CRANberries

Mon, 02 Aug 2021

New package MixedIndTests with initial version 0.1.4
Package: MixedIndTests
Title: Tests of Randomness and Tests of Independence
Version: 0.1.4
Description: Functions for testing randomness for a univariate time series with arbitrary distribution (discrete, continuous, mixture of both types) and for testing independence between random variables with arbitrary distributions. The test statistics are based on the multilinear empirical copula and multipliers are used to compute P-values. The test of independence between random variables appeared in <doi:10.1093/biomet/asy059>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0), doParallel, parallel, foreach, stats
Imports: ggplot2,survey
NeedsCompilation: yes
Packaged: 2021-07-29 14:07:10 UTC; Utilisateur
Author: Bouchra R. Nasri [aut, cre, cph], Bruno N Remillard [aut], Johanna G Neslehova [aut], Christian Genest [aut]
Maintainer: Bouchra R. Nasri <bouchra.nasri@umontreal.ca>
Repository: CRAN
Date/Publication: 2021-08-02 08:00:02 UTC

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New package dispositionEffect with initial version 1.0.0
Package: dispositionEffect
Title: Analysis of Disposition Effect on Financial Portfolios
Version: 1.0.0
Description: Evaluate the presence of disposition effect and others irrational investor's behaviors based solely on investor's transactions and financial market data. Experimental data can also be used to perform the analysis. Four different methodologies are implemented to account for the different nature of human behaviors on financial markets. Novel analyses such as portfolio driven and time series disposition effect are also allowed.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: dplyr, purrr, lubridate, magrittr, progress, rlang,
Suggests: devtools, knitr, rmarkdown, roxygen2, testthat, covr, tidyr, skimr, ggplot2, ggridges, gghalves, furrr, future, foreach, doParallel, parallel, bench
VignetteBuilder: knitr
URL: https://marcozanotti.github.io/dispositionEffect/, https://github.com/marcozanotti/dispositionEffect
BugReports: https://github.com/marcozanotti/dispositionEffect/issues
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2021-07-29 12:52:16 UTC; marco.zanotti
Author: Lorenzo Mazzucchelli [aut], Marco Zanotti [aut, cre]
Maintainer: Marco Zanotti <zanottimarco17@gmail.com>
Repository: CRAN
Date/Publication: 2021-08-02 07:50:02 UTC

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Fri, 30 Jul 2021

New package apsimx with initial version 1.998
Package: apsimx
Title: Inspect, Read, Edit and Run 'APSIM' "Next Generation" and 'APSIM' Classic
Version: 1.998
Description: The functions in this package inspect, read, edit and run files for 'APSIM' "Next Generation" ('JSON') and 'APSIM' "Classic" ('XML'). The files with an 'apsim' extension correspond to 'APSIM' Classic (7.x) - Windows only - and the ones with an 'apsimx' extension correspond to 'APSIM' "Next Generation". For more information about 'APSIM' see (<https://www.apsim.info/>) and for 'APSIM' next generation (<https://apsimnextgeneration.netlify.app/>).
Depends: R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
VignetteBuilder: knitr
BugReports: https://github.com/femiguez/apsimx/issues
Imports: DBI, jsonlite, knitr, RSQLite, tools, utils, xml2
Suggests: BayesianTools, datasets, daymetr, FedData, ggplot2, GSODR, listviewer, maps, mvtnorm, nasapower, nloptr, raster, reactR, rmarkdown, soilDB, sp, spData, sf
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-29 19:45:55 UTC; fernandomiguez
Author: Fernando Miguez [aut, cre] (<https://orcid.org/0000-0002-4627-8329>)
Maintainer: Fernando Miguez <femiguez@iastate.edu>
Repository: CRAN
Date/Publication: 2021-07-30 15:00:06 UTC

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New package iccCounts with initial version 1.0.3
Package: iccCounts
Title: Intraclass Correlation Coefficient for Count Data
Version: 1.0.3
Author: Josep L. Carrasco <jlcarrasco@ub.edu>
Maintainer: Josep L. Carrasco <jlcarrasco@ub.edu>
Depends: R (>= 4.0)
Imports: glmmTMB, ggplot2, Deriv, gridExtra, VGAM, dplyr
Suggests: knitr, rmarkdown
Description: Estimates the intraclass correlation coefficient (ICC) for count data to assess repeatability (intra-methods concordance) and concordance (between-method concordance). In the concordance setting, the ICC is equivalent to the concordance correlation coefficient estimated by variance components. The ICC is estimated using the estimates from generalized linear mixed models. The within-subjects distributions considered are: Poisson; Negative Binomial with additive and proportional extradispersion; Zero-Inflated Poisson; and Zero-Inflated Negative Binomial with additive and proportional extradispersion. The statistical methodology used to estimate the ICC with count data can be found in Carrasco (2010) <doi:10.1111/j.1541-0420.2009.01335.x>.
VignetteBuilder: knitr
Encoding: UTF-8
License: GPL (>= 2)
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-30 08:12:59 UTC; hexac
Repository: CRAN
Date/Publication: 2021-07-30 13:00:02 UTC

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New package semtree with initial version 0.9.17
Package: semtree
Title: Recursive Partitioning for Structural Equation Models
Author: Andreas M. Brandmaier [aut, cre], John J. Prindle [aut], Manuel Arnold [aut]
Maintainer: Andreas M. Brandmaier <andy@brandmaier.de>
Depends: R (>= 2.10), OpenMx (>= 2.6.9),
Imports: bitops, sets, digest, rpart, rpart.plot (>= 3.0.6), plotrix, cluster, stringr, lavaan, ggplot2, tidyr, methods, strucchange, sandwich, zoo, crayon, clisymbols, future.apply
Suggests: knitr, rmarkdown, viridis, MASS, psychTools, testthat
Description: SEM Trees and SEM Forests -- an extension of model-based decision trees and forests to Structural Equation Models (SEM). SEM trees hierarchically split empirical data into homogeneous groups each sharing similar data patterns with respect to a SEM by recursively selecting optimal predictors of these differences. SEM forests are an extension of SEM trees. They are ensembles of SEM trees each built on a random sample of the original data. By aggregating over a forest, we obtain measures of variable importance that are more robust than measures from single trees. A description of the method was published by Brandmaier, von Oertzen, McArdle, & Lindenberger (2013; <doi:10.1037/a0030001>) and Arnold, Voelkle, & Brandmaier (2020; <doi:10.3389/fpsyg.2020.564403>).
License: GPL-3
Encoding: UTF-8
LazyLoad: yes
Version: 0.9.17
Date: 2021-07-27
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-29 17:27:37 UTC; brandmaier
Repository: CRAN
Date/Publication: 2021-07-30 08:10:02 UTC

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New package ndtv with initial version 0.13.1
Package: ndtv
Title: Network Dynamic Temporal Visualizations
Version: 0.13.1
Date: 2021-07-29
Depends: R (>= 3.0), network (>= 1.13),networkDynamic (>= 0.9),animation (>= 2.4),sna
Imports: MASS, statnet.common, jsonlite, base64
Suggests: tergm (>= 3.6), tsna, testthat, knitr, htmlwidgets, scatterplot3d
Description: Renders dynamic network data from 'networkDynamic' objects as movies, interactive animations, or other representations of changing relational structures and attributes.
License: GPL-3 + file LICENSE
URL: https://github.com/statnet/ndtv
NeedsCompilation: no
Packaged: 2021-07-30 05:27:59 UTC; skyebend
Author: Skye Bender-deMoll [cre, aut], Martina Morris [ctb]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Repository: CRAN
Date/Publication: 2021-07-30 08:20:02 UTC

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New package mvoutlier with initial version 2.1.1
Package: mvoutlier
Version: 2.1.1
Date: 2021-07-29
Title: Multivariate Outlier Detection Based on Robust Methods
Author: Peter Filzmoser <P.Filzmoser@tuwien.ac.at> and Moritz Gschwandtner <e0125439@student.tuwien.ac.at>
Maintainer: P. Filzmoser <P.Filzmoser@tuwien.ac.at>
Depends: sgeostat, R (>= 3.1)
Imports: robustbase
Description: Various methods for multivariate outlier detection: arw, a Mahalanobis-type method with an adaptive outlier cutoff value; locout, a method incorporating local neighborhood; pcout, a method for high-dimensional data; mvoutlier.CoDa, a method for compositional data. References are provided in the corresponding help files.
LazyData: TRUE
License: GPL (>= 3)
URL: http://cstat.tuwien.ac.at/filz/
Packaged: 2021-07-29 17:14:43 UTC; filz
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2021-07-30 08:10:05 UTC

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New package mcvis with initial version 1.0.8
Package: mcvis
Title: Multi-Collinearity Visualization
Version: 1.0.8
Description: Visualize the relationship between linear regression variables and causes of multi-collinearity. Implements the method in Lin et. al. (2020) <doi:10.1080/10618600.2020.1779729>.
Encoding: UTF-8
Imports: assertthat, igraph, ggplot2, purrr, magrittr, reshape2, shiny, dplyr, psych, rlang
License: GPL-3
Suggests: testthat (>= 2.1.0), covr, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-30 02:56:36 UTC; kevinwang
Author: Kevin Wang [aut, cre], Chen Lin [aut], Samuel Mueller [aut]
Maintainer: Kevin Wang <kevin.wang09@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-30 08:20:05 UTC

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Thu, 29 Jul 2021

New package pacs with initial version 0.2.5
Package: pacs
Title: Supplementary Tools for R Packages Developers
Version: 0.2.5
Maintainer: Maciej Nasinski <nasinski.maciej@gmail.com>
Description: Supplementary utils for CRAN maintainers and R packages developers. Validating the library or packages health. Exploring complexity of a certain package like evaluating sizes in bytes of all its dependencies. Assessing life duration of a specific package version. Checking a package CRAN check page status for any errors and warnings. Retrieving a DESCRIPTION file for any package version. Getting a list of all releases for a specific package.
License: GPL (>= 3)
URL: https://github.com/Polkas/pacs
BugReports: https://github.com/Polkas/pacs/issues
Encoding: UTF-8
Suggests: remotes, testthat (>= 3.0.0), withr
Imports: memoise
NeedsCompilation: no
Packaged: 2021-07-28 16:43:02 UTC; maciejnasinski
Author: Maciej Nasinski [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-29 13:20:02 UTC

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New package IPMbook with initial version 0.1.1
Package: IPMbook
Title: Functions and Data for the Book 'Integrated Population Models'
Version: 0.1.1
Date: 2021-07-29
Depends: R (>= 2.10)
Imports: stats, abind
Suggests:
BugReports: https://github.com/mikemeredith/IPMbook/issues
Description: Provides functions and data sets to accompany the book 'Integrated Population Models: Theory and Ecological Applications with R and JAGS' by Michael Schaub and Marc Kéry (ISBN: 9780128205648).
License: GPL (>= 3)
URL: https://www.elsevier.com/books/integrated-population-models/schaub/978-0-12-820564-8
NeedsCompilation: no
Encoding: UTF-8
Language: en-US
Packaged: 2021-07-29 06:43:14 UTC; User
Author: Michael Schaub [aut], Marc Kéry [aut], Mike Meredith [aut, cre], Raphaël Arlettaz [dtc] (bats), Gabriel Banderet [dtc] (peregrine), François Biollaz [dtc] (bats), Radames Bionda [dtc] (grouse), Thomas Bregnballe [dtc] (cormorant), Hans Jakober [dtc] (redbacked), Ioannis Ntzoufras [ctb], Luca Rotelli [dtc] (grouse), Antoine Sierro [dtc] (bats), Wolfgang Stauber [dtc] (redbacked), Bruno Ullrich [dtc] (woodchat11), Fonds Sauvegarde Faune Flore Jurassienne - Groupe Pèlerin Jura [dtc] (peregrine), Idaho Department of Fish and Game [dtc] (elk), Louisiana Department of Wildlife and Fisheries [dtc] (bear), Monitoring Avian Productivity and Survivorship program (MAPS) [dtc] (catbird), North American Breeding Bird Survey (BBS) [dtc] (catbird), University Bern, Division of Conservation Biology [dtc] (hoopoe), Vogelwarte Hiddensee, Germany [dtc] (stork), Swiss Ornithological Institute [dtc] (hoopoe, kestrel, peregrine, swallow, wryneck)
Maintainer: Mike Meredith <mike@mmeredith.net>
Repository: CRAN
Date/Publication: 2021-07-29 10:40:02 UTC

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New package cansim with initial version 0.3.9
Package: cansim
Title: Accessing Statistics Canada Data Table and Vectors
Version: 0.3.9
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Description: Searches for, accesses, and retrieves new-format and old-format Statistics Canada data tables, as well as individual vectors, as tidy data frames. This package deals with encoding issues, allows for bilingual English or French language data retrieval, and bundles convenience functions to make it easier to work with retrieved table data. Optional caching features are provided.
License: MIT + file LICENSE
Encoding: UTF-8
ByteCompile: yes
NeedsCompilation: no
LazyData: true
Depends: R (>= 2.10)
Imports: digest (>= 0.1), dplyr (>= 0.7), httr (>= 1.0.0), jsonlite (>= 1.0), readr, rlang, xml2, rvest, stringr, purrr, tibble, utils, DBI, RSQLite
Suggests: knitr, rmarkdown, scales, tidyr, ggplot2, dbplyr
URL: https://github.com/mountainMath/cansim, https://mountainmath.github.io/cansim/, https://www.statcan.gc.ca/
BugReports: https://github.com/mountainMath/cansim/issues
VignetteBuilder: knitr
Language: en-CA
Packaged: 2021-07-28 20:41:02 UTC; jens
Author: Jens von Bergmann [cre], Dmitry Shkolnik [aut]
Repository: CRAN
Date/Publication: 2021-07-29 10:10:02 UTC

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New package PropensitySub with initial version 0.2.0
Package: PropensitySub
Title: Treatment Effect Estimate in Strata with Missing Data
Version: 0.2.0
Maintainer: Heng Wang <wangh107@gene.com>
Description: Estimate treatment effect in strata when subjects have missing strata labels, via inverse probability weighting or propensity score matching.
Depends: R (>= 3.5.0), survival
Imports: Matching, rlang, plyr, nnet, ggplot2, survminer, dplyr, gridExtra, gtable, grid, pROC, scales
Suggests: knitr, rmarkdown
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-29 03:14:50 UTC; wangh107
Author: Ning Leng [aut], Heng Wang [aut, cre], Shengchun Kong [aut], Dominik Heinzmann [aut]
Repository: CRAN
Date/Publication: 2021-07-29 08:50:11 UTC

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New package LREP with initial version 0.1.0
Package: LREP
Title: Estimate and Test Exponential vs. Pareto Distributions
Version: 0.1.0
Maintainer: Jiqiang Wu <charles.wu@utah.edu>
Description: The programs were developed for estimation of parameters and testing exponential versus Pareto distribution during our work on hydrologic extremes. See Kozubowski, T.J., A.K. Panorska, F. Qeadan, and A. Gershunov (2007) <doi:10.1080/03610910802439121>, and Panorska, A.K., A. Gershunov, and T.J. Kozubowski (2007) <doi:10.1007/978-0-387-34918-3_26>.
BugReports: https://github.com/jiqiaingwu/LREP/issues
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 4.0.0)
NeedsCompilation: no
Packaged: 2021-07-29 01:28:28 UTC; Charles
Author: Fares Qeadan [aut], Jiqiang Wu [aut, cre], Tomasz Kozubowski [aut], Anna Panorska [aut]
Repository: CRAN
Date/Publication: 2021-07-29 08:50:14 UTC

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New package individual with initial version 0.1.4
Package: individual
Title: Framework for Specifying and Simulating Individual Based Models
Version: 0.1.4
Description: A framework which provides users a set of useful primitive elements for specifying individual based simulation models, with special attention models for infectious disease epidemiology. Users build models by specifying variables for each characteristic of individuals in the simulated population by using data structures exposed by the package. The package provides efficient methods for finding subsets of individuals based on these variables, or cohorts. Cohorts can then be targeted for variable updates or scheduled for events. Variable updates queued during a time step are executed at the end of a discrete time step, and the code places no restrictions on how individuals are allowed to interact. These data structures are designed to provide an intuitive way for users to turn their conceptual model of a system into executable code, which is fast and memory efficient.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: R6, Rcpp
Suggests: ggplot2, knitr, mockery, rmarkdown, reshape2, pkgdown, testthat (>= 2.1.0)
VignetteBuilder: knitr
LinkingTo: Rcpp, testthat
RcppModules: individual_cpp
NeedsCompilation: yes
Packaged: 2021-07-28 11:26:03 UTC; root
Author: Giovanni Charles [aut, cre], Sean L. Wu [aut] (<https://orcid.org/0000-0002-5781-9493>), Pete Winskill [aut], Imperial College of Science, Technology and Medicine [cph]
Maintainer: Giovanni Charles <giovanni.charles@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-29 08:30:06 UTC

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New package censable with initial version 0.0.2
Package: censable
Title: Making Census Data More Usable
Version: 0.0.2
Date: 2021-07-28
URL: https://christopherkenny.github.io/censable/, https://github.com/christopherkenny/censable
BugReports: https://github.com/christopherkenny/censable/issues
Description: Creates a common framework for organizing, naming, and gathering population, age, race, and ethnicity data from the Census Bureau. Accesses the API <https://www.census.gov/data/developers/data-sets.html> via the package tidycensus. Provides tools for adding information to existing data to line up with Census data.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: roxygen2, testthat (>= 3.0.0)
Imports: magrittr, dplyr (>= 1.0.4), rlang (>= 0.1.2), tidycensus, sf (>= 1.0.0), tibble, stringr, memoise
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2021-07-28 21:24:15 UTC; chris
Author: Christopher T. Kenny [aut, cre] (<https://orcid.org/0000-0002-9386-6860>)
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Repository: CRAN
Date/Publication: 2021-07-29 08:40:05 UTC

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Wed, 28 Jul 2021

New package RcppML with initial version 0.1.0
Package: RcppML
Title: Rcpp Machine Learning Library
Version: 0.1.0
Date: 2021-06-29
Description: High-performance machine learning algorithms implemented in 'Rcpp' and 'RcppEigen', including non-negative factorization of sparse matrices, projection of linear factor models, and non-negative least squares.
License: GPL (>= 2)
Imports: Rcpp, Matrix, methods, stats
LinkingTo: Rcpp, RcppEigen
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
URL: https://github.com/zdebruine/RcppML
BugReports: https://github.com/zdebruine/RcppML/issues
NeedsCompilation: yes
Packaged: 2021-07-28 11:36:50 UTC; Owner
Author: Zachary DeBruine [aut, cre] (<https://orcid.org/0000-0003-2234-4827>)
Maintainer: Zachary DeBruine <zacharydebruine@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-28 12:10:08 UTC

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New package bdrc with initial version 1.0.0
Package: bdrc
Title: Bayesian Discharge Rating Curves
Version: 1.0.0
Maintainer: Solvi Rognvaldsson <solviro@gmail.com>
Description: Fits a discharge rating curve based on the power-law and the generalized power-law from data on paired stage and discharge measurements in a given river using a Bayesian hierarchical model as described in Hrafnkelsson et al. (2020) <arXiv:2010.04769>.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
LazyData: true
Imports: ggplot2, grid, gridExtra, rlang, scales
Suggests: testthat, knitr, rmarkdown, covr, vdiffr
VignetteBuilder: knitr
BugReports: https://github.com/sor16/bdrc/issues
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-28 07:37:21 UTC; solviro
Author: Birgir Hrafnkelsson [aut, cph] (<https://orcid.org/0000-0003-1864-9652>), Solvi Rognvaldsson [aut, cre] (<https://orcid.org/0000-0002-4376-3361>), Axel Orn Jansson [aut], Rafael Vias [aut]
Repository: CRAN
Date/Publication: 2021-07-28 12:10:04 UTC

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New package tldr with initial version 0.2.3
Package: tldr
Title: T Loux Doing R: Functions to Simplify Data Analysis and Reporting
Version: 0.2.3
Description: Gives a number of functions to aid common data analysis processes and reporting statistical results in an 'RMarkdown' file. Data analysis functions combine multiple base R functions used to describe simple bivariate relationships into a single, easy to use function. Reporting functions will return character strings to report p-values, confidence intervals, and hypothesis test and regression results. Strings will be LaTeX-formatted as necessary and will knit pretty in an 'RMarkdown' document. The package also provides a wrapper for the CreateTableOne() function in the 'tableone' package to make the results knit-able.
Depends: R (>= 3.3.1)
Imports: tableone, ggplot2, reshape2
Suggests: knitr
License: GPL-3
Encoding: UTF-8
LazyData: false
NeedsCompilation: no
Packaged: 2021-07-15 19:42:10 UTC; loux
Author: Travis Loux [aut, cre]
Maintainer: Travis Loux <travis.loux@slu.edu>
Repository: CRAN
Date/Publication: 2021-07-28 11:40:02 UTC

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New package predfairness with initial version 0.1.0
Package: predfairness
Title: Discrimination Mitigation for Machine Learning Models
Version: 0.1.0
Date: 2021-07-14
Maintainer: Thaís de Bessa Gontijo de Oliveira <thais.bgo@gmail.com>
Description: Based on different statistical definitions of discrimination, several methods have been proposed to detect and mitigate social inequality in machine learning models. This package aims to provide an alternative to fairness treatment in predictive models. The ROC method implemented in this package is described by Kamiran, Karim and Zhang (2012) <https://ieeexplore.ieee.org/document/6413831/>.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Suggests: caret, stats
NeedsCompilation: no
Packaged: 2021-07-27 19:51:49 UTC; leonardopv
Author: Thaís de Bessa Gontijo de Oliveira [aut, cre], Leonardo Paes Vieira [aut], Gustavo Rodrigues Lacerda Silva [ctb], Barbara Bianca Alves Cardoso [ctb], Douglas Alexandre Gomes Vieira [ctb]
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-28 11:50:02 UTC

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New package MedianaDesigner with initial version 0.2.2
Package: MedianaDesigner
Title: Efficient Simulation-Based Power and Sample Size Calculations for a Broad Class of Late-Stage Clinical Trials
Version: 0.2.2
Date: 2021-07-12
Author: Alex Dmitrienko [aut, cre]
Depends: R (>= 3.1.2)
Imports: Rcpp (>= 0.12.10), officer, flextable, devEMF, shiny, shinydashboard, shinyMatrix
Suggests: testthat
LinkingTo: Rcpp
Maintainer: Alex Dmitrienko <admitrienko@mediana.us>
Description: The following modules are included in the package: Adaptive designs with data-driven sample size or event count re-estimation, Adaptive designs with data-driven treatment selection, Adaptive designs with data-driven population selection, Optimal selection of a futility stopping rule, Event prediction in event-driven trials.
License: GPL-3
LazyLoad: yes
LazyData: true
NeedsCompilation: yes
Packaged: 2021-07-25 12:26:50 UTC; victordmitrienko
Repository: CRAN
Date/Publication: 2021-07-28 11:20:12 UTC
URL: https://github.com/medianasoft/MedianaDesigner
BugReports: https://github.com/medianasoft/MedianaDesigner/issues

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New package ipeadatar with initial version 0.1.4
Package: ipeadatar
Title: API Wrapper for 'Ipeadata'
Version: 0.1.4
Author: Luiz Eduardo S. Gomes [aut, cre], Jessyka A. P. Goltara [ctb]
Maintainer: Luiz Eduardo S. Gomes <gomes.leduardo@gmail.com>
Description: Allows direct access to the macroeconomic, financial and regional database maintained by Brazilian Institute for Applied Economic Research ('Ipea'). This R package uses the 'Ipeadata' API. For more information, see <http://www.ipeadata.gov.br/>.
Depends: R (>= 3.5.0)
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/gomesleduardo/ipeadatar
BugReports: https://github.com/gomesleduardo/ipeadatar/issues
Imports: stringr, curl, rlang, jsonlite, magrittr, dplyr, lubridate, purrr, sjlabelled
NeedsCompilation: no
LazyData: false
Packaged: 2021-07-24 01:51:40 UTC; Eduardo
Repository: CRAN
Date/Publication: 2021-07-28 11:20:06 UTC

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New package assemblerr with initial version 0.1.0
Package: assemblerr
Title: Assembly of Pharmacometric Models
Description: Construct pharmacometric nonlinear mixed effect models by combining predefined model components and automatically generate model code for NONMEM. Models are created by combining parameter and observation models, algebraic relationships, compartments, and flows. Pharmacokinetic models can be assembled from the higher-order components: absorption, distribution, and elimination. The generated code is optimized for performance by recognizing, for example, linear differential equations or differential equations with an analytic solution.
Version: 0.1.0
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: testthat (>= 3.0.2), knitr, rmarkdown, covr, withr, markdown
Imports: purrr, rlang, magrittr, methods, glue, vctrs (>= 0.3.4), cli (>= 2.1.0), tidyselect
VignetteBuilder: knitr
ByteCompile: true
URL: https://github.com/UUPharmacometrics/assemblerr
BugReports: https://github.com/UUPharmacometrics/assemblerr/issues
NeedsCompilation: no
Packaged: 2021-07-27 13:56:14 UTC; seb
Author: Sebastian Ueckert [aut, cre, cph] (<https://orcid.org/0000-0002-3712-0255>), Mats O. Karlsson [sad], Andrew C. Hooker [sad], Rikard Nordgren [sad], Simon Carter [rev], Simon Buatois [rev], João A. Abrantes [rev], F. Hoffmann-La Roche Ltd. [fnd]
Maintainer: Sebastian Ueckert <sebastian.ueckert@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-28 11:40:05 UTC

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New package ADP with initial version 0.1.3
Package: ADP
Title: Adoption Probability, Triers and Users Rate of a New Product
Version: 0.1.3
Date: 2021-07-27
Maintainer: Mickey Kislev <mickeykislev@researchgap.ac>
Description: Calculating users of a product based on the prevalence of triers in the population. The measuring of triers is relatively easy. It is just a question of whether a person tried a product even once in his life or not. While measuring the rate of people who also adopt it as part of their life is more complicated since the adoption of an innovative product is a subjective view of the individual. Mickey Kislev and Shira Kislev developed a formula to calculates the prevalence of users of a product to overcome this difficulty. The current calculator assists in calculating the users of a product based on the prevalence of triers in the population. See for: Kislev, M., and S. Kislev (2020) <doi:10.5539/ijms.v12n4p63>.
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-27 19:20:56 UTC; micke
Author: Mickey Kislev [cre], Shira Kislev [aut]
Repository: CRAN
Date/Publication: 2021-07-28 11:50:05 UTC

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New package stringx with initial version 0.1.2
Package: stringx
Title: Drop-in Replacements for Base String Functions Powered by 'stringi'
Version: 0.1.2
Date: 2021-07-27
Description: English is the native language for only 5% of the World population. Also, only 17% of us can understand this text. Moreover, the Latin alphabet is the main one for merely 36% of the total. The early computer era, now a very long time ago, was dominated by the US. Due to the proliferation of the internet, smartphones, social media, and other technologies and communication platforms, this is no longer the case. This package replaces base R string functions (such as grep(), tolower(), and sprintf()) with ones that fully support the Unicode standards related to natural language processing, fixes some long-standing inconsistencies, and introduces some new, useful features. Thanks to 'ICU' (International Components for Unicode) and 'stringi', they are fast, reliable, and portable across different platforms.
BugReports: https://github.com/gagolews/stringx/issues
URL: https://stringx.gagolewski.com/
License: GPL (>= 2)
Depends: R (>= 4.1.0)
Imports: stringi (>= 1.7.2)
Suggests: realtest (>= 0.2.1)
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-27 08:26:13 UTC; gagolews
Author: Marek Gagolewski [aut, cre, cph] (<https://orcid.org/0000-0003-0637-6028>)
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Repository: CRAN
Date/Publication: 2021-07-28 10:50:02 UTC

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New package profoc with initial version 0.8.0
Package: profoc
Title: Probabilistic Forecast Combination Using CRPS Learning
Version: 0.8.0
Date: 2021-07-27
Description: Combine probabilistic forecasts using CRPS learning algorithms proposed in Berrisch, Ziel (2021) <arXiv:2102.00968>. The package implements multiple online learning algorithms like Bernstein online aggregation; see Wintenberger (2014) <arXiv:1404.1356>. Quantile regression is also implemented for comparison purposes. Model parameters can be tuned automatically with respect to the loss of the forecast combination. Methods like predict(), update(), plot() and print() are available for convenience. This package utilizes the optim C++ library for numeric optimization <https://github.com/kthohr/optim>.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 3.0.2)
Imports: Rcpp (>= 1.0.5), Matrix
LinkingTo: Rcpp, RcppArmadillo, RcppProgress, splines2 (>= 0.3.0)
URL: https://profoc.berrisch.biz/, https://github.com/BerriJ/profoc
BugReports: https://github.com/BerriJ/profoc/issues
Suggests: testthat (>= 3.0.0), gamlss.dist, ggplot2
NeedsCompilation: yes
Packaged: 2021-07-27 09:14:49 UTC; vscode
Author: Jonathan Berrisch [cre] (<https://orcid.org/0000-0002-4944-9074>), Florian Ziel [aut] (<https://orcid.org/0000-0002-2974-2660>)
Maintainer: Jonathan Berrisch <Jonathan@Berrisch.biz>
Repository: CRAN
Date/Publication: 2021-07-28 11:00:02 UTC

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New package LFApp with initial version 1.3
Package: LFApp
Version: 1.3
Date: 2021-07-27
Title: Shiny Apps for Lateral Flow Assays
Author: Filip Paskali [aut, cre], Weronika Schary [aut] (<https://orcid.org/0000-0002-7229-316X>), Matthias Kohl [aut] (<https://orcid.org/0000-0001-9514-8910>)
Maintainer: Filip Paskali <F.Paskali@hs-furtwangen.de>
Description: Shiny apps for the quantitative analysis of images from lateral flow assays (LFAs). The images are segmented and background corrected and color intensities are extracted. The apps can be used to import and export intensity data and to calibrate LFAs by means of linear, loess, or gam models. The calibration models can further be saved and applied to intensity data from new images for determining concentrations.
License: LGPL-3
Depends: R (>= 4.0.0)
Imports: stats, utils, graphics, methods, mgcv, shiny, shinyjs, shinythemes, shinyFiles, shinyMobile (>= 0.9), EBImage, DT, ggplot2, fs
Suggests: knitr, rmarkdown, remotes
VignetteBuilder: knitr
Encoding: UTF-8
URL: https://github.com/fpaskali/LFApp
BugReports: https://github.com/fpaskali/LFApp/issues
NeedsCompilation: no
Packaged: 2021-07-27 09:06:00 UTC; kohlm
Repository: CRAN
Date/Publication: 2021-07-28 11:00:05 UTC

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Tue, 27 Jul 2021

New package tidysq with initial version 1.1.2-1
Package: tidysq
Title: Tidy Processing and Analysis of Biological Sequences
Version: 1.1.2-1
Date: 2021-07-12
Description: A tidy approach to analysis of biological sequences. All processing and data-storage functions are heavily optimized to allow the fastest and most efficient data storage.
Depends: R (>= 3.0.0)
Imports: checkmate (>= 1.9.0), cli (>= 2.0.0), crayon (>= 1.3.4), dplyr (>= 1.0.2), pillar (>= 1.4.2), Rcpp (>= 1.0.1), tibble (>= 2.1.3), vctrs (>= 0.3.0)
Suggests: ape (>= 5.3), bioseq (>= 0.1.2), Biostrings (>= 2.52.0), covr, knitr, lifecycle, purrr, seqinr (>= 3.4-5), spelling, rmarkdown, testthat (>= 3.0.0), withr (>= 2.2.0), rlang, mockr
License: GPL (>= 2)
URL: https://github.com/BioGenies/tidysq
BugReports: https://github.com/BioGenies/tidysq/issues
SystemRequirements: GNU make, C++17
NeedsCompilation: yes
Repository: CRAN
Encoding: UTF-8
Language: en-US
LinkingTo: Rcpp, testthat
VignetteBuilder: knitr
Packaged: 2021-07-24 11:53:15 UTC; rafaczd
Author: Dominik Rafacz [cre, aut] (<https://orcid.org/0000-0003-0925-1909>), Michal Burdukiewicz [aut] (<https://orcid.org/0000-0001-8926-582X>), Mateusz Bakala [aut], Leon Eyrich Jessen [ctb] (<https://orcid.org/0000-0003-2879-2559>), Stefan Roediger [ctb] (<https://orcid.org/0000-0002-1441-6512>), Jadwiga Slowik [ctb] (<https://orcid.org/0000-0003-3466-8933>), Weronika Puchala [ctb] (<https://orcid.org/0000-0003-2163-1429>), Katarzyna Sidorczuk [ctb], Filip Pietluch [ctb], Jaroslaw Chilimoniuk [ctb] (<https://orcid.org/0000-0001-5467-018X>)
Maintainer: Dominik Rafacz <dominikrafacz@gmail.com>
Date/Publication: 2021-07-27 13:20:02 UTC

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New package Rfmtool with initial version 4.1.4
Package: Rfmtool
Version: 4.1.4
Date: 2021-07-24
Title: Fuzzy Measure Tools
Author: Gleb Beliakov [aut, cre], Quan Vu [ctb], Andrei Kelarev [ctb], Michel Berkelaar [ctb], Kjell Eikland [ctb], Samuel E. Buttrey [ctb], Stefan I. Larimore [ctb], Timothy A. Davis [ctb], John Gilbert [ctb], Esmond Ng [ctb], Peter Notebaert [ctb], Richard Stallman [ctb], Jeroen Dirks [ctb], Daniela L. Calderon [ctb]
Maintainer: Gleb Beliakov <gleb@deakin.edu.au>
Depends: R (>= 2.9.2)
LinkingTo:
Suggests:
Description: Various tools for handling fuzzy measures, calculating Shapley value and interaction index, Choquet and Sugeno integrals, as well as fitting fuzzy measures to empirical data are provided. Construction of fuzzy measures from empirical data is done by solving a linear programming problem by using 'lpsolve' package, whose source in C adapted to the R environment is included. The description of the basic theory of fuzzy measures is in the manual in the Doc folder in this package. Please refer to the following: [1] <https://personal-sites.deakin.edu.au/~gleb/fmtools.html> [2] G. Beliakov, H. Bustince, T. Calvo, 'A Practical Guide to Averaging', Springer, (2016, ISBN: 978-3-319-24753-3). [3] G. Beliakov, S. James, J-Z. Wu, 'Discrete Fuzzy Measures', Springer, (2020, ISBN: 978-3-030-15305-2).
License: LGPL-3
NeedsCompilation: yes
Copyright: Gleb Beliakov. The 'lpsolve' library and its parts are copyright to various holders, including Kjell Eikland, Michel Berkelaar, University of Florida, National Institute of Standards and Technology, Free Software Foundation, Inc.
Packaged: 2021-07-24 05:44:05 UTC; gleb
Repository: CRAN
Date/Publication: 2021-07-27 13:20:20 UTC

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New package eurlex with initial version 0.3.6
Package: eurlex
Title: Retrieve Data on European Union Law
Version: 0.3.6
Description: Access to data on European Union laws and court decisions made easy with pre-defined 'SPARQL' queries and 'GET' requests.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.4.0)
Imports: magrittr, dplyr, xml2, tidyr, httr, curl, rvest, rlang, stringr, readr, pdftools, antiword
Suggests: knitr, rmarkdown, tidytext, wordcloud, purrr, ggplot2
URL: https://michalovadek.github.io/eurlex/
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-27 11:56:48 UTC; MO
Author: Michal Ovadek [aut, cre, cph] (<https://orcid.org/0000-0002-2552-2580>)
Maintainer: Michal Ovadek <michal.ovadek@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-27 13:30:01 UTC

