Sat, 28 Mar 2020

Package RNAsmc updated to version 0.6.0 with previous version 0.5.0 dated 2020-03-24

Title: RNA Secondary Structure Module Mining, Comparison and Plotting
Description: Provides function for RNA secondary structure plotting, comparison and module mining. Given a RNA secondary structure, you can obtain stem regions, hairpin loops, internal loops, bulge loops and multibranch loops of this RNA structure using this program. They are the basic modules of RNA secondary structure. For each module you get, you can use this program to label the RNA structure with a specific color. You can also use this program to compare two RNA secondary structures to get a score that represents similarity. Reference: Reuter JS, Mathews DH (2010) <doi:10.1186/1471-2105-11-129>.
Author: Zheng HeWei
Maintainer: Zheng HeWei<zhenghw@hrbmu.edu.cn>

Diff between RNAsmc versions 0.5.0 dated 2020-03-24 and 0.6.0 dated 2020-03-28

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More information about RNAsmc at CRAN
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Package RGCxGC updated to version 1.1-2 with previous version 1.1-1 dated 2020-03-25

Title: Preprocessing and Multivariate Analysis of Bidimensional Gas Chromatography Data
Description: Toolbox for chemometrics analysis of bidimensional gas chromatography data. This package import data for common scientific data format (NetCDF) and fold it to 2D chromatogram. Then, it can perform preprocessing and multivariate analysis. In the preprocessing algorithms, baseline correction, smoothing, and peak alignment are available. While in multivariate analysis, multiway principal component analysis is incorporated.
Author: Cristian Quiroz-Moreno [aut, cre] (<https://orcid.org/0000-0002-9069-9147>), Guilherme L. Alexandrino [aut] (<https://orcid.org/0000-0002-2007-378X>), Noroska G.S. Mogollón [aut] (<https://orcid.org/0000-0002-0756-6184>)
Maintainer: Cristian Quiroz-Moreno <cristianquirozd1997@gmail.com>

Diff between RGCxGC versions 1.1-1 dated 2020-03-25 and 1.1-2 dated 2020-03-28

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Package ParallelLogger updated to version 1.1.2 with previous version 1.1.1 dated 2019-10-30

Title: Support for Parallel Computation, Logging, and Function Automation
Description: Support for parallel computation with progress bar, and option to stop or proceed on errors. Also provides logging to console and disk, and the logging persists in the parallel threads. Additional functions support function call automation with delayed execution (e.g. for executing functions in parallel).
Author: Martijn Schuemie [aut, cre], Marc Suchard [aut], Observational Health Data Science and Informatics [cph]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>

Diff between ParallelLogger versions 1.1.1 dated 2019-10-30 and 1.1.2 dated 2020-03-28

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More information about ParallelLogger at CRAN
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Package cppcor updated to version 1.2 with previous version 1.1 dated 2020-03-28

Title: Probabilistic Composition of Correlated Preference
Description: Individual classification method based on multivariate normal distribution, taking into account the correlation between the characteristics observed in the individuals. Entering a data set whose individuals are previously classified, this method will seek to understand how these individuals were grouped into their classes. This package will help you identify the class of new individuals without prior knowledge of your class. The way out is a set of measures that identify these new individuals. An interesting measure is accuracy, which measures how well the method correctly identified an individual for his or her class. The reference of this method was the result of the thesis of Marcelo Carlos Ribeiro, also author of the 'cppcor' package, and is still in the phase of corrections for publication. In the next updates of the package, we will add the reference of this method.
Author: Marcelo Ribeiro [aut], Ben Deivide [aut, cre], Tiago Martins [aut], Fernando Oliveira [aut]
Maintainer: Ben Deivide <ben.deivide@ufsj.edu.br>

Diff between cppcor versions 1.1 dated 2020-03-28 and 1.2 dated 2020-03-28

 DESCRIPTION |   12 +++++-------
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 2 files changed, 6 insertions(+), 8 deletions(-)

More information about cppcor at CRAN
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Package paws.common updated to version 0.3.0 with previous version 0.2.6 dated 2020-02-23

Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services <https://aws.amazon.com>. The functions handle building, signing, and sending requests, and receiving responses. They are designed to help build higher-level interfaces to individual services, such as Simple Storage Service (S3).
Author: David Kretch [aut, cre], Adam Banker [aut], Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>

Diff between paws.common versions 0.2.6 dated 2020-02-23 and 0.3.0 dated 2020-03-28

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More information about paws.common at CRAN
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Package tidytable updated to version 0.4.0 with previous version 0.3.2 dated 2020-03-08

Title: Tidy Interface to 'data.table'
Description: Tidy interface to 'data.table'. 'rlang' compatible, which allows the user to build custom functions much like they would in the tidyverse.
Author: Mark Fairbanks [aut, cre], Tyson Barrett [ctb], Ivan Leung [ctb], Ross Kennedy [ctb]
Maintainer: Mark Fairbanks <mark.t.fairbanks@gmail.com>

Diff between tidytable versions 0.3.2 dated 2020-03-08 and 0.4.0 dated 2020-03-28

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More information about tidytable at CRAN
Permanent link

Package chilemapas updated to version 0.2 with previous version 0.1.4 dated 2020-01-24

Title: Mapas de las Divisiones Politicas y Administrativas de Chile (Maps of the Political and Administrative Divisions of Chile)
Description: Mapas terrestres con topologias simplificadas. Estos mapas no tienen precision geodesica, por lo que aplica el DFL-83 de 1979 de la Republica de Chile y se consideran referenciales sin validez legal. No se incluyen los territorios antarticos y bajo ningun evento estos mapas significan que exista una cesion u ocupacion de territorios soberanos en contra del Derecho Internacional por parte de Chile. Esta paquete esta documentado intencionalmente en castellano asciificado para que funcione sin problema en diferentes plataformas. (Terrestrial maps with simplified toplogies. These maps lack geodesic precision, therefore DFL-83 1979 of the Republic of Chile applies and are considered to have no legal validity. Antartic territories are excluded and under no event these maps mean there is a cession or occupation of sovereign territories against International Laws from Chile. This package was intentionally documented in asciified spanish to make it work without problem on different platforms.)
Author: Mauricio Vargas [aut, cre], Roberto Salas [ctb], Joshua Kunst [ctb], Juan Correa [dtc], Ricardo Aravena [ths], Pontificia Universidad Catolica de Chile [cph], Instituto Nacional de Estadisticas (INE) [dtc], Subsecretaria de Desarrollo Regional (SUBDERE) [dtc], Biblioteca del Congreso Nacional de Chile (BCN) [dtc]
Maintainer: Mauricio Vargas <mvargas@dcc.uchile.cl>

Diff between chilemapas versions 0.1.4 dated 2020-01-24 and 0.2 dated 2020-03-28

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Package PTXQC updated to version 1.0.4 with previous version 1.0.2 dated 2020-02-11

Title: Quality Report Generation for MaxQuant and mzTab Results
Description: Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool). Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format. Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015) <doi:10.1021/acs.jproteome.5b00780>.
Author: Chris Bielow [aut, cre], Juliane Schmachtenberg [ctb], Swenja Wagner [ctb], Patricia Scheil [ctb], Tom Waschischek [ctb], Guido Mastrobuoni [dtc, rev]
Maintainer: Chris Bielow <chris.bielow@bsc.fu-berlin.de>

Diff between PTXQC versions 1.0.2 dated 2020-02-11 and 1.0.4 dated 2020-03-28

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 132 files changed, 3490 insertions(+), 3399 deletions(-)

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Package mdatools updated to version 0.10.3 with previous version 0.10.1 dated 2020-03-01

