible values for International Large-Scale Assessments (ILSA), including: means, proportions, quantiles, correlations, singlelevel regressions, and multilevel regressions.
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Imports:
Suggests: wCorr, lme4, MuMIn, WeMix
Depends: R (>= 3.5.0)
License: GPL (>= 3)
NeedsCompilation: no
Packaged: 2025-02-20 18:18:32 UTC; andreschristiansen
Author: Andres Christiansen [aut, cre] , Andres Strello [ctb] , Pablo Torres [ctb]
Repository: CRAN
Date/Publication: 2025-02-21 11:40:39 UTC

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New package godley with initial version 0.2.1
Package: godley
Title: Stock-Flow-Consistent Model Simulator
Version: 0.2.1
Maintainer: Elżbieta Jowik <jowik.elzbieta@gmail.com>
Description: Define, simulate, and validate stock-flow consistent (SFC) macroeconomic models. The godley R package offers tools to dynamically define model structures by adding variables and specifying governing systems of equations. With it, users can analyze how different macroeconomic structures affect key variables, perform parameter sensitivity analyses, introduce policy shocks, and visualize resulting economic scenarios. The accounting structure of SFC models follows the approach outlined in the seminal study by Godley and Lavoie Godley and Lavoie (2007, ISBN:978-1-137-08599-3), ensuring a comprehensive integration of all economic flows and stocks. The algorithms implemented to solve the models are based on methodologies from Kinsella and O'Shea (2010) <doi:10.2139/ssrn.1729205>, Peressini and Sullivan (1988, ISBN:0-387-96614-5), and contributions by Joao Macalos.
URL: https://gamrot.github.io/godley/
BugReports: https://github.com/gamrot/godley/issues
License: GPL (>= 3)
Encoding: UTF-8
Imports: dplyr, stringr, tidyr, igraph, purrr, vctrs, rlang, rootSolve, plotly, magrittr, checkmate, vecsets, lubridate, data.table, tibble, visNetwork
Depends: R (>= 4.1.0)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-20 19:49:56 UTC; ejowik001
Author: Michal Gamrot [aut, cph], Iwo Augustynski [ctb], Julian Kacprzak [ctb], Elżbieta Jowik [cre, ctb]
Repository: CRAN
Date/Publication: 2025-02-21 11:50:24 UTC

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New package fetwfe with initial version 0.4.4
Package: fetwfe
Title: Fused Extended Two-Way Fixed Effects
Version: 0.4.4
Description: Calculates the fused extended two-way fixed effects (FETWFE) estimator for unbiased and efficient estimation of difference-in-differences in panel data with staggered treatment adoption. This estimator eliminates bias inherent in conventional two-way fixed effects estimators, while also employing a novel bridge regression regularization approach to improve efficiency and yield valid standard errors. Provides flexible tuning parameters (including user-specified or data-driven choices for penalty parameters), detailed output including overall and cohort-specific treatment effects with confidence intervals, and extensive diagnostic tools. See details in Faletto (2024) (<doi:10.48550/arXiv.2312.05985>).
License: MIT + file LICENSE
Encoding: UTF-8
Imports: expm, glmnet, grpreg
Suggests: bacondecomp, knitr, rmarkdown, dplyr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-20 18:58:55 UTC; gregfaletto
Author: Gregory Faletto [aut, cre]
Maintainer: Gregory Faletto <gfaletto@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-21 11:40:24 UTC

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New package chores with initial version 0.1.0
Package: chores
Title: A Collection of Large Language Model Assistants
Version: 0.1.0
Description: Provides a collection of ergonomic large language model assistants designed to help you complete repetitive, hard-to-automate tasks quickly. After selecting some code, press the keyboard shortcut you've chosen to trigger the package app, select an assistant, and watch your chore be carried out. While the package ships with a number of chore helpers for R package development, users can create custom helpers just by writing some instructions in a markdown file.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/simonpcouch/chores, https://simonpcouch.github.io/chores/
BugReports: https://github.com/simonpcouch/chores/issues
Imports: cli (>= 3.6.3), glue (>= 1.8.0), ellmer, miniUI (>= 0.1.1.1), rlang (>= 1.1.4), rstudioapi (>= 0.17.1), shiny (>= 1.9.1), streamy
Suggests: gt, knitr, rmarkdown, testthat (>= 3.0.0), tibble, withr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-20 20:05:47 UTC; simoncouch
Author: Simon Couch [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Repository: CRAN
Date/Publication: 2025-02-21 11:50:33 UTC

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Thu, 20 Feb 2025

New package transportr with initial version 0.1.0
Package: transportr
Title: Transporting Intervention Effects from One Population to Another
Version: 0.1.0
Description: Doubly-robust, non-parametric estimators for the transported average treatment effect from Rudolph, Williams, Stuart, and Diaz (2023) <doi:10.48550/arXiv.2304.00117> and the intent-to-treatment average treatment effect from Rudolph and van der Laan (2017) <doi:10.1111/rssb.12213>. Estimators are fit using cross-fitting and nuisance parameters are estimated using the Super Learner algorithm.
License: GPL (>= 3)
Encoding: UTF-8
Imports: checkmate, cli, generics, ife, mlr3superlearner, origami, R6
URL: https://github.com/nt-williams/transportr
BugReports: https://github.com/nt-williams/transportr/issues
Suggests: ranger, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-19 17:43:26 UTC; nicholaswilliams
Author: Nicholas Williams [aut, cre, cph] , Kara Rudolph [aut, cph]
Maintainer: Nicholas Williams <ntwilliams.personal@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-20 18:10:02 UTC

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New package GitAI with initial version 0.1.0
Package: GitAI
Title: Extracts Knowledge from 'Git' Repositories
Version: 0.1.0
Description: Scan multiple 'Git' repositories, pull specified files content and process it with large language models. You can summarize the content in specific way, extract information and data, or find answers to your questions about the repositories. The output can be stored in vector database and used for semantic search or as a part of a RAG (Retrieval Augmented Generation) prompt.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: cli (>= 3.4.0), ellmer, GitStats (>= 2.2.0), httr2, lubridate, R6, S7, dplyr, purrr, rlang, glue
Suggests: testthat (>= 3.0.0), shiny, shinychat, withr, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-20 07:39:16 UTC; banasm
Author: Kamil Wais [aut, cre], Krystian Igras [aut], Maciej Banas [aut]
Maintainer: Kamil Wais <kamil.wais@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-20 18:40:16 UTC

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New package UAHDataScienceO with initial version 1.0.0
Package: UAHDataScienceO
Title: Educational Outlier Detection Algorithms with Step-by-Step Tutorials
Version: 1.0.0
Maintainer: Andriy Protsak Protsak <andriy.protsak@edu.uah.es>
Description: Provides implementations of some of the most important outlier detection algorithms. Includes a tutorial mode option that shows a description of each algorithm and provides a step-by-step execution explanation of how it identifies outliers from the given data with the specified input parameters. References include the works of Azzedine Boukerche, Lining Zheng, and Omar Alfandi (2020) <doi:10.1145/3381028>, Abir Smiti (2020) <doi:10.1016/j.cosrev.2020.100306>, and Xiaogang Su, Chih-Ling Tsai (2011) <doi:10.1002/widm.19>.
License: MIT + file LICENSE
Encoding: UTF-8
VignetteBuilder: knitr
Suggests: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2025-02-18 16:21:45 UTC; andriy
Author: Andres Missiego Manjon [aut], Juan Jose Cuadrado Gallego [aut] , Andriy Protsak Protsak [aut, cre], Universidad de Alcala de Henares [cph]
Repository: CRAN
Date/Publication: 2025-02-20 17:20:08 UTC

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New package skewunit with initial version 1.0
Package: skewunit
Title: Estimation and Other Tools for Skew-Unit Models
Version: 1.0
Date: 2025-02-19
Author: Diego Gallardo [aut, cre], Emilio Gomez-Deniz [aut], Osvaldo Venegas [aut], Hector W. Gomez [aut]
Maintainer: Diego Gallardo <dgallardo@ubiobio.cl>
Description: Provide estimation and data generation tools for the skew-unit family discussed based on Mukhopadhyay and Brani (1995) <doi:10.2307/2348710>. The family contains extensions for popular distributions such as the ArcSin discussed in Arnold and Groeneveld (1980) <doi:10.1080/01621459.1980.10477449>, triangular, U-quadratic and Johnson-SB proposed in Cortina-Borja (2006) <doi:10.1111/j.1467-985X.2006.00446_12.x> distributions, among others.
Depends: R (>= 4.0.0), stats
Imports: pracma
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2025-02-19 02:46:16 UTC; Diego
Repository: CRAN
Date/Publication: 2025-02-20 17:50:02 UTC

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New package RobPC with initial version 1.4
Package: RobPC
Date: 2025-02-14
Title: Robust Panel Clustering Algorithm
Version: 1.4
Author: Hasan Bulut [aut, cre]
Maintainer: Hasan Bulut <hasan.bulut@omu.edu.tr>
Description: Performs both classical and robust panel clustering by applying Principal Component Analysis (PCA) for dimensionality reduction and clustering via standard K-Means or Trimmed K-Means. The method is designed to ensure stable and reliable clustering, even in the presence of outliers. Suitable for analyzing panel data in domains such as economic research, financial time-series, healthcare analytics, and social sciences. The package allows users to choose between classical K-Means for standard clustering and Trimmed K-Means for robust clustering, making it a flexible tool for various applications. For this package, we have benefited from the studies Rencher (2003), Wang and Lu (2021) <DOI:10.25236/AJBM.2021.031018>, Cuesta-Albertos et al. (1997) <https://www.jstor.org/stable/2242558?seq=1>.
License: GPL-2
Depends: R (>= 4.0)
Imports: stats, trimcluster
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-18 19:16:43 UTC; hsn
Repository: CRAN
Date/Publication: 2025-02-20 17:30:06 UTC

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New package pseudorank with initial version 1.0.4
Package: pseudorank
Title: Pseudo-Ranks
Version: 1.0.4
Date: 2025-02-18
Maintainer: Martin Happ <statistics@happ.co.at>
Description: Efficient calculation of pseudo-ranks and (pseudo)-rank based test statistics. In case of equal sample sizes, pseudo-ranks and mid-ranks are equal. When used for inference mid-ranks may lead to paradoxical results. Pseudo-ranks are in general not affected by such a problem. See Happ et al. (2020, <doi:10.18637/jss.v095.c01>) for details.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
Imports: Rcpp (>= 0.12.16), doBy
LinkingTo: Rcpp
URL: https://github.com/happma/pseudorank/
BugReports: https://github.com/happma/pseudorank/issues/
Suggests: testthat
NeedsCompilation: yes
Packaged: 2025-02-18 17:00:55 UTC; happma
Author: Martin Happ [aut, cre] , Georg Zimmermann [aut], Arne C. Bathke [aut], Edgar Brunner [aut]
Repository: CRAN
Date/Publication: 2025-02-20 17:20:02 UTC

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New package orcamentoBR with initial version 1.0.2
Package: orcamentoBR
Title: Download Official Data on Brazil's Federal Budget
Version: 1.0.2
Description: Allows users to download and analyze official data on Brazil's federal budget through the 'SPARQL' endpoint provided by the Integrated Budget and Planning System ('SIOP'). This package enables access to detailed information on budget allocations and expenditures of the federal government, making it easier to analyze and visualize these data. Technical information on the Brazilian federal budget is available (Portuguese only) at <https://www1.siop.planejamento.gov.br/mto/>. The 'SIOP' endpoint is available at <https://www1.siop.planejamento.gov.br/sparql/>.
License: GPL (>= 3)
Encoding: UTF-8
Imports: httr, jsonlite
NeedsCompilation: no
Packaged: 2025-02-18 20:46:04 UTC; daniel.reiss
Author: Daniel G. Reiss [aut, cre] , Bernardo Borba de Andrade [ctb] , Gustavo Jose de Guimaraes e Souza [ctb] , Ministerio do Planejamento e Orcamento [cph, fnd]
Maintainer: Daniel G. Reiss <daniel.reiss@planejamento.gov.br>
Repository: CRAN
Date/Publication: 2025-02-20 17:30:02 UTC

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New package HRTnomaly with initial version 25.2.18
Package: HRTnomaly
Classification/MSC-2010: 62G86
Title: Historical, Relational, and Tail Anomaly-Detection Algorithms
Version: 25.2.18
Date: 2025-02-18
Maintainer: Luca Sartore <drwolf85@gmail.com>
Description: The presence of outliers in a dataset can substantially bias the results of statistical analyses. To correct for outliers, micro edits are manually performed on all records. A set of constraints and decision rules is typically used to aid the editing process. However, straightforward decision rules might overlook anomalies arising from disruption of linear relationships. Computationally efficient methods are provided to identify historical, tail, and relational anomalies at the data-entry level (Sartore et al., 2024; <doi:10.6339/24-JDS1136>). A score statistic is developed for each anomaly type, using a distribution-free approach motivated by the Bienaymé-Chebyshev's inequality, and fuzzy logic is used to detect cellwise outliers resulting from different types of anomalies. Each data entry is individually scored and individual scores are combined into a final score to determine anomalous entries. In contrast to fuzzy logic, Bayesian bootstrap and a Bayesian test based on empiric [...truncated...]
License: AGPL-3
Depends: R (>= 4.0.0)
Imports: dplyr, purrr, tidyr
Suggests: knitr, rmarkdown, cellWise
Encoding: UTF-8
LazyLoad: yes
NeedsCompilation: yes
ByteCompile: TRUE
Packaged: 2025-02-18 22:30:35 UTC; sartore
Author: Luca Sartore [aut] , Luca Sartore [cre] , Lu Chen [aut] , Justin van Wart [aut], Andrew Dau [aut] , Valbona Bejleri [aut]
Repository: CRAN
Date/Publication: 2025-02-20 17:40:06 UTC

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New package expertsurv with initial version 1.4.0
Package: expertsurv
Title: Incorporate Expert Opinion with Parametric Survival Models
Version: 1.4.0
Date: 2025-02-17
Description: Enables users to incorporate expert opinion with parametric survival analysis using a Bayesian or frequentist approach. Expert Opinion can be provided on the survival probabilities at certain time-point(s) or for the difference in mean survival between two treatment arms. Please reference it's use as Cooney, P., White, A. (2023) <doi:10.1177/0272989X221150212>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Biarch: true
Depends: R (>= 3.5.0), survival
Imports: abind, assertthat, dplyr, generics, ggplot2, magrittr (>= 2.0), Matrix, numDeriv, purrr, Rcpp (>= 0.12.0), Rdpack, rlang, rms, rstan (>= 2.26.0), rstantools (>= 2.2.0), rstpm2, scales, SHELF, statmod, stats, stringr, tibble, tidyr, tidyselect, utils, broom, sn, muhaz, mvtnorm, quadprog,
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppArmadillo, RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), rstan (>= 2.26.0), splines2, StanHeaders (>= 2.26.0)
SystemRequirements: GNU make
Suggests: rmarkdown, bookdown, knitr, rjags, R2jags, loo, xlsx, shiny, shinyWidgets, shinycssloaders, shinyjs, shinyMatrix, shinybusy, ggpubr, splines2, survminer, colorspace, testthat, covr, eha
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-19 15:25:05 UTC; phili
Author: Philip Cooney [aut, cre] , Arthur White [ths]
Maintainer: Philip Cooney <phcooney@tcd.ie>
Repository: CRAN
Date/Publication: 2025-02-20 18:00:02 UTC

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New package codelist with initial version 0.1.0
Package: codelist
Title: Working with Code Lists
Version: 0.1.0
Description: Functions for working with code lists and vectors with codes. These are an alternative for factor that keep track of both the codes and labels. Methods allow for transforming between codes and labels. Also supports hierarchical code lists.
Depends: R (>= 4.1.0)
Imports: utils, methods
Suggests: simplermarkdown
VignetteBuilder: simplermarkdown
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-19 15:12:08 UTC; eoos
Author: Jan van der Laan [aut, cre]
Maintainer: Jan van der Laan <r@eoos.dds.nl>
Repository: CRAN
Date/Publication: 2025-02-20 18:00:06 UTC

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Wed, 19 Feb 2025

New package pmlbr with initial version 0.2.3
Package: pmlbr
Title: Interface to the Penn Machine Learning Benchmarks Data Repository
Description: Check available classification and regression data sets from the PMLB repository and download them. The PMLB repository (<https://github.com/EpistasisLab/pmlbr>) contains a curated collection of data sets for evaluating and comparing machine learning algorithms. These data sets cover a range of applications, and include binary/multi-class classification problems and regression problems, as well as combinations of categorical, ordinal, and continuous features. There are currently over 150 datasets included in the PMLB repository.
Version: 0.2.3
BugReports: https://github.com/EpistasisLab/pmlbr/issues
Depends: R (>= 3.2.0)
Imports: utils, FNN, stats
License: GPL-2 | file LICENSE
URL: https://github.com/EpistasisLab/pmlbr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-19 17:41:03 UTC; ttle
Author: Trang Le [aut, cre] , makeyourownmaker [aut] , Jason Moore [aut] , University of Pennsylvania [cph]
Maintainer: Trang Le <grixor@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-19 23:40:05 UTC

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New package SDModels with initial version 1.0.4
Package: SDModels
Title: Spectrally Deconfounded Models
Version: 1.0.4
Description: Screen for and analyze non-linear sparse direct effects in the presence of unobserved confounding using the spectral deconfounding techniques (Ćevid, Bühlmann, and Meinshausen (2020)<jmlr.org/papers/v21/19-545.html>, Guo, Ćevid, and Bühlmann (2022) <doi:10.1214/21-AOS2152>). These methods have been shown to be a good estimate for the true direct effect if we observe many covariates, e.g., high-dimensional settings, and we have fairly dense confounding. Even if the assumptions are violated, it seems like there is not much to lose, and the deconfounded models will, in general, estimate a function closer to the true one than classical least squares optimization. 'SDModels' provides functions SDAM() for Spectrally Deconfounded Additive Models (Scheidegger, Guo, and Bühlmann (2025) <doi:10.1145/3711116>) and SDForest() for Spectrally Deconfounded Random Forests (Ulmer, Scheidegger, and Bühlmann (2025) <doi:10.48550/arXiv.2502.03969>).
License: GPL-3
Imports: data.tree, DiagrammeR, doParallel, ggplot2, GPUmatrix, gridExtra, locatexec, parallel, pbapply, Rdpack, tidyr, fda, grplasso, rlang
Suggests: plotly, datasets, rpart, knitr, rmarkdown, ranger, HDclassif, qpdf, igraph, testthat (>= 3.0.0)
Encoding: UTF-8
VignetteBuilder: knitr
URL: https://markusul.github.io/SDModels/
BugReports: https://github.com/markusul/SDModels/issues
NeedsCompilation: no
Packaged: 2025-02-18 10:55:30 UTC; maulmer
Author: Markus Ulmer [aut, cre, cph] , Cyrill Scheidegger [aut]
Maintainer: Markus Ulmer <markus.ulmer@stat.math.ethz.ch>
Repository: CRAN
Date/Publication: 2025-02-19 14:30:08 UTC

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New package popsom7 with initial version 7.0.0
Package: popsom7
Version: 7.0.0
Title: A User-Friendly Implementation of Self-Organizing Maps
Maintainer: Lutz Hamel <lutzhamel@uri.edu>
Description: Self-organizing maps with a number of distinguishing features: (1) Automatic centroid detection and cluster visualization using starbursts, for more details see the paper "Improved Interpretability of the Unified Distance Matrix with Connected Components" by Hamel and Brown (2011) in <ISBN:1-60132-168-6>. (2) Two models of the data: (a) a self organizing map model, (b) a centroid based clustering model. (3) A number of easily accessible quality metrics, Hamel (2016) <doi:10.1007/978-3-319-28518-4_4>.
License: GPL-3
URL: https://github.com/lutzhamel/popsom7
BugReports: https://github.com/lutzhamel/popsom7/issues
Imports: fields, graphics, ggplot2, hash, stats, som, grDevices
Suggests: testthat (>= 3.0.0)
Repository: CRAN
NeedsCompilation: no
Packaged: 2025-02-18 14:21:56 UTC; lutz
Author: Lutz Hamel [aut, cre], Benjamin Ott [aut], Gregory Breard [aut], Robert Tatoian [aut], Michael Eiger [aut], Vishakh Gopu [aut]
Date/Publication: 2025-02-19 15:00:02 UTC

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New package nplr with initial version 0.1-8
Package: nplr
Title: N-Parameter Logistic Regression
Version: 0.1-8
Maintainer: Tymoteusz Kwiecinski <tymoteuszkwiecinski@gmail.com>
Depends: methods
Imports: stats,graphics,utils
Suggests: RUnit,knitr
VignetteBuilder: knitr
Description: Performing drug response analyses and IC50 estimations using n-Parameter logistic regression. Can also be applied to proliferation analyses.
License: GPL
URL: https://github.com/mini-pw/nplr
NeedsCompilation: no
Packaged: 2025-02-18 00:03:29 UTC; tymot
Author: Frederic Commo [aut], Brian M. Bot [aut], Tymoteusz Kwiecinski [aut, cre]
Repository: CRAN
Date/Publication: 2025-02-19 14:10:01 UTC

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New package netknitr with initial version 0.2.1
Package: netknitr
Title: Knit Network Map for any Dataset
Version: 0.2.1
Description: Designed to create interactive and visually compelling network maps using R Shiny. It allows users to quickly analyze CSV files and visualize complex relationships, structures, and connections within data by leveraging powerful network analysis libraries and dynamic web interfaces.
Depends: R (>= 3.1.0),
Imports: openxlsx, utils, shiny, shinydashboard, dplyr, visNetwork
License: GPL-3
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-18 07:05:48 UTC; RPUSH1
Author: Jayachandra N [aut, cre], Pushker Ravindra [aut]
Maintainer: Jayachandra N <itsjay510@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-19 14:30:05 UTC

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New package MSCA with initial version 1.0
Package: MSCA
Title: Clustering of Multiple Censored Time-to-Event Endpoints
Version: 1.0
Description: Provides basic tools for computing clusters of instances described by multiple time-to-event censored endpoints. From long-format datasets, where one instance is described by one or more records of events, a procedure is used to compute state matrices. Then, from state matrices, a procedure provides optimised computation of the Jaccard distance between instances. The library is currently in development, and more options and tools allowing graphical representation of typologies are expected. For methodological details, see our methodological paper: Delord M, Douiri A (2025) <doi:10.1186/s12874-025-02476-7>.
License: GPL-3
Imports: dplyr, Matrix, Rcpp, RcppParallel, rlang, stats, tibble, utils
LinkingTo: Rcpp, RcppArmadillo, RcppParallel
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-02-18 10:44:32 UTC; marc
Author: Marc Delord [aut, cre]
Maintainer: Marc Delord <mdelord@gmail.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-19 14:30:13 UTC

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New package gander with initial version 0.1.0
Package: gander
Title: High Performance, Low Friction Large Language Model Chat
Version: 0.1.0
Description: Introduces a 'Copilot'-like completion experience, but it knows how to talk to the objects in your R environment. 'ellmer' chats are integrated directly into your 'RStudio' and 'Positron' sessions, automatically incorporating relevant context from surrounding lines of code and your global environment (like data frame columns and types). Open the package dialog box with a keyboard shortcut, type your request, and the assistant will stream its response directly into your documents.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/simonpcouch/gander, https://simonpcouch.github.io/gander/
BugReports: https://github.com/simonpcouch/gander/issues
Depends: R (>= 4.3.0)
Imports: cli (>= 3.6.3), glue (>= 1.8.0), ellmer (>= 0.1.0), miniUI (>= 0.1.1.1), rlang (>= 1.1.4), rstudioapi (>= 0.17.1), shiny (>= 1.9.1), streamy, treesitter, treesitter.r
Suggests: gt, knitr, rmarkdown, testthat (>= 3.0.0), tibble, withr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-18 15:20:37 UTC; simoncouch
Author: Simon Couch [aut, cre] , Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Repository: CRAN
Date/Publication: 2025-02-19 15:00:05 UTC

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New package epigrowthfit with initial version 0.15.4
Package: epigrowthfit
Version: 0.15.4
Date: 2025-02-14
License: GPL-3
Encoding: UTF-8
URL: https://github.com/davidearn/epigrowthfit
BugReports: https://github.com/davidearn/epigrowthfit/issues
Title: Nonlinear Mixed Effects Models of Epidemic Growth
Description: Maximum likelihood estimation of nonlinear mixed effects models of epidemic growth using Template Model Builder ('TMB'). Enables joint estimation for collections of disease incidence time series, including time series that describe multiple epidemic waves. Supports a set of widely used phenomenological models: exponential, logistic, Richards (generalized logistic), subexponential, and Gompertz. Provides methods for interrogating model objects and several auxiliary functions, including one for computing basic reproduction numbers from fitted values of the initial exponential growth rate. Preliminary versions of this software were applied in Ma et al. (2014) <doi:10.1007/s11538-013-9918-2> and in Earn et al. (2020) <doi:10.1073/pnas.2004904117>.
Depends: R (>= 4.3)
LinkingTo: RcppEigen (>= 0.3.4.0.0), TMB
Imports: Matrix (>= 1.6-2), TMB, grDevices, graphics, methods, nlme, stats, utils
LazyData: true
NeedsCompilation: yes
Packaged: 2025-02-18 13:50:46 UTC; mikael
Author: Mikael Jagan [aut, cre] , Ben Bolker [aut] , Jonathan Dushoff [ctb] , David Earn [ctb] , Junling Ma [ctb]
Maintainer: Mikael Jagan <jaganmn@mcmaster.ca>
Repository: CRAN
Date/Publication: 2025-02-19 14:50:02 UTC

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New package ctablerseh with initial version 1.1.2
Package: ctablerseh
Title: Processing Survey Data with Confidence Intervals Like 'SPSS' Software
Version: 1.1.2
Description: Processes survey data and displays estimation results along with the relative standard error in a table, including the number of samples and also uses a t-distribution approach to compute confidence intervals, similar to 'SPSS' (Statistical Package for the Social Sciences) software.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Author: Asy-Syaja'ul Haqqul Amin [aut, cre]
Maintainer: Asy-Syaja'ul Haqqul Amin <haqqul.amin06@gmail.com>
Depends: R (>= 2.10)
Imports: survey
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-18 11:45:24 UTC; Haqqul Amin
Repository: CRAN
Date/Publication: 2025-02-19 14:40:02 UTC

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New package ASML with initial version 1.0.0
Package: ASML
Title: Algorithm Portfolio Selection with Machine Learning
Version: 1.0.0
Description: A wrapper for machine learning (ML) methods to select among a portfolio of algorithms based on the value of a key performance indicator (KPI). A number of features is used to adjust a model to predict the value of the KPI for each algorithm, then, for a new value of the features the KPI is estimated and the algorithm with the best one is chosen. To learn it can use the regression methods in 'caret' package or a custom function defined by the user. Several graphics available to analyze the results obtained. This library has been used in Ghaddar et al. (2023) <doi:10.1287/ijoc.2022.0090>).
License: GPL-3
Language: en-US
Encoding: UTF-8
LazyData: true
Imports: caret, ggplot2, dplyr, purrr, tibble, tidyr, reshape2, Polychrome, scales, rlang
Suggests: snow
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2025-02-18 13:01:46 UTC; brais
Author: Brais Gonzalez-Rodriguez [aut, cre] , Ignacio Gomez-Casares [aut] , Beatriz Pateiro-Lopez [aut] , Julio Gonzalez-Diaz [aut] , Maria Caseiro-Arias [ctb], Antonio Farina-Elorza [ctb], Manuel Timiraos-Lopez [ctb]
Maintainer: Brais Gonzalez-Rodriguez <brais.gonzalez.rodriguez@uvigo.gal>
Repository: CRAN
Date/Publication: 2025-02-19 14:40:05 UTC

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New package aftables with initial version 1.0.1
Package: aftables
Title: Create Spreadsheet Publications Following Best Practice
Version: 1.0.1
Description: Generate spreadsheet publications that follow best practice guidance from the UK government's Analysis Function, with a focus on accessibility. Based on 'openxlsx'. See also the Python package 'gptables'.
License: MIT + file LICENSE
URL: https://best-practice-and-impact.github.io/aftables/, https://github.com/best-practice-and-impact/aftables
BugReports: https://github.com/best-practice-and-impact/aftables/issues
Depends: R (>= 3.5)
Imports: openxlsx, pillar
Suggests: covr, knitr, rmarkdown, rstudioapi, testthat (>= 3.0.0), tibble
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-18 14:57:06 UTC; OBoxPower
Author: Matt Dray [aut], Tim Taylor [ctb], Matt Kerlogue [ctb], Crown Copyright [cph], Olivia Box Power [cre, ctb]
Maintainer: Olivia Box Power <Olivia.BoxPower@dhsc.gov.uk>
Repository: CRAN
Date/Publication: 2025-02-19 15:00:09 UTC

