CRANberries

Fri, 13 Dec 2024

New package WARDEN with initial version 0.99.1
Package: WARDEN
Title: Workflows for Health Technology Assessments in R using Discrete EveNts
Version: 0.99.1
Description: Toolkit to support and perform discrete event simulations without resource constraints in the context of health technology assessments (HTA). The package focuses on cost-effectiveness modelling and aims to be submission-ready to relevant HTA bodies in alignment with 'NICE TSD 15' <https://www.sheffield.ac.uk/nice-dsu/tsds/patient-level-simulation>. More details an examples can be found in the package website <https://jsanchezalv.github.io/WARDEN/>.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Suggests: dplyr, ggplot2, knitr, rmarkdown, kableExtra, DiagrammeR, testthat (>= 3.0.0), survminer, survival
Imports: purrr, data.table, foreach, future, doFuture, stats, utils, flexsurv, MASS, zoo, progressr, magrittr, tidyr
VignetteBuilder: knitr
Depends: R (>= 2.10)
URL: https://jsanchezalv.github.io/WARDEN/
NeedsCompilation: no
Packaged: 2024-12-12 15:05:06 UTC; Javier
Author: Javier Sanchez Alvarez [aut, cre], Gabriel Lemyre [ctb], Valerie Aponte Ribero [ctb]
Maintainer: Javier Sanchez Alvarez <javiersanchezeco@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-13 16:40:13 UTC

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New package GHCNr with initial version 0.8.0
Package: GHCNr
Title: Download Weather Station Data from GHCN
Version: 0.8.0
Description: The goal of 'GHCNr' is to provide a fast and friendly interface with the Global Historical Climatology Network daily (GHCNd) database, which contains daily summaries of weather station data worldwide (<https://www.ncei.noaa.gov/products/land-based-station/global-historical-climatology-network-daily>). GHCNd is accessed through the web API <https://www.ncei.noaa.gov/access/services/data/v1>. 'GHCNr' main functionalities consist of downloading data from GHCNd, filter it, and to aggregate it at monthly and annual scales.
License: MIT + file LICENSE
Imports: tibble, dplyr, tidyr, readr, tidyselect, httr2, terra, utils, rlang
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Encoding: UTF-8
Depends: R (>= 2.10)
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-12 12:23:38 UTC; squirry
Author: Emilio Berti [aut, cre]
Maintainer: Emilio Berti <emilio.berti@idiv.de>
Repository: CRAN
Date/Publication: 2024-12-13 16:40:17 UTC

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New package dscoreMSM with initial version 0.1.0
Package: dscoreMSM
Title: Survival Proximity Score Matching in Multi-State Survival Model
Version: 0.1.0
Maintainer: Atanu Bhattacharjee <atanustat@gmail.com>
Imports: rjags, stats, timeROC, ggplot2, survival, mstate
Description: Implements survival proximity score matching in multi-state survival models. Includes tools for simulating survival data and estimating transition-specific coxph models with frailty terms. The primary methodological work on multistate censored data modeling using propensity score matching has been published by Bhattacharjee et al.(2024) <doi:10.1038/s41598-024-54149-y>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-12 16:29:27 UTC; atanubhattacharjee
Author: Atanu Bhattacharjee [aut, cre, ctb], Bhrigu Kumar Rajbongshi [aut, ctb], Gajendra K Vishwakarma [aut, ctb]
Repository: CRAN
Date/Publication: 2024-12-13 16:40:02 UTC

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New package datastat with initial version 0.1.0
Package: datastat
Title: Dataset for Statistical Analysis
Version: 0.1.0
Language: en-US
Maintainer: Atchanut Rattanalertnusorn <atchanut_r@rmutt.ac.th>
Description: Data are essential in statistical analysis. This data package consists of four datasets for descriptive statistics, two datasets for statistical hypothesis testing, and two datasets for regression analysis. All of the datasets are based on Rattanalertnusorn, A. (2024) <https://www.researchgate.net/publication/371944275_porkaermxarlaeakarprayuktchingan_R_and_its_applications>.
License: CC0
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-12-12 11:39:10 UTC; User
Author: Atchanut Rattanalertnusorn [aut, cre]
Repository: CRAN
Date/Publication: 2024-12-13 16:40:05 UTC

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New package bridgr with initial version 0.1.1
Package: bridgr
Title: Bridging Data Frequencies for Timely Economic Forecasts
Version: 0.1.1
Maintainer: Marc Burri <marc.burri91@gmail.com>
Description: Implements bridge models for nowcasting and forecasting macroeconomic variables by linking high-frequency indicator variables (e.g., monthly data) to low-frequency target variables (e.g., quarterly GDP). Simplifies forecasting and aggregating indicator variables to match the target frequency, enabling timely predictions ahead of official data releases. For more on bridge models, see Baffigi, A., Golinelli, R., & Parigi, G. (2004) <doi:10.1016/S0169-2070(03)00067-0>, Burri (2023) <https://www5.unine.ch/RePEc/ftp/irn/pdfs/WP23-02.pdf> or Schumacher (2016) <doi:10.1016/j.ijforecast.2015.07.004>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: magrittr, dplyr, rlang, generics, tsbox, lubridate, forecast
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 3.5)
URL: https://github.com/marcburri/bridgr, https://marcburri.github.io/bridgr/
BugReports: https://github.com/marcburri/bridgr/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-12 16:16:47 UTC; marcburri
Author: Marc Burri [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-12-13 16:40:09 UTC

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New package spphpr with initial version 0.1.4
Package: spphpr
Title: Spring Phenological Prediction
Version: 0.1.4
Date: 2024-12-12
Author: Peijian Shi [aut, cre], Zhenghong Chen [aut], Brady K. Quinn [aut]
Maintainer: Peijian Shi <pjshi@njfu.edu.cn>
Description: Predicts the occurrence times (in day of year) of spring phenological events. Three methods, including the accumulated degree days (ADD) method, the accumulated days transferred to a standardized temperature (ADTS) method, and the accumulated developmental progress (ADP) method, were used. See Shi et al. (2017a) <doi:10.1016/j.agrformet.2017.04.001> and Shi et al. (2017b) <doi:10.1093/aesa/sax063> for details.
Depends: R (>= 4.2.0)
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2024-12-12 07:14:19 UTC; PEIJIAN SHI
Repository: CRAN
Date/Publication: 2024-12-13 09:10:02 UTC

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New package mintyr with initial version 0.1.0
Package: mintyr
Title: Streamlined Data Processing Tools for Genomic Selection
Version: 0.1.0
Description: A toolkit for genomic selection in animal breeding with emphasis on multi-breed and multi-trait nested grouping operations. Streamlines iterative analysis workflows when working with 'ASReml-R' package. Includes utility functions for phenotypic data processing commonly used by animal breeders.
License: MIT + file LICENSE
URL: https://tony2015116.github.io/mintyr/
BugReports: https://github.com/tony2015116/mintyr/issues
Depends: R (>= 3.5.0)
Imports: arrow, data.table, dplyr, parallel, purrr, readxl, rlang, rsample, rstatix, stats, tibble, utils
Suggests: knitr, rmarkdown, testthat, tidyr, tools
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-12 01:59:42 UTC; Dell
Author: Guo Meng [aut, cre], Guo Meng [cph]
Maintainer: Guo Meng <tony2015116@163.com>
Repository: CRAN
Date/Publication: 2024-12-13 09:10:06 UTC

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New package DBCVindex with initial version 1.1
Encoding: UTF-8
Package: DBCVindex
Title: Calculates the Density-Based Clustering Validation Index (DBCV) Index
Version: 1.1
Description: A metric called 'Density-Based Clustering Validation index' (DBCV) index to evaluate clustering results, following the <https://github.com/FelSiq/DBCV> 'Python' implementation by Felipe Alves Siqueira. Original 'DBCV' index article: Moulavi, D., Jaskowiak, P. A., Campello, R. J., Zimek, A., & Sander, J. (2014, April). "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
Imports: pacman, Matrix, stats
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-12 11:03:55 UTC; davide
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Repository: CRAN
Date/Publication: 2024-12-13 09:30:02 UTC

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New package cercospoRa with initial version 0.0.1
Package: cercospoRa
Title: Process Based Epidemiological Model for Cercospora Leaf Spot of Sugar Beet
Version: 0.0.1
Description: Estimates sugar beet canopy closure with remotely sensed leaf area index and estimates when action might be needed to protect the crop from a Leaf Spot epidemic with a negative prognosis model based on published models.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), remotes, stats, spelling
Imports: data.table, lubridate, sf, terra, minpack.lm, circular
VignetteBuilder: knitr
Depends: R (>= 4.0.0)
LazyData: true
URL: https://paul.melloy.com.au/cercospoRa/, https://github.com/PaulMelloy/cercospoRa, http://paul.melloy.com.au/cercospoRa/
BugReports: https://github.com/PaulMelloy/cercospoRa/issues
NeedsCompilation: no
Packaged: 2024-12-12 10:11:12 UTC; paul
Author: Paul Melloy [aut, cre, trl, cph] , Rene Heim [aut, cph] , Nathan Okole [aut, ctb, cph] , Facundo Ramon Ispizua Yamati [dtc, ctb] , Anne-Katrin Mahlein [ctb, cph]
Maintainer: Paul Melloy <paul@melloy.com.au>
Repository: CRAN
Date/Publication: 2024-12-13 09:20:02 UTC

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New package ideanet with initial version 1.0.0
Package: ideanet
Title: Integrating Data Exchange and Analysis for Networks ('ideanet')
Version: 1.0.0
Date: 2024-12-06
Description: A suite of convenient tools for social network analysis geared toward students, entry-level users, and non-expert practitioners. ‘ideanet’ features unique functions for the processing and measurement of sociocentric and egocentric network data. These functions automatically generate node- and system-level measures commonly used in the analysis of these types of networks. Outputs from these functions maximize the ability of novice users to employ network measurements in further analyses while making all users less prone to common data analytic errors. Additionally, ‘ideanet’ features an R Shiny graphic user interface that allows novices to explore network data with minimal need for coding.
Maintainer: Tom Wolff <tom.wolff@northwestern.edu>
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Imports: CliquePercolation, cluster, colorspace, concorR, cowplot, data.table, dplyr, forcats, ggplot2, grDevices, gridGraphics, igraph, intergraph, jsonlite, linkcomm, magrittr, Matrix, methods, moments, network, readxl, rlang, RSpectra, shiny, sna, stringr, tibble, tidyr, tidyselect
Suggests: DT, devtools, egor, ergm, shinythemes, shinyWidgets, knitr, rmarkdown, shinycssloaders, visNetwork
Depends: R (>= 3.5.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-11 18:25:01 UTC; wms1212
Author: Tom Wolff [aut, cre] , Jonathan Howard Morgan [aut] , Gabriel Varela [aut] , Kieran Lele [aut], Ethan Bhojani [aut], Emily Heraty [aut], Dana Pasquale [aut] , Peter Mucha [aut] , James Moody [aut]
Repository: CRAN
Date/Publication: 2024-12-13 09:00:02 UTC

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Thu, 12 Dec 2024

New package pprof with initial version 1.0.1
Package: pprof
Title: Modeling, Standardization and Testing for Provider Profiling
Version: 1.0.1
Date: 2024-11-18
Description: Implements linear and generalized linear models for provider profiling, incorporating both fixed and random effects. For large-scale providers, the linear profiled-based method and the SerBIN method for binary data reduce the computational burden. Provides post-modeling features, such as indirect and direct standardization measures, hypothesis testing, confidence intervals, and post-estimation visualization. For more information, see Wu et al. (2022) <doi:10.1002/sim.9387>.
License: MIT + file LICENSE
LazyData: true
Imports: Rcpp, RcppParallel, stats, caret, olsrr, pROC, poibin, dplyr, ggplot2, Matrix, lme4, magrittr, scales, tibble, rlang
LinkingTo: Rcpp, RcppArmadillo, RcppParallel
Depends: R (>= 4.1.0)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
URL: https://github.com/UM-KevinHe/pprof
Encoding: UTF-8
SystemRequirements: GNU make
NeedsCompilation: yes
Packaged: 2024-12-11 16:15:37 UTC; emily
Author: Xiaohan Liu [aut, cre], Lingfeng Luo [aut], Yubo Shao [aut], Xiangeng Fang [aut], Wenbo Wu [aut], Kevin He [aut]
Maintainer: Xiaohan Liu <xhliuu@umich.edu>
Repository: CRAN
Date/Publication: 2024-12-12 15:10:02 UTC

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New package orderanalyzer with initial version 1.0.0
Package: orderanalyzer
Title: Extracting Order Position Tables from PDF-Based Order Documents
Version: 1.0.0
Date: 2024-12-11
Maintainer: Michael Scholz <michael.scholz@th-deg.de>
Description: Functions for extracting text and tables from PDF-based order documents. It provides an n-gram-based approach for identifying the language of an order document. It furthermore uses R-package 'pdftools' to extract the text from an order document. In the case that the PDF document is only including an image (because it is scanned document), R package 'tesseract' is used for OCR. Furthermore, the package provides functionality for identifying and extracting order position tables in order documents based on a clustering approach.
License: GPL-3
SystemRequirements: Tesseract >= 5.0.0, libtesseract-dev (deb), tesseract-devel (rpm), libleptonica-dev (deb), leptonica-devel (rpm), tesseract-ocr-eng (deb), libpoppler-cpp-dev (deb), poppler-cpp-devel (rpm), poppler-data (rpm/deb), libxml2-dev (deb), libxml2-devel (rpm)
Depends: R(>= 4.3.0), tidyselect
Imports: data.table, dplyr, matrixcalc, quanteda, rlist, stringr, tibble, tidyr, utils, purrr, digest, lubridate
Suggests: pdftools, tesseract, xml2
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-11 16:46:01 UTC; mscholz
Author: Michael Scholz [cre, aut], Joerg Bauer [aut]
Repository: CRAN
Date/Publication: 2024-12-12 15:20:02 UTC

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New package moRphomenses with initial version 1.0.2
Package: moRphomenses
Title: Geometric Morphometric Tools to Align, Scale, and Compare "Shape" of Menstrual Cycle Hormones
Version: 1.0.2
Description: Mitteroecker & Gunz (2009) <doi:10.1007/s11692-009-9055-x> describe how geometric morphometric methods allow researchers to quantify the size and shape of physical biological structures. We provide tools to extend geometric morphometric principles to the study of non-physical structures, hormone profiles, as outlined in Ehrlich et al (2021) <doi:10.1002/ajpa.24514>. Easily transform daily measures into multivariate landmark-based data. Includes custom functions to apply multivariate methods for data exploration as well as hypothesis testing. Also includes 'shiny' web app to streamline data exploration. Developed to study menstrual cycle hormones but functions have been generalized and should be applicable to any biomarker over any time period.
License: GPL (>= 3.0)
URL: <https://github.com/ClancyLabUIUC/moRphomenses>
Depends: R (>= 2.10)
Imports: stats, graphics, grDevices, utils
Encoding: UTF-8
LazyData: true
Suggests: dendextend, geomorph, cluster, shiny
NeedsCompilation: no
Packaged: 2024-12-11 16:00:38 UTC; ehrli097
Author: Daniel Ehrlich [aut, cre]
Maintainer: Daniel Ehrlich <dan.ehrlich.e@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-12 15:10:07 UTC

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New package ConjointChecks with initial version 0.2.0
Package: ConjointChecks
Title: Implementation of a Method to Check the Cancellation Axioms of Additive Conjoint Measurement
Version: 0.2.0
Date: 2024-12-02
Maintainer: Ben Domingue <ben.domingue@gmail.com>
Depends: R (>= 4.3), parallel, methods,
Suggests:
Description: Implementation of a procedure---Domingue (2012) <https://eric.ed.gov/?id=ED548657>, Domingue (2014) <doi:10.1007/s11336-013-9342-4>; see also Karabatsos (2001) <https://psycnet.apa.org/record/2002-01665-005> and Kyngdon (2011) <doi:10.1348/2044-8317.002004>---to test the single and double cancellation axioms of conjoint measure in data that is dichotomously coded and measured with error.
URL: https://github.com/ben-domingue/ConjointChecks
LazyData: Yes
Imports: Rcpp
LinkingTo: Rcpp
License: GPL (>= 2)
NeedsCompilation: yes
Packaged: 2024-12-11 16:40:37 UTC; bdomingu
Author: Ben Domingue [aut, cre], Liam Fox [ctb], Vithor Franco [ctb]
Repository: CRAN
Date/Publication: 2024-12-12 15:20:06 UTC

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New package TauStar with initial version 1.1.7
Package: TauStar
Title: Efficient Computation and Testing of the Bergsma-Dassios Sign Covariance
Version: 1.1.7
Date: 2024-12-11
Description: Computes the t* statistic corresponding to the tau* population coefficient introduced by Bergsma and Dassios (2014) <DOI:10.3150/13-BEJ514> and does so in O(n^2) time following the algorithm of Heller and Heller (2016) <DOI:10.48550/arXiv.1605.08732> building off of the work of Weihs, Drton, and Leung (2016) <DOI:10.1007/s00180-015-0639-x>. Also allows for independence testing using the asymptotic distribution of t* as described by Nandy, Weihs, and Drton (2016) <DOI:10.1214/16-EJS1166>.
License: GPL (>= 3)
Imports: Rcpp (>= 1.0.1)
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2024-12-11 13:27:31 UTC; karch
Author: Luca Weihs [aut], Emin Martinian [ctb] , Julian D. Karch [cre]
Maintainer: Julian D. Karch <j.d.karch@fsw.leidenuniv.nl>
Repository: CRAN
Date/Publication: 2024-12-12 15:00:02 UTC

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New package mtscr with initial version 1.0.2
Package: mtscr
Title: Multidimensional Top Scoring for Creativity Research
Version: 1.0.2
Description: Implementation of Multidimensional Top Scoring method for creativity assessment proposed in Boris Forthmann, Maciej Karwowski, Roger E. Beaty (2023) <doi:10.1037/aca0000571>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
URL: https://github.com/jakub-jedrusiak/mtscr
BugReports: https://github.com/jakub-jedrusiak/mtscr/issues
Depends: R (>= 4.1.0)
Imports: broom.mixed, cli, dplyr (>= 1.1.0), glmmTMB, glue, lifecycle, methods, purrr, readr, rlang (>= 0.4.11), stringr, tibble
Suggests: shiny, covr, datamods, DT, roxygen2, shinyWidgets, testthat (>= 3.0.0), withr, writexl
NeedsCompilation: no
Packaged: 2024-12-12 10:01:29 UTC; jakub
Author: Jakub Jedrusiak [aut, cre, cph] , Boris Forthmann [aut, rev] , Roger E. Beaty [aut] , Maciej Karwowski [aut]
Maintainer: Jakub Jedrusiak <jakub.jedrusiak2@uwr.edu.pl>
Repository: CRAN
Date/Publication: 2024-12-12 10:20:02 UTC

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New package MDFS with initial version 1.5.5
Package: MDFS
Title: MultiDimensional Feature Selection
Version: 1.5.5
Date: 2024-12-11
URL: https://www.mdfs.it/
Description: Functions for MultiDimensional Feature Selection (MDFS): calculating multidimensional information gains, scoring variables, finding important variables, plotting selection results. This package includes an optional CUDA implementation that speeds up information gain calculation using NVIDIA GPGPUs. R. Piliszek et al. (2019) <doi:10.32614/RJ-2019-019>.
Depends: R (>= 3.4.0)
License: GPL-3
SystemRequirements: C++17
NeedsCompilation: yes
Encoding: UTF-8
LazyData: true
Packaged: 2024-12-11 19:31:00 UTC; radek
Author: Radoslaw Piliszek [aut, cre], Krzysztof Mnich [aut], Pawel Tabaszewski [aut], Szymon Migacz [aut], Andrzej Sulecki [aut], Witold Remigiusz Rudnicki [aut]
Maintainer: Radoslaw Piliszek <radek@piliszek.it>
Repository: CRAN
Date/Publication: 2024-12-12 08:30:12 UTC

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Wed, 11 Dec 2024

New package TREDesigns with initial version 1.0.0
Package: TREDesigns
Title: Ternary Residual Effect Designs
Version: 1.0.0
Maintainer: Ashutosh Dalal <ashutosh.dalal97@gmail.com>
Description: There are some experimental scenarios where each experimental unit receives a sequence of treatments across multiple periods, and treatment effects persist beyond the period of application. It focuses on the construction and calculation of the parametric value of the residual effect designs balanced for carryover effects, also referred to as crossover designs, change-over designs, or repeated measurements designs (Aggarwal and Jha, 2010<doi:10.1080/15598608.2010.10412013>). The primary objective of the package is to generate a new class of Balanced Ternary Residual Effect Designs (BTREDs), balanced for carryover effects tailored explicitly for situations where the number of periods is less than or equal to the number of treatments. In addition, the package provides four new classes of Partially Balanced Ternary Residual Effect Designs (PBTREDs), constructed using incomplete block designs, initial sequences, and rectangular association scheme. In addition, one extra function is in [...truncated...]
Suggests: MASS
License: GPL (>= 2)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-11 09:04:41 UTC; Ashutosh
Author: Akhilesh Jha [aut], Cini Varghese [aut], Seema Jaggi [aut], Mohd Harun [aut], Ashutosh Dalal [aut, cre]
Repository: CRAN
Date/Publication: 2024-12-11 17:10:07 UTC

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New package tna with initial version 0.3.0
Package: tna
Title: Transition Network Analysis (TNA)
Version: 0.3.0
Description: Provides tools for performing Transition Network Analysis (TNA) to study relational dynamics, including functions for building and plotting TNA models, calculating centrality measures, and identifying dominant events and patterns. TNA statistical techniques (e.g., bootstrapping and permutation tests) ensure the reliability of observed insights and confirm that identified dynamics are meaningful. See (Saqr et al., 2024) <doi:10.48550/arXiv.2411.15486> for more details on TNA.
License: MIT + file LICENSE
URL: https://github.com/sonsoleslp/tna/
BugReports: https://github.com/sonsoleslp/tna/issues/
Depends: R (>= 4.1.0)
Imports: checkmate, cli, colorspace, dplyr, ggplot2, graphics, igraph, qgraph, RColorBrewer, rlang, stats, tibble, tidyr
Suggests: gt, knitr, rmarkdown, seqHMM, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-11 10:31:30 UTC; tna
Author: Sonsoles Lopez-Pernas [aut, cre], Santtu Tikka [aut], Mohammed Saqr [aut]
Maintainer: Sonsoles Lopez-Pernas <sonsoles.lopez@uef.fi>
Repository: CRAN
Date/Publication: 2024-12-11 17:10:01 UTC

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New package SaturnCoefficient with initial version 1.2
Package: SaturnCoefficient
Title: Statistical Evaluation of UMAP Dimensionality Reductions
Version: 1.2
Description: A metric expressing the quality of a UMAP layout. This is a package that contains the Saturn_coefficient() function that reads an input matrix, its dimensionality reduction produced by UMAP, and evaluates the quality of this dimensionality reduction by producing a real value in the [0; 1] interval. We call this real value Saturn coefficient. A higher value means better dimensionality reduction; a lower value means worse dimensionality reduction. Reference: Davide Chicco et al. "The Saturn coefficient for evaluating the quality of UMAP dimensionality reduction results" (2025, in preparation).
License: GPL-3
URL: https://github.com/davidechicco/SaturnCoefficient
BugReports: https://github.com/davidechicco/SaturnCoefficient/issues
Depends: R (>= 4.0.0)
Imports: stats, MatrixCorrelation, ProjectionBasedClustering, umap
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-11 08:44:51 UTC; davide
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Repository: CRAN
Date/Publication: 2024-12-11 17:10:10 UTC

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New package wordvector with initial version 0.1.0
Package: wordvector
Title: Word and Document Vector Models
Version: 0.1.0
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Description: Create dense vector representation of words and documents using 'quanteda'. Currently implements Word2vec (Mikolov et al., 2013) <doi:10.48550/arXiv.1310.4546> and Latent Semantic Analysis (Deerwester et al., 1990) <doi:10.1002/(SICI)1097-4571(199009)41:6%3C391::AID-ASI1%3E3.0.CO;2-9>.
URL: https://github.com/koheiw/wordvector
License: Apache License (>= 2.0)
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: quanteda (>= 4.1.0), methods, stringi, Matrix, proxyC, RSpectra, irlba, rsvd
Suggests: testthat, word2vec, spelling
LinkingTo: Rcpp, quanteda
Language: en-US
LazyData: true
NeedsCompilation: yes
Packaged: 2024-12-11 00:47:52 UTC; watan
Author: Kohei Watanabe [aut, cre, cph] , Jan Wijffels [aut] , BNOSAC [cph] , Max Fomichev [ctb, cph]
Repository: CRAN
Date/Publication: 2024-12-11 17:00:02 UTC

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New package SunCalcMeeus with initial version 0.1.1
Package: SunCalcMeeus
Title: Sun Position and Daylight Calculations
Version: 0.1.1
Date: 2024-12-09
Description: Compute the position of the sun, and local solar time using Meeus' formulae. Compute day and/or night length using different twilight definitions or arbitrary sun elevation angles. This package is part of the 'r4photobiology' suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>. Algorithms from Meeus (1998, ISBN:0943396611).
License: GPL (>= 2)
Depends: R (>= 4.0.0)
Imports: stats, tibble (>= 3.1.6), lubridate (>= 1.9.3), dplyr (>= 1.0.9)
Suggests: knitr (>= 1.41), rmarkdown (>= 2.18), testthat (>= 3.2.1), roxygen2 (>= 7.3.0), lutz (>= 0.3.2), covr, spelling
LazyLoad: yes
ByteCompile: true
URL: https://docs.r4photobiology.info/SunCalcMeeus/, https://github.com/aphalo/SunCalcMeeus
BugReports: https://github.com/aphalo/SunCalcMeeus/issues
Encoding: UTF-8
VignetteBuilder: knitr
Language: en-US
NeedsCompilation: no
Packaged: 2024-12-10 16:55:58 UTC; aphalo
Author: Pedro J. Aphalo [aut, cre]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Repository: CRAN
Date/Publication: 2024-12-11 16:10:02 UTC

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New package MAICtools with initial version 0.1.1
Package: MAICtools
Title: Performing Matched-Adjusted Indirect Comparisons (MAIC)
Version: 0.1.1
Author: Xiao Qi [aut, cre]
Maintainer: Xiao Qi <qixiao2024@outlook.com>
Description: A generalised workflow for Matching-Adjusted Indirect Comparison (MAIC) analysis, which supports both anchored and non-anchored MAIC methods. In MAIC, unbiased trial outcome comparison is achieved by weighting the subject-level outcomes of the intervention trial so that the weighted aggregate measures of prognostic or effect-modifying variables match those of the comparator trial. Measurements supported include time-to-event (e.g., overall survival) and binary (e.g., objective tumor response). The method is described in Signorovitch et al. (2010) <doi:10.2165/11538370-000000000-00000> and Signorovitch et al. (2012) <doi:10.1016/j.jval.2012.05.004>.
License: MIT + file LICENSE
Depends: R (>= 3.5.0)
Imports: assertthat (>= 0.2.1), boot (>= 1.3-28), broom (>= 0.7.10), data.table (>= 1.14.0), dplyr (>= 1.0.7), ggplot2 (>= 3.3.5), graphics (>= 4.0.0), grDevices (>= 4.0.0), grid (>= 4.0.0), magrittr (>= 2.0.1), purrr (>= 0.3.4), rlang (>= 0.4.11), stats (>= 4.0.0), stringr (>= 1.4.0), survival (>= 3.2-11), survminer (>= 0.4.9), tibble (>= 3.1.3), tidyr (>= 1.1.3), tidyselect (>= 1.0.0), VIM (>= 6.1.0)
Suggests: haven (>= 2.4.3), testthat (>= 3.0.0), tidyverse (>= 1.3.1)
Encoding: UTF-8
Language: en-US
LazyData: true
Packaged: 2024-12-11 06:20:50 UTC; Xiao_Qi
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2024-12-11 17:00:06 UTC