Title: Multivariate Data Analysis for Chemometrics
Description: Package implements projection based methods for preprocessing, exploring and analysis of multivariate data used in chemometrics.
Author: Sergey Kucheryavskiy
Maintainer: Sergey Kucheryavskiy <svkucheryavski@gmail.com>

Diff between mdatools versions 0.10.1 dated 2020-03-01 and 0.10.3 dated 2020-03-28

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 18 files changed, 306 insertions(+), 178 deletions(-)

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Package isocat updated to version 0.2.5 with previous version 0.2.4 dated 2019-12-10

Title: Isotope Origin Clustering and Assignment Tools
Description: This resource provides tools to create, compare, and post-process spatial isotope assignment models of animal origin. It generates probability-of-origin maps for individuals based on user-provided tissue and environment isotope values (e.g., as generated by IsoMAP, Bowen [2010] <doi:10.1111/2041-210X.12147>) using the framework established in Bowen (2014) <doi:10.1111/2041-210X.12147>. The package 'isocat' can then quantitatively compare and cluster these maps to group individuals by similar origin. It also includes techniques for applying four approaches (cumulative sum, odds ratio, quantile only, and quantile simulation) with which users can summarize geographic origins and probable distance traveled by individuals.
Author: Caitlin Campbell [aut, cre]
Maintainer: Caitlin Campbell <caitjcampbell@gmail.com>

Diff between isocat versions 0.2.4 dated 2019-12-10 and 0.2.5 dated 2020-03-28

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 NAMESPACE                                                               |    5 
 NEWS.md                                                                 |   17 
 R/CumSumSuite.R                                                         |    8 
 R/getPrecisionPar.R                                                     |    2 
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 R/meanAggregateClusterProbability.R                                     |    2 
 README.md                                                               |    2 
 inst/doc/isocat.R                                                       |    3 
 inst/doc/isocat.Rmd                                                     |    3 
 inst/doc/isocat.html                                                    |   25 
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 vignettes/isocat.Rmd                                                    |    3 
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 24 files changed, 310 insertions(+), 151 deletions(-)

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Package georob updated to version 0.3-13 with previous version 0.3-12 dated 2020-02-16

Title: Robust Geostatistical Analysis of Spatial Data
Description: Provides functions for efficiently fitting linear models with spatially correlated errors by robust and Gaussian (Restricted) Maximum Likelihood and for computing robust and customary point and block external-drift Kriging predictions, along with utility functions for variogram modelling in ad hoc geostatistical analyses, model building, model evaluation by cross-validation, (conditional) simulation of Gaussian processes, unbiased back-transformation of Kriging predictions of log-transformed data.
Author: Andreas Papritz [cre, aut], Cornelia Schwierz [ctb]
Maintainer: Andreas Papritz <andreas.papritz@env.ethz.ch>

Diff between georob versions 0.3-12 dated 2020-02-16 and 0.3-13 dated 2020-03-28

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 14 files changed, 309 insertions(+), 158 deletions(-)

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New package sybilSBML with initial version 3.1.2
Package: sybilSBML
Type: Package
Title: 'SBML' Integration in Package 'Sybil'
Version: 3.1.2
Date: 2020-03-27
Authors@R: c(person("Mayo", "Roettger", role = "cre", email = "mayo.roettger@hhu.de"), person("Gabriel", "Gelius-Dietrich", role = "aut"), person(c("C.", "Jonathan"), "Fritzemeier", role = "ctb", email = "clausjonathan.fritzemeier@uni-duesseldorf.de"), person("Deya", "Alzoubi", role = "ctb"), person("Ardalan", "Habil", role = "ctb"))
Maintainer: Mayo Roettger <mayo.roettger@hhu.de>
Depends: R (>= 2.14.2), Matrix, sybil (>= 2.0.0)
SystemRequirements: libSBML-core-plus-packages (>= 5.16)
Imports: methods
Description: 'SBML' (Systems Biology Markup Language) with 'FBC' (Flux Balance Constraints) integration in 'sybil'. Many constraint based metabolic models are published in 'SBML' format ('*.xml'). Herewith is the ability to read, write, and check 'SBML' files in 'sybil' provided.
License: GPL-3 | file LICENSE
LazyLoad: yes
Collate: generics.R sbmlPtrClass.R sbmlErrorClass.R sybilSBML.R uglyHack.R readSBMLmod.R zzz.R
Packaged: 2020-03-27 09:51:05 UTC; root
Author: Mayo Roettger [cre], Gabriel Gelius-Dietrich [aut], C. Jonathan Fritzemeier [ctb], Deya Alzoubi [ctb], Ardalan Habil [ctb]
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2020-03-28 15:10:02 UTC

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Package subniche updated to version 1.1 with previous version 1.0 dated 2020-03-16

Title: Within Outlying Mean Indexes: Refining the OMI Analysis
Description: Complementary indexes calculation to the Outlying Mean Index analysis to explore niche shift of a community and biological constraint within an Euclidean space, with graphical displays.
Author: Stephane Karasiewicz
Maintainer: Stephane Karasiewicz <skaraz.science@gmail.com>

Diff between subniche versions 1.0 dated 2020-03-16 and 1.1 dated 2020-03-28

 DESCRIPTION |    9 +++++----
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 R/subarea.R |   54 ++++++++++++++++++++++++++++++++++++++----------------
 3 files changed, 45 insertions(+), 22 deletions(-)

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New package rotations with initial version 1.6
Package: rotations
Type: Package
Title: Working with Rotation Data
Version: 1.6
Authors@R: c(person(given = "Bryan", family = "Stanfill", role = c("aut", "cre"), email = "bstanfill2003@gmail.com"), person(given = "Heike", family = "Hofmann", role = "aut"), person(given = "Ulrike", family = "Genschel", role = "aut"), person(given = "Aymeric", family = "Stamm", role = "ctb", email = "aymeric.stamm@math.cnrs.fr", comment = c(ORCID = "0000-0002-8725-3654")), person(given = "Luciano", family = "Selzer", role = "ctb"))
Description: Tools for working with rotational data, including simulation from the most commonly used distributions on SO(3), methods for different Bayes, mean and median type estimators for the central orientation of a sample, confidence/credible regions for the central orientation based on those estimators and a novel visualization technique for rotation data. Most recently, functions to identify potentially discordant (outlying) values have been added. References: Bingham, Melissa A. and Nordman, Dan J. and Vardeman, Steve B. (2009) <doi:10.1198/jasa.2009.ap08741>, Bingham, Melissa A and Vardeman, Stephen B and Nordman, Daniel J (2009) <doi:10.1214/09-BA423>, Bingham, Melissa A and Nordman, Daniel J and Vardeman, Stephen B (2010) <doi:10.1016/j.csda.2009.11.020>, Leon, C.A. and Masse, J.C. and Rivest, L.P. (2006) <doi:10.1016/j.jmva.2005.03.009>, Hartley, R and Aftab, K and Trumpf, J. (2011) <doi:10.1109/CVPR.2011.5995745>, Stanfill, Bryan and Genschel, Ulrike and Hofmann, Heike (2013) <doi:10.1080/00401706.2013.826145>, Maonton, Jonathan (2004) <doi:10.1109/ICARCV.2004.1469774>, Mardia, KV and Jupp, PE (2000, ISBN:9780471953333), Rancourt, D. and Rivest, L.P. and Asselin, J. (2000) <doi:10.1111/1467-9876.00180>, Chang, Ted and Rivest, Louis-Paul (2001) <doi:10.1214/aos/1009210690>, Fisher, Nicholas I. (1996, ISBN:0521568900).
License: MIT + file LICENSE
Depends: R (>= 2.10)
Imports: ggplot2, gridExtra, Rcpp, rgl, sphereplot
Suggests: knitr, onion, orientlib, testthat, rmarkdown
LinkingTo: Rcpp, RcppArmadillo
URL: https://github.com/stanfill/rotationsC
BugReports: https://github.com/stanfill/rotationsC/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.1.0
VignetteBuilder: knitr
Collate: 'Q4-class.R' 'RcppExports.R' 'preliminary.R' 'SO3-class.R' 'bayes.R' 'data.R' 'distributions.R' 'estimators.R' 'grid-search.R' 'help.R' 'kappa.R' 'plot.R' 'primitives.R' 'regions.R' 'robust.R' 'rotations-package.R' 'zzz.R'
NeedsCompilation: yes
Packaged: 2020-03-26 17:10:19 UTC; stanfill
Author: Bryan Stanfill [aut, cre], Heike Hofmann [aut], Ulrike Genschel [aut], Aymeric Stamm [ctb] (<https://orcid.org/0000-0002-8725-3654>), Luciano Selzer [ctb]
Maintainer: Bryan Stanfill <bstanfill2003@gmail.com>
Repository: CRAN
Date/Publication: 2020-03-28 15:40:02 UTC