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New package oglcnac with initial version 0.1.5
Package: oglcnac
Title: Processing and Analysis of 'O-GlcNAcAtlas' Data
Version: 0.1.5
Description: Provides tools for processing and analyzing data from the 'O-GlcNAcAtlas' database <https://oglcnac.org/>, as described in Ma (2021) <doi:10.1093/glycob/cwab003>. It integrates 'UniProt' <https://www.uniprot.org/> API calls to retrieve additional information. It is specifically designed for research workflows involving 'O-GlcNAcAtlas' data, providing a flexible and user-friendly interface for customizing and downloading processed results. Interactive elements allow users to easily adjust parameters and handle various biological datasets.
License: GPL-3
Encoding: UTF-8
Imports: cli, httr, jsonlite, shiny, DT, bslib, readxl, glue
Suggests: testthat (>= 3.0.0), tibble, curl
NeedsCompilation: no
Packaged: 2025-02-19 06:16:16 UTC; Bach
Author: Yaoxiang Li [aut, cre]
Maintainer: Yaoxiang Li <liyaoxiang@outlook.com>
Repository: CRAN
Date/Publication: 2025-02-19 09:30:02 UTC

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New package unigd with initial version 0.1.3
Package: unigd
Title: Universal Graphics Device
Version: 0.1.3
Description: A unified R graphics backend. Render R graphics fast and easy to many common file formats. Provides a thread safe 'C' interface for asynchronous rendering of R graphics.
License: GPL (>= 2)
Depends: R (>= 3.2.0)
Imports: systemfonts (>= 1.0.0)
LinkingTo: cpp11 (>= 0.2.4), systemfonts
Encoding: UTF-8
SystemRequirements: libpng, cairo, freetype2, fontconfig
URL: https://github.com/nx10/unigd, https://nx10.github.io/unigd/
BugReports: https://github.com/nx10/unigd/issues
Suggests: testthat (>= 3.0.0), xml2 (>= 1.0.0), fontquiver (>= 0.2.0), covr, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-18 23:21:43 UTC; floru
Author: Florian Rupprecht [aut, cre] , Kun Ren [ctb], Tatsuya Shima [ctb], Jeroen Ooms [ctb] , Hadley Wickham [cph] , Lionel Henry [cph] , Thomas Lin Pedersen [cph] , T Jake Luciani [cph] , Matthieu Decorde [cph] , Vaudor Lise [cph] , Tony Plate [cph] , Davi [...truncated...]
Maintainer: Florian Rupprecht <floruppr@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-19 08:20:02 UTC

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Tue, 18 Feb 2025

New package WMWssp with initial version 0.5.3
Package: WMWssp
Title: Wilcoxon-Mann-Whitney Sample Size Planning
Version: 0.5.3
Date: 2025-02-18
Maintainer: Martin Happ <statistics@happ.co.at>
Description: Calculates the minimal sample size for the Wilcoxon-Mann-Whitney test that is needed for a given power and two sided type I error rate. The method works for metric data with and without ties, count data, ordered categorical data, and even dichotomous data. But data is needed for the reference group to generate synthetic data for the treatment group based on a relevant effect. See Happ et al. (2019, <doi:10.1002/sim.7983>) for details.
Depends: R (>= 3.4.0)
License: GPL-3
URL: https://github.com/happma/WMWssp
BugReports: https://github.com/happma/WMWssp/issues
Suggests: testthat
NeedsCompilation: no
Packaged: 2025-02-18 16:36:45 UTC; happma
Author: Arne C. Bathke [aut], Edgar Brunner [aut], Martin Happ [aut, cre] , Frank Konietschke [aut]
Repository: CRAN
Date/Publication: 2025-02-18 23:40:05 UTC

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New package UAHDataScienceSF with initial version 1.0.0
Package: UAHDataScienceSF
Version: 1.0.0
Title: Interactive Statistical Learning Functions
Description: An educational toolkit for learning statistical concepts through interactive exploration. Provides functions for basic statistics (mean, variance, etc.) and probability distributions with step-by-step explanations and interactive learning modes. Each function can be used for simple calculations, detailed learning with explanations, or interactive practice with feedback.
License: MIT + file LICENSE
Imports: stats, magick (>= 2.7.3), crayon (>= 1.3.4)
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-02-17 15:31:07 UTC; andriy
Author: Carlos Javier Hellin Asensio [aut], Jose Manuel Gomez Caceres [aut], Dennis Monheimius [aut], Eduardo Benito [aut], Juan Jose Cuadrado [aut], Andriy Protsak Protsak [aut, cre], Universidad de Alcala de Henares [cph]
Maintainer: Andriy Protsak Protsak <andriy.protsak@edu.uah.es>
Repository: CRAN
Date/Publication: 2025-02-18 11:10:07 UTC

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New package musicXML with initial version 1.0.1
Package: musicXML
Title: Data Sonification using 'musicXML'
Version: 1.0.1
Description: A set of tools to facilitate data sonification and handle the 'musicXML' format <https://usermanuals.musicxml.com/MusicXML/Content/XS-MusicXML.htm>. Several classes are defined for basic musical objects such as note pitch, note duration, note, measure and score. Moreover, sonification utilities functions are provided, e.g. to map data into musical attributes such as pitch, loudness or duration. A typical sonification workflow hence looks like: get data; map them to musical attributes; create and write the 'musicXML' score, which can then be further processed using specialized music software (e.g. 'MuseScore', 'GuitarPro', etc.). Examples can be found in the blog <https://globxblog.github.io/>, the presentation by Renard and Le Bescond (2022, <https://hal.science/hal-03710340v1>) or the poster by Renard et al. (2023, <https://hal.inrae.fr/hal-04388845v1>).
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: xml2
Suggests: knitr, rmarkdown, tidyr, gganimate, av
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-17 18:07:18 UTC; brenard
Author: Benjamin Renard [aut, cre, cph] , INRAE [fnd], European Commission [fnd]
Maintainer: Benjamin Renard <benjamin.renard@inrae.fr>
Repository: CRAN
Date/Publication: 2025-02-18 11:10:02 UTC

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New package fishgrowth with initial version 1.0.1
Package: fishgrowth
Version: 1.0.1
Date: 2025-02-18
Title: Fit Growth Curves to Fish Data
Depends: R (>= 2.10), RTMB
Suggests: areaplot
LazyData: yes
Description: Fit growth models to otoliths and/or tagging data, using the 'RTMB' package and maximum likelihood. The otoliths (or similar measurements of age) provide direct observed coordinates of age and length. The tagging data provide information about the observed length at release and length at recapture at a later time, where the age at release is unknown and estimated as a vector of parameters. The growth models provided by this package can be fitted to otoliths only, tagging data only, or a combination of the two. Growth variability can be modelled as constant or increasing with length.
License: GPL-3
URL: https://github.com/arni-magnusson/fishgrowth
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-18 03:53:41 UTC; arnim
Author: Arni Magnusson [aut, cre], Mark Maunder [aut]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-18 11:20:02 UTC

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New package SimTOST with initial version 1.0.1
Package: SimTOST
Title: Sample Size Estimation for Bio-Equivalence Trials Through Simulation
Version: 1.0.1
Description: Sample size estimation for bio-equivalence trials is supported through a simulation-based approach that extends the Two One-Sided Tests (TOST) procedure. The methodology provides flexibility in hypothesis testing, accommodates multiple treatment comparisons, and accounts for correlated endpoints. Users can model complex trial scenarios, including parallel and crossover designs, intra-subject variability, and different equivalence margins. Monte Carlo simulations enable accurate estimation of power and type I error rates, ensuring well-calibrated study designs. The statistical framework builds on established methods for equivalence testing and multiple hypothesis testing in bio-equivalence studies, as described in Schuirmann (1987) <doi:10.1007/BF01068419>, Mielke et al. (2018) <doi:10.1080/19466315.2017.1371071>, Shieh (2022) <doi:10.1371/journal.pone.0269128>, and Sozu et al. (2015) <doi:10.1007/978-3-319-22005-5>. Comprehensive documentation and vignettes guid [...truncated...]
License: Apache License (>= 2)
Encoding: UTF-8
Imports: MASS, Rcpp (>= 1.0.13), data.table, matrixcalc, parallel
Suggests: PowerTOST, ggplot2, kableExtra, knitr, rmarkdown, testthat (>= 3.0.0), tibble, tinytest
VignetteBuilder: knitr
LinkingTo: Rcpp, RcppArmadillo
URL: https://smartdata-analysis-and-statistics.github.io/SimTOST/
NeedsCompilation: yes
Packaged: 2025-02-17 11:37:16 UTC; Thomas
Author: Thomas Debray [aut, cre] , Johanna Munoz [aut], Dewi Amaliah [ctb], Wei Wei [ctb], Marian Mitroiu [ctb], Scott McDonald [ctb], Biogen Inc [cph, fnd]
Maintainer: Thomas Debray <tdebray@fromdatatowisdom.com>
Repository: CRAN
Date/Publication: 2025-02-18 10:10:14 UTC

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New package rb3 with initial version 0.0.12
Package: rb3
Title: Download and Parse Public Data Released by B3 Exchange
Description: Download and parse public files released by B3 and convert them into useful formats and data structures common to data analysis practitioners.
Version: 0.0.12
License: MIT + file LICENSE
Depends: R (>= 4.1.0),
Imports: bizdays, stringr, proto, cli, readr, dplyr, rvest, httr, jsonlite, purrr, ascii, rlang, methods, yaml, digest, base64enc, XML, readxl, tidyr
Suggests: testthat, knitr, DT, miniUI, shiny, xtable, rmarkdown, ggplot2, covr, scales, magrittr, tibble, withr, vcr (>= 0.6.0)
BugReports: https://github.com/ropensci/rb3/issues
URL: https://github.com/ropensci/rb3, http://ropensci.github.io/rb3/
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-16 18:57:35 UTC; root
Author: Wilson Freitas [aut, cre], Marcelo Perlin [aut]
Maintainer: Wilson Freitas <wilson.freitas@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-18 10:10:02 UTC

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New package logos with initial version 0.1.0
Package: logos
Title: Access to the Hebrew, Greek, and English Version of the Bible
Version: 0.1.0
Maintainer: JP Monteagudo <jpmonteagudo2014@gmail.com>
Description: Access to the Greek New Testament (27 books) and the Old Testament (39 books) and allow users to do textual analysis on the data. The New and Old Testament have been provided in their original languages, Greek and Hebrew, respectively. Additionally, the Revised American Standard Bible is also provided for users who'd rather use a word–for–word modern English translation.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/jpmonteagudo28/logos
BugReports: https://github.com/jpmonteagudo28/logos/issues
LazyData: true
Depends: R (>= 4.1)
Suggests: testthat (>= 3.0.0)
Imports: dplyr
NeedsCompilation: no
Packaged: 2025-02-17 13:25:23 UTC; jpmonteagudo
Author: JP Monteagudo [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-02-18 10:10:06 UTC

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New package datamedios with initial version 1.1.0
Package: datamedios
Title: Scraping Chilean Media
Version: 1.1.0
Maintainer: Exequiel Trujillo <exequiel.trujillo@ug.uchile.cl>
Description: A system for extracting news from Chilean media, specifically through Web Scapping from Chilean media. The package allows for news searches using search phrases and date filters, and returns the results in a structured format, ready for analysis. Additionally, it includes functions to clean the extracted data, visualize it, and store it in databases. All of this can be done automatically, facilitating the collection and analysis of relevant information from Chilean media.
License: MIT + file LICENSE
Encoding: UTF-8
Language: es-ES
Depends: R (>= 4.1)
Suggests: rcmdcheck
Imports: dplyr, httr, magrittr, jsonlite, utils, tidyverse, wordcloud2, tidytext, lubridate, rvest, stringr, xml2, purrr, DT, ggplot2
NeedsCompilation: no
Packaged: 2025-02-16 21:20:50 UTC; ismae
Author: Exequiel Trujillo [aut, cre, cph, fnd], Ismael Aguayo [aut, fnd], Klaus Lehmann [aut, fnd]
Repository: CRAN
Date/Publication: 2025-02-18 10:10:10 UTC

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New package correlatio with initial version 0.1.0
Package: correlatio
Title: Visualize Details Behind Pearson's Correlation Coefficient
Version: 0.1.0
Description: Helps visualizing what is summarized in Pearson's correlation coefficient. That is, it visualizes its main constituent, namely the distances of the single values to their respective mean. The visualization thereby shows what the etymology of the word correlation contains: In pairwise combination, bringing back (see package Vignette for more details). I hope that the 'correlatio' package may benefit some people in understanding and critically evaluating what Pearson's correlation coefficient summarizes in a single number, i.e., to what degree and why Pearson's correlation coefficient may (or may not) be warranted as a measure of association.
License: MIT + file LICENSE
Repository: CRAN
URL: https://github.com/mmiche/correlatio
Encoding: UTF-8
Imports: Rdpack, stats, ggplot2, tibble
Depends: R (>= 4.0.0)
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
BugReports: https://github.com/mmiche/correlatio/issues
NeedsCompilation: no
Packaged: 2025-02-17 14:51:36 UTC; mmiche
Author: Marcel Miche [aut, cre]
Maintainer: Marcel Miche <marcel.miche.predictme@gmail.com>
Date/Publication: 2025-02-18 10:20:10 UTC

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New package PiC with initial version 1.0.3
Package: PiC
Title: Pointcloud Interactive Computation for Forest Structure Analysis
Version: 1.0.3
Description: Provides advanced algorithms for analyzing pointcloud data in forestry applications. Key features include fast voxelization of large datasets; segmentation of point clouds into forest floor, understorey, canopy, and wood components. The package enables efficient processing of large-scale forest pointcloud data, offering insights into forest structure, connectivity, and fire risk assessment. Algorithms to analyze pointcloud data (.xyz input file). For more details, see Ferrara & Arrizza (2025) <https://hdl.handle.net/20.500.14243/533471>. For single tree segmentation details, see Ferrara et al. (2018) <doi:10.1016/j.agrformet.2018.04.008>.
License: GPL (>= 3)
Depends: R (>= 4.3)
Imports: collapse, data.table, dbscan, dplyr, foreach, magrittr, stats, tictoc
Suggests: ggplot2, testthat (>= 3.0.0), withr
Encoding: UTF-8
URL: https://github.com/rupppy/PiC
BugReports: https://github.com/rupppy/PiC/issues
NeedsCompilation: no
Packaged: 2025-02-17 09:39:57 UTC; robertoferrara
Author: Roberto Ferrara [aut, cre] , Stefano Arrizza [aut]
Maintainer: Roberto Ferrara <roberto.ferrara@cnr.it>
Repository: CRAN
Date/Publication: 2025-02-18 10:00:02 UTC

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New package Dogoftest with initial version 0.1
Package: Dogoftest
Title: Distributed Online Goodness-of-Fit Tests for Distributed Datasets
Date: 2025-02-15
Version: 0.1
Description: Distributed Online Goodness-of-Fit Test can process the distributed datasets. The philosophy of the package is described in Guo G.(2024) <doi:10.1016/j.apm.2024.115709>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: stats
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-15 09:53:56 UTC; ASUS
Author: Guangbao Guo [aut, cre] , Di Chang [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-18 10:00:05 UTC

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New package decompML with initial version 0.1.1
Package: decompML
Title: Decomposition Based Machine Learning Model
Version: 0.1.1
Maintainer: Kapil Choudhary <kapiliasri@gmail.com>
Description: The hybrid model is a highly effective forecasting approach that integrates decomposition techniques with machine learning to enhance time series prediction accuracy. Each decomposition technique breaks down a time series into multiple intrinsic mode functions (IMFs), which are then individually modeled and forecasted using machine learning algorithms. The final forecast is obtained by aggregating the predictions of all IMFs, producing an ensemble output for the time series. The performance of the developed models is evaluated using international monthly maize price data, assessed through metrics such as root mean squared error (RMSE), mean absolute percentage error (MAPE), and mean absolute error (MAE). For method details see Choudhary, K. et al. (2023). <https://ssca.org.in/media/14_SA44052022_R3_SA_21032023_Girish_Jha_FINAL_Finally.pdf>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: forecast, nnfor, Rlibeemd, VMDecomp
Depends: R (>= 3.5)
NeedsCompilation: no
Packaged: 2025-02-12 10:43:18 UTC; kapil
Author: Girish Kumar Jha [aut, ctb], Kapil Choudhary [aut, cre], Rajender Parsad [ctb], Ronit Jaiswal [ctb], Rajeev Ranjan Kumar [ctb], P Venkatesh [ctb], Dwijesh Chandra Mishra [ctb]
Repository: CRAN
Date/Publication: 2025-02-18 09:40:02 UTC

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New package dartR.captive with initial version 1.0.2
Package: dartR.captive
Title: Analysing 'SNP' Data to Support Captive Breeding
Version: 1.0.2
Date: 2025-02-17
Description: Functions are provided that facilitate the analysis of SNP (single nucleotide polymorphism) data to answer questions regarding captive breeding and relatedness between individuals. 'dartR.captive' is part of the 'dartRverse' suit of packages. Gruber et al. (2018) <doi:10.1111/1755-0998.12745>. Mijangos et al. (2022) <doi:10.1111/2041-210X.13918>.
Encoding: UTF-8
Depends: R (>= 3.5), adegenet (>= 2.0.0), dartR.base, dartR.data, dartR.sim
Imports: methods, utils, crayon, ggplot2, patchwork, stringr, data.table
Suggests: SIBER, gplots, fields, igraph, reshape2, rrBLUP, scales, spelling
License: GPL (>= 3)
NeedsCompilation: no
Packaged: 2025-02-17 22:50:08 UTC; s425824
Author: Bernd Gruber [aut, cre], Arthur Georges [aut], Jose L. Mijangos [aut], Carlo Pacioni [aut], Peter J. Unmack [ctb], Oliver Berry [ctb], Lindsay V. Clark [ctb], Floriaan Devloo-Delva [ctb], Eric Archer [ctb], Sam Amini [ctb]
URL: https://green-striped-gecko.github.io/dartR/
BugReports: https://groups.google.com/g/dartr?pli=1
Language: en-US
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Repository: CRAN
Date/Publication: 2025-02-18 08:20:05 UTC

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Mon, 17 Feb 2025

New package nimbleAPT with initial version 1.0.7
Package: nimbleAPT
Title: Adaptive Parallel Tempering for 'NIMBLE'
Version: 1.0.7
Encoding: UTF-8
Date: 2025-02-17
Maintainer: David Pleydell <david.pleydell@inrae.fr>
URL: https://github.com/DRJP/nimbleAPT
Description: Functions for adaptive parallel tempering (APT) with NIMBLE models. Adapted from 'Lacki' & 'Miasojedow' (2016) <DOI:10.1007/s11222-015-9579-0> and 'Miasojedow, Moulines and Vihola' (2013) <DOI:10.1080/10618600.2013.778779>.
License: BSD_3_clause + file LICENSE
Copyright: See COPYRIGHTS file.
Depends: R (>= 3.1.2), nimble
Imports: methods
Suggests: knitr, rmarkdown, coda
VignetteBuilder: knitr
Note: The APT samplers within this package were adapted from MCMC samplers provided in the NIMBLE package (https://github.com/nimble-dev/nimble) and developed by the cited members of the NIMBLE Development Team. The adaptations for APT included in this package were the work of the package developer. Many thanks to the NIMBLE Development Team for their support during the development of this package.
NeedsCompilation: no
Packaged: 2025-02-17 11:08:02 UTC; pleydell
Author: David Pleydell [aut, cre, cph] , Daniel Turek [cph] , Perry de Valpine [cph] , Christopher Paciorek [cph] , Nick Michaud [cph]
Repository: CRAN
Date/Publication: 2025-02-17 13:10:02 UTC

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New package UAHDataScienceUC with initial version 1.0.0
Package: UAHDataScienceUC
Title: Learn Clustering Techniques Through Examples and Code
Version: 1.0.0
Description: A comprehensive educational package combining clustering algorithms with detailed step-by-step explanations. Provides implementations of both traditional (hierarchical, k-means) and modern (DBSCAN, GMM, genetic k-means) clustering methods as described in Ezugwu et. al., (2022) <doi:10.1016/j.engappai.2022.104743>. Includes educational datasets highlighting different clustering challenges, based on 'scikit-learn' examples (Pedregosa et al., 2011) <https://jmlr.csail.mit.edu/papers/v12/pedregosa11a.html>. Features detailed algorithm explanations, visualizations, and weighted distance calculations for enhanced learning.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.3.0)
Imports: proxy (>= 0.4-27), cli (>= 3.6.1)
Suggests: deldir (>= 1.0-9), knitr, rmarkdown
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-14 18:35:25 UTC; andriy
Author: Eduardo Ruiz Sabajanes [aut], Roberto Alcantara [aut], Juan Jose Cuadrado Gallego [aut] , Andriy Protsak Protsak [aut, cre], Universidad de Alcala [cph]
Maintainer: Andriy Protsak Protsak <andriy.protsak@edu.uah.es>
Repository: CRAN
Date/Publication: 2025-02-17 12:20:02 UTC

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New package MissCP with initial version 0.1.1
Package: MissCP
Title: Change Point Detection with Missing Values
Version: 0.1.1
Author: Yanxi Liu [aut, cre], Abolfazl Safikhani [aut]
Maintainer: Yanxi Liu <liuyanxi@ufl.edu>
Description: A four step change point detection method that can detect break points with the presence of missing values proposed by Liu and Safikhani (2023) <https://drive.google.com/file/d/1a8sV3RJ8VofLWikTDTQ7W4XJ76cEj4Fg/view?usp=drive_link>.
License: GPL-2
Encoding: UTF-8
Imports: stats, graphics, mvtnorm, factoextra, Rcpp, ggplot2, glmnet
LinkingTo: Rcpp, RcppArmadillo
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-17 11:48:51 UTC; yanxiliu
Repository: CRAN
Date/Publication: 2025-02-17 12:30:07 UTC

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New package fishstat with initial version 2024.1.0.1
Package: fishstat
Version: 2024.1.0.1
Date: 2025-02-14
Title: Global Fishery and Aquaculture Statistics
Depends: R (>= 3.5.0)
Suggests: areaplot
LazyData: yes
Description: The Food and Agriculture Organization of the United Nations (FAO) FishStat database is the leading source of global fishery and aquaculture statistics and provides unique information for sector analysis and monitoring. This package provides the global production data from all fisheries and aquaculture in R format, ready for analysis.
License: CC BY-NC-SA 4.0
URL: https://www.fao.org/fishery/en/fishstat, https://github.com/sofia-taf/fishstat
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-14 07:13:54 UTC; arnim
Author: Arni Magnusson [aut, cre], Rishi Sharma [aut], FAO [cph]
Maintainer: Arni Magnusson <thisisarni@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-17 12:50:02 UTC

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New package chatRater with initial version 1.0.0
Package: chatRater
Title: Rating Text Using Large Language Models
Version: 1.0.0
Date: 2025-02-14
Maintainer: Shiyang Zheng <Shiyang.Zheng@nottingham.ac.uk>
Description: Generates ratings for textual stimuli using large language models. It allows users to evaluate idioms and similar texts by combining context, prompts, and stimulus inputs. The package supports both 'OpenAI' and 'DeepSeek' APIs by enabling users to switch models simply by specifying the model parameter. It implements methods for constructing the request payload and parsing numeric ratings from the model outputs.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: tidyverse, openai, httr, jsonlite
Suggests: testthat
NeedsCompilation: no
Packaged: 2025-02-14 16:08:28 UTC; admin
Author: Shiyang Zheng [aut, cre]
Repository: CRAN
Date/Publication: 2025-02-17 12:10:01 UTC

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New package UAHDataScienceSC with initial version 1.0.0
Package: UAHDataScienceSC
Title: Learn Supervised Classification Methods Through Examples and Code
Version: 1.0.0
Description: Supervised classification methods, which (if asked) can provide step-by-step explanations of the algorithms used, as described in PK Josephine et. al., (2021) <doi:10.59176/kjcs.v1i1.1259>; and datasets to test them on, which highlight the strengths and weaknesses of each technique.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.3.0)
Imports: cli (>= 3.6.1)
Suggests: knitr, rmarkdown
NeedsCompilation: no
VignetteBuilder: knitr
Packaged: 2025-02-14 15:13:26 UTC; andriy
Author: Victor Amador Padilla [aut], Juan Jose Cuadrado Gallego [ctb] , Andriy Protsak Protsak [aut, cre], Universidad de Alcala [cph]
Maintainer: Andriy Protsak Protsak <andriy.protsak@edu.uah.es>
Repository: CRAN
Date/Publication: 2025-02-17 12:00:09 UTC

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New package simqi with initial version 0.1.0
Package: simqi
Title: Simulate Quantities of Interest from Regression Models
Version: 0.1.0
Depends: R (>= 3.5.0)
Maintainer: Steve Miller <steve@svmiller.com>
Description: This is an all-encompassing suite to facilitate the simulation of so-called quantities of interest by way of a multivariate normal distribution of the regression model's coefficients and variance-covariance matrix.
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: stevemisc, tibble, methods
NeedsCompilation: no
Packaged: 2025-02-14 14:48:22 UTC; steve
Author: Steve Miller [aut, cre]
Repository: CRAN
Date/Publication: 2025-02-17 12:00:02 UTC

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New package rpcss with initial version 0.1.0
Package: rpcss
Title: Constitution of Core Collections by Principal Component Scoring Strategy
Version: 0.1.0
Description: Generate a Core Collection with Principal Component Scoring Strategy (PCSS) using qualitative and/or quantitative trait data according to Hamon and Noirot (1990) <https://www.documentation.ird.fr/hor/fdi:36506>, Noirot et al. (1996) <doi:10.2307/2527837> and Noirot et al. (2003) <https://www.documentation.ird.fr/hor/fdi:010031886>.
License: GPL-2 | GPL-3
Encoding: UTF-8
Depends: R (>= 3.5.0)
BuildManual: TRUE
Imports: dplyr, FactoMineR, ggplot2, ggrepel, gslnls, mathjaxr, methods, Rdpack, stats, tidyr, utils
Suggests: EvaluateCore, factoextra, knitr, rmarkdown, pander
Copyright: 2024-2025, ICAR-NBPGR
URL: https://github.com/aravind-j/rpcss, https://aravind-j.github.io/rpcss/
BugReports: https://github.com/aravind-j/rpcss/issues
NeedsCompilation: no
Packaged: 2025-02-14 04:37:22 UTC; Aravind-DGC
Author: J. Aravind [aut, cre] , ICAR-NBGPR [cph]
Maintainer: J. Aravind <j.aravind@icar.gov.in>
Repository: CRAN
Date/Publication: 2025-02-17 11:50:02 UTC

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New package indexr with initial version 0.2.2
Package: indexr
Title: A Thoughtful Saver of Results
Version: 0.2.2
Date: 2025-02-14
Description: Helps with the thoughtful saving, reading, and management of result files (using 'rds' files). The core functions take a list of parameters that are used to generate a unique hash to save results under. Then, the same parameter list can be used to read those results back in. This is helpful to avoid clunky file naming when running a large number of simulations. Additionally, helper functions are available for compiling a flat file of parameters of saved results, monitoring result usage, and cleaning up unwanted or unused results. For more information, visit the 'indexr' homepage <https://lharris421.github.io/indexr/>.
BugReports: https://github.com/lharris421/indexr/issues
License: GPL-3
URL: https://lharris421.github.io/indexr/, https://github.com/lharris421/indexr
Encoding: UTF-8
Imports: stringr, readr, dplyr, digest, glue, methods
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-14 15:01:45 UTC; loganharris
Author: Logan Harris [aut, cre]
Maintainer: Logan Harris <logan-harris@uiowa.edu>
Repository: CRAN
Date/Publication: 2025-02-17 12:00:05 UTC