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New package CropBreeding with initial version 0.1.0
Package: CropBreeding
Title: Stability Analysis in Crop Breeding
Version: 0.1.0
Maintainer: Prity Kumari <psingh2506@gmail.com>
Description: Provides tools for crop breeding analysis including Genetic Coefficient of Variation (GCV), Phenotypic Coefficient of Variation (PCV), heritability, genetic advance calculations, stability analysis using the Eberhart-Russell model, two-way ANOVA for genotype-environment interactions, and Additive Main Effects and Multiplicative Interaction (AMMI) analysis. These tools are developed for crop breeding research and stability evaluation under various environmental conditions. The methods are based on established statistical and biometrical principles. Refer to Eberhart and Russell (1966) <doi:10.2135/cropsci1966.0011183X000600010011x> for stability parameters, Fisher (1935) "The Design of Experiments" <ISBN:9780198522294>, Falconer (1996) "Introduction to Quantitative Genetics" <ISBN:9780582243026>, and Singh and Chaudhary (1985) "Biometrical Methods in Quantitative Genetic Analysis" <ISBN:9788122433764> for foundational methodologies.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: stats, dplyr, metan, rlang
NeedsCompilation: no
Packaged: 2024-12-10 15:15:02 UTC; ASUS
Author: Prity Kumari [aut, cre]
Repository: CRAN
Date/Publication: 2024-12-11 16:40:02 UTC

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New package ADSIHT with initial version 0.1.0
Package: ADSIHT
Title: Adaptive Double Sparse Iterative Hard Thresholding
Version: 0.1.0
Date: 2024-12-5
Maintainer: Yanhang Zhang <zhangyh98@ruc.edu.cn>
Description: Solving the high-dimensional double sparse linear regression via iterative hard thresholding algorithm. For more details, please see Zhang et al. (2024, <DOI:10.48550/arXiv.2305.04182>).
License: GPL (>= 3)
Depends: R (>= 4.1.0)
Imports: Matrix, mvnfast, Rcpp
Suggests: knitr, rmarkdown, testthat
LinkingTo: Rcpp, RcppEigen
Encoding: UTF-8
Language: en-GB
NeedsCompilation: yes
Packaged: 2024-12-11 03:21:08 UTC; Yanhang
Author: Yanhang Zhang [aut, cre], Zhifan Li [aut], Jianxin Yin [aut], Shixiang Liu [aut], Lingren Kong [aut]
Repository: CRAN
Date/Publication: 2024-12-11 17:00:11 UTC

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New package fastPLS with initial version 0.2
Package: fastPLS
Title: A Fast Implementation of Partial Least Square
Version: 0.2
Date: 2024-12-09
Description: An implementation in 'Rcpp' / 'RcppArmadillo' of Partial Least Square algorithms. This package includes other functions to perform the double cross-validation and a fast correlation.
License: GPL-3
Depends: R (>= 2.10.0), Matrix
Imports: Rcpp (>= 0.12.17), methods
LinkingTo: Rcpp, RcppArmadillo, Matrix
Suggests: knitr, rmarkdown
NeedsCompilation: yes
Packaged: 2024-12-10 09:54:19 UTC; user
Author: Stefano Cacciatore [aut, trl, cre] , Dupe Ojo [aut] , Leonardo Tenori [aut] , Alessia Vignoli [aut]
Maintainer: Stefano Cacciatore <stefano.cacciatore@icgeb.org>
Repository: CRAN
Date/Publication: 2024-12-11 15:30:01 UTC

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New package condathis with initial version 0.1.0
Package: condathis
Title: Run Any CLI Tool on a 'Conda' Environment
Version: 0.1.0
Description: Simplifies the execution of command line interface (CLI) tools within isolated and reproducible environments. It enables users to effortlessly manage 'Conda' environments, execute command line tools, handle dependencies, and ensure reproducibility in their data analysis workflows.
License: MIT + file LICENSE
URL: https://github.com/luciorq/condathis
BugReports: https://github.com/luciorq/condathis/issues
Depends: R (>= 4.0)
Imports: cli, fs, jsonlite, processx, rlang, stringr, tibble, tools, utils, withr
Suggests: curl, dplyr, testthat (>= 3.0.0)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-10 17:23:21 UTC; luciorq
Author: Lucio Queiroz [aut, cre, cph] , Claudio Zanettini [aut, ctb]
Maintainer: Lucio Queiroz <luciorqueiroz@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-11 16:00:01 UTC

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New package lmap with initial version 0.1.3
Package: lmap
Title: Logistic Mapping
Version: 0.1.3
Maintainer: Mark de Rooij <rooijm@fsw.leidenuniv.nl>
Description: Set of tools for mapping of categorical response variables based on principal component analysis (pca) and multidimensional unfolding (mdu).
Depends: R (>= 3.5.0), ggplot2, ggrepel, ggforce, fmdu
Imports: nnet, stats, magrittr, dplyr, MASS, Rfast
License: BSD_2_clause + file LICENSE
Encoding: UTF-8
LazyData: TRUE
Author: Mark de Rooij [aut, cre, cph], Frank Busing [aut, cph], Juan Claramunt Gonzalez [aut]
NeedsCompilation: yes
Packaged: 2024-12-09 14:06:47 UTC; prueba
Repository: CRAN
Date/Publication: 2024-12-11 07:50:02 UTC

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New package IRISMustangMetrics with initial version 2.4.7
Package: IRISMustangMetrics
Version: 2.4.7
Title: Statistics and Metrics for Seismic Data
Author: Jonathan Callahan [aut], Rob Casey [aut], Mary Templeton [aut], Gillian Sharer [aut, cre]
Maintainer: Gillian Sharer <gillian.sharer@earthscope.org>
Depends: R (>= 3.2.0), IRISSeismic (>= 1.3.0)
Imports: methods, RCurl, seismicRoll (>= 1.1.4), signal, stringr, XML, stats, pracma, dplyr (>= 0.4.3)
Description: Classes and functions for metrics calculation as part of the 'EarthScope MUSTANG' project. The functionality in this package builds upon the base classes of the 'IRISSeismic' package. Metrics include basic statistics as well as higher level 'health' metrics that can help identify problematic seismometers.
License: GPL (>= 2)
Repository: CRAN
NeedsCompilation: no
Packaged: 2024-12-10 17:56:44 UTC; gilliansharer
Date/Publication: 2024-12-11 07:50:15 UTC

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Tue, 10 Dec 2024

New package TransProR with initial version 0.0.6
Package: TransProR
Title: Analysis and Visualization of Multi-Omics Data
Version: 0.0.6
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, data.table, dplyr, rlang, tibble, sva, DESeq2, 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: 2024-12-10 07:23:19 UTC; Yu
Author: Dongyue Yu [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-12-10 21:30:09 UTC

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New package opengraph with initial version 0.0.2
Package: opengraph
Title: Process Metadata from the Open Graph Protocol
Version: 0.0.2
Description: Social media sites often embed cards when links are shared, based on metadata in the 'Open Graph Protocol' (<https://ogp.me/>). This supports extracting that metadata from a website. It further allows for the creation of tags to add to a website to support the 'Open Graph Protocol' and provides a list of the standard tags and their required properties.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: rvest
Suggests: spelling, testthat (>= 3.0.0)
URL: https://github.com/christopherkenny/opengraph, https://christophertkenny.com/opengraph/
Language: en-US
NeedsCompilation: no
Packaged: 2024-12-10 02:28:25 UTC; chris
Author: Christopher T. Kenny [aut, cre]
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Repository: CRAN
Date/Publication: 2024-12-10 21:20:01 UTC

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New package OncoDataSets with initial version 0.1.0
Package: OncoDataSets
Title: A Comprehensive Collection of Cancer Types and Cancer-Related Datasets
Version: 0.1.0
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
Description: Offers a rich collection of data focused on cancer research, covering survival rates, genetic studies, biomarkers, and epidemiological insights. Designed for researchers, analysts, and bioinformatics practitioners, the package includes datasets on various cancer types such as melanoma, leukemia, breast, ovarian, and lung cancer, among others. It aims to facilitate advanced research, analysis, and understanding of cancer epidemiology, genetics, and treatment outcomes.
License: GPL-3
URL: https://github.com/lightbluetitan/oncodatasets, https://lightbluetitan.github.io/oncodatasets/
BugReports: https://github.com/lightbluetitan/oncodatasets/issues
Encoding: UTF-8
LazyData: true
Suggests: ggplot2, dplyr, testthat (>= 3.0.0), knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-10 08:49:45 UTC; renzocrossi
Author: Renzo Caceres Rossi [aut, cre]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-12-10 21:30:17 UTC

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New package OhdsiShinyAppBuilder with initial version 1.0.0
Package: OhdsiShinyAppBuilder
Title: Viewing Observational Health Data Sciences and Informatics Results via 'shiny' Modules
Version: 1.0.0
Date: 2024-12-09
Maintainer: Jenna Reps <jreps@its.jnj.com>
Description: Users can build a single 'shiny' app for exploring population characterization, population-level causal effect estimation, and patient-level prediction results generated via the R analyses packages in 'HADES' (see <https://ohdsi.github.io/Hades/>). Learn more about 'OhdsiShinyAppBuilder' at <https://ohdsi.github.io/OhdsiShinyAppBuilder/>.
License: Apache License 2.0
VignetteBuilder: knitr
Depends: R (>= 3.3.0)
Imports: checkmate, DatabaseConnector, devtools, dplyr, ParallelLogger (>= 2.0.0), ResultModelManager (>= 0.4.0), rlang, shiny, shinydashboard, utils
Suggests: Eunomia, jsonlite, knitr, rmarkdown, testthat, markdown, remotes
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-09 20:37:22 UTC; jreps
Author: Jenna Reps [aut, cre], Nathan Hall [aut], Josh Ide [aut], Jamie Gibert [aut]
Repository: CRAN
Date/Publication: 2024-12-10 21:10:11 UTC

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New package moonboot with initial version 0.9.1
Package: moonboot
Title: m-Out-of-n Bootstrap Functions
Version: 0.9.1
Date: 2024-12-09
Description: Functions and examples based on the m-out-of-n bootstrap suggested by Politis, D.N. and Romano, J.P. (1994) <doi:10.1214/aos/1176325770>. Additionally there are functions to estimate the scaling factor tau and the subsampling size m. For a detailed description and a full list of references, see Dalitz, C. and Lögler, F. (2024) <doi:10.48550/arXiv.2412.05032>.
License: BSD 2-clause License + file LICENSE
Encoding: UTF-8
Imports: methods (>= 4.1.2), stats (>= 4.1.2)
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-12-09 11:59:34 UTC; dalitz
Author: Christoph Dalitz [aut, cre], Felix Loegler [aut]
Maintainer: Christoph Dalitz <christoph.dalitz@hs-niederrhein.de>
Repository: CRAN
Date/Publication: 2024-12-10 21:30:02 UTC

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New package htsDegenerateR with initial version 0.1.0
Package: htsDegenerateR
Title: Degenerate Hierarchical Time Series Reconciliation
Version: 0.1.0
Description: Takes the MinT implementation of the 'hts'<https://cran.r-project.org/package=hts> package and adapts it to allow degenerate hierarchical structures. Instead of the "nodes" argument, this function takes an S matrix which is more versatile in the structures it allows. For a demo, see Steinmeister and Pauly (2024)<doi:10.15488/17729>. The MinT algorithm is based on Wickramasuriya et al. (2019)<doi:10.1080/01621459.2018.1448825>.
License: GPL (>= 2)
Encoding: UTF-8
Imports: SparseM, methods, stats
Suggests: forecast, testthat, knitr, rmarkdown, covr
NeedsCompilation: no
Packaged: 2024-12-09 22:26:24 UTC; Louis
Author: Louis Steinmeister [aut, cre], Markus Pauly [aut]
Maintainer: Louis Steinmeister <louis.steinmeister@udo.edu>
Repository: CRAN
Date/Publication: 2024-12-10 21:10:02 UTC

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New package FAVA with initial version 1.0.7
Package: FAVA
Title: Quantify Compositional Variability Across Relative Abundance Vectors
Version: 1.0.7
Description: Implements the statistic FAVA, an Fst-based Assessment of Variability across vectors of relative Abundances, as well as a suite of helper functions which enable the visualization and statistical analysis of relative abundance data. The 'FAVA' R package accompanies the paper, “Quantifying compositional variability in microbial communities with FAVA” by Morrison, Xue, and Rosenberg (2024) <doi:10.1101/2024.07.03.601929>.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://maikemorrison.github.io/FAVA/, https://maikemorrison.github.io/FAVA/articles/microbiome_tutorial.html
BugReports: https://github.com/MaikeMorrison/FAVA/issues
Imports: dplyr, ggplot2, rlang, tidyr, stringr
Suggests: patchwork (>= 1.2.0), rmarkdown, viridis, kableExtra, purrr, ape, gridExtra, phyloseq, testthat (>= 3.0.0)
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-09 20:42:35 UTC; maikem
Author: Maike Morrison [aut, cre, cph]
Maintainer: Maike Morrison <maikem@stanford.edu>
Repository: CRAN
Date/Publication: 2024-12-10 21:10:15 UTC

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New package dbi.table with initial version 1.0.1
Package: dbi.table
Title: Database Queries Using 'data.table' Syntax
Version: 1.0.1
Depends: data.table
Imports: DBI, bit64, dbplyr, methods, rlang, stringi, utils
Suggests: R.utils, RSQLite, duckdb, testthat (>= 3.0.0), knitr, rmarkdown
Description: Query database tables over a 'DBI' connection using 'data.table' syntax. Attach database schemas to the search path. Automatically merge using foreign key constraints.
License: MPL-2.0
URL: https://github.com/kjellpk/dbi.table
BugReports: https://github.com/kjellpk/dbi.table/issues
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-09 13:46:57 UTC; kjellk
Author: Kjell P. Konis [aut, cre]
Maintainer: Kjell P. Konis <kjellk@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-10 21:30:05 UTC

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New package clc with initial version 1.0.0
Package: clc
Title: CORINE Land Cover Data and Styles
Version: 1.0.0
Description: Streamline the management, analysis, and visualization of CORINE Land Cover data. Addresses challenges associated with its classification system and related styles, such as color mappings and descriptive labels.
License: MIT + file LICENSE
URL: https://josesamos.github.io/clc/, https://github.com/josesamos/clc
BugReports: https://github.com/josesamos/clc/issues
Depends: R (>= 3.5)
Imports: gdalUtilities, ggplot2, rlang, RPostgres, sf, stats, terra, xml2
Suggests: knitr, mockery, purrr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-09 05:41:34 UTC; jsamos
Author: Jose Samos [aut, cre] , Universidad de Granada [cph]
Maintainer: Jose Samos <jsamos@ugr.es>
Repository: CRAN
Date/Publication: 2024-12-10 21:10:06 UTC

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New package IRISSeismic with initial version 1.6.7
Package: IRISSeismic
Version: 1.6.7
Title: Classes and Methods for Seismic Data Analysis
Depends: R (>= 3.1.0)
Imports: methods, pracma, RCurl, seismicRoll (>= 1.1.0), signal, stringr, XML, stats
Suggests: knitr,rmarkdown
VignetteBuilder: knitr
Description: Provides classes and methods for seismic data analysis. The base classes and methods are inspired by the python code found in the 'ObsPy' python toolbox <https://github.com/obspy/obspy>. Additional classes and methods support data returned by web services provided by EarthScope. <https://service.earthscope.org/>.
License: GPL (>= 2)
Repository: CRAN
NeedsCompilation: yes
Packaged: 2024-12-10 01:29:54 UTC; gilliansharer
Author: Jonathan Callahan [aut], Rob Casey [aut], Gillian Sharer [aut, cre], Mary Templeton [aut], Chad Trabant [ctb]
Maintainer: Gillian Sharer <gillian.sharer@earthscope.org>
Date/Publication: 2024-12-10 08:30:12 UTC

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Mon, 09 Dec 2024

New package warehouseTools with initial version 0.1.2
Package: warehouseTools
Title: Heuristics for Solving the Traveling Salesman Problem in Warehouse Layouts
Version: 0.1.2
Description: Heuristic methods to solve the routing problems in a warehouse management. Package includes several heuristics such as the Midpoint, Return, S-Shape and Semi-Optimal Heuristics for designation of the picker’s route in order picking. The heuristics aim to provide the acceptable travel distances while considering warehouse layout constraints such as aisles and shelves. It also includes implementation of the COPRAS (COmplex PRoportional ASsessment) method for supporting selection of locations to be visited by the picker in shared storage systems. The package is designed to facilitate more efficient warehouse routing and logistics operations. see: Bartholdi, J. J., Hackman, S. T. (2019). "WAREHOUSE & DISTRIBUTION SCIENCE. Release 0.98.1." The Supply Chain & Logistics Institute. H. Milton Stewart School of Industrial and Systems Engineering. Georgia Institute of Technology. <https://www.warehouse-science.com/book/editions/wh-sci-0.98.1.pdf>.
Depends: R (>= 3.5.0)
License: GPL-3
Imports: dplyr,clusterSim
Suggests: graphics,testthat (>= 2.1.0)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-07 18:34:19 UTC; andrzej
Author: Andrzej Dudek [aut, cre] , Krzysztof Dmytrow [aut]
Maintainer: Andrzej Dudek <andrzej.dudek@ue.wroc.pl>
Repository: CRAN
Date/Publication: 2024-12-09 19:50:02 UTC

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New package SBMTrees with initial version 1.1
Package: SBMTrees
Title: Sequential Imputation with Bayesian Trees Mixed-Effects Models for Longitudinal Data
Version: 1.1
Date: 2024-11-20
Author: Jungang Zou [aut, cre], Liangyuan Hu [aut], Robert McCulloch [ctb], Rodney Sparapani [ctb], Charles Spanbauer [ctb]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Description: Implements a sequential imputation framework using Bayesian Mixed-Effects Trees ('SBMTrees') for handling missing data in longitudinal studies. The package supports a variety of models, including non-linear relationships and non-normal random effects and residuals, leveraging Dirichlet Process priors for increased flexibility. Key features include handling Missing at Random (MAR) longitudinal data, imputation of both covariates and outcomes, and generating posterior predictive samples for further analysis. The methodology is designed for applications in epidemiology, biostatistics, and other fields requiring robust handling of missing data in longitudinal settings.
License: GPL-2
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: Rcpp, lme4, Matrix, arm, dplyr, mvtnorm, sn, tidyr, mice, nnet
LinkingTo: Rcpp, RcppArmadillo, RcppDist, RcppProgress
SystemRequirements: GNU make
Suggests: knitr, rmarkdown, mitml
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-12-08 07:36:54 UTC; jz3138
Repository: CRAN
Date/Publication: 2024-12-09 20:00:02 UTC

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New package paramix with initial version 0.0.1
Package: paramix
Title: Aggregate and Disaggregate Continuous Parameters for Compartmental Models
Version: 0.0.1
Description: A convenient framework for aggregating and disaggregating continuously varying parameters (for example, case fatality ratio, with age) for proper parametrization of lower-resolution compartmental models (for example, with broad age categories) and subsequent upscaling of model outputs to high resolution (for example, as needed when calculating age-sensitive measures like years-life-lost).
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 3.5.0)
Suggests: lintr, knitr, rmarkdown, ggplot2, roxygen2, wpp2019, testthat (>= 3.0.0), patchwork
VignetteBuilder: knitr
Imports: data.table
URL: https://cmmid.github.io/paramix/
NeedsCompilation: no
Packaged: 2024-12-06 20:06:24 UTC; holism
Author: Carl Pearson [aut, cre] , Simon Proctor [aut] , Lucy Goodfellow [aut]
Maintainer: Carl Pearson <carl.ab.pearson@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-09 19:30:02 UTC

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New package iClusterVB with initial version 0.1.4
Package: iClusterVB
Title: Fast Integrative Clustering and Feature Selection for High Dimensional Data
Version: 0.1.4
Author: Abdalkarim Alnajjar [aut, cre, cph] , Zihang Lu [aut]
Maintainer: Abdalkarim Alnajjar <abdalkarim.alnajjar@queensu.ca>
Description: A variational Bayesian approach for fast integrative clustering and feature selection, facilitating the analysis of multi-view, mixed type, high-dimensional datasets with applications in fields like cancer research, genomics, and more.
License: MIT + file LICENSE
URL: https://github.com/AbdalkarimA/iClusterVB
BugReports: https://github.com/AbdalkarimA/iClusterVB/issues
Depends: R (>= 4.0.0)
Imports: cluster, clustMixType, cowplot, ggplot2, graphics, grDevices, mclust, MCMCpack, mvtnorm, pheatmap, poLCA, Rcpp (>= 1.0.12), stats, utils, VarSelLCM
Suggests: knitr, rmarkdown, survival, survminer
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-12-07 22:15:58 UTC; Abdalkarim
Repository: CRAN
Date/Publication: 2024-12-09 19:50:06 UTC

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New package gg1d with initial version 0.1.0
Package: gg1d
Title: Exploratory Data Analysis using Tiled One-Dimensional Graphics
Version: 0.1.0
Description: Streamlines exploratory data analysis by providing a turnkey approach to visualising n-dimensional data which graphically reveals correlative or associative relationships between 2 or more features. Represents all dataset features as distinct, vertically aligned bar or tile plots, with plot types auto-selected based on whether variables are categorical or numeric.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/selkamand/gg1d, https://selkamand.github.io/gg1d/
BugReports: https://github.com/selkamand/gg1d/issues
Imports: assertions (>= 0.2.0), cli, ggiraph, ggplot2, ggtext, patchwork (>= 1.3.0), rank (>= 0.1.1), rlang
Suggests: covr, knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-07 01:39:11 UTC; selkamand
Author: Sam El-Kamand [aut, cre] , Children's Cancer Institute Australia [cph]
Maintainer: Sam El-Kamand <sam.elkamand@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-09 19:40:02 UTC

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New package AuxSurvey with initial version 0.9
Package: AuxSurvey
Title: Survey Analysis with Auxiliary Discretized Variables
Version: 0.9
Author: Jungang Zou [aut, cre], Yutao Liu [aut], Sharifa Williams [aut], Qixuan Chen [aut]
Maintainer: Jungang Zou <jungang.zou@gmail.com>
Description: Probability surveys often use auxiliary continuous data from administrative records, but the utility of this data is diminished when it is discretized for confidentiality. We provide a set of survey estimators to make full use of information from the discretized variables. See Williams, S.Z., Zou, J., Liu, Y., Si, Y., Galea, S. and Chen, Q. (2024) <doi:10.1002/sim.10270> for details.
Encoding: UTF-8
Depends: mgcv, rstanarm, stats
Imports: survey, gtools, coda, BART, dplyr, stringr, gridExtra, rlang
License: Apache License (>= 2)
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-08 22:34:57 UTC; zoujungang
Repository: CRAN
Date/Publication: 2024-12-09 20:00:06 UTC

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New package tugboat with initial version 0.1.0
Package: tugboat
Title: Build a Docker Image from a Directory or Project
Version: 0.1.0
Description: Simple utilities to generate a Dockerfile from a directory or project, build the corresponding Docker image, and push the image to DockerHub.
Imports: dockerfiler (>= 0.2.2), here, renv (>= 1.0.0)
Suggests: yaml, rmarkdown, testthat (>= 3.0.0)
License: GPL (>= 3)
Encoding: UTF-8
URL: https://www.dmolitor.com/tugboat/
Language: en-US
NeedsCompilation: no
Packaged: 2024-12-06 17:40:33 UTC; dmolitor
Author: Daniel Molitor [aut, cph, cre]
Maintainer: Daniel Molitor <molitdj97@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-09 13:40:02 UTC

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New package tinylens with initial version 0.1.0
Package: tinylens
Title: Minimal Implementation of Functional Lenses
Version: 0.1.0
Description: Provides utilities to create and use lenses to simplify data manipulation. Lenses are composable getter/setter pairs that provide a functional approach to manipulating deeply nested data structures, e.g., elements within list columns in data frames. The implementation is based on the earlier 'lenses' R package <https://github.com/cfhammill/lenses>, which was inspired by the Haskell 'lens' package by Kmett (2012) <https://github.com/ekmett/lens>, one of the most widely referenced implementations of lenses. For additional background and history on the theory of lenses, see the 'lens' package wiki: <https://github.com/ekmett/lens/wiki/History-of-Lenses>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: rlang, S7, vctrs
Suggests: tidyselect, tinytest
URL: https://github.com/arbelt/tinylens
BugReports: https://github.com/arbelt/tinylens/issues
NeedsCompilation: no
Packaged: 2024-12-06 15:27:24 UTC; albert
Author: Albert Wang [aut, cre, cph]
Maintainer: Albert Wang <albert_z_wang@harvard.edu>
Repository: CRAN
Date/Publication: 2024-12-09 13:30:02 UTC

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New package surveynnet with initial version 1.0.0
Package: surveynnet
Title: Neural Network for Complex Survey Data
Version: 1.0.0
Description: The goal of 'surveynnet' is to extend the functionality of 'nnet', which already supports survey weights, by enabling it to handle clustered and stratified data. It achieves this by incorporating design effects through the use of effective sample sizes as outlined by Chen and Rust (2017), <doi:10.1093/jssam/smw036>, and performed by 'deffCR' in the package 'PracTools' (Valliant, Dever, and Kreuter (2018), <doi:10.1007/978-3-319-93632-1>).
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/237triangle/surveynnet
BugReports: https://github.com/237triangle/surveynnet/issues
Imports: dplyr, nnet, PracTools, stats, survey, survival
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-06 18:16:37 UTC; aaroncohen
Author: Aaron Cohen [aut, cre] , Raul Cruz-Cano [aut]
Maintainer: Aaron Cohen <cohenaa@iu.edu>
Repository: CRAN
Date/Publication: 2024-12-09 13:40:05 UTC

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New package FlexRL with initial version 0.1.0
Package: FlexRL
Title: A Flexible Model for Record Linkage
Version: 0.1.0
Description: Implementation of the Stochastic Expectation Maximisation (StEM) approach to Record Linkage described in the paper by K. Robach, S. L. van der Pas, M. A. van de Wiel and M. H. Hof (2024, <doi:10.48550/arXiv.2407.06835>); see 'citation("FlexRL")' for details. This is a record linkage method, for finding the common set of records among 2 data sources based on Partially Identifying Variables (PIVs) available in both sources. It includes modelling of dynamic Partially Identifying Variables (e.g. postal code) that may evolve over time and registration errors (missing values and mistakes in the registration). Low memory footprint.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 4.4.0)
Imports: Matrix (>= 1.7), progress(>= 1.2.3), testit(>= 0.13), Rcpp(>= 1.0.13)
LinkingTo: Rcpp
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-12-06 12:59:19 UTC; kayane
Author: Kayane ROBACH [aut, cre, cph]
Maintainer: Kayane ROBACH <k.c.robach@amsterdamumc.nl>
Repository: CRAN
Date/Publication: 2024-12-09 13:20:02 UTC

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New package multimolang with initial version 0.1.1
Package: multimolang
Title: 'multimolang': Multimodal Language Analysis
Version: 0.1.1
Description: Process 'OpenPose' human body keypoints for computer vision, including data structuring and user-defined linear transformations for standardization. It optionally, includes metadata extraction from filenames in the UCLA 'NewsScape' archive.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: arrow
Suggests: roxygen2 (>= 7.0.0), testthat (>= 3.0.0), knitr, rmarkdown, spelling
URL: https://github.com/daedalusLAB/multimolang
BugReports: https://github.com/daedalusLAB/multimolang/issues
VignetteBuilder: knitr
Copyright: Copyright (C) 2024 Universidad de Murcia
Language: en-US
NeedsCompilation: no
Packaged: 2024-12-05 23:57:13 UTC; bherreno
Author: Brian Herreno Jimenez [aut, cre]
Maintainer: Brian Herreno Jimenez <brian.herreno@um.es>
Repository: CRAN
Date/Publication: 2024-12-09 10:40:02 UTC

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Sun, 08 Dec 2024

New package SurrogateParadoxTest with initial version 1.0
Package: SurrogateParadoxTest
Title: Empirical Testing of Surrogate Paradox Assumptions
Version: 1.0
Date: 2024-12-05
Description: Provides functions to nonparametrically assess assumptions necessary to prevent the surrogate paradox through hypothesis tests of stochastic dominance, monotonicity of regression functions, and non-negative residual treatment effects. More details are available in Hsiao et al 2024 (under review).
License: GPL
Imports: stats, parallel
NeedsCompilation: no
Packaged: 2024-12-05 20:56:34 UTC; emilyhsiao
Author: Emily Hsiao [aut, cre]
Maintainer: Emily Hsiao <ehsiao@utexas.edu>
Repository: CRAN
Date/Publication: 2024-12-08 22:30:02 UTC

