Wed, 02 Dec 2020

Package ordinalCont updated to version 2.0.2 with previous version 2.0.1 dated 2019-02-13

Title: Ordinal Regression Analysis for Continuous Scales
Description: A regression framework for response variables which are continuous self-rating scales such as the Visual Analog Scale (VAS) used in pain assessment, or the Linear Analog Self-Assessment (LASA) scales in quality of life studies. These scales measure subjects' perception of an intangible quantity, and cannot be handled as ratio variables because of their inherent non-linearity. We treat them as ordinal variables, measured on a continuous scale. A function (the g function) connects the scale with an underlying continuous latent variable. The link function is the inverse of the CDF of the assumed underlying distribution of the latent variable. A variety of link functions are currently implemented. Such models are described in Manuguerra et al (2020) <doi:10.18637/jss.v096.i08>.
Author: Maurizio Manuguerra [aut, cre], Gillian Heller [aut]
Maintainer: Maurizio Manuguerra <maurizio.manuguerra@mq.edu.au>

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Package spatialEco updated to version 1.3-3 with previous version 1.3-2 dated 2020-06-04

Title: Spatial Analysis and Modelling Utilities
Description: Utilities to support spatial data manipulation, query, sampling and modelling. Functions include models for species population density, download utilities for climate and global deforestation spatial products, spatial smoothing, multivariate separability, point process model for creating pseudo- absences and sub-sampling, polygon and point-distance landscape metrics, auto-logistic model, sampling models, cluster optimization, statistical exploratory tools and raster-based metrics.
Author: Jeffrey S. Evans [aut, cre], Melanie A. Murphy [ctb], Karthik Ram [ctb]
Maintainer: Jeffrey S. Evans <jeffrey_evans@tnc.org>

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Package RcppTOML updated to version 0.1.7 with previous version 0.1.6 dated 2019-06-25

Title: 'Rcpp' Bindings to Parser for Tom's Obvious Markup Language
Description: The configuration format defined by 'TOML' (which expands to "Tom's Obvious Markup Language") specifies an excellent format (described at <https://toml.io/en/>) suitable for both human editing as well as the common uses of a machine-readable format. This package uses 'Rcpp' to connect the 'cpptoml' parser written by Chase Geigle (in C++11) to R.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package qtl2pleio updated to version 1.4.3 with previous version 1.4.1 dated 2020-10-29

Title: Testing Pleiotropy in Multiparental Populations
Description: We implement an adaptation of Jiang & Zeng's (1995) <https://www.genetics.org/content/140/3/1111> likelihood ratio test for testing the null hypothesis of pleiotropy against the alternative hypothesis, two separate quantitative trait loci. The test differs from that in Jiang & Zeng (1995) <https://www.genetics.org/content/140/3/1111> and that in Tian et al. (2016) <doi:10.1534/genetics.115.183624> in that our test accommodates multiparental populations.
Author: Frederick J Boehm [aut, cre] (<https://orcid.org/0000-0002-1644-5931>)
Maintainer: Frederick J Boehm <frederick.boehm@gmail.com>

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Package genBaRcode updated to version 1.2.4 with previous version 1.2.3 dated 2020-05-08

Title: Analysis and Visualization Tools for Genetic Barcode Data
Description: Provides the necessary functions to identify and extract a selection of already available barcode constructs (Cornils, K. et al. (2014) <doi:10.1093/nar/gku081>) and freely choosable barcode designs from next generation sequence (NGS) data. Furthermore, it offers the possibility to account for sequence errors, the calculation of barcode similarities and provides a variety of visualisation tools (Thielecke, L. et al. (2017) <doi:10.1038/srep43249>).
Author: Lars Thielecke <lars.thielecke@tu-dresden.de>
Maintainer: Lars Thielecke <lars.thielecke@tu-dresden.de>

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Package fcaR updated to version 1.0.7 with previous version 1.0.6 dated 2020-11-18

Title: Formal Concept Analysis
Description: Provides tools to perform fuzzy formal concept analysis, presented in Wille (1982) <doi:10.1007/978-3-642-01815-2_23> and in Ganter and Obiedkov (2016) <doi:10.1007/978-3-662-49291-8>. It provides functions to load and save a formal context, extract its concept lattice and implications. In addition, one can use the implications to compute semantic closures of fuzzy sets and, thus, build recommendation systems.
Author: Domingo Lopez Rodriguez [aut, cre] (<https://orcid.org/0000-0002-0172-1585>), Angel Mora [aut], Jesus Dominguez [aut], Ana Villalon [aut], Ian Johnson [ctb]
Maintainer: Domingo Lopez Rodriguez <dominlopez@uma.es>

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Package brxx updated to version 0.1.1 with previous version 0.1.0 dated 2020-11-11

Title: Bayesian Test Reliability Estimation
Description: When samples contain missing data, are small, or are suspected of bias, estimation of scale reliability may not be trustworthy. A recommended solution for this common problem has been Bayesian model estimation. Bayesian methods rely on user specified information from historical data or researcher intuition to more accurately estimate the parameters. This package provides a user friendly interface for estimating test reliability. Here, reliability is modeled as a beta distributed random variable with shape parameters alpha=true score variance and beta=error variance (Tanzer & Harlow, 2020) <doi:10.1080/00273171.2020.1854082>.
Author: Joshua Ray Tanzer
Maintainer: Joshua Ray Tanzer <jtanzer@lifespan.org>