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New package flint with initial version 0.0.1
Package: flint
Version: 0.0.1
VersionNote: sync configure.ac
Date: 2025-02-14
Title: Fast Library for Number Theory
Description: An R interface to 'FLINT' <https://flintlib.org/>, a C library for number theory. 'FLINT' extends GNU 'MP' <https://gmplib.org/> and GNU 'MPFR' <https://www.mpfr.org/> with support for arithmetic in standard rings (the integers, the integers modulo n, the rational, p-adic, real, and complex numbers) as well as vectors, matrices, polynomials, and power series over rings. 'FLINT' implements midpoint-radius interval arithmetic, also known as ball arithmetic, in the real and complex numbers, enabling computation in arbitrary precision with rigorous propagation of errors; see Johansson (2017) <doi:10.1109/TC.2017.2690633>. Finally, 'FLINT' provides ball arithmetic implementations of many special mathematical functions, with high coverage of reference works such as the NIST Digital Library of Mathematical Functions <https://dlmf.nist.gov/>. The R interface defines S4 classes, generic functions, and methods for representation and basic operations as well as p [...truncated...]
License: GPL (>= 2)
URL: https://github.com/jaganmn/flint
BugReports: https://github.com/jaganmn/flint/issues
Depends: R (>= 4.3), methods
Imports: stats
SystemRequirements: gmp, mpfr (>= 3.1), flint (>= 3)
SystemRequirementsNote: purely informational as we use configure tests
NeedsCompilation: yes
Packaged: 2025-02-13 22:34:03 UTC; mikael
Author: Mikael Jagan [aut, cre]
Maintainer: Mikael Jagan <jaganmn@mcmaster.ca>
Repository: CRAN
Date/Publication: 2025-02-17 11:30:03 UTC

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New package changepointGA with initial version 0.1.0
Package: changepointGA
Title: Changepoint Detection via Modified Genetic Algorithm
Version: 0.1.0
Date: 2025-01-21
Description: The Genetic Algorithm (GA) is used to perform changepoint analysis in time series data. The package also includes an extended island version of GA, as described in Lu, Lund, and Lee (2010, <doi:10.1214/09-AOAS289>). By mimicking the principles of natural selection and evolution, GA provides a powerful stochastic search technique for solving combinatorial optimization problems. In 'changepointGA', each chromosome represents a changepoint configuration, including the number and locations of changepoints, hyperparameters, and model parameters. The package employs genetic operators—selection, crossover, and mutation—to iteratively improve solutions based on the given fitness (objective) function. Key features of 'changepointGA' include encoding changepoint configurations in an integer format, enabling dynamic and simultaneous estimation of model hyperparameters, changepoint configurations, and associated parameters. The detailed algorithmic implementation can be found in the package [...truncated...]
License: MIT + file LICENSE
Depends: R (>= 4.3.0)
Imports: foreach, doParallel, Rcpp, RcppArmadillo, clue, stats
LinkingTo: Rcpp, RcppArmadillo
URL: https://github.com/mli171/changepointGA
BugReports: https://github.com/mli171/changepointGA/issues
Suggests: knitr, rmarkdown
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-13 21:49:58 UTC; mo
Author: Mo Li [aut, cre]
Maintainer: Mo Li <mo.li@louisiana.edu>
Repository: CRAN
Date/Publication: 2025-02-17 11:30:16 UTC

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New package BigDataPE with initial version 0.0.95
Package: BigDataPE
Title: Secure and Intuitive Access to 'BigDataPE' 'API' Datasets
Version: 0.0.95
Date: 2025-02-13
Description: Designed to simplify the process of retrieving datasets from the 'Big Data PE' platform using secure token-based authentication. It provides functions for securely storing, retrieving, and managing tokens associated with specific datasets, as well as fetching and processing data using the 'httr2' package.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: dplyr, tibble, httr2
URL: <https://github.com/StrategicProjects/bigdatape>
NeedsCompilation: no
Packaged: 2025-02-14 13:36:49 UTC; leite
Author: Andre Leite [aut, cre], Hugo Vaconcelos [aut], Diogo Bezerra [aut]
Maintainer: Andre Leite <leite@castlab.org>
Repository: CRAN
Date/Publication: 2025-02-17 12:00:12 UTC

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New package BaHZING with initial version 1.0.0
Package: BaHZING
Title: Bayesian Hierarchical Zero-Inflated Negative Binomial Regression with G-Computation
Version: 1.0.0
Description: A Bayesian model for examining the association between environmental mixtures and all Taxa measured in a hierarchical microbiome dataset in a single integrated analysis. Compared with analyzing the associations of environmental mixtures with each Taxa individually, 'BaHZING' controls Type 1 error rates and provides more stable effect estimates when dealing with small sample sizes.
License: GPL (>= 3)
Depends: R (>= 4.1.0), rjags (>= 4.0.0)
Imports: bayestestR, dplyr, magrittr, phyloseq, pscl, R2jags, stats, stringr, tidyr
Suggests: testthat (>= 3.0.0)
Encoding: UTF-8
LazyData: true
SystemRequirements: JAGS 4.x.y (http://mcmc-jags.sourceforge.net)
NeedsCompilation: no
Packaged: 2025-02-13 20:53:48 UTC; jagoodri
Author: Hailey Hampson [aut], Jesse Goodrich [aut, cre] , Hongxu Wang [aut], Tanya Alderete [ctb], Shardul Nazirkar [ctb], David Conti [aut]
Maintainer: Jesse Goodrich <jagoodri@usc.edu>
Repository: CRAN
Date/Publication: 2025-02-17 11:20:07 UTC

More information about BaHZING at CRAN
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New package polykde with initial version 1.0.0
Package: polykde
Title: Polyspherical Kernel Density Estimation
Version: 1.0.0
Date: 2025-02-13
Description: Kernel density estimation on the polysphere, hypersphere, and circle. Includes functions for density estimation, regression estimation, ridge estimation, bandwidth selection, kernels, samplers, and homogeneity tests. Companion package to García-Portugués and Meilán-Vila (2024) <doi:10.48550/arXiv.2411.04166> and García-Portugués and Meilán-Vila (2023) <doi:10.1007/978-3-031-32729-2_4>.
License: GPL-3
Imports: abind, doFuture, foreach, future, gsl, movMF, progressr, Rcpp (>= 1.0.8.3), RcppProgress, rotasym, sphunif
Suggests: alphashape3d, DirStats, FixedPoint, ks, manipulate, numDeriv, optimParallel, testthat, viridis, rgl, scatterplot3d, sdetorus, smacof
LinkingTo: Rcpp, RcppArmadillo, RcppProgress
URL: https://github.com/egarpor/polykde
BugReports: https://github.com/egarpor/polykde/issues
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-02-13 19:14:03 UTC; Eduardo
Author: Eduardo Garcia-Portugues [aut, cre] , Andrea Meilan-Vila [ctb]
Maintainer: Eduardo Garcia-Portugues <edgarcia@est-econ.uc3m.es>
Repository: CRAN
Date/Publication: 2025-02-17 11:00:01 UTC

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Fri, 14 Feb 2025

New package TransProR with initial version 1.0.2
Package: TransProR
Title: Analysis and Visualization of Multi-Omics Data
Version: 1.0.2
Maintainer: Dongyue Yu <yudongyue@mail.nankai.edu.cn>
Description: A tool for comprehensive transcriptomic data analysis, with a focus on transcript-level data preprocessing, expression profiling, differential expression analysis, and functional enrichment. It enables researchers to identify key biological processes, disease biomarkers, and gene regulatory mechanisms. 'TransProR' is aimed at researchers and bioinformaticians working with RNA-Seq data, providing an intuitive framework for in-depth analysis and visualization of transcriptomic datasets. The package includes comprehensive documentation and usage examples to guide users through the entire analysis pipeline. The differential expression analysis methods incorporated in the package include 'limma' (Ritchie et al., 2015, <doi:10.1093/nar/gkv007>; Smyth, 2005, <doi:10.1007/0-387-29362-0_23>), 'edgeR' (Robinson et al., 2010, <doi:10.1093/bioinformatics/btp616>), 'DESeq2' (Love et al., 2014, <doi:10.1186/s13059-014-0550-8>), and Wilcoxon tests (Li et al., 2022, <doi:10. [...truncated...]
Imports: magrittr, stats, dplyr, rlang, tibble, sva, DESeq2, utils, edgeR, limma, ggplot2, ggVennDiagram, ggdensity, ggpubr, ggtree, hrbrthemes, grid, ggraph, tidygraph, tidyr, stringr, geomtextpath, ggalt, ggnewscale, ggtreeExtra, Hmisc, circlize, graphics, spiralize, ComplexHeatmap, grDevices
Suggests: prettydoc, knitr, rmarkdown
VignetteBuilder: knitr
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/SSSYDYSSS/TransProRBook
BugReports: https://github.com/SSSYDYSSS/TransProR/issues
LazyData: true
Depends: R (>= 4.3.0)
NeedsCompilation: no
Packaged: 2025-02-14 16:18:34 UTC; Yu
Author: Dongyue Yu [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-02-14 23:00:10 UTC

More information about TransProR at CRAN
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New package rangr with initial version 1.0.5
Package: rangr
Title: Mechanistic Simulation of Species Range Dynamics
Version: 1.0.5
Description: Integrates population dynamics and dispersal into a mechanistic virtual species simulator. The package can be used to study the effects of environmental change on population growth and range shifts. It allows for simple and straightforward definition of population dynamics (including positive density dependence), extensive possibilities for defining dispersal kernels, and the ability to generate virtual ecologist data. Learn more about the 'rangr' at <https://docs.ropensci.org/rangr/>.
License: MIT + file LICENSE
Imports: methods, parallel, pbapply, grDevices, graphics, stats, utils, zoo, terra, assertthat
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), covr, bookdown
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
URL: https://github.com/ropensci/rangr, https://docs.ropensci.org/rangr/, https://doi.org/10.1111/2041-210X.14475
BugReports: https://github.com/ropensci/rangr/issues
NeedsCompilation: no
Packaged: 2025-02-13 10:47:09 UTC; katar
Author: Katarzyna Markowska [aut, cre], Lechoslaw Kuczynski [aut], Tad Dallas [rev], Joanne Potts [rev]
Maintainer: Katarzyna Markowska <katarzyna.markowska@amu.edu.pl>
Repository: CRAN
Date/Publication: 2025-02-14 14:30:02 UTC

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New package PRMethods with initial version 0.1.0
Package: PRMethods
Title: D-Hondt, Sainte-Lague, and Modified Sainte-Lague Methods for Seat Allocation
Version: 0.1.0
Maintainer: Pau Bello Perez <paubelloperez@gmail.com>
Description: Calculates seat allocation using the D-Hondt method, Sainte-Lague method, and Modified Sainte-Lague method, all commonly used in proportional representation electoral systems. For more information on these methods, see Michael Gallagher (1991)<doi:10.1016/0261-3794(91)90004-C>.
License: MIT + file LICENSE
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-13 11:47:57 UTC; paube
Author: Pau Bello Perez [aut, cre]
Repository: CRAN
Date/Publication: 2025-02-14 14:30:10 UTC

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New package odbr with initial version 0.1.1
Package: odbr
Title: Download Data from Brazil's Origin Destination Surveys
Version: 0.1.1
Description: Download data from Brazil's Origin Destination Surveys. The package covers both data from household travel surveys, dictionaries of variables, and the spatial geometries of surveys conducted in different years and across various urban areas in Brazil. For some cities, the package will include enhanced versions of the data sets with variables "harmonized" across different years.
License: GPL (>= 3)
Depends: R (>= 2.10)
Imports: cli, data.table, fs, haven, piggyback, R.utils, sf
Suggests: knitr, rmarkdown, spelling, testthat (>= 3.2.0)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
URL: https://hsvab.github.io/odbr/, https://github.com/hsvab/odbr
BugReports: https://github.com/hsvab/odbr/issues
Language: en-US
NeedsCompilation: no
Packaged: 2025-02-13 12:22:23 UTC; hsvab
Author: Haydee Svab [aut, cre], Beatriz Milz [aut] , Diego Rabatone Oliveira [aut], Rafael H. M. Pereira [aut]
Maintainer: Haydee Svab <hsvab@hsvab.eng.br>
Repository: CRAN
Date/Publication: 2025-02-14 14:50:07 UTC

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New package multilandr with initial version 1.0.0
Package: multilandr
Title: Landscape Analysis at Multiple Spatial Scales
Version: 1.0.0
Maintainer: Pablo Yair Huais <pablo.huais@unc.edu.ar>
Description: Provides a tidy workflow for landscape-scale analysis. 'multilandr' offers tools to generate landscapes at multiple spatial scales and compute landscape metrics, primarily using the 'landscapemetrics' package. It also features utility functions for plotting and analyzing multi-scale landscapes, exploring correlations between metrics, filtering landscapes based on specific conditions, generating landscape gradients for a given metric, and preparing datasets for further statistical analysis. Documentation about 'multilandr' is provided in an introductory vignette included in this package and in the paper by Huais (2024) <doi:10.1007/s10980-024-01930-z>; see citation("multilandr") for details.
License: GPL (>= 3)
Encoding: UTF-8
Imports: terra (>= 1.7-71), GGally (>= 2.2.1), ggplot2 (>= 3.5.1), tidyterra (>= 0.6.0), gridExtra (>= 2.3), landscapemetrics (>= 2.1.1), sf (>= 1.0-16), methods (>= 4.3.0)
Depends: R (>= 4.3.0)
LazyData: true
Suggests: knitr, parallel (>= 4.1.0), rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://github.com/phuais/multilandr
BugReports: https://github.com/phuais/multilandr/issues
NeedsCompilation: no
Packaged: 2025-02-13 15:17:38 UTC; pablo
Author: Pablo Yair Huais [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-02-14 14:50:10 UTC

More information about multilandr at CRAN
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New package guideR with initial version 0.1.0
Package: guideR
Title: Miscellaneous Statistical Functions Used in 'guide-R'
Version: 0.1.0
Description: Companion package for the manual 'guide-R : Guide pour l’analyse de données d’enquêtes avec R' available at <https://larmarange.github.io/guide-R/>. 'guideR' implements miscellaneous functions introduced in 'guide-R' to facilitate statistical analysis and manipulation of survey data.
License: GPL (>= 3)
URL: https://larmarange.github.io/guideR/, https://github.com/larmarange/guideR
BugReports: https://github.com/larmarange/guideR/issues
Depends: R (>= 4.2)
Imports: cli, dplyr, ggplot2, labelled, lifecycle, pak, patchwork, purrr, renv, rlang, scales, srvyr, tidyr, tidyselect
Encoding: UTF-8
Suggests: broom.helpers, FactoMineR, nnet, spelling, survey, testthat (>= 3.0.0)
Language: en-US
NeedsCompilation: no
Packaged: 2025-02-13 10:26:32 UTC; josep
Author: Joseph Larmarange [aut, cre]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Repository: CRAN
Date/Publication: 2025-02-14 14:30:06 UTC

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New package ClusterGVis with initial version 0.1.2
Package: ClusterGVis
Title: One-Step to Cluster and Visualize Gene Expression Data
Version: 0.1.2
Description: Streamlining the clustering and visualization of time-series gene expression data from RNA-Seq experiments, this tool supports fuzzy c-means and k-means clustering algorithms. It is compatible with outputs from widely-used packages such as 'Seurat', 'Monocle', and 'WGCNA', enabling seamless downstream visualization and analysis. See Lokesh Kumar and Matthias E Futschik (2007) <doi:10.6026/97320630002005> for more details.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Depends: R (>= 2.10)
Imports: Biobase,circlize,clusterProfiler,colorRamps,ComplexHeatmap,dplyr,e1071, factoextra,ggplot2,grDevices,grid,magrittr,Matrix,methods,Mfuzz,purrr, reshape2,scales,SingleCellExperiment,stats,SummarizedExperiment,TCseq,tibble
Suggests: igraph, monocle, pheatmap, Seurat, WGCNA
BugReports: https://github.com/junjunlab/ClusterGVis/issues
NeedsCompilation: no
Packaged: 2025-02-13 11:34:18 UTC; 11389
Author: Jun Zhang [aut, cre]
Maintainer: Jun Zhang <3219030654@stu.cpu.edu.cn>
Repository: CRAN
Date/Publication: 2025-02-14 14:30:13 UTC

More information about ClusterGVis at CRAN
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Thu, 13 Feb 2025

New package DBCVindex with initial version 1.3
Encoding: UTF-8
Package: DBCVindex
Title: Calculates the Density-Based Clustering Validation (DBCV) Index
Version: 1.3
Description: A metric called 'Density-Based Clustering Validation index' (DBCV) index to evaluate clustering results, following the <https://github.com/pajaskowiak/clusterConfusion/blob/main/R/dbcv.R> 'R' implementation by Pablo Andretta Jaskowiak. Original 'DBCV' index article: Moulavi, D., Jaskowiak, P. A., Campello, R. J., Zimek, A., and Sander, J. (April 2014), "Density-based clustering validation", Proceedings of SDM 2014 -- the 2014 SIAM International Conference on Data Mining (pp. 839-847), <doi:10.1137/1.9781611973440.96>.
Depends: R (>= 4.0.0)
License: GPL-3
URL: https://github.com/davidechicco/DBCVindex
BugReports: https://github.com/davidechicco/DBCVindex/issues
Imports: qpdf
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-13 09:54:20 UTC; davide
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Repository: CRAN
Date/Publication: 2025-02-13 13:22:01 UTC

More information about DBCVindex at CRAN
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New package zonebuilder with initial version 0.1.0
Package: zonebuilder
Title: Create and Explore Geographic Zoning Systems
Version: 0.1.0
Description: Functions, documentation and example data to help divide geographic space into discrete polygons (zones). The package supports new zoning systems that are documented in the accompanying paper, "ClockBoard: A zoning system for urban analysis", by Lovelace et al. (2022) <doi:10.5311/JOSIS.2022.24.172>. The functions are motivated by research into the merits of different zoning systems (Openshaw, 1977) <doi:10.1068/a090169>. A flexible ClockBoard zoning system is provided, which breaks-up space by concentric rings and radial lines emanating from a central point. By default, the diameter of the rings grow according to the triangular number sequence (Ross & Knott, 2019) <doi:10.1080/26375451.2019.1598687> with the first 4 doughnuts (or annuli) measuring 1, 3, 6, and 10 km wide. These annuli are subdivided into equal segments (12 by default), creating the visual impression of a dartboard. Zones are labelled according to distance to the centre and angular distance from N [...truncated...]
License: GPL-3
BugReports: https://github.com/zonebuilders/zonebuilder/issues
Depends: R (>= 3.5.0)
Imports: sf, RColorBrewer, graphics, grDevices
Suggests: knitr, rmarkdown, tmap, tmaptools, dplyr, lwgeom, leaflet, covr, bookdown
VignetteBuilder: knitr
URL: https://github.com/zonebuilders/zonebuilder, https://zonebuilders.github.io/zonebuilder/
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-13 12:03:52 UTC; robin
Author: Robin Lovelace [aut, cre] , Martijn Tennekes [aut]
Maintainer: Robin Lovelace <rob00x@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-13 12:40:02 UTC

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New package tomledit with initial version 0.1.0
Package: tomledit
Title: Parse, Read, and Edit 'TOML'
Version: 0.1.0
Description: A toolkit for working with 'TOML' files in R while preserving formatting, comments, and structure. 'tomledit' enables serialization of R objects such as lists, data.frames, numeric, logical, and date vectors.
License: MIT + file LICENSE
Encoding: UTF-8
Language: en
SystemRequirements: Cargo (Rust's package manager), rustc
Depends: R (>= 4.1.0)
Imports: rlang (>= 1.1.0)
URL: https://josiahparry.github.io/tomledit/
NeedsCompilation: yes
Packaged: 2025-02-12 21:55:35 UTC; josiahparry
Author: Josiah Parry [aut, cre]
Maintainer: Josiah Parry <josiah.parry@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-13 11:30:03 UTC

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New package rchroma with initial version 0.1.0
Package: rchroma
Title: A Client for 'ChromaDB'
Version: 0.1.0
Description: Client for 'ChromaDB', a vector database for storing and querying embeddings. This package provides a convenient interface to interact with the REST API of 'ChromaDB' <https://docs.trychroma.com>.
License: MIT + file LICENSE
URL: https://github.com/cynkra/rchroma
BugReports: https://github.com/cynkra/rchroma/issues
Language: en-US
Encoding: UTF-8
Imports: httr2 (>= 1.0.0)
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, covr, spelling
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-13 04:22:40 UTC; david
Author: David Schoch [aut, cre] , Christoph Sax [aut], cynkra LLC [cph]
Maintainer: David Schoch <david@schochastics.net>
Repository: CRAN
Date/Publication: 2025-02-13 11:30:09 UTC

More information about rchroma at CRAN
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New package PerMallows with initial version 1.14
Package: PerMallows
Title: Permutations and Mallows Distributions
Version: 1.14
Date: 2025-02-11
Description: Includes functions to work with the Mallows and Generalized Mallows Models. The considered distances are Kendall's-tau, Cayley, Hamming and Ulam and it includes functions for making inference, sampling and learning such distributions, some of which are novel in the literature. As a by-product, PerMallows also includes operations for permutations, paying special attention to those related with the Kendall's-tau, Cayley, Ulam and Hamming distances. It is also possible to generate random permutations at a given distance, or with a given number of inversions, or cycles, or fixed points or even with a given length on LIS (longest increasing subsequence).
License: GPL (>= 2)
Depends: R (>= 4.0)
Imports: utils
LinkingTo: Rcpp
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-02-13 09:21:59 UTC; ekhi
Author: Ekhine Irurozki [aut, cre], Borja Calvo [aut], Jose A. Lozano [aut]
Maintainer: Ekhine Irurozki <irurozki@telecom-paris.fr>
Repository: CRAN
Date/Publication: 2025-02-13 11:20:05 UTC

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New package IFTPredictor with initial version 0.1.0
Package: IFTPredictor
Title: Predictions Using Item-Focused Tree Models
Version: 0.1.0
Author: Muditha L. Bodawatte Gedara [aut, cre], Barret A. Monchka [aut], Lisa M. Lix [aut]
Maintainer: Muditha L. Bodawatte Gedara <muditha.lakmali.1993@gmail.com>
Description: This function predicts item response probabilities and item responses using the item-focused tree model. The item-focused tree model combines logistic regression with recursive partitioning to detect Differential Item Functioning in dichotomous items. The model applies partitioning rules to the data, splitting it into homogeneous subgroups, and uses logistic regression within each subgroup to explain the data. Differential Item Functioning detection is achieved by examining potential group differences in item response patterns. This method is useful for understanding how different predictors, such as demographic or psychological factors, influence item responses across subgroups.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: DIFtree
Suggests: devtools, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-13 04:19:09 UTC; mudithalakmali
Repository: CRAN
Date/Publication: 2025-02-13 11:30:28 UTC

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New package fracARMA with initial version 0.1.0
Package: fracARMA
Title: Fractionally Integrated ARMA Model
Version: 0.1.0
Maintainer: Muhammed Irshad M <irshadmiitm@gmail.com>
Description: Implements fractional differencing with Autoregressive Moving Average models to analyse long-memory time series data. Traditional ARIMA models typically use integer values for differencing, which are suitable for time series with short memory or anti-persistent behaviour. In contrast, the Fractional ARIMA model allows fractional differencing, enabling it to effectively capture long memory characteristics in time series data. The ‘fracARMA’ package is user-friendly and allows users to manually input the fractional differencing parameter, which can be obtained using various estimators such as the GPH estimator, Sperio method, or Wavelet method and many. Additionally, the package enables users to directly feed the time series data, AR order, MA order, fractional differencing parameter, and the proportion of training data as a split ratio, all in a single command. The package is based on the reference from the paper of Irshad and others (2024, <doi:10.22271/maths.2024.v9.i6b.19 [...truncated...]
Encoding: UTF-8
License: GPL-3
Imports: forecast, fracdiff
NeedsCompilation: no
Packaged: 2025-02-12 18:30:01 UTC; irshad m
Author: Muhammed Irshad M [aut, cre], Dr. Kader Ali Sarkar [aut], Dr. Digvijay Singh Dhakre [aut], Prof. Debasis Bhattacharaya [aut]
Repository: CRAN
Date/Publication: 2025-02-13 11:20:02 UTC

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New package swash with initial version 1.0.0
Package: swash
Title: Swash-Backwash Model for the Single Epidemic Wave
Version: 1.0.0
Date: 2025-02-12
Author: Thomas Wieland [aut, cre]
Maintainer: Thomas Wieland <geowieland@googlemail.com>
Description: The Swash-Backwash Model for the Single Epidemic Wave was developed by Cliff and Haggett (2006) <doi:10.1007/s10109-006-0027-8> to model the velocity of spread of infectious diseases across space. This package enables the calculation of the Swash-Backwash Model for user-supplied panel data on regional infections. The package also provides additional functions for bootstrap confidence intervals and data management.
License: GPL (>= 2)
Imports: methods
NeedsCompilation: no
Packaged: 2025-02-12 08:32:40 UTC; thoma
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-13 10:30:02 UTC

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New package sgdGMF with initial version 1.0
Package: sgdGMF
Title: Estimation of Generalized Matrix Factorization Models via Stochastic Gradient Descent
Version: 1.0
Date: 2025-01-28
Description: Efficient framework to estimate high-dimensional generalized matrix factorization models using penalized maximum likelihood under a dispersion exponential family specification. Either deterministic and stochastic methods are implemented for the numerical maximization. In particular, the package implements the stochastic gradient descent algorithm with a block-wise mini-batch strategy to speed up the computations and an efficient adaptive learning rate schedule to stabilize the convergence. All the theoretical details can be found in Castiglione et al. (2024, <doi:10.48550/arXiv.2412.20509>). Other methods considered for the optimization are the alternated iterative re-weighted least squares and the quasi-Newton method with diagonal approximation of the Fisher information matrix discussed in Kidzinski et al. (2022, <http://jmlr.org/papers/v23/20-1104.html>).
License: MIT + file LICENSE
Imports: Rcpp (>= 1.0.10), RcppArmadillo, RSpectra, parallel, doParallel, foreach, MASS, SuppDists, methods, generics, reshape2, ggpubr, viridisLite
LinkingTo: Rcpp, RcppArmadillo
Depends: R (>= 4.0.0), ggplot2
Suggests: testthat (>= 3.0.0), Rtsne, dplyr, knitr, rmarkdown
Encoding: UTF-8
URL: https://github.com/CristianCastiglione/sgdGMF
BugReports: https://github.com/CristianCastiglione/sgdGMF/issues
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-12 10:42:15 UTC; crist
Author: Cristian Castiglione [aut, cre] , Davide Risso [ctb] , Alexandre Segers [ctb]
Maintainer: Cristian Castiglione <cristian_castiglione@libero.it>
Repository: CRAN
Date/Publication: 2025-02-13 10:30:06 UTC

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New package giniCI with initial version 0.1.0
Package: giniCI
Title: Gini-Based Composite Indicators
Version: 0.1.0
Maintainer: Viet Duong Nguyen <viet-duong.nguyen@outlook.com>
Description: An implementation of Gini-based weighting approaches in constructing composite indicators, providing functionalities for normalization, aggregation, and ranking comparison.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
Imports: DescTools (>= 0.99.57), ggplot2 (>= 3.5.1), ggrepel (>= 0.9.6), ggpubr (>= 0.6.0)
Suggests: R.rsp
VignetteBuilder: R.rsp
NeedsCompilation: no
Packaged: 2025-02-12 15:48:08 UTC; Duong Nguyen
Author: Viet Duong Nguyen [aut, cre] , Chiara Gigliarano [aut] , Mariateresa Ciommi [aut]
Repository: CRAN
Date/Publication: 2025-02-13 10:30:10 UTC

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New package evesim with initial version 1.0.0
Package: evesim
Title: Evolution Emulator: Species Diversification under an Evolutionary Relatedness Dependent Scenario
Version: 1.0.0
Description: Evolutionary relatedness dependent diversification simulation powered by the 'Rcpp' back-end 'SimTable'.
License: MIT + file LICENSE
Depends: R (>= 4.4.0)
Imports: Rcpp, RcppParallel
Encoding: UTF-8
SystemRequirements: C++17
LinkingTo: Rcpp (>= 1.0.11), RcppParallel
URL: http://qtj.me/evesim/
NeedsCompilation: yes
Packaged: 2025-02-12 14:08:36 UTC; tianj
Author: Tianjian Qin [aut, cre], Hanno Hildenbrandt [aut] , Luis Valente [aut, ths], Rampal Etienne [aut, ths]
Maintainer: Tianjian Qin <t.qin@rug.nl>
Repository: CRAN
Date/Publication: 2025-02-13 10:30:14 UTC