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New package depower with initial version 2024.12.4
Package: depower
Title: Power Analysis for Differential Expression Studies
Version: 2024.12.4
Description: Provides a convenient framework to simulate, test, power, and visualize data for differential expression studies with lognormal or negative binomial outcomes. Supported designs are two-sample comparisons of independent or dependent outcomes. Power may be summarized in the context of controlling the per-family error rate or family-wise error rate. Negative binomial methods are described in Yu, Fernandez, and Brock (2017) <doi:10.1186/s12859-017-1648-2> and Yu, Fernandez, and Brock (2020) <doi:10.1186/s12859-020-3541-7>.
URL: https://brettklamer.com/work/depower/, https://bitbucket.org/bklamer/depower/
License: MIT + file LICENSE
Depends: R (>= 4.2.0)
Imports: Rdpack, stats, mvnfast, glmmTMB, dplyr, multidplyr, ggplot2, scales
Suggests: tinytest, rmarkdown
Language: en-US
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-05 04:48:07 UTC; x
Author: Brett Klamer [aut, cre] , Lianbo Yu [aut]
Maintainer: Brett Klamer <code@brettklamer.com>
Repository: CRAN
Date/Publication: 2024-12-08 21:50:02 UTC

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Fri, 06 Dec 2024

New package tablespan with initial version 0.1.7
Package: tablespan
Title: Create Satisficing 'Excel', 'HTML', 'LaTeX', and 'RTF' Tables using a Simple Formula
Version: 0.1.7
Maintainer: Jannik H. Orzek <jannik.orzek@mailbox.org>
Description: Create "good enough" tables with a single formula. 'tablespan' tables can be exported to 'Excel', 'HTML', 'LaTeX', and 'RTF' by leveraging the packages 'openxlsx' and 'gt'. See <https://jhorzek.github.io/tablespan/> for an introduction.
License: GPL (>= 3)
Encoding: UTF-8
Suggests: testthat (>= 3.0.0)
Imports: dplyr, gt, methods, openxlsx, rlang, utils
URL: https://github.com/jhorzek/tablespan, https://jhorzek.github.io/tablespan/
BugReports: https://github.com/jhorzek/tablespan/issues
NeedsCompilation: no
Packaged: 2024-12-04 20:44:35 UTC; jannikorzek
Author: Jannik H. Orzek [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-12-06 09:20:02 UTC

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New package qcluster with initial version 1.2
Package: qcluster
Version: 1.2
Date: 2024-11-28
Title: Clustering via Quadratic Scoring
Description: Performs tuning of clustering models, methods and algorithms including the problem of determining an appropriate number of clusters. Validation of cluster analysis results is performed via quadratic scoring using resampling methods, as in Coraggio, L. and Coretto, P. (2023) <doi:10.1016/j.jmva.2023.105181>.
NeedsCompilation: yes
License: GPL (>= 2)
Imports: cluster, doParallel, foreach, grDevices, graphics, iterators, methods, parallel, stats
LazyData: TRUE
Encoding: UTF-8
Packaged: 2024-12-04 15:04:18 UTC; lcorag
Author: Luca Coraggio [cre, aut] , Pietro Coretto [aut]
Maintainer: Luca Coraggio <luca.coraggio@unina.it>
Repository: CRAN
Date/Publication: 2024-12-06 09:20:07 UTC

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New package PhenotypeR with initial version 0.1.0
Package: PhenotypeR
Title: Assess Study Cohorts Using a Common Data Model
Version: 0.1.0
Description: Phenotype study cohorts in data mapped to the Observational Medical Outcomes Partnership Common Data Model. Diagnostics are run at the database, code list, cohort, and population level to assess whether study cohorts are ready for research.
License: Apache License (>= 2)
Encoding: UTF-8
Depends: R (>= 4.0)
Suggests: CDMConnector (>= 1.6.1), duckdb, DBI, gt, omock, testthat (>= 3.0.0), knitr, visOmopResults (>= 0.5.0), glue, RPostgres, PatientProfiles (>= 1.2.2), ggplot2, ggpubr, stringr, shiny, DiagrammeR, sortable, shinycssloaders, here, DT, bslib, shinyWidgets, plotly, tidyr
Imports: CodelistGenerator (>= 3.3.1), CohortCharacteristics (>= 0.4.0), CohortConstructor (>= 0.3.2), cli, dplyr, IncidencePrevalence (>= 0.9.0), omopgenerics (>= 0.4.0), OmopSketch (>= 0.1.2), magrittr, purrr, rlang, vctrs, usethis
URL: https://ohdsi.github.io/PhenotypeR/
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-04 13:42:21 UTC; eburn
Author: Edward Burn [aut, cre] , Marti Catala [aut] , Xihang Chen [aut] , Marta Alcalde-Herraiz [aut] , Albert Prats-Uribe [aut]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Repository: CRAN
Date/Publication: 2024-12-06 09:10:05 UTC

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New package sooty with initial version 0.1.0
Package: sooty
Title: Data Source Catalogues Online for Southern Ocean Ecosystem Research
Version: 0.1.0
Description: Obtains lists of files of remote sensing collections for Southern Ocean surface properties. Commonly used data sources of sea surface temperature, sea ice concentration, and altimetry products such as sea surface height and sea surface currents are cached in object storage on the Pawsey Supercomputing Research Centre facility. Functions to retrieve these object storage catalogues are provided. The catalogues include complete collections of datasets Reynolds et al. (2008) "NOAA Optimum Interpolation Sea Surface Temperature (OISST) Analysis, Version 2.1" <doi:10.7289/V5SQ8XB5>, Spreen et al. (2008) "Artist Advanced Microwave Scanning Radiometer for Earth Observing System (AMSR-E) sea ice concentration" <doi:10.1029/2005JC003384>. In future releases helpers will be added to identify particular data collections and target specific dates for earth observation data for reading, as well as helpers to retrieve data set citation and provenance details.
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-US
Imports: arrow, cachem, dplyr, memoise, curl
URL: https://github.com/mdsumner/sooty
BugReports: https://github.com/mdsumner/sooty/issues
Suggests: spelling, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-12-04 13:31:59 UTC; mdsumner
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <michael.sumner@aad.gov.au>
Repository: CRAN
Date/Publication: 2024-12-06 09:00:02 UTC

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Thu, 05 Dec 2024

New package robqda with initial version 1.0
Package: robqda
Title: Robust Quadratic Discriminant Analysis
Version: 1.0
Date: 2024-12-03
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Depends: R (>= 4.0)
Imports: MASS, Rfast, Rfast2
Suggests: mvcauchy
License: GPL (>= 2)
Description: The minimum covariance determinant estimator is used to perform robust quadratic discriminant analysis, including cross-validation. References: Friedman J., Hastie T. and Tibshirani R. (2009). "The elements of statistical learning", 2nd edition. Springer, Berlin. <doi:10.1007/978-0-387-84858-7>.
NeedsCompilation: no
Packaged: 2024-12-03 19:44:27 UTC; mtsag
Repository: CRAN
Date/Publication: 2024-12-05 18:40:07 UTC

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New package RegDDM with initial version 1.0
Package: RegDDM
Title: Generalized Linear Regression with DDM
Version: 1.0
Description: Drift-Diffusion Model (DDM) has been widely used to model binary decision-making tasks, and many research studies the relationship between DDM parameters and other characteristics of the subject. This package uses 'RStan' to perform generalized liner regression analysis over DDM parameters via a single Bayesian Hierarchical model. Compared to estimating DDM parameters followed by a separate regression model, 'RegDDM' reduces bias and improves statistical power.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/biorabbit/RegDDM
BugReports: https://github.com/biorabbit/RegDDM/issues
Imports: rstan, stringr, dplyr, tidyr, purrr, rtdists, rlang, stats,
Suggests: testthat (>= 3.0.0)
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-04 05:08:59 UTC; Rabbit
Author: Zekai Jin [aut, cre]
Maintainer: Zekai Jin <Jin.Zekai@nyspi.columbia.edu>
Repository: CRAN
Date/Publication: 2024-12-05 19:00:12 UTC

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New package rectpacker with initial version 1.0.0
Package: rectpacker
Title: Rectangle Packing
Version: 1.0.0
Maintainer: Mike Cheng <mikefc@coolbutuseless.com>
URL: https://github.com/coolbutuseless/rectpacker
BugReports: https://github.com/coolbutuseless/rectpacker/issues
Description: Rectangle packing is a packing problem where rectangles are placed into a larger rectangular region (without overlapping) in order to maximise the use space. Rectangles are packed using the skyline heuristic as discussed in Lijun et al (2011) 'A Skyline-Based Heuristic for the 2D Rectangular Strip Packing Problem' <doi:10.1007/978-3-642-21827-9_29>. A function is also included for determining a good small-sized box for containing a given set of rectangles.
License: MIT + file LICENSE
Encoding: UTF-8
Copyright: The included 'stb_rect_pack.h' header (v1.01) is Copyright (c) 2017 Sean Barrett and licensed under the MIT license. See COPYRIGHTS file for more details.
Suggests: testthat (>= 3.0.0)
NeedsCompilation: yes
Packaged: 2024-12-04 06:32:19 UTC; mike
Author: Mike Cheng [aut, cre, cph], Sean Barrett [aut, cph]
Repository: CRAN
Date/Publication: 2024-12-05 19:00:02 UTC

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New package recforest with initial version 1.0.0
Package: recforest
Title: Random Survival Forest for Recurrent Events
Version: 1.0.0
Description: Analyze recurrent events with right-censored data and the potential presence of a terminal event (that prevents further occurrences, like death). 'recofest' extends the random survival forest algorithm, adapting splitting rules and node estimators to handle complexities of recurrent events. The methodology is fully described in Murris, J., Bouaziz, O., Jakubczak, M., Katsahian, S., & Lavenu, A. (2024) (<https://hal.science/hal-04612431v1/document>).
License: Apache License (>= 2)
Encoding: UTF-8
Suggests: frailtypack, knitr, rmarkdown, testthat (>= 3.0.0), withr
Imports: cli, dplyr, future, future.apply, magrittr, methods, mets, purrr, reda, stats, survival, tibble, timereg
VignetteBuilder: knitr
Depends: R (>= 2.10)
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-03 10:30:40 UTC; colinfay
Author: Juliette Murris [aut, cre] , Guillaume Desachy [aut] , Colin Fay [aut] , Yohann Mansiaux [aut] , Audrey Lavenu [aut] , Sandrine Katsahian [aut]
Maintainer: Juliette Murris <murris.juliette@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-05 18:30:02 UTC

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New package RapidFuzz with initial version 1.0
Package: RapidFuzz
Title: String Similarity Computation Using 'RapidFuzz'
Version: 1.0
Date: 2024-11-30
Description: Provides a high-performance interface for calculating string similarities and distances, leveraging the efficient library 'RapidFuzz' <https://github.com/rapidfuzz/rapidfuzz-cpp>. This package integrates the 'C++' implementation, allowing 'R' users to access cutting-edge algorithms for fuzzy matching and text analysis.
URL: <https://github.com/StrategicProjects/RapidFuzz>
Note: This package makes use of the 'RapidFuzz' source code created by Max Bachmann and Adam Cohen (<https://github.com/rapidfuzz/rapidfuzz-cpp>).
License: MIT + file LICENSE
Encoding: UTF-8
Imports: Rcpp (>= 1.0.13)
LinkingTo: Rcpp
SystemRequirements: C++17
NeedsCompilation: yes
Packaged: 2024-12-03 20:17:05 UTC; leite
Author: Andre Leite [aut, cre], Hugo Vaconcelos [aut], Max Bachmann [ctb], Adam Cohen [ctb]
Maintainer: Andre Leite <leite@castlab.org>
Repository: CRAN
Date/Publication: 2024-12-05 18:40:14 UTC

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New package mixedbiastest with initial version 0.2.1
Package: mixedbiastest
Title: Bias Diagnostic for Linear Mixed Models
Version: 0.2.1
Date: 2024-12-03
Maintainer: Andrew T. Karl <akarl@asu.edu>
Description: Provides a function to perform bias diagnostics on linear mixed models fitted with 'lmer()' from the 'lme4' package. Implements permutation tests for assessing the bias of fixed effects, as described in Karl and Zimmerman (2021) <doi:10.1016/j.jspi.2020.06.004>. Karl and Zimmerman (2020) <doi:10.17632/tmynggddfm.1> provide R code for implementing the test using 'mvglmmRank' output. Development of this package was assisted by 'GPT o1-preview' for code structure and documentation.
Depends: R (>= 3.5.0)
Imports: lme4, Matrix, ggplot2, rlang
Suggests: plm
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-04 01:24:33 UTC; andre
Author: Andrew T. Karl [cre, aut]
Repository: CRAN
Date/Publication: 2024-12-05 18:50:01 UTC

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New package MIGEE with initial version 0.1.0
Package: MIGEE
Title: Impute Missing Values and Fitting Linear Mixed Effect Model
Version: 0.1.0
Maintainer: Atanu Bhattacharjee <atanustat@gmail.com>
Description: Implements methods for estimating generalized estimating equations (GEE) with advanced options for flexible modeling and handling missing data. This package provides tools to fit and analyze GEE models for longitudinal data, allowing users to address missingness using a variety of imputation techniques. It supports both univariate and multivariate modeling, visualization of missing data patterns, and facilitates the transformation of data for efficient statistical analysis. Designed for researchers working with complex datasets, it ensures robust estimation and inference in longitudinal and clustered data settings.
License: GPL-3
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
ByteCompile: Yes
Author: Atanu Bhattacharjee [aut, cre, ctb], Gajendra Kumar Vishwakarma [aut, ctb], Neelesh Kumar [aut, ctb]
Imports: mice,VIM,ggplot2,lme4,ggeffects,dplyr,readr,reshape2
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-12-03 23:34:04 UTC; atanubhattacharjee
Repository: CRAN
Date/Publication: 2024-12-05 18:50:09 UTC

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New package iclogcondist with initial version 1.0.1
Package: iclogcondist
Title: Log-Concave Distribution Estimation with Interval-Censored Data
Version: 1.0.1
Description: We consider the non-parametric maximum likelihood estimation of the underlying distribution function, assuming log-concavity, based on mixed-case interval-censored data. The algorithm implemented is base on Chi Wing Chu, Hok Kan Ling and Chaoyu Yuan (2024, <doi:10.48550/arXiv.2411.19878>).
License: GPL-3
Imports: Rcpp, flexsurv, ggplot2, icenReg, monotone, fdrtool
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
Depends: R (>= 3.5.0)
NeedsCompilation: yes
Packaged: 2024-12-04 02:43:33 UTC; ycyma
Author: Chi Wing Chu [aut], Hok Kan Ling [aut], Chaoyu Yuan [aut, cre]
Maintainer: Chaoyu Yuan <chaoyu.yuan@columbia.edu>
Repository: CRAN
Date/Publication: 2024-12-05 19:00:06 UTC

More information about iclogcondist at CRAN
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New package GVS with initial version 0.0.1
Package: GVS
Title: 'Geocoordinate Validation Service'
Version: 0.0.1
Description: The 'Geocoordinate Validation Service' (GVS) runs checks of coordinates in latitude/longitude format. It returns annotated coordinates with additional flags and metadata that can be used in data cleaning. Additionally, the package has functions related to attribution and metadata information. More information can be found at <https://github.com/ojalaquellueva/gvs/tree/master/api>.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: jsonlite, httr
Suggests: knitr, rmarkdown, testthat, devtools, BIEN, vcr (>= 0.6.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-03 22:09:37 UTC; Brian Maitner
Author: Brian Maitner [aut, cre] , Brad Boyle [aut], Rethvick Sriram Yugendra Babu [aut]
Maintainer: Brian Maitner <bmaitner@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-05 18:40:18 UTC

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New package GOLDprice with initial version 0.1.0
Package: GOLDprice
Title: Gold Price Data
Version: 0.1.0
Author: Fadhlul Mubarak [aut, cre], Nurniswah [aut], Vinny Yuliani Sundara [aut]
Maintainer: Fadhlul Mubarak <mubarakfadhlul@gmail.com>
Description: A collection of gold price data in various currencies in the form of USD, EUR, JPY, GBP, CAD, CHF, INR, CNY, TRY, SAR, IDR, AED, THB, VND, EGP, KRW, RUB, ZAR, and AUD. This data comes from the World Gold Council. In addition, the data is in the form of daily, weekly, monthly (average and the end of period), quarterly (average and the end of period), and yearly (average and the end of period).
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Imports: readxl
NeedsCompilation: no
Packaged: 2024-12-04 01:36:08 UTC; HP
Repository: CRAN
Date/Publication: 2024-12-05 18:50:11 UTC

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New package GDILM.SEIRS with initial version 0.0.1
Package: GDILM.SEIRS
Title: Spatial Individual Level Modeling of Infectious Disease Transmission with Reinfection Dynamics
Version: 0.0.1
Description: Geographically Dependent Individual Level Models (GDILMs) within the Susceptible-Exposed-Infectious-Recovered-Susceptible (SEIRS) framework are applied to model infectious disease transmission, incorporating reinfection dynamics. This package employs a likelihood based Monte Carlo Expectation Conditional Maximization (MCECM) algorithm for estimating model parameters. It also provides tools for GDILM fitting, parameter estimation, AIC calculation on real pandemic data, and simulation studies customized to user-defined model settings.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: MASS, mvtnorm, ngspatial, stats
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-12-03 20:19:14 UTC; aminabed
Author: Amin Abed [aut, cre, cph] , Mahmoud Torabi [ths], Zeinab Mashreghi [ths]
Maintainer: Amin Abed <abeda@myumanitoba.ca>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-12-05 18:40:21 UTC

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New package ErlangC with initial version 0.1.0
Package: ErlangC
Title: Solve Erlang-C Model
Version: 0.1.0
Maintainer: Damonsoul <chenmaowei96@gmail.com>
Description: Provides a set of functions to solve Erlang-C model. The Erlang C formula was invented by the Danish Mathematician A.K. Erlang and is used to calculate the number of advisors and the service level.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: bsicons, bslib, DT, gmp, lubridate, shiny, tidyr
Depends: R (>= 2.10)
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-12-03 08:56:01 UTC; Administrator
Author: Damonsoul [aut, cre]
Repository: CRAN
Date/Publication: 2024-12-05 18:30:15 UTC

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New package educationR with initial version 0.1.0
Package: educationR
Title: A Comprehensive Collection of Educational Datasets
Version: 0.1.0
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
Description: Provides a comprehensive collection of datasets related to education, covering topics such as student performance, learning methods, test scores, absenteeism, and other educational metrics. This package serves as a resource for educational researchers, data analysts, and statisticians to explore and analyze data in the field of education.
License: GPL-3
URL: https://github.com/lightbluetitan/educationr, https://lightbluetitan.github.io/educationr/
BugReports: https://github.com/lightbluetitan/educationr/issues
Encoding: UTF-8
LazyData: true
Suggests: ggplot2, dplyr, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-03 23:09:29 UTC; renzocrossi
Author: Renzo Caceres Rossi [aut, cre]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-12-05 18:50:04 UTC

More information about educationR at CRAN
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New package drhutools with initial version 1.0.0
Package: drhutools
Title: Political Science Academic Research Gears
Version: 1.0.0
Maintainer: Yue Hu <yuehu@tsinghua.edu.cn>
Description: Using these tools to simplify the research process of political science and other social sciences. The current version can create folder system for academic project in political science, calculate psychological trait scores, visualize experimental and spatial data, and set up color-blind palette, functions used in academic research of political psychology or political science in general.
URL: https://www.drhuyue.site/software/drhutools/
BugReports: https://github.com/sammo3182/drhutools/issues
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R(>= 3.6.0)
Imports: dplyr, ggplot2, purrr, htmltools, sf, htmlwidgets, jsonlite, leaflet, sp, stats, methods, gganimate, magick, mapview, webshot, animation, png, grDevices
LazyData: true
Suggests: knitr, remotes, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-03 09:51:25 UTC; yuehu
Author: Yue Hu [aut, cre], Wen Deng [ctb]
Repository: CRAN
Date/Publication: 2024-12-05 18:30:12 UTC

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New package BayesianFitForecast with initial version 1.0.0
Package: BayesianFitForecast
Title: Bayesian Parameter Estimation and Forecasting for Epidemiological Models
Version: 1.0.0
Description: Methods for Bayesian parameter estimation and forecasting in epidemiological models. Functions enable model fitting using Bayesian methods and generate forecasts with uncertainty quantification. Implements approaches described in <doi:10.48550/arXiv.2411.05371> and <doi:10.1002/sim.9164>.
License: CC0
Encoding: UTF-8
Imports: bayesplot, readxl, openxlsx, rstan, ggplot2, dplyr
Depends: R (>= 3.5.0)
URL: https://github.com/gchowell/BayesianFitForecast
BugReports: https://github.com/gchowell/BayesianFitForecast/issues
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-03 05:55:12 UTC; hamedkp
Author: Hamed Karami [aut], Amanda Bleichrodt [aut], Ruiyan Luo [aut], Gerardo Chowell [aut, cre]
Maintainer: Gerardo Chowell <gchowell@gsu.edu>
Repository: CRAN
Date/Publication: 2024-12-05 18:20:07 UTC

More information about BayesianFitForecast at CRAN
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New package airship with initial version 1.4.3
Package: airship
Title: Visualization of Simulated Datasets with Multiple Simulation Input Dimensions
Version: 1.4.3
Description: Plots simulation results of clinical trials. Its main feature is allowing users to simultaneously investigate the impact of several simulation input dimensions through dynamic filtering of the simulation results. A more detailed description of the app can be found in Meyer et al. <DOI:10.1016/j.softx.2023.101347> or the vignettes on 'GitHub'.
BugReports: https://github.com/el-meyer/airship/issues
License: GPL-3
Encoding: UTF-8
Depends: R (>= 2.10), shiny, shinyBS
Imports: DT, shinybusy, plotly, dplyr, tidyselect, tidyr, stringr, colourpicker, shinyWidgets, shinydashboard, scales, Cairo, ggplot2, rlang, magrittr, shinyjs, data.table, shinyalert, vctrs, mvtnorm
LazyData: true
Suggests: knitr, rmarkdown, ggpubr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-03 20:01:01 UTC; elias
Author: Elias Laurin Meyer [aut, cre] , Constantin Kumaus [aut, ctb], Michal Majka [aut, ctb] , Franz Koenig [aut, ctb]
Maintainer: Elias Laurin Meyer <elias@berryconsultants.net>
Repository: CRAN
Date/Publication: 2024-12-05 18:40:10 UTC

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Wed, 04 Dec 2024

New package wooldridge with initial version 1.4-4
Package: wooldridge
Title: 115 Data Sets from "Introductory Econometrics: A Modern Approach, 7e" by Jeffrey M. Wooldridge
Version: 1.4-4
Description: Students learning both econometrics and R may find the introduction to both challenging. The wooldridge data package aims to lighten the task by efficiently loading any data set found in the text with a single command. Data sets have been compressed to a fraction of their original size. Documentation files contain page numbers, the original source, time of publication, and notes from the author suggesting avenues for further analysis and research. If one needs an introduction to R model syntax, a vignette contains solutions to examples from chapters of the text. Data sets are from the 7th edition (Wooldridge 2020, ISBN-13 978-1-337-55886-0), and are backwards compatible with all previous versions of the text.
Depends: R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, stargazer, tinytest, xts, zoo
VignetteBuilder: knitr
LazyDataCompression: xz
URL: https://justinmshea.github.io/wooldridge/
BugReports: https://github.com/JustinMShea/wooldridge/issues/
NeedsCompilation: no
Packaged: 2024-12-04 08:22:58 UTC; impartial-spec
Author: Justin M. Shea [aut, cre], Kennth H. Brown [ctb]
Maintainer: Justin M. Shea <jshea@roosevelt.edu>
Repository: CRAN
Date/Publication: 2024-12-04 13:30:03 UTC

More information about wooldridge at CRAN
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New package iClusterVB with initial version 0.1.3
Package: iClusterVB
Title: Fast Integrative Clustering and Feature Selection for High Dimensional Data
Version: 0.1.3
Author: Abdalkarim Alnajjar [aut, cre, cph] , Zihang Lu [aut]
Maintainer: Abdalkarim Alnajjar <abdalkarim.alnajjar@queensu.ca>
Description: A variational Bayesian approach for fast integrative clustering and feature selection, facilitating the analysis of multi-view, mixed type, high-dimensional datasets with applications in fields like cancer research, genomics, and more.
License: MIT + file LICENSE
URL: https://github.com/AbdalkarimA/iClusterVB
BugReports: https://github.com/AbdalkarimA/iClusterVB/issues
Depends: R (>= 4.0.0)
Imports: cluster, clustMixType, cowplot, ggplot2, graphics, grDevices, mclust, MCMCpack, mvtnorm, pheatmap, poLCA, R.utils, Rcpp (>= 1.0.12), stats, utils, VarSelLCM
Suggests: knitr, rmarkdown, survival, survminer
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-12-04 06:06:26 UTC; Abdalkarim
Repository: CRAN
Date/Publication: 2024-12-04 08:20:07 UTC

More information about iClusterVB at CRAN
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Tue, 03 Dec 2024

New package aphylo with initial version 0.3-4
Package: aphylo
Title: Statistical Inference and Prediction of Annotations in Phylogenetic Trees
Version: 0.3-4
Description: Implements a parsimonious evolutionary model to analyze and predict gene-functional annotations in phylogenetic trees as described in Vega Yon et al. (2021) <doi:10.1371/journal.pcbi.1007948>. Focusing on computational efficiency, 'aphylo' makes it possible to estimate pooled phylogenetic models, including thousands (hundreds) of annotations (trees) in the same run. The package also provides the tools for visualization of annotated phylogenies, calculation of posterior probabilities (prediction) and goodness-of-fit assessment featured in Vega Yon et al. (2021).
Depends: R (>= 3.5.0), ape (>= 5.0)
LazyData: true
Imports: Rcpp (>= 0.12.1), Matrix, methods, coda, fmcmc, utils, MASS, xml2
Suggests: covr, knitr, tinytest, AUC, rmarkdown,
VignetteBuilder: knitr
LinkingTo: Rcpp
Encoding: UTF-8
URL: https://github.com/USCbiostats/aphylo
BugReports: https://github.com/USCbiostats/aphylo/issues
Classification/MSC: 90C35, 90B18, 91D30
License: MIT + file LICENSE
NeedsCompilation: yes
Packaged: 2024-12-03 16:29:02 UTC; u6039184
Author: George Vega Yon [aut, cre] , National Cancer Institute [fnd] , USC Biostatistics [cph]
Maintainer: George Vega Yon <g.vegayon@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-03 23:00:10 UTC

More information about aphylo at CRAN
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New package extractox with initial version 0.1.0
Package: extractox
Title: Extract Tox Info from Various Databases
Version: 0.1.0
Description: Extract toxicological and chemical information from databases maintained by scientific agencies and resources, including the Comparative Toxicogenomics Database <https://ctdbase.org/>, the Integrated Chemical Environment <https://ice.ntp.niehs.nih.gov/>, the Integrated Risk Information System <https://cfpub.epa.gov/ncea/iris/>, the CompTox Chemicals Dashboard Resource Hub <https://www.epa.gov/comptox-tools/comptox-chemicals-dashboard-resource-hub>, and PubChem <https://pubchem.ncbi.nlm.nih.gov/>.
License: MIT + file LICENSE
URL: https://github.com/c1au6i0/extractox, https://c1au6i0.github.io/extractox/
BugReports: https://github.com/c1au6i0/extractox/issues
Depends: R (>= 4.1)
Imports: cli, httr2, janitor, pingr, readxl, rvest, webchem
Suggests: openxlsx, testthat (>= 3.0.0)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-12-03 03:11:03 UTC; heverz
Author: Claudio Zanettini [aut, cre, cph] , Lucio Queiroz [aut]
Maintainer: Claudio Zanettini <claudio.zanettini@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-03 21:40:02 UTC

More information about extractox at CRAN
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New package csmGmm with initial version 0.3.0
Package: csmGmm
Title: Conditionally Symmetric Multidimensional Gaussian Mixture Model
Version: 0.3.0
Description: Implements the conditionally symmetric multidimensional Gaussian mixture model (csmGmm) for large-scale testing of composite null hypotheses in genetic association applications such as mediation analysis, pleiotropy analysis, and replication analysis. In such analyses, we typically have J sets of K test statistics where K is a small number (e.g. 2 or 3) and J is large (e.g. 1 million). For each one of the J sets, we want to know if we can reject all K individual nulls. Please see the vignette for a quickstart guide. The paper describing these methods is "Testing a Large Number of Composite Null Hypotheses Using Conditionally Symmetric Multidimensional Gaussian Mixtures in Genome-Wide Studies" by Sun R, McCaw Z, & Lin X (2024, <doi:10.1080/01621459.2024.2422124>). The paper is accepted and published online (but not yet in print) in the Journal of the American Statistical Association as of Dec 1 2024.
License: GPL-3
Encoding: UTF-8
Imports: dplyr, mvtnorm, rlang, magrittr
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-02 20:45:12 UTC; rsun3
Author: Ryan Sun [aut, cre]
Maintainer: Ryan Sun <ryansun.work@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-03 19:30:02 UTC