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Package gpindex updated to version 0.2.3 with previous version 0.2.1 dated 2020-11-03

Title: Generalized Price and Quantity Indexes
Description: A small package for calculating lots of different price indexes, and by extension quantity indexes. Provides tools to build and work with any type of generalized bilateral index (of which most price indexes are), along with a few important indexes that don't belong to the generalized family. Implements and extends many of the methods in Balk (2008, ISBN:978-1-107-40496-0) and ILO, IMF, OECD, Eurostat, UN, and World Bank (2004, ISBN:92-2-113699-X) for bilateral price indexes.
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <stevemartin041@gmail.com>

Diff between gpindex versions 0.2.1 dated 2020-11-03 and 0.2.3 dated 2020-12-02

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Package ggdemetra updated to version 0.2.2 with previous version 0.2.1 dated 2019-09-12

Title: 'ggplot2' Extension for Seasonal and Trading Day Adjustment with 'RJDemetra'
Description: Provides 'ggplot2' functions to return the results of seasonal and trading day adjustment made by 'RJDemetra'. 'RJDemetra' is an 'R' interface around 'JDemetra+' (<https://github.com/jdemetra/jdemetra-app>), the seasonal adjustment software officially recommended to the members of the European Statistical System and the European System of Central Banks.
Author: Alain Quartier-la-Tente [aut, cre] (<https://orcid.org/0000-0001-7890-3857>)
Maintainer: Alain Quartier-la-Tente <alain.quartier@yahoo.fr>

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Package distill updated to version 1.1 with previous version 1.0 dated 2020-10-22

Title: 'R Markdown' Format for Scientific and Technical Writing
Description: Scientific and technical article format for the web. 'Distill' articles feature attractive, reader-friendly typography, flexible layout options for visualizations, and full support for footnotes and citations.
Author: JJ Allaire [aut, cre] (<https://orcid.org/0000-0003-0174-9868>), Rich Iannone [aut], Alison Presmanes Hill [aut] (<https://orcid.org/0000-0002-8082-1890>), Yihui Xie [aut] (<https://orcid.org/0000-0003-0645-5666>), RStudio, Inc. [cph], Google LLC [ctb, cph] (https://distill.pub/guide/), Nick Williams [ctb, cph] (https://wicky.nillia.ms/headroom.js/), Denis Demchenko [ctb, cph] (https://github.com/lancedikson/bowser), The Polymer Authors [ctb, cph] (https://www.webcomponents.org/polyfills/), Gábor Csárdi [ctb, cph] (whoami), JooYoung Seo [ctb] (<https://orcid.org/0000-0002-4064-6012>)
Maintainer: JJ Allaire <jj@rstudio.com>

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Package LogConcDEAD updated to version 1.6-4 with previous version 1.6-3 dated 2019-07-12

Title: Log-Concave Density Estimation in Arbitrary Dimensions
Description: Software for computing a log-concave (maximum likelihood) estimator for i.i.d. data in any number of dimensions. For a detailed description of the method see Cule, Samworth and Stewart (2010, Journal of Royal Statistical Society Series B, <doi:10.1111/j.1467-9868.2010.00753.x>).
Author: Madeleine Cule, Robert Gramacy, Richard Samworth, Yining Chen
Maintainer: Yining Chen <Y.Chen101@lse.ac.uk>

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Package jaod updated to version 0.3.0 with previous version 0.2.0 dated 2019-09-04

Title: Directory of Open Access Journals Client
Description: Client for the Directory of Open Access Journals ('DOAJ') (<https://doaj.org/>). API documentation at <https://doaj.org/api/v1/docs>. Methods included for working with all 'DOAJ' API routes: fetch article information by identifier, search for articles, fetch journal information by identifier, and search for journals.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>), rOpenSci [fnd] (https://ropensci.org/)
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>

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New package tboot with initial version 0.2.1
Package: tboot
Title: Tilted Bootstrap
Version: 0.2.1
Authors@R: c( person( family = "Morris", given = "Nathan", email = "morris_nathan@lilly.com", role = c("aut", "cre")), person( family = "Landau", given = c("William", "Michael"), email = "will.landau@lilly.com", role = c("ctb")), person( family = "Eli Lilly and Company", role = "cph"))
Description: Creates simulated clinical trial data with realistic correlation structures and assumed efficacy levels by using a tilted bootstrap resampling approach. Samples are drawn from observed data with some samples appearing more frequently than others. May also be used for simulating from a joint Bayesian distribution along with clinical trials based on the Bayesian distribution.
License: GPL-3
Depends: R (>= 3.4.0)
Imports: stats, quadprog, kernlab
Suggests: knitr, rmarkdown, testthat, MASS, ggplot2
VignetteBuilder: knitr
URL: https://github.com/njm18/tboot
BugReports: https://github.com/njm18/tboot/issues
RoxygenNote: 7.0.2
NeedsCompilation: no
Packaged: 2020-11-30 14:28:59 UTC; c243080
Author: Nathan Morris [aut, cre], William Michael Landau [ctb], Eli Lilly and Company [cph]
Maintainer: Nathan Morris <morris_nathan@lilly.com>
Repository: CRAN
Date/Publication: 2020-12-02 16:40:02 UTC

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Package ggnewscale updated to version 0.4.4 with previous version 0.4.3 dated 2020-08-27