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New package BayesChange with initial version 1.1.0
Package: BayesChange
Title: Bayesian Methods for Change Points Analysis
Version: 1.1.0
Description: Perform change points detection on univariate and multivariate time series according to the methods presented by Asael Fabian Martínez and Ramsés H. Mena (2014) <doi:10.1214/14-BA878> and Corradin, Danese and Ongaro (2022) <doi:10.1016/j.ijar.2021.12.019>. It also clusters different types of time dependent data with common change points, see "Model-based clustering of time-dependent observations with common structural changes" (Corradin,Danese,KhudaBukhsh and Ongaro, 2024) <doi:10.48550/arXiv.2410.09552> for details.
License: GPL (>= 3)
Encoding: UTF-8
LinkingTo: Rcpp, RcppArmadillo, RcppGSL
Imports: Rcpp
Depends: R (>= 3.5.0)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://github.com/lucadanese/BayesChange
BugReports: https://github.com/lucadanese/BayesChange/issues
NeedsCompilation: yes
Packaged: 2025-02-12 09:49:13 UTC; LUCA
Author: Luca Danese [aut, cre, cph] , Riccardo Corradin [aut], Andrea Ongaro [aut]
Maintainer: Luca Danese <l.danese1@campus.unimib.it>
Repository: CRAN
Date/Publication: 2025-02-13 10:30:17 UTC

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New package ptetools with initial version 1.0.0
Package: ptetools
Title: Panel Treatment Effects Tools
Version: 1.0.0
URL: https://github.com/bcallaway11/ptetools
BugReports: https://github.com/bcallaway11/ptetools/issues
Description: Generic code for estimating treatment effects with panel data. The idea is to break into separate steps organizing the data, looping over groups and time periods, computing group-time average treatment effects, and aggregating group-time average treatment effects. Often, one is able to implement a new identification/estimation procedure by simply replacing the step on estimating group-time average treatment effects. See several different examples of this approach in the package documentation.
License: GPL-3
Encoding: UTF-8
Imports: BMisc (>= 1.4.7), Matrix, ggplot2, DRDID, tidyr, dplyr, pbapply, splines2
Suggests: testthat (>= 3.0.0), did
NeedsCompilation: no
Packaged: 2025-02-11 21:19:36 UTC; bmc43193
Author: Brantly Callaway [aut, cre]
Maintainer: Brantly Callaway <brantly.callaway@uga.edu>
Repository: CRAN
Date/Publication: 2025-02-13 10:00:01 UTC

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New package NLPwavelet with initial version 1.0
Package: NLPwavelet
Title: Bayesian Wavelet Analysis Using Non-Local Priors
Version: 1.0
Date: 2025-02-09
Description: Performs Bayesian wavelet analysis using individual non-local priors as described in Sanyal & Ferreira (2017) <DOI:10.1007/s13571-016-0129-3> and non-local prior mixtures as described in Sanyal (2025) <DOI:10.48550/arXiv.2501.18134>.
License: GPL (>= 2)
Imports: Rcpp (>= 1.0.14), wavethresh
LinkingTo: Rcpp, RcppArmadillo
URL: https://nilotpalsanyal.github.io/NLPwavelet/
BugReports: https://github.com/nilotpalsanyal/NLPwavelet/issues
Repository: CRAN
NeedsCompilation: yes
Packaged: 2025-02-11 22:59:56 UTC; nsanyal
Author: Nilotpal Sanyal [aut, cre]
Maintainer: Nilotpal Sanyal <nsanyal@utep.edu>
Date/Publication: 2025-02-13 10:00:06 UTC

More information about NLPwavelet at CRAN
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New package VARcpDetectOnline with initial version 0.2.0
Package: VARcpDetectOnline
Title: Sequential Change Point Detection for High-Dimensional VAR Models
Version: 0.2.0
Description: Implements the algorithm introduced in Tian, Y., and Safikhani, A. (2024) <doi:10.5705/ss.202024.0182>, "Sequential Change Point Detection in High-dimensional Vector Auto-regressive Models". This package provides tools for detecting change points in the transition matrices of VAR models, effectively identifying shifts in temporal and cross-correlations within high-dimensional time series data.
Encoding: UTF-8
LazyData: true
Imports: MASS, corpcor, Matrix, glmnet, doParallel, stats
Suggests: ggplot2
License: GPL-2 | file LICENSE
URL: https://github.com/Helloworld9293/VARcpDetectOnline
BugReports: https://github.com/Helloworld9293/VARcpDetectOnline/issues
NeedsCompilation: no
Packaged: 2025-02-12 18:06:25 UTC; AAA
Author: Yuhan Tian [aut, cre], Abolfazl Safikhani [aut]
Maintainer: Yuhan Tian <yuhan.tian@ufl.edu>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-13 08:40:02 UTC

More information about VARcpDetectOnline at CRAN
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New package FPDclustering with initial version 2.3.4
Package: FPDclustering
Title: PD-Clustering and Related Methods
Version: 2.3.4
Date: 2025-02-12
Maintainer: Cristina Tortora <grikris1@gmail.com>
Description: Probabilistic distance clustering (PD-clustering) is an iterative, distribution-free, probabilistic clustering method. PD-clustering assigns units to a cluster according to their probability of membership under the constraint that the product of the probability and the distance of each point to any cluster center is a constant. PD-clustering is a flexible method that can be used with elliptical clusters, outliers, or noisy data. PDQ is an extension of the algorithm for clusters of different sizes. GPDC and TPDC use a dissimilarity measure based on densities. Factor PD-clustering (FPDC) is a factor clustering method that involves a linear transformation of variables and a cluster optimizing the PD-clustering criterion. It works on high-dimensional data sets.
Depends: ThreeWay,mvtnorm,R (>= 4.1.0)
Imports: ExPosition, cluster,rootSolve, MASS, klaR, GGally, ggplot2, ggeasy
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2025-02-12 18:28:45 UTC; 011543324
Repository: CRAN
Date/Publication: 2025-02-13 08:40:06 UTC
Author: Cristina Tortora [aut, cre, cph], Noe Vidales [aut], Francesco Palumbo [aut], Tina Kalra [aut], Paul D. McNicholas [fnd]

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Wed, 12 Feb 2025

New package sspm with initial version 1.0.3
Package: sspm
Title: Spatial Surplus Production Model Framework for Northern Shrimp Populations
Version: 1.0.3
Description: Implement a GAM-based (Generalized Additive Models) spatial surplus production model (spatial SPM), aimed at modeling northern shrimp population in Atlantic Canada but potentially to any stock in any location. The package is opinionated in its implementation of SPMs as it internally makes the choice to use penalized spatial gams with time lags. However, it also aims to provide options for the user to customize their model. The methods are described in Pedersen et al. (2022, <https://www.dfo-mpo.gc.ca/csas-sccs/Publications/ResDocs-DocRech/2022/2022_062-eng.html>).
License: MIT + file LICENSE
BugReports: https://github.com/pedersen-fisheries-lab/sspm/issues
URL: https://pedersen-fisheries-lab.github.io/sspm/
Encoding: UTF-8
Depends: sf, mgcv, R (>= 3.5.0)
Imports: stats, methods, units, checkmate, cli, tibble, magrittr, tidyr, dplyr, purrr, stringr, rlang
Suggests: testthat (>= 3.0.0), covr, ggplot2, ggforce, lwgeom, tweedie, sfdct, knitr, rmarkdown
LazyData: True
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-11 20:54:13 UTC; vlucet
Author: Valentin Lucet [aut, cre, cph], Eric Pedersen [aut]
Maintainer: Valentin Lucet <valentin.lucet@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-12 20:20:01 UTC

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New package rockx with initial version 0.0.2
Package: rockx
Title: Easily Import Data from Your 'ODK-X Sync Endpoint'
Version: 0.0.2
Description: Provides helper functions for authenticating and retrieving data from your 'ODK-X Sync Endpoint'. This is an early release intended for testing and feedback.
License: MIT + file LICENSE
Depends: R (>= 4.1.0)
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Imports: dplyr, httr, jsonlite, purrr, tidyr, rlang
NeedsCompilation: no
Packaged: 2025-02-11 19:12:01 UTC; emil
Author: Emil Rossing [aut, cre]
Maintainer: Emil Rossing <hello@sapiens-solutions.com>
Repository: CRAN
Date/Publication: 2025-02-12 20:10:01 UTC

More information about rockx at CRAN
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New package manydist with initial version 0.4.3
Package: manydist
Title: Unbiased Distances for Mixed-Type Data
Version: 0.4.3
Maintainer: Angelos Markos <amarkos@gmail.com>
Description: A comprehensive framework for calculating unbiased distances in datasets containing mixed-type variables (numerical and categorical). The package implements a general formulation that ensures multivariate additivity and commensurability, meaning that variables contribute equally to the overall distance regardless of their type, scale, or distribution. Supports multiple distance measures including Gower's distance, Euclidean distance, Manhattan distance, and various categorical variable distances such as simple matching, Eskin, occurrence frequency, and association-based distances. Provides tools for variable scaling (standard deviation, range, robust range, and principal component scaling), and handles both independent and association-based category dissimilarities. Implements methods to correct for biases that typically arise from different variable types, distributions, and number of categories. Particularly useful for cluster analysis, data visualization, and other distance-based me [...truncated...]
Imports: entropy, Matrix, fastDummies, data.table, philentropy, cluster, purrr, dplyr, tidyr, forcats, tibble, magrittr, fpc, recipes, rsample, Rfast, readr, distances
Depends: R (>= 4.1.0)
Suggests: palmerpenguins
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-11 17:35:43 UTC; amarkos
Author: Alfonso Iodice D'Enza [aut], Angelos Markos [aut, cre], Michel van de Velden [aut], Carlo Cavicchia [aut]
Repository: CRAN
Date/Publication: 2025-02-12 19:40:02 UTC

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New package LeadSense with initial version 0.0.1.0000
Package: LeadSense
Title: Medtronic Brain Sense Local Field Potencial Analysis
Version: 0.0.1.0000
Description: Extracts and creates an analysis pipeline for the JSON data files from Brain Sense sessions using Medtronic's Deep Brain Stimulation surgery electrode implants.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: dplyr, ggplot2, ggpubr, tidyr
Suggests: testthat (>= 3.0.0)
Depends: R (>= 3.5)
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-11 17:34:05 UTC; paulo
Author: Paulo Bastos [aut, cre]
Maintainer: Paulo Bastos <pauloandrediasbastos01@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-12 19:40:05 UTC

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New package geocodebr with initial version 0.1.0
Package: geocodebr
Title: Geolocalização De Endereços Brasileiros (Geocoding Brazilian Addresses)
Version: 0.1.0
Description: Método simples e eficiente de geolocalizar dados no Brasil. O pacote é baseado em conjuntos de dados espaciais abertos de endereços brasileiros, utilizando principalmente o Cadastro Nacional de Endereços para Fins Estatísticos (CNEFE). O CNEFE é publicado pelo Instituto Brasileiro de Geografia e Estatística (IBGE), órgão oficial de estatísticas e geografia do Brasil. (A simple and efficient method for geolocating data in Brazil. The package is based on open spatial datasets of Brazilian addresses, primarily using the Cadastro Nacional de Endereços para Fins Estatísticos (CNEFE), published by the Instituto Brasileiro de Geografia e Estatística (IBGE), Brazil's official statistics and geography agency.)
License: MIT + file LICENSE
URL: https://github.com/ipeaGIT/geocodebr, https://ipeagit.github.io/geocodebr/
BugReports: https://github.com/ipeaGIT/geocodebr/issues
Depends: R (>= 4.1.0)
Imports: arrow (>= 15.0.1), checkmate, cli, data.table, DBI, dplyr, duckdb, enderecobr, fs, glue, httr2 (>= 1.0.0), parallel, purrr, rlang, sf, sfheaders, tools
Suggests: covr, dbplyr, geobr, ggplot2 (>= 3.3.1), knitr, rmarkdown, scales, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-11 18:50:14 UTC; user
Author: Rafael H. M. Pereira [aut, cre] , Daniel Herszenhut [aut] , Ipea - Instituto de Pesquisa Economica Aplicada [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-12 20:00:02 UTC

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New package hdqr with initial version 1.0.1
Package: hdqr
Title: Fast Algorithm for Penalized Quantile Regression
Version: 1.0.1
Date: 2025-02-05
Maintainer: Qian Tang <qian-tang@uiowa.edu>
Description: Implements an efficient algorithm to fit and tune penalized quantile regression models using the generalized coordinate descent algorithm. Designed to handle high-dimensional datasets effectively, with emphasis on precision and computational efficiency. This package implements the algorithms proposed in Tang, Q., Zhang, Y., & Wang, B. (2022) <https://openreview.net/pdf?id=RvwMTDYTOb>.
License: GPL-2
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: stats, Matrix, methods
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-05 21:24:58 UTC; qtang7
Author: Qian Tang [aut, cre], Yikai Zhang [aut], Boxiang Wang [aut]
Repository: CRAN
Date/Publication: 2025-02-12 18:20:02 UTC

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New package BIOMASS with initial version 2.1.12
Package: BIOMASS
Title: Estimating Aboveground Biomass and Its Uncertainty in Tropical Forests
Version: 2.1.12
Date: 2025-01-21
Description: Contains functions to estimate aboveground biomass/carbon and its uncertainty in tropical forests. These functions allow to (1) retrieve and to correct taxonomy, (2) estimate wood density and its uncertainty, (3) construct height-diameter models, (4) manage tree and plot coordinates, (5) estimate the aboveground biomass/carbon at the stand level with associated uncertainty. To cite 'BIOMASS', please use citation("BIOMASS"). See more in the article of Réjou-Méchain et al. (2017) <doi:10.1111/2041-210X.12753>.
License: GPL-2
Encoding: UTF-8
LazyData: true
Depends: R(>= 3.6)
URL: https://github.com/umr-amap/BIOMASS
BugReports: https://github.com/umr-amap/BIOMASS/issues
Imports: minpack.lm, jsonlite, methods, proj4, graphics, stats, utils, data.table (>= 1.9.8), rappdirs, sf, terra
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, prettydoc, testthat, curl, geodata, httr2
NeedsCompilation: no
Packaged: 2025-01-21 17:11:03 UTC; lamonica
Author: Maxime Rejou-Mechain [aut, dtc], Guillaume Cornu [aut] , Dominique Lamonica [aut, cre], Arthur Pere [aut], Ariane Tanguy [aut], Camille Piponiot [aut], Jerome Chave [dtc], Bruno Herault [aut], Ted Feldpausch [dtc], Philippe Verley [ctb]
Maintainer: Dominique Lamonica <dominique.lamonica@ird.fr>
Repository: CRAN
Date/Publication: 2025-02-12 18:20:05 UTC

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Tue, 11 Feb 2025

New package Surrogate with initial version 3.3.3
Package: Surrogate
Title: Evaluation of Surrogate Endpoints in Clinical Trials
Version: 3.3.3
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a (bio)marker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's Seventh Framework Programme for research, technological development and demonstration (Grant Agreement no 602552), the Special Research Fund (BOF) of Hasselt University (BOF-number: BOF2OCPO3), GlaxoSmithKline Biologicals, Baekeland Mandaat (HBC.2022.0145), and Johnson & Johnson Innovative Medicine.
Imports: MASS, lattice, latticeExtra, survival, nlme, lme4, logistf, rms, ks, extraDistr, pbapply, flexsurv, rvinecopulib, maxLik, purrr, MBESS, tidyr, dplyr, tibble, lifecycle
Depends: R (>= 3.5.0)
License: GPL (>= 2)
Repository: CRAN
NeedsCompilation: no
Encoding: UTF-8
Suggests: copula, FNN, mgcv, testthat (>= 3.0.0), vdiffr, parallel, fitdistrplus, kdecopula, cubature, mvtnorm, withr, stringr, ggplot2, sn
URL: https://github.com/florianstijven/Surrogate-development
BugReports: https://github.com/florianstijven/Surrogate-development/issues
Packaged: 2025-02-11 14:26:42 UTC; u0157247
Author: Wim Van Der Elst [cre, aut], Florian Stijven [aut], Fenny Ong [aut], Dries De Witte [aut], Paul Meyvisch [aut], Alvaro Poveda [aut], Ariel Alonso [aut], Hannah Ensor [aut], Christoper Weir [aut], Geert Molenberghs [aut]
Maintainer: Wim Van Der Elst <wim.vanderelst@gmail.com>
Date/Publication: 2025-02-11 23:50:02 UTC

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New package streamy with initial version 0.1.0
Package: streamy
Title: Inline Asynchronous Generator Results into Documents
Version: 0.1.0
Description: Given a 'coro' asynchronous generator instance that produces text, write that text into a document selection in 'RStudio' and 'Positron'. This is particularly helpful for streaming large language model responses into the user's editor.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/simonpcouch/streamy, https://simonpcouch.github.io/streamy/
BugReports: https://github.com/simonpcouch/streamy/issues
Imports: cli (>= 3.6.3), coro (>= 1.1.0), rlang, rstudioapi (>= 0.17.1), withr
Suggests: ellmer, knitr, rmarkdown, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-11 15:24:41 UTC; simoncouch
Author: Simon Couch [aut, cre], Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Repository: CRAN
Date/Publication: 2025-02-11 17:30:01 UTC

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New package quadVAR with initial version 0.1.2
Package: quadVAR
Title: Quadratic Vector Autoregression
Version: 0.1.2
Description: Estimate quadratic vector autoregression models with the strong hierarchy using the Regularization Algorithm under Marginality Principle (RAMP) by Hao et al. (2018) <doi:10.1080/01621459.2016.1264956>, compare the performance with linear models, and construct networks with partial derivatives.
License: GPL (>= 3)
URL: https://github.com/Sciurus365/quadVAR, https://sciurus365.github.io/quadVAR/
BugReports: https://github.com/Sciurus365/quadVAR/issues
Imports: cli, dplyr, ggplot2, magrittr, ncvreg, qgraph, RAMP, rlang, shiny, shinythemes, stats, stringr, tibble, tidyr
Suggests: nonlinearTseries, remotes, SIS, testthat (>= 3.0.0)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-11 14:08:33 UTC; jingm
Author: Jingmeng Cui [aut, cre]
Maintainer: Jingmeng Cui <jingmeng.cui@outlook.com>
Repository: CRAN
Date/Publication: 2025-02-11 17:30:05 UTC

More information about quadVAR at CRAN
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New package parseLatex with initial version 0.2.1
Package: parseLatex
Title: Parse 'LaTeX' Code
Version: 0.2.1
Description: Exports an enhanced version of the tools::parseLatex() function to handle 'LaTeX' syntax more accurately. Also includes numerous functions for searching and modifying 'LaTeX' source.
License: GPL (>= 2)
Encoding: UTF-8
URL: https://github.com/dmurdoch/parseLatex, https://dmurdoch.github.io/parseLatex/
BugReports: https://github.com/dmurdoch/parseLatex/issues
Suggests: kableExtra, knitr, rmarkdown
Imports: utils
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-11 09:52:08 UTC; murdoch
Author: Duncan Murdoch [aut, cre], The R Core Team [ctb, cph]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-11 17:10:01 UTC

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New package metacoder with initial version 0.3.8
Package: metacoder
Title: Tools for Parsing, Manipulating, and Graphing Taxonomic Abundance Data
Version: 0.3.8
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
Description: Reads, plots, and manipulates large taxonomic data sets, like those generated from modern high-throughput sequencing, such as metabarcoding (i.e. amplification metagenomics, 16S metagenomics, etc). It provides a tree-based visualization called "heat trees" used to depict statistics for every taxon in a taxonomy using color and size. It also provides various functions to do common tasks in microbiome bioinformatics on data in the 'taxmap' format defined by the 'taxa' package. The 'metacoder' package is described in the publication by Foster et al. (2017) <doi:10.1371/journal.pcbi.1005404>.
Depends: R (>= 3.0.2)
License: GPL-2 | GPL-3
LazyData: true
URL: https://grunwaldlab.github.io/metacoder_documentation/
BugReports: https://github.com/grunwaldlab/metacoder/issues
Imports: stringr, ggplot2, igraph, grid, taxize, seqinr, RCurl, ape, stats, grDevices, utils, lazyeval, dplyr, magrittr, readr, rlang, ggfittext, vegan, cowplot, GA, Rcpp, crayon, tibble, R6
Suggests: knitr, rmarkdown, testthat, zlibbioc, BiocManager, phyloseq, phylotate, traits, biomformat, DESeq2
VignetteBuilder: knitr
Encoding: UTF-8
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2025-02-11 16:17:55 UTC; fosterz
Author: Zachary Foster [aut, cre], Niklaus Grunwald [ths], Kamil Slowikowski [ctb], Scott Chamberlain [ctb], Rob Gilmore [ctb]
Repository: CRAN
Date/Publication: 2025-02-11 17:40:02 UTC

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New package gaussratiovegind with initial version 1.0.1
Package: gaussratiovegind
Title: Distribution of Gaussian Ratios
Version: 1.0.1
Maintainer: Pierre Santagostini <pierre.santagostini@institut-agro.fr>
Description: It is well known that the distribution of a Gaussian ratio does not follow a Gaussian distribution. The lack of awareness among users of vegetation indices about this non-Gaussian nature could lead to incorrect statistical modeling and interpretation. This package provides tools to accurately handle and analyse such ratios: density function, parameter estimation, simulation. An example on the study of chlorophyll fluorescence can be found in A. El Ghaziri et al. (2023) <doi:10.3390/rs15020528>.
License: GPL (>= 3)
URL: https://forgemia.inra.fr/imhorphen/gaussratiovegind
BugReports: https://forgemia.inra.fr/imhorphen/gaussratiovegind/-/issues
Encoding: UTF-8
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-11 16:55:39 UTC; psantagosti
Author: Pierre Santagostini [aut, cre], Angelina El Ghaziri [aut], Nizar Bouhlel [aut], David Rousseau [ctb]
Repository: CRAN
Date/Publication: 2025-02-11 17:50:02 UTC

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New package schwabr with initial version 0.1.2
Package: schwabr
Title: 'Schwab API' Interface for R
Version: 0.1.2
Author: Anthony Trevisan [aut, cre]
Maintainer: Anthony Trevisan <anthonytrevisan@gmail.com>
URL: https://altanalytics.github.io/schwabr/
BugReports: https://github.com/altanalytics/schwabr/issues
Description: Use R to interface with the 'Charles Schwab Trade API' <https://developer.schwab.com/>. Functions include authentication, trading, price requests, account information, and option chains. A user will need a Schwab brokerage account and Schwab Individual Developer app. See README for authentication process and examples.
License: GPL-3
Encoding: UTF-8
Imports: httr, urltools (>= 1.7.3), base64enc, lubridate, dplyr, jsonlite, magrittr, methods
Suggests: testthat
NeedsCompilation: no
Packaged: 2025-02-10 18:29:31 UTC; ubuntu
Repository: CRAN
Date/Publication: 2025-02-11 16:50:02 UTC

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New package metaquant with initial version 0.1.1
Package: metaquant
Title: Estimating Means, Standard Deviations and Visualising Distributions using Quantiles
Version: 0.1.1
Maintainer: Udara Kumaranathunga <U.Kumaranathunga@latrobe.edu.au>
Author: Udara Kumaranathunga [cre], Alysha De Livera [aut], Luke Prendergast [aut]
Description: Implements a novel density-based approach for estimating unknown means, visualizing distributions, and meta-analyses of quantiles. A detailed vignettes with example datasets and code to prepare data and analyses is available at <https://bookdown.org/a2delivera/metaquant/>. The methods are described in the pre-print by De Livera, Prendergast and Kumaranathunga (2024, <doi:10.48550/arXiv.2411.10971>).
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: gld, sld, stats, ggplot2, plotly, magrittr, dplyr, estmeansd
NeedsCompilation: no
Packaged: 2025-02-11 02:01:22 UTC; 22102238
Repository: CRAN
Date/Publication: 2025-02-11 17:00:02 UTC

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New package IVPP with initial version 1.0.0
Package: IVPP
Title: Invariance Partial Pruning Test
Version: 1.0.0
Description: An implementation of the Invariance Partial Pruning (IVPP) approach described in Du, X., Johnson, S. U., Epskamp, S. (in prep)to comparing idiographic and panel network models. IVPP is a two-step method that first test for global network structural difference with invariance test and then inspect specific edge difference with partial pruning.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.3.0)
Imports: bootnet, clusterGeneration, dplyr, mvtnorm, psychonetrics, graphicalVAR, lifecycle
BugReports: https://github.com/xinkaidupsy/IVPP/issues
URL: https://github.com/xinkaidupsy/IVPP
NeedsCompilation: no
Packaged: 2025-02-11 04:08:55 UTC; xinkaidu
Author: Xinkai Du [aut, cre, cph]
Maintainer: Xinkai Du <xinkai.du.xd@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-11 17:00:09 UTC

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New package IIS with initial version 1.1
Package: IIS
Version: 1.1
Date: 2025-02-07
Title: Datasets to Accompany Wolfe and Schneider - Intuitive Introductory Statistics
Description: These datasets and functions accompany Wolfe and Schneider (2017) - Intuitive Introductory Statistics (ISBN: 978-3-319-56070-0) <doi:10.1007/978-3-319-56072-4>. They are used in the examples throughout the text and in the end-of-chapter exercises. The datasets are meant to cover a broad range of topics in order to appeal to the diverse set of interests and backgrounds typically present in an introductory Statistics class.
Maintainer: Grant Schneider <gschneidz@gmail.com>
License: GPL-2
LazyLoad: yes
Depends: R (>= 2.10)
Imports: asbio, BSDA, Hmisc, NSM3, Rfit
NeedsCompilation: no
Packaged: 2025-02-10 23:17:39 UTC; grant
Repository: CRAN
Date/Publication: 2025-02-11 16:50:05 UTC
Author: Grant Schneider [aut, cre]

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New package hdsvm with initial version 1.0.1
Package: hdsvm
Title: Fast Algorithm for Support Vector Machine
Version: 1.0.1
Date: 2025-02-05
Maintainer: Yikai Zhang <yikai-zhang@uiowa.edu>
Description: Implements an efficient algorithm to fit and tune penalized Support Vector Machine models using the generalized coordinate descent algorithm. Designed to handle high-dimensional datasets effectively, with emphasis on precision and computational efficiency. This package implements the algorithms proposed in Tang, Q., Zhang, Y., & Wang, B. (2022) <https://openreview.net/pdf?id=RvwMTDYTOb>.
License: GPL-2
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: stats, Matrix, methods
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-05 20:41:31 UTC; qtang7
Author: Yikai Zhang [aut, cre], Qian Tang [aut], Boxiang Wang [aut]
Repository: CRAN
Date/Publication: 2025-02-11 13:50:02 UTC

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New package R.AlphA.Home with initial version 1.0.0
Package: R.AlphA.Home
Title: Feel at Home using R, Thanks to Shortcuts Functions Making it Simple
Version: 1.0.0
Description: A collection of personal functions designed to simplify and streamline common R programming tasks. This package provides reusable tools and shortcuts for frequently used calculations and workflows.
License: GPL-3
Encoding: UTF-8
Imports: data.table, lubridate, rstudioapi, stringr, grDevices, openxlsx, ggplot2, dplyr, tibble, tidyr, R.utils, shinyWidgets, shiny, magrittr
NeedsCompilation: no
Packaged: 2025-02-09 20:08:34 UTC; Raphael
Author: Raphael Flambard [aut, cre], Adrien Cocuaud [ctb]
Maintainer: Raphael Flambard <r.alpha.act@outlook.fr>
Repository: CRAN
Date/Publication: 2025-02-11 09:20:02 UTC