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New package r2dii.match with initial version 0.0.1
Package: r2dii.match
Title: Tools to Match Financial Portfolios with Climate Data
Version: 0.0.1
Authors@R: c(person(given = "Mauro", family = "Lepore", role = c("aut", "cre", "ctr"), email = "maurolepore@gmail.com", comment = c(ORCID = "0000-0002-1986-7988")), person(given = "Jackson", family = "Hoffart", role = "aut", email = "jackson@2degrees-investing.org", comment = c(ORCID = "0000-0002-8600-5042")), person(given = "Klaus", family = "Hagedorn", role = "aut", email = "klaus@2degrees-investing.org"), person(given = "Florence", family = "Palandri", role = "aut", email = "florence@2degrees-investing.org"), person(given = "Evgeny", family = "Petrovsky", role = "aut"), person(given = "2 Degrees Investing Initiative", role = c("cph", "fnd"), email = "contact@2degrees-investing.org"))
Description: These tools implement in R a fundamental part of the software 'PACTA' (Paris Agreement Capital Transition Assessment), which is a free tool that calculates the alignment between financial portfolios and climate scenarios (<https://2degrees-investing.org/>). Financial institutions use 'PACTA' to study how their capital allocation impacts the climate. This package matches data from financial portfolios to asset level data from market-intelligence databases (e.g. power plant capacities, emission factors, etc.). This is the first step to assess if a financial portfolio aligns with climate goals.
License: GPL-3
URL: https://github.com/2DegreesInvesting/r2dii.match
BugReports: https://github.com/2DegreesInvesting/r2dii.match/issues
Depends: R (>= 3.4)
Imports: dplyr, glue, magrittr, purrr, r2dii.data, rlang, stringdist, stringi, tibble, tidyr, tidyselect
Suggests: covr, rmarkdown, spelling, testthat (>= 2.1.0)
Encoding: UTF-8
Language: en-US
LazyData: true
RoxygenNote: 7.1.0
NeedsCompilation: no
Packaged: 2020-03-27 12:53:11 UTC; mauro
Author: Mauro Lepore [aut, cre, ctr] (<https://orcid.org/0000-0002-1986-7988>), Jackson Hoffart [aut] (<https://orcid.org/0000-0002-8600-5042>), Klaus Hagedorn [aut], Florence Palandri [aut], Evgeny Petrovsky [aut], 2 Degrees Investing Initiative [cph, fnd]
Maintainer: Mauro Lepore <maurolepore@gmail.com>
Repository: CRAN
Date/Publication: 2020-03-28 15:20:05 UTC

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New package MoBPS with initial version 1.4.87
Package: MoBPS
Type: Package
Title: Modular Breeding Program Simulator
Version: 1.4.87
Author: Torsten Pook
Maintainer: Torsten Pook <torsten.pook@uni-goettingen.de>
Description: Framework for the simulation framework for the simulation of complex breeding programs and compare their economic and genetic impact. The package is also used as the background simulator for our a web-based interface <http:www.mobps.de>. Associated publication: Pook et al (2019) <doi:10.1101/829333>.
Depends: R (>= 3.0),
Imports: graphics, stats, utils
License: GPL (>= 3)
LazyData: TRUE
Suggests: EMMREML, BGLR, MASS, doMPI, doRNG, compiler, foreach, sommer, vcfR, jsonlite, rrBLUP, biomaRt, Matrix, doParallel
Enhances: miraculix (>= 0.9.10), RandomFieldsUtils (>= 0.5.9), MoBPSmaps
Additional_repositories: https://tpook92.github.io/drat/
RoxygenNote: 6.1.1
Date: 2020-02-24
NeedsCompilation: no
Packaged: 2020-03-27 11:00:02 UTC; pook
Repository: CRAN
Date/Publication: 2020-03-28 15:30:02 UTC

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Package xyloplot updated to version 2.0 with previous version 1.6 dated 2018-05-09

Title: A Method for Creating Xylophone-Like Frequency Density Plots
Description: Methods for plotting multiple xylophone-style histograms using base graphics.
Author: Daniel Greene
Maintainer: Daniel Greene <dg333@cam.ac.uk>

Diff between xyloplot versions 1.6 dated 2018-05-09 and 2.0 dated 2020-03-28

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Package WorldFlora updated to version 1.5 with previous version 1.4 dated 2020-02-20

Title: Standardize Plant Names According to World Flora Online Taxonomic Backbone
Description: World Flora Online is an online flora of all known plants, available from <http://www.worldfloraonline.org/>. Methods are provided of matching a list of plant names (scientific names, taxonomic names, botanical names) against a static copy of the World Flora Online Taxonomic Backbone data that can be downloaded from the World Flora Online website. The World Flora Online Taxonomic Backbone is an updated version of The Plant List (<http://www.theplantlist.org/>), a working list of plant names that has become static since 2013.
Author: Roeland Kindt
Maintainer: Roeland Kindt <R.KINDT@CGIAR.ORG>

Diff between WorldFlora versions 1.4 dated 2020-02-20 and 1.5 dated 2020-03-28

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 MD5              |   10 +++++-----
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 6 files changed, 80 insertions(+), 14 deletions(-)

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New package tidyMicro with initial version 1.43
Package: tidyMicro
Title: A Pipeline for Microbiome Analysis and Visualization
Version: 1.43
Date: 2020-03-17
Authors@R: c(person("Charlie", "Carpenter", role = c("aut", "cre"), email = "charles.carpenter@cuanschutz.edu"), person("Dan", "Frank", role = "aut", email = "daniel.frank@cuanschutz.edu"), person("Kayla", "Williamson", role = "aut", email = "kayla.3.williamson@cuanschutz.edu"), person("Rachel", "Johnson", role = "ctb", email = "rachel.johnson@cuanschutz.edu"))
Maintainer: Charlie Carpenter <charles.carpenter@cuanschutz.edu>
Description: A reliable alternative to popular microbiome analysis R packages. We provide standard tools as well as novel extensions on standard analyses to improve interpretability and the analyst’s ability to communicate results, all while maintaining object malleability to encourage open source collaboration.
Depends: R (>= 3.5.0), tidyverse (>= 1.3.0)
Imports: magrittr (>= 1.5.0), ggrepel (>= 0.8.1), MASS (>= 7.3-51.4), VGAM (>= 1.1-2), rlang (>= 0.3.4), car (>= 3.0-3), lme4 (>= 1.1-21), vegan (>= 2.5-5), Matrix (>= 1.2-17), cowplot (>= 0.9.4), lsr (>= 0.5), shapes (>= 1.2.4), Evomorph (>= 0.9), ThreeWay (>= 1.1.3), factoextra (>= 1.0.5), ade4 (>= 1.7-13), scatterplot3d (>= 0.3-41), gridExtra (>= 2.3), plotly (>= 4.9.0), png (>= 0.1-7), latex2exp(>= 0.4.0), broom (>= 0.5.0), plyr (>= 1.8.0), dplyr (>= 0.8.0), ggplot2 (>= 3.2.0), purrr (>= 0.3.0), stringr (>= 1.4.0), tibble (>= 2.1.0), tidyr (>= 1.0.0), scales (>= 1.1.0)
Suggests: knitr, markdown, roxygen2, rmarkdown
Encoding: UTF-8
License: GPL-3
LazyData: true
RoxygenNote: 7.1.0
BugReports: https://github.com/CharlieCarpenter/tidyMicro
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-03-26 18:48:17 UTC; charlescarpenter
Author: Charlie Carpenter [aut, cre], Dan Frank [aut], Kayla Williamson [aut], Rachel Johnson [ctb]
Repository: CRAN
Date/Publication: 2020-03-28 14:20:02 UTC