Title: Multiple Fill and Colour Scales in 'ggplot2'
Description: Use multiple fill and colour scales in 'ggplot2'.
Author: Elio Campitelli [cre, aut] (<https://orcid.org/0000-0002-7742-9230>)
Maintainer: Elio Campitelli <elio.campitelli@cima.fcen.uba.ar>

Diff between ggnewscale versions 0.4.3 dated 2020-08-27 and 0.4.4 dated 2020-12-02

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Package gfilmm updated to version 2.0.1 with previous version 2.0.0 dated 2020-12-01

Title: Generalized Fiducial Inference for Normal Linear Mixed Models
Description: Simulation of the generalized fiducial distribution for normal linear mixed models with interval data. Fiducial inference is somehow similar to Bayesian inference, in the sense that it is based on a distribution that represents the uncertainty about the parameters, like the posterior distribution in Bayesian statistics. It does not require a prior distribution, and it yields results close to frequentist results. Reference: Cisewski and Hannig (2012) <doi:10.1214/12-AOS1030>.
Author: Stéphane Laurent [aut, cre], Jessi Cisewski [aut, ctb] (author of the original Matlab code, <https://orcid.org/0000-0002-9656-2272>)
Maintainer: Stéphane Laurent <laurent_step@outlook.fr>

Diff between gfilmm versions 2.0.0 dated 2020-12-01 and 2.0.1 dated 2020-12-02

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Package causalweight updated to version 1.0.0 with previous version 0.2.1 dated 2020-06-15

Title: Estimation Methods for Causal Inference Based on Inverse Probability Weighting
Description: Various estimators of causal effects based on inverse probability weighting, doubly robust estimation, and double machine learning. Specifically, the package includes methods for estimating average treatment effects, direct and indirect effects in causal mediation analysis, and dynamic treatment effects. The models refer to studies of Froelich (2007) <doi:10.1016/j.jeconom.2006.06.004>, Huber (2012) <doi:10.3102/1076998611411917>, Huber (2014) <doi:10.1080/07474938.2013.806197>, Huber (2014) <doi:10.1002/jae.2341>, Froelich and Huber (2017) <doi:10.1111/rssb.12232>, Hsu, Huber, Lee, and Lettry (2020) <doi:10.1002/jae.2765>, and others.
Author: Hugo Bodory [aut, cre] (<https://orcid.org/0000-0002-3645-1204>), Martin Huber [aut] (<https://orcid.org/0000-0002-8590-9402>)
Maintainer: Hugo Bodory <hugo.bodory@unisg.ch>

Diff between causalweight versions 0.2.1 dated 2020-06-15 and 1.0.0 dated 2020-12-02

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Package APIS updated to version 1.0.1 with previous version 1.0.0 dated 2019-12-12

Title: Auto-Adaptive Parentage Inference Software Tolerant to Missing Parents
Description: Parentage assignment package. Parentage assignment is performed based on observed average Mendelian transmission probability distributions. The main function of this package is the function APIS(), which is the parentage assignment function.
Author: Ronan Griot, François Allal, Romain Morvezen, Sophie Brard-Fudulea, Pierrick Haffray, Florence Phocas and Marc Vandeputte
Maintainer: Ronan Griot <ronan.griot@gmail.com>

Diff between APIS versions 1.0.0 dated 2019-12-12 and 1.0.1 dated 2020-12-02

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Package pairwise updated to version 0.5.0-1 with previous version 0.4.5-1 dated 2020-06-05

Title: Rasch Model Parameters by Pairwise Algorithm
Description: Performs the explicit calculation -- not estimation! -- of the Rasch item parameters for dichotomous and polytomous item responses, using a pairwise comparison approach. Person parameters (WLE) are calculated according to Warm's weighted likelihood approach.
Author: Joerg-Henrik Heine <jhheine@googlemail.com>
Maintainer: Joerg-Henrik Heine <jhheine@googlemail.com>

Diff between pairwise versions 0.4.5-1 dated 2020-06-05 and 0.5.0-1 dated 2020-12-02

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Package ldaPrototype updated to version 0.3.0 with previous version 0.2.0 dated 2020-07-16

Title: Prototype of Multiple Latent Dirichlet Allocation Runs
Description: Determine a Prototype from a number of runs of Latent Dirichlet Allocation (LDA) measuring its similarities with S-CLOP: A procedure to select the LDA run with highest mean pairwise similarity, which is measured by S-CLOP (Similarity of multiple sets by Clustering with Local Pruning), to all other runs. LDA runs are specified by its assignments leading to estimators for distribution parameters. Repeated runs lead to different results, which we encounter by choosing the most representative LDA run as prototype.
Author: Jonas Rieger [aut, cre] (<https://orcid.org/0000-0002-0007-4478>)
Maintainer: Jonas Rieger <jonas.rieger@tu-dortmund.de>

Diff between ldaPrototype versions 0.2.0 dated 2020-07-16 and 0.3.0 dated 2020-12-02

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Package fakemake updated to version 1.9.0 with previous version 1.8.1 dated 2020-11-02

Title: Mock the Unix Make Utility
Description: Use R as a minimal build system. This might come in handy if you are developing R packages and can not use a proper build system. Stay away if you can (use a proper build system).
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>

Diff between fakemake versions 1.8.1 dated 2020-11-02 and 1.9.0 dated 2020-12-02

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Package csodata (with last version 1.0.2) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2020-08-14 1.0.2
2020-03-12 1.0.1.1
2020-03-09 1.0.0.1
2019-12-18 0.1.5.0