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New package PatientLevelPrediction with initial version 6.4.0
Package: PatientLevelPrediction
Title: Develop Clinical Prediction Models Using the Common Data Model
Version: 6.4.0
Date: 2025-02-05
Description: A user friendly way to create patient level prediction models using the Observational Medical Outcomes Partnership Common Data Model. Given a cohort of interest and an outcome of interest, the package can use data in the Common Data Model to build a large set of features. These features can then be used to fit a predictive model with a number of machine learning algorithms. This is further described in Reps (2017) <doi:10.1093/jamia/ocy032>.
License: Apache License 2.0
URL: https://ohdsi.github.io/PatientLevelPrediction/, https://github.com/OHDSI/PatientLevelPrediction
BugReports: https://github.com/OHDSI/PatientLevelPrediction/issues
VignetteBuilder: knitr
Depends: R (>= 4.0.0)
Imports: Andromeda, Cyclops (>= 3.0.0), DatabaseConnector (>= 6.0.0), digest, dplyr, FeatureExtraction (>= 3.0.0), Matrix, memuse, ParallelLogger (>= 2.0.0), pROC, PRROC, rlang, SqlRender (>= 1.1.3), tidyr, utils
Suggests: curl, Eunomia (>= 2.0.0), glmnet, ggplot2, gridExtra, IterativeHardThresholding, knitr, lightgbm, Metrics, mgcv, OhdsiShinyAppBuilder (>= 1.0.0), parallel, polspline, readr, ResourceSelection, ResultModelManager (>= 0.2.0), reticulate (>= 1.30), rmarkdown, RSQLite, scoring, survival, survminer, testthat, withr, xgboost (> 1.3.2.1)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-10 11:35:44 UTC; egill
Author: Egill Fridgeirsson [aut, cre], Jenna Reps [aut], Martijn Schuemie [aut], Marc Suchard [aut], Patrick Ryan [aut], Peter Rijnbeek [aut], Observational Health Data Science and Informatics [cph]
Maintainer: Egill Fridgeirsson <e.fridgeirsson@erasmusmc.nl>
Repository: CRAN
Date/Publication: 2025-02-11 09:30:14 UTC

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New package ForLion with initial version 0.1.0
Package: ForLion
Title: 'ForLion' Algorithm to Find D-Optimal Designs for Experiments
Version: 0.1.0
Maintainer: Siting Lin <slin95@uic.edu>
Description: Designing experimental plans that involve both discrete and continuous factors with general parametric statistical models using the 'ForLion' algorithm and 'EW ForLion' algorithm. The algorithms will search for locally optimal designs and EW optimal designs under the D-criterion. Reference: Huang, Y., Li, K., Mandal, A., & Yang, J., (2024)<doi:10.1007/s11222-024-10465-x>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: psych, stats, cubature
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-08 23:19:46 UTC; sitin
Author: Yifei Huang [aut], Siting Lin [aut, cre], Jie Yang [aut]
Repository: CRAN
Date/Publication: 2025-02-11 09:10:02 UTC

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New package bushtucker with initial version 0.1.0
Package: bushtucker
Title: 'I'm a Celebrity Get Me Out of Here' Data
Version: 0.1.0
Description: Data on the first 24 seasons of the UK TV show 'I'm a Celebrity, Get Me Out of Here', broadcast from 2002-2024. Taken from the Wikipedia pages for each season and the main page available at <https://en.wikipedia.org/wiki/I%27m_a_Celebrity...Get_Me_Out_of_Here!_(British_TV_series)>.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 3.5)
LazyData: true
URL: https://chrisbrownlie.github.io/bushtucker/
BugReports: https://github.com/chrisbrownlie/bushtucker/issues
NeedsCompilation: no
Packaged: 2025-02-07 13:09:24 UTC; chris
Author: Chris Brownlie [aut, cre]
Maintainer: Chris Brownlie <chris.brownlie@hotmail.co.uk>
Repository: CRAN
Date/Publication: 2025-02-11 09:30:02 UTC

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New package echos with initial version 1.0.1
Package: echos
Title: Echo State Networks for Time Series Modeling and Forecasting
Version: 1.0.1
Description: Provides a lightweight implementation of functions and methods for fast and fully automatic time series modeling and forecasting using Echo State Networks (ESNs).
License: GPL-3
URL: https://github.com/ahaeusser/echos, https://ahaeusser.github.io/echos/
BugReports: https://github.com/ahaeusser/echos/issues
Depends: R (>= 4.0.0)
Imports: Rcpp (>= 1.0.3), RcppArmadillo, fabletools, tsibble, dplyr, tidyr, purrr, Matrix, rlang, distributional, forecast
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, tidyverse, fable, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-09 12:55:16 UTC; Alexander Häußer
Author: Alexander Haeusser [aut, cre, cph]
Maintainer: Alexander Haeusser <alexander-haeusser@gmx.de>
Repository: CRAN
Date/Publication: 2025-02-11 09:00:02 UTC

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Mon, 10 Feb 2025

New package quanteda.textmodels with initial version 0.9.10
Package: quanteda.textmodels
Title: Scaling Models and Classifiers for Textual Data
Version: 0.9.10
Description: Scaling models and classifiers for sparse matrix objects representing textual data in the form of a document-feature matrix. Includes original implementations of 'Laver', 'Benoit', and Garry's (2003) <doi:10.1017/S0003055403000698>, 'Wordscores' model, the Perry and 'Benoit' (2017) <doi:10.48550/arXiv.1710.08963> class affinity scaling model, and the 'Slapin' and 'Proksch' (2008) <doi:10.1111/j.1540-5907.2008.00338.x> 'wordfish' model, as well as methods for correspondence analysis, latent semantic analysis, and fast Naive Bayes and linear 'SVMs' specially designed for sparse textual data.
Depends: R (>= 3.1.0), methods
Imports: glmnet, Matrix (>= 1.2), quanteda (>= 4.0.0), RSpectra, Rcpp (>= 0.12.12), stringi
Suggests: ca, covr, fastNaiveBayes, knitr, lsa, microbenchmark, naivebayes, quanteda.textplots, spelling, testthat, rmarkdown
LinkingTo: Rcpp, RcppArmadillo (>= 0.7.600.1.0), quanteda
URL: https://github.com/quanteda/quanteda.textmodels
License: GPL-3
Encoding: UTF-8
LazyData: true
Language: en-GB
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-02-10 18:45:31 UTC; kbenoit
Author: Kenneth Benoit [cre, aut, cph] , Kohei Watanabe [aut] , Haiyan Wang [aut] , Patrick O. Perry [aut] , Benjamin Lauderdale [aut] , Johannes Gruber [aut] , William Lowe [aut] , Vikas Sindhwani [cph] , European Research Council [fnd]
Maintainer: Kenneth Benoit <kbenoit@quanteda.org>
Repository: CRAN
Date/Publication: 2025-02-10 23:50:11 UTC

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New package siera with initial version 0.1.0
Package: siera
Title: Generate Analysis Results Programmes Using ARS Metadata
Version: 0.1.0
Maintainer: Malan Bosman <malanbos@gmail.com>
Description: Analysis Results Standard (ARS), a foundational standard by CDISC (Clinical Data Interchange Standards Consortium), provides a logical data model for metadata describing all components to calculate Analysis Results. <https://www.cdisc.org/standards/foundational/analysis-results-standard> Using 'siera' package, ARS metadata is ingested (JSON or Excel format), producing programmes to generate Analysis Results Datasets (ARDs).
License: MIT + file LICENSE
Encoding: UTF-8
Imports: magrittr, dplyr, tibble, tidyr, jsonlite, stringr
Suggests: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2025-02-08 18:59:41 UTC; mbosm
Author: Malan Bosman [aut, cre], Clymb Clinical [cph, fnd]
Repository: CRAN
Date/Publication: 2025-02-10 19:10:02 UTC

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New package CMatching with initial version 2.4
Package: CMatching
Title: Matching Algorithms for Causal Inference with Clustered Data
Version: 2.4
Date: 2025-02-08
Maintainer: Massimo Cannas <massimo.cannas@unica.it>
Description: Provides functions to perform matching algorithms for causal inference with clustered data, as described in B. Arpino and M. Cannas (2016) <doi:10.1002/sim.6880>. Pure within-cluster and preferential within-cluster matching are implemented. Both algorithms provide causal estimates with cluster-adjusted estimates of standard errors.
Depends: R (>= 2.6.0), Matching
Imports: stats,lmtest,multiwayvcov,lme4
License: GPL-2
NeedsCompilation: no
Encoding: UTF-8
Packaged: 2025-02-08 16:59:28 UTC; massimo
Author: Massimo Cannas [aut, cre], Bruno Arpino [ctb], Elena Colicino [ctb]
Repository: CRAN
Date/Publication: 2025-02-10 19:10:05 UTC

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New package FastRet with initial version 1.1.4
Package: FastRet
Title: Retention Time Prediction in Liquid Chromatography
Version: 1.1.4
Description: A framework for predicting retention times in liquid chromatography. Users can train custom models for specific chromatography columns, predict retention times using existing models, or adjust existing models to account for altered experimental conditions. The provided functionalities can be accessed either via the R console or via a graphical user interface. Related work: Bonini et al. (2020) <doi:10.1021/acs.analchem.9b05765>.
License: GPL-3
Language: en-US
URL: https://github.com/spang-lab/FastRet/, https://spang-lab.github.io/FastRet/
BugReports: https://github.com/spang-lab/FastRet/issues
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: bslib, caret, cluster, data.table, digest, DT, future, ggplot2, glmnet, htmltools, promises, rcdk, readxl, shiny (>= 1.8.1), shinybusy, shinyhelper, shinyjs, xgboost, xlsx
Suggests: cli, devtools, knitr, languageserver, lintr, pkgdown, pkgbuild, pkgload, rlang, rmarkdown, servr, tibble, testthat (>= 3.0.0), toscutil, usethis, withr
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-07 19:09:03 UTC; tobi
Author: Christian Amesoeder [aut, cph] , Marian Schoen [aut, cph], Tobias Schmidt [aut, cre, cph] , Fadi Fadil [ctb, cph] , Katja Dettmer [ths, cph] , Peter Oefner [ths, cph]
Maintainer: Tobias Schmidt <tobias.schmidt331@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-10 18:30:02 UTC

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New package TSLA with initial version 0.1.1
Package: TSLA
Title: Tree-Guided Rare Feature Selection and Logic Aggregation
Version: 0.1.1
Imports: stats, Matrix, Rcpp, pROC, PRROC, ape, phytools, data.tree
LinkingTo: Rcpp, RcppArmadillo
Maintainer: Jianmin Chen <jianminc000@gmail.com>
Description: Implementation of the tree-guided feature selection and logic aggregation approach introduced in Chen et al. (2024) <doi:10.1080/01621459.2024.2326621>. The method enables the selection and aggregation of large-scale rare binary features with a known hierarchical structure using a convex, linearly-constrained regularized regression framework. The package facilitates the application of this method to both linear regression and binary classification problems by solving the optimization problem via the smoothing proximal gradient descent algorithm (Chen et al. (2012) <doi:10.1214/11-AOAS514>).
Depends: R (>= 4.1.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: yes
Packaged: 2025-02-07 19:37:35 UTC; cjm
Author: Jianmin Chen [aut, cre], Kun Chen [aut]
Repository: CRAN
Date/Publication: 2025-02-10 11:30:03 UTC

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New package powerHE with initial version 1.0.0
Package: powerHE
Title: Power and Sample Size Calculations with Hierarchical Endpoints
Version: 1.0.0
Description: Calculate sample size or power for hierarchical endpoints. The package can handle any type of outcomes (binary, continuous, count, ordinal, time-to-event) and any number of such endpoints. It allows users to calculate sample size with a given power or to calculate power with a given sample size for hypothesis testing based on win ratios, win odds, net benefit, or DOOR (desirability of outcome ranking) as treatment effect between two groups for hierarchical endpoints. The methods of this package are described further in the paper by Barnhart, H. X. et al. (2024, <doi:10.1080/19466315.2024.2365629>).
License: GPL (>= 2)
Encoding: UTF-8
Imports: skellam
NeedsCompilation: no
Packaged: 2025-02-07 05:15:03 UTC; sarahwu
Author: Sarah Wu [aut, cre], Dylan Thibault [aut]
Maintainer: Sarah Wu <O2E@duke.edu>
Repository: CRAN
Date/Publication: 2025-02-10 11:20:02 UTC

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New package BayesERtools with initial version 0.2.0
Package: BayesERtools
Title: Bayesian Exposure-Response Analysis Tools
Version: 0.2.0
Maintainer: Kenta Yoshida <yoshida.kenta.6@gmail.com>
Description: Suite of tools that facilitate exposure-response analysis using Bayesian methods. The package provides a streamlined workflow for fitting types of models that are commonly used in exposure-response analysis - linear and Emax for continuous endpoints, logistic linear and logistic Emax for binary endpoints, as well as performing simulation and visualization. Learn more about the workflow at <https://genentech.github.io/BayesERbook/>.
License: Apache License 2.0
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.1)
URL: https://genentech.github.io/BayesERtools/, https://genentech.github.io/BayesERbook/
Imports: dplyr, tidyr, purrr, ggplot2, gt, cli, rlang, rstanarm, loo, tidybayes, bayestestR, posterior, withr
Suggests: testthat (>= 3.0.0), covr, knitr, rmarkdown, rstan, rstanemax (>= 0.1.7), htmltools, digest, ggforce, xgxr, scales, readr, patchwork, projpred, rsample, yardstick
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-07 20:17:35 UTC; yoshidk6
Author: Kenta Yoshida [aut, cre] , Francois Mercier [aut] , Genentech, Inc. [cph]
Repository: CRAN
Date/Publication: 2025-02-10 11:30:13 UTC

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New package retmort with initial version 1.0.0
Package: retmort
Title: Estimate User-Based Tagging Mortality and Tag Loss in Mark-Recapture Studies
Version: 1.0.0
Description: We provide several avenues to predict and account for user-based mortality and tag loss during mark-recapture studies. When planning a study on a target species, the retentionmort_generation() function can be used to produce multiple synthetic mark-recapture datasets to anticipate the error associated with a planned field study to guide method development to reduce error. Similarly, if field data was already collected, the retentionmort() function can be used to predict the error from already generated data to adjust for user-based mortality and tag loss. The test_dataset_retentionmort() function will provide an example dataset of how data should be inputted into the function to run properly. Lastly, the retentionmort_figure() function can be used on any dataset generated from either model function to produce an 'rmarkdown' printout of preliminary analysis associated with the model, including summary statistics and figures. Methods and results pertaining to the formation of this packag [...truncated...]
License: MIT + file LICENSE
Imports: dplyr, ggplot2, gridExtra, patchwork, readr, rmarkdown
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-07 15:01:45 UTC; Brendan
Author: Brendan Campbell [aut, cre] , Jasper McCutcheon [aut] , Rileigh Hudock [aut] , Noah Motz [aut] , Madison Windsor [aut] , Aaron Carlisle [aut] , Edward Hale [aut]
Maintainer: Brendan Campbell <bpc@udel.edu>
Repository: CRAN
Date/Publication: 2025-02-10 09:40:02 UTC

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Sat, 08 Feb 2025

New package rticulate with initial version 2.0.0
Package: rticulate
Title: Ultrasound Tongue Imaging
Version: 2.0.0
Date: 2025-02-08
Maintainer: Stefano Coretta <stefano.coretta@gmail.com>
Description: A tool for processing Articulate Assistant Advanced™ (AAA) export files and plot tongue contour data from any system.
URL: https://github.com/stefanocoretta/rticulate
BugReports: https://github.com/stefanocoretta/rticulate/issues
Depends: R (>= 4.1.0)
Encoding: UTF-8
LazyData: true
Imports: cli, dplyr, ggplot2, glue, gsignal, magrittr, mgcv, pracma, purrr, readr, rlang, stats, tibble, tidyr, tidyselect
Suggests: knitr, rcartocolor, rmarkdown, stringr, tidyverse
VignetteBuilder: knitr
Language: en-US
License: MIT + file LICENSE
NeedsCompilation: no
Packaged: 2025-02-08 14:13:46 UTC; ste
Author: Stefano Coretta [aut, cre]
Repository: CRAN
Date/Publication: 2025-02-08 16:20:08 UTC

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New package getCRUCLdata with initial version 1.0.3
Package: getCRUCLdata
Title: 'CRU' 'CL' v. 2.0 Climatology Client
Version: 1.0.3
Description: Provides functions that automate downloading and importing University of East Anglia Climate Research Unit ('CRU') 'CL' v. 2.0 climatology data, facilitates the calculation of minimum temperature and maximum temperature and formats the data into a data.table object or a list of 'terra' 'rast' objects for use. 'CRU' 'CL' v. 2.0 data are a gridded climatology of 1961-1990 monthly means released in 2002 and cover all land areas (excluding Antarctica) at 10 arc minutes (0.1666667 degree) resolution. For more information see the description of the data provided by the University of East Anglia Climate Research Unit, <https://crudata.uea.ac.uk/cru/data/hrg/tmc/readme.txt>.
License: MIT + file LICENSE
URL: https://github.com/ropensci/getCRUCLdata, https://docs.ropensci.org/getCRUCLdata/
BugReports: https://github.com/ropensci/getCRUCLdata/issues
Depends: R (>= 4.0.0)
Imports: cli, curl, data.table, hoardr, rlang, terra, utils
Suggests: ggplot2, knitr, rappdirs, rmarkdown, roxygen2, roxyglobals, spelling, testthat, viridis, withr
VignetteBuilder: knitr
ByteCompile: TRUE
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2025-02-08 12:09:45 UTC; adamsparks
Author: Adam H. Sparks [aut, cre] , Curtin University of Technology [cph] , Grains Research and Development Corporation [cph] )
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-08 16:20:16 UTC

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Fri, 07 Feb 2025

New package SVDMx with initial version 0.1.0
Package: SVDMx
Title: Child/Child-Adult Mortality-Indexed Model Mortality Age Schedules
Version: 0.1.0
Description: Model age schedules of mortality, nqx, suitable for a life table. This package implements the SVD-Comp mortality model indexed by either child or child/adult mortality. Given input value(s) of either 5q0 or (5q0, 45q15), the qx() function generates single-year 1qx or 5-year 5qx conditional age-specific probabilities of dying. See Clark (2016) <doi:10.48550/arXiv.1612.01408> and Clark (2019) <doi:10.1007/s13524-019-00785-3>.
Encoding: UTF-8
License: GPL (>= 3)
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-07 13:22:09 UTC; samueljclark
Author: Samuel Clark [aut, cre, cph]
Maintainer: Samuel Clark <work@samclark.net>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-07 18:30:06 UTC

More information about SVDMx at CRAN
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New package gofigR with initial version 0.2.2
Package: gofigR
Title: Client for 'GoFigr.io'
Version: 0.2.2
Description: Integrates with your 'RMarkdown' documents to automatically publish figures to the <https://GoFigr.io> service. Supports both 'knitr' and interactive execution within 'RStudio'.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/GoFigr/gofigR
BugReports: https://github.com/GoFigr/gofigR/issues
Imports: httr, jsonlite, knitr, base64enc, readr, magick, qrcode, getPass, textutils, scriptName, xfun, rlang, stringr, rstudioapi
Suggests: ggplot2, gplots
NeedsCompilation: no
Packaged: 2025-02-06 14:21:33 UTC; maciej
Author: Maciej Pacula [cre, aut], Flagstaff Solutions, LLC [cph]
Maintainer: Maciej Pacula <maciej@gofigr.io>
Repository: CRAN
Date/Publication: 2025-02-07 18:30:02 UTC

More information about gofigR at CRAN
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New package CUtools with initial version 0.1.0
Package: CUtools
Title: Clinical Utility Tools to Analyze a Predictive Model
Version: 0.1.0
Description: Package to analyze the clinical utility of a biomarker. It provides the clinical utility curve, clinical utility table, efficacy of a biomarker, clinical efficacy curve and tests to compare efficacy between markers.
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-07 14:31:07 UTC; luses
Author: Maria Escorihuela [aut], Luis Mariano Esteban [aut, cre], Gerardo Sanz [aut], Angel Borque [aut]
Maintainer: Luis Mariano Esteban <lmeste@unizar.es>
Repository: CRAN
Date/Publication: 2025-02-07 18:40:02 UTC

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New package polymatching with initial version 1.0.1
Package: polymatching
Title: A Matching Algorithm for Designs with Multiple Groups
Version: 1.0.1
Description: Includes functions implementing the conditionally optimal matching algorithm, which can be used to generate matched samples in designs with multiple groups. The algorithm is described in Nattino, Song and Lu (2022) <doi:10.1016/j.csda.2021.107364>.
License: GPL-3
Encoding: UTF-8
Imports: optmatch, ggplot2, gridExtra, tidyr, utils, stats, dplyr, magrittr, rlang, methods
Suggests: VGAM, knitr, rmarkdown
NeedsCompilation: no
Packaged: 2025-02-07 09:28:17 UTC; GNattino
Author: Giovanni Nattino [aut, cre], Bo Lu [aut], Chi Song [aut], Henry Xiang [aut]
Maintainer: Giovanni Nattino <giovanni.nattino@marionegri.it>
Repository: CRAN
Date/Publication: 2025-02-07 18:00:02 UTC

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New package kollaR with initial version 1.0.2
Package: kollaR
Title: Filtering, Visualization and Analysis of Eye Tracking Data
Version: 1.0.2
Description: Functions for analysing eye tracking data, including event detection (I-VT, I-DT and two means clustering), visualizations and area of interest (AOI) based analyses. See separate documentation for each function. The principles underlying I-VT and I-DT filters are described in Salvucci & Goldberg (2000,\doi{10.1145/355017.355028}). Two-means clustering is described in Hessels et al. (2017, \doi{10.3758/s13428-016-0822-1}).
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: dplyr, ggplot2, zoo, ggforce, tidyr, ggpubr, jpeg, patchwork, shiny, plotly, base64enc, magick, scales
NeedsCompilation: no
Packaged: 2025-02-07 08:15:03 UTC; jolu7095
Author: Johan Lundin Kleberg [aut, cre]
Maintainer: Johan Lundin Kleberg <johan.lundin.kleberg@su.se>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-07 10:10:02 UTC

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New package taxize with initial version 0.10.0
Package: taxize
Title: Taxonomic Information from Around the Web
Description: Interacts with a suite of web application programming interfaces (API) for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more. Some of the services supported include 'NCBI E-utilities' (<https://www.ncbi.nlm.nih.gov/books/NBK25501/>), 'Encyclopedia of Life' (<https://eol.org/docs/what-is-eol/data-services>), 'Global Biodiversity Information Facility' (<https://techdocs.gbif.org/en/openapi/>), and many more. Links to the API documentation for other supported services are available in the documentation for their respective functions in this package.
Version: 0.10.0
License: MIT + file LICENSE
URL: https://docs.ropensci.org/taxize/ (website), https://github.com/ropensci/taxize (devel), https://taxize.dev (user manual)
BugReports: https://github.com/ropensci/taxize/issues
LazyLoad: yes
LazyData: true
Encoding: UTF-8
Language: en-US
Depends: R(>= 3.2.1)
Imports: graphics, methods, stats, utils, crul (>= 0.7.0), xml2 (>= 1.2.0), jsonlite, ape, zoo, data.table, tibble (>= 1.2), rredlist, rotl (>= 3.0.0), ritis (>= 0.7.6), worrms (>= 0.4.0), natserv (>= 1.0.0), wikitaxa (>= 0.3.0), R6, crayon, cli, phangorn, lifecycle, curl, stringi
Suggests: testthat, vegan, vcr
NeedsCompilation: no
Packaged: 2025-02-06 19:53:50 UTC; fosterz
Author: Scott Chamberlain [aut], Eduard Szoecs [aut], Zachary Foster [aut, cre], Zebulun Arendsee [aut], Carl Boettiger [ctb], Karthik Ram [ctb], Ignasi Bartomeus [ctb], John Baumgartner [ctb], James O'Donnell [ctb], Jari Oksanen [ctb], Bastian Greshake Tzov [...truncated...]
Maintainer: Zachary Foster <zacharyfoster1989@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-07 09:50:02 UTC

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New package stochtree with initial version 0.1.0
Package: stochtree
Title: Stochastic Tree Ensembles (XBART and BART) for Supervised Learning and Causal Inference
Version: 0.1.0
Copyright: Copyright details for stochtree's C++ dependencies, which are vendored along with the core stochtree source code, are detailed in inst/COPYRIGHTS
Description: Flexible stochastic tree ensemble software. Robust implementations of Bayesian Additive Regression Trees (BART) Chipman, George, McCulloch (2010) <doi:10.1214/09-AOAS285> for supervised learning and Bayesian Causal Forests (BCF) Hahn, Murray, Carvalho (2020) <doi:10.1214/19-BA1195> for causal inference. Enables model serialization and parallel sampling and provides a low-level interface for custom stochastic forest samplers.
License: MIT + file LICENSE
Encoding: UTF-8
LinkingTo: cpp11, BH
Suggests: testthat (>= 3.0.0),
SystemRequirements: C++17
Imports: R6, stats
URL: https://stochtree.ai
NeedsCompilation: yes
Packaged: 2025-02-07 00:44:55 UTC; drew
Author: Drew Herren [aut, cre] , Richard Hahn [aut], Jared Murray [aut], Carlos Carvalho [aut], Jingyu He [aut], Pedro Lima [ctb], stochtree contributors [cph], Eigen contributors [cph] , xgboost contributors [cph] , treelite contributors [cph] , Microsoft C [...truncated...]
Maintainer: Drew Herren <drewherrenopensource@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-07 10:00:02 UTC

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New package saery with initial version 2.0
Package: saery
Title: Small Area Estimation for Rao and Yu Model
Version: 2.0
Maintainer: Perez Agustin <agustin.perez@umh.es>
Description: Functions to calculate EBLUPs (Empirical Best Linear Unbiased Predictor) estimators and their MSEs (Mean Squared Errors). Estimators are based on an area-level linear mixed model introduced by Rao and Yu (1994) <doi:10.2307/3315407>. The REML (Residual Maximum Likelihood) method is used for fitting the model.
Imports: grDevices, graphics, stats, utils
License: GPL-2
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Author: Cabello E. [aut], Esteban M.D. [aut], Morales Domingo [aut], Perez Agustin [aut, cre]
Packaged: 2025-02-06 19:01:57 UTC; estebancabello
Repository: CRAN
Date/Publication: 2025-02-07 09:50:11 UTC

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New package MIC with initial version 1.0.2
Package: MIC
Title: Analysis of Antimicrobial Minimum Inhibitory Concentration Data
Version: 1.0.2
Description: Analyse, plot, and tabulate antimicrobial minimum inhibitory concentration (MIC) data. Validate the results of an MIC experiment by comparing observed MIC values to a gold standard assay, in line with standards from the International Organization for Standardization (2021) <https://www.iso.org/standard/79377.html>. Perform MIC prediction from whole genome sequence data stored in the Pathosystems Resource Integration Center (2013) <doi:10.1093/nar/gkt1099> database or locally.
License: GPL (>= 3)
Encoding: UTF-8
Imports: AMR, glue, readr, dplyr, Rcpp, data.table, Biostrings, stringr, rlang, tidyr, future.apply, progressr, lemon, ggplot2, forcats, purrr, tibble
Depends: R (>= 4.1.0)
LazyData: true
LinkingTo: Rcpp
Suggests: testthat (>= 3.0.0), xgboost, flextable, caret, lifecycle, future
URL: https://github.com/agerada/MIC
BugReports: https://github.com/agerada/MIC/issues
NeedsCompilation: yes
Packaged: 2025-02-06 16:22:34 UTC; agerada
Author: Alessandro Gerada [aut, cre, cph]
Maintainer: Alessandro Gerada <alessandro.gerada@liverpool.ac.uk>
Repository: CRAN
Date/Publication: 2025-02-07 09:40:02 UTC

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New package cogirt with initial version 1.0.0
Package: cogirt
Title: Cognitive Testing Using Item Response Theory
Version: 1.0.0
Description: Psychometrically analyze latent individual differences related to tasks, interventions, or maturational/aging effects in the context of experimental or longitudinal cognitive research using methods first described by Thomas et al. (2020) <doi:10.1177/0013164420919898>.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Imports: MASS, abind, mvtnorm, parallel, coda, numDeriv, grDevices, graphics, stats
Depends: R (>= 2.10)
Suggests: rmarkdown, knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-07 05:39:50 UTC; mlthom
Author: Michael Thomas [aut, cre]
Maintainer: Michael Thomas <michael.l.thomas@colostate.edu>
Repository: CRAN
Date/Publication: 2025-02-07 10:00:09 UTC