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New package SSP with initial version 1.0.1
Package: SSP
Title: Simulated Sampling Procedure for Community Ecology
Version: 1.0.1
Authors@R: c(person(given = "Edlin", family = "Guerra-Castro", role = c("aut", "cre"), email = "edlinguerra@gmail.com"), person(given = "Maite", family = "Mascaro", role = "aut", email = "mmm@ciencias.unam.mx"), person(given = "Nuno", family = "Simoes", role = "aut", email = "ns@ciencias.unam.mx"), person(given = "Juan", family = "Cruz-Motta", role = "aut", email = "jjcruzmotta@gmail.com"), person(given = "Juan", family = "Cajas", role = "aut", email = "carlos.cajas@enesmerida.unam.mx"))
Maintainer: Edlin Guerra-Castro <edlinguerra@gmail.com>
Description: Simulation-based sampling protocol (SSP) is an R package design to estimate sampling effort in studies of ecological communities based on the definition of pseudo-multivariate standard error (MultSE) (Anderson & Santana-Garcon, 2015) <doi:10.1111/ele.12385> and simulation of ecological data. The theoretical background is described in Guerra-Castro et al. (2020) <doi:10.1101/2020.03.19.996991>.
Depends: R (>= 3.5.0)
License: GPL-2
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.1
Suggests: knitr, rmarkdown, testthat, roxygen2
VignetteBuilder: knitr
URL: https://github.com/edlinguerra/SSP
BugReports: https://github.com/edlinguerra/SSP/issues
Imports: vegan, stats, sampling, ggplot2
NeedsCompilation: no
Packaged: 2020-03-26 18:48:32 UTC; Edlin
Author: Edlin Guerra-Castro [aut, cre], Maite Mascaro [aut], Nuno Simoes [aut], Juan Cruz-Motta [aut], Juan Cajas [aut]
Repository: CRAN
Date/Publication: 2020-03-28 14:10:06 UTC

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Package roptim updated to version 0.1.3 with previous version 0.1.2 dated 2018-11-12

Title: General Purpose Optimization in R using C++
Description: Perform general purpose optimization in R using C++. A unified wrapper interface is provided to call C functions of the five optimization algorithms ('Nelder-Mead', 'BFGS', 'CG', 'L-BFGS-B' and 'SANN') underlying optim().
Author: Yi Pan [aut, cre]
Maintainer: Yi Pan <ypan1988@gmail.com>

Diff between roptim versions 0.1.2 dated 2018-11-12 and 0.1.3 dated 2020-03-28

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New package mxmmod with initial version 1.0.1
Package: mxmmod
Type: Package
Title: Measurement Model of Derivatives in 'OpenMx'
Version: 1.0.1
Authors@R: c( person( given = 'Kyle D.', family = 'Husmann', role = c('aut', 'cre'), email = 'kdh38@psu.edu' ), person(given = 'Timothy R.', family = 'Brick', role = c('aut'), email = 'tbrick@psu.edu' ), person(given = 'Ryne', family = 'Estabrook', role = c('aut'), email = 'cestabr2@uic.edu' ) )
Description: Provides a convenient interface in 'OpenMx' for building Estabrook's (2015) <doi:10.1037/a0034523> Measurement Model of Derivatives (MMOD).
License: Apache License 2.0
Encoding: UTF-8
LazyData: true
Imports: OpenMx
Suggests: knitr, rmarkdown, testthat, tidyverse
VignetteBuilder: knitr
RoxygenNote: 6.1.1
Depends: R (>= 2.10)
NeedsCompilation: no
Packaged: 2020-03-26 20:56:45 UTC; khusmann
Author: Kyle D. Husmann [aut, cre], Timothy R. Brick [aut], Ryne Estabrook [aut]
Maintainer: Kyle D. Husmann <kdh38@psu.edu>
Repository: CRAN
Date/Publication: 2020-03-28 14:50:05 UTC

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New package MajKMeans with initial version 0.1.0
Package: MajKMeans
Type: Package
Title: k-Means Algorithm with a Majorization-Minimization Method
Version: 0.1.0
Authors@R: c(person("Sheikhi", "Ayyub", email = "sheikhy.a@uk.ac.ir", role = c("aut", "cre")), person("Yaghoubi", "Mohammad Ali", email = "yaghoobi@uk.ac.ir", role = "aut"))
Maintainer: Sheikhi Ayyub <sheikhy.a@uk.ac.ir>
Description: A hybrid of the K-means algorithm and a Majorization-Minimization method to introduce a robust clustering. The reference paper is: Julien Mairal, (2015) <doi:10.1137/140957639>. The two most important functions in package 'MajKMeans' are cluster_km() and cluster_MajKm(). cluster_km() clusters data without Majorization-Minimization and cluster_MajKm() clusters data with Majorization-Minimization method. Both of these functions calculate the sum of squares (SS) of clustering.
Imports: MASS
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
NeedsCompilation: no
Packaged: 2020-03-26 20:55:37 UTC; macbook
Author: Sheikhi Ayyub [aut, cre], Yaghoubi Mohammad Ali [aut]
Repository: CRAN
Date/Publication: 2020-03-28 14:40:02 UTC

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Package ggpol updated to version 0.0.6 with previous version 0.0.5 dated 2019-03-14

Title: Visualizing Social Science Data with 'ggplot2'
Description: A 'ggplot2' extension for implementing parliament charts and several other useful visualizations.
Author: Frederik Tiedemann [aut, cre]
Maintainer: Frederik Tiedemann <fj.tiedemann@googlemail.com>

Diff between ggpol versions 0.0.5 dated 2019-03-14 and 0.0.6 dated 2020-03-28

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Package cricketr updated to version 0.0.23 with previous version 0.0.22 dated 2019-07-12

Title: Analyze Cricketers and Cricket Teams Based on ESPN Cricinfo Statsguru
Description: Tools for analyzing performances of cricketers based on stats in ESPN Cricinfo Statsguru. The toolset can be used for analysis of Tests,ODIs and Twenty20 matches of both batsmen and bowlers. The package can also be used to analyze team performances.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>

Diff between cricketr versions 0.0.22 dated 2019-07-12 and 0.0.23 dated 2020-03-28

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Package kofdata updated to version 0.1.3.4 with previous version 0.1.3.3 dated 2019-08-05