Permanent link
Package packager updated to version 1.8.0 with previous version 1.7.0 dated 2020-11-17

Title: Create, Build and Maintain Packages
Description: Helper functions for package creation, building and maintenance. Designed to work with a build system such as 'GNU make' or package 'fakemake' to help you to conditionally work through the stages of package development (such as spell checking, linting, testing, before building and checking a package).
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>

Diff between packager versions 1.7.0 dated 2020-11-17 and 1.8.0 dated 2020-12-02

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Package knitrdata updated to version 0.6.0 with previous version 0.5.2 dated 2020-10-23

Title: Data Language Engine for 'knitr' / 'rmarkdown'
Description: Implements a data language engine for incorporating data directly in 'rmarkdown' documents so that they can be made completely standalone.
Author: David M. Kaplan [aut, cre, cph] (<https://orcid.org/0000-0001-6087-359X>, dmkaplan2000)
Maintainer: David M. Kaplan <dmkaplan2000@gmail.com>

Diff between knitrdata versions 0.5.2 dated 2020-10-23 and 0.6.0 dated 2020-12-02

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New package puls with initial version 0.1.0
Package: puls
Title: Partitioning Using Local Subregions
Version: 0.1.0
Authors@R: c(person(given = "Mark", family = "Greenwood", role = "aut", email = "greenwood@montana.edu", comment = c(ORCID = "0000-0001-6933-1201")), person(given = "Tan", family = "Tran", role = c("aut", "cre"), email = "vinhtantran@gmail.com", comment = c(ORCID = "0000-0001-9881-6339")))
Description: A method of clustering functional data using subregion information of the curves. It is intended to supplement the 'fda' and 'fda.usc' packages in functional data object clustering. It also facilitates the printing and plotting of the results in a tree format and limits the partitioning candidates into a specific set of subregions.
License: GPL (>= 2)
URL: https://vinhtantran.github.io/puls/, https://github.com/vinhtantran/puls
BugReports: https://github.com/vinhtantran/puls/issues
Depends: R (>= 3.3.0)
Imports: cluster (>= 2.0.5), dplyr (>= 1.0.0), fda, fda.usc (>= 1.3.0), ggplot2, graphics, grDevices, monoClust (>= 1.2.0), purrr (>= 0.3.0), rlang (>= 0.3.0), stats, stringr (>= 0.5), tibble (>= 3.0.0), tidyr (>= 1.0.0)
Suggests: covr, knitr, lubridate, rmarkdown, testthat, vdiffr
VignetteBuilder: knitr
Config/testthat/edition: 3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-30 12:33:52 UTC; vinht
Author: Mark Greenwood [aut] (<https://orcid.org/0000-0001-6933-1201>), Tan Tran [aut, cre] (<https://orcid.org/0000-0001-9881-6339>)
Maintainer: Tan Tran <vinhtantran@gmail.com>
Repository: CRAN
Date/Publication: 2020-12-02 10:50:02 UTC

More information about puls at CRAN
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New package MicroSEC with initial version 1.1.3
Package: MicroSEC
Title: Sequence Error Filtering Pipeline for FFPE Samples
Version: 1.1.3
Authors@R: person(given = "Masachika", family = "Ikegami", role = c("aut", "cre"), email = "ikegamitky@gmail.com")
Description: Clinical sequencing of tumor is usually performed on formalin-fixed and paraffin-embedded (FFPE) samples and have many sequencing errors. We found that the majority of these errors are detected in chimeric read caused by single-strand DNA with microhomology. Our filtering pipeline focuses on the uneven distribution of the artifacts in each read and removes such errors in FFPE samples without over-eliminating the true mutations detected in fresh frozen samples.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.4.0)
RoxygenNote: 7.1.1
Imports: tidyr, openxlsx, data.table, R.utils, stringr, magrittr, dplyr, gtools, Biostrings, GenomicAlignments, Rsamtools, GenomeInfoDb, BiocGenerics
Suggests: BSgenome.Hsapiens.UCSC.hg38, BSgenome.Hsapiens.UCSC.hg19, BSgenome.Mmusculus.UCSC.mm10, knitr, rmarkdown
VignetteBuilder: knitr
URL: https://github.com/MANO-B/MicroSEC/
BugReports: https://github.com/MANO-B/MicroSEC/issues
NeedsCompilation: no
Packaged: 2020-11-30 11:40:59 UTC; ikegami
Author: Masachika Ikegami [aut, cre]
Maintainer: Masachika Ikegami <ikegamitky@gmail.com>
Repository: CRAN
Date/Publication: 2020-12-02 10:30:07 UTC

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New package LDNN with initial version 1.10
Package: LDNN
Type: Package
Title: Longitudinal Data Neural Network
Version: 1.10
Date: 2020-11-25
Author: Vasileios Karapoulios
Maintainer: Vasileios Karapoulios <billkarap123@gmail.com>
Description: This is a Neural Network regression model implementation using 'Keras', consisting of 10 Long Short-Term Memory layers that are fully connected along with the rest of the inputs.
License: GNU General Public License
RoxygenNote: 7.1.1
LazyData: true
Encoding: UTF-8
Imports: devtools, reticulate, tensorflow
Depends: keras
Suggests: testthat,knitr,rmarkdown
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-30 11:10:50 UTC; Waler
Repository: CRAN
Date/Publication: 2020-12-02 10:30:10 UTC