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New package CIDER with initial version 0.99.4
Package: CIDER
Title: Meta-Clustering for scRNA-Seq Integration and Evaluation
Version: 0.99.4
Maintainer: Zhiyuan Hu <zhiyuan.cheryl.hu@gmail.com>
Description: A workflow of (a) meta-clustering based on inter-group similarity measures and (b) a ground-truth-free test metric to assess the biological correctness of integration in real datasets. See Hu Z, Ahmed A, Yau C (2021) <doi:10.1101/2021.03.29.437525> for more details.
URL: https://github.com/zhiyuan-hu-lab/CIDER, https://zhiyuan-hu-lab.github.io/CIDER/
BugReports: https://github.com/zhiyuan-hu-lab/CIDER/issues
Imports: limma (>= 3.42.0), edgeR (>= 3.28.0), stats (>= 3.6.2), foreach (>= 1.4.7), Seurat (>= 3.1.0), utils (>= 3.6.2), pheatmap (>= 1.0.0), dbscan (>= 1.1-5), kernlab (>= 0.9-29), doParallel, igraph, parallel, graphics, ggplot2, viridis
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), statmod (>= 1.2.2), cowplot
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2025-02-06 16:58:52 UTC; zhiyuanhu
Author: Zhiyuan Hu [aut, cre] , Christopher Yau [aut] , Ahmed Ahmed [aut]
Repository: CRAN
Date/Publication: 2025-02-07 09:50:14 UTC

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Thu, 06 Feb 2025

New package shapr with initial version 1.0.2
Package: shapr
Version: 1.0.2
Title: Prediction Explanation with Dependence-Aware Shapley Values
Description: Complex machine learning models are often hard to interpret. However, in many situations it is crucial to understand and explain why a model made a specific prediction. Shapley values is the only method for such prediction explanation framework with a solid theoretical foundation. Previously known methods for estimating the Shapley values do, however, assume feature independence. This package implements methods which accounts for any feature dependence, and thereby produces more accurate estimates of the true Shapley values. An accompanying 'Python' wrapper ('shaprpy') is available through the GitHub repository.
URL: https://norskregnesentral.github.io/shapr/, https://github.com/NorskRegnesentral/shapr/
BugReports: https://github.com/NorskRegnesentral/shapr/issues
License: MIT + file LICENSE
Encoding: UTF-8
ByteCompile: true
Language: en-US
Depends: R (>= 3.5.0)
Imports: stats, data.table (>= 1.15.0), Rcpp (>= 0.12.15), Matrix, future.apply, methods
Suggests: ranger, xgboost, mgcv, testthat (>= 3.0.0), knitr, rmarkdown, roxygen2, ggplot2, gbm, party, partykit, waldo, progressr, future, ggbeeswarm, vdiffr, forecast, torch, GGally, progress, coro, parsnip, recipes, workflows, tune, dials, yardstick, hardhat, rsample, rlang, cli
LinkingTo: RcppArmadillo, Rcpp
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-01-30 11:54:59 UTC; jullum
Author: Martin Jullum [cre, aut] , Lars Henry Berge Olsen [aut] , Annabelle Redelmeier [aut], Jon Lachmann [aut] , Nikolai Sellereite [aut] , Anders Loeland [ctb], Jens Christian Wahl [ctb], Camilla Lingjaerde [ctb], Norsk Regnesentral [cph, fnd]
Maintainer: Martin Jullum <Martin.Jullum@nr.no>
Repository: CRAN
Date/Publication: 2025-02-07 00:40:02 UTC

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New package params with initial version 0.7.7
Package: params
Title: Simplify Parameters
Description: An interface to simplify organizing parameters used in a package, using external configuration files. This attempts to provide a cleaner alternative to options().
Version: 0.7.7
Depends: R (>= 3.0.2), whisker
Imports: utils, RcppTOML, glue, readr (>= 1.4.0), purrr
Suggests: openxlsx, readxl, testthat, knitr, utf8
License: GPL-2
URL: https://github.com/sahilseth/params
BugReports: https://github.com/sahilseth/params/issues
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2025-02-06 19:40:55 UTC; seths3
Author: Sahil Seth [aut, cre], Yihui Xie [ctb]
Maintainer: Sahil Seth <me@sahilseth.com>
Repository: CRAN
Date/Publication: 2025-02-07 00:40:07 UTC

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New package MBNMAdose with initial version 0.5.0
Package: MBNMAdose
Title: Dose-Response MBNMA Models
Version: 0.5.0
Language: en-GB
Date: 2025-02-06
URL: https://hugaped.github.io/MBNMAdose/
Maintainer: Hugo Pedder <hugopedder@gmail.com>
Description: Fits Bayesian dose-response model-based network meta-analysis (MBNMA) that incorporate multiple doses within an agent by modelling different dose-response functions, as described by Mawdsley et al. (2016) <doi:10.1002/psp4.12091>. By modelling dose-response relationships this can connect networks of evidence that might otherwise be disconnected, and can improve precision on treatment estimates. Several common dose-response functions are provided; others may be added by the user. Various characteristics and assumptions can be flexibly added to the models, such as shared class effects. The consistency of direct and indirect evidence in the network can be assessed using unrelated mean effects models and/or by node-splitting at the treatment level.
License: GPL-3
Depends: R (>= 3.0.2)
Imports: grDevices, stats, graphics, utils, scales, dplyr (>= 0.7.4), R2jags (>= 0.5-7), rjags (>= 4-8), magrittr (>= 1.5), checkmate (>= 1.8.5), Rdpack (>= 0.11-0), igraph (>= 2.0.1.1), ggplot2 (>= 2.2.1), reshape2 (>= 1.4.3)
Suggests: overlapping (>= 1.5.0), RColorBrewer (>= 1.1-2), mcmcplots (>= 0.4.3), coda (>= 0.19-4), testthat (>= 1.0.2), crayon (>= 1.3.4), forestplot (>= 1.10), ggdist (>= 2.4.0), zoo (>= 1.8-8), lspline (>= 1.0-0), formatR (>= 1.14), netmeta, knitr, rmarkdown
SystemRequirements: JAGS (>= 4.3.0) (https://mcmc-jags.sourceforge.net/)
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-06 19:58:33 UTC; hp17602
Author: Hugo Pedder [aut, cre] , Adil Karim [ctb]
Repository: CRAN
Date/Publication: 2025-02-07 00:40:23 UTC

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New package sphereML with initial version 0.1.0
Package: sphereML
Title: Analyzing Students' Performance Dataset in Physics Education Research (SPHERE) using Machine Learning (ML)
Version: 0.1.0
Maintainer: Purwoko Haryadi Santoso <purwokoharyadisantoso@unsulbar.ac.id>
Description: A simple package facilitating ML based analysis for physics education research (PER) purposes. The implemented machine learning technique is random forest optimized by item response theory (IRT) for feature selection and genetic algorithm (GA) for hyperparameter tuning. The data analyzed here has been made available in the CRAN repository through the 'spheredata' package. The SPHERE stands for Students' Performance in Physics Education Research (PER). The students are the eleventh graders learning physics at the high school curriculum. We follow the stream of multidimensional students' assessment as probed by some research based assessments in PER. The goal is to predict the students' performance at the end of the learning process. Three learning domains are measured including conceptual understanding, scientific ability, and scientific attitude. Furthermore, demographic backgrounds and potential variables predicting students' performance on physics are also demonstrated.
BugReports: https://github.com/santosoph/sphereML/issues
URL: https://github.com/santosoph/sphereML
License: MIT + file LICENSE
Imports: shiny, shinydashboard, spheredata, lavaan, semPlot, CTT, mirt, shinycssloaders, FSelectorRcpp, randomForest, caret, caTools, pROC, GA, readxl
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-06 14:43:15 UTC; ASUS
Author: Purwoko Haryadi Santoso [aut, cre] , Edi Istiyono [ctb], Haryanto Haryanto [ctb]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-06 20:10:01 UTC

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New package tall with initial version 0.1.0
Package: tall
Title: Text Analysis for All
Version: 0.1.0
Description: An R 'shiny' app designed for diverse text analysis tasks, offering a wide range of methodologies tailored to Natural Language Processing (NLP) needs. It is a versatile, general-purpose tool for analyzing textual data. 'tall' features a comprehensive workflow, including data cleaning, preprocessing, statistical analysis, and visualization, all integrated for effective text analysis.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/massimoaria/tall, https://www.k-synth.com/tall/
BugReports: https://github.com/massimoaria/tall/issues
Depends: R (>= 3.5.0), shiny
Imports: graphics, dplyr (>= 1.1.0), shinyWidgets, shinydashboardPlus, chromote, later, promises, tidyr, purrr, plotly, stringr, Rcpp (>= 1.0.3), RSpectra, rlang, DT, openxlsx, visNetwork, igraph, udpipe, topicmodels, pdftools, textrank, strucchange, sparkline, tidygraph, readxl, readtext, jsonlite, fontawesome, ca, ldatuning, shinycssloaders, shinyjs, shinyFiles, readr, curl, pagedown, doParallel
LazyData: true
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2025-02-06 11:55:33 UTC; massimoaria
Author: Massimo Aria [aut, cre, cph] , Maria Spano [aut] , Luca D'Aniello [aut] , Corrado Cuccurullo [ctb] , Michelangelo Misuraca [ctb]
Maintainer: Massimo Aria <aria@unina.it>
Repository: CRAN
Date/Publication: 2025-02-06 20:00:02 UTC

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New package oneinfl with initial version 1.0.0
Package: oneinfl
Title: Estimates OIPP and OIZTNB Regression Models
Version: 1.0.0
Author: Ryan T. Godwin [aut, cre]
Maintainer: Ryan T. Godwin <ryan.godwin@umanitoba.ca>
Description: Estimates one-inflated positive Poisson (OIPP) and one-inflated zero-truncated negative binomial (OIZTNB) regression models. A suite of ancillary statistical tools are also provided, including: estimation of positive Poisson (PP) and zero-truncated negative binomial (ZTNB) models; marginal effects and their standard errors; diagnostic likelihood ratio and Wald tests; plotting; predicted counts and expected responses; and random variate generation. The models and tools, as well as four applications, are shown in Godwin, R. T. (2024). "One-inflated zero-truncated count regression models" arXiv preprint <doi:10.48550/arXiv.2402.02272>.
License: GPL (>= 3)
Imports: graphics, stats
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-06 03:39:21 UTC; ryang
Repository: CRAN
Date/Publication: 2025-02-06 19:40:02 UTC

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New package jellyfisher with initial version 1.0.4
Package: jellyfisher
Title: Visualize Spatiotemporal Tumor Evolution with Jellyfish Plots
Version: 1.0.4
Description: Generates interactive Jellyfish plots to visualize spatiotemporal tumor evolution by integrating sample and phylogenetic trees into a unified plot. This approach provides an intuitive way to analyze tumor heterogeneity and evolution over time and across anatomical locations. The Jellyfish plot visualization design was first introduced by Lahtinen, Lavikka, et al. (2023, <doi:10.1016/j.ccell.2023.04.017>). This package also supports visualizing ClonEvol results, a tool developed by Dang, et al. (2017, <doi:10.1093/annonc/mdx517>), for analyzing clonal evolution from multi-sample sequencing data. The 'clonevol' package is not available on CRAN but can be installed from its GitHub repository (<https://github.com/hdng/clonevol>).
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
URL: https://github.com/HautaniemiLab/jellyfisher, https://hautaniemilab.github.io/jellyfisher/
BugReports: https://github.com/HautaniemiLab/jellyfisher/issues
Imports: htmlwidgets, dplyr, stringr
Suggests: knitr, rmarkdown, clonevol
Depends: R (>= 4.1.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-05 12:40:36 UTC; klavikka
Author: Kari Lavikka [cph, aut, cre]
Maintainer: Kari Lavikka <kari.lavikka@helsinki.fi>
Repository: CRAN
Date/Publication: 2025-02-06 19:30:02 UTC

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New package EEAaq with initial version 1.0.0
Package: EEAaq
Title: Handle Air Quality Data from the European Environment Agency Data Portal
Version: 1.0.0
Description: This software downloads and manages air quality data from the European Environmental Agency (EEA) dataflow (<https://www.eea.europa.eu/data-and-maps/data/aqereporting-9>). See the web page <https://eeadmz1-downloads-webapp.azurewebsites.net/> for details on the EEA's Air Quality Download Service. The package allows dynamically mapping the stations, summarising and time aggregating the measurements and building spatial interpolation maps. See the web page <https://www.eea.europa.eu/en> for further information on EEA activities and history. Further details, as well as, an extended vignette of the main functions included in the package, are available at the GitHub web page dedicated to the project.
URL: https://github.com/PaoloMaranzano/EEAaq_R
License: GPL (>= 3)
Depends: R (>= 2.10)
Imports: arrow, curl, dplyr, ggplot2, ggpubr, gifski, grDevices, gstat, htmlwidgets, httr, leaflet, lubridate, raster, readr, sf, stats, tibble, tidyr, utils
Encoding: UTF-8
Suggests: knitr, rmarkdown, rvest, readxl, digest, gh, base64enc, stringr
NeedsCompilation: no
Packaged: 2025-02-05 14:43:18 UTC; paulm
Author: Paolo Maranzano [aut, cre, cph] , Riccardo Borgoni [aut, cph] , Samir Doghmi [aut, cph], Agostino Tassan Mazzocco [aut, cph]
Maintainer: Paolo Maranzano <pmaranzano.ricercastatistica@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-06 19:30:06 UTC

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New package DiscreteDLM with initial version 1.0.0
Package: DiscreteDLM
Title: Bayesian Distributed Lag Model Fitting for Binary and Count Response Data
Version: 1.0.0
Maintainer: Daniel Dempsey <daniel.dempsey0@gmail.com>
Description: Tools for fitting Bayesian Distributed Lag Models (DLMs) to longitudinal response data that is a count or binary. Count data is fit using negative binomial regression and binary is fit using quantile regression. The contribution of the lags are fit via b-splines. In addition, infers the predictor inclusion uncertainty. Multimomial models are not supported. Based on Dempsey and Wyse (2025) <doi:10.48550/arXiv.2403.03646>.
License: GPL-3
Encoding: UTF-8
Imports: statmod, BayesLogit, dlnm, splines, dplyr, ggplot2, ggridges, reshape2
URL: https://github.com/DanDempsey/DiscreteDLM
BugReports: https://github.com/DanDempsey/DiscreteDLM/issues
NeedsCompilation: yes
Packaged: 2025-02-06 01:49:36 UTC; bluff
Author: Daniel Dempsey [aut, cre] , Jason Wyse [ctb] , Christian E. Galarza [ctb] .), Victor H. Lachos [ctb] .)
Repository: CRAN
Date/Publication: 2025-02-06 19:40:10 UTC

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New package watcher with initial version 0.1.0
Package: watcher
Title: Watch the File System for Changes
Version: 0.1.0
Description: R binding for 'libfswatch', a file system monitoring library. Watch files, or directories recursively, for changes in the background. Log activity, or run an R function every time a change event occurs.
License: MIT + file LICENSE
BugReports: https://github.com/r-lib/watcher/issues
URL: https://r-lib.github.io/watcher/, https://github.com/r-lib/watcher/
Encoding: UTF-8
SystemRequirements: 'libfswatch', or 'cmake' to compile from package sources
Depends: R (>= 3.6)
Imports: later, R6, rlang
Suggests: testthat (>= 3.0.0)
NeedsCompilation: yes
Packaged: 2025-02-05 21:55:22 UTC; cg334
Author: Charlie Gao [aut, cre] , Posit Software, PBC [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Repository: CRAN
Date/Publication: 2025-02-06 14:20:02 UTC

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New package SynergyLMM with initial version 1.0.0
Package: SynergyLMM
Title: Statistical Framework for in Vivo Drug Combination Studies
Version: 1.0.0
Description: A framework for evaluating drug combination effects in preclinical in vivo studies. 'SynergyLMM' provides functions to analyze longitudinal tumor growth experiments using linear mixed-effects models, perform time-dependent analyses of synergy and antagonism, evaluate model diagnostics and performance, and assess both post-hoc and a priori statistical power. The calculation of drug combination synergy follows the statistical framework provided by Demidenko and Miller (2019, <doi:10.1371/journal.pone.0224137>). The implementation and analysis of linear mixed-effect models is based on the methods described by Pinheiro and Bates (2000, <doi:10.1007/b98882>), and Gałecki and Burzykowski (2013, <doi:10.1007/978-1-4614-3900-4>).
License: GPL (>= 3)
Encoding: UTF-8
Imports: magrittr (>= 2.0.3), rlang, dplyr (>= 1.1.4), ggplot2 (>= 3.5.1), cowplot (>= 1.1.3), nlme (>= 3.1-165), nlmeU, fBasics, car, MASS, performance, lattice, marginaleffects, clubSandwich
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 4.0)
LazyData: true
VignetteBuilder: knitr
URL: https://github.com/RafRomB/SynergyLMM
BugReports: https://github.com/RafRomB/SynergyLMM/issues
NeedsCompilation: no
Packaged: 2025-02-05 15:05:35 UTC; rafrombec
Author: Rafael Romero-Becerra [aut, cre] , Zhi Zhao [ctb], Tero Aittokallio [ctb]
Maintainer: Rafael Romero-Becerra <r.r.becerra@medisin.uio.no>
Repository: CRAN
Date/Publication: 2025-02-06 13:30:02 UTC

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New package pseudoCure with initial version 1.0.0
Package: pseudoCure
Title: A Pseudo-Observations Approach for Analyzing Survival Data with a Cure Fraction
Version: 1.0.0
Date: 2025-02-05
Description: A collection of easy-to-use tools for regression analysis of survival data with a cure fraction proposed in Su et al. (2022) <doi:10.1177/09622802221108579>. The modeling framework is based on the Cox proportional hazards mixture cure model and the bounded cumulative hazard (promotion time cure) model. The pseudo-observations approach is utilized to assess covariate effects and embedded in the variable selection procedure.
License: GPL (>= 2)
Depends: R (>= 4.2.0)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2025-02-05 14:30:37 UTC; schiou
Encoding: UTF-8
Imports: Rcpp, MASS, ggplot2, ggpubr, rlang
Author: Sy Han Chiou [aut, cre], Chien-Lin Su [aut], Feng-Chang Lin [aut]
Maintainer: Sy Han (Steven) Chiou <schiou@smu.edu>
Repository: CRAN
Date/Publication: 2025-02-06 13:10:02 UTC

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Wed, 05 Feb 2025

New package WpProj with initial version 0.2.3
Package: WpProj
Title: Linear p-Wasserstein Projections
Version: 0.2.3
Date: 2025-02-03
Description: Performs Wasserstein projections from the predictive distributions of any model into the space of predictive distributions of linear models. We utilize L1 penalties to also reduce the complexity of the model space. This package employs the methods as described in Dunipace, Eric and Lorenzo Trippa (2020) <doi:10.48550/arXiv.2012.09999>.
License: GPL (== 3.0)
Depends: R (>= 4.0)
Imports: approxOT (>= 1.2), glmnet, oem, Rcpp, rlang, ROI, ROI.plugin.ecos, ROI.plugin.lpsolve, Matrix, rqPen, quantreg, doParallel, foreach, doRNG, dplyr, stats, magrittr, methods, slam, lifecycle
LinkingTo: approxOT (>= 1.2), BH, Rcpp (>= 1.0.0), RcppCGAL, RcppEigen, RcppProgress, RSpectra
Suggests: ggplot2, ggsci, ggridges, testthat (>= 2.1.0), transport, Rmosek, spelling, ECOSolveR
URL: https://github.com/ericdunipace/WpProj
BugReports: https://github.com/ericdunipace/WpProj/issues
SystemRequirements: C++17
Encoding: UTF-8
Language: en-US
NeedsCompilation: yes
Packaged: 2025-02-03 23:43:13 UTC; eifer
Author: Eric Dunipace [aut, cre] , Clemens Schmid [ctb] , Espen Bernton [ctb] , Mathieu Gerber [ctb] , Pierre Jacob [ctb] , Bin Dai [ctb] , Jared Huling [ctb] , Yixuan Qiu [ctb] , Dominic Schuhmacher [ctb] , Nicolas Bonneel [ctb]
Maintainer: Eric Dunipace <edunipace@mail.harvard.edu>
Repository: CRAN
Date/Publication: 2025-02-05 18:20:02 UTC

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New package SPIChanges with initial version 0.1.0
Package: SPIChanges
Title: Improves the Interpretation of the Standardized Precipitation Index Under Changing Climate Conditions
Version: 0.1.0
Description: Improves the interpretation of the Standardized Precipitation Index under changing climate conditions. The package uses the nonstationary approach proposed in Blain et al. (2022) <doi:10.1002/joc.7550> to detect trends in rainfall quantities and to quantify the effect of such trends on the probability of a drought event occurring.
License: MIT + file LICENSE
URL: https://github.com/gabrielblain/SPIChanges
BugReports: https://github.com/gabrielblain/SPIChanges/issues
Depends: R (>= 2.10)
Imports: gamlss, gamlss.dist, lubridate, MuMIn, rlang, spsUtil, stats, brglm2, zoo
Suggests: archive, curl, doParallel, dplyr, foreach, ggplot2, grid, knitr, ncdf4, patchwork, RColorBrewer, rmarkdown, roxyglobals, sf, purrr, testthat (>= 3.0.0), tidyr
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-04 18:56:44 UTC; Gabriel
Author: Gabriel Constantino Blain [aut, cre] , Graciela R. Sobierajski [aut] , Leticia L. Martins [aut] , Adam H. Sparks [aut]
Maintainer: Gabriel Constantino Blain <gabriel.blain@sp.gov.br>
Repository: CRAN
Date/Publication: 2025-02-05 18:10:08 UTC

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New package matriz with initial version 1.0.1
Package: matriz
Title: Literature Matrix Synthesis Tools for Epidemiology and Health Science Research
Version: 1.0.1
Maintainer: JP Monteagudo <jpmonteagudo2014@gmail.com>
Description: An easy-to-use workflow that provides tools to create, update and fill literature matrices commonly used in research, specifically epidemiology and health sciences research. The project is born out of need as an easy–to–use tool for my research methods classes.
License: AGPL (>= 3)
Encoding: UTF-8
URL: https://github.com/jpmonteagudo28/matriz
BugReports: https://github.com/jpmonteagudo28/matriz/issues
Suggests: testthat (>= 3.0.0)
Imports: dplyr, readr, readxl, rlang, stringr, writexl
Depends: R (>= 4.1.0)
NeedsCompilation: no
Packaged: 2025-02-04 21:21:53 UTC; jpmonteagudo
Author: JP Monteagudo [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-02-05 18:30:01 UTC

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New package Horsekicks with initial version 1.0.2
Package: Horsekicks
Title: Provide Extensions to the Prussian Army Death by Horsekick Data
Version: 1.0.2
Author: Bill Venables [aut, cre], Antony Unwin [ctb]
Maintainer: Bill Venables <bill.venables@gmail.com>
Description: We provide extensions to the classical dataset "Example 4: Death by the kick of a horse in the Prussian Army" first used by Ladislaus von Bortkeiwicz in his treatise on the Poisson distribution "Das Gesetz der kleinen Zahlen", <DOI:10.1017/S0370164600019453>. As well as an extended time series for the horse-kick death data, we also provide, in parallel, deaths by falling from a horse and by drowning.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5)
Suggests: knitr, rmarkdown, ggplot2, dplyr, tidyr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-05 00:12:42 UTC; Bill
Repository: CRAN
Date/Publication: 2025-02-05 18:40:02 UTC

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New package CircNNTSRSymmetric with initial version 0.1.0
Package: CircNNTSRSymmetric
Title: Circular Data using Symmetric NNTS Models
Version: 0.1.0
Description: The statistical analysis of circular data using distributions based on symmetric Nonnegative Trigonometric Sums (NNTS). It includes functions to perform empirical analysis and estimate the parameters of density functions. Fernandez-Duran, J.J. and Gregorio-Dominguez, M.M. (2025), "Multimodal Symmetric Circular Distributions Based on Nonnegative Trigonometric Sums and a Likelihood Ratio Test for Reflective Symmetry", <doi:10.48550/arXiv.2412.19501>.
Depends: stats, CircNNTSR
License: GPL (>= 2)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-04 19:36:04 UTC; mercedesgregorio
Author: Juan Jose Fernandez-Duran [aut], Maria Mercedes Gregorio-Dominguez [aut, cre]
Maintainer: Maria Mercedes Gregorio-Dominguez <mercedes@itam.mx>
Repository: CRAN
Date/Publication: 2025-02-05 18:20:06 UTC

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New package BayesAT with initial version 0.1.0
Package: BayesAT
Title: Bayesian Adaptive Trial
Version: 0.1.0
Maintainer: Yuan Zhong <aqua.zhong@gmail.com>
Description: Bayesian adaptive trial algorithm implements multiple-stage interim analysis. Package includes data generating function, and Bayesian hypothesis testing function.
License: GPL-3
Encoding: UTF-8
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-04 20:11:36 UTC; adamzhong
Author: Yuan Zhong [aut, cre], Zeynep Baskurt [aut], Wei Xu [aut]
Repository: CRAN
Date/Publication: 2025-02-05 18:20:09 UTC

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New package SurvMetrics with initial version 0.5.1
Package: SurvMetrics
Title: Predictive Evaluation Metrics in Survival Analysis
Version: 0.5.1
Date: 2025-01-16
Author: Hanpu Zhou [aut], Xuewei Cheng [aut], Sizheng Wang [aut], Yi Zou [aut], Hong Wang [aut, cre]
Maintainer: Hong Wang <wh@csu.edu.cn>
Description: An implementation of popular evaluation metrics that are commonly used in survival prediction including Concordance Index, Brier Score, Integrated Brier Score, Integrated Square Error, Integrated Absolute Error and Mean Absolute Error. For a detailed information, see (Ishwaran H, Kogalur UB, Blackstone EH and Lauer MS (2008) <doi:10.1214/08-AOAS169>) , (Moradian H, Larocque D and Bellavance F (2017) <doi:10.1007/s10985-016-9372-1>), (Hanpu Zhou, Hong Wang, Sizheng Wang and Yi Zou (2023) <doi:10.32614/rj-2023-009>) for different evaluation metrics.
License: GPL (>= 2)
Encoding: UTF-8
Imports: survminer, stats, survival, MASS,pec
Suggests: knitr, rmarkdown, caret, ggplot2, ggpubr, randomForestSRC, testthat (>= 3.0.0)
NeedsCompilation: no
URL: https://github.com/whcsu/SurvMetrics
Packaged: 2025-02-04 12:39:33 UTC; flood
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-05 11:50:28 UTC

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New package tergo with initial version 0.1.8
Package: tergo
Title: Style Your Code Fast
Version: 0.1.8
Description: Provides a set of functions that allow users for styling their R code according to the 'tidyverse' style guide. The package uses a native Rust implementation to ensure the highest performance. Learn more about 'tergo' at <https://rtergo.pagacz.io>.
License: MIT + file LICENSE
Encoding: UTF-8
SystemRequirements: Cargo (Rust's package manager), rustc
NeedsCompilation: yes
Biarch: true
Depends: R (>= 4.1.0)
Suggests: rextendr (== 0.3.1), roxygen2, rstudioapi (>= 0.7), devtools, pkgdown, desc, knitr, rmarkdown
URL: https://rtergo.pagacz.io, https://github.com/kpagacz/tergo
BugReports: https://github.com/kpagacz/tergo/issues
VignetteBuilder: knitr
Packaged: 2025-02-04 17:13:56 UTC; kpagacz
Author: Konrad Pagacz [aut, cre], Maciej Nasinski [ctb], The authors of the dependency Rust crates [ctb]
Maintainer: Konrad Pagacz <konrad.pagacz@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-05 09:20:02 UTC

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Tue, 04 Feb 2025

New package SQLFormatteR with initial version 0.0.1
Package: SQLFormatteR
Title: Format SQL Queries
Version: 0.0.1
Description: A convenient interface for formatting 'SQL' queries directly within 'R'. It acts as a wrapper around the 'sql_format' Rust crate. The package allows you to format 'SQL' code with customizable options, including indentation, case formatting, and more, ensuring your 'SQL' queries are clean, readable, and consistent.
License: MIT + file LICENSE
URL: https://dataupsurge.github.io/SQLFormatteR/, https://github.com/dataupsurge/SQLFormatteR
BugReports: https://github.com/dataupsurge/SQLFormatteR/issues
Imports: assertthat
Suggests: covr (>= 3.6.4), docopt (>= 0.7.1), git2r (>= 0.35.0), jsonlite (>= 1.8.9), lintr (>= 3.1.2), optparse (>= 1.7.5), precommit (>= 0.4.3), rextendr (>= 0.3.1), roxygen2 (>= 7.3.2), styler (>= 1.10.3), testthat (>= 3.0.0)
Encoding: UTF-8
SystemRequirements: Cargo (Rust's package manager), rustc >= 1.65.0
NeedsCompilation: yes
Packaged: 2025-02-04 11:11:05 UTC; morgan
Author: Morgan Durand [aut, cre, cph], Authors of the dependent Rust crates [aut]
Maintainer: Morgan Durand <morgan@dataupsurge.com>
Repository: CRAN
Date/Publication: 2025-02-04 17:40:15 UTC