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New package basicspace with initial version 0.25
Package: basicspace
Title: Recovering a Basic Space from Issue Scales
Version: 0.25
Date: 2024-12-02
Author: Royce Carroll [aut], Christopher Hare [aut, cre], Jeffrey B. Lewis [aut], James Lo [aut], Keith T. Poole [aut], Howard Rosenthal [aut]
Maintainer: Christopher Hare <cdhare@ucdavis.edu>
Description: Provides functions to estimate latent dimensions of choice and judgment using Aldrich-McKelvey and Blackbox scaling methods, as described in Poole et al. (2016, <doi:10.18637/jss.v069.i07>). These techniques allow researchers (particularly those analyzing political attitudes, public opinion, and legislative behavior) to recover spatial estimates of political actors' ideal points and stimuli from issue scale data, accounting for perceptual bias, multidimensional spaces, and missing data. The package uses singular value decomposition and alternating least squares (ALS) procedures to scale self-placement and perceptual data into a common latent space for the analysis of ideological or evaluative dimensions. Functionality also include tools for assessing model fit, handling complex survey data structures, and reproducing simulated datasets for methodological validation.
License: GPL-2
Depends: R (>= 3.0.0), tools
URL: https://CRAN.R-project.org/package=basicspace
NeedsCompilation: yes
Packaged: 2024-12-02 16:53:42 UTC; chare
Repository: CRAN
Date/Publication: 2024-12-03 19:10:01 UTC

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New package sshicm with initial version 0.1.0
Package: sshicm
Title: Information Consistency-Based Measures for Spatial Stratified Heterogeneity
Version: 0.1.0
Description: Spatial stratified heterogeneity (SSH) denotes the coexistence of within-strata homogeneity and between-strata heterogeneity. Information consistency-based methods provide a rigorous approach to quantify SSH and evaluate its role in spatial processes, grounded in principles of geographical stratification and information theory (Bai, H. et al. (2023) <doi:10.1080/24694452.2023.2223700>; Wang, J. et al. (2024) <doi:10.1080/24694452.2023.2289982>).
License: GPL-3
Encoding: UTF-8
URL: https://stscl.github.io/sshicm/, https://github.com/stscl/sshicm
BugReports: https://github.com/stscl/sshicm/issues
Depends: R (>= 4.1.0)
LinkingTo: Rcpp, RcppThread
Imports: dplyr, purrr, sdsfun (>= 0.5.0), sf
Suggests: gdverse, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-12-02 16:04:56 UTC; dell
Author: Wenbo Lv [aut, cre, cph]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-03 19:00:02 UTC

More information about sshicm at CRAN
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New package resourcecode with initial version 0.2.1
Package: resourcecode
Title: Access to the 'RESOURCECODE' Hindcast Database
Version: 0.2.1
Date: 2024-11-29
Description: Utility functions to download data from the 'RESOURCECODE' hindcast database of sea-states, time series of sea-state parameters and time series of 1D and 2D wave spectra. See <https://resourcecode.ifremer.fr> for more details about the available data. Also provides facilities to plot and analyse downloaded data, such as computing the sea-state parameters from both the 1D and 2D surface elevation variance spectral density.
License: GPL (>= 3)
URL: https://github.com/Resourcecode-project/r-resourcecode, https://resourcecode-project.github.io/r-resourcecode/
BugReports: https://github.com/Resourcecode-project/r-resourcecode/issues
Depends: R (>= 3.6)
Imports: abind, curl, geosphere, ggplot2, jsonlite, ncdf4, pracma, Rcpp, rlang, sf, stats, tibble, tidyr
Suggests: knitr, rmarkdown, resourcecodedata, testthat, vdiffr
LinkingTo: Rcpp, RcppArmadillo
VignetteBuilder: knitr
Additional_repositories: https://resourcecode-project.github.io/drat/
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: yes
Packaged: 2024-12-02 14:54:43 UTC; nraillar
Author: Nicolas Raillard [aut, cre]
Maintainer: Nicolas Raillard <nicolas.raillard@ifremer.fr>
Repository: CRAN
Date/Publication: 2024-12-03 19:00:05 UTC

More information about resourcecode at CRAN
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New package RCNA with initial version 1.0
Package: RCNA
Title: Robust Copy Number Alteration Detection (RCNA)
Version: 1.0
Description: Detects copy number alteration events in targeted exon sequencing data for tumor samples without matched normal controls. The advantage of this method is that it can be applied to smaller sequencing panels including evaluations of exon, transcript, gene, or even user specified genetic regions of interest. Functions in the package include steps for GC-content correction, calculation of quantile based normal karyotype ranges, and calculation of feature score. Cutoffs for "normal" quantile and score are user-adjustable.
Depends: R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
Imports: doParallel, methods, utils, modeest, data.table, foreach, R.utils
Suggests: knitr, rmarkdown, usethis
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-02 13:13:50 UTC; mbradley
Author: Matt Bradley [aut, cre]
Maintainer: Matt Bradley <mbradley@emmes.com>
Repository: CRAN
Date/Publication: 2024-12-03 18:40:06 UTC

More information about RCNA at CRAN
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New package messy with initial version 0.1.0
Package: messy
Title: Create Messy Data from Clean Data Frames
Version: 0.1.0
Description: For the purposes of teaching, it is often desirable to show examples of working with messy data and how to clean it. This R package creates messy data from clean, tidy data frames so that students have a clean example to work towards.
Depends: R (>= 4.1)
Imports: dplyr, rlang, stringr
License: CC BY 4.0
Suggests: lubridate, testthat (>= 3.0.0)
Encoding: UTF-8
URL: https://nrennie.rbind.io/messy/, https://github.com/nrennie/messy
BugReports: https://github.com/nrennie/messy/issues
NeedsCompilation: no
Packaged: 2024-12-02 13:54:12 UTC; rennien2
Author: Nicola Rennie [aut, cre, cph]
Maintainer: Nicola Rennie <nrennie35@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-03 18:50:02 UTC

More information about messy at CRAN
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Mon, 02 Dec 2024

New package gtfs2emis with initial version 0.1.1
Package: gtfs2emis
Title: Estimating Public Transport Emissions from General Transit Feed Specification (GTFS) Data
Version: 0.1.1
Description: A bottom up model to estimate the emission levels of public transport systems based on General Transit Feed Specification (GTFS) data. The package requires two main inputs: i) Public transport data in the GTFS standard format; and ii) Some basic information on fleet characteristics such as fleet age, technology, fuel and Euro stage. As it stands, the package estimates several pollutants at high spatial and temporal resolutions. Pollution levels can be calculated for specific transport routes, trips, time of the day or for the transport system as a whole. The output with emission estimates can be extracted in different formats, supporting analysis on how emission levels vary across space, time and by fleet characteristics. A full description of the methods used in the 'gtfs2emis' model is presented in Vieira, J. P. B.; Pereira, R. H. M.; Andrade, P. R. (2022) <doi:10.31219/osf.io/8m2cy>.
URL: https://ipeagit.github.io/gtfs2emis/ , https://github.com/ipeaGIT/gtfs2emis
BugReports: https://github.com/ipeaGIT/gtfs2emis/issues
License: MIT + file LICENSE
Depends: R (>= 3.6)
Imports: checkmate, data.table, furrr, future, gtfs2gps, methods, sf (>= 0.9-0), sfheaders, terra, units
Suggests: gtfstools, ggplot2, knitr, lwgeom, progressr, rmarkdown, testthat (>= 2.1.0)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-12-02 15:20:51 UTC; joao
Author: Joao Bazzo [aut, cre] , Rafael H. M. Pereira [aut] , Pedro R. Andrade [aut] , Sergio Ibarra-Espinosa [ctb] , Ipea - Institute for Applied Economic Research [cph, fnd]
Maintainer: Joao Bazzo <joao.bazzo@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-02 15:40:12 UTC

More information about gtfs2emis at CRAN
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New package atime with initial version 2024.11.29
Package: atime
Title: Asymptotic Timing
Version: 2024.11.29
Description: Computing and visualizing comparative asymptotic timings of different algorithms and code versions. Also includes functionality for comparing empirical timings with expected references such as linear or quadratic, <https://en.wikipedia.org/wiki/Asymptotic_computational_complexity> Also includes functionality for measuring asymptotic memory and other quantities.
License: GPL-3
URL: https://github.com/tdhock/atime
BugReports: https://github.com/tdhock/atime/issues
Imports: data.table, bench, lattice, git2r, utils, stats, grDevices
Suggests: directlabels, ggplot2, testthat, knitr, markdown, stringi, re2, binsegRcpp, wbs, fpop, changepoint, LOPART, cumstats, PeakSegDisk, callr, readr, dplyr, tidyr, nc, RColorBrewer, tibble, Matrix
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-12-02 14:59:47 UTC; hoct2726
Author: Toby Hocking [aut, cre]
Maintainer: Toby Hocking <toby.hocking@r-project.org>
Repository: CRAN
Date/Publication: 2024-12-02 15:40:21 UTC

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New package wdiEF with initial version 1.0.2
Package: wdiEF
Title: Calculation of the Water Deficit Index (WDI) and the Evaporative Fraction (EF) on Rasters
Version: 1.0.2
Description: Calculates the Water Deficit Index (WDI) and the Evaporative Fraction (EF) using geospatial data, such as fractional vegetation cover (FVC) and surface-air temperature difference (TS-TA). Terms like "raster", "CRS" are part of standard geospatial terminology.
License: GPL-3
Encoding: UTF-8
Imports: dplyr, stats, terra
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-12-01 14:55:12 UTC; hamelin
Author: Gaelle Hamelin [aut, cre]
Maintainer: Gaelle Hamelin <gaelle.hamelin@institut-agro.fr>
Repository: CRAN
Date/Publication: 2024-12-02 12:40:06 UTC

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New package twc with initial version 0.0.1
Package: twc
Title: Terrestrial Water Cycle
Version: 0.0.1
Description: An open-access tool/framework that constitutes the core functions to analyze terrestrial water cycle data across various spatio-temporal scales.
Depends: R (>= 4.0.0)
License: GPL-3
Encoding: UTF-8
Imports: data.table, doParallel, foreach, lubridate, magrittr, methods, ncdf4, parallel, raster, sf, sp,utils
URL: https://github.com/imarkonis/twc
BugReports: https://github.com/imarkonis/twc/issues
SystemRequirements: PROJ (>= 6, https://proj.org/download.html), GDAL (>= 3, https://gdal.org/download.html), NetCDF(>= 4, https://www.unidata.ucar.edu/software/netcdf/).
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-11-29 15:53:34 UTC; mirovago
Author: Mijael Rodrigo Vargas Godoy [aut, cre] , Yannis Markonis [aut]
Maintainer: Mijael Rodrigo Vargas Godoy <mirovago@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-02 12:40:31 UTC

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New package sffdr with initial version 1.0.0
Package: sffdr
Title: Surrogate Functional False Discovery Rates for Genome-Wide Association Studies
Version: 1.0.0
Maintainer: Andrew Bass <ab3105@cam.ac.uk>
Description: Pleiotropy-informed significance analysis of genome-wide association studies (GWAS) with surrogate functional false discovery rates (sfFDR). The sfFDR framework adapts the fFDR to leverage informative data from multiple sets of GWAS summary statistics to increase power in study while accommodating for linkage disequilibrium. sfFDR provides estimates of key FDR quantities in a significance analysis such as the functional local FDR and q-value, and uses these estimates to derive a functional p-value for type I error rate control and a functional local Bayes' factor for post-GWAS analyses (e.g., fine mapping and colocalization). The sfFDR framework is described in Bass and Wallace (2024) <doi:10.1101/2024.09.24.24314276>.
URL: https://github.com/ajbass/sffdr
License: LGPL
Encoding: UTF-8
VignetteBuilder: knitr
LazyData: true
Depends: R (>= 3.5.0)
Imports: locfit, splines, dplyr, ggplot2 (>= 3.5.1), patchwork (>= 1.3.0), gam, qvalue, tibble, tidyr, Rcpp
Suggests: testthat (>= 3.0.0), knitr, rmarkdown
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2024-11-29 14:22:57 UTC; andrewbass
Author: Andrew Bass [aut, cre], Chris Wallace [aut]
Repository: CRAN
Date/Publication: 2024-12-02 12:30:08 UTC

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New package scR with initial version 0.1.0
Package: scR
Title: Estimate Vapnik-Chervonenkis Dimension and Sample Complexity
Version: 0.1.0
Description: We provide a suite of tools for estimating the sample complexity of a chosen model through theoretical bounds and simulation. The package incorporates methods for estimating the Vapnik-Chervonenkis dimension (VCD) of a chosen algorithm, which can be used to estimate its sample complexity. Alternatively, we provide simulation methods to estimate sample complexity directly. For more details, see Carter, P & Choi, D (2024). "Learning from Noise: Applying Sample Complexity for Political Science Research" <doi:10.31219/osf.io/evrcj>.
Encoding: UTF-8
URL: https://github.com/pjesscarter/scR
BugReports: https://github.com/pjesscarter/scR/issues
Imports: parallel, pbapply, caret, dplyr, tidyr, ggplot2, plotly
Suggests: rmarkdown
Depends: R (>= 2.10)
LazyData: true
LazyDataCompression: xz
License: MIT + file LICENSE
NeedsCompilation: no
Packaged: 2024-11-29 10:31:52 UTC; pjc504
Author: Perry Carter [aut, cre] , Dahyun Choi [aut]
Maintainer: Perry Carter <pjc504@nyu.edu>
Repository: CRAN
Date/Publication: 2024-12-02 12:20:07 UTC

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New package SAKERNAS with initial version 0.1.0
Package: SAKERNAS
Title: A National Labor Force Survey of Indonesia
Version: 0.1.0
Author: Fadhlul Mubarak [aut, cre], Nurniswah [aut], Vinny Yuliani Sundara [aut], Arsyad Lubis [aut], Ahmad Syukron Prasaja [aut]
Maintainer: Fadhlul Mubarak <mubarakfadhlul@gmail.com>
Description: Surveys to collect employment data so as to obtain data estimates on the number of employed people, the number of unemployed, and other employment indicators.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Imports: readxl
NeedsCompilation: no
Packaged: 2024-11-29 22:29:32 UTC; HP
Repository: CRAN
Date/Publication: 2024-12-02 12:51:04 UTC

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New package RCMsize with initial version 1.0.0
Package: RCMsize
Title: Sample Size Calculation in Reversible Catalytic Models
Version: 1.0.0
Maintainer: Marcia Graca <marcia_da_graca@hotmail.com>
Description: Sample size and confidence interval calculations in reversible catalytic models, with applications in malaria research. Further details can be found in the paper by Sepúlveda and Drakeley (2015, <doi:10.1186/s12936-015-0661-z>).
License: GPL (>= 3)
Encoding: UTF-8
Imports: binom, stats
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, tools
URL: https://github.com/marciagraca/RCMsize , https://marciagraca.github.io/RCMsize/
BugReports: https://github.com/marciagraca/RCMsize/issues
NeedsCompilation: no
Packaged: 2024-11-29 16:29:42 UTC; Visitante
Author: Marcia Graca [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-12-02 12:41:41 UTC

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New package pipeflow with initial version 0.1.1
Package: pipeflow
Title: Implement Data Analysis Workflows with Pipelines
Version: 0.1.1
Description: A lightweight yet powerful framework for creating data analysis pipelines. You build your pipelines simply by defining a sequence of R functions and 'pipeflow' takes care of tracking dependencies among steps and managing all the analysis parameters. The framework is easy to get started with for the typical R user, but also provides advanced features to enable complex workflows.
License: GPL-3
Imports: data.table, jsonlite, lgr, methods, R6, stats, utils
Suggests: ggplot2, knitr, mockery, rmarkdown, testthat, visNetwork
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Maintainer: Roman Pahl <roman.pahl@gmail.com>
Packaged: 2024-12-01 12:41:00 UTC; Roman
Author: Roman Pahl [aut, cre]
Repository: CRAN
Date/Publication: 2024-12-02 12:40:56 UTC

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New package MEDesigns with initial version 1.0.0
Package: MEDesigns
Title: Mating Environmental Designs
Version: 1.0.0
Maintainer: Ashutosh Dalal <ashutosh.dalal97@gmail.com>
Description: In breeding experiments, mating environmental (ME) designs are very popular as mating designs are directly implemented in the field environment using block or row-column designs. Here, three functions are given related to three new methods which will generate mating diallel cross designs (Hinkelmann and Kempthorne, 1963<doi:10.2307/2333899>) or mating environmental (ME) designs along with design parameters, C matrix, eigenvalues (EVs), degree of fractionations (DF) and canonical efficiency factor (CEF). Another one function is added to check the properties of a given ME diallel cross design.
License: GPL (>= 2)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-30 13:09:06 UTC; Ashutosh
Author: Ashutosh Dalal [aut, cre], Cini Varghese [aut, ctb], Rajender Parsad [aut, ctb], Mohd Harun [aut, ctb]
Repository: CRAN
Date/Publication: 2024-12-02 12:31:07 UTC

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New package ldmppr with initial version 1.0.3
Package: ldmppr
Title: Estimate and Simulate from Location Dependent Marked Point Processes
Version: 1.0.3
Maintainer: Lane Drew <lanetdrew@gmail.com>
Description: A suite of tools for estimating, assessing model fit, simulating from, and visualizing location dependent marked point processes characterized by regularity in the pattern. You provide a reference marked point process, a set of raster images containing location specific covariates, and select the estimation algorithm and type of mark model. 'ldmppr' estimates the process and mark models and allows you to check the appropriateness of the model using a variety of diagnostic tools. Once a satisfactory model fit is obtained, you can simulate from the model and visualize the results. Documentation for the package 'ldmppr' is available in the form of a vignette.
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
Imports: Rcpp (>= 1.0.12), terra, doParallel, xgboost, ranger, parsnip, dials, bundle, recipes, rsample, tune, workflows, magrittr, hardhat, ggplot2, spatstat.geom, spatstat.explore, nloptr, GET, progress, dplyr, future, furrr, yardstick
LinkingTo: Rcpp, RcppArmadillo
URL: https://github.com/lanedrew/ldmppr
BugReports: https://github.com/lanedrew/ldmppr/issues
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
NeedsCompilation: yes
Packaged: 2024-11-29 19:39:14 UTC; lanedrew
Author: Lane Drew [aut, cre, cph] , Andee Kaplan [aut]
Repository: CRAN
Date/Publication: 2024-12-02 12:41:19 UTC

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New package ILRCM with initial version 0.1.0
Package: ILRCM
Title: Convert Irregular Longitudinal Data to Regular Intervals and Perform Clustering
Version: 0.1.0
Maintainer: Atanu Bhattacharjee <atanustat@gmail.com>
Description: Convert irregularly spaced longitudinal data into regular intervals for further analysis, and perform clustering using advanced machine learning techniques. The package is designed for handling complex longitudinal datasets, optimizing them for research in healthcare, demography, and other fields requiring temporal data modeling.
Imports: ggplot2, scales
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2024-11-29 23:11:06 UTC; Atanu Bhattacharjee
Author: Atanu Bhattacharjee [aut, cre, ctb], Tanmoy Majumdar [aut, ctb]
Repository: CRAN
Date/Publication: 2024-12-02 12:51:13 UTC

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New package IDLFM with initial version 0.0.1
Package: IDLFM
Title: Individual Dynamic Latent Factor Model
Version: 0.0.1
Maintainer: Siyang Liu <liusiyang.lucia@gmail.com>
Description: A personalized dynamic latent factor model (Zhang et al. (2024) <doi:10.1093/biomet/asae015>) for irregular multi-resolution time series data, to interpolate unsampled measurements from low-resolution time series.
Depends: R (>= 4.4.0)
Imports: stats, methods, splines, SparseArray
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-12-01 18:45:28 UTC; 24952
Author: Siyang Liu [aut, cre], Jiuchen Zhang [aut]
Repository: CRAN
Date/Publication: 2024-12-02 13:00:04 UTC

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New package gfoRmulaICE with initial version 0.1.0
Package: gfoRmulaICE
Title: Parametric Iterative Conditional Expectation G-Formula
Version: 0.1.0
Description: Implements iterative conditional expectation (ICE) estimators of the plug-in g-formula (Wen, Young, Robins, and Hernán (2020) <doi: 10.1111/biom.13321>). Both singly robust and doubly robust ICE estimators based on parametric models are available. The package can be used to estimate survival curves under sustained treatment strategies (interventions) using longitudinal data with time-varying treatments, time-varying confounders, censoring, and competing events. The interventions can be static or dynamic, and deterministic or stochastic (including threshold interventions). Both prespecified and user-defined interventions are available.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: data.table, ggplot2, nnet, doParallel, parallel, foreach, stringr, magrittr, dplyr, rlang, reshape2, speedglm, methods, Hmisc, splines
Suggests: testthat (>= 3.0.0)
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-12-01 17:39:16 UTC; carriecheng
Author: Zhaoxi Cheng [aut, cre], Jing Li [aut], Sophia Rein [aut], Ryan O'Dea [aut], Sean McGrath [aut], Lan Wen [aut], Miguel A. Hernan [aut], 2024 The President and Fellows of Harvard College [cph]
Maintainer: Zhaoxi Cheng <zcheng@hsph.harvard.edu>
Repository: CRAN
Date/Publication: 2024-12-02 12:50:08 UTC

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New package crimedatasets with initial version 0.1.0
Package: crimedatasets
Title: A Comprehensive Collection of Crime-Related Datasets
Version: 0.1.0
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
Description: A comprehensive collection of datasets exclusively focused on crimes, criminal activities, and related topics. This package serves as a valuable resource for researchers, analysts, and students interested in crime analysis, criminology, social and economic studies related to criminal behavior. Datasets span global and local contexts, with a mix of tabular and spatial data.
License: GPL-3
URL: https://github.com/lightbluetitan/crimedatasets
BugReports: https://github.com/lightbluetitan/crimedatasets/issues
Encoding: UTF-8
LazyData: true
Suggests: ggplot2, dplyr, knitr, rmarkdown, sf, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-29 19:56:52 UTC; renzocrossi
Author: Renzo Caceres Rossi [aut, cre]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-12-02 12:50:37 UTC

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New package orthGS with initial version 0.1.6
Package: orthGS
Title: Orthology vs Paralogy Relationships among Glutamine Synthetase from Plants
Version: 0.1.6
Description: Tools to analyze and infer orthology and paralogy relationships between glutamine synthetase proteins in seed plants.
License: GPL (>= 2)
Encoding: UTF-8
Depends: R (>= 4.0)
LazyData: true
Imports: ape, bio3d, castor, igraph, phangorn, phytools, seqinr, TreeTools
Suggests: BiocManager, Biostrings, knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-30 10:08:12 UTC; jcaledo
Author: Elena Aledo [aut, cre, cph], Juan-Carlos Aledo [aut]
Maintainer: Elena Aledo <elenaaledoesteban@gmail.com>
Repository: CRAN
Date/Publication: 2024-12-02 10:00:07 UTC

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New package antaresViz with initial version 0.18.3
Package: antaresViz
Title: Antares Visualizations
Version: 0.18.3
Description: Visualize results generated by Antares, a powerful open source software developed by RTE to simulate and study electric power systems (more information about 'Antares' here: <https://github.com/AntaresSimulatorTeam/Antares_Simulator>). This package provides functions that create interactive charts to help 'Antares' users visually explore the results of their simulations.
URL: https://github.com/rte-antares-rpackage/antaresViz
BugReports: https://github.com/rte-antares-rpackage/antaresViz/issues
License: GPL (>= 3)
Encoding: UTF-8
Depends: antaresRead (>= 2.2.9), antaresProcessing (>= 0.13.0), spMaps (>= 0.5.0)
Imports: dygraphs (>= 1.1.1.6), shiny (>= 0.13.0), plotly (>= 4.5.6), htmltools, htmlwidgets (>= 0.7.0), manipulateWidget (>= 0.10.0), leaflet (>= 1.1.0), sp (>= 2.0-0), sf, webshot, data.table, methods, lubridate, geojsonio, graphics, stats, leaflet.minicharts (>= 0.5.3), assertthat, rAmCharts, utils, lifecycle
Suggests: testthat, covr, ggplot2, knitr, visNetwork, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-29 14:01:10 UTC; berthetcle
Author: Tatiana Vargas [aut, cre], Jalal-Edine Zawam [ctb], Francois Guillem [ctb], Benoit Thieurmel [ctb], Titouan Robert [ctb], Paul Plessiez [ctb], Baptiste Seguinot [ctb], RTE [cph]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Repository: CRAN
Date/Publication: 2024-12-02 10:00:19 UTC

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Fri, 29 Nov 2024

New package vaccineff with initial version 1.0.0
Package: vaccineff
Title: Estimate Vaccine Effectiveness Based on Different Study Designs
Version: 1.0.0
Description: Provides tools for estimating vaccine effectiveness and related metrics. The 'vaccineff_data' class manages key features for preparing, visualizing, and organizing cohort data, as well as estimating vaccine effectiveness. The results and model performance are assessed using the 'vaccineff' class.
License: MIT + file LICENSE
URL: https://github.com/epiverse-trace/vaccineff, https://epiverse-trace.github.io/vaccineff/
BugReports: https://github.com/epiverse-trace/vaccineff/issues
Depends: R (>= 4.0.0)
Imports: checkmate, ggplot2, linelist, MatchIt, rlang, scales, stats, survival
Suggests: knitr, rmarkdown, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-28 15:34:19 UTC; dsquevedovega
Author: David Santiago Quevedo [aut] , Zulma M. Cucunuba [aut, cre] , International Development Research Center [fnd], Geraldine Gomez Millan [ctb] , Pratik Gupte [ctb] , Erika J Cantor [ctb] , Santiago Loaiza [ctb] , Jaime Pavlich-Mariscal [ctb] , Hugo Gru [...truncated...]
Maintainer: Zulma M. Cucunuba <tracelacdev@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-29 09:30:02 UTC

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New package STATcubeR with initial version 1.0.0
Package: STATcubeR
Title: R Interface for the 'STATcube' REST API and Open Government Data
Version: 1.0.0
Date: 2024-11-29
Description: Import data from the 'STATcube' REST API or from the open data portal of Statistics Austria. This package includes a client for API requests as well as parsing utilities for data which originates from 'STATcube'. Documentation about 'STATcubeR' is provided by several vignettes included in the package as well as on the public 'pkgdown' page at <https://statistikat.github.io/STATcubeR/>.
License: GPL (>= 2)
URL: https://statistikat.github.io/STATcubeR/, https://github.com/statistikat/STATcubeR
BugReports: https://github.com/statistikat/STATcubeR/issues
Depends: R (>= 3.5.0)
Imports: cli (>= 3.4.1), httr, jsonlite, pillar (>= 1.5.0), vctrs (>= 0.5.2)
Suggests: magrittr, spelling, data.tree, rappdirs, xml2, reactable, markdown
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2024-11-29 05:30:06 UTC; meindl
Author: Bernhard Meindl [ctb, cre], Alexander Kowarik [ctb] , Gregor de Cillia [aut]
Maintainer: Bernhard Meindl <Bernhard.Meindl@statistik.gv.at>
Repository: CRAN
Date/Publication: 2024-11-29 09:50:02 UTC

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New package PolisheR with initial version 1.0.0
Package: PolisheR
Title: Interfacing 'NaileR' with 'Shiny'
Version: 1.0.0
Description: A very small package for more convenient use of 'NaileR'. You provide a data set containing a latent variable you want to understand. It generates a description and an interpretation of this latent variable using a Large Language Model. For perceptual data, it describes the stimuli used in the experiment.
License: GPL (>= 2)
Encoding: UTF-8
Imports: dplyr, NaileR, shiny
Depends: R (>= 3.5.0)
Suggests: SensoMineR
NeedsCompilation: no
Packaged: 2024-11-28 13:10:28 UTC; sebastienle
Author: Sebastien Le [aut, cre]
Maintainer: Sebastien Le <sebastien.le@institut-agro.fr>
Repository: CRAN
Date/Publication: 2024-11-29 09:20:06 UTC