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New package functClust with initial version 0.1.6
Package: functClust
Title: Functional Clustering of Redundant Components of a System
Version: 0.1.6
Date: 2020-11-12
URL: https://gitlab.com/ecosols/functclust/
Type: Package
Author: Benoît Jaillard [aut, cre] (<https://orcid.org/0000-0002-5156-1866>), Philippe Deleporte [aut] (<https://orcid.org/0000-0002-2160-4888>), Michel Loreau [aut], Cyrille Violle [aut] (<https://orcid.org/0000-0002-2471-9226>)
Authors@R: c(person(given = "Benoît", family = "Jaillard", role = c("aut", "cre"), email = "benito.jaillard@wanadoo.fr", comment = c(ORCID = "0000-0002-5156-1866")), person(given = "Philippe", family = "Deleporte", role = "aut", email = "philippe.deleporte@cirad.fr", comment = c(ORCID = "0000-0002-2160-4888")), person(given = "Michel", family = "Loreau", role = "aut", email = "michel.loreau@sete.cnrs.fr"), person(given = "Cyrille", family = "Violle", role = "aut", email = "cyrille.violle@cefe.cnrs.fr", comment = c(ORCID = "0000-0002-2471-9226")))
Description: Cluster together the components that make up an interactive system on the basis of their functional redundancy for one or more collective, systemic performances. Plot the hierarchical tree of component clusters, the modelled and predicted performances of component assemblages, and other results associated with a functional clustering. Test and prioritize the significance of the different components that make up the interactive system, of the different assemblages of components that make up the dataset, and of the different performances observed on the component assemblages. The method finds application in ecology, for instance, where the system is an ecosystem, the components are organisms or species, and the systemic performance is the production of biomass or the respiration of the ecosystem. The method is extensively described in Jaillard B, Deleporte P, Loreau M, Violle C (2018) "A combinatorial analysis using observational data identifies species that govern ecosystem functioning" <doi:10.1371/journal.pone.0201135>.
License: GPL-3
Encoding: UTF-8
LazyData: true
NeedsCompilation: no
RoxygenNote: 6.1.1
Depends: R (>= 3.4.0)
Imports: stats, utils, graphics, grDevices, multcompView, clusterCrit
Suggests: testthat, rmarkdown, knitr, R.rsp
VignetteBuilder: knitr, R.rsp
Collate: 'functClust-package.R' 'data.R' 'constants.R' 'stats.R' 'tools.R' 'labelling.R' 'calibrating.R' 'predicting.R' 'clustering.R' 'validating.R' 'validating_loo.R' 'validating_jack.R' 'fclust.R' 'plot_fclust.R' 'test_fclust.R' 'boot_fclust.R' 'fexport.R'
Packaged: 2020-11-30 09:33:04 UTC; Benito
Maintainer: Benoît Jaillard <benito.jaillard@wanadoo.fr>
Repository: CRAN
Date/Publication: 2020-12-02 10:30:02 UTC

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Permanent link

New package allcontributors with initial version 0.0.2
Package: allcontributors
Title: Acknowledge all Contributors to a Project
Version: 0.0.2
Authors@R: person(given = "Mark", family = "Padgham", role = c("aut", "cre"), email = "mark.padgham@email.com")
Description: Acknowledge all contributors to a project via a single function call. The function appends to a 'README' or other specified file(s) a table with names of all individuals who contributed via code or repository issues. The package also includes several additional functions to extract and quantify contributions to any repository.
License: GPL-3
URL: https://github.com/ropenscilabs/allcontributors
BugReports: https://github.com/ropenscilabs/allcontributors/issues
Imports: cli, clipr, ghql, git2r, httr, jsonlite, magrittr
Suggests: knitr, rmarkdown, testthat, webmockr
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-GB
LazyData: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-30 12:04:43 UTC; smexus
Author: Mark Padgham [aut, cre]
Maintainer: Mark Padgham <mark.padgham@email.com>
Depends: R (>= 3.5.0)
Repository: CRAN
Date/Publication: 2020-12-02 10:50:06 UTC

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New package threesixtygiving with initial version 0.2.2
Package: threesixtygiving
Title: Download Charitable Grants from the '360Giving' Platform
Version: 0.2.2
Authors@R: person(given = "Evan", family = "Odell", role = c("aut", "cre"), email = "evanodell91@gmail.com", comment = c(ORCID='0000-0003-1845-808X'))
Description: Access open data from <https://www.threesixtygiving.org>, a database of charitable grant giving in the UK operated by '360Giving'. The package provides functions to search and retrieve data on charitable grant giving, and process that data into tidy formats. It relies on the '360Giving' data standard, described at <https://standard.threesixtygiving.org/>.
URL: https://docs.evanodell.com/threesixtygiving, https://github.com/evanodell/threesixtygiving,
BugReports: https://github.com/evanodell/threesixtygiving/issues
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: dplyr, httr, readxl, readr, jsonlite, purrr, janitor, tidyr, tidyselect, anytime, tibble, curl
RoxygenNote: 7.1.1
Suggests: covr, testthat (>= 2.1.0), knitr, rmarkdown, ggplot2, scales, stringi, ggrepel, fixerapi
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-29 10:45:27 UTC; evanodell
Author: Evan Odell [aut, cre] (<https://orcid.org/0000-0003-1845-808X>)
Maintainer: Evan Odell <evanodell91@gmail.com>
Repository: CRAN
Date/Publication: 2020-12-02 09:30:02 UTC