More information about SQLFormatteR at CRAN
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New package shiny2docker with initial version 0.0.1
Package: shiny2docker
Title: Generate Dockerfiles for 'Shiny' Applications
Version: 0.0.1
Description: Automates the creation of Dockerfiles for deploying 'Shiny' applications. By integrating with 'renv' for dependency management and leveraging Docker-based solutions, it simplifies the process of containerizing 'Shiny' apps, ensuring reproducibility and consistency across different environments.
License: MIT + file LICENSE
Imports: attachment (>= 0.4.3), dockerfiler, here, yesno
Encoding: UTF-8
URL: https://github.com/VincentGuyader/shiny2docker
BugReports: https://github.com/VincentGuyader/shiny2docker/issues
Suggests: shiny, renv, testthat (>= 3.0.0), knitr, rmarkdown, rstudioapi
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-04 10:29:45 UTC; PC
Author: Vincent Guyader [aut, cre]
Maintainer: Vincent Guyader <vincent@thinkr.fr>
Repository: CRAN
Date/Publication: 2025-02-04 17:40:02 UTC

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New package rmcmc with initial version 0.1.1
Package: rmcmc
Title: Robust Markov Chain Monte Carlo Methods
Version: 0.1.1
Description: Functions for simulating Markov chains using the Barker proposal to compute Markov chain Monte Carlo (MCMC) estimates of expectations with respect to a target distribution on a real-valued vector space. The Barker proposal, described in Livingstone and Zanella (2022) <doi:10.1111/rssb.12482>, is a gradient-based MCMC algorithm inspired by the Barker accept-reject rule. It combines the robustness of simpler MCMC schemes, such as random-walk Metropolis, with the efficiency of gradient-based methods, such as the Metropolis adjusted Langevin algorithm. The key function provided by the package is sample_chain(), which allows sampling a Markov chain with a specified target distribution as its stationary distribution. The chain is sampled by generating proposals and accepting or rejecting them using a Metropolis-Hasting acceptance rule. During an initial warm-up stage, the parameters of the proposal distribution can be adapted, with adapters available to both: tune the scale of the prop [...truncated...]
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: bridgestan (>= 2.5.0), knitr, posterior, progress, ramcmc, rmarkdown, testthat (>= 3.0.0)
URL: https://github.com/UCL/rmcmc, http://github-pages.ucl.ac.uk/rmcmc/
BugReports: https://github.com/UCL/rmcmc/issues
Imports: Matrix, rlang, withr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-04 16:29:30 UTC; matt
Author: Matthew M. Graham [aut, cre] , Samuel Livingstone [aut] , University College London [cph], Engineering and Physical Sciences Research Council [fnd]
Maintainer: Matthew M. Graham <m.graham@ucl.ac.uk>
Repository: CRAN
Date/Publication: 2025-02-04 17:50:02 UTC

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New package MOsemiind with initial version 0.1.0
Package: MOsemiind
Title: Marshall-Olkin Shock Models with Semi-Independent Time
Version: 0.1.0
Description: Provides tools for analyzing Marshall-Olkin shock models semi-independent time. It includes interactive 'shiny' applications for exploring copula-based dependence structures, along with functions for modeling and visualization. The methods are based on Mijanovic and Popovic (2024, submitted) "An R package for Marshall-Olkin shock models with semi-independent times."
License: MIT + file LICENSE
Encoding: UTF-8
Imports: copula, graphics, pracma, shiny, stats
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-04 09:36:17 UTC; Andjela
Author: Andjela Mijanovic [aut, cre], Bozidar Popovic [aut]
Maintainer: Andjela Mijanovic <andjela.m@ucg.ac.me>
Repository: CRAN
Date/Publication: 2025-02-04 17:30:02 UTC

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New package kpiwidget with initial version 0.1.0
Package: kpiwidget
Title: KPI Widgets for Quarto Dashboards with Crosstalk
Version: 0.1.0
Description: Provides an easy way to create interactive KPI (key performance indicator) widgets for 'Quarto' dashboards using 'Crosstalk'. The package enables visualization of key metrics in a structured format, supporting interactive filtering and linking with other 'Crosstalk'-enabled components. Designed for use in 'Quarto' Dashboards.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: crosstalk, htmlwidgets
Suggests: dplyr, flexdashboard, htmltools, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://arnold-kakas.github.io/kpiwidget/, https://github.com/Arnold-Kakas/kpiwidget
BugReports: https://github.com/Arnold-Kakas/kpiwidget/issues
NeedsCompilation: no
Packaged: 2025-02-04 16:40:27 UTC; Arnold
Author: Arnold Kakas [aut, cre, cph]
Maintainer: Arnold Kakas <kakasarnold@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-04 17:50:07 UTC

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New package RFplus with initial version 1.2-2
Package: RFplus
Title: Progressive Bias Correction of Satellite Environmental Data
Version: 1.2-2
Encoding: UTF-8
Maintainer: Jonnathan Augusto Landi Bermeo <jonnathan.landi@outlook.com>
Description: Implements a bias correction method that combines Random Forest models with Quantile Mapping to improve the accuracy of satellite-derived environmental datasets. The model corrects biases in meteorological variables, such as precipitation and temperature, by integrating in situ measurements and a Digital Elevation Model (DEM).
License: GPL (>= 3)
Depends: R (>= 4.4.0)
Imports: terra, randomForest, data.table, dplyr, pbapply, qmap
URL: https://github.com/Jonnathan-Landi/RFplus
BugReports: https://github.com/Jonnathan-Landi/RFplus/issues
NeedsCompilation: no
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Packaged: 2025-02-03 23:36:34 UTC; Jonna
Author: Jonnathan Augusto Landi Bermeo [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-02-04 09:10:02 UTC

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New package nlpembeds with initial version 1.0.0
Package: nlpembeds
Title: Natural Language Processing Embeddings
Version: 1.0.0
Description: Provides efficient methods to compute co-occurrence matrices, pointwise mutual information (PMI) and singular value decomposition (SVD). In the biomedical and clinical settings, one challenge is the huge size of databases, e.g. when analyzing data of millions of patients over tens of years. To address this, this package provides functions to efficiently compute monthly co-occurrence matrices, which is the computational bottleneck of the analysis, by using the 'RcppAlgos' package and sparse matrices. Furthermore, the functions can be called on 'SQL' databases, enabling the computation of co-occurrence matrices of tens of gigabytes of data, representing millions of patients over tens of years. Partly based on Hong C. (2021) <doi:10.1038/s41746-021-00519-z>.
Imports: data.table, magrittr, Matrix, methods, parallel, RcppAlgos, reshape2, RSQLite, rsvd
Depends: R (>= 3.5.0)
Suggests: knitr, testthat
VignetteBuilder: knitr
License: GPL-3
Encoding: UTF-8
URL: https://gitlab.com/thomaschln/nlpembeds
BugReports: https://gitlab.com/thomaschln/nlpembeds/-/issues
NeedsCompilation: no
Packaged: 2025-02-03 20:02:33 UTC; root
Author: Thomas Charlon [aut, cre] , Doudou Zhou [ctb] , CELEHS [aut]
Maintainer: Thomas Charlon <charlon@protonmail.com>
Repository: CRAN
Date/Publication: 2025-02-04 08:30:01 UTC

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New package fastQR with initial version 1.0.0
Package: fastQR
Title: Fast QR Decomposition and Update
Version: 1.0.0
Date: 2025-01-25
Author: Mauro Bernardi [aut, cre], Claudio Busatto [aut], Manuela Cattelan [aut]
Maintainer: Mauro Bernardi <mauro.bernardi@unipd.it>
Description: Efficient algorithms for performing, updating, and downdating the QR decomposition, R decomposition, or the inverse of the R decomposition of a matrix as rows or columns are added or removed. It also includes functions for solving linear systems of equations, normal equations for linear regression models, and normal equations for linear regression with a RIDGE penalty. For a detailed introduction to these methods, see the book by Golub and Van Loan (2013, <doi:10.1007/978-3-319-05089-8>) for complete introduction to the methods.
License: GPL (>= 2)
Imports: Rcpp (>= 1.0.10), RcppEigen, Rdpack
LinkingTo: Rcpp, RcppArmadillo, RcppEigen
Encoding: UTF-8
SystemRequirements: GNU make
NeedsCompilation: yes
Packaged: 2025-02-03 22:19:19 UTC; maurobernardi
Repository: CRAN
Date/Publication: 2025-02-04 08:40:01 UTC

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Mon, 03 Feb 2025

New package shinyr with initial version 0.4.2
Package: shinyr
Title: Data Insights Through Inbuilt R Shiny App
Version: 0.4.2
Description: It builds dynamic R shiny based dashboards to analyze any CSV files. It provides simple dashboard design to subset the data, perform exploratory data analysis and preliminary machine learning (supervised and unsupervised). It also provides filters based on columns of interest.
Depends: R (>= 3.5.0),
Imports: dplyr, shiny, shinydashboard, tm, wordcloud, corrplot, randomForest, RColorBrewer, caret, nnet, plotly
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-03 14:15:51 UTC; RPUSH1
Author: Jayachandra N [aut, cre], Pushker Ravindra [aut]
Maintainer: Jayachandra N <itsjay510@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-03 19:30:02 UTC

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New package tmap.cartogram with initial version 0.1
Package: tmap.cartogram
License: GPL-3
Title: Extension to 'tmap' for Creating Cartograms
Description: Provides new layer functions to 'tmap' for creating various types of cartograms. A cartogram is a type of thematic map in which geographic areas are resized or distorted based on a quantitative variable, such as population. The goal is to make the area sizes proportional to the selected variable while preserving geographic positions as much as possible.
Version: 0.1
Encoding: UTF-8
Depends: R (>= 3.5.0),
Imports: tmap (>= 4.0), sf, cartogram
Suggests: knitr
URL: https://github.com/r-tmap/tmap.cartogram, https://r-tmap.github.io/tmap.cartogram/
BugReports: https://github.com/r-tmap/tmap.cartogram/issues
NeedsCompilation: no
Packaged: 2025-02-03 16:19:33 UTC; mtes
Author: Martijn Tennekes [aut, cre]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-03 18:20:02 UTC

More information about tmap.cartogram at CRAN
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New package shinykanban with initial version 0.0.1
Package: shinykanban
Title: Create Kanban Board in Shiny Applications
Version: 0.0.1
Description: Provides an interactive Kanban board widget for 'shiny' applications. It allows users to manage tasks using a drag-and-drop interface and offers customizable styling options. 'shinykanban' is ideal for project management, task tracking, and agile workflows within 'shiny' apps.
License: MIT + file LICENSE
URL: https://github.com/ugurdar/shinykanban
BugReports: https://github.com/ugurdar/shinykanban/issues
Encoding: UTF-8
Imports: htmlwidgets, reactR, shiny, bsicons, htmltools
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-02-03 14:10:49 UTC; ugurdar
Author: Ugur Dar [aut, cre], Brian Pillmore [aut, cph]
Maintainer: Ugur Dar <ugurdarr@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-03 18:10:02 UTC

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New package authoritative with initial version 0.1.0
Package: authoritative
Title: Parse and Deduplicate Author Names
Version: 0.1.0
Description: Utilities to parse authors fields from DESCRIPTION files and general purpose functions to deduplicate names in database, beyond the specific case of R package authors.
License: MIT + file LICENSE
URL: https://github.com/epiverse-connect/authoritative
BugReports: https://github.com/epiverse-connect/authoritative/issues
Depends: R (>= 4.1.0)
Imports: stringi, utils
Suggests: knitr, rmarkdown, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-GB
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-03 17:27:42 UTC; hugo
Author: Hugo Gruson [aut, cre, cph] , Chris Hartgerink [rev]
Maintainer: Hugo Gruson <hugo@data.org>
Repository: CRAN
Date/Publication: 2025-02-03 18:30:02 UTC

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New package raybevel with initial version 0.2.2
Package: raybevel
Title: Generates Polygon Straight Skeletons and 3D Bevels
Version: 0.2.2
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Description: Generates polygon straight skeletons and 3D models. Provides functions to create and visualize interior polygon offsets, 3D beveled polygons, and 3D roof models.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: progress, digest, decido, rayvertex (>= 0.11.4), sf, grid
LinkingTo: Rcpp, BH, RcppCGAL (>= 6.0.1), progress, RcppThread (>= 2.1.6)
Suggests: spData, rayrender (>= 0.38.3), testthat (>= 3.0.0), ggplot2, png
URL: https://www.raybevel.com, https://github.com/tylermorganwall/raybevel/, http://www.raybevel.com/
BugReports: https://github.com/tylermorganwall/raybevel/issues
NeedsCompilation: yes
Packaged: 2025-02-02 04:36:39 UTC; tyler
Author: Tyler Morgan-Wall [aut, cph, cre]
Repository: CRAN
Date/Publication: 2025-02-03 17:40:02 UTC

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New package lightAUC with initial version 0.1.1
Package: lightAUC
Title: Fast AUC Computation
Version: 0.1.1
Maintainer: Christos Adam <econp266@econ.soc.uoc.gr>
Description: Fast calculation of Area Under Curve (AUC) metric of a Receiver Operating Characteristic (ROC) curve, using the algorithm of Fawcett (2006) <doi:10.1016/j.patrec.2005.10.010>. Therefore it is appropriate for large-scale AUC metric calculations.
License: GPL-3
Imports: Rcpp (>= 1.0.13), RcppParallel (>= 5.1.9)
LinkingTo: Rcpp, RcppArmadillo, RcppParallel
Encoding: UTF-8
SystemRequirements: GNU make
Suggests: Rfast, Rfast2, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr, rmarkdown
URL: https://github.com/cadam00/lightAUC, https://cadam00.github.io/lightAUC/
BugReports: https://github.com/cadam00/lightAUC/issues
NeedsCompilation: yes
Packaged: 2025-02-03 06:15:31 UTC; Administrator
Author: Christos Adam [aut, cre]
Repository: CRAN
Date/Publication: 2025-02-03 18:00:01 UTC

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New package HetSeq with initial version 0.1.0
Package: HetSeq
Title: Identifying Modulators of Cellular Responses Leveraging Intercellular Heterogeneity
Version: 0.1.0
Author: Kevin Berg [aut, cre], Florian Erhard [aut] , Lygeri Sakellaridi [aut]
Maintainer: Kevin Berg <Kevin.Berg@informatik.uni-regensburg.de>
Description: Cellular responses to perturbations are highly heterogeneous and depend largely on the initial state of cells. Connecting post-perturbation cells via cellular trajectories to untreated cells (e.g. by leveraging metabolic labeling information) enables exploitation of intercellular heterogeneity as a combined knock-down and overexpression screen to identify pathway modulators, termed Heterogeneity-seq (see 'Berg et al' <doi:10.1101/2024.10.28.620481>). This package contains functions to generate cellular trajectories based on scSLAM-seq (single-cell, thiol-(SH)-linked alkylation of RNA for metabolic labelling sequencing) time courses, functions to identify pathway modulators and to visualize the results.
License: Apache License (>= 2)
URL: https://github.com/erhard-lab/HetSeq
BugReports: https://github.com/erhard-lab/HetSeq/issues
Depends: R (>= 4.1.0)
Imports: cowplot, doParallel, foreach, DoubleML, e1071, igraph, ggplot2, ggrastr, ggrepel, grandR, lpSolve, mlr3, pROC, reshape2, scales, Seurat, stats
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-03 11:36:32 UTC; berg
Repository: CRAN
Date/Publication: 2025-02-03 18:00:05 UTC

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New package legion with initial version 0.2.1
Package: legion
Title: Forecasting Using Multivariate Models
Version: 0.2.1
Date: 2025-02-03
URL: https://github.com/config-i1/legion
BugReports: https://github.com/config-i1/legion/issues
Language: en-GB
Description: Functions implementing multivariate state space models for purposes of time series analysis and forecasting. The focus of the package is on multivariate models, such as Vector Exponential Smoothing, Vector ETS (Error-Trend-Seasonal model) etc. It currently includes Vector Exponential Smoothing (VES, de Silva et al., 2010, <doi:10.1177/1471082X0901000401>), Vector ETS (Svetunkov et al., 2023, <doi:10.1016/j.ejor.2022.04.040>) and simulation function for VES.
License: LGPL-2.1
Depends: R (>= 3.5.0), greybox (>= 1.0.4), smooth (>= 3.1.0)
Imports: Rcpp (>= 0.12.3), stats, generics (>= 0.1.2), graphics, grDevices, Matrix, nloptr, utils, zoo
LinkingTo: Rcpp, RcppArmadillo (>= 0.8.100.0.0)
Suggests: numDeriv, testthat, knitr, rmarkdown, doMC, doParallel, foreach
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-02-03 14:14:35 UTC; config
Author: Ivan Svetunkov [aut, cre] , Kandrika Fadhlan Pritularga [aut]
Maintainer: Ivan Svetunkov <ivan@svetunkov.com>
Repository: CRAN
Date/Publication: 2025-02-03 16:10:02 UTC

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New package MplusLGM with initial version 1.0.0
Package: MplusLGM
Title: Automate Latent Growth Mixture Modelling in 'Mplus'
Version: 1.0.0
Description: Provide a suite of functions for conducting and automating Latent Growth Modeling (LGM) in 'Mplus', including Growth Curve Model (GCM), Growth-Based Trajectory Model (GBTM) and Latent Class Growth Analysis (LCGA). The package builds upon the capabilities of the 'MplusAutomation' package (Hallquist & Wiley, 2018) to streamline large-scale latent variable analyses. “MplusAutomation: An R Package for Facilitating Large-Scale Latent Variable Analyses in Mplus.” Structural Equation Modeling, 25(4), 621–638. <doi:10.1080/10705511.2017.1402334> The workflow implemented in this package follows the recommendations outlined in Van Der Nest et al. (2020). “An Overview of Mixture Modeling for Latent Evolutions in Longitudinal Data: Modeling Approaches, Fit Statistics, and Software.” Advances in Life Course Research, 43, Article 100323. <doi:10.1016/j.alcr.2019.100323>.
Depends: R (>= 4.1.0),
License: GPL (>= 3)
Imports: MplusAutomation, magrittr, tibble, dplyr, tidyr, tidyselect, stringr, purrr, ggplot2, glue, parallel
Encoding: UTF-8
URL: https://github.com/OlivierPDS/MplusLGM
BugReports: https://github.com/OlivierPDS/MplusLGM/issues
LazyData: true
NeedsCompilation: no
Packaged: 2025-02-01 20:20:08 UTC; olivierpercie
Author: Olivier Percie du Sert [aut, cre, cph] , Joshua Unrau [aut]
Maintainer: Olivier Percie du Sert <olivier.perciedusert@mail.mcgill.ca>
Repository: CRAN
Date/Publication: 2025-02-03 12:20:02 UTC

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New package writer with initial version 0.1.0
Package: writer
Title: Write from Multiple Sources to a Database Table
Version: 0.1.0
Description: Provides unified syntax to write data from lazy 'dplyr' 'tbl' or 'dplyr' 'sql' query or a dataframe to a database table with modes such as create, append, insert, update, upsert, patch, delete, overwrite, overwrite_schema.
License: LGPL (>= 3)
Imports: DBI (>= 1.2.3), dplyr (>= 1.1.0), dbplyr (>= 2.3.1), glue (>= 1.5.1), cli (>= 3.4.0), rlang (>= 1.1.2)
Suggests: RSQLite, testthat (>= 3.0.0),
URL: https://github.com/talegari/writer
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-01-31 18:22:17 UTC; srikanth-ks1
Author: Komala Sheshachala Srikanth [aut, cre]
Maintainer: Komala Sheshachala Srikanth <sri.teach@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-03 11:40:02 UTC

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New package resumiR with initial version 1.0.2
Package: resumiR
Title: Medidas Resumen y Tablas de Frecuencia para Datos Numéricos / Summary Measures and Frequency Tables for Numerical Data
Version: 1.0.2
Maintainer: Juan Manuel Solis <juanmasolis@fca.unju.edu.ar>
URL: https://github.com/juanMaSolisJujuy/resumiR
Description: Permite obtener rápidamente una serie de medidas de resumen y gráficos para datos numéricos discretos o continuos en series simples. También permite obtener tablas de frecuencia clásicas y gráficos cuando se desea realizar un análisis de series agrupadas. Su objetivo es de aplicación didáctica para un curso introductorio de Bioestadística utilizando el software R, para las carreras de grado las carreras de grado y otras ofertas educativas de la Facultad de Ciencias Agrarias de la UNJu / It generates summary measures and graphs for discrete or continuous numerical data in simple series. It also enables the creation of classic frequency tables and graphs when analyzing grouped series. Its purpose is for educational application in an introductory Biostatistics course using the R software, aimed at undergraduate programs and other educational offerings of the Faculty of Agricultural Sciences at the National University of Jujuy (UNJu).
License: GPL (>= 3)
Encoding: UTF-8
Suggests: testthat (>= 3.0.0)
Depends: R (>= 4.1.0)
Language: es
Imports: ggplot2, tibble
NeedsCompilation: no
Packaged: 2025-01-31 16:03:06 UTC; usuario
Author: Juan Manuel Solis [aut, cre, cph]
Repository: CRAN
Date/Publication: 2025-02-03 11:30:02 UTC

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New package OPL with initial version 1.0.0
Package: OPL
Title: Optimal Policy Learning
Version: 1.0.0
Author: Federico Brogi [aut, cre], Barbara Guardabascio [aut], Giovanni Cerulli [aut]
Maintainer: Federico Brogi <federicobrogi@gmail.com>
Description: Provides functions for optimal policy learning in socioeconomic applications helping users to learn the most effective policies based on data in order to maximize empirical welfare. Specifically, 'OPL' allows to find "treatment assignment rules" that maximize the overall welfare, defined as the sum of the policy effects estimated over all the policy beneficiaries. Documentation about 'OPL' is provided by several international articles via Athey et al (2021, <doi:10.3982/ECTA15732>), Kitagawa et al (2018, <doi:10.3982/ECTA13288>), Cerulli (2022, <doi:10.1080/13504851.2022.2032577>), the paper by Cerulli (201, <doi:10.1080/13504851.2020.1820939>) and the book by Gareth et al (2013, <doi:10.1007/978-1-4614-7138-7>).
License: GPL-3
Encoding: UTF-8
Imports: stats, dplyr, ggplot2, pander, randomForest, tidyr
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-01-31 20:54:44 UTC; UTENTE
Repository: CRAN
Date/Publication: 2025-02-03 12:00:05 UTC

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New package gimap with initial version 1.0.1
Package: gimap
Title: Calculate Genetic Interactions for Paired CRISPR Targets
Version: 1.0.1
Description: Helps find meaningful patterns in complex genetic experiments. First gimap takes data from paired CRISPR (Clustered regularly interspaced short palindromic repeats) screens that has been pre-processed to counts table of paired gRNA (guide Ribonucleic Acid) reads. The input data will have cell counts for how well cells grow (or don't grow) when different genes or pairs of genes are disabled. The output of the 'gimap' package is genetic interaction scores which are the distance between the observed CRISPR score and the expected CRISPR score. The expected CRISPR scores are what we expect for the CRISPR values to be for two unrelated genes. The further away an observed CRISPR score is from its expected score the more we suspect genetic interaction. The work in this package is based off of original research from the Alice Berger lab at Fred Hutchinson Cancer Center (2021) <doi:10.1016/j.celrep.2021.109597>.
License: GPL-3
URL: https://github.com/FredHutch/gimap
BugReports: https://github.com/FredHutch/gimap/issues
Imports: readr, dplyr, tidyr, rmarkdown, vroom, ggplot2, magrittr, pheatmap, purrr, janitor, broom, utils, stats, stringr, httr, jsonlite, openssl
Suggests: testthat (>= 3.0.0), roxygen2, kableExtra, knitr
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-01-31 19:15:48 UTC; candacesavonen
Author: Candace Savonen [aut, cre], Phoebe Parrish [aut], Kate Isaac [aut], Howard Baek [aut], Daniel Grosso [aut], Siobhan O'Brien [aut], Alice Berger [aut]
Maintainer: Candace Savonen <cansav09@gmail.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2025-02-03 11:50:03 UTC

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New package autoimport with initial version 0.1.1
Package: autoimport
Version: 0.1.1
Title: Automatic Generation of @importFrom Tags
Description: A toolbox to read all R files inside a package and automatically generate @importFrom 'roxygen2' tags in the right place. Includes a 'shiny' application to review the changes before applying them.
License: GPL-3
URL: https://github.com/DanChaltiel/autoimport, https://danchaltiel.github.io/autoimport/
BugReports: https://github.com/DanChaltiel/autoimport/issues
Depends: R (>= 3.6.0)
Imports: cli, desc, diffviewer, digest, dplyr, fs, glue, purrr, readr, rlang, shiny, stringr, tibble, tidyr, utils
Suggests: callr, covr, devtools, knitr, pkgload, rstudioapi, testthat (>= 3.0.0), tidyverse
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-02-01 09:31:57 UTC; Dan
Author: Dan Chaltiel [aut, cre]
Maintainer: Dan Chaltiel <dan.chaltiel@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-03 12:00:02 UTC

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New package timeplyr with initial version 1.0.0
Package: timeplyr
Title: Fast Tidy Tools for Date and Date-Time Manipulation
Version: 1.0.0
Description: A set of fast tidy functions for wrangling, completing and summarising date and date-time data. It combines 'tidyverse' syntax with the efficiency of 'data.table' and speed of 'collapse'.
License: GPL (>= 2)
BugReports: https://github.com/NicChr/timeplyr/issues
Depends: R (>= 4.0.0)
Imports: cheapr (>= 1.0.0), cli, collapse (>= 2.0.0), cppdoubles (>= 0.2.0), data.table (>= 1.14.8), dplyr (>= 1.1.0), fastplyr (>= 0.5.0), ggplot2 (>= 3.4.0), lifecycle, lubridate (>= 1.9.0), pillar (>= 1.7.0), rlang (>= 1.0.0), scales, stringr (>= 1.4.0), tidyselect (>= 1.2.0), timechange (>= 0.2.0), vctrs (>= 0.6.0)
Suggests: bench, knitr, nycflights13, outbreaks, rmarkdown, testthat (>= 3.0.0), tidyr, zoo
LinkingTo: cpp11
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-02-01 11:00:22 UTC; Nmc5
Author: Nick Christofides [aut, cre]
Maintainer: Nick Christofides <nick.christofides.r@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-03 09:10:02 UTC

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Sun, 02 Feb 2025

New package enrichR with initial version 3.4
Package: enrichR
Title: Provides an R Interface to 'Enrichr'
Version: 3.4
Description: Provides an R interface to all 'Enrichr' databases. 'Enrichr' is a web-based tool for analysing gene sets and returns any enrichment of common annotated biological features. Quoting from their website 'Enrichment analysis is a computational method for inferring knowledge about an input gene set by comparing it to annotated gene sets representing prior biological knowledge.' See <https://maayanlab.cloud/Enrichr/> for further details.
Depends: R (>= 3.5.0)
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Imports: httr, curl, rjson, ggplot2, WriteXLS
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-02-02 17:17:05 UTC; wajid
Author: Wajid Jawaid [aut, cre]
Maintainer: Wajid Jawaid <wajid.jawaid@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-02 22:50:06 UTC

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Sat, 01 Feb 2025

New package RegrCoeffsExplorer with initial version 1.2.0
Package: RegrCoeffsExplorer
Title: Efficient Visualization of Regression Coefficients for Lm(), Glm(), and Glmnet() Objects
Version: 1.2.0
Imports: dplyr, ggpubr, gridExtra, glmnet, ggplot2, magrittr, grDevices, rlang, stats
Description: The visualization tool offers a nuanced understanding of regression dynamics, going beyond traditional per-unit interpretation of continuous variables versus categorical ones. It highlights the impact of unit changes as well as larger shifts like interquartile changes, acknowledging the distribution of empirical data. Furthermore, it generates visualizations depicting alterations in Odds Ratios for predictors across minimum, first quartile, median, third quartile, and maximum values, aiding in comprehending predictor-outcome interplay within empirical data distributions, particularly in logistic regression frameworks.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: faraway, knitr, MASS, psych, rmarkdown, selectiveInference, survival
URL: https://vadimtyuryaev.github.io/RegrCoeffsExplorer/
NeedsCompilation: no
Packaged: 2025-02-01 19:05:53 UTC; vadim
Author: Vadim Tyuryaev [aut, cre] , Aleksandr Tsybakin [aut], Jane Heffernan [aut], Hanna Jankowski [aut], Kevin McGregor [aut]
Maintainer: Vadim Tyuryaev <vadim.tyuryaev@gmail.com>
Repository: CRAN
Date/Publication: 2025-02-01 23:40:10 UTC