Title: Get Data from the 'KOF Datenservice' API
Description: Read Swiss time series data from the 'KOF Datenservice' API, <https://datenservice.kof.ethz.ch>. The API provides macroeconomic survey data, business cycle and further macro economic time series about Switzerland. The package itself is a set of wrappers around the 'KOF Datenservice' API. The 'kofdata' package is able to consume public information as well as data that requires an API token.
Author: Matthias Bannert [aut, cre], Severin Thoeni [aut]
Maintainer: Matthias Bannert <bannert@kof.ethz.ch>

Diff between kofdata versions 0.1.3.3 dated 2019-08-05 and 0.1.3.4 dated 2020-03-28

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Package BeviMed updated to version 5.7 with previous version 5.3 dated 2017-08-21

Title: Bayesian Evaluation of Variant Involvement in Mendelian Disease
Description: A fast integrative genetic association test for rare diseases based on a model for disease status given allele counts at rare variant sites. Probability of association, mode of inheritance and probability of pathogenicity for individual variants are all inferred in a Bayesian framework - 'A Fast Association Test for Identifying Pathogenic Variants Involved in Rare Diseases', Greene et al 2017 <doi:10.1016/j.ajhg.2017.05.015>.
Author: Daniel Greene, Sylvia Richardson and Ernest Turro
Maintainer: Daniel Greene <dg333@cam.ac.uk>

Diff between BeviMed versions 5.3 dated 2017-08-21 and 5.7 dated 2020-03-28

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Package rematch2 updated to version 2.1.1 with previous version 2.1.0 dated 2019-07-11

Title: Tidy Output from Regular Expression Matching
Description: Wrappers on 'regexpr' and 'gregexpr' to return the match results in tidy data frames.
Author: Gábor Csárdi [aut, cre], Matthew Lincoln [ctb]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

Diff between rematch2 versions 2.1.0 dated 2019-07-11 and 2.1.1 dated 2020-03-28

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New package mustashe with initial version 0.1.1
Package: mustashe
Type: Package
Title: Stash and Load Objects
Version: 0.1.1
Authors@R: person(c("Joshua", "H"), "Cook", email = "joshuacook0023@gmail.com", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-9815-6879"))
URL: https://github.com/jhrcook/mustashe https://jhrcook.github.io/mustashe/
BugReports: https://github.com/jhrcook/mustashe/issues
Description: A simple system for saving and loading objects in R. Long running computations can be stashed after the first run and then reloaded the next time. Dependencies can be added to ensure that a computation is re-run if any of its dependencies or inputs have changed.
License: GPL-3
Encoding: UTF-8
LazyData: true
Suggests: covr (>= 3.3.0), spelling (>= 2.1), testthat (>= 2.1.0), tictoc (>= 1.0), knitr, rmarkdown
Language: en-US
Imports: formatR (>= 1.7), readr (>= 1.3.0), digest (>= 0.6.0), tibble (>= 2.1.0)
RoxygenNote: 7.1.0
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2020-03-26 12:52:15 UTC; admin
Author: Joshua H Cook [aut, cre] (<https://orcid.org/0000-0001-9815-6879>)
Maintainer: Joshua H Cook <joshuacook0023@gmail.com>
Repository: CRAN
Date/Publication: 2020-03-28 12:10:02 UTC

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Package gghalves updated to version 0.1.0 with previous version 0.0.1 dated 2019-09-23

Title: Compose Half-Half Plots Using Your Favourite Geoms
Description: A 'ggplot2' extension for easy plotting of half-half geom combinations. Think half boxplot and half jitterplot, or half violinplot and half dotplot.
Author: Frederik Tiedemann [aut, cre]
Maintainer: Frederik Tiedemann <fj.tiedemann@googlemail.com>

Diff between gghalves versions 0.0.1 dated 2019-09-23 and 0.1.0 dated 2020-03-28

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New package generalKSStat with initial version 1.0.3
Package: generalKSStat
Type: Package
Title: Computes KS-Like Goodness-of-Fit Test Statistics
Version: 1.0.3
Date: 2020-03-23
Author: Jiefei Wang
Maintainer: Jiefei Wang<jwang96@buffalo.edu>
Description: Computing KS-like goodness-of-fit test statistics such as the Kolmogorov-Smirnov, Berk-Jones and the higher criticism statistics. The p-values are computed via the Exact-KS-FFT(fast Fourier transform) method developed by Dimitrova, Kaishev, Tan (2017) <doi:10.18637/jss.v039.i11>. The algorithm works for the sample size up to 25,000.
License: GPL-3
SystemRequirements: C++11
RoxygenNote: 7.0.2
Encoding: UTF-8
LinkingTo: Rcpp
Imports: Rcpp, methods, stats
Suggests: testthat, knitr, rmarkdown
VignetteBuilder: knitr
NeedsCompilation: yes
Packaged: 2020-03-26 17:25:25 UTC; wangj
Repository: CRAN
Date/Publication: 2020-03-28 12:10:05 UTC

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Package GerminaR updated to version 1.4.2 with previous version 1.4 dated 2020-03-01

Title: Indices and Graphics for Assess Seed Germination Process
Description: A collection of different indices and visualization techniques for evaluate the seed germination process in ecophysiological studies (Lozano-Isla et al. 2019) <doi:10.1111/1440-1703.1275>.
Author: Flavio Lozano Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>), Omar Benites Alfaro [aut] (<https://orcid.org/0000-0002-6852-9598>), Denise Garcia de Santana [ctb], Marli A. Ranal [ctb], Marcelo F. Pompelli [aut, ths] (<https://orcid.org/0000-0002-4408-6374>), Federal University of Pernambuco [cph] (Register of application), Federal Rural University of Pernambuco [cph] (Post Graduate Program)
Maintainer: Flavio Lozano Isla <flavjack@gmail.com>

Diff between GerminaR versions 1.4 dated 2020-03-01 and 1.4.2 dated 2020-03-28

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New package extraterrestrial with initial version 0.1.0
Package: extraterrestrial
Type: Package
Title: Astrobiology Equations Estimating Extraterrestrial Life
Version: 0.1.0
Author: Chester C. Deocaris
Maintainer: Chester C. Deocaris <ccdeocaris@pup.edu.ph>
Description: Finding life outside the planet Earth several is the ultimate goal of an astrobiologist. Using known astronomical measurements and assumptions the probability of extraterrestrial life existence could be estimated. Equations such as the Drake equation (1961) as stated in the paper of Molina (2019) <arXiv:1912.01783>, Seager (2013) <https://www.space.com/22648-drake-equation-alien-life-seager.html> and Foucher et al, (2017) <doi:10.3390/life7040040> are included in the 'extraterrestrial' package.
Depends: R(>= 3.5.0)
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.0.2
NeedsCompilation: no
Packaged: 2020-03-26 14:42:25 UTC; Chester Deocaris
Repository: CRAN
Date/Publication: 2020-03-28 11:30:02 UTC