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New package twangMediation with initial version 1.0
Package: twangMediation
Title: Twang Causal Mediation Modeling via Weighting
Version: 1.0
Author: Dan McCaffrey [aut, cre], Katherine Castellano [aut], Donna Coffman [aut], Brian Vegetabile [aut], Megan Schuler [aut], Haoyu Zhou [aut]
Maintainer: Dan McCaffrey <dmccaffrey@ets.org>
Description: Provides functions for estimating natural direct and indirect effects for mediation analysis. It uses weighting where the weights are functions of estimates of the probability of exposure or treatment assignment (Hong, G (2010). <https://cepa.stanford.edu/sites/default/files/workshops/GH_JSM%20Proceedings%202010.pdf> Huber, M. (2014). <doi:10.1002/jae.2341>). Estimation of probabilities can use generalized boosting or logistic regression. Additional functions provide diagnostics of the model fit and weights. The vignette provides details and examples.
Depends: R (>= 2.10)
Imports: twang, gbm (>= 1.5-3), gridExtra, graphics, stats, lattice, latticeExtra, survey
Suggests: knitr
VignetteBuilder: knitr
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-27 02:20:36 UTC; DMCCAFFREY
Repository: CRAN
Date/Publication: 2021-07-27 08:50:02 UTC

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New package magi with initial version 1.0.0
Package: magi
Title: MAnifold-Constrained Gaussian Process Inference
Version: 1.0.0
Date: 2021-07-22
Encoding: UTF-8
Description: Provides fast and accurate inference for the parameter estimation problem in Ordinary Differential Equations, including the case when there are unobserved system components. Implements the MAGI method (MAnifold-constrained Gaussian process Inference) of Yang, Wong, and Kou (2021) <doi:10.1073/pnas.2020397118>.
License: MIT + file LICENSE
VignetteBuilder: knitr
Imports: Rcpp (>= 1.0.6), gridExtra, gridBase, grid, methods, deSolve
LinkingTo: Rcpp, RcppArmadillo, BH, RcppEigen
Suggests: testthat, mvtnorm, covr, knitr, MASS, rmarkdown, markdown
NeedsCompilation: yes
Packaged: 2021-07-23 16:49:06 UTC; shihaoyang
Author: Shihao Yang [aut, cre] (<https://orcid.org/0000-0003-3910-4969>), Samuel W.K. Wong [aut], Patrick Wieschollek [ctb, cph] (Contributor of c++ dependency CppNumericalSolvers), Tobias Wood [ctb, cph] (Contributor of c++ dependency CppNumericalSolvers)
Maintainer: Shihao Yang <shihao.yang@isye.gatech.edu>
Repository: CRAN
Date/Publication: 2021-07-27 08:30:05 UTC

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New package ExpAnalysis3d with initial version 0.1.0
Package: ExpAnalysis3d
Title: Pacote Para Analise De Experimentos Com Graficos De Superficie Resposta
Version: 0.1.0
Description: Pacote para a analise de experimentos havendo duas variaveis explicativas quantitativas e uma variavel dependente quantitativa. Os experimentos podem ser sem repeticoes ou com delineamento estatistico. Sao ajustados 12 modelos de regressao multipla e plotados graficos de superficie resposta (Hair JF, 2016) <ISBN:13:978-0138132637>.(Package for the analysis of experiments having two explanatory quantitative variables and one quantitative dependent variable. The experiments can be without repetitions or with a statistical design. Twelve multiple regression models are fitted and response surface graphs are plotted (Hair JF, 2016) <ISBN:13:978-0138132637>).
Depends: plotly, crayon, magrittr, fields
License: GPL-3
Encoding: UTF-8
LazyData: false
Language: pt-BR
NeedsCompilation: no
Packaged: 2021-07-27 01:41:40 UTC; AlcineiAzevedo
Author: Alcinei Mistico Azevedo [aut, cre] (<https://orcid.org/0000-0001-5196-0851>)
Maintainer: Alcinei Mistico Azevedo <alcineimistico@hotmail.com>
Repository: CRAN
Date/Publication: 2021-07-27 08:40:19 UTC

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New package emoji with initial version 0.1.0
Package: emoji
Title: Data and Function to Work with Emojis
Version: 0.1.0
Description: Contains data about emojis with relevant metadata, and functions to work with emojis when they are in strings.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
URL: https://emilhvitfeldt.github.io/emoji/, https://github.com/EmilHvitfeldt/emoji
BugReports: https://github.com/EmilHvitfeldt/emoji/issues
Imports: stringr
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2021-07-26 23:41:30 UTC; emilhvitfeldthansen
Author: Emil Hvitfeldt [aut, cre] (<https://orcid.org/0000-0002-0679-1945>), Hadley Wickham [ctb] (Data parsing code from hadley/emo), Romain François [ctb] (Data parsing code from hadley/emo)
Maintainer: Emil Hvitfeldt <emilhhvitfeldt@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-27 08:40:02 UTC

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New package biClassify with initial version 1.1
Package: biClassify
Title: Binary Classification Using Extensions of Discriminant Analysis
Version: 1.1
Date: 2021-7-25
Maintainer: Alexander F. Lapanowski <aflapan@gmail.com>
Description: Implements methods for sample size reduction within Linear and Quadratic Discriminant Analysis in Lapanowski and Gaynanova (2020) <arXiv:2005.03858>. Also includes methods for non-linear discriminant analysis with simultaneous sparse feature selection in Lapanowski and Gaynanova (2019) PMLR 89:1704-1713.
License: GPL-3
Imports: Rcpp (>= 1.0.1), Matrix, stats, fields, MASS, datasets, mvtnorm, expm, DAAG
Depends: R (>= 2.10)
LinkingTo: Rcpp, RcppArmadillo
Suggests: testthat, knitr, rmarkdown
LazyData: true
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-25 16:56:13 UTC; aflap
Author: Alexander F. Lapanowski [aut, cre], Irina Gaynanova [aut]
Repository: CRAN
Date/Publication: 2021-07-27 08:10:02 UTC

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New package findInGit with initial version 0.1.0
Package: findInGit
Title: Find Pattern in Files of All Branches of a 'git' Repository
Version: 0.1.0
Description: Creates a HTML widget which displays the results of searching for a pattern in files in a given 'git' repository, including all its branches. The results can also be returned in a dataframe.
License: GPL-3
Encoding: UTF-8
SystemRequirements: grep, git
Imports: stringr, crayon, htmlwidgets
Suggests: shiny, R.utils
URL: https://github.com/stla/findInGit
BugReports: https://github.com/stla/findInGit/issues
NeedsCompilation: no
Packaged: 2021-07-26 10:00:28 UTC; SDL96354
Author: Stéphane Laurent [aut, cre], Rob Burns [cph] ('ansi-to-html' library)
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Repository: CRAN
Date/Publication: 2021-07-27 07:20:02 UTC

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New package changepointTests with initial version 0.1.1
Package: changepointTests
Title: Change Point Tests for Joint Distributions and Copulas
Version: 0.1.1
Maintainer: Bruno N Remillard <bruno.remillard@hec.ca>
Description: Change point tests for joint distributions and copulas using pseudo-observations with multipliers or bootstrap. The processes used here have been defined in Bucher, Kojadinovic, Rohmer & Segers <doi:10.1016/j.jmva.2014.07.012> and Nasri & Remillard <doi:10.1016/j.jmva.2019.03.002>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.5.0), doParallel, parallel, foreach, stats
NeedsCompilation: yes
Packaged: 2021-07-26 15:07:08 UTC; Utilisateur
Author: Bouchra R Nasri [aut], Bruno N Remillard [aut, cre, cph]
Repository: CRAN
Date/Publication: 2021-07-27 07:20:04 UTC

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Mon, 26 Jul 2021

New package dataverse with initial version 0.3.9
Package: dataverse
Version: 0.3.9
Title: Client for Dataverse 4+ Repositories
Imports: checkmate, httr, jsonlite, readr, stats, utils, xml2
Suggests: covr, foreign, haven, knitr, purrr, rmarkdown, testthat, tibble, yaml
Description: Provides access to Dataverse APIs <https://dataverse.org/> (versions 4-5), enabling data search, retrieval, and deposit. For Dataverse versions <= 3.0, use the archived 'dvn' package <https://cran.r-project.org/package=dvn>.
License: GPL-2
URL: https://iqss.github.io/dataverse-client-r/, https://dataverse.org/, https://github.com/iqss/dataverse-client-r
BugReports: https://github.com/iqss/dataverse-client-r/issues
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-26 14:19:13 UTC; shirokuriwaki
Author: Shiro Kuriwaki [aut, cre] (<https://orcid.org/0000-0002-5687-2647>), Will Beasley [aut] (<https://orcid.org/0000-0002-5613-5006>), Thomas J. Leeper [aut] (<https://orcid.org/0000-0003-4097-6326>), Philip Durbin [aut] (<https://orcid.org/0000-0002-9528-9470>), Sebastian Karcher [aut] (<https://orcid.org/0000-0001-8249-7388>), Jan Kanis [ctb], Edward Jee [ctb]
Maintainer: Shiro Kuriwaki <shirokuriwaki@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-26 15:00:02 UTC

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New package SuperPCA with initial version 0.4.0
Package: SuperPCA
Title: Supervised Principal Component Analysis
Version: 0.4.0
Author: Gen Li <ligen@umich.edu>, Haocheng Ding <haochengding@ufl.edu>, Jiayi Ji <jj2876@caa.columbia.edu>
Maintainer: Jiayi Ji <jj2876@caa.columbia.edu>
Description: Dimension reduction of complex data with supervision from auxiliary information. The package contains a series of methods for different data types (e.g., multi-view or multi-way data) including the supervised singular value decomposition (SupSVD), supervised sparse and functional principal component (SupSFPC), supervised integrated factor analysis (SIFA) and supervised PARAFAC/CANDECOMP factorization (SupCP). When auxiliary data are available and potentially affect the intrinsic structure of the data of interest, the methods will accurately recover the underlying low-rank structure by taking into account the supervision from the auxiliary data. For more details, see the paper by Gen Li, <DOI:10.1111/biom.12698>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
Imports: RSpectra, psych, fBasics, R.matlab, glmnet, MASS, matrixStats, timeSeries, stats, matlabr, spls, pracma, matlab
Depends: Matrix
NeedsCompilation: no
Packaged: 2021-07-26 12:09:27 UTC; jiayi
Repository: CRAN
Date/Publication: 2021-07-26 12:30:07 UTC

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New package tidytransit with initial version 1.1.0
Package: tidytransit
Title: Read, Validate, Analyze, and Map GTFS Feeds
Version: 1.1.0
Description: Read General Transit Feed Specification (GTFS) zipfiles into a list of R dataframes. Perform validation of the data structure against the specification. Analyze the headways and frequencies at routes and stops. Create maps and perform spatial analysis on the routes and stops. Please see the GTFS documentation here for more detail: <http://gtfs.org/>.
License: GPL
LazyData: TRUE
Depends: R (>= 3.6.0)
Imports: gtfsio (>= 0.1.0), dplyr, zip (>= 2.0.1), tibble, readr, data.table (>= 1.12.8), httr, rlang, sf, lubridate, hms, tidyr, tools, digest, checkmate, geodist
Suggests: testthat, knitr, markdown, rmarkdown, ggplot2, scales
URL: https://github.com/r-transit/tidytransit
BugReports: https://github.com/r-transit/tidytransit
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-26 08:50:35 UTC; flavi
Author: Flavio Poletti [aut, cre], Daniel Herszenhut [aut] (<https://orcid.org/0000-0001-8066-1105>), Mark Padgham [aut], Tom Buckley [aut], Danton Noriega-Goodwin [aut], Angela Li [ctb], Elaine McVey [ctb], Charles Hans Thompson [ctb], Michael Sumner [ctb], Patrick Hausmann [ctb], Bob Rudis [ctb], James Lamb [ctb], Alexandra Kapp [ctb], Kearey Smith [ctb], Dave Vautin [ctb], Kyle Walker [ctb]
Maintainer: Flavio Poletti <flavio.poletti@hotmail.ch>
Repository: CRAN
Date/Publication: 2021-07-26 09:40:02 UTC

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New package rUM with initial version 0.3.0
Package: rUM
Title: R Templates from the University of Miami
Version: 0.3.0
Description: This holds some r markdown templates and a template to create a research project in RStudio.
Depends: R (>= 3.5)
Imports: bookdown, conflicted, rmarkdown, table1, tidyverse
Suggests: knitr, tidymodels, tinytex
License: MIT + file LICENSE
URL: https://raymondbalise.github.io/rUM/, https://github.com/RaymondBalise/rUM
BugReports: https://github.com/RaymondBalise/rUM/issues
Encoding: UTF-8
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-24 18:09:43 UTC; gabrielodom
Author: Raymond Balise [aut, cre] (<https://orcid.org/0000-0002-9856-5901>), Gabriel Odom [aut] (<https://orcid.org/0000-0003-1341-4555>)
Maintainer: Raymond Balise <balise@miami.edu>
Repository: CRAN
Date/Publication: 2021-07-26 08:20:02 UTC

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New package RcppFarmHash with initial version 0.0.1
Package: RcppFarmHash
Title: Interface to the Google 'FarmHash' Family of Hash Functions
Version: 0.0.1
Date: 2021-07-25
Author: Dirk Eddelbuettel [aut, cre, cph], Geoff Pike [aut], Google, Inc. [cph]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Description: The Google 'FarmHash' family of hash functions is used by the Google 'BigQuery' data warehouse via the 'FARM_FINGERPRINT' function. This package permits to calculate these hash digest fingerprints directly from R.
License: GPL (>= 2)
Imports: Rcpp (>= 1.0.7)
LinkingTo: Rcpp
Suggests: bit64
URL: https://github.com/eddelbuettel/rcppfarmhash/
BugReports: https://github.com/eddelbuettel/rcppfarmhash/issues
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-25 19:58:23 UTC; edd
Repository: CRAN
Date/Publication: 2021-07-26 08:40:02 UTC

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New package ModTools with initial version 0.9.4
Package: ModTools
Title: Tools for Building Regression and Classification Models
Version: 0.9.4
Date: 2021-07-25
Encoding: UTF-8
Description: Collection of tools for regression and classification tasks. The package implements a consistent user interface to the most popular regression and classification algorithms, such as random forest, neural networks, C5 trees and support vector machines, and complements it with a handful of auxiliary functions, such as variable importance and a tuning function for the parameters.
Depends: DescTools, MASS, nnet, survival, R (>= 3.5.0)
License: GPL (>= 2)
Imports: e1071, C50, rpart, randomForest, pROC, pscl, methods, relaimpo, rpart.plot, lattice, lmtest, car, robustbase, class, NeuralNetTools, naivebayes, sandwich, AER
LazyLoad: yes
LazyData: yes
NeedsCompilation: no
Packaged: 2021-07-25 13:59:49 UTC; andri
Author: Andri Signorell [aut, cre], Bernhard Compton [ctb], Marcel Dettling [ctb], Alexandre Hainard [ctb], Max Kuhn [ctb], Frédérique Lisacek [ctb], Michal Majka [ctb], Markus Müller [ctb], Dan Putler [ctb], Jean-Charles Sanchez [ctb], Natalia Tiberti [ctb], Natacha Turck [ctb], Jarek Tuszynski [ctb], Robin Xavier [ctb], Achim Zeileis [ctb]
Maintainer: Andri Signorell <andri@signorell.net>
Repository: CRAN
Date/Publication: 2021-07-26 08:20:05 UTC

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New package dictionar6 with initial version 0.1.2
Package: dictionar6
Title: R6 Dictionary Interface
Description: Efficient object-oriented R6 dictionary capable of holding objects of any class, including R6. Typed and untyped dictionaries are provided as well as the 'usual' dictionary methods that are available in other OOP languages, for example listing keys, items, values, and methods to get/set these.
Version: 0.1.2
License: MIT + file LICENSE
URL: https://xoopR.github.io/dictionar6/, https://github.com/xoopR/dictionar6/
BugReports: https://github.com/xoopR/dictionar6/issues
Encoding: UTF-8
NeedsCompilation: no
Imports: R6
Suggests: testthat
Packaged: 2021-07-24 16:24:38 UTC; raphaelsonabend
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>)
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-26 08:10:02 UTC

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New package popRF with initial version 1.0.0
Package: popRF
Title: Random Forest-Informed Population Disaggregation
Version: 1.0.0
Maintainer: Maksym Bondarenko <mb4@soton.ac.uk>
Description: Disaggregating census-based areal population counts to finer gridded population surfaces using Random Forest algorithm to determine the target area weights (see _Stevens, et al._ (2015) <doi:10.1371/journal.pone.0107042>).
URL: https://github.com/wpgp/popRF
BugReports: https://github.com/wpgp/popRF/issues
Imports: doParallel, parallel, raster, methods, stats, foreach, gdalUtils, randomForest, quantregForest, plyr
Depends: R (>= 3.2.0)
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-24 09:55:49 UTC; Maxim
Author: Maksym Bondarenko [aut, cre, cph] (<https://orcid.org/0000-0003-4958-6551>), Jeremiah J Nieves [aut] (<https://orcid.org/0000-0002-7423-1341>), Forrest R. Stevens [aut], Andrea E. Gaughan [aut], Chris Jochem [ctb] (<https://orcid.org/0000-0003-2192-5988>), David Kerr [ctb], Alessandro Sorichetta [ctb] (<https://orcid.org/0000-0002-3576-5826>)
Repository: CRAN
Date/Publication: 2021-07-26 07:10:02 UTC

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New package amanpg with initial version 0.3.0
Package: amanpg
Version: 0.3.0
Date: 2021-07-24
Title: Alternating Manifold Proximal Gradient Method for Sparse PCA
Description: Alternating Manifold Proximal Gradient Method for Sparse PCA uses the Alternating Manifold Proximal Gradient (AManPG) method to find sparse principal components from a data or covariance matrix. Provides a novel algorithm for solving the sparse principal component analysis problem which provides advantages over existing methods in terms of efficiency and convergence guarantees. Chen, S., Xue, L., & Zou, H. (2020) <doi:10.1287/ijoo.2019.0032>. Zou, H., Hastie, T., & Tibshirani, R. (2006) <doi:10.1198/106186006X113430>. Zou, H., & Xue, L. (2018) <doi:10.1109/JPROC.2018.2846588>.
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-24 13:10:34 UTC; benjochem
Author: Justin Huang [aut], Benjamin Jochem [aut], Shiqian Ma [aut], Lingzhou Xue [cre, aut]
Maintainer: Lingzhou Xue <lzxue@psu.edu>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-26 07:10:05 UTC

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New package Ostats with initial version 0.1.0
Package: Ostats
Title: O-Stats, or Pairwise Community-Level Niche Overlap Statistics
Version: 0.1.0
Description: O-statistics, or overlap statistics, measure the degree of community-level trait overlap. They are estimated by fitting nonparametric kernel density functions to each species’ trait distribution and calculating their areas of overlap. For instance, the median pairwise overlap for a community is calculated by first determining the overlap of each species pair in trait space, and then taking the median overlap of each species pair in a community. This median overlap value is called the O-statistic (O for overlap). The Ostats() function calculates separate univariate overlap statistics for each trait, while the Ostats_multivariate() function calculates a single multivariate overlap statistic for all traits. O-statistics can be evaluated against null models to obtain standardized effect sizes. Ostats is part of the collaborative Macrosystems Biodiversity Project "Local- to continental-scale drivers of biodiversity across the National Ecological Observatory Network (NEON)." For more information on this project, see the Macrosystems Biodiversity Website (<https://neon-biodiversity.github.io/>). Calculation of O-statistics is described in Read et al. (2018) <doi:10.1111/ecog.03641>, and a teaching module for introducing the underlying biological concepts at an undergraduate level is described in Grady et al. (2018) <http://tiee.esa.org/vol/v14/issues/figure_sets/grady/abstract.html>.
License: MIT + file LICENSE
Encoding: UTF-8
BugReports: https://github.com/NEON-biodiversity/Ostats/issues
LazyData: true
Depends: R (>= 3.5.0)
Imports: sfsmisc, matrixStats, circular, hypervolume, ggplot2, gridExtra, viridis, grid, MASS
Suggests: testthat (>= 2.1.0), knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-22 19:01:28 UTC; qread
Author: Quentin D. Read [aut, cre], Arya Yue [aut], Isadora E. Fluck [aut], Benjamin Baiser [aut], John M. Grady [aut], Phoebe L. Zarnetske [aut], Sydne Record [aut]
Maintainer: Quentin D. Read <qread@sesync.org>
Repository: CRAN
Date/Publication: 2021-07-26 06:40:04 UTC

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New package OmicNavigator with initial version 1.4.2
Package: OmicNavigator
Title: Open-Source Software for 'Omic' Data Analysis and Visualization
Description: A tool for interactive exploration of the results from 'omics' experiments to facilitate novel discoveries from high-throughput biology. The software includes R functions for the 'bioinformatician' to deposit study metadata and the outputs from statistical analyses (e.g. differential expression, enrichment). These results are then exported to an interactive JavaScript dashboard that can be interrogated on the user’s local machine or deployed online to be explored by collaborators. The dashboard includes 'sortable' tables, interactive plots including network visualization, and fine-grained filtering based on statistical significance.
Version: 1.4.2
URL: https://github.com/abbvie-external/OmicNavigator
BugReports: https://github.com/abbvie-external/OmicNavigator/issues
License: MIT + file LICENSE
License_restricts_use: no
License_is_FOSS: yes
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.2.0)
Imports: data.table (>= 1.12.4), graphics, jsonlite, stats, tools, utils
Suggests: faviconPlease, ggplot2, opencpu, tinytest (>= 1.2.3), ttdo (>= 0.0.6), UpSetR
NeedsCompilation: no
Packaged: 2021-07-23 16:45:49 UTC; jdblischak
Author: Terrence Ernst [aut] (Web application), John Blischak [aut, cre], Paul Nordlund [aut] (Web application), Justin Moore [aut] (UpSet-related functions and web application), Joe Dalen [aut] (Barcode functionality and web application), Akshay Bhamidipati [aut] (Web application), Brett Engelmann [aut], AbbVie Inc. [cph, fnd]
Maintainer: John Blischak <jdblischak@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-26 06:50:02 UTC

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New package lpl with initial version 0.11
Package: lpl
Title: Local Partial Likelihood Estimation and Simultaneous Confidence Band
Version: 0.11
Date: 2021-07-02
Author: Bingshu Chen [aut, cre], Yicong Liu [aut], Siwei Zhang [aut], Teng Wen [aut]
Maintainer: Bingshu E. Chen <bingshu.chen@queensu.ca>
Depends: R (>= 3.5.0), MASS, parallel, survival
Description: Local partial likelihood estimation by Fan, Lin and Zhou(2006)<doi:10.1214/009053605000000796> and simultaneous confidence band is a set of tools to test the covariates-biomarker interaction for survival data. Test for the covariates-biomarker interaction using the bootstrap method and the asymptotic method with simultaneous confidence band (Liu, Jiang and Chen (2015)<doi:10.1002/sim.6563>).
License: GPL-2
LazyLoad: yes
NeedsCompilation: no
Packaged: 2021-07-24 02:14:08 UTC; b3chen
Repository: CRAN
Date/Publication: 2021-07-26 07:00:02 UTC

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New package DMtest with initial version 1.0.0
Package: DMtest
Title: Differential Methylation Tests (DMtest)
Version: 1.0.0
Date: 2021-07-22
Author: James Dai [aut, cre], Xiaoyu Wang [aut]
Maintainer: James Dai <jdai@fredhutch.org>
Description: Several tests for differential methylation in methylation array data, including one-sided differential mean and variance test. Methods used in the package refer to Dai, J, Wang, X, Chen, H and others (2021) "Incorporating increased variability in discovering cancer methylation markers", Biostatistics, submitted.
Depends: R (>= 3.5.0)
Imports: matrixStats,stats,foreach,parallel,doParallel
License: GPL (>= 2)
NeedsCompilation: no
LazyData: true
Suggests: knitr, markdown
VignetteBuilder: knitr
Packaged: 2021-07-23 16:50:56 UTC; xwang234
Repository: CRAN
Date/Publication: 2021-07-26 06:50:06 UTC

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New package cuml4r with initial version 0.1.0
Package: cuml4r
Title: R Interface for the RAPIDS cuML Suite of Libraries
Version: 0.1.0
Maintainer: Yitao Li <yitao@rstudio.com>
Description: The purpose of 'cuml4r' is to provide a simple and intuitive R interface for cuML (<https://github.com/rapidsai/cuml>). CuML is a suite of GPU-accelerated machine learning libraries powered by CUDA (<https://en.wikipedia.org/wiki/CUDA>).
License: Apache License (>= 2.0)
Imports: magrittr, Rcpp (>= 1.0.6), rlang (>= 0.1.4), zeallot (>= 0.1.0)
Suggests: MASS, purrr
LinkingTo: Rcpp
OS_type: unix
SystemRequirements: RAPIDS cuML (see https://rapids.ai/start.html)
NeedsCompilation: yes
Packaged: 2021-07-23 14:38:33 UTC; yitaoli
Author: Yitao Li [aut, cre] (<https://orcid.org/0000-0002-1261-905X>)
Repository: CRAN
Date/Publication: 2021-07-26 06:40:02 UTC

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New package bidask with initial version 0.1.0
Package: bidask
Title: Efficient Estimation of Bid-Ask Spreads from Open, High, Low, and Close Prices
Version: 0.1.0
Description: Implements a novel estimation procedure of bid-ask spreads from open, high, low, and close prices as described in Ardia-Guidotti-Kroencke <https://www.ssrn.com/abstract=3892335>. Moreover, it provides an implementation of the estimators proposed in Roll (1984) <doi:10.1111/j.1540-6261.1984.tb03897.x>, Corwin-Schultz (2012) <doi:10.1111/j.1540-6261.2012.01729.x>, and Abdi-Ranaldo (2017) <doi:10.1093/rfs/hhx084>.
License: GPL-3
Encoding: UTF-8
Depends: xts
Imports: zoo
NeedsCompilation: no
Packaged: 2021-07-24 09:46:00 UTC; Emanuele
Author: Emanuele Guidotti [aut, cre] (<https://orcid.org/0000-0002-8961-6623>), David Ardia [ctb] (<https://orcid.org/0000-0003-2823-782X>), Tim Kroencke [ctb] (<https://orcid.org/0000-0001-8700-356X>)
Maintainer: Emanuele Guidotti <emanuele.guidotti@unine.ch>
Repository: CRAN
Date/Publication: 2021-07-26 07:00:04 UTC

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Sun, 25 Jul 2021

New package beautier with initial version 2.6.2
Package: beautier
Title: 'BEAUti' from R
Version: 2.6.2
Maintainer: Richèl J.C. Bilderbeek <richel@richelbilderbeek.nl>
Description: 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAUti 2' (which is part of 'BEAST2') is a GUI tool that allows users to specify the many possible setups and generates the XML file 'BEAST2' needs to run. This package provides a way to create 'BEAST2' input files without active user input, but using R function calls instead.
License: GPL-3
VignetteBuilder: knitr
URL: https://docs.ropensci.org/beautier/ (website) https://github.com/ropensci/beautier/
BugReports: https://github.com/ropensci/beautier
Imports: ape, assertive, pryr, rappdirs, seqinr, stringr, testit
Suggests: spelling, devtools, knitr, ggplot2, hunspell, lintr, markdown, readr, rmarkdown, testthat (>= 2.1.0)
Language: en-US
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-24 08:37:32 UTC; richel
Author: Richèl J.C. Bilderbeek [aut, cre] (<https://orcid.org/0000-0003-1107-7049>), Joëlle Barido-Sottani [rev] (Joëlle reviewed the package for rOpenSci, see https://github.com/ropensci/onboarding/issues/209), David Winter [rev] (David reviewed the package for rOpenSci, see https://github.com/ropensci/onboarding/issues/209), Paul Van Els [ctb] (<https://orcid.org/0000-0002-9499-8873>), Raphael Scherrer [ctb] (<https://orcid.org/0000-0002-1447-7630>), Yacine B. Chehida [ctb] (<https://orcid.org/0000-0001-7269-9082>), Katharine S. Walter [ctb] (<https://orcid.org/0000-0003-0065-2204>), Gary Napier [ctb] (<https://orcid.org/0000-0002-1077-0055>), Jason Griffiths [ctb] (<https://orcid.org/0000-0002-1667-8233>), Thijs Janzen [ctb] (<https://orcid.org/0000-0002-4162-1140>), Jana Riederer [ctb] (<https://orcid.org/0000-0001-6951-9984>)
Repository: CRAN
Date/Publication: 2021-07-25 13:50:02 UTC

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Fri, 23 Jul 2021

New package rstyles with initial version 0.4.0
Package: rstyles
Title: Generating Simulated Data Mimicking Response Styles to Survey Questions
Version: 0.4.0
Maintainer: Tomasz Zoltak <tomek@zozlak.org>
Description: Package allows to generate simulated datasets using algorithms that mimic different response styles to survey questions using: 1) IRTree approach (Bockenholt (2012) <doi:10.1037/a0028111>, (2017) <doi:10.1037/met0000106>), 2) (G)PCM (and rating scale version of a partial credit model) random-thresholds approach (Falk & Cai (2016) <doi:10.1037/met0000059>; Henninger & Meiser (2020a) <doi:10.1037/met0000249>, (2020b) <doi:10.1037/met0000268>; Plieninger (2017) <doi:10.1177/0013164416636655>), 3) user provided function that (with some probability) chooses response using information about previous responses. This allows to cover wide range of potential response styles like: extreme and middle (ERS, MRS), acquiesce (ARS) and also careless/inattentive responding (CR, IR).
License: MIT + file LICENSE
Depends: R (>= 4.0.0)
Suggests: testthat, covr, knitr, mnormt, rmarkdown, mirt, truncnorm
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-22 10:10:34 UTC; Tomek
Author: Tomasz Zoltak [aut, cre] (<https://orcid.org/0000-0003-1354-4472>), Artur Pokropek [aut] (<https://orcid.org/0000-0002-5899-2917>), Marek MuszyŃski [aut] (<https://orcid.org/0000-0002-9306-1237>)
Repository: CRAN
Date/Publication: 2021-07-23 09:10:02 UTC

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New package itdr with initial version 1.0
Package: itdr
Title: Integral Transformation Methods for SDR in Regression
Version: 1.0
Depends: R(>= 3.5.0)
Imports: stats,utils,MASS
Description: The routine, itdr(), which allows to estimate the sufficient dimension reduction subspaces, i.e., central mean subspace or central subspace in regression, using Fourier transformation proposed by Zhu and Zeng (2006) <https:doi.org/10.1198/016214506000000140>, convolution transformation proposed by Zeng and Zhu (2010) <https:doi.org/10.1016/j.jmva.2009.08.004> and iterative Hessian transformation methods proposed by Cook and Li (2002) <https:doi.org/10.1214/aos/1021379861>. The predictor variables can be consider to have a multivariate normal distribution or an elliptical contoured distribution. If the distribution of the predictor variables is unknown, then the predictors' distribution can be estimated by the kernel density estimation method. Moreover, each of these routines is supported with a bootstrap procedure to estimate their tuning parameters. That is, wx() estimates the tuning parameter for the predictor variables, wy() estimates the tuning parameter for the response variable, and wh() estimates the bandwidth parameter for the kernel density estimation method. The function invFM() estimates the central subspace using Fourier transform approach for inverse dimension reduction method proposed by Weng and Yin (2018) <https:doi.org/10.1080/10485252.2018.1515432>. The function d.test() estimates the dimension of the central mean subspace using hypothesis under invFM(). Moreover, the dsp() function provides the two distance measures between two subspaces spanned by the columns of two matrices; Vector correlation proposed by Hooper (1959) <https:doi.org/10.2307/1909445>, and Trace correlation proposed by Hotelling (1936) <https:doi.org/10.2307/2333955>.
License: GPL-2 | GPL-3
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-07-23 05:00:32 UTC; User
Author: Tharindu P. De Alwis [aut, cre] (<https://orcid.org/0000-0002-3446-0502>), S. Yaser Samadi [ctb, aut]
Maintainer: Tharindu P. De Alwis <mktharindu87@siu.edu>
Repository: CRAN
Date/Publication: 2021-07-23 09:50:02 UTC

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New package deeptime with initial version 0.1.0
Package: deeptime
Title: Plotting Tools for Anyone Working in Deep Time
Version: 0.1.0
Maintainer: William Gearty <willgearty@gmail.com>
Description: Extends the functionality of other plotting packages like 'ggplot2' and 'lattice' to help facilitate the plotting of data over long time intervals, including, but not limited to, geological, evolutionary, and ecological data. The primary goal of 'deeptime' is to enable users to add highly customizable timescales to their visualizations. Other functions are also included to assist with other areas of deep time visualization.
URL: https://github.com/willgearty/deeptime
BugReports: https://github.com/willgearty/deeptime/issues
Depends: R (>= 3.4)
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
biocViews:
Imports: ggplot2, ggnewscale, utils, grid, gridExtra, gtable, methods, stats, lattice, rlang, scales
Suggests: tidyverse, divDyn, gsloid, phytools, paleotree, ggforce, dispRity, ggtree
NeedsCompilation: no
Packaged: 2021-07-22 16:44:12 UTC; Will
Author: William Gearty [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-23 09:20:08 UTC

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New package connectwidgets with initial version 0.1.1
Package: connectwidgets
Title: Organize and Curate Your Content Within 'RStudio Connect'
Version: 0.1.1
Description: A collection of helper functions and 'htmlwidgets' to help publishers curate content collections on 'RStudio Connect'. The components, Card, Grid, Table, Search, and Filter can be used to produce a showcase page or gallery contained within a static or interactive R Markdown page.
License: MIT + file LICENSE
Encoding: UTF-8
Suggests: knitr, lintr, rmarkdown, testthat, webmockr, withr
Imports: R6, httr, jsonlite, tibble, htmlwidgets, reactable, dplyr, magrittr, htmltools, glue, rlang, digest, crosstalk, reactR, purrr, bslib, sass
URL: https://rstudio.github.io/connectwidgets/, https://github.com/rstudio/connectwidgets
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-22 18:53:47 UTC; bsmith
Author: Brian Smith [aut, cre], Marcos Navarro [aut], David Aja [ctb], Kelly O'Briant [ctb], RStudio [cph]
Maintainer: Brian Smith <brian@rstudio.com>
Repository: CRAN
Date/Publication: 2021-07-23 09:40:02 UTC

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New package CausalGPS with initial version 0.2.5
Package: CausalGPS
Title: Matching on Generalized Propensity Scores with Continuous Exposures
Version: 0.2.5
Maintainer: Naeem Khoshnevis <nkhoshnevis@g.harvard.edu>
Description: Provides a framework for estimating causal effects of a continuous exposure using observational data, and implementing matching and weighting on the generalized propensity score. Wu, X., Mealli, F., Kioumourtzoglou, M.A., Dominici, F. and Braun, D., 2018. Matching on generalized propensity scores with continuous exposures. arXiv preprint <arXiv:1812.06575>.
License: GPL-3
Language: en-US
URL: https://github.com/fasrc/CausalGPS
BugReports: https://github.com/fasrc/CausalGPS/issues
Copyright: Harvard University
Imports: parallel, data.table, SuperLearner, xgboost, earth, ranger, gam, KernSmooth, MASS, polycor, wCorr, stats, ggplot2, rlang, logger, glue, Rcpp, gnm, tidyr
Encoding: UTF-8
Suggests: knitr, rmarkdown, testthat
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2021-07-22 18:14:53 UTC; nak443
Author: Naeem Khoshnevis [aut, cre] (<https://orcid.org/0000-0003-4315-1426>, FASRC), Xiao Wu [aut] (<https://orcid.org/0000-0002-4884-657X>, HSPH), Danielle Braun [aut] (<https://orcid.org/0000-0002-5177-8598>, HSPH)
Repository: CRAN
Date/Publication: 2021-07-23 09:20:11 UTC