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New package PivotalP with initial version 0.1.2
Package: PivotalP
Title: Prediction for Future Data from Mixture Distributions Gamma, Beta, Weibull and Normal
Version: 0.1.2
Author: O. M. Khaled [aut], K. S. Khalil [aut, cre], M. H. Harby [aut]
Maintainer: K. S. Khalil <kekox38@gmail.com>
Description: Functions to get prediction intervals and prediction points of future observations from mixture distributions like gamma, beta, Weibull and normal.
License: GPL (>= 2)
Encoding: UTF-8
Imports: stats, zipfR
NeedsCompilation: no
Packaged: 2024-11-28 12:49:09 UTC; Karim
Repository: CRAN
Date/Publication: 2024-11-29 09:20:10 UTC

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New package PaRe with initial version 0.1.14
Package: PaRe
Title: A Way to Perform Code Review or QA on Other Packages
Version: 0.1.14
Language: en-US
Description: Reviews other packages during code review by looking at their dependencies, code style, code complexity, and how internally defined functions interact with one another.
URL: https://github.com/darwin-eu-dev/PaRe
BugReports: https://github.com/darwin-eu-dev/PaRe/issues
License: Apache License (>= 2)
Encoding: UTF-8
Imports: cli (>= 3.6.0), cyclocomp (>= 1.1.0), desc (>= 1.4.2), DiagrammeR (>= 1.0.9), DiagrammeRsvg (>= 0.1), dplyr (>= 1.1.0), glue (>= 1.6.2), lintr (>= 3.0.2), magrittr (>= 2.0.3), pak (>= 0.2.0), rmarkdown (>= 2.20), rsvg (>= 2.4.0), stringr (>= 1.5.0), igraph (>= 1.3.5), utils, R6 (>= 2.5.1), git2r (>= 0.31.0), checkmate (>= 2.1.0), parallel
Suggests: ggplot2, plotly, ggraph, DT, magick, withr, cowplot, knitr, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-28 15:02:16 UTC; mvankessel
Author: Maarten van Kessel [aut, cre]
Maintainer: Maarten van Kessel <m.l.vankessel@erasmusmc.nl>
Repository: CRAN
Date/Publication: 2024-11-29 09:30:10 UTC

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New package nzilbb.vowels with initial version 0.3.1
Package: nzilbb.vowels
Title: Vowel Covariation Tools
Version: 0.3.1
Description: Tools to support research on vowel covariation. Methods are provided to support Principal Component Analysis workflows (as in Brand et al. (2021) <doi:10.1016/j.wocn.2021.101096> and Wilson Black et al. (2023) <doi:10.1515/lingvan-2022-0086>).
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 4.1), patchwork
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), vdiffr
Imports: dplyr, ggplot2, magrittr, rlang, rstudioapi, tibble, tidyr, forcats, glue, purrr, tidyselect, rsample, stringr, ggrepel, gghalves, smacof, Rdpack, lifecycle
URL: https://nzilbb.github.io/nzilbb_vowels/, https://github.com/nzilbb/nzilbb_vowels
BugReports: https://github.com/nzilbb/nzilbb_vowels/issues/
NeedsCompilation: no
Packaged: 2024-11-28 21:13:09 UTC; jbl91
Author: Joshua Wilson Black [aut, cre, cph] , James Brand [aut]
Maintainer: Joshua Wilson Black <joshua@wilsonblack.nz>
Repository: CRAN
Date/Publication: 2024-11-29 09:40:03 UTC

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New package greta.censored with initial version 0.1.0
Package: greta.censored
Title: Censored Distributions for 'greta'
Version: 0.1.0
Description: Provides additional censored distributions for use with 'greta', a probabilistic programming framework for Bayesian modeling. Includes censored versions of Normal, Log-Normal, Student's T, Gamma, Exponential, Weibull, Pareto, and Beta distributions with support for right, left, and interval censoring. For details on 'greta', see Golding (2019) <doi:10.21105/joss.01601>. The methods are implemented using 'TensorFlow' and 'TensorFlow Probability' for efficient computation.
License: Apache License 2.0
URL: https://github.com/mtwesley/greta.censored
BugReports: https://github.com/mtwesley/greta.censored/issues
Depends: greta (>= 0.4.2), R (>= 3.1.0)
Imports: glue, reticulate, tensorflow (>= 2.7.0)
Suggests: devtools, VGAM, knitr, rmarkdown, testthat (>= 3.1.0), roxygen2, styler, pkgdown
Encoding: UTF-8
Language: en-GB
SystemRequirements: Python (>= 3.7.0) with header files and shared library; TensorFlow (>= v2.0.0; https://www.tensorflow.org/); TensorFlow Probability (v0.8.0; https://www.tensorflow.org/probability/)
NeedsCompilation: no
Packaged: 2024-11-28 15:02:55 UTC; mtwesley
Author: Mlen-Too Wesley [aut, cre]
Maintainer: Mlen-Too Wesley <mlen.too.wesley@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-29 09:30:06 UTC

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New package banditsCI with initial version 1.0.0
Package: banditsCI
Title: Bandit-Based Experiments and Policy Evaluation
Version: 1.0.0
Description: Frequentist inference on adaptively generated data. The methods implemented are based on Zhan et al. (2021) <doi:10.48550/arXiv.2106.02029> and Hadad et al. (2021) <doi:10.48550/arXiv.1911.02768>. For illustration, several functions for simulating non-contextual and contextual adaptive experiments using Thompson sampling are also supplied.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/UChicago-pol-methods/banditsCI, https://uchicago-pol-methods.github.io/banditsCI/
BugReports: https://github.com/UChicago-pol-methods/banditsCI/issues
Suggests: knitr (>= 1.43), rmarkdown (>= 2.23), testthat (>= 3.0.0)
Imports: glmnet (>= 4.1-6), MASS (>= 7.3-56), mvtnorm (>= 1.2-2), Rdpack (>= 2.6)
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2024-11-26 14:18:18 UTC; moffer
Author: Molly Offer-Westort [aut, cre, cph] , Yinghui Zhou [aut] , Ruohan Zhan [aut]
Maintainer: Molly Offer-Westort <mollyow@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-29 09:20:02 UTC

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Thu, 28 Nov 2024

New package rsofun with initial version 5.0.0
Package: rsofun
Title: The P-Model and BiomeE Modelling Framework
Version: 5.0.0
Description: Implements the Simulating Optimal FUNctioning framework for site-scale simulations of ecosystem processes, including model calibration. It contains 'Fortran 90' modules for the P-model (Stocker et al. (2020) <doi:10.5194/gmd-13-1545-2020>), SPLASH (Davis et al. (2017) <doi:10.5194/gmd-10-689-2017>) and BiomeE (Weng et al. (2015) <doi:10.5194/bg-12-2655-2015>).
URL: https://github.com/geco-bern/rsofun
BugReports: https://github.com/geco-bern/rsofun/issues
License: GPL-3
Depends: R (>= 4.1.0)
Imports: dplyr, purrr, tidyr, magrittr, GenSA, BayesianTools, multidplyr, stats, utils
LazyData: true
LazyDataCompression: xz
ByteCompile: true
NeedsCompilation: yes
Suggests: covr, rcmdcheck, testthat, rmarkdown, ggplot2, knitr, sensitivity
VignetteBuilder: knitr
Encoding: UTF-8
Packaged: 2024-11-28 13:06:16 UTC; mmarcadella
Author: Benjamin Stocker [aut, cre] , Koen Hufkens [aut] , Josefa Aran Paredes [aut] , Laura Marques [ctb] , Mayeul Marcadella [ctb] , Ensheng Weng [ctb] , Fabian Bernhard [aut] , Geocomputation and Earth Observation, University of Bern [cph, fnd]
Maintainer: Benjamin Stocker <benjamin.stocker@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-28 23:10:02 UTC

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New package TAD with initial version 1.0.0
Package: TAD
Title: Realize the Trait Abundance Distribution
Version: 1.0.0
Description: This analytical framework is based on an analysis of the shape of the trait abundance distributions to better understand community assembly processes, and predict community dynamics under environmental changes. This framework mobilized a study of the relationship between the moments describing the shape of the distributions: the skewness and the kurtosis (SKR). The SKR allows the identification of commonalities in the shape of trait distributions across contrasting communities. Derived from the SKR, we developed mathematical parameters that summarise the complex pattern of distributions by assessing (i) the R², (ii) the Y-intercept, (iii) the slope, (iv) the functional stability of community (TADstab), and, (v) the distance from specific distribution families (i.e., the distance from the skew-uniform family a limit to the highest degree of evenness: TADeve).
License: BSD_3_clause + file LICENSE
URL: https://forgemia.inra.fr/urep/data_processing/tad
BugReports: https://forgemia.inra.fr/urep/data_processing/tad/-/issues
Encoding: UTF-8
Depends: R (>= 3.5)
Imports: doFuture, foreach, mblm (>= 0.12), methods, stats
Suggests: Cairo, covr, dplyr, devtools, future (>= 1.33), ggplot2 (>= 3.5), ggpubr (>= 0.6), knitr, Matrix (>= 1.6), pkgdown, rlang, rmarkdown, roxygen2, testthat (>= 3.0), tinytex
Language: en-US
VignetteBuilder: knitr
LazyData: true
LazyDataCompression: bzip2
NeedsCompilation: no
Packaged: 2024-11-28 09:59:57 UTC; lain
Author: Nathan Rondeau [aut], Yoann Le Bagousse-Pinguet [aut] , Raphael Martin [aut] , Lain Pavot [aut, cre], Pierre Liancourt [aut] , Nicolas Gross [aut] , INRAe/UREP [cph]
Maintainer: Lain Pavot <lain.pavot@inrae.fr>
Repository: CRAN
Date/Publication: 2024-11-28 12:20:02 UTC

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New package qVarSel with initial version 1.1
Package: qVarSel
Title: Select Variables for Optimal Clustering
Version: 1.1
Date: 2024-11-24
Description: Finding hidden clusters in structured data can be hindered by the presence of masking variables. If not detected, masking variables are used to calculate the overall similarities between units, and therefore the cluster attribution is more imprecise. The algorithm q-vars implements an optimization method to find the variables that most separate units between clusters. In this way, masking variables can be discarded from the data frame and the clustering is more accurate. Tests can be found in Benati et al.(2017) <doi:10.1080/01605682.2017.1398206>.
License: GPL (>= 2)
Imports: Rcpp (>= 1.0.13), lpSolveAPI
Suggests: mclust
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2024-11-28 08:01:14 UTC; stefanobenati
Author: Stefano Benati [aut, cre]
Maintainer: Stefano Benati <stefano.benati@unitn.it>
Repository: CRAN
Date/Publication: 2024-11-28 12:10:02 UTC

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New package samplezoo with initial version 1.1.0
Package: samplezoo
Title: Generate Samples with a Variety of Probability Distributions
Version: 1.1.0
Maintainer: Nicholas Vietto <nicholasvietto@gmail.com>
Description: The 'samplezoo' package streamlines the process of generating samples from various probability distributions, enabling users to quickly create data frames for demonstrations, troubleshooting, or teaching. By prioritizing simplicity and efficiency,'samplezoo' reduces the need for repetitive code, making it particularly useful for beginners or anyone seeking to save time. The package implements standard methods for generating random samples from probability distributions commonly available in base R, with no specific external references. For more details, visit the package documentation.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
URL: https://github.com/nvietto/samplezoo, https://nvietto.github.io/samplezoo/
BugReports: https://github.com/nvietto/samplezoo/issues
NeedsCompilation: no
Packaged: 2024-11-27 16:30:58 UTC; nicholasvietto
Author: Nicholas Vietto [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-28 11:40:03 UTC

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New package saeHB.twofold with initial version 0.1.2
Package: saeHB.twofold
Title: Hierarchical Bayes Twofold Subarea Level Model SAE
Version: 0.1.2
Maintainer: Reyhan Saadi <reyhansaadi335@gmail.com>
Description: We designed this package to provides several functions for area and subarea level of small area estimation under Twofold Subarea Level Model using hierarchical Bayesian (HB) method with Univariate Normal distribution for variables of interest. Some dataset simulated by a data generation are also provided. The 'rjags' package is employed to obtain parameter estimates using Gibbs Sampling algorithm. Model-based estimators involves the HB estimators which include the mean, the variation of mean, and the quantile. For the reference, see Rao and Molina (2015) <doi:10.1002/9781118735855>, Torabi and Rao (2014) <doi:10.1016/j.jmva.2014.02.001>, Leyla Mohadjer et al.(2007) <http://www.asasrms.org/Proceedings/y2007/Files/JSM2007-000559.pdf>, and Erciulescu et al.(2019) <doi:10.1111/rssa.12390>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Imports: rjags, coda, stringr, stats, grDevices, graphics, data.table, utils
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
SystemRequirements: JAGS (http://mcmc-jags.sourceforge.net)
VignetteBuilder: knitr
URL: https://github.com/reymath99/saeHB.twofold
BugReports: https://github.com/reymath99/saeHB.twofold/issues
NeedsCompilation: no
Packaged: 2024-11-27 10:39:18 UTC; USER10
Author: Reyhan Saadi [aut, cre], Azka Ubaidillah [aut]
Repository: CRAN
Date/Publication: 2024-11-28 11:20:03 UTC

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New package LLIC with initial version 3.0.0
Package: LLIC
Title: Likelihood Criterion (LIC) Analysis for Laplace Regression Model
Version: 3.0.0
Date: 2024-11-23
Description: Performs likelihood criterion analysis using the Laplace regression model to determine its optimal subset of variables. The methodology is based on Guo et al. (2023), LIC criterion for optimal subset selection in distributed interval estimation <doi:10.1080/02331888.2020.1823979>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: stats, VGAM, dplyr, LaplacesDemon, relliptical, ggplot2, rlang
NeedsCompilation: no
Packaged: 2024-11-23 10:48:14 UTC; Lenovo
Author: Guangbao Guo [aut, cre], Yaxuan Wang [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-11-28 12:00:02 UTC

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New package interpret with initial version 0.1.34
Package: interpret
Title: Fit Interpretable Machine Learning Models
Version: 0.1.34
Date: 2024-11-28
Description: Package for training interpretable machine learning models. Historically, the most interpretable machine learning models were not very accurate, and the most accurate models were not very interpretable. Microsoft Research has developed an algorithm called the Explainable Boosting Machine (EBM) which has both high accuracy and interpretable characteristics. EBM uses machine learning techniques like bagging and boosting to breathe new life into traditional GAMs (Generalized Additive Models). This makes them as accurate as random forests and gradient boosted trees, and also enhances their intelligibility and editability. Details on the EBM algorithm can be found in the paper by Rich Caruana, Yin Lou, Johannes Gehrke, Paul Koch, Marc Sturm, and Noemie Elhadad (2015, <doi:10.1145/2783258.2788613>).
URL: https://github.com/interpretml/interpret
BugReports: https://github.com/interpretml/interpret/issues
License: MIT + file LICENSE
Depends: R (>= 3.0.0)
NeedsCompilation: yes
SystemRequirements: C++17
Packaged: 2024-11-28 10:45:55 UTC; runner
Author: Samuel Jenkins [aut], Harsha Nori [aut], Paul Koch [aut], Rich Caruana [aut, cre], The InterpretML Contributors [cph]
Maintainer: Rich Caruana <interpretml@outlook.com>
Repository: CRAN
Date/Publication: 2024-11-28 11:40:08 UTC

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New package HTSeedGLM with initial version 0.1.0
Package: HTSeedGLM
Title: Hydro Thermal Time Analysis of Seed Germination Using Generalised Linear Model
Description: Seed germinates through the physical process of water uptake by dry seed driven by the difference in water potential between the seed and the water. There exists seed-to-seed variability in the base seed water potential. Hence, there is a need for a distribution such that a viable seed with its base seed water potential germinates if and only if the soil water potential is more than the base seed water potential. This package estimates the stress tolerance and uniformity parameters of the seed lot for germination under various temperatures by using the hydro-time model of counts of germinated seeds under various water potentials. The distribution of base seed water potential has been considered to follow Normal, Logistic and Extreme value distribution. The estimated proportion of germinated seeds along with the estimates of stress and uniformity parameters are obtained using a generalised linear model. The significance test of the above parameters for within and between temperatures is [...truncated...]
Author: Dr. Himadri Ghosh [aut, cre], Mr. Saikath Das [aut], Dr. Debopam Rakshit [aut]
Maintainer: Dr. Himadri Ghosh <hghosh@gmail.com>
Imports: stats
Version: 0.1.0
Encoding: UTF-8
License: GPL-3
NeedsCompilation: no
Packaged: 2024-11-27 14:50:58 UTC; Debopam
Repository: CRAN
Date/Publication: 2024-11-28 11:30:21 UTC

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New package epiparameterDB with initial version 0.1.0
Package: epiparameterDB
Title: Database of Epidemiological Parameters
Version: 0.1.0
Description: A data package containing a database of epidemiological parameters. It stores the data for the 'epiparameter' R package. Epidemiological parameter estimates are extracted from the literature.
License: CC0
URL: https://github.com/epiverse-trace/epiparameterDB/
BugReports: https://github.com/epiverse-trace/epiparameterDB/issues
Depends: R (>= 4.0.0)
Suggests: DT, jsonlite, knitr, rmarkdown, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-GB
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-27 15:57:54 UTC; lshjl15
Author: Joshua W. Lambert [cre, aut, cph] , Adam Kucharski [aut] , Carmen Tamayo [aut]
Maintainer: Joshua W. Lambert <joshua.lambert@lshtm.ac.uk>
Repository: CRAN
Date/Publication: 2024-11-28 11:40:11 UTC

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New package bayeslist with initial version 0.0.1.4
Package: bayeslist
Title: Bayesian Analysis of List Experiments with Prior Information
Version: 0.0.1.4
Author: Xiao Lu [aut, cre], Richard Traunmueller [aut]
Maintainer: Xiao Lu <xiao.lu.research@gmail.com>
Description: Estimates Bayesian models of list experiments with informative priors. It includes functionalities to estimate different types of list experiment models with varying prior information. See Lu and Traunmüller (2021) <doi:10.2139/ssrn.3871089> for examples and details of estimation.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Biarch: true
Depends: R (>= 3.5.0)
Imports: methods, Formula, Rcpp (>= 0.12.0), rstan (>= 2.18.1), rstantools (>= 2.1.1), ggplot2 (>= 3.3.3)
LinkingTo: BH (>= 1.66.0), Rcpp (>= 0.12.0), RcppEigen (>= 0.3.3.3.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), StanHeaders (>= 2.18.0)
SystemRequirements: GNU make
NeedsCompilation: yes
Packaged: 2024-11-27 15:23:45 UTC; xiao
Repository: CRAN
Date/Publication: 2024-11-28 11:30:05 UTC

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Wed, 27 Nov 2024

New package OmopViewer with initial version 0.2.0
Package: OmopViewer
Title: Visualise OMOP Results using 'shiny' Applications
Version: 0.2.0
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Description: Visualise results obtained from analysing data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model using 'shiny' applications.
License: Apache License (>= 2)
Encoding: UTF-8
URL: https://ohdsi.github.io/OmopViewer/
Depends: R (>= 2.10)
Imports: bslib, cli, dplyr, DT, glue, gt, lifecycle, markdown, omopgenerics (>= 0.4.0), purrr, rlang, shiny, snakecase, stringr, styler, tidyr, usethis, visOmopResults (>= 0.5.0), yaml
Suggests: CDMConnector, CodelistGenerator (>= 3.2.0), CohortCharacteristics (>= 0.3.0), CohortConstructor, DiagrammeR, DrugUtilisation (>= 0.7.1), duckdb, ggplot2, here, htmlwidgets, IncidencePrevalence (>= 0.8.0), knitr, omock (>= 0.3.0), OmopSketch, PatientProfiles, plotly, rmarkdown, RPostgres, shinycssloaders, shinyWidgets, sortable, testthat (>= 3.1.5), utils, webshot2, zip
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-27 20:12:14 UTC; martics
Author: Marti Catala [aut, cre] , Yuchen Guo [aut] , Edward Burn [ctb] , Nuria Mercade-Besora [ctb] , Elin Rowlands [ctb] , Cecilia Campanile [ctb]
Repository: CRAN
Date/Publication: 2024-11-27 23:20:09 UTC

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New package antaresProcessing with initial version 0.18.3
Package: antaresProcessing
Title: 'Antares' Results Processing
Version: 0.18.3
Description: Process results generated by 'Antares', a powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems (more information about 'Antares' here: <https://github.com/AntaresSimulatorTeam/Antares_Simulator>). This package provides functions to create new columns like net load, load factors, upward and downward margins or to compute aggregated statistics like economic surpluses of consumers, producers and sectors.
URL: https://github.com/rte-antares-rpackage/antaresProcessing
BugReports: https://github.com/rte-antares-rpackage/antaresProcessing/issues
License: GPL (>= 3)
Depends: antaresRead (>= 1.1.5)
Imports: data.table, methods, stats
Suggests: parallel, testthat, knitr, rmarkdown, covr
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-27 09:11:16 UTC; berthetcle
Author: Tatiana Vargas [aut, cre], Jalal-Edine ZAWAM [ctb], Francois Guillem [ctb], Benoit Thieurmel [ctb], Titouan Robert [ctb], RTE [cph]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Repository: CRAN
Date/Publication: 2024-11-27 13:20:11 UTC

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New package VICatMix with initial version 1.0
Package: VICatMix
Title: Variational Mixture Models for Clustering Categorical Data
Version: 1.0
Date: 2024-11-25
Maintainer: Jackie Rao <jackie.rao@mrc-bsu.cam.ac.uk>
Description: A variational Bayesian finite mixture model for the clustering of categorical data, and can implement variable selection and semi-supervised outcome guiding if desired. Incorporates an option to perform model averaging over multiple initialisations to reduce the effects of local optima and improve the automatic estimation of the true number of clusters. For further details, see the paper by Rao and Kirk (2024) <doi:10.48550/arXiv.2406.16227>.
License: GPL (>= 3)
URL: https://github.com/j-ackierao/VICatMix
BugReports: https://github.com/j-ackierao/VICatMix/issues
Imports: klaR, matrixStats, mcclust, Rcpp, stats, gtools
Suggests: doParallel, doRNG, foreach, parallel
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
Depends: R (>= 2.10)
NeedsCompilation: yes
Packaged: 2024-11-26 15:24:01 UTC; jackie
Author: Jackie Rao [aut, cre], Paul D.W Kirk [ths], Sara Wade [ctb], Colin Starr [ctb], John Maddock [cph] .)
Repository: CRAN
Date/Publication: 2024-11-27 12:40:06 UTC

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New package strata with initial version 1.0.1
Package: strata
Title: Simple Framework for Simple Automation
Version: 1.0.1
Description: A tool suite for building project frameworks for users with access to only the most basic of automation tools.
License: MIT + file LICENSE
URL: https://github.com/asenetcky/strata, https://asenetcky.github.io/strata/
BugReports: https://github.com/asenetcky/strata/issues
Imports: checkmate (>= 2.3.2), dplyr (>= 1.1.0), fs (>= 1.6.4), glue (>= 1.8.0), lifecycle (>= 1.0.0), purrr (>= 1.0.2), readr (>= 2.0.0), rlang (>= 1.1.4), stringr (>= 1.5.1), tibble (>= 3.2.1)
Suggests: testthat (>= 3.0.0)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-22 19:02:52 UTC; alex
Author: Alexander Senetcky [aut, cre, cph]
Maintainer: Alexander Senetcky <asenetcky@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-27 13:00:02 UTC

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New package fastVoteR with initial version 0.0.1
Package: fastVoteR
Title: Efficient Voting Methods for Committee Selection
Version: 0.0.1
Description: A fast 'Rcpp'-based implementation of polynomially-computable voting theory methods for committee ranking and scoring. The package includes methods such as Approval Voting (AV), Satisfaction Approval Voting (SAV), sequential Proportional Approval Voting (PAV), and sequential Phragmen's Rule. Weighted variants of these methods are also provided, allowing for differential voter influence.
License: LGPL (>= 3)
URL: https://bblodfon.github.io/fastVoteR/
Imports: checkmate, data.table, Rcpp
Suggests: mlr3misc (>= 0.15.1), testthat (>= 3.0.0)
LinkingTo: Rcpp
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2024-11-26 15:25:04 UTC; john
Author: John Zobolas [cre, aut] , Anne-Marie George [ctb]
Maintainer: John Zobolas <bblodfon@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-27 12:40:02 UTC

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New package evolved with initial version 1.0.0
Package: evolved
Title: Open Software for Teaching Evolutionary Biology at Multiple Scales Through Virtual Inquiries
Version: 1.0.0
Description: "Evolutionary Virtual Education" - 'evolved' - provides multiple tools to help educators (especially at the graduate level or in advanced undergraduate level courses) apply inquiry-based learning in general evolution classes. In particular, the tools provided include functions that simulate evolutionary processes (e.g., genetic drift, natural selection within a single locus) or concepts (e.g. Hardy-Weinberg equilibrium, phylogenetic distribution of traits). More than only simulating, the package also provides tools for students to analyze (e.g., measuring, testing, visualizing) datasets with characteristics that are common to many fields related to evolutionary biology. Importantly, the package is heavily oriented towards providing tools for inquiry-based learning - where students follow scientific practices to actively construct knowledge. For additional details, see package's vignettes.
License: GPL (>= 3)
Encoding: UTF-8
Imports: ape, diversitree, phytools
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), LSD, paleobioDB, BAMMtools, plot3D
Depends: R (>= 2.10)
LazyData: true
VignetteBuilder: knitr
URL: <https://github.com/Auler-J/evolved>
BugReports: https://github.com/Auler-J/evolved/issues
NeedsCompilation: no
Packaged: 2024-11-26 15:47:16 UTC; matheus
Author: Matheus Januario [aut, cph, cre] , Jennifer Auler [aut] , Andressa Viol [aut], Daniel Rabosky [aut]
Maintainer: Matheus Januario <januarioml.eco@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-27 12:50:02 UTC

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New package DiscreteFWER with initial version 1.0.0
Package: DiscreteFWER
Title: FWER-Based Multiple Testing Procedures with Adaptation for Discrete Tests
Version: 1.0.0
Date: 2024-11-26
Description: Implementations of several multiple testing procedures that control the family-wise error rate (FWER) designed specifically for discrete tests. Included are discrete adaptations of the Bonferroni, Holm, Hochberg and Šidák procedures as described in the papers Döhler (2010) "Validation of credit default probabilities using multiple-testing procedures" <doi:10.21314/JRMV.2010.062> and Zhu & Guo (2019) "Family-Wise Error Rate Controlling Procedures for Discrete Data" <doi:10.1080/19466315.2019.1654912>. The main procedures of this package take as input the results of a test procedure from package 'DiscreteTests' or a set of observed p-values and their discrete support under their nulls. A shortcut function to apply discrete procedures directly to data is also provided.
License: GPL (>= 2)
Language: en-GB
Encoding: UTF-8
Depends: R (>= 4.0)
Imports: Rcpp (>= 1.0.13), checkmate, DiscreteFDR (>= 2.0.0)
LinkingTo: Rcpp, RcppArmadillo
Suggests: DiscreteDatasets, DiscreteTests (>= 0.2.1)
URL: https://github.com/DISOhda/DiscreteFWER
BugReports: https://github.com/DISOhda/DiscreteFWER/issues
NeedsCompilation: yes
Packaged: 2024-11-26 19:49:39 UTC; fjunge
Author: Sebastian Doehler [aut, ctb] , Florian Junge [aut, ctb, cre]
Maintainer: Florian Junge <diso.fbmn@h-da.de>
Repository: CRAN
Date/Publication: 2024-11-27 13:00:05 UTC