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New package tablesgg with initial version 0.7-1
Package: tablesgg
Version: 0.7-1
Date: 2020-11-29
Title: Presentation-Quality Tables, Displayed Using 'ggplot2'
Authors@R: c(person("Richard", "Raubertas", role=c("aut", "cre"), email="rrprf@emvt.net"))
Author: Richard Raubertas [aut, cre]
Maintainer: Richard Raubertas <rrprf@emvt.net>
License: GPL (>= 3)
Imports: ggplot2, tables, graphics, grDevices, stats, tools, utils, grid
Suggests: xtable, knitr, rmarkdown
Description: Presentation-quality tables are displayed as plots on an R graphics device. Although there are other packages that format tables for display, this package is unique in combining two features: (a) It is aware of the logical structure of the table being presented, and makes use of that for automatic layout and styling of the table. This avoids the need for most manual adjustments to achieve an attractive result. (b) It displays tables using 'ggplot2' graphics. Therefore a table can be presented anywhere a graph could be, with no more effort. External software such as LaTeX or HTML or their viewers is not required. The package provides a full set of tools to control the style and appearance of tables, including titles, footnotes and reference marks, horizontal and vertical rules, and spacing of rows and columns. Methods are included to display data frames; tables created by R's ftable(), table(), and xtabs() functions; and tables created by the 'tables' and 'xtable' packages. Methods can be added to display other table-like objects. A vignette is included that illustrates usage and options available in the package.
LazyData: yes
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-11-29 16:22:37 UTC; rfr
Repository: CRAN
Date/Publication: 2020-12-02 10:00:03 UTC

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New package shinyfilter with initial version 0.1.0
Package: shinyfilter
Type: Package
Title: Use Interdependent Filters on Table Columns in Shiny Apps
Description: Allows to connect 'selectizeInputs' widgets as filters to a 'reactable' table. As known from spreadsheet applications, column filters are interdependent, so each filter only shows the values that are really available at the moment based on the current selection in other filters. Filter values currently not available (and also those being available) can be shown via popovers or tooltips.
Version: 0.1.0
Authors@R: person("Joachim", "Zuckarelli", role = c("aut", "cre"), email = "joachim@zuckarelli.de", comment = c(ORCID="0000-0002-9280-3016"))
Maintainer: Joachim Zuckarelli <joachim@zuckarelli.de>
Depends: R (>= 3.5.0)
License: GPL-3
Imports: shiny, reactable, shinyBS, shinyjs, stringr
Repository: CRAN
BugReports: https://github.com/jsugarelli/shinyfilter/issues
URL: https://github.com/jsugarelli/shinyfilter/
Encoding: UTF-8
ByteCompile: true
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2020-11-28 13:16:40 UTC; zucka
Author: Joachim Zuckarelli [aut, cre] (<https://orcid.org/0000-0002-9280-3016>)
Date/Publication: 2020-12-02 10:00:07 UTC

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New package latentgraph with initial version 1.0
Package: latentgraph
Type: Package
Title: Functions for Graphical Model with Latent Variables
Version: 1.0
Date: 2020-11-29
Author: Yanxin Jin, Samantha Yang, Kean Ming Tan
Maintainer: Yanxin Jin <yanxinj@umich.edu>
Description: Three methods are provided to estimate graphical model with latent variables: Chandrasekaran, V., Parrilo, P. A. & Willsky, A. S. (2010) <arXiv:1008.1290>, Tan, K. M., Ning, Y., Witten, D. M. & Liu, H. (2016) <doi:10.1093/biomet/asw050> and Yanxin Jin, Yang Ning, and Kean Ming Tan (2020) (submitted).
License: GPL-3
Imports: Rcpp, pracma, glmnet, MASS, stats
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2020-11-29 21:38:39 UTC; yanxinj
Repository: CRAN
Date/Publication: 2020-12-02 10:00:11 UTC

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Package cleaner updated to version 1.5.1 with previous version 1.5.0 dated 2020-06-01

Title: Fast and Easy Data Cleaning
Description: Data cleaning functions for classes logical, factor, numeric, character, currency and Date to make data cleaning fast and easy. Relying on very few dependencies, it provides smart guessing, but with user options to override anything if needed.
Author: Matthijs S. Berends [aut, cre] (<https://orcid.org/0000-0001-7620-1800>)
Maintainer: Matthijs S. Berends <m.s.berends@umcg.nl>

Diff between cleaner versions 1.5.0 dated 2020-06-01 and 1.5.1 dated 2020-12-02

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New package AnchorRegression with initial version 0.1.0
Package: AnchorRegression
Type: Package
Title: Perform AnchorRegression
Version: 0.1.0
Author: Simon Zimmermann
Maintainer: Simon Zimmermann <zimmersi@hu-berlin.de>
Description: Performs AnchorRegression proposed by Rothenhäusler et al. 2020. The code is adapted from the original paper repository. (<https://github.com/rothenhaeusler/anchor-regression>) The code was developed independently from the authors of the paper.
License: MIT + file LICENSE
URL: https://github.com/simzim96/AnchorRegression
BugReports: https://github.com/simzim96/AnchorRegression/issues
Depends: R (>= 3.5.0)
Imports: glmnet (>= 4.0-2)
Encoding: UTF-8
RoxygenNote: 7.1.1
Suggests: knitr, rmarkdown, testthat
NeedsCompilation: no
Packaged: 2020-11-29 08:55:29 UTC; simon
Repository: CRAN
Date/Publication: 2020-12-02 09:20:02 UTC