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New package AntMAN with initial version 1.1.0
Package: AntMAN
Version: 1.1.0
Date: 2021-07-01
Title: Anthology of Mixture Analysis Tools
Author: Priscilla Ong [aut, edt], Raffaele Argiento [aut], Bruno Bodin [aut, cre], Maria De Iorio [aut]
Maintainer: Bruno Bodin <bruno.bodin@yale-nus.edu.sg>
Description: Fits finite Bayesian mixture models with a random number of components. The MCMC algorithm implemented is based on point processes as proposed by Argiento and De Iorio (2019) <arXiv:1904.09733> and offers a more computationally efficient alternative to reversible jump. Different mixture kernels can be specified: univariate Gaussian, multivariate Gaussian, univariate Poisson, and multivariate Bernoulli (latent class analysis). For the parameters characterising the mixture kernel, we specify conjugate priors, with possibly user specified hyper-parameters. We allow for different choices for the prior on the number of components: shifted Poisson, negative binomial, and point masses (i.e. mixtures with fixed number of components).
License: MIT + file LICENSE
LazyData: true
URL: https://github.com/bbodin/AntMAN
Imports: stats, graphics, grDevices, Rcpp (>= 0.12.3), salso, mvtnorm, mcclust, GGally, bayesplot, Rdpack
RdMacros: Rdpack
Suggests: dendextend, ggdendro, ggplot2, jpeg
LinkingTo: Rcpp, RcppArmadillo
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-23 07:22:05 UTC; toky
Repository: CRAN
Date/Publication: 2021-07-23 10:00:02 UTC

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Thu, 22 Jul 2021

New package frscore with initial version 0.1.0
Package: frscore
Title: Functions for Calculating Fit-Robustness of CNA-Solutions
Version: 0.1.0
Description: Functions for automatically performing a reanalysis series on a data set using CNA, and for calculating the fit-robustness of the resulting models, as described in Parkkinen and Baumgartner (2021) <doi:10.1177/0049124120986200>.
License: AGPL (>= 3)
Encoding: UTF-8
LazyData: true
Imports: dplyr, Rfast, magrittr, rlang
Depends: R (>= 3.5), cna (>= 3.2.0)
Suggests: spelling, testthat (>= 3.0.0)
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-22 05:29:37 UTC; lbl
Author: Veli-Pekka Parkkinen [aut, cre, cph], Michael Baumgartner [aut, cph], Mathias Ambuehl [ctb]
Maintainer: Veli-Pekka Parkkinen <parkkinenv@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-22 10:10:02 UTC

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New package dowser with initial version 0.1.0
Package: dowser
Version: 0.1.0
Date: 2021-07-13
Title: B Cell Receptor Phylogenetics Toolkit
Description: Provides a set of functions for inferring, visualizing, and analyzing B cell phylogenetic trees. Provides methods to 1) reconstruct unmutated ancestral sequences, 2) build B cell phylogenetic trees using multiple methods, 3) visualize trees with metadata at the tips, 4) reconstruct intermediate sequences, 5) detect biased ancestor-descendant relationships among metadata types Workflow examples available at documentation site (see URL). Citations: Hoehn et al (2020) <doi:10.1101/2020.05.30.124446>, Hoehn et al (2021) <doi:10.1101/2021.01.06.425648>.
License: AGPL-3
URL: https://dowser.readthedocs.io
BugReports: https://bitbucket.org/kleinstein/dowser/issues
LazyData: true
BuildVignettes: true
VignetteBuilder: knitr
Encoding: UTF-8
biocViews:
Depends: R (>= 3.1.2), ggplot2 (>= 3.2.0)
Imports: alakazam (>= 1.1.0), ape (>= 5.5), Biostrings, dplyr (>= 0.8.1), ggtree, graphics, gridExtra, markdown, methods, phangorn (>= 2.7.1), phylotate, RColorBrewer, rlang, shazam (>= 1.1.0), stats, stringr, tidyselect, tidyr, utils
Suggests: knitr, rmarkdown, testthat
Collate: 'Data.R' 'Dowser.R' 'Clones.R' 'Classes.R' 'Plotting.R' 'Germlines.R' 'Statistics.R' 'TreeFunctions.R'
NeedsCompilation: no
Packaged: 2021-07-21 12:19:25 UTC; ken
Author: Kenneth Hoehn [aut, cre], Susanna Marquez [ctb], Jason Vander Heiden [ctb], Steven Kleinstein [aut, cph]
Maintainer: Kenneth Hoehn <kenneth.hoehn@yale.edu>
Repository: CRAN
Date/Publication: 2021-07-22 09:40:02 UTC

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New package powerEQTL with initial version 0.3.4
Package: powerEQTL
Title: Power and Sample Size Calculation for Bulk Tissue and Single-Cell eQTL Analysis
Version: 0.3.4
Date: 2021-07-21
Author: Xianjun Dong [aut, ctb], Xiaoqi Li [aut, ctb], Tzuu-Wang Chang [aut, ctb], Scott T. Weiss [aut, ctb], Weiliang Qiu [aut, cre]
Maintainer: Weiliang Qiu <weiliang.qiu@gmail.com>
Depends: R (>= 3.6.0)
Imports: stats, nlme, GLMMadaptive, parallel
Description: Power and sample size calculation for bulk tissue and single-cell eQTL analysis based on ANOVA, simple linear regression, or linear mixed effects model. It can also calculate power/sample size for testing the association of a SNP to a continuous type phenotype. Please see the reference: Dong X, Li X, Chang T-W, Scherzer CR, Weiss ST, Qiu W. (2021) <doi:10.1093/bioinformatics/btab385>.
License: GPL (>= 2)
URL: https://github.com/sterding/powerEQTL and https://bwhbioinfo.shinyapps.io/powerEQTL/
NeedsCompilation: no
Packaged: 2021-07-21 16:58:53 UTC; i0388414
Repository: CRAN
Date/Publication: 2021-07-22 08:30:02 UTC

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New package GeoFIS with initial version 1.0.1
Package: GeoFIS
Title: Spatial Data Processing for Decision Making
Version: 1.0.1
Author: Serge Guillaume [aut], Jean-Luc Lablée [aut, cre], INRAE [cph] (National Research Institute for Agriculture, Food and Environment, France)
Maintainer: Jean-Luc Lablée <jean-luc.lablee@inrae.fr>
URL: https://www.geofis.org
Description: Methods for processing spatial data for decision-making. This package is an R implementation of methods provided by the open source software GeoFIS <https://www.geofis.org> (Leroux et al. 2018) <doi:10.3390/agriculture8060073>. The main functionalities are the management zone delineation (Pedroso et al. 2010) <doi:10.1016/j.compag.2009.10.007> and data aggregation (Mora-Herrera et al. 2020) <doi:10.1016/j.compag.2020.105624>.
License: CeCILL
Encoding: UTF-8
Depends: R (>= 4.0.0), sp, data.tree, FisPro (>= 1.1.0)
Imports: methods, Rdpack, foreach, R6, Rcpp (>= 1.0.0), rgeos, nnls
SystemRequirements: GNU make, C++14, gmp, mpfr
RdMacros: Rdpack
NeedsCompilation: yes
LinkingTo: Rcpp, BH, FisPro
Suggests: testthat, rlang, knitr, rmarkdown, RColorBrewer, rgdal
VignetteBuilder: knitr
Packaged: 2021-07-21 09:02:54 UTC; jean-luc.lablee
Repository: CRAN
Date/Publication: 2021-07-22 08:20:13 UTC

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New package geodiv with initial version 1.0.3
Package: geodiv
Title: Methods for Calculating Gradient Surface Metrics
Version: 1.0.3
Author: Annie C. Smith, Phoebe Zarnetske, Kyla Dahlin, Adam Wilson, Andrew Latimer
Maintainer: Annie C. Smith <annie.smith@dnr.wa.gov>
Description: Methods for calculating gradient surface metrics for continuous analysis of landscape features.
URL: https://github.com/bioXgeo/geodiv
BugReports: https://github.com/bioXgeo/geodiv/issues
Depends: R (>= 3.5)
Imports: dplyr (>= 0.7.8), phonTools (>= 0.2-2.1), pracma (>= 2.2.2), raster (>= 2.8-4), rgdal (>= 1.4), spatial (>= 7.3-11), tibble (>= 1.4.2), e1071 (>= 1.7-0), sp (>= 1.3-1), rgeos (>= 0.4-3), parallel (>= 3.5.0), snow (>= 0.4-3), sf (>= 0.7-4), zoo (>= 1.8-5), Rcpp (>= 1.0.1), landscapemetrics(>= 1.5.2)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: testthat, ggplot2, rmarkdown, rasterVis, mapdata, maptools, maps, tidyverse, tidyr, ggmap, corrplot, cowplot, gridExtra, factoextra, cluster, knitr, rfigshare
LinkingTo: Rcpp, RcppArmadillo
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-07-20 20:53:47 UTC; lsth490
Repository: CRAN
Date/Publication: 2021-07-22 08:10:02 UTC

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New package funGp with initial version 0.2.2
Package: funGp
Title: Gaussian Process Models for Scalar and Functional Inputs
Version: 0.2.2
Maintainer: Jose Betancourt <djbetancourt@uninorte.edu.co>
Description: Construction and smart selection of Gaussian process models with emphasis on treatment of functional inputs. This package offers: (i) flexible modeling of functional-input regression problems through the fairly general Gaussian process model; (ii) built-in dimension reduction for functional inputs; (iii) heuristic optimization of the structural parameters of the model (e.g., active inputs, kernel function, type of distance). Metamodeling background is provided in Betancourt et al. (2020) <doi:10.1016/j.ress.2020.106870>. The algorithm for structural parameter optimization is described in <https://hal.archives-ouvertes.fr/hal-02532713>.
Note: research product of the RISCOPE project (ANR, project No.16CE04-0011) <https://perso.math.univ-toulouse.fr/riscope/>.
License: GPL-3
URL: https://djbetancourt-gh.github.io/funGp/
Imports: methods, foreach, knitr, scales, qdapRegex, microbenchmark, doFuture, future, progressr
Encoding: UTF-8
Collate: '0_funGp_Doc.R' '0_show_Doc.R' '8_outilsCode.R' '3_ant_admin.R' '2_fgpKern_Class.R' '2_fgpProj_Class.R' '1_fgpm_Class.R' '1_Xfgpm_Class.R' '3_ant_search.R' '3_training_F.R' '3_training_S.R' '3_training_SF.R' '4_prediction_F.R' '4_prediction_S.R' '4_prediction_SF.R' '5_simulation_F.R' '5_simulation_S.R' '5_simulation_SF.R' '6_updating.R' '7_blackBoxFunctions.R' '7_checkingFunctions.R' '7_correlFunctions.R' '7_dimRedFunctions.R' '7_distanceFunctions.R' '7_plottingFunctions.R' '8_outilsStats.R'
NeedsCompilation: no
Packaged: 2021-07-22 04:57:54 UTC; djbet
Author: Jose Betancourt [cre, aut], François Bachoc [aut], Thierry Klein [aut], Deborah Idier [ctb], Jeremy Rohmer [ctb]
Repository: CRAN
Date/Publication: 2021-07-22 08:40:05 UTC

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New package RMBC with initial version 0.1.0
Package: RMBC
Title: Robust Model Based Clustering
Version: 0.1.0
Author: Juan Domingo Gonzalez [cre, aut], Victor J. Yohai [aut], Ruben H. Zamar [aut], Ricardo Maronna [aut]
Maintainer: Juan Domingo Gonzalez <juanrst@hotmail.com>
Description: A robust clustering algorithm (Model-Based) similar to Expectation Maximization for finite mixture normal distributions is implemented, its main advantage is that the estimator is resistant to outliers, that means that results of parameter estimation are still correct when there are atypical values in the sample (see Gonzalez, Maronna, Yohai and Zamar (2021) <arxiv:2102.06851>).
License: GPL (>= 2)
Encoding: UTF-8
Depends: R (>= 3.5.0), stats
LazyData: true
Suggests: tclust, knitr, testthat (>= 2.1.0), rmarkdown
Imports: ktaucenters, mvtnorm, MASS
NeedsCompilation: no
Packaged: 2021-07-20 23:48:38 UTC; juan
Repository: CRAN
Date/Publication: 2021-07-22 06:40:05 UTC

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New package pathlit with initial version 0.1.0
Package: pathlit
Title: An SDK for the PathLit Engine
Version: 0.1.0
Description: This wrapper houses PathLit API endpoints for R. The usage of these endpoints require the use of an API key which can be obtained at <https://www.pathlit.io/docs/cli/>.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 2.10)
Imports: httr, jsonlite, timeSeries, parallel, testthat, usethis, utils
URL: https://www.pathlit.io
NeedsCompilation: no
Packaged: 2021-07-21 12:35:25 UTC; riasataliistiaque
Author: Riasat Ali Istiaque [aut, cre, ctb], Nicolas Mas [ctb, rev]
Maintainer: Riasat Ali Istiaque <riasat.istiaque@pathlit.io>
Repository: CRAN
Date/Publication: 2021-07-22 07:00:02 UTC

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New package objectProperties with initial version 0.6.7
Package: objectProperties
Title: A Factory of Self-Describing Properties
Description: Supports the definition of sets of properties on objects. Observers can listen to changes on individual properties or the set as a whole. The properties are meant to be fully self-describing. In support of this, there is a framework for defining enumerated types, as well as other bounded types, as S4 classes.
Maintainer: Michael Lawrence <michafla@gene.com>
Depends: R (>= 2.12), objectSignals (>= 0.10.2)
Imports: methods
Version: 0.6.7
License: GPL (>= 2)
Collate: PropertySet-class.R Enum-class.R comp-classes.R
NeedsCompilation: no
Packaged: 2021-07-21 17:31:12 UTC; michafla
Author: Tengfei Yin [aut], Michael Lawrence [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-22 07:00:04 UTC

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New package GARCHSK with initial version 0.1.0
Package: GARCHSK
Title: Estimating a GARCHSK Model and GJRSK Model
Version: 0.1.0
Description: Functions for estimating a GARCHSK model and GJRSK model based on a publication by Leon et,al (2005)<doi:10.1016/j.qref.2004.12.020> and Nakagawa and Uchiyama (2020)<doi:10.3390/math8111990>. These are a GARCH-type model allowing for time-varying volatility, skewness and kurtosis.
License: GPL (>= 2)
LazyData: TRUE
Imports: stats, Rsolnp
NeedsCompilation: no
Packaged: 2021-07-21 23:53:27 UTC; keina
Author: Kei Nakagawa [aut, cre] (<https://orcid.org/0000-0001-5046-8128>)
Maintainer: Kei Nakagawa <kei.nak.0315@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-22 07:00:07 UTC

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New package codemeta with initial version 0.1.0
Package: codemeta
Title: A Smaller 'codemetar' Package
Version: 0.1.0
Description: The 'Codemeta' Project defines a 'JSON-LD' format for describing software metadata, as detailed at <https://codemeta.github.io>. This package provides core utilities to generate this metadata with a minimum of dependencies.
License: GPL-3
URL: https://github.com/cboettig/codemeta
BugReports: https://github.com/cboettig/codemeta/issues
Depends: R (>= 3.0.0)
Imports: desc, jsonlite (>= 1.6), methods, utils
Suggests: covr, knitr, rmarkdown, testthat (>= 2.1.0)
Encoding: UTF-8
X-schema.org-isPartOf: https://ropensci.org
X-schema.org-keywords: metadata, codemeta, ropensci, citation, credit, linked-data
NeedsCompilation: no
Packaged: 2021-07-20 23:29:02 UTC; cboettig
Author: Carl Boettiger [aut, cre, cph] (<https://orcid.org/0000-0002-1642-628X>), Maëlle Salmon [ctb, aut] (<https://orcid.org/0000-0002-2815-0399>), Katrin Leinweber [ctb] (<https://orcid.org/0000-0001-5135-5758>), Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>), Arfon Smith [ctb], Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>), Sebastian Meyer [ctb] (<https://orcid.org/0000-0002-1791-9449>), Michael Rustler [ctb] (<https://orcid.org/0000-0003-0647-7726>), Hauke Sonnenberg [ctb] (<https://orcid.org/0000-0001-9134-2871>), Sebastian Kreutzer [ctb] (<https://orcid.org/0000-0002-0734-2199>), rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-22 06:40:02 UTC

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New package AvInertia with initial version 0.0.1
Package: AvInertia
Title: Calculate the Inertial Properties of a Flying Bird
Version: 0.0.1
Description: Tools to compute the center of gravity and moment of inertia tensor of any flying bird. The tools function by modeling a bird as a composite structure of simple geometric objects. This requires detailed morphological measurements of bird specimens although those obtained for the associated paper have been included in the package for use. Refer to the vignettes and supplementary material for detailed information on the package function.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: pracma, readxl, ggplot2, stringr, tidyr, ggthemes, reshape2
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
URL: https://github.com/charvey23/AvInertia
BugReports: https://github.com/charvey23/AvInertia/issues
NeedsCompilation: no
Packaged: 2021-07-21 18:10:13 UTC; christinaharvey
Author: Christina Harvey [aut, cre] (<https://orcid.org/0000-0002-2830-0844>), Vikram B. Baliga [aut] (<https://orcid.org/0000-0002-9367-8974>), Jasmin C.M. Wong [aut] (<https://orcid.org/0000-0003-4648-2503>)
Maintainer: Christina Harvey <harveyca@umich.edu>
Repository: CRAN
Date/Publication: 2021-07-22 07:00:09 UTC

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New package AovBay with initial version 0.1.0
Package: AovBay
Title: Classic, Nonparametric and Bayesian One-Way Analysis of Variance Panel
Version: 0.1.0
Description: It covers various approaches to analysis of variance, provides an assumption testing section in order to provide a decision diagram that allows selecting the most appropriate technique. It provides the classical analysis of variance, the nonparametric equivalent of Kruskal Wallis, and the Bayesian approach. These results are shown in an interactive shiny panel, which allows modifying the arguments of the tests, contains interactive graphics and presents automatic conclusions depending on the tests in order to contribute to the interpretation of these analyzes. 'AovBay' uses 'Stan' and 'FactorBayes' for Bayesian analysis and 'Highcharts' for interactive charts.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Biarch: true
Depends: R (>= 3.4.0)
Imports: methods, DT, shiny, shinydashboardPlus, shinydashboard, Rcpp (>= 0.12.0), RcppParallel (>= 5.0.1), rstan (>= 2.18.1), rstantools (>= 2.1.1), dplyr, tibble, BayesFactor, broom, car, highcharter, moments, reshape, nortest, purrr, shinycssloaders, stringr, waiter, htmltools
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: 2021-07-20 21:32:02 UTC; javierrojas
Author: Mauricio Rojas-Campuzano [aut, cre, ctb], Johny Pambabay-Calero [aut, ctb], Sergio Bauz-Olvera [ctb], Omar Ruiz-Barzola [ctb]
Maintainer: Mauricio Rojas-Campuzano <maujroja@espol.edu.ec>
Repository: CRAN
Date/Publication: 2021-07-22 06:30:02 UTC

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New package ISLR2 with initial version 1.0
Package: ISLR2
Title: Introduction to Statistical Learning, Second Edition
Version: 1.0
Date: 2021-07-20
Suggests: MASS
Description: We provide the collection of data-sets used in the book 'An Introduction to Statistical Learning with Applications in R, Second Edition'. These include many data-sets that we used in the first edition (some with minor changes), and some new datasets.
Depends: R (>= 3.5.0)
License: GPL-2
LazyLoad: yes
LazyData: yes
URL: https://www.statlearning.com
NeedsCompilation: no
Packaged: 2021-07-20 18:15:47 UTC; hastie
Author: Gareth James [aut], Daniela Witten [aut], Trevor Hastie [aut, cre], Rob Tibshirani [aut], Balasubramanian Narasimhan [ctb]
Maintainer: Trevor Hastie <hastie@stanford.edu>
Repository: CRAN
Date/Publication: 2021-07-22 06:00:02 UTC

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Wed, 21 Jul 2021

New package covid19india with initial version 0.1.2
Package: covid19india
Title: Pulling Clean Data from Covid19india.org
Version: 0.1.2
Description: Pull raw and pre-cleaned versions of national and state-level COVID-19 time-series data from covid19india.org <https://www.covid19india.org>. Easily obtain and merge case count data, testing data, and vaccine data. Also assists in calculating the time-varying effective reproduction number with sensible parameters for COVID-19.
URL: https://github.com/maxsal/covid19india
BugReports: https://github.com/maxsal/covid19india/issues
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: EpiEstim, cli, dplyr, gt, httr, tibble, tidyr, tidyverse, glue, janitor, magrittr, scales, purrr, readr, stringr, tidyselect
Depends: R (>= 3.6)
NeedsCompilation: no
Packaged: 2021-07-20 16:19:03 UTC; maxsalvatore
Author: Max Salvatore [aut, cre]
Maintainer: Max Salvatore <mmsalva@umich.edu>
Repository: CRAN
Date/Publication: 2021-07-21 12:00:02 UTC

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New package optimall with initial version 0.1.0
Package: optimall
Title: Allocate Samples Among Strata
Version: 0.1.0
Maintainer: Jasper Yang <yangjasp@grinnell.edu>
Description: Functions for the design process of survey sampling, with specific tools for multi-wave and multi-phase designs. Perform optimum allocation using Neyman (1934) <doi:10.2307/2342192> or Wright (2012) <doi:10.1080/00031305.2012.733679> allocation, split strata based on quantiles or values of known variables, randomly select samples from strata, allocate sampling waves iteratively, and organize a complex survey design. Also includes a Shiny application for observing the effects of different strata splits.
License: GPL-3
URL: https://github.com/yangjasp/optimall
BugReports: https://github.com/yangjasp/optimall/issues
Depends: R (>= 3.5.0)
Imports: dplyr (>= 1.0.5), glue (>= 1.4.0), magrittr (>= 2.0.0), methods (>= 4.0.0), rlang (>= 0.2.2), stats (>= 4.0.2), tibble (>= 1.4.2), utils (>= 3.5.0),
Suggests: bslib (>= 0.2.4), DiagrammeR (>= 1.0.0), DT (>= 0.15), datasets, globals (>= 0.12), knitr (>= 1.28), rmarkdown (>= 2.7), shiny (>= 1.6.0), shinytest (>= 1.4.0), survey (>= 4.0), testthat (>= 3.0.2), webshot (>= 0.5)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
Collate: 'allocate_wave.R' 'sample_strata.R' 'wave.R' 'phase.R' 'multiwave.R' 'merge_samples.R' 'optimum_allocation.R' 'get_data.R' 'apply_multiwave.R' 'matwgt_sim.R' 'merge_strata.R' 'multiwave_diagram.R' 'new_multiwave.R' 'optimall_shiny.R' 'split_strata.R' 'summary.multiwave.R'
NeedsCompilation: no
Packaged: 2021-07-20 15:27:13 UTC; jasper
Author: Jasper Yang [aut, cre], Pamela Shaw [aut], Bryan Shepherd [ctb], Thomas Lumley [ctb], Gustavo Amorim [rev]
Repository: CRAN
Date/Publication: 2021-07-21 10:10:02 UTC

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New package rTG with initial version 0.2.2
Package: rTG
Title: Methods to Analyse Seasonal Radial Tree Growth Data
Version: 0.2.2
Author: Jernej Jevsenak [aut, cre]
Maintainer: Jernej Jevsenak <jernej.jevsenak@gmail.com>
Description: Methods for comparing different regression algorithms for describing the temporal dynamics of secondary tree growth (xylem and phloem). Users can compare the accuracy of the most common fitting methods usually used to analyse xylem and phloem data, i.e., Gompertz function and General Additive Models (GAMs); and an algorithm newly introduced to the field, i.e., Bayesian Regularised Neural Networks (brnn). The core function of the package is XPSgrowth(), while the results can be interpreted using implemented generic S3 methods, such as plot() and summary().
License: GPL-3
Encoding: UTF-8
LazyData: true
Suggests: testthat (>= 3.0.0)
Imports: ggplot2(>= 2.2.0), brnn(>= 0.6), mgcv (>= 1.8-34), knitr(>= 1.19), dplyr(>= 0.1.0), magrittr(>= 1.5)
Depends: R(>= 3.5)
URL: https://github.com/jernejjevsenak/rTG
BugReports: https://github.com/jernejjevsenak/rTG/issues
NeedsCompilation: no
Repository: CRAN
Packaged: 2021-07-20 10:57:05 UTC; JernejJ
Date/Publication: 2021-07-21 09:30:02 UTC

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New package nberwp with initial version 1.0.0
Package: nberwp
Title: NBER Working Papers
Version: 1.0.0
Description: Catalogue of NBER working papers published between June 1973 and June 2021.
URL: https://github.com/bldavies/nberwp
BugReports: https://github.com/bldavies/nberwp/issues
Depends: R (>= 2.10)
Suggests: dplyr
License: CC0
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-20 15:00:20 UTC; bldavies
Author: Benjamin Davies [aut, cre] (<https://orcid.org/0000-0002-1749-4567>)
Maintainer: Benjamin Davies <dev@bldavies.com>
Repository: CRAN
Date/Publication: 2021-07-21 09:40:07 UTC

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New package meedr with initial version 0.0.2
Package: meedr
Title: Macroeconomic Expectations Data in R using the Central Bank of Brazil API
Version: 0.0.2
Description: Provides quick and easy access to market expectations data to the main macroeconomic indicators in the Focus report, made available by the Central Bank of Brazil through the Expectations System data API <https://dadosabertos.bcb.gov.br/>. This package offers an R interface to the API and other advantages, such as using a caching system and the option to use all the machine's cores (parallel computing).
License: MIT + file LICENSE
URL: https://fortietwo.com/meedr/, https://github.com/schoulten/meedr
BugReports: https://github.com/schoulten/meedr/issues
Encoding: UTF-8
Imports: dplyr, furrr, future, httr, jsonlite, memoise, purrr, lubridate
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, utf8
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-20 13:55:27 UTC; ferna
Author: Fernando da Silva [aut, cre] (<https://orcid.org/0000-0002-7491-6930>)
Maintainer: Fernando da Silva <fernando@fortietwo.com>
Repository: CRAN
Date/Publication: 2021-07-21 09:40:10 UTC

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New package influxdbclient with initial version 0.1.0
Package: influxdbclient
Title: InfluxDB 2.x Client for R
Version: 0.1.0
Author: Ales Pour <ales.pour@bonitoo.io>
Maintainer: Ales Pour <ales.pour@bonitoo.io>
Description: InfluxDB 2.x time-series database client. Supports both InfluxDB OSS (<https://portal.influxdata.com/downloads/>) and Cloud (<https://cloud2.influxdata.com/>) version.
URL: https://github.com/influxdata/influxdb-client-r
BugReports: https://github.com/influxdata/influxdb-client-r/issues
Depends: R (>= 3.3)
Encoding: UTF-8
License: MIT License + file LICENSE
Imports: R6, httr, jsonlite, bit64, nanotime (>= 0.3.0), plyr
Suggests: testthat, httptest
NeedsCompilation: no
Packaged: 2021-07-20 11:20:33 UTC; alespour
Repository: CRAN
Date/Publication: 2021-07-21 09:30:05 UTC

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New package ConfusionTableR with initial version 1.0.1
Package: ConfusionTableR
Title: Confusion Matrix Toolset
Version: 1.0.1
Maintainer: Gary Hutson <hutsons-hacks@outlook.com>
Description: Takes the outputs of a 'caret' confusion matrix and allows for the quick conversion of these list items to lists. The intended usage is to allow the tool to work with the outputs of machine learning classification models. This tool works with classification problems for binary and multi-classification problems and allows for the record level conversion of the confusion matrix outputs. This is useful, as it allows quick conversion of these objects for storage in database systems and to track ML model performance over time. Traditionally, this approach has been used for highlighting model representation and feature slippage.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: dplyr, tidyr, magrittr, caret, mlbench, lattice, scales, ggplot2, tibble, e1071, randomForest
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Repository: CRAN
Collate: 'MultiFramer.R' 'SingleFramer.R' 'binaryVisualiseR.R' 'globals.R'
Language: en-US
Packaged: 2021-07-20 12:00:20 UTC; garyh
Author: Gary Hutson [aut, cre] (<https://orcid.org/0000-0003-3534-6143>)
Date/Publication: 2021-07-21 09:50:02 UTC

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Tue, 20 Jul 2021

New package CARlasso with initial version 0.1
Package: CARlasso
Title: Conditional Autoregressive LASSO
Version: 0.1
Maintainer: Yunyi Shen <yshen99@wisc.edu>
Description: Algorithms to fit Bayesian Conditional Autoregressive LASSO with automatic and adaptive shrinkage described in Shen and Solis-Lemus (2020) <arXiv:2012.08397>.
Depends: R (>= 3.5.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
ByteCompile: TRUE
Suggests: testthat, knitr, rmarkdown
LinkingTo: Rcpp, RcppArmadillo, RcppProgress
Imports: Rcpp, coda, Matrix, igraph, ggraph, ggplot2, MASS, methods
SystemRequirements: C++11
VignetteBuilder: knitr
URL: https://github.com/YunyiShen/CAR-LASSO
BugReports: https://github.com/YunyiShen/CAR-LASSO/issues
NeedsCompilation: yes
Packaged: 2021-07-20 20:44:12 UTC; yunyi
Author: Yunyi Shen [aut, cre] (<https://orcid.org/0000-0003-2779-6507>), Claudia Solis-Lemus [aut] (<https://orcid.org/0000-0002-9789-8915>)
Repository: CRAN
Date/Publication: 2021-07-20 23:30:02 UTC

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New package OpenABMCovid19 with initial version 1.0.1
Package: OpenABMCovid19
Version: 1.0.1
Title: Agent-Based Model for Modelling the COVID-19
License: GPL-3
Authors@R: c( person("Oli", "Legat", role = c("cre"), email = "olegat@google.com"), person("Robert", "Hinch", role = "aut", email = "robert.hinch@gmail.com"), person("Will", "Probert", role = "aut", comment = "a.k.a. p-robot", email = "will@probert.co.nz"), person("Ana", "Bulas Cruz", role = "ctb"), person("Andrea", "Stewart", role = "ctb"), person("Anel", "Nurtay", role = "ctb"), person("Anthony", "Finkelstein", role = "ctb"), person("Ares", "Meroueh", role = "ctb"), person("Arun", "Lobo", role = "ctb"), person("Bryn", "Mathias", role = "ctb"), person("Chris", "Wymant", role = "ctb"), person("Christophe", "Fraser", role = "ctb"), person("Daniel", "Montero", role = "ctb"), person("David", "G Bonsall", role = "ctb"), person("Evan", "Blumgart", role = "ctb"), person("Feifan", "Chen", role = "ctb"), person("Felix", "Breuer", role = "ctb"), person("James", "Lockyer", role = "ctb"), person("James", "Warren", role = "ctb"), person("Katrina", "Lythgoe", role = "ctb"), person("Kelvin", "Van Vurren", role = "ctb"), person("Lele", "Zhao", role = "ctb"), person("Luca", "Ferretti", role = "ctb"), person("Lucie", "Abeler-Dörner", role = "ctb"), person("Matthew", "Abueg", role = "ctb"), person("Matthew", "Hall", role = "ctb"), person("Michelle", "Kendall", role = "ctb"), person("Neo", "Wu", role = "ctb"), person("Nicole", "Mather", role = "ctb"), person("Ross", "Boylan", role = "ctb"), person("Scott", "Stevenson", role = "ctb"), person("Setrak", "Balian", role = "ctb"), person("feldnerd", "", role = "ctb", email = "56836977+feldnerd@users.noreply.github.com"), person("mattea", "", role = "ctb", email = "mattea@users.noreply.github.com"), person("neozwu", "", role = "ctb", email = "neozwu@users.noreply.github.com"), person("rory-improbable", "", role = "ctb", email = "rory@improbable.io"))
Description: OpenABM-Covid19 is an agent-based model (ABM) developed to simulate the spread of COVID-19 in a city and to analyse the effect of both passive and active intervention strategies. Interactions between individuals are modelled on networks representing households, work-places and random contacts. The infection is transmitted between these contacts and the progression of the disease in individuals is modelled. Instantaneous contract-tracing and quarantining of contacts is modelled allowing the evaluation of the design and configuration of digital contract-tracing mobile phone apps. Robert Hinch, William J M Probert, et al. (2020) <doi:10.1101/2020.09.16.20195925>.
Depends: R6
Imports: methods, xptr
Collate: OpenABMCovid19.R util.R Parameters.R Network.R Model.R Simulation.R Strain.R VaccineSchedule.R Vaccine.R
Suggests: testthat
Encoding: UTF-8
SystemRequirements: GNU GSL
Biarch: FALSE
NeedsCompilation: yes
Packaged: 2021-07-16 13:30:58 UTC; olegat
Author: Oli Legat [cre], Robert Hinch [aut], Will Probert [aut] (a.k.a. p-robot), Ana Bulas Cruz [ctb], Andrea Stewart [ctb], Anel Nurtay [ctb], Anthony Finkelstein [ctb], Ares Meroueh [ctb], Arun Lobo [ctb], Bryn Mathias [ctb], Chris Wymant [ctb], Christophe Fraser [ctb], Daniel Montero [ctb], David G Bonsall [ctb], Evan Blumgart [ctb], Feifan Chen [ctb], Felix Breuer [ctb], James Lockyer [ctb], James Warren [ctb], Katrina Lythgoe [ctb], Kelvin Van Vurren [ctb], Lele Zhao [ctb], Luca Ferretti [ctb], Lucie Abeler-Dörner [ctb], Matthew Abueg [ctb], Matthew Hall [ctb], Michelle Kendall [ctb], Neo Wu [ctb], Nicole Mather [ctb], Ross Boylan [ctb], Scott Stevenson [ctb], Setrak Balian [ctb], feldnerd [ctb], mattea [ctb], neozwu [ctb], rory-improbable [ctb]
Maintainer: Oli Legat <olegat@google.com>
Repository: CRAN
Date/Publication: 2021-07-20 10:40:02 UTC

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New package boomer with initial version 0.1.0
Package: boomer
Title: Debugging Tools to Inspect the Intermediate Steps of a Call
Version: 0.1.0
Authors@R: person(given = "Antoine", family = "Fabri", role = c("aut", "cre"), email = "antoine.fabri@gmail.com")
Description: Provides debugging tools that let you inspect the intermediate results of a call. The output looks as if we explode a call into its parts hence the package name.
License: GPL-3
Encoding: UTF-8
Language: en
Imports: crayon, methods, pryr, rlang, rstudioapi, styler, withr
Suggests: lobstr, magrittr, testthat (>= 3.0.0)
URL: https://github.com/moodymudskipper/boomer
BugReports: https://github.com/moodymudskipper/boomer/issues
NeedsCompilation: no
Packaged: 2021-07-20 02:01:41 UTC; Antoine
Author: Antoine Fabri [aut, cre]
Maintainer: Antoine Fabri <antoine.fabri@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-20 10:10:02 UTC

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New package kdtools with initial version 0.5.0
Package: kdtools
Title: Tools for Working with Multidimensional Data
Version: 0.5.0
Authors@R: person("Timothy", "Keitt", email = "tkeitt@gmail.com", role = c("aut", "cre"))
Description: Provides various tools for working with multidimensional data in R and C++, including extremely fast nearest-neighbor- and range- queries without the overhead of linked tree nodes.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: Rcpp (>= 0.12.14)
LinkingTo: Rcpp, strider, BH
SystemRequirements: C++17
Suggests: testthat, knitr, markdown, rmarkdown, covr, ggplot2, tidytext, printr, scales, BH
VignetteBuilder: knitr
URL: https://github.com/thk686/kdtools
BugReports: https://github.com/thk686/kdtools/issues
NeedsCompilation: yes
Packaged: 2021-07-19 17:22:33 UTC; tkeitt
Author: Timothy Keitt [aut, cre]
Maintainer: Timothy Keitt <tkeitt@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-20 09:40:02 UTC