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New package autoslider.core with initial version 0.1.0
Package: autoslider.core
Title: Slide Automation for Tables, Listings and Figures
Version: 0.1.0
Description: The normal process of creating clinical study slides is that a statistician manually type in the numbers from outputs and a separate statistician to double check the typed in numbers. This process is time consuming, resource intensive, and error prone. Automatic slide generation is a solution to address these issues. It reduces the amount of work and the required time when creating slides, and reduces the risk of errors from manually typing or copying numbers from the output to slides. It also helps users to avoid unnecessary stress when creating large amounts of slide decks in a short time window.
License: Apache License 2.0
URL: https://github.com/insightsengineering/autoslider.core
BugReports: https://github.com/insightsengineering/autoslider.core/issues
Depends: flextable (>= 0.9.4), officer (>= 0.3.18), R (>= 2.10)
Imports: assertthat, checkmate, cli, dplyr, filters (>= 0.3.1), forcats, formatters (>= 0.5.9), ggplot2, ggpubr, glue, googlesheets4, grid, gridExtra, lubridate, magrittr, methods, purrr, readxl, rlang, rlistings (>= 0.2.9), rtables (>= 0.6.10), rvg (>= 0.2.5), stringr, survival, tern (>= 0.9.6), tidyr, yaml
Suggests: devtools, googledrive, htmltools, httr, knitr, mime, nestcolor, rmarkdown (>= 2.23), rsvg, styler (>= 1.10.2), svglite (>= 2.1.2), testthat (>= 3.2.0), withr
Encoding: UTF-8
Language: en-US
LazyData: true
LazyDataCompression: xz
NeedsCompilation: no
Packaged: 2024-11-26 17:01:59 UTC; rstudio
Author: Joe Zhu [cre, aut], Heng Wang [aut], Yinqi Zhao [aut], Bo Ci [aut], Liming Li [aut], Laura Wang [ctb], Xiaoli Duan [aut], Stefan Pascal Thoma [aut], Thomas Neitmann [ctb], Miles Almond [aut], Mahdi About [ctb], Kai Lim [ctb], Nolan Steed [ctb], Daoli [...truncated...]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Repository: CRAN
Date/Publication: 2024-11-27 12:50:06 UTC

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Tue, 26 Nov 2024

New package MultiTraits with initial version 0.1.0
Package: MultiTraits
Title: Analyzing and Visualizing Multidimensional Plant Traits
Version: 0.1.0
Date: 2024-11-25
Maintainer: Yan He <heyan@njfu.edu.cn>
Description: Implements analytical methods for multidimensional plant traits, including Competitors-Stress tolerators-Ruderals strategy analysis using leaf traits, Leaf-Height-Seed strategy analysis, Niche Periodicity Table analysis, and Trait Network analysis. Provides functions for data analysis, visualization, and network metrics calculation. Methods are based on Grime (1974) <doi:10.1038/250026a0>, Pierce et al. (2017) <doi:10.1111/1365-2435.12882>, Westoby (1998) <doi:10.1023/A:1004327224729>, Yang et al. (2022) <doi:10.1016/j.foreco.2022.120540>, Winemiller et al. (2015) <doi:10.1111/ele.12462>, He et al. (2020) <doi:10.1016/j.tree.2020.06.003>.
Imports: ggtern,igraph,Hmisc,corrplot,scatterplot3d,vegan,ggrepel
Depends: R (>= 4.0.0), ggplot2
Suggests: knitr,rmarkdown,testthat (>= 3.0.0),devtools
License: GPL-3
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-26 13:53:13 UTC; Administrator
Author: Yan He [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-26 14:40:02 UTC

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New package DIRMR with initial version 0.5.0
Package: DIRMR
Version: 0.5.0
Date: 2024-11-22
Title: Distributed Imputation for Random Effects Models with Missing Responses
Description: By adding over-relaxation factor to PXEM (Parameter Expanded Expectation Maximization) method, the MOPXEM (Monotonically Overrelaxed Parameter Expanded Expectation Maximization) method is obtained. Compare it with the existing EM (Expectation-Maximization)-like methods. Then, distribute and process five methods and compare them, achieving good performance in convergence speed and result quality.The philosophy of the package is described in Guo G. (2022) <doi:10.1007/s00180-022-01270-z>.
License: GPL-2
Imports: MASS,lava,mvtnorm
Encoding: UTF-8
NeedsCompilation: no
Author: Guangbao Guo [aut, cre] , Yaping Li [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Repository: CRAN
Packaged: 2024-11-25 12:13:49 UTC; A
Depends: R (>= 3.5.0)
Date/Publication: 2024-11-26 14:10:02 UTC

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New package tern.rbmi with initial version 0.1.4
Package: tern.rbmi
Title: Create Interface for 'RBMI' and 'tern'
Version: 0.1.4
Date: 2024-11-18
Description: 'RBMI' implements standard and reference based multiple imputation methods for continuous longitudinal endpoints (Gower-Page et al. (2022) <doi:10.21105/joss.04251>). This package provides an interface for 'RBMI' uses the 'tern' <https://cran.r-project.org/package=tern> framework by Zhu et al. (2023) and tabulate results easily using 'rtables' <https://cran.r-project.org/package=rtables> by Becker et al. (2023).
License: Apache License 2.0
URL: https://github.com/insightsengineering/tern.rbmi, https://insightsengineering.github.io/tern.rbmi/
BugReports: https://github.com/insightsengineering/tern.rbmi/issues
Depends: R (>= 3.6), rbmi (>= 1.2.5), tern (>= 0.9.4)
Imports: broom (>= 0.5.4), checkmate (>= 2.1.0), formatters (>= 0.5.6), lifecycle (>= 0.2.0), magrittr (>= 1.5), rtables (>= 0.6.7)
Suggests: BH, dplyr (>= 1.0.3), knitr (>= 1.42), Matrix, RcppEigen, rmarkdown (>= 2.23), rstan, testthat (>= 3.0.4), tidyr (>= 0.8.3)
VignetteBuilder: knitr, rmarkdown
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-25 15:37:40 UTC; rstudio
Author: Joe Zhu [aut, cre], Jana Stoilova [aut], F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Repository: CRAN
Date/Publication: 2024-11-26 12:50:02 UTC

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New package SUSENAS with initial version 0.1.0
Package: SUSENAS
Title: National Socio-Economic Survey Data Collection Indonesia
Version: 0.1.0
Author: Fadhlul Mubarak [aut, cre], Nurniswah [aut], Vinny Yuliani Sundara [aut], Yusma Damayanti [aut], Ahmad Syukron Prasaja [aut]
Maintainer: Fadhlul Mubarak <mubarakfadhlul@gmail.com>
Description: Survey to collect data about the social and economic conditions of Indonesian society. This activity aims to include: As a data source for planning and evaluating national, sectoral development programs, and providing indicators for Sustainable Development Goals (TPB), National Medium Term Development Plan (RPJMN), and Nawacita, GDP/GRDP and annual Integrated Institutional Balance Sheet.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
Imports: readxl
NeedsCompilation: no
Packaged: 2024-11-25 05:07:01 UTC; HP
Repository: CRAN
Date/Publication: 2024-11-26 12:40:02 UTC

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New package SMNlmec with initial version 0.1.0
Package: SMNlmec
Title: Scale Mixture of Normal Distribution in Linear Mixed-Effects Model
Version: 0.1.0
Maintainer: Kelin Zhong <kelin.zhong@uconn.edu>
Description: Bayesian analysis of censored linear mixed-effects models that replace Gaussian assumptions with a flexible class of distributions, such as the scale mixture of normal family distributions, considering a damped exponential correlation structure which was employed to account for within-subject autocorrelation among irregularly observed measures. For more details, see Zhong et al. (2025, forthcoming in Statistics in Medicine).
Depends: R (>= 4.2)
Imports: rstan (>= 2.26.23), StanHeaders (>= 2.26.28), MASS (>= 7.3-60), tmvtnorm (>= 1.5), mvtnorm (>= 1.2-3), mnormt (>= 2.1.1), methods, stats, LaplacesDemon (>= 16.1.6), TruncatedNormal (>= 2.2.2), numDeriv (>= 2016.8-1.1)
URL: https://github.com/KelinZhong/SMNlmec
BugReports: https://github.com/KelinZhong/SMNlmec/issues
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-25 14:10:55 UTC; Colin
Author: Kelin Zhong [aut, cre], Fernanda L. Schumacher [aut], Luis M. Castro [aut], Victor H. Lachos [aut], Jalmar M.F. Carrasco [aut]
Repository: CRAN
Date/Publication: 2024-11-26 12:50:06 UTC

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New package RMFM with initial version 1.1.0
Package: RMFM
Title: Robust Matrix Factor Model
Version: 1.1.0
Date: 2024-11-23
Author: Wei Liu [aut, cre]
Maintainer: Wei Liu <liuwei8@scu.edu.cn>
Description: We introduce a robust matrix factor model that explicitly incorporates tail behavior and employs a mean-shift term to avoid efficiency losses through pre-centering of observed matrices. More details on the methods related to our paper are currently under submission. A full reference to the paper will be provided in future versions once the paper is published.
License: GPL-3
Depends: irlba, R (>= 3.5.0)
Imports: stats, LaplacesDemon, MixMatrix, COAP, Rcpp (>= 1.0.10)
Suggests: knitr, rmarkdown
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2024-11-25 12:23:13 UTC; 10297
Repository: CRAN
Date/Publication: 2024-11-26 12:50:09 UTC

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New package PurpleAirAPI with initial version 0.1.0
Package: PurpleAirAPI
Title: Historical Data Retrieval from 'PurpleAir' Sensors via API
Version: 0.1.0
Description: Provides tools for retrieving and analyzing air quality data from 'PurpleAir' sensors through their API. Functions enable downloading historical measurements, accessing sensor metadata, and managing API request limitations through chunked data retrieval. For more information about the 'PurpleAir' API, see <https://api.purpleair.com/>.
License: MIT + file LICENSE
URL: https://github.com/heba-razzak/PurpleAirAPI
Imports: httr, jsonlite
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-25 05:10:58 UTC; heba
Author: Heba Abdelrazzak [aut, cre]
Maintainer: Heba Abdelrazzak <hebaarazzak@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-26 12:40:05 UTC

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New package PGaGEV with initial version 0.1.0
Package: PGaGEV
Title: Power Garima-Generalized Extreme Value Distribution
Version: 0.1.0
Language: en-US
Maintainer: Kittipong Klinjan <kittipong_k@rmutt.ac.th>
Description: Density, distribution function, quantile function, and random generation function based on Kittipong Klinjan,Tipat Sottiwan and Sirinapa Aryuyuen (2024)<DOI:10.28919/cmbn/8833>.
License: GPL-3
Encoding: UTF-8
Imports: LambertW,stats
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-11-25 04:00:26 UTC; ThinkPad X1
Author: Kittipong Klinjan [cre, aut], Tipat Sottiwan [aut], Sirinapa Aryuyuen [aut]
Repository: CRAN
Date/Publication: 2024-11-26 12:40:08 UTC

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Mon, 25 Nov 2024

New package scatterbar with initial version 0.1.0
Package: scatterbar
Title: Scattered Stacked Bar Chart Plots
Version: 0.1.0
Imports: magrittr, dplyr, tidyr, ggplot2
URL: https://github.com/JEFworks-Lab/scatterbar, http://jef.works/scatterbar/
BugReports: https://github.com/JEFworks-Lab/scatterbar/issues
Description: Provides a powerful and flexible tool for visualizing proportional data across spatially resolved contexts. By combining the concepts of scatter plots and stacked bar charts, 'scatterbar' allows users to create scattered bar chart plots, which effectively display the proportions of different categories at each (x, y) location. This visualization is particularly useful for applications where understanding the distribution of categories across spatial coordinates is essential. This package features automatic determination of optimal scaling factors based on data, customizable scaling and padding options for both x and y axes, flexibility to specify custom colors for each category, options to customize the legend title, and integration with 'ggplot2' for robust and high-quality visualizations. For more details, see Velazquez et al. (2024) <doi:10.1101/2024.08.14.606810>.
License: GPL-3
Encoding: UTF-8
LazyData: FALSE
Depends: R (>= 3.5.0)
Suggests: knitr, rmarkdown, patchwork
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-22 22:47:37 UTC; deev
Author: Dee Velazquez [aut, cre] , Jean Fan [aut, rev]
Maintainer: Dee Velazquez <dvelazq5@jhu.edu>
Repository: CRAN
Date/Publication: 2024-11-25 11:50:02 UTC

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New package MaxWiK with initial version 1.0.5
Package: MaxWiK
Title: Machine Learning Method Based on Isolation Kernel Mean Embedding
Version: 1.0.5
Description: Incorporates Approximate Bayesian Computation to get a posterior distribution and to select a model optimal parameter for an observation point. Additionally, the meta-sampling heuristic algorithm is realized for parameter estimation, which requires no model runs and is dimension-independent. A sampling scheme is also presented that allows model runs and uses the meta-sampling for point generation. A predictor is realized as the meta-sampling for the model output. All the algorithms leverage a machine learning method utilizing the maxima weighted Isolation Kernel approach, or 'MaxWiK'. The method involves transforming raw data to a Hilbert space (mapping) and measuring the similarity between simulated points and the maxima weighted Isolation Kernel mapping corresponding to the observation point. Comprehensive details of the methodology can be found in the papers Iurii Nagornov (2024) <doi:10.1007/978-3-031-66431-1_16> and Iurii Nagornov (2023) <doi:10.1007/978-3-031-29168-5_18& [...truncated...]
License: GPL (>= 3)
Depends: R (>= 3.3.0)
Imports: methods, stats, utils, scales, parallel, abc, ggplot2
Suggests: rmarkdown, knitr
Encoding: UTF-8
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-22 22:13:56 UTC; nagornov
Author: Yuri Nagornov [aut, cre, cph]
Maintainer: Yuri Nagornov <nagornov.yuri@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-25 11:40:13 UTC

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New package ecostate with initial version 0.2.0
Package: ecostate
Title: State-Space Mass-Balance Model for Marine Ecosystems
Version: 0.2.0
Date: 2024-11-15
Maintainer: James T. Thorson <James.Thorson@noaa.gov>
Description: Fits a state-space mass-balance model for marine ecosystems, which implements dynamics derived from 'Ecopath with Ecosim' <https://ecopath.org/> while fitting to time-series of fishery catch, biomass indices, age-composition samples, and weight-at-age data. Package 'ecostate' fits biological parameters (e.g., equilibrium mass) and measurement parameters (e.g., catchability coefficients) jointly with residual variation in process errors, and can include Bayesian priors for parameters.
License: GPL-3
Depends: R (>= 4.1.0), RTMB (>= 1.5.0),
Imports: TMB, MASS, checkmate, ggplot2, ggnetwork, igraph
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
LazyData: true
URL: https://james-thorson-noaa.github.io/ecostate/
BugReports: https://github.com/James-Thorson-NOAA/ecostate/issues
NeedsCompilation: no
Packaged: 2024-11-22 15:10:37 UTC; James.Thorson
Author: James T. Thorson [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-25 11:50:14 UTC

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New package ClinTrialPredict with initial version 0.0.4
Package: ClinTrialPredict
Title: Predicting and Simulating Clinical Trial with Time-to-Event Endpoint
Version: 0.0.4
Description: Predict the course of clinical trial with a time-to-event endpoint for both two-arm and single-arm design. Each of the four primary study design parameters (the expected number of observed events, the number of subjects enrolled, the observation time, and the censoring parameter) can be derived analytically given the other three parameters. And the simulation datasets can be generated based on the design settings.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), R.rsp
VignetteBuilder: R.rsp
NeedsCompilation: no
Packaged: 2024-11-22 14:58:20 UTC; YDing29
Author: Yang Ding [aut, cre]
Maintainer: Yang Ding <tomding.biostat@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-25 11:40:18 UTC

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New package Blend with initial version 0.1.0
Package: Blend
Title: Bayesian Longitudinal Regularized Semiparametric Quantile Mixed Models
Version: 0.1.0
Date: 2024-11-21
Description: Our recently developed fully Bayesian semiparametric quantile mixed-effect model for high-dimensional longitudinal studies with heterogeneous observations can be implemented through this package. This model can distinguish between time-varying interactions and constant-effect-only cases to avoid model misspecifications. Facilitated by spike-and-slab priors, this model leads to superior performance in estimation, identification and statistical inference. In particular, robust Bayesian inferences in terms of valid Bayesian credible intervals on both parametric and nonparametric effects can be validated on finite samples. The Markov chain Monte Carlo algorithms of the proposed and alternative models are efficiently implemented in 'C++'.
Depends: R (>= 4.2.0)
License: GPL-2
Encoding: UTF-8
URL: https://github.com/kunfa/Blend
LinkingTo: Rcpp, RcppArmadillo
Imports: Rcpp, splines, stats, ggplot2
NeedsCompilation: yes
Packaged: 2024-11-22 16:32:46 UTC; kunfan
Author: Kun Fan [aut, cre], Cen Wu [aut]
Maintainer: Kun Fan <kfan@ksu.edu>
Repository: CRAN
Date/Publication: 2024-11-25 11:40:22 UTC

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Fri, 22 Nov 2024

New package saeHB.spatial with initial version 0.1.1
Package: saeHB.spatial
Title: Small Area Estimation Hierarchical Bayes For Spatial Model
Version: 0.1.1
Description: Provides several functions and datasets for area level of Small Area Estimation under Spatial Model using Hierarchical Bayesian (HB) Method. Model-based estimators include the HB estimators based on a Spatial Fay-Herriot model with univariate normal distribution for variable of interest.The 'rjags' package is employed to obtain parameter estimates. For the reference, see Rao and Molina (2015) <doi:10.1002/9781118735855>.
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://github.com/arinams/saeHB.spatial
BugReports: https://github.com/arinams/saeHB.spatial/issues
Imports: stringr, coda, rjags, stats, grDevices, graphics
SystemRequirements: JAGS (http://mcmc-jags.sourceforge.net)
Suggests: rmarkdown, knitr
VignetteBuilder: knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-11-22 08:41:08 UTC; User
Author: Arina Mana Sikana [aut, cre], Azka Ubaidillah [aut]
Maintainer: Arina Mana Sikana <sikanaradrianan@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-22 09:40:02 UTC

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New package GWlasso with initial version 1.0.1
Package: GWlasso
Title: Geographically Weighted Lasso
Version: 1.0.1
Description: Performs geographically weighted Lasso regressions. Find optimal bandwidth, fit a geographically weighted lasso or ridge regression, and make predictions. These methods are specially well suited for ecological inferences. Bandwidth selection algorithm is from A. Comber and P. Harris (2018) <doi:10.1007/s10109-018-0280-7>.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: dplyr, ggplot2, ggside, glmnet, GWmodel, lifecycle, magrittr, methods, progress, rlang, sf, tidyr
NeedsCompilation: no
Packaged: 2024-11-22 07:51:01 UTC; nibor
Author: Matthieu Mulot [aut, cre, cph] , Sophie Erb [aut]
Maintainer: Matthieu Mulot <matthieu.mulot@gmail.com>
Suggests: knitr, maps, rmarkdown
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
LazyData: true
URL: https://github.com/nibortolum/GWlasso, https://nibortolum.github.io/GWlasso/
BugReports: https://github.com/nibortolum/GWlasso/issues
Repository: CRAN
Date/Publication: 2024-11-22 09:30:07 UTC

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New package exametrika with initial version 1.1.0
Package: exametrika
Title: Test Theory Analysis and Biclustering
Version: 1.1.0
Description: Implements comprehensive test data engineering methods as described in Shojima (2022, ISBN:978-9811699856). Provides statistical techniques for engineering and processing test data: Classical Test Theory (CTT) with reliability coefficients for continuous ability assessment; Item Response Theory (IRT) including Rasch, 2PL, and 3PL models with item/test information functions; Latent Class Analysis (LCA) for nominal clustering; Latent Rank Analysis (LRA) for ordinal clustering with automatic determination of cluster numbers; Biclustering methods including infinite relational models for simultaneous clustering of examinees and items without predefined cluster numbers; and Bayesian Network Models (BNM) for visualizing inter-item dependencies. Features local dependence analysis through LRA and biclustering, parameter estimation, dimensionality assessment, and network structure visualization for educational, psychological, and social science research.
License: MIT + file LICENSE
Language: en-US
Encoding: UTF-8
LazyData: true
BuildVignettes: true
Suggests: testthat (>= 3.0.0)
Depends: R (>= 3.5.0), mvtnorm, igraph
NeedsCompilation: no
Packaged: 2024-11-22 07:42:59 UTC; napier3
Author: Koji Kosugi [aut, cre]
Maintainer: Koji Kosugi <kosugitti@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-22 09:30:02 UTC

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New package anominate with initial version 0.7
Package: anominate
Title: Alpha-NOMINATE Ideal Point Estimator
Version: 0.7
Date: 2024-11-21
Author: Royce Carroll [aut], Christopher Hare [aut, cre], Jeffrey B. Lewis [aut], James Lo [aut], Keith T. Poole [aut], Howard Rosenthal [aut], Carlos Algara [aut], Samuel Fuller [aut]
Maintainer: Christopher Hare <cdhare@ucdavis.edu>
Description: Provides functions to estimate and interpret the alpha-NOMINATE ideal point model developed in Carroll et al. (2013, <doi:10.1111/ajps.12029>). alpha-NOMINATE extends traditional spatial voting frameworks by allowing for a mixture of Gaussian and quadratic utility functions, providing flexibility in modeling political actors' preferences. The package uses Markov Chain Monte Carlo (MCMC) methods for parameter estimation, supporting robust inference about individuals' ideological positions and the shape of their utility functions. It also contains functions to simulate data from the model and to calculate the probability of a vote passing given the ideal points of the legislators/voters and the estimated location of the choice alternatives.
License: GPL-2
Depends: stats, coda, wnominate, pscl, MCMCpack
URL: https://CRAN.R-project.org/package=anominate
NeedsCompilation: yes
Packaged: 2024-11-21 22:20:12 UTC; chare
Repository: CRAN
Date/Publication: 2024-11-22 09:20:02 UTC

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New package topics with initial version 0.20.0
Package: topics
Title: Creating and Significance Testing Language Features for Visualisation
Version: 0.20.0
Description: Implements differential language analysis with statistical tests and offers various language visualization techniques for n-grams and topics. It also supports the 'text' package. For more information, visit <https://r-topics.org/> and <https://www.r-text.org/>.
License: GPL-3
URL: https://r-topics.org/
BugReports: https://github.com/theharmonylab/topics/issues
Encoding: UTF-8
Archs: x64
SystemRequirements: Python (>= 3.6.0)
LazyData: true
BuildVignettes: true
Imports: text, textmineR, ggplot2, dplyr, mallet, rJava, ggwordcloud, effsize, purrr, tibble, methods, readr, stopwords, Matrix, ngram, stringr, rlang, tidyr
Suggests: knitr, rmarkdown, testthat, covr
VignetteBuilder: knitr
Depends: R (>= 4.00)
NeedsCompilation: no
Packaged: 2024-11-21 18:13:35 UTC; oscarkjell
Author: Leon Ackermann [aut] , Zhuojun Gu [aut] , Oscar Kjell [aut, cre]
Maintainer: Oscar Kjell <oscar.kjell@psy.lu.se>
Repository: CRAN
Date/Publication: 2024-11-22 09:00:02 UTC

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New package super with initial version 0.0.3
Package: super
Title: Interpreted String Literals
Version: 0.0.3
Description: An implementation of interpreted string literals. Based on the 'glue' package by Hester & Bryan (2024) <doi:10.32614/CRAN.package.glue> but with a focus on efficiency and simplicity at a cost of flexibility.
License: MIT + file LICENSE
URL: https://timtaylor.github.io/super/
BugReports: https://github.com/TimTaylor/super/issues
Depends: R (>= 3.6)
Suggests: glue, litedown, microbenchmark, tinytest
VignetteBuilder: litedown
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2024-11-21 18:25:33 UTC; tim
Author: Tim Taylor [aut, cre] , Jim Hester [aut] , Jennifer Bryan [aut] , Posit Software, PBC [cph, fnd]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Repository: CRAN
Date/Publication: 2024-11-22 09:00:06 UTC

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Thu, 21 Nov 2024

New package table.glue with initial version 0.0.5
Package: table.glue
Title: Make and Apply Customized Rounding Specifications for Tables
Version: 0.0.5
Description: Translate double and integer valued data into character values formatted for tabulation in manuscripts or other types of academic reports.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: testthat, covr, knitr, rmarkdown, magrittr, dplyr, tidyr, tibble, gt
Imports: glue, stringi
URL: https://github.com/bcjaeger/table.glue
BugReports: https://github.com/bcjaeger/table.glue/issues
VignetteBuilder: knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-11-21 19:34:44 UTC; bjaeger
Author: Byron Jaeger [aut, cre]
Maintainer: Byron Jaeger <bjaeger@wakehealth.edu>
Repository: CRAN
Date/Publication: 2024-11-21 21:20:02 UTC

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New package xpose.xtras with initial version 0.0.2
Package: xpose.xtras
Title: Extra Functionality for the 'xpose' Package
Version: 0.0.2
Description: Adding some at-present missing functionality, or functions unlikely to be added to the base 'xpose' package. This includes some diagnostic plots that have been missing in translation from 'xpose4', but also some useful features that truly extend the capabilities of what can be done with 'xpose'. These extensions include the concept of a set of 'xpose' objects, and diagnostics for likelihood-based models.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: assertthat, cli, colorspace, conflicted, dplyr (>= 1.1.2), forcats (>= 1.0.0), GGally, ggplot2 (>= 3.4.2), glue, lifecycle, magrittr, pmxcv, purrr (>= 1.0.1), readr (>= 2.1.4), rlang, stats, stringr (>= 1.5.0), tibble (>= 3.2.1), tidyr (>= 1.3.0), tidyselect, utils, vctrs, xpose
Suggests: DiagrammeR, grDevices, knitr, rmarkdown, testthat (>= 3.0.0), vdiffr
Depends: R (>= 2.10)
LazyData: true
VignetteBuilder: knitr
URL: https://jprybylski.github.io/xpose.xtras/, https://github.com/jprybylski/xpose.xtras
NeedsCompilation: no
Packaged: 2024-11-20 19:03:45 UTC; PRYBYJ
Author: John Prybylski [aut, cre]
Maintainer: John Prybylski <john.prybylski@pfizer.com>
Repository: CRAN
Date/Publication: 2024-11-21 17:20:02 UTC

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New package transDA with initial version 1.0.0
Package: transDA
Title: Transformation Discriminant Analysis
Date: 2024-11-05
Version: 1.0.0
Maintainer: Jing Li <jli178@crimson.ua.edu>
Author: Jing Li [aut, cre], Yana Melnykov [aut]
Description: Performs transformation discrimination analysis and non-transformation discrimination analysis. It also includes functions for Linear Discriminant Analysis, Quadratic Discriminant Analysis, and Mixture Discriminant Analysis. In the context of mixture discriminant analysis, it offers options for both common covariance matrix (common sigma) and individual covariance matrices (uncommon sigma) for the mixture components.
License: GPL (>= 2)
Encoding: UTF-8
Repository: CRAN
ByteCompile: true
NeedsCompilation: yes
Imports: mvtnorm
Packaged: 2024-11-21 16:11:59 UTC; jingli
Date/Publication: 2024-11-21 18:00:02 UTC

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New package TimeDepFrail with initial version 0.0.0.9
Package: TimeDepFrail
Title: Time Dependent Shared Frailty Cox Model
Version: 0.0.0.9
Description: Fits time-dependent shared frailty Cox model (specifically the adapted Paik et al.'s Model) based on the paper "Centre-Effect on Survival After Bone Marrow Transplantation: Application of Time-Dependent Frailty Models", by C.M. Wintrebert, H. Putter, A.H. Zwinderman and J.C. van Houwelingen (2004) <doi:10.1002/bimj.200310051>.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports:
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-21 12:47:56 UTC; alessandragni
Author: Alessandra Ragni [aut, cre] , Giulia Romani [aut], Chiara Masci [ctb]
Maintainer: Alessandra Ragni <alessandra.ragni@polimi.it>
Repository: CRAN
Date/Publication: 2024-11-21 17:40:16 UTC

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New package scoutbaR with initial version 0.0.1
Package: scoutbaR
Title: A Spotlight 'React' Widget for 'shiny' Apps
Version: 0.0.1
Description: Creates a contextual menu that can be triggered with keyboard shortcuts or programmatically. This can replace traditional sidebars or navigation bars, thereby enhancing the user experience with lighter user interfaces.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: htmltools, reactR, shiny
Suggests: testthat (>= 3.0.0), shinytest2
NeedsCompilation: no
Packaged: 2024-11-21 11:12:07 UTC; davidgranjon
Author: David Granjon [aut, cre], Adenekan Wonderful [cph]
Maintainer: David Granjon <dgranjon@ymail.com>
Repository: CRAN
Date/Publication: 2024-11-21 17:40:02 UTC