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New package cppcor with initial version 1.1
Package: cppcor
Type: Package
Title: Probabilistic Composition of Correlated Preference
Version: 1.1
Authors@R: c( person("Marcelo", "Ribeiro", email = "marcelo.ribeiro@ufop.edu.br", role = "aut"), person("Ben", "Deivide", email = "ben.deivide@ufsj.edu.br", role = c("aut", "cre")), person("Tiago", "Martins", email = "tiago.martin@gmail.com", role = "aut"), person("Helgem", "de Souza", email = "helgem.souza@gmail.com", role = "aut"), person("Josino", "Jose Barbosa", email = "josinojba@gmail.com", role = "aut"))
Author: Marcelo Ribeiro [aut], Ben Deivide [aut, cre], Tiago Martins [aut], Helgem de Souza [aut], Josino Jose Barbosa [aut]
Maintainer: Ben Deivide <ben.deivide@ufsj.edu.br>
Description: Individual classification method based on multivariate normal distribution, taking into account the correlation between the characteristics observed in the individuals. Entering a data set whose individuals are previously classified, this method will seek to understand how these individuals were grouped into their classes. This package will help you identify the class of new individuals without prior knowledge of your class. The way out is a set of measures that identify these new individuals. An interesting measure is accuracy, which measures how well the method correctly identified an individual for his or her class. The reference of this method was the result of the thesis of Marcelo Carlos Ribeiro, also author of the 'cppcor' package, and is still in the phase of corrections for publication. In the next updates of the package, we will add the reference of this method.
Depends: R (>= 3.5.0)
Imports: gWidgets (>= 0.0-54), gWidgetsRGtk2, foreach, caret, mvtnorm, doParallel, e1071, pacman
SystemRequirements: Cairo >= 1.0.0, ATK (>= 1.10.0), Pango (>= 1.10.0), GTK+ (>= 2.8.0), GLib (>= 2.8.0)
NeedsCompilation: no
Encoding: UTF-8
License: GPL (>= 2)
LazyData: TRUE
RoxygenNote: 7.0.1
Repository: CRAN
Packaged: 2020-03-28 00:42:31 UTC; MABENLA
Date/Publication: 2020-03-28 11:20:02 UTC

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Package sn updated to version 1.6-0 with previous version 1.5-5 dated 2020-01-30

Title: The Skew-Normal and Related Distributions Such as the Skew-t
Description: Build and manipulate probability distributions of the skew-normal family and some related ones, notably the skew-t family, and provide related statistical methods for data fitting and model diagnostics, in the univariate and the multivariate case.
Author: Adelchi Azzalini [aut, cre] (<https://orcid.org/0000-0002-7583-1269>)
Maintainer: Adelchi Azzalini <adelchi.azzalini@unipd.it>

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Package infoDecompuTE updated to version 0.6.2 with previous version 0.6.1 dated 2018-05-29

Title: Information Decomposition of Two-Phase Experiments
Description: The main purpose of this package is to generate the structure of the analysis of variance (ANOVA) table of the two-phase experiments. The user only need to input the design and the relationships of the random and fixed factors using the Wilkinson-Rogers' syntax, this package can then quickly generate the structure of the ANOVA table with the coefficients of the variance components for the expected mean squares. Thus, the balanced incomplete block design and provides the efficiency factors of the fixed effects can also be studied and compared much easily.
Author: Kevin Chang [aut, cre], Katya Ruggiero [aut]
Maintainer: Kevin Chang <k.chang@auckland.ac.nz>

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Package RestRserve updated to version 0.2.1 with previous version 0.2.0.2 dated 2020-03-09

Title: A Framework for Building HTTP API
Description: Allows to easily create high-performance full featured HTTP APIs from R functions. Provides high-level classes such as 'Request', 'Response', 'Application', 'Middleware' in order to streamline server side application development. Out of the box allows to serve requests using 'Rserve' package, but flexible enough to integrate with other HTTP servers such as 'httpuv'.
Author: Dmitriy Selivanov [aut, cre] (<https://orcid.org/0000-0001-5413-1506>), Artem Klevtsov [aut] (<https://orcid.org/0000-0003-0492-6647>), rexy.ai [cph, fnd]
Maintainer: Dmitriy Selivanov <ds@rexy.ai>

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Package PoissonBinomial updated to version 1.1.0 with previous version 1.0.2-1 dated 2020-02-24

Title: Efficient Computation of Ordinary and Generalized Poisson Binomial Distributions
Description: Efficient implementations of multiple exact and approximate methods as described in Hong (2013) <doi:10.1016/j.csda.2012.10.006>, Biscarri, Zhao & Brunner (2018) <doi:10.1016/j.csda.2018.01.007> and Zhang, Hong & Balakrishnan (2018) <doi:10.1080/00949655.2018.1440294> for computing the probability mass, cumulative distribution and quantile functions, as well as generating random numbers for both the ordinary and generalized Poisson binomial distribution.
Author: Florian Junge [aut, cre]
Maintainer: Florian Junge <florian.junge@h-da.de>

Diff between PoissonBinomial versions 1.0.2-1 dated 2020-02-24 and 1.1.0 dated 2020-03-28

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Package openblender updated to version 0.5.7 with previous version 0.5.6 dated 2020-03-25

Title: Request <https://openblender.io> API Services
Description: Interface to make HTTP requests to 'OpenBlender' API services. Go to <https://openblender.io> for more information.
Author: Open Blender Inc. [cph], Daniel V. Pinacho [aut, cre]
Maintainer: Daniel V. Pinacho <danielvpinacho@gmail.com>

Diff between openblender versions 0.5.6 dated 2020-03-25 and 0.5.7 dated 2020-03-28

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Package multDM updated to version 1.1.1 with previous version 1.1 dated 2020-03-26

Title: Multivariate Version of the Diebold-Mariano Test
Description: Allows to perform the multivariate version of the Diebold-Mariano test for equal predictive ability of multiple forecast comparison. Main reference: Mariano, R.S., Preve, D. (2012) <doi:10.1016/j.jeconom.2012.01.014>.
Author: Krzysztof Drachal [aut, cre] (Faculty of Economic Sciences, University of Warsaw, Poland)
Maintainer: Krzysztof Drachal <kdrachal@wne.uw.edu.pl>

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Package msae updated to version 0.1.1 with previous version 0.1.0 dated 2020-03-20

Title: Multivariate Fay Herriot Models for Small Area Estimation
Description: Implements multivariate Fay-Herriot models for small area estimation. It uses empirical best linear unbiased prediction (EBLUP) estimator. Multivariate models consider the correlation of several target variables and borrow strength from auxiliary variables to improve the effectiveness of a domain sample size. Models which accommodated by this package are univariate model with several target variables (model 0), multivariate model (model 1), autoregressive multivariate model (model 2), and heteroscedastic autoregressive multivariate model (model 3). Functions provide EBLUP estimators and mean squared error (MSE) estimator for each model. These models were developed by Roberto Benavent and Domingo Morales (2015) <doi:10.1016/j.csda.2015.07.013>.
Author: Novia Permatasari, Azka Ubaidillah
Maintainer: Novia Permatasari <16.9335@stis.ac.id>

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Package LibOPF updated to version 2.5.0 with previous version 2.4.0 dated 2020-03-26

Title: Design of Optimum-Path Forest Classifiers
Description: The 'LibOPF' is a framework to develop pattern recognition techniques based on optimum-path forests (OPF), João P. Papa and Alexandre X. Falcão (2008) <doi:10.1007/978-3-540-89639-5_89>, with methods for supervised learning and data clustering.
Author: Rafael Junqueira Martarelli [aut, cre], João Paulo Papa [aut], Alexandre Xavier Falcão [cph]
Maintainer: Rafael Junqueira Martarelli <rfel.jm@gmail.com>

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Package idiogramFISH updated to version 1.14.7 with previous version 1.14.2 dated 2020-02-27

Title: Idiograms with Marks and Karyotype Indices
Description: Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Supports micrometers, cM and Mb. Four styles of marks are available: square, dots, cM, cenStyle, upArrow, downArrow; its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) <doi:10.1111/j.1601-5223.1964.tb01953.x>, karyotype indices of Watanabe et al. (1999) <doi:10.1007/PL00013869> and Romero-Zarco (1986) <doi:10.2307/1221906> and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964).
Author: Fernando Roa [aut, cre], Mariana PC Telles [ctb]
Maintainer: Fernando Roa <froao@unal.edu.co>