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New package romic with initial version 1.0.0
Package: romic
Title: R for High-Dimensional Omic Data
Version: 1.0.0
Authors@R: c( person( given = "Sean", family = "Hackett", email = "sean@calicolabs.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-9553-4341") ), person( given = "Calico Life Sciences LLC", role = c("cph", "fnd") ) )
Maintainer: Sean Hackett <sean@calicolabs.com>
Description: Represents high-dimensional data as tables of features, samples and measurements, and a design list for tracking the meaning of individual variables. Using this format, filtering, normalization, and other transformations of a dataset can be carried out in a flexible manner. 'romic' takes advantage of these transformations to create interactive 'shiny' apps for exploratory data analysis such as an interactive heatmap.
Depends: R (>= 3.2.3)
Imports: checkmate, dplyr, ggplot2, glue, purrr, readr, reshape2, rlang, shiny (>= 1.5.0), stringr, tibble, tidyr (>= 1.0.0)
Suggests: knitr, lazyeval, plotly, rmarkdown, usethis, testthat
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-19 16:49:20 UTC; calico-loaner
Author: Sean Hackett [aut, cre] (<https://orcid.org/0000-0002-9553-4341>), Calico Life Sciences LLC [cph, fnd]
Repository: CRAN
Date/Publication: 2021-07-20 09:00:02 UTC

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New package fedmatch with initial version 2.0.0
Package: fedmatch
Title: Fast, Flexible, and User-Friendly Record Linkage Methods
Version: 2.0.0
Authors@R: c(person("Melanie", "Friedrichs", email = "melanie.r.friedrichs@gmail.com", role = c("aut")), person("Chris", "Webster", email = "chris0webster@gmail.com", role = c("aut", "cre")), person("Blake", "Marsh", email = "blake.marsh@kc.frb.org", role = c("aut")), person("Jacob", "Dice", email = "Jacob.Dice@kc.frb.org", role = c("aut")), person("Seung", "Lee", email = "seung.j.lee@frb.gov", role = c("aut")))
Description: Provides a flexible set of tools for matching two un-linked data sets. 'fedmatch' allows for three ways to match data: exact matches, fuzzy matches, and multi-variable matches. It also allows an easy combination of these three matches via the tier matching function.
Depends: R (>= 4.0.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: stringdist, SnowballC, gtools, stringr, purrr, Rcpp, parallel, forcats, data.table, magrittr, scales
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
LinkingTo: Rcpp, BH
NeedsCompilation: yes
Packaged: 2021-07-19 14:26:46 UTC; cwebster
Author: Melanie Friedrichs [aut], Chris Webster [aut, cre], Blake Marsh [aut], Jacob Dice [aut], Seung Lee [aut]
Maintainer: Chris Webster <chris0webster@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-20 08:40:02 UTC

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New package cartogramR with initial version 1.0-1
Package: cartogramR
Version: 1.0-1
Date: 2021-07-19
Title: Continuous Cartogram
Authors@R: c(person(given = "Pierre-Andre", family = "Cornillon", role = c("aut", "cre"), email = "pierre-andre.cornillon@univ-rennes2.fr"), person(given = "Florent", family = "Demoraes", role = "aut", email="florent.demoraes@univ-rennes2.fr"), person(given = "Flow-Based-Cartograms", role = "cph", email = "michael.gastner@yale-nus.edu.sg", comment = "Author of core C code for gsm and gn procedures"))
Description: Procedures for making continuous cartogram. Procedures available are: flow based cartogram (Gastner & Newman (2004) <doi:10.1073/pnas.0400280101>), fast flow based cartogram (Gastner, Seguy & More (2018) <doi:10.1073/pnas.1712674115>), rubber band based cartogram (Dougenik et al. (1985) <doi:10.1111/j.0033-0124.1985.00075.x>).
Depends: R (>= 3.5.0)
Imports: sf, data.table
Suggests: lwgeom
SystemRequirements: FFTW (>=3.3.1); possible package: fftw-devel (rpm), fftw-dev (deb) or fftw (brew).
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-19 15:29:24 UTC; pac
Author: Pierre-Andre Cornillon [aut, cre], Florent Demoraes [aut], Flow-Based-Cartograms [cph] (Author of core C code for gsm and gn procedures)
Maintainer: Pierre-Andre Cornillon <pierre-andre.cornillon@univ-rennes2.fr>
Repository: CRAN
Date/Publication: 2021-07-20 08:50:02 UTC

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New package tmplate with initial version 0.0.3
Package: tmplate
Title: Code Generation Based on Templates
Version: 0.0.3
Date: 2021-07-19
Authors@R: c(person(given=c('Mario A.'), family='Martinez Araya', role=c('aut','cre', 'cph'), email='r@marioma.me', comment = c(ORCID = '0000-0002-4821-9314')))
Author: Mario A. Martinez Araya [aut, cre, cph] (<https://orcid.org/0000-0002-4821-9314>)
Maintainer: Mario A. Martinez Araya <r@marioma.me>
Description: Define general templates with tags that can be replaced by content depending on arguments and objects to modify the final output of the document.
License: GPL (>= 2)
Depends: R (>= 2.10), tRnslate
Suggests: knitr, rmarkdown, markdown
URL: <https://marioma.me?i=soft>
BuildVignettes: yes
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-19 13:12:52 UTC; mma
Repository: CRAN
Date/Publication: 2021-07-20 07:50:02 UTC

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New package shinyauthr with initial version 1.0.0
Package: shinyauthr
Title: 'Shiny' Authentication Modules
Version: 1.0.0
Authors@R: c(person(given = "Paul", family = "Campbell", email = "pacampbell91@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-1018-6606")), person(given = "Michael", family = "Dewar", email = "michael.p.dewar@gmail.com", role = "ctb"))
Description: Add in-app user authentication to 'shiny', allowing you to secure publicly hosted apps and build dynamic user interfaces from user information.
License: MIT + file LICENSE
Encoding: UTF-8
Imports: shiny (>= 1.5.0), shinyjs, dplyr, rlang, sodium, glue
Suggests: DBI, RSQLite, lubridate, shinydashboard, testthat (>= 3.0.0), shinytest, knitr, rmarkdown, covr
URL: https://github.com/paulc91/shinyauthr
BugReports: https://github.com/paulc91/shinyauthr/issues
NeedsCompilation: no
Packaged: 2021-07-19 10:41:29 UTC; paul
Author: Paul Campbell [aut, cre] (<https://orcid.org/0000-0003-1018-6606>), Michael Dewar [ctb]
Maintainer: Paul Campbell <pacampbell91@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-20 07:20:02 UTC

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New package sageR with initial version 0.3.0
Package: sageR
Title: Applied Statistics for Economics and Management with R
Version: 0.3.0
Date: 2021-07-17
Depends: R (>= 3.5.0)
Imports: ggplot2
Suggests: knitr, markdown, prettydoc, rmarkdown, testthat (>= 3.0.0), covr, learnr, spelling, lattice, spatstat.data, Matrix, mgcv, PMCMR, PMCMRplus, devtools, extrafont, DescTools, GGally, VGAM, car, dplyr, tibble, ggiraphExtra, scales, spatstat, vcd
Authors@R: c( person(given = "Frederic", family= "Bertrand", role = c("cre", "aut"), email = "frederic.bertrand@utt.fr", comment = c(ORCID = "0000-0002-0837-8281")), person(given = "Claire", family= "Borsenberger", role = c("ctb"), email = "claire.borsenberger@sfr.fr"), person(given = "Christian", family= "Derquenne", role = c("ctb"), email = "chris.emr@wanadoo.fr"), person(given = "Gilles", family= "Dufrénot", role = c("ctb"), email = "gilles.dufrenot@univ-amu.fr"), person(given = "Fredj", family= "Jawadi", role = c("ctb"), email = "fredj.jawadi@univ-lille.fr"), person(given = "Myriam", family= "Maumy-Bertrand", role = c("aut"), email = "myriam.maumy@utt.fr", comment = c(ORCID = "0000-0002-4615-1512")))
Author: Frederic Bertrand [cre, aut] (<https://orcid.org/0000-0002-0837-8281>), Claire Borsenberger [ctb], Christian Derquenne [ctb], Gilles Dufrénot [ctb], Fredj Jawadi [ctb], Myriam Maumy-Bertrand [aut] (<https://orcid.org/0000-0002-4615-1512>)
Maintainer: Frederic Bertrand <frederic.bertrand@utt.fr>
Description: Datasets and functions for the book "Statistiques pour l’économie et la gestion", "Théorie et applications en entreprise", F. Bertrand, Ch. Derquenne, G. Dufrénot, F. Jawadi and M. Maumy, C. Borsenberger editor, (2021, ISBN:9782807319448, De Boeck Supérieur, Louvain-la-Neuve). The first chapter of the book is dedicated to an introduction to statistics and their world. The second chapter deals with univariate exploratory statistics and graphics. The third chapter deals with bivariate and multivariate exploratory statistics and graphics. The fourth chapter is dedicated to data exploration with Principal Component Analysis. The fifth chapter is dedicated to data exploration with Correspondance Analysis. The sixth chapter is dedicated to data exploration with Multiple Correspondance Analysis. The seventh chapter is dedicated to data exploration with automatic clustering. The eighth chapter is dedicated to an introduction to probability theory and classical probability distributions. The ninth chapter is dedicated to an estimation theory, one-sample and two-sample tests. The tenth chapter is dedicated to an Gaussian linear model. The eleventh chapter is dedicated to an introduction to time series. The twelfth chapter is dedicated to an introduction to probit and logit models. Various example datasets are shipped with the package as well as some new functions.
License: GPL-3
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr, rmarkdown
Language: fr-FR
URL: https://fbertran.github.io/homepage/, https://fbertran.github.io/sageR/, https://github.com/fbertran/sageR/
BugReports: https://github.com/fbertran/sageR/issues/
NeedsCompilation: no
Packaged: 2021-07-18 22:14:56 UTC; fbertran
Repository: CRAN
Date/Publication: 2021-07-20 07:20:05 UTC

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New package neuronorm with initial version 1.0.0
Package: neuronorm
Title: Preprocessing of Structural MRI for Multiple Neurodegenerative Diseases
Version: 1.0.0
Authors@R: c(person(given = "David", family = "Payares", email = "davidpayaresg@gmail.com", role = c("aut", "cre")), person(given = "Jorge", family = "Mateu", email = "mateu@mat.uji.es", role = "ctb"), person(given = "Wiebke",family = "Schick",email = "schickw@uni-muenster.com", role = "ctb"), person(c("Nicholas J."), "Tustison", role = "cph", email = "NA"), person(c("Brian B"), "Avants", role = "cph", email = "NA"), person(c("Philip A."), "Cook", role = "cph", email = "NA"), person(c("Yuanjie"), "Zheng", role = "cph", email = "NA"), person(c("Alexander"), "Egan", role = "cph", email = "NA"), person(c("Paul A."), "Yushkevich", role = "cph", email = "NA"), person(c("James C."), "Gee", role = "cph", email = "NA"), person(c("M."), "Grossman", role = "cph", email = "NA"), person(c("Jean-Philippe"), "Fortin", role = "cph", email = "NA"), person(c("Elizabeth M."), "Sweeney", role = "cph", email = "NA"), person(c("John"), "Muschelli", role = "cph", email = "NA"), person(c("Ciprian M."), "Crainiceanu", role = "cph", email = "NA"), person(c("Russell T."), "Shinohara", role = "cph", email = "NA"), person(c("Yongyue "), "Zhang", role = "cph", email = "NA"), person(c("J. Michae"), "Brady", role = "cph", email = "NA"), person(c("Stephen"), "Smith", role = "cph", email = "NA") )
Maintainer: David Payares <davidpayaresg@gmail.com>
Imports: knitr, oro.nifti, fslr, neurobase, stats
Suggests: rmarkdown, ANTsR, ANTsRCore, ITKR, extrantsr, MNITemplate, RAVEL, neurodata
Depends: R (>= 3.5)
Additional_repositories: https://davidpayares.github.io/drat
Description: Preprocessing pipeline for normalizing and cleaning T1-weighted, T2-weighted and FLAIR MRI images coming from different sources, diseases, patients, scanners and sites.
License: GPL-2
Encoding: UTF-8
SystemRequirements: cmake, FSL
VignetteBuilder: knitr
OS_type: unix
NeedsCompilation: no
Packaged: 2021-07-19 11:10:53 UTC; davidpayares
Author: David Payares [aut, cre], Jorge Mateu [ctb], Wiebke Schick [ctb], Nicholas J. Tustison [cph], Brian B Avants [cph], Philip A. Cook [cph], Yuanjie Zheng [cph], Alexander Egan [cph], Paul A. Yushkevich [cph], James C. Gee [cph], M. Grossman [cph], Jean-Philippe Fortin [cph], Elizabeth M. Sweeney [cph], John Muschelli [cph], Ciprian M. Crainiceanu [cph], Russell T. Shinohara [cph], Yongyue Zhang [cph], J. Michae Brady [cph], Stephen Smith [cph]
Repository: CRAN
Date/Publication: 2021-07-20 07:30:02 UTC

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New package KHQ with initial version 0.1.0
Package: KHQ
Title: Methods for Calculating 'KHQ' Scores and 'KHQ5D' Utility Index Scores
Version: 0.1.0
Authors@R: person(given = "Luiz Augusto", family = "Brusaca", role = c("aut", "cre"), email = "augustobrusaca@gmail.com", comment = c(ORCID = "0000-0001-8201-6433"))
Description: The King's Health Questionnaire (KHQ) is a disease-specific, self-administered questionnaire designed specific to assess the impact of Urinary Incontinence (UI) on Quality of Life. The questionnaire was developed by Kelleher and collaborators (1997) <doi:10.1111/j.1471-0528.1997.tb11006.x>. It is a simple, acceptable and reliable measure to use in the clinical setting and a research tool that is useful in evaluating UI treatment outcomes. The KHQ five dimensions (KHQ5D) is a condition-specific preference-based measure developed by Brazier and collaborators (2008) <doi:10.1177/0272989X07301820>. Although not as popular as the SF6D <doi:10.1016/S0895-4356(98)00103-6> and EQ-5D <https://euroqol.org/>, the KHQ5D measures health-related quality of life (HRQoL) specifically for UI, not general conditions like the others two instruments mentioned. The KHQ5D ca be used in the clinical and economic evaluation of health care. The subject self-rates their health in terms of five dimensions: Role Limitation (RL), Physical Limitations (PL), Social Limitations (SL), Emotions (E), and Sleep (S). Frequently the scores on these five dimensions are converted to a single utility index using country specific value sets, which can be used in the clinical and economic evaluation of health care as well as in population health surveys. This package provides methods to calculate scores for each dimension of the KHQ; converts KHQ item scores to KHQ5D scores; and also calculates the utility index of the KHQ5D.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, testthat
Imports: magrittr, openxlsx, stats
Depends: R (>= 3.5.0)
URL: https://github.com/augustobrusaca/KHQ
BugReports: https://github.com/augustobrusaca/KHQ/issues
VignetteBuilder: knitr
Language: en-GB
NeedsCompilation: no
Packaged: 2021-07-16 16:11:20 UTC; augus
Author: Luiz Augusto Brusaca [aut, cre] (<https://orcid.org/0000-0001-8201-6433>)
Maintainer: Luiz Augusto Brusaca <augustobrusaca@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-20 07:20:11 UTC

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New package glmmTMB with initial version 1.1.2
Package: glmmTMB
Title: Generalized Linear Mixed Models using Template Model Builder
Version: 1.1.2
Authors@R: c(person("Arni","Magnusson",role="aut", comment=c(ORCID="0000-0003-2769-6741")), person("Hans","Skaug",role="aut"), person("Anders","Nielsen",role="aut", comment=c(ORCID="0000-0001-9683-9262")), person("Casper","Berg",role="aut", comment=c(ORCID="0000-0002-3812-5269")), person("Kasper","Kristensen",role="aut"), person("Martin","Maechler",role="aut", comment=c(ORCID="0000-0002-8685-9910")), person("Koen","van Bentham",role="aut"), person("Ben","Bolker",role=c("aut","cre"), email="bolker@mcmaster.ca", comment=c(ORCID="0000-0002-2127-0443")), person("Nafis","Sadat",role="ctb", comment=c(ORCID="0000-0001-5715-616X")), person("Daniel","Lüdecke", role="ctb", comment=c(ORCID="0000-0002-8895-3206")), person("Russ","Lenth", role="ctb"), person("Joseph", "O'Brien", role = "ctb", comment = c(ORCID = "0000-0001-9851-5077")), person("Charles J.","Geyer", role="ctb"), person("Maeve","McGillycuddy", role="ctb"), person("Mollie","Brooks",role=c("aut"), comment=c(ORCID="0000-0001-6963-8326")))
Description: Fit linear and generalized linear mixed models with various extensions, including zero-inflation. The models are fitted using maximum likelihood estimation via 'TMB' (Template Model Builder). Random effects are assumed to be Gaussian on the scale of the linear predictor and are integrated out using the Laplace approximation. Gradients are calculated using automatic differentiation.
License: AGPL-3
Depends: R (>= 3.2.0)
Imports: methods, TMB (>= 1.7.14), lme4 (>= 1.1-18.9000), Matrix, nlme, numDeriv
LinkingTo: TMB, RcppEigen
Suggests: knitr, rmarkdown, testthat, MASS, lattice, ggplot2 (>= 2.2.1), mlmRev, bbmle (>= 1.0.19), pscl, coda, reshape2, car (>= 3.0.6), emmeans (>= 1.4), estimability, DHARMa, multcomp, MuMIn, effects (>= 4.0-1), dotwhisker, broom, broom.mixed, plyr, png, boot, texreg, xtable, huxtable, mvabund
SystemRequirements: GNU make
VignetteBuilder: knitr
URL: https://github.com/glmmTMB/glmmTMB
LazyData: TRUE
BugReports: https://github.com/glmmTMB/glmmTMB/issues
NeedsCompilation: yes
Encoding: UTF-8
Packaged: 2021-07-14 00:43:46 UTC; bolker
Author: Arni Magnusson [aut] (<https://orcid.org/0000-0003-2769-6741>), Hans Skaug [aut], Anders Nielsen [aut] (<https://orcid.org/0000-0001-9683-9262>), Casper Berg [aut] (<https://orcid.org/0000-0002-3812-5269>), Kasper Kristensen [aut], Martin Maechler [aut] (<https://orcid.org/0000-0002-8685-9910>), Koen van Bentham [aut], Ben Bolker [aut, cre] (<https://orcid.org/0000-0002-2127-0443>), Nafis Sadat [ctb] (<https://orcid.org/0000-0001-5715-616X>), Daniel Lüdecke [ctb] (<https://orcid.org/0000-0002-8895-3206>), Russ Lenth [ctb], Joseph O'Brien [ctb] (<https://orcid.org/0000-0001-9851-5077>), Charles J. Geyer [ctb], Maeve McGillycuddy [ctb], Mollie Brooks [aut] (<https://orcid.org/0000-0001-6963-8326>)
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Repository: CRAN
Date/Publication: 2021-07-20 07:30:04 UTC

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New package ffsimulator with initial version 1.0.0
Package: ffsimulator
Title: Simulate Fantasy Football Seasons
Version: 1.0.0
Authors@R: person(given = "Tan", family = "Ho", role = c("aut", "cre","cph"), email = "tan@tanho.ca", comment = c(ORCID = "0000-0001-8388-5155"))
Description: Uses bootstrap resampling to run fantasy football season simulations supported by historical rankings and 'nflfastR' data, calculating optimal lineups, and returning aggregated results.
License: MIT + file LICENSE
URL: https://ffsimulator.ffverse.com, https://github.com/ffverse/ffsimulator
BugReports: https://github.com/ffverse/ffsimulator/issues
Depends: R (>= 3.5.0)
Imports: checkmate (>= 2.0.0), dplyr (>= 1.0.0), ffscrapr (>= 1.4.3), glue (>= 1.3.0), httr (>= 1.4.0), magrittr (>= 1.0.0), purrr (>= 0.3.0), Rglpk (>= 0.6.0), rlang (>= 0.4.0), stringr (>= 1.4.0), tibble (>= 3.0.0), tidyr (>= 1.0.0)
Suggests: covr (>= 3.0.0), forcats (>= 0.5.0), furrr (>= 0.2.0), future (>= 1.0.0), ggplot2 (>= 3.0.0), ggridges (>= 0.5.0), knitr (>= 1.0), rmarkdown (>= 2.6), scales (>= 1.0.0), testthat (>= 3.0.0), vdiffr (>= 1.0.2)
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-19 14:15:41 UTC; Tan
Author: Tan Ho [aut, cre, cph] (<https://orcid.org/0000-0001-8388-5155>)
Maintainer: Tan Ho <tan@tanho.ca>
Repository: CRAN
Date/Publication: 2021-07-20 07:50:04 UTC

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New package dcurves with initial version 0.2.0
Package: dcurves
Title: Decision Curve Analysis for Model Evaluation
Version: 0.2.0
Authors@R: person(given = "Daniel D.", family = "Sjoberg", role = c("aut", "cre", "cph"), email = "danield.sjoberg@gmail.com")
Description: Diagnostic and prognostic models are typically evaluated with measures of accuracy that do not address clinical consequences. Decision-analytic techniques allow assessment of clinical outcomes, but often require collection of additional information may be cumbersome to apply to models that yield a continuous result. Decision curve analysis is a method for evaluating and comparing prediction models that incorporates clinical consequences, requires only the data set on which the models are tested, and can be applied to models that have either continuous or dichotomous results. See the following references for details on the methods: Vickers (2006) <doi:10.1177/0272989X06295361>, Vickers (2008) <doi:10.1186/1472-6947-8-53>, and Pfeiffer (2020) <doi:10.1002/bimj.201800240>.
License: MIT + file LICENSE
URL: https://github.com/ddsjoberg/dcurves, http://www.danieldsjoberg.com/dcurves/
BugReports: https://github.com/ddsjoberg/dcurves/issues
Depends: R (>= 3.5)
Imports: broom (>= 0.7.6), dplyr (>= 1.0.5), ggplot2 (>= 3.3.3), glue (>= 1.4.2), purrr (>= 0.3.4), rlang (>= 0.4.10), scales (>= 1.1.1), survival, tibble (>= 3.1.0)
Suggests: covr (>= 3.5.1), gtsummary (>= 1.4.0), knitr (>= 1.32), rmarkdown (>= 2.7), spelling (>= 2.2), testthat (>= 3.0.2), tidyr (>= 1.1.3)
VignetteBuilder: knitr
ByteCompile: true
Config/testthat/parallel: true
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-19 12:49:36 UTC; SjobergD
Author: Daniel D. Sjoberg [aut, cre, cph]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-20 07:30:08 UTC

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New package dbMC with initial version 1.0.0
Package: dbMC
Title: Confidence Interval for Matrix Completion via De-Biased Estimator
Version: 1.0.0
Authors@R: person("The Tien", "Mai", email = "t.t.mai@medisin.uio.no", role = c("aut", "cre"))
Description: Implements the de-biased estimator for low-rank matrix completion and provides confidence intervals for entries of interest. See: by Chen et al. (2019) <doi:10.1073/pnas.1910053116>, Mai (2021) <arXiv:2103.11749>.
Imports: softImpute
License: GPL-2
Encoding: UTF-8
Suggests: rmarkdown, knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-19 11:03:02 UTC; thetm
Author: The Tien Mai [aut, cre]
Maintainer: The Tien Mai <t.t.mai@medisin.uio.no>
Repository: CRAN
Date/Publication: 2021-07-20 07:20:08 UTC

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Mon, 19 Jul 2021

New package tsentiment with initial version 0.1.1
Package: tsentiment
Title: Fetching Tweet Data for Sentiment Analysis
Version: 0.1.1
Author: Hakki Sabah <hakkisabah@hotmail.com>
Maintainer: Hakki Sabah <hakkisabah@hotmail.com>
Description: First of all need Twitter Developer Account, package has exporting image for result after using.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/hakkisabah/tsentiment, https://www.tsentiment.com
BugReports: https://github.com/hakkisabah/tsentiment/issues
Depends: R (>= 4.0)
Imports: reshape2,haven,readr,grid,SnowballC,wordcloud,wordcloud2,RColorBrewer,ggplot2,tm,httr,jsonlite,syuzhet,tidyverse,tidytext,magrittr,dplyr,tibble,grDevices
NeedsCompilation: no
Packaged: 2021-07-18 07:44:01 UTC; hakki
Repository: CRAN
Date/Publication: 2021-07-19 08:40:02 UTC

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New package tidylda with initial version 0.0.1
Package: tidylda
Title: Latent Dirichlet Allocation Using 'tidyverse' Conventions
Version: 0.0.1
Authors@R: c( person(given = "Tommy", family = "Jones", role = c("aut", "cre"), email = "jones.thos.w@gmail.com", comment = c(ORCID = "0000-0001-6457-2452") ), person("Brendan", "Knapp", email = "brendan.g.knapp@gmail.com", role = "ctb", comment = c(ORCID = "0000-0003-3284-4972") ), person(given = "Barum", family = "Park", role = c("ctb"), email = "baruuum@gmail.com" ) )
Description: Implements an algorithm for Latent Dirichlet Allocation (LDA), Blei et at. (2003) <https://www.jmlr.org/papers/volume3/blei03a/blei03a.pdf>, using style conventions from the 'tidyverse', Wickham et al. (2019)<doi:10.21105/joss.01686>, and 'tidymodels', Kuhn et al.<https://tidymodels.github.io/model-implementation-principles/>. Fitting is done via collapsed Gibbs sampling. Also implements several novel features for LDA such as guided models and transfer learning based on ongoing and, as yet, unpublished research.
License: MIT + file LICENSE
URL: https://github.com/TommyJones/tidylda/
BugReports: https://github.com/TommyJones/tidylda/issues
Depends:
Imports: dplyr, generics, gtools, Matrix, methods, mvrsquared (>= 0.1.0), Rcpp (>= 1.0.2), rlang, stats, stringr, textmineR, tibble, tidyr, tidytext
Suggests: knitr, parallel, quanteda, testthat, tm, spelling
LinkingTo: Rcpp, RcppArmadillo, RcppProgress, RcppThread
Encoding: UTF-8
Language: en-US
SystemRequirements: C++11
NeedsCompilation: yes
Packaged: 2021-07-17 14:02:06 UTC; tommy
Author: Tommy Jones [aut, cre] (<https://orcid.org/0000-0001-6457-2452>), Brendan Knapp [ctb] (<https://orcid.org/0000-0003-3284-4972>), Barum Park [ctb]
Maintainer: Tommy Jones <jones.thos.w@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-19 08:30:02 UTC

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New package SMME with initial version 1.0
Package: SMME
Title: Soft Maximin Estimation for Large Scale Heterogeneus Data
Version: 1.0
Date: 2021-07-17
Author: Adam Lund
Maintainer: Adam Lund <adam.lund@math.ku.dk>
Description: Efficient procedure for solving the soft maximin problem for large scale heterogeneous data, see Lund, Mogensen and Hansen (2021) <arXiv:1805.02407>. Currently Lasso and SCAD penalized estimation is implemented. Note this package subsumes and replaces the SMMA package.
License: GPL (>= 2)
Imports: Rcpp (>= 0.12.12)
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2021-07-17 09:37:33 UTC; adam
Repository: CRAN
Date/Publication: 2021-07-19 08:20:02 UTC

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New package Rdiagnosislist with initial version 0.2
Package: Rdiagnosislist
Title: Manipulate SNOMED CT Diagnosis Lists
Version: 0.2
Authors@R: person(given = "Anoop", family = "Shah", role = c("aut", "cre"), email = "anoop@doctors.org.uk", comment = structure("0000-0002-8907-5724", .Names = "ORCID"))
Description: Functions and methods for manipulating SNOMED CT concepts. The package contains functions for loading the SNOMED CT release into a convenient R environment, selecting SNOMED CT concepts using regular expressions, and navigating the SNOMED CT ontology. It provides the 'SNOMEDconcept' S3 class for a vector of SNOMED CT concepts (stored as 64-bit integers) and the 'SNOMEDcodelist' S3 class for a table of concepts IDs with descriptions. For more information about SNOMED CT visit <https://www.snomed.org/>.
License: GPL-3
Imports: data.table, bit64, methods
Suggests: knitr, rmarkdown, testthat
Encoding: UTF-8
LazyData: true
Author: Anoop Shah [aut, cre] (<https://orcid.org/0000-0002-8907-5724>)
Maintainer: Anoop Shah <anoop@doctors.org.uk>
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-12 13:02:33 UTC; anoop
Repository: CRAN
Date/Publication: 2021-07-19 08:40:10 UTC

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New package cns with initial version 0.1.0
Package: cns
Title: Color Naming System
Version: 0.1.0
Author: Neal Fultz <nfultz@gmail.com>
Maintainer: Neal Fultz <nfultz@gmail.com>
Description: The Color Naming System was an early grammar of color that is more user friendly than `RGB`, by Berk, Brownstone and Kaufman (1982) <doi:10.1109/MCG.1982.1674223>.
Encoding: UTF-8
License: GPL (>= 3)
NeedsCompilation: no
Packaged: 2021-07-16 19:30:51 UTC; nfultz
Repository: CRAN
Date/Publication: 2021-07-19 08:10:02 UTC

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New package tpn with initial version 1.0
Package: tpn
Title: Truncated Positive Normal Model and Extensions
Version: 1.0
Date: 2021-07-14
Authors@R: c(person("Diego", "Gallardo", role = c("aut","cre"), email = "diego.gallardo@uda.cl"), person("Hector J.", "Gomez", role = c("aut"), email = "hgomez@uct.cl"))
Author: Diego Gallardo [aut, cre], Hector J. Gomez [aut]
Maintainer: Diego Gallardo <diego.gallardo@uda.cl>
Description: Provide data generation and estimation tools for the truncated positive normal model discussed in Gomez, Olmos, Varela and Bolfarine (2018) <doi:10.1007/s11766-018-3354-x> and the slash truncated positive normal distribution.
Depends: R (>= 4.0.0)
Imports: pracma
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2021-07-16 13:45:46 UTC; Usuario
Repository: CRAN
Date/Publication: 2021-07-19 08:00:02 UTC

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New package RawHummus with initial version 0.1.0
Package: RawHummus
Title: Raw Data Quality Control Tool for LC-MS System
Version: 0.1.0
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Description: Assess LC–MS system performance by visualizing instrument log files and monitoring raw quality control samples within a project.
Depends: R (>= 3.5.0)
Imports: shiny, shinydashboard, shinydashboardPlus, shinyFiles, shinyMatrix, shinyvalidate, shinycustomloader, RaMS, purrr, dplyr, plotly, RColorBrewer, rmarkdown, DT
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-16 12:39:19 UTC; dong
Repository: CRAN
Date/Publication: 2021-07-19 07:50:06 UTC

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New package messydates with initial version 0.1.1
Package: messydates
Title: A Flexible Class for Messy Dates
Description: Contains a set of tools for constructing and coercing into and from the messydt class. This date class implements ISO 8601-2:2019(E) and allows regular dates to be annotated to express unspecified date components, approximate or uncertain date components, date ranges, and sets of dates. This is useful for describing and analysing temporal information, whether historical or recent, where date precision may vary.
Version: 0.1.1
Authors@R: c(person(given = "James", family = "Hollway", role = c("cre", "aut", "ctb"), email = "james.hollway@graduateinstitute.ch", comment = c("IHEID", ORCID = "0000-0002-8361-9647")), person(given = "Henrique", family = "Sposito", role = "ctb", comment = c("IHEID", ORCID = "0000-0003-3420-6085")))
License: MIT + file LICENSE
Encoding: UTF-8
Imports: covr, stringr, purrr, lubridate, tibble, dplyr
Suggests: testthat (>= 3.0.0)
NeedsCompilation: no
Packaged: 2021-07-16 08:47:38 UTC; hollway
Author: James Hollway [cre, aut, ctb] (IHEID, <https://orcid.org/0000-0002-8361-9647>), Henrique Sposito [ctb] (IHEID, <https://orcid.org/0000-0003-3420-6085>)
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Repository: CRAN
Date/Publication: 2021-07-19 07:50:02 UTC

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New package kinematics with initial version 1.0.0
Package: kinematics
Title: Studying Sampled Trajectories
Version: 1.0.0
Author: Pablo Rodriguez-Sanchez (https://pabrod.github.io) and Sanne J. P. van den Berg (https://www.wur.nl/en/Persons/Sanne-dr.-SJP-Sanne-van-den-Berg.htm)
Maintainer: Pablo Rodriguez-Sanchez <pablo.rodriguez.sanchez@gmail.com>
Description: Allows analyzing time series representing two-dimensional movements. It accepts a data frame with a time (t), horizontal (x) and vertical (y) coordinate as columns, and returns several dynamical properties such as speed, acceleration or curvature.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
Suggests: testthat, knitr, utils, markdown, rmarkdown, ggplot2
Imports: numDeriv, stats
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2021-07-15 21:09:01 UTC; pablo
Repository: CRAN
Date/Publication: 2021-07-19 07:30:02 UTC

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New package fedstatAPIr with initial version 0.1
Package: fedstatAPIr
Title: Unofficial API for Fedstat (EMISS) for Automatic and Efficient Data Queries
Version: 0.1
Authors@R: person(given = "Denis", family = "Krylov", role =c("aut", "cre"), email = "deniskrylovvit@gmail.com")
Description: An API for automatic data queries to the fedstat <https://www.fedstat.ru>, using a small set of functions with a common interface.
License: MIT + file LICENSE
URL: https://github.com/DenchPokepon/fedstatAPIr
BugReports: https://github.com/DenchPokepon/fedstatAPIr/issues
Encoding: UTF-8
Imports: httr, rvest, jsonlite, stringr, dplyr, xml2, readsdmx, rsdmx, magrittr, utils, rlang, methods
NeedsCompilation: no
Packaged: 2021-07-15 13:40:47 UTC; denis
Author: Denis Krylov [aut, cre]
Maintainer: Denis Krylov <deniskrylovvit@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-19 07:30:06 UTC

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Sat, 17 Jul 2021

New package RstoxData with initial version 1.2.1
Package: RstoxData
Version: 1.2.1
Date: 2021-07-13
Title: Tools to Read and Manipulate Fisheries Data
Authors@R: c( person(given = "Ibrahim", family = "Umar", role = c("cre", "aut"), email = "ibrahim.umar@hi.no"), person(given = "Sindre", family = "Vatnehol", role = "aut"), person(given = "Arne Johannes", family = "Holmin", role = "aut"), person(given = "Edvin", family = "Fuglebakk", role = "aut"), person(given = "Espen", family = "Johnsen", role = "aut"), person(given = "Norwegian Institute of Marine Research", role = c("cph", "fnd")))
Depends: R (>= 3.6)
Description: Set of tools to read and manipulate various data formats for fisheries. Mainly catered towards scientific trawl survey sampling ('biotic') data, acoustic trawl data, and commercial fishing catch ('landings') data. Among the supported data formats are the data products from the Norwegian Institute Marine Research ('IMR') and the International Council for the Exploration of the Sea (ICES).
URL: https://github.com/StoXProject/RstoxData
BugReports: https://github.com/StoXProject/RstoxData/issues
License: LGPL-3
LazyData: true
Encoding: UTF-8
Imports: Rcpp (>= 1.0.0), data.table (>= 1.12.6), xml2 (>= 1.2.2), xslt (>= 1.4), units (>= 0.7), stringi (>= 1.4.3)
Suggests: testthat
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2021-07-13 20:00:09 UTC; baim
Author: Ibrahim Umar [cre, aut], Sindre Vatnehol [aut], Arne Johannes Holmin [aut], Edvin Fuglebakk [aut], Espen Johnsen [aut], Norwegian Institute of Marine Research [cph, fnd]
Maintainer: Ibrahim Umar <ibrahim.umar@hi.no>
Repository: CRAN
Date/Publication: 2021-07-17 10:10:05 UTC