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New package roxy.shinylive with initial version 1.0.0
Package: roxy.shinylive
Title: A 'roxygen2' Extension for 'Shinylive'
Version: 1.0.0
Description: An extension for 'roxygen2' to embed 'Shinylive' applications in the package documentation.
License: Apache License 2.0
URL: https://github.com/insightsengineering/roxy.shinylive/
BugReports: https://github.com/insightsengineering/roxy.shinylive/issues
Depends: R (>= 4.0)
Imports: glue, jsonlite (>= 1.8.6), lzstring (>= 0.1.3), roxygen2 (>= 7.2.0), stringr (>= 0.4)
Suggests: pkgdown (>= 2.0.0), testthat (>= 3.1.5), withr (>= 2.4.3)
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2024-11-21 10:51:44 UTC; ruckip
Author: Pawel Rucki [aut, cre], F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Pawel Rucki <pawel.rucki@roche.com>
Repository: CRAN
Date/Publication: 2024-11-21 17:40:06 UTC

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New package mlms with initial version 1.0.2
Package: mlms
Title: Multilevel Monitoring System Data for Wells in the USGS INL Aquifer Monitoring Network
Version: 1.0.2
Description: Analysis-ready datasets detailing the Multilevel Monitoring System (MLMS) wells within the U.S. Geological Survey's (USGS) aquifer-monitoring network at the Idaho National Laboratory (INL) in Idaho, and the data collected within these wells. Supported by the U.S. Department of Energy (DOE), the USGS collected discrete measurements of hydraulic head at various depths from wells in the eastern Snake River Plain (ESRP) aquifer over several years. These measurements were derived from data on fluid pressure, fluid temperature, and atmospheric pressure. Each well was equipped with an MLMS, which included valved measurement ports, packer bladders, casing segments, and couplers. The MLMS facilitated monitoring at multiple hydraulically isolated depth intervals, reaching significant depths below the land surface. Additionally, groundwater samples were collected from these wells over multiple years and analyzed for various chemical and physical parameters.
Depends: R (>= 4.1)
Imports: checkmate, graphics, grDevices, jsonlite, plotrix, readxl, stats, sf, stringi, tools, utils
Suggests: connectapi, covr, dm, DiagrammeR, DiagrammeRsvg, fontawesome, htmltools, htmlwidgets, inldata, knitr, pkgbuild, pkgdown, pkgload, rcmdcheck, reactable, renv, rmarkdown, roxygen2, tinytest, V8, webmap
License: CC0
Copyright: This software is in the public domain because it contains materials that originally came from the United States Geological Survey (USGS), an agency of the United States Department of Interior. For more information, see the official USGS copyright policy at https://www.usgs.gov/information-policies-and-instructions/copyrights-and-credits
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
URL: https://code.usgs.gov/inl/mlms
BugReports: https://code.usgs.gov/inl/mlms/-/issues
NeedsCompilation: no
Packaged: 2024-11-20 22:40:52 UTC; jfisher
Author: Jason C. Fisher [aut, cre] , Brian V. Twining [aut]
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Repository: CRAN
Date/Publication: 2024-11-21 17:30:02 UTC

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New package matchedcc with initial version 0.1.1
Package: matchedcc
Title: 'Stata'-Like Matched Case-Control Analysis
Version: 0.1.1
Date: 2024-11-19
Maintainer: Simon R Parker <simon.parker.24@ucl.ac.uk>
Description: Calculate multiple statistics with confidence intervals for matched case-control data including risk difference, risk ratio, relative difference, and the odds ratio. Results are equivalent to those from 'Stata', and you can choose how to format your input data. Methods used are those described on page 56 the 'Stata' documentation for "Epitab - Tables for Epidemologists" <https://www.stata.com/manuals/repitab.pdf>.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/simpar1471/matchedcc/, https://simpar1471.github.io/matchedcc/
BugReports: https://github.com/simpar1471/matchedcc/issues
Depends: R (>= 4.1.0)
Imports: checkmate, stats, cli, binom
Suggests: testthat (>= 3.0.0), readr, vctrs, stringr, purrr, knitr, rmarkdown, RStata
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-20 17:22:43 UTC; tadeo
Author: Simon R Parker [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-21 17:10:02 UTC

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New package kendallknight with initial version 0.4.0
Package: kendallknight
Title: Efficient Implementation of Kendall's Correlation Coefficient Computation
Version: 0.4.0
Imports: stats
Suggests: knitr, rmarkdown, spelling, testthat (>= 3.0.0)
Depends: R(>= 3.5.0)
Description: The computational complexity of the implemented algorithm for Kendall's correlation is O(n log(n)), which is faster than the base R implementation with a computational complexity of O(n^2). For small vectors (i.e., less than 100 observations), the time difference is negligible. However, for larger vectors, the speed difference can be substantial and the numerical difference is minimal. The references are Knight (1966) <doi:10.2307/2282833>, Abrevaya (1999) <doi:10.1016/S0165-1765(98)00255-9>, Christensen (2005) <doi:10.1007/BF02736122> and Emara (2024) <https://learningcpp.org/>. This implementation is described in Vargas Sepulveda (2024) <doi:10.48550/arXiv.2408.09618>.
License: Apache License (>= 2)
BugReports: https://github.com/pachadotdev/capybara/issues
URL: https://pacha.dev/capybara/, https://github.com/pachadotdev/capybara
Encoding: UTF-8
NeedsCompilation: yes
LinkingTo: cpp11
VignetteBuilder: knitr
Language: en-US
LazyData: true
Packaged: 2024-11-20 15:49:09 UTC; pacha
Author: Mauricio Vargas Sepulveda [aut, cre] , Loader Catherine [ctb] ), Ross Ihaka [ctb] )
Maintainer: Mauricio Vargas Sepulveda <m.sepulveda@mail.utoronto.ca>
Repository: CRAN
Date/Publication: 2024-11-21 17:10:06 UTC

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New package eva3dm with initial version 0.99
Package: eva3dm
Title: Evaluation of 3D Meteorological and Air Quality Models
Version: 0.99
Date: 2024-11-19
Description: Provides tools for post-process, evaluate and visualize results from 3d Meteorological and Air Quality models against point observations (i.e. surface stations) and grid (i.e. satellite) observations.
Maintainer: Daniel Schuch <underschuch@gmail.com>
License: MIT + file LICENSE
Imports: terra, ncdf4, utils
Suggests: riem, testthat (>= 3.0.0)
Encoding: UTF-8
BugReports: https://github.com/Schuch666/eva3dm/issues/
Depends: R (>= 3.5.0)
URL: https://schuch666.github.io/eva3dm/
NeedsCompilation: no
Packaged: 2024-11-21 05:25:28 UTC; under
Author: Daniel Schuch [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-21 17:40:11 UTC

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New package covalchemy with initial version 1.0.0
Package: covalchemy
Title: Constructing Joint Distributions with Control Over Statistical Properties
Version: 1.0.0
Description: Synthesizing joint distributions from marginal densities, focusing on controlling key statistical properties such as correlation for continuous data, mutual information for categorical data, and inducing Simpson's Paradox. Generate datasets with specified correlation structures for continuous variables, adjust mutual information between categorical variables, and manipulate subgroup correlations to intentionally create Simpson's Paradox. Joe (1997) <doi:10.1201/b13150> Sklar (1959) <https://en.wikipedia.org/wiki/Sklar%27s_theorem>.
Encoding: UTF-8
Imports: dplyr, ggplot2, mvtnorm, interp, clue, ggExtra, gridExtra, DescTools, MASS
Depends: R (>= 3.5.0)
License: GPL-3
BugReports: https://github.com/namanlab/covalchemy/issues
URL: https://github.com/namanlab/covalchemy
NeedsCompilation: no
Packaged: 2024-11-20 14:57:15 UTC; namanagrawal
Author: Naman Agrawal [aut, cre]
Maintainer: Naman Agrawal <naman.agr03@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-21 17:10:11 UTC

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New package cohetsurr with initial version 1.0
Package: cohetsurr
Title: Assessing Complex Heterogeneity in Surrogacy
Version: 1.0
Date: 2024-11-20
Description: Provides functions to assess and test for complex heterogeneity in the utility of a surrogate marker with respect to multiple baseline covariates, using both a parametric model and a semiparametric two-step model. More details will be available in the future in: Knowlton, R., Tian, L., Parast, L. (2024) ``A General Framework to Assess Complex Heterogeneity in the Strength of a Surrogate Marker."
License: GPL
Imports: stats, matrixStats, mvtnorm
NeedsCompilation: no
Packaged: 2024-11-20 18:08:26 UTC; rkkno
Author: Rebecca Knowlton [aut, cre]
Maintainer: Rebecca Knowlton <rknowlton@utexas.edu>
Repository: CRAN
Date/Publication: 2024-11-21 17:20:07 UTC

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New package chooseGCM with initial version 1.0.1
Package: chooseGCM
Title: Selecting General Circulation Models for Species Distribution Modeling
Version: 1.0.1
Maintainer: Luiz Esser <luizesser@gmail.com>
Description: Methods to help selecting General Circulation Models (GCMs) in the context of projecting models to future scenarios. It is provided clusterization algorithms, distance and correlation metrics, as well as a tailor-made algorithm to detect the optimum subset of GCMs that recreate the environment of all GCMs.
License: MIT + file LICENSE
Imports: checkmate, cluster, cowplot, factoextra, ggcorrplot, ggplot2, graphics, httr, methods, reshape2, stats, terra, usedist, utils
Encoding: UTF-8
Suggests: tictoc, testthat, sf, knitr, raster, rmarkdown, stars
URL: https://luizesser.github.io/chooseGCM/, https://github.com/luizesser/chooseGCM
VignetteBuilder: knitr
BugReports: https://github.com/luizesser/chooseGCM/issues
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2024-11-20 20:10:59 UTC; luizesser
Author: Dayani Baili [aut] , Reginaldo Re [aut] , Marcos Lima [aut] , Luiz Esser [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-21 17:20:11 UTC

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New package dhis2r with initial version 0.3.0
Package: dhis2r
Title: Client for the 'DHIS2' Web API
Version: 0.3.0
Description: Connect and pull data from a 'DHIS2 (District Health Information Software 2)' instance into R.
License: MIT + file LICENSE
URL: https://github.com/amanyiraho/dhis2r
BugReports: https://github.com/amanyiraho/dhis2r/issues
Imports: attempt (>= 0.3.1), curl (>= 4.3.3), dplyr (>= 1.0.10), httr2 (>= 0.2.2), R6 (>= 2.5.1)
Suggests: covr, httptest2, knitr, rmarkdown, testthat
Depends: R (>= 4.1.0)
Encoding: UTF-8
VignetteBuilder: knitr
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-21 10:53:15 UTC; am
Author: Robinson Amanyiraho [cre, aut, cph]
Maintainer: Robinson Amanyiraho <amanyiraho@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-21 11:30:06 UTC

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New package scregclust with initial version 0.1.10
Package: scregclust
Title: Reconstructing the Regulatory Programs of Target Genes in scRNA-Seq Data
Version: 0.1.10
Description: Implementation of the scregclust algorithm described in Larsson, Held, et al. (2024) <doi:10.1038/s41467-024-53954-3> which reconstructs regulatory programs of target genes in scRNA-seq data. Target genes are clustered into modules and each module is associated with a linear model describing the regulatory program.
Encoding: UTF-8
Depends: R (>= 3.5.0)
Imports: Matrix, stats, methods, utils, reshape, igraph, graphics, grid, cli, prettyunits, ggplot2, rlang, Rcpp (>= 1.0.8)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), Seurat (>= 5.0.0), glmGamPoi, hdf5r
LinkingTo: Rcpp, RcppEigen
VignetteBuilder: knitr
License: GPL (>= 3)
URL: https://scmethods.github.io/scregclust/, https://github.com/scmethods/scregclust/
BugReports: https://github.com/scmethods/scregclust/issues
NeedsCompilation: yes
Packaged: 2024-11-20 09:16:53 UTC; felixheld
Author: Felix Held [aut, cre] , Ida Larsson [aut] , Sven Nelander [aut]
Maintainer: Felix Held <felix.held@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-21 07:30:02 UTC

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New package OutcomeWeights with initial version 0.1.0
Package: OutcomeWeights
Title: Outcome Weights of Treatment Effect Estimators
Version: 0.1.0
Description: Many treatment effect estimators can be written as weighted outcomes. These weights have established use cases like checking covariate balancing via packages like 'cobalt'. This package takes the original estimator objects and outputs these outcome weights. It builds on the general framework of Knaus (2024) <doi:10.48550/arXiv.2411.11559>. This version is compatible with the 'grf' package and provides an internal implementation of Double Machine Learning.
License: GPL-3
Encoding: UTF-8
URL: https://github.com/MCKnaus/OutcomeWeights
BugReports: https://github.com/MCKnaus/OutcomeWeights/issues
Imports: ggplot2, grf, methods
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat (>= 3.0.0)
NeedsCompilation: yes
Packaged: 2024-11-20 13:34:23 UTC; Michael
Author: Michael C. Knaus [aut, cre] , Henri Pfleiderer [ctb]
Maintainer: Michael C. Knaus <michael.knaus@uni-tuebingen.de>
Repository: CRAN
Date/Publication: 2024-11-21 08:00:10 UTC

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New package CTTvis with initial version 0.1.0
Package: CTTvis
Title: Visualize Item Metrics of the Classical Test Theory Framework
Version: 0.1.0
Description: Visualizes results of item analysis such as item difficulty, item discrimination, and coefficient alpha for ease of result communication.
License: GPL-3
URL: https://github.com/TaridWong/CTTvis
Depends: R (>= 4.3)
Imports: CTT (>= 2.3.3)
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-20 06:38:06 UTC; tarid
Author: Tarid Wongvorachan [aut, cre, cph]
Maintainer: Tarid Wongvorachan <taridwongvorachan@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-21 07:30:07 UTC

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New package consrq with initial version 1.0
Package: consrq
Title: Constrained Quantile Regression
Version: 1.0
Date: 2024-11-20
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Depends: R (>= 4.0)
Suggests: Rfast2, cols
Imports: quantreg, Rfast
Description: Constrained quantile regression is performed. One constraint is that all beta coefficients (including the constant) cannot be negative, they can be either 0 or strictly positive. Another constraint is that the beta coefficients lie within an interval. References: Koenker R. (2005) Quantile Regression, Cambridge University Press. <doi:10.1017/CBO9780511754098>.
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2024-11-20 13:44:36 UTC; mtsag
Repository: CRAN
Date/Publication: 2024-11-21 08:00:03 UTC

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New package cisp with initial version 0.1.0
Package: cisp
Title: A Correlation Indicator Based on Spatial Patterns
Version: 0.1.0
Description: Use the spatial association marginal contributions derived from spatial stratified heterogeneity to capture the degree of correlation between spatial patterns.
License: GPL-3
Encoding: UTF-8
URL: https://stscl.github.io/cisp/, https://github.com/stscl/cisp
BugReports: https://github.com/stscl/cisp/issues
Depends: R (>= 4.1.0)
Imports: dplyr, forcats, gdverse (>= 1.3), ggplot2, ggraph, igraph, magrittr, parallel, purrr, RColorBrewer, sdsfun (>= 0.4.3), sf, tibble, tidyr
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-20 13:40:22 UTC; dell
Author: Wenbo Lv [aut, cre, cph] , Yongze Song [aut] , Nan Jia [aut]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-21 08:00:06 UTC

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New package AnomalyScore with initial version 0.1
Package: AnomalyScore
Title: Anomaly Scoring for Multivariate Time Series
Version: 0.1
Description: Compute an anomaly score for multivariate time series based on the k-nearest neighbors algorithm. Different computations of distances between time series are provided.
License: GPL (>= 3)
Imports: dtw, class, astsa, transport, marima, TSA, RANN, MASS, mvLSW, stats
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-20 14:21:40 UTC; guillermocgg
Author: Guillermo Granados [aut, cre]
Maintainer: Guillermo Granados <guillermo.granadosgarcia@outlook.com>
Repository: CRAN
Date/Publication: 2024-11-21 08:00:13 UTC

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Wed, 20 Nov 2024

New package quantsig with initial version 0.1.0
Package: quantsig
Title: Sigmoidal Quantile Function Estimator
Version: 0.1.0
Maintainer: Han Yu <han.yu@roswellpark.org>
Description: A sigmoidal quantile function estimator based on a newly defined generalized expectile function. The generalized sigmoidal quantile function can estimate quantiles beyond the range of the data, which is important for certain applications given smaller sample sizes. The package is based on the method introduced in Hutson (2024) <doi:10.1080/03610918.2022.2032161>.
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-20 01:33:30 UTC; ha31006
Author: Alan Hutson [aut], Han Yu [cre]
Repository: CRAN
Date/Publication: 2024-11-20 19:30:02 UTC

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New package gerda with initial version 0.1.0
Package: gerda
Title: German Election Database (GERDA)
Version: 0.1.0
Description: Provides tools to download comprehensive datasets of local, state, and federal election results in Germany from 1990 to 2021. The package facilitates access to data on turnout, vote shares for major parties, and demographic information across different levels of government (municipal, state, and federal). It offers access to geographically harmonized datasets that account for changes in municipal boundaries over time and incorporate mail-in voting districts. Users can easily retrieve, clean, and standardize German electoral data, making it ready for analysis. Data is sourced from <http://www.german-elections.com>.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 2.10)
Imports: stringdist, dplyr, readr, knitr, tibble
Suggests: rmarkdown, testthat (>= 3.0.0)
URL: https://github.com/hhilbig/gerda
BugReports: https://github.com/hhilbig/gerda/issues
VignetteBuilder: knitr
Maintainer: Hanno Hilbig <hhilbig@ucdavis.edu>
NeedsCompilation: no
Packaged: 2024-11-19 16:38:56 UTC; hanno
Author: Hanno Hilbig [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-20 19:10:01 UTC

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New package cellularautomata with initial version 0.1.0
Package: cellularautomata
Title: Cellular Automata
Version: 0.1.0
Maintainer: Vlad Tarko <vladtarko@gmail.com>
Description: Create cellular automata from 'Wolfram' rules. Allows the creation of 'Wolfram' style plots, as well as of animations. Easy to create multiple plots, for example the output of a rule with different initial states, or the output of many different rules from the same state. The output of a cellular automaton is given as a matrix, making it easy to try to explore the possibility of predicting its time evolution using various statistical tools available in R. Wolfram S. (2002, ISBN:1579550088) "A New Kind of Science".
License: MIT + file LICENSE
Encoding: UTF-8
VignetteBuilder: knitr
Imports: gganimate, ggplot2, patchwork, purrr, rlang
Suggests: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2024-11-19 16:03:48 UTC; vladtarko
Author: Vlad Tarko [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-20 19:10:06 UTC

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New package sampledatasets with initial version 0.1.0
Package: sampledatasets
Title: A Collection of Sample Datasets
Version: 0.1.0
Maintainer: Renzo Caceres Rossi <arenzocaceresrossi@gmail.com>
Description: Provides a collection of sample datasets on various fields such as automotive performance and safety data to historical demographics and socioeconomic indicators, as well as recreational data. It serves as a resource for researchers and analysts seeking to perform analyses and derive insights from classic data sets in R.
License: GPL-3
URL: https://github.com/lightbluetitan/sampledatasets
Encoding: UTF-8
LazyData: true
Suggests: ggplot2, dplyr, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-19 15:43:53 UTC; renzorossiv
Author: Renzo Caceres Rossi [aut, cre]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-11-20 19:00:02 UTC

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New package Certara.RsNLME with initial version 3.0.1
Package: Certara.RsNLME
Title: Pharmacometric Modeling
Version: 3.0.1
Description: Facilitate Pharmacokinetic (PK) and Pharmacodynamic (PD) modeling and simulation with powerful tools for Nonlinear Mixed-Effects (NLME) modeling. The package provides access to the same advanced Maximum Likelihood algorithms used by the NLME-Engine in the Phoenix platform. These tools support a range of analyses, from parametric methods to individual and pooled data analysis <https://www.certara.com/app/uploads/2020/06/BR_PhoenixNLME-v4.pdf>. Execution is supported both locally or on remote machines.
Depends: R (>= 4.0)
License: LGPL-3
URL: https://certara.github.io/R-RsNLME/
Encoding: UTF-8
LazyData: true
Suggests: rlang, knitr, rmarkdown, testthat, magrittr
Imports: xml2, assertthat, Certara.NLME8, data.table, jsonlite, methods, utils, ssh
NeedsCompilation: no
Packaged: 2024-11-19 15:11:50 UTC; jcraig
Author: James Craig [aut, cre], Michael Tomashevskiy [aut], Vitalii Nazarov [aut], Shuhua Hu [ctb], Soltanshahi Fred [aut], Certara USA, Inc. [cph, fnd]
Maintainer: James Craig <james.craig@certara.com>
Repository: CRAN
Date/Publication: 2024-11-20 11:20:02 UTC

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New package SVEMnet with initial version 1.0.3
Package: SVEMnet
Title: Self-Validated Ensemble Models with Elastic Net Regression
Version: 1.0.3
Date: 2024-11-18
Maintainer: Andrew T. Karl <akarl@asu.edu>
Description: Implements Self-Validated Ensemble Models (SVEM, Lemkus et al. (2021) <doi:10.1016/j.chemolab.2021.104439>) using Elastic Net regression via 'glmnet' (Friedman et al. <doi:10.18637/jss.v033.i01>). SVEM averages predictions from multiple models fitted to fractionally weighted bootstraps of the data, tuned with anti-correlated validation weights. Also implements the randomized permutation whole model test for SVEM (Karl (2024) <doi:10.1016/j.chemolab.2024.105122>). Code for the whole model test was taken from the supplementary material of Karl (2024). Development of this package was assisted by 'GPT o1-preview' for code structure and documentation.
Depends: R (>= 3.5.0)
Imports: glmnet, stats, gamlss, gamlss.dist, ggplot2, lhs
License: GPL-2 | GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-19 10:06:13 UTC; andre
Author: Andrew T. Karl [cre, aut]
Repository: CRAN
Date/Publication: 2024-11-20 10:30:02 UTC

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New package psc with initial version 1.0.0
Package: psc
Title: Personalised Synthetic Controls
Version: 1.0.0
Maintainer: Richard Jackson <richJ23@liverpool.ac.uk>
Description: Allows the comparison of data cohorts (DC) against a Counter Factual Model (CFM) and measures the difference in terms of an efficacy parameter. Allows the application of Personalised Synthetic Controls.
License: GPL-3
Encoding: UTF-8
LazyData: true
URL: https://github.com/richjjackson/psc/
BugReports: https://github.com/richJJackson/psc/issues
Depends: R (>= 3.5.0)
Imports: mvtnorm, survival, enrichwith, stats, flexsurv
Suggests: knitr, rmarkdown, devtools
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-19 10:15:28 UTC; richardjackson
Author: Richard Jackson [cre, aut]
Repository: CRAN
Date/Publication: 2024-11-20 10:40:02 UTC

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New package OpeNoise with initial version 0.2-18
Package: OpeNoise
Title: Environmental Noise Pollution Data Analysis
Version: 0.2-18
Maintainer: Pasquale Scordino <scordino.pasquale@gmail.com>
Imports: tidyr, lubridate, ggplot2, pracma
Description: Provides analyse, interpret and understand noise pollution data. Data are typically regular time series measured with sound meter. The package is partially described in Fogola, Grasso, Masera and Scordino (2023, <DOI:10.61782/fa.2023.0063>).
Depends: R (>= 3.5.0)
License: GPL (>= 3)
URL: https://arpapiemonte.github.io/openoise-analysis/, https://github.com/Arpapiemonte/openoise-analysis/
BugReports: https://github.com/Arpapiemonte/openoise-analysis/issues/
Encoding: UTF-8
LazyData: TRUE
Suggests: rmarkdown, htmltools, testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2024-11-19 12:49:48 UTC; pakosko
Author: Pasquale Scordino [aut, cre], Simone Sperotto [ctb], Stefano Masera [ctb], Daniele Grasso [ctb], Jacopo Fogola [ctb]
Repository: CRAN
Date/Publication: 2024-11-20 10:40:10 UTC

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New package lwc2022 with initial version 1.0.0
Package: lwc2022
Title: Langa-Weir Classification of Cognitive Function for 2022 HRS Data
Version: 1.0.0
URL: https://github.com/C-Monaghan/lwc2022, https://c-monaghan.github.io/lwc2022/
BugReports: https://github.com/C-Monaghan/lwc2022/issues
Language: en-US
Description: Generates the Langa-Weir classification of cognitive function for the 2022 Health and Retirement Study (HRS) cognition data. It is particularly useful for researchers studying cognitive aging who wish to work with the most recent release of HRS data. The package provides user-friendly functions for data preprocessing, scoring, and classification allowing users to easily apply the Langa-Weir classification system. For details regarding the; HRS <https://hrsdata.isr.umich.edu/> and Langa-Weir classifications <https://hrsdata.isr.umich.edu/data-products/langa-weir-classification-cognitive-function-1995-2020>.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 2.10)
Imports: dplyr
Suggests: knitr
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-19 12:25:48 UTC; corma
Author: Cormac Monaghan [cph, aut, cre] , Rafael de Andrade Moral [aut] , Joanna McHugh Power [aut]
Maintainer: Cormac Monaghan <cormacmonaghan@protonmail.com>
Repository: CRAN
Date/Publication: 2024-11-20 10:40:07 UTC

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New package BioVizSeq with initial version 0.1.0
Package: BioVizSeq
Title: Visualizing the Elements Within Bio-Sequences
Version: 0.1.0
Maintainer: Shiqi Zhao <zhaosq89@163.com>
Description: Visualizing the types and distribution of elements within bio-sequences. At the same time, We have developed a geom layer, geom_rrect(), that can generate rounded rectangles. No external references are used in the development of this package.
License: Artistic-2.0
Encoding: UTF-8
Language: en-US
Imports: dplyr, ggplot2, httr, RColorBrewer, seqinr, stringr, tidyr, magrittr
NeedsCompilation: no
Packaged: 2024-11-19 10:08:10 UTC; zhaoshiqi
Author: Shiqi Zhao [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-20 10:40:14 UTC

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New package cbioportalR with initial version 1.1.1
Package: cbioportalR
Title: Browse and Query Clinical and Genomic Data from cBioPortal
Version: 1.1.1
Description: Provides R users with direct access to genomic and clinical data from the 'cBioPortal' web resource via user-friendly functions that wrap 'cBioPortal's' existing API endpoints <https://www.cbioportal.org/api/swagger-ui/index.html>. Users can browse and query genomic data on mutations, copy number alterations and fusions, as well as data on tumor mutational burden ('TMB'), microsatellite instability status ('MSI'), 'FACETS' and select clinical data points (depending on the study). See <https://www.cbioportal.org/> and Gao et al., (2013) <doi:10.1126/scisignal.2004088> for more information on the cBioPortal web resource.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 3.1.4), knitr (>= 1.39), rmarkdown (>= 2.14), covr (>= 3.5.1), spelling
Depends: R (>= 2.10)
Imports: httr (>= 1.4.3), tibble (>= 3.1.7), purrr (>= 0.3.4), magrittr (>= 2.0.3), rlang (>= 1.0.3), glue (>= 1.6.2), jsonlite (>= 1.8.0), tidyr (>= 1.2.0), dplyr (>= 1.0.9), stringr (>= 1.4.0), cli (>= 3.3.0)
VignetteBuilder: knitr
URL: https://github.com/karissawhiting/cbioportalR, https://www.karissawhiting.com/cbioportalR/
BugReports: https://github.com/karissawhiting/cbioportalR/issues
Language: en-US
NeedsCompilation: no
Packaged: 2024-11-19 21:02:33 UTC; kwhiting
Author: Karissa Whiting [aut, cre, cph]
Maintainer: Karissa Whiting <karissa.whiting@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-20 09:30:02 UTC

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Tue, 19 Nov 2024

New package pseudobibeR with initial version 1.2
Package: pseudobibeR
Title: Aggregate Counts of Linguistic Features
Version: 1.2
Date: 2024-11-18
Description: Calculates the lexicogrammatical and functional features described by Biber (1985) <doi:10.1515/ling.1985.23.2.337> and widely used for text-type, register, and genre classification tasks.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: TRUE
Depends: R (>= 3.5.0)
Imports: dplyr, purrr, quanteda, quanteda.textstats, rlang, stringr, tibble, magrittr
Suggests: testthat (>= 3.0.0), udpipe
NeedsCompilation: no
Packaged: 2024-11-18 19:20:40 UTC; alexreinhart
Author: David Brown [aut, cre] , Alex Reinhart [aut]
Maintainer: David Brown <dwb2@andrew.cmu.edu>
Repository: CRAN
Date/Publication: 2024-11-19 12:20:06 UTC