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Fri, 31 Jan 2025

New package fedmatch with initial version 2.1.0
Package: fedmatch
Title: Fast, Flexible, and User-Friendly Record Linkage Methods
Version: 2.1.0
Description: Provides a flexible set of tools for matching two un-linked data sets. 'fedmatch' allows for three ways to match data: exact matches, fuzzy matches, and multi-variable matches. It also allows an easy combination of these three matches via the tier matching function.
Depends: R (>= 3.5.3)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: stringdist, SnowballC, stringr, purrr, Rcpp, parallel, forcats, data.table, magrittr, scales
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
LinkingTo: Rcpp, BH
NeedsCompilation: yes
Packaged: 2025-01-31 19:17:30 UTC; christopherwebster
Author: Melanie Friedrichs [aut], Chris Webster [aut, cre], Blake Marsh [aut], Jacob Dice [aut], Seung Lee [aut]
Maintainer: Chris Webster <chris0webster@gmail.com>
Repository: CRAN
Date/Publication: 2025-01-31 22:40:02 UTC

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New package EmbedSOM with initial version 2.2
Package: EmbedSOM
Version: 2.2
Title: Fast Embedding Guided by Self-Organizing Map
Depends: R (>= 3.2)
Suggests: knitr, rmarkdown
Imports: ggplot2, igraph, Matrix, Rtsne, umap, uwot
Description: Provides a smooth mapping of multidimensional points into low-dimensional space defined by a self-organizing map. Designed to work with 'FlowSOM' and flow-cytometry use-cases. See Kratochvil et al. (2019) <doi:10.12688/f1000research.21642.1>.
License: GPL (>= 3)
URL: https://github.com/exaexa/EmbedSOM
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-01-31 20:08:19 UTC; exa
Author: Mirek Kratochvil [aut, cre], Sofie Van Gassen [cph], Britt Callebaut [cph], Yvan Saeys [cph], Ron Wehrens [cph]
Maintainer: Mirek Kratochvil <exa.exa@gmail.com>
Repository: CRAN
Date/Publication: 2025-01-31 22:30:02 UTC

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New package RcppUUID with initial version 1.1.2
Package: RcppUUID
Title: Generating Universally Unique Identificators
Version: 1.1.2
Date: 2025-01-31
Description: Using the implementation in Boost C++ library, functions are provided to generate vectors of 'Universally Unique Identifiers (UUID)' from R supporting random (version 4) and name (version 5) 'UUIDs'. The initial repository was <https://gitlab.com/artemklevtsov/rcppuuid>.
URL: https://github.com/eddelbuettel/rcppuuid
BugReports: https://github.com/eddelbuettel/rcppuuid/issues
License: GPL (>= 2)
Imports: Rcpp
Suggests: tinytest, uuid, microbenchmark
LinkingTo: Rcpp, BH
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-01-31 16:58:00 UTC; edd
Author: Artem Klevtsov [aut] , Dirk Eddelbuettel [aut, cre]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Repository: CRAN
Date/Publication: 2025-01-31 19:40:05 UTC

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New package xmap with initial version 0.1.0
Package: xmap
Title: Transforming Data Between Statistical Classifications
Version: 0.1.0
Description: Provides support for transformations of numeric aggregates between statistical classifications (e.g. occupation or industry categorisations) using the 'Crossmaps' framework. Implements classes for representing transformations between a source and target classification as graph structures, and methods for validating and applying crossmaps to transform data collected under the source classification into data indexed using the target classification codes. Documentation about the 'Crossmaps' framework is provided in the included vignettes and in Huang (2024, <doi:10.48550/arXiv.2406.14163>).
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-GB
Maintainer: Cynthia A. Huang <cynthiahqy@gmail.com>
URL: https://github.com/cynthiahqy/xmap, https://cynthiahqy.github.io/xmap/
BugReports: https://github.com/cynthiahqy/xmap/issues
LazyData: true
Depends: R (>= 4.1)
Imports: cli (>= 3.4.0), dplyr (>= 1.1.0), methods, pillar (>= 1.6.0), rlang (>= 1.0.0), tibble, tidyr, tidyselect, vctrs (>= 0.6.0)
Suggests: knitr, purrr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-01-31 10:30:53 UTC; chua0032
Author: Cynthia A. Huang [aut, cre] , Laura Puzzello [aut, fnd]
Repository: CRAN
Date/Publication: 2025-01-31 16:10:01 UTC

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New package StratifiedSampling with initial version 0.4.2
Package: StratifiedSampling
Title: Different Methods for Stratified Sampling
Version: 0.4.2
Description: Integrating a stratified structure in the population in a sampling design can considerably reduce the variance of the Horvitz-Thompson estimator. We propose in this package different methods to handle the selection of a balanced sample in stratified population. For more details see Raphaël Jauslin, Esther Eustache and Yves Tillé (2021) <doi:10.1007/s42081-021-00134-y>. The package propose also a method based on optimal transport and balanced sampling, see Raphaël Jauslin and Yves Tillé <doi:10.1016/j.jspi.2022.12.003>.
URL: https://github.com/RJauslin/StratifiedSampling
BugReports: https://github.com/RJauslin/StratifiedSampling/issues
License: GPL (>= 2)
Encoding: UTF-8
LinkingTo: RcppArmadillo, Rcpp
Imports: Rcpp, transport, proxy, MASS, sampling, Rglpk
Depends: Matrix, R (>= 3.5.0)
Suggests: knitr, rmarkdown, BalancedSampling, stats, testthat, StatMatch, laeken, prettydoc, ggplot2, viridis, geojsonio, sf, rmapshaper
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-01-31 12:48:04 UTC; Raphael
Author: Raphael Jauslin [aut, cre] , Esther Eustache [aut], Bardia Panahbehagh [aut] , Yves Tille [aut]
Maintainer: Raphael Jauslin <raphael.jauslin@bfs.admin.ch>
Repository: CRAN
Date/Publication: 2025-01-31 16:20:02 UTC

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New package SurvImpute with initial version 0.1.0
Package: SurvImpute
Title: Multiple Imputation for Missing Covariates in Time-to-Event Data
Version: 0.1.0
Maintainer: Qinghua Lian <qlian@mcw.edu>
Description: Generates multiple imputed datasets from a substantive model compatible fully conditional specification model for time-to-event data. Our method assumes that the censoring process also depends on the covariates with missing values. Details will be available in an upcoming publication.
License: GPL-3
Imports: survival, VGAM, MASS
Suggests: mitools
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-01-31 05:45:42 UTC; qinghua
Author: Qinghua Lian [aut, cre, cph], Soyoung Kim [aut], Michael J. Martens [aut], Kwang Woo Ahn [aut]
Repository: CRAN
Date/Publication: 2025-01-31 15:40:05 UTC

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New package shortr with initial version 1.0.0
Package: shortr
Title: Optimal Subset Identification in Undirected Weighted Network Models
Version: 1.0.0
Description: Identifies what optimal subset of a desired number of items should be retained in a short version of a psychometric instrument to assess the “broadest” proportion of the construct-level content of the set of items included in the original version of the said psychometric instrument. Expects a symmetric adjacency matrix as input (undirected weighted network model). Supports brute force and simulated annealing combinatorial search algorithms.
Depends: R (>= 4.1.0)
Imports: stats, utils
URL: https://github.com/lfourni2/shortr
License: GPL (>= 3)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-01-30 20:40:03 UTC; loisfournier
Author: Lois Fournier [aut, cre] , Alexandre Heeren [aut] , Stephanie Baggio [aut] , Luke Clark [aut] , Antonio Verdejo-Garcia [aut] , Jose C. Perales [aut] , Joel Billieux [aut]
Maintainer: Lois Fournier <lois.fournier@unil.ch>
Repository: CRAN
Date/Publication: 2025-01-31 15:30:06 UTC

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New package networksem with initial version 0.2
Package: networksem
Title: Network Structural Equation Modeling
Version: 0.2
Maintainer: Zhiyong Zhang <johnnyzhz@gmail.com>
Description: Several methods have been developed to integrate structural equation modeling techniques with network data analysis to examine the relationship between network and non-network data. Both node-based and edge-based information can be extracted from the network data to be used as observed variables in structural equation modeling. To facilitate the application of these methods, model specification can be performed in the familiar syntax of the 'lavaan' package, ensuring ease of use for researchers. Technical details and examples can be found at <https://bigsem.psychstat.org>.
License: GPL
Imports: sna, influential, lavaan, network, igraph, methods
Depends: latentnet
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2025-01-30 17:35:44 UTC; ziqianxu
Author: Zhiyong Zhang [aut, cre] , Ziqian Xu [aut]
Repository: CRAN
Date/Publication: 2025-01-31 15:20:02 UTC

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New package MultiGrey with initial version 0.1.0
Package: MultiGrey
Title: Fitting and Forecasting of Grey Model for Multivariate Time Series Data
Version: 0.1.0
Depends: R(>= 2.10)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Description: Grey model is commonly used in time series forecasting when statistical assumptions are violated with a limited number of data points. The minimum number of data points required to fit a grey model is four observations. This package fits Grey model of First order and One Variable, i.e., GM (1,1) for multivariate time series data and returns the parameters of the model, model evaluation criteria and h-step ahead forecast values for each of the time series variables. For method details see, Akay, D. and Atak, M. (2007) <DOI:10.1016/j.energy.2006.11.014>, Hsu, L. and Wang, C. (2007).<DOI:10.1016/j.techfore.2006.02.005>.
License: GPL (>= 2.0)
Encoding: UTF-8
Imports: zoo, stats
NeedsCompilation: no
Packaged: 2025-01-31 09:15:13 UTC; Pradip Basak
Author: Pradip Basak [aut, cph, cre], Nobin Chandra Paul [aut, cph]
Maintainer: Pradip Basak <pradip@ubkv.ac.in>
Repository: CRAN
Date/Publication: 2025-01-31 16:00:02 UTC

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New package mtrank with initial version 0.1-0
Package: mtrank
Title: Ranking using Probabilistic Models and Treatment Choice Criteria
Version: 0.1-0
Date: 2025-01-31
Depends: R (>= 4.0.0), meta (>= 8.0-2), netmeta (>= 3.0-2)
Imports: PlackettLuce, dplyr, magrittr
Suggests: rmarkdown, knitr
Maintainer: Theodoros Evrenoglou <theodoros.evrenoglou@uniklinik-freiburg.de>
URL: https://github.com/TEvrenoglou/mtrank
Description: Implementation of a novel frequentist approach to produce clinically relevant treatment hierarchies in network meta-analysis. The method is based on treatment choice criteria (TCC) and probabilistic ranking models, as described by Evrenoglou et al. (2024) <DOI:10.48550/arXiv.2406.10612>. The TCC are defined using a rule based on the minimal clinically important difference. Using the defined TCC, the study-level data (i.e., treatment effects and standard errors) are first transformed into a preference format, indicating either a treatment preference (e.g., treatment A > treatment B) or a tie (treatment A = treatment B). The preference data are then synthesized using a probabilistic ranking model, which estimates the latent ability parameter of each treatment and produces the final treatment hierarchy. This parameter represents each treatment’s ability to outperform all the other competing treatments in the network. Consequently, larger ability estimates indicate higher position [...truncated...]
License: GPL (>= 2)
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-01-31 08:00:28 UTC; sc
Author: Theodoros Evrenoglou [aut, cre] , Guido Schwarzer [aut]
Repository: CRAN
Date/Publication: 2025-01-31 15:50:01 UTC

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New package MRMCbinary with initial version 1.0.4
Package: MRMCbinary
Title: Multi-Reader Multi-Case Analysis of Binary Diagnostic Tests
Version: 1.0.4
Description: The goal of 'MRMCbinary' is to compare the performance of diagnostic tests (i.e., sensitivity and specificity) for binary outcomes in multi-reader multi-case (MRMC) studies. It is based on conditional logistic regression and Cochran’s Q test (or McNemar’s test when the number of modalities is equal to 2).
License: MIT + file LICENSE
URL: https://github.com/seungjae2525/MRMCbinary
BugReports: https://github.com/seungjae2525/MRMCbinary/issues
Depends: R (>= 4.2.0)
Imports: DescTools, stats, survival
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2025-01-31 04:45:19 UTC; seung
Author: Seungjae Lee [aut, cre] , Woojoo Lee [aut]
Maintainer: Seungjae Lee <seungjae2525@gmail.com>
Repository: CRAN
Date/Publication: 2025-01-31 15:40:08 UTC

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New package ggsurveillance with initial version 0.1.1
Package: ggsurveillance
Title: Tools and 'ggplot2' Extensions for Infectious Disease Surveillance and Outbreak Investigation
Version: 0.1.1
Description: Create epicurves or epigantt charts in 'ggplot2'. Prepare data for visualisation or other reporting for infectious disease surveillance and outbreak investigation. Includes functions to solve date based transformations for common reporting tasks, like (A) seasonal date alignment for respiratory disease surveillance, (B) date-based case binning based on specified time intervals like isoweek, epiweek, month and more, (C) automated detection and marking of the new year based on the date/datetime axis of the 'ggplot2'. An introduction on how to use epicurves can be found on the US CDC website (2012, <https://www.cdc.gov/training/quicklearns/epimode/index.html>).
License: GPL (>= 3)
URL: https://ggsurveillance.biostats.dev, https://github.com/biostats-dev/ggsurveillance
BugReports: https://github.com/biostats-dev/ggsurveillance/issues
Depends: R (>= 4.1.0)
Imports: cli, dplyr, forcats, ggplot2, glue, ISOweek, lubridate, rlang, scales, stringr, tidyr, tidyselect, tsibble
Suggests: Hmisc, knitr, outbreaks, rmarkdown, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-GB
LazyData: true
NeedsCompilation: no
Packaged: 2025-01-31 08:54:46 UTC; Alex
Author: Alexander Bartel [aut, cre]
Maintainer: Alexander Bartel <alexander.bartel@fu-berlin.de>
Repository: CRAN
Date/Publication: 2025-01-31 15:50:05 UTC

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New package zigg with initial version 0.0.1
Package: zigg
Title: Lightweight Interfaces to the 'Ziggurat' Pseudo Random Number Generator
Version: 0.0.1
Date: 2025-01-30
Description: The 'Ziggurat' pseudo-random number generator (or PRNG), introduced by Marsaglia and Tsang (2000, <doi:10.18637/jss.v005.i08>) and further improved by Leong et al (2005, <doi:10.18637/jss.v012.i07>), offers a lightweight and very fast PRNG for the normal, exponential, and uniform distributions. It is provided here in a small zero-dependency package. It can be used from R as well as from 'C/C++' code in other packages as is demonstrated by four included sample packages using four distinct methods to use the PRNG presented here in client package. The implementation is influenced by our package 'RcppZiggurat' which offers a comparison among multiple alternative implementations but presented here in a lighter-weight implementation that is easier to use by other packages. The PRNGs provided are generally faster than the ones in base R: on our machine, the relative gains for normal, exponential and uniform are on the order of 7.4, 5.2 and 4.7 times faster than base R. However, th [...truncated...]
License: GPL (>= 2)
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2025-01-30 12:58:26 UTC; edd
Author: Dirk Eddelbuettel [aut, cre]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Repository: CRAN
Date/Publication: 2025-01-31 11:20:02 UTC

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New package rmonocypher with initial version 0.1.8
Package: rmonocypher
Title: Easy Encryption of R Objects using Strong Modern Cryptography
Version: 0.1.8
Maintainer: Mike Cheng <mikefc@coolbutuseless.com>
Description: Encrypt R objects to a raw vector or file using modern cryptographic techniques. Password-based key derivation is with 'Argon2' (<https://en.wikipedia.org/wiki/Argon2>). Objects are serialized and then encrypted using 'XChaCha20-Poly1305' (<https://en.wikipedia.org/wiki/ChaCha20-Poly1305>) which follows RFC 8439 for authenticated encryption (<https://en.wikipedia.org/wiki/Authenticated_encryption>). Cryptographic functions are provided by the included 'monocypher' 'C' library (<https://monocypher.org>).
URL: https://github.com/coolbutuseless/rmonocypher
BugReports: https://github.com/coolbutuseless/rmonocypher/issues
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 3.4.0)
Copyright: This package includes the 'monocypher' library written by Loup Vaillant, Michael Savage and Fabio Scotomi. This library is included under its CC-0 license. See file 'inst/LICENSE-monocypher.md' for detailed licensing information.
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-01-30 10:03:19 UTC; mike
Author: Mike Cheng [aut, cre, cph], Loup Vaillant [aut, cph] , Michael Savage [aut, cph] , Fabio Scotomi [aut, cph]
Repository: CRAN
Date/Publication: 2025-01-31 11:10:02 UTC

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New package forgts with initial version 0.0.1
Package: forgts
Title: Convert Formatted Spreadsheets to Presentation-Ready Display Tables
Version: 0.0.1
Description: Reads cell contents plus formatting from a spreadsheet file and creates an editable 'gt' object with the same data and formatting. Supports the most commonly-used cell and text styles including colors, fills, font weights and decorations, and borders.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: dplyr, gt, purrr, readxl, rlang, tibble, tidyr, tidyxl
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
URL: https://github.com/luisDVA/forgts, https://luisdva.github.io/forgts/
BugReports: https://github.com/luisDVA/forgts/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-01-30 17:54:16 UTC; luisd
Author: Luis D. Verde Arregoitia [aut, cre, cph]
Maintainer: Luis D. Verde Arregoitia <luis@liomys.mx>
Repository: CRAN
Date/Publication: 2025-01-31 11:40:04 UTC

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New package DDPstar with initial version 1.0-1
Package: DDPstar
Title: Density Regression via Dirichlet Process Mixtures of Normal Structured Additive Regression Models
Version: 1.0-1
Date: 2025-01-30
Imports: stats, grDevices, graphics, splines, moments, Matrix, parallel, MASS
Depends: R (>= 3.5.0)
Description: Implements a flexible, versatile, and computationally tractable model for density regression based on a single-weights dependent Dirichlet process mixture of normal distributions model for univariate continuous responses. The model assumes an additive structure for the mean of each mixture component and the effects of continuous covariates are captured through smooth nonlinear functions. The key components of our modelling approach are penalised B-splines and their bivariate tensor product extension. The proposed method can also easily deal with parametric effects of categorical covariates, linear effects of continuous covariates, interactions between categorical and/or continuous covariates, varying coefficient terms, and random effects. Please see Rodriguez-Alvarez, Inacio et al. (2025) for more details.
License: GPL
NeedsCompilation: no
Packaged: 2025-01-30 11:41:24 UTC; mrodriguez
Author: Maria Xose Rodriguez-Alvarez [aut, cre] , Vanda Inacio [aut]
Maintainer: Maria Xose Rodriguez-Alvarez <mxrodriguez@uvigo.gal>
Repository: CRAN
Date/Publication: 2025-01-31 11:10:09 UTC

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New package compdb with initial version 0.0.1
Package: compdb
Title: Generate Compilation Database for Use with 'Clang' Tools
Version: 0.0.1
Description: Many modern C/C++ development tools in the 'clang' toolchain, such as 'clang-tidy' or 'clangd', rely on the presence of a compilation database in JSON format <https://clang.llvm.org/docs/JSONCompilationDatabase.html>. This package temporarily injects additional build flags into the R build process to generate such a compilation database.
License: MIT + file LICENSE
Language: en-US
Encoding: UTF-8
OS_type: unix
SystemRequirements: Clang >= 5.0
Imports: tools, callr, cli, pkgbuild, utils, withr
URL: https://github.com/cyianor/r-compdb
BugReports: https://github.com/cyianor/r-compdb/issues
Suggests: fs, jsonlite, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-01-30 10:13:09 UTC; felixheld
Author: Felix Held [aut, cre]
Maintainer: Felix Held <felix.held@gmail.com>
Repository: CRAN
Date/Publication: 2025-01-31 11:10:06 UTC

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New package YEAB with initial version 1.0.6
Package: YEAB
Title: Analyze Data from Analysis of Behavior Experiments
Version: 1.0.6
Description: Analyze data from behavioral experiments conducted using 'MED-PC' software developed by Med Associates Inc. Includes functions to fit exponential and hyperbolic models for delay discounting tasks, exponential mixtures for inter-response times, and Gaussian plus ramp models for peak procedure data, among others. For more details, refer to Alcala et al. (2023) <doi:10.31234/osf.io/8aq2j>.
Encoding: UTF-8
Imports: cluster, doParallel, data.table, dplyr, FNN, foreach, ggplot2, boot, grid, gridExtra, infotheo, ks, magrittr, minpack.lm, Polychrome, scales, sfsmisc, MASS, KernSmooth, zoo, usethis, stats, utils
Depends: R (>= 3.5.0)
License: GPL (>= 3)
Author: Emmanuel Alcala [aut, cre], Rodrigo Sosa [aut], Victor Reyes [aut]
Maintainer: Emmanuel Alcala <jealcalat@gmail.com>
Date: 2025-01-23
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2025-01-29 19:10:08 UTC; jealcalat
Repository: CRAN
Date/Publication: 2025-01-31 11:00:14 UTC

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New package survNMA with initial version 1.1-1
Package: survNMA
Title: Network Meta-Analysis Combining Survival and Count Outcomes
Version: 1.1-1
Date: 2025-01-30
Maintainer: Hisashi Noma <noma@ism.ac.jp>
Description: Network meta-analysis for survival outcome data often involves several studies only involve dichotomized outcomes (e.g., the numbers of event and sample sizes of individual arms). To combine these different outcome data, Woods et al. (2010) <doi:10.1186/1471-2288-10-54> proposed a Bayesian approach using complicated hierarchical models. Besides, frequentist approaches have been alternative standard methods for the statistical analyses of network meta-analysis, and the methodology has been well established. We proposed an easy-to-implement method for the network meta-analysis based on the frequentist framework in Noma and Maruo (2025) <doi:10.1101/2025.01.23.25321051>. This package involves some convenient functions to implement the simple synthesis method.
URL: https://doi.org/10.1101/2025.01.23.25321051
Depends: R (>= 3.5.0)
Imports: stats, netmeta
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2025-01-30 07:22:27 UTC; Hisashi
Author: Hisashi Noma [aut, cre]
Repository: CRAN
Date/Publication: 2025-01-31 11:00:02 UTC

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New package fkbma with initial version 0.1.0
Package: fkbma
Title: Free Knot-Bayesian Model Averaging
Version: 0.1.0
Maintainer: Lara Maleyeff <lara.maleyeff@mcgill.ca>
Description: Analysis of Bayesian adaptive enrichment clinical trial using Free-Knot Bayesian Model Averaging (FK-BMA) method of Maleyeff et al. (2024) for Gaussian data. Maleyeff, L., Golchi, S., Moodie, E. E. M., & Hudson, M. (2024) "An adaptive enrichment design using Bayesian model averaging for selection and threshold-identification of predictive variables" <doi:10.1093/biomtc/ujae141>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: rstan, matrixStats, splines, dplyr, coda, MASS, ggplot2, cowplot, rlang
Suggests: testthat (>= 3.0.0)
Depends: R (>= 3.5)
NeedsCompilation: no
Packaged: 2025-01-29 20:34:44 UTC; laramaleyeff
Author: Lara Maleyeff [aut, cre], Shirin Golchi [aut], Erica E. M. Moodie [aut]
Repository: CRAN
Date/Publication: 2025-01-31 10:50:02 UTC

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New package connectcreds with initial version 0.1.0
Package: connectcreds
Title: Manage 'OAuth' Credentials from 'Posit Connect'
Version: 0.1.0
Description: A toolkit for making use of credentials mediated by 'Posit Connect'. It handles the details of communicating with the Connect API correctly, 'OAuth' token caching, and refresh behaviour.
License: MIT + file LICENSE
Imports: cli, httr2 (>= 1.1.0), rlang (>= 1.1.0)
Suggests: testthat (>= 3.0.0), withr
Encoding: UTF-8
URL: https://github.com/posit-dev/connectcreds
BugReports: https://github.com/posit-dev/connectcreds/issues
NeedsCompilation: no
Packaged: 2025-01-30 02:24:37 UTC; aaron
Author: Aaron Jacobs [aut, cre], Posit Software, PBC [cph, fnd]
Maintainer: Aaron Jacobs <aaron.jacobs@posit.co>
Repository: CRAN
Date/Publication: 2025-01-31 11:00:11 UTC

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New package stochvolTMB with initial version 0.3.0
Package: stochvolTMB
Title: Likelihood Estimation of Stochastic Volatility Models
Version: 0.3.0
Date: 2025-01-29
Description: Parameter estimation for stochastic volatility models using maximum likelihood. The latent log-volatility is integrated out of the likelihood using the Laplace approximation. The models are fitted via 'TMB' (Template Model Builder) (Kristensen, Nielsen, Berg, Skaug, and Bell (2016) <doi:10.18637/jss.v070.i05>).
License: GPL-3
Depends: R (>= 3.5.0)
Imports: TMB, ggplot2, sn, stats, data.table, MASS
LinkingTo: RcppEigen, TMB
Suggests: testthat (>= 2.1.0), shiny, knitr, rmarkdown, stochvol
URL: https://github.com/JensWahl/stochvolTMB
BugReports: https://github.com/JensWahl/stochvolTMB/issues
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2025-01-31 06:56:05 UTC; jens
Author: Jens Wahl [aut, cre]
Maintainer: Jens Wahl <jens.c.wahl@gmail.com>
Repository: CRAN
Date/Publication: 2025-01-31 09:30:02 UTC

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Thu, 30 Jan 2025

New package jobqueue with initial version 1.0.1
Package: jobqueue
Title: Run Interruptible Code Asynchronously
Version: 1.0.1
Date: 2025-01-28
Description: Takes an R expression and returns a Job object with a $stop() method which can be called to terminate the background job. Also provides timeouts and other mechanisms for automatically terminating a background job. The result of the expression is available synchronously via $result or asynchronously with callbacks or through the 'promises' package framework.
URL: https://cmmr.github.io/jobqueue/, https://github.com/cmmr/jobqueue
BugReports: https://github.com/cmmr/jobqueue/issues
License: MIT + file LICENSE
Encoding: UTF-8
VignetteBuilder: knitr
Depends: R (>= 4.2.0)
Imports: cli, later, magrittr, parallelly, promises, ps, R6, rlang, semaphore, utils
Suggests: glue, knitr, rmarkdown, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2025-01-29 21:36:05 UTC; Daniel
Author: Daniel P. Smith [aut, cre] , Alkek Center for Metagenomics and Microbiome Research [cph, fnd]
Maintainer: Daniel P. Smith <dansmith01@gmail.com>
Repository: CRAN
Date/Publication: 2025-01-30 19:20:02 UTC

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New package hrf with initial version 0.1.3
Package: hrf
Title: Hemodynamic Response Function
Version: 0.1.3
Maintainer: Amanda Mejia <mandy.mejia@gmail.com>
Description: Computes the hemodynamic response function (HRF) for task functional magnetic resonance imaging (fMRI) data. Also includes functions for constructing a design matrix from task fMRI event timings, and for comparing multiple design matrices in a general linear model (GLM). A wrapper function is provided for GLM analysis of CIFTI-format data. Lastly, there are supporting functions which provide visual summaries of the HRFs and design matrices.
License: GPL-3
URL: https://github.com/mandymejia/hrf
BugReports: https://github.com/mandymejia/hrf/issues
Depends: R (>= 3.6.0)
Imports: car, ciftiTools (>= 0.15.0), fMRItools, Matrix, matrixStats, stats
Suggests: covr, ggplot2, knitr, rmarkdown, testthat (>= 3.0.0), tidyr, spelling
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2025-01-29 20:47:30 UTC; ddpham
Author: Amanda Mejia [aut, cre], Damon Pham [ctb] , David Bolin [ctb], Yu Yue [ctb], Daniel Spencer [aut] , Sarah Ryan [ctb]
Repository: CRAN
Date/Publication: 2025-01-30 19:10:02 UTC

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