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New package BGVAR with initial version 2.2.3
Package: BGVAR
Title: Bayesian Global Vector Autoregressions
Version: 2.2.3
Author: Maximilian Boeck [aut, cre] (<https://orcid.org/0000-0001-6024-8305>), Martin Feldkircher [aut] (<https://orcid.org/0000-0002-5511-9215>), Florian Huber [aut] (<https://orcid.org/0000-0002-2896-7921>), Darjus Hosszejni [ctb] (<https://orcid.org/0000-0002-3803-691X>)
Authors@R: c(person("Maximilian","Boeck",role=c("aut","cre"),email="maximilian.boeck@wu.ac.at", comment = c(ORCID = "0000-0001-6024-8305")), person("Martin","Feldkircher", role="aut", comment = c(ORCID = "0000-0002-5511-9215")), person("Florian","Huber", role="aut", comment = c(ORCID = "0000-0002-2896-7921")), person("Darjus","Hosszejni", role="ctb", comment = c(ORCID = "0000-0002-3803-691X")))
Maintainer: Maximilian Boeck <maximilian.boeck@wu.ac.at>
Description: Estimation of Bayesian Global Vector Autoregressions (BGVAR) with different prior setups and the possibility to introduce stochastic volatility. Built-in priors include the Minnesota, the stochastic search variable selection and Normal-Gamma (NG) prior. For a reference see also Crespo Cuaresma, J., Feldkircher, M. and F. Huber (2016) "Forecasting with Global Vector Autoregressive Models: a Bayesian Approach", Journal of Applied Econometrics, Vol. 31(7), pp. 1371-1391 <doi:10.1002/jae.2504>. Post-processing functions allow for doing predictions, structurally identify the model with short-run or sign-restrictions and compute impulse response functions, historical decompositions and forecast error variance decompositions. Plotting functions are also available.
Encoding: UTF-8
License: GPL-3
Language: en-US
Depends: R (>= 3.5.0)
SystemRequirements: C++11, GNU make
Imports: abind, bayesm, coda, GIGrvg, graphics, knitr, MASS, Matrix, methods, parallel, Rcpp (>= 1.0.3), RcppParallel, stats, stochvol (>= 3.0.3), utils, xts, zoo
Suggests: rmarkdown, testthat (>= 2.1.0)
LazyData: true
LinkingTo: Rcpp, RcppArmadillo, RcppProgress, RcppParallel, stochvol, GIGrvg
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-07-14 14:13:09 UTC; mboeck
Repository: CRAN
Date/Publication: 2021-07-17 10:10:09 UTC

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New package nhdR with initial version 0.5.6
Package: nhdR
Title: Tools for Working with the National Hydrography Dataset
Version: 0.5.6
Authors@R: person("Jemma", "Stachelek", email = "stachel2@msu.edu", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-5924-2464"))
Description: Tools for working with the National Hydrography Dataset, with functions for querying, downloading, and networking both the NHD <https://www.usgs.gov/core-science-systems/ngp/national-hydrography> and NHDPlus <https://www.epa.gov/waterdata/nhdplus-national-hydrography-dataset-plus> datasets.
URL: https://github.com/jsta/nhdR
BugReports: https://github.com/jsta/nhdR/issues
Depends: R (>= 3.5.0), maps
License: GPL
Imports: rappdirs, rgdal, sf, httr, rvest, xml2, foreign, ggplot2, rlang, dplyr, curl, units, stringr, memoise, purrr
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, wikilake, sp, rgeos, testthat (>= 2.1.0), covr, crul, lwgeom, s2
VignetteBuilder: knitr
SystemRequirements: 7-zip command line tool (7z)
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-13 15:38:40 UTC; jemma
Author: Jemma Stachelek [aut, cre] (<https://orcid.org/0000-0002-5924-2464>)
Maintainer: Jemma Stachelek <stachel2@msu.edu>
Repository: CRAN
Date/Publication: 2021-07-17 10:00:02 UTC

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New package CKMRpop with initial version 0.1.3
Package: CKMRpop
Title: Forward-in-Time Simulation and Tallying of Pairwise Relationships
Version: 0.1.3
Authors@R: c( person(given = c("Eric", "C."), "Anderson", , "eric.anderson@noaa.gov", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-1326-0840") ) )
Description: Provides an R wrapper around the program 'spip' (<https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1471-8286.2005.00884.x>), a C program for the simulation of pedigrees within age-structured populations with user-specified life histories. Also includes a variety of functions to parse 'spip' output to compile information about related pairs amongst simulated, sampled individuals, to assess the feasibility and potential accuracy of close-kin mark-recapture (CKMR). Full documentation and vignettes are mirrored at <https://eriqande.github.io/CKMRpop/index.html> and can be read online there.
License: CC0
Encoding: UTF-8
LazyData: true
LinkingTo: Rcpp
Depends: R (>= 3.5.0)
Imports: dplyr, ggforce, ggplot2, ggraph, igraph, magrittr, purrr, Rcpp (>= 1.0.4), readr, stats, stringr, tibble, tidygraph, tidyr, vroom
Suggests: knitr, rmarkdown, tidyverse
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-07-13 19:13:18 UTC; eriq
Author: Eric C. Anderson [aut, cre] (<https://orcid.org/0000-0003-1326-0840>)
Maintainer: Eric C. Anderson <eric.anderson@noaa.gov>
Repository: CRAN
Date/Publication: 2021-07-17 10:00:06 UTC

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New package spectre with initial version 1.0.2
Package: spectre
Title: Predict Regional Community Composition
Version: 1.0.2
Authors@R: c(person("Craig", "Simpkins", email = "simpkinscraig063@gmail.com", role = c("aut", "cre")), person("Sebastian", "Hanss", role = c("aut")), person("Maximilian", "Hesselbarth", role = c("aut")), person("Matthias", "Spangenberg", role = c("aut")), person("Jan", "Salecker", role = c("aut")))
Maintainer: Craig Simpkins <simpkinscraig063@gmail.com>
Description: Predict regional community composition at a fine spatial resolution using only sparse biological and environmental data. The package is based on the DynamicFOAM algorithm described in Mokany et al. (2011) <doi:10.1111/j.1461-0248.2011.01675.x>.
License: GPL-3
Depends: R (>= 3.5)
Imports: ggplot2, Rcpp (>= 1.0.1)
Suggests: dplyr, testthat (>= 3.0.2), knitr, rmarkdown, covr, RcppProgress
LinkingTo: Rcpp, RcppProgress, testthat
ByteCompile: true
Encoding: UTF-8
LazyData: true
SystemRequirements: C++11
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-07-16 00:37:13 UTC; simpk
Author: Craig Simpkins [aut, cre], Sebastian Hanss [aut], Maximilian Hesselbarth [aut], Matthias Spangenberg [aut], Jan Salecker [aut]
Repository: CRAN
Date/Publication: 2021-07-17 06:30:02 UTC

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Fri, 16 Jul 2021

New package MNARclust with initial version 1.0.0
Package: MNARclust
Title: Clustering Data with Non-Ignorable Missingness using Semi-Parametric Mixture Models
Version: 1.0.0
Description: Clustering of data under a non-ignorable missingness mechanism. Clustering is achieved by a semi-parametric mixture model and missingness is managed by using the pattern-mixture approach. More details of the approach are available in Du Roy de Chaumaray et al. (2020) <arXiv:2009.07662>.
Authors@R: c(person(given="Marie", family="Du Roy de Chaumaray", role = "aut"), person(given="Matthieu", family="Marbac", role = c("aut", "cre", "cph"), email = "matthieu.marbac-lourdelle@ensai.fr"))
Maintainer: Matthieu Marbac <matthieu.marbac-lourdelle@ensai.fr>
License: GPL (>= 2)
Imports: Rcpp, parallel, sn, rmutil
LinkingTo: Rcpp, RcppArmadillo
ByteCompile: true
URL: https://arxiv.org/abs/2009.07662
Author: Marie Du Roy de Chaumaray [aut], Matthieu Marbac [aut, cre, cph]
Collate: algoCat.R algoCont.R algoMixed.R MNARclust.R RcppExports.R sampler.R tools.R
LazyData: true
LazyLoad: yes
Encoding: UTF-8
Depends: R (>= 3.5)
NeedsCompilation: yes
Packaged: 2021-07-15 19:04:30 UTC; matt
Repository: CRAN
Date/Publication: 2021-07-16 09:20:30 UTC

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New package EESPCA with initial version 0.3.0
Package: EESPCA
Title: Eigenvectors from Eigenvalues Sparse Principal Component Analysis (EESPCA)
Version: 0.3.0
Author: H. Robert Frost
Maintainer: H. Robert Frost <rob.frost@dartmouth.edu>
Description: Contains logic for computing sparse principal components via the EESPCA method, which is based on an approximation of the eigenvector/eigenvalue identity. Includes logic to support execution of the TPower and rifle sparse PCA methods, as well as logic to estimate the sparsity parameters used by EESPCA, TPower and rifle via cross-validation to minimize the out-of-sample reconstruction error. H. Robert Frost (2021) <arXiv:2006.01924>.
Depends: R (>= 3.6.0), rifle (>= 1.0.0), MASS, PMA
License: GPL (>= 2)
Copyright: Dartmouth College
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-15 17:20:42 UTC; robfrost
Repository: CRAN
Date/Publication: 2021-07-16 09:20:32 UTC

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New package tsentiment with initial version 0.1.0
Package: tsentiment
Title: Fetching Tweet Data for Sentiment Analysis
Version: 0.1.0
Authors@R: c(person("Hakki","Sabah",email = "hakkisabah@hotmail.com",role = c("aut", "cre")))
Description: First of all need Twitter Developer Account, package has exporting image for result after using.
License: MIT + file LICENSE
Encoding: UTF-8
URL: https://github.com/hakkisabah/tsentiment
BugReports: https://github.com/hakkisabah/tsentiment/issues
Depends: R (>= 4.0)
Imports: reshape2,haven,readr,grid,SnowballC,wordcloud,wordcloud2,webshot,RColorBrewer,ggplot2,tm,httr,jsonlite,syuzhet,tidyverse,tidytext,magrittr,dplyr,tibble,grDevices
NeedsCompilation: no
Packaged: 2021-07-15 13:04:47 UTC; hakki
Author: Hakki Sabah [aut, cre]
Maintainer: Hakki Sabah <hakkisabah@hotmail.com>
Repository: CRAN
Date/Publication: 2021-07-16 08:10:02 UTC

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New package SC.MEB with initial version 1.0
Package: SC.MEB
Title: Spatial Clustering with Hidden Markov Random Field using Empirical Bayes
Version: 1.0
Date: 2021-07-11
Authors@R: c( person("Yi", "Yang", email = "yygaosansiban@sina.com", role = c("aut", "cre")), person("Xingjie", "Shi", role = "aut"), person("Jin", "Liu", role = "aut"))
Description: Spatial clustering with hidden markov random field fitted via EM algorithm, details of which can be found in Yi Yang (2021) <doi:10.1101/2021.06.05.447181>. It is not only computationally efficient and scalable to the sample size increment, but also is capable of choosing the smoothness parameter and the number of clusters as well.
License: GPL-3
Depends: mclust, R (>= 2.10)
Imports: Rcpp (>= 1.0.6), SingleCellExperiment, purrr, Matrix,mvtnorm,GiRaF
LinkingTo: Rcpp, RcppArmadillo
VignetteBuilder: knitr
Suggests: knitr, rmarkdown
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-15 14:55:09 UTC; yygao
Author: Yi Yang [aut, cre], Xingjie Shi [aut], Jin Liu [aut]
Maintainer: Yi Yang <yygaosansiban@sina.com>
Repository: CRAN
Date/Publication: 2021-07-16 08:50:02 UTC

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New package ReplicationSuccess with initial version 1.0.0
Package: ReplicationSuccess
Title: Design and Analysis of Replication Studies
Version: 1.0.0
Date: 2021-07-15
Authors@R: c(person(given = "Leonhard", family = "Held", role = c("aut"), email = "leonhard.held@uzh.ch", comment = c(ORCID = "0000-0002-8686-5325")), person(given = "Samuel", family = "Pawel", email = "samuel.pawel@uzh.ch", role = c("aut"), comment = c(ORCID = "0000-0003-2779-320X")), person(given = "Charlotte", family = "Micheloud", email = "charlotte.micheloud@uzh.ch", role = c("aut"), comment = c(ORCID = "0000-0002-4995-4505")), person(given = "Florian", family = "Gerber", email = "florian.gerber@uzh.ch", role = c("cre"), comment = c(ORCID = "0000-0001-8545-5263")))
Description: Provides utilities for the design and analysis of replication studies. Features both traditional methods based on statistical significance and more recent methods such as the sceptical p-value; Held L. (2020) <doi:10.1111/rssa.12493>. Also provides related methods including the harmonic mean chi-squared test; Held, L. (2020), <doi:10.1111/rssc.12410>, and intrinsic credibility; Held, L. (2019) <doi:10.1098/rsos.181534>. Contains datasets from four large-scale replication projects.
URL: https://florafauna.github.io/ReplicationSuccess/
BugReports: https://github.com/florafauna/ReplicationSuccess/issues/
Depends: R (>= 3.5)
VignetteBuilder: knitr
Imports: rootSolve
Suggests: knitr, roxygen2, testthat
License: GPL (>= 2)
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-15 12:47:06 UTC; fl
Author: Leonhard Held [aut] (<https://orcid.org/0000-0002-8686-5325>), Samuel Pawel [aut] (<https://orcid.org/0000-0003-2779-320X>), Charlotte Micheloud [aut] (<https://orcid.org/0000-0002-4995-4505>), Florian Gerber [cre] (<https://orcid.org/0000-0001-8545-5263>)
Maintainer: Florian Gerber <florian.gerber@uzh.ch>
Repository: CRAN
Date/Publication: 2021-07-16 08:10:04 UTC

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New package mark with initial version 0.1.4
Package: mark
Title: Miscellaneous, Analytic R Kernels
Version: 0.1.4
Date: 2021-07-13
Authors@R: person(given = "Jordan Mark", family = "Barbone", role = c("aut", "cph", "cre"), email = "jmbarbone@gmail.com", comment = c(orcid = "0000-0001-9788-3628"))
Maintainer: Jordan Mark Barbone <jmbarbone@gmail.com>
Description: Miscellaneous functions and wrappers for development in other packages created, maintained by Jordan Mark Barbone.
License: MIT + file LICENSE
URL: https://github.com/jmbarbone/mark
BugReports: https://github.com/jmbarbone/mark/issues
Encoding: UTF-8
Depends: R (>= 3.6)
Imports: magrittr (>= 2.0.1), methods (>= 3.6), stats (>= 3.6), tibble (>= 3.0.4), tools (>= 3.6), utils (>= 3.6)
Suggests: bench (>= 1.1.1), bib2df (>= 1.1.1), crayon (>= 1.3.4), desc (>= 1.3.0), dplyr (>= 1.0.6), graphics (>= 4.0.3), knitr (>= 1.30), rcmdcheck (>= 1.3.3), stringi (>= 1.5.3), spelling (>= 2.2), testthat (>= 3.0.0), withr (>= 2.3.0)
Config/testthat/parallel: true
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-13 17:15:00 UTC; jmbar
Author: Jordan Mark Barbone [aut, cph, cre] (0000-0001-9788-3628)
Repository: CRAN
Date/Publication: 2021-07-16 08:20:02 UTC

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New package CIMTx with initial version 0.3.0
Package: CIMTx
Title: Causal Inference for Multiple Treatments with a Binary Outcome
Version: 0.3.0
Authors@R: c( person("Liangyuan", "Hu", role = "aut", email = "Liangyuan.Hu@mountsinai.org"), person("Chenyang", "Gu", role = "aut", email = "chenyang_gu@alumni.brown.edu"), person("Michael", "Lopez", role = "aut", email = "Michael.Lopez@nfl.com"), person("Jiayi", "Ji", role = c("aut", "cre"), email = "Jiayi.Ji@mountsinai.org"))
Description: Different methods to conduct causal inference for multiple treatments with a binary outcome, including regression adjustment, vector matching, Bayesian additive regression trees, targeted maximum likelihood and inverse probability of treatment weighting using different generalized propensity score models such as multinomial logistic regression, generalized boosted models and super learner. For more details, see the paper by Liangyuan Hu (2020) <doi:10.1177/0962280220921909>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
Imports: nnet, BART, twang, arm, dplyr, Matching, magrittr, car, WeightIt, SuperLearner, tmle, tidyr, stats, class, gam, dbarts
NeedsCompilation: no
Packaged: 2021-07-15 23:33:06 UTC; jiayi
Author: Liangyuan Hu [aut], Chenyang Gu [aut], Michael Lopez [aut], Jiayi Ji [aut, cre]
Maintainer: Jiayi Ji <Jiayi.Ji@mountsinai.org>
Repository: CRAN
Date/Publication: 2021-07-16 08:20:11 UTC

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New package mlr3tuningspaces with initial version 0.0.1
Package: mlr3tuningspaces
Title: Search Spaces for Hyperparameter Tuning
Version: 0.0.1
Authors@R: c(person(given = "Marc", family = "Becker", role = c("cre", "aut"), email = "marcbecker@posteo.de", comment = c(ORCID = "0000-0002-8115-0400")), person(given = "Michel", family = "Lang", role = "ctb", email = "michellang@gmail.com", comment = c(ORCID = "0000-0001-9754-0393")))
Description: Collection of search spaces for hyperparameter tuning. Includes various search spaces that can be directly applied on an `mlr3` learner. Additionally, meta information about the search space can be queried.
License: LGPL-3
Depends: mlr3tuning (>= 0.8.0), R (>= 3.1.0)
Imports: checkmate (>= 2.0.0), data.table (>= 1.14.0), mlr3 (>= 0.11.0), mlr3misc (>= 0.9.1), paradox (>= 0.7.1), R6 (>= 2.5.0)
Suggests: e1071 (>= 1.7-6), glmnet (>= 4.1-2), kknn (>= 1.3.1), mlr3learners (>= 0.4.5), ranger (>= 0.12.1), rpart (>= 4.1-15), testthat (>= 3.0.0), xgboost (>= 1.4.1.1)
Encoding: UTF-8
Collate: 'mlr_tuning_spaces.R' 'TuningSpace.R' 'bibentries.R' 'sugar.R' 'tuning_spaces_default.R' 'tuning_spaces_rbv2.R' 'zzz.R'
NeedsCompilation: no
Packaged: 2021-07-15 11:15:30 UTC; marc
Author: Marc Becker [cre, aut] (<https://orcid.org/0000-0002-8115-0400>), Michel Lang [ctb] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Marc Becker <marcbecker@posteo.de>
Repository: CRAN
Date/Publication: 2021-07-16 08:00:02 UTC

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New package isatabr with initial version 1.0.0
Package: isatabr
Date: 2021-07-15
Title: Implementation for the ISA Abstract Model
Version: 1.0.0
Description: ISA is a metadata framework to manage an increasingly diverse set of life science, environmental and biomedical experiments. In isatabr methods for reading, modifying and writing of files in the ISA-Tab format are implemented. It also contains methods for processing assay data.
Authors@R: c( person("Bart-Jan", "van Rossum", role = c("aut", "cre"), email = "bart-jan.vanrossum@wur.nl", comment = c(ORCID = "0000-0002-8673-2514")), person("Maikel", "Verouden", role = c("aut"), email = "maikel.verouden@wur.nl", comment = c(ORCID = "0000-0002-4893-3323")))
Encoding: UTF-8
Depends: methods
Suggests: tinytest, affy, Biobase, xcms, knitr, rmarkdown
License: GPL-3
URL: https://github.com/Biometris/isatabr/
BugReports: https://github.com/Biometris/isatabr/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-15 08:32:33 UTC; rossu027
Author: Bart-Jan van Rossum [aut, cre] (<https://orcid.org/0000-0002-8673-2514>), Maikel Verouden [aut] (<https://orcid.org/0000-0002-4893-3323>)
Maintainer: Bart-Jan van Rossum <bart-jan.vanrossum@wur.nl>
Repository: CRAN
Date/Publication: 2021-07-16 08:00:05 UTC

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Thu, 15 Jul 2021

New package shinyToastify with initial version 1.0.0
Package: shinyToastify
Title: Pretty Notifications for 'Shiny'
Version: 1.0.0
Authors@R: c( person(given = "Stéphane", family = "Laurent", role = c("aut", "cre"), email = "laurent_step@outlook.fr"), person(given = "Fadi", family = "Khadra", role = "cph", comment = "'React-Toastify' library (https://fkhadra.github.io/react-toastify/introduction)"))
Description: This is a wrapper of the 'React' library 'React-Toastify'. It allows to show some notifications (toasts) in 'Shiny' applications. There are options for the style, the position, the transition effect, and more.
License: GPL-3
Encoding: UTF-8
URL: https://github.com/stla/shinyToastify
BugReports: https://github.com/stla/shinyToastify/issues
Imports: htmltools, reactR, shiny, utils
NeedsCompilation: no
Packaged: 2021-07-15 10:16:11 UTC; SDL96354
Author: Stéphane Laurent [aut, cre], Fadi Khadra [cph] ('React-Toastify' library (https://fkhadra.github.io/react-toastify/introduction))
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Repository: CRAN
Date/Publication: 2021-07-15 11:40:02 UTC

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New package recometrics with initial version 0.1.2
Package: recometrics
Title: Evaluation Metrics for Implicit-Feedback Recommender Systems
Version: 0.1.2
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
URL: https://github.com/david-cortes/recometrics
BugReports: https://github.com/david-cortes/recometrics
Description: Calculates evaluation metrics for implicit-feedback recommender systems that are based on low-rank matrix factorization models, given the fitted model matrices and data, thus allowing to compare models from a variety of libraries. Metrics include P@K (precision-at-k, for top-K recommendations), R@K (recall at k), AP@K (average precision at k), NDCG@K (normalized discounted cumulative gain at k), Hit@K (from which the 'Hit Rate' is calculated), RR@K (reciprocal rank at k, from which the 'MRR' or 'mean reciprocal rank' is calculated), ROC-AUC (area under the receiver-operating characteristic curve), and PR-AUC (area under the precision-recall curve). These are calculated on a per-user basis according to the ranking of items induced by the model, using efficient multi-threaded routines. Also provides functions for creating train-test splits for model fitting and evaluation.
LinkingTo: Rcpp, float
Imports: Rcpp (>= 1.0.1), Matrix (>= 1.3-4), MatrixExtra, float, RhpcBLASctl, methods
Suggests: recommenderlab (>= 0.2-7), cmfrec, data.table, knitr, rmarkdown, kableExtra, testthat
VignetteBuilder: knitr
License: BSD_2_clause + file LICENSE
StagedInstall: TRUE
Biarch: TRUE
NeedsCompilation: yes
Packaged: 2021-07-12 18:22:36 UTC; david
Repository: CRAN
Date/Publication: 2021-07-15 11:10:02 UTC

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New package miRetrieve with initial version 1.3.0
Package: miRetrieve
Title: miRNA Text Mining in Abstracts
Version: 1.3.0
Authors@R: c(person(given = "Julian", family = "Friedrich", role = c("aut", "cre"), email = "julian.friedrich@medma.uni-heidelberg.de"), person(given = "Hans-Peter", family = "Hammes", role = "aut"), person(given = "Guido", family = "Krenning", role = "aut"))
Author: Julian Friedrich [aut, cre], Hans-Peter Hammes [aut], Guido Krenning [aut]
Maintainer: Julian Friedrich <julian.friedrich@medma.uni-heidelberg.de>
Description: Providing tools for microRNA (miRNA) text mining. miRetrieve summarizes miRNA literature by extracting, counting, and analyzing miRNA names, thus aiming at gaining biological insights into a large amount of text within a short period of time. To do so, miRetrieve uses regular expressions to extract miRNAs and tokenization to identify meaningful miRNA associations. In addition, miRetrieve uses the latest miRTarBase version 8.0 (Hsi-Yuan Huang et al. (2020) "miRTarBase 2020: updates to the experimentally validated microRNA–target interaction database" <doi:10.1093/nar/gkz896>) to display field-specific miRNA-mRNA interactions. The most important functions are available as a Shiny web application under <https://miretrieve.shinyapps.io/miRetrieve/>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.1.0)
Imports: dplyr (>= 1.0.7), forcats (>= 0.5.1), ggplot2 (>= 3.3.5), magrittr (>= 2.0.1), openxlsx (>= 4.2.4), plotly (>= 4.9.4.1), purrr (>= 0.3.4), readr (>= 1.4.0), readxl (>= 1.3.1), rlang (>= 0.4.11), scales (>= 1.1.1), stringr (>= 1.4.0), tidyr (>= 1.1.3), tidytext (>= 0.3.1), topicmodels (>= 0.2.12), wordcloud (>= 2.6), xml2 (>= 1.3.2), zoo (>= 1.8-9)
Suggests: kableExtra, knitr, reshape2, rmarkdown, testthat
NeedsCompilation: no
Packaged: 2021-07-14 20:31:13 UTC; Julian
Repository: CRAN
Date/Publication: 2021-07-15 11:30:02 UTC

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New package ICDS with initial version 0.1.2
Package: ICDS
Title: Identification of Cancer Dysfunctional Subpathway with Omics Data
Version: 0.1.2
Authors@R: c( person("Junwei", "Han", email = "hanjunwei1981@163.com", role = "cre"), person("Baotong", "Zheng", email = "btzheng1116@163.com", role = "aut"), person("Siyao", "Liu", email = "liusiyao29@163.com", role = "ctb"))
Maintainer: Junwei Han <hanjunwei1981@163.com>
Description: Identify Cancer Dysfunctional Sub-pathway by integrating gene expression, DNA methylation and copy number variation, and pathway topological information. 1)We firstly calculate the gene risk scores by integrating three kinds of data: DNA methylation, copy number variation, and gene expression. 2)Secondly, we perform a greedy search algorithm to identify the key dysfunctional sub-pathways within the pathways for which the discriminative scores were locally maximal. 3)Finally, the permutation test was used to calculate statistical significance level for these key dysfunctional sub-pathways.
Depends: R (>= 2.10)
biocViews:
Imports: igraph, graphite, metap, methods, org.Hs.eg.db
Suggests: knitr, rmarkdown, prettydoc
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-15 02:48:16 UTC; mac
Author: Junwei Han [cre], Baotong Zheng [aut], Siyao Liu [ctb]
Repository: CRAN
Date/Publication: 2021-07-15 11:30:10 UTC

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New package hydroEvents with initial version 0.10
Package: hydroEvents
Title: Extract Event Statistics in Hydrologic Time Series
Version: 0.10
Author: Conrad Wasko [aut, cre], Danlu Guo [aut]
Maintainer: Conrad Wasko <conrad.wasko@gmail.com>
Description: Events from individual hydrologic time series are extracted, and events from multiple time series can be matched to each other. The key references for approach are: Tang & Carey (2017) <doi:10.1002/hyp.11185>, Kaur et al. (2017) <doi:10.1080/24705357.2016.1276418> and Ladson et al. (2013) <https://www.tandfonline.com/doi/abs/10.7158/13241583.2013.11465417>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2021-07-15 03:41:10 UTC; danlug
Repository: CRAN
Date/Publication: 2021-07-15 11:30:08 UTC

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New package isoWater with initial version 1.0.0
Package: isoWater
Title: Discovery, Retrieval, and Analysis of Water Isotope Data
Version: 1.0.0
Authors@R: person("Gabe", "Bowen", email = "gabe.bowen@utah.edu", role = c("aut", "cre"))
Maintainer: Gabe Bowen <gabe.bowen@utah.edu>
Description: The wiDB...() functions provide an interface to the public API of the wiDB <https://github.com/SPATIAL-Lab/isoWater/blob/master/Protocol.md>: build, check and submit queries, and receive and unpack responses. Data analysis functions support Bayesian inference of the source and source isotope composition of water samples that may have experienced evaporation. Algorithms adapted from Bowen et al. (2018, <doi:10.1007/s00442-018-4192-5>).
Imports: R2jags, abind, R2WinBUGS, doParallel, foreach, httr, jsonlite
Depends: R (>= 3.5)
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), covr
VignetteBuilder: knitr
License: GPL-3
Language: en-US
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-14 14:34:53 UTC; u0133977
Author: Gabe Bowen [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-15 08:20:02 UTC

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New package discord with initial version 1.1.0
Package: discord
Title: Functions for Discordant Kinship Modeling
Version: 1.1.0
Date: 2021-07-14
Authors@R: c(person("S. Mason", "Garrison", email = "garrissm@wfu.edu", role = c("aut", "cre", "cph")), person("Jonathan", "Trattner", email = "jdt@jdtrat.com", role = "aut"), person("Cermet", "Ream", role = c("ctb")))
Description: Functions for discordant kinship modeling (and other sibling-based quasi-experimental designs). Currently, the package contains data restructuring functions and functions for generating biometrically informed data for kin pairs.
URL: https://github.com/R-Computing-Lab/discord
License: GPL-3
LazyData: TRUE
Encoding: UTF-8
Depends: R (>= 2.10)
Imports: stats
Suggests: testthat
NeedsCompilation: no
Packaged: 2021-07-14 16:34:35 UTC; jt
Author: S. Mason Garrison [aut, cre, cph], Jonathan Trattner [aut], Cermet Ream [ctb]
Maintainer: S. Mason Garrison <garrissm@wfu.edu>
Repository: CRAN
Date/Publication: 2021-07-15 08:50:02 UTC

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New package shinyChakraUI with initial version 1.0.0
Package: shinyChakraUI
Title: A Wrapper of the 'React' Library 'Chakra UI' for 'Shiny'
Version: 1.0.0
Authors@R: c( person(given = "Stéphane", family = "Laurent", role = c("aut", "cre"), email = "laurent_step@outlook.fr"), person(given = "Segun", family = "Adebayo", role = "cph", comment = "'Chakra UI' library (https://chakra-ui.com/)"), person(given = "David", family = "Kaye", role = "ctb", comment = "'json-normalize.js'"), person(given = "RubyLouvre", role = "cph", comment = "'jsx-parser' library"))
Description: Makes the 'React' library 'Chakra UI' usable in 'Shiny' apps. 'Chakra UI' components include alert dialogs, drawers (sliding panels), menus, modals, popovers, sliders, and more.
License: GPL (>= 3)
Encoding: UTF-8
URL: https://github.com/stla/shinyChakraUI
BugReports: https://github.com/stla/shinyChakraUI/issues
Imports: htmltools, reactR, shiny, jsonlite, rlang, stringr, grDevices, utils, formatR
Suggests: testthat (>= 3.0.0), V8
NeedsCompilation: no
Packaged: 2021-07-14 13:50:42 UTC; SDL96354
Author: Stéphane Laurent [aut, cre], Segun Adebayo [cph] ('Chakra UI' library (https://chakra-ui.com/)), David Kaye [ctb] ('json-normalize.js'), RubyLouvre [cph] ('jsx-parser' library)
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>
Repository: CRAN
Date/Publication: 2021-07-15 07:50:03 UTC

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New package Rsgf with initial version 1.0.0
Package: Rsgf
Title: SGF (Smart Game File) File Format Import
Version: 1.0.0
Date: 2021-07-13
Author: Brad Cable
Maintainer: Brad Cable <brad@bcable.net>
Description: Import SGF (Smart Game File) into R.
Imports: ggplot2, methods, png, stringi, stringr, utils
License: MIT + file LICENSE
NeedsCompilation: no
Packaged: 2021-07-14 05:37:17 UTC; lister
Repository: CRAN
Date/Publication: 2021-07-15 07:20:02 UTC

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New package pathwayTMB with initial version 0.1.0
Package: pathwayTMB
Title: Pathway Based Tumor Mutational Burden
Version: 0.1.0
Maintainer: Junwei Han <hanjunwei1981@163.com>
Authors@R: c(person(given = "Junwei", family = "Han", email = "hanjunwei1981@163.com", role = c("aut", "cre", "cph")), person(given = "Xiangmei", family = "Li", role = "aut"))
Description: A systematic bioinformatics tool to develop a new pathway-based gene panel for tumor mutational burden (TMB) assessment (pathway-based tumor mutational burden, PTMB), using somatic mutations files in an efficient manner from either The Cancer Genome Atlas sources or any in-house studies as long as the data is in mutation annotation file (MAF) format. Besides, we develop a multiple machine learning method using the sample's PTMB profiles to identify cancer-specific dysfunction pathways, which can be a biomarker of prognostic and predictive for cancer immunotherapy.
License: GPL (>= 2)
Depends: R (>= 4.1.0)
Encoding: UTF-8
LazyData: true
biocViews:
Imports: maftools, clusterProfiler, BiocGenerics, GenomicFeatures, purrr, utils, glmnet, randomForest, stats, survival, survminer, caret, data.table, RColorBrewer, grDevices, pROC, graphics
VignetteBuilder: knitr,rmarkdown,qpdf
Suggests: stringi, knitr, rmarkdown, testthat, BiocManager, xfun, e1071, qpdf, tinytex, spelling
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-14 12:12:36 UTC; DELL
Author: Junwei Han [aut, cre, cph], Xiangmei Li [aut]
Repository: CRAN
Date/Publication: 2021-07-15 07:50:07 UTC

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New package parqr with initial version 0.1.0
Package: parqr
Title: Read in Multi-Part Parquet Files
Version: 0.1.0
Authors@R: person("John", "Waller", email = "jhnwllr@gmail.com", role = c("aut", "cre"))
Description: Reads in multi-part parquet files. Will read in parquet files that have not been previously coalesced into one file. Convenient for reading in moderately sized, but split files.
URL: https://github.com/jhnwllr/parqr
License: CC0
BugReports: https://github.com/jhnwllr/parqr/issues
Encoding: UTF-8
Language: en-US
Imports: purrr, arrow, magrittr
Suggests: testthat (>= 3.0.0), knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-14 12:31:05 UTC; ftw712
Author: John Waller [aut, cre]
Maintainer: John Waller <jhnwllr@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-15 07:50:09 UTC

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New package DCLEAR with initial version 1.0.0
Package: DCLEAR
Version: 1.0.0
Date: 2021-07-13
Title: Distance Based Cell Lineage Reconstruction
Authors@R: c(person("Il-Youp", "Kwak", role = c("aut", "cre"), email = "ikwak2@cau.ac.kr"), person("Wuming", "Gong", role = "aut", email = "gongx030@umn.edu"))
Author: Il-Youp Kwak [aut, cre], Wuming Gong [aut]
Maintainer: Il-Youp Kwak <ikwak2@cau.ac.kr>
License: GPL-3
VignetteBuilder: knitr
LinkingTo: Rcpp, RcppArmadillo
Depends: R (>= 3.6.0)
biocViews:
Encoding: UTF-8
Imports: BiocParallel, dplyr, Matrix, matrixStats, ape, phangorn, Rcpp, igraph, methods, purrr, stringr, tidyr, tidyverse, rBayesianOptimization, rlang
Suggests: knitr, rmarkdown, markdown
Description: R codes for distance based cell lineage reconstruction. Our methods won both sub-challenges 2 and 3 of the Allen Institute Cell Lineage Reconstruction DREAM Challenge in 2020. The challenge paper is Wuming et al. (2021) <doi:10.1016/j.cels.2021.05.008>.
URL: https://github.com/ikwak2/DCLEAR
NeedsCompilation: yes
Packaged: 2021-07-14 08:13:17 UTC; ikwak10
Repository: CRAN
Date/Publication: 2021-07-15 07:30:02 UTC