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New package mvvg with initial version 0.1.0
Package: mvvg
Title: Matrix-Variate Variance-Gamma Distribution
Version: 0.1.0
Description: Rudimentary functions for sampling and calculating density from the matrix-variate variance-gamma distribution.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: MixMatrix, nlme, psych
Suggests: knitr, rmarkdown
NeedsCompilation: no
Packaged: 2024-11-18 20:58:53 UTC; soonsk
Author: Samuel Soon [aut, cre]
Maintainer: Samuel Soon <samksoon2@gmail.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-11-19 12:20:27 UTC

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New package LFM with initial version 0.1.0
Package: LFM
Title: Laplace Factor Model Analysis and Evaluation
Date: 2024-11-18
Version: 0.1.0
Description: Enables the generation of Laplace factor models across diverse Laplace distributions and facilitates the application of Sparse Online Principal Component (SOPC), Incremental Principal Component (IPC), Parallel Principal Component (PPC), Sparse Approximate Principal Component (SAPC), Standard Principal Component (SPC), and Farm Test methods to these models. Evaluates the efficacy of these methods within the context of Laplace factor models by scrutinizing parameter estimation accuracy, mean square error, and the degree of sparsity.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: stats, FarmTest, MASS, SOPC, LaplacesDemon, matrixcalc, relliptical
NeedsCompilation: no
Language: en-US
Author: Guangbao Guo [aut, cre], Siqi Liu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Depends: R (>= 3.5.0)
BuildManual: yes
Suggests: testthat (>= 3.0.0)
Packaged: 2024-11-18 10:54:04 UTC; R7000
Repository: CRAN
Date/Publication: 2024-11-19 12:30:09 UTC

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New package GRIN2 with initial version 1.0
Package: GRIN2
Title: Genomic Random Interval (GRIN)
Version: 1.0
Description: Improved version of 'GRIN' software that streamlines its use in practice to analyze genomic lesion data, accelerate its computing, and expand its analysis capabilities to answer additional scientific questions including a rigorous evaluation of the association of genomic lesions with RNA expression. Pounds, Stan, et al. (2013) <DOI:10.1093/bioinformatics/btt372>.
License: GPL (>= 3)
Encoding: UTF-8
Imports: biomaRt, circlize, ComplexHeatmap, data.table, dplyr, EnsDb.Hsapiens.v75, ensembldb, forcats, GenomeInfoDb, ggplot2, graphics, grDevices, grid, gridGraphics, Gviz, magrittr, stats, stringr, survival, tibble, tidyselect, utils, writexl
Suggests: knitr, rmarkdown
NeedsCompilation: no
Maintainer: Abdelrahman Elsayed <aelsayed@stjude.org>
Depends: R (>= 4.2.0)
LazyData: true
VignetteBuilder: knitr
URL: https://github.com/abdel-elsayed87/GRIN2
BugReports: https://github.com/abdel-elsayed87/GRIN2/issues
Packaged: 2024-11-18 22:39:09 UTC; aelsa
Author: Abdelrahman Elsayed [aut, cre, cph] , Xueyuan Cao [aut], Lakshmi Anuhya patibandla [aut], Stanley Pounds [aut, cph]
Repository: CRAN
Date/Publication: 2024-11-19 12:30:36 UTC

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New package forestdynR with initial version 0.0.1
Package: forestdynR
Title: Calculate Forest Dynamics
Version: 0.0.1
Maintainer: Pedro Higuchi <higuchip@gmail.com>
Description: Determines the dynamics of tree species communities (mortality rates, recruitment, loss and gain in basal area, net changes and turnover). Important notes are a) The 'forest_df' argument (data) must contain the columns 'plot' (plot identification), 'spp' (species identification), DBH_1 (Diameter at breast height in first year of measure) and DBH_2 (Diameter at breast height in second year of measure). DBH_1 and DBH_2 must be numeric values; b) example input file in 'data(forest_df_example)'; c) The argument 'inv_time' represents the time between inventories, in years; d) The 'coord' argument must be of the type 'c(longitude, latitude)', with decimal degree values; e) Argument 'add_wd' represents a dataframe with wood density values (g cm-3) format with three columns ('genus', 'species', 'wd'). This argument is set to NULL by default, and if isn't provided, the wood density will be estimated with the getWoodDensity() function from the 'BIOMASS' package.
License: GPL (>= 2)
URL: https://github.com/higuchip/forestdynR
BugReports: https://github.com/higuchip/forestdynR/issues
Depends: R (>= 4.3.0)
Imports: BIOMASS (>= 2.1.11), tcltk (>= 1.0.0),
Suggests: covr, knitr, rmarkdown, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-18 20:37:29 UTC; optimus-prime
Author: Pedro Higuchi [cre, aut], Ana Carolina Silva [aut], Adam Slabadack [aut]
Repository: CRAN
Date/Publication: 2024-11-19 12:20:41 UTC

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New package talkr with initial version 0.1.3
Package: talkr
Title: Plotting Conversation Data
Version: 0.1.3
Description: Visualisation, analysis and quality control of conversational data. Rapid and visual insights into the nature, timing and quality of time-aligned annotations in conversational corpora. For more details, see Dingemanse et al., (2022) <doi:10.18653/v1/2022.acl-long.385>.
License: Apache License (>= 2)
Encoding: UTF-8
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
Imports: cowplot, dplyr, ggplot2, ggthemes, knitr, stats, stringr, tidyr, tidyselect
Suggests: rmarkdown, testthat (>= 3.0.0), pkgdown, ggrepel, utils
NeedsCompilation: no
Packaged: 2024-11-15 13:53:36 UTC; pablo
Author: Mark Dingemanse [aut, cre], Barbara Vreede [aut], Eva Viviani [aut], Pablo Rodriguez-Sanchez [aut], Andreas Liesenfeld [ctb], Netherlands eScience Center [cph, fnd]
Maintainer: Mark Dingemanse <mark.dingemanse@ru.nl>
Repository: CRAN
Date/Publication: 2024-11-19 11:50:03 UTC

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New package ecdata with initial version 1.1.1
Package: ecdata
Title: Loads Data from the Executive Communications Dataset
Version: 1.1.1
Description: A minimal package for downloading data from 'GitHub' repositories of the Executive Communications Database.
License: CC BY 4.0
Encoding: UTF-8
LazyData: true
URL: https://github.com/Executive-Communications-Dataset/ecdata,https://executive-communications-dataset.github.io/ecdata/
BugReports: https://github.com/Executive-Communications-Dataset/ecdata/issues
Depends: R (>= 4.0)
Imports: arrow (>= 16.1.0), cli (>= 3.6.3), rlang (>= 1.1.0), glue (>= 1.4.0), piggyback (>= 0.1.5), utils, tools, cachem (>= 1.0.0), memoise (>= 2.0.0), vctrs, curl
Suggests: duckplyr, testthat (>= 3.0.0), data.table, dplyr, altdoc, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-18 18:12:34 UTC; josh
Author: Joshua Allen [aut, cre, cph] , Ryan Carlin [ctb], Juan Gomez-Gomez-Cruces [ctb], Will Horne [aut, ctb], Jamie Lindh [ctb], Cecilia Martinez-Gallardo [ctb], Miles Massesy [ctb]
Maintainer: Joshua Allen <joshua.f.allen@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-19 12:00:10 UTC

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New package CSTE with initial version 3.0.0
Package: CSTE
Version: 3.0.0
Date: 2024-11-16
Title: Covariate Specific Treatment Effect (CSTE) Curve
Description: A uniform statistical inferential tool in making individualized treatment decisions, which implements the methods of Ma et al. (2017)<DOI:10.1177/0962280214541724> and Guo et al. (2021)<DOI:10.1080/01621459.2020.1865167>. It uses a flexible semiparametric modeling strategy for heterogeneous treatment effect estimation in high-dimensional settings and can gave valid confidence bands. Based on it, one can find the subgroups of patients that benefit from each treatment, thereby making individualized treatment selection.
License: GPL (>= 2)
Encoding: UTF-8
Imports: Rcpp (>= 1.0.4), fda, splines, survival, locpol, dfoptim
LinkingTo: Rcpp
Suggests: mvtnorm, sigmoid
NeedsCompilation: yes
Packaged: 2024-11-18 16:47:21 UTC; wenjiehu
Author: Peng Wu [aut], Wenjie Hu [aut, cre], Yuhao Deng [aut], Haoxiang Wang [aut], Xiaohua Zhou [aut]
Maintainer: Wenjie Hu <huwenjie@pku.edu.cn>
Repository: CRAN
Date/Publication: 2024-11-19 12:00:15 UTC

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New package where with initial version 1.0.0
Package: where
Title: Vectorised Substitution and Evaluation
Version: 1.0.0
Description: Provides a clean syntax for vectorising the use of Non-Standard Evaluation (NSE), for example in 'ggplot2', 'dplyr', or 'data.table'.
License: MIT + file LICENSE
URL: https://github.com/KiwiMateo/where
BugReports: https://github.com/KiwiMateo/where/issues
Suggests: data.table, dplyr, ggplot2, knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-18 06:45:14 UTC; OEM
Author: Matt Hendtlass [aut, cre]
Maintainer: Matt Hendtlass <m.hendtlass@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-19 09:40:02 UTC

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New package OutSeekR with initial version 1.0.0
Package: OutSeekR
Title: Statistical Approach to Outlier Detection in RNA-Seq and Related Data
Version: 1.0.0
Date: 2024-11-15
Description: An approach to outlier detection in RNA-seq and related data based on five statistics. 'OutSeekR' implements an outlier test by comparing the distributions of these statistics in observed data with those of simulated null data.
Depends: R (>= 2.10)
Imports: future.apply, gamlss, gamlss.dist, lsa, truncnorm
Suggests: future, knitr, rmarkdown, testthat (>= 3.0.0)
License: GPL-2
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2024-11-15 23:56:34 UTC; danknight
Author: Jee Yun Han [aut], John Sahrmann [aut], Jaron Arbet [ctb], Paul Boutros [aut, cre, cph]
Maintainer: Paul Boutros <pboutros@mednet.ucla.edu>
Repository: CRAN
Date/Publication: 2024-11-19 09:10:05 UTC

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New package multiDoE with initial version 0.9.2
Package: multiDoE
Title: Multi-Criteria Design of Experiments for Optimal Design
Version: 0.9.2
Maintainer: Andrea Melloncelli <andrea.melloncelli@vanlog.it>
Description: Multi-criteria design of experiments algorithm that simultaneously optimizes up to six different criteria ('I', 'Id', 'D', 'Ds', 'A' and 'As'). The algorithm finds the optimal Pareto front and, if requested, selects a possible symmetrical design on it. The symmetrical design is selected based on two techniques: minimum distance with the Utopia point or the 'TOPSIS' approach.
License: CC BY 4.0
URL: https://github.com/andreamelloncelli/multiDoE
Imports: ggplot2, magrittr, plotly, pracma
Suggests: devtools, here, knitr, logr, markdown, rgl, rmarkdown, testthat (>= 3.0.0), usethis
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-18 08:46:59 UTC; daco
Author: Francesca Cucchi [aut], Andrea Melloncelli [aut, cre], Francesco Sambo [aut], Kalliopi Mylona [aut], Matteo Borrotti [aut]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-11-19 09:50:02 UTC

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New package deident with initial version 1.0.0
Package: deident
Title: Persistent Data Anonymization Pipeline
Version: 1.0.0
Description: A framework for the replicable removal of personally identifiable data (PID) in data sets. The package implements a suite of methods to suit different data types based on the suggestions of Garfinkel (2015) <doi:10.6028/NIST.IR.8053> and the ICO "Guidelines on Anonymization" (2012) <https://ico.org.uk/media/1061/anonymisation-code.pdf>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 3.0.0), checkmate, knitr, rmarkdown, roxygen2
Imports: R6, dplyr, openssl, tidyselect, rlang (>= 0.4.11), glue, purrr, stringr, yaml, readr, openxlsx, lemon, withr, fs
Depends: R (>= 2.10)
VignetteBuilder: knitr
Language: en-GB
NeedsCompilation: no
Packaged: 2024-11-18 11:36:38 UTC; rzc1
Author: Robert Cook [aut, cre] , Md Assaduzaman [aut] , Sarahjane Jones [aut]
Maintainer: Robert Cook <robert.cook@staffs.ac.uk>
Repository: CRAN
Date/Publication: 2024-11-19 09:50:06 UTC

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Mon, 18 Nov 2024

New package tsmarch with initial version 1.0.0
Package: tsmarch
Title: Multivariate ARCH Models
Description: Feasible Multivariate Generalized Autoregressive Conditional Heteroscedasticity (GARCH) models including Dynamic Conditional Correlation (DCC), Copula GARCH and Generalized Orthogonal GARCH with Generalized Hyperbolic distribution. A review of some of these models can be found in Boudt, Galanos, Payseur and Zivot (2019) <doi:10.1016/bs.host.2019.01.001>.
Version: 1.0.0
Maintainer: Alexios Galanos <alexios@4dscape.com>
Depends: R (>= 3.5.0), methods, tsmethods (>= 1.0.2)
LinkingTo: Rcpp (>= 0.10.6), RcppArmadillo, RcppParallel, RcppBessel
SystemRequirements: GNU make
Imports: Rcpp, RcppParallel, tsgarch (>= 1.0.3), tsdistributions (>= 1.0.2), RcppBessel, Rsolnp, nloptr, numDeriv, abind, shape, Rdpack, xts, zoo, lubridate, sandwich, future.apply, future, stats, utils, data.table
License: GPL-2
Encoding: UTF-8
LazyData: true
BugReports: https://github.com/tsmodels/tsmarch/issues
ByteCompile: true
URL: https://github.com/tsmodels/tsmarch, https://www.nopredict.com
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), tstests
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-11-15 10:33:37 UTC; alexios
Author: Alexios Galanos [aut, cre, cph]
Repository: CRAN
Date/Publication: 2024-11-18 13:30:02 UTC

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New package effectplots with initial version 0.1.0
Package: effectplots
Title: Effect Plots
Version: 0.1.0
Description: High-performance implementation of various effect plots useful for regression and probabilistic classification tasks. The package includes partial dependence plots (Friedman, 2021, <doi:10.1214/aos/1013203451>), accumulated local effect plots and M-plots (both from Apley and Zhu, 2016, <doi:10.1111/rssb.12377>), as well as plots that describe the statistical associations between model response and features. It supports visualizations with either 'ggplot2' or 'plotly', and is compatible with most models, including 'Tidymodels', models wrapped in 'DALEX' explainers, or models with case weights.
License: GPL (>= 3)
Depends: R (>= 4.1.0)
Encoding: UTF-8
Imports: collapse, ggplot2, grDevices, patchwork, plotly, Rcpp, stats
Suggests: testthat (>= 3.0.0)
URL: https://github.com/mayer79/effectplots
BugReports: https://github.com/mayer79/effectplots/issues
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2024-11-15 11:30:14 UTC; mayer
Author: Michael Mayer [aut, cre]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-18 13:50:04 UTC

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New package CareDensity with initial version 0.1.0
Package: CareDensity
Title: Calculate the Care Density or Fragmented Care Density Given a Patient-Sharing Network
Version: 0.1.0
Maintainer: Robin Denz <robin.denz@rub.de>
Description: Given a patient-sharing network, calculate either the classic care density as proposed by Pollack et al. (2013) <doi:10.1007/s11606-012-2104-7> or the fragmented care density as proposed by Engels et al. (2024) <doi:10.1186/s12874-023-02106-0>. By utilizing the 'igraph' and 'data.table' packages, the provided functions scale well for very large graphs.
License: GPL (>= 3)
URL: https://github.com/RobinDenz1/CareDensity, https://robindenz1.github.io/CareDensity/
BugReports: https://github.com/RobinDenz1/CareDensity/issues
Depends: MatrixExtra
Imports: data.table, igraph (>= 2.0.0), utils
Suggests: knitr, rmarkdown, testthat (>= 3.2.1), covr
VignetteBuilder: knitr
Contact: <robin.denz@rub.de>
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2024-11-15 12:09:25 UTC; Robin Denz
Author: Robin Denz [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-18 13:50:11 UTC

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New package bfboinet with initial version 0.1.0
Package: bfboinet
Title: Backfill Bayesian Optimal Interval Design Using Efficacy and Toxicity
Version: 0.1.0
Description: The backfill Bayesian optimal interval design using efficacy and toxicity outcomes for dose optimization (BF-BOIN-ET) design is a novel clinical trial design to allow patients to be backfilled at lower doses during a dose-finding trial while prioritizing the dose-escalation cohort to explore a higher dose. The advantages compared to the other designs in terms of the percentage of correct optimal dose (OD) selection, reducing the sample size, and shortening the duration of the trial, in various realistic setting.
License: GPL-3
Encoding: UTF-8
Imports: Iso, copula, dplyr, tidyselect, magrittr
NeedsCompilation: no
Packaged: 2024-11-15 08:59:14 UTC; A4021579
Author: Jing Zhu [cre, aut], Kentaro Takeda [aut]
Maintainer: Jing Zhu <zhujing716@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-18 13:30:09 UTC

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Sat, 16 Nov 2024

New package dfr with initial version 0.1.1
Package: dfr
Title: Dual Feature Reduction for SGL
Version: 0.1.1
Date: 2024-11-16
Maintainer: Fabio Feser <ff120@ic.ac.uk>
Description: Implementation of the Dual Feature Reduction (DFR) approach for the Sparse Group Lasso (SGL) and the Adaptive Sparse Group Lasso (aSGL) (Feser and Evangelou (2024) <doi:10.48550/arXiv.2405.17094>). The DFR approach is a feature reduction approach that applies strong screening to reduce the feature space before optimisation, leading to speed-up improvements for fitting SGL (Simon et al. (2013) <doi:10.1080/10618600.2012.681250>) and aSGL (Mendez-Civieta et al. (2020) <doi:10.1007/s11634-020-00413-8> and Poignard (2020) <doi:10.1007/s10463-018-0692-7>) models. DFR is implemented using the Adaptive Three Operator Splitting (ATOS) (Pedregosa and Gidel (2018) <doi:10.48550/arXiv.1804.02339>) algorithm, with linear and logistic SGL models supported, both of which can be fit using k-fold cross-validation. Dense and sparse input matrices are supported.
Imports: sgs, caret, MASS, methods, stats, grDevices, graphics, Matrix
Suggests: SGL, gglasso, glmnet, testthat
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/ff1201/dfr
BugReports: https://github.com/ff1201/dfr/issues
NeedsCompilation: no
Packaged: 2024-11-16 10:32:08 UTC; ff120
Author: Fabio Feser [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-16 16:20:01 UTC

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New package sgs with initial version 0.3.1
Package: sgs
Title: Sparse-Group SLOPE: Adaptive Bi-Level Selection with FDR Control
Version: 0.3.1
Date: 2024-11-16
Maintainer: Fabio Feser <ff120@ic.ac.uk>
Description: Implementation of Sparse-group SLOPE (SGS) (Feser and Evangelou (2023) <doi:10.48550/arXiv.2305.09467>) models. Linear and logistic regression models are supported, both of which can be fit using k-fold cross-validation. Dense and sparse input matrices are supported. In addition, a general Adaptive Three Operator Splitting (ATOS) (Pedregosa and Gidel (2018) <doi:10.48550/arXiv.1804.02339>) implementation is provided. Group SLOPE (gSLOPE) (Brzyski et al. (2019) <doi:10.1080/01621459.2017.1411269>) and group-based OSCAR models (Feser and Evangelou (2024) <doi:10.48550/arXiv.2405.15357>) are also implemented. All models are available with strong screening rules (Feser and Evangelou (2024) <doi:10.48550/arXiv.2405.15357>) for computational speed-up.
Imports: Matrix, MASS, caret, grDevices, graphics, methods, stats, SLOPE, Rlab, Rcpp (>= 1.0.10)
LinkingTo: Rcpp, RcppArmadillo
Suggests: SGL, gglasso, glmnet, testthat, knitr, grpSLOPE, rmarkdown
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/ff1201/sgs
BugReports: https://github.com/ff1201/sgs/issues
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2024-11-16 10:33:20 UTC; ff120
Author: Fabio Feser [aut, cre]
Repository: CRAN
Date/Publication: 2024-11-16 14:20:02 UTC

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Fri, 15 Nov 2024

New package GeoTox with initial version 0.2.0
Package: GeoTox
Title: Spatiotemporal Mixture Risk Assessment
Version: 0.2.0
Description: Connecting spatiotemporal exposure to individual and population-level risk via source-to-outcome continuum modeling. The package, methods, and case-studies are described in Messier, Reif, and Marvel (2024) <doi:10.1101/2024.09.23.24314096> and Eccles et al. (2023) <doi:10.1016/j.scitotenv.2022.158905>.
License: MIT + file LICENSE
URL: https://niehs.github.io/GeoTox/, https://github.com/NIEHS/GeoTox
Depends: R (>= 4.4.0)
Imports: dplyr, ggplot2, ggridges, rlang, sf, stats, stringr, tibble, tidyr, tidyselect, truncnorm, utils
Suggests: ggpubr, httk, httr2, knitr, purrr, readr, readxl, rmarkdown, scales, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
BugReports: https://github.com/NIEHS/GeoTox/issues
NeedsCompilation: no
Packaged: 2024-11-14 17:29:09 UTC; marvelsw
Author: Skylar Marvel [aut] , David Reif [aut] , Kyle Messier [cre, aut] , Spatiotemporal Exposures and Toxicology Group [cph]
Maintainer: Kyle Messier <kyle.messier@nih.gov>
Repository: CRAN
Date/Publication: 2024-11-15 14:20:02 UTC

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New package OPTeCD with initial version 1.0.0
Package: OPTeCD
Title: Optimal Partial Tetra-Allele Cross Designs
Version: 1.0.0
Maintainer: Ashutosh Dalal <ashutosh.dalal97@gmail.com>
Description: Tetra-allele cross often referred as four-way cross or double cross or four-line cross are those type of mating designs in which every cross is obtained by mating amongst four inbred lines. A tetra-allele cross can be obtained by crossing the resultant of two unrelated diallel crosses. A common triallel cross involving four inbred lines A, B, C and D can be symbolically represented as (A X B) X (C X D) or (A, B, C, D) or (A B C D) etc. Tetra-allele cross can be broadly categorized as Complete Tetra-allele Cross (CTaC) and Partial Tetra-allele Crosses (PTaC). Rawlings and Cockerham (1962)<doi:10.2307/2527461> firstly introduced and gave the method of analysis for tetra-allele cross hybrids using the analysis method of single cross hybrids under the assumption of no linkage. The set of all possible four-way mating between several genotypes (individuals, clones, homozygous lines, etc.) leads to a CTaC. If there are N number of inbred lines involved in a CTaC, the the total number of [...truncated...]
License: GPL (>= 2)
Encoding: UTF-8
Repository: CRAN
NeedsCompilation: no
Packaged: 2024-11-15 06:17:26 UTC; Ashutosh
Author: Mohd Harun [aut, ctb], Cini Varghese [aut, ctb], Seema Jaggi [ctb], Eldho Varghese [ctb], Ashutosh Dalal [aut, cre]
Date/Publication: 2024-11-15 09:10:02 UTC

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New package wbids with initial version 0.1.0
Package: wbids
Title: Seamless Access to World Bank International Debt Statistics (IDS)
Version: 0.1.0
Description: Access and analyze the World Bank’s International Debt Statistics (IDS) <https://datacatalog.worldbank.org/search/dataset/0038015>. IDS provides creditor-debtor relationships between countries, regions, and institutions. 'wbids' enables users to download, process and work with IDS series across multiple geographies, counterparts, and time periods.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1)
Imports: cli, withr, httr2 (>= 1.0.0), dplyr (>= 1.0.0), purrr (>= 1.0.0), tidyr (>= 1.0.0), rlang (>= 1.0.0)
Suggests: curl, jsonlite, tibble, lintr (>= 3.1.2), quarto, readxl (>= 1.0.0), rmarkdown, testthat (>= 3.0.0), languageserver (>= 0.3.16)
URL: https://teal-insights.github.io/r-wbids/, https://github.com/teal-insights/r-wbids/
BugReports: https://github.com/teal-insights/r-wbids/issues
VignetteBuilder: quarto
NeedsCompilation: no
Packaged: 2024-11-14 15:55:27 UTC; teal_emery
Author: Teal Emery [aut, cre], Teal Insights [cph], Christoph Scheuch [aut] , Christopher Smith [ctb]
Maintainer: Teal Emery <lte@tealinsights.com>
Repository: CRAN
Date/Publication: 2024-11-15 09:00:02 UTC

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New package ReportSubtotal with initial version 0.1
Package: ReportSubtotal
Title: Adds Subtotals to Data Reports
Version: 0.1
Description: Adds subtotal rows / sections (a la the SAS "Proc Tabulate" "All" option) to a Group By output by running a series of Group By functions with partial sets of the same variables and combining the results with the original. Can be used to add comprehensive information to a data report or to quickly aggregate Group By outputs used to gain a greater understanding of data.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: dplyr, tidyselect, utils, magrittr
NeedsCompilation: no
Packaged: 2024-11-14 17:36:27 UTC; yonia
Author: Yoni Aboody [aut, cre, cph]
Maintainer: Yoni Aboody <yoniaboody@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-15 09:00:13 UTC

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New package quicR with initial version 1.0.2
Package: quicR
Title: RT-QuIC Data Formatting and Analysis
Version: 1.0.2
Description: Designed for the curation and analysis of data generated from real-time quaking-induced conversion (RT-QuIC) assays first described by Atarashi et al. (2011) <doi:10.1038/nm.2294>. 'quicR' calculates useful metrics such as maxpoint ratio: Rowden et al. (2023) <doi:10.1099/vir.0.069906-0>; time-to-threshold: Shi et al. (2013) <doi:10.1186/2051-5960-1-44>; and maximum slope. Integration with the output from plate readers allows for seamless input of raw data into the R environment.
Imports: dplyr, ggplot2, openxlsx, readxl, reshape2, slider, stats, stringr, tidyr
License: GPL-3
Encoding: UTF-8
Suggests: testthat (>= 3.1.0)
NeedsCompilation: no
Packaged: 2024-11-14 18:14:24 UTC; rowde002
Author: Gage Rowden [aut, cre]
Maintainer: Gage Rowden <gage.rowden1145@gmail.com>
Repository: CRAN
Date/Publication: 2024-11-15 09:00:05 UTC

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New package necountries with initial version 0.1-1
Package: necountries
Version: 0.1-1
Date: 2024-11-14
Title: Countries of the World
Depends: R (>= 4.0.0)
Imports: Rdpack, tibble, ggplot2, sf, dplyr, ggrepel, rlang, classInt, stringr, magrittr, stringi
Description: Based on Natural Earth <https://www.naturalearthdata.com/>, a subset of countries can easily be selected with their administrative boundaries, joined with an external data frame and plotted as a thematic map.
License: GPL (>= 2)
Encoding: UTF-8
URL: https://www.R-project.org
Author: Yves Croissant [aut, cre]
Maintainer: Yves Croissant <yves.croissant@univ-reunion.fr>
LazyData: true
NeedsCompilation: no
Suggests: knitr, tidyr, purrr, quarto
VignetteBuilder: quarto
Packaged: 2024-11-14 12:12:10 UTC; yves
Repository: CRAN
Date/Publication: 2024-11-15 09:00:10 UTC

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New package HMMRel with initial version 0.1.0
Package: HMMRel
Title: Hidden Markov Models for Reliability and Maintenance
Version: 0.1.0
Author: M.L. Gamiz [aut, cre, cph], N. Limnios [aut, cph], M.C. Segovia-Garcia [aut, cph]
Maintainer: M.L. Gamiz <mgamiz@ugr.es>
Description: Reliability Analysis and Maintenance Optimization using Hidden Markov Models (HMM). The use of HMMs to model the state of a system which is not directly observable and instead certain indicators (signals) of the true situation are provided via a control system. A hidden model can provide key information about the system dependability, such as the reliability of the system and related measures. An estimation procedure is implemented based on the Baum-Welch algorithm. Classical structures such as K-out-of-N systems and Shock models are illustrated. Finally, the maintenance of the system is considered in the HMM context and two functions for new preventive maintenance strategies are considered. Maintenance efficiency is measured in terms of expected cost. Maintenance efficiency is measured in terms of expected cost. Methods are described in Gamiz, Limnios, and Segovia-Garcia (2023) <doi:10.1016/j.ejor.2022.05.006>.
License: GPL-2
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2024-11-14 19:44:04 UTC; Usuario
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2024-11-15 09:00:17 UTC

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