More information about AnchorRegression at CRAN
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New package drawsample with initial version 0.1.1
Package: drawsample
Type: Package
Title: Draw Samples with the Desired Properties from a Data Set
Version: 0.1.1
Author: Kubra Atalay Kabasakal <katalay@hacettepe.edu.tr>
Maintainer: Kubra Atalay Kabasakal <katalay@hacettepe.edu.tr>
Description: A tool to sample data with the desired properties.Samples can be drawn by purposive sampling with determining distributional conditions, such as deviation from normality (skewness and kurtosis), and sample size in quantitative research studies. For purposive sampling, a researcher has something in mind and participants that fit the purpose of the study are included (Etikan,Musa, & Alkassim, 2015) <doi:10.11648/j.ajtas.20160501.11>.Purposive sampling can be useful for answering many research questions (Klar & Leeper, 2019) <doi:10.1002/9781119083771.ch21>.
License: GPL-2
Encoding: UTF-8
Imports: dplyr, lattice, tibble, psych
Suggests: rmarkdown, knitr, testthat
LazyData: true
RoxygenNote: 7.1.1
URL: https://github.com/atalay-k/drawsample
Depends: R (>= 2.10)
BugReports: https://github.com/atalay-k/drawsample/issues
NeedsCompilation: no
Packaged: 2020-11-28 18:38:48 UTC; kkata
Repository: CRAN
Date/Publication: 2020-12-02 09:00:03 UTC

More information about drawsample at CRAN
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Package canvasXpress.data updated to version 1.30.5 with previous version 1.29.0 dated 2020-08-04

Title: Datasets for the 'canvasXpress' Package
Description: Contains the prepared data that is needed for the 'shiny' application examples in the 'canvasXpress' package. This package also includes datasets used for automated 'testthat' tests. Scotto L, Narayan G, Nandula SV, Arias-Pulido H et al. (2008) <doi:10.1002/gcc.20577>. Davis S, Meltzer PS (2007) <doi:10.1093/bioinformatics/btm254>.
Author: Isaac Neuhaus [aut], Connie Brett [aut, cre], Ger Inberg [aut]
Maintainer: Connie Brett <connie@aggregate-genius.com>

Diff between canvasXpress.data versions 1.29.0 dated 2020-08-04 and 1.30.5 dated 2020-12-02

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New package tabularaster with initial version 0.6.6
Package: tabularaster
Type: Package
Title: Tidy Tools for 'Raster' Data
Version: 0.6.6
Authors@R: c( person("Michael D.", "Sumner", , "mdsumner@gmail.com", c("aut", "cre")) )
Description: Facilities to work with vector and raster data in efficient repeatable and systematic work flow. Missing functionality in existing packages is included here to allow extraction from raster data with 'simple features' and 'Spatial' types and to make extraction consistent and straightforward. Extract cell numbers from raster data and return the cells as a data frame rather than as lists of matrices or vectors. The functions here allow spatial data to be used without special handling for the format currently in use.
License: GPL-3
LazyData: TRUE
Depends: R (>= 3.2.5)
Imports: dplyr, fasterize, magrittr, raster, silicate, spatstat, tibble
RoxygenNote: 7.1.1
Encoding: UTF-8
Suggests: covr, knitr, rmarkdown, testthat (>= 2.1.0), spelling
VignetteBuilder: knitr
URL: https://github.com/hypertidy/tabularaster
BugReports: https://github.com/hypertidy/tabularaster/issues
Language: en-US
NeedsCompilation: no
Packaged: 2020-12-02 04:26:11 UTC; mdsumner
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Repository: CRAN
Date/Publication: 2020-12-02 07:50:02 UTC

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Package stream updated to version 1.4-0 with previous version 1.3-2 dated 2020-05-04

Title: Infrastructure for Data Stream Mining
Description: A framework for data stream modeling and associated data mining tasks such as clustering and classification. The development of this package was supported in part by NSF IIS-0948893 and NIH R21HG005912. Hahsler et al (2017) <doi:10.18637/jss.v076.i14>.
Author: Michael Hahsler [aut, cre, cph], Matthew Bolanos [aut, cph], John Forrest [ctb], Matthias Carnein [ctb], Dennis Assenmacher [ctb], Dalibor Krleža [ctb]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

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Package rnpn updated to version 1.1.1 with previous version 0.1.0 dated 2016-04-20

Title: Interface to the National 'Phenology' Network 'API'
Description: Programmatic interface to the Web Service methods provided by the National 'Phenology' Network (<https://usanpn.org/>), which includes data on various life history events that occur at specific times.
Author: Lee Marsh [aut, cre], Scott Chamberlain [aut], Alyssa Rosemartin [aut], Kevin Wong [aut]
Maintainer: Lee Marsh <lee@usanpn.org>

Diff between rnpn versions 0.1.0 dated 2016-04-20 and 1.1.1 dated 2020-12-02

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Package Require updated to version 0.0.10 with previous version 0.0.9 dated 2020-11-30

Title: Installing and Loading R Packages for Reproducible Workflows
Description: A single key function, 'Require' that wraps 'install.packages', 'remotes::install_github', 'versions::install.versions', and 'base::require' that allows for reproducible workflows. As with other functions in a reproducible workflow, this package emphasizes functions that return the same result whether it is the first or subsequent times running the function. Maturing.
Author: Eliot J B McIntire [aut, cre] (<https://orcid.org/0000-0002-6914-8316>), 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>