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New package bootPLS with initial version 0.9.9
Package: bootPLS
Version: 0.9.9
Date: 2021-07-14
Depends: R (>= 3.5.0)
biocViews:
Imports: boot, doParallel, foreach, plsRglm, pls, spls, bipartite, mvtnorm
Enhances:
Suggests: knitr, markdown, plsdof, prettydoc, rmarkdown
Title: Bootstrap Hyperparameter Selection for PLS Models and Extensions
Authors@R: c( person(given = "Frederic", family= "Bertrand", role = c("cre", "aut"), email = "frederic.bertrand@utt.fr", comment = c(ORCID = "0000-0002-0837-8281")), person(given = "Jeremy", family= "Magnanensi", role = c("aut"), email = "jeremy.magnanensi@gmail.com"), person(given = "Myriam", family= "Maumy-Bertrand", role = c("aut"), email = "myriam.maumy-bertrand@math.unistra.fr", comment = c(ORCID = "0000-0002-4615-1512")))
Author: Frederic Bertrand [cre, aut] (<https://orcid.org/0000-0002-0837-8281>), Jeremy Magnanensi [aut], Myriam Maumy-Bertrand [aut] (<https://orcid.org/0000-0002-4615-1512>)
Maintainer: Frederic Bertrand <frederic.bertrand@utt.fr>
Description: Several implementations of non-parametric stable bootstrap-based techniques to determine the numbers of components for Partial Least Squares linear or generalized linear regression models as well as and sparse Partial Least Squares linear or generalized linear regression models. The package collects techniques that were published in a book chapter (Magnanensi et al. 2016, 'The Multiple Facets of Partial Least Squares and Related Methods', <doi:10.1007/978-3-319-40643-5_18>) and two articles (Magnanensi et al. 2017, 'Statistics and Computing', <doi:10.1007/s11222-016-9651-4>) and (Magnanensi et al. 2021, 'Frontiers in Applied Mathematics and Statistics', accepted.).
License: GPL-3
Encoding: UTF-8
Classification/MSC: 62N01, 62N02, 62N03, 62N99
LazyData: true
VignetteBuilder: knitr
URL: https://fbertran.github.io/bootPLS/, https://github.com/fbertran/bootPLS/
BugReports: https://github.com/fbertran/bootPLS/issues/
NeedsCompilation: no
Packaged: 2021-07-14 09:56:36 UTC; fbertran
Repository: CRAN
Date/Publication: 2021-07-15 07:50:12 UTC

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New package SEofM with initial version 0.1.0
Package: SEofM
Title: Standard Error of Measurement
Version: 0.1.0
Authors@R: c(person("Zhicheng Du", role = c("aut","cre","cph"), email = "dgdzc@hotmail.com"), person("Yuantao Hao", role = "aut") )
Description: To calculate the standard error of measurement (SEM) to assess the observer variability (inter- and intra-observer variation). The methods used in this package are referenced from Zoran B. Popović (2017) <doi:10.21037/cdt.2017.03.12>.
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-14 02:13:27 UTC; dgdzc
Author: Zhicheng Du [aut, cre, cph], Yuantao Hao [aut]
Maintainer: Zhicheng Du <dgdzc@hotmail.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-15 07:00:02 UTC

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Wed, 14 Jul 2021

New package covglasso with initial version 1.0.3
Package: covglasso
Version: 1.0.3
Date: 2021-07-14
Title: Sparse Covariance Matrix Estimation
Description: Direct sparse covariance matrix estimation via the covariance graphical lasso by Bien, Tibshirani (2011) <doi:10.1093/biomet/asr054> using the fast coordinate descent algorithm of Wang (2014) <doi:10.1007/s11222-013-9385-5>.
Authors@R: c(person("Michael", "Fop", role = c("aut", "cre"), email = "michael.fop@ucd.ie", comment = c(ORCID = "0000-0003-3936-2757")), person("Hao", "Wang", role = "ctb"))
Maintainer: Michael Fop <michael.fop@ucd.ie>
Depends: R (>= 3.4)
Imports: Rcpp (>= 1.0)
Suggests: MASS
LinkingTo: Rcpp, RcppArmadillo
License: GPL-3
Repository: CRAN
ByteCompile: true
NeedsCompilation: yes
Encoding: UTF-8
Packaged: 2021-07-14 13:51:28 UTC; michael
Author: Michael Fop [aut, cre] (<https://orcid.org/0000-0003-3936-2757>), Hao Wang [ctb]
Date/Publication: 2021-07-14 15:10:16 UTC

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New package rock with initial version 0.4.1
Package: rock
Title: Reproducible Open Coding Kit
Version: 0.4.1
Authors@R: c(person(given = "Gjalt-Jorn Ygram", family = "Peters", role = c("aut", "cre"), email = "gjalt-jorn@behaviorchange.eu", comment = c(ORCID = "0000-0002-0336-9589")), person(given = "Szilvia", family = "Zorgo", role = c("ctb"), comment = c(ORCID = "0000-0002-6916-2097")))
Maintainer: Gjalt-Jorn Ygram Peters <gjalt-jorn@behaviorchange.eu>
Description: The Reproducible Open Coding Kit ('ROCK', and this package, 'rock') was developed to facilitate reproducible and open coding, specifically geared towards qualitative research methods. Although it is a general-purpose toolkit, three specific applications have been implemented, specifically an interface to the 'rENA' package that implements Epistemic Network Analysis ('ENA'), means to process notes from Cognitive Interviews ('CIs'), and means to work with decentralized construct taxonomies ('DCTs').
BugReports: https://gitlab.com/r-packages/rock/-/issues
URL: https://r-packages.gitlab.io/rock
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.0.0)
Imports: data.tree (>= 0.7.8), dplyr (>= 0.7.8), DiagrammeR (>= 1.0.0), DiagrammeRsvg (>= 0.1), ggplot2 (>= 3.2.0), glue (>= 1.3.0), graphics (>= 3.0.0), htmltools (>= 0.5.0), markdown (>= 1.1), purrr (>= 0.2.5), stats (>= 3.0.0), utils (>= 3.5.0), yum (>= 0.0.1)
Suggests: covr, justifier (>= 0.2.0), knitr, rENA (>= 0.1.6), rmarkdown, rstudioapi, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-13 12:30:45 UTC; micro
Author: Gjalt-Jorn Ygram Peters [aut, cre] (<https://orcid.org/0000-0002-0336-9589>), Szilvia Zorgo [ctb] (<https://orcid.org/0000-0002-6916-2097>)
Repository: CRAN
Date/Publication: 2021-07-14 14:30:02 UTC

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New package moreparty with initial version 0.2.1
Package: moreparty
Title: A Toolbox for Conditional Inference Random Forests
Version: 0.2.1
Depends: R (>= 3.5.0), party
Imports: partykit, varImp, plyr, foreach, measures, methods, MASS, iml, pdp, vip, ggplot2, rlang
Suggests: doParallel, knitr, rmarkdown, rmdformats, GDAtools, RColorBrewer, caret, pROC, tidyverse, e1071
VignetteBuilder: knitr
Author: Nicolas Robette
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>
Description: Additions to 'party' package : tools for the interpretation of forests (surrogate trees, prototypes, etc.), feature selection (see Gregorutti et al (2017) <arXiv:1310.5726>, Hapfelmeier and Ulm (2013) <doi:10.1016/j.csda.2012.09.020>, Altmann et al (2010) <doi:10.1093/bioinformatics/btq134>) and parallelized versions of conditional forest and variable importance functions.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-14 12:45:13 UTC; nrobette
Repository: CRAN
Date/Publication: 2021-07-14 14:50:02 UTC

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New package tosr with initial version 0.1.0
Package: tosr
Title: Create the Tree of Science from WoS and Scopus
Version: 0.1.0
Authors@R: c(person(given = "Sebastian", family = "Robledo", role = c("aut", "cre"), email = "sebastian.robledogi@amigo.edu.co", comment = c(ORCID = "0000-0003-4357-4402")), person(given = "Martha", family = "Zuluaga", role = c("aut"), email = "martha.zuluaga@unad.edu.co", comment = c(ORCID = "0000-0003-1720-8476")), person(given = "Oscar", family = "Arbelaez Echeverry", role = c("aut"), email = "oscar@coreofscience.com", comment = c(ORCID = "0000-0002-3097-9438")), person(given = "Luis Alexander", family = "Valencia Hernandez", role = c("aut"), email = "lavalenciah@unal.edu.co"), person(given = "Centro de Bioinformática y Biología computacional de Colombia - BIOS", role = c("cph", "fnd")))
Description: The goal of 'tosr' is to create the Tree of Science from Web of Science (WoS) and Scopus data. It can read files from both sources at the same time. More information can be found in Valencia-Hernández (2020) <https://revistas.unal.edu.co/index.php/ingeinv/article/view/77718>.
License: MIT + file LICENSE
URL: https://github.com/coreofscience/tosr, https://coreofscience.github.io/tosr/
BugReports: https://github.com/coreofscience/tosr/issues
Encoding: UTF-8
LazyData: true
Imports: bibliometrix, igraph, CINNA, dplyr, rebus, magrittr, stringr, tidyr, stats, rlang, tibble
Depends: R (>= 2.10)
Suggests: rmarkdown, knitr, testthat (>= 3.0.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-13 23:59:11 UTC; sebastianrobledo
Author: Sebastian Robledo [aut, cre] (<https://orcid.org/0000-0003-4357-4402>), Martha Zuluaga [aut] (<https://orcid.org/0000-0003-1720-8476>), Oscar Arbelaez Echeverry [aut] (<https://orcid.org/0000-0002-3097-9438>), Luis Alexander Valencia Hernandez [aut], Centro de Bioinformática y Biología computacional de Colombia - BIOS [cph, fnd]
Maintainer: Sebastian Robledo <sebastian.robledogi@amigo.edu.co>
Repository: CRAN
Date/Publication: 2021-07-14 09:30:02 UTC

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New package rbedrock with initial version 0.1.0
Package: rbedrock
Title: Analysis and Manipulation of Data from Minecraft Bedrock Edition
Version: 0.1.0
Authors@R: c( person("Reed", "Cartwright", role = c("aut", "cre"), email = "racartwright@gmail.com", comment = c(ORCID = "0000-0002-0837-9380")), person("Rich", "FitzJohn", role = "ctb", email = "rich.fitzjohn@gmail.com"), person(c("Christian", "Stigen"), "Larsen", role = "ctb"), person("The LevelDB Authors", "", role="cph") )
Description: Implements an interface to Minecraft (Bedrock Edition) worlds. Supports the analysis and management of these worlds and game saves.
License: MIT + file LICENSE
Encoding: UTF-8
Language: en-US
SystemRequirements: C++11, cmake, zlib, GNU make
NeedsCompilation: yes
Depends: R (>= 3.6.0)
Imports: tibble, R6, stringr, bit64, bitops, rappdirs, rlang, dplyr, purrr, magrittr, readr, utils, digest, vctrs, tidyr, fs
Suggests: zip, testthat, jsonlite,
URL: https://github.com/reedacartwright/rbedrock
BugReports: https://github.com/reedacartwright/rbedrock/issues
Packaged: 2021-07-13 21:23:51 UTC; reed
Author: Reed Cartwright [aut, cre] (<https://orcid.org/0000-0002-0837-9380>), Rich FitzJohn [ctb], Christian Stigen Larsen [ctb], The LevelDB Authors [cph]
Maintainer: Reed Cartwright <racartwright@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-14 09:20:02 UTC

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New package ffp with initial version 0.1.0
Package: ffp
Title: Stress Test Historical Scenarios with Fully Flexible Probabilities
Version: 0.1.0
Authors@R: person(given = "Bernardo", family = "Reckziegel", role = c("aut", "cre", "cph"), email = "bernardo_cse@hotmail.com")
Description: Implements numerical entropy-pooling for scenario analysis as described in Meucci, Attilio (2010) <doi:10.2139/ssrn.1696802>.
License: MIT + file LICENSE
URL: https://github.com/Reckziegel/FFP
BugReports: https://github.com/Reckziegel/FFP/issues
Depends: R (>= 2.10)
Imports: assertthat (>= 0.2.1), dplyr (>= 1.0.6), forcats (>= 0.5.1), ggdist (>= 2.4.0), ggplot2 (>= 3.3.3), lubridate (>= 1.7.10), magrittr (>= 2.0.1), methods, mvtnorm (>= 1.1-1), NlcOptim (>= 0.6), pracma (>= 2.3.3), purrr (>= 0.3.4), rlang (>= 0.1.2), scales (>= 1.1.1), stats, tibble (>= 3.1.1), tidyr (>= 1.1.3), usethis (>= 0.2.1), vctrs (>= 0.3.7), xts (>= 0.12.1)
Suggests: covr, knitr (>= 1.33), markdown, roxygen2, spelling, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-13 18:55:47 UTC; bernardo.reckziegel
Author: Bernardo Reckziegel [aut, cre, cph]
Maintainer: Bernardo Reckziegel <bernardo_cse@hotmail.com>
Repository: CRAN
Date/Publication: 2021-07-14 09:10:08 UTC

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New package tcplfit2 with initial version 0.1.1
Package: tcplfit2
Title: Concentration-Response Modeling of HTS or Transcriptomics Data
Version: 0.1.1
Authors@R: c(person("Thomas", "Sheffield", email = "tysheff@gmail.com", role = c("aut")), person("Richard", "Judson", role = c("ctb"),email = "Judson.Richard@epa.gov"), person("Jason", "Brown", role = c("ctb", "cre"),email = "brown.jason@epa.gov") )
Description: Performs the basic concentration response curve fitting used in the 'tcpl' package. It is a substitute for the original tcplFit() function (and sub-functions) and allows a wider variety of concentration-response models. All of the models included in the 'BMDExpress' package are now part of this package, and the output includes a calculation of the bmd (Benchmark Dose or concentration) value.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Imports: stats, future, methods, numDeriv, RColorBrewer, future.apply, stringr, stringi
NeedsCompilation: no
Packaged: 2021-07-13 15:44:15 UTC; jbrown20
Author: Thomas Sheffield [aut], Richard Judson [ctb], Jason Brown [ctb, cre]
Maintainer: Jason Brown <brown.jason@epa.gov>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-14 08:30:02 UTC

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New package SOP with initial version 1.0
Package: SOP
Title: Generalised Additive P-Spline Regression Models Estimation
Version: 1.0
Date: 2021-07-03
Authors@R: c( person(given = "Maria Xose", family = "Rodriguez-Alvarez", email = "mxrodriguez@bcamath.org", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-1329-9238")), person(given = "Manuel", family = "Oviedo de la Fuente", email = "manuel.ovideo@usc.es", role = c("aut")), person(given = "Maria", family = "Durban", email = "mdurban@est-econ.uc3m.es", role = c("ctb")), person(given = "Paul H.C.", family = "Eilers", email = "p.eilers@erasmusmc.nl", role = c("ctb")), person(given = "Dae-Jin", family = "Lee", email = "dlee@bcamath.org", role = c("ctb")), person(given = "Mikis", family = "Stasinopoulos", email = "d.stasinopoulos@londonmet.ac.uk", role = c("ctb")))
Imports: stats, MASS
Suggests: SpATS
Maintainer: Maria Xose Rodriguez-Alvarez <mxrodriguez@bcamath.org>
Description: Generalised additive P-spline regression models estimation using the separation of overlapping precision matrices (SOP) method. Estimation is based on the equivalence between P-splines and linear mixed models, and variance/smoothing parameters are estimated based on restricted maximum likelihood (REML). The package enables users to estimate P-spline models with overlapping penalties. Based on the work described in Rodriguez-Alvarez et al. (2015) <doi:10.1007/s11222-014-9464-2>; Rodriguez-Alvarez et al. (2019) <doi:10.1007/s11222-018-9818-2>, and Eilers and Marx (1996) <doi:10.1214/ss/1038425655>.
License: GPL-2
NeedsCompilation: no
Packaged: 2021-07-13 15:59:21 UTC; mrodriguez
Author: Maria Xose Rodriguez-Alvarez [aut, cre] (<https://orcid.org/0000-0002-1329-9238>), Manuel Oviedo de la Fuente [aut], Maria Durban [ctb], Paul H.C. Eilers [ctb], Dae-Jin Lee [ctb], Mikis Stasinopoulos [ctb]
Repository: CRAN
Date/Publication: 2021-07-14 08:40:02 UTC

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New package shiny.reglog with initial version 0.2.0.2
Package: shiny.reglog
Title: Optional Login and Registration Module System for ShinyApps
Version: 0.2.0.2
Authors@R: person(given = "Michal", family = "Kosinski", role = c("aut", "cre"), email = "kosinski.mich@gmail.com", comment = c(ORCID = "https://orcid.org/0000-0002-8426-3654"))
Description: Package creates UI modules for Login, Register and Password Reset boxes and server module for reading and writing user database contained within googlesheet or sqlite file. Creates automatic e-mail messages after registration and for resetting password procedure. Currently supports English language (default) and Polish. The authentication system created with shiny.reglog is designed to be optional: user don't need to be logged-in to access your application, but when logged-in the user data can be used to read from and write to relational databases.
Imports: shiny, dplyr, dbplyr, scrypt, R6, DBI, googlesheets4, RSQLite, lubridate
Suggests: shinydashboard, googledrive, gmailr, emayili
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-13 18:48:00 UTC; micha
Author: Michal Kosinski [aut, cre] (<https://orcid.org/0000-0002-8426-3654>)
Maintainer: Michal Kosinski <kosinski.mich@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-14 09:00:02 UTC

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New package PhageCocktail with initial version 1.0.0
Package: PhageCocktail
Title: Design of the Best Phage Cocktail
Version: 1.0.0
Authors@R: c(person(given = "Maria Victoria", family = "Diaz-Galian", role = c("aut", "cre"), email = "mvdiazgalian@unex.es", comment = c(ORCID = "0000-0003-2543-6081")), person(given = "Miguel A.", family = "Vega-Rodriguez", role = "aut", email = "mavega@unex.es", comment = c(ORCID = "0000-0002-3003-758X")), person(given = "Felipe", family = "Molina", role = "aut", email = "fmolina@unex.es", comment = c(ORCID = "0000-0002-9167-7097")))
Description: There are 4 possible methods: "ExhaustiveSearch"; "ExhaustivePhi"; "ClusteringSearch"; and "ClusteringPhi". "ExhaustiveSearch"--> gives you the best phage cocktail from a phage-bacteria infection network. It checks different phage cocktail sizes from 1 to 7 and only stops before if it lyses all bacteria. Other option is when users have decided not to obtain a phage cocktail size higher than a limit value. "ExhaustivePhi"--> firstly, it finds Phi out. Phi is a formula indicating the necessary phage cocktail size. Phi needs nestedness temperature and fill, which are internally calculated. This function will only look for the best combination (phage cocktail) with a Phi size. "ClusteringSearch"--> firstly, an agglomerative hierarchical clustering using Ward's algorithm is calculated for phages. They will be clustered according to bacteria lysed by them. PhageCocktail() chooses how many clusters are needed in order to select 1 phage per cluster. Using the phages selected during the clustering, it checks different phage cocktail sizes from 1 to 7 and only stops before if it lyses all bacteria. Other option is when users have decided not to obtain a phage cocktail size higher than a limit value. "ClusteringPhi"--> firstly, an agglomerative hierarchical clustering using Ward's algorithm is calculated for phages. They will be clustered according to bacteria lysed by them. PhageCocktail() chooses how many clusters are needed in order to select 1 phage per cluster. Once the function has one phage per cluster, it calculates Phi. If the number of clusters is less than Phi number, it will be changed to obtain, as minimum, this quantity of candidates (phages). Then, it calculates the best combination of Phi phages using those selected during the clustering with Ward algorithm.
Imports: readxl, stringr, factoextra, bipartite, smerc, RJSONIO
License: GPL-3
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-13 15:52:48 UTC; MVDia
Author: Maria Victoria Diaz-Galian [aut, cre] (<https://orcid.org/0000-0003-2543-6081>), Miguel A. Vega-Rodriguez [aut] (<https://orcid.org/0000-0002-3003-758X>), Felipe Molina [aut] (<https://orcid.org/0000-0002-9167-7097>)
Maintainer: Maria Victoria Diaz-Galian <mvdiazgalian@unex.es>
Repository: CRAN
Date/Publication: 2021-07-14 08:30:05 UTC

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New package FeatureTerminatoR with initial version 1.0.0
Package: FeatureTerminatoR
Title: Feature Selection Engine to Remove Features with Minimal Predictive Power
Version: 1.0.0
Authors@R: c( person("Gary", "Hutson", , "hutsons-hacks@outlook.com", c("aut", "cre"), comment = c(ORCID="0000-0003-3534-6143")))
Maintainer: Gary Hutson <hutsons-hacks@outlook.com>
Description: The aim is to take in data.frame inputs and utilises methods, such as recursive feature engineering, to enable the features to be removed. What this does differently from the other packages, is that it gives you the choice to remove the variables manually, or it automated this process. Feature selection is a concept in machine learning, and statistical pipelines, whereby unimportant, or less predictive variables are eliminated from the analysis, see Boughaci (2018) <doi:10.1007/s40595-018-0107-y>.
License: GPL-3
Encoding: UTF-8
Imports: ggplot2, caret, tibble, dplyr, stats, utils, lattice, e1071, randomForest
Suggests: knitr, markdown, rmarkdown
LazyData: FALSE
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-13 18:50:19 UTC; garyh
Author: Gary Hutson [aut, cre] (<https://orcid.org/0000-0003-3534-6143>)
Repository: CRAN
Date/Publication: 2021-07-14 09:00:04 UTC

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Tue, 13 Jul 2021

New package PosRatioDist with initial version 1.0.1
Package: PosRatioDist
Title: Quotient of Random Variables Conditioned to the Positive Quadrant
Version: 1.0.1
Authors@R: c(person(given = "Yuancheng", family = "Si", role = c("aut", "cre"), email = "siyuanchengman@gmail.com", comment = c(ORCID = "0000-0003-0944-0013")), person(given = "Saralees", family = "Nadarajah", role = "aut"), person(given = "Xiaodong", family = "Song", role = "ctb"))
Maintainer: Yuancheng Si <siyuanchengman@gmail.com>
Description: Computes the exact probability density function of X/Y conditioned on positive quadrant for series of bivariate distributions,for more details see Nadarajah,Song and Si (2019) <DOI:10.1080/03610926.2019.1576893>.
Depends: R (>= 3.5.0)
License: GPL (>= 2)
Encoding: UTF-8
Imports: BMS, mvtnorm, stats, NORMT3
NeedsCompilation: no
Packaged: 2021-07-13 14:24:11 UTC; siyua
Author: Yuancheng Si [aut, cre] (<https://orcid.org/0000-0003-0944-0013>), Saralees Nadarajah [aut], Xiaodong Song [ctb]
Repository: CRAN
Date/Publication: 2021-07-13 16:30:05 UTC

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New package tRnslate with initial version 0.0.3
Package: tRnslate
Title: Translate R Code in Source Files
Version: 0.0.3
Date: 2021-07-13
Authors@R: c(person(given=c('Mario A.'), family='Martinez Araya', role=c('aut','cre', 'cph'), email='r@marioma.me', comment = c(ORCID = '0000-0002-4821-9314')))
Author: Mario A. Martinez Araya [aut, cre, cph] (<https://orcid.org/0000-0002-4821-9314>)
Maintainer: Mario A. Martinez Araya <r@marioma.me>
Description: Evaluate inline or chunks of R code in template files and replace with their output modifying the resulting template.
License: GPL (>= 2)
Depends: R (>= 2.10)
Suggests: knitr, rmarkdown, markdown
URL: <https://marioma.me?i=soft>
BuildVignettes: yes
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-13 09:33:16 UTC; mma
Repository: CRAN
Date/Publication: 2021-07-13 15:40:02 UTC

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New package starter with initial version 0.1.4
Package: starter
Title: Starter Kit for New Projects
Version: 0.1.4
Authors@R: person(given = "Daniel D.", family = "Sjoberg", role = c("aut", "cre"), email = "danield.sjoberg@gmail.com", comment = c(ORCID = "0000-0003-0862-2018"))
Description: Get started with new projects by dropping a skeleton of a new project into a new or existing directory, initialise Git repositories, and create reproducible environments with the renv package. The package allows for dynamically named files, folders, file content, as well as the functionality to drop individual template files into existing projects.
License: AGPL (>= 3)
URL: https://github.com/ddsjoberg/starter, http://www.danieldsjoberg.com/starter/index.html
BugReports: https://github.com/ddsjoberg/starter/issues
Depends: R (>= 3.4)
Imports: dplyr (>= 1.0.6), fs (>= 1.5.0), gert (>= 1.3.0), glue (>= 1.4.2), here (>= 1.0.1), purrr (>= 0.3.4), R.utils (>= 2.10.1), readr (>= 1.4.0), renv (>= 0.13.2), rlang (>= 0.4.11), rstudioapi (>= 0.13), stringr (>= 1.4.0), tibble (>= 3.1.2), usethis (>= 2.0.1)
Suggests: covr (>= 3.5.1), knitr (>= 1.33), rmarkdown (>= 2.9), spelling (>= 2.2), testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-12 13:27:00 UTC; SjobergD
Author: Daniel D. Sjoberg [aut, cre] (<https://orcid.org/0000-0003-0862-2018>)
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-13 15:20:02 UTC

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New package qpNCA with initial version 1.1.5
Package: qpNCA
Title: Noncompartmental Pharmacokinetic Analysis by qPharmetra
Version: 1.1.5
Authors@R: c(person("Jan", "Huisman", role = c("aut", "cre"), email = "jan.huisman@qpharmetra.com"), person("Koen", "Jolling", role = "ctb"), person("Krina", "Mehta", role = "ctb"), person("Tim", "Bergsma", role = "ctb"))
Author: Jan Huisman [aut, cre], Koen Jolling [ctb], Krina Mehta [ctb], Tim Bergsma [ctb]
Maintainer: Jan Huisman <jan.huisman@qpharmetra.com>
Description: Computes noncompartmental pharmacokinetic parameters for drug concentration profiles. For each profile, data imputations and adjustments are made as necessary and basic parameters are estimated. Supports single dose, multi-dose, and multi-subject data. Supports steady-state calculations and various routes of drug administration. See ?qpNCA and vignettes. Methodology follows Rowland and Tozer (2011, ISBN:978-0-683-07404-8), Gabrielsson and Weiner (1997, ISBN:978-91-9765-100-4), and Gibaldi and Perrier (1982, ISBN:978-0824710422).
License: GPL-3
Encoding: UTF-8
Suggests: rmarkdown, markdown, covr, testthat (>= 2.1.0)
Depends: R (>= 3.3.0)
Imports: dplyr(>= 0.7.0), tidyr (>= 0.8.2), magrittr, ggplot2, knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-12 13:00:26 UTC; rstudio
Repository: CRAN
Date/Publication: 2021-07-13 15:10:02 UTC

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New package posterior with initial version 1.0.0
Package: posterior
Title: Tools for Working with Posterior Distributions
Version: 1.0.0
Date: 2021-07-02
Authors@R: c(person("Paul-Christian", "Bürkner", email = "paul.buerkner@gmail.com", role = c("aut", "cre")), person("Jonah", "Gabry", email = "jsg2201@columbia.edu", role = c("aut")), person("Matthew", "Kay", email = "mjskay@umich.edu", role = c("aut")), person("Aki", "Vehtari", email = "Aki.Vehtari@aalto.fi", role = c("aut")), person("Måns", "Magnusson", role = c("ctb")), person("Rok", "Češnovar", role = c("ctb")), person("Ben", "Lambert", role = c("ctb")), person("Ozan", "Adıgüzel", role = c("ctb")), person("Jacob", "Socolar", role = c("ctb")))
Description: Provides useful tools for both users and developers of packages for fitting Bayesian models or working with output from Bayesian models. The primary goals of the package are to: (a) Efficiently convert between many different useful formats of draws (samples) from posterior or prior distributions. (b) Provide consistent methods for operations commonly performed on draws, for example, subsetting, binding, or mutating draws. (c) Provide various summaries of draws in convenient formats. (d) Provide lightweight implementations of state of the art posterior inference diagnostics. References: Vehtari et al. (2021) <doi:10.1214/20-BA1221>.
Depends: R (>= 3.2.0)
Imports: abind, checkmate, rlang (>= 0.4.7), stats, tibble (>= 3.0.0), vctrs, tensorA, pillar, distributional, parallel
Suggests: testthat (>= 2.1.0), caret (>= 6.0.84), gbm (>= 2.1.8), randomForest (>= 4.6.14), e1071 (>= 1.7.3), dplyr, tidyr, knitr, rmarkdown
License: BSD_3_clause + file LICENSE
Encoding: UTF-8
LazyData: false
URL: https://mc-stan.org/posterior/, https://discourse.mc-stan.org/
BugReports: https://github.com/stan-dev/posterior/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-13 07:37:39 UTC; paulb
Author: Paul-Christian Bürkner [aut, cre], Jonah Gabry [aut], Matthew Kay [aut], Aki Vehtari [aut], Måns Magnusson [ctb], Rok Češnovar [ctb], Ben Lambert [ctb], Ozan Adıgüzel [ctb], Jacob Socolar [ctb]
Maintainer: Paul-Christian Bürkner <paul.buerkner@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-13 15:40:04 UTC

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New package mutualinf with initial version 1.0.0
Package: mutualinf
Title: Calculation and Decomposition of the Mutual Information Index
Version: 1.0.0
Authors@R: c(person("Rafael", "Fuentealba-Chaura", email = "rfuentealba@inf.uct.cl", role = c("aut", "cre")), person("Ricardo", "Mora", email = "ricmora@eco.uc3m.es", role = "aut"), person("Julio", "Rojas-Mora", email = "jrojas@inf.uct.cl", role = "aut"))
Description: The Mutual Information Index (M) introduced to social science literature by Theil and Finizza (1971) <doi:10.1080/0022250X.1971.9989795> is a multigroup segregation measure that is highly decomposable and that according to Frankel and Volij (2011) <doi:10.1016/j.jet.2010.10.008> and Mora and Ruiz-Castillo (2011) <doi:10.1111/j.1467-9531.2011.01237.x> satisfies the Strong Unit Decomposability and Strong Group Decomposability properties. This package allows calculating and decomposing the total index value into its "between" and "within" terms. These last terms can also be decomposed into their contributions, either by group or unit characteristics. The factors that produce each "within" term can also be displayed at the user's request. The results can be calculated considering a variable or sets of variables that define separate clusters.
License: GPL-3
Imports: data.table, parallel, stats
Encoding: UTF-8
LazyData: true
URL: https://github.com/RafaelFuentealbaC/mutualinf
BugReports: https://github.com/RafaelFuentealbaC/mutualinf/issues
Depends: R (>= 2.10)
Collate: 'Data_Source.R' 'get_general_contribution.R' 'get_proportion.R' 'get_internal_data.R' 'M_within.R' 'mutual.R' 'get_contribution.R' 'M_value.R' 'M.R' 'globals.R' 'prepare_data.R'
NeedsCompilation: no
Packaged: 2021-07-12 23:21:39 UTC; rafael
Author: Rafael Fuentealba-Chaura [aut, cre], Ricardo Mora [aut], Julio Rojas-Mora [aut]
Maintainer: Rafael Fuentealba-Chaura <rfuentealba@inf.uct.cl>
Repository: CRAN
Date/Publication: 2021-07-13 15:20:05 UTC

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New package ugatsdb with initial version 0.1.7
Package: ugatsdb
Title: Uganda Time Series Database API
Version: 0.1.7
Date: 2021-07-11
Authors@R: person("Sebastian", "Krantz", role = c("aut", "cre"), email = "sebastian.krantz@graduateinstitute.ch")
Description: An R API providing easy access to a relational database with macroeconomic, financial and development related time series data for Uganda. Overall more than 5000 series at varying frequency (daily, monthly, quarterly, annual in fiscal or calendar years) can be accessed through the API. The data is provided by the Bank of Uganda, the Ugandan Ministry of Finance, Planning and Economic Development, the IMF and the World Bank. The database is being updated once a month.
URL: https://mepd.finance.go.ug/apps.html
License: GPL-3
Encoding: UTF-8
Imports: DBI, RMySQL, data.table, collapse, writexl
Suggests: magrittr, xts, dygraphs
NeedsCompilation: no
Packaged: 2021-07-11 10:28:26 UTC; Sebastian Krantz
Author: Sebastian Krantz [aut, cre]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Repository: CRAN
Date/Publication: 2021-07-13 15:00:01 UTC

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New package PhotosynQ with initial version 0.2.3
Package: PhotosynQ
Title: Connect to PhotosynQ
Version: 0.2.3
Authors@R: person("Sebastian", "Kuhlgert", email = "sebastian.kuhlgert@gmail.com", role = c("aut", "cre"))
Description: Connect R to the PhotosynQ platform (<https://photosynq.org>). It allows to login and logout, as well as receive project information and project data. Further it transforms the received JSON objects into a data frame, which can be used for the final data analysis.
License: MIT + file LICENCE
Encoding: UTF-8
Language: en-US
URL: https://github.com/Photosynq/PhotosynQ-R
BugReports: https://github.com/Photosynq/PhotosynQ-R/issues
Depends: R (>= 3.2.4)
Imports: httr (>= 1.4.0), getPass (>= 0.2-2)
NeedsCompilation: no
Packaged: 2021-07-12 20:44:27 UTC; kuhlgert
Author: Sebastian Kuhlgert [aut, cre]
Maintainer: Sebastian Kuhlgert <sebastian.kuhlgert@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-13 14:50:07 UTC

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New package natcpp with initial version 0.1.0
Package: natcpp
Title: Fast C++ Primitives for the 'NeuroAnatomy Toolbox'
Version: 0.1.0
Authors@R: person(given = "Gregory", family = "Jefferis", role = c("aut", "cre"), email = "jefferis@gmail.com", comment = c(ORCID = "0000-0002-0587-9355"))
Description: Fast functions implemented in C++ via 'Rcpp' to support the 'NeuroAnatomy Toolbox' ('nat') ecosystem. These functions provide large speed-ups for basic manipulation of neuronal skeletons over pure R functions found in the 'nat' package. The expectation is that end users will not use this package directly, but instead the 'nat' package will automatically use routines from this package when it is available to enable large performance gains.
License: GPL (>= 3)
URL: https://github.com/natverse/natcpp
BugReports: https://github.com/natverse/natcpp/issues
Imports: Rcpp (>= 1.0.6)
Suggests: spelling, testthat (>= 3.0.0)
LinkingTo: Rcpp
Encoding: UTF-8
Language: en-GB
NeedsCompilation: yes
Packaged: 2021-07-12 18:45:16 UTC; jefferis
Author: Gregory Jefferis [aut, cre] (<https://orcid.org/0000-0002-0587-9355>)
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-13 14:50:02 UTC

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New package kldtools with initial version 1.0
Package: kldtools
Title: Kullback-Leibler Divergence and Other Tools to Analyze Frequencies
Version: 1.0
Date: 2021-07-12
Authors@R: c(person("Alexey", "Shipunov", role=c("cre"), email="dactylorhiza@gmail.com"), person("Kateryna", "Krykoniuk", role="aut"), person("Jasjeet", "Sekhon", role="ctb"))
Description: Most importantly, calculates Kullback-Leibler Divergence (KLD), Turing's perspective estimator and their confidence intervals.
License: GPL (>= 2)
LazyLoad: yes
NeedsCompilation: no
Packaged: 2021-07-12 09:21:51 UTC; alexey
Author: Alexey Shipunov [cre], Kateryna Krykoniuk [aut], Jasjeet Sekhon [ctb]
Maintainer: Alexey Shipunov <dactylorhiza@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-13 14:30:02 UTC

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New package geckor with initial version 0.1.1
Package: geckor
Title: R Client for the 'CoinGecko' API
Version: 0.1.1
Authors@R: c( person("Sergey", "Mastitsky", role = c("aut", "cre"), email = "sergey@nextgamesolutions.com"), person("Next Game Solutions", role = c("cph")) )
Description: Collect the current and historical cryptocurrency market data using the public 'CoinGecko' API (<https://www.coingecko.com/en/api>).
License: MIT + file LICENSE
URL: https://github.com/next-game-solutions/geckor
BugReports: https://github.com/next-game-solutions/geckor/issues
Depends: R (>= 4.0)
Encoding: UTF-8
Suggests: covr, markdown, readr, rmarkdown, spelling, testthat (>= 3.0.0)
Language: en-US
Imports: dplyr, jsonlite, httr, knitr, lifecycle, magrittr, rlang, tibble, tidyr, tidyselect
VignetteBuilder: knitr
RdMacros: lifecycle
NeedsCompilation: no
Packaged: 2021-07-12 12:40:21 UTC; masti
Author: Sergey Mastitsky [aut, cre], Next Game Solutions [cph]
Maintainer: Sergey Mastitsky <sergey@nextgamesolutions.com>
Repository: CRAN
Date/Publication: 2021-07-13 14:40:05 UTC