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Package EHRtemporalVariability updated to version 1.0.4 with previous version 1.0.3 dated 2020-03-26

Title: Delineating Temporal Dataset Shifts in Electronic Health Records
Description: The 'EHRtemporalVariability' package contains functions to delineate temporal dataset shifts in Electronic Health Records through the projection and visualization of dissimilarities among data temporal batches. This is done through the estimation of data statistical distributions over time and their projection in non-parametric statistical manifolds uncovering the patterns of the data latent temporal variability. Dataset shifts can be explored and identified through visual analytics formats such as Data Temporal heatmaps and Information Geometric Temporal (IGT) plots. An additional 'EHRtemporalVariability' Shiny app can be used to load and explore the package results and even to allow the use of these functions to those users non-experienced in R coding.
Author: Carlos Sáez [aut, cre], Alba Gutiérrez-Sacristán [aut], Isaac Kohane [aut], Juan M García-Gómez [aut], Paul Avillach [aut], Biomedical Data Science Lab, Universitat Politècnica de València (Spain) [cph], Department of Biomedical Informatics, Harvard Medical School [cph]
Maintainer: Carlos Sáez <carsaesi@upv.es>

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Package dst updated to version 1.4.1 with previous version 1.4.0 dated 2019-08-20

Title: Using the Theory of Belief Functions
Description: Using the Theory of Belief Functions for evidence calculus. Basic probability assignments, or mass functions, can be defined on the subsets of a set of possible values and combined. A mass function can be extended to a larger frame. Marginalization, i.e. reduction to a smaller frame can also be done. These features can be combined to analyze small belief networks and take into account situations where information cannot be satisfactorily described by probability distributions.
Author: Claude Boivin, Stat.ASSQ <webapp.cb@gmail.com>
Maintainer: Claude Boivin <webapp.cb@gmail.com>

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Package calcWOI updated to version 1.0.3 with previous version 1.0.2 dated 2019-04-04

Title: Calculates the Wavelet-Based Organization Index
Description: Calculates the wavelet-based organization index following Brune et al (2018) (<doi:10.1002/qj.3409>), the modified wavelet-based organization index and the local wavelet-based organization index of an arbitrary 2D array using Wavelet Transforms of the LS2W package by Eckley et al (2010) (<doi:10.1111/j.1467-9876.2009.00721.x>) and Eckley and Nason (2011) (<doi:10.18637/jss.v043.i03>). In Version 1.0.3 the calculation of LW is added.
Author: Sebastian Brune, Sebastian Buschow, Florian Kapp, Petra Friederichs
Maintainer: Sebastian Brune <sbrune@uni-bonn.de>

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Package afex updated to version 0.27-2 with previous version 0.26-0 dated 2020-01-16

Title: Analysis of Factorial Experiments
Description: Convenience functions for analyzing factorial experiments using ANOVA or mixed models. aov_ez(), aov_car(), and aov_4() allow specification of between, within (i.e., repeated-measures), or mixed (i.e., split-plot) ANOVAs for data in long format (i.e., one observation per row), automatically aggregating multiple observations per individual and cell of the design. mixed() fits mixed models using lme4::lmer() and computes p-values for all fixed effects using either Kenward-Roger or Satterthwaite approximation for degrees of freedom (LMM only), parametric bootstrap (LMMs and GLMMs), or likelihood ratio tests (LMMs and GLMMs). afex_plot() provides a high-level interface for interaction or one-way plots using ggplot2, combining raw data and model estimates. afex uses type 3 sums of squares as default (imitating commercial statistical software).
Author: Henrik Singmann [aut, cre] (<https://orcid.org/0000-0002-4842-3657>), Ben Bolker [aut], Jake Westfall [aut], Frederik Aust [aut] (<https://orcid.org/0000-0003-4900-788X>), Mattan S. Ben-Shachar [aut], Søren Højsgaard [ctb], John Fox [ctb], Michael A. Lawrence [ctb], Ulf Mertens [ctb], Jonathon Love [ctb], Russell Lenth [ctb], Rune Haubo Bojesen Christensen [ctb]
Maintainer: Henrik Singmann <singmann@gmail.com>

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Package scorecard updated to version 0.2.9 with previous version 0.2.8.1 dated 2019-12-11

Title: Credit Risk Scorecard
Description: The `scorecard` package makes the development of credit risk scorecard easier and efficient by providing functions for some common tasks, such as data partition, variable selection, woe binning, scorecard scaling, performance evaluation and report generation. These functions can also used in the development of machine learning models. The references including: 1. Refaat, M. (2011, ISBN: 9781447511199). Credit Risk Scorecard: Development and Implementation Using SAS. 2. Siddiqi, N. (2006, ISBN: 9780471754510). Credit risk scorecards. Developing and Implementing Intelligent Credit Scoring.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>

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Package neo2R updated to version 2.1.0 with previous version 2.0.0 dated 2020-02-17

Title: Neo4j to R
Description: The aim of the neo2R is to provide simple and low level connectors for querying neo4j graph databases (<https://neo4j.com/>). The objects returned by the query functions are either lists or data.frames with very few post-processing. It allows fast processing of queries returning many records. And it let the user handle post-processing according to the data model and his needs.
Author: Patrice Godard
Maintainer: Patrice Godard <patrice.godard@gmail.com>

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Package aibd updated to version 0.1.8 with previous version 0.1.7 dated 2020-03-11

Title: Attraction Indian Buffet Distribution
Description: An implementation of probability mass function and sampling algorithms is provided for the attraction Indian buffet distribution (AIBD), originally from Dahl (2016) <https://ww2.amstat.org/meetings/jsm/2016/onlineprogram/ActivityDetails.cfm?SessionID=213038>.
Author: David B. Dahl [aut, cre], Richard Warr [aut], Jeremy Meyer [aut]
Maintainer: David B. Dahl <dahl@stat.byu.edu>

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Package wrapr updated to version 2.0.0 with previous version 1.9.6 dated 2020-01-26

Title: Wrap R Tools for Debugging and Parametric Programming
Description: Tools for writing and debugging R code. Provides: '%.>%' dot-pipe (an 'S3' configurable pipe), unpack/to (R style multiple assignment/return), 'build_frame()'/'draw_frame()' ('data.frame' example tools), 'qc()' (quoting concatenate), ':=' (named map builder), 'let()' (converts non-standard evaluation interfaces to parametric standard evaluation interfaces, inspired by 'gtools::strmacro()' and 'base::bquote()'), and more.
Author: John Mount [aut, cre], Nina Zumel [aut], Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>

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Package spatsoc updated to version 0.1.13 with previous version 0.1.9 dated 2019-05-14

Title: Group Animal Relocation Data by Spatial and Temporal Relationship
Description: Detects spatial and temporal groups in GPS relocations. It can be used to convert GPS relocations to gambit-of-the-group format to build proximity-based social networks. In addition, the randomizations function provides data-stream randomization methods suitable for GPS data.
Author: Alec L. Robitaille [aut, cre] (<https://orcid.org/0000-0002-4706-1762>), Quinn Webber [aut] (<https://orcid.org/0000-0002-0434-9360>), Eric Vander Wal [aut] (<https://orcid.org/0000-0002-8534-4317>)
Maintainer: Alec L. Robitaille <robit.alec@gmail.com>

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Package RProtoBuf updated to version 0.4.17 with previous version 0.4.16 dated 2020-03-19