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Package prereg updated to version 0.5.0 with previous version 0.4.0 dated 2019-01-09

Title: R Markdown Templates to Preregister Scientific Studies
Description: Provides a collection of templates to author preregistration documents for scientific studies in PDF format.
Author: Frederik Aust [aut, cre] (<https://orcid.org/0000-0003-4900-788X>), Lisa Spitzer [aut]
Maintainer: Frederik Aust <frederik.aust@uni-koeln.de>

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Package locStra updated to version 1.5 with previous version 1.4 dated 2020-06-14

Title: Fast Implementation of (Local) Population Stratification Methods
Description: Fast implementations to compute the genetic covariance matrix, the Jaccard similarity matrix, the s-matrix (the weighted Jaccard similarity matrix), and the (classic or robust) genomic relationship matrix of a (dense or sparse) input matrix. Full support for sparse matrices from the R-package 'Matrix'. Additionally, an implementation of the power method (von Mises iteration) to compute the largest eigenvector of a matrix is included, a function to perform an automated full run of global and local correlations in population stratification data, and a function to compute sliding windows. New functionality in locStra allows one to extract the k leading eigenvectors of the genetic covariance matrix, Jaccard similarity matrix, s-matrix, and genomic relationship matrix without actually computing the similarity matrices.
Author: Georg Hahn [aut,cre], Sharon M. Lutz [ctb], Christoph Lange [ctb]
Maintainer: Georg Hahn <ghahn@hsph.harvard.edu>

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Package generalCorr updated to version 1.1.8 with previous version 1.1.7 dated 2020-11-29

Title: Generalized Correlations and Various Causal Paths
Description: Since causal paths from data are important for all sciences, the package provides many sophisticated functions. causeSummBlk() gives easy-to-interpret causal paths. Let Z denote control variables and compare two flipped kernel regressions: X=f(Y, Z)+e1 and Y=g(X,Z)+e2. Our criterion Cr1 says that if |e1*Y|>|e2*X| then variation in X is more "exogenous or independent" than in Y and causal path is X to Y. Criterion Cr2 requires |e2|<|e1|. These inequalities between many absolute values are quantified by four orders of stochastic dominance. Our third criterion Cr3 for the causal path X to Y requires new generalized partial correlations to satisfy |r*(x|y,z)|< |r*(y|x,z)|. The function parcorBMany() reports generalized partials between the first variable and all others. The package provides several R functions including get0outliers() for outlier detection, bigfp() for numerical integration by the trapezoidal rule, stochdom2() for stochastic dominance, pillar3D() for 3D charts, canonRho() for generalized canonical correlations, depMeas() measures nonlinear dependence, and causeSummary(mtx) reports summary of causal paths among matrix columns is easiest to use. Several functions whose names begin with 'boot' provide bootstrap statistical inference including a new bootGcRsq() test for "Granger-causality" allowing nonlinear relations. See Vinod (2019) <doi:10.1080/03610918.2015.1122048>.
Author: Prof. H. D. Vinod, Fordham University, NY.
Maintainer: H. D. Vinod <vinod@fordham.edu>

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Package CPBayes updated to version 1.1.0 with previous version 1.0.0 dated 2019-01-12

Title: Bayesian Meta Analysis for Studying Cross-Phenotype Genetic Associations
Description: A Bayesian meta-analysis method for studying cross-phenotype genetic associations. It uses summary-level data across multiple phenotypes to simultaneously measure the evidence of aggregate-level pleiotropic association and estimate an optimal subset of traits associated with the risk locus. CPBayes is based on a spike and slab prior. The methodology is available from: A Majumdar, T Haldar, S Bhattacharya, JS Witte (2018) <doi:10.1371/journal.pgen.1007139>.
Author: Arunabha Majumdar <statgen.arunabha@gmail.com> [aut, cre], Tanushree Haldar <tanushree.haldar@gmail.com> [aut], John Witte [ctb]
Maintainer: Arunabha Majumdar <statgen.arunabha@gmail.com>

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Package correlation updated to version 0.5.0 with previous version 0.4.0 dated 2020-09-27

Title: Methods for Correlation Analysis
Description: Lightweight package for computing different kinds of correlations, such as partial correlations, Bayesian correlations, multilevel correlations, polychoric correlations, biweight correlations, distance correlations and more. Relies on the easystats ecosystem (Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>).
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>), Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>), Mattan S. Ben-Shachar [ctb] (<https://orcid.org/0000-0002-4287-4801>), Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>

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Package BayesMAMS (with last version 0.1) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2015-11-06 0.1

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Package logmult (with last version 0.7.2) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2020-08-24 0.7.2
2019-02-13 0.7.1
2018-10-19 0.7.0
2017-11-15 0.6.5
2017-03-21 0.6.4
2016-01-15 0.6.3
2015-04-22 0.6.2
2015-01-13 0.6.1
2014-03-15 0.6

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Package tufte updated to version 0.9 with previous version 0.8 dated 2020-10-30

Title: Tufte's Styles for R Markdown Documents
Description: Provides R Markdown output formats to use Tufte styles for PDF and HTML output.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>), JJ Allaire [aut], Andrzej Oles [ctb], Dave Liepmann [ctb] (Tufte CSS in inst/rmarkdown/templates/tufte_html/resources), RStudio, PBC [cph]
Maintainer: Yihui Xie <xie@yihui.name>

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