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New package cubicBsplines with initial version 1.0.0
Package: cubicBsplines
Title: Computation of a Cubic B-Spline Basis and Its Derivatives
Date: 2021-07-11
Version: 1.0.0
Authors@R: person(given = "Philippe", family = "Lambert", role = c("aut", "cre"), email = "p.lambert@uliege.be", comment = "Université de Liège / Université catholique de Louvain (Belgium)")
Description: Computation of a cubic B-spline basis for arbitrary knots. It also provides the 1st and 2nd derivatives, as well as the integral of the basis elements. It is used by the author to fit penalized B-spline models, see e.g. Jullion, A. and Lambert, P. (2006) <doi:10.1016/j.csda.2006.09.027>, Lambert, P. and Eilers, P.H.C. (2009) <doi:10.1016/j.csda.2008.11.022> and, more recently, Lambert, P. (2021) <doi:10.1016/j.csda.2021.107250>. It is inspired by the algorithm developed by de Boor, C. (1977) <doi:10.1137/0714026>.
URL: http://www.statsoc.ulg.ac.be/
License: GPL-3
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-12 11:19:04 UTC; plambert
Author: Philippe Lambert [aut, cre] (Université de Liège / Université catholique de Louvain (Belgium))
Maintainer: Philippe Lambert <p.lambert@uliege.be>
Repository: CRAN
Date/Publication: 2021-07-13 14:30:04 UTC

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New package bcputility with initial version 0.1.0
Package: bcputility
Title: Wrapper for SQL Server bcp Utility
Version: 0.1.0
Authors@R: person("Thomas", "Roh", email = "thomas@roh.engineering", role = c("aut", "cre"))
Description: Provides functions to utilize a command line utility that does bulk inserts and exports from SQL Server databases.
License: MIT + file LICENSE
Encoding: UTF-8
SystemRequirements: bcp Utility
Imports: data.table, DBI, odbc
NeedsCompilation: no
Packaged: 2021-07-12 19:28:24 UTC; troh
Author: Thomas Roh [aut, cre]
Maintainer: Thomas Roh <thomas@roh.engineering>
Repository: CRAN
Date/Publication: 2021-07-13 14:50:05 UTC

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New package MatTransMix with initial version 0.1.14
Package: MatTransMix
Version: 0.1.14
Date: 2021-07-12
Title: Clustering with Matrix Gaussian and Matrix Transformation Mixture Models
Authors@R: c(person("Xuwen", "Zhu", role = c("aut", "cre"), email = "xzhu20@cba.ua.edu"), person("Volodymyr", "Melnykov", role = "aut"), person("Shuchismita", "Sarkar", role = "ctb"), person("Michael", "Hutt", role = c("ctb", "cph")), person("Stephen", "Moshier", role = c("ctb", "cph")), person("Rouben", "Rostamian", role = c("ctb", "cph")), person("Carl Edward", "Rasmussen", role = c("ctb", "cph")), person("Dianne", "Cook", role = c("ctb", "cph")))
Depends: R (>= 3.0.0)
LazyLoad: yes
LazyData: no
Description: Provides matrix Gaussian mixture models, matrix transformation mixture models and their model-based clustering results. The parsimonious models of the mean matrices and variance covariance matrices are implemented with a total of 196 variations.
License: GPL (>= 2)
Imports: mvtnorm
Packaged: 2021-07-12 21:21:48 UTC; root
Author: Xuwen Zhu [aut, cre], Volodymyr Melnykov [aut], Shuchismita Sarkar [ctb], Michael Hutt [ctb, cph], Stephen Moshier [ctb, cph], Rouben Rostamian [ctb, cph], Carl Edward Rasmussen [ctb, cph], Dianne Cook [ctb, cph]
Maintainer: Xuwen Zhu <xzhu20@cba.ua.edu>
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2021-07-13 12:00:16 UTC

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New package blockcluster with initial version 4.5.0
Package: blockcluster
Title: Co-Clustering Package for Binary, Categorical, Contingency and Continuous Data-Sets
Version: 4.5.0
Encoding: UTF-8
Date: 2021-07-07
Authors@R: c( person("Serge", "Iovleff", role = c("aut","cre"), email = "Serge.Iovleff@stkpp.org") , person("Parmeet", "Singh Bhatia", role = "aut", email = "bhatia.parmeet@gmail.com") , person("Josselin", "Demont", role = "ctb") , person("Vincent", "Brault", role = "ctb", email = "vincent.brault@imag.fr") , person("Vincent", "Kubicki", role = "ctb", email = "vincent.kubicki@laposte.net") , person("Gerard", "Goavert", role = "ctb") , person("Christophe", "Biernacki", role = "ctb") , person("Gilles", "Celeux", role = "ctb"))
Copyright: Inria
Description: Simultaneous clustering of rows and columns, usually designated by biclustering, co-clustering or block clustering, is an important technique in two way data analysis. It consists of estimating a mixture model which takes into account the block clustering problem on both the individual and variables sets. The 'blockcluster' package provides a bridge between the C++ core library build on top of the 'STK++' library, and the R statistical computing environment. This package allows to co-cluster binary <doi:10.1016/j.csda.2007.09.007>, contingency <doi:10.1080/03610920903140197>, continuous <doi:10.1007/s11634-013-0161-3> and categorical data-sets <doi:10.1007/s11222-014-9472-2>. It also provides utility functions to visualize the results. This package may be useful for various applications in fields of Data mining, Information retrieval, Biology, computer vision and many more. More information about the project and comprehensive tutorial can be found on the link mentioned in URL.
License: GPL (>= 3)
URL: https://gforge.inria.fr/projects/cocluster/
BugReports: https://gforge.inria.fr/forum/forum.php?forum_id=11190&group_id=3679
LazyLoad: yes
Depends: R (>= 3.0.2), rtkore (>= 1.5.5)
Imports: methods
LinkingTo: Rcpp
SystemRequirements: GNU make
Collate: 'coclusterStrategy.R' 'RCocluster.R' 'optionclasses.R' 'cocluster.R' 'coclusterBinary.R' 'coclusterCategorical.R' 'coclusterContingency.R' 'coclusterContinuous.R' 'onattach.R'
NeedsCompilation: yes
Packaged: 2021-07-10 19:29:51 UTC; iovleff
Author: Serge Iovleff [aut, cre], Parmeet Singh Bhatia [aut], Josselin Demont [ctb], Vincent Brault [ctb], Vincent Kubicki [ctb], Gerard Goavert [ctb], Christophe Biernacki [ctb], Gilles Celeux [ctb]
Maintainer: Serge Iovleff <Serge.Iovleff@stkpp.org>
Repository: CRAN
Date/Publication: 2021-07-13 12:00:12 UTC

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New package BayesPPD with initial version 1.0.1
Package: BayesPPD
Title: Bayesian Power Prior Design
Version: 1.0.1
Authors@R: c( person(given = "Yueqi", family = "Shen", role = c("cre"), email = "ys137@live.unc.edu"), person(given = "Matthew A.", family = "Psioda", role = c("aut"), email = "matt_psioda@unc.edu"), person(given = "Joseph G.", family = "Ibrahim", role = c("aut"), email = "ibrahim@bios.unc.edu"))
Description: Bayesian power/type I error calculation and model fitting using the power prior and the normalized power prior for generalized linear models. The Bayesian clinical trial design methodology is described in Chen et al. (2011) <doi:10.1111/j.1541-0420.2011.01561.x>, and Psioda and Ibrahim (2019) <doi:10.1093/biostatistics/kxy009>. The normalized power prior is described in Duan et al. (2006) <doi:10.1002/env.752> and Ibrahim et al. (2015) <doi:10.1002/sim.6728>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports: Rcpp, RcppNumerical
LinkingTo: Rcpp, RcppArmadillo, RcppEigen, RcppNumerical
NeedsCompilation: yes
Packaged: 2021-07-02 04:44:25 UTC; angie
Author: Yueqi Shen [cre], Matthew A. Psioda [aut], Joseph G. Ibrahim [aut]
Maintainer: Yueqi Shen <ys137@live.unc.edu>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-13 12:00:23 UTC

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Mon, 12 Jul 2021

New package zonebuilder with initial version 0.0.2
Package: zonebuilder
Title: Create and Explore Geographic Zoning Systems
Version: 0.0.2
Authors@R: c(person(given = "Robin", family = "Lovelace", role = c("aut", "cre"), email = "rob00x@gmail.com", comment = c(ORCID = "0000-0001-5679-6536")), person(given = "Martijn", family = "Tennekes", role = "aut", email = "mtennekes@gmail.com"))
Description: Functions, documentation and example data to help divide geographic space into discrete polygons (zones). The functions are motivated by research into the merits of different zoning systems <doi:10.1068/a090169>. A flexible 'ClockBoard' zoning system is provided, which breaks-up space by concentric rings and radial lines emanating from a central point. By default, the diameter of the rings grow according the triangular number sequence <doi:10.1080/26375451.2019.1598687> with the first 4 'doughnuts' (or 'annuli') measuring 1, 3, 6, and 10 km wide. These annuli are subdivided into equal segments (12 by default), creating the visual impression of a dartboard. Zones are labelled according to distance to the centre and angular distance from North, creating a simple geographic zoning and labelling system useful for visualising geographic phenomena with a clearly demarcated central location such as cities.
License: GPL-3
BugReports: https://github.com/zonebuilders/zonebuilder/issues
Depends: R (>= 2.10)
Imports: sf, RColorBrewer, graphics, grDevices
Suggests: knitr, rmarkdown, tmap, tmaptools, pct, dplyr, lwgeom, leaflet, covr, bookdown
VignetteBuilder: knitr
URL: https://github.com/zonebuilders/zonebuilder, https://zonebuilders.github.io/zonebuilder/
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
Packaged: 2021-07-12 08:21:17 UTC; robin
Author: Robin Lovelace [aut, cre] (<https://orcid.org/0000-0001-5679-6536>), Martijn Tennekes [aut]
Maintainer: Robin Lovelace <rob00x@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-12 22:30:02 UTC

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New package minimaxdesign with initial version 0.1.5
Package: minimaxdesign
Title: Minimax and Minimax Projection Designs
Version: 0.1.5
Author: Simon Mak
Maintainer: Simon Mak <smak6@gatech.edu>
Description: Provides two main functions, minimax() and miniMaxPro(), for computing minimax and minimax projection designs using the minimax clustering algorithm in Mak and Joseph (2018) <DOI:10.1080/10618600.2017.1302881>. Current design region options include the unit hypercube ("hypercube"), the unit simplex ("simplex"), the unit ball ("ball"), as well as user-defined constraints on the unit hypercube ("custom"). Minimax designs can also be computed on user-provided images using the function minimax.map(). Design quality can be assessed using the function mMdist(), which computes the minimax (fill) distance of a design.
License: GPL (>= 2)
Imports: Rcpp (>= 0.12.4), randtoolbox, DiceDesign, MaxPro, doParallel, doSNOW, gtools, nloptr, foreach, jpeg, gmp, conf.design, pdist, DoE.base, FrF2, geometry
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2021-07-12 13:10:15 UTC; sm769
Repository: CRAN
Date/Publication: 2021-07-12 22:10:02 UTC

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New package HeritSeq with initial version 1.0.2
Package: HeritSeq
Title: Heritability of Gene Expression for Next-Generation Sequencing
Version: 1.0.2
Date: 2021-07-11
Author: W. Jenny Shi [aut, cre], Pamela Russell [aut], Pratyaydipta Rudra [aut, cre], Brian Vestal [aut, cre], Katerina Kechris [aut], Laura Saba [aut]
Maintainer: W. Jenny Shi <wjennyshi@gmail.com>
Description: Statistical framework to analyze heritability of gene expression based on next-generation sequencing data and simulating sequencing reads. Variance partition coefficients (VPC) are computed using linear mixed effects and generalized linear mixed effects models. Compound Poisson and negative binomial models are included. Reference: Rudra, Pratyaydipta, et al. "Model based heritability scores for high-throughput sequencing data." BMC bioinformatics 18.1 (2017): 143.
BugReports: https://github.com/KechrisLab/HeritSeq/issues
Depends: R (>= 3.2.3)
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: cplm, DESeq2, lme4, pbapply, tweedie, MASS, SummarizedExperiment
NeedsCompilation: no
Packaged: 2021-07-12 04:27:30 UTC; wenjennyshi
Repository: CRAN
Date/Publication: 2021-07-12 22:30:04 UTC

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New package lefko3 with initial version 3.5.2
Package: lefko3
Title: Historical and Ahistorical Population Projection Matrix Analysis
Version: 3.5.2
Date: 2021-07-12
Authors@R: c(person(given = "Richard P.", family = "Shefferson", email = "cdorm@g.ecc.u-tokyo.ac.jp", role = c("aut", "cre"), comment=c(ORCID="0000-0002-5234-3131")), person(given = "Johan", family = "Ehrlen", role = "aut", comment=c(ORCID="0000-0001-8539-8967")))
Description: Creates matrix population models for use in population ecological analyses. Specializes on the construction of historical matrices, which are 2d matrices comprising 3 consecutive times of demographic information. Estimates both raw and function-based forms of historical and standard ahistorical matrices. It also estimates function-based age-by-stage matrices. Methodology based on Ehrlen (2000) <doi:10.1890/0012-9658(2000)081[1675:TDOPPD]2.0.CO;2>.
Encoding: UTF-8
License: GPL (>= 2)
Imports: Rcpp (>= 1.0.5), lme4, MASS, MuMIn, pscl, SparseM, stats, stringr, VGAM
LinkingTo: Rcpp, RcppArmadillo
LazyData: true
Suggests: knitr, popbio, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2021-07-12 07:52:21 UTC; richshefferson
Author: Richard P. Shefferson [aut, cre] (<https://orcid.org/0000-0002-5234-3131>), Johan Ehrlen [aut] (<https://orcid.org/0000-0001-8539-8967>)
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2021-07-12 15:40:02 UTC

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New package PRISMA2020 with initial version 0.0.3
Package: PRISMA2020
Title: Make Interactive 'PRISMA' Flow Diagrams
Version: 0.0.3
Authors@R: c( person(given = "Neal", family = "Haddaway", role = c("aut", "cre"), email = "nealhaddaway@gmail.com", comment = c(ORCID = "0000-0003-3902-2234")), person("Luke", "McGuinness", role = "aut", email = "luke.mcguinness@bristol.ac.uk", comment = c(ORCID = "0000-0001-8730-9761")), person("Chris", "Pritchard", role = "aut", email = "chris.pritchard@ntu.ac.uk", comment = c(ORCID = "0000-0002-1143-9751")) )
Description: Systematic reviews should be described in a high degree of methodological detail. The 'PRISMA' Statement calls for a high level of reporting detail in systematic reviews and meta-analyses. An integral part of the methodological description of a review is a flow diagram. This package produces an interactive flow diagram that conforms to the 'PRISMA2020' preprint. When made interactive, the reader/user can click on each box and be directed to another website or file online (e.g. a detailed description of the screening methods, or a list of excluded full texts), with a mouse-over tool tip that describes the information linked to in more detail. Interactive versions can be saved as HTML files, whilst static versions for inclusion in manuscripts can be saved as HTML, PDF, PNG, SVG, PS or WEBP files.
Imports: DiagrammeR, DiagrammeRsvg, htmltools, htmlwidgets, rsvg, scales, shiny, shinyjs, stats, stringr, utils, xml2, webp, DT, rio, tools
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-12 05:17:00 UTC; nealhaddaway
Author: Neal Haddaway [aut, cre] (<https://orcid.org/0000-0003-3902-2234>), Luke McGuinness [aut] (<https://orcid.org/0000-0001-8730-9761>), Chris Pritchard [aut] (<https://orcid.org/0000-0002-1143-9751>)
Maintainer: Neal Haddaway <nealhaddaway@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-12 09:30:05 UTC

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New package polypharmacy with initial version 1.0.0
Package: polypharmacy
Version: 1.0.0
Title: Calculate Several Polypharmacy Indicators
Description: Analyse prescription drug deliveries to calculate several indicators of polypharmacy corresponding to the various definitions found in the literature. Bjerrum, L., Rosholm, J. U., Hallas, J., & Kragstrup, J. (1997) <doi:10.1007/s002280050329>. Chan, D.-C., Hao, Y.-T., & Wu, S.-C. (2009a) <doi:10.1002/pds.1712>. Fincke, B. G., Snyder, K., Cantillon, C., Gaehde, S., Standring, P., Fiore, L., ... Gagnon, D.R. (2005) <doi:10.1002/pds.966>. Hovstadius, B., Astrand, B., & Petersson, G. (2009) <doi:10.1186/1472-6904-9-11>. Hovstadius, B., Astrand, B., & Petersson, G. (2010) <doi:10.1002/pds.1921>. Kennerfalk, A., Ruigómez, A., Wallander, M.-A., Wilhelmsen, L., & Johansson, S. (2002) <doi:10.1345/aph.1A226>. Masnoon, N., Shakib, S., Kalisch-Ellett, L., & Caughey, G. E. (2017) <doi:10.1186/s12877-017-0621-2>. Narayan, S. W., & Nishtala, P. S. (2015) <doi:10.1007/s40801-015-0020-y>. Nishtala, P. S., & Salahudeen, M. S. (2015) <doi:10.1159/000368191>. Park, H. Y., Ryu, H. N., Shim, M. K., Sohn, H. S., & Kwon, J. W. (2016) <doi:10.5414/cp202484>. Veehof, L., Stewart, R., Haaijer-Ruskamp, F., & Jong, B. M. (2000) <doi:10.1093/fampra/17.3.261>.
Authors@R: c(person(given = "Guillaume", family = "Boucher", role = c("aut", "cre"), email = "guiboucher8@gmail.com"), person(given = "Bernard", family = "Candas", role = "aut", email = "bernard.candas.1@gmail.com"), person(given = "Houssem", family = "Missaoui", role = "aut", email = "missaoui_houssem@hotmail.fr"), person(given = "Caroline", family = "Sirois", role = "sad", email = "caroline.sirois@pha.ulaval.ca"), person(given = "Marc", family = "Simard", role = "sad", email = "marc.simard@inspq.qc.ca"))
Maintainer: Guillaume Boucher <guiboucher8@gmail.com>
BugReports: https://github.com/guiboucher/polypharmacy/issues
License: MIT + file LICENSE
Imports: data.table, doParallel, foreach, itertools, lubridate, parallel, stringr
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2021-07-12 03:13:21 UTC; Guillaume Boucher
Author: Guillaume Boucher [aut, cre], Bernard Candas [aut], Houssem Missaoui [aut], Caroline Sirois [sad], Marc Simard [sad]
Repository: CRAN
Date/Publication: 2021-07-12 09:30:02 UTC

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New package penfa with initial version 0.1.0
Package: penfa
Title: Single- And Multiple-Group Penalized Factor Analysis
Version: 0.1.0
Authors@R: c(person(given = "Elena", family = "Geminiani", role = c("aut", "cre"), email = "geminianielena@gmail.com", comment = c(ORCID = "0000-0001-5992-9728")), person(given = "Giampiero", family = "Marra", role = c("aut"), email = "giampiero.marra@ucl.ac.uk", comment = c(ORCID = "0000-0002-9010-2646")), person(given = "Irini", family = "Moustaki", role = c("aut"), email = "i.moustaki@lse.ac.uk", comment = c(ORCID = "0000-0001-8371-1251")) )
Description: Fits single- and multiple-group penalized factor analysis models via a trust-region algorithm with integrated automatic multiple tuning parameter selection (Geminiani et al., 2021 <doi:10.1007/s11336-021-09751-8>). Available penalties include lasso, adaptive lasso, scad, mcp, and ridge.
License: GPL-3
Depends: R(>= 3.5.0)
Imports: MASS, methods, mgcv, GJRM, stats, trust, utils
Suggests: cartography, knitr, plotly, rmarkdown
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
URL: https://github.com/egeminiani/penfa
NeedsCompilation: no
Packaged: 2021-07-11 17:59:23 UTC; egeminiani
Author: Elena Geminiani [aut, cre] (<https://orcid.org/0000-0001-5992-9728>), Giampiero Marra [aut] (<https://orcid.org/0000-0002-9010-2646>), Irini Moustaki [aut] (<https://orcid.org/0000-0001-8371-1251>)
Maintainer: Elena Geminiani <geminianielena@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-12 09:20:02 UTC

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New package onbrand with initial version 1.0.0
Package: onbrand
Title: Templated Reporting Workflows in Word and PowerPoint
Version: 1.0.0
Authors@R: c(person("John", "Harrold", role = c("aut", "cre"), email = "john.m.harrold@gmail.com", comment = c(ORCID="0000-0003-2052-4373")), person("Bryan", "Smith", role = c("aut"), email = "r.bryan.smith@gmail.com "))
Maintainer: John Harrold <john.m.harrold@gmail.com>
Description: Automated reporting in Word and PowerPoint can require customization for each organizational template. Onbrand adds standard reporting functions and an abstraction layer to facilitate automated reporting workflows that can be replicated across different organizational templates.
URL: https://john-harrold.github.io/onbrand/
BugReports: https://github.com/john-harrold/onbrand/issues
License: BSD_2_clause + file LICENSE
Encoding: UTF-8
LazyData: FALSE
VignetteBuilder: knitr
Imports: dplyr, flextable, ggplot2, magrittr, officer (>= 0.3.7), stringr, rlang, yaml
Suggests: knitr, knitrdata, markdown, rmarkdown, testthat
NeedsCompilation: no
Packaged: 2021-07-10 14:49:08 UTC; jmh
Author: John Harrold [aut, cre] (<https://orcid.org/0000-0003-2052-4373>), Bryan Smith [aut]
Repository: CRAN
Date/Publication: 2021-07-12 09:20:06 UTC

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New package rstudio.prefs with initial version 0.1.4
Package: rstudio.prefs
Title: Set 'RStudio' Preferences
Version: 0.1.4
Authors@R: person(given = "Daniel D.", family = "Sjoberg", role = c("aut", "cre", "cph"), email = "danield.sjoberg@gmail.com", comment = c(ORCID = "0000-0003-0862-2018"))
Description: As of 'RStudio' v1.3, the preferences in the Global Options dialog (and a number of other preferences that aren’t) are now saved in simple, plain-text JSON files. This package provides an interface for working with these 'RStudio' JSON preference files to easily make modifications without using the point-and-click option menus. This is particularly helpful when working on teams to ensure a unified experience across machines and utilizing settings for best practices.
License: GPL (>= 3)
URL: https://github.com/ddsjoberg/rstudio.prefs, http://www.danieldsjoberg.com/rstudio.prefs/index.html
BugReports: https://github.com/ddsjoberg/rstudio.prefs/issues
Depends: R (>= 3.4)
Imports: cli (>= 2.5.0), dplyr (>= 1.0.6), fs (>= 1.5.0), jsonlite (>= 1.7.2), purrr (>= 0.3.4), rappdirs (>= 0.3.3), rlang (>= 0.4.11), rstudioapi (>= 0.13), rvest (>= 1.0.0), tibble (>= 3.1.2)
Suggests: covr (>= 3.5.1), spelling (>= 2.2), testthat (>= 3.0.0)
Encoding: UTF-8
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-10 18:30:03 UTC; SjobergD
Author: Daniel D. Sjoberg [aut, cre, cph] (<https://orcid.org/0000-0003-0862-2018>)
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-12 08:30:02 UTC

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New package nser with initial version 1.0.0
Package: nser
Title: Bhavcopy from National Stock Exchange(NSE) India of Equities and Derivatives(F&O)
Version: 1.0.0
Date: 2021-07-06
Authors@R: person("Nandan", "Patil", email = "tryanother609@gmail.com", role = c("cre", "aut"))
Maintainer: Nandan Patil <tryanother609@gmail.com>
Description: Download Historical Bhavcopy from NSE of Equities and Derivatives(F&O) segment. Data source is from NSE webpage <https://www.nseindia.com/all-reports>.
URL: https://github.com/nandp1/nser/
BugReports: https://github.com/nandp1/nser/issues
Language: en-US
License: GPL-2
Depends: R (>= 3.0)
Encoding: UTF-8
Imports: stats, utils, readr
Suggests: testthat, knitr, rmarkdown, reshape2
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-11 05:03:11 UTC; ACER
Author: Nandan Patil [cre, aut]
Repository: CRAN
Date/Publication: 2021-07-12 08:50:02 UTC

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New package DA with initial version 1.2.0
Package: DA
Version: 1.2.0
Date: 2021-07-11
Title: Discriminant Analysis for Evolutionary Inference
Description: Discriminant Analysis (DA) for evolutionary inference (Qin, X. et al, 2020, <doi:10.22541/au.159256808.83862168>), especially for population genetic structure and community structure inference. This package incorporates the commonly used linear and non-linear, local and global supervised learning approaches (discriminant analysis), including Linear Discriminant Analysis of Kernel Principal Components (LDAKPC), Local (Fisher) Linear Discriminant Analysis (LFDA), Local (Fisher) Discriminant Analysis of Kernel Principal Components (LFDAKPC) and Kernel Local (Fisher) Discriminant Analysis (KLFDA). These discriminant analyses can be used to do ecological and evolutionary inference, including demography inference, species identification, and population/community structure inference.
Authors@R: c(person("Xinghu", "Qin", role=c("aut", "cre", "cph"), email="qinxinghu@gmail.com", comment=c(ORCID="0000-0003-2351-3610")))
biocViews: BiomedicalInformatics, ChIPSeq, Clustering, Coverage, DNAMethylation, DifferentialExpression, DifferentialMethylation,Software, DifferentialSplicing, Epigenetics, FunctionalGenomics, GeneExpression, GeneSetEnrichment, Genetics, ImmunoOncology, MultipleComparison, Normalization, Pathways, QualityControl, RNASeq, Regression, SAGE, Sequencing, Software, SystemsBiology, TimeCourse, Transcription, Transcriptomics
Depends: R (>= 3.5)
License: GPL-3
SystemRequirements: GNU make
URL: https://xinghuq.github.io/DA/index.html
BugReports: https://github.com/xinghuq/DA/issues
Imports: adegenet,lfda,MASS,kernlab,klaR,plotly,rARPACK,grDevices,stats,utils
VignetteBuilder: knitr
NeedsCompilation: no
Suggests: knitr,testthat,rmarkdown
Packaged: 2021-07-11 04:35:11 UTC; Qin_st_andrews
Author: Xinghu Qin [aut, cre, cph] (<https://orcid.org/0000-0003-2351-3610>)
Maintainer: Xinghu Qin <qinxinghu@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-12 08:40:02 UTC

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New package uncorbets with initial version 0.1.0
Package: uncorbets
Title: Uncorrelated Bets via Minimum Torsion Algorithm
Version: 0.1.0
Authors@R: c(person(given = "Bernardo", family = "Reckziegel", email = "bernardo_cse@hotmail.com", role = c("aut", "cre", "cph")) )
Description: Implements Minimum Torsion for portfolio diversification as described in Meucci, Attilio (2013) <doi:10.2139/ssrn.2276632>.
License: MIT + file LICENSE
URL: https://github.com/Reckziegel/uncorbets
BugReports: https://github.com/Reckziegel/uncorbets/issues
Imports: stats
Suggests: spelling, covr, testthat (>= 3.0.0)
Encoding: UTF-8
Language: en-US
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2021-07-09 18:35:07 UTC; Berna
Author: Bernardo Reckziegel [aut, cre, cph]
Maintainer: Bernardo Reckziegel <bernardo_cse@hotmail.com>
Repository: CRAN
Date/Publication: 2021-07-12 07:30:02 UTC

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New package scCAN with initial version 1.0.0
Package: scCAN
Title: Single-Cell Clustering using Autoencoder and Network Fusion
Version: 1.0.0
Authors@R: c( person("Bang", "Tran", , "bang.t.s@nevada.unr.edu", role = c("aut", "cre")), person("Duc", "Tran", role = c("aut")), person("Hung", "Nguyen", role = c("aut")), person("Tin", "Nguyen", role = c("fnd")) )
Maintainer: Bang Tran <bang.t.s@nevada.unr.edu>
Description: A single-cell Clustering method using 'Autoencoder' and Network fusion ('scCAN') for segregating the cells from the high-dimensional 'scRNA-Seq' data. The software automatically determines the optimal number of clusters and then partitions the cells in a way such that the results are robust to noise and dropouts. 'scCAN' is fast and it supports Windows, Linux, and Mac OS.
License: LGPL
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
Depends: R (>= 3.4)
Imports: scDHA, FNN, purrr, stats, markdown
Suggests: knitr
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-09 18:23:34 UTC; User
Author: Bang Tran [aut, cre], Duc Tran [aut], Hung Nguyen [aut], Tin Nguyen [fnd]
Repository: CRAN
Date/Publication: 2021-07-12 07:30:05 UTC

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New package rankUncertainty with initial version 1.0.0.0
Package: rankUncertainty
Title: Methods for Working with Uncertainty in Rankings
Version: 1.0.0.0
Authors@R: person(given = "Justin", family = "Rising", role = c("aut", "cre"), email = "justin.rising@us.af.mil")
Description: Provides methods for measuring and describing uncertainty in rankings. See Rising (2021) <arXiv:2107.03459> for background.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: false
SystemRequirements: GNU, C++11
LinkingTo: cpp11, Rcpp
Depends: R (>= 3.6),
Imports: Rcpp, magrittr,
Suggests: ggplot2, testthat (>= 3.0.0)
NeedsCompilation: yes
Packaged: 2021-07-09 17:36:02 UTC; jkris
Author: Justin Rising [aut, cre]
Maintainer: Justin Rising <justin.rising@us.af.mil>
Repository: CRAN
Date/Publication: 2021-07-12 07:30:08 UTC

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New package OceanView with initial version 1.0.6
Package: OceanView
Version: 1.0.6
Title: Visualisation of Oceanographic Data and Model Output
Author: Karline Soetaert <karline.soetaert@nioz.nl>
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>
Depends: plot3D, plot3Drgl, R (>= 3.2)
Imports: methods, graphics, grDevices, stats, rgl, shape
Description: Functions for transforming and viewing 2-D and 3-D (oceanographic) data and model output.
License: GPL (>= 3.0)
LazyData: yes
NeedsCompilation: yes
Packaged: 2021-07-09 09:30:31 UTC; karlines
Repository: CRAN
Date/Publication: 2021-07-12 08:00:13 UTC

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New package justifier with initial version 0.2.0
Package: justifier
Title: Human and Machine-Readable Justifications and Justified Decisions Based on 'YAML'
Version: 0.2.0
Authors@R: c( person(given = "Gjalt-Jorn Ygram", family = "Peters", role = c("aut", "cre"), email = "gjalt-jorn@behaviorchange.eu", comment = c(ORCID = "0000-0002-0336-9589")), person(given = "Szilvia", family = "Zorgo", role = c("ctb"), comment = c(ORCID = "0000-0002-6916-2097")))
Maintainer: Gjalt-Jorn Ygram Peters <gjalt-jorn@behaviorchange.eu>
Description: Leverages the 'yum' package to implement a 'YAML' ('YAML Ain't Markup Language', a human friendly standard for data serialization; see <https:yaml.org>) standard for documenting justifications, such as for decisions taken during the planning, execution and analysis of a study or during the development of a behavior change intervention as illustrated by Marques & Peters (2019) <doi:10.17605/osf.io/ndxha>. These justifications are both human- and machine-readable, facilitating efficient extraction and organisation.
License: GPL (>= 2)
Encoding: UTF-8
URL: https://r-packages.gitlab.io/justifier
BugReports: https://gitlab.com/r-packages/justifier/-/issues
Imports: data.tree (>= 0.7.8), DiagrammeR (>= 1.0.0), DiagrammeRsvg (>= 0.1), purrr (>= 0.3.0), yaml (>= 2.2.0), yum (>= 0.0.1)
Suggests: covr, here, knitr, rmarkdown, testthat
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-11 09:39:31 UTC; micro
Author: Gjalt-Jorn Ygram Peters [aut, cre] (<https://orcid.org/0000-0002-0336-9589>), Szilvia Zorgo [ctb] (<https://orcid.org/0000-0002-6916-2097>)
Repository: CRAN
Date/Publication: 2021-07-12 08:00:02 UTC

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New package gsDesign with initial version 3.2.1
Package: gsDesign
Version: 3.2.1
Title: Group Sequential Design
Description: Derives group sequential clinical trial designs and describes their properties. Particular focus on time-to-event, binary and continuous outcomes. Largely based on methods described in Jennison, Christopher and Turnbull, Bruce W., 2000, "Group Sequential Methods with Applications to Clinical Trials" ISBN: 0-8493-0316-8.
Authors@R: person(given = "Keaven", family = "Anderson", email = "keaven_anderson@merck.com", role = c('aut','cre'))
Depends: R (>= 3.5.0), ggplot2 (>= 0.9.2)
License: GPL (>= 3)
Imports: stats, magrittr, rlang, methods, graphics, tools, dplyr, tidyr, xtable
Suggests: knitr, scales, rmarkdown, gt, testthat, covr, gridExtra, tibble, utils, mvtnorm
VignetteBuilder: knitr
Copyright: Copyright 2010, Merck Research Laboratories
Encoding: UTF-8
NeedsCompilation: yes
Packaged: 2021-07-11 09:56:37 UTC; keaven
Author: Keaven Anderson [aut, cre]
Maintainer: Keaven Anderson <keaven_anderson@merck.com>
Repository: CRAN
Date/Publication: 2021-07-12 08:00:05 UTC

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New package baggingbwsel with initial version 1.0
Package: baggingbwsel
Title: Bagging Bandwidth Selection in Kernel Density and Regression Estimation
Version: 1.0
Date: 2021-07-08
Authors@R: c(person("Daniel","Barreiro-Ures",email="daniel.barreiro.ures@udc.es",role=c("aut","cre")), person("Jeffrey","Hart",role="aut"), person("Ricardo","Cao",role="aut"), person("Mario","Francisco-Fernandez",role="aut"))
Description: Bagging bandwidth selection methods for the Parzen-Rosenblatt and Nadaraya-Watson estimators. These bandwidth selectors can achieve greater statistical precision than their non-bagged counterparts while being computationally fast. See Barreiro-Ures et al. (2020) <doi:10.1093/biomet/asaa092> and Barreiro-Ures et al. (2021) <arXiv:2105.04134>.
License: GPL-3
Encoding: UTF-8
Depends: mclust, foreach
Imports: Rcpp (>= 1.0.3), parallel, doParallel, kedd, stats, sm, nor1mix, rgl, rpanel, tkrplot, misc3d
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2021-07-09 09:26:06 UTC; dbu52
Author: Daniel Barreiro-Ures [aut, cre], Jeffrey Hart [aut], Ricardo Cao [aut], Mario Francisco-Fernandez [aut]
Maintainer: Daniel Barreiro-Ures <daniel.barreiro.ures@udc.es>
Repository: CRAN
Date/Publication: 2021-07-12 07:20:02 UTC