Title: R Interface to the 'Protocol Buffers' 'API' (Version 2 or 3)
Description: Protocol Buffers are a way of encoding structured data in an efficient yet extensible format. Google uses Protocol Buffers for almost all of its internal 'RPC' protocols and file formats. Additional documentation is available in two included vignettes one of which corresponds to our 'JSS' paper (2016, <doi:10.18637/jss.v071.i02>. Either version 2 or 3 of the 'Protocol Buffers' 'API' is supported.
Author: Romain Francois, Dirk Eddelbuettel, Murray Stokely and Jeroen Ooms
Maintainer: Dirk Eddelbuettel <edd@debian.org>

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Package RBesT updated to version 1.6-0 with previous version 1.5-4 dated 2019-10-23

Title: R Bayesian Evidence Synthesis Tools
Description: Tool-set to support Bayesian evidence synthesis. This includes meta-analysis, (robust) prior derivation from historical data, operating characteristics and analysis (1 and 2 sample cases). Please refer to Neuenschwander et al. (2010) <doi:10.1177/1740774509356002> and Schmidli et al. (2014) <doi:10.1111/biom.12242> for details on the methodology.
Author: Novartis Pharma AG [cph], Sebastian Weber [aut, cre], Beat Neuenschwander [ctb], Heinz Schmidli [ctb], Baldur Magnusson [ctb], Yue Li [ctb], Satrajit Roychoudhury [ctb], Trustees of Columbia University [cph] (R/stanmodels.R, configure, configure.win)
Maintainer: Sebastian Weber <sebastian.weber@novartis.com>

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Package performance updated to version 0.4.5 with previous version 0.4.4 dated 2020-02-10

Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality, which are not directly provided by R's 'base' or 'stats' packages. These include e.g. measures like r-squared, intraclass correlation coefficient (Nakagawa, Johnson & Schielzeth (2017) <doi:10.1098/rsif.2017.0213>), root mean squared error or functions to check models for overdispersion, singularity or zero-inflation and more. Functions apply to a large variety of regression models, including generalized linear models, mixed effects models and Bayesian models.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>), Dominique Makowski [aut, ctb] (<https://orcid.org/0000-0001-5375-9967>), Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>), Indrajeet Patil [aut, ctb] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

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Package nFactors updated to version 2.4.1 with previous version 2.3.3.1 dated 2019-08-31

Title: Parallel Analysis and Other Non Graphical Solutions to the Cattell Scree Test
Description: Indices, heuristics and strategies to help determine the number of factors/components to retain: 1. Acceleration factor (af with or without Parallel Analysis); 2. Optimal Coordinates (noc with or without Parallel Analysis); 3. Parallel analysis (components, factors and bootstrap); 4. lambda > mean(lambda) (Kaiser, CFA and related); 5. Cattell-Nelson-Gorsuch (CNG); 6. Zoski and Jurs multiple regression (b, t and p); 7. Zoski and Jurs standard error of the regression coeffcient (sescree); 8. Nelson R2; 9. Bartlett khi-2; 10. Anderson khi-2; 11. Lawley khi-2 and 12. Bentler-Yuan khi-2.
Author: Gilles Raiche (Universite du Quebec a Montreal) and David Magis (Universite de Liege)
Maintainer: Gilles Raiche <raiche.gilles@uqam.ca>

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Package hot.deck updated to version 1.1-2 with previous version 1.1-1 dated 2020-02-24

Title: Multiple Hot-Deck Imputation
Description: Performs multiple hot-deck imputation of categorical and continuous variables in a data frame.
Author: Skyler Cranmer, Jeff Gill, Natalie Jackson, Andreas Murr, Dave Armstrong
Maintainer: Dave Armstrong <dave@quantoid.net>

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Package heatmaply updated to version 1.1.0 with previous version 1.0.0 dated 2019-12-05

Title: Interactive Cluster Heat Maps Using 'plotly'
Description: Create interactive cluster 'heatmaps' that can be saved as a stand- alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical method for visualizing high-dimensional data, in which a table of numbers are encoded as a grid of colored cells. The rows and columns of the matrix are ordered to highlight patterns and are often accompanied by 'dendrograms'. 'Heatmaps' are used in many fields for visualizing observations, correlations, missing values patterns, and more. Interactive 'heatmaps' allow the inspection of specific value by hovering the mouse over a cell, as well as zooming into a region of the 'heatmap' by dragging a rectangle around the relevant area. This work is based on the 'ggplot2' and 'plotly.js' engine. It produces similar 'heatmaps' as 'heatmap.2' or 'd3heatmap', with the advantage of speed ('plotly.js' is able to handle larger size matrix), the ability to zoom from the 'dendrogram' panes, and the placing of factor variables in the sides of the 'heatmap'.
Author: Tal Galili [aut, cre, cph] (https://www.r-statistics.com), Alan O'Callaghan [aut] (https://github.com/Alanocallaghan), Jonathan Sidi [ctb] (https://github.com/yonicd), Yoav Benjamini [ths]
Maintainer: Tal Galili <tal.galili@gmail.com>

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Package callr updated to version 3.4.3 with previous version 3.4.2 dated 2020-02-12

Title: Call R from R
Description: It is sometimes useful to perform a computation in a separate R process, without affecting the current R process at all. This packages does exactly that.
Author: Gábor Csárdi [aut, cre, cph] (<https://orcid.org/0000-0001-7098-9676>), Winston Chang [aut], RStudio [cph, fnd], Mango Solutions [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>

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Package autoimage updated to version 2.1 with previous version 2.0.1 dated 2019-06-20

Title: Multiple Heat Maps for Projected Coordinates
Description: Functions for displaying multiple images or scatterplots with a color scale, i.e., heat maps, possibly with projected coordinates. The package relies on the base graphics system, so graphics are rendered rapidly.
Author: Joshua French
Maintainer: Joshua French <joshua.french@ucdenver.edu>

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Package cRegulome (with last version 0.3.1) was removed from CRAN

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

2019-05-25 0.3.1
2019-01-03 0.3.0
2018-09-13 0.2.0
2018-03-17 0.1.1
2018-02-13 0.1.0

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Package phenesse updated to version 0.1.1 with previous version 0.1.0 dated 2019-12-22

Title: Estimate Phenological Metrics using Presence-Only Data
Description: Generates Weibull-parameterized estimates of phenology for any percentile of a distribution using the framework established in Cooke (1979) <doi:10.1093/biomet/66.2.367>.. Extensive testing against other estimators suggest the weib_percentile() function is especially useful in generating more accurate and less biased estimates of onset and offset. Non-parametric bootstrapping can be used to generate confidence intervals around those estimates. Additionally, this package offers an easy way to perform non-parametric bootstrapping to generate confidence intervals for quantile estimates, mean estimates, or any statistical function of interest.
Author: Michael Belitz [aut, cre], Caitlin Campbell [ctb], Daijinag Li [ctb]
Maintainer: Michael Belitz <mbelitz@ufl.edu>

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Package pensim updated to version 1.3.1 with previous version 1.2.9 dated 2014-03-14

Title: Simulation of High-Dimensional Data and Parallelized Repeated Penalized Regression
Description: Simulation of continuous, correlated high-dimensional data with time to event or binary response, and parallelized functions for Lasso, Ridge, and Elastic Net penalized regression with repeated starts and two-dimensional tuning of the Elastic Net.
Author: Levi Waldron <lwaldron.research@gmail.com>
Maintainer: Levi Waldron <lwaldron.research@gmail.com>

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Package moveVis updated to version 0.10.5 with previous version 0.10.4-1 dated 2020-02-13

Title: Movement Data Visualization
Description: Tools to visualize movement data (e.g. from GPS tracking) and temporal changes of environmental data (e.g. from remote sensing) by creating video animations.
Author: Jakob Schwalb-Willmann [aut, cre]
Maintainer: Jakob Schwalb-Willmann <movevis@schwalb-willmann.de>

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