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New package aftgee with initial version 1.1.6
Package: aftgee
Title: Accelerated Failure Time Model with Generalized Estimating Equations
Version: 1.1.6
Authors@R: c(person("Sy Han", "Chiou", email = "schiou@utdallas.edu", role = c("aut", "cre")), person("Sangwook", "Kang", role = "aut"), person("Jun", "Yan", role = "aut"))
Description: A collection of methods for both the rank-based estimates and least-square estimates to the Accelerated Failure Time (AFT) model. For rank-based estimation, it provides approaches that include the computationally efficient Gehan's weight and the general's weight such as the logrank weight. Details of the rank-based estimation can be found in Chiou et al. (2014) <doi:10.1007/s11222-013-9388-2> and Chiou et al. (2015) <doi:10.1002/sim.6415>. For the least-square estimation, the estimating equation is solved with generalized estimating equations (GEE). Moreover, in multivariate cases, the dependence working correlation structure can be specified in GEE's setting. Details on the least-squares estimation can be found in Chiou et al. (2014) <doi:10.1007/s10985-014-9292-x>.
Depends: R (>= 3.4.0)
License: GPL (>= 3)
URL: https://github.com/stc04003/aftgee
BugReports: https://github.com/stc04003/aftgee/issues
Encoding: UTF-8
LazyLoad: yes
Imports: methods, parallel, geepack, survival, BB, MASS
NeedsCompilation: yes
Packaged: 2021-07-11 23:13:04 UTC; schiou
Author: Sy Han Chiou [aut, cre], Sangwook Kang [aut], Jun Yan [aut]
Maintainer: Sy Han Chiou <schiou@utdallas.edu>
Repository: CRAN
Date/Publication: 2021-07-12 08:00:10 UTC

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Sun, 11 Jul 2021

New package mcglm with initial version 0.7.0
Package: mcglm
Title: Multivariate Covariance Generalized Linear Models
Version: 0.7.0
Date: 2021-07-07
Author: Wagner Hugo Bonat [aut, cre], Walmes Marques Zeviani [ctb], Fernando de Pol Mayer [ctb]
Maintainer: Wagner Hugo Bonat <wbonat@ufpr.br>
Authors@R: c(person(c("Wagner","Hugo"), "Bonat", role = c("aut", "cre"), email = "wbonat@ufpr.br"), person(c("Walmes","Marques"), "Zeviani", role = "ctb"), person(c("Fernando", "de Pol"), "Mayer", role = "ctb"))
Description: Fitting multivariate covariance generalized linear models (McGLMs) to data. McGLM is a general framework for non-normal multivariate data analysis, designed to handle multivariate response variables, along with a wide range of temporal and spatial correlation structures defined in terms of a covariance link function combined with a matrix linear predictor involving known matrices. The models take non-normality into account in the conventional way by means of a variance function, and the mean structure is modelled by means of a link function and a linear predictor. The models are fitted using an efficient Newton scoring algorithm based on quasi-likelihood and Pearson estimating functions, using only second-moment assumptions. This provides a unified approach to a wide variety of different types of response variables and covariance structures, including multivariate extensions of repeated measures, time series, longitudinal, spatial and spatio-temporal structures. The package offers a user-friendly interface for fitting McGLMs similar to the glm() R function. See Bonat (2018) <doi:10.18637/jss.v084.i04>, for more information and examples.
Depends: R (>= 4.1.0)
Suggests: testthat, knitr, rmarkdown, MASS, mvtnorm, tweedie, devtools
Imports: stats, Matrix, assertthat, graphics, Rcpp (>= 0.12.16)
License: GPL-3 | file LICENSE
LazyData: TRUE
URL: http://mcglm.leg.ufpr.br/
BugReports: https://github.com/wbonat/mcglm/issues
Encoding: UTF-8
VignetteBuilder: knitr
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2021-07-11 01:53:02 UTC; wagner
Repository: CRAN
Date/Publication: 2021-07-11 07:40:08 UTC

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Sat, 10 Jul 2021

New package portfolio with initial version 0.5-2
Package: portfolio
Title: Analysing Equity Portfolios
Version: 0.5-2
Date: 2021-07-09
Authors@R: c( person( "Jeff", "Enos", role="aut", email="jeff@kanecap.com"), person( "David", "Kane", role="aut", email="dave@kanecap.com"), person( "Daniel", "Gerlanc", role=c("aut", "cre"), email="dan@gerlanc.com"), person( "Kyle", "Campbell", role="ctb", email="Kyle.W.Campbell@williams.edu"))
Description: Classes for analysing and implementing equity portfolios, including routines for generating tradelists and calculating exposures to user-specified risk factors.
Depends: R (>= 3.0), graphics, grid, lattice, methods
Imports: grDevices, nlme, stats, utils
License: GPL (>= 2)
URL: https://github.com/dgerlanc/portfolio
BugReports: https://github.com/dgerlanc/portfolio/issues
LazyLoad: yes
NeedsCompilation: no
Packaged: 2021-07-09 13:05:32 UTC; dgerlanc
Author: Jeff Enos [aut], David Kane [aut], Daniel Gerlanc [aut, cre], Kyle Campbell [ctb]
Maintainer: Daniel Gerlanc <dan@gerlanc.com>
Repository: CRAN
Date/Publication: 2021-07-10 16:30:05 UTC

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New package mplot with initial version 1.0.6
Package: mplot
Title: Graphical Model Stability and Variable Selection Procedures
Version: 1.0.6
Date: 2021-07-10
Authors@R: c(person("Garth", "Tarr", role = c("aut", "cre"), email = "garth.tarr@gmail.com", comment = c(ORCID = "0000-0002-6605-7478")), person("Samuel", "Mueller", role = "aut", email = "samuel.mueller@sydney.edu.au", comment = c(ORCID = "0000-0002-3087-8127")), person("Alan H", "Welsh", role = "aut", email = "alan.welsh@anu.edu.au", comment = c(ORCID = "0000-0002-3165-9559")))
Description: Model stability and variable inclusion plots [Mueller and Welsh (2010, <doi:10.1111/j.1751-5823.2010.00108.x>); Murray, Heritier and Mueller (2013, <doi:10.1002/sim.5855>)] as well as the adaptive fence [Jiang et al. (2008, <doi:10.1214/07-AOS517>); Jiang et al. (2009, <doi:10.1016/j.spl.2008.10.014>)] for linear and generalised linear models.
License: GPL (>= 2)
Suggests: knitr, mvoutlier, glmulti, rmarkdown, DT, MASS
Imports: leaps, foreach, parallel, bestglm, doParallel, doRNG, plyr, shinydashboard, shiny, glmnet, graphics, stats, googleVis, ggplot2, reshape2, scales, dplyr, tidyr, magrittr
URL: https://garthtarr.github.io/mplot/, https://github.com/garthtarr/mplot
LazyData: TRUE
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-10 10:37:12 UTC; garthtarr
Author: Garth Tarr [aut, cre] (<https://orcid.org/0000-0002-6605-7478>), Samuel Mueller [aut] (<https://orcid.org/0000-0002-3087-8127>), Alan H Welsh [aut] (<https://orcid.org/0000-0002-3165-9559>)
Maintainer: Garth Tarr <garth.tarr@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-10 16:20:02 UTC

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New package GEInter with initial version 0.3.1
Package: GEInter
Title: Robust Gene-Environment Interaction Analysis
Version: 0.3.1
Authors@R: c(person("Mengyun", "Wu", role=c("aut"), email = "wu.mengyun@mail.shufe.edu.cn"), person("Xing", "Qin", role=c("aut","cre"), email = "qin.xing@163.sufe.edu.cn"), person("Shuangge", "Ma", role=c("aut"), email = "shuangge.ma@yale.edu"))
Maintainer: Xing Qin <qin.xing@163.sufe.edu.cn>
Description: For the risk, progression, and response to treatment of many complex diseases, it has been increasingly recognized that gene-environment interactions play important roles beyond the main genetic and environmental effects. In practical interaction analyses, outliers in response variables and covariates are not uncommon. In addition, missingness in environmental factors is routinely encountered in epidemiological studies. The developed package consists of five robust approaches to address the outliers problems, among which two approaches can also accommodate missingness in environmental factors. Both continuous and right censored responses are considered. The proposed approaches are based on penalization and sparse boosting techniques for identifying important interactions, which are realized using efficient algorithms. Beyond the gene-environment analysis, the developed package can also be adopted to conduct analysis on interactions between other types of low-dimensional and high-dimensional data. (Mengyun Wu et al (2017), <doi:10.1080/00949655.2018.1523411>; Mengyun Wu et al (2017), <doi:10.1002/gepi.22055>; Yaqing Xu et al (2018), <doi:10.1080/00949655.2018.1523411>; Yaqing Xu et al (2019), <doi:10.1016/j.ygeno.2018.07.006>; Mengyun Wu et al (2021), <doi:10.1093/bioinformatics/btab318>).
License: GPL-2
Encoding: UTF-8
LazyData: true
Imports: survAUC, MASS, splines, pcaPP, Hmisc, survival, quantreg, reshape2, ggplot2, stats, graphics
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2021-07-10 15:53:57 UTC; Administrator
Author: Mengyun Wu [aut], Xing Qin [aut, cre], Shuangge Ma [aut]
Repository: CRAN
Date/Publication: 2021-07-10 16:20:05 UTC

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New package NetLogoR with initial version 0.3.8
Package: NetLogoR
Title: Build and Run Spatially Explicit Agent-Based Models
Description: Build and run spatially explicit agent-based models using only the R platform. 'NetLogoR' follows the same framework as the 'NetLogo' software (Wilensky, 1999 <http://ccl.northwestern.edu/netlogo/>) and is a translation in R of the structure and functions of 'NetLogo'. 'NetLogoR' provides new R classes to define model agents and functions to implement spatially explicit agent-based models in the R environment. This package allows benefiting of the fast and easy coding phase from the highly developed 'NetLogo' framework, coupled with the versatility, power and massive resources of the R software. Examples of three models (Ants <http://ccl.northwestern.edu/netlogo/models/Ants>, Butterfly (Railsback and Grimm, 2012) and Wolf-Sheep-Predation <http://ccl.northwestern.edu/netlogo/models/WolfSheepPredation>) written using 'NetLogoR' are available. The 'NetLogo' code of the original version of these models is provided alongside. A programming guide inspired from the 'NetLogo' Programming Guide (<https://ccl.northwestern.edu/netlogo/docs/programming.html>) and a dictionary of 'NetLogo' primitives (<https://ccl.northwestern.edu/netlogo/docs/dictionary.html>) equivalences are also available. NOTE: To increment 'time', these functions can use a for loop or can be integrated with a discrete event simulator, such as 'SpaDES' (<https://cran.r-project.org/package=SpaDES>). The suggested package 'fastshp' can be installed with 'install.packages("fastshp", repos = "https://rforge.net", type = "source")'.
URL: https://netlogor.predictiveecology.org, https://github.com/PredictiveEcology/NetLogoR/, https://groups.google.com/g/netlogor
Version: 0.3.8
Date: 2021-07-09
Authors@R: c( person("Sarah", "Bauduin", email = "sarahbauduin@hotmail.fr", role = c("aut"), comment = c(ORCID = "0000-0002-3252-5894")), person("Eliot J B", "McIntire", email = "eliot.mcintire@canada.ca", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-6914-8316")), person("Alex M", "Chubaty", email = "achubaty@for-cast.ca", role = c("aut"), comment = c(ORCID = "0000-0001-7146-8135")), person(paste("Her Majesty the Queen in Right of Canada,", "as represented by the Minister of Natural Resources Canada"), role = "cph") )
Depends: R (>= 3.6), raster
Imports: abind, car, CircStats, data.table, grDevices, Hmisc, matrixStats, methods, plyr, quickPlot (>= 0.1.2), sp, SpaDES.tools, stats, rgeos
Suggests: fastshp, knitr, magrittr, microbenchmark, rmarkdown, sf, SpaDES.core, testthat
Additional_repositories: https://rforge.net
BugReports: https://github.com/PredictiveEcology/NetLogoR/issues
ByteCompile: yes
Encoding: UTF-8
License: GPL-3
Language: en-US
VignetteBuilder: knitr, rmarkdown
Collate: 'Agent-classes.R' 'NetLogoR-package.R' 'worldNLR-classes-methods.R' 'agentMatrix-Class-methods.R' 'agentset-functions.R' 'function-arguments.R' 'patch-functions.R' 'plot.R' 'world-functions.R' 'quickPlot.R' 'spades-functions.R' 'turtle-functions.R'
NeedsCompilation: no
Packaged: 2021-07-09 20:29:00 UTC; achubaty
Author: Sarah Bauduin [aut] (<https://orcid.org/0000-0002-3252-5894>), Eliot J B McIntire [aut, cre] (<https://orcid.org/0000-0002-6914-8316>), Alex M Chubaty [aut] (<https://orcid.org/0000-0001-7146-8135>), Her Majesty the Queen in Right of Canada, as represented by the Minister of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Repository: CRAN
Date/Publication: 2021-07-10 10:40:02 UTC

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Fri, 09 Jul 2021

New package VancouvR with initial version 0.1.6
Package: VancouvR
Title: Access the 'City of Vancouver' Open Data API
Version: 0.1.6
Author: Jens von Bergmann
Maintainer: Jens von Bergmann <jens@mountainmath.ca>
Description: Wrapper around the 'City of Vancouver' Open Data API <https://opendata.vancouver.ca/api/v2/console> to simplify and standardize access to 'City of Vancouver' open data. Functionality to list the data catalogue and access data and geographic records.
License: MIT + file LICENSE
Encoding: UTF-8
NeedsCompilation: no
Imports: dplyr, httr, rlang, urltools, readr, digest, sf, tibble, purrr
Suggests: knitr, rmarkdown, ggplot2, lwgeom, tidyr
VignetteBuilder: knitr
URL: https://github.com/mountainMath/VancouvR, https://mountainmath.github.io/VancouvR/
BugReports: https://github.com/mountainMath/VancouvR/issues
Packaged: 2021-07-08 23:36:30 UTC; jens
Repository: CRAN
Date/Publication: 2021-07-09 23:00:09 UTC

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New package warabandi with initial version 0.1.0
Package: warabandi
Title: Roster Generation of Turn for Weekdays:'warabandi'
Version: 0.1.0
Author: Harvinder Singh
Maintainer: Harvinder Singh <harvindermaan4@gmail.com>
Description: It generates the roster of turn for an outlet which is flowing (water) 24X7 or 168 hours towards the area under command or agricutural area (to be irrigated). The area under command is differentially owned by different individual farmers. The Outlet runs for free of cost to irrigate the area under command 24X7. So, flow time of the outlet has to be divided based on an area owned by an individual farmer and the location of his land or farm. This roster is known as 'warabandi' and its generation in agriculture practices is a very tedious task. Calculations of time in microseconds are more error-prone, especially whenever it is performed by hands. That division of flow time for an individual farmer can be calculated by 'warabandi'. However, it generates a full publishable report for an outlet and all the farmers who have farms subjected to be irrigated. It reduces error risk and makes a more reproducible roster. For more details about warabandi system you can found elsewhere in Bandaragoda DJ(1995) <https://publications.iwmi.org/pdf/H_17571i.pdf>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: lubridate, utils, readtext, flextable
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2021-07-08 11:34:51 UTC; harrymaan
Repository: CRAN
Date/Publication: 2021-07-09 08:20:02 UTC

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New package twoxtwo with initial version 0.1.0
Package: twoxtwo
Title: Work with Two-by-Two Tables
Version: 0.1.0
Authors@R: c(person("VP", "Nagraj", role = c("aut", "cre"), email = "nagraj@nagraj.net"))
Maintainer: VP Nagraj <nagraj@nagraj.net>
Description: A collection of functions for data analysis with two-by-two contingency tables. The package provides tools to compute measures of effect (odds ratio, risk ratio, and risk difference), calculate impact numbers and attributable fractions, and perform hypothesis testing. Statistical analysis methods are oriented towards epidemiological investigation of relationships between exposures and outcomes.
Imports: dplyr, tidyr, forcats, magrittr, rlang, knitr
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: testthat, lifecycle, rmarkdown, ggplot2, purrr
Depends: R (>= 2.10)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-07-08 22:40:00 UTC; vpnagraj
Author: VP Nagraj [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-09 09:00:02 UTC

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New package SeqNet with initial version 1.1.3
Package: SeqNet
Title: Generate RNA-Seq Data from Gene-Gene Association Networks
Version: 1.1.3
Authors@R: c(person("Tyler", "Grimes", role = c("aut", "cre"), email = "tyler.grimes@unf.edu"), person("Somnath", "Datta", role = c("aut")))
Author: Tyler Grimes [aut, cre], Somnath Datta [aut]
Maintainer: Tyler Grimes <tyler.grimes@unf.edu>
Description: Methods to generate random gene-gene association networks and simulate RNA-seq data from them, as described in Grimes and Datta (2021) <doi:10.18637/jss.v098.i12>. Includes functions to generate random networks of any size and perturb them to obtain differential networks. Network objects are built from individual, overlapping modules that represent pathways. The resulting network has various topological properties that are characteristic of gene regulatory networks. RNA-seq data can be generated such that the association among gene expression profiles reflect the underlying network. A reference RNA-seq dataset can be provided to model realistic marginal distributions. Plotting functions are available to visualize a network, compare two networks, and compare the expression of two genes across multiple networks.
Depends: R (>= 4.0.0)
Imports: fitdistrplus, ggplot2, grDevices, graphics, igraph, mvtnorm, purrr, tibble, Rcpp, rlang, Rdpack, stats, utils, methods
Suggests: knitr, rmarkdown, testthat
RdMacros: Rdpack
License: GPL-2 | GPL-3
Encoding: UTF-8
LazyData: true
LazyDataCompression: xz
LinkingTo: Rcpp
NeedsCompilation: yes
Packaged: 2021-07-08 13:06:56 UTC; Grimes
Repository: CRAN
Date/Publication: 2021-07-09 08:20:08 UTC

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New package RamanMP with initial version 1.0
Package: RamanMP
Title: Analysis and Identification of Raman Spectra of Microplastics
Version: 1.0
Author: Veronica Nava [aut, cre], Maria Luce Frezzotti [ctb], Barbara Leoni [ctb]
Maintainer: Veronica Nava <veronicanava245@gmail.com>
Description: Pre-processing and polymer identification of Raman spectra of plastics. Pre-processing includes normalisation functions, peak identification based on local maxima, smoothing process and removal of spectral region of no interest. Polymer identification can be performed using Pearson correlation coefficient or Euclidean distance (Renner et al. (2019), <doi:10.1016/j.trac.2018.12.004>), and the comparison can be done with a user-defined database or with the database already implemented in the package, which currently includes 356 spectra, with several spectra of plastic colorants.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Imports: ggplot2, dplyr, ggrepel, imputeTS
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2021-07-08 05:38:43 UTC; veronica
Repository: CRAN
Date/Publication: 2021-07-09 08:10:04 UTC

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New package Rage with initial version 1.1.0
Package: Rage
Title: Life History Metrics from Matrix Population Models
Version: 1.1.0
Authors@R: c( person(given = "Patrick", family = "Barks", email = "barks@biology.sdu.dk", role = "aut", comment = c(ORCID = "0000-0002-5947-8151")), person(given = "Danny", family = "Buss", email = "dlb50@cam.ac.uk", role = "ctb"), person(given = "Pol", family = "Capdevila", email = "pcapdevila.pc@gmail.com", role = "aut", comment = c(ORCID = "0000-0002-2842-4302")), person(given = "Hal", family = "Caswell", email = "h.caswell@uva.nl", role = "aut", comment = c(ORCID = "0000-0003-4394-6894")), person(given = c("Judy", "P."), family = "Che-Castaldo", email = "jchecastaldo@lpzoo.org", role = "aut", comment = c(ORCID = "0000-0002-9118-9202")), person(given = "John", family = "Jackson", email = "jjackson0308@gmail.com", role = "aut", comment = c(ORCID = "0000-0002-4563-2840")), person(given = "Tamora", family = "James", email = "tamoradjames@protonmail.com", role = "aut", comment = c(ORCID = "0000-0003-1363-4742")), person(given = "Owen", family = "Jones", email = "jones@biology.sdu.dk", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-5720-4686")), person(given = "Sam", family = "Levin", role = "aut", email = "levisc8@gmail.com", comment = c(ORCID = "0000-0002-3289-9925")), person(given = "William K.", family = "Petry", email = "wpetry@ncsu.edu", role = "aut", comment = c(ORCID = "0000-0002-5230-5987")), person(given = "Roberto", family = "Salguero-Gomez", email = "rob.salguero@zoo.ox.ac.uk", role = "aut", comment = c(ORCID = "0000-0002-6085-4433")), person(given = "Caroline", family = "Schuette", email = "cschuette17@gmail.com", role = "ctb", comment = c(ORCID = "0000-0002-2063-8736")), person(given = "Iain", family = "Stott", email = "stott@biology.sdu.dk", role = "aut", comment = c(ORCID = "0000-0003-2724-7436")), person(given = c("Chelsea", "C."), family = "Thomas", email = "esochels@gmail.com", role = "aut", comment = c(ORCID = "0000-0002-8155-9353")))
Description: Functions for calculating life history metrics using matrix population models ('MPMs'). Described in Jones et al. (2021) <doi:10.1101/2021.04.26.441330>.
URL: https://github.com/jonesor/Rage
BugReports: https://github.com/jonesor/Rage/issues
License: GPL-3
Imports: popbio, popdemo, MASS, DiagrammeR, Rcompadre
Encoding: UTF-8
LazyData: true
Depends: R(>= 3.5.0)
Suggests: spelling, ggplot2, knitr, rmarkdown, testthat, covr
VignetteBuilder: knitr
Language: en-GB
Config/testthat/parallel: true
NeedsCompilation: no
Packaged: 2021-07-08 18:23:52 UTC; jones
Author: Patrick Barks [aut] (<https://orcid.org/0000-0002-5947-8151>), Danny Buss [ctb], Pol Capdevila [aut] (<https://orcid.org/0000-0002-2842-4302>), Hal Caswell [aut] (<https://orcid.org/0000-0003-4394-6894>), Judy P. Che-Castaldo [aut] (<https://orcid.org/0000-0002-9118-9202>), John Jackson [aut] (<https://orcid.org/0000-0002-4563-2840>), Tamora James [aut] (<https://orcid.org/0000-0003-1363-4742>), Owen Jones [aut, cre] (<https://orcid.org/0000-0001-5720-4686>), Sam Levin [aut] (<https://orcid.org/0000-0002-3289-9925>), William K. Petry [aut] (<https://orcid.org/0000-0002-5230-5987>), Roberto Salguero-Gomez [aut] (<https://orcid.org/0000-0002-6085-4433>), Caroline Schuette [ctb] (<https://orcid.org/0000-0002-2063-8736>), Iain Stott [aut] (<https://orcid.org/0000-0003-2724-7436>), Chelsea C. Thomas [aut] (<https://orcid.org/0000-0002-8155-9353>)
Maintainer: Owen Jones <jones@biology.sdu.dk>
Repository: CRAN
Date/Publication: 2021-07-09 08:50:02 UTC

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New package NMdata with initial version 0.0.8
Package: NMdata
Title: Preparation, Checking and Post-Processing Data for PK/PD Modeling
Version: 0.0.8
Authors@R: person("Philip", "Delff", email = "philip@delff.dk", role = c("aut", "cre"))
Maintainer: Philip Delff <philip@delff.dk>
Description: Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem. Helps with trivial but tedious tasks and tries to identify errors to save time on debugging. Implemented in 'data.table', but easily integrated with 'base' and 'tidyverse'.
License: MIT + file LICENSE
Depends: R (>= 3.0.0)
Imports: data.table
Suggests: testthat, knitr, rmarkdown, ggplot2, tibble, covr
VignetteBuilder: knitr
Encoding: UTF-8
URL: https://philipdelff.github.io/NMdata/
BugReports: https://github.com/philipdelff/NMdata/issues
NeedsCompilation: no
Packaged: 2021-07-08 23:12:53 UTC; delff
Author: Philip Delff [aut, cre]
Repository: CRAN
Date/Publication: 2021-07-09 08:30:10 UTC

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New package maat with initial version 1.0.2
Package: maat
Title: Multiple Administrations Adaptive Testing
Version: 1.0.2
Date: 2021-07-08
Authors@R: c( person("Seung W.", "Choi", email = "schoi@austin.utexas.edu", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-4777-5420")), person("Sangdon", "Lim", email = "sangdonlim@utexas.edu", role = "aut", comment = c(ORCID = "0000-0002-2988-014X")), person("Luping", "Niu", email = "lupingniu@utexas.edu", role = "aut", comment = c(ORCID = "0000-0003-3696-1180")), person("Sooyong", "Lee", email = "sooyongl09@utexas.edu", role = "aut", comment = c(ORCID = "0000-0002-7964-4508")), person("M. Christina", "Schneider", email = "christina.schneider@nwea.org", role = "ctb"), person("Jay", "Lee", email = "jay.lee@nwea.org", role = "ctb"), person("Garron", "Gianopulos", email = "garron.gianopulos@nwea.org", role = "ctb"))
Maintainer: Seung W. Choi <schoi@austin.utexas.edu>
Description: Provides an extension of the shadow-test approach to computerized adaptive testing (CAT) implemented in the 'TestDesign' package for the assessment framework involving multiple tests administered periodically throughout the year. This framework is referred to as the Multiple Administrations Adaptive Testing (MAAT) and supports multiple item pools vertically scaled and multiple phases (stages) of CAT within each test. Between phases and tests, transitioning from one item pool (and associated constraints) to another is allowed as deemed necessary to enhance the quality of measurement.
URL: https://choi-phd.github.io/maat/
BugReports: https://github.com/choi-phd/maat/issues/
License: GPL (>= 2)
Depends: R (>= 3.5.0)
biocViews:
Imports: TestDesign (>= 1.2.0), readxl, Rdpack, methods, MASS, diagram
Suggests: testthat (>= 3.0.0), rmarkdown, knitr, kableExtra
VignetteBuilder: knitr
Encoding: UTF-8
LazyData: true
RdMacros: Rdpack
Collate: 'import.R' 'module_class.R' 'module_functions.R' 'administered_functions.R' 'datasets.R' 'examinee_class.R' 'examinee_updaters.R' 'extensions.R' 'module_structure_operators.R' 'package.R' 'sim_functions.R' 'plot_functions.R' 'print_functions.R' 'prior_functions.R' 'routing_functions.R' 'show_functions.R'
NeedsCompilation: no
Packaged: 2021-07-08 16:34:57 UTC; chois1
Author: Seung W. Choi [aut, cre] (<https://orcid.org/0000-0003-4777-5420>), Sangdon Lim [aut] (<https://orcid.org/0000-0002-2988-014X>), Luping Niu [aut] (<https://orcid.org/0000-0003-3696-1180>), Sooyong Lee [aut] (<https://orcid.org/0000-0002-7964-4508>), M. Christina Schneider [ctb], Jay Lee [ctb], Garron Gianopulos [ctb]
Repository: CRAN
Date/Publication: 2021-07-09 08:30:02 UTC

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New package geovol with initial version 1.0
Package: geovol
Title: Geopolitical Volatility (GEOVOL) Modelling
Version: 1.0
Date: 2021-07-08
Author: Susana Campos-Martins [aut, cre]
Maintainer: Susana Campos-Martins <susana.martins@nuffield.ox.ac.uk>
Description: Simulation, estimation and inference for the geopolitical volatility (GEOVOL) model of Engle and Campos-Martins (2020) <doi:10.2139/ssrn.3685213>, where GEOVOL is modelled as a latent multiplicative volatility factor with heterogeneous factor loadings. Estimation is carried out as a maximization-maximization procedure, where GEOVOL and the GEOVOL loadings are estimated iteratively until convergence.
License: GPL (>= 2)
Depends: R (>= 3.5.0), zoo
URL: https://sites.google.com/site/susanacamposmartins/
NeedsCompilation: no
Packaged: 2021-07-08 16:48:21 UTC; susana.camposmartins
Repository: CRAN
Date/Publication: 2021-07-09 08:30:05 UTC

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New package figpatch with initial version 0.1.0.1
Package: figpatch
Title: Easily Arrange External Figures with Patchwork Alongside 'ggplot2' Figures
Version: 0.1.0.1
Authors@R: person(given = "Brady", family = "Johnston", role = c("aut", "cre"), email = "brady.johnston@me.com", comment = c(ORCID = "0000-0001-6301-2269"))
Description: For including external figures into an assembled {patchwork}. This enables the creation of more complex figures that include images alongside plots.
License: MIT + file LICENSE
URL: https://github.com/BradyAJohnston/figpatch
BugReports: https://github.com/BradyAJohnston/figpatch/issues
Imports: ggplot2, magick, patchwork
Encoding: UTF-8
Suggests: spelling, testthat (>= 3.0.0)
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-09 02:01:29 UTC; brady
Author: Brady Johnston [aut, cre] (<https://orcid.org/0000-0001-6301-2269>)
Maintainer: Brady Johnston <brady.johnston@me.com>
Repository: CRAN
Date/Publication: 2021-07-09 08:40:02 UTC

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New package fastOnlineCpt with initial version 1.0
Package: fastOnlineCpt
Title: Online Multivariate Changepoint Detection
Version: 1.0
Date: 2021-07-07
Author: Georg Hahn [aut,cre]
Maintainer: Georg Hahn <ghahn@hsph.harvard.edu>
Description: Implementation of a simple algorithm designed for online multivariate changepoint detection of a mean in sparse changepoint settings. The algorithm is based on a modified cusum statistic and guarantees control of the type I error on any false discoveries, while featuring O(1) time and O(1) memory updates per series as well as a proven detection delay.
License: GPL (>= 2)
Imports: Rdpack,methods
RdMacros: Rdpack
NeedsCompilation: no
Packaged: 2021-07-08 16:18:25 UTC; acer
Repository: CRAN
Date/Publication: 2021-07-09 08:30:07 UTC

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New package dedupewider with initial version 0.0.1
Package: dedupewider
Title: Deduplication Across Multiple Columns
Version: 0.0.1
Authors@R: person("Grzegorz", "Smoliński", role = c("aut", "cre"), email = "g.smolinski1@gmail.com")
Description: Duplicated data can exist in different rows and columns and user may need to treat observations (rows) connected by duplicated data as one observation, e.g. companies can belong to one family (and thus: be one company) by sharing some telephone numbers. This package provides a function to find connected rows based on data on chosen columns and collapse it into one row.
License: MIT + file LICENSE
URL: https://github.com/gsmolinski/dedupewider
BugReports: https://github.com/gsmolinski/dedupewider/issues
Depends: R (>= 3.1.0)
Imports: methods, data.table (>= 1.12.4)
Suggests: rmarkdown, knitr, kableExtra, magrittr, testthat (>= 3.0.0)
VignetteBuilder: knitr
Encoding: UTF-8
NeedsCompilation: no
Packaged: 2021-07-08 06:33:35 UTC; gsmolinski
Author: Grzegorz Smoliński [aut, cre]
Maintainer: Grzegorz Smoliński <g.smolinski1@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-09 08:10:02 UTC

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New package dbcsp with initial version 0.0.1.0
Package: dbcsp
Title: Distance-Based Common Spatial Patterns
Version: 0.0.1.0
Authors@R: c(person("Itziar","Irigoien", email="itziar.irigoien@ehu.eus", role="aut"), person("Concepción","Arenas", email="carenas@ub.edu", role="aut"), person("Itsaso", "Rodríguez-Moreno",email="itsaso.rodriguez@ehu.eus",role=c("cre","aut")))
Maintainer: Itsaso Rodríguez-Moreno <itsaso.rodriguez@ehu.eus>
Description: A way to apply Distance-Based Common Spatial Patterns (DB-CSP) techniques in different fields, both classical Common Spatial Patterns (CSP) as well as DB-CSP. The method is composed of two phases: applying the DB-CSP algorithm and performing a classification. The main idea behind the CSP is to use a linear transform to project data into low-dimensional subspace with a projection matrix, in such a way that each row consists of weights for signals. This transformation maximizes the variance of two-class signal matrices.The dbcsp object is created to compute the projection vectors. For exploratory and descriptive purpose, plot and boxplot functions can be used. Functions train, predict and selectQ are implemented for the classification step.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Imports: plyr, parallelDist, Matrix, geigen, caret, MASS, stats, ggplot2, methods
Depends: R (>= 2.10), TSdist (>= 3.7)
NeedsCompilation: no
Packaged: 2021-07-08 17:10:20 UTC; bee
Author: Itziar Irigoien [aut], Concepción Arenas [aut], Itsaso Rodríguez-Moreno [cre, aut]
Repository: CRAN
Date/Publication: 2021-07-09 08:40:05 UTC

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New package beans with initial version 0.1.0
Package: beans
Title: Data on Dried Beans
Version: 0.1.0
Authors@R: person(given = "Max", family = "Kuhn", role = c("aut", "cre"), email = "mxkuhn@gmail.com", comment = c(ORCID = "0000-0003-2402-136X"))
Description: These data contain morphological image measurements for dried beans from Koklu and Ozkan (2020) <doi:10.1016/j.compag.2020.105507>.
License: MIT + file LICENSE
Depends: R (>= 2.10)
Encoding: UTF-8
LazyData: true
Suggests: spelling
Language: en-US
NeedsCompilation: no
Packaged: 2021-07-08 20:20:46 UTC; max
Author: Max Kuhn [aut, cre] (<https://orcid.org/0000-0003-2402-136X>)
Maintainer: Max Kuhn <mxkuhn@gmail.com>
Repository: CRAN
Date/Publication: 2021-07-09 09:00:08 UTC

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New package AMAPVox with initial version 0.1.0
Package: AMAPVox
Title: LiDAR Data Voxelisation
Version: 0.1.0
Authors@R: c( person("Grégoire", "Vincent", email="gregoire.vincent@ird.fr", role=c("aut")), person("Julien", "Heurtebize", email="julienhtbe@gmail.com", role=c("aut")), person("Philippe", "Verley", email="philippe.verley@ird.fr", role = c("aut", "cre")) )
Description: Read, manipulate and write voxel spaces. Voxel spaces are read from text-based output files of the 'AMAPVox' software. 'AMAPVox' is a LiDAR point cloud voxelisation software that aims at estimating leaf area through several theoretical/numerical approaches. See more in the article Vincent et al. (2017) <doi:10.23708/1AJNMP> and the technical note Vincent et al. (2021) <doi:10.23708/1AJNMP>.
License: CeCILL (>= 2)
Encoding: UTF-8
URL: https://github.com/umr-amap/AMAPVox
BugReports: https://github.com/umr-amap/AMAPVox/issues
Imports: methods, utils, data.table, stringr
Collate: 'AMAPVox.R' 'AMAPVoxClasses.R' 'AMAPVoxGenerics.R' 'AMAPVoxGetters.R' 'ReadVoxelSpace.R' 'WriteVoxelSpace.R'
NeedsCompilation: no
Packaged: 2021-07-08 11:03:37 UTC; pverley
Author: Grégoire Vincent [aut], Julien Heurtebize [aut], Philippe Verley [aut, cre]
Maintainer: Philippe Verley <philippe.verley@ird.fr>
Repository: CRAN
Date/Publication: 2021-07-09 08:10:07 UTC

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New package agricolaeplotr with initial version 0.2.1
Package: agricolaeplotr
Title: Visualization of Design of Experiments from the 'agricolae' Package
Version: 0.2.1
Authors@R: person(family="Harbers", given="Jens", email="jensharbers@gmail.com", role=c("aut","cre"), comment = c(ORCID = "0000-0001-6634-623X"))
Maintainer: Jens Harbers <jensharbers@gmail.com>
Description: Visualization of Design of Experiments from the 'agricolae' package with 'ggplot2' framework The user provides an experiment design from the 'agricolae' package, calls the corresponding function and will receive a visualization with 'ggplot2' based functions that are specific for each design. As there are many different designs, each design is tested on its type. The output can be modified with standard 'ggplot2' commands or with other packages with 'ggplot2' function extensions.
License: GPL (>= 3)
Encoding: UTF-8
Imports: ggplot2, agricolae, rmarkdown
Language: en-US
Suggests: testthat (>= 3.0.0), knitr
BugReports: https://github.com/jensharbers/agricolaeplotr/issues
URL: https://github.com/jensharbers/agricolaeplotr
Depends: R (>= 3.6)
VignetteBuilder: knitr
Note: 'agricolae' is a package name 'ggplot2' is a package name
NeedsCompilation: no
Packaged: 2021-07-08 16:02:56 UTC; Jens Harbers
Author: Jens Harbers [aut, cre] (<https://orcid.org/0000-0001-6634-623X>)
Repository: CRAN
Date/Publication: 2021-07-09 08:20:05 UTC

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